Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 146 of 438
Found at i:43644768 original size:79 final size:82
Alignment explanation
Indices: 43644628--43644812 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
43644618 TCGAATGATG
* * *
43644628 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
43644692 CGTGCGAGAT-AATA-AA
66 CGTGCGAG-TCAATATAA
* **
43644708 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
43644770 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
43644788 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43644813 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:43644792 original size:40 final size:40
Alignment explanation
Indices: 43644629--43644820 Score: 169
Period size: 40 Copynumber: 4.8 Consensus size: 40
43644619 CGAATGATGT
* * * *
43644629 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
* * * * *
43644669 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGAT-AATAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TCACTAAAC
* *
43644709 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
* *
43644748 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
** *
43644788 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTC
43644821 GTTATATCCG
Statistics
Matches: 124, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 31 0.25
40 82 0.66
41 10 0.08
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:43644843 original size:79 final size:79
Alignment explanation
Indices: 43644628--43644845 Score: 176
Period size: 79 Copynumber: 2.7 Consensus size: 79
43644618 TCGAATGATG
* * * * ** *
43644628 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
43644691 TCGTGCGAGATAATAAA
63 TCGTGCGAGATAATAAA
* * * *
43644708 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
43644773 TGCGAG-TCACTATAA
66 TGCGAGAT-AATA-AA
** * ** * *
43644788 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
43644846 TACGTGATTC
Statistics
Matches: 113, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
78 1 0.01
79 68 0.60
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGATAATAAA
Found at i:43648323 original size:21 final size:21
Alignment explanation
Indices: 43648274--43648324 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 21
43648264 TTTTACGTGT
43648274 CTAATATTTTATTATTTATATG
1 CTAATA-TTTATTATTTATATG
**
43648296 -TTTTATTTA-TATTTATATGG
1 CTAATATTTATTATTTATAT-G
43648316 CTAATATTT
1 CTAATATTT
43648325 GAGCTATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.39
20 5 0.22
21 9 0.39
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (21 bp):
CTAATATTTATTATTTATATG
Found at i:43649732 original size:49 final size:49
Alignment explanation
Indices: 43649670--43649800 Score: 147
Period size: 49 Copynumber: 2.7 Consensus size: 49
43649660 ACATCAAAGT
* * *
43649670 CGATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGC
1 CGATGCCACGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGC
* * * *
43649719 CGATGCCGCGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGT
1 CGATGCCACGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GC
* * * *
43649768 CGATACCATGTCCCAAACAAGTCTTACACTGAC
1 CGATGCCACGTCCCAGACAGGTCTTACACTGAC
43649801 ACACAACAAG
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 67 0.99
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (49 bp):
CGATGCCACGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGC
Found at i:43649926 original size:46 final size:46
Alignment explanation
Indices: 43649858--43649982 Score: 173
Period size: 46 Copynumber: 2.7 Consensus size: 46
43649848 TATATCTTGA
* * *
43649858 GGTCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGT-CTCAAT
1 GGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAT--AT
*
43649905 -GTCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATAT
1 GGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAT
*
43649950 GGTCGATGCATGTCCCAAACATGTCTTACACTA
1 GGTCGATGCATGTCCCAGACATGTCTTACACTA
43649983 ACACAGATAT
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
45 2 0.03
46 67 0.96
47 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (46 bp):
GGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAT
Found at i:43652325 original size:40 final size:40
Alignment explanation
Indices: 43652281--43652425 Score: 247
Period size: 40 Copynumber: 3.6 Consensus size: 40
43652271 ACTACTTGCT
43652281 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
43652321 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
43652361 CAAATGCCTTCAGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
43652401 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
43652426 TTATCATCTG
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.01
40 99 0.99
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:43658630 original size:28 final size:27
Alignment explanation
Indices: 43658567--43658636 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
43658557 ATAGTGAGTC
*
43658567 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
43658594 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
43658622 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43658637 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43663454 original size:40 final size:39
Alignment explanation
Indices: 43663401--43663549 Score: 210
Period size: 40 Copynumber: 3.7 Consensus size: 39
43663391 ACTACTTGCT
43663401 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTA-CTCGCA
*
43663441 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGT-ACTCGCA
* * * *
43663481 CAAATGCCTTCAGGACTTAGCTCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGT-ACTCGCA
43663521 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
43663550 CATCCGAATA
Statistics
Matches: 97, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 94 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTACTCGCA
Found at i:43668984 original size:28 final size:29
Alignment explanation
Indices: 43668925--43668990 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
43668915 GTGAATATTT
* * *
43668925 TTTTTTATTTAAAACGTCATATTAGATTA
1 TTTTTTATATAAAACGTCACATTAGATAA
* *
43668954 TTTTTTATATAAAATGTTACATTAG-TAA
1 TTTTTTATATAAAACGTCACATTAGATAA
43668982 TTTTTTATA
1 TTTTTTATA
43668991 ACAAATTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.55
Consensus pattern (29 bp):
TTTTTTATATAAAACGTCACATTAGATAA
Found at i:43669732 original size:23 final size:23
Alignment explanation
Indices: 43669685--43669733 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
43669675 AAATATTTAT
*
43669685 AAATTTATTAAAAATATATATTA
1 AAATTTATTAAAAATATATAATA
43669708 AAATTTAGTTAAATAAT-T-TAATA
1 AAATTTA-TTAAA-AATATATAATA
43669731 AAA
1 AAA
43669734 AAATAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 14 0.61
24 6 0.26
25 3 0.13
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATTTATTAAAAATATATAATA
Found at i:43670673 original size:2 final size:2
Alignment explanation
Indices: 43670666--43670692 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43670656 AATGTTAAAT
43670666 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
43670693 GAATTGGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43670999 original size:39 final size:39
Alignment explanation
Indices: 43670930--43671059 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
43670920 TATTATAGGT
** *
43670930 TATAATAAGATCTAGTATTTGTTGTAGATTCTTAGGGTAA
1 TATAATAAGATCTAG-CCTTGTTGCAGATTCTTAGGGTAA
* * *
43670970 TACAATAAGATCTAGCCTTGTTGCAGATTCTCAGGGGAAA
1 TATAATAAGATCTAGCCTTGTTGCAGATTCTTA-GGGTAA
* * *
43671010 TATAATGAGATTTAGCCTTGTTGCAGGTTCTTA-GGTAA
1 TATAATAAGATCTAGCCTTGTTGCAGATTCTTAGGGTAA
43671048 TATAATAAGATC
1 TATAATAAGATC
43671060 CAACCCTTGT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
38 14 0.19
39 14 0.19
40 47 0.63
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (39 bp):
TATAATAAGATCTAGCCTTGTTGCAGATTCTTAGGGTAA
Found at i:43673854 original size:11 final size:11
Alignment explanation
Indices: 43673838--43673863 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43673828 ACCAAGAGTC
43673838 AAAATGAGCCA
1 AAAATGAGCCA
43673849 AAAATGAGCCA
1 AAAATGAGCCA
43673860 AAAA
1 AAAA
43673864 GGGACAAAAC
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:0.62, C:0.15, G:0.15, T:0.08
Consensus pattern (11 bp):
AAAATGAGCCA
Found at i:43675387 original size:40 final size:40
Alignment explanation
Indices: 43675342--43675509 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
43675332 CGGAATATAA
43675342 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
43675382 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
43675422 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
43675462 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
43675502 CCGGATAT
1 CCGGATAT
43675510 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43675492 original size:80 final size:80
Alignment explanation
Indices: 43675358--43675507 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
43675348 ATAACCACGT
* *
43675358 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
43675423 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
43675438 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
43675501 CCCGGAT
64 CCCGGAT
43675508 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:43677306 original size:13 final size:13
Alignment explanation
Indices: 43677284--43677323 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
43677274 AATCACGTCA
43677284 CACGGCCGTGTCC
1 CACGGCCGTGTCC
*
43677297 CACGGTCGTGTCC
1 CACGGCCGTGTCC
*
43677310 CACGGGCGTGTCC
1 CACGGCCGTGTCC
43677323 C
1 C
43677324 TGCCGAGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.07, C:0.42, G:0.33, T:0.17
Consensus pattern (13 bp):
CACGGCCGTGTCC
Found at i:43685332 original size:37 final size:34
Alignment explanation
Indices: 43685282--43685353 Score: 81
Period size: 37 Copynumber: 2.0 Consensus size: 34
43685272 AAGTGTGTCG
* *
43685282 TTTTTCTGACCATCTTTCCTCCTCCTCCTTTCTTTTC
1 TTTTTCTCACCATC-TACCTCCTCCT-C-TTCTTTTC
* *
43685319 TTTTTCTCTCCATCTACCTTCTCCTCTTCTTTTC
1 TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
43685353 T
1 T
43685354 CCATAGCCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 9 0.29
35 1 0.03
36 9 0.29
37 12 0.39
ACGTcount: A:0.06, C:0.38, G:0.01, T:0.56
Consensus pattern (34 bp):
TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
Found at i:43692725 original size:24 final size:24
Alignment explanation
Indices: 43692693--43692779 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
43692683 AATCTCAAAT
43692693 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
43692717 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
43692741 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
43692765 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
43692780 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:43692745 original size:48 final size:48
Alignment explanation
Indices: 43692693--43692801 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
43692683 AATCTCAAAT
** *
43692693 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
43692741 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
43692789 GCACTATGTGTGC
1 GCACTATGTGTGC
43692802 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:43692792 original size:24 final size:24
Alignment explanation
Indices: 43692693--43692801 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
43692683 AATCTCAAAT
*
43692693 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
43692717 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
43692741 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
43692765 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
43692789 GCACTATGTGTGC
1 GCACTATGTGTGC
43692802 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:43694868 original size:37 final size:34
Alignment explanation
Indices: 43694818--43694889 Score: 81
Period size: 37 Copynumber: 2.0 Consensus size: 34
43694808 AAGTGTGCCG
* *
43694818 TTTTTCTGACCATCTTTCCTCCTCCTCCTTTCTTTTC
1 TTTTTCTCACCATC-TACCTCCTCCT-C-TTCTTTTC
* *
43694855 TTTTTCTCTCCATCTACCTTCTCCTCTTCTTTTC
1 TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
43694889 T
1 T
43694890 CCATAGCCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 9 0.29
35 1 0.03
36 9 0.29
37 12 0.39
ACGTcount: A:0.06, C:0.38, G:0.01, T:0.56
Consensus pattern (34 bp):
TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
Found at i:43708135 original size:27 final size:26
Alignment explanation
Indices: 43708083--43708145 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
43708073 GTATAATTTA
* *
43708083 ATATAAAAATAATTATATTAAGAATT
1 ATATTAAAATAATTATAATAAGAATT
* *
43708109 GTTATTAAAATATATT-TAATAATAATT
1 -ATATTAAAATA-ATTATAATAAGAATT
43708136 ATATTAAAAT
1 ATATTAAAAT
43708146 GAGATTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 9 0.30
27 18 0.60
28 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (26 bp):
ATATTAAAATAATTATAATAAGAATT
Found at i:43708164 original size:39 final size:39
Alignment explanation
Indices: 43708090--43708161 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
43708080 TTAATATAAA
**
43708090 AATAATTATATTAAGAATTGTTATTAAAATATATTTAAT
1 AATAATTATATTAAGAATTGAGATTAAAATATATTTAAT
43708129 AATAATTATATTAA-AA-TGAGATT-AAAT-TATTTA
1 AATAATTATATTAAGAATTGAGATTAAAATATATTTA
43708162 TTTTTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 6 0.19
36 4 0.13
37 5 0.16
38 2 0.06
39 14 0.45
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (39 bp):
AATAATTATATTAAGAATTGAGATTAAAATATATTTAAT
Found at i:43708387 original size:16 final size:16
Alignment explanation
Indices: 43708366--43708416 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
43708356 TGAATTACTT
43708366 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
*
43708382 ATTACAGCTCTATTCC
1 ATTACAGCCCTATTCC
43708398 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
43708414 ATT
1 ATT
43708417 CCAGTGAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.35
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:43712890 original size:277 final size:277
Alignment explanation
Indices: 43712396--43712949 Score: 1081
Period size: 277 Copynumber: 2.0 Consensus size: 277
43712386 AAACTAATCT
*
43712396 ATGATCTAGCTAATAAGAAGTAAATTGTTAAATGGGCAAAATTACGAAATTGACAATTAATTAAC
1 ATGATCTAGCTAATAAGAAGTAAATTGTAAAATGGGCAAAATTACGAAATTGACAATTAATTAAC
*
43712461 AAGCAGTGGTCAATTGATCTTGGTTTGGTTTACCAATCTTCAAATTAGGGATCCAGACCACTTAA
66 AAGCAGTGGTCAATTGATCTTGGTTTGGTTTACCAATCTTCAAATTAGGGATCCAAACCACTTAA
43712526 ACTCCAAAAATGGCTCCATTTTACCTCTCGATCTCAATTTTTTCAAGTTAGACAATTTTACAGGT
131 ACTCCAAAAATGGCTCCATTTTACCTCTCGATCTCAATTTTTTCAAGTTAGACAATTTTACAGGT
43712591 TAACTTAGGACTAATGCATTGGTGCCCAACAAGATCACTTCTTGGTCTCACTTGTCTAGATGTTC
196 TAACTTAGGACTAATGCATTGGTGCCCAACAAGATCACTTCTTGGTCTCACTTGTCTAGATGTTC
43712656 CCTTAGAGTTGCTAGTC
261 CCTTAGAGTTGCTAGTC
*
43712673 ATGATCTAGCTAATAAGGAGTAAATTGTAAAATGGGCAAAATTACGAAATTGACAATTAATTAAC
1 ATGATCTAGCTAATAAGAAGTAAATTGTAAAATGGGCAAAATTACGAAATTGACAATTAATTAAC
43712738 AAGCAGTGGTCAATTGATCTTGGTTTGGTTTACCAATCTTCAAATTAGGGATCCAAACCACTTAA
66 AAGCAGTGGTCAATTGATCTTGGTTTGGTTTACCAATCTTCAAATTAGGGATCCAAACCACTTAA
43712803 ACTCCAAAAATGGCTCCATTTTACCTCTCGATCTCAATTTTTTCAAGTTAGACAATTTTACAGGT
131 ACTCCAAAAATGGCTCCATTTTACCTCTCGATCTCAATTTTTTCAAGTTAGACAATTTTACAGGT
43712868 TAACTTAGGACTAATGCATTGGTGCCCAACAAGATCACTTCTTGGTCTCACTTGTCTAGATGTTC
196 TAACTTAGGACTAATGCATTGGTGCCCAACAAGATCACTTCTTGGTCTCACTTGTCTAGATGTTC
43712933 CCTTAGAGTTGCTAGTC
261 CCTTAGAGTTGCTAGTC
43712950 CTAAGTTTTT
Statistics
Matches: 274, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
277 274 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (277 bp):
ATGATCTAGCTAATAAGAAGTAAATTGTAAAATGGGCAAAATTACGAAATTGACAATTAATTAAC
AAGCAGTGGTCAATTGATCTTGGTTTGGTTTACCAATCTTCAAATTAGGGATCCAAACCACTTAA
ACTCCAAAAATGGCTCCATTTTACCTCTCGATCTCAATTTTTTCAAGTTAGACAATTTTACAGGT
TAACTTAGGACTAATGCATTGGTGCCCAACAAGATCACTTCTTGGTCTCACTTGTCTAGATGTTC
CCTTAGAGTTGCTAGTC
Found at i:43716045 original size:42 final size:42
Alignment explanation
Indices: 43715983--43716119 Score: 175
Period size: 42 Copynumber: 3.2 Consensus size: 42
43715973 TAAGTCTATG
* * *
43715983 TGTAAGATCATATCTAGGATATGGTATCAATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGTATCAATATGAGATTTCA
* **
43716025 TGTAAGACCATATCTGGGATATGGAATTGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGTATCAATATGAGATTTCA
* * * *
43716067 TGTAAGACCATAGCTGGGCTATTGGTATCAATACGAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGTATCAATATGAGATTTCA
43716110 TGTAAGACCA
1 TGTAAGACCA
43716120 AATGTAATAG
Statistics
Matches: 81, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 55 0.68
43 26 0.32
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGTATCAATATGAGATTTCA
Found at i:43717366 original size:43 final size:42
Alignment explanation
Indices: 43717267--43717388 Score: 172
Period size: 43 Copynumber: 2.9 Consensus size: 42
43717257 CTGGGTTAGT
*
43717267 TGAGATTTCGTGTAAGACCATATCTGGGATATGACATCGATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
43717309 TGAGATTTTGTGTAAGACCATAGCTGGGTTATTGGCATCGATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * *
43717352 TGAGATCTCATGTAAGACTATATCTGGGATATGGCAT
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
43717389 TGGTATGGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 34 0.49
43 35 0.51
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:43719251 original size:46 final size:46
Alignment explanation
Indices: 43719197--43719372 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
43719187 TGTTTGGGCA
*
43719197 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
43719243 TTCC-AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
43719290 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
43719336 CCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43719373 GCAGGTTACA
Statistics
Matches: 103, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
46 69 0.67
47 34 0.33
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:43719352 original size:93 final size:93
Alignment explanation
Indices: 43719193--43719364 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
43719183 AGGATGTTTG
* *
43719193 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCCAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAG
43719258 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
43719286 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCGAGCTTGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCC-AACTCGTTGA
*
43719350 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
43719365 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:43723198 original size:24 final size:24
Alignment explanation
Indices: 43723169--43723383 Score: 367
Period size: 24 Copynumber: 9.0 Consensus size: 24
43723159 GAATGTGGCT
* * *
43723169 ATAGCAAATCGCACACCTAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
* *
43723193 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
43723217 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43723241 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43723265 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43723289 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43723313 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43723337 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43723361 ATAGTAAATCGCACACATAGTGC
1 ATAGTAAATCGCACACATAGTGC
43723384 ATTTGAGATA
Statistics
Matches: 186, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 186 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:43723840 original size:2 final size:2
Alignment explanation
Indices: 43723833--43723860 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
43723823 TGGGCATACT
43723833 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43723861 CATACCCGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43725668 original size:24 final size:24
Alignment explanation
Indices: 43725639--43725853 Score: 376
Period size: 24 Copynumber: 9.0 Consensus size: 24
43725629 GAATGTGGCT
* * *
43725639 ATAGCAAATCGCACACCTAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
43725663 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43725687 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43725711 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43725735 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43725759 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43725783 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43725807 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43725831 ATAGTAAATCGCACACATAGTGC
1 ATAGTAAATCGCACACATAGTGC
43725854 ATTTGAGATA
Statistics
Matches: 186, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 186 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:43726309 original size:2 final size:2
Alignment explanation
Indices: 43726302--43726329 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
43726292 TGGGCATACT
43726302 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43726330 CATACCCGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43727339 original size:17 final size:17
Alignment explanation
Indices: 43727314--43727348 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
43727304 TTCATTTACA
43727314 TAATTTATTC-ACTATT
1 TAATTTATTCTACTATT
43727330 TAATTCTATTCTACTATT
1 TAATT-TATTCTACTATT
43727348 T
1 T
43727349 TTAGTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (17 bp):
TAATTTATTCTACTATT
Found at i:43728152 original size:24 final size:24
Alignment explanation
Indices: 43728104--43728317 Score: 367
Period size: 24 Copynumber: 9.0 Consensus size: 24
43728094 GAATGTGGCT
* *
43728104 ATAGCAAATCGCACAC-TAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
* *
43728127 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
43728151 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43728175 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43728199 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43728223 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43728247 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43728271 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43728295 ATAGTAAATCGCACACATAGTGC
1 ATAGTAAATCGCACACATAGTGC
43728318 ATTTGAGATA
Statistics
Matches: 186, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
23 16 0.09
24 170 0.91
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:43728773 original size:2 final size:2
Alignment explanation
Indices: 43728766--43728791 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43728756 TGGGCATACT
43728766 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
43728792 CATACCCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43735866 original size:24 final size:24
Alignment explanation
Indices: 43735837--43736042 Score: 344
Period size: 24 Copynumber: 8.7 Consensus size: 24
43735827 GCATAGCATT
* *
43735837 ATCGCACACATAGTGCTATAGCAA
1 ATCGCACACATAGTGCCATAGTAA
* *
43735861 ATCGCACACATAGTGCTATAGCAA
1 ATCGCACACATAGTGCCATAGTAA
*
43735885 ATCGCACACATAGTGCTATAGTAA
1 ATCGCACACATAGTGCCATAGTAA
43735909 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACATAGTGCCATAGTAA
43735933 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACATAGTGCCATAGTAA
*
43735957 ATCGCACACATAGTGCCATAGTGA
1 ATCGCACACATAGTGCCATAGTAA
43735981 ATCGCACACATAGTGCCATAGT-A
1 ATCGCACACATAGTGCCATAGTAA
43736004 ATCGCACACATAGTGCCATAGT-A
1 ATCGCACACATAGTGCCATAGTAA
43736027 ATCGCACACATAGTGC
1 ATCGCACACATAGTGC
43736043 ATTTGAGATA
Statistics
Matches: 179, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
23 40 0.22
24 139 0.78
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
ATCGCACACATAGTGCCATAGTAA
Found at i:43737910 original size:15 final size:15
Alignment explanation
Indices: 43737871--43737920 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
43737861 GTATCTTGGG
*
43737871 TTTCTTTATCCTAGA
1 TTTCTTTATTCTAGA
* *
43737886 TCTCTTTATTCTGGA
1 TTTCTTTATTCTAGA
*
43737901 TTTCTTTATTC-AGT
1 TTTCTTTATTCTAGA
43737915 TTTCTT
1 TTTCTT
43737921 GTTATCTTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.14, C:0.18, G:0.08, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTAGA
Found at i:43744316 original size:24 final size:24
Alignment explanation
Indices: 43744289--43744429 Score: 273
Period size: 24 Copynumber: 5.9 Consensus size: 24
43744279 CACAATAGGC
43744289 AGTAAATCGCACACATAGTGCCAT
1 AGTAAATCGCACACATAGTGCCAT
43744313 AGTAAATCGCACACATAGTGCCAT
1 AGTAAATCGCACACATAGTGCCAT
43744337 AGTAAATCGCACACATAGTGCCAT
1 AGTAAATCGCACACATAGTGCCAT
*
43744361 AGTGAATCGCACACATAGTGCCAT
1 AGTAAATCGCACACATAGTGCCAT
43744385 AGTAAATCGCACACATAGTGCCAT
1 AGTAAATCGCACACATAGTGCCAT
43744409 AGTAAATCGCACACATAGTGC
1 AGTAAATCGCACACATAGTGC
43744430 ATTTGAGATA
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 115 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
AGTAAATCGCACACATAGTGCCAT
Found at i:43745560 original size:2 final size:2
Alignment explanation
Indices: 43745553--43745581 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43745543 ATGAATGGGC
43745553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43745582 CATACCCGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43752629 original size:24 final size:24
Alignment explanation
Indices: 43752600--43752814 Score: 367
Period size: 24 Copynumber: 9.0 Consensus size: 24
43752590 GAATGTGGCT
* * *
43752600 ATAGCAAATCGCACACCTAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
* *
43752624 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
43752648 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43752672 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43752696 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43752720 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43752744 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43752768 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43752792 ATAGTAAATCGCACACATAGTGC
1 ATAGTAAATCGCACACATAGTGC
43752815 ATTTGAGATA
Statistics
Matches: 186, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 186 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:43754700 original size:15 final size:15
Alignment explanation
Indices: 43754661--43754710 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
43754651 GTATCTTGGG
*
43754661 TTTCTTTATCCTAGA
1 TTTCTTTATTCTAGA
* *
43754676 TCTCTTTATTCTGGA
1 TTTCTTTATTCTAGA
*
43754691 TTTCTTTATTC-AGT
1 TTTCTTTATTCTAGA
43754705 TTTCTT
1 TTTCTT
43754711 GTTATCTTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.14, C:0.18, G:0.08, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTAGA
Found at i:43757150 original size:46 final size:46
Alignment explanation
Indices: 43757100--43757275 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
43757090 TGTTTGGGCA
* *
43757100 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
43757146 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
43757193 TCCGAGA-TCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACG
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
43757239 CCCGAGCTCGTTGAGTTGAGTTCGAGTTTACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43757276 GCAGGTTACA
Statistics
Matches: 100, Mismatches: 25, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
46 65 0.65
47 34 0.34
48 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:43757255 original size:93 final size:93
Alignment explanation
Indices: 43757096--43757266 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
43757086 AGGATGTTTG
* * *
43757096 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
43757161 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
43757189 GGCATCCGAGA-TCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGA
*
43757253 GTTGAGTTCGAGTT
65 GTTGAGTCCGAGTT
43757267 TACTTATGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:43761100 original size:19 final size:19
Alignment explanation
Indices: 43761065--43761162 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
43761055 AGATTACAAG
*
43761065 ATCATATCTTCAAGATTGTAT
1 ATCATATC-T-AAGATTGCAT
*
43761086 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCAT
43761105 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
43761122 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
43761141 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
43761160 ATC
1 ATC
43761163 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:43761130 original size:36 final size:37
Alignment explanation
Indices: 43761065--43761162 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
43761055 AGATTACAAG
*
43761065 ATCATATCTTCAAGATTGTATATCATATCTAAGATTGTAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
43761105 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
43761141 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
43761163 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:43761986 original size:44 final size:43
Alignment explanation
Indices: 43761932--43762014 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
43761922 ATCTGCTATG
* * **
43761932 TCTTCGATTTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTT
1 TCTTCAATTTGCTCTCCGAC-AATACAGAGATGCCAAATCTGTT
* *
43761976 TCTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATC
1 TCTTCAATTTGCTCTCCGACAATACAGAGATGCCAAATC
43762015 ATCTTAGATC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 17 0.52
44 16 0.48
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (43 bp):
TCTTCAATTTGCTCTCCGACAATACAGAGATGCCAAATCTGTT
Found at i:43762162 original size:84 final size:84
Alignment explanation
Indices: 43762064--43762599 Score: 748
Period size: 84 Copynumber: 6.4 Consensus size: 84
43762054 TCTGCTATAC
* * *
43762064 TTTAACCCGTTACCCTACTGCTTACGGGG-TTAAGGCTTA-TCTTCGATCTGTTCCACTACTGCT
1 TTTAACCTGTTACCCTACTGCTTA-GGGGATTAAGGC-GAGTCTTCGATCTGCTCCACTACTGCT
43762127 TAGGGAGATAAGATCTGTAAA
64 TAGGGAGATAAGATCTGTAAA
* * * * *
43762148 TTTAACCTATTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTTGCTCTGCTTCGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
43762213 TTAGGGAGATAAGATCTG----
63 TTAGGGAGATAAGATCTGTAAA
** * *
43762231 -CGAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTTGATCTGCTCCACTACTACTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
*
43762295 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGTAAA
* * * *
43762314 TTTAACATGTTACCCTA-TCACTTA-GGGATTAAGGCGGGTCTTCGATCTGCTCCCCTACTGCTT
1 TTTAACCTGTTACCCTACT-GCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTT
*
43762377 AGGGAGATAAGATCTGCAAA
65 AGGGAGATAAGATCTGTAAA
*
43762397 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
43762462 GGGAGATAAGATCTGTAAA
66 GGGAGATAAGATCTGTAAA
* * * *
43762481 TTTAACCTGTTATCCTACTGCTTAGGGGATTAAGGCGTGTCTTTGATCTGCTCCACTACTACTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
43762546 GGGAGATAAGATCTGTAAA
66 GGGAGATAAGATCTGTAAA
43762565 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGG
43762600 GGCTGAATTT
Statistics
Matches: 404, Mismatches: 35, Indels: 26
0.87 0.08 0.06
Matches are distributed among these distances:
79 34 0.08
81 1 0.00
82 37 0.09
83 81 0.20
84 217 0.54
85 1 0.00
87 33 0.08
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGTAAA
Found at i:43762568 original size:251 final size:249
Alignment explanation
Indices: 43762072--43762599 Score: 769
Period size: 251 Copynumber: 2.1 Consensus size: 249
43762062 ACTTTAACCC
* *** *
43762072 GTTACCCTACTGCTTACGGGG-TTAAGGCTTATCTTCGATCTGTTCCACTACTGCTTAGGGAGAT
1 GTTACCCTACTACTTA-GGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
* * *
43762136 AAGATCTGTAAATTTAACCTATTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTTGCTCTG
65 AAGATCTGCAAATTTAACCTATTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTC-TCGATCTG
* *
43762201 CTTCGCTACTGCTTAGGGAGATAAGATCTGCGAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
129 CTCCACTACTGCTTAGGGAGATAAGATCTGCGAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
43762266 GAGTCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAAATTTAACAT
194 GAGTCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAAATTTAACAT
*
43762322 GTTACCCTA-TCACTTA-GGGATTAAGGCGGGTCTTCGATCTGCTCCCCTACTGCTTAGGGAGAT
1 GTTACCCTACT-ACTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
* *
43762385 AAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTC-T-TCGATCTGC
65 AAGATCTGCAAATTTAACCTATTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCTCGATCTGC
** *
43762448 TCCACTACTGCTTAGGGAGATAAGATCTGTAAATTTAACCTGTTATCCTACTGCTTAGGGGATTA
130 TCCACTACTGCTTAGGGAGATAAGATCTG-----CGAACCTGTTACCCTACTGCTTAGGGGATTA
* * *
43762513 AGGCGTGTCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAAATTTAACCT
190 AGGCGAGTCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAAATTTAACAT
*
43762573 GTTACCCTACTGCTTAGGGGATTAAGG
1 GTTACCCTACTACTTAGGGGATTAAGG
43762600 GGCTGAATTT
Statistics
Matches: 249, Mismatches: 20, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
246 34 0.14
248 4 0.02
249 89 0.36
250 13 0.05
251 98 0.39
252 11 0.04
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (249 bp):
GTTACCCTACTACTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
AGATCTGCAAATTTAACCTATTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCTCGATCTGCT
CCACTACTGCTTAGGGAGATAAGATCTGCGAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
GTCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAAATTTAACAT
Found at i:43763565 original size:11 final size:11
Alignment explanation
Indices: 43763549--43763574 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43763539 AGCCTCTCCA
43763549 TTTTTTTCTTT
1 TTTTTTTCTTT
43763560 TTTTTTTCTTT
1 TTTTTTTCTTT
43763571 TTTT
1 TTTT
43763575 CCTTTTTTTT
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:43769221 original size:22 final size:21
Alignment explanation
Indices: 43769191--43769237 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
43769181 TACAAATTAA
43769191 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
43769213 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
43769234 ATCT
1 ATCT
43769238 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:43769243 original size:19 final size:19
Alignment explanation
Indices: 43769208--43769288 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
43769198 AGATTACAAG
43769208 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
43769229 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCAT
*
43769248 ATCATATCTAGGATTGCAT
1 ATCATATCTAAGATTGCAT
43769267 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
43769286 ATC
1 ATC
43769289 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
19 47 0.84
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:43778097 original size:55 final size:54
Alignment explanation
Indices: 43777989--43778235 Score: 260
Period size: 55 Copynumber: 4.6 Consensus size: 54
43777979 ATTAGGGTTT
* *
43777989 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGC
* * *
43778044 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGC
* *
43778099 ATAGG-T-CCTATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 A-AGGATACC-ATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * *
43778152 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * *
43778201 AAGGATACCACGTAAGACCATGACAAGTCATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
43778236 ATGTTAAGGT
Statistics
Matches: 165, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
49 31 0.19
52 5 0.03
53 43 0.26
54 12 0.07
55 71 0.43
56 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:43778195 original size:108 final size:110
Alignment explanation
Indices: 43777998--43778196 Score: 323
Period size: 108 Copynumber: 1.8 Consensus size: 110
43777988 TAAGGATACC
43777998 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACC
1 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACC
*
43778063 ATGTCAAGACATGACATTGATAAGTTACTATAAGGCATAGGTCCT
66 ATGTCAAGACATGACAATGATAAGTTACTATAAGGCATAGGTCCT
*
43778108 ATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGAC
1 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAGAC
* * *
43778170 CATGTCGAGACATGGCAATGGTAAGTT
65 CATGTCAAGACATGACAATGATAAGTT
43778197 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.58
109 7 0.08
110 25 0.30
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.24
Consensus pattern (110 bp):
ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACC
ATGTCAAGACATGACAATGATAAGTTACTATAAGGCATAGGTCCT
Found at i:43778456 original size:16 final size:16
Alignment explanation
Indices: 43778435--43778465 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43778425 ATAAATTTGA
43778435 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
43778451 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
43778466 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:43781059 original size:15 final size:16
Alignment explanation
Indices: 43781032--43781061 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43781022 AAATCGAGCC
43781032 ATAAAATTTCATTCAA
1 ATAAAATTTCATTCAA
43781048 ATAAAA-TTCATTCA
1 ATAAAATTTCATTCA
43781062 TACATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAAATTTCATTCAA
Found at i:43788384 original size:25 final size:25
Alignment explanation
Indices: 43788350--43788414 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
43788340 AAGGTCACAC
* *
43788350 GGCTATGTCACACACCCTTGTGCTA
1 GGCTGTGTCACACACCCATGTGCTA
* *
43788375 GGCTGTGTCACACGCCCATGTGTTA
1 GGCTGTGTCACACACCCATGTGCTA
*
43788400 GGCTGTGTAACACAC
1 GGCTGTGTCACACAC
43788415 TGACTTTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (25 bp):
GGCTGTGTCACACACCCATGTGCTA
Found at i:43790989 original size:14 final size:14
Alignment explanation
Indices: 43790960--43790988 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43790950 GTATTTAAAA
43790960 TTGGTTTTGAACTT
1 TTGGTTTTGAACTT
43790974 TTGGTTTTGAA-TT
1 TTGGTTTTGAACTT
43790987 TT
1 TT
43790989 TTTTCAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.14, C:0.03, G:0.21, T:0.62
Consensus pattern (14 bp):
TTGGTTTTGAACTT
Found at i:43793923 original size:47 final size:49
Alignment explanation
Indices: 43793844--43793976 Score: 163
Period size: 46 Copynumber: 2.8 Consensus size: 49
43793834 TGTAACCCGC
*
43793844 CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
43793894 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
43793937 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
43793977 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 29 0.41
47 29 0.41
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:43793992 original size:46 final size:44
Alignment explanation
Indices: 43793852--43793992 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 44
43793842 GCCCATAAGC
* *
43793852 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * *
43793899 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
43793945 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
43793991 GA
1 GA
43793993 CATGTCACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 33 0.42
47 30 0.38
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:43799861 original size:42 final size:42
Alignment explanation
Indices: 43799814--43799905 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
43799804 TGGCCTTTAG
* ** *
43799814 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
43799856 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
43799898 GCCCATTT
1 GCCCATTT
43799906 AGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:43800077 original size:24 final size:25
Alignment explanation
Indices: 43800045--43800121 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
43800035 GCCTAGTCTC
43800045 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
43800069 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
* * * *
43800094 TTTCAGTAAACTGGGGCATAGCTCT
1 TTTTAATAAACTGGGGCAAAGCCCT
43800119 TTT
1 TTT
43800122 AGCACTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 6 0.13
25 40 0.87
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:43800961 original size:27 final size:27
Alignment explanation
Indices: 43800931--43800995 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
43800921 GGGCATATTC
43800931 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
43800958 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
43800985 GTCTTTTTACC
1 GTCATTTTACC
43800996 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:43801128 original size:30 final size:29
Alignment explanation
Indices: 43801049--43801135 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 29
43801039 GTAAATCTAC
*
43801049 AAACCAAGGGTATTTCAGTAATTTTGT--
1 AAACCAAGGGTATTTCTGTAATTTTGTAA
* * * *
43801076 AAACCAATGGTATTCCTATAATTTTTTAA
1 AAACCAAGGGTATTTCTGTAATTTTGTAA
*
43801105 AAAGTCAAGGGTATTTCTGTAATTTTGTAA
1 AAA-CCAAGGGTATTTCTGTAATTTTGTAA
43801135 A
1 A
43801136 TTAGGGGTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 22 0.47
29 3 0.06
30 22 0.47
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (29 bp):
AAACCAAGGGTATTTCTGTAATTTTGTAA
Found at i:43801189 original size:27 final size:26
Alignment explanation
Indices: 43801112--43801183 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
43801102 TAAAAAGTCA
* **
43801112 AGGGTATTTCTGTAATTTTGTAAATT
1 AGGGTATTTCGGTAATTTTACAAATT
*
43801138 AGGGGTATTTTGGTAATTTTACAAATT
1 A-GGGTATTTCGGTAATTTTACAAATT
43801165 GAGGGTATTTCGGTAATTT
1 -AGGGTATTTCGGTAATTT
43801184 CTCAAACCAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.03
27 37 0.95
28 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.24, T:0.46
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTTTACAAATT
Found at i:43801314 original size:27 final size:27
Alignment explanation
Indices: 43801241--43801331 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
43801231 GTAATTTCAC
43801241 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
43801268 AAT-GAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
43801294 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
43801321 AATCGAGGGTA
1 AATCGAGGGTA
43801332 CTTTGTTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 25 0.45
27 31 0.55
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:43803363 original size:25 final size:25
Alignment explanation
Indices: 43803335--43803382 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43803325 TTATACCATG
* * *
43803335 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
43803360 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
43803383 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:43803451 original size:20 final size:20
Alignment explanation
Indices: 43803426--43803484 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
43803416 TAAATATGGT
*
43803426 ATGTATGAGATGCACATGAC
1 ATGTATGATATGCACATGAC
*
43803446 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
43803466 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
43803485 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:43803562 original size:24 final size:24
Alignment explanation
Indices: 43803535--43803677 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
43803525 GAGGAAGTGA
43803535 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
43803559 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
43803583 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
43803606 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
43803630 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
43803654 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43803678 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:43803628 original size:47 final size:47
Alignment explanation
Indices: 43803535--43803677 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
43803525 GAGGAAGTGA
43803535 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
43803583 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
43803630 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
43803678 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:43803651 original size:71 final size:72
Alignment explanation
Indices: 43803535--43803678 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
43803525 GAGGAAGTGA
*
43803535 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
43803598 CCAGTTAT
65 CCAGTTAT
** * *
43803606 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
43803671 CAGTTAT
66 CAGTTAT
43803678 A
1 A
43803679 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:43803904 original size:31 final size:31
Alignment explanation
Indices: 43803869--43803932 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
43803859 CGTTTACAGT
43803869 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
43803900 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43803931 AA
1 AA
43803933 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43814050 original size:21 final size:21
Alignment explanation
Indices: 43813993--43814051 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
43813983 ATTGCCTCTA
*
43813993 CCTCCCT-TGCTGCTACCGCTG
1 CCTCCCTCT-CTGCTGCCGCTG
* * *
43814014 CCTCCTTCGCTACTGCCGCTG
1 CCTCCCTCTCTGCTGCCGCTG
43814035 CCTCCCTCTCTGCTGCC
1 CCTCCCTCTCTGCTGCC
43814052 TCCGCTCTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.03, C:0.51, G:0.17, T:0.29
Consensus pattern (21 bp):
CCTCCCTCTCTGCTGCCGCTG
Found at i:43814487 original size:13 final size:14
Alignment explanation
Indices: 43814460--43814488 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43814450 ACTAATGACG
43814460 AATTAAACAATTAT
1 AATTAAACAATTAT
43814474 AATTAAAC-ATTAT
1 AATTAAACAATTAT
43814487 AA
1 AA
43814489 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:43817632 original size:93 final size:93
Alignment explanation
Indices: 43817527--43817698 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
43817517 GCCCATAAGT
* * * *
43817527 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43817592 CAAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
*
43817620 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
43817685 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
43817699 CAAACATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:43817694 original size:46 final size:46
Alignment explanation
Indices: 43817519--43817694 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
43817509 TGTAACCCGC
* * *
43817519 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
43817565 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
43817611 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
43817658 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
43817695 TGCCCAAACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 30 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:43817713 original size:46 final size:46
Alignment explanation
Indices: 43817570--43817713 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
43817560 CGCATCCATA
* * *
43817570 AGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * * *
43817619 --CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
43817663 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
43817709 AGTGA
1 AGTGA
43817714 CATGTCACTT
Statistics
Matches: 73, Mismatches: 16, Indels: 15
0.70 0.15 0.14
Matches are distributed among these distances:
44 8 0.11
46 32 0.44
47 29 0.40
49 4 0.05
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:43820983 original size:9 final size:9
Alignment explanation
Indices: 43820969--43821035 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
43820959 TAAGTATAAT
43820969 TAAGTTATG
1 TAAGTTATG
43820978 TAAGTTATG
1 TAAGTTATG
* ** *
43820987 ATATGAAATA
1 -TAAGTTATG
*
43820997 T-ATTTATG
1 TAAGTTATG
43821005 T-A-TTATG
1 TAAGTTATG
43821012 TAAGTTATG
1 TAAGTTATG
*
43821021 TAAATTATG
1 TAAGTTATG
43821030 TAAGTT
1 TAAGTT
43821036 GTTTATCATA
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
7 6 0.14
8 5 0.11
9 28 0.64
10 5 0.11
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:43821453 original size:104 final size:105
Alignment explanation
Indices: 43821281--43821896 Score: 960
Period size: 110 Copynumber: 5.8 Consensus size: 105
43821271 CAATATTTAA
* *
43821281 AAATACAATTTAATTTAATTACGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATG
* *
43821346 ATTAAAATAAAATAAAATAAAACATTTAAAGTAAAACTTT
66 ATTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
*
43821386 AAA-AAAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATG
43821450 ATTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
*
43821490 AAATAAAATTTAATTTAATTAGGTAATTT-AAAATAAAATAAAAGTAGACAAAATATTTTTCATG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATG
43821554 A-T----TAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
* * *
43821589 AAATACAATTTAATTTTATTAGGTAATTT-AAAATAAAATAAAAGTAGACAAAATATTGTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATG
43821653 ATTAAAATAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
66 A-T----TAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
* * * *
43821698 AAATACAATTTAATTTAATTAGTTAATTTAAAAATAAAATAAAAGTAGACAAAATATTGTACGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATG
43821763 ATTAAAATAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
66 A-T----TAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
*
43821808 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTATG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATG
43821873 ATTAAAATAAAATAAAATAAAATA
66 ATTAAAATAAAATAAAATAAAATA
43821897 AAATAAAATA
Statistics
Matches: 482, Mismatches: 17, Indels: 24
0.92 0.03 0.05
Matches are distributed among these distances:
99 94 0.20
103 1 0.00
104 135 0.28
105 51 0.11
109 61 0.13
110 140 0.29
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.34
Consensus pattern (105 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATG
ATTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
Found at i:43821481 original size:14 final size:14
Alignment explanation
Indices: 43821462--43821498 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
43821452 TAAAATAAAA
43821462 TAAAATAAAATATT
1 TAAAATAAAATATT
*
43821476 TAAAATAAAA-CTT
1 TAAAATAAAATATT
43821489 T-AAATAAAAT
1 TAAAATAAAAT
43821499 TTAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 8 0.38
13 3 0.14
14 10 0.48
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAATAAAATATT
Found at i:43821693 original size:5 final size:5
Alignment explanation
Indices: 43821655--43821681 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
43821645 TGTTCGTGAT
43821655 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
43821682 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:43821700 original size:13 final size:14
Alignment explanation
Indices: 43821654--43821693 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
43821644 TTGTTCGTGA
*
43821654 TTAAAATAAAATAAA
1 TTAAAATAAAAT-AT
*
43821669 ATAAAATAAAATAT
1 TTAAAATAAAATAT
43821683 TTAAAATAAAA
1 TTAAAATAAAA
43821694 CTTTAAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TTAAAATAAAATAT
Found at i:43821792 original size:110 final size:110
Alignment explanation
Indices: 43821281--43821976 Score: 907
Period size: 110 Copynumber: 6.4 Consensus size: 110
43821271 CAATATTTAA
* * *
43821281 AAATACAATTTAATTTAATTACGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTGTACGTG
* *
43821346 A-T----TAAAATAAAATAAAATAAAACATTTAAAGTAAAACTTT
66 ATTAAAATAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
* * * *
43821386 AAA-AAAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTGTACGTG
43821450 A-T----TAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAAATAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
*
43821490 AAATAAAATTTAATTTAATTAGGTAATTT-AAAATAAAATAAAAGTAGACAAAATA-T-T---T-
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTGTACGTG
* * *
43821548 -TT--CAT-GATTAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAAATAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
* *
43821589 AAATACAATTTAATTTTATTAGGTAATTT-AAAATAAAATAAAAGTAGACAAAATATTGTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTGTACGTG
43821653 ATTAAAATAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAAATAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
*
43821698 AAATACAATTTAATTTAATTAGTTAATTTAAAAATAAAATAAAAGTAGACAAAATATTGTACGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTGTACGTG
43821763 ATTAAAATAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAAATAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
* *
43821808 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTATG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATA--TTGTACG
* *
43821873 ATTAAAATAAAATAAAATAAAATAAAATAAAATAAAATAAAATATTTAAAATAAAAATTT
64 --T--GAT----TAAAATAAAATAAAATAAAAT-----AAAATATTTAAAATAAAACTTT
*
43821933 AAATACAATTTAATTTAATTAGTTAATTTAAAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
43821977 TATTTAAAAT
Statistics
Matches: 540, Mismatches: 21, Indels: 40
0.90 0.03 0.07
Matches are distributed among these distances:
98 1 0.00
99 88 0.16
100 2 0.00
101 1 0.00
102 1 0.00
103 1 0.00
104 126 0.23
105 28 0.05
106 2 0.00
108 2 0.00
109 61 0.11
110 134 0.25
112 5 0.01
114 1 0.00
116 2 0.00
120 21 0.04
125 64 0.12
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (110 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTGTACGTG
ATTAAAATAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
Found at i:43821803 original size:5 final size:5
Alignment explanation
Indices: 43821765--43821791 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
43821755 TGTACGTGAT
43821765 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
43821792 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:43821810 original size:13 final size:14
Alignment explanation
Indices: 43821764--43821803 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
43821754 TTGTACGTGA
*
43821764 TTAAAATAAAATAAA
1 TTAAAATAAAAT-AT
*
43821779 ATAAAATAAAATAT
1 TTAAAATAAAATAT
43821793 TTAAAATAAAA
1 TTAAAATAAAA
43821804 CTTTAAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TTAAAATAAAATAT
Found at i:43821842 original size:62 final size:62
Alignment explanation
Indices: 43821776--43821988 Score: 214
Period size: 62 Copynumber: 3.4 Consensus size: 62
43821766 AAAATAAAAT
* *
43821776 AAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTA
1 AAAATAAAATAAAATATTTAAAATAAAAATTTAAATACAATTTAATTTAATTAGATAATTTA
*** *** * * ** ** * * **
43821838 AAAATAAAATAAAAGTAGACAAAAT-ATTTTTTATGATTAAAATAAAATAAAATAAAATAAAAT-
1 AAAATAAAATAAAA-TATTTAAAATAAAAATTTA--AATACAATTTAATTTAATTAGATAATTTA
*
43821901 AAAATAAAATAAAATATTTAAAATAAAAATTTAAATACAATTTAATTTAATTAGTTAATTTA
1 AAAATAAAATAAAATATTTAAAATAAAAATTTAAATACAATTTAATTTAATTAGATAATTTA
43821963 AAAATAAAATAAAATATTTAAAATAA
1 AAAATAAAATAAAATATTTAAAATAA
43821989 GGACATTAAA
Statistics
Matches: 112, Mismatches: 34, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
61 17 0.15
62 52 0.46
63 26 0.23
64 17 0.15
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (62 bp):
AAAATAAAATAAAATATTTAAAATAAAAATTTAAATACAATTTAATTTAATTAGATAATTTA
Found at i:43821928 original size:5 final size:5
Alignment explanation
Indices: 43821875--43821916 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
43821865 TTTTTATGAT
43821875 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
43821917 TTTAAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:43821934 original size:13 final size:14
Alignment explanation
Indices: 43821874--43821935 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 14
43821864 TTTTTTATGA
*
43821874 TTAAAATAAAATAAA
1 TTAAAATAAAAT-AT
* *
43821889 ATAAAATAAAATAAA
1 TTAAAATAAAAT-AT
*
43821904 ATAAAATAAAATAT
1 TTAAAATAAAATAT
43821918 TTAAAATAAAA-AT
1 TTAAAATAAAATAT
43821931 TTAAA
1 TTAAA
43821936 TACAATTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
13 7 0.16
14 11 0.25
15 26 0.59
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TTAAAATAAAATAT
Found at i:43822147 original size:23 final size:24
Alignment explanation
Indices: 43822117--43822163 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
43822107 TTAACTTAAA
*
43822117 TGATAAAA-GAATGATAATATTTG
1 TGATAAAACGAATGAGAATATTTG
*
43822140 TGATAAAACGGATGAGAATATTTG
1 TGATAAAACGAATGAGAATATTTG
43822164 AATAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.32
Consensus pattern (24 bp):
TGATAAAACGAATGAGAATATTTG
Found at i:43824425 original size:20 final size:20
Alignment explanation
Indices: 43824397--43824435 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
43824387 ATGGGGTTGG
*
43824397 ATGATATAACAAGAAAACTA
1 ATGACATAACAAGAAAACTA
43824417 ATGACATAACAAGAAAACT
1 ATGACATAACAAGAAAACT
43824436 GAATCTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.13, G:0.10, T:0.18
Consensus pattern (20 bp):
ATGACATAACAAGAAAACTA
Found at i:43824891 original size:18 final size:18
Alignment explanation
Indices: 43824864--43824903 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
43824854 ACTAATACCC
**
43824864 ATTTTATATTTCTTTTTT
1 ATTTTATATTTAATTTTT
*
43824882 ATTTTTTATTTAATTTTT
1 ATTTTATATTTAATTTTT
43824900 ATTT
1 ATTT
43824904 GTATCAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (18 bp):
ATTTTATATTTAATTTTT
Found at i:43824994 original size:14 final size:14
Alignment explanation
Indices: 43824959--43824995 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
43824949 TATTATCTCT
43824959 TAAATAATTTAATC
1 TAAATAATTTAATC
43824973 TAAA-AATTTAATC
1 TAAATAATTTAATC
43824986 TAAATAATTT
1 TAAATAATTT
43824996 CATTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATTTAATC
Found at i:43825978 original size:39 final size:40
Alignment explanation
Indices: 43825895--43825995 Score: 105
Period size: 39 Copynumber: 2.5 Consensus size: 40
43825885 ATAGTGGTAT
* * * *
43825895 TTTTTTTGAAAGCGCCGTTAATTCTCGATCTTTAGCAGCA
1 TTTTTTTAAAAACGCCGCTAATGCTCGATCTTTAGCAGCA
** **
43825935 -TTTTTTAAAAACGCCGCTAATGCTCGATCTTTAGTGGTG
1 TTTTTTTAAAAACGCCGCTAATGCTCGATCTTTAGCAGCA
*
43825974 TTTTTCTTTAAAACGCCGCTAA
1 TTTTT-TTAAAAACGCCGCTAA
43825996 AAACCTATTT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
39 31 0.62
40 4 0.08
41 15 0.30
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.40
Consensus pattern (40 bp):
TTTTTTTAAAAACGCCGCTAATGCTCGATCTTTAGCAGCA
Found at i:43832933 original size:46 final size:46
Alignment explanation
Indices: 43832883--43833058 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
43832873 TGGTTGAGCA
43832883 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43832929 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
43832974 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43833022 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43833059 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43833039 original size:93 final size:93
Alignment explanation
Indices: 43832880--43833051 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43832870 GGATGGTTGA
* *
43832880 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43832945 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43832973 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43833038 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
43833052 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43840480 original size:46 final size:46
Alignment explanation
Indices: 43840430--43840605 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
43840420 TGGTTGAGCA
43840430 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43840476 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
43840521 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
43840569 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43840606 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43840586 original size:93 final size:93
Alignment explanation
Indices: 43840427--43840598 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
43840417 GGATGGTTGA
*
43840427 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
43840492 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43840520 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
43840584 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
43840599 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43843246 original size:39 final size:39
Alignment explanation
Indices: 43843192--43843278 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
43843182 CCGGCAATTA
* *
43843192 GCCTGCTAGGTATAAACCTGAACTTATCACTGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTAACACCGGCACGAG
* *
43843231 GCCTGCTAGGTATAAACCTGAATTTAACACCGGCAGGAG
1 GCCTGCTAGGTATAAACCTGAACTTAACACCGGCACGAG
43843270 GCCTGCTAG
1 GCCTGCTAG
43843279 ACATTAAGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTAACACCGGCACGAG
Found at i:43846047 original size:17 final size:18
Alignment explanation
Indices: 43846014--43846049 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
43846004 TACGGGCCAA
43846014 AATGGGCTAAATGGGCCC
1 AATGGGCTAAATGGGCCC
*
43846032 AATGGGCT-ATTGGGCCC
1 AATGGGCTAAATGGGCCC
43846049 A
1 A
43846050 TAATAGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.19
Consensus pattern (18 bp):
AATGGGCTAAATGGGCCC
Found at i:43846205 original size:29 final size:28
Alignment explanation
Indices: 43846113--43846227 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 28
43846103 ATGAATATGA
* **
43846113 ATGTGACTGGGCCTAACAGGCCATATAC
1 ATGTGATTGGGCCTAATGGGCCATATAC
** *
43846141 ATGTGATTTGGGCCTAATGCACCGTATAC
1 ATGTGA-TTGGGCCTAATGGGCCATATAC
*
43846170 AGGTGATTTGGGCCTAATGGGCCATATGA-
1 ATGTGA-TTGGGCCTAATGGGCCATAT-AC
* * * *
43846199 ATATGATTGGACTTAATGGGCCAGATAC
1 ATGTGATTGGGCCTAATGGGCCATATAC
43846227 A
1 A
43846228 GGTATGTGAA
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
27 1 0.01
28 24 0.35
29 43 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (28 bp):
ATGTGATTGGGCCTAATGGGCCATATAC
Found at i:43846532 original size:25 final size:25
Alignment explanation
Indices: 43846507--43846555 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
43846497 CCATAATTAA
* *
43846507 GGAAAAATTACCAAAATGCCCCTAAG
1 GGAAAAATGACC-AAATACCCCTAAG
*
43846533 GGCAAAATGACCAAATACCCCTA
1 GGAAAAATGACCAAATACCCCTA
43846556 GGTGTTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.45, C:0.27, G:0.14, T:0.14
Consensus pattern (25 bp):
GGAAAAATGACCAAATACCCCTAAG
Found at i:43851321 original size:24 final size:24
Alignment explanation
Indices: 43851276--43851321 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
43851266 TGCATTATGG
**
43851276 AAGGAAAATAAAGAAATGAAAAAA
1 AAGGAAAATAAAGAAAAAAAAAAA
* *
43851300 AAGGAAAATGATGAAAAAAAAA
1 AAGGAAAATAAAGAAAAAAAAA
43851322 GAGTGTGGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (24 bp):
AAGGAAAATAAAGAAAAAAAAAAA
Found at i:43851872 original size:29 final size:29
Alignment explanation
Indices: 43851839--43851998 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
43851829 GTGACGAGAT
*
43851839 TGGCACTAAGTGTGCATGCTAGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
43851868 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
43851897 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
43851926 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
43851955 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
43851984 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
43851999 GAAATCGAGT
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 107 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:43853518 original size:46 final size:46
Alignment explanation
Indices: 43853468--43853643 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
43853458 TGGTTGAGCA
43853468 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43853514 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
43853559 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43853607 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43853644 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43853624 original size:93 final size:93
Alignment explanation
Indices: 43853465--43853636 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43853455 GGATGGTTGA
* *
43853465 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43853530 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43853558 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43853623 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
43853637 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43861960 original size:29 final size:29
Alignment explanation
Indices: 43861927--43862086 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
43861917 GTGACGAGAT
43861927 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
43861956 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
43861985 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
43862014 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
43862043 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
43862072 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
43862087 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:43864535 original size:15 final size:15
Alignment explanation
Indices: 43864515--43864544 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43864505 CAACACTTGT
43864515 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
43864530 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
43864545 AATACATTAG
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:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:43877828 original size:47 final size:47
Alignment explanation
Indices: 43877775--43877961 Score: 295
Period size: 47 Copynumber: 4.0 Consensus size: 47
43877765 AAGATATGTA
*
43877775 TATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
*
43877822 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* *
43877869 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * *
43877916 TATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTGTAT
1 TATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
43877962 AACTGTGATA
Statistics
Matches: 130, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
47 127 0.98
48 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.27
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
Found at i:43891017 original size:43 final size:42
Alignment explanation
Indices: 43890944--43891107 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 42
43890934 CGGAAAGCTC
* * **
43890944 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCTAGATATGGTCTTACATGTAATCAA
* * *
43890986 ATATCGATGCC-ACTGTCCTAGATATGTTCTTACAAGAAATCAA
1 ATA-CGATGCCAAC-GTCCTAGATATGGTCTTACATGTAATCAA
*
43891029 ATACGATGCCAACGTCCTAGATGTGGTCTTACATGTAAATCATA
1 ATACGATGCCAACGTCCTAGATATGGTCTTACATGT-AATCA-A
* * *
43891073 AGT-CAATGCCAATGT-CTCAGACATGGTCTTACATG
1 A-TACGATGCCAACGTCCT-AGATATGGTCTTACATG
43891108 ATAACACATA
Statistics
Matches: 100, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
42 31 0.31
43 41 0.41
44 27 0.27
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (42 bp):
ATACGATGCCAACGTCCTAGATATGGTCTTACATGTAATCAA
Found at i:43891049 original size:42 final size:42
Alignment explanation
Indices: 43890944--43891070 Score: 157
Period size: 43 Copynumber: 3.0 Consensus size: 42
43890934 CGGAAAGCTC
* * * *
43890944 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCTAGATGTGGTCTTACATGAAATCAA
* * *
43890986 ATATCGATGCC-ACTGTCCTAGATATGTTCTTACAAGAAATCAA
1 ATA-CGATGCCAAC-GTCCTAGATGTGGTCTTACATGAAATCAA
43891029 ATACGATGCCAACGTCCTAGATGTGGTCTTACATGTAAATCA
1 ATACGATGCCAACGTCCTAGATGTGGTCTTACATG-AAATCA
43891071 TAAGTCAATG
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
42 31 0.44
43 40 0.56
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (42 bp):
ATACGATGCCAACGTCCTAGATGTGGTCTTACATGAAATCAA
Found at i:43891538 original size:17 final size:17
Alignment explanation
Indices: 43891516--43891561 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
43891506 TTTAGTCCTT
43891516 ATTTCACAAAATCAAAA
1 ATTTCACAAAATCAAAA
*
43891533 ATTTCACAAAATCACAA
1 ATTTCACAAAATCAAAA
43891550 ATTTCACAAAAT
1 ATTTCACAAAAT
43891562 TTGCATATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (17 bp):
ATTTCACAAAATCAAAA
Found at i:43899824 original size:23 final size:23
Alignment explanation
Indices: 43899772--43899817 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
43899762 TGAGGGGGCT
43899772 TATGAATTTATTGAAGAGATGTC
1 TATGAATTTATTGAAGAGATGTC
43899795 TATGAATTTATTGAAGAGATGTC
1 TATGAATTTATTGAAGAGATGTC
43899818 ACTGAATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (23 bp):
TATGAATTTATTGAAGAGATGTC
Found at i:43904520 original size:44 final size:43
Alignment explanation
Indices: 43904381--43904583 Score: 220
Period size: 44 Copynumber: 4.7 Consensus size: 43
43904371 AAAGCTCGTA
* * *
43904381 CAATGCCAACATCCCAGACATGGTCTTACATGT-AATCAAATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCAAA-GT
* * * * *
43904424 CAATGCC-ACTATCTCATATAG-GGTCTTACACG-AAATC-AAG-
1 CAATGCCAAC-GTCCCAGA-CGTGGTCTTACATGTAAATCAAAGT
43904464 CATGATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCATAAGT
1 CA--ATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCA-AAGT
*
43904510 CAATGCCAACGTCCCAGATGTGGTCTTACATGTAAATCATAAGT
1 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCA-AAGT
43904554 CAATGCCAACGTCCCAGACGTGGTCTTACA
1 CAATGCCAACGTCCCAGACGTGGTCTTACA
43904584 CGATAACACA
Statistics
Matches: 136, Mismatches: 13, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
40 2 0.01
41 1 0.01
42 24 0.18
43 34 0.25
44 70 0.51
45 3 0.02
46 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCAAAGT
Found at i:43905054 original size:42 final size:43
Alignment explanation
Indices: 43904951--43905112 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 43
43904941 AAAGCTCGTA
* * * * * *
43904951 CAATGCCAACATCCCAAACGTGGTCTTACATGTAATCA-AATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATTACAA-GT
43904994 CAATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAA-T-CAAG-
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATTACAAGT
* *
43905034 CATGATGCCAACGTCCCAGACGTGGTCTTACATGTAAATTATAAGT
1 CA--ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATTACAAGT
43905080 CAATGCCAACGTCCCAGACGTGGTCTTACACGA
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGA
43905113 TAACACATAT
Statistics
Matches: 99, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 28 0.28
43 32 0.32
44 31 0.31
45 3 0.03
46 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATTACAAGT
Found at i:43905108 original size:86 final size:85
Alignment explanation
Indices: 43904953--43905112 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 85
43904943 AGCTCGTACA
43904953 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGGGT
1 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGGGT
43905018 CTTACACGAAATCAAGCATG
66 CTTACACGAAATCAAGCATG
* * * *
43905038 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAATTATAA-GTCAATGCCAAC-GTCCCAGAC-G
1 ATGCCAACATCCCAAACGTGGTCTTACATGT-AATCA-AATATCAATGCC-ACTGTCCCAGACAG
43905100 TGGTCTTACACGA
63 -GGTCTTACACGA
43905113 TAACACATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
85 30 0.45
86 33 0.49
87 4 0.06
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (85 bp):
ATGCCAACATCCCAAACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGGGT
CTTACACGAAATCAAGCATG
Found at i:43908396 original size:41 final size:40
Alignment explanation
Indices: 43908287--43908404 Score: 103
Period size: 41 Copynumber: 2.9 Consensus size: 40
43908277 GCTACATAGA
** ** *
43908287 GCACTTAGTGTACGAGTGGCAATAGCTTTGGCTATTTATG
1 GCACTTAGTGTACGAGTTACAATAGCTTTGGCTATGAAAG
* * * *
43908327 GAACTTAGTGTGCAAGGTTGAGAA-AGCTTTGGCTATGAAAG
1 GCACTTAGTGTACGA-GTT-ACAATAGCTTTGGCTATGAAAG
* *
43908368 GCACTTAGTGTACGAGATTATAATAGCTTTAGCTATG
1 GCACTTAGTGTACGAG-TTACAATAGCTTTGGCTATG
43908405 CTTTAGCACT
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
40 16 0.27
41 42 0.70
42 2 0.03
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTACGAGTTACAATAGCTTTGGCTATGAAAG
Found at i:43917887 original size:24 final size:24
Alignment explanation
Indices: 43917860--43918066 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
43917850 CTTATTATGT
* * *
43917860 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
43917884 TCGCACACATAGTGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
43917908 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
43917932 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
43917956 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
43917980 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
43918004 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
43918028 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
43918052 TCGCACACATAGTGC
1 TCGCACACATAGTGC
43918067 ATTTGAGATA
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:43925626 original size:24 final size:24
Alignment explanation
Indices: 43925599--43925803 Score: 333
Period size: 24 Copynumber: 8.6 Consensus size: 24
43925589 CTTATTATGT
* * *
43925599 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
43925623 TCGCACACATAGTGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
43925647 TCGCACACATAGTG-C-TAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
43925669 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
43925693 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
43925717 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
43925741 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
43925765 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
43925789 TCGCACACATAGTGC
1 TCGCACACATAGTGC
43925804 ATTTGAGATA
Statistics
Matches: 173, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
22 20 0.12
23 1 0.01
24 152 0.88
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:43928264 original size:47 final size:47
Alignment explanation
Indices: 43928201--43928542 Score: 558
Period size: 47 Copynumber: 7.3 Consensus size: 47
43928191 CCCTTCGGGA
* *
43928201 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
43928248 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
43928295 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
43928342 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
43928389 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
43928436 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
43928483 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
43928530 CTTATCACATATA
1 CTTATCACATATA
43928543 CATATCTTGT
Statistics
Matches: 275, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 275 1.00
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Done.