Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 33 of 255
Found at i:8533944 original size:29 final size:28
Alignment explanation
Indices: 8533842--8533962 Score: 107
Period size: 25 Copynumber: 4.5 Consensus size: 28
8533832 ATTTTAAACC
*
8533842 ATTATTCATTTTAAA--A-TTTATATAT
1 ATTATTTATTTTAAACTATTTTATATAT
*
8533867 ATTATTTATTTTAAACTA--TTATACAT
1 ATTATTTATTTTAAACTATTTTATATAT
** *
8533893 ATTATTTATTTTGAAGTTTTTTTATATAT
1 ATTATTTATTTT-AAACTATTTTATATAT
8533922 ACCTT-TTTATTTTAAACTA-TTT-TATAT
1 A--TTATTTATTTTAAACTATTTTATATAT
8533949 ATTATTT-TTTTAAA
1 ATTATTTATTTTAAA
8533963 TTTCTTACAT
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
25 23 0.29
26 22 0.28
27 10 0.13
28 3 0.04
29 11 0.14
30 8 0.10
31 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTATTTATTTTAAACTATTTTATATAT
Found at i:8534332 original size:22 final size:21
Alignment explanation
Indices: 8534307--8534348 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
8534297 TATATGTATT
8534307 ATTTATTTAAAATTGTCTTATG
1 ATTTATTTAAAATTGT-TTATG
* *
8534329 ATTTGTTTTAAATTGTTTAT
1 ATTTATTTAAAATTGTTTAT
8534349 ATTATTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (21 bp):
ATTTATTTAAAATTGTTTATG
Found at i:8536313 original size:19 final size:19
Alignment explanation
Indices: 8536289--8536333 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8536279 CATCTCTTTT
* *
8536289 TGCATT-CATTTCATACATC
1 TGCATTACATTGCAT-CATA
8536308 TGCATTACATTGCATCATA
1 TGCATTACATTGCATCATA
8536327 TGCATTA
1 TGCATTA
8536334 AAATTCACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (19 bp):
TGCATTACATTGCATCATA
Found at i:8539591 original size:3 final size:3
Alignment explanation
Indices: 8539583--8539680 Score: 151
Period size: 3 Copynumber: 32.7 Consensus size: 3
8539573 AAAATAAATA
*
8539583 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * *
8539631 AAA AAG AAG ACG AAG AAG AAG AAG AGG AAG AAG AAG AAA AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
8539679 AA
1 AA
8539681 AAATAAAAGG
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8540605 original size:46 final size:46
Alignment explanation
Indices: 8540531--8540650 Score: 188
Period size: 46 Copynumber: 2.6 Consensus size: 46
8540521 TAATAGATCA
*
8540531 ATGATACAAATCCTATACCCGTGAGTTGTAGTGGGCTGGATTGAAG
1 ATGATACAAATCCTATACCCGTGAGTTGTAGTAGGCTGGATTGAAG
* * *
8540577 ATGATACAAATCCTATACCCTTGGGTTGTAGTAGGCTGGATTGAGG
1 ATGATACAAATCCTATACCCGTGAGTTGTAGTAGGCTGGATTGAAG
8540623 ATGATACAAATCCTATACCTC-TGAGTTG
1 ATGATACAAATCCTATACC-CGTGAGTTG
8540651 CAGTGAGATG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
46 67 0.99
47 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (46 bp):
ATGATACAAATCCTATACCCGTGAGTTGTAGTAGGCTGGATTGAAG
Found at i:8540794 original size:44 final size:44
Alignment explanation
Indices: 8540673--8541596 Score: 373
Period size: 44 Copynumber: 20.0 Consensus size: 44
8540663 TGGAAGAAAT
* * * **
8540673 CACAAATTTTATCTCCCTGAAGTTGCAGTAGAGCATATCAAAGTTAC
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---C
* *
8540720 CATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGC
1 C--A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * *
8540767 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTAC
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---C
* * *
8540814 CATGGCGAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGC
1 CA---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * * *
8540861 CACAAATTTTATCTCTCTGAAGTTGCAGTAGAGCATATCGAAGTTAT
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---C
* **
8540908 CATGGCGAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTGAAGC
1 CA---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * ** * * *
8540955 CATAAATTTTATCTCATTGAAGTTGCAATGGAGCATATTGCAGTTATC
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-A---AGC
* * * *
8541003 AAGGCGAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGC
1 CA--CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * * * *
8541049 CACAAATTTTATCTCCCTAAAGTTACAGTAGAGCATATCGAAGTTAT
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---C
* * *
8541096 CATGGCAAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
1 CA---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * ** * ** * *
8541143 CACGAACCTTATCTCTTTAAAGTTGCAGTGGAATAGGTTGAAGT
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * * * * *
8541187 TACAAGTTTTATCTCCTTGAAGTTGCAGTAGAGTAGACTGAAGA
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * *
8541231 TAGCAAATCTTGTTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATGAGT
1 CA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A--AGC
* * * * * *** *
8541283 TACAAGTCCTATAC-CTCTGAAGTTGCAGTAGG-TCAGACCAAATC
1 CACAAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGC
* ** * *
8541327 TATCATTGCGAATCTTATCTCTATGAAGTTGTAGTGGAGTAGA-TGAAAGC
1 ---CA---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGC
* * * *
8541377 CACAAAACTTATCTCCCTGAAGTTGCAGTGGAACA-ACTGAAGA
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* ** * * *
8541420 TAGCAAATCTTATCTCTTTGAAGTTACAGTAGAGCAGATTAAAGC
1 CA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * * *
8541465 AATAAACCTTATCTCCTTGAAGTTACAGTGGAGCA-AGTTGAAGT
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGC
* * * * * *
8541509 TACAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTAAAGTT
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-C
* * * * * * *
8541554 AACAAATCTGATCTCCTTGAAGTTGGAATAGAGCAAATTGAAG
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
8541597 TTATAGGTCT
Statistics
Matches: 651, Mismatches: 174, Indels: 106
0.70 0.19 0.11
Matches are distributed among these distances:
43 6 0.01
44 317 0.49
45 70 0.11
46 4 0.01
47 20 0.03
48 4 0.01
49 5 0.01
50 194 0.30
51 25 0.04
52 6 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
Found at i:8541188 original size:94 final size:94
Alignment explanation
Indices: 8540673--8541171 Score: 710
Period size: 94 Copynumber: 5.3 Consensus size: 94
8540663 TGGAAGAAAT
* * * *
8540673 CACAAATTTTATCTCCCTGAAGTTGCAGTAGAGCATATCAAAGTTACCATAGCGAATCTTATCTC
1 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
* *
8540738 CCTGAAGTTGCAGTGGAGCAGACTGAAGC
66 CTTGAAGTTGCAGTGGAGCAGATTGAAGC
*
8540767 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTACCATGGCGAATCTTATCTC
1 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
*
8540832 CTTGAAGTTGTAGTGGAGCAGATTGAAGC
66 CTTGAAGTTGCAGTGGAGCAGATTGAAGC
* *
8540861 CACAAATTTTATCTCTCTGAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
1 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
*
8540926 TTTGAAGTTGCAGTGGAGCAGATTGAAGC
66 CTTGAAGTTGCAGTGGAGCAGATTGAAGC
* ** * * * * * *
8540955 CATAAATTTTATCTCATTGAAGTTGCAATGGAGCATATTGCAGTTATCAAGGCGAATCTTATCTC
1 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
*
8541020 CTTGAAGTTGTAGTGGAGCAGATTGAAGC
66 CTTGAAGTTGCAGTGGAGCAGATTGAAGC
* * *
8541049 CACAAATTTTATCTCCCTAAAGTTACAGTAGAGCATATCGAAGTTATCATGGCAAATCCTATCTC
1 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
* * *
8541114 CCTGAAGTTACAGTGGAGCAGATTAAAGC
66 CTTGAAGTTGCAGTGGAGCAGATTGAAGC
* ** **
8541143 CACGAACCTTATCTCTTTAAAGTTGCAGT
1 CACAAATTTTATCTCCCTAAAGTTGCAGT
8541172 GGAATAGGTT
Statistics
Matches: 362, Mismatches: 43, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 362 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (94 bp):
CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
CTTGAAGTTGCAGTGGAGCAGATTGAAGC
Found at i:8541598 original size:45 final size:44
Alignment explanation
Indices: 8541387--8541630 Score: 157
Period size: 44 Copynumber: 5.5 Consensus size: 44
8541377 CACAAAACTT
* * * * *
8541387 ATCTCCCTGAAGTTGCAGTGGAAC-AACTGAAGATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTTA-CAAGTCTG
** * * * * ** * ** *
8541431 ATCTCTTTGAAGTTACAGTAGAGCAGATTAAAGCAATAAACCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTTACAAGTCTG
* * * *
8541475 ATCTCCTTGAAGTTACAGTGGAGCAAGTTGAAGTTACAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTTACAAGTCTG
* * * * *
8541519 ATCTCCCTGAGGTTGCAGTGGAGCAGACTAAAGTTAACAAATCTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTT-ACAAGTCTG
* * * * * *
8541564 ATCTCCTTGAAGTTGGAATAGAGCAAATTGAAGTTATAGGTCTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTTACAAGTCTG
**
8541608 ATCTCCCTGAAGTTATAGTGGAG
1 ATCTCCCTGAAGTTGCAGTGGAG
8541631 TAGATCAAAG
Statistics
Matches: 151, Mismatches: 47, Indels: 4
0.75 0.23 0.02
Matches are distributed among these distances:
44 111 0.74
45 40 0.26
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTTACAAGTCTG
Found at i:8541619 original size:133 final size:132
Alignment explanation
Indices: 8541384--8541630 Score: 305
Period size: 133 Copynumber: 1.9 Consensus size: 132
8541374 AGCCACAAAA
* * * * *
8541384 CTTATCTCCCTGAAGTTGCAGTGGAACAACTGAAGATAGCAAATCTTATCTCTTTGAAGTTACAG
1 CTTATCTCCCTGAAGTTGCAGTGGAACAACTAAAGATAACAAATCTGATCTCCTTGAAGTTACAA
* * *
8541449 TAGAGCAGATTAAAGCAATAAACCTTATCTCCTTGAAGTTACAGTGGAGCAAGTTGAAGTTACAA
66 TAGAGCAAATTAAAGCAATAAACCTGATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTTACAA
8541514 GT
131 GT
* * * **
8541516 CTTATCTCCCTGAGGTTGCAGTGGAGCAGACTAAAGTTAACAAATCTGATCTCCTTGAAGTTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGAACA-ACTAAAGATAACAAATCTGATCTCCTTGAAGTTACA
* ** *** *
8541581 ATAGAGCAAATTGAAGTTATAGGTCTGATCTCCCTGAAGTTATAGTGGAG
65 ATAGAGCAAATTAAAGCAATAAACCTGATCTCCCTGAAGTTACAGTGGAG
8541631 TAGATCAAAG
Statistics
Matches: 94, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
132 26 0.28
133 68 0.72
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (132 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAACTAAAGATAACAAATCTGATCTCCTTGAAGTTACAA
TAGAGCAAATTAAAGCAATAAACCTGATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTTACAA
GT
Found at i:8541628 original size:89 final size:88
Alignment explanation
Indices: 8541438--8541630 Score: 224
Period size: 89 Copynumber: 2.2 Consensus size: 88
8541428 CTTATCTCTT
* * * * * * *
8541438 TGAAGTTACAGTAGAGCAGATTAAAGCAATAAACCTTATCTCCTTGAAGTTACAGTGGAGCAAGT
1 TGAAGTTACAGTGGAGCAGACTAAAGCAACAAACCTGATCTCCTTGAAGTTACAATAGAGCAAAT
*
8541503 TGAAGTTACAAGTCTTATCTCCC
66 TGAAGTTACAAGTCTGATCTCCC
* * * * **
8541526 TGAGGTTGCAGTGGAGCAGACTAAAGTTAACAAATCTGATCTCCTTGAAGTTGGAATAGAGCAAA
1 TGAAGTTACAGTGGAGCAGACTAAAG-CAACAAACCTGATCTCCTTGAAGTTACAATAGAGCAAA
* *
8541591 TTGAAGTTATAGGTCTGATCTCCC
65 TTGAAGTTACAAGTCTGATCTCCC
*
8541615 TGAAGTTATAGTGGAG
1 TGAAGTTACAGTGGAG
8541631 TAGATCAAAG
Statistics
Matches: 85, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
88 22 0.26
89 63 0.74
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (88 bp):
TGAAGTTACAGTGGAGCAGACTAAAGCAACAAACCTGATCTCCTTGAAGTTACAATAGAGCAAAT
TGAAGTTACAAGTCTGATCTCCC
Found at i:8543150 original size:26 final size:26
Alignment explanation
Indices: 8543097--8543217 Score: 120
Period size: 26 Copynumber: 4.6 Consensus size: 26
8543087 ATTTTAAACC
* *
8543097 ATTATTCATTTTAAAAT-TTATATAT
1 ATTATTTATTTTAAACTATTATATAT
*
8543122 ATTATTTATTTTAAACTATTATACAT
1 ATTATTTATTTTAAACTATTATATAT
** *
8543148 ATTATTTATTTTGAAGTTTTTTATATAT
1 ATTATTTATTTT-AA-ACTATTATATAT
*
8543176 ACCTT-TTTATTTTAAACTATTTTATAT
1 A--TTATTTATTTTAAACTATTATATAT
*
8543203 ATTATTTTTTTTAAA
1 ATTATTTATTTTAAA
8543218 TTTCTTACAT
Statistics
Matches: 78, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
25 17 0.22
26 29 0.37
27 11 0.14
28 11 0.14
29 8 0.10
30 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTATTTATTTTAAACTATTATATAT
Found at i:8543588 original size:22 final size:21
Alignment explanation
Indices: 8543563--8543604 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
8543553 TATATGTATT
8543563 ATTTGTTTAAAATTGTCTTATG
1 ATTTGTTTAAAATTGT-TTATG
*
8543585 ATTTGTTTTAAATTGTTTAT
1 ATTTGTTTAAAATTGTTTAT
8543605 ATTATTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (21 bp):
ATTTGTTTAAAATTGTTTATG
Found at i:8544523 original size:46 final size:46
Alignment explanation
Indices: 8544449--8544568 Score: 188
Period size: 46 Copynumber: 2.6 Consensus size: 46
8544439 TAATAGATCA
*
8544449 ATGATACAAATCCTATACCCGTGAGTTGTAGTGGGCTGGATTGAAG
1 ATGATACAAATCCTATACCCGTGAGTTGTAGTAGGCTGGATTGAAG
* * *
8544495 ATGATACAAATCCTATACCCTTGGGTTGTAGTAGGCTGGATTGAGG
1 ATGATACAAATCCTATACCCGTGAGTTGTAGTAGGCTGGATTGAAG
8544541 ATGATACAAATCCTATACCTC-TGAGTTG
1 ATGATACAAATCCTATACC-CGTGAGTTG
8544569 CAGTGAGATG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
46 67 0.99
47 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (46 bp):
ATGATACAAATCCTATACCCGTGAGTTGTAGTAGGCTGGATTGAAG
Found at i:8544712 original size:44 final size:44
Alignment explanation
Indices: 8544591--8545514 Score: 373
Period size: 44 Copynumber: 20.0 Consensus size: 44
8544581 TGGAAGAAAT
* * * **
8544591 CACAAATTTTATCTCCCTGAAGTTGCAGTAGAGCATATCAAAGTTAC
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---C
* *
8544638 CATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGC
1 C--A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * *
8544685 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTAC
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---C
* * *
8544732 CATGGCGAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGC
1 CA---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * * *
8544779 CACAAATTTTATCTCTCTGAAGTTGCAGTAGAGCATATCGAAGTTAT
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---C
* **
8544826 CATGGCGAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTGAAGC
1 CA---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * ** * * *
8544873 CATAAATTTTATCTCATTGAAGTTGCAATGGAGCATATTGCAGTTATC
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-A---AGC
* * * *
8544921 AAGGCGAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGC
1 CA--CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * * * *
8544967 CACAAATTTTATCTCCCTAAAGTTACAGTAGAGCATATCGAAGTTAT
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---C
* * *
8545014 CATGGCAAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
1 CA---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * ** * ** * *
8545061 CACGAACCTTATCTCTTTAAAGTTGCAGTGGAATAGGTTGAAGT
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * * * * *
8545105 TACAAGTTTTATCTCCTTGAAGTTGCAGTAGAGTAGACTGAAGA
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * *
8545149 TAGCAAATCTTGTTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATGAGT
1 CA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A--AGC
* * * * * *** *
8545201 TACAAGTCCTATAC-CTCTGAAGTTGCAGTAGG-TCAGACCAAATC
1 CACAAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGC
* ** * *
8545245 TATCATTGCGAATCTTATCTCTATGAAGTTGTAGTGGAGTAGA-TGAAAGC
1 ---CA---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGC
* * * *
8545295 CACAAAACTTATCTCCCTGAAGTTGCAGTGGAACA-ACTGAAGA
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* ** * * *
8545338 TAGCAAATCTTATCTCTTTGAAGTTACAGTAGAGCAGATTAAAGC
1 CA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * * *
8545383 AATAAACCTTATCTCCTTGAAGTTACAGTGGAGCA-AGTTGAAGT
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGC
* * * * * *
8545427 TACAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTAAAGTT
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-C
* * * * * * *
8545472 AACAAATCTGATCTCCTTGAAGTTGGAATAGAGCAAATTGAAG
1 CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
8545515 TTATAGGTCT
Statistics
Matches: 651, Mismatches: 174, Indels: 106
0.70 0.19 0.11
Matches are distributed among these distances:
43 6 0.01
44 317 0.49
45 70 0.11
46 4 0.01
47 20 0.03
48 4 0.01
49 5 0.01
50 194 0.30
51 25 0.04
52 6 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
CACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
Found at i:8545106 original size:94 final size:94
Alignment explanation
Indices: 8544591--8545089 Score: 710
Period size: 94 Copynumber: 5.3 Consensus size: 94
8544581 TGGAAGAAAT
* * * *
8544591 CACAAATTTTATCTCCCTGAAGTTGCAGTAGAGCATATCAAAGTTACCATAGCGAATCTTATCTC
1 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
* *
8544656 CCTGAAGTTGCAGTGGAGCAGACTGAAGC
66 CTTGAAGTTGCAGTGGAGCAGATTGAAGC
*
8544685 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTACCATGGCGAATCTTATCTC
1 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
*
8544750 CTTGAAGTTGTAGTGGAGCAGATTGAAGC
66 CTTGAAGTTGCAGTGGAGCAGATTGAAGC
* *
8544779 CACAAATTTTATCTCTCTGAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
1 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
*
8544844 TTTGAAGTTGCAGTGGAGCAGATTGAAGC
66 CTTGAAGTTGCAGTGGAGCAGATTGAAGC
* ** * * * * * *
8544873 CATAAATTTTATCTCATTGAAGTTGCAATGGAGCATATTGCAGTTATCAAGGCGAATCTTATCTC
1 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
*
8544938 CTTGAAGTTGTAGTGGAGCAGATTGAAGC
66 CTTGAAGTTGCAGTGGAGCAGATTGAAGC
* * *
8544967 CACAAATTTTATCTCCCTAAAGTTACAGTAGAGCATATCGAAGTTATCATGGCAAATCCTATCTC
1 CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
* * *
8545032 CCTGAAGTTACAGTGGAGCAGATTAAAGC
66 CTTGAAGTTGCAGTGGAGCAGATTGAAGC
* ** **
8545061 CACGAACCTTATCTCTTTAAAGTTGCAGT
1 CACAAATTTTATCTCCCTAAAGTTGCAGT
8545090 GGAATAGGTT
Statistics
Matches: 362, Mismatches: 43, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 362 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (94 bp):
CACAAATTTTATCTCCCTAAAGTTGCAGTAGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
CTTGAAGTTGCAGTGGAGCAGATTGAAGC
Found at i:8545516 original size:45 final size:44
Alignment explanation
Indices: 8545305--8545548 Score: 157
Period size: 44 Copynumber: 5.5 Consensus size: 44
8545295 CACAAAACTT
* * * * *
8545305 ATCTCCCTGAAGTTGCAGTGGAAC-AACTGAAGATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTTA-CAAGTCTG
** * * * * ** * ** *
8545349 ATCTCTTTGAAGTTACAGTAGAGCAGATTAAAGCAATAAACCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTTACAAGTCTG
* * * *
8545393 ATCTCCTTGAAGTTACAGTGGAGCAAGTTGAAGTTACAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTTACAAGTCTG
* * * * *
8545437 ATCTCCCTGAGGTTGCAGTGGAGCAGACTAAAGTTAACAAATCTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTT-ACAAGTCTG
* * * * * *
8545482 ATCTCCTTGAAGTTGGAATAGAGCAAATTGAAGTTATAGGTCTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTTACAAGTCTG
**
8545526 ATCTCCCTGAAGTTATAGTGGAG
1 ATCTCCCTGAAGTTGCAGTGGAG
8545549 TAGATCAAAG
Statistics
Matches: 151, Mismatches: 47, Indels: 4
0.75 0.23 0.02
Matches are distributed among these distances:
44 111 0.74
45 40 0.26
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTTACAAGTCTG
Found at i:8545537 original size:133 final size:132
Alignment explanation
Indices: 8545302--8545548 Score: 305
Period size: 133 Copynumber: 1.9 Consensus size: 132
8545292 AGCCACAAAA
* * * * *
8545302 CTTATCTCCCTGAAGTTGCAGTGGAACAACTGAAGATAGCAAATCTTATCTCTTTGAAGTTACAG
1 CTTATCTCCCTGAAGTTGCAGTGGAACAACTAAAGATAACAAATCTGATCTCCTTGAAGTTACAA
* * *
8545367 TAGAGCAGATTAAAGCAATAAACCTTATCTCCTTGAAGTTACAGTGGAGCAAGTTGAAGTTACAA
66 TAGAGCAAATTAAAGCAATAAACCTGATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTTACAA
8545432 GT
131 GT
* * * **
8545434 CTTATCTCCCTGAGGTTGCAGTGGAGCAGACTAAAGTTAACAAATCTGATCTCCTTGAAGTTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGAACA-ACTAAAGATAACAAATCTGATCTCCTTGAAGTTACA
* ** *** *
8545499 ATAGAGCAAATTGAAGTTATAGGTCTGATCTCCCTGAAGTTATAGTGGAG
65 ATAGAGCAAATTAAAGCAATAAACCTGATCTCCCTGAAGTTACAGTGGAG
8545549 TAGATCAAAG
Statistics
Matches: 94, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
132 26 0.28
133 68 0.72
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (132 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAACTAAAGATAACAAATCTGATCTCCTTGAAGTTACAA
TAGAGCAAATTAAAGCAATAAACCTGATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTTACAA
GT
Found at i:8545546 original size:89 final size:88
Alignment explanation
Indices: 8545356--8545548 Score: 224
Period size: 89 Copynumber: 2.2 Consensus size: 88
8545346 CTTATCTCTT
* * * * * * *
8545356 TGAAGTTACAGTAGAGCAGATTAAAGCAATAAACCTTATCTCCTTGAAGTTACAGTGGAGCAAGT
1 TGAAGTTACAGTGGAGCAGACTAAAGCAACAAACCTGATCTCCTTGAAGTTACAATAGAGCAAAT
*
8545421 TGAAGTTACAAGTCTTATCTCCC
66 TGAAGTTACAAGTCTGATCTCCC
* * * * **
8545444 TGAGGTTGCAGTGGAGCAGACTAAAGTTAACAAATCTGATCTCCTTGAAGTTGGAATAGAGCAAA
1 TGAAGTTACAGTGGAGCAGACTAAAG-CAACAAACCTGATCTCCTTGAAGTTACAATAGAGCAAA
* *
8545509 TTGAAGTTATAGGTCTGATCTCCC
65 TTGAAGTTACAAGTCTGATCTCCC
*
8545533 TGAAGTTATAGTGGAG
1 TGAAGTTACAGTGGAG
8545549 TAGATCAAAG
Statistics
Matches: 85, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
88 22 0.26
89 63 0.74
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (88 bp):
TGAAGTTACAGTGGAGCAGACTAAAGCAACAAACCTGATCTCCTTGAAGTTACAATAGAGCAAAT
TGAAGTTACAAGTCTGATCTCCC
Found at i:8547068 original size:26 final size:26
Alignment explanation
Indices: 8547015--8547134 Score: 127
Period size: 26 Copynumber: 4.6 Consensus size: 26
8547005 ATTTTAAACC
* *
8547015 ATTATTCATTTTAAAAT-TTATATAT
1 ATTATTTATTTTAAACTATTATATAT
*
8547040 ATTATTTATTTTAAACTATTATACAT
1 ATTATTTATTTTAAACTATTATATAT
** *
8547066 ATTATTTATTTTGAAGTTTTTATATAT
1 ATTATTTATTTT-AAACTATTATATAT
*
8547093 ACCTT-TTTATTTTAAACTATTTTATAT
1 A--TTATTTATTTTAAACTATTATATAT
*
8547120 ATTATTTTTTTTAAA
1 ATTATTTATTTTAAA
8547135 TTTCTTACAT
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
25 17 0.22
26 29 0.37
27 22 0.28
28 8 0.10
29 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (26 bp):
ATTATTTATTTTAAACTATTATATAT
Found at i:8547505 original size:22 final size:21
Alignment explanation
Indices: 8547480--8547521 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
8547470 TATATGTATT
8547480 ATTTGTTTAAAATTGTCTTATG
1 ATTTGTTTAAAATTGT-TTATG
*
8547502 ATTTGTTTTAAATTGTTTAT
1 ATTTGTTTAAAATTGTTTAT
8547522 ATTATTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (21 bp):
ATTTGTTTAAAATTGTTTATG
Found at i:8548920 original size:49 final size:50
Alignment explanation
Indices: 8548835--8548929 Score: 113
Period size: 49 Copynumber: 1.9 Consensus size: 50
8548825 GAAACCAATG
* * *
8548835 TGTACCATATTAATTTATAATAAAATTTCA-GAT-TATAATTAAAATATA
1 TGTACCATATTAATATACAATAAAATTTCACTATATATAATTAAAATATA
* * *
8548883 TGTACCATATTTAATATACAATATAATTTTACTTTATATAATTAAAA
1 TGTACCATA-TTAATATACAATAAAATTTCACTATATATAATTAAAA
8548930 AAATATTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
48 9 0.24
49 17 0.45
50 1 0.03
51 11 0.29
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (50 bp):
TGTACCATATTAATATACAATAAAATTTCACTATATATAATTAAAATATA
Found at i:8550211 original size:31 final size:31
Alignment explanation
Indices: 8550151--8550211 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
8550141 ACTTTAATAC
*
8550151 CTAATATTATCAAACATTCTTAGTGTAGTCT
1 CTAATATTATCAAACATTCTTACTGTAGTCT
* *
8550182 CTAATGTTATCAAATATTCTTGACT-TAGTC
1 CTAATATTATCAAACATTCTT-ACTGTAGTC
8550212 CATTGAACGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (31 bp):
CTAATATTATCAAACATTCTTACTGTAGTCT
Found at i:8550441 original size:10 final size:10
Alignment explanation
Indices: 8550426--8550490 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
8550416 AATAAATAAT
8550426 AAAATTATTA
1 AAAATTATTA
8550436 AAAATTATTA
1 AAAATTATTA
* *
8550446 GAAATTGTT-
1 AAAATTATTA
8550455 --AATTATGTAA
1 AAAATTAT-T-A
*
8550465 AAAAATATTA
1 AAAATTATTA
8550475 AAAATTATTA
1 AAAATTATTA
8550485 GAAAAT
1 -AAAAT
8550491 ATAAAAGACG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
7 5 0.11
8 1 0.02
10 27 0.61
11 6 0.14
12 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (10 bp):
AAAATTATTA
Found at i:8550489 original size:20 final size:20
Alignment explanation
Indices: 8550426--8550496 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 20
8550416 AATAAATAAT
8550426 AAAATTATTAAAAATTATTAG
1 AAAA-TATTAAAAATTATTAG
* * *
8550447 AAATTGTT---AATTATGTAAA
1 AAAATATTAAAAATTAT-T-AG
8550466 AAAATATTAAAAATTATTAG
1 AAAATATTAAAAATTATTAG
8550486 AAAATA-TAAAA
1 AAAATATTAAAA
8550497 GACGGTAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
17 6 0.15
18 1 0.03
19 12 0.31
20 10 0.26
21 4 0.10
22 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (20 bp):
AAAATATTAAAAATTATTAG
Found at i:8551112 original size:11 final size:10
Alignment explanation
Indices: 8551069--8551134 Score: 50
Period size: 9 Copynumber: 6.9 Consensus size: 10
8551059 AAAATATCCA
8551069 ATATATTTTT
1 ATATATTTTT
* *
8551079 A-AAAATTTT
1 ATATATTTTT
*
8551088 AGTAAATTTTT
1 A-TATATTTTT
*
8551099 ATAT-TTTAT
1 ATATATTTTT
8551108 ATATATTTTT
1 ATATATTTTT
*
8551118 -TGTATTTTT
1 ATATATTTTT
8551127 ATA-ATTTT
1 ATATATTTT
8551135 ATAGTTTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
9 28 0.64
10 8 0.18
11 8 0.18
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (10 bp):
ATATATTTTT
Found at i:8551458 original size:19 final size:18
Alignment explanation
Indices: 8551436--8551480 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
8551426 AACAACTACA
*
8551436 TTATAAATATATAATTGTT
1 TTATAAATAAATAATT-TT
*
8551455 TTATAAAAAAATAATTTT
1 TTATAAATAAATAATTTT
*
8551473 TTTTAAAT
1 TTATAAAT
8551481 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTATAAATAAATAATTTT
Found at i:8551483 original size:11 final size:11
Alignment explanation
Indices: 8551467--8551504 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
8551457 ATAAAAAAAT
*
8551467 AATTTTTTTTA
1 AATTTTTTTAA
8551478 AATTTTTTTAA
1 AATTTTTTTAA
8551489 AA--TTTTTAA
1 AATTTTTTTAA
8551498 AATTTTT
1 AATTTTT
8551505 AATAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 9 0.38
11 15 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
AATTTTTTTAA
Found at i:8551485 original size:9 final size:9
Alignment explanation
Indices: 8551472--8551506 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
8551462 AAAATAATTT
*
8551472 TTTTTAAATT
1 TTTTTAAA-A
8551482 TTTTTAAAA
1 TTTTTAAAA
8551491 TTTTTAAAA
1 TTTTTAAAA
8551500 TTTTTAA
1 TTTTTAA
8551507 TAAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:8551485 original size:10 final size:10
Alignment explanation
Indices: 8551470--8551504 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
8551460 AAAAAATAAT
8551470 TTTTTTTAAA
1 TTTTTTTAAA
8551480 TTTTTTTAAA
1 TTTTTTTAAA
* *
8551490 ATTTTTAAAA
1 TTTTTTTAAA
8551500 TTTTT
1 TTTTT
8551505 AATAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:8551563 original size:39 final size:37
Alignment explanation
Indices: 8551497--8551569 Score: 92
Period size: 39 Copynumber: 1.9 Consensus size: 37
8551487 AAAATTTTTA
* * * *
8551497 AAATTTTTAATAAATAATAAAATTATTATAAATTGGT
1 AAATTTTTAAAAAATAAAAAAAATATTAGAAATTGGT
8551534 AAATATTTTAAAAAATATAAAAAAATATTAGAAATT
1 AAAT-TTTTAAAAAATA-AAAAAAATATTAGAAATT
8551570 ATAAAAGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 4 0.13
38 11 0.37
39 15 0.50
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (37 bp):
AAATTTTTAAAAAATAAAAAAAATATTAGAAATTGGT
Found at i:8562919 original size:41 final size:40
Alignment explanation
Indices: 8562843--8562928 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
8562833 CAAATACATT
*
8562843 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * * **
8562884 TAAAACAATTCTTAAAACAATACACAAATTGAAAATATAA
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
8562924 TAAAA
1 TAAAA
8562929 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.21
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:8562979 original size:28 final size:27
Alignment explanation
Indices: 8562915--8562979 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
8562905 ACACAAATTG
* * *
8562915 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
8562942 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
8562971 AAAATAAAA
1 AAAATAAAA
8562980 ATATATATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:8563407 original size:3 final size:3
Alignment explanation
Indices: 8563399--8563445 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
8563389 TTAATTTCAC
8563399 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8563446 TACTGTGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8564889 original size:56 final size:56
Alignment explanation
Indices: 8564803--8564915 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
8564793 AAACAATACC
* * *
8564803 CAGGAAAGAATTCACCTAGCTTTCATCTGTCACTATCAATCTAAATTACTCAATTT
1 CAGGAAAGAATTCACCTAGATTTCATCTGTCACTATCAATCTAAAGTACACAATTT
*
8564859 CAGGAAAGAATTCACCTAGATTTCATCTGTCACTATCAATTTAAAGTACACAATTT
1 CAGGAAAGAATTCACCTAGATTTCATCTGTCACTATCAATCTAAAGTACACAATTT
8564915 C
1 C
8564916 TTAACTTAGC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (56 bp):
CAGGAAAGAATTCACCTAGATTTCATCTGTCACTATCAATCTAAAGTACACAATTT
Found at i:8566510 original size:13 final size:13
Alignment explanation
Indices: 8566494--8566522 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8566484 TTTTACTTCA
8566494 TTTCTTTTTTCTT
1 TTTCTTTTTTCTT
8566507 TTTCTTTTTTCTT
1 TTTCTTTTTTCTT
8566520 TTT
1 TTT
8566523 TTTCTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTCTTTTTTCTT
Found at i:8566531 original size:7 final size:7
Alignment explanation
Indices: 8566494--8566523 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
8566484 TTTTACTTCA
8566494 TTTCTTT
1 TTTCTTT
8566501 TTTC-TT
1 TTTCTTT
8566507 TTTCTTT
1 TTTCTTT
8566514 TTTCTTT
1 TTTCTTT
8566521 TTT
1 TTT
8566524 TTCTTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTCTTT
Found at i:8567458 original size:36 final size:37
Alignment explanation
Indices: 8567412--8567515 Score: 105
Period size: 36 Copynumber: 2.9 Consensus size: 37
8567402 GAAAAAAAAC
* *
8567412 CAACAAAATAATAAAAATAAAATAAAACATATAAGTCT-
1 CAACTAAATAATAAAAATAAAATAAAACATA-AAAT-TA
8567450 C-AC-AAATAA-AAAAATAACAATAAAA-ATAAAATTA
1 CAACTAAATAATAAAAATAA-AATAAAACATAAAATTA
*
8567484 CAACTAAA-AATAAAAAT-AAATAAAACAAAAAA
1 CAACTAAATAATAAAAATAAAATAAAACATAAAA
8567516 CTATATAAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
33 1 0.02
34 11 0.19
35 21 0.36
36 22 0.38
37 2 0.03
38 1 0.02
ACGTcount: A:0.72, C:0.10, G:0.01, T:0.17
Consensus pattern (37 bp):
CAACTAAATAATAAAAATAAAATAAAACATAAAATTA
Found at i:8567477 original size:6 final size:6
Alignment explanation
Indices: 8567459--8567503 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
8567449 TCACAAATAA
* * * *
8567459 AAAAAT AACAAT AAAAAT AAAATT ACAACT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
8567504 TAAAACAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:8567491 original size:18 final size:17
Alignment explanation
Indices: 8567460--8567498 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
8567450 CACAAATAAA
8567460 AAAATAACAATAAAAAT
1 AAAATAACAATAAAAAT
*
8567477 AAAATTACAACTAAAAAT
1 AAAATAACAA-TAAAAAT
8567495 AAAA
1 AAAA
8567499 ATAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAACAATAAAAAT
Found at i:8585516 original size:17 final size:17
Alignment explanation
Indices: 8585494--8585531 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
8585484 CAGTTATGAA
8585494 CTAAAACCCCTAAATAC
1 CTAAAACCCCTAAATAC
*
8585511 CTAAAAGCCCTAAATAC
1 CTAAAACCCCTAAATAC
8585528 CTAA
1 CTAA
8585532 GGGGAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.18
Consensus pattern (17 bp):
CTAAAACCCCTAAATAC
Found at i:8600252 original size:45 final size:44
Alignment explanation
Indices: 8600141--8600252 Score: 109
Period size: 44 Copynumber: 2.5 Consensus size: 44
8600131 AGTCATTGTG
* * * *
8600141 GCAAGTCTTATCTCCCTGAAGTTCTAGTGGATCAGATCAAAGCCA
1 GCAAATCTTATCT-CCTGAAGTTCTACTAGATCAGATCAAAGACA
* * * * *
8600186 -CATATCTTATCTCCTTAAAGTTGTACTAGATTAGATCAAAGATA
1 GCAAATCTTATCTCC-TGAAGTTCTACTAGATCAGATCAAAGACA
8600230 GCAAATCTTATCTCTCTGAAGTT
1 GCAAATCTTATCTC-CTGAAGTT
8600253 ACAGTAGAGC
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
43 2 0.04
44 32 0.60
45 18 0.34
46 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (44 bp):
GCAAATCTTATCTCCTGAAGTTCTACTAGATCAGATCAAAGACA
Found at i:8600687 original size:44 final size:44
Alignment explanation
Indices: 8600520--8600680 Score: 180
Period size: 44 Copynumber: 3.6 Consensus size: 44
8600510 TATTATGGCG
* * *
8600520 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCACA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGCTACA
* ** * * *
8600564 GATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATCGAGGATAGTA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGCTA-CA
* * * *
8600609 AATCTTATCTCTCTGAGGTTGTAGTAGAGCAGATTAAAGCTACA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGCTACA
8600653 AATCTTATCTCTCTGATA-TTGCAGTGGA
1 AATCTTATCTCTCTGA-AGTTGCAGTGGA
8600681 AAAGATTGAA
Statistics
Matches: 93, Mismatches: 22, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
44 59 0.63
45 34 0.37
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGCTACA
Found at i:8602902 original size:174 final size:175
Alignment explanation
Indices: 8602596--8602944 Score: 664
Period size: 175 Copynumber: 2.0 Consensus size: 175
8602586 TCTTCATTGT
* *
8602596 ATTTTTTTTACGCATATTGAAATACGCATATTAAATAGTAGAAAAAGAGAAATCAAAAAATTATC
1 ATTTTTTTTACGCATATTGAAATACGCATATTAAATAGCAGAAAAAAAGAAATCAAAAAATTATC
*
8602661 GAAAGGTGATTTCAAATCCTATTTCTTTTTTTTTCCCCCTTTTCTTTCGATTTGCTTGTAATTTT
66 GAAAGGTGATTTCAAATCCTATTTCTTTTTTTTCCCCCCTTTTCTTTCGATTTGCTTGTAATTTT
8602726 TTAGCATGGAAAATGAAAAGAATGCTTGAAACAACACCGATGAAA
131 TTAGCATGGAAAATGAAAAGAATGCTTGAAACAACACCGATGAAA
8602771 ATTTTTTTTACGCATATTGAAATACGCATATTAAATAGCAGAAAAAAAGAAATCAAAAAATTATC
1 ATTTTTTTTACGCATATTGAAATACGCATATTAAATAGCAGAAAAAAAGAAATCAAAAAATTATC
8602836 GAAAGGTGATTTCAAATCCTATTTC-TTTTTTTCCCCCCTTTTCTTTCGATTTGCTTGTAATTTT
66 GAAAGGTGATTTCAAATCCTATTTCTTTTTTTTCCCCCCTTTTCTTTCGATTTGCTTGTAATTTT
8602900 TTAGCATGGAAAATGAAAAGAATGCTTGAAACAACACCGATGAAA
131 TTAGCATGGAAAATGAAAAGAATGCTTGAAACAACACCGATGAAA
8602945 GCCCATATGT
Statistics
Matches: 171, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
174 83 0.49
175 88 0.51
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (175 bp):
ATTTTTTTTACGCATATTGAAATACGCATATTAAATAGCAGAAAAAAAGAAATCAAAAAATTATC
GAAAGGTGATTTCAAATCCTATTTCTTTTTTTTCCCCCCTTTTCTTTCGATTTGCTTGTAATTTT
TTAGCATGGAAAATGAAAAGAATGCTTGAAACAACACCGATGAAA
Found at i:8605641 original size:35 final size:34
Alignment explanation
Indices: 8605566--8605643 Score: 86
Period size: 35 Copynumber: 2.3 Consensus size: 34
8605556 TATTATATTT
8605566 CTTTTATATTTATTTACCTAAATTGTTTTATATA
1 CTTTTATATTTATTTACCTAAATTGTTTTATATA
* ** * *
8605600 CATTTAT-TTTACTTTACCATTTATTTTTTTATATC
1 CTTTTATATTTA-TTTACC-TAAATTGTTTTATATA
8605635 CTTTTATAT
1 CTTTTATAT
8605644 AATTTTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
33 4 0.11
34 12 0.34
35 18 0.51
36 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.62
Consensus pattern (34 bp):
CTTTTATATTTATTTACCTAAATTGTTTTATATA
Found at i:8606767 original size:3 final size:3
Alignment explanation
Indices: 8606759--8606807 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
8606749 TAAACAAACG
8606759 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8606807 A
1 A
8606808 GAGTAATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8606924 original size:21 final size:20
Alignment explanation
Indices: 8606891--8606941 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
8606881 TGGATGAATA
8606891 AATAATAAAAAAATAATAAT
1 AATAATAAAAAAATAATAAT
* * *
8606911 GATAGATAATAAAATAGTAAT
1 AATA-ATAAAAAAATAATAAT
8606932 AATAATAAAA
1 AATAATAAAA
8606942 GTTTAAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (20 bp):
AATAATAAAAAAATAATAAT
Found at i:8607179 original size:3 final size:3
Alignment explanation
Indices: 8607171--8607239 Score: 57
Period size: 3 Copynumber: 22.7 Consensus size: 3
8607161 TAAAGTCTAC
* * * * * *
8607171 ATA ATA ATA ACA TTA ATA ATA ATA ATA ATA ACA TTA ATG ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
8607219 ATA TTA ATA ATC ATGA ATA AT
1 ATA ATA ATA ATA AT-A ATA AT
8607240 CTAAATTTTT
Statistics
Matches: 49, Mismatches: 16, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
3 47 0.96
4 2 0.04
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8607229 original size:21 final size:21
Alignment explanation
Indices: 8607171--8607221 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
8607161 TAAAGTCTAC
8607171 ATAATAATAACATTAATAATA
1 ATAATAATAACATTAATAATA
*
8607192 ATAATAATAACATTAATGATA
1 ATAATAATAACATTAATAATA
*
8607213 ATAACAATA
1 ATAATAATA
8607222 TTAATAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (21 bp):
ATAATAATAACATTAATAATA
Found at i:8607273 original size:18 final size:18
Alignment explanation
Indices: 8607252--8607286 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8607242 AAATTTTTGA
* *
8607252 AAATATATAAATAAATAT
1 AAATAAATAAACAAATAT
8607270 AAATAAATAAACAAATA
1 AAATAAATAAACAAATA
8607287 ATGAAATAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAATAAACAAATAT
Found at i:8607348 original size:4 final size:4
Alignment explanation
Indices: 8607329--8607383 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
8607319 CAAGCCATTT
* *
8607329 ATAA ATAAA ATGAA ATAA ATAA ATAA AT-A AGAA AT-A ATTA ATAA ATAA
1 ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
*
8607377 ACAA ATA
1 ATAA ATA
8607384 GAGACTAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 5 0.12
4 29 0.69
5 8 0.19
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:8607352 original size:18 final size:19
Alignment explanation
Indices: 8607329--8607376 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
8607319 CAAGCCATTT
*
8607329 ATAAATAAA-ATGAAATAA
1 ATAAATAAATAAGAAATAA
8607347 ATAAATAAATAAGAAAT-A
1 ATAAATAAATAAGAAATAA
*
8607365 ATTAATAAATAA
1 ATAAATAAATAA
8607377 ACAAATAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 21 0.78
19 6 0.22
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
ATAAATAAATAAGAAATAA
Found at i:8621288 original size:37 final size:37
Alignment explanation
Indices: 8621238--8621316 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
8621228 TTATTACGAA
* * *
8621238 GTCTTACCCGGACATAATCTCCACACGAAGTTATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
* *
8621275 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
8621312 GTCTT
1 GTCTT
8621317 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:8621609 original size:49 final size:49
Alignment explanation
Indices: 8621435--8621798 Score: 591
Period size: 49 Copynumber: 7.6 Consensus size: 49
8621425 CCCTTCGGGA
* * * * * *
8621435 CTTATCACAT-T-TATACACTTTCATATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8621482 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8621529 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8621576 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8621625 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8621674 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8621723 CTTATCACATATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8621772 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
8621799 TATTCAAATA
Statistics
Matches: 301, Mismatches: 12, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 107 0.36
49 193 0.64
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:8625712 original size:40 final size:40
Alignment explanation
Indices: 8625668--8626099 Score: 630
Period size: 40 Copynumber: 10.8 Consensus size: 40
8625658 CCAGCATGAT
* * * *
8625668 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** * *
8625708 TGCTCTTCGGGGTTTAGCACGGATATATCTCTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
8625748 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGAACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
8625788 TGCTCTTCGAGATTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
8625828 TGCTCTTCGGAACTTAGTCTGGATACATCACAAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
8625868 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
8625908 TGCTCTTCGGGACTTAGTCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
8625948 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
8625988 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
8626028 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
8626068 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
8626100 CTCAATTCTC
Statistics
Matches: 346, Mismatches: 46, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 346 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:8627364 original size:37 final size:37
Alignment explanation
Indices: 8627314--8627392 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
8627304 TTATTACGAA
* * *
8627314 GTCTTACCCGGACATAATCTCCACACGAAGTTATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
* *
8627351 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
8627388 GTCTT
1 GTCTT
8627393 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:8627636 original size:49 final size:49
Alignment explanation
Indices: 8627511--8627728 Score: 306
Period size: 49 Copynumber: 4.6 Consensus size: 49
8627501 CCCTTCGGGA
* * * * * *
8627511 CTTATCACAT-T-TATACACTTTCATATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8627558 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8627605 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8627654 CTTATCACATATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8627703 CTTATCAC--ATATA-ACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
8627729 TATTCAAATA
Statistics
Matches: 155, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
46 13 0.08
47 47 0.30
49 95 0.61
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:8633331 original size:20 final size:19
Alignment explanation
Indices: 8633302--8633342 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
8633292 ATTAGTTATC
8633302 TTTT-AAAAAACTCATAAAA
1 TTTTAAAAAAACT-ATAAAA
8633321 TTTTAAAAAAAACTATAAAA
1 TTTT-AAAAAAACTATAAAA
8633341 TT
1 TT
8633343 ACCTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 8 0.40
21 8 0.40
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
TTTTAAAAAAACTATAAAA
Found at i:8640622 original size:21 final size:21
Alignment explanation
Indices: 8640596--8640639 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8640586 TCGGCTGATA
*
8640596 ATGAGACCTCAAATTTTCACC
1 ATGAGACCCCAAATTTTCACC
* *
8640617 ATGAGACCCCCAATTTTGACC
1 ATGAGACCCCAAATTTTCACC
8640638 AT
1 AT
8640640 ATTCATTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (21 bp):
ATGAGACCCCAAATTTTCACC
Found at i:8648824 original size:310 final size:310
Alignment explanation
Indices: 8648262--8648881 Score: 1204
Period size: 310 Copynumber: 2.0 Consensus size: 310
8648252 CTAACTAAGC
8648262 TTTCAAAATCTTCTCCTTTCCTTTGGCCTTAAATGACTTGGCCACCTCCTTAGCTTCAAATTCAT
1 TTTCAAAATCTTCTCCTTTCCTTTGGCCTTAAATGACTTGGCCACCTCCTTAGCTTCAAATTCAT
8648327 AACCCAACCAAAGAAATCACGTTAGTATAATGTTATTCAACACTTGAAACTCTTAAATCTAATAA
66 AACCCAACCAAAGAAATCACGTTAGTATAATGTTATTCAACACTTGAAACTCTTAAATCTAATAA
*
8648392 TTAAATGTGATTTGGTAAAGCGAGAACCCAACTTTGCTTCCTTGAACACTTAGCTAACCTCTCTC
131 TTAAATGTAATTTGGTAAAGCGAGAACCCAACTTTGCTTCCTTGAACACTTAGCTAACCTCTCTC
*
8648457 AAACTCTAATAAACACTTTTTTCTTATCTCAATGACTCTCTGAACATCTCTAGAAGTTAACATTA
196 AAACTCTAATAAACACTTTTTTCTTATCTCAAGGACTCTCTGAACATCTCTAGAAGTTAACATTA
8648522 ACAACAAAAATTCCTAATATCACTTTCTCTACAATTTCAACCTAAACTCA
261 ACAACAAAAATTCCTAATATCACTTTCTCTACAATTTCAACCTAAACTCA
*
8648572 TTTCAAAATCTTCTCCTTTCCTTTGGCCTTAGATGACTTGGCCACCTCCTTAGCTTCAAATTCAT
1 TTTCAAAATCTTCTCCTTTCCTTTGGCCTTAAATGACTTGGCCACCTCCTTAGCTTCAAATTCAT
8648637 AACCCAACCAAAGAAATCACGTTAGTATAATGTTATTCAACACTTGAAACTCTTAAATCTAATAA
66 AACCCAACCAAAGAAATCACGTTAGTATAATGTTATTCAACACTTGAAACTCTTAAATCTAATAA
8648702 TTAAATGTAATTTGGTAAAGCGAGAACCCAACTTTGCTTCCTTGAACACTTAGCTAACCTCTCTC
131 TTAAATGTAATTTGGTAAAGCGAGAACCCAACTTTGCTTCCTTGAACACTTAGCTAACCTCTCTC
8648767 AAACTCTAATAAACACTTTTTTCTTATCTCAAGGACTCTCTGAACATCTCTAGAAGTTAACATTA
196 AAACTCTAATAAACACTTTTTTCTTATCTCAAGGACTCTCTGAACATCTCTAGAAGTTAACATTA
*
8648832 CCAACAAAAATTCCTAATATCACTTTCTCTACAATTTCAACCTAAACTCA
261 ACAACAAAAATTCCTAATATCACTTTCTCTACAATTTCAACCTAAACTCA
8648882 AGAATCCACT
Statistics
Matches: 306, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
310 306 1.00
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33
Consensus pattern (310 bp):
TTTCAAAATCTTCTCCTTTCCTTTGGCCTTAAATGACTTGGCCACCTCCTTAGCTTCAAATTCAT
AACCCAACCAAAGAAATCACGTTAGTATAATGTTATTCAACACTTGAAACTCTTAAATCTAATAA
TTAAATGTAATTTGGTAAAGCGAGAACCCAACTTTGCTTCCTTGAACACTTAGCTAACCTCTCTC
AAACTCTAATAAACACTTTTTTCTTATCTCAAGGACTCTCTGAACATCTCTAGAAGTTAACATTA
ACAACAAAAATTCCTAATATCACTTTCTCTACAATTTCAACCTAAACTCA
Found at i:8649503 original size:16 final size:16
Alignment explanation
Indices: 8649482--8649514 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8649472 GGTAAAGGCA
8649482 TTCTCACAATATAACG
1 TTCTCACAATATAACG
8649498 TTCTCACAATATAACG
1 TTCTCACAATATAACG
8649514 T
1 T
8649515 GATACATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (16 bp):
TTCTCACAATATAACG
Found at i:8657260 original size:22 final size:22
Alignment explanation
Indices: 8657235--8657276 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8657225 GAATTTTTAG
* *
8657235 ATTTTTTAAGAATTTTTTTTTC
1 ATTTGTTAAGAATTTCTTTTTC
*
8657257 ATTTGTTAATAATTTCTTTT
1 ATTTGTTAAGAATTTCTTTT
8657277 GTTTTAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (22 bp):
ATTTGTTAAGAATTTCTTTTTC
Found at i:8657414 original size:70 final size:70
Alignment explanation
Indices: 8657327--8657464 Score: 267
Period size: 70 Copynumber: 2.0 Consensus size: 70
8657317 TGATAATTTA
*
8657327 ACTATAGTTAAAGGGCCAAGGTAAATATTAACCCTTGAATTAACGTTTCATATCATTATTTTGTT
1 ACTATAGTTAAAGGGCCAAGGTAAATATTAACCCTTGAATTAACGTTTCATATCATTATTTTATT
8657392 AAACC
66 AAACC
8657397 ACTATAGTTAAAGGGCCAAGGTAAATATTAACCCTTGAATTAACGTTTCATATCATTATTTTATT
1 ACTATAGTTAAAGGGCCAAGGTAAATATTAACCCTTGAATTAACGTTTCATATCATTATTTTATT
8657462 AAA
66 AAA
8657465 GGTTTAATGA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (70 bp):
ACTATAGTTAAAGGGCCAAGGTAAATATTAACCCTTGAATTAACGTTTCATATCATTATTTTATT
AAACC
Found at i:8658649 original size:31 final size:32
Alignment explanation
Indices: 8658611--8658676 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
8658601 TGCCTAACTA
*
8658611 TAAATAGTTAAGTGACTAAAATAG-AATAAAT
1 TAAATAGTTAAGTGACTAAAACAGAAATAAAT
* *
8658642 TAAATAGTTAAGTGATTAAAACAGAAATACAT
1 TAAATAGTTAAGTGACTAAAACAGAAATAAAT
8658674 TAA
1 TAA
8658677 TACTTGGGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
31 22 0.71
32 9 0.29
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.29
Consensus pattern (32 bp):
TAAATAGTTAAGTGACTAAAACAGAAATAAAT
Found at i:8665675 original size:43 final size:43
Alignment explanation
Indices: 8665628--8665710 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
8665618 GTAATTCGAT
**
8665628 ATCGAAGCCTCTGTCCCTA-ACAGGGTCTTACACGAAATCTTAG
1 ATCGAAGCCTCTGTCCC-AGACACAGTCTTACACGAAATCTTAG
* * *
8665671 ATCGAGGCCTGTGTCCCAGACACAGTCTTACACGATATCT
1 ATCGAAGCCTCTGTCCCAGACACAGTCTTACACGAAATCT
8665711 CAAATTAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
ATCGAAGCCTCTGTCCCAGACACAGTCTTACACGAAATCTTAG
Found at i:8681784 original size:15 final size:17
Alignment explanation
Indices: 8681758--8681789 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8681748 AATTAACTAA
8681758 TTAAAAATATTT-ATTT
1 TTAAAAATATTTCATTT
8681774 TTAAAAA-ATTTCATTT
1 TTAAAAATATTTCATTT
8681790 ATACGTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATATTTCATTT
Found at i:8687079 original size:42 final size:42
Alignment explanation
Indices: 8686998--8687080 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
8686988 GTGGTATAAA
* * *
8686998 AGCCAGACGGGCAGGGACATGGGTGTGTACCCAGCCCGTGTG
1 AGCCAGACGGGCAAGGACACGGGTGTGTACCAAGCCCGTGTG
*
8687040 AGCCATACGGGCAAGGACACGGATGTGTGT-CCAAG-CCGTGT
1 AGCCAGACGGGCAAGGACACGG--GTGTGTACCAAGCCCGTGT
8687081 ATCTCACTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 25 0.71
43 4 0.11
44 6 0.17
ACGTcount: A:0.22, C:0.25, G:0.37, T:0.16
Consensus pattern (42 bp):
AGCCAGACGGGCAAGGACACGGGTGTGTACCAAGCCCGTGTG
Found at i:8689453 original size:23 final size:23
Alignment explanation
Indices: 8689404--8689454 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
8689394 TTTTTAAATG
* * *
8689404 CAAAATTTTTAGTTTTGGCCTCC
1 CAAAATTTTTAATCTTGGCATCC
* *
8689427 CAAATTTTTTAATCTTGGCATCT
1 CAAAATTTTTAATCTTGGCATCC
8689450 CAAAA
1 CAAAA
8689455 CAAAAAATTC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (23 bp):
CAAAATTTTTAATCTTGGCATCC
Found at i:8700293 original size:74 final size:74
Alignment explanation
Indices: 8700191--8700461 Score: 379
Period size: 74 Copynumber: 3.7 Consensus size: 74
8700181 TGATGTTTTT
* ** * *
8700191 ATTTCTG--TTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
8700253 GTATTTTCA
66 GTATTTTCA
**
8700262 ATTTCTG-TCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGA
1 ATTTCTGCT-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
8700326 GGTATTTTCA
65 GGTATTTTCA
* * * * *
8700336 ATTTCTACTTTTCAAAAGAATCAACCCATATTACGAGAGGTGAGTTAAGCCTCAGGGCACGCTGA
1 ATTTCTGCTTTTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
8700401 GGTATTTTCA
65 GGTATTTTCA
*
8700411 ATTTCTGCTTTTCAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 ATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
8700462 TTTAATTTTT
Statistics
Matches: 176, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
71 7 0.04
73 4 0.02
74 98 0.56
75 67 0.38
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (74 bp):
ATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTATTTTCA
Found at i:8700493 original size:53 final size:56
Alignment explanation
Indices: 8700405--8700514 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 56
8700395 CGCTGAGGTA
8700405 TTTTCAATTTCTGCTTTTCAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTGCTTTTCAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
8700461 TTTT-AATTTTTGTTTTTC-AA-AATCAACTCATATTGCGAGGGGTGAGTTGAGCC
1 TTTTCAATTTCTGCTTTTCAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
8700514 T
1 T
8700515 AGAGTCATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
53 33 0.65
54 2 0.04
55 12 0.24
56 4 0.08
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (56 bp):
TTTTCAATTTCTGCTTTTCAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:8700601 original size:72 final size:72
Alignment explanation
Indices: 8700479--8700898 Score: 250
Period size: 75 Copynumber: 5.5 Consensus size: 72
8700469 TTTGTTTTTC
* * * *
8700479 AAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCT-AGAGTCATATTGAGGTATTCTCAATTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-AGACACACTGAGGTATT-TCAATTTA
8700543 T-CATCAAA
64 TGCATCAAA
* * * *
8700551 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCAAGACACACTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGT-ATTTCAATTTAT
* ***
8700616 GCTTTTCA
65 GCATCAAA
* * * *
8700624 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAGGGCACACTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTA-TTTCAA-TT-T
*
8700689 ATTTTTTCAATTCATGTTGTCAA
63 A----TGC-A-TCA-------AA
* * * * *
8700712 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAGTTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTA-TTTCAATTTAT
* * *
8700777 CCTTTTCAAG
65 GC--ATCAAA
* * * * * * * *
8700787 AGAATCAACGCATATTGCGAGAGGTGAGTTGAACCTCAGGGCACGCTGAGGTATTTTCAGTTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTA-TTTCAATTTAT
* *
8700852 TCTTTTCAAA
65 GC--ATCAAA
* * * *
8700862 AGAATCGACTCATATTGCAAGAGGTGAGTTGAACCTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
8700899 GGGTCACATA
Statistics
Matches: 282, Mismatches: 46, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
72 52 0.18
73 58 0.21
74 2 0.01
75 104 0.37
79 2 0.01
81 1 0.00
82 5 0.02
86 1 0.00
87 2 0.01
88 55 0.20
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTCAATTTATG
CATCAAA
Found at i:8700651 original size:73 final size:72
Alignment explanation
Indices: 8700461--8700688 Score: 237
Period size: 72 Copynumber: 3.2 Consensus size: 72
8700451 GAGTTGAGCC
* * * * *
8700461 TTTTAATTTTTGTTTTTC-AAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCT-AGAGTCATA
1 TTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-AGACACA
*
8700524 TTGAGGTA
65 CTGAGGTA
* * * *** * *
8700532 TTCTCAATTTAT-CATCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCAAGACACA
1 TT-TTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACA
8700596 CTGAGGTAA
65 CTGAGGT-A
* * * *
8700605 TTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAGGGCACAC
1 TTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACAC
8700670 TGAGGTA
66 TGAGGTA
8700677 TTTTCAATTTCT
1 TTTT-AATTTCT
8700689 ATTTTTTCAA
Statistics
Matches: 126, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
71 3 0.02
72 63 0.50
73 60 0.48
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (72 bp):
TTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACAC
TGAGGTA
Found at i:8700811 original size:75 final size:75
Alignment explanation
Indices: 8700708--8700898 Score: 294
Period size: 75 Copynumber: 2.6 Consensus size: 75
8700698 ATTCATGTTG
* * *
8700708 TCAAAA-AATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAG
1 TCAAAAGAATCAACGCATATTGCGAGAGGTGAGTTGAACCTCAAGGCACGCTGAGGTATTTTCAG
8700772 TTTCTCCTTT
66 TTTCTCCTTT
* *
8700782 TCAAGAGAATCAACGCATATTGCGAGAGGTGAGTTGAACCTCAGGGCACGCTGAGGTATTTTCAG
1 TCAAAAGAATCAACGCATATTGCGAGAGGTGAGTTGAACCTCAAGGCACGCTGAGGTATTTTCAG
*
8700847 TTTCTTCTTT
66 TTTCTCCTTT
* * *
8700857 TCAAAAGAATCGACTCATATTGCAAGAGGTGAGTTGAACCTC
1 TCAAAAGAATCAACGCATATTGCGAGAGGTGAGTTGAACCTC
8700899 GGGTCACATA
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
74 5 0.05
75 101 0.95
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (75 bp):
TCAAAAGAATCAACGCATATTGCGAGAGGTGAGTTGAACCTCAAGGCACGCTGAGGTATTTTCAG
TTTCTCCTTT
Found at i:8700840 original size:163 final size:160
Alignment explanation
Indices: 8700549--8700860 Score: 473
Period size: 161 Copynumber: 1.9 Consensus size: 160
8700539 TTTATCATCA
* *
8700549 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCAAGACACACTGAGGTAATTTTAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTTAATTT
* *
8700614 CTGCTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAGGGCACACTGAGGTATT
66 CTCCTTTTCAAAAATCAACGCATATTGCGAGAAGTGAGTTGAACCTCAGGGCACACTGAGGTATT
*
8700679 TTCAATTTCTATTTTTTCAATTCATGTTGTC
131 TTCAATTTCT-TCTTTTCAATTCATGTTGTC
* * * *
8700710 AAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGT-ATTTTCAGTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTT-AATT
* *
8700774 TCTCCTTTTCAAGAGAATCAACGCATATTGCGAGAGGTGAGTTGAACCTCAGGGCACGCTGAGGT
65 TCTCCTTTTCAA-A-AATCAACGCATATTGCGAGAAGTGAGTTGAACCTCAGGGCACACTGAGGT
*
8700839 ATTTTCAGTTTCTTCTTTTCAA
128 ATTTTCAATTTCTTCTTTTCAA
8700861 AAGAATCGAC
Statistics
Matches: 136, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
160 5 0.04
161 63 0.46
162 9 0.07
163 59 0.43
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (160 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTTAATTT
CTCCTTTTCAAAAATCAACGCATATTGCGAGAAGTGAGTTGAACCTCAGGGCACACTGAGGTATT
TTCAATTTCTTCTTTTCAATTCATGTTGTC
Found at i:8701117 original size:173 final size:174
Alignment explanation
Indices: 8700871--8701183 Score: 488
Period size: 173 Copynumber: 1.8 Consensus size: 174
8700861 AAGAATCGAC
* * *
8700871 TCATATTGCAAGAGGTGAGTTGAACCTCGGGTCACATATCGAGGCATTTTCAAAATCTGTTTTTC
1 TCATATTGCAAGAGGTGAGTCGAACCTCGGATCACATATCAAGGCATTTTCAAAATCTGTTTTTC
* *
8700936 AAATTATTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTCGAGCCTCGGATCACATG-TCGA
66 AAATTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTCGAGCCTCGGATCACATGCT-GA
8701000 GGTATTTTCAAAATCTTTTTTTCAAATTATTTTTCAAAAATCAAT
130 GGTATTTTCAAAATCTTTTTTTCAAATTATTTTTCAAAAATCAAT
* * *
8701045 TCATATTGCAAGAGGTGAGTCGAGCCTCGGATCA-ATGTCAAGGTATTTTCAAAATCAT-TTTTT
1 TCATATTGCAAGAGGTGAGTCGAACCTCGGATCACATATCAAGGCATTTTCAAAATC-TGTTTTT
* *
8701108 CAAATTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGA
65 CAAATTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTCGAGCCTCGGATCACATGCTGA
*
8701173 GGTGTTTTCAA
130 GGTATTTTCAA
8701184 CTTCTGTTTT
Statistics
Matches: 126, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
173 93 0.74
174 33 0.26
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (174 bp):
TCATATTGCAAGAGGTGAGTCGAACCTCGGATCACATATCAAGGCATTTTCAAAATCTGTTTTTC
AAATTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTCGAGCCTCGGATCACATGCTGAG
GTATTTTCAAAATCTTTTTTTCAAATTATTTTTCAAAAATCAAT
Found at i:8701138 original size:86 final size:86
Alignment explanation
Indices: 8700854--8701375 Score: 484
Period size: 87 Copynumber: 6.3 Consensus size: 86
8700844 CAGTTTCTTC
* * * * * *
8700854 TTTTCAAAAGAATCGACTCATATTGCAAGAGGTGAGTTGAACCTCGGGTCACATATCGAGGCATT
1 TTTTC-AAA-AATCAACTCATATTGCAAGAGGTGAGTCGAGCCTCGGATCACATGTCGAGGTATT
8700919 TTCAAAATCTGTTTTTCAAATTAT
64 TTCAAAATCT-TTTTTCAAATTAT
* *
8700943 TTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTCGAGCCTCGGATCACATGTCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTCGAGCCTCGGATCACATGTCGAGGTATTTT
8701008 CAAAATCTTTTTTTCAAATTAT
66 CAAAATC-TTTTTTCAAATTAT
* *
8701030 TTTTCAAAAATCAATTCATATTGCAAGAGGTGAGTCGAGCCTCGGATCA-ATGTCAAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTCGAGCCTCGGATCACATGTCGAGGTATTTT
8701094 CAAAATCATTTTTTCAAATTAT
66 CAAAATC-TTTTTTCAAATTAT
* * * * *
8701116 TTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-CTGAGGTGTTT
1 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTCGAGCCTCGGATCACATGTC-GAGGTATTT
** * *
8701180 TCAACTTCTGTTTTC-CA--A-
65 TCAAAATCTTTTTTCAAATTAT
* * *
8701198 -----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CAC--G-CTGAGGTAAT
1 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTCGAGCCTC-GGATCACATGTC-GAGGTATT
*
8701254 TTC--AA-----TTTC----TGT
64 TTCAAAATCTTTTTTCAAATTAT
* * * * *
8701266 TTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTCGAGCCTCGGATCACATGTCGAGGTATTTT
* * *
8701331 CAAAATCTGCTTTTCAAAGTAA
66 CAAAATCT-TTTTTCAAATTAT
* *
8701353 GTTTCAAAAACCAACTCATATTG
1 TTTTCAAAAATCAACTCATATTG
8701376 TGAGAAGTGA
Statistics
Matches: 369, Mismatches: 37, Indels: 56
0.80 0.08 0.12
Matches are distributed among these distances:
68 4 0.01
72 2 0.01
73 41 0.11
75 23 0.06
76 1 0.00
77 42 0.11
78 2 0.01
83 5 0.01
85 1 0.00
86 86 0.23
87 153 0.41
88 4 0.01
89 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (86 bp):
TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTCGAGCCTCGGATCACATGTCGAGGTATTTT
CAAAATCTTTTTTCAAATTAT
Found at i:8701332 original size:75 final size:75
Alignment explanation
Indices: 8701116--8701348 Score: 314
Period size: 75 Copynumber: 3.1 Consensus size: 75
8701106 TTCAAATTAT
* *
8701116 TTTTC-AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTGTTT
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTT
8701180 TCAACTTCTG
66 TCAACTTCTG
* * *
8701190 TTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAA
1 TTTT-C-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTAT
*
8701253 TTTCAATTTCTG
64 TTTCAACTTCTG
8701265 TTTGT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTAT
1 TTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCT-GAGGTAT
**
8701328 TTTCAAAATCTG
64 TTTCAACTTCTG
8701340 CTTTTCAAA
1 -TTTTCAAA
8701349 GTAAGTTTCA
Statistics
Matches: 139, Mismatches: 11, Indels: 16
0.84 0.07 0.10
Matches are distributed among these distances:
73 41 0.29
74 5 0.04
75 47 0.34
76 7 0.05
77 39 0.28
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (75 bp):
TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTT
TCAACTTCTG
Found at i:8702114 original size:35 final size:35
Alignment explanation
Indices: 8702047--8702114 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
8702037 CCCCCACTTG
*
8702047 CCCACTCTCCCATGCTGTCTGCCACCAGCACCATC
1 CCCACTCTCCCATGCTGTCTGCCACCACCACCATC
* *
8702082 CCCACTCTCCCATGCTGTCTTCCACTACCACCA
1 CCCACTCTCCCATGCTGTCTGCCACCACCACCA
8702115 CCACTCCTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.18, C:0.51, G:0.09, T:0.22
Consensus pattern (35 bp):
CCCACTCTCCCATGCTGTCTGCCACCACCACCATC
Found at i:8704477 original size:25 final size:25
Alignment explanation
Indices: 8704426--8704477 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
8704416 ACTTTAAAAG
* * *
8704426 TGAATTTTATGCTTTGGGTTTTTGA
1 TGAATTTTAGGCTTTGGGTATTAGA
8704451 TGAATTTTAGGCTTTGGGTATTAGA
1 TGAATTTTAGGCTTTGGGTATTAGA
8704476 TG
1 TG
8704478 TGTGAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.19, C:0.04, G:0.27, T:0.50
Consensus pattern (25 bp):
TGAATTTTAGGCTTTGGGTATTAGA
Found at i:8707089 original size:34 final size:34
Alignment explanation
Indices: 8707046--8707111 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
8707036 GATTGTAAGT
*
8707046 ATTTTCTATTAAAATCTATACACTTGGATATACG
1 ATTTTCTATTAAAATCTATAAACTTGGATATACG
*
8707080 ATTTTCTATTAAAATCTGTAAACTTGGATATA
1 ATTTTCTATTAAAATCTATAAACTTGGATATA
8707112 TGCTGAGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (34 bp):
ATTTTCTATTAAAATCTATAAACTTGGATATACG
Found at i:8715505 original size:17 final size:17
Alignment explanation
Indices: 8715464--8715511 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
8715454 TGAAAGTAAT
8715464 TTTTTTTTTAATTTTCA
1 TTTTTTTTTAATTTTCA
* * *
8715481 TATATTTTTCATTTTCA
1 TTTTTTTTTAATTTTCA
*
8715498 TTTTTTTTAAATTT
1 TTTTTTTTTAATTT
8715512 CAACCAAATA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTTTTTAATTTTCA
Found at i:8724097 original size:25 final size:24
Alignment explanation
Indices: 8724066--8724177 Score: 109
Period size: 25 Copynumber: 4.6 Consensus size: 24
8724056 TTTAGAGGTC
8724066 CGCACACATAGTGCCACGT-TTCCCT
1 CGCACACATAGTGCCACGTATT--CT
* * *
8724091 CGCACACATAGTGCTATGTAATCT
1 CGCACACATAGTGCCACGTATTCT
* *
8724115 TGCACACATAGTGCCACGTAGTTTT
1 CGCACACATAGTGCCACGTA-TTCT
* * **
8724140 TGCACACATAGTGCCACATAACCT
1 CGCACACATAGTGCCACGTATTCT
8724164 CGCACACATAGTGC
1 CGCACACATAGTGC
8724178 TGAAATTTCT
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
24 33 0.46
25 38 0.53
26 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (24 bp):
CGCACACATAGTGCCACGTATTCT
Found at i:8724145 original size:49 final size:48
Alignment explanation
Indices: 8724066--8724177 Score: 127
Period size: 49 Copynumber: 2.3 Consensus size: 48
8724056 TTTAGAGGTC
* ** *
8724066 CGCACACATAGTGCCACGTTTCCCTCGCACACATAGTGCTATGTAATCT
1 CGCACACATAGTGCCACGTTT-CCTCGCACACATAGTGCCACATAACCT
* * *
8724115 TGCACACATAGTGCCACGTAGTT-TTTGCACACATAGTGCCACATAACCT
1 CGCACACATAGTGCCACGT--TTCCTCGCACACATAGTGCCACATAACCT
8724164 CGCACACATAGTGC
1 CGCACACATAGTGC
8724178 TGAAATTTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 51 0.96
51 2 0.04
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (48 bp):
CGCACACATAGTGCCACGTTTCCTCGCACACATAGTGCCACATAACCT
Found at i:8727629 original size:17 final size:17
Alignment explanation
Indices: 8727575--8727630 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 17
8727565 TGAACACTTA
8727575 ATTTTTTT-TTCA-TTT
1 ATTTTTTTATTCATTTT
* *
8727590 CTTATTTTATTCATCTTAAT
1 ATTTTTTTATTCAT-TT--T
8727610 ATTTTTTTATTCATTTT
1 ATTTTTTTATTCATTTT
8727627 ATTT
1 ATTT
8727631 ATGATATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 6 0.19
16 4 0.12
17 5 0.16
18 2 0.06
19 2 0.06
20 13 0.41
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTTATTCATTTT
Found at i:8734176 original size:28 final size:28
Alignment explanation
Indices: 8734117--8734174 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
8734107 TTAAATCTGG
*
8734117 CCAACTTTAAAAAATTACAGTCACGCCC
1 CCAACTTTAAAAAATTACAGTAACGCCC
* *
8734145 CCAACTTTGAAAAAATTATAGTAATGCCC
1 CCAACTTT-AAAAAATTACAGTAACGCCC
8734174 C
1 C
8734175 AAATGTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.24
Consensus pattern (28 bp):
CCAACTTTAAAAAATTACAGTAACGCCC
Found at i:8752918 original size:26 final size:26
Alignment explanation
Indices: 8752889--8752941 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
8752879 TTTACAGTTT
8752889 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
8752915 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
8752941 T
1 T
8752942 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:8754567 original size:12 final size:12
Alignment explanation
Indices: 8754547--8754577 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8754537 ACTCAGGGAA
8754547 GAGGCCGTGGTC
1 GAGGCCGTGGTC
*
8754559 GATGCCGTGGTC
1 GAGGCCGTGGTC
8754571 GAGGCCG
1 GAGGCCG
8754578 AGGTTGTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.26, G:0.48, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:8759408 original size:32 final size:32
Alignment explanation
Indices: 8759372--8759436 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
8759362 TGTATGCATT
8759372 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
8759404 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
8759436 T
1 T
8759437 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:8760943 original size:26 final size:26
Alignment explanation
Indices: 8760914--8760966 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
8760904 TTTACAGTTT
8760914 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
8760940 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
8760966 T
1 T
8760967 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:8762439 original size:25 final size:25
Alignment explanation
Indices: 8762411--8762464 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
8762401 ATTTTAAAAT
*
8762411 TTTTTGTTAAACACATTTTT-A-GTTA
1 TTTTAGTT-AACA-ATTTTTAAGGTTA
*
8762436 TTTTAGTTTACAATTTTTAAGGTTA
1 TTTTAGTTAACAATTTTTAAGGTTA
8762461 TTTT
1 TTTT
8762465 CTACAGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 6 0.24
24 4 0.16
25 15 0.60
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (25 bp):
TTTTAGTTAACAATTTTTAAGGTTA
Found at i:8767941 original size:26 final size:24
Alignment explanation
Indices: 8767911--8767961 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
8767901 TTTAATATTA
8767911 ATTATAAAATAGTATATATTATTTTT
1 ATTATAAAATA-TAT-TATTATTTTT
**
8767937 ATTATCCAATATATTATTATTTTT
1 ATTATAAAATATATTATTATTTTT
8767961 A
1 A
8767962 AAAAAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 3 0.13
26 9 0.39
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTATAAAATATATTATTATTTTT
Found at i:8767999 original size:14 final size:15
Alignment explanation
Indices: 8767969--8768002 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8767959 TTAAAAAAAG
*
8767969 ATTTGTTTATCATAT
1 ATTTTTTTATCATAT
8767984 ATTTTTTTAT-ATAT
1 ATTTTTTTATCATAT
8767998 ATTTT
1 ATTTT
8768003 ATTTCGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (15 bp):
ATTTTTTTATCATAT
Found at i:8768148 original size:15 final size:15
Alignment explanation
Indices: 8768119--8768204 Score: 52
Period size: 15 Copynumber: 5.7 Consensus size: 15
8768109 TTTTATCATA
*
8768119 TATTTATTATATATAT
1 TATTTA-TATTTATAT
8768135 TATTTATATTTATAT
1 TATTTATATTTATAT
* * *
8768150 TATATGTTTTTAGTA-
1 TATTTATATTTA-TAT
* *
8768165 CATATTATTTTTATA-
1 TAT-TTATATTTATAT
8768180 TA-TTATATATTATAT
1 TATTTATAT-TTATAT
*
8768195 TATTCATATT
1 TATTTATATT
8768205 ATTATACATT
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
13 5 0.09
14 5 0.09
15 25 0.45
16 20 0.36
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTTATATTTATAT
Found at i:8768257 original size:21 final size:21
Alignment explanation
Indices: 8768231--8768275 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
8768221 AAAAATTTAG
*
8768231 TATATACT-ATGTATTTTCCTA
1 TATATACTAAT-TATTTTACTA
*
8768252 TATATATTAATTATTTTACTA
1 TATATACTAATTATTTTACTA
8768273 TAT
1 TAT
8768276 TTTTATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (21 bp):
TATATACTAATTATTTTACTA
Found at i:8768343 original size:14 final size:14
Alignment explanation
Indices: 8768324--8768358 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8768314 ATATATTCTT
8768324 CATATATCGTATTA
1 CATATATCGTATTA
**
8768338 CATATATTTTATTA
1 CATATATCGTATTA
8768352 CATATAT
1 CATATAT
8768359 TTTTATTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (14 bp):
CATATATCGTATTA
Found at i:8768371 original size:14 final size:16
Alignment explanation
Indices: 8768339--8768397 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 16
8768329 ATCGTATTAC
8768339 ATATATTTTATTACAT
1 ATATATTTTATTACAT
*
8768355 ATAT-TTTTATTGC-T
1 ATATATTTTATTACAT
*
8768369 ATATGATTTATATTA-TT
1 ATAT-ATTT-TATTACAT
*
8768386 ACATATTTTATT
1 ATATATTTTATT
8768398 TGTAAATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
14 5 0.14
15 12 0.33
16 11 0.31
17 8 0.22
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (16 bp):
ATATATTTTATTACAT
Found at i:8768372 original size:16 final size:15
Alignment explanation
Indices: 8768333--8768365 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
8768323 TCATATATCG
8768333 TATTACATATA-TTT
1 TATTACATATATTTT
8768347 TATTACATATATTTT
1 TATTACATATATTTT
8768362 TATT
1 TATT
8768366 GCTATATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTACATATATTTT
Found at i:8772449 original size:37 final size:37
Alignment explanation
Indices: 8772394--8772468 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
8772384 AGAGAGTAAG
8772394 AAAGAGGAAATCTAGAAGCAACACATCCCTACGGTAC
1 AAAGAGGAAATCTAGAAGCAACACATCCCTACGGTAC
*
8772431 AAAGAGGAAATCTGGAAGCAACACATCCCTACGGTAC
1 AAAGAGGAAATCTAGAAGCAACACATCCCTACGGTAC
8772468 A
1 A
8772469 CACGCTAAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.13
Consensus pattern (37 bp):
AAAGAGGAAATCTAGAAGCAACACATCCCTACGGTAC
Found at i:8780451 original size:27 final size:27
Alignment explanation
Indices: 8780421--8780472 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
8780411 CCTAATTTGA
8780421 TAAAATAACT-ATTATACCCCTATGAGG
1 TAAAATAACTGA-TATACCCCTATGAGG
* *
8780448 TAAAATGACTGATATGCCCCTATGA
1 TAAAATAACTGATATACCCCTATGA
8780473 TATGTATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (27 bp):
TAAAATAACTGATATACCCCTATGAGG
Found at i:8780769 original size:34 final size:34
Alignment explanation
Indices: 8780694--8780769 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 34
8780684 CTAATTGCAT
8780694 CACTGATATTGTTACTGAATTAGGCTAAGGCCCA
1 CACTGATATTGTTACTGAATTAGGCTAAGGCCCA
* *
8780728 CAATGATATTGTTACTGTAA-TGGGCTAAGGCCCTA
1 CACTGATATTGTTACTG-AATTAGGCTAAGGCCC-A
8780763 -ACTGATA
1 CACTGATA
8780770 CTGAACTGCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 34 0.92
35 3 0.08
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (34 bp):
CACTGATATTGTTACTGAATTAGGCTAAGGCCCA
Found at i:8782342 original size:21 final size:22
Alignment explanation
Indices: 8782290--8782343 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
8782280 AAATTATTTT
*
8782290 AAAATTAATTTAATATAAATTG
1 AAAAATAATTTAATATAAATTG
* *
8782312 AAAAAAAATTT-ATATCAATTG
1 AAAAATAATTTAATATAAATTG
**
8782333 GTAAATAATTT
1 AAAAATAATTT
8782344 CTTTACTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (22 bp):
AAAAATAATTTAATATAAATTG
Found at i:8791641 original size:26 final size:26
Alignment explanation
Indices: 8791604--8791657 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
8791594 AGATTATCTC
8791604 CTTCAACAAAAAGTCAAATACAAGGT
1 CTTCAACAAAAAGTCAAATACAAGGT
8791630 CTTCAATC-AAAAGTCAAATACAAGGT
1 CTTCAA-CAAAAAGTCAAATACAAGGT
8791656 CT
1 CT
8791658 GTCATGGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.22
Consensus pattern (26 bp):
CTTCAACAAAAAGTCAAATACAAGGT
Found at i:8798381 original size:13 final size:13
Alignment explanation
Indices: 8798363--8798392 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
8798353 TTTGAAGGGT
8798363 ACACGGGCTAGAC
1 ACACGGGCTAGAC
8798376 ACACGGGCTAGAC
1 ACACGGGCTAGAC
8798389 ACAC
1 ACAC
8798393 AGGCGTGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.33, G:0.27, T:0.07
Consensus pattern (13 bp):
ACACGGGCTAGAC
Found at i:8817695 original size:42 final size:42
Alignment explanation
Indices: 8817591--8817699 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
8817581 TATACAATGC
* * *
8817591 CAATGTCCCAAACGTGGTCTTACATGTAATCAAACATCGATG
1 CAATGTCCCAAACATGGTCTTACACGAAATCAAACATCGATG
* * * * *
8817633 CAACTGTCTCAGACAGGGTCTTATACGAAATCAAATA-CGATG
1 CAA-TGTCCCAAACATGGTCTTACACGAAATCAAACATCGATG
*
8817675 CTGATGTCCCAAACATGGTCTTACA
1 C-AATGTCCCAAACATGGTCTTACA
8817700 TGTAAAACAG
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
CAATGTCCCAAACATGGTCTTACACGAAATCAAACATCGATG
Found at i:8820603 original size:30 final size:30
Alignment explanation
Indices: 8820567--8820624 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8820557 TAAAAGATCT
* *
8820567 TGATTTTTTTTTTACTTTGGGCTTACTTTC
1 TGATTTTGTTTTGACTTTGGGCTTACTTTC
*
8820597 TGATTTTGTTTTGCCTTTGGGCTTACTT
1 TGATTTTGTTTTGACTTTGGGCTTACTT
8820625 CCATATCTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.09, C:0.14, G:0.17, T:0.60
Consensus pattern (30 bp):
TGATTTTGTTTTGACTTTGGGCTTACTTTC
Found at i:8820884 original size:36 final size:36
Alignment explanation
Indices: 8820844--8820917 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
8820834 TTACAACAAG
8820844 AATATTCGACACGTTGCATTGAGGATTGGGATCCTC
1 AATATTCGACACGTTGCATTGAGGATTGGGATCCTC
*
8820880 AATATTTGACACGTTGCATTGAGGATTGGGATCCTC
1 AATATTCGACACGTTGCATTGAGGATTGGGATCCTC
8820916 AA
1 AA
8820918 GAAGTCCCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (36 bp):
AATATTCGACACGTTGCATTGAGGATTGGGATCCTC
Found at i:8822516 original size:19 final size:18
Alignment explanation
Indices: 8822494--8822533 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
8822484 TCATTGTATT
8822494 TGAC-AAGAAACATTGAAAA
1 TGACAAAGAAA-A-TGAAAA
8822513 TGACAAAGAAAATGAAAA
1 TGACAAAGAAAATGAAAA
8822531 TGA
1 TGA
8822534 AATAAAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 5 0.25
20 6 0.30
ACGTcount: A:0.60, C:0.07, G:0.17, T:0.15
Consensus pattern (18 bp):
TGACAAAGAAAATGAAAA
Found at i:8823816 original size:17 final size:19
Alignment explanation
Indices: 8823780--8823821 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
8823770 GTGGGTGAAT
*
8823780 AAATATATTTTATATTAAA
1 AAATATATTTTATATCAAA
8823799 AAATATA-TTTATA-CAAA
1 AAATATATTTTATATCAAA
8823816 AAATAT
1 AAATAT
8823822 GTAAAAGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 6 0.27
19 7 0.32
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATATATTTTATATCAAA
Found at i:8825172 original size:15 final size:16
Alignment explanation
Indices: 8825152--8825187 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
8825142 AAAAGATTAA
8825152 ATGAATTTGAGATA-C
1 ATGAATTTGAGATACC
8825167 ATGAATTTGAGATACC
1 ATGAATTTGAGATACC
8825183 ATGAA
1 ATGAA
8825188 ACTTGTATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGAATTTGAGATACC
Found at i:8826167 original size:12 final size:12
Alignment explanation
Indices: 8826150--8826176 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8826140 AAAACAAGGC
8826150 TTTAGCGGCGTT
1 TTTAGCGGCGTT
8826162 TTTAGCGGCGTT
1 TTTAGCGGCGTT
8826174 TTT
1 TTT
8826177 GGTAAAACGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:8826249 original size:41 final size:41
Alignment explanation
Indices: 8826163--8826438 Score: 360
Period size: 41 Copynumber: 6.8 Consensus size: 41
8826153 AGCGGCGTTT
* * *
8826163 TTAGCGGCGTTTTTGGTAAAACGCCAC-AAAAAGCAGAGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
* ** * *
8826203 ATAGCGGCTTTTTTGTTAAAACGCCGCTAAAAACCAAAGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
*
8826244 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACTAGAGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
* *
8826285 TTCGCGGCGCTTTTGGTAAAACG-CGCTAAAAACTAGAGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
* * *
8826325 TTTGCGGCGCTTTTGGTAAAATGCTGCTAAAAACCAGAGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
* *
8826366 TTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAATC-GAAGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAG-AGCA
* *
8826407 TTAGCGGCGCTTTCGGTAAAACGCTGCTAAAA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
8826439 TTCATATAAC
Statistics
Matches: 208, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
40 62 0.30
41 146 0.70
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (41 bp):
TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
Found at i:8826312 original size:81 final size:81
Alignment explanation
Indices: 8826163--8826438 Score: 358
Period size: 81 Copynumber: 3.4 Consensus size: 81
8826153 AGCGGCGTTT
* * * ** *
8826163 TTAGCGGCGTTTTTGGTAAAACGCCAC-AAAAAGCAGAGCAATAGCGGCTTTTTTGTTAAAACGC
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGC
8826227 CGCTAAAAACCAAAGCA
65 CGCTAAAAACCAAAGCA
*
8826244 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACTAGAGCATTCGCGGCGCTTTTGGTAAAACG-
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC-AGAGCATTAGCGGCGCTTTTGGTAAAACGC
* *
8826308 CGCTAAAAACTAGAGCA
65 CGCTAAAAACCAAAGCA
* * * *
8826325 TTTGCGGCGCTTTTGGTAAAATGCTGCTAAAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGC
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGC
* *
8826390 CGCTAAAAATCGAAGCA
65 CGCTAAAAACCAAAGCA
* *
8826407 TTAGCGGCGCTTTCGGTAAAACGCTGCTAAAA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
8826439 TTCATATAAC
Statistics
Matches: 170, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
81 98 0.58
82 72 0.42
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (81 bp):
TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
GCTAAAAACCAAAGCA
Found at i:8826385 original size:122 final size:122
Alignment explanation
Indices: 8826163--8826438 Score: 369
Period size: 122 Copynumber: 2.3 Consensus size: 122
8826153 AGCGGCGTTT
* * ** *
8826163 TTAGCGGCGTTTTTGGTAAAACGC-CACAAAAAGCAGAGCAATAGCGGCTTTTTTGTTAAAACGC
1 TTAGCGGCGCTTTTGGTAAAACGCGC-TAAAAAGCAGAGCAATAGCGGCGCTTTTGGTAAAACGC
*
8826227 CGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACTAG-AGCA
65 CGCTAAAAACCAAAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAA-TAGAAGCA
* * * *
8826285 TTCGCGGCGCTTTTGGTAAAACGCGCTAAAAA-CTAGAGCATTTGCGGCGCTTTTGGTAAAATGC
1 TTAGCGGCGCTTTTGGTAAAACGCGCTAAAAAGC-AGAGCAATAGCGGCGCTTTTGGTAAAACGC
* * *
8826349 TGCTAAAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAATCGAAGCA
65 CGCTAAAAACCAAAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAATAGAAGCA
*
8826407 TTAGCGGCGCTTTCGGTAAAACGCTGCTAAAA
1 TTAGCGGCGCTTTTGGTAAAACGC-GCTAAAA
8826439 TTCATATAAC
Statistics
Matches: 135, Mismatches: 15, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
121 3 0.02
122 124 0.92
123 8 0.06
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (122 bp):
TTAGCGGCGCTTTTGGTAAAACGCGCTAAAAAGCAGAGCAATAGCGGCGCTTTTGGTAAAACGCC
GCTAAAAACCAAAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAATAGAAGCA
Found at i:8826505 original size:22 final size:23
Alignment explanation
Indices: 8826480--8826527 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
8826470 AAAAAATCAT
*
8826480 AAACACT-AA-TCTATAATCCTTA
1 AAACACTAAACTCT-TAAACCTTA
8826502 AAACACTAAACTCTTAAACCTTA
1 AAACACTAAACTCTTAAACCTTA
8826525 AAA
1 AAA
8826528 ATCTTAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 13 0.57
24 3 0.13
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (23 bp):
AAACACTAAACTCTTAAACCTTA
Found at i:8826762 original size:15 final size:15
Alignment explanation
Indices: 8826738--8826792 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
8826728 ACTATTTTAA
*
8826738 GTTTATGGATTATGG
1 GTTTAGGGATTATGG
8826753 GTTTAGGGATTAT-G
1 GTTTAGGGATTATGG
*
8826767 GTTTAAGGG-TTAGGG
1 GTTT-AGGGATTATGG
*
8826782 GTCTA-GGATTA
1 GTTTAGGGATTA
8826793 AGAGTTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 2 0.06
14 12 0.35
15 20 0.59
ACGTcount: A:0.22, C:0.02, G:0.36, T:0.40
Consensus pattern (15 bp):
GTTTAGGGATTATGG
Found at i:8826765 original size:22 final size:21
Alignment explanation
Indices: 8826740--8826794 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
8826730 TATTTTAAGT
*
8826740 TTATGGATTATGGGTTTAGGGA
1 TTATGGATTAAGGG-TTAGGGA
* *
8826762 TTATGGTTTAAGGGTTAGGGG
1 TTATGGATTAAGGGTTAGGGA
8826783 TCTA-GGATTAAG
1 T-TATGGATTAAG
8826795 AGTTTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.24, C:0.02, G:0.36, T:0.38
Consensus pattern (21 bp):
TTATGGATTAAGGGTTAGGGA
Found at i:8827612 original size:17 final size:18
Alignment explanation
Indices: 8827590--8827623 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8827580 TATTTGTTTT
8827590 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
8827607 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
8827624 TTAAGAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:8829237 original size:43 final size:41
Alignment explanation
Indices: 8829135--8829265 Score: 118
Period size: 42 Copynumber: 3.1 Consensus size: 41
8829125 AATTTTTTTA
*
8829135 AAAGGTCATGGTTGTTAGCGGCGTTTATGAAAAAGCGCCGCT
1 AAAGGTCATGGTT-TTAGCGGCATTTATGAAAAAGCGCCGCT
* * * * *
8829177 AAAGGTTATAGTTTTTAGTGGCATTTTTGAGAAAAGCGTCGCT
1 AAAGGTCAT-GGTTTTAGCGGCATTTATGA-AAAAGCGCCGCT
* * * ***
8829220 AAAGGTCATGGCCTTTAGAGGCGTTTGCAAAAAAGCGCCGCT
1 AAAGGTCATGG-TTTTAGCGGCATTTATGAAAAAGCGCCGCT
8829262 AAAG
1 AAAG
8829266 ACCATGACCT
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 37 0.52
43 34 0.48
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (41 bp):
AAAGGTCATGGTTTTAGCGGCATTTATGAAAAAGCGCCGCT
Found at i:8829265 original size:42 final size:41
Alignment explanation
Indices: 8829164--8829284 Score: 107
Period size: 42 Copynumber: 2.9 Consensus size: 41
8829154 GGCGTTTATG
* * ** * *
8829164 AAAAAGCGCCGCTAAAGGTTATAGTTTTTAGTGGCATTTTTGA
1 AAAAAGCGCCGCTAAAGGTCATGGCCTTTAGAGGC--GTTTGA
* *
8829207 GAAAAGCGTCGCTAAAGGTCATGGCCTTTAGAGGCGTTTGCA
1 AAAAAGCGCCGCTAAAGGTCATGGCCTTTAGAGGCGTTTG-A
** * *
8829249 AAAAAGCGCCGCTAAAGACCATGACCTTTAGCGGCG
1 AAAAAGCGCCGCTAAAGGTCATGGCCTTTAGAGGCG
8829285 CTTTTTTTGG
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 4 0.06
42 31 0.49
43 28 0.44
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (41 bp):
AAAAAGCGCCGCTAAAGGTCATGGCCTTTAGAGGCGTTTGA
Found at i:8829312 original size:21 final size:22
Alignment explanation
Indices: 8829273--8829313 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8829263 AAGACCATGA
8829273 CCTTTAGCGGCGCTTTTTTTGG
1 CCTTTAGCGGCGCTTTTTTTGG
8829295 CCTTTAGCGGCG-TTTTTTT
1 CCTTTAGCGGCGCTTTTTTT
8829314 AAATAAACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.05, C:0.22, G:0.24, T:0.49
Consensus pattern (22 bp):
CCTTTAGCGGCGCTTTTTTTGG
Found at i:8830720 original size:21 final size:20
Alignment explanation
Indices: 8830682--8830722 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8830672 TGAAAGGTAA
* *
8830682 CATAAAAAGAAAATAGAAAG
1 CATAAAAAAAAAAAAGAAAG
8830702 CATAAAGAAAAAAAAAGAAAG
1 CATAAA-AAAAAAAAAGAAAG
8830723 AATGGTGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.73, C:0.05, G:0.15, T:0.07
Consensus pattern (20 bp):
CATAAAAAAAAAAAAGAAAG
Done.