Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 58 of 120
Found at i:17333139 original size:20 final size:20
Alignment explanation
Indices: 17333114--17333166 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
17333104 CTACCTTGGG
*
17333114 ACTTCTACTGGTAAAACTTC
1 ACTTCTACTGATAAAACTTC
*
17333134 ACTTCTACTGATACAACTTC
1 ACTTCTACTGATAAAACTTC
* *
17333154 AATTCTACCGATA
1 ACTTCTACTGATA
17333167 GAAGTATACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (20 bp):
ACTTCTACTGATAAAACTTC
Found at i:17335758 original size:4 final size:4
Alignment explanation
Indices: 17335751--17335777 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
17335741 TATATATATA
17335751 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
17335778 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:17342139 original size:6 final size:7
Alignment explanation
Indices: 17342124--17342149 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17342114 AACAAAAGGG
17342124 TTTAATT
1 TTTAATT
17342131 TTTAATT
1 TTTAATT
17342138 TTTAATT
1 TTTAATT
17342145 TTTAA
1 TTTAA
17342150 ATATAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTAATT
Found at i:17344127 original size:3 final size:3
Alignment explanation
Indices: 17344113--17344149 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
17344103 TGAAATATTG
*
17344113 GAT GAT GA- GAT GAT GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
17344150 GAACAGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:17350803 original size:27 final size:27
Alignment explanation
Indices: 17350765--17350841 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
17350755 TGAGAAGTAA
*
17350765 TCTG-TTTCTGGCTCGAAAGAGCGTTAT
1 TCTGATTT-TGGCTCGAAAGAGCATTAT
17350792 TCTGATTTTGGCTCGAAAGAGCATTAT
1 TCTGATTTTGGCTCGAAAGAGCATTAT
*
17350819 TCTGATTCTGGCTC-AGAAGAGCA
1 TCTGATTTTGGCTCGA-AAGAGCA
17350842 AAACTCTGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.02
27 42 0.91
28 3 0.07
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (27 bp):
TCTGATTTTGGCTCGAAAGAGCATTAT
Found at i:17350849 original size:27 final size:27
Alignment explanation
Indices: 17350765--17350862 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
17350755 TGAGAAGTAA
* *** *
17350765 TCTGTTTCTGGCTCGAAAGAGCGTTAT
1 TCTGATTCTGGCTCGAAAGAGCAAAAC
* ** *
17350792 TCTGATTTTGGCTCGAAAGAGCATTAT
1 TCTGATTCTGGCTCGAAAGAGCAAAAC
17350819 TCTGATTCTGGCTC-AGAAGAGCAAAAC
1 TCTGATTCTGGCTCGA-AAGAGCAAAAC
*
17350846 TCTGGACTCTGGCTCGA
1 TCT-GATTCTGGCTCGA
17350863 TGAGAGCGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 48 0.80
28 10 0.17
29 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (27 bp):
TCTGATTCTGGCTCGAAAGAGCAAAAC
Found at i:17350908 original size:26 final size:26
Alignment explanation
Indices: 17350879--17351008 Score: 134
Period size: 26 Copynumber: 5.0 Consensus size: 26
17350869 CGTTATTTTG
17350879 TCTGGGCTCGTAAGAGCTAAACTCTA
1 TCTGGGCTCGTAAGAGCTAAACTCTA
*
17350905 TCTGGGCTCGTATGAGCTAAACTCTA
1 TCTGGGCTCGTAAGAGCTAAACTCTA
**** * * * * *
17350931 TCTTATATCATAAAAGTTAAACTTTG
1 TCTGGGCTCGTAAGAGCTAAACTCTA
* * *
17350957 TCTAGGCTCGTAAGAGATAAACTCTGT
1 TCTGGGCTCGTAAGAGCTAAACTCT-A
17350984 TCTGGGCTCGTAAGAGCTAAACTCT
1 TCTGGGCTCGTAAGAGCTAAACTCT
17351009 GTTCTTGACT
Statistics
Matches: 81, Mismatches: 22, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
26 58 0.72
27 23 0.28
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (26 bp):
TCTGGGCTCGTAAGAGCTAAACTCTA
Found at i:17351036 original size:27 final size:27
Alignment explanation
Indices: 17350879--17351029 Score: 107
Period size: 26 Copynumber: 5.7 Consensus size: 27
17350869 CGTTATTTTG
* *
17350879 TCTGGGCTCGTAAGAGCTAAACTCT-A
1 TCTGGACTCGTAAGAGCTAAACTCTGT
* * *
17350905 TCTGGGCTCGTATGAGCTAAACTCT-A
1 TCTGGACTCGTAAGAGCTAAACTCTGT
* * * * * *
17350931 TCT-TATATCATAAAAGTTAAACTTTG-
1 TCTGGA-CTCGTAAGAGCTAAACTCTGT
*
17350957 TCTAGG-CTCGTAAGAGATAAACTCTGT
1 TCT-GGACTCGTAAGAGCTAAACTCTGT
*
17350984 TCTGGGCTCGTAAGAGCTAAACTCTGT
1 TCTGGACTCGTAAGAGCTAAACTCTGT
*
17351011 TCTTGACTCG-AATGAGCTA
1 TCTGGACTCGTAA-GAGCTA
17351030 CATTCTGCGA
Statistics
Matches: 100, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
26 63 0.63
27 37 0.37
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (27 bp):
TCTGGACTCGTAAGAGCTAAACTCTGT
Found at i:17355049 original size:30 final size:30
Alignment explanation
Indices: 17354992--17355050 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
17354982 ACACACAGCC
* * * *
17354992 TGCACACGGGTAACGCACATAGGCGTGTGA
1 TGCACACGAGCAACCCACACAGGCGTGTGA
*
17355022 TGCACACGAGCAACCCACACAGTCGTGTG
1 TGCACACGAGCAACCCACACAGGCGTGTG
17355051 TCCTGAGTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.15
Consensus pattern (30 bp):
TGCACACGAGCAACCCACACAGGCGTGTGA
Found at i:17355788 original size:24 final size:24
Alignment explanation
Indices: 17355761--17355815 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
17355751 CGTCTCCTGT
17355761 TGTACCCCCTGCTGCACCTCCAAC
1 TGTACCCCCTGCTGCACCTCCAAC
* * * * *
17355785 TGTACCACCTGTTGTATCTCCTAC
1 TGTACCCCCTGCTGCACCTCCAAC
17355809 TGTACCC
1 TGTACCC
17355816 TTGTGATACC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.42, G:0.13, T:0.29
Consensus pattern (24 bp):
TGTACCCCCTGCTGCACCTCCAAC
Found at i:17359524 original size:21 final size:21
Alignment explanation
Indices: 17359486--17359526 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17359476 GTAAAGAGAA
*
17359486 TAATAAAAAGAAATAAATAAC
1 TAATAAAAAGAAACAAATAAC
17359507 TAATAAAATA-AAACAAATAA
1 TAATAAAA-AGAAACAAATAA
17359527 TTACATGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (21 bp):
TAATAAAAAGAAACAAATAAC
Found at i:17361552 original size:18 final size:18
Alignment explanation
Indices: 17361529--17361563 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17361519 ATGTATGTAC
*
17361529 TTTGGCTTAGACTTATGT
1 TTTGGCTTAGACCTATGT
17361547 TTTGGCTTAGACCTATG
1 TTTGGCTTAGACCTATG
17361564 AGTCGCCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.14, G:0.23, T:0.46
Consensus pattern (18 bp):
TTTGGCTTAGACCTATGT
Found at i:17372352 original size:38 final size:38
Alignment explanation
Indices: 17372298--17372597 Score: 395
Period size: 38 Copynumber: 7.9 Consensus size: 38
17372288 AAAAGAAAAA
17372298 TACTGATTATACTGAATGCTTGCTCAAGCGAGCGAATC
1 TACTGATTATACTGAATGCTTGCTCAAGCGAGCGAATC
* *
17372336 TATTGATTATACTGAATGCTTGCTCAAGCGAGTGAATC
1 TACTGATTATACTGAATGCTTGCTCAAGCGAGCGAATC
* *
17372374 TGCTGATTATACTGAATGATTGCTCAAGCGAGCGAATC
1 TACTGATTATACTGAATGCTTGCTCAAGCGAGCGAATC
* *
17372412 TACTGATTATACTAAATGCTTGCTCAAGCGAGAGAATC
1 TACTGATTATACTGAATGCTTGCTCAAGCGAGCGAATC
*
17372450 TACTGATTACACTGAATGCTTGCTCAAGCGAGCGAATC
1 TACTGATTATACTGAATGCTTGCTCAAGCGAGCGAATC
* * * *
17372488 TACTGATTTTACTAAATGTTTGCTCAAGTGAGCGAATC
1 TACTGATTATACTGAATGCTTGCTCAAGCGAGCGAATC
* * * * **
17372526 CACTGATTTTAGTGAATGTTTGCTCAAATGAGC-AATAAC
1 TACTGATTATACTGAATGCTTGCTCAAGCGAGCGAAT--C
* * *
17372565 TATTGATTATACTGAATGCTTGTTCAACCGAGC
1 TACTGATTATACTGAATGCTTGCTCAAGCGAGC
17372598 CTTATCCAAT
Statistics
Matches: 230, Mismatches: 30, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
37 3 0.01
38 201 0.87
39 26 0.11
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (38 bp):
TACTGATTATACTGAATGCTTGCTCAAGCGAGCGAATC
Found at i:17373431 original size:17 final size:17
Alignment explanation
Indices: 17373412--17373523 Score: 152
Period size: 17 Copynumber: 6.6 Consensus size: 17
17373402 ACATGGGTAA
*
17373412 CACACGGGCATGTGATA
1 CACACGGGCATGTGATG
*
17373429 CACTCGGGCATGTGATG
1 CACACGGGCATGTGATG
*
17373446 CACACGAGCATGTGATG
1 CACACGGGCATGTGATG
* *
17373463 CACATGGGCATGTGATA
1 CACACGGGCATGTGATG
* *
17373480 CACTCGGGCGTGTGATG
1 CACACGGGCATGTGATG
*
17373497 CACACGGGCATGTAATG
1 CACACGGGCATGTGATG
17373514 CACACGGGCA
1 CACACGGGCA
17373524 ACTCACATGG
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 81 1.00
ACGTcount: A:0.25, C:0.24, G:0.32, T:0.19
Consensus pattern (17 bp):
CACACGGGCATGTGATG
Found at i:17373474 original size:51 final size:51
Alignment explanation
Indices: 17373412--17373523 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
17373402 ACATGGGTAA
*
17373412 CACACGGGCATGTGATACACTCGGGCATGTGATGCACACGAGCATGTGATG
1 CACACGGGCATGTGATACACTCGGGCATGTGATGCACACGAGCATGTAATG
* * *
17373463 CACATGGGCATGTGATACACTCGGGCGTGTGATGCACACGGGCATGTAATG
1 CACACGGGCATGTGATACACTCGGGCATGTGATGCACACGAGCATGTAATG
17373514 CACACGGGCA
1 CACACGGGCA
17373524 ACTCACATGG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.25, C:0.24, G:0.32, T:0.19
Consensus pattern (51 bp):
CACACGGGCATGTGATACACTCGGGCATGTGATGCACACGAGCATGTAATG
Found at i:17374165 original size:23 final size:23
Alignment explanation
Indices: 17374136--17374179 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
17374126 TTCCCTGTAA
*
17374136 TTTAGATTTTAGTTTTCTTTTCT
1 TTTAGATTTTAGATTTCTTTTCT
17374159 TTTAGATTTTAGATTTCTTTT
1 TTTAGATTTTAGATTTCTTTT
17374180 TAGTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.07, G:0.09, T:0.68
Consensus pattern (23 bp):
TTTAGATTTTAGATTTCTTTTCT
Found at i:17378692 original size:18 final size:19
Alignment explanation
Indices: 17378649--17378696 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
17378639 ATGTGCAACC
*
17378649 GAACCAGATGCGATCACAT
1 GAACCAGATGCAATCACAT
* *
17378668 G-ATCAGATGCAATCATA-
1 GAACCAGATGCAATCACAT
17378685 GAACCAGATGCA
1 GAACCAGATGCA
17378697 GCCACAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (19 bp):
GAACCAGATGCAATCACAT
Found at i:17385256 original size:17 final size:17
Alignment explanation
Indices: 17385231--17385273 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
17385221 ATGCATCTCA
17385231 TTTAATTGTCATTGCAT
1 TTTAATTGTCATTGCAT
* **
17385248 TTTAGTTGTTGTTGCAT
1 TTTAATTGTCATTGCAT
*
17385265 TTTACTTGT
1 TTTAATTGT
17385274 TAGTTCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.58
Consensus pattern (17 bp):
TTTAATTGTCATTGCAT
Found at i:17385274 original size:17 final size:18
Alignment explanation
Indices: 17385242--17385300 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 18
17385232 TTAATTGTCA
*
17385242 TTGCATTTTAGTTGTT-G
1 TTGCATTTTACTTGTTAG
17385259 TTGCATTTTACTTGTTAG
1 TTGCATTTTACTTGTTAG
*
17385277 TT-CA-TTTGCATTG-TAG
1 TTGCATTTTAC-TTGTTAG
17385293 TTGCATTT
1 TTGCATTT
17385301 CCATTCTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 9 0.25
17 22 0.61
18 5 0.14
ACGTcount: A:0.15, C:0.10, G:0.19, T:0.56
Consensus pattern (18 bp):
TTGCATTTTACTTGTTAG
Found at i:17385858 original size:62 final size:62
Alignment explanation
Indices: 17385781--17385966 Score: 336
Period size: 62 Copynumber: 3.0 Consensus size: 62
17385771 ATACTTCCTA
* * *
17385781 GGGGTTTGTTGCACCCCATCATTACTGCCTAGGAATAAGGGTATAGTAATGCAATGACATCT
1 GGGGTTTGCTGCACCCCATCGTTACTGCCCAGGAATAAGGGTATAGTAATGCAATGACATCT
*
17385843 GGGGTTTGCTGCACCCCATCGTTACTGCCCAGGAATAAGGGTATAGTAATGTAATGACATCT
1 GGGGTTTGCTGCACCCCATCGTTACTGCCCAGGAATAAGGGTATAGTAATGCAATGACATCT
17385905 GGGGTTTGCTGCACCCCATCGTTACTGCCCAGGAATAAGGGTATAGTAATGCAATGACATCT
1 GGGGTTTGCTGCACCCCATCGTTACTGCCCAGGAATAAGGGTATAGTAATGCAATGACATCT
17385967 CTCAATCACG
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 119 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (62 bp):
GGGGTTTGCTGCACCCCATCGTTACTGCCCAGGAATAAGGGTATAGTAATGCAATGACATCT
Found at i:17388976 original size:17 final size:16
Alignment explanation
Indices: 17388950--17388985 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
17388940 ATTACTTTTA
*
17388950 AAAAATATTTTTAAGAT
1 AAAAACATTTTTAA-AT
17388967 AAAAACATTTTTAAAT
1 AAAAACATTTTTAAAT
17388983 AAA
1 AAA
17388986 TTGTTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (16 bp):
AAAAACATTTTTAAAT
Found at i:17389461 original size:24 final size:25
Alignment explanation
Indices: 17389434--17389480 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17389424 GTGATTTTAT
*
17389434 AAATAAAAT-GAGTTTAAAATTAAA
1 AAATAAAATAAAGTTTAAAATTAAA
*
17389458 AAATAAAATAAAGTTTTAAATTA
1 AAATAAAATAAAGTTTAAAATTA
17389481 TATGTTACGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (25 bp):
AAATAAAATAAAGTTTAAAATTAAA
Found at i:17392792 original size:26 final size:28
Alignment explanation
Indices: 17392755--17392814 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 28
17392745 AACATTTATA
17392755 TTATAT-TATTTTAATAT-TTAATAA-TT
1 TTATATATATTTTAATATATTAA-AATTT
* *
17392781 TTATATAT-TTTTTATTTATTAAAATTT
1 TTATATATATTTTAATATATTAAAATTT
17392808 TTATATA
1 TTATATA
17392815 ATAATCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTATATATATTTTAATATATTAAAATTT
Found at i:17392800 original size:28 final size:27
Alignment explanation
Indices: 17392756--17392814 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 27
17392746 ACATTTATAT
17392756 TATATTATTTTAATATTTAATAA-TTTTA
1 TATATTATTTTAATA-TTAA-AATTTTTA
*
17392784 TATATT-TTTTATTTATTAAAATTTTTA
1 TATATTATTTTA-ATATTAAAATTTTTA
17392811 TATA
1 TATA
17392815 ATAATCTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 2 0.07
27 18 0.64
28 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (27 bp):
TATATTATTTTAATATTAAAATTTTTA
Found at i:17393353 original size:20 final size:20
Alignment explanation
Indices: 17393328--17393365 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17393318 TGAATAAAAT
*
17393328 ATAAAAAGTATTTTAAATAA
1 ATAAAAAGTAATTTAAATAA
*
17393348 ATAAAAATTAATTTAAAT
1 ATAAAAAGTAATTTAAAT
17393366 TTATAGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
ATAAAAAGTAATTTAAATAA
Found at i:17393692 original size:59 final size:57
Alignment explanation
Indices: 17393523--17393693 Score: 175
Period size: 59 Copynumber: 2.9 Consensus size: 57
17393513 CAGTTTTTCT
***
17393523 TAATTTGATACTTGAACTTGATTTTTTTTTTAATTT-ATATCTAAACTGTTTTTGACC
1 TAATTTGATACTTGAACTTGGCATTTTTTTTAATTTGATATCTAAACT-TTTTTGACC
* * * * *
17393580 CAATTTGGTA-TCTGAATTTGACAGTTTTTTTTAATTTGATATTTAAACTTTTTTGGACC
1 TAATTTGATACT-TGAACTTGGCA-TTTTTTTTAATTTGATATCTAAACTTTTTT-GACC
* * *
17393639 TAATTTGATACTTGAACTTGGCATTTTTTCCCTAATTTGGTATCTAAATTTTTTT
1 TAATTTGATACTTGAACTTGGCATTTTTT--TTAATTTGATATCTAAACTTTTTT
17393694 TAGATTCAAT
Statistics
Matches: 93, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
56 1 0.01
57 16 0.17
58 24 0.26
59 31 0.33
60 21 0.23
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.53
Consensus pattern (57 bp):
TAATTTGATACTTGAACTTGGCATTTTTTTTAATTTGATATCTAAACTTTTTTGACC
Found at i:17393975 original size:31 final size:31
Alignment explanation
Indices: 17393926--17394056 Score: 117
Period size: 31 Copynumber: 4.3 Consensus size: 31
17393916 AAAAAATTAA
* *
17393926 GTACCAACTTAA-AAAAAGTGTCAAGTTTAG
1 GTACCAAATTAAGAAAAAGTATCAAGTTTAG
* * *
17393956 GTACCAAATTAAGAAAAAGTGTCAAATTTAA
1 GTACCAAATTAAGAAAAAGTATCAAGTTTAG
** *
17393987 GTACCAAATT--GAACCAAA-TAAAAAGTCTAG
1 GTACCAAATTAAGAA--AAAGTATCAAGTTTAG
* * *
17394017 GCACCAAATTAGGAAAAAGTATTAAGTTTAG
1 GTACCAAATTAAGAAAAAGTATCAAGTTTAG
17394048 GTACCAAAT
1 GTACCAAAT
17394057 GTTGTTATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
29 3 0.04
30 29 0.36
31 46 0.57
32 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.24
Consensus pattern (31 bp):
GTACCAAATTAAGAAAAAGTATCAAGTTTAG
Found at i:17394010 original size:89 final size:93
Alignment explanation
Indices: 17393862--17394056 Score: 229
Period size: 89 Copynumber: 2.1 Consensus size: 93
17393852 TTAAAAAATA
* * *
17393862 TTAGGTACTAAATTAGAAAAAAAGTATCAAATTCAAATACCAAATTGGACCCCAAAAAAA-T-TA
1 TTAGGTACCAAATTAGAAAAAAAGTATCAAATTCAAATACCAAATTGGAACCAAAAAAAAGTCTA
* * *
17393925 AGTACCAACTTA-AAAAAAGTGTCAAGT
66 AGCACCAAATTAGAAAAAAGTATCAAGT
* * * *
17393952 TTAGGTACCAAATTA-AGAAAAAGTGTCAAATTTAAGTACCAAATT-GAACCAAATAAAAAGTCT
1 TTAGGTACCAAATTAGAAAAAAAGTATCAAATTCAAATACCAAATTGGAACCAAA-AAAAAGTCT
* * *
17394015 AGGCACCAAATTAGGAAAAAGTATTAAGT
65 AAGCACCAAATTAGAAAAAAGTATCAAGT
17394044 TTAGGTACCAAAT
1 TTAGGTACCAAAT
17394057 GTTGTTATAT
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
88 6 0.07
89 31 0.35
90 15 0.17
91 11 0.12
92 25 0.28
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.24
Consensus pattern (93 bp):
TTAGGTACCAAATTAGAAAAAAAGTATCAAATTCAAATACCAAATTGGAACCAAAAAAAAGTCTA
AGCACCAAATTAGAAAAAAGTATCAAGT
Found at i:17398006 original size:146 final size:144
Alignment explanation
Indices: 17397663--17398147 Score: 479
Period size: 142 Copynumber: 3.4 Consensus size: 144
17397653 TAATAGTTAT
** * * *
17397663 TTATCTTTGATTCCGTAATAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAAAGAAATCG
1 TTATCTTTGATTCTATAACAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTG
* * * * *
17397728 AAAAAAAAAAACATAAGATACAAGAACTTCCCCATGAATCACAT-GAAAATTTCC-TTTTTAACC
66 -AAAAAAAAAACATAAGAAACAAGAACTTCACTATGCATCACATGGTAAATTTCCATTTTT-ACC
*
17397791 ACTTAAAAATTTATAC
129 TCTTAAAAATTTATAC
* * * *
17397807 TTCATCATTGATTCTTTCATAC-G-CTTTGCCTCAAAATTCAAGTTTCAATATTTAAAAATGAAA
1 TT-ATCTTTGATTCTAT-A-ACAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAA
* * * * * *
17397870 TTGAAAATAAAAACCATAAGACATAATAACTTCACTACGCATCACATGGTGAATTTCCATTTTTA
63 TTGAAAA-AAAAAACATAAGAAACAAGAACTTCACTATGCATCACATGGTAAATTTCCATTTTTA
*
17397935 CTTCTTAAAAATTTATAC
127 CCTCTTAAAAATTTATAC
* *
17397953 ATTATCTTTGATTCTATAACAGACTTCGCCTCAAAATTCGAGTTACTATATTTAAAAATG-AATC
1 -TTATCTTTGATTCTATAACAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAAT-
* * * * * *
17398017 T---AAAAAAATCATAAGAAACAAGAACCT-AGCTATGCATCACTTGATAAATTTTCATTTTAAC
64 TGAAAAAAAAAACATAAGAAACAAGAACTTCA-CTATGCATCACATGGTAAATTTCCATTTTTAC
*
17398078 CTATTAAAAATTTATAC
128 CTCTTAAAAATTTATAC
* ** *
17398095 TTTATCTTTGATT-TCCTAAGGGACTTCACCTCAAAATTCGAGTTTCAAT-TTTA
1 -TTATCTTTGATTCT-ATAACAGACTTCGCCTCAAAATTCGAGTTTCAATATTTA
17398148 TCTTGTATTC
Statistics
Matches: 283, Mismatches: 46, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
141 6 0.02
142 100 0.35
143 2 0.01
144 8 0.03
145 86 0.30
146 73 0.26
147 8 0.03
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (144 bp):
TTATCTTTGATTCTATAACAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTG
AAAAAAAAAACATAAGAAACAAGAACTTCACTATGCATCACATGGTAAATTTCCATTTTTACCTC
TTAAAAATTTATAC
Found at i:17398284 original size:192 final size:191
Alignment explanation
Indices: 17397985--17398331 Score: 470
Period size: 192 Copynumber: 1.8 Consensus size: 191
17397975 ACTTCGCCTC
* * *
17397985 AAAATTCGAGTTACTATATTTAAAAATGAATCTAAAAAAATCATAAGAAACAAGAACCTAGCTAT
1 AAAATTCGAGTTACAATATTTAAAAATGAAACTAAAAAAATCATAACAAACAAGAACCTAGCTAT
* * *
17398050 GCATCACTTGATAAATTTTCATTTTAACCTATTAAAAATTTATACTTTATCTTTGATTTCC-TAA
66 GCATCACATGATAAATTATCATTTTAACCTATTAAAAATTTATACTTTATCTTTCA-TTCCGTAA
**
17398114 GGGACTTCACCTC-AAAATTCGAGTTTCAATTTTATCTTGTATTCCGTAATGGATTTTACCTT
130 CAGACTTCACCTCAAAAATT-GAGTTTCAATTTTATCTTGTATTCCGTAATGGATTTTACCTT
* * *
17398176 AAAATTCGAGTTTCAATATTTAAAAATGAAACTGGAAAAAATCATAACACAA-AAGAACTTCA-C
1 AAAATTCGAGTTACAATATTTAAAAATGAAACT-AAAAAAATCATAACA-AACAAGAACCT-AGC
* * *
17398239 TATGGATCACATGGTAAA-TATCGATTTTAACCTCTTAAAAATTTATACTTTATCTTTCATTCCG
63 TATGCATCACATGATAAATTATC-ATTTTAACCTATTAAAAATTTATACTTTATCTTTCATTCCG
*
17398303 TAACAGACTTCGCCTCAAAAATTGAGTTT
127 TAACAGACTTCACCTCAAAAATTGAGTTT
17398332 TAATATTAAA
Statistics
Matches: 135, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
191 37 0.27
192 89 0.66
193 9 0.07
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (191 bp):
AAAATTCGAGTTACAATATTTAAAAATGAAACTAAAAAAATCATAACAAACAAGAACCTAGCTAT
GCATCACATGATAAATTATCATTTTAACCTATTAAAAATTTATACTTTATCTTTCATTCCGTAAC
AGACTTCACCTCAAAAATTGAGTTTCAATTTTATCTTGTATTCCGTAATGGATTTTACCTT
Found at i:17402262 original size:146 final size:144
Alignment explanation
Indices: 17401959--17402405 Score: 503
Period size: 146 Copynumber: 3.1 Consensus size: 144
17401949 ATAATAGTTA
* * *
17401959 TTTATCTTTGATTCCGTTATATACTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATT
1 TTTATCTTTGATT-CTTTACATGCTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATT
* * * * *
17402024 GAAAAAAAAATCATAAGACACAAGAATTTCCCCATGAATCAAATGATAAATTTCC-TTTTTAACC
65 GAAAAAAAAATCATAAGACACAAGAACTTCACTATGCATCACATGATAAATTTCCATTTTT-ACC
*
17402088 ACTTAAAAATTTATAC
129 TCTTAAAAATTTATAC
* * *
17402104 TTTATCATTGATTCTTTCACATGCTTTGCCTTAAAATTCAAGTTTCAATATTTAAAAATGAAATT
1 TTTATCTTTGATTCTTT-ACATGCTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATT
* * * * * *
17402169 GAAAATAAAAACCATAAGACATAATAACTTCACTATGCATCACATGGTGAATTTCCATTTTTACT
65 GAAAA-AAAAATCATAAGACACAAGAACTTCACTATGCATCACATGATAAATTTCCATTTTTACC
17402234 TCTTAAAAATTTATAC
129 TCTTAAAAATTTATAC
* * * * * *
17402250 TTTATCTTTGATTCTATA-ACGGACTTCGCCTCAAAATTCGACTTACTATATTTAAAAAT-AAAT
1 TTTATCTTTGATTCTTTACA-TG-CTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAAT
* * *
17402313 CTG--AAAAAAATCATAAGACACAAGAACTTAACTATACATCACATGATAAAATTT-CATTTTAA
64 -TGAAAAAAAAATCATAAGACACAAGAACTTCACTATGCATCACATGAT-AAATTTCCATTTTTA
* *
17402375 CCTCTTCAAAATTTATAT
127 CCTCTTAAAAATTTATAC
17402393 TTTATGC-TTGATT
1 TTTAT-CTTTGATT
17402406 TCTTAATGGA
Statistics
Matches: 256, Mismatches: 38, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
143 69 0.27
144 12 0.05
145 66 0.26
146 104 0.41
147 5 0.02
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.37
Consensus pattern (144 bp):
TTTATCTTTGATTCTTTACATGCTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTG
AAAAAAAAATCATAAGACACAAGAACTTCACTATGCATCACATGATAAATTTCCATTTTTACCTC
TTAAAAATTTATAC
Found at i:17403470 original size:483 final size:488
Alignment explanation
Indices: 17402470--17403535 Score: 1195
Period size: 483 Copynumber: 2.2 Consensus size: 488
17402460 ATTTTACCTT
** * * *
17402470 AAAATTCGAGTTTCAATATTTAAAAATGAAACTAAAAAAAATCATAACACAAAAGAACTTCA-CT
1 AAAATTCGAGTTTCAATATTTAAAAATG-ATTTGAAAAAAATCATAAGACACAAGAACTT-AGCT
* * * * ** * *
17402534 ATGGATCACATGGTAAATTTCTATTTTAACCACTTAAAAATTTATTCTTTTTCATTCATTCATTT
64 ATGAATCACATGGTAAAGTTCCATTTTAACCACTTAAAAATTCATAATTTATCATTC--TCATTC
* *** * *
17402599 CGTAACAGATTTCGGCTCAAAAATCGAGTTTTAATATTTAAAAATAAAAATAAAAAGAAATCATA
127 CGTAACAGATTTCGGCTCAAAAATCGAGTTATAATAAGAAAAAATAAAAATAAAAACAAATAATA
** * * * * ** *
17402664 AAAACACGTGGCCTTCGTTATATATCACATGAATCTGTTAGAAATGCAAACAACCCTAAATATCC
192 AAAACACGTGAACTTCGCTATAAATCACATGAATCTGATAAAAAAACAAACAACCCCAAATATCC
* ** * * * *
17402729 AATTGTTTGGTGAAAAGATTGCAAATCCAACATTTGTCAAACCCCTAATTGCATTCATCAAACTT
257 AAGTGGATAGTAAAAAGATTGAAAATCCAACATTTGTCAAACCCCTAATTGCATTCATCAAACTA
* * * *
17402794 CATTACTGTAGTACTAATTTTTGTTTTCATGATAATTATCAAATTGGGCAAACTTTAGTTGTACA
322 CATTACTGTAGTACTAATTTTTGATTTCATGATAATTACCAAATTGGGCAAACATTAGTTGTAAA
* * * *
17402859 GGTGTTGGTCTTCAAGAAAACCTCAACATATTGGAAATTTGGGTTGTCCACAGCACTTACATAAT
387 GGTGTAGGTCTTCAAGAAAACCTCAACATATTGGAAAATTGGGTTGTACACAACACTTACATAAT
17402924 ACCTATTTATCTTTGATTCCATAACGGATTTCGCCTC
452 ACCTATTTATCTTTGATTCCATAACGGATTTCGCCTC
* ** *
17402961 AAAATCCGAGATTT-GGTATTTAAAAATGATGTTGTAAAAAATCATAAGACACAAGAACTTAGCT
1 AAAATTCGAG-TTTCAATATTTAAAAATGAT-TTGAAAAAAATCATAAGACACAAGAACTTAGCT
* *
17403025 ATGAATCACATGGTAAGGTTCCATTTTAACCTCTTAAAAATTCATAATTTATC-TTC-CATTCCG
64 ATGAATCACATGGTAAAGTTCCATTTTAACCACTTAAAAATTCATAATTTATCATTCTCATTCCG
* * * * *
17403088 TAATAGATTT-GGCCTCAAAAATTGAGTTATAATAAGAAAAAATAAAATTAAAAACAACTAATTA
129 TAACAGATTTCGG-CTCAAAAATCGAGTTATAATAAGAAAAAATAAAAATAAAAACAAATAATAA
* * * **
17403152 AAACACGTGAACTTCGCTATAAATTACATGAATTTGATAAAAAAATAGGCAACCCCAAATATCCA
193 AAACACGTGAACTTCGCTATAAATCACATGAATCTGATAAAAAAACAAACAACCCCAAATATCCA
* * *
17403217 AGTGGATAGTAAAAAGATTGAAAATCCACCGTTTGTC-AACCCCTAATTGCATTTATCAAAC-AC
258 AGTGGATAGTAAAAAGATTGAAAATCCAACATTTGTCAAACCCCTAATTGCATTCATCAAACTAC
* *
17403280 ATTACTGTAGTATTAA-TTTTGATTTCATGATAATT-CCAAATTGGGCAAACATTAGTTTTATAA
323 ATTACTGTAGTACTAATTTTTGATTTCATGATAATTACCAAATTGGGCAAACATTAGTTGTA-AA
** ** * *
17403343 GG-GTAGGTCTTTTAGAAAACCTCAATGTATT-GACAAATTGGGTTGTACTCAACA-TATACGTA
387 GGTGTAGGTCTTCAAGAAAACCTCAACATATTGGA-AAATTGGGTTGTACACAACACT-TACATA
* *
17403405 ATAGCTATTTATCTTTGATTCCGTAACGGACTTT-GCCTC
450 ATACCTATTTATCTTTGATTCCATAACGGA-TTTCGCCTC
** * * *** *
17403444 GCAATTCGAGTTTCAATATTTAAAAATGAATTTGAAAAAAAACATAAGACACAAAAACGCCGTTA
1 AAAATTCGAGTTTCAATATTTAAAAATG-ATTTGAAAAAAATCATAAGACACAAGAACTTAGCTA
* *
17403509 TGAATCACATGGTAAATTTCCTTTTTA
65 TGAATCACATGGTAAAGTTCCATTTTA
17403536 CACTTTATCT
Statistics
Matches: 478, Mismatches: 87, Indels: 28
0.81 0.15 0.05
Matches are distributed among these distances:
482 6 0.01
483 170 0.36
484 26 0.05
485 16 0.03
486 25 0.05
487 136 0.28
490 5 0.01
491 91 0.19
492 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (488 bp):
AAAATTCGAGTTTCAATATTTAAAAATGATTTGAAAAAAATCATAAGACACAAGAACTTAGCTAT
GAATCACATGGTAAAGTTCCATTTTAACCACTTAAAAATTCATAATTTATCATTCTCATTCCGTA
ACAGATTTCGGCTCAAAAATCGAGTTATAATAAGAAAAAATAAAAATAAAAACAAATAATAAAAA
CACGTGAACTTCGCTATAAATCACATGAATCTGATAAAAAAACAAACAACCCCAAATATCCAAGT
GGATAGTAAAAAGATTGAAAATCCAACATTTGTCAAACCCCTAATTGCATTCATCAAACTACATT
ACTGTAGTACTAATTTTTGATTTCATGATAATTACCAAATTGGGCAAACATTAGTTGTAAAGGTG
TAGGTCTTCAAGAAAACCTCAACATATTGGAAAATTGGGTTGTACACAACACTTACATAATACCT
ATTTATCTTTGATTCCATAACGGATTTCGCCTC
Found at i:17405214 original size:709 final size:706
Alignment explanation
Indices: 17403850--17405231 Score: 1936
Period size: 709 Copynumber: 2.0 Consensus size: 706
17403840 AACCGGCAGT
* *
17403850 CGGTGGCTTTGACCTATTAAAAATAATAATATTACTTTTTAACCGTTCAAAATATAAAAAATAAT
1 CGGTGGCTTTGACCTATTAAAAATAATAATATTACTTTATAACCATTCAAAATATAAAAAATAAT
* * * *
17403915 AAACTAATATGACTTTTTAAAAGAATTATATTTTATCTTGTATTCCGTAATAGACTTTGCCATAA
66 AAAATAATATGACTTTCTAAAAGAACTATATTTTATCTTGTATTCCGTAATAGACTTTACCATAA
* * *
17403980 AATTTGGGTTTCAAAATTTAAAATGAAACTGAAAAAAATCATAAGACACAAGAATTTCATTATGC
131 AATTTGAGTTTCAAAATTTAAAATGAAACTGAAAAAAATCATAAGACACAAGAACTTCACTATGC
* * *
17404045 ATCAAATGGTAAATTTCCTTTTTAACCTCTTAAATATTAATACTTTATCTTTCATTCACTAACAG
196 ATCAAATGGTAAATTTCCATTTTAACCTCTTAAAAATTAATACTTTATCATTCATTCACTAACAG
* * ** * * *
17404110 ATTTCGTCTTAAAATTCGAGCTTTAATATTTCAAAATAAAATTAAAAAAAATCATAAAAAATACG
261 ACTTCGCCACAAAAATCGAGCTTTAATATTTAAAAATAAAAATAAAAAAAATCATAAAAAATACG
* * * *
17404175 TGAACTTCGCTACGTATCACAAGAATCTCTTTAAAAAAGTAGACAACTCTAAATATCCAAGTGGA
326 TGAACTTCGCTACGTATCACAAGAATCTCGTTAAAAAAGCAAACAACCCTAAATATCCAAGTGGA
* * ** *
17404240 TGGTGAAAAGATTGTAAATCCAACATTTGTCAAACCCCCTAATTGCATTCATCAAAGTTAATTAG
391 TGATGAAAAGATTATAAATCCAACACCTGTCAAACCCCCTAATTGCATTCATCAAACTTAATTAG
* *
17404305 TGTAATATTAATTTTGTTATCATGATAATTACCAAATTAGGCAAACTTTAGTTCTACAAGTGTTG
456 TGTAATACTAATTTTGTTATCATGATAATTACCAAATTAGGCAAACTTTAGTTCTACAAGGGTTG
* ** * *
17404370 GTCTTCAACAAAACCTCAACATATTGGCCTTTTAGGTTGTCCACAACACTTGCATAATAGCTATT
521 GTCTTCAACAAAACCTCAACATATTGACAATTTAGGTTGTCCACAAAACTTACATAATAGCTATT
* * * * * *
17404435 TATTTTTTATTTCGGATCAGATTTCGCCTCAAAATTCGAGTTCCATTATTCAAAAATGAAATTGA
586 TATCTTTGATTCCGAATCAGATTTCGCCTCAAAATTCAAGTTCCAATATTCAAAAATGAAATTGA
17404500 AAAAAAAACATAAGACACAAGAACGTCGCTATGAATCACATTATTTAAGCGGTAGG
651 AAAAAAAACATAAGACACAAGAACGTCGCTATGAATCACATTATTTAAGCGGTAGG
* *
17404556 CGGTGGCTTTGACCTATTGAAAATAATAATATTACTTTATAACCATTCAAAATTTAAAAAATAAT
1 CGGTGGCTTTGACCTATTAAAAATAATAATATTACTTTATAACCATTCAAAATATAAAAAATAAT
* * *
17404621 AAAATAATATGAC-TTCTAAAAGAACTATATTTTATCTTGTATTCTGTAATAGATTTTACCTTAA
66 AAAATAATATGACTTTCTAAAAGAACTATATTTTATCTTGTATTCCGTAATAGACTTTACCATAA
* *
17404685 AATTTGAGTTTCAATATTTAAAAATGAAACTGGAAAAAATCATAAGACACAAGAACTTCACTATG
131 AATTTGAGTTTCAAAATTT-AAAATGAAACTGAAAAAAATCATAAGACACAAGAACTTCACTATG
* * * *
17404750 GATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTTTCATTCATTCATTCCGT
195 CATCAAATGGTAAATTTCCATTTTAACCTCTTAAAAATTAATACTTTATCATTCATTCA---C-T
* *
17404815 AACAGACTTCGCCACAAAAATCGAGTTTTAATATTTAAAAATAAAAATAAAAGGAAATCAT-AAA
256 AACAGACTTCGCCACAAAAATCGAGCTTTAATATTTAAAAATAAAAATAAAA-AAAATCATAAAA
* *
17404879 AATACGTGAACTTCGTTATGTATCA-AATGAATCT-GTTAAAAATA-CAAACAACCCTAAATATC
320 AATACGTGAACTTCGCTACGTATCACAA-GAATCTCGTTAAAAA-AGCAAACAACCCTAAATATC
*
17404941 CAAGTGGTTGAT-AAGAAGATTATAAATCCAACACCTGTCAAACCCCCTAATTGCATTCATCAAA
383 CAAGTGGATGATGAA-AAGATTATAAATCCAACACCTGTCAAACCCCCTAATTGCATTCATCAAA
* * * *
17405005 CTTCATTATTGTAGTACTAATTTTGTTTTCATGATAATTACCAAATT-GAGCAAACTTTAGTTCT
447 CTTAATTAGTGTAATACTAATTTTGTTATCATGATAATTACCAAATTAG-GCAAACTTTAGTTCT
* ** * *
17405069 ATAAGGGTTGGTCTTTTACAAAACCTCAACATATTGACAATTTGGGTTGTCCTCAAAACTTACAT
511 ACAAGGGTTGGTCTTCAACAAAACCTCAACATATTGACAATTTAGGTTGTCCACAAAACTTACAT
* * ** * * *
17405134 AATAGTTATTTATCTTTGATTCCATAAT-AGATTTTTCTTCAAAATTCAAGTTTCAATATT-TAA
576 AATAGCTATTTATCTTTGATTCC-GAATCAGATTTCGCCTCAAAATTCAAGTTCCAATATTCAAA
17405197 AATGAAATTGAAAAAAAAATCATAAGACACAAGAA
640 AATGAAATTGAAAAAAAAA-CATAAGACACAAGAA
17405232 TTTCCCCATT
Statistics
Matches: 591, Mismatches: 73, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
705 62 0.10
706 167 0.28
708 24 0.04
709 251 0.42
710 80 0.14
711 7 0.01
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (706 bp):
CGGTGGCTTTGACCTATTAAAAATAATAATATTACTTTATAACCATTCAAAATATAAAAAATAAT
AAAATAATATGACTTTCTAAAAGAACTATATTTTATCTTGTATTCCGTAATAGACTTTACCATAA
AATTTGAGTTTCAAAATTTAAAATGAAACTGAAAAAAATCATAAGACACAAGAACTTCACTATGC
ATCAAATGGTAAATTTCCATTTTAACCTCTTAAAAATTAATACTTTATCATTCATTCACTAACAG
ACTTCGCCACAAAAATCGAGCTTTAATATTTAAAAATAAAAATAAAAAAAATCATAAAAAATACG
TGAACTTCGCTACGTATCACAAGAATCTCGTTAAAAAAGCAAACAACCCTAAATATCCAAGTGGA
TGATGAAAAGATTATAAATCCAACACCTGTCAAACCCCCTAATTGCATTCATCAAACTTAATTAG
TGTAATACTAATTTTGTTATCATGATAATTACCAAATTAGGCAAACTTTAGTTCTACAAGGGTTG
GTCTTCAACAAAACCTCAACATATTGACAATTTAGGTTGTCCACAAAACTTACATAATAGCTATT
TATCTTTGATTCCGAATCAGATTTCGCCTCAAAATTCAAGTTCCAATATTCAAAAATGAAATTGA
AAAAAAAACATAAGACACAAGAACGTCGCTATGAATCACATTATTTAAGCGGTAGG
Found at i:17405443 original size:146 final size:145
Alignment explanation
Indices: 17405172--17405627 Score: 500
Period size: 143 Copynumber: 3.2 Consensus size: 145
17405162 AGATTTTTCT
*
17405172 TCAAAATTCAAGTTTCAATATTT-AAAATGAAATTGAAAAAAAAATCATAAGACACAAGAATTTC
1 TCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAAAAATCATAAGACACAAGAACTTC
* * ** * * * * * *
17405236 CCCATTAATCACATGAT-AAATTTCCTTTTTAACTGCTTAAAAATGTATATTTTGTCATTGATTC
66 ACTATGCATCACATGATAAAATTTCATTTTT-ACTTCTTAAAAATTTATACTTTATCTTTGATTC
* **
17405300 TTTCACAC-G-CTTTGCC
130 TAT-A-ACGGACTTCACC
* * * *
17405316 TCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAATAAAAACCATAAGGCATAATAACTT
1 TCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAA-AAAAATCATAAGACACAAGAACTT
*
17405381 CACTATGCATCACATGGTAAAATTTCATTTTTACTTCTTAAAAATTTATACTTTATCTTTGATTC
65 CACTATGCATCACATGATAAAATTTCATTTTTACTTCTTAAAAATTTATACTTTATCTTTGATTC
17405446 TATAACGGACTTCACC
130 TATAACGGACTTCACC
* * * *
17405462 TCAAAATTCGAGTTACTATATTTAAAAAT-AAATCTG--AAAAAAATCATAAAACACAAGAACTT
1 TCAAAATTCAAGTTTCAATATTTAAAAATGAAAT-TGAAAAAAAAATCATAAGACACAAGAACTT
* *
17405524 -AGCTATGCATCACATGATAAATTTTCATTTTAACTTCTTAAAAATTTATACTTTATCTTTGATT
65 CA-CTATGCATCACATGATAAAATTTCATTTTTACTTCTTAAAAATTTATACTTTATCTTTGATT
* * * * *
17405588 -TCCTAATGAATTTCATC
129 CT-ATAACGGACTTCACC
*
17405605 TCAAAATTCGAGTTTCAAT-TTTA
1 TCAAAATTCAAGTTTCAATATTTA
17405628 TATTGTACTC
Statistics
Matches: 267, Mismatches: 37, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
142 6 0.02
143 105 0.39
144 27 0.10
145 22 0.08
146 95 0.36
147 12 0.04
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (145 bp):
TCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAAAAATCATAAGACACAAGAACTTC
ACTATGCATCACATGATAAAATTTCATTTTTACTTCTTAAAAATTTATACTTTATCTTTGATTCT
ATAACGGACTTCACC
Found at i:17406503 original size:484 final size:484
Alignment explanation
Indices: 17405656--17406880 Score: 1485
Period size: 484 Copynumber: 2.5 Consensus size: 484
17405646 ATTTTACCTT
* * ** * *
17405656 AAAATTCAAGTTTCAATATTTAAAAATGAAACTGAAAAAAAATCATAACAGAAAAGAACTTCA-C
1 AAAATTCGAGATTCAATATTTAAAAATGAATTTGAAAAAAAATCATAACACACAAGAACTT-AGC
*
17405720 TATGGATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTATCTTTCATTCCGT
65 TATGAATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTATCTTTCATTCCGT
* * ** * *
17405785 AACAAACTTCGGC-CAAAAATCGAGTTTTAATATTAAAAAAT-AAAA-AAAGAAA-TCATAAAAA
130 AACAAA-TTTGGCTCAAAAATTGAGTTTTAATAACAAAAAATAAAAATAAAAAAACTCATTAAAA
* * *
17405846 CACGTGAACTTCGTTATGTATCACATGAATCTGTTAAAAACACAGGCAACCCAAAATATCCAAGT
194 CACGTGAACTTCGCTATGTATCACATGAATCTGTTAAAAAAATAGGCAACCCAAAATATCCAAGT
* * * *
17405911 GGTTGGTGAAAAGATTGTAAATCCAACATTTGTCAAACCCCTAATTGCATTCATCAAACTTCATT
259 GGATAGTGAAAAGATTGGAAATCCAACATTTGTCAAACCCCTAATTGCATTCATCAAACTACATT
* ** *
17405976 ACTGTAGTACTAGTTTGTTTTCATGATAATTACCAAATTGGGCAAATTTTAGTTCTA-CAGGTGT
324 ACTGTAGTACTAGTTTGATTTCATGATAATTACCAAATTGGGCAAACATTAGTTCTATAAGG-GT
* * * * * *
17406040 TGGTCTTAAAGAAAACCTCAACATATTGGA-AATTTGAGTTGTCCAT-AACACTTACATAATACC
388 AGGTCTTAAACAAAACCTCAACATATT-AACAAATTGAGCTGTCC-TCAACACTTACATAATAAC
17406103 TATTTATCTTTGATTCCATAACGGATTTCGCCTC
451 TATTTATCTTTGATTCCATAACGGATTTCGCCTC
* * * * * *
17406137 AAAATTTGAGATTCAATATTTAAAATTG-GTGTTG-TAAAAAATCATAAGATACAAGAACTTAGC
1 AAAATTCGAGATTCAATATTTAAAAATGAAT-TTGAAAAAAAATCATAACACACAAGAACTTAGC
* * * * *
17406200 TATGAATCACATGGTAGATTTCCATTTGAGCCTCTTAAAAATTAATAATTTATCTTT-ATTCCGT
65 TATGAATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTATCTTTCATTCCGT
* * *
17406264 AACAAATTTGGCCTCAAAAATTGAGCTTTAATAAGAAAAAATAAAAATAAAAACAACTTATTAAA
130 AACAAATTTGG-CTCAAAAATTGAGTTTTAATAACAAAAAATAAAAATAAAAA-AACTCATTAAA
** * *
17406329 ACACGTGAACTTCGCTATAAATCATATGAATCTGTTAAAAAAAATAGGCAACCCCAAATATCCAA
193 ACACGTGAACTTCGCTATGTATCACATGAATCTGTT-AAAAAAATAGGCAACCCAAAATATCCAA
* *
17406394 GTGGATAGTGAAAAGATTGGAAATCTACCATTTGTC-AACCCCTAATTGCATTCATCAAAC-ACA
257 GTGGATAGTGAAAAGATTGGAAATCCAACATTTGTCAAACCCCTAATTGCATTCATCAAACTACA
* * * *
17406457 TTACTGTAGTATTAATTTTGATTTCATGATAATTACCTAATTGGGCAAACATTAGTTTTATAAGG
322 TTACTGTAGTACT-AGTTTGATTTCATGATAATTACCAAATTGGGCAAACATTAGTTCTATAAGG
** * * * *
17406522 GTAGGTCTTTTACAAAACCTCATCGTATTAACAAATTGAGCTGTGCTCAACATTTACATAATAAC
386 GTAGGTCTTAAACAAAACCTCAACATATTAACAAATTGAGCTGTCCTCAACACTTACATAATAAC
* *
17406587 TATTTATCTTTGATTCCGTAACGGATTTTGCCTC
451 TATTTATCTTTGATTCCATAACGGATTTCGCCTC
** * * ***
17406621 GTAATTCGAGTTTCAATATTTAAAAATGAATTTGAAAAAAAAT-ATAATACACAAGAACGCCGCT
1 AAAATTCGAGATTCAATATTTAAAAATGAATTTGAAAAAAAATCATAACACACAAGAACTTAGCT
* *
17406685 ATGAATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTACACTTTATCTTTCATTCCGTA
66 ATGAATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTATCTTTCATTCCGTA
* * * * * *
17406750 ACAAACTT-ACTTAAAAGATTGAGTTTTAATAACTAAAAATAAAATTAAAAAGAACTGATTAAAA
131 ACAAATTTGGCTCAAAA-ATTGAGTTTTAATAACAAAAAATAAAAATAAAAA-AACTCATTAAAA
* * * * *
17406814 CACGTGAAC-TCGCTATGTATCGCATGATTATGTT-AAAAAATAGACAACCCTAAATATCCAAGT
194 CACGTGAACTTCGCTATGTATCACATGAATCTGTTAAAAAAATAGGCAACCCAAAATATCCAAGT
17406877 GGAT
259 GGAT
17406881 GTTGAATGGA
Statistics
Matches: 631, Mismatches: 96, Indels: 34
0.83 0.13 0.04
Matches are distributed among these distances:
478 4 0.01
479 15 0.02
480 98 0.16
481 61 0.10
482 4 0.01
483 43 0.07
484 324 0.51
485 82 0.13
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (484 bp):
AAAATTCGAGATTCAATATTTAAAAATGAATTTGAAAAAAAATCATAACACACAAGAACTTAGCT
ATGAATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTATCTTTCATTCCGTA
ACAAATTTGGCTCAAAAATTGAGTTTTAATAACAAAAAATAAAAATAAAAAAACTCATTAAAACA
CGTGAACTTCGCTATGTATCACATGAATCTGTTAAAAAAATAGGCAACCCAAAATATCCAAGTGG
ATAGTGAAAAGATTGGAAATCCAACATTTGTCAAACCCCTAATTGCATTCATCAAACTACATTAC
TGTAGTACTAGTTTGATTTCATGATAATTACCAAATTGGGCAAACATTAGTTCTATAAGGGTAGG
TCTTAAACAAAACCTCAACATATTAACAAATTGAGCTGTCCTCAACACTTACATAATAACTATTT
ATCTTTGATTCCATAACGGATTTCGCCTC
Found at i:17408386 original size:707 final size:705
Alignment explanation
Indices: 17407030--17408439 Score: 1959
Period size: 707 Copynumber: 2.0 Consensus size: 705
17407020 AATCATCTCG
*
17407030 TTAAGCGGCAGTCGGTGGCTTTGACCTATTAAAAATAATAATATTACTTTATAACCGTTCAAAAT
1 TTAAGCGGCAGGCGGTGGCTTTGACCTATTAAAAATAATAATATTACTTTATAACCGTTCAAAAT
* * * * *
17407095 ATAAAAAATAATTAACTAATATGAGTTTTTAAAAGAATTATATTTTATCCTGTATTCCGTAATAG
66 ATAAAAAATAATAAAATAATATGAGCTTCTAAAAGAATTATATTTTATCCTGTATACCGTAATAG
* * * *
17407160 ACTTTGCCATAAAATTTGGGTTTCAAATTTTAAAATGAAACTGAAAAAAATCATAAGACACAAGA
131 ACTTTACCATAAAATTCGAGTTTCAAATTTAAAAATGAAACTGAAAAAAATCATAAGACACAAGA
* * * * *
17407225 ATTTCATTATGCATCAGATTGTAAATTTCTATTTTAACCTCTTAAAAATTAATACTTTATCTTTC
196 ACTTCATTATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTAATACTTTATCATTC
* * *
17407290 ATTCAGTAACAAACTTCGCCTCAAGATTCGAGTTTTAATATTTAAAAATAAAATTAAAAAGAAAT
261 ATTCAGTAACAAACTTCGCCACAAAAATCGAGTTTTAATATTTAAAAATAAAA-TAAAAAGAAAT
* * *
17407355 CATAAAAATACGTGAACTTCGTTATGTATCACAAGAATCTCTTAAAAAAAGTAGGCAACCCTAAA
325 CATAAAAACACGTGAACTTCGTTATGTATCACAAGAATCTCTTAAAAAAAGCAAGCAACCCTAAA
* * * *
17407420 TATCCAAGTGAATGATGAAAAGATTGTAAATCCAACATTTGTCAAACCCCCTAATTACATTCATC
390 TATCCAAGTGAATGATAAAAAAATTGTAAATCCAACATCTATCAAACCCCCTAATTACATTCATC
* * * * *
17407485 AAAGTAAATTAGTGTAGTTCTAATTTTGTTTTCATGAAAATTACCAAATTAGGGAAACTTTAGTT
455 AAACTAAATCAGTGTAGTACAAATCTTGTTTTCATGAAAATTACCAAATTAGGGAAACTTTAGTT
* * * * *
17407550 CTACAAGTGTTGGTCTTCAACAAAACCTCAACATATTGGCATTTTAGGTTGTCCACAACACTTGC
520 CTACAAGGGTTGATCTTCAACAAAACCTCAACATATTGGCAATTTAGGTTGTCCACAAAACTTAC
* * ** *
17407615 ATAATAGCTATTTATTTTTTATTTTGGAACAGATTTCGCCTCAAAATTCGAATTTCATTATTTAA
585 ATAATAGCTATTTATCTTTGATTCCGGAACAGATTTCGCCTCAAAATTCGAATTTCAATATTTAA
* * *
17407680 AAATGAAATTGAAAAAAAAAT-ATAAGGCACAAGAATATCGCTATGAATCACATTAT
650 AAATGAAATTG-AAAAAAAATCATAAGACACAAGAATATCCCCATGAATCACATTAT
* *
17407736 TTAAGCGGCAGGCGGTGGCTTTGACTTATTGAAAATAATAATATTACTTTATAACCGTTCAAAAT
1 TTAAGCGGCAGGCGGTGGCTTTGACCTATTAAAAATAATAATATTACTTTATAACCGTTCAAAAT
* * * * * *
17407801 TTTAAAAATTATAAAATAATGTGA-CTTCTAAAAGAATTATATTTTATCTTGTATACTGTAATAG
66 ATAAAAAATAATAAAATAATATGAGCTTCTAAAAGAATTATATTTTATCCTGTATACCGTAATAG
* * * *
17407865 ATTTTACCTTAAAATTCGAGTTTCAATATTTAAAAATGAAACTGGAAAAAATCATAAGACATAAG
131 ACTTTACCATAAAATTCGAGTTTCAA-ATTTAAAAATGAAACTGAAAAAAATCATAAGACACAAG
* *
17407930 AACTTCATTATGGATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTTTCATT
195 AACTTCATTATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTAATAC--TTT-A-T
*
17407995 CATTCATTCCGTAACAAACTTCGCCACAAAAATCGAGTTTTAATATTTAAAAATAAAA-AAAAAG
256 CATTCATTCAGTAACAAACTTCGCCACAAAAATCGAGTTTTAATATTTAAAAATAAAATAAAAAG
* * * *
17408059 AAATCATAAAAACACGTGAACTTCGTTATGTATCA-AATTAATCTGTT-AAAAACGCAAGCAATC
321 AAATCATAAAAACACGTGAACTTCGTTATGTATCACAA-GAATCTCTTAAAAAAAGCAAGCAACC
** *
17408122 CTAAATATCCAAGTGGTTGATAAAAAAATTGTAAATCCAACATCTATCAAACCCCCTAATTGCAT
385 CTAAATATCCAAGTGAATGATAAAAAAATTGTAAATCCAACATCTATCAAACCCCCTAATTACAT
** * *
17408187 TCATCAAACTTCATCATTGTAGTACAAATCTTGTTTTCATGATAATTACCAAATT-GGGCAAACT
450 TCATCAAACTAAATCAGTGTAGTACAAATCTTGTTTTCATGAAAATTACCAAATTAGGG-AAACT
* ** * * * *
17408251 TTAGTTCTATAAGGGTTGATCTTTTACAAAACCTCAATATATTGGCAATTTGGGTTTTCCTCAAA
514 TTAGTTCTACAAGGGTTGATCTTCAACAAAACCTCAACATATTGGCAATTTAGGTTGTCCACAAA
* * * * *
17408316 ACTTACATAATAGTTATTTATCTTTGATTCCGTAATAGATTTCTCCTCAAAATTCGAGTTTCAAT
579 ACTTACATAATAGCTATTTATCTTTGATTCCGGAACAGATTTCGCCTCAAAATTCGAATTTCAAT
*
17408381 ATTTAAAAATGAAATTGAAAAAAAATCATAAGACACAAGAATTTCCCCATGAATCACAT
644 ATTTAAAAATGAAATTGAAAAAAAATCATAAGACACAAGAATATCCCCATGAATCACAT
17408440 GATAAATTTT
Statistics
Matches: 614, Mismatches: 82, Indels: 15
0.86 0.12 0.02
Matches are distributed among these distances:
705 56 0.09
706 177 0.29
707 276 0.45
708 50 0.08
709 1 0.00
710 54 0.09
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (705 bp):
TTAAGCGGCAGGCGGTGGCTTTGACCTATTAAAAATAATAATATTACTTTATAACCGTTCAAAAT
ATAAAAAATAATAAAATAATATGAGCTTCTAAAAGAATTATATTTTATCCTGTATACCGTAATAG
ACTTTACCATAAAATTCGAGTTTCAAATTTAAAAATGAAACTGAAAAAAATCATAAGACACAAGA
ACTTCATTATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTAATACTTTATCATTC
ATTCAGTAACAAACTTCGCCACAAAAATCGAGTTTTAATATTTAAAAATAAAATAAAAAGAAATC
ATAAAAACACGTGAACTTCGTTATGTATCACAAGAATCTCTTAAAAAAAGCAAGCAACCCTAAAT
ATCCAAGTGAATGATAAAAAAATTGTAAATCCAACATCTATCAAACCCCCTAATTACATTCATCA
AACTAAATCAGTGTAGTACAAATCTTGTTTTCATGAAAATTACCAAATTAGGGAAACTTTAGTTC
TACAAGGGTTGATCTTCAACAAAACCTCAACATATTGGCAATTTAGGTTGTCCACAAAACTTACA
TAATAGCTATTTATCTTTGATTCCGGAACAGATTTCGCCTCAAAATTCGAATTTCAATATTTAAA
AATGAAATTGAAAAAAAATCATAAGACACAAGAATATCCCCATGAATCACATTAT
Found at i:17408625 original size:146 final size:143
Alignment explanation
Indices: 17408332--17408817 Score: 563
Period size: 146 Copynumber: 3.4 Consensus size: 143
17408322 ATAATAGTTA
** * * * *
17408332 TTTATCTTTGATTCCGTAATAGATTTCTCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATT
1 TTTATCTTTGATTCTATAA-CGACTTCGCCTCAAAATTCAAGTTTCAATATTTAAAAATGAAATT
* * * * *
17408397 GAAAAAAAATCATAAGACACAAGAATTTCCCCATGAATCACATGATAAATTTTC-TTTTTAACCA
65 GAAAAAAAATCATAAGACACAAGAACTTCACTATGCATCACATGATAAATTTTCATTTTT-ACCT
17408461 CTTAAAAATTTATAC
129 CTTAAAAATTTATAC
* * *
17408476 TTTATCATTGATTCTTTCACACG-CTTTGCCTCAAAATTCAAGTTTCAATATTTAAAAATGAAAT
1 TTTATCTTTGATTCTAT-A-ACGACTTCGCCTCAAAATTCAAGTTTCAATATTTAAAAATGAAAT
* * * * *
17408540 TGAAAATAAAAACCATAAGACATAATAACTTCACTATGCATCACATGGTAAATTTCCATTTTTAC
64 TG-AAA-AAAAATCATAAGACACAAGAACTTCACTATGCATCACATGATAAATTTTCATTTTTAC
*
17408605 TTCTTAAAAATTTATAC
127 CTCTTAAAAATTTATAC
* * **
17408622 TTTATCTTTGATTCTATAACGAACTTCGCCTCAAAATTCAAATTACTGTATTTAAAAAT-AAATC
1 TTTATCTTTGATTCTATAACG-ACTTCGCCTCAAAATTCAAGTTTCAATATTTAAAAATGAAAT-
*
17408686 TG-AAAAAAATCATAAGACACAAGAACTT-AGCTATGCATCACATGATAAATTTTCATTTTAACC
64 TGAAAAAAAATCATAAGACACAAGAACTTCA-CTATGCATCACATGATAAATTTTCATTTTTACC
17408749 TCTTAAAAATTTATAC
128 TCTTAAAAATTTATAC
** * *
17408765 TTTATCTTTGATTTGCTA-ATGGACTTCACCTCAAAATTCGAGTTTCAAT-TTTA
1 TTTATCTTTGA-TT-CTATAACGACTTCGCCTCAAAATTCAAGTTTCAATATTTA
17408818 TATTGTATTC
Statistics
Matches: 290, Mismatches: 41, Indels: 24
0.82 0.12 0.07
Matches are distributed among these distances:
142 5 0.02
143 98 0.34
144 62 0.21
145 13 0.04
146 107 0.37
147 5 0.02
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.37
Consensus pattern (143 bp):
TTTATCTTTGATTCTATAACGACTTCGCCTCAAAATTCAAGTTTCAATATTTAAAAATGAAATTG
AAAAAAAATCATAAGACACAAGAACTTCACTATGCATCACATGATAAATTTTCATTTTTACCTCT
TAAAAATTTATAC
Found at i:17411590 original size:710 final size:705
Alignment explanation
Indices: 17410244--17411624 Score: 1909
Period size: 710 Copynumber: 2.0 Consensus size: 705
17410234 TGACCAATTA
* *
17410244 AAAATAATAATATTACTTTATAACCGTTCAAAATATAAAAAATAATAAATTAATATGACTTTTTA
1 AAAATAATAATATTACTTTATAACCGTTCAAAATATAAAAAATAATAAAATAATATGACTTTCTA
* ** *
17410309 AAAGAATTATATTTTATCTTGTATTCCGTAATAGACTTTGTCATAAAATTCGGGTTTCAAAATTT
66 AAAGAATTATATTTTATCTTGTATACCGTAATAGACTTTACCATAAAATTCGAGTTTCAAAATTT
* * *
17410374 AAAATGAAACTGAAAAAAAATCATAAGACACAAGAATTTCATTATGCAGCAGATGGTAAATTTCC
131 AAAATGAAACTGAAAAAAAATCATAAGACACAAGAACTTCACTATGCAGCACATGGTAAATTTCC
* * ** * *
17410439 ATTTTAACCTCTTAAATATTAATATTTTATCTTTCATTCACTAATAGTTTTCGCCTCAAAATTCA
196 ATTTTAACCTCTTAAAAATTAATATTTTATCTTTCATTCACTAACAGACTTCGCCACAAAAATCA
*
17410504 AGCTTTAATATTTAAAAAAAATAAAAAAAAATCATAAAAATACGTGAACTTCGTTATGTATCACA
261 AGCTTTAATATTTAAAAAAAATAAAAAAAAATCATAAAAATACGTGAACTTCGTTATGTACCACA
* * * * * *
17410569 AGAATCTCTTTAAAAAAGTAGGCAACTCTAAATATCCAAGTGGATGGTGAAAAGATTGTAAATCC
326 AGAATCTCGTTAAAAAAGTAGACAACCCTAAATATCCAAGTGGATGATGAAAAAATTATAAATCC
** * *
17410634 AACATTTGTCAAACCCCCTAATTGCATTCATCAAAGTTAATTAGTGTAGTACTAATTTTGTTATC
391 AACACCTGTCAAACCCCCTAATTGCATTCACCAAACTTAATTAGTGTAGTACTAATTTTGTTATC
*
17410699 ATGATAATTACCAAATTAGGCAAACTTTAGTTCTACAAGTGTTGGTCTTCAACAAAACCTCAACA
456 ATGATAATTACCAAATTAGGCAAACTTTAGTTCTACAAGGGTTGGTCTTCAACAAAACCTCAACA
* * * * * * * * *
17410764 TATTGGCATTTTAGGTTGTCCACAACACTTGCACAATAGCTATTTATTTTTTTTATTTCGGATCA
521 AATTGGCAATTTAGGTTGTCCACAAAACCTACACAATAGCTATTTA-TTCTTTGATTCCGAATCA
* * * *
17410829 GATTTCGCCTCAAAATTCGTGTTTCATTATTTAAGAATGAAATTGAAAAAAAAACATAAGACACA
585 GATTTCGCCTCAAAATTAGAGTTTCAATATTTAAAAATGAAATTGAAAAAAAAACATAAGACACA
*
17410894 AGAACGTCGCTATGAATCACATTATTTAAGCGGCAGGCGGTGGCTTTAACCTACTG
650 AGAACGTCCCTATGAATCACATTATTTAAGCGGCAGGCGGTGGCTTTAACCTACTG
*
17410950 AAAATAATAATATTACTTTATAACCGTTCAAAATTTAAAAAATAATAAAATAATATGAC-TTCTA
1 AAAATAATAATATTACTTTATAACCGTTCAAAATATAAAAAATAATAAAATAATATGACTTTCTA
* * * *
17411014 AAAGAATTATATTTTATCTTGTATACTGTAATAGATTTTACCTTAAAATTCGAGTTTCAATATTT
66 AAAGAATTATATTTTATCTTGTATACCGTAATAGACTTTACCATAAAATTCGAGTTTCAAAATTT
* * *
17411079 AAAAATGAAACTG-GAAAAAATCATAAGACACAAGAACTTCACTATGGATCACATGGTAAATTTC
131 -AAAATGAAACTGAAAAAAAATCATAAGACACAAGAACTTCACTATGCAGCACATGGTAAATTTC
* * *
17411143 CCTTTTAACCTCTTAAAAATTTATACTTTTTCATTCTTTCATTC-CGTAACAGACTTCGGCACAA
195 CATTTTAACCTCTTAAAAATTAATA--TTTT-A-TCTTTCATTCAC-TAACAGACTTCGCCACAA
* *
17411207 AAATCGAGTTTTAATATTTAAAAATAAA-AATAAAAGGAAATCATAAAAATACGTGAACTTCGTT
255 AAATCAAGCTTTAATATTTAAAAA-AAATAA-AAAA--AAATCATAAAAATACGTGAACTTCGTT
* *
17411271 ATGTACCA-AATGAATCT-GTTAAAAACGTAGACAACCCTAAATATCCAAGTGGTTGAT-AAGAA
316 ATGTACCACAA-GAATCTCGTTAAAAAAGTAGACAACCCTAAATATCCAAGTGGATGATGAA-AA
* *
17411333 AATTATAAATCCAACACCTGTCAAA-CCCCTAATTGCATTCACCAAACTTCATTATTGTAGTACT
379 AATTATAAATCCAACACCTGTCAAACCCCCTAATTGCATTCACCAAACTTAATTAGTGTAGTACT
* * * **
17411397 AATTTTGTTTTCATGATAATTACCAAATTGGGCAAACTTTAGTTCTATAAGGGTTGGTCTTTTAC
444 AATTTTGTTATCATGATAATTACCAAATTAGGCAAACTTTAGTTCTACAAGGGTTGGTCTTCAAC
* * * *
17411462 AAAACCTCAACAAATTGGCAATTTGGGTTGTCCTCAAAACCTACATAATAGTTATTTA-TCTTTG
509 AAAACCTCAACAAATTGGCAATTTAGGTTGTCCACAAAACCTACACAATAGCTATTTATTCTTTG
**
17411526 ATTCCGTAAT-AGATTTTTCCTCAAAATTAGAGTTTCAATATTTAAAAATGAAATTGAAAAAAAA
574 ATTCCG-AATCAGATTTCGCCTCAAAATTAGAGTTTCAATATTTAAAAATGAAATTGAAAAAAAA
* **
17411590 ATCATAAGACATAAGAATTTCCCTATGAATCACAT
638 A-CATAAGACACAAGAACGTCCCTATGAATCACAT
17411625 GATAAATCTC
Statistics
Matches: 589, Mismatches: 72, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
705 128 0.22
706 69 0.12
707 4 0.01
708 60 0.10
709 77 0.13
710 152 0.26
711 59 0.10
712 40 0.07
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (705 bp):
AAAATAATAATATTACTTTATAACCGTTCAAAATATAAAAAATAATAAAATAATATGACTTTCTA
AAAGAATTATATTTTATCTTGTATACCGTAATAGACTTTACCATAAAATTCGAGTTTCAAAATTT
AAAATGAAACTGAAAAAAAATCATAAGACACAAGAACTTCACTATGCAGCACATGGTAAATTTCC
ATTTTAACCTCTTAAAAATTAATATTTTATCTTTCATTCACTAACAGACTTCGCCACAAAAATCA
AGCTTTAATATTTAAAAAAAATAAAAAAAAATCATAAAAATACGTGAACTTCGTTATGTACCACA
AGAATCTCGTTAAAAAAGTAGACAACCCTAAATATCCAAGTGGATGATGAAAAAATTATAAATCC
AACACCTGTCAAACCCCCTAATTGCATTCACCAAACTTAATTAGTGTAGTACTAATTTTGTTATC
ATGATAATTACCAAATTAGGCAAACTTTAGTTCTACAAGGGTTGGTCTTCAACAAAACCTCAACA
AATTGGCAATTTAGGTTGTCCACAAAACCTACACAATAGCTATTTATTCTTTGATTCCGAATCAG
ATTTCGCCTCAAAATTAGAGTTTCAATATTTAAAAATGAAATTGAAAAAAAAACATAAGACACAA
GAACGTCCCTATGAATCACATTATTTAAGCGGCAGGCGGTGGCTTTAACCTACTG
Found at i:17411811 original size:146 final size:142
Alignment explanation
Indices: 17411544--17412003 Score: 461
Period size: 143 Copynumber: 3.2 Consensus size: 142
17411534 ATAGATTTTT
* *
17411544 CCTCAAAATT-AGAGTTTCAATATTTAAAAATGAAATTGAAAAAAAAATCATAAGACATAAGAAT
1 CCTCAAAATTCA-AGTTTTAATATTTAAAAAT-AAATTGAAAAAAAAATCATAAGACATAAGAAC
* * * * * *
17411608 TTCCCTATGAATCACATGATAAATCTCCTTTTTAACCACTTAAAGATGTATACTTTATCATTGAT
64 TTCACTATGCATCACATGATAAAT-TCATTTTT-ACCTCTTAAAAATGTATACTTTATCTTTGAT
*
17411673 TCCT-TCACAC-G-CTTTG
127 T-CTAT-A-ACGGACTTCG
* *
17411689 CCTCAAAATTCAAGTTTTAATATTTAAAAATAAAATTGAAAATAAAAACCATAAGACATAATAAC
1 CCTCAAAATTCAAGTTTTAATATTTAAAAAT-AAATTGAAAA-AAAAATCATAAGACATAAGAAC
* *
17411754 TTCACTATGCATCACATGGTAAACTTACATTTTTACTTCTTAAAAATGTATACTTTATCTTTGAT
64 TTCACTATGCATCACATGATAAA-TT-CATTTTTACCTCTTAAAAATGTATACTTTATCTTTGAT
17411819 TCTATAACGGACTTCG
127 TCTATAACGGACTTCG
* * * * *
17411835 CCTCAAAATTCGACTTGCT-ATACTTAAAAATAAATCTG--AAAAAAATCATAAGACACAAGAAC
1 CCTCAAAATTCAAGTT-TTAATATTTAAAAATAAAT-TGAAAAAAAAATCATAAGACATAAGAAC
* * *
17411897 TT-AGCTATGCATCACATGATAAATTTTTATTTTAACCTCTTAAAAATTTATACTTTATCTTTGA
64 TTCA-CTATGCATCACATGATAAA--TTCATTTTTACCTCTTAAAAATGTATACTTTATCTTTGA
* * *
17411961 TT-TCCTAATGGACTTCA
126 TTCT-ATAACGGACTTCG
* * *
17411978 CCTCAAAATTCGAGTTTCAATTTTTA
1 CCTCAAAATTCAAGTTTTAATATTTA
17412004 TTGTATTCCG
Statistics
Matches: 267, Mismatches: 35, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
142 2 0.01
143 104 0.39
144 6 0.02
145 46 0.17
146 101 0.38
147 8 0.03
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (142 bp):
CCTCAAAATTCAAGTTTTAATATTTAAAAATAAATTGAAAAAAAAATCATAAGACATAAGAACTT
CACTATGCATCACATGATAAATTCATTTTTACCTCTTAAAAATGTATACTTTATCTTTGATTCTA
TAACGGACTTCG
Found at i:17411949 original size:143 final size:141
Alignment explanation
Indices: 17411544--17411993 Score: 460
Period size: 146 Copynumber: 3.1 Consensus size: 141
17411534 ATAGATTTTT
* * * *
17411544 CCTCAAAATTAGAGTTTCAATATTTAAAAATGAAATTGAAAAAAAAATCATAAGACATAAGAATT
1 CCTCAAAATTCGAG-TTCTATATTTAAAAATAAAATTG-AAAAAAAATCATAAGACATAAGAACT
* * ** * * *
17411609 TCCCTATGAATCACATGATAAATCTCCT-TTTTAACCACTTAAAGATGTATACTTTATCATTGAT
64 T-ACTATGCATCACATGATAAAT-TTATATTTTAACCTCTTAAAAATGTATACTTTATCTTTGAT
*
17411673 TCCTTCACAC-G-CTTTG
127 T-CTT-A-ACGGACTTCG
* * * *
17411689 CCTCAAAATTCAAGTTTTAATATTTAAAAATAAAATTGAAAATAAAAACCATAAGACATAATAAC
1 CCTCAAAATTCGAGTTCT-ATATTTAAAAATAAAATTG-AAA-AAAAATCATAAGACATAAGAAC
* * * * *
17411754 TTCACTATGCATCACATGGTAAACTTACATTTTTACTTCTTAAAAATGTATACTTTATCTTTGAT
63 TT-ACTATGCATCACATGATAAATTTATATTTTAACCTCTTAAAAATGTATACTTTATCTTTGAT
17411819 TCTATAACGGACTTCG
127 TCT-TAACGGACTTCG
* * *
17411835 CCTCAAAATTCGACTTGCTATACTTAAAAAT-AAATCTG-AAAAAAATCATAAGACACAAGAACT
1 CCTCAAAATTCGAGTT-CTATATTTAAAAATAAAAT-TGAAAAAAAATCATAAGACATAAGAACT
* *
17411898 TAGCTATGCATCACATGATAAATTTTTATTTTAACCTCTTAAAAATTTATACTTTATCTTTGATT
64 TA-CTATGCATCACATGATAAATTTATATTTTAACCTCTTAAAAATGTATACTTTATCTTTGA-T
* * *
17411963 TCCTAATGGACTTCA
127 TCTTAACGGACTTCG
17411978 CCTCAAAATTCGAGTT
1 CCTCAAAATTCGAGTT
17411994 TCAATTTTTA
Statistics
Matches: 256, Mismatches: 39, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
142 1 0.00
143 99 0.39
144 9 0.04
145 43 0.17
146 103 0.40
147 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (141 bp):
CCTCAAAATTCGAGTTCTATATTTAAAAATAAAATTGAAAAAAAATCATAAGACATAAGAACTTA
CTATGCATCACATGATAAATTTATATTTTAACCTCTTAAAAATGTATACTTTATCTTTGATTCTT
AACGGACTTCG
Found at i:17413057 original size:483 final size:484
Alignment explanation
Indices: 17412008--17413261 Score: 1449
Period size: 483 Copynumber: 2.6 Consensus size: 484
17411998 TTTTTATTGT
* * * **
17412008 ATTCCGTAACCGATTTTACCTTAAAATTCGAGTTTCAATATTTAAAAATGAAACTGAAAAAATCA
1 ATTCCGTAA-CGAATTTGCCTAAAAATTCGAGTTTCAATATTTAAAAATGAATTTGAAAAAATCA
* * * * *
17412073 TAACACAAAAGAACTTCACTATGGATCACATGGTAAA-TTTCTATTTTAATCACTTAAAAATTTA
65 TAAGACACAAGAACTTCACTATGAATCACATGGTAAATTTTC-ATTTTAACCTCTTAAAAA-TT-
** * * *
17412137 TACTTTTTCATTCATTT-ATTCCGTAACAGATTTCGG-CTCAAAAATCGAGTTTTAATATTTAAA
127 TACAATTT-A-TC-TTTCATTCCGTAACAGATTT-GGCCTAAAAAATTGAGTTTTAATA-ATAAA
* * * * * *
17412200 AATAAAAATAAAAAGAAATCATAAAAACACGTGGACTTCGTTATATATCACATGAATATGTT-AA
187 AATAAAATTAAAATGAACTCATTAAAACACGTGAACTTCGCTATATATCACATGAATATGTTAAA
* * * * * * *
17412264 AAATGCAAACAACCCTGAATATCCAAGTAGTTGGTGAAAAGATTACAAATCCAGCATTTGTCAAA
252 AAAT-TAGACAACCCTAAATATCCAAGTGGATAGTGAAAAGATTACAAATCCACCATTTGTCAAA
* * * * *
17412329 CCCCTATTTGCATTCATCAAACTTCATTACTGTAGTACTAATTTTTGTTTTCATGATAATTATCA
316 CCCCTAATTGCATTCATCAAACTACATTACTGTAGTACTAATTTTTGATTTAATGATAATTACCA
* * * * *
17412394 AATTGGGCAAACTTTAGTTGTACAGGTGTTGGTCTTCAAGAAAACCTCAACATATTGGAAATTTG
381 AATTGGGCAAACATTAGTTGTAAAGGTGTAGGTCTTCAACAAAACCTCAACATATTGGAAAATTG
*
17412459 GGTTGTCCACAGCACTTACATAATACCTATTTATCTTTG
446 AGTTGTCCACAGCACTTACATAATACCTATTTATCTTTG
* * * ** * *
17412498 ATTCCATAACGAATTTCGCCTAAAAATCCGAGATTCGGTATTTAAAAGTG-GTGTTGTAAAAAAT
1 ATTCCGTAACGAATTT-GCCTAAAAATTCGAGTTTCAATATTTAAAAATGAAT-TTG-AAAAAAT
* *
17412562 CATAAGACACAAGAACTTAACTATGAATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTC
63 CATAAGACACAAGAACTTCACTATGAATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTT
* * *
17412627 AGAATTTATCTTTCATTCCGTAACAGATTTGGCCTTAAAAATTGAGTTTTAATAAGAAAAATTAA
128 ACAATTTATCTTTCATTCCGTAACAGATTTGGCCTAAAAAATTGAGTTTTAATAATAAAAA-TAA
* * * *
17412692 AATTAAAATCAACTTATTAAAACACGTGAACTTCGCTATAAATCACATGAATCTGTTAAAAAAAT
192 AATTAAAATGAACTCATTAAAACACGTGAACTTCGCTATATATCACATGAATATGTT-AAAAAAT
* * **
17412757 TAGGCAACCCCAAATATCCAAGTGGATAGTGAAAAGATTGGAAATCCACCATTTGTC-AA-CCCT
256 TAGACAACCCTAAATATCCAAGTGGATAGTGAAAAGATTACAAATCCACCATTTGTCAAACCCCT
* *
17412820 AATTGCATTCATCAAAC-ACATTATTGTAGTATTAA-TTTTGATTTAATGATAATTACCAAATTG
321 AATTGCATTCATCAAACTACATTACTGTAGTACTAATTTTTGATTTAATGATAATTACCAAATTG
* * ** * *
17412883 GGCAAACATTAGTTTTATAAGG-GTAGTTCTTTTACAAAACCTCATCGTATT-GACAAATTGAGT
386 GGCAAACATTAGTTGTA-AAGGTGTAGGTCTTCAACAAAACCTCAACATATTGGA-AAATTGAGT
* *
17412946 TGTCTCA-A-CATTTACATAATAGCTATTTATCTTTG
449 TGTC-CACAGCACTTACATAATACCTATTTATCTTTG
* * *
17412981 ATTCCGTAACGGACTTTGCCTCACAATTCGAGTTTCAATATTTAAAAATGAATTTGAAAAAAATC
1 ATTCCGTAAC-GAATTTGCCTAAAAATTCGAGTTTCAATATTTAAAAATGAATTTG-AAAAAATC
** * * *
17413046 ATAAGACACAAGAACGCCGCTATGAATCACATGATAAATTTCCATTTTAACCTCTTAAAAATTTA
64 ATAAGACACAAGAACTTCACTATGAATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTA
* * * * *
17413111 CACTTGATCTTTCATTCCGTAACAAACTT-ACCTAAAAAATTGAGTTTTAATAACTAAAAATAAA
129 CAATTTATCTTTCATTCCGTAACAGATTTGGCCTAAAAAATTGAGTTTTAATAA-TAAAAATAAA
* * *
17413175 ATTAAAATGAACTGATTAAAACACGTGAACTTCGCTATATATCGCATGATTATGTTAAAAAA-TA
193 ATTAAAATGAACTCATTAAAACACGTGAACTTCGCTATATATCACATGAATATGTTAAAAAATTA
17413239 GACAACCCTAAATATCCAAGTGG
258 GACAACCCTAAATATCCAAGTGG
17413262 GTGTTGAATG
Statistics
Matches: 647, Mismatches: 102, Indels: 40
0.82 0.13 0.05
Matches are distributed among these distances:
480 23 0.04
481 6 0.01
482 76 0.12
483 160 0.25
484 80 0.12
485 20 0.03
486 30 0.05
487 89 0.14
488 47 0.07
489 16 0.02
490 38 0.06
491 58 0.09
492 4 0.01
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (484 bp):
ATTCCGTAACGAATTTGCCTAAAAATTCGAGTTTCAATATTTAAAAATGAATTTGAAAAAATCAT
AAGACACAAGAACTTCACTATGAATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTACA
ATTTATCTTTCATTCCGTAACAGATTTGGCCTAAAAAATTGAGTTTTAATAATAAAAATAAAATT
AAAATGAACTCATTAAAACACGTGAACTTCGCTATATATCACATGAATATGTTAAAAAATTAGAC
AACCCTAAATATCCAAGTGGATAGTGAAAAGATTACAAATCCACCATTTGTCAAACCCCTAATTG
CATTCATCAAACTACATTACTGTAGTACTAATTTTTGATTTAATGATAATTACCAAATTGGGCAA
ACATTAGTTGTAAAGGTGTAGGTCTTCAACAAAACCTCAACATATTGGAAAATTGAGTTGTCCAC
AGCACTTACATAATACCTATTTATCTTTG
Found at i:17414429 original size:6 final size:6
Alignment explanation
Indices: 17414418--17414445 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
17414408 TTTTAATATT
17414418 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
17414446 TCATAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:17415140 original size:143 final size:140
Alignment explanation
Indices: 17414747--17415198 Score: 448
Period size: 143 Copynumber: 3.1 Consensus size: 140
17414737 ATTTCTCCTT
* * * *
17414747 AAAATTCGAGTTTCAATTTTTAAAAATGAAATTGAAAAAAATCATAAGACACAAGAATTTTCCCA
1 AAAATTCGAG-TTCAATATTTAAAAATGAAATTGAAAAAAATCATAAGACACAAGAA-CTTACTA
** * * * * * * * *
17414812 TAAATCACATGATATATTTCCTTTTTAACCACTTAAAAATGTATACTTTGTCATTGATTCTTTCA
64 TGCATCACATGATAAATTTTCATTTTAACCTCTTAAAAATTTATACTTTATCTTTGATT-TAT-A
*
17414877 CAC-G-CTTTGCCTC
127 -ACGGACTTCGCCTC
* * * * *
17414890 ACAATTCAAGTGTCAATATTTAAAAATGAAATTGAAAATAAAAACCATAAGACATAATAACTTCA
1 AAAATTCGAGT-TCAATATTTAAAAATGAAATTG--AA-AAAAATCATAAGACACAAGAACTT-A
* * *
17414955 CTATGCATCACATGGTAAATATTT-ATTTTTACTTCTTAAAAATTTATACTTTATCTTTGATTAT
61 CTATGCATCACATGATAAAT-TTTCATTTTAACCTCTTAAAAATTTATACTTTATCTTTGATT-T
17415019 ATAACGGACTTCGCCTC
124 ATAACGGACTTCGCCTC
* *
17415036 AAAATTCGACTTACTATATTTAAAAAT-AAATCTGAAAAAAATCATAAGACACAAGAACTTAGCT
1 AAAATTCGAGTT-CAATATTTAAAAATGAAAT-TGAAAAAAATCATAAGACACAAGAACTTA-CT
* *
17415100 ATGCATTACATGATAAATTTTCATTTTAACCTCTTAAAAATTTATACTTTATCTTTGATTTCCTA
63 ATGCATCACATGATAAATTTTCATTTTAACCTCTTAAAAATTTATACTTTATCTTTGATTT-ATA
* *
17415165 ATGGACTTCACCTC
127 ACGGACTTCGCCTC
17415179 -AAATTCGAGTTTCAAT-TTTA
1 AAAATTCGAG-TTCAATATTTA
17415199 TATTGTATTC
Statistics
Matches: 255, Mismatches: 40, Indels: 30
0.78 0.12 0.09
Matches are distributed among these distances:
141 4 0.02
142 17 0.07
143 120 0.47
144 4 0.02
145 11 0.04
146 97 0.38
147 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (140 bp):
AAAATTCGAGTTCAATATTTAAAAATGAAATTGAAAAAAATCATAAGACACAAGAACTTACTATG
CATCACATGATAAATTTTCATTTTAACCTCTTAAAAATTTATACTTTATCTTTGATTTATAACGG
ACTTCGCCTC
Found at i:17416574 original size:146 final size:144
Alignment explanation
Indices: 17416321--17416808 Score: 533
Period size: 146 Copynumber: 3.4 Consensus size: 144
17416311 ATAATAGTTA
* * * ** *
17416321 TTTATCTTTGATTTTGTAATAGACTTCGCCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATT
1 TTTATCTTTGATTCTATAACAGACTTCGCCTCAAAATTCAAGTTTTAATATTTAAAAAT-AAATT
* * * ** *
17416386 GAAAAAAAAAATCATAAGACACAAGAACTTCCCCATAAATCACATGATAAATTTCCTTTTTAACC
65 G-AAAAAAAAATCATAAGACACAATAACTTCACTATGCATCACATGATAAATTTCCTTTTTAACT
17416451 ACTTAAAAATTTATAC
129 ACTTAAAAATTTATAC
* * * * * *
17416467 TTTATCATTGATTCTTTCATATG-CTTTGCCTCAAAATTCAAGTTTTAATATTTGAAAATAAAAT
1 TTTATCTTTGATTCTATAACA-GACTTCGCCTCAAAATTCAAGTTTTAATATTTAAAAAT-AAAT
* * *
17416531 TGAAAATAAAAACCATAAGACATAATAACTTCACTATGCATCACATGGTAAATTTCCATTTTT-A
64 TGAAAA-AAAAATCATAAGACACAATAACTTCACTATGCATCACATGATAAATTTCC-TTTTTAA
*
17416595 CTTCTTAAAAATTTATAC
127 CTACTTAAAAATTTATAC
* *
17416613 TTTATCTTTGATTCTATAACAGACTTCGCCTCAAAATTCAAGTTACT-ATATTTAAAAATGAATC
1 TTTATCTTTGATTCTATAACAGACTTCGCCTCAAAATTCAAGTT-TTAATATTTAAAAATAAAT-
* * *
17416677 TG--AAAAAAATCATAAGACCCAATAACTT-AGCTATGCATCACATGATAAATTTTCATTTTAAC
64 TGAAAAAAAAATCATAAGACACAATAACTTCA-CTATGCATCACATGATAAATTTCCTTTTTAAC
17416739 TACTTAAAAATTTATAC
128 TACTTAAAAATTTATAC
* ** * * *
17416756 TTTATCTTTGATT-TCCTAATGGACTTCACCTCAAAATTCGAGTTTCAAT-TTTA
1 TTTATCTTTGATTCT-ATAACAGACTTCGCCTCAAAATTCAAGTTTTAATATTTA
17416809 TATTGTATTC
Statistics
Matches: 290, Mismatches: 42, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
142 10 0.03
143 100 0.34
144 2 0.01
145 8 0.03
146 163 0.56
147 7 0.02
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (144 bp):
TTTATCTTTGATTCTATAACAGACTTCGCCTCAAAATTCAAGTTTTAATATTTAAAAATAAATTG
AAAAAAAAATCATAAGACACAATAACTTCACTATGCATCACATGATAAATTTCCTTTTTAACTAC
TTAAAAATTTATAC
Found at i:17422433 original size:206 final size:206
Alignment explanation
Indices: 17422059--17422434 Score: 513
Period size: 206 Copynumber: 1.8 Consensus size: 206
17422049 GGTTGTCAAC
** * *
17422059 AACACTTACATAATACCTATTTATCTTTGATTCCATAACGGATTTCGTCTCAAAATCCGAGATTC
1 AACACTTACATAATACCTATTTATCTTTGATTCCATAACAAATTTCGCCTCAAAATCCAAGATTC
* * * **
17422124 AATATTTAAAAAAGGTGTTGTAAAAAATCAAAAGACACAAGAACTTAGCTATGAATCACATGGTA
66 AATATTTAAAAAAGATGTTGAAAAAAAACAAAAGACACAAGAACGCAGCTATGAATCACATGGTA
* *
17422189 AAATTCCATTTTAACCTCTTAAAAATTCATAATTTATCTTACAAACCTCAACGTATTAACAAATT
131 AAATTCCATTTTAAACTCTTAAAAATTCACAATTTATCTTACAAACCTCAACGTATTAACAAATT
17422254 GAGTTGTCCTT
196 GAGTTGTCCTT
** * * * *
17422265 AACACTTACATAATAGTTATTTATCTTTGATTCCGTAACAAACTTT-GCCTCACAATTCAAGTTT
1 AACACTTACATAATACCTATTTATCTTTGATTCCATAACAAA-TTTCGCCTCAAAATCCAAGATT
* * *
17422329 CAATATTTAAAAATGAAT-TTGAAAAAAAACATAAGACACAAGAACGCCGCTATGAATCACATGG
65 CAATATTTAAAAAAG-ATGTTGAAAAAAAACAAAAGACACAAGAACGCAGCTATGAATCACATGG
* * *
17422393 TAAATTTCCATTTTAAACTCTTAAAAATTTACACTTTATCTT
129 TAAAATTCCATTTTAAACTCTTAAAAATTCACAATTTATCTT
17422435 TCATTCCGTA
Statistics
Matches: 145, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
206 141 0.97
207 4 0.03
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.34
Consensus pattern (206 bp):
AACACTTACATAATACCTATTTATCTTTGATTCCATAACAAATTTCGCCTCAAAATCCAAGATTC
AATATTTAAAAAAGATGTTGAAAAAAAACAAAAGACACAAGAACGCAGCTATGAATCACATGGTA
AAATTCCATTTTAAACTCTTAAAAATTCACAATTTATCTTACAAACCTCAACGTATTAACAAATT
GAGTTGTCCTT
Found at i:17426054 original size:131 final size:139
Alignment explanation
Indices: 17425815--17426353 Score: 431
Period size: 143 Copynumber: 3.9 Consensus size: 139
17425805 TGGACTTCGC
* * *
17425815 CTCAAAATTCAAGTTTCAATATTT-AAAATGAAATTGACAAAAAAAACATAAGAGACAACAACTT
1 CTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTG--AAAAAAATCATAAGACACAACAACTT
* * * * * **
17425879 -TGCTATGA-ATCACATTGTAAATTTCCATTTTAACAACTT-AAAATTTATACTTTCTTTTTCA-
64 CT-CTAT-ACATCACATGGT-AATTTTCATTTTAACCACTTAAAAATTTATACTTTATCTTAAAT
17425940 TTCT-AT-AC-C-T
126 TTCTAATGACTCGT
* * * *
17425950 -T-AAAATTTGAGTTTCAATATTTAAAAATGAAATTG-AAATAATCGTAAGACACAAGAACTTCT
1 CTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAAATCATAAGACACAACAACTTCT
* *
17426012 CTATACATCACATGGTAATTTTCATTTTAACCTCTTAAAAATTTATACTTTATCTTAAATTTTGT
66 CTATACATCACATGGTAATTTTCATTTTAACCACTTAAAAATTTATACTTTATCTTAAA-TTTCT
17426077 AATGGACTTCGT
130 AAT-GAC-TCGT
* * * * * * *
17426089 CTCAAAATTCGAGTTTGAATATTTAAAATTGAAATTGTAAACAATCATAAGACAAAATAACTTCG
1 CTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAAATCATAAGACACAACAACTTCT
* * * * * ** *
17426154 CTATGCATCACAAGGTTATTTTCAATTTTAAGCACTTAAAAATTTATATTTTATCTTTGATTACG
66 CTATACATCACATGGTAATTTTC-ATTTTAACCACTTAAAAATTTATACTTTATCTTAAATTTC-
* *
17426219 TAATGAATTTCGC
129 TAATG-A-CTCGT
* * * * * *
17426232 CTCAAAATTCGAGTTTAAATATTGAAATATAAAATTGAAACAAATCATTAGACACAGA-AAC-TC
1 CTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAAATCATAAGACACA-ACAACTTC
* * * * * * *
17426295 GACTATGCATCATATGGTAAATTTCTATTTTAACCTCTTACAAATTTATATTTTATCTT
65 -TCTATACATCACATGGTAATTTTC-ATTTTAACCACTTAAAAATTTATACTTTATCTT
17426354 TGATTCTGTA
Statistics
Matches: 328, Mismatches: 55, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
130 18 0.05
131 51 0.16
132 1 0.00
133 22 0.07
134 15 0.05
136 2 0.01
138 1 0.00
139 1 0.00
140 1 0.00
141 31 0.09
142 47 0.14
143 137 0.42
144 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (139 bp):
CTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAAATCATAAGACACAACAACTTCT
CTATACATCACATGGTAATTTTCATTTTAACCACTTAAAAATTTATACTTTATCTTAAATTTCTA
ATGACTCGT
Found at i:17426222 original size:143 final size:140
Alignment explanation
Indices: 17425951--17426384 Score: 480
Period size: 143 Copynumber: 3.0 Consensus size: 140
17425941 TCTATACCTT
* * * * * * *
17425951 AAAATTTGAGTTTCAATATTTAAAAATGAAATTGAAATAATCGTAAGACACAAGAACTTCTCTAT
1 AAAATTCGAGTTTAAATATTTAAAATTGAAATTGAAACAATCATAAGACA-AAAAACTTCGCTAT
* * ** **
17426016 ACATCACATGGTAATTTTCATTTTAACCTCTTAAAAATTTATACTTTATCTTAAATTTTGTAATG
65 GCATCACATGGTAATTTTCATTTTAACCTCTTAAAAATTTATATTTTATCTTTGATTACGTAATG
* *
17426081 GACTTCGTCTC
130 AACTTCGCCTC
*
17426092 AAAATTCGAGTTTGAATATTTAAAATTGAAATTGTAAACAATCATAAGACAAAATAACTTCGCTA
1 AAAATTCGAGTTTAAATATTTAAAATTGAAATTG-AAACAATCATAAGACAAAA-AACTTCGCTA
* * * *
17426157 TGCATCACAAGGTTATTTTCAATTTTAAGCACTTAAAAATTTATATTTTATCTTTGATTACGTAA
64 TGCATCACATGGTAATTTTC-ATTTTAACCTCTTAAAAATTTATATTTTATCTTTGATTACGTAA
*
17426222 TGAATTTCGCCTC
128 TGAACTTCGCCTC
* * * *
17426235 AAAATTCGAGTTTAAATA-TTGAAATATAAAATTGAAACAAATCATTAGACACAGAAAC-TCGAC
1 AAAATTCGAGTTTAAATATTTAAAAT-TGAAATTGAAAC-AATCATAAGACA-AAAAACTTCG-C
* * *
17426298 TATGCATCATATGGTAAATTTCTATTTTAACCTCTTACAAATTTATATTTTATCTTTGATT-CTG
62 TATGCATCACATGGTAATTTTC-ATTTTAACCTCTTAAAAATTTATATTTTATCTTTGATTAC-G
*
17426362 TAA-CAAGCTTCGCCTC
125 TAATGAA-CTTCGCCTC
17426378 AAAATTC
1 AAAATTC
17426385 AAATTTTAAC
Statistics
Matches: 249, Mismatches: 35, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
141 33 0.13
142 56 0.22
143 158 0.63
144 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (140 bp):
AAAATTCGAGTTTAAATATTTAAAATTGAAATTGAAACAATCATAAGACAAAAAACTTCGCTATG
CATCACATGGTAATTTTCATTTTAACCTCTTAAAAATTTATATTTTATCTTTGATTACGTAATGA
ACTTCGCCTC
Found at i:17427431 original size:143 final size:143
Alignment explanation
Indices: 17427143--17428053 Score: 676
Period size: 143 Copynumber: 6.5 Consensus size: 143
17427133 ATAATAGCAA
* * * * * *
17427143 TTTATCTTTGATTTTGTAACGGGCTTTGCCTAAAAATACGAATTTCAATATTTAAAAATAAAATT
1 TTTATCTTTGATTCTGTAACAGACTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATAAAATT
* * * * **
17427208 GAAAAAAAATCATAAGACACAAGAACTTCGCTATGAATCACCTTAG-AAATTTCTATTTTAACAA
66 G-AAATAAATCATAAGACACAAGAACTTCGCTATGCATCA-CATAGTAAATTTCAATTTTAACCT
*
17427272 CTTAAAAATATATAC
129 CTTAAAAATTTATAC
* * *
17427287 TTTATCTTTGATTATGTAATAGACTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATT
1 TTTATCTTTGATTCTGTAACAGACTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATAAAATT
* *
17427352 GAAATAAATCATATGACACAAGAACTTCGCTATGCATCACATAGTAAACTTCAATTTTAACCTCT
66 GAAATAAATCATAAGACACAAGAACTTCGCTATGCATCACATAGTAAATTTCAATTTTAACCTCT
17427417 TAAAAATTTATAC
131 TAAAAATTTATAC
* * ** * * *
17427430 TTTATCTTTGACTCGGTAATGGA-TTTCGCCTCAAAATTCGAGTTTGAATATTGAAAAATTAAAT
1 TTTATCTTTGATTCTGTAACAGACTTT-GCCTCAAAATTCGAGTTTCAATATTTAAAAATAAAAT
* * * * *
17427494 TGAAACAAATCATAAGACAAAAGAACTCCGCTATGCATCACAT-GATAAGTTTCCATTTTAACCT
65 TGAAATAAATCATAAGACACAAGAACTTCGCTATGCATCACATAG-TAAATTTCAATTTTAACCT
*
17427558 TTTAAAAATTTATA-
129 CTTAAAAATTTATAC
* ** * ** * * *
17427572 TATTATGTTTGATTCCATAGCAGACTTCACCTCAAAATTCGAGTTTTAATATTTAAAAATCATAT
1 T-TTATCTTTGATTCTGTAACAGACTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATAAAAT
* * ** * * * *
17427637 TAAAAATAAATCATAAAAACACGTGAACTTTGCTTTGTATCAGCTGAATCAGTTAAA---AAAGT
65 T-GAAATAAATCAT-AAGACACAAGAACTTCGCTATGCATCA-C---AT-AG-TAAATTTCAA-T
** *
17427699 TGGCAACC-C-T---AA-GTAT-C
121 T-TTAACCTCTTAAAAATTTATAC
* * * ** * * * *
17427716 -CTA--GTAGATGGTG-AA-A-A-TAT---TC-GAACT-GAGTTTTAATATTTAAAAATAAAATT
1 TTTATCTTTGATTCTGTAACAGACTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATAAAATT
* * * ** * * *
17427769 TAAA-AAAGCATAAGACATAAGAACTTAACTATGTATCACATGGTAAATTTCCATTTTAACCTCT
66 GAAATAAATCATAAGACACAAGAACTTCGCTATGCATCACATAGTAAATTTCAATTTTAACCTCT
*
17427833 TAAAAATATATAC
131 TAAAAATTTATAC
* * * * *
17427846 TTTATCTTTGATTCTGTAACGGACTTCGCCTCAAAATTCGAGTTTGAATATTTAAAAATGAAACT
1 TTTATCTTTGATTCTGTAACAGACTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATAAAATT
* * * * ** **
17427911 GAAACAAATCATAAGATACAAGAACTTTGCTAGGCATCGTAT-GCTAAATTTTTATTTTAACCTC
66 GAAATAAATCATAAGACACAAGAACTTCGCTATGCATCACATAG-TAAATTTCAATTTTAACCTC
17427975 TTAAAAATTTATAC
130 TTAAAAATTTATAC
* * * *
17427989 TTTATCTTTGATTTTGTAACAGA-TATCGCCTTAAAATTCGAGTATT-AACATTTAAAAATAAAA
1 TTTATCTTTGATTCTGTAACAGACT-TTGCCTCAAAATTCGAGT-TTCAATATTTAAAAATAAAA
17428052 TT
64 TT
17428054 AAAGAGAAAT
Statistics
Matches: 601, Mismatches: 124, Indels: 85
0.74 0.15 0.10
Matches are distributed among these distances:
122 4 0.01
123 5 0.01
124 5 0.01
125 2 0.00
127 1 0.00
128 22 0.04
129 9 0.01
130 4 0.01
131 26 0.04
132 3 0.00
133 8 0.01
134 2 0.00
136 2 0.00
137 2 0.00
138 1 0.00
139 1 0.00
140 6 0.01
141 3 0.00
142 39 0.06
143 345 0.57
144 75 0.12
145 21 0.03
146 1 0.00
148 2 0.00
149 4 0.01
150 4 0.01
151 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (143 bp):
TTTATCTTTGATTCTGTAACAGACTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATAAAATT
GAAATAAATCATAAGACACAAGAACTTCGCTATGCATCACATAGTAAATTTCAATTTTAACCTCT
TAAAAATTTATAC
Found at i:17427936 original size:416 final size:416
Alignment explanation
Indices: 17427326--17428148 Score: 1046
Period size: 416 Copynumber: 2.0 Consensus size: 416
17427316 CTCAAAATTC
* * * **
17427326 GAGTTTCAATATTTAAAAATGAAATTGAAATAAATCATATGACACAAGAACTTCGCTATGCATCA
1 GAGTTTCAATATTTAAAAATAAAATTGAAATAAAGCATAAGACACAAGAACTTAACTATGCATCA
* * *
17427391 CATAGTAAACTTCAATTTTAACCTCTTAAAAATTTATACTTTATCTTTGACTCGGTAATGGATTT
66 CATAGTAAACTTCAATTTTAACCTCTTAAAAATATATACTTTATCTTTGACTCGGTAACGGACTT
* *
17427456 CGCCTCAAAATTCGAGTTTGAATATTGAAAAATTAAATTGAAACAAATCATAAGACAAAAGAACT
131 CGCCTCAAAATTCGAGTTTGAATATTGAAAAATGAAACTGAAACAAATCATAAGACAAAAGAACT
* * * *
17427521 CCGCTATGCATCACATGATAAGTTTCCATTTTAACCTTTTAAAAATTTATA-TATTATGTTTGAT
196 CCGCTAGGCATCACATGATAAATTTCCATTTTAACCTCTTAAAAATTTATACT-TTATCTTTGAT
* * * * * *
17427585 TCCATAGCAGACT-TCACCTCAAAATTCGAGTTTTAATATTTAAAAATCATATTAAAAATAAATC
260 TCCATAACAGA-TATCACCTCAAAATTCGAGTATTAACATTTAAAAATAAAATTAAAAAGAAATC
* **
17427649 ATAAAAACACGTGAACTTTGC-TT-TGTAT-CAGCTGAATCAGTTAAAAAAGTTGGCAACCCTAA
324 ATAAAAACACGTGAAC-TT-CATTCTGTATACA-C-GAATCAGTTAAAAAAATAAGCAACCCTAA
*
17427711 GTATCCTAGTAGATGGTGAAAATATTCGAACT
385 GTATCCAAGTAGATGGTGAAAATATTCGAACT
* * * *
17427743 GAGTTTTAATATTTAAAAATAAAATTTAAA-AAAGCATAAGACATAAGAACTTAACTATGTATCA
1 GAGTTTCAATATTTAAAAATAAAATTGAAATAAAGCATAAGACACAAGAACTTAACTATGCATCA
* * * * *
17427807 CATGGTAAATTTCCATTTTAACCTCTTAAAAATATATACTTTATCTTTGATTCTGTAACGGACTT
66 CATAGTAAACTTCAATTTTAACCTCTTAAAAATATATACTTTATCTTTGACTCGGTAACGGACTT
* * *
17427872 CGCCTCAAAATTCGAGTTTGAATATTTAAAAATGAAACTGAAACAAATCATAAGATACAAGAACT
131 CGCCTCAAAATTCGAGTTTGAATATTGAAAAATGAAACTGAAACAAATCATAAGACAAAAGAACT
** ** * **
17427937 TTGCTAGGCATCGTATGCTAAATTTTTATTTTAACCTCTTAAAAATTTATACTTTATCTTTGATT
196 CCGCTAGGCATCACATGATAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTATCTTTGATT
*** * * * *
17428002 TTGTAACAGATATCGCCTTAAAATTCGAGTATTAACATTTAAAAATAAAATTAAAGAGAAATCGT
261 CCATAACAGATATCACCTCAAAATTCGAGTATTAACATTTAAAAATAAAATTAAAAAGAAATCAT
* * **
17428067 AGAAACACTTGAACTTCATTCTGTATAACACGAATTTGTTAAAAAAATAAGCAACCCTAAGTATC
326 AAAAACACGTGAACTTCATTCTGTAT-ACACGAATCAGTTAAAAAAATAAGCAACCCTAAGTATC
*
17428132 CAAGTGGATGGTGAAAA
390 CAAGTAGATGGTGAAAA
17428149 GATTGAAAAT
Statistics
Matches: 345, Mismatches: 55, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
414 1 0.00
415 5 0.01
416 308 0.89
417 29 0.08
418 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (416 bp):
GAGTTTCAATATTTAAAAATAAAATTGAAATAAAGCATAAGACACAAGAACTTAACTATGCATCA
CATAGTAAACTTCAATTTTAACCTCTTAAAAATATATACTTTATCTTTGACTCGGTAACGGACTT
CGCCTCAAAATTCGAGTTTGAATATTGAAAAATGAAACTGAAACAAATCATAAGACAAAAGAACT
CCGCTAGGCATCACATGATAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTATCTTTGATT
CCATAACAGATATCACCTCAAAATTCGAGTATTAACATTTAAAAATAAAATTAAAAAGAAATCAT
AAAAACACGTGAACTTCATTCTGTATACACGAATCAGTTAAAAAAATAAGCAACCCTAAGTATCC
AAGTAGATGGTGAAAATATTCGAACT
Found at i:17428629 original size:142 final size:141
Alignment explanation
Indices: 17428297--17428656 Score: 393
Period size: 142 Copynumber: 2.6 Consensus size: 141
17428287 ATAATAGCTA
* * * * * * *
17428297 TTTATCTTTGATTTCGTAACGAATTTCGCCTCAAAATTCGAATTTCAATATTTAAAATTG-AATT
1 TTTATCCTTGATTCCGTAAAGAACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATT
* * * * *
17428361 TAAAAAAATCATGAGACACAAGAACTTCGCTATGCCACATGGTAAATTTCCATTTTGAACTTTTA
66 AAAAAAAATCATAAGACACAAGAACTCCGCTATGCCACATAGTAAATTTCCATTTTGAACCTTTA
*
17428426 AAAAGTAATAT
131 AAAAGTAATAC
* * * * *
17428437 TTTATCCTTGATTTCGTAATGAATTTCACCTCAAAATTCGAGTTTGAATATTTAAAACTGAAATT
1 TTTATCCTTGATTCCGTAAAGAACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATT
* * * *
17428502 GAAACAAATCATAAGACACAAGAACTCCGCTATGTATCACATAGTAAATTTTCATTTT-AACCTT
66 AAAAAAAATCATAAGACACAAGAACTCCGCTATG--CCACATAGTAAATTTCCATTTTGAACCTT
* * *
17428566 TGAAAATTTATAC
129 TAAAAAGTAATAC
* * ** * *
17428579 TTTATCTTTTATTCCGTAACAG-ACTTCATTTCAAAATTCGAGTTTTAATATTTAAAAATAAAAT
1 TTTATCCTTGATTCCGTAA-AGAACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAAT
17428643 TAAAAAAAATCATA
65 TAAAAAAAATCATA
17428657 GAAACATGTA
Statistics
Matches: 186, Mismatches: 30, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
140 54 0.29
141 34 0.18
142 78 0.42
143 20 0.11
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (141 bp):
TTTATCCTTGATTCCGTAAAGAACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATT
AAAAAAAATCATAAGACACAAGAACTCCGCTATGCCACATAGTAAATTTCCATTTTGAACCTTTA
AAAAGTAATAC
Found at i:17429047 original size:55 final size:55
Alignment explanation
Indices: 17428960--17429068 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 55
17428950 CTAAAAATTT
**
17428960 GAGTTTCAATATTTTAATAATGAAATTGAAAAAAATCATAAGACATTAGAACTTC
1 GAGTTTCAATATTTTAATAATGAAATTGAAAAAAATCATAAGACACAAGAACTTC
* * *
17429015 GAGTTTTAATA-TTTAA-AATTGTAATTGAAAAAAATCATTAGACACAAGAACTTC
1 GAGTTTCAATATTTTAATAA-TGAAATTGAAAAAAATCATAAGACACAAGAACTTC
17429069 ACTATGCTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 2 0.04
54 36 0.75
55 10 0.21
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (55 bp):
GAGTTTCAATATTTTAATAATGAAATTGAAAAAAATCATAAGACACAAGAACTTC
Found at i:17429315 original size:142 final size:140
Alignment explanation
Indices: 17429044--17429330 Score: 360
Period size: 142 Copynumber: 2.0 Consensus size: 140
17429034 TGTAATTGAA
* * *
17429044 AAAAATCATTAGACACAAGAACTTCACTATGCTTCACATGATAAATTCCCATTTTAAACTCTTGA
1 AAAAATCATAAGACACAAGAACTTCACTATGCATCACATGATAAATTCCCATTTTAAACTCTTAA
* * * *
17429109 AAATTTATATTTTATCCTTGATTCCGTAACGGATTTTGCCTCAAAATTCAAGTTTGAATCTTTAA
66 AAATTTATATTTTATCCTTGATTCCGTAACAGACTTCGCCTCAAAATTCAAGTTTGAATATTTAA
17429174 AAATGAAAATGT
131 AAAT-AAAAT-T
* * * * * ** *
17429186 AAAAATCATAAGACACAAGAACTTCGCTCTTCATCACCTGGTAAATTTTCATTTTAACCTCTTAA
1 AAAAATCATAAGACACAAGAACTTCACTATGCATCACATGATAAATTCCCATTTTAAACTCTTAA
* * * * *
17429251 AAATTTATATTTTCTCTTTGATTCCGTAACAGACTTCGCCTCAAAATTTGAA-TTTTACTATTTA
66 AAATTTATATTTTATCCTTGATTCCGTAACAGACTTCGCCTCAAAA-TTCAAGTTTGAATATTTA
17429315 AAAATAAAATT
130 AAAATAAAATT
17429326 AAAAA
1 AAAAA
17429331 GAAATCATAA
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
140 6 0.05
141 5 0.04
142 109 0.88
143 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.36
Consensus pattern (140 bp):
AAAAATCATAAGACACAAGAACTTCACTATGCATCACATGATAAATTCCCATTTTAAACTCTTAA
AAATTTATATTTTATCCTTGATTCCGTAACAGACTTCGCCTCAAAATTCAAGTTTGAATATTTAA
AAATAAAATT
Found at i:17429945 original size:133 final size:133
Alignment explanation
Indices: 17429706--17429973 Score: 328
Period size: 133 Copynumber: 2.0 Consensus size: 133
17429696 TCGCTCTGAA
* * * *
17429706 TCACATGGTAAATTTCTATTTTAACGACTTAAAAATTTATACTTTCTCTTTGATTCTATACTAGA
1 TCACATGGTAAATTTCAATTTTAACAACTTAAAAATATATACTTTATCTTTGATTCTATACTAGA
* * * * * *
17429771 CTTTGCCTCAAAATTCGAGTTTAAATATTTTAAAATAAAATTTTAAAAAATCAT-TAGACATAAG
66 CTTTGCCTCAAAATTCGAGCTTAAACATTTAAAAATAAAATTGTAAAAAATC-TCAAGACACAAG
17429835 AACT
130 AACT
* *
17429839 TCACATGGTAAATTTCAATTTTAACAACTTAAAAATATATACTTTATCTTTGATTCTGTGAC-GG
1 TCACATGGTAAATTTCAATTTTAACAACTTAAAAATATATACTTTATCTTTGATTCTAT-ACTAG
* * * *
17429903 GCTTTTCC-CAAAAATAT-GAGCTTCAACATTTAAAAATGAAATTGTAAAAAATCTCAAGACACA
65 ACTTTGCCTC-AAAAT-TCGAGCTTAAACATTTAAAAATAAAATTGTAAAAAATCTCAAGACACA
17429966 AGAACT
128 AGAACT
17429972 TC
1 TC
17429974 GCTATGCTTC
Statistics
Matches: 115, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
132 2 0.02
133 110 0.96
134 3 0.03
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.37
Consensus pattern (133 bp):
TCACATGGTAAATTTCAATTTTAACAACTTAAAAATATATACTTTATCTTTGATTCTATACTAGA
CTTTGCCTCAAAATTCGAGCTTAAACATTTAAAAATAAAATTGTAAAAAATCTCAAGACACAAGA
ACT
Found at i:17431440 original size:40 final size:40
Alignment explanation
Indices: 17431272--17431428 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 40
17431262 GTGAATATTT
* * *
17431272 ACTGAACTGGCAGTGATATTGTAAACACTGTAAGATTACA
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAAGATTACA
*
17431312 ACTGAACTGGCAGTGACACTGAAAACACTGCAAGATTACA
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAAGATTACA
* * *
17431352 ACTGAACTGGCAGTGACACTATAAACACTGCAATATTAAA
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAAGATTACA
* * *
17431392 ATTGAACTGGTAGTGACACTGTAAATACTGCAAGATT
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAAGATT
17431429 TTTATTGAAC
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (40 bp):
ACTGAACTGGCAGTGACACTGTAAACACTGCAAGATTACA
Found at i:17437976 original size:9 final size:9
Alignment explanation
Indices: 17437945--17437970 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
17437935 ATTTCCATGA
17437945 ATTAATATT
1 ATTAATATT
17437954 ATTAATATT
1 ATTAATATT
17437963 ATTAATAT
1 ATTAATAT
17437971 AGTTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTAATATT
Found at i:17443165 original size:10 final size:10
Alignment explanation
Indices: 17443152--17443182 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
17443142 TATTTTCTCT
*
17443152 TTTCTTCTTC
1 TTTCTTTTTC
17443162 TTTCTTTTTC
1 TTTCTTTTTC
17443172 TTTCTTTTTC
1 TTTCTTTTTC
17443182 T
1 T
17443183 AATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:17443165 original size:17 final size:16
Alignment explanation
Indices: 17443144--17443182 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
17443134 AATTCTTTTA
17443144 TTTTCTCTTTTC-TTCT
1 TTTTCT-TTTTCTTTCT
17443160 TCTTTCTTTTTCTTTCT
1 T-TTTCTTTTTCTTTCT
17443177 TTTTCT
1 TTTTCT
17443183 AATTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTCTTTTTCTTTCT
Found at i:17452058 original size:47 final size:47
Alignment explanation
Indices: 17451992--17452081 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 47
17451982 TTTATTATTT
17451992 TTTACAAATATAATACAAAA-ATAATAATTAAAGACCAAAATGAGTTA
1 TTTACAAATATAATACAAAATA-AATAATTAAAGACCAAAATGAGTTA
* * * *
17452039 TTTACTAAA-ATAGTACAAAATAAATATTTATATACCAAAATGA
1 TTTAC-AAATATAATACAAAATAAATAATTAAAGACCAAAATGA
17452082 TATCCACACA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
47 33 0.89
48 4 0.11
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.30
Consensus pattern (47 bp):
TTTACAAATATAATACAAAATAAATAATTAAAGACCAAAATGAGTTA
Found at i:17452246 original size:5 final size:5
Alignment explanation
Indices: 17452232--17452270 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
17452222 ACTAACAAAA
* *
17452232 TAAAT AAAAT TAAAT TAAAT AAAAT TAAAT TAAAT TAAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
17452271 AATAACTGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (5 bp):
TAAAT
Found at i:17452252 original size:15 final size:15
Alignment explanation
Indices: 17452232--17452271 Score: 71
Period size: 15 Copynumber: 2.6 Consensus size: 15
17452222 ACTAACAAAA
17452232 TAAATAAAATTAAAT
1 TAAATAAAATTAAAT
17452247 TAAATAAAATTAAAT
1 TAAATAAAATTAAAT
17452262 TAAATTAAAA
1 TAAA-TAAAA
17452272 ATAACTGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAATAAAATTAAAT
Found at i:17453982 original size:143 final size:142
Alignment explanation
Indices: 17453460--17454017 Score: 733
Period size: 142 Copynumber: 3.9 Consensus size: 142
17453450 TCAACGGACG
* * *
17453460 TCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAATTTGAAAAAAATCATAAGACATAAGAAT
1 TCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTG-AAAAAATCATAAGACACAAGAAC
* * * * *
17453525 TTCGCTATGAATCACATGGTAAATTTCTATTTTAACCACTTAAAAATTTATACTTTCTCTTTGAT
65 TTCACTATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTATCTTTGAT
17453590 TCTGTAA-GAAACT
130 TCTGTAATG-AACT
* * * *
17453603 TCGCCTCAAAATCCGAGTTTCAAAATTTAAAAATGGAATTGAAAAAATCATAAGACAGAAGAACT
1 TCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAATCATAAGACACAAGAACT
* **
17453668 TCACTATGCATCACATGGTAAATTTCCATTTTAACCTTTTAAAAATTTATACTTTATCTTAAATT
66 TCACTATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTATCTTTGATT
*
17453733 CTGTAATGGACT
131 CTGTAATGAACT
* *
17453745 TCGCCTCAAAATTCGAGTTTCAATTTTTAAAAATGAAATTGTAAAAATCATAAGACACAAGAACT
1 TCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAATCATAAGACACAAGAACT
* * * * * * * *
17453810 TCGCTATGCGTCACATGATAAATTTCCATTTGAAACTCTTTAAAGTTTATATTTTATCTTTGATT
66 TCACTATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTATCTTTGATT
** *
17453875 CCATAATGAATT
131 CTGTAATGAACT
* * * * *
17453887 TTGCCTCAAAATTCGAGTTTGAATATTTAAAAGTAAAATTGAAACAAATCATAAGACACAATAAC
1 TCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAA-AAATCATAAGACACAAGAAC
* * * *
17453952 TTTACTATGCATCACATGGCAAATTTCCA-TTTAACCTCTTAAAAGTTTATATTTTATCTTTGAT
65 TTCACTATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTATCTTTGAT
17454016 TC
130 TC
17454018 GTATTTTTAT
Statistics
Matches: 362, Mismatches: 51, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
142 281 0.78
143 81 0.22
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (142 bp):
TCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAATCATAAGACACAAGAACT
TCACTATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTATCTTTGATT
CTGTAATGAACT
Found at i:17460207 original size:21 final size:21
Alignment explanation
Indices: 17460183--17460235 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
17460173 ACTGTTATAC
*
17460183 AGGTATCGATAATTTTA-AAGG
1 AGGTATCGATAATTTCACAA-G
* *
17460204 AGGTATCAATAGTTTCACAAG
1 AGGTATCGATAATTTCACAAG
17460225 AGGTATCGATA
1 AGGTATCGATA
17460236 CAATTTGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (21 bp):
AGGTATCGATAATTTCACAAG
Found at i:17463075 original size:19 final size:19
Alignment explanation
Indices: 17463051--17463087 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17463041 TAGTAAAATA
*
17463051 AAATAATATTAATAATAAT
1 AAATAATAATAATAATAAT
*
17463070 AAATAATAATGATAATAA
1 AAATAATAATAATAATAA
17463088 ATCGTTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATAATAATAATAATAAT
Found at i:17463079 original size:16 final size:16
Alignment explanation
Indices: 17463047--17463089 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
17463037 TTCTTAGTAA
*
17463047 AATAA-AAT-AATATT
1 AATAATAATAAATAAT
17463061 AATAATAATAAATAAT
1 AATAATAATAAATAAT
*
17463077 AATGATAATAAAT
1 AATAATAATAAAT
17463090 CGTTGGTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.20
15 3 0.12
16 17 0.68
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:17465140 original size:30 final size:30
Alignment explanation
Indices: 17465070--17465178 Score: 98
Period size: 30 Copynumber: 3.7 Consensus size: 30
17465060 AATTTCAAAG
* *
17465070 TTTTA-TAAATGTTTG-GGGCATTATTGTAG
1 TTTTACTAAA-GTTTGAGGGCTTTATTGTAA
* * *
17465099 TTTTTCCAAAGTTTGAGGGCTTTATTGCAA
1 TTTTACTAAAGTTTGAGGGCTTTATTGTAA
** * * *
17465129 TTTTACTAAAGTTTGAGGGAGTTACTATTA
1 TTTTACTAAAGTTTGAGGGCTTTATTGTAA
17465159 TTTTACTAAAG-TTGAGGGCT
1 TTTTACTAAAGTTTGAGGGCT
17465179 AATGGGAAAA
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
29 16 0.25
30 47 0.75
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (30 bp):
TTTTACTAAAGTTTGAGGGCTTTATTGTAA
Found at i:17465507 original size:16 final size:16
Alignment explanation
Indices: 17465486--17465516 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17465476 ACCCCTATAT
17465486 TTAAATTGAAATAAAA
1 TTAAATTGAAATAAAA
17465502 TTAAATTGAAATAAA
1 TTAAATTGAAATAAA
17465517 TCATAAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
TTAAATTGAAATAAAA
Found at i:17465890 original size:143 final size:141
Alignment explanation
Indices: 17465498--17466020 Score: 493
Period size: 141 Copynumber: 3.7 Consensus size: 141
17465488 AAATTGAAAT
* * * * * * *
17465498 AAAATTAAATTG-AAATAAATCATAAGATAGAACAACTTCACTATGAATCACATGGTAAATTTCC
1 AAAATGAAATTGTAAA-AAATCATAAGACACAAGAACCT-ACTATGCATCACATGGTAAATTTCA
* * ** * ** *
17465562 ATTTTAAACACTTAAATGCTTT-TACTTTATCTTTCT-TTTGTAACAGACTTTGCCTTAAAATTC
64 ATTTTAACCTCTTAAA-AATTTATACTTTATCTTT-TATTTGTAACGGACTTCACCTCAAAATTC
17465625 AAGTTTCAATATTTA
127 AAGTTTCAATATTTA
* * * * *
17465640 AAGATGAAATTG-AAAAAATCATAAGATATAAGAACTTCACAATGCATCACATGGTAAATTTTC-
1 AAAATGAAATTGTAAAAAATCATAAGACACAAGAACCT-ACTATGCATCACATGGTAAA-TTTCA
* * ** *
17465703 ATTTTAACCTCTTAAAAATTTATGCATTATCTTAAATTATGTAACGGACTTCACCTCAAAATTCT
64 ATTTTAACCTCTTAAAAATTTATACTTTATCTTTTATT-TGTAACGGACTTCACCTCAAAATTCA
**
17465768 AGTTTCAACGTTTA
128 AGTTTCAATATTTA
* * * * *
17465782 AAAATTAAATTGTAAAAAATCAAAAGACACAAGAACCTAGCTATGCAACATATGTTAAATTTCAA
1 AAAATGAAATTGTAAAAAATCATAAGACACAAGAACCTA-CTATGCATCACATGGTAAATTTCAA
* * * * * * * *
17465847 GTTCAAACTCTTAAAATTTTATATTTTATCTTTTATTTCGTAACGTATTTCACGTCAAAATTCAA
65 TTTTAACCTCTTAAAAATTTATACTTTATCTTTTATTT-GTAACGGACTTCACCTCAAAATTCAA
* *
17465912 GGTTGAATATTTA
129 GTTTCAATATTTA
* *
17465925 GAAATGAAA-T-TAAAAAATCATAAGACACAAGAACTCTTCTATGCATCACATGGTAAATTTCAA
1 AAAATGAAATTGTAAAAAATCATAAGACACAAGAAC-CTACTATGCATCACATGGTAAATTTCAA
* *
17465988 TTTTAACCTCTTAAAAGTGTATACTTTATCTTT
65 TTTTAACCTCTTAAAAATTTATACTTTATCTTT
17466021 GATTCGACTT
Statistics
Matches: 311, Mismatches: 61, Indels: 19
0.80 0.16 0.05
Matches are distributed among these distances:
140 3 0.01
141 136 0.44
142 69 0.22
143 103 0.33
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (141 bp):
AAAATGAAATTGTAAAAAATCATAAGACACAAGAACCTACTATGCATCACATGGTAAATTTCAAT
TTTAACCTCTTAAAAATTTATACTTTATCTTTTATTTGTAACGGACTTCACCTCAAAATTCAAGT
TTCAATATTTA
Found at i:17469060 original size:29 final size:29
Alignment explanation
Indices: 17469004--17469062 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
17468994 TCGTGGAAAA
* * * *
17469004 GCTGGAGAACTTGTTCGTTGAGAGTTCGT
1 GCTGAAGAACTTGTTCATTAAGAATTCGT
*
17469033 GCTGAAGAACTTGTTTATTAAGAATTCGT
1 GCTGAAGAACTTGTTCATTAAGAATTCGT
17469062 G
1 G
17469063 TTAAGGTAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.36
Consensus pattern (29 bp):
GCTGAAGAACTTGTTCATTAAGAATTCGT
Found at i:17469211 original size:49 final size:49
Alignment explanation
Indices: 17469154--17469250 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
17469144 TTCATATAGA
* * *
17469154 ACTACACTTCTTTTATTTTATTTTAATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCTTTTATTTGACTTTAATTAGAATAAGATTTTTCAACCTT
*
17469203 ACTACACTTCTTTTATTTGACTTTGATTAGAATAAGATTTTTCAACCT
1 ACTACACTTCTTTTATTTGACTTTAATTAGAATAAGATTTTTCAACCT
17469251 ATAAATAGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.48
Consensus pattern (49 bp):
ACTACACTTCTTTTATTTGACTTTAATTAGAATAAGATTTTTCAACCTT
Found at i:17470747 original size:134 final size:126
Alignment explanation
Indices: 17470489--17470748 Score: 322
Period size: 126 Copynumber: 2.0 Consensus size: 126
17470479 TCTAAATCGG
* *
17470489 TTTGGGGAAAAGTTGTTCACGGATGGGTAATACCAATTTTGGGTTCATTCCCACCTAAATGAGGT
1 TTTGGGAAAAAGTTGTTCACGGATGAGTAATACCAATTTTGGGTTCATTCCCACCTAAATGAGGT
* * ** *
17470554 TGTCAGGCCTAGTGTTTGTTTGATATTCTTCCTTTCCCAAACGATGGCTCACGGGGTTGAC
66 TGTCAGGCCTAGTGTTTGTTTAATATTCTTCCTTTCCCAAAAGACAGCTCACGAGGTTGAC
* * *
17470615 TTTGGGAAAAAGTTGTTCTCGGATGAGTAATATCAATTTTGGGTTCATTCCCAGCTAAATGACAT
1 TTTGGGAAAAAGTTGTTCACGGATGAGTAATACCAATTTTGGGTTCATTCCCACCTAAATG----
* * * *
17470680 TCTAATGTTGTTAGGCCTAGTGTTTGTTTAATGTTCTTCCTTTCCCAAAAGGCAGCTCACGAGGT
62 ----AGGTTGTCAGGCCTAGTGTTTGTTTAATATTCTTCCTTTCCCAAAAGACAGCTCACGAGGT
17470745 TGAC
123 TGAC
17470749 ACGCGTCTGG
Statistics
Matches: 112, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
126 56 0.50
134 56 0.50
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (126 bp):
TTTGGGAAAAAGTTGTTCACGGATGAGTAATACCAATTTTGGGTTCATTCCCACCTAAATGAGGT
TGTCAGGCCTAGTGTTTGTTTAATATTCTTCCTTTCCCAAAAGACAGCTCACGAGGTTGAC
Found at i:17470888 original size:31 final size:32
Alignment explanation
Indices: 17470822--17470894 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 32
17470812 CCCCGTTTCC
* *
17470822 TTTTCTATTTTTATTTTTTACTTAAAACTATA
1 TTTTTTATTTTTATTTTTTACTTAAAACTAAA
* **
17470854 -TTTTTATTTTTA-TTTTTATTTAACCCTAAAA
1 TTTTTTATTTTTATTTTTTACTTAAAACT-AAA
17470885 TTTTTTATTT
1 TTTTTTATTT
17470895 CCTTTTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
30 12 0.35
31 13 0.38
32 9 0.26
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (32 bp):
TTTTTTATTTTTATTTTTTACTTAAAACTAAA
Found at i:17471046 original size:29 final size:30
Alignment explanation
Indices: 17470959--17471056 Score: 96
Period size: 29 Copynumber: 3.3 Consensus size: 30
17470949 CTCATTTTTC
* *
17470959 AAATTAAATCCTTTTATTTTTATTCTTTTTAA
1 AAATTTAATCCTTTT-TTTCTATT-TTTTTAA
17470991 AAATTT--TCCCTTTTTATTCTA-TTTTTTAA
1 AAATTTAAT-CCTTTTT-TTCTATTTTTTTAA
*
17471020 AAATTTAATCC-TTTTTTCTATTTTTTTTA
1 AAATTTAATCCTTTTTTTCTATTTTTTTAA
*
17471049 TAATTTAA
1 AAATTTAA
17471057 ATTTGATTGT
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
28 5 0.09
29 31 0.54
30 5 0.09
31 11 0.19
32 5 0.09
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (30 bp):
AAATTTAATCCTTTTTTTCTATTTTTTTAA
Found at i:17482248 original size:143 final size:143
Alignment explanation
Indices: 17482013--17482347 Score: 451
Period size: 143 Copynumber: 2.3 Consensus size: 143
17482003 AATTTACTGT
* * * *
17482013 AACAAATTTCGCCTCAAAATTCGAGTTTCAATATTTTAAAATGAAATTAGAAAAATTATAAGACA
1 AACAGATTTCGCCTCAAAATTAGAGTTTCAATATTTAAAAATGAAATTAGAAAAATCATAAGACA
*
17482078 CAAGAACTTCGCTATGCATCACATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATA-TTTTA
66 CAAGAACTCCGCTATGCATCACATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATACTTTTA
*
17482142 TCTTTGATTCCCT
131 TCTTTGATTCCCA
* **
17482155 AACGGATTTCGCCTCAAAATTAGAGTTTCAATATTTAAAAATTCAATT-GAAATAAATCATAAGA
1 AACAGATTTCGCCTCAAAATTAGAGTTTCAATATTTAAAAATGAAATTAG-AA-AAATCATAAGA
* * *
17482219 CACAAGAACTCCTCTATGCATCACGTGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTT
64 CACAAGAACTCCGCTATGCATCACATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATACTTT
* *
17482284 TATCTTTGATTTCGA
129 TATCTTTGATTCCCA
* * * * *
17482299 AACAGACTTCACCTCAAAATTTGAGTTTTC-ATATTTAAAGATAAAATTA
1 AACAGATTTCGCCTCAAAATTAGAG-TTTCAATATTTAAAAATGAAATTA
17482348 AAATGGAATC
Statistics
Matches: 167, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
141 1 0.01
142 44 0.26
143 67 0.40
144 51 0.31
145 4 0.02
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (143 bp):
AACAGATTTCGCCTCAAAATTAGAGTTTCAATATTTAAAAATGAAATTAGAAAAATCATAAGACA
CAAGAACTCCGCTATGCATCACATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATACTTTTA
TCTTTGATTCCCA
Found at i:17482889 original size:143 final size:141
Alignment explanation
Indices: 17482627--17483134 Score: 572
Period size: 143 Copynumber: 3.6 Consensus size: 141
17482617 ACATAATAGC
* * * *** *
17482627 TATTTATCTTTGATTGCGTAACGGATTTCGTTTCAAAATTCAAGTTTCAATATTTTAAAATGAAA
1 TATTTATCTTTGATTCCGTAACAGACTTCACCTCAAAATTCAAGTTTCAATATTTAAAAATGAAA
* *
17482692 TTGAAAAAAATCATAAGACACAAGAACTTCGCTATGAATCACATGGTAAATTTCCATTTTAACCA
66 TTG-AAAAAATCATAAGACACAAGAACTTCGCTATGCATCACATGGTAATTTTCCATTTTAACCA
*
17482757 CTAAAAAATTTA
130 CTTAAAAATTTA
* * * * *
17482769 TATATTATCTTAGAATCCGAAACATACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAA
1 TAT-TTATCTTTGATTCCGTAACAGACTTCACCTCAAAATTCAAGTTTCAATATTTAAAAATGAA
* * * *
17482834 ATTGAAGAAAATCATAATACACAAAAACTTCGTTATGCATCACATGGTAATTTTCCATTTTAA-A
65 ATTGAA-AAAATCATAAGACACAAGAACTTCGCTATGCATCACATGGTAATTTTCCATTTTAACC
17482898 ATCTTAAAAATTTA
129 A-CTTAAAAATTTA
* * * * * * *
17482912 CATTTTATCTTTGATTCCCTAACGGAATTCGCCTCAAAATTCAAGTTTGAATATTTAAAAATTAA
1 TA-TTTATCTTTGATTCCGTAACAGACTTCACCTCAAAATTCAAGTTTCAATATTTAAAAATGAA
* * * *
17482977 ATTGAAACAAATCATAGGACATAAGAACTCCGCTATGCAACACATGGTTAATTTT-CATTTTAAC
65 ATTGAAA-AAATCATAAGACACAAGAACTTCGCTATGCATCACATGG-TAATTTTCCATTTTAAC
*
17483041 CTCTTAAAAATTTA
128 CACTTAAAAATTTA
* * * * ** *
17483055 TACTTTAACTTTGATTTCGTAACAGACTTCACCTCAAAATTCGAGTTTTAATACCTAAAAATAAA
1 TA-TTTATCTTTGATTCCGTAACAGACTTCACCTCAAAATTCAAGTTTCAATATTTAAAAATGAA
*
17483120 ATT-AAAATATCATAA
65 ATTGAAAAAATCATAA
17483135 AAATACGTAA
Statistics
Matches: 304, Mismatches: 55, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
141 7 0.02
142 10 0.03
143 279 0.92
144 8 0.03
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.35
Consensus pattern (141 bp):
TATTTATCTTTGATTCCGTAACAGACTTCACCTCAAAATTCAAGTTTCAATATTTAAAAATGAAA
TTGAAAAAATCATAAGACACAAGAACTTCGCTATGCATCACATGGTAATTTTCCATTTTAACCAC
TTAAAAATTTA
Found at i:17483670 original size:142 final size:140
Alignment explanation
Indices: 17483327--17483802 Score: 491
Period size: 142 Copynumber: 3.4 Consensus size: 140
17483317 CACTTAATTC
* ** * *
17483327 CGTAACATACTTTC-CCTCAAAATTTAAGTTTTAATATTTCAAAA-AAATTGAAAAATATCATAA
1 CGTAACAGAC-TTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATAAATTGAAAAA-ATCATAA
* * ** * * *
17483390 CACAGAAGAACTTCTTTAAGAATCACATGGTAAATTTCCATTTTAACCAT-TTAAAA---AAATT
64 GACAAAAGAACTTCGCTATGCATCACATGGTAAATTTCCATTTTAACC-TCTTAAAATTTATATT
*
17483451 ATT-T-TTTTATTT
128 -TTATCTTTGATTT
* * * * * *
17483463 TGTAATAGACTTCACTTAAAAATTTGAGTTTCAATATTTAAAAATGAAATTGAAAAAAATCATAA
1 CGTAACAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAAT-AAATTG-AAAAAATCATAA
*
17483528 GACAAAAGAACTTCGCTATGCATCACATGGTAAATTTCCATTTTAAACTCTTAAAATTTATATTT
64 GACAAAAGAACTTCGCTATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAATTTATATTT
17483593 TATCTTTGATTT
129 TATCTTTGATTT
* * *
17483605 CGTAACGGATTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAACAAATCATAA
1 CGTAACAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAAT-AAATTGAAA-AAATCATAA
* * *** *
17483670 GACACAAGAACTCCGCTATGCATCACACACTAAATTTCCATTTTAACCTCTTACAAATTTATACT
64 GACAAAAGAACTTCGCTATGCATCACATGGTAAATTTCCATTTTAACCTCTTA-AAATTTATATT
*
17483735 TTATCTTTGATTC
128 TTATCTTTGATTT
* * * * * *
17483748 CATAACAGACTTCGCCTCAAAATTCCAATTTTAGTATTTAAAAATAAAATGAAAA
1 CGTAACAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATAAATTGAAAA
17483803 TGAAATCATA
Statistics
Matches: 285, Mismatches: 43, Indels: 19
0.82 0.12 0.05
Matches are distributed among these distances:
135 3 0.01
136 32 0.11
137 1 0.00
138 60 0.21
139 5 0.02
140 2 0.01
141 9 0.03
142 114 0.40
143 59 0.21
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.36
Consensus pattern (140 bp):
CGTAACAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATAAATTGAAAAAATCATAAGA
CAAAAGAACTTCGCTATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAATTTATATTTTA
TCTTTGATTT
Found at i:17485994 original size:15 final size:16
Alignment explanation
Indices: 17485972--17486016 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
17485962 ATATGAAGCG
*
17485972 ATATAATAAGCAGATA
1 ATATAATATGCAGATA
*
17485988 A-ATAATATGC-GAAA
1 ATATAATATGCAGATA
17486002 ATATAATATGCAGAT
1 ATATAATATGCAGAT
17486017 GCAAATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 4 0.17
15 17 0.71
16 3 0.12
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (16 bp):
ATATAATATGCAGATA
Found at i:17486251 original size:30 final size:30
Alignment explanation
Indices: 17486215--17486276 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
17486205 AAAAAAATTA
* *
17486215 CCAAAACTTTTCTAAAATTACATTTTGACC
1 CCAAAACTTTTCCAAAATTACATTTTAACC
*
17486245 CCAAAACTTTTCCAATATTACATTTTAACC
1 CCAAAACTTTTCCAAAATTACATTTTAACC
17486275 CC
1 CC
17486277 GATTTTGCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.35
Consensus pattern (30 bp):
CCAAAACTTTTCCAAAATTACATTTTAACC
Found at i:17486300 original size:60 final size:59
Alignment explanation
Indices: 17486228--17486361 Score: 139
Period size: 60 Copynumber: 2.2 Consensus size: 59
17486218 AAACTTTTCT
17486228 AAAATTACATTTTG-ACCCCAAAACTTTTCCAATA-TTACA-TTTTAACCCCGATTTTGCC
1 AAAATTACATTTTGTACCCCAAAAC-TTTCCAA-AGTTACATTTTTAACCCCGATTTTGCC
* * * * ** *
17486286 AAAATTTATCATTTTGTCCCCCCAAACTTTCCAAAGTTCCATTTTTATCCCCGATTTCACA
1 AAAA-TTA-CATTTTGTACCCCAAAACTTTCCAAAGTTACATTTTTAACCCCGATTTTGCC
17486347 AAAATTACTATTTTG
1 AAAATTAC-ATTTTG
17486362 CCCCCGGGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
58 4 0.06
59 5 0.08
60 27 0.43
61 27 0.43
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.38
Consensus pattern (59 bp):
AAAATTACATTTTGTACCCCAAAACTTTCCAAAGTTACATTTTTAACCCCGATTTTGCC
Found at i:17486486 original size:30 final size:30
Alignment explanation
Indices: 17486428--17486487 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17486418 CTCACCAATA
*
17486428 TTCGCATTTATTTGCATCTGCATCTTATATT
1 TTCGCATTTATTT-CATCTGCATATTATATT
*
17486459 TTCGCATATTATTT-ATCTGCTTATTATAT
1 TTCGCAT-TTATTTCATCTGCATATTATAT
17486488 CGCTTCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 13 0.50
31 7 0.27
32 6 0.23
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.53
Consensus pattern (30 bp):
TTCGCATTTATTTCATCTGCATATTATATT
Found at i:17490651 original size:144 final size:144
Alignment explanation
Indices: 17490101--17490749 Score: 741
Period size: 143 Copynumber: 4.6 Consensus size: 144
17490091 ATAATAGCTA
* * **
17490101 TTTATCTTTTATTCCGTAATGGACTTCATCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATT
1 TTTATCTTTGATTCCGTAATAGACTTCGCCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATT
* * * * * * *
17490166 G-AAAAAAATTATAAGACACAAAAACTTCACTATGAATCACATGGAAATTTTCAATTTTAACCAC
66 GAAAAAAAATCATAAGACACAAGAACTCCGCTATGCATCACATGGAAACTTTCAATTTTAACCTC
* *
17490230 TTAAAATTTTATAC
131 TTAAAAATTTAAAC
*** *
17490244 TTTATCTTTGATTTTATAATAGACTT-ACCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATT
1 TTTATCTTTGATTCCGTAATAGACTTCGCCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATT
* * * * *
17490308 GAAAAAAAAAATCATAAG--ACAATAATTTCGCTATGCATCACATGGTAAA-TTTCCATTTTAAA
66 G--AAAAAAAATCATAAGACACAAGAACTCCGCTATGCATCACATGG-AAACTTTCAATTTTAAC
* * *
17490370 CTCTTAAAATTTTATAT
128 CTCTTAAAAATTTAAAC
* * * * * *
17490387 TTTATCTTTGATTCCGTAACAGAATTCGCGTC-AAATTGGAGTTTGAATATTT-AAAATCAAATT
1 TTTATCTTTGATTCCGTAATAGACTTCGCCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATT
*
17490450 G-AAACAAATCATAA-ACACAAGAACTCCGCTATGCATCACATGGAAACTTTCAATTTTAACCTC
66 GAAAAAAAATCATAAGACACAAGAACTCCGCTATGCATCACATGGAAACTTTCAATTTTAACCTC
*
17490513 TTAAAAAATTAAAC
131 TTAAAAATTTAAAC
* * * *
17490527 TTTATCTATGATTCCATAATCGACTTCGCCTCAAAATTTGAGTTAT-AATATTTAAAAATGGAAT
1 TTTATCTTTGATTCCGTAATAGACTTCGCCTCAAAATTTGAGTT-TCAATATTTAAAAATGAAAT
* *
17490591 TGAAAAAAAATCATAAGACACAAGAACTCCGCTATGCATCACATAGTAAA-TTTCCATTTTAACC
65 TGAAAAAAAATCATAAGACACAAGAACTCCGCTATGCATCACAT-GGAAACTTTCAATTTTAACC
* * *
17490655 TCCTACAGATTTAAAC
129 TCTTAAAAATTTAAAC
* *
17490671 TTTATCTTTGATTCCGTAATAGACTTCGCCTCAAAATTCGAGTTTTAATATTT-AAAA-GAATAA
1 TTTATCTTTGATTCCGTAATAGACTTCGCCTCAAAATTTGAGTTTCAATATTTAAAAATG-A-AA
17490734 TT-AAAAAAAATCATAA
64 TTGAAAAAAAATCATAA
17490750 AAACACGTGA
Statistics
Matches: 433, Mismatches: 56, Indels: 34
0.83 0.11 0.07
Matches are distributed among these distances:
139 15 0.03
140 74 0.17
141 17 0.04
142 61 0.14
143 140 0.32
144 109 0.25
145 17 0.04
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (144 bp):
TTTATCTTTGATTCCGTAATAGACTTCGCCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATT
GAAAAAAAATCATAAGACACAAGAACTCCGCTATGCATCACATGGAAACTTTCAATTTTAACCTC
TTAAAAATTTAAAC
Found at i:17490677 original size:284 final size:283
Alignment explanation
Indices: 17490101--17490750 Score: 804
Period size: 284 Copynumber: 2.3 Consensus size: 283
17490091 ATAATAGCTA
* ** * ** * *
17490101 TTTATCTTTTATTCCGTAATGGACTTCATCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATT
1 TTTATCTTTGATTCCGTAACAGAATTCGCCTCAAAATTCGAGTTTCAATATTT-AAAATAAAATT
* * *
17490166 GAAAAAAATTATAAGACACAAAAACTTCACTATGAATCACATGGAAATTTTCAATTTTAACCACT
65 GAAAAAAATCATAA-ACACAAAAACTCCACTATGAATCACATGGAAACTTTCAATTTTAACCACT
** * * **
17490231 TAAAATTTTATACTTTATCTTTGATTTTATAATAGACTTACCTCAAAATTTGAGTTTCAATATTT
129 TAAAAAATTAAACTTTATCTATGATTCCATAATAGACTTACCTCAAAATTTGAGTTTCAATATTT
* * * *
17490296 AAAAATGAAATTGAAAAAAAAAATCATAAGACAATAATTTCGCTATGCATCACATGGTAAATTTC
194 AAAAATGAAATTG-AAAAAAAAATCATAAGACAAGAACTCCGCTATGCATCACATAGTAAATTTC
* * *
17490361 CATTTTAAACTCTTAAAATTTTATAT
258 CATTTTAAACTCCTAAAATTTTAAAC
* * * *
17490387 TTTATCTTTGATTCCGTAACAGAATTCGCGTC-AAATTGGAGTTTGAATATTTAAAATCAAATTG
1 TTTATCTTTGATTCCGTAACAGAATTCGCCTCAAAATTCGAGTTTCAATATTTAAAATAAAATTG
* * * * *
17490451 AAACAAATCATAAACACAAGAACTCCGCTATGCATCACATGGAAACTTTCAATTTTAACCTCTTA
66 AAAAAAATCATAAACACAAAAACTCCACTATGAATCACATGGAAACTTTCAATTTTAACCACTTA
* *
17490516 AAAAATTAAACTTTATCTATGATTCCATAATCGACTTCGCCTCAAAATTTGAGTTAT-AATATTT
131 AAAAATTAAACTTTATCTATGATTCCATAATAGACTT-ACCTCAAAATTTGAGTT-TCAATATTT
*
17490580 AAAAATGGAATTG-AAAAAAAATCATAAGACACAAGAACTCCGCTATGCATCACATAGTAAATTT
194 AAAAATGAAATTGAAAAAAAAATCATAAG--ACAAGAACTCCGCTATGCATCACATAGTAAATTT
* *
17490644 CCATTTTAACCTCCTACAGA-TTTAAAC
257 CCATTTTAAACTCCTA-AAATTTTAAAC
* * * *
17490671 TTTATCTTTGATTCCGTAATAGACTTCGCCTCAAAATTCGAGTTTTAATATTTAAAAGAATAATT
1 TTTATCTTTGATTCCGTAACAGAATTCGCCTCAAAATTCGAGTTTCAATATTTAAAATAA-AATT
*
17490736 AAAAAAAATCATAAA
65 GAAAAAAATCATAAA
17490751 AACACGTGAA
Statistics
Matches: 312, Mismatches: 45, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
282 15 0.05
283 76 0.24
284 135 0.43
285 44 0.14
286 42 0.13
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (283 bp):
TTTATCTTTGATTCCGTAACAGAATTCGCCTCAAAATTCGAGTTTCAATATTTAAAATAAAATTG
AAAAAAATCATAAACACAAAAACTCCACTATGAATCACATGGAAACTTTCAATTTTAACCACTTA
AAAAATTAAACTTTATCTATGATTCCATAATAGACTTACCTCAAAATTTGAGTTTCAATATTTAA
AAATGAAATTGAAAAAAAAATCATAAGACAAGAACTCCGCTATGCATCACATAGTAAATTTCCAT
TTTAAACTCCTAAAATTTTAAAC
Found at i:17492558 original size:22 final size:22
Alignment explanation
Indices: 17492530--17492578 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
17492520 TTGAAATCCA
*
17492530 TCATTTGTGAAACACCATAATT
1 TCATTTGTCAAACACCATAATT
17492552 TCATTTGTCAAACACCATAATT
1 TCATTTGTCAAACACCATAATT
*
17492574 GCATT
1 TCATT
17492579 CATCAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (22 bp):
TCATTTGTCAAACACCATAATT
Found at i:17492584 original size:22 final size:22
Alignment explanation
Indices: 17492539--17492586 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
17492529 ATCATTTGTG
* **
17492539 AAACACCATAATTTCATTTGTC
1 AAACACCATAATTGCATTCATC
17492561 AAACACCATAATTGCATTCATC
1 AAACACCATAATTGCATTCATC
17492583 AAAC
1 AAAC
17492587 TTCATTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.25, G:0.04, T:0.29
Consensus pattern (22 bp):
AAACACCATAATTGCATTCATC
Found at i:17492983 original size:141 final size:140
Alignment explanation
Indices: 17492719--17493166 Score: 492
Period size: 143 Copynumber: 3.1 Consensus size: 140
17492709 ACATAATAGC
* ** *
17492719 TATTTAT-TATTGATTCCGTAATAGACTTTC-CCTCAAAATTCAAGTTTCAGTATTTAAAAATGA
1 TATTTATCT-TTGATTTCGTAACGGAC-TTCGCCTCAAAATTC-AGTTTCAATATTTAAAAATGA
* * *
17492782 AATTGAAAAAAATAATAAGACACAAGAACTTTGCTATGCATCACATGGTAAATTTCCATTTTAAC
63 AATTG-AAAAAATCATAAGACACAAGAACTTTGCTTTGCATCACATGGTAAATTTTCATTTTAAC
17492847 CTCTTAAAAATTTA
127 CTCTTAAAAATTTA
* * * * *
17492861 TAATTTACCTTTAATTTCGTAACGTACTTCGCTTCAAAATTCGAGTTTCAATATTT-AAAATTAA
1 T-ATTTATCTTTGATTTCGTAACGGACTTCGCCTCAAAATTC-AGTTTCAATATTTAAAAATGAA
* * * *
17492925 ATTGAAAAAATCTTAACACATAAGAACTTTGCTTTGCATCACACGGTAAATTTTCATTTTAACCT
64 ATTGAAAAAATCATAAGACACAAGAACTTTGCTTTGCATCACATGGTAAATTTTCATTTTAACCT
17492990 CTTAAAAATTTA
129 CTTAAAAATTTA
* * * **
17493002 T-TTGCTATCTTTGATTCCATAACGGACTTCTCCTCAAAATTCATGTTTGTATATTTAAAAATGA
1 TATT--TATCTTTGATTTCGTAACGGACTTCGCCTCAAAATTCA-GTTTCAATATTTAAAAATGA
* * * * * * *
17493066 AATTGAAAAACATCCA-AAGGCACAAGAACTTCGTTTTGCATCAAATGGTAAAGTTTCGTTTTAC
63 AATTGAAAAA-AT-CATAAGACACAAGAACTTTGCTTTGCATCACATGGTAAATTTTCATTTTAA
*
17493130 CCTCTTAAGAATTTA
126 CCTCTTAAAAATTTA
17493145 TACTTTATCTTTGATTTCGTAA
1 TA-TTTATCTTTGATTTCGTAA
17493167 TAGATTCCGC
Statistics
Matches: 254, Mismatches: 41, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
139 2 0.01
140 1 0.00
141 107 0.42
142 31 0.12
143 109 0.43
144 2 0.01
145 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (140 bp):
TATTTATCTTTGATTTCGTAACGGACTTCGCCTCAAAATTCAGTTTCAATATTTAAAAATGAAAT
TGAAAAAATCATAAGACACAAGAACTTTGCTTTGCATCACATGGTAAATTTTCATTTTAACCTCT
TAAAAATTTA
Found at i:17493143 original size:143 final size:138
Alignment explanation
Indices: 17492749--17493156 Score: 426
Period size: 141 Copynumber: 2.9 Consensus size: 138
17492739 ATAGACTTTC
*
17492749 CCTCAAAATTCAAGTTTCAGTATTTAAAAATGAAATTGAAAAAAAT-AATAAGACACAAGAACTT
1 CCTCAAAATTC-AGTTT-AATATTTAAAAATGAAATTG-AAAAAATCAA-AAGACACAAGAACTT
* *
17492813 TGCTATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATAATTTACCTTTAATTT
62 TGCTTTGCATCACATGGTAAATTT-CATTTTAACCTCTTAAAAATTTAT-ATTTACCTTTAATTC
* *
17492878 CGTAACGTACTTCG
125 CATAACGGACTTCG
* * ** * *
17492892 CTTCAAAATTCGAGTTTCAATATTT-AAAATTAAATTGAAAAAATCTTAACACATAAGAACTTTG
1 CCTCAAAATTC-AGTTT-AATATTTAAAAATGAAATTGAAAAAATCAAAAGACACAAGAACTTTG
* * *
17492956 CTTTGCATCACACGGTAAATTTTCATTTTAACCTCTTAAAAATTTAT-TTGCTATCTTTGATTCC
64 CTTTGCATCACATGGTAAA-TTTCATTTTAACCTCTTAAAAATTTATATT--TACCTTTAATTCC
*
17493020 ATAACGGACTTCT
126 ATAACGGACTTCG
* * * *
17493033 CCTCAAAATTCATGTTTGTATATTTAAAAATGAAATTGAAAAACATCCAAAGGCACAAGAACTTC
1 CCTCAAAATTCA-GTTT-AATATTTAAAAATGAAATTGAAAAA-ATCAAAAGACACAAGAACTTT
* * * * * *
17493098 GTTTTGCATCAAATGGTAAAGTTTCGTTTTACCCTCTTAAGAATTTATACTTTATCTTT
63 GCTTTGCATCACATGGTAAA-TTTCATTTTAACCTCTTAAAAATTTATA-TTTACCTTT
17493157 GATTTCGTAA
Statistics
Matches: 223, Mismatches: 33, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
139 2 0.01
140 1 0.00
141 103 0.46
142 30 0.13
143 85 0.38
145 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (138 bp):
CCTCAAAATTCAGTTTAATATTTAAAAATGAAATTGAAAAAATCAAAAGACACAAGAACTTTGCT
TTGCATCACATGGTAAATTTCATTTTAACCTCTTAAAAATTTATATTTACCTTTAATTCCATAAC
GGACTTCG
Found at i:17493993 original size:142 final size:141
Alignment explanation
Indices: 17493724--17494085 Score: 447
Period size: 142 Copynumber: 2.5 Consensus size: 141
17493714 TAGCTATTTG
* * * * *
17493724 TCTTTGATT-TCGTAATAGATTTTTCCTCAAAATTCGAGTTTTAATAATTAAAAATGAAATTAAA
1 TCTTTGATTCT-GTAATGGA-TTTACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATT-GA
* * * * * *
17493788 AAAAATCACAAGACACAAGAACTTCGTTATGCATCACATGGTAAATTTCTAGTTTAACATCTTAA
63 AAAAATCATAAGACACAAGAAATTCATCATGCACCACATGGTAAATTTCCAGTTTAACATCTTAA
* *
17493853 ACATTTATACTTTA
128 AAATTTATACTTGA
* *
17493867 TCTTTGATTCTGTAATGGATTTCACCTCAAAAATCGAGTTTCAATATTTAAAATTGAAATTGAAA
1 TCTTTGATTCTGTAATGGATTT-ACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAA
* * *
17493932 AAATCATAAGACTCAAGAAATTCATCATGCACCACATGGTAAATTTCCATTTTAACCTCTTAAAA
65 AAATCATAAGACACAAGAAATTCATCATGCACCACATGGTAAATTTCCAGTTTAACATCTTAAAA
17493997 ATTTATACTTGA
130 ATTTATACTTGA
* * * *
17494009 TCTTAGATTCTGTAACGGACTTTGCCTCAAAATTCGAATTTCAATATTTAAAAATGAAATTGTAA
1 TCTTTGATTCTGTAATGGA-TTTACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTG-AA
**
17494074 AATCTCATAAGA
64 AAAATCATAAGA
17494086 TAGAAGAACT
Statistics
Matches: 189, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
142 124 0.66
143 64 0.34
144 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (141 bp):
TCTTTGATTCTGTAATGGATTTACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAA
AATCATAAGACACAAGAAATTCATCATGCACCACATGGTAAATTTCCAGTTTAACATCTTAAAAA
TTTATACTTGA
Found at i:17509373 original size:142 final size:142
Alignment explanation
Indices: 17509061--17509473 Score: 537
Period size: 142 Copynumber: 2.9 Consensus size: 142
17509051 GAGCTTCACT
* * *
17509061 ATGCATCACATCGTAAATTTTCATTTTAACCTCTTAAACATTTATAGTTTATCTTTGATTCCGTA
1 ATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAACATTTATACTTTATCTTTGATTCCGTA
* *
17509126 ATCGG-TTCACCT-TAAAATTCTAGTTTCAATATTTAAAAATGAAATTGAAAAAAAAATCATAAG
66 A-CGGCTTCACCTCAAAAATT-GAGTTTCAATATTTAAAAATGAAATT--AAAAAAAATCATAAG
17509189 ACACAAGAACTTCGTC
127 ACACAAGAACTTCGTC
* * *
17509205 ATGCATCACATGGTAAATATCTATTTTAACCTCTTAAACATTTATACTTTATCTTTGATTCCATA
1 ATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAACATTTATACTTTATCTTTGATTCCGTA
17509270 ACGGACTTCACCTCAAAAATTGAGTTTCAATATTTAAAAATG-AATCT-AAAAAAATCATAAGAC
66 ACGG-CTTCACCTCAAAAATTGAGTTTCAATATTTAAAAATGAAAT-TAAAAAAAATCATAAGAC
*
17509333 ACAAGAACTTTGTC
129 ACAAGAACTTCGTC
* * * ** **
17509347 ATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTGTACATTATCTAAGATTGTGTA
1 ATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAACATTTATACTTTATCTTTGATTCCGTA
* * * * *
17509412 ACGGTCTTCGCCTCAAAATTTGAGTTTTAATATTTAAAAATAAAATTAATAAGAAATCATAA
66 ACGG-CTTCACCTCAAAAATTGAGTTTCAATATTTAAAAATGAAATTAA-AAAAAATCATAA
17509474 AAACACGTGA
Statistics
Matches: 237, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
142 122 0.51
143 7 0.03
144 74 0.31
145 28 0.12
146 6 0.03
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (142 bp):
ATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAACATTTATACTTTATCTTTGATTCCGTA
ACGGCTTCACCTCAAAAATTGAGTTTCAATATTTAAAAATGAAATTAAAAAAAATCATAAGACAC
AAGAACTTCGTC
Found at i:17510159 original size:137 final size:140
Alignment explanation
Indices: 17509814--17510214 Score: 424
Period size: 143 Copynumber: 2.9 Consensus size: 140
17509804 CTCCATGCAT
* * * * *
17509814 CACATGGTAAATTTCCATTTTAACCTTTTAAAAATTTATACTTTATCTTAGATTTTGTAATGAAC
1 CACATGGTAAATTTTCATTTTAACCTTTTAAAAATTTATACTTTATCTTTGATTTCGTAATAAAT
* * *
17509879 TTCGCCTCAAAATTTGAATTTCAATATTTCAAAATGAAAATGT--AAAAACTCAT-AGCACACAA
66 TTCGCCTCAAAATTCGAATTTCAATATTTAAAAATGAAAAT-TAAAAAAAATCATAAGCACACAA
*
17509941 TAACTTCGCTATG
130 GAACTTC-C-ATG
* * * * ** *
17509954 CGTAATATGGTAAATTTTCATTTTAATCTTTTGAAAATTTATATTTTATCTTTGATTTCAAAACA
1 C---ACATGGTAAATTTTCATTTTAACCTTTTAAAAATTTATACTTTATCTTTGATTTCGTAATA
* * * *
17510019 AATTTTGCCTCAAAATTCGAGTTTGAATATTTAAAAATGAAAATTAAAAAAAATCATAAGC-CTC
63 AATTTCGCCTCAAAATTCGAATTTCAATATTTAAAAATGAAAATTAAAAAAAATCATAAGCACAC
17510083 AAGAAC-T-C-TG
128 AAGAACTTCCATG
* **
17510093 CACATGGTAAATTTTTATTTTAACCTCTAAAAAAATTTATACTTTATCTTTGATTTCGTAATAAA
1 CACATGGTAAATTTTCATTTTAACCT-TTTAAAAATTTATACTTTATCTTTGATTTCGTAATAAA
* * *
17510158 TTTCGCCTCAAAATTCAAATTTTAATATTTACAAAA--AAAATTTAAAAAAAAACATAA
65 TTTCGCCTCAAAATTCGAATTTCAATATTTA-AAAATGAAAA-TTAAAAAAAATCATAA
17510215 AATATGTGAA
Statistics
Matches: 217, Mismatches: 35, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
136 26 0.12
137 73 0.34
138 4 0.02
139 3 0.01
140 1 0.00
141 1 0.00
142 1 0.00
143 89 0.41
144 16 0.07
145 3 0.01
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.38
Consensus pattern (140 bp):
CACATGGTAAATTTTCATTTTAACCTTTTAAAAATTTATACTTTATCTTTGATTTCGTAATAAAT
TTCGCCTCAAAATTCGAATTTCAATATTTAAAAATGAAAATTAAAAAAAATCATAAGCACACAAG
AACTTCCATG
Found at i:17510226 original size:137 final size:135
Alignment explanation
Indices: 17509960--17510214 Score: 323
Period size: 137 Copynumber: 1.9 Consensus size: 135
17509950 TATGCGTAAT
* *** * *
17509960 ATGGTAAATTTTCATTTTAATCTTTTGAAAATTTATATTTTATCTTTGATTTCAAAACAAATTTT
1 ATGGTAAATTTTCATTTTAACCTTAAAAAAATTTATACTTTATCTTTGATTTCAAAACAAATTTC
* * * **
17510025 GCCTCAAAATTCGAGTTTGAATATTTAAAAATGAAAATTAAAAAAAATCATAAGCCTCAAGAACT
66 GCCTCAAAATTCAAATTTGAATATTTAAAAA-GAAAATTAAAAAAAAACATAAGAATCAAGAACT
17510090 CTGCAC
130 CTGCAC
* ** *
17510096 ATGGTAAATTTTTATTTTAACCTCTAAAAAAATTTATACTTTATCTTTGATTTCGTAATAAATTT
1 ATGGTAAATTTTCATTTTAACCT-TAAAAAAATTTATACTTTATCTTTGATTTCAAAACAAATTT
*
17510161 CGCCTCAAAATTCAAATTTTAATATTTACAAAA-AAAATTTAAAAAAAAACATAA
65 CGCCTCAAAATTCAAATTTGAATATTTA-AAAAGAAAA-TTAAAAAAAAACATAA
17510215 AATATGTGAA
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
136 25 0.25
137 73 0.72
138 4 0.04
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (135 bp):
ATGGTAAATTTTCATTTTAACCTTAAAAAAATTTATACTTTATCTTTGATTTCAAAACAAATTTC
GCCTCAAAATTCAAATTTGAATATTTAAAAAGAAAATTAAAAAAAAACATAAGAATCAAGAACTC
TGCAC
Found at i:17510611 original size:143 final size:141
Alignment explanation
Indices: 17510414--17510899 Score: 570
Period size: 143 Copynumber: 3.4 Consensus size: 141
17510404 ATGATAGCTA
* * * * * *
17510414 TTTATCTTTGATTCCAT-GCGGACTTCATCGCAATATTC-AAGTTTCAATATTTAAAAATGAAAC
1 TTTATCTTTGATTCCGTAACGGACTTCACCTCAAAATTCGAA-TTTCAATATTTAAAAATGAAAT
*
17510477 TGAAATAAATTATAAGACACAAGAACTTCACTATGCATCACATGGTAAATTTTCATTTTAACCTT
65 TGAAA-AAATTATAAGACACAAGAACTTCACTATGCATCACATGGTAAATTTCCATTTTAACCTT
17510542 TTAAACATTTATAC
129 TTAAA-ATTTATAC
*
17510556 TTTAAT-TTTTATTCCGTAACGGACTTCACCTCAATAA-TCGAATTTCAATATTTAAAAATGAAA
1 TTT-ATCTTTGATTCCGTAACGGACTTCACCTCAA-AATTCGAATTTCAATATTTAAAAATGAAA
* * * *
17510619 TTGAAAAAAATCATAAGACACGATAACTTCGAC-ATGTATCACATGGTAAATTTCCATTTTAACC
64 TTG-AAAAAATTATAAGACACAAGAACTTC-ACTATGCATCACATGGTAAATTTCCATTTTAACC
*
17510683 TATTAAAAATTTATAC
127 T-TTTAAAATTTATAC
* * * * *
17510699 TTTATCTTAGATTCTGTAATGGACTTCGCCTCAAAATTTGAATTTCAATATTTAAAAATGAAATT
1 TTTATCTTTGATTCCGTAACGGACTTCACCTCAAAATTCGAATTTCAATATTTAAAAATGAAATT
* * *
17510764 GTAAAAAATTTTAAGACACAAGAACTTCACTATGCATAACATGGTAAATTTCCATTATAACCTCT
66 G-AAAAAATTATAAGACACAAGAACTTCACTATGCATCACATGGTAAATTTCCATTTTAACCT-T
* * *
17510829 TCAAAA-TTAAAT
129 TTAAAATTTATAC
* * * ** *
17510841 TTTATCTTTGATTCCGTAATGGATTTCGCCTCAAAATTCGAGCTTGAATATTTAAAAAT
1 TTTATCTTTGATTCCGTAACGGACTTCACCTCAAAATTCGAATTTCAATATTTAAAAAT
17510900 CATAGGCCCT
Statistics
Matches: 296, Mismatches: 38, Indels: 20
0.84 0.11 0.06
Matches are distributed among these distances:
142 74 0.25
143 209 0.71
144 13 0.04
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (141 bp):
TTTATCTTTGATTCCGTAACGGACTTCACCTCAAAATTCGAATTTCAATATTTAAAAATGAAATT
GAAAAAATTATAAGACACAAGAACTTCACTATGCATCACATGGTAAATTTCCATTTTAACCTTTT
AAAATTTATAC
Found at i:17515919 original size:143 final size:142
Alignment explanation
Indices: 17515756--17516229 Score: 542
Period size: 143 Copynumber: 3.3 Consensus size: 142
17515746 ACAAACCTCG
* * *
17515756 CTATGCATCACATTGTAAA-TTTCTATTTTAGCATCTTAAAAATTTATATTTTATCTTAGATTTT
1 CTATGCATCACATGGTAAATTTTC-ATTTTAACCTCTTAAAAATTTATATTTTATCTTAGATTTT
* * * * *
17515820 GTAATGAACTTCACCTCAAAATTTGAGTTTCAATTTTTAAAAATAAAATTATAAAAAATCATAAG
65 GTAAAGAACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTATAAAAAATAATAAG
17515885 ACACAAGAACTTC
130 ACACAAGAACTTC
* * * *
17515898 ACTATGCATCACCTGGTAAATTTTCATTTTAACCTCTTAAACATTTATATTTTATCTTTGATTTC
1 -CTATGCATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATATTTTATCTTAGATTTT
*
17515963 GTAAAGAACTTCACCTTAATAA-TCGAGTTTCAATATTTAAAAATGAAATTGA-AAAAAATAATA
65 GTAAAGAACTTCACCTCAA-AATTCGAGTTTCAATATTTAAAAATGAAATT-ATAAAAAATAATA
*
17516026 AGACACAAGAATTTGC
128 AGACACAAGAACTT-C
* * * * ** * *
17516042 C-ATGCATCACATGGCAAATTTTCATTTTAACCTATTAAATATTTATACTTTATCTTAGGCTCTA
1 CTATGCATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATATTTTATCTTAGATTTTG
* ** ** * * *
17516106 TAACGGGCTTTGCCTCAAAATTCGAATTTCAATATTTAAAAATGAAATTGTAAAAAATTATAAGA
66 TAAAGAACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTATAAAAAATAATAAGA
*
17516171 CATAAGAACTTC
131 CACAAGAACTTC
* * * *
17516183 GCTATGCATAACATGGTAAAATTTCGATTTTAACCTTTTAAATATTT
1 -CTATGCATCACATGGTAAATTTTC-ATTTTAACCTCTTAAAAATTT
17516230 GATTCCGTGA
Statistics
Matches: 282, Mismatches: 40, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
141 3 0.01
142 114 0.40
143 137 0.49
144 28 0.10
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (142 bp):
CTATGCATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATATTTTATCTTAGATTTTG
TAAAGAACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTATAAAAAATAATAAGA
CACAAGAACTTC
Found at i:17516645 original size:142 final size:141
Alignment explanation
Indices: 17516376--17516698 Score: 364
Period size: 142 Copynumber: 2.3 Consensus size: 141
17516366 GATATTTAAA
* * *
17516376 AAAAAATCATAAGACAAAGAACTTGGCTATGCATCACATGGCAAATTTTCATGTTAACCTCTTAT
1 AAAAAATCATAAGACAAAGAACTTCGCTATGCATCACAAGGCAAATTTTCATGTTAACCTCTTAA
* * * *
17516441 AAATTTATACTTTATCTTTGATTGTGTAACGGACCTCGCGTCAAAATTCAACTTTCAGTATTTAA
66 AAATTTATACTTTATCTTTGATTCTATAACAGACCTCGCGTCAAAATTCAACTTTCAATATTTAA
*
17516506 AAATGAAATTG
131 AAATAAAATTG
* * * *
17516517 AAAAAATTATAAGACACAAGAACTTCGTTATGCATCACAAGGTAAATTTTCATTTTAACCTCTTA
1 AAAAAATCATAAGACA-AAGAACTTCGCTATGCATCACAAGGCAAATTTTCATGTTAACCTCTTA
* * ** * *
17516582 AAAATTTATACTTTATCTTTGATTCTATAATAGA-CTACGTCG-CAATATTTGAGTTTTAATATT
65 AAAATTTATACTTTATCTTTGATTCTATAACAGACCT-CG-CGTCAAAATTCAACTTTCAATATT
*
17516645 TAAAAATAAAATTTT
128 TAAAAATAAAA-TTG
* *
17516660 AAAAATATCATAAAAACACATA-AATTTCGCTATGCATCA
1 AAAAA-ATCAT-AAGACA-A-AGAACTTCGCTATGCATCA
17516699 TATGAATCTG
Statistics
Matches: 152, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
141 17 0.11
142 99 0.65
143 9 0.06
144 4 0.03
145 22 0.14
146 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (141 bp):
AAAAAATCATAAGACAAAGAACTTCGCTATGCATCACAAGGCAAATTTTCATGTTAACCTCTTAA
AAATTTATACTTTATCTTTGATTCTATAACAGACCTCGCGTCAAAATTCAACTTTCAATATTTAA
AAATAAAATTG
Found at i:17519388 original size:7 final size:8
Alignment explanation
Indices: 17519359--17519387 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
17519349 GGTTATGGAA
17519359 GAAAAATC
1 GAAAAATC
17519367 GAAAAATC
1 GAAAAATC
17519375 GAAAAATC
1 GAAAAATC
17519383 GAAAA
1 GAAAA
17519388 TTGATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.10, G:0.14, T:0.10
Consensus pattern (8 bp):
GAAAAATC
Found at i:17526460 original size:51 final size:52
Alignment explanation
Indices: 17526354--17526544 Score: 294
Period size: 52 Copynumber: 3.7 Consensus size: 52
17526344 TCTGTAAAAA
* * * *
17526354 ATTCATATACTCACAATGACACTTAATCATCGGACCTTATAATCCGTGAAAG
1 ATTCATGTACTCACAATGACACTTAGTCATCGGACCTTATAATCCATGAAGG
** *
17526406 ATTCATGTACTCATGATGACAC-TAGGCATCGGACCTTATAATCCATGAAGG
1 ATTCATGTACTCACAATGACACTTAGTCATCGGACCTTATAATCCATGAAGG
* *
17526457 ATTCATGTACTCACGATGACACTTAGTCATCGAACCTTATAATCCATGAAGG
1 ATTCATGTACTCACAATGACACTTAGTCATCGGACCTTATAATCCATGAAGG
17526509 ATTCATGTACTCACAATGACACTTAGTCATCGGACC
1 ATTCATGTACTCACAATGACACTTAGTCATCGGACC
17526545 CTTTTTCATT
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
51 46 0.37
52 80 0.63
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (52 bp):
ATTCATGTACTCACAATGACACTTAGTCATCGGACCTTATAATCCATGAAGG
Found at i:17526468 original size:103 final size:104
Alignment explanation
Indices: 17526354--17526544 Score: 294
Period size: 103 Copynumber: 1.8 Consensus size: 104
17526344 TCTGTAAAAA
* *
17526354 ATTCATATACTCACAATGACACTTAATCATCGGACCTTATAATCCGTGAAAGATTCATGTACTCA
1 ATTCATATACTCACAATGACACTTAATCATCGAACCTTATAATCCATGAAAGATTCATGTACTCA
**
17526419 TGATGACAC-TAGGCATCGGACCTTATAATCCATGAAGG
66 CAATGACACTTAGGCATCGGACCTTATAATCCATGAAGG
* * * *
17526457 ATTCATGTACTCACGATGACACTTAGTCATCGAACCTTATAATCCATGAAGGATTCATGTACTCA
1 ATTCATATACTCACAATGACACTTAATCATCGAACCTTATAATCCATGAAAGATTCATGTACTCA
*
17526522 CAATGACACTTAGTCATCGGACC
66 CAATGACACTTAGGCATCGGACC
17526545 CTTTTTCATT
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
103 66 0.85
104 12 0.15
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (104 bp):
ATTCATATACTCACAATGACACTTAATCATCGAACCTTATAATCCATGAAAGATTCATGTACTCA
CAATGACACTTAGGCATCGGACCTTATAATCCATGAAGG
Found at i:17527454 original size:20 final size:21
Alignment explanation
Indices: 17527411--17527454 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
17527401 ACTTTCATCA
* *
17527411 TTAAGCTTTAATTAAACATTT
1 TTAACCTTTAATTAAACATAT
*
17527432 TTAACCTTT-ATTAAACCTAT
1 TTAACCTTTAATTAAACATAT
17527452 TTA
1 TTA
17527455 TAATCAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (21 bp):
TTAACCTTTAATTAAACATAT
Found at i:17530280 original size:17 final size:17
Alignment explanation
Indices: 17530258--17530359 Score: 96
Period size: 17 Copynumber: 6.0 Consensus size: 17
17530248 CTTTTAATTC
*
17530258 TTAAATTTTAATTTATT
1 TTAAATTTAAATTTATT
*
17530275 TTAAATTTGAATTTATT
1 TTAAATTTAAATTTATT
* **
17530292 TTAAATTTAAATTCAGG
1 TTAAATTTAAATTTATT
* * *
17530309 TTGAGTTTAAATTTAAT
1 TTAAATTTAAATTTATT
*
17530326 TTAAATTTGAATTTATT
1 TTAAATTTAAATTTATT
* * *
17530343 TTGAATTAAAAATTATT
1 TTAAATTTAAATTTATT
17530360 AATAATAAAA
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 67 1.00
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (17 bp):
TTAAATTTAAATTTATT
Found at i:17530300 original size:23 final size:22
Alignment explanation
Indices: 17530264--17530349 Score: 64
Period size: 23 Copynumber: 3.5 Consensus size: 22
17530254 ATTCTTAAAT
* *
17530264 TTTAATTTATTTTAAATTTGAA
1 TTTATTTTAATTTAAATTTGAA
*
17530286 TTTATTTTAAATTTAAATTCAGGTTGAG
1 TTTATTTT-AATTTAAA-T----TTGAA
*
17530314 TTTAAATTTAATTTAAATTTGAA
1 TTT-ATTTTAATTTAAATTTGAA
17530337 TTTATTTTGAATT
1 TTTATTTT-AATT
17530350 AAAAATTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
22 11 0.22
23 18 0.36
24 1 0.02
27 1 0.02
28 15 0.30
29 4 0.08
ACGTcount: A:0.35, C:0.01, G:0.08, T:0.56
Consensus pattern (22 bp):
TTTATTTTAATTTAAATTTGAA
Found at i:17531134 original size:20 final size:21
Alignment explanation
Indices: 17531082--17531141 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
17531072 AATGAATACA
*
17531082 TATTAA-ATATATTAAATAATTC
1 TATTAACA-ATATT-AATAAGTC
17531104 TATTAACAATATTAATAAGTC
1 TATTAACAATATTAATAAGTC
* *
17531125 T-TTAATAATAATAATAA
1 TATTAACAATATTAATAA
17531142 TAATTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 14 0.41
21 8 0.24
22 11 0.32
23 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (21 bp):
TATTAACAATATTAATAAGTC
Found at i:17532230 original size:30 final size:30
Alignment explanation
Indices: 17532168--17532241 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
17532158 AAACTGTCCA
*
17532168 AAAATTATATTTTGACCCCCAAACTTCTTT
1 AAAATTATATTTTTACCCCCAAACTTCTTT
** *
17532198 AAAATTATATTTTTACCCTTGAAATTTC-TT
1 AAAATTATATTTTTACCC-CCAAACTTCTTT
*
17532228 AAAATTACATTTTT
1 AAAATTATATTTTT
17532242 GCCTCTAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 32 0.84
31 6 0.16
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (30 bp):
AAAATTATATTTTTACCCCCAAACTTCTTT
Found at i:17532352 original size:59 final size:58
Alignment explanation
Indices: 17532208--17532625 Score: 337
Period size: 59 Copynumber: 7.1 Consensus size: 58
17532198 AAAATTATAT
* * * * *
17532208 TTTTACCCTTGAAATTTCTTAAAATTACATTTTT-GCCTCTAAACTTTTC-AAAATT-CCA
1 TTTTACCCTT-AAATTTC-CAAAATTCCATTTTTAACC-CCAAACTTTCCAAAAATTACCA
** ** * * * * *
17532266 TTTGGCCCTGGATTTTCCAAAATTCCATTTTTGACCCCAAACTTTCTAAGAATTACCT
1 TTTTACCCTTAAATTTCCAAAATTCCATTTTTAACCCCAAACTTTCCAAAAATTACCA
* **
17532324 TTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCCTAATTTTTCCAAAAATTACCA
1 TTTTACCCTTAAA-TTTCCAAAATTCCATTTTTAACCCCAAACTTTCCAAAAATTACCA
*** * * * *
17532383 TTTTACCCCCGAATGTCTAAAAATTCCATTTTTAAACTCGAAAC-TTCCAAAAATTACCA
1 TTTTACCCTTAAATTTC-CAAAATTCCATTTTT-AACCCCAAACTTTCCAAAAATTACCA
* * ** * *
17532442 TTTTGCCCTCAAACATCCAAAAATTCCA-TTTTAACCCTAAAAC-TTCTAAAAATTACCA
1 TTTTACCCTTAAATTTCC-AAAATTCCATTTTTAACCC-CAAACTTTCCAAAAATTACCA
* * * *
17532500 TTTTACCCCT-AATTATCTAAGAATTCCATTTTTAACCCTAAACCTTCCAAAAATTACCA
1 TTTTACCCTTAAATT-TCCAA-AATTCCATTTTTAACCCCAAACTTTCCAAAAATTACCA
* * * * *
17532559 TTTTACCCTTAAATATCTAAAAATTCCATTTTTGACCTCGAACTTTCCAAAAATTACCA
1 TTTTACCCTTAAATTTC-CAAAATTCCATTTTTAACCCCAAACTTTCCAAAAATTACCA
17532618 TTTTACCC
1 TTTTACCC
17532626 CCTGAGTGTC
Statistics
Matches: 287, Mismatches: 59, Indels: 27
0.77 0.16 0.07
Matches are distributed among these distances:
56 21 0.07
57 20 0.07
58 62 0.22
59 173 0.60
60 11 0.04
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (58 bp):
TTTTACCCTTAAATTTCCAAAATTCCATTTTTAACCCCAAACTTTCCAAAAATTACCA
Found at i:17532357 original size:29 final size:29
Alignment explanation
Indices: 17532206--17532625 Score: 162
Period size: 29 Copynumber: 14.3 Consensus size: 29
17532196 TTAAAATTAT
* *
17532206 ATTTTTACCCTTGAAA-TTTCTTAAAATTAC
1 ATTTTTACCCTT-AAACTTTC-CAAAATTCC
* *
17532236 ATTTTT-GCCTCTAAACTTTTCAAAATTCC
1 ATTTTTACCCT-TAAACTTTCCAAAATTCC
** ** *
17532265 A-TTTGGCCC-TGGATTTTCCAAAATTCC
1 ATTTTTACCCTTAAACTTTCCAAAATTCC
* *
17532292 ATTTTTGACCC-CAAACTTTCTAAGAATTACC
1 ATTTTT-ACCCTTAAACTTTCCAA-AATT-CC
17532323 -TTTTTACCCTTAAACTTTCCAAAATTCC
1 ATTTTTACCCTTAAACTTTCCAAAATTCC
**
17532351 ATTTTTAACCC-TAATTTTTCCAAAAATTACC
1 ATTTTT-ACCCTTAAACTTTCC-AAAATT-CC
*** * *
17532382 A-TTTTACCCCCGAA-TGTCTAAAAATTCC
1 ATTTTTACCCTTAAACTTTC-CAAAATTCC
** *
17532410 ATTTTTAAACTCGAAAC-TTCCAAAAATTACC
1 ATTTTTACCCT-TAAACTTTCC-AAAATT-CC
* * *
17532441 A-TTTTGCCCTCAAAC-ATCCAAAAATTCC
1 ATTTTTACCCTTAAACTTTCC-AAAATTCC
* * *
17532469 ATTTTAACCCTAAAAC-TTCTAAAAATTACC
1 ATTTTTACCCTTAAACTTTC-CAAAATT-CC
* *
17532499 A-TTTTACCCCT-AA-TTATCTAAGAATTCC
1 ATTTTTACCCTTAAACTT-TCCAA-AATTCC
*
17532527 ATTTTTAACCC-TAAACCTTCCAAAAATTACC
1 ATTTTT-ACCCTTAAACTTTCC-AAAATT-CC
* *
17532558 A-TTTTACCCTTAAA-TATCTAAAAATTCC
1 ATTTTTACCCTTAAACTTTC-CAAAATTCC
**
17532586 ATTTTTGA-CCTCGAACTTTCCAAAAATTACC
1 ATTTTT-ACCCTTAAACTTTCC-AAAATT-CC
17532617 A-TTTTACCC
1 ATTTTTACCC
17532626 CCTGAGTGTC
Statistics
Matches: 295, Mismatches: 56, Indels: 78
0.69 0.13 0.18
Matches are distributed among these distances:
27 15 0.05
28 25 0.08
29 139 0.47
30 99 0.34
31 17 0.06
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (29 bp):
ATTTTTACCCTTAAACTTTCCAAAATTCC
Found at i:17532498 original size:176 final size:177
Alignment explanation
Indices: 17532284--17532621 Score: 470
Period size: 176 Copynumber: 1.9 Consensus size: 177
17532274 TGGATTTTCC
* * * * *
17532284 AAAATTCCATTTTTGACCCCAAACTTTCTAAGAATTACCTTTTTACCCTTAAACTT-TCCAA-AA
1 AAAATTCCATTTTTAACCCAAAACTTTCTAAAAATTACCATTTTACCCCT-AA-TTATCCAAGAA
*** * *
17532347 TTCCATTTTTAACCCTAATTTTTCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCAT
64 TTCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCAAATATCTAAAAATTCCAT
17532412 TTTTAAACTCGAAAC-TTCCAAAAATTACCATTTTGCCCTCAAACATCCA
129 TTTTAAACTCG-AACTTTCCAAAAATTACCATTTTGCCCTCAAACATCCA
*
17532461 AAAATTCCA-TTTTAACCCTAAAAC-TTCTAAAAATTACCATTTTACCCCTAATTATCTAAGAAT
1 AAAATTCCATTTTTAACCC-AAAACTTTCTAAAAATTACCATTTTACCCCTAATTATCCAAGAAT
**
17532524 TCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCTTAAATATCTAAAAATTCCATT
65 TCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCAAATATCTAAAAATTCCATT
* *
17532589 TTTGACCTCGAACTTTCCAAAAATTACCATTTT
130 TTTAAACTCGAACTTTCCAAAAATTACCATTTT
17532622 ACCCCCTGAG
Statistics
Matches: 142, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
174 2 0.01
175 9 0.06
176 118 0.83
177 13 0.09
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (177 bp):
AAAATTCCATTTTTAACCCAAAACTTTCTAAAAATTACCATTTTACCCCTAATTATCCAAGAATT
CCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCAAATATCTAAAAATTCCATTT
TTAAACTCGAACTTTCCAAAAATTACCATTTTGCCCTCAAACATCCA
Found at i:17532642 original size:59 final size:58
Alignment explanation
Indices: 17532284--17532626 Score: 338
Period size: 59 Copynumber: 5.8 Consensus size: 58
17532274 TGGATTTTCC
* * * * * * * *
17532284 AAAATTCCATTTTTGACCCCAAACTTTCTAAGAATTACCTTTTTACCCTTAAACTTTCC
1 AAAATTCCATTTTTAACCTCAAACTTTCCAAAAATTACCATTTTACCCCTAAA-TATCT
** ** *
17532343 AAAATTCCATTTTTAACC-CTAATTTTTCCAAAAATTACCATTTTACCCCCGAATGTCT
1 AAAATTCCATTTTTAACCTC-AAACTTTCCAAAAATTACCATTTTACCCCTAAATATCT
* * * *
17532401 AAAAATTCCATTTTTAAACTCGAAAC-TTCCAAAAATTACCATTTT-GCCCTCAAACATCCA
1 -AAAATTCCATTTTTAACCTC-AAACTTTCCAAAAATTACCATTTTACCCCT-AAATAT-CT
* * *
17532461 AAAATTCCA-TTTTAACCCTAAAAC-TTCTAAAAATTACCATTTTACCCCTAATTATCT
1 AAAATTCCATTTTTAA-CCTCAAACTTTCCAAAAATTACCATTTTACCCCTAAATATCT
* *
17532518 AAGAATTCCATTTTTAACC-CTAAACCTTCCAAAAATTACCATTTTACCCTTAAATATCT
1 AA-AATTCCATTTTTAACCTC-AAACTTTCCAAAAATTACCATTTTACCCCTAAATATCT
* *
17532577 AAAAATTCCATTTTTGACCTCGAACTTTCCAAAAATTACCATTTTACCCC
1 -AAAATTCCATTTTTAACCTCAAACTTTCCAAAAATTACCATTTTACCCC
17532627 CTGAGTGTCT
Statistics
Matches: 235, Mismatches: 36, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
57 3 0.01
58 52 0.22
59 173 0.74
60 7 0.03
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.36
Consensus pattern (58 bp):
AAAATTCCATTTTTAACCTCAAACTTTCCAAAAATTACCATTTTACCCCTAAATATCT
Found at i:17532655 original size:117 final size:116
Alignment explanation
Indices: 17532284--17532642 Score: 397
Period size: 117 Copynumber: 3.1 Consensus size: 116
17532274 TGGATTTTCC
* * * * * * *
17532284 AAAATTCCATTTTTGACCCCAAACTTTCTAAGAATTACCTTTTTACCCTTAAACTTTCCAAAATT
1 AAAATTCCATTTTTAACCCTAAAC-TTCCAAAAATTACCATTTTACCCTTAAA-TATCAAAAATT
**
17532349 CCATTTTTAACC-CTAATTTTTCCAAAAATTACCATTTTACCCCC-GAATGTCT
64 CCATTTTTAACCTC-AAACTTTCCAAAAATTACCATTTTACCCCCTGAATGTCT
* * * * *
17532401 AAAAATTCCATTTTTAAACTCGAAACTTCCAAAAATTACCATTTTGCCCTCAAACATCCAAAAAT
1 -AAAATTCCATTTTT-AACCCTAAACTTCCAAAAATTACCATTTTACCCTTAAATAT-CAAAAAT
* * *
17532466 TCCA-TTTTAACCCTAAAAC-TTCTAAAAATTACCATTTTA-CCCCT-AATTATCT
63 TCCATTTTTAA-CCTCAAACTTTCCAAAAATTACCATTTTACCCCCTGAA-TGTCT
17532518 AAGAATTCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCTTAAATATCTAAAAAT
1 AA-AATTCCATTTTTAACCCTAAA-CTTCCAAAAATTACCATTTTACCCTTAAATATC-AAAAAT
* * *
17532583 TCCATTTTTGACCTCGAACTTTCCAAAAATTACCATTTTACCCCCTGAGTGTCT
63 TCCATTTTTAACCTCAAACTTTCCAAAAATTACCATTTTACCCCCTGAATGTCT
17532637 AAAATT
1 AAAATT
17532643 ACCGTTTTAC
Statistics
Matches: 201, Mismatches: 27, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
116 16 0.08
117 87 0.43
118 79 0.39
119 18 0.09
120 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (116 bp):
AAAATTCCATTTTTAACCCTAAACTTCCAAAAATTACCATTTTACCCTTAAATATCAAAAATTCC
ATTTTTAACCTCAAACTTTCCAAAAATTACCATTTTACCCCCTGAATGTCT
Found at i:17539575 original size:49 final size:49
Alignment explanation
Indices: 17539450--17540196 Score: 727
Period size: 50 Copynumber: 15.2 Consensus size: 49
17539440 AAGTCTCAGC
* * * * * *
17539450 ACCATGAA-ACATAAGGGAAAGATCTAATATCGCAACGGCAGATTCAAT
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
* *
17539498 ACCACGAA-A-ATACGATGGGAAAGATCTAAGACCGTAATGGCGGATCCAGT
1 ACCACGAAGACATA--A-GGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
* * *
17539548 ACAATGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGAATCCAGT
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
* * * *
17539597 ACCACGAAGACACGACGAGAAAGATCTAAGACCGCAATGGCGGATCCAGT
1 ACCACGAAGACA-TAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
* * * * *
17539647 ACCACGAAAACACAACGGGAAAGATCTAAGACCGCAACGGTGGAACCAAT
1 ACCACGAAGACATAA-GGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
** *
17539697 ACCGTGAAGACATAAGGAAAAGATCTAAGACCGCAACGGCGGATCCAGT
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
** *
17539746 ACCGTGAAGACATAAGGGAAAGATCTAATACCGCAACGGCGGATCCAGT
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
* * * *
17539795 ACCACGAA-A-ATACGACGGGAAAGATCTAAGACTGCAATGGAGAATCCAGT
1 ACCACGAAGACATA--A-GGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
** ** *
17539845 ACCTTGAAGACATAAGGGAAAGATCTAAGACCGCAACAACGGATCTAGT
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
* * * *
17539894 ACCACGAAGACACGACGGGAAAGATCTAAGACCGCAATGGCGGATCTAGT
1 ACCACGAAGACA-TAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
* * * * *
17539944 ACCGCGAAAATATAAGGGAAAGATCTAAGACCGTAACGGTGGATCCAGT
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
* * * * * * * **
17539993 ACCACAAAAACACGACGGGAAATATCTAAGATCGGAACGGTAGATCCAGT
1 ACCACGAAGACA-TAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
* * * ** *
17540043 ACCGCGAAGACACAAGGAAAAGATCTAAG-CCATAATGGCGGATCCAGT
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
* * ** * *
17540091 ACCATGAAGACACAAGGGAAAGATCTAAG-CCGTGACGACAGATCCAGT
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
* * *
17540139 ACCACGAAGACACAAGGGAAAGATCTAAG-CCGCAATGGTGGATCCAGT
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
*
17540187 ACTACGAAGA
1 ACCACGAAGA
17540197 TTTGAAGGGA
Statistics
Matches: 577, Mismatches: 108, Indels: 28
0.81 0.15 0.04
Matches are distributed among these distances:
47 6 0.01
48 112 0.19
49 217 0.38
50 234 0.41
51 2 0.00
52 6 0.01
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.13
Consensus pattern (49 bp):
ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGT
Found at i:17539629 original size:99 final size:99
Alignment explanation
Indices: 17539450--17540196 Score: 822
Period size: 99 Copynumber: 7.6 Consensus size: 99
17539440 AAGTCTCAGC
* * * * * * * * *
17539450 ACCATGAA-ACATAAGGGAAAGATCTAATATCGCAACGGCAGATTCAATACCACGAAAATACGAT
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACGAAGACACGAC
*
17539514 GGGAAAGATCTAAGACCGTAATGGCGGATCCAGT
66 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGT
* * *
17539548 ACAATGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGAATCCAGTACCACGAAGACACGAC
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACGAAGACACGAC
*
17539613 GAGAAAGATCTAAGACCGCAATGGCGGATCCAGT
66 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGT
* * * * * ** *
17539647 ACCACGAAAACACAACGGGAAAGATCTAAGACCGCAACGGTGGAACCAATACCGTGAAGACA-TA
1 ACCACGAAGACATAA-GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACGAAGACACGA
* * *
17539711 AGGAAAAGATCTAAGACCGCAACGGCGGATCCAGT
65 CGGGAAAGATCTAAGACCGCAATGGCGGATCCAGT
** * * *
17539746 ACCGTGAAGACATAAGGGAAAGATCTAATACCGCAACGGCGGATCCAGTACCACGAAAATACGAC
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACGAAGACACGAC
* * *
17539811 GGGAAAGATCTAAGACTGCAATGGAGAATCCAGT
66 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGT
** ** *
17539845 ACCTTGAAGACATAAGGGAAAGATCTAAGACCGCAACAACGGATCTAGTACCACGAAGACACGAC
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACGAAGACACGAC
*
17539910 GGGAAAGATCTAAGACCGCAATGGCGGATCTAGT
66 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGT
* * * * * * *
17539944 ACCGCGAAAATATAAGGGAAAGATCTAAGACCGTAACGGTGGATCCAGTACCACAAAAACACGAC
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACGAAGACACGAC
* * * * **
17540009 GGGAAATATCTAAGATCGGAACGGTAGATCCAGT
66 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGT
* * * ** * * *
17540043 ACCGCGAAGACACAAGGAAAAGATCTAAG-CCATAATGGCGGATCCAGTACCATGAAGACAC-AA
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACGAAGACACGAC
** * * *
17540106 GGGAAAGATCTAAG-CCGTGACGACAGATCCAGT
66 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGT
* * * *
17540139 ACCACGAAGACACAAGGGAAAGATCTAAG-CCGCAATGGTGGATCCAGTACTACGAAGA
1 ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACGAAGA
17540197 TTTGAAGGGA
Statistics
Matches: 547, Mismatches: 99, Indels: 8
0.84 0.15 0.01
Matches are distributed among these distances:
96 65 0.12
97 14 0.03
98 71 0.13
99 357 0.65
100 40 0.07
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.13
Consensus pattern (99 bp):
ACCACGAAGACATAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACGAAGACACGAC
GGGAAAGATCTAAGACCGCAATGGCGGATCCAGT
Found at i:17540580 original size:102 final size:102
Alignment explanation
Indices: 17540318--17540923 Score: 946
Period size: 102 Copynumber: 5.9 Consensus size: 102
17540308 AATCAAAATA
* *
17540318 GCAAGTCTTTATCTCTCTGAAGTTACAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATC
1 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* *
17540383 CTCTTGAAGTTGTAGTAAAGTTGGATTAAAAAAACAATA
66 CTCTTGAAGTTGCAGTAAAGTTGGATT--AAAAACAATG
* * * * *
17540422 ACAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGAAAGATAAAGTTTCAAACATCAATTCCTATC
1 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
*
17540487 CTCTTGAAGTTGCAATAAAGTTGGATTAAAAACAATG
66 CTCTTGAAGTTGCAGTAAAGTTGGATTAAAAACAATG
17540524 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
1 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* * *
17540589 CTCTTGAAGTTGTAGTAAAGTTGGATTAAAAGCAATA
66 CTCTTGAAGTTGCAGTAAAGTTGGATTAAAAACAATG
* * **
17540626 GCAAGTATTTATATCTCTGAAGTTGTGGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
1 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
17540691 CTCTTGAAGTTGCAGTAAAGTTGGATTAAAAACAATG
66 CTCTTGAAGTTGCAGTAAAGTTGGATTAAAAACAATG
* *
17540728 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTT-TAACGTCAATTCCTATC
1 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* *
17540792 CTCTTAAAGTTGCAGTAAAGTTGGATTAAAAATAATG
66 CTCTTGAAGTTGCAGTAAAGTTGGATTAAAAACAATG
*
17540829 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTC-AACATCAAATCCTATC
1 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
* * **
17540893 TTCCTGAAGTTGCAGCGAAGTTGGATTAAAA
66 CTCTTGAAGTTGCAGTAAAGTTGGATTAAAA
17540924 CTACAGCAGC
Statistics
Matches: 462, Mismatches: 39, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
101 137 0.30
102 240 0.52
104 85 0.18
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (102 bp):
GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
CTCTTGAAGTTGCAGTAAAGTTGGATTAAAAACAATG
Found at i:17541110 original size:78 final size:78
Alignment explanation
Indices: 17540981--17541138 Score: 235
Period size: 78 Copynumber: 2.0 Consensus size: 78
17540971 GAAGTTACAA
** * * * *
17540981 TGAAGCCATTTTATCTTTTACCCCGAGCTTGGGGTAGATCATCATCAACCAATCTTTTACCTCGA
1 TGAAGCCATTGGATCTTTTACCCCGAGCTCGGGGCAGATCATCATCAACCAATCTCTTACCCCGA
17541046 GCCTAGGGCAGAT
66 GCCTAGGGCAGAT
* *
17541059 TGAAGCCATTGGATCTTTTACCCTGAGCTCGGGGCAGATCATCGTCAACCAATCTCTTACCCCGA
1 TGAAGCCATTGGATCTTTTACCCCGAGCTCGGGGCAGATCATCATCAACCAATCTCTTACCCCGA
*
17541124 GCCTGGGGCAGAT
66 GCCTAGGGCAGAT
17541137 TG
1 TG
17541139 TAGTTCTCCA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (78 bp):
TGAAGCCATTGGATCTTTTACCCCGAGCTCGGGGCAGATCATCATCAACCAATCTCTTACCCCGA
GCCTAGGGCAGAT
Found at i:17541552 original size:17 final size:17
Alignment explanation
Indices: 17541504--17541563 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
17541494 AACTTTTAAT
*
17541504 TTTTAAATTTGAATTCA
1 TTTTAAATTTGAATTTA
* * * *
17541521 TGTTGAGTTTAAATTTA
1 TTTTAAATTTGAATTTA
17541538 TTTTAAATTTGAATTTA
1 TTTTAAATTTGAATTTA
*
17541555 TTTTGAATT
1 TTTTAAATT
17541564 AAAAATTATT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.57
Consensus pattern (17 bp):
TTTTAAATTTGAATTTA
Found at i:17541573 original size:34 final size:34
Alignment explanation
Indices: 17541504--17541573 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
17541494 AACTTTTAAT
* * *
17541504 TTTTAAATTTGAATTCATGTTGAGTTTAAATTTA
1 TTTTAAATTTGAATTCATGTTGAATTAAAAATTA
* *
17541538 TTTTAAATTTGAATTTATTTTGAATTAAAAATTA
1 TTTTAAATTTGAATTCATGTTGAATTAAAAATTA
17541572 TT
1 TT
17541574 AATATTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.36, C:0.01, G:0.09, T:0.54
Consensus pattern (34 bp):
TTTTAAATTTGAATTCATGTTGAATTAAAAATTA
Found at i:17542348 original size:20 final size:21
Alignment explanation
Indices: 17542296--17542355 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
17542286 AATGAATACA
*
17542296 TATTAA-ATATATTAAATAATTC
1 TATTAACA-ATATT-AATAAGTC
17542318 TATTAACAATATTAATAAGTC
1 TATTAACAATATTAATAAGTC
* *
17542339 T-TTAATAATAATAATAA
1 TATTAACAATATTAATAA
17542356 TAATTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 14 0.41
21 8 0.24
22 11 0.32
23 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (21 bp):
TATTAACAATATTAATAAGTC
Found at i:17543482 original size:29 final size:29
Alignment explanation
Indices: 17543398--17543556 Score: 112
Period size: 30 Copynumber: 5.4 Consensus size: 29
17543388 AAATATTATA
* * *
17543398 TTTTGACCCCCAAACTTCTCTAAAATTATAT
1 TTTTG-CCCTCAAACTT-TCCAAAATTACAT
* *
17543429 TTTTACCCTCAAACTTTCTTAAAATTACAT
1 TTTTGCCCTCAAACTTTC-CAAAATTACAT
*
17543459 TTTTGCCCTCAAACTTTCCAAAATTCCA-
1 TTTTGCCCTCAAACTTTCCAAAATTACAT
*
17543487 TTTTGACCCT--AATTTCTCCAAAATTACCA-
1 TTTTG-CCCTCAAACTT-TCCAAAATTA-CAT
* * * *
17543516 TTTTACCCTCGAA-TTTCCAAAAACTCCAT
1 TTTTGCCCTCAAACTTTCC-AAAATTACAT
*
17543545 TTTTGACCTCAA
1 TTTTGCCCTCAA
17543557 TTTTTCTAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
27 4 0.04
28 23 0.22
29 36 0.34
30 39 0.37
31 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.38
Consensus pattern (29 bp):
TTTTGCCCTCAAACTTTCCAAAATTACAT
Found at i:17543506 original size:28 final size:28
Alignment explanation
Indices: 17543429--17543723 Score: 146
Period size: 29 Copynumber: 10.1 Consensus size: 28
17543419 AAAATTATAT
* *
17543429 TTTTACCCTCAAACTTTCT-TAAAATTACA
1 TTTTACCCTC-AA-TTTCTCAAAAATTCCA
*
17543458 TTTTTGCCCTCAAACTTTC-C-AAAATTCCA
1 -TTTTACCCTC-AA-TTTCTCAAAAATTCCA
*
17543487 TTTTGACCCT-AATTTCTCCAAAATTACCA
1 TTTT-ACCCTCAATTTCTCAAAAATT-CCA
*
17543516 TTTTACCCTCGAATTTC-CAAAAACTCCA
1 TTTTACCCTC-AATTTCTCAAAAATTCCA
*
17543544 TTTTTGA-CCTCAATTTTTCTAAAAATTACCA
1 -TTTT-ACCCTCAATTTCTC-AAAAATT-CCA
* *
17543575 TTTTACCCCTGAATATCT-AAAAATTCCA
1 TTTTA-CCCTCAATTTCTCAAAAATTCCA
*
17543603 TTTTAACCC-CAAAACTTC-CAAAAATTACCA
1 TTTT-ACCCTC--AATTTCTCAAAAATT-CCA
* * *
17543633 TTTTGCCCCCGAATGTC-CAAAAATTCCA
1 TTTTACCCTC-AATTTCTCAAAAATTCCA
* *
17543661 TTTTTAACCTTCAAACTTC-CAAAAATTACCA
1 -TTTT-ACCCTC-AATTTCTCAAAAATT-CCA
* * *
17543692 TTTTACCCTCGGATGTCT-AAAAATTCCG
1 TTTTACCCTC-AATTTCTCAAAAATTCCA
17543720 TTTT
1 TTTT
17543724 TAAATTTGAA
Statistics
Matches: 212, Mismatches: 29, Indels: 50
0.73 0.10 0.17
Matches are distributed among these distances:
26 4 0.02
27 3 0.01
28 42 0.20
29 88 0.42
30 61 0.29
31 14 0.07
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (28 bp):
TTTTACCCTCAATTTCTCAAAAATTCCA
Found at i:17543577 original size:59 final size:58
Alignment explanation
Indices: 17543427--17543829 Score: 327
Period size: 59 Copynumber: 6.9 Consensus size: 58
17543417 CTAAAATTAT
* ** * * *
17543427 ATTTTTACCCTCAAACTTTCTTAAAATTA-CATTTTTGCCCTCAAACTTTCC-AAAATTCC
1 ATTTTTAACCTCAAAC-TTCCAAAAATTACCA-TTTTACCCTCGAA-TGTCCAAAAATTCC
* * * * * *
17543486 A-TTTTGACC-CTAATTTCTCCAAAATTACCATTTTACCCTCGAATTTCCAAAAACTCC
1 ATTTTTAACCTCAAACTTC-CAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTCC
* ** * * *
17543543 ATTTTTGACCTCAATTTTTCTAAAAATTACCATTTTACCC-CTGAATATCTAAAAATTCC
1 ATTTTTAACCTCAA-ACTTCCAAAAATTACCATTTTACCCTC-GAATGTCCAAAAATTCC
* * *
17543602 A-TTTTAACCCCAAAACTTCCAAAAATTACCATTTTGCCCCCGAATGTCCAAAAATTCC
1 ATTTTTAACCTC-AAACTTCCAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTCC
* *
17543660 ATTTTTAACCTTCAAACTTCCAAAAATTACCATTTTACCCTCGGATGTCTAAAAATTCC
1 ATTTTTAACC-TCAAACTTCCAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTCC
* ** * * * * *
17543719 GTTTTTAAATTTGAACCTTCCAAAAATTACCATTTTACCCCCGGATGTCTAAAAATTCC
1 ATTTTT-AACCTCAAACTTCCAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTCC
* * * * * *
17543778 ATTTTTGACCCCGAACCTTCC-AAAATTACCATTTTGCCC-CGAGTGTCTAAAA
1 ATTTTTAACCTC-AAACTTCCAAAAATTACCATTTTACCCTCGAATGTCCAAAA
17543830 TTACTATTTT
Statistics
Matches: 287, Mismatches: 44, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
56 8 0.03
57 40 0.14
58 80 0.28
59 152 0.53
60 7 0.02
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (58 bp):
ATTTTTAACCTCAAACTTCCAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTCC
Found at i:17543593 original size:29 final size:29
Alignment explanation
Indices: 17543561--17543844 Score: 144
Period size: 29 Copynumber: 9.8 Consensus size: 29
17543551 CCTCAATTTT
*
17543561 TCTAAAAATTACCATTTTACCCCTGAATA
1 TCTAAAAATTACCATTTTACCCCTGAATG
**
17543590 TCTAAAAATT-CCATTTTAACCCCAAAACT-
1 TCTAAAAATTACCATTTT-ACCCCTGAA-TG
* * *
17543619 TCCAAAAATTACCATTTTGCCCCCGAATG
1 TCTAAAAATTACCATTTTACCCCTGAATG
* * * *
17543648 TCCAAAAATT-CCATTTTTAACCTTCAAACT-
1 TCTAAAAATTACCA-TTTTACCCCT-GAA-TG
* *
17543678 TCCAAAAATTACCATTTTA-CCCTCGGATG
1 TCTAAAAATTACCATTTTACCCCT-GAATG
* ****
17543707 TCTAAAAATT-CCGTTTTTAAATTTGAACCT-
1 TCTAAAAATTACC-ATTTTACCCCTGAA--TG
* * *
17543737 TCCAAAAATTACCATTTTACCCCCGGATG
1 TCTAAAAATTACCATTTTACCCCTGAATG
17543766 TCTAAAAATT-CCATTTTTGACCCC-GAACCT-
1 TCTAAAAATTACCA-TTTT-ACCCCTGAA--TG
* * *
17543796 TC-CAAAATTACCATTTTGCCCC-GAGTG
1 TCTAAAAATTACCATTTTACCCCTGAATG
*
17543823 TCT-AAAATTACTATTTTACCCC
1 TCTAAAAATTACCATTTTACCCC
17543845 CAAGTATCCA
Statistics
Matches: 198, Mismatches: 35, Indels: 46
0.71 0.13 0.16
Matches are distributed among these distances:
26 1 0.01
27 19 0.10
28 24 0.12
29 94 0.47
30 52 0.26
31 8 0.04
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (29 bp):
TCTAAAAATTACCATTTTACCCCTGAATG
Found at i:17543664 original size:117 final size:118
Alignment explanation
Indices: 17543506--17543829 Score: 363
Period size: 117 Copynumber: 2.8 Consensus size: 118
17543496 TAATTTCTCC
* * * ** *
17543506 AAAATTACCATTTTACCCTCGAATTTCCAAAAACTCCATTTTTGACC-TCAATTTTTCTAAAAAT
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTGACCTTCAA-ACTTCCAAAAAT
*
17543570 TACCATTTTACCC-CTGAATATCTAAAAATTCC-ATTTTAACCCCAAAACTTCCA
65 TACCATTTTACCCTC-GAATATCTAAAAATTCCGATTTTAAACCCAAAACTTCCA
* *
17543623 AAAATTACCATTTTGCCCCCGAATGTCCAAAAATTCCATTTTTAACCTTCAAACTTCCAAAAATT
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTGACCTTCAAACTTCCAAAAATT
* * * **** *
17543688 ACCATTTTACCCTCGGATGTCTAAAAATTCCGTTTTTAAATTTGAACCTTCCA
66 ACCATTTTACCCTCGAATATCTAAAAATTCCGATTTTAAACCCAAAACTTCCA
* * * *
17543741 AAAATTACCATTTTACCCCCGGATGTCTAAAAATTCCATTTTTGACC-CCGAACCTTCC-AAAAT
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTGACCTTC-AAACTTCCAAAAAT
* * *
17543804 TACCATTTTGCCC-CGAGTGTCTAAAA
65 TACCATTTTACCCTCGAATATCTAAAA
17543830 TTACTATTTT
Statistics
Matches: 177, Mismatches: 26, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
116 11 0.06
117 97 0.55
118 69 0.39
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.34
Consensus pattern (118 bp):
AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTGACCTTCAAACTTCCAAAAATT
ACCATTTTACCCTCGAATATCTAAAAATTCCGATTTTAAACCCAAAACTTCCA
Found at i:17548227 original size:52 final size:52
Alignment explanation
Indices: 17548149--17548323 Score: 296
Period size: 52 Copynumber: 3.4 Consensus size: 52
17548139 TAGTAAAGAA
* *
17548149 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTATAATCCGTGAAGG
1 ATTCATGTACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGG
* * *
17548201 ATTCATGTACTCATGATAACACTTAGTCATCGGACCTTATAACCCATGAAGG
1 ATTCATGTACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGG
17548253 ATTCATGTACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGG
1 ATTCATGTACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGG
*
17548305 ATTCATGTACTCATGATGA
1 ATTCATGTACTCACGATGA
17548324 AAGGTAGTCA
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 114 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (52 bp):
ATTCATGTACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGG
Found at i:17549251 original size:20 final size:21
Alignment explanation
Indices: 17549208--17549251 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
17549198 ACTTTCATCA
* *
17549208 TTAAGCTTTAGTTAAACATTT
1 TTAACCTTTAGTTAAACATAT
*
17549229 TTAACCTTTA-TTAAACCTAT
1 TTAACCTTTAGTTAAACATAT
17549249 TTA
1 TTA
17549252 TAATCAATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.48
Consensus pattern (21 bp):
TTAACCTTTAGTTAAACATAT
Found at i:17549733 original size:21 final size:21
Alignment explanation
Indices: 17549707--17549764 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
17549697 ATGGTCTACG
*
17549707 CACACGACTGTGTACCTCAAC
1 CACACGGCTGTGTACCTCAAC
*
17549728 CACACGGGTGTGT-CTCTCAAC
1 CACACGGCTGTGTAC-CTCAAC
*
17549749 CACACGGCCGTGTACC
1 CACACGGCTGTGTACC
17549765 CCTGCCACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.22, C:0.38, G:0.21, T:0.19
Consensus pattern (21 bp):
CACACGGCTGTGTACCTCAAC
Done.