Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 275 of 410
Found at i:85011469 original size:40 final size:40
Alignment explanation
Indices: 85011415--85011492 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
85011405 CATTCTTTCA
* *
85011415 CAAAAAAATAATATCAATAATATCCTTTCTTCTATTGTTT
1 CAAAAAAATAATATCAAGAATATCCTTTCTACTATTGTTT
* * *
85011455 CAAAAAAATGATATCAAGGATATTCTTTCTACTATTGT
1 CAAAAAAATAATATCAAGAATATCCTTTCTACTATTGT
85011493 CAAATTACAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (40 bp):
CAAAAAAATAATATCAAGAATATCCTTTCTACTATTGTTT
Found at i:85016746 original size:26 final size:26
Alignment explanation
Indices: 85016698--85016748 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
85016688 AACTCATATA
* *
85016698 ATATAAATATTGATATTGTAAATAAT
1 ATATAAATATTAATATAGTAAATAAT
85016724 ATATAAAT-TTAATATAGTCAAATAA
1 ATATAAATATTAATATAGT-AAATAA
85016749 CATTTCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (26 bp):
ATATAAATATTAATATAGTAAATAAT
Found at i:85022653 original size:24 final size:24
Alignment explanation
Indices: 85022621--85022667 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
85022611 ATGCACAGCC
*
85022621 AGAAACAGATACAATTTCAGATTT
1 AGAAACAGATACAAATTCAGATTT
* *
85022645 AGAATCAGATCCAAATTCAGATT
1 AGAAACAGATACAAATTCAGATT
85022668 ACAAAAGCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.28
Consensus pattern (24 bp):
AGAAACAGATACAAATTCAGATTT
Found at i:85023180 original size:34 final size:34
Alignment explanation
Indices: 85023131--85023243 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 34
85023121 TGGGCCCACA
* *
85023131 TGCCCTTGTGGGCCCATATGCCCAACTTGACCTT
1 TGCCCGTGTGGGCCCATACGCCCAACTTGACCTT
* * *
85023165 TTCCCGTGTGGGCCCATACGCCCAATTTGCCCTT
1 TGCCCGTGTGGGCCCATACGCCCAACTTGACCTT
* * * * *
85023199 TGCCCGTGTGGGCCCACACACTCAATTTGCCCTT
1 TGCCCGTGTGGGCCCATACGCCCAACTTGACCTT
*
85023233 TGCCCATGTGG
1 TGCCCGTGTGG
85023244 CCTACACGGC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 69 1.00
ACGTcount: A:0.13, C:0.36, G:0.22, T:0.28
Consensus pattern (34 bp):
TGCCCGTGTGGGCCCATACGCCCAACTTGACCTT
Found at i:85030077 original size:16 final size:18
Alignment explanation
Indices: 85030041--85030083 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
85030031 GATAACATTG
*
85030041 TTTATTCTACTATTAAAAT
1 TTTATT-TATTATTAAAAT
85030060 TTT-TTTATTATT-AAAT
1 TTTATTTATTATTAAAAT
85030076 TTTATTTA
1 TTTATTTA
85030084 GATTATTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.32
17 10 0.45
18 2 0.09
19 3 0.14
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATTTATTATTAAAAT
Found at i:85031304 original size:19 final size:19
Alignment explanation
Indices: 85031254--85031310 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
85031244 CTTTTCAAAA
85031254 TATATTGATACC-TACTGTATT
1 TATATTGATACCATA-T-T-TT
*
85031275 T-TATCGATACCATATTTT
1 TATATTGATACCATATTTT
85031293 TATATTGATACCAT-TTTT
1 TATATTGATACCATATTTT
85031311 GCATTTTGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 7 0.22
19 12 0.38
20 10 0.31
21 3 0.09
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (19 bp):
TATATTGATACCATATTTT
Found at i:85033573 original size:28 final size:28
Alignment explanation
Indices: 85033541--85033601 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
85033531 GAGGAGTGAG
85033541 TTTATGAAAGCTCAATGTGAGTCTAAGA
1 TTTATGAAAGCTCAATGTGAGTCTAAGA
85033569 TTTATGAAAGCTCAATGTGAGTCTAAGA
1 TTTATGAAAGCTCAATGTGAGTCTAAGA
*
85033597 GTTAT
1 TTTAT
85033602 CTAAGCAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (28 bp):
TTTATGAAAGCTCAATGTGAGTCTAAGA
Found at i:85035585 original size:40 final size:38
Alignment explanation
Indices: 85035527--85035610 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
85035517 ACTTAATTCA
* * *
85035527 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGAC-CT-AACCCGGATACAATC
* *
85035567 CCAGCATGAAGCCAGCGGGTCCTAACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACCTAACCCGGATACAATC
*
85035605 TCAGCA
1 CCAGCA
85035611 CAATTCATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 19 0.50
39 1 0.03
40 18 0.47
ACGTcount: A:0.29, C:0.32, G:0.23, T:0.17
Consensus pattern (38 bp):
CCAGCATGAAGCCAGCGGGACCTAACCCGGATACAATC
Found at i:85035745 original size:45 final size:46
Alignment explanation
Indices: 85035681--85035788 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 46
85035671 TGCACACTTT
* *
85035681 TCACAATTGGTCATT-GGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTACACAT-TCA
*
85035726 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATA-ACACTTACACATTCA
85035773 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
85035789 ATCTTAAGCT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
44 9 0.16
45 19 0.34
46 1 0.02
47 27 0.48
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:85037233 original size:4 final size:4
Alignment explanation
Indices: 85037224--85037256 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
85037214 ACTTTTTCCC
85037224 TTAT TTAT TTAT TTAT TTAT TTAT TTAT GTTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT
85037257 ATAATATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:85037479 original size:22 final size:20
Alignment explanation
Indices: 85037439--85037479 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
85037429 AGTCCTATTA
*
85037439 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
85037459 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
85037480 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:85038761 original size:40 final size:40
Alignment explanation
Indices: 85038706--85039221 Score: 825
Period size: 40 Copynumber: 12.9 Consensus size: 40
85038696 AAATACACAT
** *
85038706 CACCAGCATTAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
85038746 CACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* **
85038786 CTCCAGCACGAATGCTCTTCTAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
85038826 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
85038866 CACTAGCACGAATACTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
85038906 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
85038946 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
85038986 CACTAGCACGAATGCTCTTCGAGACTTAGCTCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
85039026 CACTAGCACGAATGCTCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
85039066 CACTAGCACGAATGCTTTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
85039106 CACTAGCACGAATGCTCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
85039146 CTCCAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
85039186 CTCCAGCACGAATGCTCTTCGGGACCTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
85039222 CATCGGCGAG
Statistics
Matches: 443, Mismatches: 33, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 443 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:85054921 original size:80 final size:80
Alignment explanation
Indices: 85054837--85054985 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
85054827 TATGGTAACC
* * * *
85054837 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
85054901 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
85054917 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
85054982 CCGG
66 CCGG
85054986 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:85054927 original size:40 final size:38
Alignment explanation
Indices: 85054878--85054985 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
85054868 ATCACGATTT
*
85054878 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
85054918 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
85054958 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
85054986 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:85056929 original size:18 final size:18
Alignment explanation
Indices: 85056903--85056940 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
85056893 TAATATCCAA
*
85056903 CCCTGGGTATCATGATAT
1 CCCTAGGTATCATGATAT
85056921 CCCTAGGTATCATGATAT
1 CCCTAGGTATCATGATAT
85056939 CC
1 CC
85056941 ATGTTGGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (18 bp):
CCCTAGGTATCATGATAT
Found at i:85060587 original size:29 final size:29
Alignment explanation
Indices: 85060554--85060627 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
85060544 GTGACGAGAT
85060554 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
85060583 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
85060612 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
85060628 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:85060643 original size:29 final size:29
Alignment explanation
Indices: 85060611--85060686 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
85060601 CTGGAAATAT
* *
85060611 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
85060640 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
85060669 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
85060687 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:85060654 original size:58 final size:58
Alignment explanation
Indices: 85060554--85060686 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
85060544 GTGACGAGAT
* * * * * *
85060554 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
85060612 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
85060670 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
85060687 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:85068470 original size:29 final size:29
Alignment explanation
Indices: 85068437--85068510 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
85068427 GTGACGAGAT
85068437 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
85068466 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
85068495 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
85068511 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:85068526 original size:29 final size:29
Alignment explanation
Indices: 85068494--85068569 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
85068484 CTGGAAATAT
* *
85068494 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
85068523 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
85068552 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
85068570 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:85068537 original size:58 final size:58
Alignment explanation
Indices: 85068437--85068569 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
85068427 GTGACGAGAT
* * * * * *
85068437 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
85068495 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
85068553 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
85068570 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:85071114 original size:28 final size:32
Alignment explanation
Indices: 85071083--85071142 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
85071073 TATTAAATAC
85071083 TTTT-GGATT-TGTTT-GTTGTTTTT-TTTAT
1 TTTTCGGATTGTGTTTGGTTGTTTTTGTTTAT
*
85071111 TTTTCGTATTGTGTTTGGTTGTTTTTGTTTAT
1 TTTTCGGATTGTGTTTGGTTGTTTTTGTTTAT
85071143 GTGTTTGTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 4 0.15
29 4 0.15
30 5 0.19
31 9 0.33
32 5 0.19
ACGTcount: A:0.07, C:0.02, G:0.20, T:0.72
Consensus pattern (32 bp):
TTTTCGGATTGTGTTTGGTTGTTTTTGTTTAT
Found at i:85074677 original size:2 final size:2
Alignment explanation
Indices: 85074670--85074696 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
85074660 ACAAGTATGC
85074670 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
85074697 CAATCAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85074797 original size:2 final size:2
Alignment explanation
Indices: 85074790--85074827 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
85074780 TTCGAACTTA
*
85074790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85074828 CATCAAAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:85075720 original size:50 final size:49
Alignment explanation
Indices: 85075625--85075822 Score: 200
Period size: 50 Copynumber: 4.0 Consensus size: 49
85075615 CAATTATAGA
* * * * *
85075625 AAATCAAATATAAGATCACATATGTGCATACCTATGTGGCTGAATATGC
1 AAATCAAATATAACATCACATATGTACATACCTATATGGCCGAATATAC
* * * *
85075674 AAGATCAAATTTAACATCAAATATGTACTTACTTATATGGCCGAATATAC
1 AA-ATCAAATATAACATCACATATGTACATACCTATATGGCCGAATATAC
* * * * * *
85075724 AAATTTAAATATAATATCACATTTGTGCATACCT-TCATGGCCAAATATTC
1 AAA-TCAAATATAACATCACATATGTACATACCTAT-ATGGCCGAATATAC
* *
85075774 AAAATCCAATATAACATCACATATGTACATACCTATGTGGCCGAATATA
1 -AAATCAAATATAACATCACATATGTACATACCTATATGGCCGAATATA
85075823 TACAAGGTCA
Statistics
Matches: 117, Mismatches: 27, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
49 4 0.03
50 109 0.93
51 4 0.03
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (49 bp):
AAATCAAATATAACATCACATATGTACATACCTATATGGCCGAATATAC
Found at i:85075789 original size:100 final size:100
Alignment explanation
Indices: 85075630--85075822 Score: 253
Period size: 100 Copynumber: 1.9 Consensus size: 100
85075620 ATAGAAAATC
* ** * *
85075630 AAATATAAGATCACATATGTGCATACCTATGTGGCTGAATATGCAAGATCAAATTTAACATCAAA
1 AAATATAAGATCACATATGTGCATACCTATATGGCCAAATATGCAAAATCAAATATAACATCAAA
* *
85075695 TATGTACTTACTTATATGGCCGAATATACAAATTT
66 TATGTACATACCTATATGGCCGAATATACAAATTT
* * * * *
85075730 AAATATAATATCACATTTGTGCATACCT-TCATGGCCAAATATTCAAAATCCAATATAACATCAC
1 AAATATAAGATCACATATGTGCATACCTAT-ATGGCCAAATATGCAAAATCAAATATAACATCAA
*
85075794 ATATGTACATACCTATGTGGCCGAATATA
65 ATATGTACATACCTATATGGCCGAATATA
85075823 TACAAGGTCA
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 1 0.01
100 78 0.99
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (100 bp):
AAATATAAGATCACATATGTGCATACCTATATGGCCAAATATGCAAAATCAAATATAACATCAAA
TATGTACATACCTATATGGCCGAATATACAAATTT
Found at i:85086744 original size:47 final size:47
Alignment explanation
Indices: 85086683--85086801 Score: 138
Period size: 47 Copynumber: 2.5 Consensus size: 47
85086673 GAGGCCGAAG
* *
85086683 CATGTCCCAAACATGTTTTACACTAGCACTCGTC-TCA-AT-GCTGATA
1 CATGTCCCAGACATGTTTTACACTAG-ACTC-TCATAATATGGCTGATA
*
85086729 TCATGTCCCAGACATGGTTTTACACT-GGCTCTCATAATATGGCTGATA
1 -CATGTCCCAGACAT-GTTTTACACTAGACTCTCATAATATGGCTGATA
*
85086777 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTTTTACACTA
85086802 TCTCACAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
45 2 0.03
46 14 0.22
47 30 0.48
48 17 0.27
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (47 bp):
CATGTCCCAGACATGTTTTACACTAGACTCTCATAATATGGCTGATA
Found at i:85094888 original size:2 final size:2
Alignment explanation
Indices: 85094881--85094921 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
85094871 TATCCATGCC
85094881 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85094922 TCAAATATGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:85096656 original size:2 final size:2
Alignment explanation
Indices: 85096651--85096708 Score: 107
Period size: 2 Copynumber: 28.5 Consensus size: 2
85096641 TACTTTTTTT
85096651 TA TA TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85096694 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
85096709 GATGTAATAG
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 53 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:85102006 original size:17 final size:18
Alignment explanation
Indices: 85101981--85102014 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
85101971 CTAATATATA
*
85101981 TATATATATATA-TTTTT
1 TATAAATATATAGTTTTT
85101998 TATAAATATATAGTTTT
1 TATAAATATATAGTTTT
85102015 AGGTTAAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TATAAATATATAGTTTTT
Found at i:85104529 original size:47 final size:47
Alignment explanation
Indices: 85104476--85104613 Score: 132
Period size: 47 Copynumber: 3.1 Consensus size: 47
85104466 TGGGTGCACA
85104476 ACATATTTGAAGATTAAACAAACTGCCACTTGGTTCATGATTGAACC
1 ACATATTTGAAGATTAAACAAACTGCCACTTGGTTCATGATTGAACC
* * * * *
85104523 ACATATTTGTAGA-T------ACTACCACTT-GTT-ATGAATGCACA
1 ACATATTTGAAGATTAAACAAACTGCCACTTGGTTCATGATTGAACC
* * * *
85104561 ACATATTTGCATATTAAACAAAATGCCACTTGGTTCATGATCGAACC
1 ACATATTTGAAGATTAAACAAACTGCCACTTGGTTCATGATTGAACC
85104608 ACATAT
1 ACATAT
85104614 ATGCAGTTAC
Statistics
Matches: 69, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
38 19 0.28
39 4 0.06
40 9 0.13
45 8 0.12
46 4 0.06
47 25 0.36
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (47 bp):
ACATATTTGAAGATTAAACAAACTGCCACTTGGTTCATGATTGAACC
Found at i:85104607 original size:85 final size:85
Alignment explanation
Indices: 85104470--85104707 Score: 314
Period size: 85 Copynumber: 2.8 Consensus size: 85
85104460 TTGTTGTGGG
* *
85104470 TGCACAACATATTTGAAGATTAAACAAACTGCCACTTGGTTCATGATTGAACCACATATTTGTAG
1 TGCACAACATATTTGCATATTAAACAAACTGCCACTTGGTTCATGATTGAACCACATATTTGTAG
85104535 ATACTACCACTTGTTATGAA
66 ATACTACCACTTGTTATGAA
* * * *
85104555 TGCACAACATATTTGCATATTAAACAAAATGCCACTTGGTTCATGATCGAACCACATATATGCAG
1 TGCACAACATATTTGCATATTAAACAAACTGCCACTTGGTTCATGATTGAACCACATATTTGTAG
* ** * *
85104620 TTACTGTCACTTGTTGTGAG
66 ATACTACCACTTGTTATGAA
* * * * * *
85104640 TACACAACATATTTGCATACTAAACTAACTGTCACTTGGTTCGTAATTGAACCACACTATTTGTA
1 TGCACAACATATTTGCATATTAAACAAACTGCCACTTGGTTCATGATTGAACCACA-TATTTGTA
85104705 GAT
65 GAT
85104708 TAAATTGCAC
Statistics
Matches: 130, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
85 122 0.94
86 8 0.06
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (85 bp):
TGCACAACATATTTGCATATTAAACAAACTGCCACTTGGTTCATGATTGAACCACATATTTGTAG
ATACTACCACTTGTTATGAA
Found at i:85109546 original size:16 final size:15
Alignment explanation
Indices: 85109525--85109554 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
85109515 GAAATGTTTT
85109525 TGATTAATTGATATTC
1 TGATTAATTG-TATTC
85109541 TGATTAATTGTATT
1 TGATTAATTGTATT
85109555 TATTTATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.53
Consensus pattern (15 bp):
TGATTAATTGTATTC
Found at i:85111858 original size:28 final size:27
Alignment explanation
Indices: 85111826--85111885 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
85111816 TAATAACATA
85111826 AAATAA-AACAAATAAAAGAATGAAAAAG
1 AAATAATAA-AAATAAAAGAA-GAAAAAG
* * *
85111854 AAATAATAAACATAATAGAAGAAAATG
1 AAATAATAAAAATAAAAGAAGAAAAAG
85111881 AAATA
1 AAATA
85111886 GGGAGAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 11 0.39
28 15 0.54
29 2 0.07
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (27 bp):
AAATAATAAAAATAAAAGAAGAAAAAG
Found at i:85111913 original size:6 final size:6
Alignment explanation
Indices: 85111902--85111928 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
85111892 AAGAAAGGGG
85111902 AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAA
85111929 TTAGGGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:85112825 original size:25 final size:25
Alignment explanation
Indices: 85112797--85112856 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
85112787 ATTTTTTATT
85112797 TTGATGAATATTTTGAGTTATGCCA
1 TTGATGAATATTTTGAGTTATGCCA
85112822 TTGATGAATATTTTGAGTTATGCCA
1 TTGATGAATATTTTGAGTTATGCCA
85112847 TTGATGAATA
1 TTGATGAATA
85112857 ATTCAGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (25 bp):
TTGATGAATATTTTGAGTTATGCCA
Found at i:85113578 original size:43 final size:42
Alignment explanation
Indices: 85113520--85113636 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 42
85113510 TGTGTATTCG
* *
85113520 TGTAATACTACGTCTGGGACGTAGGCATCGTTATGTGATTACA
1 TGTAAGACCACGTCTGGGACGT-GGCATCGTTATGTGATTACA
* *
85113563 TGTAAGGCC-CTGTCTGGGACAGTGGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTGGCATCGTTATGTGATTACA
*
85113606 TGTAAGACCACATCTGGGACGTTGGCATCGT
1 TGTAAGACCACGTCTGGGACG-TGGCATCGT
85113637 ATGATATGTG
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 2 0.03
43 58 0.92
44 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTGGCATCGTTATGTGATTACA
Found at i:85113826 original size:19 final size:19
Alignment explanation
Indices: 85113802--85113845 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
85113792 GATACTAATT
85113802 ATATATGATGCAAATG-AAA
1 ATATAT-ATGCAAATGAAAA
**
85113821 ATATATATGCGTATGAAAA
1 ATATATATGCAAATGAAAA
85113840 ATATAT
1 ATATAT
85113846 TCGGCCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.32
Consensus pattern (19 bp):
ATATATATGCAAATGAAAA
Found at i:85116138 original size:5 final size:5
Alignment explanation
Indices: 85116128--85116152 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
85116118 TTGTAGTATC
85116128 GAATT GAATT GAATT GAATT GAATT
1 GAATT GAATT GAATT GAATT GAATT
85116153 ATGAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
GAATT
Found at i:85121823 original size:14 final size:14
Alignment explanation
Indices: 85121793--85121830 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
85121783 AAGTAGTTTT
85121793 AATAATAAAAAATAA
1 AATAAT-AAAAATAA
*
85121808 AATAATAAACATAA
1 AATAATAAAAATAA
85121822 AATAATAAA
1 AATAATAAA
85121831 TAAGTATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAATAAAAATAA
Found at i:85126283 original size:49 final size:50
Alignment explanation
Indices: 85126203--85126448 Score: 289
Period size: 49 Copynumber: 4.9 Consensus size: 50
85126193 AGCTATTGTG
*
85126203 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
85126253 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * * **
85126303 CGATCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
85126353 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
85126403 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
85126449 GCTTCGGCTA
Statistics
Matches: 164, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 81 0.49
50 47 0.29
51 36 0.22
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:85126400 original size:101 final size:98
Alignment explanation
Indices: 85126206--85126435 Score: 307
Period size: 100 Copynumber: 2.3 Consensus size: 98
85126196 TATTGTGAGG
* * *
85126206 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAATTGGTCACATGTGTAGTACT
** *
85126271 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACACGTACCGGATAA-TT-GA
* ** *
85126306 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAATT-GGTCACATGTGTAGTAC
* *
85126371 TAAGTGCAGGCTACTACATGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACACGTACCGGATAATTGA
* *
85126405 TCGCATGTGTAGTACTAAGTGTAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTA
85126436 TGCGTACCAG
Statistics
Matches: 115, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
99 30 0.26
100 44 0.38
101 41 0.36
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACACGTACCGGATAATTGA
Found at i:85133443 original size:65 final size:65
Alignment explanation
Indices: 85133339--85133469 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
85133329 AACTTCAACA
*
85133339 TTTAATGTAATTAATGATAGTGTTAAATATAAAATTAGTACTCAAACTTATTCGCTTCTCCCATG
1 TTTAATGTAATTAATGATAGTGTTAAATATAAAATTAGTACTAAAACTTATTCGCTTCTCCCATG
* *
85133404 TTTAATGTAATTAATGATAGTGTTAAATATAAAATTAGTACTAAAATTTGTTCGCTTCTCCCATG
1 TTTAATGTAATTAATGATAGTGTTAAATATAAAATTAGTACTAAAACTTATTCGCTTCTCCCATG
85133469 T
1 T
85133470 AACACCACAT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.41
Consensus pattern (65 bp):
TTTAATGTAATTAATGATAGTGTTAAATATAAAATTAGTACTAAAACTTATTCGCTTCTCCCATG
Found at i:85134597 original size:12 final size:12
Alignment explanation
Indices: 85134582--85134656 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
85134572 TTATACCTCA
85134582 TTTTTCTTTTCTT
1 TTTTTCTTTTC-T
*
85134595 TTTTTCCTTTT-A
1 TTTTT-CTTTTCT
*
85134607 TTTTTATTTTCT
1 TTTTTCTTTTCT
*
85134619 TTTTTATTTTCT
1 TTTTTCTTTTCT
* ** *
85134631 CTCAT-TTTTCC
1 TTTTTCTTTTCT
85134642 TTTTTCTTTTCT
1 TTTTTCTTTTCT
85134654 TTT
1 TTT
85134657 CTTATTTTTC
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
11 11 0.23
12 27 0.56
13 5 0.10
14 5 0.10
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:85137522 original size:30 final size:30
Alignment explanation
Indices: 85137486--85137546 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
85137476 GAGTTTTCAG
* *
85137486 GATCCACACGGGCTGGGCACACGCCCATGT
1 GATCCACACGGGCAGGCCACACGCCCATGT
85137516 GATCCACACGGGCAGGCCACACGCCCATGT
1 GATCCACACGGGCAGGCCACACGCCCATGT
85137546 G
1 G
85137547 CCAGCCCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.21, C:0.38, G:0.30, T:0.11
Consensus pattern (30 bp):
GATCCACACGGGCAGGCCACACGCCCATGT
Found at i:85142303 original size:40 final size:40
Alignment explanation
Indices: 85142259--85142337 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
85142249 TTATAGTACC
* * * *
85142259 ACTTGGTGTGTAGGG-TTGGATGGGTCTATTTTATCCCCAT
1 ACTTGGTATGTAGGGCTGGGA-AGGTCGATTTTATCCCCAT
85142299 ACTTGGTATGTAGGGCTGGGAAGGTCGATTTTATCCCCA
1 ACTTGGTATGTAGGGCTGGGAAGGTCGATTTTATCCCCA
85142338 CATGGTGTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 30 0.88
41 4 0.12
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.35
Consensus pattern (40 bp):
ACTTGGTATGTAGGGCTGGGAAGGTCGATTTTATCCCCAT
Found at i:85152484 original size:16 final size:16
Alignment explanation
Indices: 85152432--85152486 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 16
85152422 TATTATGTGA
*
85152432 TAATAGTAAAAGTGATAT
1 TAATA-TAATAGT-ATAT
*
85152450 TAAT-TAAATATTA-AT
1 TAATAT-AATAGTATAT
85152465 TAATATAATAGTATAT
1 TAATATAATAGTATAT
85152481 TAATAT
1 TAATAT
85152487 GAAATTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 12 0.39
16 11 0.35
17 4 0.13
18 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (16 bp):
TAATATAATAGTATAT
Found at i:85152484 original size:31 final size:33
Alignment explanation
Indices: 85152432--85152499 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 33
85152422 TATTATGTGA
85152432 TAATAGTAAAAGTGATATTAAT-TAAATATTAAT
1 TAATAGTAAAAGTGATATTAATATAAA-ATTAAT
* *
85152465 TAATA-TAATAGT-ATATTAATATGAAATTAAT
1 TAATAGTAAAAGTGATATTAATATAAAATTAAT
85152496 TAAT
1 TAAT
85152500 TTGGTCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 18 0.56
32 9 0.28
33 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (33 bp):
TAATAGTAAAAGTGATATTAATATAAAATTAAT
Found at i:85157204 original size:44 final size:44
Alignment explanation
Indices: 85157156--85157292 Score: 104
Period size: 44 Copynumber: 3.1 Consensus size: 44
85157146 CAAAGGATAT
85157156 AAACTTACTATTATCATAAACTTATATGCTAACATAATTCCAAC
1 AAACTTACTATTATCATAAACTTATATGCTAACATAATTCCAAC
* * * * * *** *
85157200 AAACTAAC-A-CATAATAAGCATT-TAT-CTCATGCATCAA-AGGATAT
1 AAACTTACTATTATCATAAAC-TTATATGCT-A-ACAT-AATTCCA-AC
*
85157244 AAACTTACTATTATCATAAACTTAGATGCTAACATAATTCCAAC
1 AAACTTACTATTATCATAAACTTATATGCTAACATAATTCCAAC
85157288 AAACT
1 AAACT
85157293 AACACATAAT
Statistics
Matches: 64, Mismatches: 19, Indels: 20
0.62 0.18 0.19
Matches are distributed among these distances:
41 2 0.03
42 11 0.17
43 7 0.11
44 25 0.39
45 7 0.11
46 10 0.16
47 2 0.03
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.31
Consensus pattern (44 bp):
AAACTTACTATTATCATAAACTTATATGCTAACATAATTCCAAC
Found at i:85157282 original size:88 final size:88
Alignment explanation
Indices: 85157133--85157304 Score: 335
Period size: 88 Copynumber: 2.0 Consensus size: 88
85157123 TCATGTGGTA
*
85157133 TTATCTCATGCATCAAAGGATATAAACTTACTATTATCATAAACTTATATGCTAACATAATTCCA
1 TTATCTCATGCATCAAAGGATATAAACTTACTATTATCATAAACTTAGATGCTAACATAATTCCA
85157198 ACAAACTAACACATAATAAGCAT
66 ACAAACTAACACATAATAAGCAT
85157221 TTATCTCATGCATCAAAGGATATAAACTTACTATTATCATAAACTTAGATGCTAACATAATTCCA
1 TTATCTCATGCATCAAAGGATATAAACTTACTATTATCATAAACTTAGATGCTAACATAATTCCA
85157286 ACAAACTAACACATAATAA
66 ACAAACTAACACATAATAA
85157305 ACACTTATGT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (88 bp):
TTATCTCATGCATCAAAGGATATAAACTTACTATTATCATAAACTTAGATGCTAACATAATTCCA
ACAAACTAACACATAATAAGCAT
Found at i:85159078 original size:52 final size:50
Alignment explanation
Indices: 85159012--85159200 Score: 180
Period size: 50 Copynumber: 3.7 Consensus size: 50
85159002 GTTGTGAGAA
* **
85159012 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGG--TTAGGT
* * *
85159064 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGGTTAGGT
* * * ** *** * * *
85159114 CGCATGTGTAGTACTAAGTACTGGCTACTATACGTACCTGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAAT-GGTTAGGT
* *
85159165 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
85159201 AATGATATCT
Statistics
Matches: 111, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
50 39 0.35
51 34 0.31
52 38 0.34
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGGTTAGGT
Found at i:85159131 original size:50 final size:51
Alignment explanation
Indices: 85159012--85159143 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 51
85159002 GTTGTGAGAA
* * **
85159012 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGG-TTTAGGT
* *
85159064 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
* * *
85159114 CGCATGTGTAGTACTAAGTACTGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
85159144 TACGTACCTG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
50 32 0.46
52 38 0.54
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
Found at i:85159207 original size:51 final size:51
Alignment explanation
Indices: 85159116--85159249 Score: 124
Period size: 51 Copynumber: 2.6 Consensus size: 51
85159106 GGTTAGGTCG
* * * * ** **
85159116 CATGTGTAGTACTAAGTACTGGCTACTATACGTACCTGATAGCTTCGATCA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAATGATAGCTTCGATCA
* * *
85159167 CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAATGATATCTTTGGTCA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAATGATAGCTTCGATCA
* * * * *
85159218 CAAGTTTGGTACTATGTGAAGGCCACTTTGTG
1 CATGTGTGGTACTAAGTGCAGGCCACTATGTG
85159250 AAGAAGGTAG
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (51 bp):
CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAATGATAGCTTCGATCA
Found at i:85161056 original size:2 final size:2
Alignment explanation
Indices: 85161049--85161073 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
85161039 CAATCACATT
85161049 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
85161074 TCTTCTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85161368 original size:78 final size:76
Alignment explanation
Indices: 85161282--85161445 Score: 172
Period size: 78 Copynumber: 2.1 Consensus size: 76
85161272 GAATTTAAAC
* * * *
85161282 CCGGTATAATACCAG-CTTGAAGCCTGCGGGACTTT-AGCCCAGACATATTTCTAGCACGTAGCC
1 CCGGTATAATACCAGACAT-AA-CCTGC-GGACTTTAAGCCCAGACATAATTCCAGCACATAGCC
85161345 TGC-GAACCTTAAGT
63 TGCAG-ACCTTAAGT
* * * *
85161359 CCGGTTATAATTCCAGCACATAACCTGCGGACTTTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGG-TATAATACCAG-ACATAACCTGCGGACTTTAAGCCCAGACATAATTCCAGCACATAGCCT
85161424 GCAGACCTTAAGT
64 GCAGACCTTAAGT
85161437 CCGGATATA
1 CCGG-TATA
85161446 CTTCACCACT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
77 11 0.15
78 57 0.78
79 3 0.04
80 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (76 bp):
CCGGTATAATACCAGACATAACCTGCGGACTTTAAGCCCAGACATAATTCCAGCACATAGCCTGC
AGACCTTAAGT
Found at i:85161377 original size:39 final size:39
Alignment explanation
Indices: 85161334--85161445 Score: 163
Period size: 39 Copynumber: 2.9 Consensus size: 39
85161324 ACATATTTCT
* *
85161334 AGCACGTAGCCTGCGAACCTTAAGTCCGGTTATAATTCC
1 AGCACATAGCCTGCGAACCTTAAGTCCGGATATAATTCC
* * *
85161373 AGCACATAACCTGCGGACTTTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGAACCTTAAGTCCGGATATAATTCC
85161412 AGCACATAGCCTGC-AGACCTTAAGTCCGGATATA
1 AGCACATAGCCTGCGA-ACCTTAAGTCCGGATATA
85161446 CTTCACCACT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AGCACATAGCCTGCGAACCTTAAGTCCGGATATAATTCC
Found at i:85164416 original size:15 final size:16
Alignment explanation
Indices: 85164381--85164417 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
85164371 TACAAATATA
*
85164381 TTTTTATATTATTTAT
1 TTTTTACATTATTTAT
85164397 TTTTTACATTA-TTAT
1 TTTTTACATTATTTAT
85164412 TTTTTA
1 TTTTTA
85164418 ATAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTACATTATTTAT
Found at i:85166825 original size:26 final size:26
Alignment explanation
Indices: 85166768--85166825 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
85166758 TCTAAACTTT
*
85166768 AAAAAATATATAAATACATAAATAAT
1 AAAAAATATATAAATACATAAATAAA
** * * *
85166794 TTAAAATATATATATATATATATAAA
1 AAAAAATATATAAATACATAAATAAA
85166820 AAAAAA
1 AAAAAA
85166826 AAACATGGTT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAAAATATATAAATACATAAATAAA
Found at i:85171718 original size:49 final size:49
Alignment explanation
Indices: 85171660--85171944 Score: 470
Period size: 49 Copynumber: 5.9 Consensus size: 49
85171650 GTATGAGATG
*
85171660 TATATATGTGATATGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
85171709 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAACGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
85171758 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
85171805 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
85171852 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
85171901 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
85171945 TATATGTGTG
Statistics
Matches: 224, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 90 0.40
49 134 0.60
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:85171833 original size:96 final size:96
Alignment explanation
Indices: 85171659--85171944 Score: 461
Period size: 96 Copynumber: 3.0 Consensus size: 96
85171649 TGTATGAGAT
*
85171659 GTATAT-ATGTGATATGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 GTATATAATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
* *
85171723 GGCCTAATGGCCAATGTGATGAACGTGAAAGT
65 GGCCTAATGGCCAATGTGATGAATGTGAAAGA
*
85171755 GTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG-TATATATGTGATAA
1 GTATATA-ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAA
85171819 GGCCTAATGGCCAATGTGATGAATGTGAAAGA
65 GGCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
85171851 GTATAT-ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAA
1 GTATATAATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
*
85171915 GGCCTAATGGCCGATGTGATGAATGTGAAA
65 GGCCTAATGGCCAATGTGATGAATGTGAAA
85171945 TATATGTGTG
Statistics
Matches: 178, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
94 39 0.22
96 99 0.56
98 40 0.22
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (96 bp):
GTATATAATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:85172039 original size:47 final size:48
Alignment explanation
Indices: 85171936--85172086 Score: 277
Period size: 48 Copynumber: 3.2 Consensus size: 48
85171926 CGATGTGATG
*
85171936 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
85171984 AATGTGAAATATATGTGTGATATGTATATGTGG-AAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
85172031 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
85172079 AATGTGAA
1 AATGTGAA
85172087 TGTTGTAACA
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
47 45 0.45
48 55 0.55
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:85172190 original size:36 final size:37
Alignment explanation
Indices: 85172126--85172252 Score: 220
Period size: 37 Copynumber: 3.4 Consensus size: 37
85172116 AACTTGGAAA
*
85172126 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
85172164 TATGTCCGGGTAAGA-CCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
85172200 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
*
85172237 TATGTCTGGGTAAGAC
1 TATGTCCGGGTAAGAC
85172253 TTCGTAATAA
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
36 36 0.42
37 46 0.53
38 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:85175028 original size:80 final size:80
Alignment explanation
Indices: 85174944--85175092 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
85174934 TATGGTAACC
* * * *
85174944 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
85175008 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
85175024 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
85175089 CCGG
66 CCGG
85175093 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:85175034 original size:40 final size:38
Alignment explanation
Indices: 85174985--85175092 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
85174975 ATCACGATTT
*
85174985 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
85175025 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
85175065 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
85175093 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:85178273 original size:79 final size:79
Alignment explanation
Indices: 85178190--85178337 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
85178180 TATGGTAACC
* * * *
85178190 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
85178254 CCCGGATAAATGACT
65 CCCGGATAAATGACT
* * * * * * *
85178269 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
85178334 CCGG
66 CCGG
85178338 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
78 1 0.02
79 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (79 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAAATGACT
Found at i:85178337 original size:40 final size:38
Alignment explanation
Indices: 85178231--85178380 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
85178221 ATCACGATTT
*
85178231 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAAATGACTA
**
85178270 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAAATG--ACTA
* * ** *
85178310 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA-AATGACTA
* * *
85178350 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
85178381 TCATTCAATT
Statistics
Matches: 90, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.36
40 56 0.62
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAAATGACTA
Found at i:85180738 original size:40 final size:40
Alignment explanation
Indices: 85180692--85180953 Score: 264
Period size: 40 Copynumber: 6.5 Consensus size: 40
85180682 TGAATGATAC
**
85180692 CCGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG-ATATAT
* * * *
85180732 CCGGGCTAAGACCCGAAG-GCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AG-TGATATAT
* * * *
85180772 CCGGGTTAAGACCCGAAG-GCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGT-GATATAT
* * *
85180812 CCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
85180852 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
85180892 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
*
85180932 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
85180954 ATCATGCTGG
Statistics
Matches: 196, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.01
40 179 0.91
41 15 0.08
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:85184801 original size:49 final size:49
Alignment explanation
Indices: 85184743--85184980 Score: 399
Period size: 49 Copynumber: 4.9 Consensus size: 49
85184733 GTATGAGATG
*
85184743 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
85184792 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAACGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
85184841 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
85184888 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
85184937 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
85184981 TATATGTGTG
Statistics
Matches: 177, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 43 0.24
49 134 0.76
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:85184919 original size:96 final size:97
Alignment explanation
Indices: 85184743--85184980 Score: 397
Period size: 96 Copynumber: 2.5 Consensus size: 97
85184733 GTATGAGATG
* *
85184743 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG-ATATATATGTGATAAGG
85184808 CCTAATGGCCAATGTGATGAACGTGAAAGTGTA
65 CCTAATGGCCAATGTGATGAACGTGAAAGTGTA
*
85184841 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG-TATATATGTGATAAGGC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGATATATATGTGATAAGGC
* * *
85184905 CTAATGGCCGATGTGATGAATGTGAAGGTGTA
66 CTAATGGCCAATGTGATGAACGTGAAAGTGTA
*
85184937 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
85184981 TATATGTGTG
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
96 88 0.67
98 44 0.33
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.29
Consensus pattern (97 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGATATATATGTGATAAGGC
CTAATGGCCAATGTGATGAACGTGAAAGTGTA
Found at i:85185029 original size:48 final size:48
Alignment explanation
Indices: 85184972--85185123 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
85184962 CGATGTGATG
85184972 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
85185020 AATGTGAAATATATGTGTGATATGTATATGTGGAAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
85185068 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
85185116 AATGTGAA
1 AATGTGAA
85185124 TGTTGTAACA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 101 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:85185217 original size:37 final size:37
Alignment explanation
Indices: 85185163--85185253 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
85185153 AACTTGGAAA
*
85185163 TATGTTCCGGGTGAGACCCGATGACCACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACCACGTGTGGAGAT
*
85185201 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACCACGTGTGGAGAT
85185238 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
85185254 TTCGTAATAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 47 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACCACGTGTGGAGAT
Found at i:85196126 original size:21 final size:21
Alignment explanation
Indices: 85196102--85196141 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
85196092 CATGATTCAA
85196102 AAAATTAAGAAA-ATATAAATT
1 AAAATTAA-AAATATATAAATT
85196123 AAAATTAAAAATATATAAA
1 AAAATTAAAAATATATAAA
85196142 AATTCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAATTAAAAATATATAAATT
Found at i:85196150 original size:18 final size:17
Alignment explanation
Indices: 85196123--85196179 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
85196113 AATATAAATT
85196123 AAAATTAAAAATATATA
1 AAAATTAAAAATATATA
85196140 AAAATTCAAAAAT-TATTA
1 AAAATT-AAAAATATA-TA
*
85196158 AAATTTATAAAATAATATA
1 AAAATTA-AAAAT-ATATA
85196177 AAA
1 AAA
85196180 TCCTCAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 9 0.26
18 18 0.53
19 5 0.15
20 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTAAAAATATATA
Found at i:85196977 original size:27 final size:25
Alignment explanation
Indices: 85196932--85197009 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 25
85196922 TTTTGAGCAC
85196932 TTTATATTTTTATAAATTT-TAATAATT
1 TTTA-ATTTTTATAAATTTCT--TAATT
**
85196959 TTTGAATTTTTATGGATTTCTTAATT
1 TTT-AATTTTTATAAATTTCTTAATT
85196985 TTTAA--TTTAT-AATTTC-TAATT
1 TTTAATTTTTATAAATTTCTTAATT
85197006 TTTA
1 TTTA
85197010 TAATTATGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
21 9 0.20
22 5 0.11
23 5 0.11
25 2 0.04
26 8 0.17
27 15 0.33
28 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTAATTTTTATAAATTTCTTAATT
Found at i:85197016 original size:22 final size:22
Alignment explanation
Indices: 85196974--85197016 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
85196964 ATTTTTATGG
*
85196974 ATTTCTTAATTTTTAATTTATA
1 ATTTCTTAATTTTTAAATTATA
85196996 ATTTC-TAATTTTTATAATTAT
1 ATTTCTTAATTTTTA-AATTAT
85197017 GATCAGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTCTTAATTTTTAAATTATA
Found at i:85200063 original size:15 final size:15
Alignment explanation
Indices: 85200043--85200080 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
85200033 TTGATTTAGC
*
85200043 TTAATCATTACAATT
1 TTAATCAATACAATT
85200058 TTAATCAATACAATT
1 TTAATCAATACAATT
85200073 TTAATCAA
1 TTAATCAA
85200081 CCCAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (15 bp):
TTAATCAATACAATT
Found at i:85200086 original size:15 final size:15
Alignment explanation
Indices: 85200052--85200089 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
85200042 CTTAATCATT
*
85200052 ACAATTTTAATCAAT
1 ACAATTTTAATCAAC
85200067 ACAATTTTAATCAAC
1 ACAATTTTAATCAAC
*
85200082 CCAATTTT
1 ACAATTTT
85200090 CTACTTCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (15 bp):
ACAATTTTAATCAAC
Found at i:85202848 original size:16 final size:16
Alignment explanation
Indices: 85202777--85202848 Score: 101
Period size: 16 Copynumber: 4.6 Consensus size: 16
85202767 ACAACTGAAT
*
85202777 TATT-CATTACAGGTC
1 TATTCCATTACAGCTC
*
85202792 TATTCTATTACAGCTC
1 TATTCCATTACAGCTC
*
85202808 TATTCCATTACAACTC
1 TATTCCATTACAGCTC
*
85202824 TATTACATTACAGCTC
1 TATTCCATTACAGCTC
85202840 TATTCCATT
1 TATTCCATT
85202849 CCTCCCAACC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 4 0.08
16 45 0.92
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (16 bp):
TATTCCATTACAGCTC
Found at i:85207448 original size:20 final size:20
Alignment explanation
Indices: 85207419--85207463 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
85207409 AGCACATATG
* *
85207419 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
85207439 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
85207459 TTCAT
1 TTCAT
85207464 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:85210031 original size:31 final size:32
Alignment explanation
Indices: 85209992--85210066 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 32
85209982 TTTAACGGTA
* *
85209992 AAGTGACTAAAATTGACGACTTATCT-A-ATG
1 AAGTGACTAAAATTGACAACTCATCTAACATG
85210022 AGAGTGACTAAAATTGACAACTCATCTAACATG
1 A-AGTGACTAAAATTGACAACTCATCTAACATG
85210055 AA-TGACTAAAAT
1 AAGTGACTAAAAT
85210067 AACAATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 1 0.03
31 33 0.82
32 2 0.05
33 4 0.10
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (32 bp):
AAGTGACTAAAATTGACAACTCATCTAACATG
Found at i:85214885 original size:33 final size:32
Alignment explanation
Indices: 85214840--85214922 Score: 89
Period size: 34 Copynumber: 2.5 Consensus size: 32
85214830 ATGCAACATG
**
85214840 ACATGC-TATAACAGACTAGTACGGTAGCAA-TA
1 ACATGCTTATAACAGA-TA-TACAATAGCAATTA
85214872 ACATGCTTATAACAAGTATATACAATAGCAATTA
1 ACATGCTTATAAC-AG-ATATACAATAGCAATTA
*
85214906 TCATGCTTATAACAGAT
1 ACATGCTTATAACAGAT
85214923 CATTACAGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
32 8 0.18
33 17 0.39
34 18 0.41
35 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (32 bp):
ACATGCTTATAACAGATATACAATAGCAATTA
Found at i:85227013 original size:26 final size:27
Alignment explanation
Indices: 85226951--85227014 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
85226941 TTTATCGAGG
*
85226951 TTATTAGTTTACCGATAAATGAATATT
1 TTATTAATTTACCGATAAATGAATATT
* *
85226978 TTATTAATTTATCGATAAATTAATA-T
1 TTATTAATTTACCGATAAATGAATATT
85227004 TTATTAATTTA
1 TTATTAATTTA
85227015 GAGAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 12 0.35
27 22 0.65
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (27 bp):
TTATTAATTTACCGATAAATGAATATT
Found at i:85227167 original size:33 final size:32
Alignment explanation
Indices: 85227090--85227167 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 32
85227080 AATGAATCAA
85227090 AGTTAATTGGTTCATGTAACAAAAAAAAAAGTT
1 AGTTAATTGGTTCATGTAACAAAAAAAAAAG-T
*
85227123 AATTAATTGGTTCATGTAACCAAAAAGAAAAAAG-
1 AGTTAATTGGTTCATGTAA-C-AAAA-AAAAAAGT
85227157 AGTTAA-TGGTT
1 AGTTAATTGGTT
85227168 TCAAAATCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
33 23 0.57
34 6 0.15
35 4 0.10
36 7 0.17
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.29
Consensus pattern (32 bp):
AGTTAATTGGTTCATGTAACAAAAAAAAAAGT
Found at i:85232097 original size:26 final size:28
Alignment explanation
Indices: 85232038--85232097 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 28
85232028 CATATACTAT
*
85232038 TAATTATTATATGATCATAACAAAAAAA
1 TAATTATTATATGAACATAACAAAAAAA
85232066 -AA-TATTAT-T-AACATAA-AATAAAAA
1 TAATTATTATATGAACATAACAA-AAAAA
85232090 TAATTATT
1 TAATTATT
85232098 TTATTATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
23 2 0.07
24 11 0.39
25 3 0.11
26 10 0.36
27 2 0.07
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (28 bp):
TAATTATTATATGAACATAACAAAAAAA
Found at i:85232544 original size:21 final size:21
Alignment explanation
Indices: 85232519--85232560 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
85232509 GTAGTACTTA
85232519 TTTTTATTATTTACTATTACT
1 TTTTTATTATTTACTATTACT
85232540 TTTTTATTATTTACTATTACT
1 TTTTTATTATTTACTATTACT
85232561 ATAAATCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTATTATTTACTATTACT
Found at i:85232897 original size:19 final size:18
Alignment explanation
Indices: 85232873--85232926 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
85232863 TAATGTTTAC
*
85232873 TATATTATTATTTTAATAT
1 TATATTATTA-TTTAATAA
85232892 TATATTA-TATTTAATAA
1 TATATTATTATTTAATAA
*
85232909 TACTTTTATTATTTAATA
1 TA-TATTATTATTTAATA
85232927 CATTAGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.29
18 6 0.19
19 16 0.52
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTATTATTTAATAA
Found at i:85245213 original size:17 final size:18
Alignment explanation
Indices: 85245186--85245219 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
85245176 AATTAAATAC
85245186 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
85245204 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
85245220 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:85255246 original size:15 final size:15
Alignment explanation
Indices: 85255226--85255282 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
85255216 CGATGAATTT
85255226 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
85255241 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
85255256 ATTGAATTTATATTG
1 ATTGAATTTATATTG
85255271 ATTGAA-TTATAT
1 ATTGAATTTATAT
85255283 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:85255755 original size:21 final size:21
Alignment explanation
Indices: 85255666--85255747 Score: 110
Period size: 21 Copynumber: 3.8 Consensus size: 21
85255656 AGGCACTTTA
85255666 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TT-AGGCACCTCG
85255689 TGTGTCGTATTAGGCACCTCG
1 TGTGTCGTATTAGGCACCTCG
* **
85255710 TGTGTCGTATCAGAAACCTCG
1 TGTGTCGTATTAGGCACCTCG
*
85255731 TGTGTCGTTTTAGGCAC
1 TGTGTCGTATTAGGCAC
85255748 TTTATGTGCC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
21 41 0.79
22 2 0.04
23 9 0.17
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATTAGGCACCTCG
Found at i:85255761 original size:42 final size:42
Alignment explanation
Indices: 85255656--85255761 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
85255646 TTTATCGATC
**
85255656 AGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGTATT
1 AGGCACTTTATGTGTCGTA--TCAGAAACCTCGTGTGTCGTATT
* ** *
85255700 AGGCACCTCGTGTGTCGTATCAGAAACCTCGTGTGTCGTTTT
1 AGGCACTTTATGTGTCGTATCAGAAACCTCGTGTGTCGTATT
*
85255742 AGGCACTTTATGTGCCGTAT
1 AGGCACTTTATGTGTCGTAT
85255762 ACTGATCAGG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.69
44 16 0.31
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (42 bp):
AGGCACTTTATGTGTCGTATCAGAAACCTCGTGTGTCGTATT
Found at i:85257826 original size:54 final size:54
Alignment explanation
Indices: 85257762--85257870 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
85257752 TCTTAAGTCT
85257762 CATGCCATAGTTTAAACAAAGAAATACAATTCTAGAATAATAGGAATTATAAAA
1 CATGCCATAGTTTAAACAAAGAAATACAATTCTAGAATAATAGGAATTATAAAA
85257816 CATGCCATAGTTTAAACAAAGAAATACAATTCTAGAATAATAGGAATTATAAAA
1 CATGCCATAGTTTAAACAAAGAAATACAATTCTAGAATAATAGGAATTATAAAA
85257870 C
1 C
85257871 TATGTCTAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.26
Consensus pattern (54 bp):
CATGCCATAGTTTAAACAAAGAAATACAATTCTAGAATAATAGGAATTATAAAA
Found at i:85260081 original size:18 final size:18
Alignment explanation
Indices: 85260058--85260094 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
85260048 GATTAGAGCA
85260058 TATTTTAGTCTTTAAATT
1 TATTTTAGTCTTTAAATT
85260076 TATTTTAGTCTTTAAATT
1 TATTTTAGTCTTTAAATT
85260094 T
1 T
85260095 TACTTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTTTAGTCTTTAAATT
Found at i:85260820 original size:37 final size:37
Alignment explanation
Indices: 85260771--85260848 Score: 106
Period size: 36 Copynumber: 2.1 Consensus size: 37
85260761 GTAAACATTA
*
85260771 AAAAATATTAAAA-TACTTAAATATAAAATTTAACAAAT
1 AAAAATATTAAAATTA-TTAAATAT-AAATTTAAAAAAT
*
85260809 AAAAATA-TAAAATTATTAAATATTAATTTAAAAAAT
1 AAAAATATTAAAATTATTAAATATAAATTTAAAAAAT
85260845 AAAA
1 AAAA
85260849 TTTTTGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 15 0.41
37 13 0.35
38 9 0.24
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (37 bp):
AAAAATATTAAAATTATTAAATATAAATTTAAAAAAT
Found at i:85260862 original size:29 final size:29
Alignment explanation
Indices: 85260808--85260863 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
85260798 ATTTAACAAA
*
85260808 TAAAAATATAAAATTATTAAATATTAATT
1 TAAAAATATAAAATTATTAAAAATTAATT
*
85260837 TAAAAA-ATAAAATTTTTGAAAAATTAA
1 TAAAAATATAAAATTATT-AAAAATTAA
85260864 AAATAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
TAAAAATATAAAATTATTAAAAATTAATT
Found at i:85261630 original size:19 final size:21
Alignment explanation
Indices: 85261589--85261631 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
85261579 AATTTTATAA
*
85261589 AAAAATTATATAAAGGTAGAT
1 AAAAATGATATAAAGGTAGAT
85261610 AAAAATGATATAAA-G-AGAT
1 AAAAATGATATAAAGGTAGAT
85261629 AAA
1 AAA
85261632 GTTAGAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 1 0.05
21 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (21 bp):
AAAAATGATATAAAGGTAGAT
Found at i:85262274 original size:12 final size:12
Alignment explanation
Indices: 85262257--85262284 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
85262247 CGAGATCTTA
85262257 TTTTTCTAGAAT
1 TTTTTCTAGAAT
85262269 TTTTTCTAGAAT
1 TTTTTCTAGAAT
85262281 TTTT
1 TTTT
85262285 ATTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (12 bp):
TTTTTCTAGAAT
Found at i:85262754 original size:26 final size:22
Alignment explanation
Indices: 85262704--85262747 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
85262694 TTATAGTGTA
85262704 ACAAGTGAGAAACTTAATTAAC
1 ACAAGTGAGAAACTTAATTAAC
85262726 ACAAGTGAGAAACTTAATTAAC
1 ACAAGTGAGAAACTTAATTAAC
85262748 TGACACATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (22 bp):
ACAAGTGAGAAACTTAATTAAC
Found at i:85264451 original size:29 final size:29
Alignment explanation
Indices: 85264419--85264527 Score: 79
Period size: 32 Copynumber: 3.9 Consensus size: 29
85264409 TTTAACATTT
85264419 AATTAATTTTTAAAATTTTAAAAATAAAA
1 AATTAATTTTTAAAATTTTAAAAATAAAA
* *
85264448 AATT-ACTTTTAAAA-ATTAAAAAT----
1 AATTAATTTTTAAAATTTTAAAAATAAAA
* **
85264471 CATTAA-AATTAAAATTATTAAAAATATAAA
1 AATTAATTTTTAAAATT-TTAAAAATA-AAA
*
85264501 ATTATAATTTTTAAAATTTTTAAAAAT
1 AAT-TAATTTTTAAAA-TTTTAAAAAT
85264528 TAATTAAATG
Statistics
Matches: 59, Mismatches: 10, Indels: 19
0.67 0.11 0.22
Matches are distributed among these distances:
23 9 0.15
24 1 0.02
25 8 0.14
27 8 0.14
28 9 0.15
29 4 0.07
30 1 0.02
31 3 0.05
32 14 0.24
33 2 0.03
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (29 bp):
AATTAATTTTTAAAATTTTAAAAATAAAA
Found at i:85264480 original size:16 final size:15
Alignment explanation
Indices: 85264459--85264493 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
85264449 ATTACTTTTA
85264459 AAAATTAAAAATCATT
1 AAAATT-AAAATCATT
*
85264475 AAAATTAAAATTATT
1 AAAATTAAAATCATT
85264490 AAAA
1 AAAA
85264494 ATATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATTAAAATCATT
Found at i:85264500 original size:23 final size:25
Alignment explanation
Indices: 85264462--85264516 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
85264452 ACTTTTAAAA
85264462 ATTAAAAATCATTAAAATTAAAATT
1 ATTAAAAATCATTAAAATTAAAATT
*
85264487 ATTAAAAAT-A-TAAAATTATAATT
1 ATTAAAAATCATTAAAATTAAAATT
*
85264510 TTTAAAA
1 ATTAAAA
85264517 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 18 0.64
24 1 0.04
25 9 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTAAAAATCATTAAAATTAAAATT
Found at i:85271183 original size:30 final size:30
Alignment explanation
Indices: 85271147--85271228 Score: 155
Period size: 30 Copynumber: 2.7 Consensus size: 30
85271137 TACCACTTAA
85271147 AGATACCCTTTCGGACTCATCTAGGCAAAC
1 AGATACCCTTTCGGACTCATCTAGGCAAAC
85271177 AGATACCCTTTCGGACTCATCTAGGCAAAC
1 AGATACCCTTTCGGACTCATCTAGGCAAAC
*
85271207 AGATACCCTTTCGGTCTCATCT
1 AGATACCCTTTCGGACTCATCT
85271229 GTCTAGATAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (30 bp):
AGATACCCTTTCGGACTCATCTAGGCAAAC
Found at i:85271980 original size:15 final size:16
Alignment explanation
Indices: 85271956--85271989 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
85271946 TATTGAACTT
*
85271956 AAACATAAAA-TACTA
1 AAACAGAAAACTACTA
85271971 AAACAGAAAACTACTA
1 AAACAGAAAACTACTA
85271987 AAA
1 AAA
85271990 ACGTAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.68, C:0.15, G:0.03, T:0.15
Consensus pattern (16 bp):
AAACAGAAAACTACTA
Found at i:85275832 original size:45 final size:45
Alignment explanation
Indices: 85275749--85275834 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
85275739 TTATATGCCT
* * *
85275749 AAAATGAGTAAGACCATAGTTGAAAGATATTATGGCATCATGATA
1 AAAATGAGTAAGACCATAGCTGAAAAATACTATGGCATCATGATA
* *
85275794 AAAATGAGTAAGATCATAGCTGAAAAATGCTA-GAGCATCAT
1 AAAATGAGTAAGACCATAGCTGAAAAATACTATG-GCATCAT
85275835 ATCAAAGCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.03
45 34 0.97
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.24
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTGAAAAATACTATGGCATCATGATA
Found at i:85276484 original size:32 final size:32
Alignment explanation
Indices: 85276448--85276513 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
85276438 GAAACCCTAT
85276448 ATAGTACTGTTTTGTCATGAGAACGCAAGTTA
1 ATAGTACTGTTTTGTCATGAGAACGCAAGTTA
85276480 ATAGTACTGTTTTGTCATGAGAACGCAAGTTA
1 ATAGTACTGTTTTGTCATGAGAACGCAAGTTA
85276512 AT
1 AT
85276514 TTATAAGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (32 bp):
ATAGTACTGTTTTGTCATGAGAACGCAAGTTA
Found at i:85278822 original size:39 final size:39
Alignment explanation
Indices: 85278780--85278917 Score: 204
Period size: 39 Copynumber: 3.5 Consensus size: 39
85278770 ATTCACTTAT
* * *
85278780 AAGCATATATCACATTACACATATAATCACATAAAATTT
1 AAGCATATATCACAATACTCATATAATCACATAAAATTC
* *
85278819 AAGCATATATCACAATACTCATGTAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAAAATTC
* * *
85278858 AAGAATATATCACAATACTTATATAATCACATAATATTC
1 AAGCATATATCACAATACTCATATAATCACATAAAATTC
85278897 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
85278918 AAGACATGTT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.30
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAAAATTC
Found at i:85281708 original size:26 final size:26
Alignment explanation
Indices: 85281679--85281786 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
85281669 TGGTACAAAT
85281679 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
85281705 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
85281731 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
85281757 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85281783 TGAT
1 TGAT
85281787 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:85283491 original size:54 final size:53
Alignment explanation
Indices: 85283409--85283549 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 53
85283399 AGGAAGCGTC
85283409 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
85283463 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
85283517 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
85283550 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 7 0.08
54 76 0.92
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:85283560 original size:27 final size:27
Alignment explanation
Indices: 85283409--85283567 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
85283399 AGGAAGCGTC
*
85283409 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
85283436 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
85283463 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
85283490 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
85283517 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
85283544 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
85283568 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:85288842 original size:26 final size:26
Alignment explanation
Indices: 85288813--85288920 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
85288803 TGGTACAAAT
85288813 TGATAATAGG-TTAGGTAAATGTTCCA
1 TGATAAT-GGATTAGGTAAATGTTCCA
* *
85288839 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGATTAGGTAAATGTTCCA
*
85288865 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
85288891 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
85288917 TGAT
1 TGAT
85288921 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 2 0.03
26 73 0.97
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:85290625 original size:54 final size:53
Alignment explanation
Indices: 85290543--85290683 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 53
85290533 AGGAAGCGTC
85290543 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
85290597 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
85290651 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
85290684 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 7 0.08
54 76 0.92
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:85290694 original size:27 final size:27
Alignment explanation
Indices: 85290543--85290701 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
85290533 AGGAAGCGTC
*
85290543 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
85290570 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
85290597 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
85290624 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
85290651 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
85290678 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
85290702 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:85295874 original size:26 final size:26
Alignment explanation
Indices: 85295845--85295952 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
85295835 TGGTACAAAT
85295845 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
85295871 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85295897 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
85295923 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85295949 TGAT
1 TGAT
85295953 GGCATTTCAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:85297438 original size:26 final size:26
Alignment explanation
Indices: 85297375--85297450 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
85297365 AAAAGTAGCT
* * * *
85297375 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-GTGCA
85297403 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGGTGCA
85297429 AAATTACTGTTATACCCCTAGG
1 AAATTACTGTTATACCCCTAGG
85297451 GTTAATTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 25 0.57
27 1 0.02
28 18 0.41
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGCA
Found at i:85297636 original size:54 final size:53
Alignment explanation
Indices: 85297554--85297694 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 53
85297544 AGGAAGCGTC
85297554 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
85297608 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
85297662 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
85297695 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 7 0.08
54 76 0.92
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:85297705 original size:27 final size:27
Alignment explanation
Indices: 85297554--85297712 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
85297544 AGGAAGCGTC
*
85297554 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
85297581 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
85297608 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
85297635 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
85297662 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
85297689 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
85297713 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:85306109 original size:47 final size:46
Alignment explanation
Indices: 85305910--85306175 Score: 184
Period size: 47 Copynumber: 5.7 Consensus size: 46
85305900 GGGTTATATT
* * * *
85305910 GCCGATGCCATCTCCCAGATATGGTCTTACACTGGCTCTCATA-TACGCG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATACT--GTG
* * * * *
85305959 TGCTGATGCATGTCCCAGACATGTCTTACACTAGTA--CA-ACTCTTA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATACT-GTG
* * * * * ** *
85306004 GCCGATGCGTGTTCCAGACACGTCTTCCACTGGCTA-TCTTTGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATACT-GTG
* * *
85306051 GCCGATGCATGTCCCAGACATGTCTTACATTGGCACTCGT-CTCTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATACTGTG
*
85306096 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTGTG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATACTGTG
* *
85306145 GCTGAAGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
85306176 AGCGCACAAA
Statistics
Matches: 170, Mismatches: 37, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
44 27 0.16
45 4 0.02
46 23 0.14
47 62 0.36
48 32 0.19
49 16 0.09
50 6 0.04
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATACTGTG
Found at i:85306169 original size:94 final size:92
Alignment explanation
Indices: 85305908--85306178 Score: 289
Period size: 94 Copynumber: 2.9 Consensus size: 92
85305898 ATGGGTTATA
* * *
85305908 TTGCCGATGCCATCTCCCAGATATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTC
1 TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-CGAG-GCTGATGCATGTC
*
85305973 CCAGACATGTCTTACACTAGTACAACTCT
64 CCAGACATGTCTTACACTAGCACAACTCT
* * * * * * * * *
85306002 TAGCCGATG-CGTGTTCCAGACA-CGTCTTCCACTGGCTATCTTTGTCGAGGCCGATGCATGTCC
1 TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATATCGAGGCTGATGCATGTCC
* * *
85306065 CAGACATGTCTTACATTGGCAC-TCGTCT
65 CAGACATGTCTTACACTAGCACAAC-TCT
* *
85306093 CTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-CTGTGGCTGAAGCATGT
1 -T-TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-GAGGCTGATGCATGT
85306157 CCCAGACATGTCTTACACTAGC
63 CCCAGACATGTCTTACACTAGC
85306179 GCACAAATCA
Statistics
Matches: 141, Mismatches: 29, Indels: 14
0.77 0.16 0.08
Matches are distributed among these distances:
90 1 0.01
91 35 0.25
92 19 0.13
93 19 0.13
94 52 0.37
95 15 0.11
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (92 bp):
TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTGATGCATGTCCC
AGACATGTCTTACACTAGCACAACTCT
Found at i:85310160 original size:42 final size:43
Alignment explanation
Indices: 85310081--85310231 Score: 137
Period size: 42 Copynumber: 3.5 Consensus size: 43
85310071 TCCTGGACGT
* * * * *
85310081 GGTCTTACATGAAATTTAG-TATCGATGCCTCTGTCCCAAATAG
1 GGTCTTACACGAAATTCAGATA-CGATGCCTATGTCCCAGATAC
* * *
85310124 GGTCTTACACGAAA-TCAGATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATTCAGATACGATGCCTATGTCCCAGATAC
* * *
85310166 GGTCTTACACATAAATCTCAAAT-CGAGGCCTATGTCCCAGATAC
1 GGTCTTACAC-GAAAT-TCAGATACGATGCCTATGTCCCAGATAC
*
85310210 GGTCTTACACGATATCTCAGAT
1 GGTCTTACACGAAAT-TCAGAT
85310232 CGAGGTCAAC
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 29 0.33
43 27 0.31
44 27 0.31
45 5 0.06
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGAAATTCAGATACGATGCCTATGTCCCAGATAC
Found at i:85311444 original size:22 final size:22
Alignment explanation
Indices: 85311414--85311457 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
85311404 TTTATCACCG
*
85311414 ATTTCAAATTCTATATAA-ATTT
1 ATTTCAAA-TCCATATAAGATTT
*
85311436 ATTTTAAATCCATATAAGATTT
1 ATTTCAAATCCATATAAGATTT
85311458 TTAACGATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTCAAATCCATATAAGATTT
Found at i:85317403 original size:29 final size:29
Alignment explanation
Indices: 85317370--85317500 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
85317360 TGACGAGATC
*
85317370 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
85317399 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
85317428 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
85317457 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
85317486 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
85317501 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Done.