Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 46 of 211
Found at i:12203385 original size:7 final size:7
Alignment explanation
Indices: 12203375--12203405 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
12203365 GATTTAAGGT
12203375 TTAGGGG
1 TTAGGGG
*
12203382 TTAGGAG
1 TTAGGGG
12203389 TTAGGGG
1 TTAGGGG
12203396 TTAGGGG
1 TTAGGGG
12203403 TTA
1 TTA
12203406 AGAGTTAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:12204075 original size:16 final size:16
Alignment explanation
Indices: 12204054--12204118 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
12204044 TTCGCTGTAT
12204054 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
12204070 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
12204086 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
*
12204102 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
12204118 T
1 T
12204119 AGCAAATCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.37, C:0.03, G:0.37, T:0.23
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:12204164 original size:45 final size:44
Alignment explanation
Indices: 12204097--12204187 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 44
12204087 GGAATAGAGG
* **
12204097 TGTAATGGAATAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGCAATAGAGGCATAATAG-AAATC-ATGTGTTTGGTTGAA
* *
12204142 TGTAATGCAATAGAGGCATAATAGTATTCATGTGTTTGGTTGAA
1 TGTAATGCAATAGAGGCATAATAGAAATCATGTGTTTGGTTGAA
12204186 TG
1 TG
12204188 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
43 2 0.05
44 17 0.43
45 21 0.52
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (44 bp):
TGTAATGCAATAGAGGCATAATAGAAATCATGTGTTTGGTTGAA
Found at i:12204204 original size:39 final size:40
Alignment explanation
Indices: 12204100--12204206 Score: 110
Period size: 44 Copynumber: 2.6 Consensus size: 40
12204090 ATAGAGGTGT
12204100 AATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTTG
1 AATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTTG
** * *
12204140 AATGTAATGCAATAGAGGCATAATAG-TATTC-ATGTGTTTGGTTG
1 AATG----G-AATAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTG
12204184 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
12204207 TAATGGAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
39 14 0.26
40 5 0.09
43 2 0.04
44 18 0.34
45 14 0.26
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (40 bp):
AATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTTG
Found at i:12204370 original size:16 final size:16
Alignment explanation
Indices: 12204333--12204374 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12204323 TTAATCATAT
*
12204333 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
12204349 TT-AAATATATTATAA
1 TTAAAATATATTATAA
12204364 TTAAAATATAT
1 TTAAAATATAT
12204375 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:12204381 original size:14 final size:15
Alignment explanation
Indices: 12204342--12204383 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12204332 TTTAAACATA
*
12204342 ATTATTATTAAATAT
1 ATTATAATTAAATAT
12204357 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
12204371 A-TATAATTTAATA
1 ATTATAATTAAATA
12204384 AAATTCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:12204434 original size:61 final size:61
Alignment explanation
Indices: 12204362--12204555 Score: 193
Period size: 61 Copynumber: 3.2 Consensus size: 61
12204352 AATATATTAT
*
12204362 AATTAAAATATATAATTTAATAAAATTCTTTATAATCAATATTCTTATATGAATTTACTCA
1 AATTATAATATATAATTTAATAAAATTCTTTATAATCAATATTCTTATATGAATTTACTCA
* * * ** * * * *
12204423 AATCATAATATATGATACT-ATAAAATATAATT-TAA-C-ATAATTATTAT-TAAATATA-TTA
1 AATTATAATATATAAT-TTAATAAAAT-TCTTTATAATCAAT-ATTCTTATATGAATTTACTCA
* * *
12204481 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
1 -AATTATAATATATAATTTAATAAAATTCTTTATAATCAATATTCTTATATGAATTTACTCA
12204543 AATTATAATATAT
1 AATTATAATATAT
12204556 GATACTATAA
Statistics
Matches: 100, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
58 5 0.05
59 31 0.31
60 15 0.15
61 43 0.43
62 6 0.06
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (61 bp):
AATTATAATATATAATTTAATAAAATTCTTTATAATCAATATTCTTATATGAATTTACTCA
Found at i:12204481 original size:120 final size:120
Alignment explanation
Indices: 12204331--12204588 Score: 471
Period size: 120 Copynumber: 2.1 Consensus size: 120
12204321 ATTTAATCAT
*
12204331 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTTATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
12204396 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
12204452 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
12204517 TTAATATTCTTATATGAATTTACTCAAATTATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
12204572 ATTTAACATAATTATTA
1 ATTTAACATAATTATTA
12204589 GACAACTGCC
Statistics
Matches: 133, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
120 129 0.97
121 4 0.03
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:12204492 original size:16 final size:16
Alignment explanation
Indices: 12204448--12204494 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
12204438 TACTATAAAA
*
12204448 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
12204464 TATTATT-AAATATAT
1 TATAATTAAAATATAT
12204479 TATAATTAAAATATAT
1 TATAATTAAAATATAT
12204495 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:12207722 original size:23 final size:20
Alignment explanation
Indices: 12207705--12207742 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12207695 AAGAAACAGA
12207705 GGGAGCAAATCGGCAGAAAC
1 GGGAGCAAATCGGCAGAAAC
*
12207725 TGGAGCAAATCGGCAGAA
1 GGGAGCAAATCGGCAGAA
12207743 GCAAAAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.34, T:0.08
Consensus pattern (20 bp):
GGGAGCAAATCGGCAGAAAC
Found at i:12218183 original size:42 final size:42
Alignment explanation
Indices: 12218045--12218271 Score: 275
Period size: 42 Copynumber: 5.5 Consensus size: 42
12218035 TTTAAACAGA
* * * *
12218045 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTGAT-TCAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATAT-TGT
* * * *
12218086 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGT
12218127 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* *
12218169 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
12218211 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* * *
12218253 TTCACTGGCAATAAACCTG
1 TTCACCGGCATTAAGCCTG
12218272 ATAGGCACTG
Statistics
Matches: 164, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
40 3 0.02
41 61 0.37
42 100 0.61
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
Found at i:12222280 original size:43 final size:43
Alignment explanation
Indices: 12222219--12222314 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
12222209 TTTTTAATAA
* * *
12222219 TTGGTAAAGCGCCGCTAAAGGTCATGTTTTTTAGCGACGTTTG
1 TTGGTAAAGCACCGCTAAAGCTCATGTTCTTTAGCGACGTTTG
* *
12222262 TTGGTAAAGTACCGCTAAAGCTCATGTTCTTTAGCGGCGTTTG
1 TTGGTAAAGCACCGCTAAAGCTCATGTTCTTTAGCGACGTTTG
*
12222305 -TGGAAAAGCA
1 TTGGTAAAGCA
12222315 TGTTCTTTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 8 0.17
43 38 0.83
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TTGGTAAAGCACCGCTAAAGCTCATGTTCTTTAGCGACGTTTG
Found at i:12224808 original size:30 final size:30
Alignment explanation
Indices: 12224774--12224837 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
12224764 AATGTATATC
* * * *
12224774 TTTATTATTTTTATAAGATTAAATTAAATT
1 TTTATTATTTTTAAAAAATTAAAATAAAAT
*
12224804 TTTA-TCTTTTTAAAAAATTAAAATAAAAT
1 TTTATTATTTTTAAAAAATTAAAATAAAAT
12224833 TTTAT
1 TTTAT
12224838 GGTTTCTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (30 bp):
TTTATTATTTTTAAAAAATTAAAATAAAAT
Found at i:12224814 original size:29 final size:29
Alignment explanation
Indices: 12224781--12224837 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
12224771 ATCTTTATTA
* * * *
12224781 TTTTTATAAGATTAAATTAAATTTTTATC
1 TTTTTAAAAAATTAAAATAAAATTTTATC
12224810 TTTTTAAAAAATTAAAATAAAATTTTAT
1 TTTTTAAAAAATTAAAATAAAATTTTAT
12224838 GGTTTCTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (29 bp):
TTTTTAAAAAATTAAAATAAAATTTTATC
Found at i:12229136 original size:28 final size:28
Alignment explanation
Indices: 12229096--12229153 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
12229086 GTAATCATCT
12229096 CATCCAGAGTTACTAAATATATTTGAGA
1 CATCCAGAGTTACTAAATATATTTGAGA
12229124 CATCCAGAGTTACTAAATATATTTGAGA
1 CATCCAGAGTTACTAAATATATTTGAGA
12229152 CA
1 CA
12229154 GGGGTGAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (28 bp):
CATCCAGAGTTACTAAATATATTTGAGA
Found at i:12229333 original size:32 final size:31
Alignment explanation
Indices: 12229297--12229365 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
12229287 ACTAATTTAA
*
12229297 AATTTTAAAATTTTTTAAAAGGCCTAAATAGT-
1 AATTTT-AAATTCTTTAAAAGGCCTAAATA-TC
** *
12229329 AATTTTCCATTCTTTAAAGGGCCTAAATATC
1 AATTTTAAATTCTTTAAAAGGCCTAAATATC
12229360 AATTTT
1 AATTTT
12229366 CTATTTTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 1 0.03
31 25 0.78
32 6 0.19
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (31 bp):
AATTTTAAATTCTTTAAAAGGCCTAAATATC
Found at i:12232096 original size:18 final size:18
Alignment explanation
Indices: 12232073--12232114 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
12232063 GTAAAAAAAC
12232073 TTTTAAACATTAAAT-ATA
1 TTTTAAACA-TAAATAATA
*
12232091 TTTT-AATATAAATAATA
1 TTTTAAACATAAATAATA
12232108 TTTTAAA
1 TTTTAAA
12232115 TTGATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 10 0.48
18 6 0.29
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTTAAACATAAATAATA
Found at i:12251927 original size:14 final size:14
Alignment explanation
Indices: 12251904--12251943 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
12251894 ACAAAAAAGT
*
12251904 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
12251918 AAATCATTTTACGG
1 AAAACATTTTACAG
12251932 AAAACATTTTAC
1 AAAACATTTTAC
12251944 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:12254528 original size:20 final size:21
Alignment explanation
Indices: 12254503--12254545 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
12254493 CACATTAGTG
12254503 AACAAATATGAATAT-AAATA
1 AACAAATATGAATATGAAATA
**
12254523 AACAAATATTTATATGAAATA
1 AACAAATATGAATATGAAATA
12254544 AA
1 AA
12254546 ATAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (21 bp):
AACAAATATGAATATGAAATA
Found at i:12254554 original size:22 final size:20
Alignment explanation
Indices: 12254503--12254559 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 20
12254493 CACATTAGTG
**
12254503 AACAAATATGAATATAAATA
1 AACAAATATTTATATAAATA
12254523 AACAAATATTTATATGAAATAA
1 AACAAATATTTATAT-AAAT-A
*
12254545 AATAAATATTTATAT
1 AACAAATATTTATAT
12254560 TTAAAATATC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 13 0.41
21 4 0.12
22 15 0.47
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
AACAAATATTTATATAAATA
Found at i:12255007 original size:20 final size:20
Alignment explanation
Indices: 12254984--12255024 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12254974 TTAAATCAAT
*
12254984 TTGATTAAAATCAAATAAAA
1 TTGATTAAAATAAAATAAAA
**
12255004 TTGATTGGAATAAAATAAAA
1 TTGATTAAAATAAAATAAAA
12255024 T
1 T
12255025 CAAATAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
TTGATTAAAATAAAATAAAA
Found at i:12255025 original size:30 final size:30
Alignment explanation
Indices: 12254989--12255056 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
12254979 TCAATTTGAT
*
12254989 TAAAATCAAATAAAATTGATTGGAATAAAA
1 TAAAATCAAATAAAATAGATTGGAATAAAA
*
12255019 TAAAATCAAATAAAATAGATTGGAATCAAA
1 TAAAATCAAATAAAATAGATTGGAATAAAA
12255049 TAAAATCA
1 TAAAATCA
12255057 GGATACATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.25
Consensus pattern (30 bp):
TAAAATCAAATAAAATAGATTGGAATAAAA
Found at i:12255035 original size:20 final size:20
Alignment explanation
Indices: 12255012--12255054 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
12255002 AATTGATTGG
12255012 AATAAAATAAAATCAAATAA
1 AATAAAATAAAATCAAATAA
* * **
12255032 AATAGATTGGAATCAAATAA
1 AATAAAATAAAATCAAATAA
12255052 AAT
1 AAT
12255055 CAGGATACAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (20 bp):
AATAAAATAAAATCAAATAA
Found at i:12256008 original size:11 final size:11
Alignment explanation
Indices: 12255972--12256010 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
12255962 ATTTTTTTAA
12255972 TTTTAAAATAT
1 TTTTAAAATAT
*
12255983 TTGTAAAATACT
1 TTTTAAAATA-T
*
12255995 TTTTAAAATTT
1 TTTTAAAATAT
12256006 TTTTA
1 TTTTA
12256011 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:12259912 original size:27 final size:30
Alignment explanation
Indices: 12259882--12259949 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
12259872 TGTAGATATT
12259882 TTTTATAAT-AT-ACTTTTTTTTG-TAAAA
1 TTTTATAATAATAACTTTTTTTTGTTAAAA
* *
12259909 TTTTA-AATAATAATTTTTTTTTGTTATAA
1 TTTTATAATAATAACTTTTTTTTGTTAAAA
12259938 TTTTATAA-AATA
1 TTTTATAATAATA
12259950 GACATTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 3 0.09
27 7 0.20
28 10 0.29
29 13 0.37
30 2 0.06
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (30 bp):
TTTTATAATAATAACTTTTTTTTGTTAAAA
Found at i:12277608 original size:11 final size:11
Alignment explanation
Indices: 12277592--12277616 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12277582 TCAATCTCTA
12277592 TTTATGGTCAC
1 TTTATGGTCAC
12277603 TTTATGGTCAC
1 TTTATGGTCAC
12277614 TTT
1 TTT
12277617 GCATAATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTATGGTCAC
Found at i:12289671 original size:14 final size:13
Alignment explanation
Indices: 12289645--12289669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12289635 GTTCTTTATT
12289645 AATTTATTTTTTA
1 AATTTATTTTTTA
12289658 AATTTATTTTTT
1 AATTTATTTTTT
12289670 TATTTTGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
AATTTATTTTTTA
Found at i:12290831 original size:23 final size:23
Alignment explanation
Indices: 12290782--12290831 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
12290772 ATAATAGTGT
* * *
12290782 ATAAAATAATTAATGTATTTAAT
1 ATAAAATAATTAATGCATTCAAA
*
12290805 ATAAAATACTTAATGCATTCAAA
1 ATAAAATAATTAATGCATTCAAA
12290828 ATAA
1 ATAA
12290832 TACTTATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (23 bp):
ATAAAATAATTAATGCATTCAAA
Found at i:12300206 original size:13 final size:13
Alignment explanation
Indices: 12300188--12300212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12300178 ATTTCATGAG
12300188 GTGAAAAGAAAAC
1 GTGAAAAGAAAAC
12300201 GTGAAAAGAAAA
1 GTGAAAAGAAAA
12300213 AGGAGGCAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.24, T:0.08
Consensus pattern (13 bp):
GTGAAAAGAAAAC
Found at i:12307539 original size:25 final size:25
Alignment explanation
Indices: 12307505--12307555 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
12307495 GACAAGACAA
12307505 CATAGGATGTTTGTTTTACTACGTT
1 CATAGGATGTTTGTTTTACTACGTT
*
12307530 CATAGGATGTTTGTTTTAGTACGTT
1 CATAGGATGTTTGTTTTACTACGTT
12307555 C
1 C
12307556 TTTCTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.47
Consensus pattern (25 bp):
CATAGGATGTTTGTTTTACTACGTT
Found at i:12310064 original size:21 final size:21
Alignment explanation
Indices: 12310022--12310064 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
12310012 TTTACCTGGG
* *
12310022 CCCAAAACTAAATAAATAAAA
1 CCCAAAACTAAAAAAAAAAAA
12310043 CCCAAAA-TAAAAAAAAATAAA
1 CCCAAAACTAAAAAAAAA-AAA
12310064 C
1 C
12310065 ATTCCATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.70, C:0.19, G:0.00, T:0.12
Consensus pattern (21 bp):
CCCAAAACTAAAAAAAAAAAA
Found at i:12311356 original size:16 final size:16
Alignment explanation
Indices: 12311337--12311370 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12311327 TTTTTAACAG
* *
12311337 TTTTATATTTTATTTA
1 TTTTAAATTTTATATA
12311353 TTTTAAATTTTATATA
1 TTTTAAATTTTATATA
12311369 TT
1 TT
12311371 ATTTATATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAAATTTTATATA
Found at i:12311379 original size:25 final size:26
Alignment explanation
Indices: 12311314--12311379 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
12311304 GTTTAATTTC
12311314 TTTATATA-TATTAT-TTTTAACAGT
1 TTTATATATTATTATATTTTAACAGT
*
12311338 TTTATATTTTATT-TATTTTAA-A-T
1 TTTATATATTATTATATTTTAACAGT
12311361 TTTATATATTATTTATATT
1 TTTATATATTA-TTATATT
12311380 ATACTATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
23 11 0.31
24 11 0.31
25 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTATATATTATTATATTTTAACAGT
Found at i:12311446 original size:26 final size:26
Alignment explanation
Indices: 12311314--12311649 Score: 180
Period size: 26 Copynumber: 13.4 Consensus size: 26
12311304 GTTTAATTTC
* *
12311314 TTTATATA-TA-TTATTTTTAACAGT
1 TTTATATATTATTTATTTTAAACTGT
*
12311338 TTTATATTTTATTTATTTTAAA---T
1 TTTATATATTATTTATTTTAAACTGT
* * *
12311361 TTTATATATTATTTATATTATACT-A
1 TTTATATATTATTTATTTTAAACTGT
** * *
12311386 TTT-GGTATTATTTATTTCAAATTGT
1 TTTATATATTATTTATTTTAAACTGT
* ** * *
12311411 TTCACGTATTATTTATTTTGAACTGC
1 TTTATATATTATTTATTTTAAACTGT
*
12311437 TTTATATATTATTTTTATCTTAAACTGT
1 TTTATATATTA--TTTATTTTAAACTGT
* * * *
12311465 TATATAT-TTATTTATTTTAGATTTT
1 TTTATATATTATTTATTTTAAACTGT
* * *
12311490 TTTACATATTATTTCTTTTAAACTAT
1 TTTATATATTATTTATTTTAAACTGT
* * * * *
12311516 TTTATGTAATGTTTATTTTAAATTGC
1 TTTATATATTATTTATTTTAAACTGT
* *
12311542 TTTA-A-ATTATTTATTTCAAACTAT
1 TTTATATATTATTTATTTTAAACTGT
* * * *
12311566 TTTATATTTTATTTATGTT-AATTTT
1 TTTATATATTATTTATTTTAAACTGT
* * *
12311591 TTTACAT-TTTTTTATTTTGAACCT-T
1 TTTATATATTATTTATTTT-AAACTGT
* * *
12311616 TTTTTGTATTATTTATTTTAAAAT-T
1 TTTATATATTATTTATTTTAAACTGT
12311641 TTTAT-TATT
1 TTTATATATT
12311650 TACTTTAAAT
Statistics
Matches: 230, Mismatches: 68, Indels: 28
0.71 0.21 0.09
Matches are distributed among these distances:
23 20 0.09
24 51 0.22
25 47 0.20
26 91 0.40
27 3 0.01
28 18 0.08
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTATATATTATTTATTTTAAACTGT
Found at i:12311573 original size:101 final size:103
Alignment explanation
Indices: 12311420--12311637 Score: 250
Period size: 100 Copynumber: 2.1 Consensus size: 103
12311410 TTTCACGTAT
* * *
12311420 TATTTATTTTGAACTGCTTTATATATTATTTTTATCTTAAACTGTTATATA-TTTATTTATTTTA
1 TATTTATTTTAAACTGCTTTATATATTATTTTTATC-TAAACTATTATATATTTTATTTATGTTA
*
12311484 GATTTTTTTACATATTATTTCTTTT-AAACTATTTTATGTAA
65 -ATTTTTTTACAT-TTATTTATTTTGAAACT-TTTTATGTAA
* * *
12311525 TGTTTATTTTAAATTGCTTTA-A-ATTATTTATT-TC-AAACTATTTTATATTTTATTTATGTTA
1 TATTTATTTTAAACTGCTTTATATATTATTT-TTATCTAAACTATTATATATTTTATTTATGTTA
* * * *
12311586 ATTTTTTTACATTTTTTTATTTTGAACCTTTTTTTGTAT
65 ATTTTTTTACATTTATTTATTTTGAAACTTTTTATGTAA
12311625 TATTTATTTTAAA
1 TATTTATTTTAAA
12311638 ATTTTTATTA
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
100 29 0.30
101 27 0.28
102 12 0.12
103 9 0.09
104 3 0.03
105 18 0.18
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.62
Consensus pattern (103 bp):
TATTTATTTTAAACTGCTTTATATATTATTTTTATCTAAACTATTATATATTTTATTTATGTTAA
TTTTTTTACATTTATTTATTTTGAAACTTTTTATGTAA
Found at i:12311605 original size:50 final size:50
Alignment explanation
Indices: 12311464--12311607 Score: 146
Period size: 50 Copynumber: 2.8 Consensus size: 50
12311454 TCTTAAACTG
* *
12311464 TTATATATTTATTTATTTTAGATTTTTTTACATATTATTTCTTTTAAACTATT
1 TTATAT-TTTATTTATTTTA-ATTTTTTTACAT-TTATTTATTTCAAACTATT
* ** * ** *
12311517 TTATGTAATGTTTATTTTAAATTGCTTTA-AATTATTTATTTCAAACTATT
1 TTATATTTTATTTATTTT-AATTTTTTTACATTTATTTATTTCAAACTATT
* *
12311567 TTATATTTTATTTATGTTAATTTTTTTACATTTTTTTATTT
1 TTATATTTTATTTATTTTAATTTTTTTACATTTATTTATTT
12311608 TGAACCTTTT
Statistics
Matches: 71, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
49 8 0.11
50 40 0.56
51 1 0.01
52 16 0.23
53 6 0.08
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (50 bp):
TTATATTTTATTTATTTTAATTTTTTTACATTTATTTATTTCAAACTATT
Found at i:12311640 original size:101 final size:104
Alignment explanation
Indices: 12311391--12311637 Score: 265
Period size: 105 Copynumber: 2.4 Consensus size: 104
12311381 TACTATTTGG
* * * * * * *
12311391 TATTATTTATTTCAAATTGTTTCACGTATTATTTATTTTGAACTGCTTTATATATTATTTTTATC
1 TATTATTTATTTTAAACTATTTTATGTATTATTTATTTTAAATTGCTTTATATATTATTTTTATC
* *
12311456 TTAAACTGTTATATATTTATTTATTTTAGATTTTTTTACA
66 -TAAACTATTATATATTTATTTATGTTAGATTTTTTTACA
* * *
12311496 TATTATTTCTTTTAAACTATTTTATGTAATGTTTATTTTAAATTGCTTTA-A-ATTATTTATT-T
1 TATTATTTATTTTAAACTATTTTATGTATTATTTATTTTAAATTGCTTTATATATTATTT-TTAT
*
12311558 C-AAACTATTTTATATTTTATTTATGTTA-ATTTTTTTACA
65 CTAAACTATTATATA-TTTATTTATGTTAGATTTTTTTACA
* * *
12311597 T-TTTTTTATTTTGAACCT-TTTTTTGTATTATTTATTTTAAA
1 TATTATTTATTTT-AAACTATTTTATGTATTATTTATTTTAAA
12311638 ATTTTTATTA
Statistics
Matches: 120, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
100 29 0.24
101 27 0.22
102 12 0.10
103 9 0.08
104 3 0.03
105 40 0.33
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (104 bp):
TATTATTTATTTTAAACTATTTTATGTATTATTTATTTTAAATTGCTTTATATATTATTTTTATC
TAAACTATTATATATTTATTTATGTTAGATTTTTTTACA
Found at i:12311648 original size:21 final size:21
Alignment explanation
Indices: 12311617--12311679 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
12311607 TTGAACCTTT
12311617 TTTTGTATTATTTATTTTAAAA
1 TTTT-TATTATTTATTTTAAAA
* *
12311639 TTTTTATTATTTACTTTAAAT
1 TTTTTATTATTTATTTTAAAA
*
12311660 TTTTTTTGTATATTATTTTA
1 TTTTTAT-TAT-TTATTTTA
12311680 TTTCATTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 21 0.60
22 7 0.20
23 7 0.20
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTTTATTATTTATTTTAAAA
Found at i:12314421 original size:16 final size:16
Alignment explanation
Indices: 12314400--12314435 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12314390 TGAATTATTA
12314400 ATTACAATTCTATTCC
1 ATTACAATTCTATTCC
* *
12314416 ATTACAGTTCTATTTC
1 ATTACAATTCTATTCC
12314432 ATTA
1 ATTA
12314436 ATATCAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTACAATTCTATTCC
Found at i:12316691 original size:19 final size:19
Alignment explanation
Indices: 12316667--12316718 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 19
12316657 AATCATATCT
12316667 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
12316686 TCTAAGATTTCATATATCATA
1 TCTAAGATTGC--ATATCATA
12316707 TCTAAGATTGCA
1 TCTAAGATTGCA
12316719 CATCCTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 11 0.38
21 18 0.62
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12321047 original size:44 final size:45
Alignment explanation
Indices: 12320985--12321080 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 45
12320975 TCGTATATTC
* * *
12320985 TTTGA-TTCAGTATTTAAACATGTAATAACTGGTG-AAGCCAATG
1 TTTGAGTTCAGTATTTAAACAAGTAAGAACTGGTGAAAGCCAATA
* *
12321028 TTTGAGTTCTGTATTTAAACAAGTAAGAACTGGTGAAAGGCAATA
1 TTTGAGTTCAGTATTTAAACAAGTAAGAACTGGTGAAAGCCAATA
12321073 TTTGAGTT
1 TTTGAGTT
12321081 GAGAGAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 5 0.11
44 26 0.57
45 15 0.33
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.35
Consensus pattern (45 bp):
TTTGAGTTCAGTATTTAAACAAGTAAGAACTGGTGAAAGCCAATA
Found at i:12324232 original size:15 final size:15
Alignment explanation
Indices: 12324212--12324241 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12324202 ATAGCTTATA
12324212 GTACAAGTTAAATTT
1 GTACAAGTTAAATTT
*
12324227 GTACAATTTAAATTT
1 GTACAAGTTAAATTT
12324242 ATTTAATACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (15 bp):
GTACAAGTTAAATTT
Found at i:12324420 original size:31 final size:31
Alignment explanation
Indices: 12324319--12324426 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 31
12324309 AATCAGAAAA
* *
12324319 TGGTATCC-AAATTATATTATGTTTCT-TAAG
1 TGGTA-CCTAAATTATATTATGTTACTCAAAG
* * *
12324349 TTGGTACTTAAA-T-TATT-T-TTAATCACAAA
1 -TGGTACCTAAATTATATTATGTTACTCA-AAG
*
12324378 TGGTACTTAAATTATATTATGTTACTCAAAG
1 TGGTACCTAAATTATATTATGTTACTCAAAG
*
12324409 TGGTACCTAAATCATATT
1 TGGTACCTAAATTATATT
12324427 TCGTTACCCA
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
27 3 0.05
28 12 0.20
29 7 0.11
30 6 0.10
31 27 0.44
32 6 0.10
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (31 bp):
TGGTACCTAAATTATATTATGTTACTCAAAG
Found at i:12324433 original size:31 final size:30
Alignment explanation
Indices: 12324374--12324439 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
12324364 TTTTTAATCA
* * *
12324374 CAAATGGTACTTAAATTATATTATGTTACT
1 CAAATGGTACCTAAATCATATTATGTTACC
12324404 CAAAGTGGTACCTAAATCATATT-TCGTTACC
1 CAAA-TGGTACCTAAATCATATTAT-GTTACC
12324435 CAAAT
1 CAAAT
12324440 AACCTCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (30 bp):
CAAATGGTACCTAAATCATATTATGTTACC
Found at i:12324530 original size:21 final size:20
Alignment explanation
Indices: 12324498--12324539 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 20
12324488 TAGCACATTC
12324498 AAATTAAAATTAAAATATAAAA
1 AAATTAAAATT-AAAT-TAAAA
12324520 AAATT-AAATTAAATTAAAA
1 AAATTAAAATTAAATTAAAA
12324539 A
1 A
12324540 TTTTCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 4 0.20
21 5 0.25
22 5 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATTAAAATTAAATTAAAA
Found at i:12330867 original size:511 final size:511
Alignment explanation
Indices: 12329906--12330929 Score: 1958
Period size: 511 Copynumber: 2.0 Consensus size: 511
12329896 AATTTGGGTA
12329906 ATGAAGTATGATTCCGGGATTTCATAATGAGAGCTTTCTAACAAAGCTGTGACCCCACTGCATAA
1 ATGAAGTATGATTCCGGGATTTCATAATGAGAGCTTTCTAACAAAGCTGTGACCCCACTGCATAA
* *
12329971 CTGTGTGGTTGGACTTCCAGCTTCTTATTCTGTTCTAGCATGAATGAGAACAACTTTTAACCTCC
66 CTATGTGGTTGGACTTCCAGCTTCTTATTCTGTTCTAGCATGAATGAGAAAAACTTTTAACCTCC
*
12330036 AAGCACCTTCATCGATGTCGATAAACTCGGTATATAACTCAAGTATAGGTGGTTCAGTAGCATTA
131 AAGCACCTTCATCGACGTCGATAAACTCGGTATATAACTCAAGTATAGGTGGTTCAGTAGCATTA
*
12330101 TGCGTCTAGACCATTACACCGATCGCTATTGGGCTTATAACATTAAATATTTCATCTTTTACGGG
196 TGCGTCTAGACCATTACACCGATCGCTATTGGGCCTATAACATTAAATATTTCATCTTTTACGGG
12330166 GTTCTCTGACGCTAAATATCTATACTTCAACGACTATATTCTGTGGCTTGAATTGCGCATTTTCC
261 GTTCTCTGACGCTAAATATCTATACTTCAACGACTATATTCTGTGGCTTGAATTGCGCATTTTCC
*
12330231 ACCTAATTCTTGATCGGAGCTCCGACAATTGAATGTTCGGGTTGAAAGCCAATTACGTTGTGTAG
326 ACCTAATTCTTGATCGGAGCTCCGACAATTGAATGTTCGGGTTGAAAGCCAATTACGTTATGTAG
12330296 GCTGATGAAAAAATGAACTCGATGTTGGTGTCATGAATTTCATCGTCGTAATAAACAATAGCATT
391 GCTGATGAAAAAATGAACTCGATGTTGGTGTCATGAATTTCATCGTCGTAATAAACAATAGCATT
12330361 AACTCATCCACTCATTTTCATCCAAATATCCTGTTTCACATGTTTAAAACCAAAAC
456 AACTCATCCACTCATTTTCATCCAAATATCCTGTTTCACATGTTTAAAACCAAAAC
12330417 ATGAAGTATGATTCCGGGATTTCATAATGAGAGCTTTCTAACAAAGCTGTGACCCCACTGCATAA
1 ATGAAGTATGATTCCGGGATTTCATAATGAGAGCTTTCTAACAAAGCTGTGACCCCACTGCATAA
*
12330482 CTATGTGGTTGGACTTCCAGCTTCTTATTCTGTTCTAGCATGAATGAGAAAAATTTTTAACCTCC
66 CTATGTGGTTGGACTTCCAGCTTCTTATTCTGTTCTAGCATGAATGAGAAAAACTTTTAACCTCC
*
12330547 AAGCACCTTCATCGACGTTGATAAACTCGGTATATAACTCAAGTATAGGTGGTTCAGTAGCATTA
131 AAGCACCTTCATCGACGTCGATAAACTCGGTATATAACTCAAGTATAGGTGGTTCAGTAGCATTA
*
12330612 TGCGTCTAGACCATTACACCGATCGCTATTGGGCCTATGACATTAAATATTTCATCTTTTACGGG
196 TGCGTCTAGACCATTACACCGATCGCTATTGGGCCTATAACATTAAATATTTCATCTTTTACGGG
*
12330677 GTTCTCTGACGCTAAATATCTATACTTCAACGACTATATTCTGTGGCTTGAATTGCTCATTTTCC
261 GTTCTCTGACGCTAAATATCTATACTTCAACGACTATATTCTGTGGCTTGAATTGCGCATTTTCC
*
12330742 ACCTAATTCTTGATCGGAGCTCCGATAATTGAATGTTCGGGTTGAAAGCCAATTACGTTATGTAG
326 ACCTAATTCTTGATCGGAGCTCCGACAATTGAATGTTCGGGTTGAAAGCCAATTACGTTATGTAG
12330807 GCTGATGAAAAAATGAACTCGATGTTGGTGTCATGAATTTCATCGTCGTAATAAACAATAGCATT
391 GCTGATGAAAAAATGAACTCGATGTTGGTGTCATGAATTTCATCGTCGTAATAAACAATAGCATT
12330872 AACTCATCCACTCATTTTCATCCAAATATCCTGTTTCACATGTTTAAAACCAAAAC
456 AACTCATCCACTCATTTTCATCCAAATATCCTGTTTCACATGTTTAAAACCAAAAC
12330928 AT
1 AT
12330930 TATGTAGAAA
Statistics
Matches: 503, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
511 503 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (511 bp):
ATGAAGTATGATTCCGGGATTTCATAATGAGAGCTTTCTAACAAAGCTGTGACCCCACTGCATAA
CTATGTGGTTGGACTTCCAGCTTCTTATTCTGTTCTAGCATGAATGAGAAAAACTTTTAACCTCC
AAGCACCTTCATCGACGTCGATAAACTCGGTATATAACTCAAGTATAGGTGGTTCAGTAGCATTA
TGCGTCTAGACCATTACACCGATCGCTATTGGGCCTATAACATTAAATATTTCATCTTTTACGGG
GTTCTCTGACGCTAAATATCTATACTTCAACGACTATATTCTGTGGCTTGAATTGCGCATTTTCC
ACCTAATTCTTGATCGGAGCTCCGACAATTGAATGTTCGGGTTGAAAGCCAATTACGTTATGTAG
GCTGATGAAAAAATGAACTCGATGTTGGTGTCATGAATTTCATCGTCGTAATAAACAATAGCATT
AACTCATCCACTCATTTTCATCCAAATATCCTGTTTCACATGTTTAAAACCAAAAC
Found at i:12350923 original size:6 final size:6
Alignment explanation
Indices: 12350914--12350955 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
12350904 TTATTTTTTA
* *
12350914 AAATAT AAATAT AAAT-T TAATTT AAAATAT AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT -AAATAT AAATAT AAATAT
12350956 TTATGTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
5 4 0.13
6 23 0.74
7 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AAATAT
Found at i:12361817 original size:35 final size:35
Alignment explanation
Indices: 12361771--12361837 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
12361761 TAATTGACAG
12361771 ATTAACATAAAGACTGAAAGAAAGAAATAAAATCA
1 ATTAACATAAAGACTGAAAGAAAGAAATAAAATCA
*
12361806 ATTAACATAAAGACTGAAAGAAATAAATAAAA
1 ATTAACATAAAGACTGAAAGAAAGAAATAAAA
12361838 GAATGAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.64, C:0.07, G:0.10, T:0.18
Consensus pattern (35 bp):
ATTAACATAAAGACTGAAAGAAAGAAATAAAATCA
Found at i:12365742 original size:6 final size:6
Alignment explanation
Indices: 12365731--12365755 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12365721 TCCCATGTTC
12365731 CATGTG CATGTG CATGTG CATGTG C
1 CATGTG CATGTG CATGTG CATGTG C
12365756 TGTCTGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (6 bp):
CATGTG
Found at i:12367721 original size:25 final size:26
Alignment explanation
Indices: 12367688--12367736 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
12367678 ACTATTGCTT
*
12367688 TTTTTACTATTTTCTTGCT-CTTTTC
1 TTTTAACTATTTTCTTGCTACTTTTC
*
12367713 TTTTAACTATTTTGTTGCTACTTT
1 TTTTAACTATTTTCTTGCTACTTT
12367737 CTTATTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.12, C:0.16, G:0.06, T:0.65
Consensus pattern (26 bp):
TTTTAACTATTTTCTTGCTACTTTTC
Found at i:12367737 original size:25 final size:23
Alignment explanation
Indices: 12367685--12367739 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
12367675 AAAACTATTG
12367685 CTTT-TTTTACTATTTTCTTGCT
1 CTTTCTTTTACTATTTTCTTGCT
*
12367707 CTTTTCTTTTAACTATTTTGTTGCT
1 C-TTTCTTTT-ACTATTTTCTTGCT
12367732 ACTTTCTT
1 -CTTTCTT
12367740 ATTGTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 3 0.11
24 4 0.14
25 19 0.68
26 1 0.04
ACGTcount: A:0.11, C:0.18, G:0.05, T:0.65
Consensus pattern (23 bp):
CTTTCTTTTACTATTTTCTTGCT
Found at i:12378511 original size:21 final size:21
Alignment explanation
Indices: 12378473--12378519 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
12378463 TTCTTTTCAT
*
12378473 AATTT-AAGCTTAATTTCTATC
1 AATTTCAAGCCTAATTTCT-TC
*
12378494 AATTTCAAGCCTAA-TTCTTT
1 AATTTCAAGCCTAATTTCTTC
12378514 AATTTC
1 AATTTC
12378520 TCAACAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (21 bp):
AATTTCAAGCCTAATTTCTTC
Found at i:12392793 original size:13 final size:13
Alignment explanation
Indices: 12392764--12392802 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
12392754 TTACAATTTA
12392764 TTTATTAAA-AAT
1 TTTATTAAATAAT
*
12392776 ATTATTAAATAAT
1 TTTATTAAATAAT
12392789 TTTATTAAAATAAT
1 TTTATT-AAATAAT
12392803 AAATTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 8 0.35
13 8 0.35
14 7 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTATTAAATAAT
Found at i:12394920 original size:17 final size:18
Alignment explanation
Indices: 12394886--12394922 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
12394876 TTAACTATTA
12394886 ATTATTATATTTAATTTT
1 ATTATTATATTTAATTTT
*
12394904 ATTATTA-ATTTATTTTT
1 ATTATTATATTTAATTTT
12394921 AT
1 AT
12394923 AAATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTATTATATTTAATTTT
Found at i:12394928 original size:21 final size:22
Alignment explanation
Indices: 12394904--12394954 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
12394894 ATTTAATTTT
12394904 ATTATTAATTT-ATTTTTATAA
1 ATTATTAATTTAATTTTTATAA
*
12394925 ATTATT-TTTTAATTTTTATAA
1 ATTATTAATTTAATTTTTATAA
12394946 ATTA-TAATT
1 ATTATTAATT
12394955 AAGGTTCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTATTAATTTAATTTTTATAA
Found at i:12398575 original size:3 final size:3
Alignment explanation
Indices: 12398562--12398609 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
12398552 TATACCATAG
* *
12398562 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12398610 GATGATGGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12398624 original size:6 final size:6
Alignment explanation
Indices: 12398615--12398643 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
12398605 ATAATGATGA
12398615 TGGTAG TGGTAG TGGTAG TGGTAG TGGTA
1 TGGTAG TGGTAG TGGTAG TGGTAG TGGTA
12398644 TACTTATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.48, T:0.34
Consensus pattern (6 bp):
TGGTAG
Found at i:12403512 original size:18 final size:17
Alignment explanation
Indices: 12403489--12403528 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
12403479 TTTCCAAAAA
*
12403489 AAAATCAAAATAATTTTT
1 AAAATCAAAAT-ATTTAT
*
12403507 AAAATCCAAATATTTAT
1 AAAATCAAAATATTTAT
12403524 AAAAT
1 AAAAT
12403529 TTCCAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATCAAAATATTTAT
Found at i:12404685 original size:6 final size:6
Alignment explanation
Indices: 12404670--12404700 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
12404660 AATAAATAAT
12404670 ATTT-A ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
12404701 AAACGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:12408463 original size:27 final size:27
Alignment explanation
Indices: 12408433--12408496 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
12408423 TTTTTTATTA
12408433 GCGGCACCAAAGGTGCC-TAACTGATTG
1 GCGGCACCAAAGGTGCCAT-ACTGATTG
* * *
12408460 GCGGCACCGATGGTGCCATACTGGTTG
1 GCGGCACCAAAGGTGCCATACTGATTG
12408487 GCGGCACCAA
1 GCGGCACCAA
12408497 CCTTATAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.17
Consensus pattern (27 bp):
GCGGCACCAAAGGTGCCATACTGATTG
Found at i:12408557 original size:4 final size:4
Alignment explanation
Indices: 12408540--12408633 Score: 56
Period size: 4 Copynumber: 23.0 Consensus size: 4
12408530 GAAGGAGAGG
*
12408540 GAAA G-AA G-AA GAAA GAAA GAAA GAAA GAAAA TGAAA TGAGAG GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA GAAA
*
12408586 GAAAA TGAAA GGAGAA G-AA GAAA -AAA GAAA G-AA -AAA GAAG GAAA
1 G-AAA -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
12408630 GAAA
1 GAAA
12408634 AGGAAAGGAG
Statistics
Matches: 74, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
3 16 0.22
4 33 0.45
5 20 0.27
6 5 0.07
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:12408587 original size:20 final size:20
Alignment explanation
Indices: 12408560--12408666 Score: 85
Period size: 20 Copynumber: 5.2 Consensus size: 20
12408550 GAAAGAAAGA
*
12408560 AAGAAAGAAAATGAAATGAG
1 AAGAAAGAAAATGAAAGGAG
*
12408580 AGGAAAGAAAATGAAAGGAG
1 AAGAAAGAAAATGAAAGGAG
* *
12408600 AAG-AAGAAAAAAGAAAGAAAAAG
1 AAGAAAG-AAAATGAAAG---GAG
*
12408623 AAGGAAAGAAAAGGAAAGGAG
1 AA-GAAAGAAAATGAAAGGAG
* *
12408644 AAGAGAGAAAA--AAAGAAG
1 AAGAAAGAAAATGAAAGGAG
12408662 AAGAA
1 AAGAA
12408667 GAAGAAGAGG
Statistics
Matches: 71, Mismatches: 10, Indels: 14
0.75 0.11 0.15
Matches are distributed among these distances:
18 10 0.14
19 3 0.04
20 37 0.52
21 4 0.06
23 4 0.06
24 10 0.14
25 3 0.04
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (20 bp):
AAGAAAGAAAATGAAAGGAG
Found at i:12408630 original size:44 final size:45
Alignment explanation
Indices: 12408580--12408670 Score: 141
Period size: 44 Copynumber: 2.0 Consensus size: 45
12408570 ATGAAATGAG
*
12408580 AGGAAAGAAAATGAAAGGAGAAGA-AG-AAAAAAGAAAGAAAAAGA
1 AGGAAAGAAAAGGAAAGGAGAAGAGAGAAAAAAAG-AAGAAAAAGA
*
12408624 AGGAAAGAAAAGGAAAGGAGAAGAGAGAAAAAAAGAAGAAGAAGA
1 AGGAAAGAAAAGGAAAGGAGAAGAGAGAAAAAAAGAAGAAAAAGA
12408669 AG
1 AG
12408671 AAGAGGGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
44 23 0.53
45 13 0.30
46 7 0.16
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (45 bp):
AGGAAAGAAAAGGAAAGGAGAAGAGAGAAAAAAAGAAGAAAAAGA
Found at i:12408647 original size:24 final size:23
Alignment explanation
Indices: 12408539--12408673 Score: 82
Period size: 24 Copynumber: 5.7 Consensus size: 23
12408529 AGAAGGAGAG
* *
12408539 GGAAAGAAGAAGAAAGAAAGAAA
1 GGAAAGAAGAAGAAGGAAAAAAA
12408562 -GAAAGAAAATGAAATGAGAGGAAAGAAAA
1 GGAAAG--AA-G-AA-GA-AGGAAA-AAAA
* *
12408591 TGAAAGGAGAAGAA-G-AAAAAA
1 GGAAAGAAGAAGAAGGAAAAAAA
*
12408612 -GAAAGAAAAAGAAGGAAAGAAAA
1 GGAAAGAAGAAGAAGGAAA-AAAA
*
12408635 GGAAAGGAGAAG-AGAGAAAAAAA
1 GGAAAGAAGAAGAAG-GAAAAAAA
*
12408658 GAAGAAGAAGAAGAAG
1 GGA-AAGAAGAAGAAG
12408674 AGGGAAGGAA
Statistics
Matches: 88, Mismatches: 9, Indels: 28
0.70 0.07 0.22
Matches are distributed among these distances:
20 11 0.12
21 5 0.06
22 9 0.10
23 13 0.15
24 24 0.27
25 5 0.06
26 4 0.05
27 3 0.03
28 6 0.07
29 3 0.03
30 5 0.06
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (23 bp):
GGAAAGAAGAAGAAGGAAAAAAA
Found at i:12408683 original size:45 final size:44
Alignment explanation
Indices: 12408539--12408670 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
12408529 AGAAGGAGAG
*
12408539 GGAAAGAAGAAGAAAGAAAGAAAGAAAGAAAATGAAATGAGAGGAAAGAAAA
1 GGAAAGGAGAAG-AAGAAA-AAAGAAAG--AA--AAA-GA-AGGAAAGAAAA
*
12408591 TGAAAGGAGAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGAAAGGAGAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAA
*
12408635 GGAAAGGAGAAGAGAGAAAAAA-AGAAGAAGAAGAAG
1 GGAAAGGAGAAGA-AGAAAAAAGA-AAGAAAAAGAAG
12408671 AAGAGGGAAG
Statistics
Matches: 74, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
44 24 0.32
45 21 0.28
46 3 0.04
48 2 0.03
50 8 0.11
51 6 0.08
52 10 0.14
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (44 bp):
GGAAAGGAGAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAA
Found at i:12409834 original size:321 final size:320
Alignment explanation
Indices: 12409032--12410128 Score: 1903
Period size: 321 Copynumber: 3.4 Consensus size: 320
12409022 AATTGTATAT
* * *
12409032 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATGATAAAATTAAAAATTACGATATT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTAAGATATT
* *
12409097 TTTTAAAGTAATATAATGCGGA-TAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
66 TTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
* * *
12409161 ACTTTTTTTAAAATTCAGAAATAATTAATACAAATATTTCAAATAAAATACACTGAAATAATATA
131 ACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
* ***
12409226 AAATAATAAAATACGAAAATAAAATATTGGCATTGAAAGTAATAAAAATCGGGAAAATAATACGA
196 AAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
*
12409291 GCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACTAAATTAATTTAAAAAACACACTAAA
261 GCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
*
12409351 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTACGATATT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTAAGATATT
* * * * * *
12409416 TTTTAAAATAATATAATGCAGATAAAAAAATAGGAACAAATAGCCGAAGTAAGAGTGTATTACTA
66 TTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
*
12409481 ACTTTTCTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
131 ACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
12409546 AAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
196 AAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
* *
12409611 GCAAAGGGCAGGGATAAGGATTTTTTTCTTACACCAAATTAATTTAAAAAAACAAACTAAA
261 GCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTT-AAAAAACACACTAAA
12409672 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAA-GTATAAAATTAGAAATTAAGATAT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATG-ATAAAATTAGAAATTAAGATAT
12409736 TTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACT
65 TTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACT
*
12409801 AACTTTTTTAAAAATTTAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATAT
130 AACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATAT
12409866 AAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACG
195 AAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACG
12409931 AGCAAAGGGCAGGGATAAGGGTTTTTTT-TTACACCAAATTAATTTAAAAAACACACTAAA
260 AGCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
*
12409991 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTAAGATATT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTAAGATATT
* * *
12410056 TTTTAAAGTAATAAAATGCGGAGAAAAAAATACAAACAAATGGCCGAAGTAAGAGTTTTTTACTA
66 TTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
12410121 ACTTTTTT
131 ACTTTTTT
12410129 TTCAACTTGC
Statistics
Matches: 741, Mismatches: 33, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
319 230 0.31
320 222 0.30
321 289 0.39
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.30
Consensus pattern (320 bp):
TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTAAGATATT
TTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
ACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
AAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
GCAAAGGGCAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
Found at i:12412745 original size:3 final size:3
Alignment explanation
Indices: 12412727--12412761 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
12412717 AATAACATCT
* *
12412727 TAA TAC TAA CAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
12412762 CTAACTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:12413046 original size:27 final size:27
Alignment explanation
Indices: 12413008--12413068 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
12412998 ACGAGTAGTC
* *
12413008 CCGCCAATCAGTATGGCACCATTGGTG
1 CCGCCAACCAGTATGGCACCATCGGTG
12413035 CCGCCAACCAGTATGGCACCATCGGTG
1 CCGCCAACCAGTATGGCACCATCGGTG
12413062 CCGCCAA
1 CCGCCAA
12413069 TCAAAAACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.36, G:0.25, T:0.16
Consensus pattern (27 bp):
CCGCCAACCAGTATGGCACCATCGGTG
Found at i:12413344 original size:16 final size:17
Alignment explanation
Indices: 12413323--12413360 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 17
12413313 TTAAAAAATA
12413323 TTTTTTTCTT-TC-AAC
1 TTTTTTTCTTGTCAAAC
12413338 TTTTTTTCTTGTCAAAC
1 TTTTTTTCTTGTCAAAC
12413355 TTTTTT
1 TTTTTT
12413361 CTAAAGTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.48
16 2 0.10
17 9 0.43
ACGTcount: A:0.13, C:0.16, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTTTTCTTGTCAAAC
Found at i:12416938 original size:23 final size:23
Alignment explanation
Indices: 12416911--12416957 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
12416901 CTTAACTTGT
12416911 AAGTTTTATGTATAGGTCTTAGC
1 AAGTTTTATGTATAGGTCTTAGC
12416934 AAGTTTTATGTATAGGTCTTAGC
1 AAGTTTTATGTATAGGTCTTAGC
12416957 A
1 A
12416958 TATGGGTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (23 bp):
AAGTTTTATGTATAGGTCTTAGC
Found at i:12420796 original size:22 final size:22
Alignment explanation
Indices: 12420771--12420815 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12420761 TCTGGAATTG
12420771 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
12420793 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
12420815 T
1 T
12420816 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:12424569 original size:22 final size:22
Alignment explanation
Indices: 12424541--12424585 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12424531 AGGGGGAGTG
12424541 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
12424563 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
12424585 T
1 T
12424586 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:12427529 original size:30 final size:26
Alignment explanation
Indices: 12427476--12427538 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 26
12427466 AAAAATAACT
*
12427476 AAAATATTATAATTTTTTTATTTATC
1 AAAATATTATAATTTTTTTATTTACC
12427502 AAAATATTATAATTATTTTTATTATTTACC
1 AAAATATTAT-A--ATTTTT-TTATTTACC
12427532 AAAATAT
1 AAAATAT
12427539 ATCAAAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 10 0.31
27 1 0.03
29 6 0.19
30 15 0.47
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (26 bp):
AAAATATTATAATTTTTTTATTTACC
Found at i:12427561 original size:13 final size:12
Alignment explanation
Indices: 12427542--12427571 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
12427532 AAAATATATC
12427542 AAAAAACAAAAA
1 AAAAAACAAAAA
12427554 ACAAAAACAAAAA
1 A-AAAAACAAAAA
12427567 AAAAA
1 AAAAA
12427572 CCTGCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAACAAAAA
Found at i:12427699 original size:4 final size:4
Alignment explanation
Indices: 12427692--12427825 Score: 77
Period size: 4 Copynumber: 33.0 Consensus size: 4
12427682 GAAGGAGAGG
* * *
12427692 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GGAAG GAAG GAGAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GAAA GA-AA GAAA GAAA
* *
12427742 G-AA -AAA GAAG GAAA GAAAA GGAAA G-GA GAAGA GAAA -AAA -AAA GGAAA
1 GAAA GAAA GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA -GAAA
12427789 G-AA G-AA GAAGA GGAAA GGAGAA GAAA -AAA GAAA GAAA
1 GAAA GAAA GAA-A -GAAA -GA-AA GAAA GAAA GAAA GAAA
12427826 AAGAGGAAAA
Statistics
Matches: 109, Mismatches: 6, Indels: 30
0.75 0.04 0.21
Matches are distributed among these distances:
3 21 0.19
4 55 0.50
5 27 0.25
6 6 0.06
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:12427761 original size:23 final size:24
Alignment explanation
Indices: 12427697--12427866 Score: 83
Period size: 23 Copynumber: 7.3 Consensus size: 24
12427687 AGAGGGAAAG
*
12427697 AAAGAAAGAAAG-AAA-GAAAGAA
1 AAAGAAGGAAAGAAAAGGAAAGAA
* *
12427719 AGGAAGGAAGGAGAGGAAA-GAAAGAA
1 A--AA-GAAGGAAAGAAAAGGAAAGAA
*
12427745 AAAGAAGGAAAGAAAAGGAAAGGA
1 AAAGAAGGAAAGAAAAGGAAAGAA
* * *
12427769 GAAG-AGAAAAAAAAAGGAAAGAA
1 AAAGAAGGAAAGAAAAGGAAAGAA
* *
12427792 GAAGAA-G--AGGAAAGGAGAAG-A
1 AAAGAAGGAAAGAAAAGGA-AAGAA
* *
12427813 AAA-AA-GAAAGAAAAAG-AGGAA
1 AAAGAAGGAAAGAAAAGGAAAGAA
* * *
12427834 AAAAAAGGAAAGGAGAAGAGAAAAAA
1 AAAGAAGGAAA-GAAAAG-GAAAGAA
12427860 AAAGAAG
1 AAAGAAG
12427867 AAGAGGGAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 26
0.70 0.13 0.16
Matches are distributed among these distances:
20 5 0.04
21 14 0.12
22 12 0.11
23 35 0.31
24 18 0.16
25 8 0.07
26 20 0.18
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (24 bp):
AAAGAAGGAAAGAAAAGGAAAGAA
Found at i:12427780 original size:33 final size:33
Alignment explanation
Indices: 12427696--12427824 Score: 108
Period size: 33 Copynumber: 3.9 Consensus size: 33
12427686 GAGAGGGAAA
* *
12427696 GAAA-GAAAGA-AAGAAAGAAAGAAAGGAAGGAAG
1 GAAAGGAAAGAGAAAAAAGAAGGAAA-GAA-GAAG
* *
12427729 GAGAGGAAAGAAAGAAAAAGAAGGAAAGAA-AAG
1 GAAAGGAAAGAGA-AAAAAGAAGGAAAGAAGAAG
*
12427762 GAAAGGAGAAGAGAAAAAAAAAGGAAAGAAGAA-
1 GAAAGGA-AAGAGAAAAAAGAAGGAAAGAAGAAG
12427795 GAAGAGGAAAGGAGAAGAAAA-AA-GAAAGAA
1 GAA-AGGAAA-GAGAA-AAAAGAAGGAAAGAA
12427825 AAAGAGGAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
33 39 0.48
34 24 0.29
35 8 0.10
36 11 0.13
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (33 bp):
GAAAGGAAAGAGAAAAAAGAAGGAAAGAAGAAG
Found at i:12427830 original size:56 final size:54
Alignment explanation
Indices: 12427749--12427852 Score: 145
Period size: 56 Copynumber: 1.9 Consensus size: 54
12427739 AAAGAAAAAG
* * *
12427749 AAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGGAAAGAAGAAGAAGAGGA
1 AAGGAAAGAAAAAGAAAGAAAAAGAGAAAAAAAAAGGAAAGAAGAAGAAGAGGA
* *
12427803 AAGGAGAAGAAAAAAGAAAGAAAAAGAGGAAAAAAAAGGAAAGGAGAAGA
1 AAGGA-AAG-AAAAAGAAAGAAAAAGAGAAAAAAAAAGGAAAGAAGAAGA
12427853 GAAAAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 5 0.12
55 3 0.07
56 35 0.81
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (54 bp):
AAGGAAAGAAAAAGAAAGAAAAAGAGAAAAAAAAAGGAAAGAAGAAGAAGAGGA
Found at i:12427868 original size:74 final size:75
Alignment explanation
Indices: 12427695--12427908 Score: 228
Period size: 79 Copynumber: 2.8 Consensus size: 75
12427685 GGAGAGGGAA
* **
12427695 AGAA-AGAAAGAAAGAAAGAAAGAA-A-GGAAGGAAGG-AGAGGAAAGAAAGAAAAAGAAGGAAA
1 AGAAGAGAAAAAAAGAAAG-AAGAAGAGGGAAGGAAGGAAGAAAAAAGAAAGAAAAAG-AGGAAA
*
12427756 GAAAAGGAAAGG
64 AAAAAGGAAAGG
12427768 AGAAGAGAAAAAAAAAGGAAAGAAGAAGAAGAGGAAAGG-A-GAAGAAAAAAGAAAGAAAAAGAG
1 AGAAGAG--AAAAAAA-GAAAGAAGAAG-AG-GG-AAGGAAGGAAGAAAAAAGAAAGAAAAAGAG
12427831 GAAAAAAAAGGAAAGG
60 GAAAAAAAAGGAAAGG
* * *
12427847 AGAAGAG-AAAAAA-AAAGAAGAAGAGGGAAGGAAGGAAGGAAAAATAAAGGAAAAAAAGGAAA
1 AGAAGAGAAAAAAAGAAAGAAGAAGAGGGAAGGAAGGAAGAAAAAAGAAA-GAAAAAGAGGAAA
12427909 TTTTTTTTAT
Statistics
Matches: 121, Mismatches: 7, Indels: 25
0.79 0.05 0.16
Matches are distributed among these distances:
71 4 0.03
72 3 0.02
73 18 0.15
74 24 0.20
76 17 0.14
77 5 0.04
78 1 0.01
79 25 0.21
80 20 0.17
81 4 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (75 bp):
AGAAGAGAAAAAAAGAAAGAAGAAGAGGGAAGGAAGGAAGAAAAAAGAAAGAAAAAGAGGAAAAA
AAAGGAAAGG
Found at i:12427886 original size:79 final size:78
Alignment explanation
Indices: 12427683--12427886 Score: 233
Period size: 79 Copynumber: 2.6 Consensus size: 78
12427673 GTGGGGGGGG
* *
12427683 AAGGAG-AGGGAAAGAAAGAAA-GAAAGAAAGAAAGAAAGGAAGGAAGGAGAGGAAAGAAAGAAA
1 AAGGAGAAGAGAAA-AAA-AAAGGAAAG-AAG-AAG-AAGGAAGGAAGGAGAGAAAAGAAAGAAA
*
12427746 AAGAAGGAAAGAAAAGGA
61 AAGAAGGAAAAAAAAGGA
12427764 AAGGAGAAGAGAAAAAAAAAGGAAAGAAGAAGAA-G-AGGAAAGGAGAAGAAAAAAGAAAGAAAA
1 AAGGAGAAGAGAAAAAAAAAGGAAAGAAGAAGAAGGAAGG-AAGGAG-AG--AAAAGAAAGAAAA
12427827 AG-AGGAAAAAAAAGGA
62 AGAAGGAAAAAAAAGGA
*
12427843 AAGGAGAAGAGAAAAAAAAA-G-AAGAAGAGGGAAGGAAGGAAGGA
1 AAGGAGAAGAGAAAAAAAAAGGAAAGAAGA-AGAAGGAAGGAAGGA
12427887 AAAATAAAGG
Statistics
Matches: 110, Mismatches: 4, Indels: 20
0.82 0.03 0.15
Matches are distributed among these distances:
76 3 0.03
77 14 0.13
78 8 0.07
79 42 0.38
80 23 0.21
81 14 0.13
82 6 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (78 bp):
AAGGAGAAGAGAAAAAAAAAGGAAAGAAGAAGAAGGAAGGAAGGAGAGAAAAGAAAGAAAAAGAA
GGAAAAAAAAGGA
Found at i:12428657 original size:27 final size:27
Alignment explanation
Indices: 12428627--12428682 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
12428617 AAAGAGGGTG
* *
12428627 ATGGAGGGGAATAAAAAAGCGACACCA
1 ATGGAGAGAAATAAAAAAGCGACACCA
* *
12428654 ATGGAGAGAAATAAAAAGGCGGCACCA
1 ATGGAGAGAAATAAAAAAGCGACACCA
12428681 AT
1 AT
12428683 ATGTGGCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.14, G:0.29, T:0.09
Consensus pattern (27 bp):
ATGGAGAGAAATAAAAAAGCGACACCA
Found at i:12433690 original size:18 final size:18
Alignment explanation
Indices: 12433667--12433711 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
12433657 ATCCCAATGA
12433667 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
12433685 TCGCCAGCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
12433703 TCACCACCA
1 TCGCCACCA
12433712 ACCATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.49, G:0.07, T:0.29
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:12434515 original size:17 final size:18
Alignment explanation
Indices: 12434479--12434517 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
12434469 CTACTGAATT
12434479 ACATCTTAATACATTAATA
1 ACATCTTAATACA-TAATA
12434498 ACATCTTAATAC-TAATA
1 ACATCTTAATACATAATA
12434515 ACA
1 ACA
12434518 ACAACAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
19 12 0.60
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (18 bp):
ACATCTTAATACATAATA
Found at i:12434540 original size:12 final size:12
Alignment explanation
Indices: 12434523--12434552 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12434513 TAACAACAAC
12434523 AGTAATAATAAT
1 AGTAATAATAAT
12434535 AGTAATAATAAT
1 AGTAATAATAAT
*
12434547 AATAAT
1 AGTAAT
12434553 TGTTGACACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (12 bp):
AGTAATAATAAT
Found at i:12435492 original size:11 final size:11
Alignment explanation
Indices: 12435476--12435501 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12435466 AAATTACAAA
12435476 ATATATAAAGT
1 ATATATAAAGT
12435487 ATATATAAAGT
1 ATATATAAAGT
12435498 ATAT
1 ATAT
12435502 TTTAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
ATATATAAAGT
Found at i:12435631 original size:24 final size:24
Alignment explanation
Indices: 12435604--12435651 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12435594 TATACATTGT
12435604 AAAATA-AAAGAAAATATGTATTTA
1 AAAATATAAA-AAAATATGTATTTA
* *
12435628 AAAATATATATAAATATGTATTTA
1 AAAATATAAAAAAATATGTATTTA
12435652 TATTCATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (24 bp):
AAAATATAAAAAAATATGTATTTA
Found at i:12435708 original size:39 final size:40
Alignment explanation
Indices: 12435665--12435748 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
12435655 TCATGTAAAT
** *
12435665 TAAAAAATGTATATAGATATTTATAGATATGTATAT-AAG
1 TAAAAAAAATATATAGATATGTATAGATATGTATATGAAG
* * * *
12435704 TAAAAAAAATATGTATATATGTATATATATGTATATGAAT
1 TAAAAAAAATATATAGATATGTATAGATATGTATATGAAG
12435744 TAAAA
1 TAAAA
12435749 TATATAAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 30 0.81
40 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (40 bp):
TAAAAAAAATATATAGATATGTATAGATATGTATATGAAG
Found at i:12435853 original size:23 final size:22
Alignment explanation
Indices: 12435827--12435883 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 22
12435817 TATAATAATA
12435827 ATAAAAATA-TGTAAGTATATATT
1 ATAAAAATATTGT-A-TATATATT
12435850 ATAAAAATGTATTTGTATATATATT
1 ATAAAAA--TA-TTGTATATATATT
12435875 ATAAAAATA
1 ATAAAAATA
12435884 CAATAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 9 0.30
25 17 0.57
26 1 0.03
27 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
ATAAAAATATTGTATATATATT
Found at i:12436552 original size:6 final size:6
Alignment explanation
Indices: 12436541--12436567 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12436531 CTGTTTTCAA
12436541 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
12436568 CAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:12437174 original size:3 final size:3
Alignment explanation
Indices: 12437166--12437196 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12437156 GGGCTTCTAC
12437166 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
12437197 CTAACTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12437470 original size:27 final size:27
Alignment explanation
Indices: 12437432--12437505 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
12437422 AACACGAGTA
12437432 GTGCCGCCAATGCCTTTGGCACCATTG
1 GTGCCGCCAATGCCTTTGGCACCATTG
* ** *
12437459 GTGCCACCAATGATTTTGGCACCTTTG
1 GTGCCGCCAATGCCTTTGGCACCATTG
*
12437486 GTGCCGCCAATGCCATTGGC
1 GTGCCGCCAATGCCTTTGGC
12437506 CTGATCAGGC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.16, C:0.31, G:0.26, T:0.27
Consensus pattern (27 bp):
GTGCCGCCAATGCCTTTGGCACCATTG
Found at i:12437624 original size:27 final size:30
Alignment explanation
Indices: 12437566--12437632 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
12437556 TTTTTTTGAT
12437566 ATATTTTGGTAAATAATAAAAATAATATTA
1 ATATTTTGGTAAATAATAAAAATAATATTA
*
12437596 ATATTTTGGTAAATAA-AAAAAT-TTA-TA
1 ATATTTTGGTAAATAATAAAAATAATATTA
12437623 ATATTTTGGT
1 ATATTTTGGT
12437633 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 12 0.33
28 2 0.06
29 6 0.17
30 16 0.44
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (30 bp):
ATATTTTGGTAAATAATAAAAATAATATTA
Found at i:12438319 original size:17 final size:18
Alignment explanation
Indices: 12438287--12438322 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
12438277 ATATTATTTT
12438287 TTAATTATTTAAAATATA
1 TTAATTATTTAAAATATA
*
12438305 TTAATT-TTTATAATATA
1 TTAATTATTTAAAATATA
12438322 T
1 T
12438323 GACAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATTTAAAATATA
Found at i:12444317 original size:42 final size:43
Alignment explanation
Indices: 12444227--12444366 Score: 144
Period size: 43 Copynumber: 3.3 Consensus size: 43
12444217 TCCTAGACGT
* *
12444227 GGTCTTACATGTAATCAAATAACGATGCCATTGTCCCAGATAG
1 GGTCTTACATGTAATCAAATAACGATGCCAATGTCCCAGACAG
* *
12444270 GGTCTTACATGTAATCATAT-ACGATGCCAATGTCTCC-GACAT
1 GGTCTTACATGTAATCAAATAACGATGCCAATGTC-CCAGACAG
* * * *
12444312 TGTCTTACACGTAAATCTAAA-ATCGATGCCAACGTCCCAGAC-G
1 GGTCTTACATGT-AATC-AAATAACGATGCCAATGTCCCAGACAG
12444355 TGGTCTTACATG
1 -GGTCTTACATG
12444367 ATATCACATA
Statistics
Matches: 79, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
42 26 0.33
43 27 0.34
44 26 0.33
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAATCAAATAACGATGCCAATGTCCCAGACAG
Found at i:12452400 original size:3 final size:3
Alignment explanation
Indices: 12452387--12452428 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
12452377 GCCGGTGAGT
12452387 TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
12452429 ATTTAATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:12454912 original size:13 final size:13
Alignment explanation
Indices: 12454869--12454917 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
12454859 AGCACTCAAA
*
12454869 TTTTACAAAAGCAC
1 TTTT-CAAAAACAC
*
12454883 TTCTCAAAAACAC
1 TTTTCAAAAACAC
* *
12454896 TTTTCAAAAATAT
1 TTTTCAAAAACAC
12454909 TTTTCAAAA
1 TTTTCAAAA
12454918 GCAATAAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 27 0.90
14 3 0.10
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:12465006 original size:18 final size:18
Alignment explanation
Indices: 12464983--12465025 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
12464973 GTTCAATGTG
12464983 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
12465001 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
12465019 TAATTAA
1 TAATTAA
12465026 AAACCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:12467043 original size:8 final size:8
Alignment explanation
Indices: 12467030--12467094 Score: 67
Period size: 8 Copynumber: 7.9 Consensus size: 8
12467020 ATCACAATTT
12467030 AATAAACA
1 AATAAACA
12467038 AATAAACGA
1 AATAAAC-A
*
12467047 AATGAAATA
1 AAT-AAACA
* *
12467056 ATTGAACA
1 AATAAACA
12467064 AATAAACA
1 AATAAACA
* *
12467072 AACATACA
1 AATAAACA
12467080 AATAAACA
1 AATAAACA
12467088 AATAAAC
1 AATAAAC
12467095 CAACAACACC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
8 35 0.78
9 7 0.16
10 3 0.07
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.15
Consensus pattern (8 bp):
AATAAACA
Found at i:12467304 original size:13 final size:13
Alignment explanation
Indices: 12467286--12467315 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12467276 TAACATAGTT
12467286 TAAAATAAATAAA
1 TAAAATAAATAAA
12467299 TAAAATAAATAAA
1 TAAAATAAATAAA
12467312 -AAAA
1 TAAAA
12467316 CACAGAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:12470355 original size:104 final size:104
Alignment explanation
Indices: 12470221--12470590 Score: 492
Period size: 104 Copynumber: 3.6 Consensus size: 104
12470211 AAAGAACTTA
* * * *
12470221 GTTGCGAGCTTAACTCAGCTAACTTTTAATCATCAGCTGGGAATGTAGGTTCGCGAGCTGTTTCG
1 GTTGCGAGCTTAACTCAGCTAACATTTAATCATCAGTTGGGAACGTAGGTCCGCGAGCTGTTTCG
*
12470286 GAGTTGCGAGCTTAACTCGGCTAACTCAAATAATTGGAG
66 GAGTTGTGAGCTTAACTCGGCTAACTCAAATAATTGGAG
* * * * *
12470325 GTTGCGAGCTTAACTCAGCTAACCTTTAATCATTAGTTGGGAACGTAGGTCAGCAAGTTGTTTCG
1 GTTGCGAGCTTAACTCAGCTAACATTTAATCATCAGTTGGGAACGTAGGTCCGCGAGCTGTTTCG
*
12470390 GAGTTATGAGCTTAACTCGGCTAACTCAAATAATTGGA-
66 GAGTTGTGAGCTTAACTCGGCTAACTCAAATAATTGGAG
* * * * * * *
12470428 GTTGTGAGCTTAACTCATCCAACATTTAATCATCAATTGGGAACATAGGTCCACGAGCTACTTT-
1 GTTGCGAGCTTAACTCAGCTAACATTTAATCATCAGTTGGGAACGTAGGTCCGCGAGCT-GTTTC
* * * *
12470492 AGAGTTGTGAGCTTAACTCAGCTAACTCAAATAACTGGTG
65 GGAGTTGTGAGCTTAACTCGGCTAACTCAAATAATTGGAG
* * *
12470532 GTTTCGAGCTTAACTCAGCTAACATTTAATTATCAGTTGGGAACGTAAGTCCGCGAGCT
1 GTTGCGAGCTTAACTCAGCTAACATTTAATCATCAGTTGGGAACGTAGGTCCGCGAGCT
12470591 ATTTTAAAGG
Statistics
Matches: 228, Mismatches: 36, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
103 82 0.36
104 146 0.64
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (104 bp):
GTTGCGAGCTTAACTCAGCTAACATTTAATCATCAGTTGGGAACGTAGGTCCGCGAGCTGTTTCG
GAGTTGTGAGCTTAACTCGGCTAACTCAAATAATTGGAG
Found at i:12470591 original size:104 final size:105
Alignment explanation
Indices: 12470176--12470591 Score: 459
Period size: 104 Copynumber: 4.0 Consensus size: 105
12470166 TCAACGAGTT
* * * * *
12470176 GTTTGAGAGTTGCGATCTTTAAATCAGCTAACTCAAAAGAACT--TAGTTGCGAGCTTAACTCAG
1 GTTTCAGAGTTGTGAGC-TTAACTCAGCTAACTC-AAATAACTGGTAGTTGCGAGCTTAACTCAG
* * * *
12470239 CTAACTTTTAATCATCAGCTGGGAATGTAGGTTCGCGAGCT-
64 CTAACATTTAATCATCAGTTGGGAACGTAGGTCCGCGAGCTA
* * * *
12470280 GTTTCGGAGTTGCGAGCTTAACTCGGCTAACTCAAATAATTGG-AGGTTGCGAGCTTAACTCAGC
1 GTTTCAGAGTTGTGAGCTTAACTCAGCTAACTCAAATAACTGGTA-GTTGCGAGCTTAACTCAGC
* * * * *
12470344 TAACCTTTAATCATTAGTTGGGAACGTAGGTCAGCAAG-TT
65 TAACATTTAATCATCAGTTGGGAACGTAGGTCCGCGAGCTA
* * * * * * *
12470384 GTTTCGGAGTTATGAGCTTAACTCGGCTAACTCAAATAATTGG-AGTTGTGAGCTTAACTCATCC
1 GTTTCAGAGTTGTGAGCTTAACTCAGCTAACTCAAATAACTGGTAGTTGCGAGCTTAACTCAGCT
* * *
12470448 AACATTTAATCATCAATTGGGAACATAGGTCCACGAGCTA
66 AACATTTAATCATCAGTTGGGAACGTAGGTCCGCGAGCTA
* * *
12470488 CTTT-AGAGTTGTGAGCTTAACTCAGCTAACTCAAATAACTGGTGGTTTCGAGCTTAACTCAGCT
1 GTTTCAGAGTTGTGAGCTTAACTCAGCTAACTCAAATAACTGGTAGTTGCGAGCTTAACTCAGCT
* *
12470552 AACATTTAATTATCAGTTGGGAACGTAAGTCCGCGAGCTA
66 AACATTTAATCATCAGTTGGGAACGTAGGTCCGCGAGCTA
12470592 TTTTAAAGGC
Statistics
Matches: 264, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
102 6 0.02
103 97 0.37
104 161 0.61
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (105 bp):
GTTTCAGAGTTGTGAGCTTAACTCAGCTAACTCAAATAACTGGTAGTTGCGAGCTTAACTCAGCT
AACATTTAATCATCAGTTGGGAACGTAGGTCCGCGAGCTA
Found at i:12470682 original size:69 final size:68
Alignment explanation
Indices: 12470598--12470767 Score: 216
Period size: 69 Copynumber: 2.5 Consensus size: 68
12470588 GCTATTTTAA
* ** * * *
12470598 AGGCTACGATATTAAATCAGCGAGCCTTTATAATATCAGCTGGGAACGTAGGTCCATAAGCTG-T
1 AGGCTGCGATATTAAATCAATGAGCCTTTATAATATCAACTAGGAACGTAGGTCCACAAGCTGCT
12470662 TTG
66 TTG
* *
12470665 AGGGGCTGCGATCTTAAATCAATGAGCCTTTATAATATCAACTAGGAACGTAGGTCCGCAAGCTG
1 A--GGCTGCGATATTAAATCAATGAGCCTTTATAATATCAACTAGGAACGTAGGTCCACAAGCTG
12470730 CTTTTG
64 C-TTTG
* *
12470736 AGGTTGCGATTTTAAATCAATGAGCCTTTATA
1 AGGCTGCGATATTAAATCAATGAGCCTTTATA
12470768 TAGAAGGTCG
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
67 1 0.01
69 83 0.93
71 5 0.06
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (68 bp):
AGGCTGCGATATTAAATCAATGAGCCTTTATAATATCAACTAGGAACGTAGGTCCACAAGCTGCT
TTG
Found at i:12471636 original size:15 final size:15
Alignment explanation
Indices: 12471616--12471645 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12471606 CAAAATTTTG
12471616 ACAAGAACATAACAA
1 ACAAGAACATAACAA
12471631 ACAAGAACATAACAA
1 ACAAGAACATAACAA
12471646 TGTGATAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.20, G:0.07, T:0.07
Consensus pattern (15 bp):
ACAAGAACATAACAA
Found at i:12471938 original size:15 final size:15
Alignment explanation
Indices: 12471913--12471947 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
12471903 GACTCTATTT
*
12471913 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
12471927 TAATTAATATTAAGA
1 TAATTAATATTAAGA
12471942 TAATTA
1 TAATTA
12471948 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:12489242 original size:22 final size:22
Alignment explanation
Indices: 12489202--12489244 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12489192 TGCTAAGCAG
* *
12489202 AGAGCACTGAAGTATTGAACAA
1 AGAGCACCGAAGTACTGAACAA
*
12489224 AGAGCACCGAAGTGCTGAACA
1 AGAGCACCGAAGTACTGAACA
12489245 TGTACAAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.14
Consensus pattern (22 bp):
AGAGCACCGAAGTACTGAACAA
Found at i:12490779 original size:58 final size:57
Alignment explanation
Indices: 12490647--12490779 Score: 160
Period size: 58 Copynumber: 2.3 Consensus size: 57
12490637 TTTAATTCAT
* * **
12490647 ATAATAATTATATTAAGAATTTTATTAAAGTATATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AGTATGGTTAAAGTATATATTATTTTATTAAATTATATTTA
* * * *
12490705 ATAATAATTATGTTAAAGTATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAGTATGGTTAAAGTATATATTA-TTTTATTAAATTATATTTA
12490763 ATAATAATCT-TATTAAA
1 ATAATAAT-TATATTAAA
12490780 ATTTAATAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 16 0.25
58 47 0.73
59 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (57 bp):
ATAATAATTATATTAAAGTATGGTTAAAGTATATATTATTTTATTAAATTATATTTA
Found at i:12492453 original size:21 final size:19
Alignment explanation
Indices: 12492427--12492466 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
12492417 TGCAATTTAA
12492427 TAATTTTCTTTTATGTTCTTT
1 TAATTTTCTTTT-T-TTCTTT
12492448 TAATTTTCTTTTTTTCTTT
1 TAATTTTCTTTTTTTCTTT
12492467 ATTTTCCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.12, C:0.10, G:0.03, T:0.75
Consensus pattern (19 bp):
TAATTTTCTTTTTTTCTTT
Found at i:12492458 original size:11 final size:11
Alignment explanation
Indices: 12492427--12492459 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
12492417 TGCAATTTAA
12492427 TAATTTTCTTT
1 TAATTTTCTTT
*
12492438 T-ATGTTCTTT
1 TAATTTTCTTT
12492448 TAATTTTCTTT
1 TAATTTTCTTT
12492459 T
1 T
12492460 TTTCTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (11 bp):
TAATTTTCTTT
Found at i:12492571 original size:32 final size:32
Alignment explanation
Indices: 12492510--12492574 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
12492500 TCCTCCCTTC
***
12492510 TCCATTTCTTTTAGTGTAATTTTTCTATGTTT
1 TCCATTTCTTTTAACATAATTTTTCTATGTTT
12492542 TCCATTTCTTTTAACATAACTTTTT-TATGTTT
1 TCCATTTCTTTTAACATAA-TTTTTCTATGTTT
12492574 T
1 T
12492575 TGAAACAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 24 0.83
33 5 0.17
ACGTcount: A:0.18, C:0.14, G:0.06, T:0.62
Consensus pattern (32 bp):
TCCATTTCTTTTAACATAATTTTTCTATGTTT
Found at i:12497182 original size:18 final size:16
Alignment explanation
Indices: 12497159--12497193 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12497149 AATTTAACTT
12497159 TAATTAAATTATTTAAAA
1 TAATT-AATT-TTTAAAA
12497177 TAATTAATTTTTAAAA
1 TAATTAATTTTTAAAA
12497193 T
1 T
12497194 TATAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTAATTTTTAAAA
Found at i:12502327 original size:17 final size:17
Alignment explanation
Indices: 12502301--12502345 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
12502291 CATCCACTAC
* *
12502301 ATATAAATACACTTACT
1 ATATATATACACATACT
*
12502318 ATATATATACACATATT
1 ATATATATACACATACT
12502335 ATATATATACA
1 ATATATATACA
12502346 GACACAGGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATATATACACATACT
Found at i:12508455 original size:16 final size:18
Alignment explanation
Indices: 12508433--12508478 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
12508423 TTATTATTTG
12508433 TTTTATAATATTTTAA-A
1 TTTTATAATATTTTAACA
*
12508450 -TTTAT-AT-TTTAAACA
1 TTTTATAATATTTTAACA
12508465 TTTTATAATATTTT
1 TTTTATAATATTTT
12508479 TTTATTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
14 5 0.22
15 3 0.13
16 10 0.43
17 2 0.09
18 3 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTATAATATTTTAACA
Found at i:12508481 original size:22 final size:22
Alignment explanation
Indices: 12508411--12508482 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
12508401 TTTAAACTTT
* *
12508411 TTTTAAAATTGTT-TATTATTTG
1 TTTTAAAATT-TTATAATATTTA
12508433 TTTTATAATATTTTA-AAT-TTATA
1 TTTTA-AA-ATTTTATAATATT-TA
12508456 TTTTAAACATTTTATAATATTT-
1 TTTTAAA-ATTTTATAATATTTA
12508478 TTTTA
1 TTTTA
12508483 TTCAAAGGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
22 20 0.49
23 16 0.39
24 5 0.12
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (22 bp):
TTTTAAAATTTTATAATATTTA
Found at i:12513155 original size:21 final size:23
Alignment explanation
Indices: 12513126--12513181 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
12513116 ATATTTACTT
*
12513126 TATAGAATATTTAG-TTTTATTAG
1 TATA-AATATTTAGCATTTATTAG
12513149 TATAATATATTTAGCATTTATTAG
1 TATAA-ATATTTAGCATTTATTAG
12513173 TATAAATAT
1 TATAAATAT
12513182 CTTTGTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 1 0.03
23 16 0.53
24 13 0.43
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (23 bp):
TATAAATATTTAGCATTTATTAG
Found at i:12513192 original size:25 final size:24
Alignment explanation
Indices: 12513132--12513181 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12513122 ACTTTATAGA
*
12513132 ATATTTAG-TTTTATTAGTATAAT
1 ATATTTAGCATTTATTAGTATAAT
12513155 ATATTTAGCATTTATTAGTATAA-
1 ATATTTAGCATTTATTAGTATAAT
12513178 ATAT
1 ATAT
12513182 CTTTGTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
ATATTTAGCATTTATTAGTATAAT
Found at i:12519391 original size:12 final size:12
Alignment explanation
Indices: 12519374--12519411 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
12519364 TAAGTGAAGT
12519374 AAAAAAAAA-AA
1 AAAAAAAAACAA
12519385 AAAAAAAAACAA
1 AAAAAAAAACAA
*
12519397 AAACAAAAACAA
1 AAAAAAAAACAA
12519409 AAA
1 AAA
12519412 TGCACACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:12530585 original size:16 final size:15
Alignment explanation
Indices: 12530560--12530638 Score: 52
Period size: 16 Copynumber: 4.7 Consensus size: 15
12530550 ACATATTTTA
12530560 ATTTTAATTTTTATTT
1 ATTTT-ATTTTTATTT
12530576 ATTTGTATTTTTAACTTT
1 ATTT-TATTTTT-A-TTT
*
12530594 AATTTTTATATATATATTT
1 -A-TTTTAT-T-TTTATTT
*
12530613 ATTTATATTTATATTT
1 ATTT-TATTTTTATTT
12530629 -TTTTATTTTT
1 ATTTTATTTTT
12530639 GCAGGTAGAC
Statistics
Matches: 53, Mismatches: 2, Indels: 18
0.73 0.03 0.25
Matches are distributed among these distances:
14 6 0.11
15 3 0.06
16 17 0.32
17 6 0.11
18 7 0.13
19 7 0.13
20 5 0.09
21 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (15 bp):
ATTTTATTTTTATTT
Found at i:12530588 original size:12 final size:12
Alignment explanation
Indices: 12530573--12530628 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
12530563 TTAATTTTTA
*
12530573 TTTATTTGTATT
1 TTTATTTATATT
12530585 TTTAACTTTA-ATT
1 TTT-A-TTTATATT
* *
12530598 TTTATATATATA
1 TTTATTTATATT
12530610 TTTATTTATATT
1 TTTATTTATATT
*
12530622 TATATTT
1 TTTATTT
12530629 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 3 0.09
12 22 0.63
13 7 0.20
14 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (12 bp):
TTTATTTATATT
Found at i:12530598 original size:23 final size:22
Alignment explanation
Indices: 12530553--12530598 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
12530543 GAGAAATACA
* *
12530553 TATTTTAATTTTAATTTTTATT
1 TATTTTAATTTTAACTTTAATT
*
12530575 TATTTGTATTTTTAACTTTAATT
1 TATTT-TAATTTTAACTTTAATT
12530598 T
1 T
12530599 TTATATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
TATTTTAATTTTAACTTTAATT
Found at i:12530617 original size:29 final size:28
Alignment explanation
Indices: 12530555--12530630 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 28
12530545 GAAATACATA
* * *
12530555 TTTTAATTTTAATTTTTATTTATTTGTAT
1 TTTTAA-TTTAATTTTTATATATATATAT
12530584 TTTTAACTTTAATTTTTATATATATAT-T
1 TTTTAA-TTTAATTTTTATATATATATAT
12530612 TATTTATATTTATATTTTT
1 T-TTTA-ATTTA-ATTTTT
12530631 TTATTTTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.05
29 31 0.77
30 7 0.17
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (28 bp):
TTTTAATTTAATTTTTATATATATATAT
Done.