Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 139 of 325
Found at i:43514011 original size:50 final size:49
Alignment explanation
Indices: 43513888--43514076 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
43513878 TAGCCAAAGC
* * * * **
43513888 TATCTGGTACGCATAGTAGCCTGCACATAGTACAACACATGCAATCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCAAT
* * *
43513937 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATC-AAT
* * *
43513987 CATCTGATACACATAGTAGCCTGCACTTAGTACTACAAACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATC-AA-T
* **
43514038 TATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
43514077 TGCGACCTCA
Statistics
Matches: 116, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
49 38 0.33
50 45 0.39
51 33 0.28
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCAAT
Found at i:43514071 original size:101 final size:99
Alignment explanation
Indices: 43513889--43514076 Score: 250
Period size: 99 Copynumber: 1.9 Consensus size: 99
43513879 AGCCAAAGCT
* * * * * *
43513889 ATCTGGTACGCATAGTAGCCTGCACATAGTACAACACATGCAATCAATTATCTGGTACACGTAGT
1 ATCTGATACACATAGTAGCCTGCACATAGTACAACAAACGCAATCAATTATCGGGTACACATAGT
43513954 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGTGACCTAACC
* * ** **
43513988 ATCTGATACACATAGTAGCCTGCACTTAGTACTACAAACGTGATCGAAGTTATCGGGTATGCATA
1 ATCTGATACACATAGTAGCCTGCACATAGTACAACAAACGCAATC-AA-TTATCGGGTACACATA
43514053 GTAGCCTGCACTTAGTACTACACA
64 GTAGCCTGCACTTAGTACTACACA
43514077 TGCGACCTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
99 37 0.49
100 2 0.03
101 36 0.48
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTGCACATAGTACAACAAACGCAATCAATTATCGGGTACACATAGT
AGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:43514084 original size:101 final size:99
Alignment explanation
Indices: 43513889--43514084 Score: 248
Period size: 101 Copynumber: 2.0 Consensus size: 99
43513879 AGCCAAAGCT
* * * * * *
43513889 ATCTGGTACGCATAGTAGCCTGCACATAGTACAACACATGCAATCAATTATCTGGTACACGTAGT
1 ATCTGATACACATAGTAGCCTGCACATAGTACAACAAACGCAATCAATTATCGGGTACACATAGT
*
43513954 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACCTAACC
* * ** **
43513988 ATCTGATACACATAGTAGCCTGCACTTAGTACTACAAACGTGATCGAAGTTATCGGGTATGCATA
1 ATCTGATACACATAGTAGCCTGCACATAGTACAACAAACGCAATC-AA-TTATCGGGTACACATA
*
43514053 GTAGCCTGCACTTAGTACTACACATGCGACCT
64 GTAGCCTGCACTTAGTACTACACACGCGACCT
43514085 CATAATAGAT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 37 0.46
100 2 0.02
101 42 0.52
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTGCACATAGTACAACAAACGCAATCAATTATCGGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCTAACC
Found at i:43516931 original size:16 final size:16
Alignment explanation
Indices: 43516912--43516947 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
43516902 ATGTATGAAA
43516912 TGTGGTGAAAATGATT
1 TGTGGTGAAAATGATT
43516928 TGTGGTGAAAATGATT
1 TGTGGTGAAAATGATT
43516944 TGTG
1 TGTG
43516948 ATATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTGGTGAAAATGATT
Found at i:43522659 original size:397 final size:398
Alignment explanation
Indices: 43521864--43522663 Score: 1262
Period size: 397 Copynumber: 2.0 Consensus size: 398
43521854 AAACCACAGT
43521864 TCCAATTAGGGTCTAAATCAGGCTGTTACAACTCTCCCCCCTTAGGGATTTTCGTCCCCGAAAAT
1 TCCAATTAGGGTCTAAATCAGGCTGTTACAACTCTCCCCCCTTAGGGATTTTCGTCCCCGAAAAT
* * *
43521929 CTTACAGGTGAATAGGTTCAGATGATGTTCTTTCATTGTATCCTCTGGCTCCCATGTTTCTTCCT
66 CTTACAGATGAATAGGTTCAGATGATGTTCTTTCATTGTATCCTCTGACTCCCATGTTGCTTCCT
* ** *
43521994 CAACTCTATGCTTATGCTACAATACTTTAACTAACAGAATCTTCTTCTTCTGCAACTCTTTAACC
131 CAACTCCATGCTTATGCTACAATACTTTAACTAACAGAATCTTCTTAGTCCGCAACTCTTTAACC
* *
43522059 TCACGAGTCAAAATGCGAATCGGTTCTTCTTCATAGGTCATATCAGGCTGAATTTCAATTTCAGA
196 TCACCAGTCAAAATGCGAATCGGTTCTTCTTCATAGGTCATATCAGGCTGAATTTCAATCTCAGA
* * * * * **
43522124 CGGACTAATCACATGTGAAGGATCAAATCAATACCTTCGAAGCATTGAAATGTGGAATACATTGT
261 CAGACTAATCACATGTGAAAGATCAAAGCAATACCTCCGAAGCATCGAAACATGGAATACATTGT
* *
43522189 GTATCTTTTCTAACTCAGGTGGCAACAACAATCTGTAAACAACCGGCTCGATACGTTCTATAACC
326 GTATCTTTTCTAACTCAGGTGGAAACAACAATCTGTAAACAACCGGCTCGATACGTTCTAAAACC
*
43522254 TTATATGG
391 TCATATGG
* * * * *
43522262 TCCAATTAGGGTCTAAATCGGGCTGTTACAACTCTCTCCCTTTAGTGATTTTTGT-CCCGAAAAT
1 TCCAATTAGGGTCTAAATCAGGCTGTTACAACTCTCCCCCCTTAGGGATTTTCGTCCCCGAAAAT
* * *
43522326 CTTACCGATGAATAGGTTTAGATGATGTTCTTTCATTGTATCCTCTGACTCCTATGTTGCTTCCT
66 CTTACAGATGAATAGGTTCAGATGATGTTCTTTCATTGTATCCTCTGACTCCCATGTTGCTTCCT
*
43522391 CAACTCCATGCTTATGCTACAATACTTTAACTAAC-GTAATCTTTTTAGTCCGCAACTCTTTAAC
131 CAACTCCATGCTTATGCTACAATACTTTAACTAACAG-AATCTTCTTAGTCCGCAACTCTTTAAC
* *
43522455 CTCACCAGTCAAAATGCGAATCGGTTCTTCTTCGTAGGTCATATCAGGTTGAATTTCAATCTCAG
195 CTCACCAGTCAAAATGCGAATCGGTTCTTCTTCATAGGTCATATCAGGCTGAATTTCAATCTCAG
* * *
43522520 ATAGACTAATCACATGTGAAAGATCAGAGCAATACCTCCGAAGCATCGAAACATGGAATACTTTG
260 ACAGACTAATCACATGTGAAAGATCAAAGCAATACCTCCGAAGCATCGAAACATGGAATACATTG
* *
43522585 TGTATCTTTTCTAACTCAGGTGGAAACAATAATCTGTAAGCAACCGGCTCGATACGTTCTAAAAC
325 TGTATCTTTTCTAACTCAGGTGGAAACAACAATCTGTAAACAACCGGCTCGATACGTTCTAAAAC
43522650 CTCATATGG
390 CTCATATGG
43522659 TCCAA
1 TCCAA
43522664 CATACCTCGG
Statistics
Matches: 366, Mismatches: 35, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
396 1 0.00
397 315 0.86
398 50 0.14
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (398 bp):
TCCAATTAGGGTCTAAATCAGGCTGTTACAACTCTCCCCCCTTAGGGATTTTCGTCCCCGAAAAT
CTTACAGATGAATAGGTTCAGATGATGTTCTTTCATTGTATCCTCTGACTCCCATGTTGCTTCCT
CAACTCCATGCTTATGCTACAATACTTTAACTAACAGAATCTTCTTAGTCCGCAACTCTTTAACC
TCACCAGTCAAAATGCGAATCGGTTCTTCTTCATAGGTCATATCAGGCTGAATTTCAATCTCAGA
CAGACTAATCACATGTGAAAGATCAAAGCAATACCTCCGAAGCATCGAAACATGGAATACATTGT
GTATCTTTTCTAACTCAGGTGGAAACAACAATCTGTAAACAACCGGCTCGATACGTTCTAAAACC
TCATATGG
Found at i:43529435 original size:47 final size:47
Alignment explanation
Indices: 43529384--43529566 Score: 179
Period size: 47 Copynumber: 3.9 Consensus size: 47
43529374 GTGATTTTCA
* * * *
43529384 TATAAGACCATAGCTGGGCTATGGCATTGGTGTGATATGAGCTTCCG
1 TATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGCTTCTG
* * ** * *
43529431 TATAAGACCATATCTAGGATATGGCATCGACGTGATTTTTGCTTCTG
1 TATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGCTTCTG
* * * *
43529478 TGTAAGACCATATCTGGGATATGGCATCAGTGTGATATGTG-ATCTG
1 TATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGCTTCTG
* * * *
43529524 TGTAAGACCATGGCTGGGCTATGGCTTCGGTGTATGATATGTG
1 TATAAGACCATAGCTGGGATATGGCATCGGTG--TGATATGTG
43529567 ACTATGTGCA
Statistics
Matches: 111, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
46 31 0.28
47 71 0.64
48 9 0.08
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (47 bp):
TATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGCTTCTG
Found at i:43532528 original size:20 final size:20
Alignment explanation
Indices: 43532503--43532549 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
43532493 GTTTTGATAT
*
43532503 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGA
43532523 ACATGATATGTATGATATGA
1 ACATGATATGTATGATATGA
43532543 ACATGAT
1 ACATGAT
43532550 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGA
Found at i:43532687 original size:24 final size:24
Alignment explanation
Indices: 43532595--43532703 Score: 112
Period size: 25 Copynumber: 4.4 Consensus size: 24
43532585 GGAGGAGGTG
* *
43532595 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
* * *
43532619 CGAAAATGGCTTTTGCCTCAGTTTCT
1 C-AAAAGGGC-TTTGCCCCAGTTTAT
*
43532645 TAAAAGGGCTTTTGCCCCAGTTTAT
1 CAAAAGGGC-TTTGCCCCAGTTTAT
43532670 CAAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
43532693 TAAAAGAGGCT
1 CAAAAG-GGCT
43532704 AGGCCTCCAG
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
23 9 0.13
24 15 0.21
25 36 0.51
26 11 0.15
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:43532714 original size:49 final size:50
Alignment explanation
Indices: 43532596--43532715 Score: 138
Period size: 49 Copynumber: 2.4 Consensus size: 50
43532586 GAGGAGGTGC
* * *
43532596 AAAAGGGCTATGCCCCAGTTTACCGAAAATGGCTTTTGCCTCAGTTTCTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
* *
43532646 AAAAGGGCTTTTGCCCCAGTTTATC-AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGC-TATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
*
43532694 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTATGCC-CCAGTT
43532716 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
48 13 0.22
49 18 0.30
50 15 0.25
51 14 0.23
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
Found at i:43556830 original size:27 final size:27
Alignment explanation
Indices: 43556776--43556886 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
43556766 AGCATGGCTG
* ** *
43556776 CCAGAATAGATAA-TGTGATAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
43556802 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
43556829 CCAGAACAGAT-ATATATGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * * *
43556856 CCAGATCAGATACTTGTGGGATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
43556883 CCAG
1 CCAG
43556887 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 14 0.19
27 57 0.79
28 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:43557033 original size:26 final size:27
Alignment explanation
Indices: 43557013--43557064 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
43557003 GGTAATTTTG
43557013 TACCTAGGGGTATATCAGTAATTTCCA
1 TACCTAGGGGTATATCAGTAATTTCCA
*
43557040 TACATAGGGGTAT-TCAAGTAATTTC
1 TACCTAGGGGTATATC-AGTAATTTC
43557065 ACTATTCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (27 bp):
TACCTAGGGGTATATCAGTAATTTCCA
Found at i:43564688 original size:27 final size:27
Alignment explanation
Indices: 43564631--43564741 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
43564621 AGCATGGCTT
* ** *
43564631 CCAGAACAGATAATGA-GATAGAGTCA
1 CCAGAACAGATAATTATGGCAGAGCCA
43564657 CCAGAACAGATAATTATGGCAGAGCCA
1 CCAGAACAGATAATTATGGCAGAGCCA
*
43564684 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TATGGCAGAGCCA
* * *
43564711 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTATGGCAGAGCCA
43564738 CCAG
1 CCAG
43564742 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 17 0.23
27 56 0.75
28 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTATGGCAGAGCCA
Found at i:43564721 original size:54 final size:53
Alignment explanation
Indices: 43564631--43564741 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 53
43564621 AGCATGGCTT
* *
43564631 CCAGAACAGATAATGAGATAGAGTCACCAGAACAGATAATTATGGCAGAGCCA
1 CCAGAACAGATAATGAGACAGAGCCACCAGAACAGATAATTATGGCAGAGCCA
* * * * *
43564684 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGAGACAGAGCCACCAGAACAGATAATTATGGCAGAGCCA
43564738 CCAG
1 CCAG
43564742 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 12 0.24
54 38 0.76
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (53 bp):
CCAGAACAGATAATGAGACAGAGCCACCAGAACAGATAATTATGGCAGAGCCA
Found at i:43573056 original size:47 final size:47
Alignment explanation
Indices: 43573005--43573416 Score: 657
Period size: 47 Copynumber: 8.7 Consensus size: 47
43572995 TTAGGATTCT
* * * *
43573005 ATGTGATGGATGTGAACA-TGCATATATGAGGTAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
43573052 ATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
*
43573101 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAGGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
43573148 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43573195 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43573242 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGG-CTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43573288 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
43573335 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
43573382 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43573417 TCCCGAAGGG
Statistics
Matches: 343, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 47 0.14
47 251 0.73
49 45 0.13
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:43573342 original size:187 final size:189
Alignment explanation
Indices: 43573005--43573416 Score: 668
Period size: 187 Copynumber: 2.2 Consensus size: 189
43572995 TTAGGATTCT
* * *
43573005 ATGTGATGGATGTGAACA-TGCATATATGAGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGGATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
43573069 GTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
65 GTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
* * *
43573134 AGGCCTAAGGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
129 AGGCCTAAGGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCA
*
43573195 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
43573260 TGTATAT-ATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66 TGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * * *
43573323 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
131 GCCTAAGGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCA
* *
43573382 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAG
43573417 TCCCGAAGGG
Statistics
Matches: 207, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
187 129 0.62
188 11 0.05
189 1 0.00
190 66 0.32
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (189 bp):
ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCTAAGGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCA
Found at i:43573588 original size:37 final size:37
Alignment explanation
Indices: 43573538--43573687 Score: 255
Period size: 37 Copynumber: 4.1 Consensus size: 37
43573528 AGCTCTAAAT
43573538 ACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAG
1 ACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAG
43573575 ACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAG
1 ACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAG
*
43573612 ACCCGATGACTATGTGTGGGGATTTTGTCCGGGTAAG
1 ACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAG
* * * *
43573649 ACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAG
1 ACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAG
43573686 AC
1 AC
43573688 TTCGTAATAA
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (37 bp):
ACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAG
Found at i:43581268 original size:27 final size:27
Alignment explanation
Indices: 43581220--43581378 Score: 150
Period size: 27 Copynumber: 5.9 Consensus size: 27
43581210 GCGAGGCTGC
* *
43581220 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
43581247 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
43581273 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
** *
43581300 CAGATAATCCTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
43581327 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
43581354 CAGATAATT-TCGGCATAGCCACCAG
1 CAGAT-ATTGT-GGCAGAGCCACCAG
43581379 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
26 11 0.10
27 96 0.86
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:43581314 original size:54 final size:53
Alignment explanation
Indices: 43581238--43581378 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 53
43581228 GTGACGAAGT
* * * * *
43581238 CACCAGATATAGATATTGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
43581292 CACCAGATCAGATAATCCTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAAT-CTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
43581346 CACCAGATCAGATAATTTCGGCATAGCCACCAG
1 CACCAGATCAGATAATCT-GGCATAGCCACCAG
43581379 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
53 7 0.09
54 72 0.91
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (53 bp):
CACCAGATCAGATAATCTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:43583030 original size:26 final size:26
Alignment explanation
Indices: 43582999--43583106 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
43582989 TGAAATGCCC
*
43582999 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
43583025 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
43583051 ATCATGGAATATTTACCGAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
43583077 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
43583103 ATCA
1 ATCA
43583107 ATTTGTACCA
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:0.36, C:0.24, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:43593129 original size:24 final size:25
Alignment explanation
Indices: 43593102--43593148 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43593092 AATTTACCCC
*
43593102 TTTTTATTTT-ATTTTATTTTTATA
1 TTTTTATTTTAATTTAATTTTTATA
*
43593126 TTTTTGTTTTAATTTAATTTTTA
1 TTTTTATTTTAATTTAATTTTTA
43593149 CATGTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTTATTTTAATTTAATTTTTATA
Found at i:43596939 original size:42 final size:43
Alignment explanation
Indices: 43596845--43596969 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 43
43596835 CATACAATGC
* * *
43596845 CAAC-GTCCCAGACGTGGACTTACATGTAATCAAATATCGATG
1 CAACTGTCCTAGACGTGGTCTTACATGAAATCAAATATCGATG
*
43596887 CAACTGTCCTAGACAG-GGTCTTACACGAAATCAAAT-TCGATG
1 CAACTGTCCTAGAC-GTGGTCTTACATGAAATCAAATATCGATG
* *
43596929 CCGA-TGTCCTAGACGTGGTCTTACATGAAATCACATATCGA
1 -CAACTGTCCTAGACGTGGTCTTACATGAAATCAAATATCGA
43596970 AAATCCTATG
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 38 0.54
43 31 0.44
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (43 bp):
CAACTGTCCTAGACGTGGTCTTACATGAAATCAAATATCGATG
Found at i:43600674 original size:37 final size:37
Alignment explanation
Indices: 43600625--43600704 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
43600615 GAAATGTCTG
* *
43600625 AATCT-TTTACTCTCAACTTATAATAGCCCGATCTCA
1 AATCTATTTACTCTCAACTGATAATAGCCCAATCTCA
43600661 AATCTATTTACTCTCAACTGATAATAGCCCAATCTCA
1 AATCTATTTACTCTCAACTGATAATAGCCCAATCTCA
43600698 AATCTAT
1 AATCTAT
43600705 CTTTGAAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 5 0.12
37 36 0.88
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (37 bp):
AATCTATTTACTCTCAACTGATAATAGCCCAATCTCA
Found at i:43604546 original size:43 final size:44
Alignment explanation
Indices: 43604485--43604636 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 44
43604475 TCTCATATGT
* * * *
43604485 GGTCTTACATGTAATCAAATATCGATGTC-ACTATCCCAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCAACTGTCCCAGACAG
* *
43604528 GGTCTTACACGAAATCAAATA-CGATGCCGA-TGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCAACTGTCCCAGACAG
43604570 GGTCTTACACGTAAATCATAAGT-T-GATGCCAAC-GTCCCAGAC-G
1 GGTCTTACACG-AAATCA-AA-TATCGATGCCAACTGTCCCAGACAG
*
43604613 TGGTCTTACACGAAATCACATATC
1 -GGTCTTACACGAAATCAAATATC
43604637 CAAAATCCTA
Statistics
Matches: 92, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
41 1 0.01
42 29 0.32
43 32 0.35
44 29 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
GGTCTTACACGAAATCAAATATCGATGCCAACTGTCCCAGACAG
Found at i:43604610 original size:44 final size:42
Alignment explanation
Indices: 43604461--43604630 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 42
43604451 TGGAAAGCTC
* * * ** * *
43604461 ATACAATGCCAACGTCTCATATGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATCAA
* * *
43604503 ATATCGATGTC-ACTATCCCAGACAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAA
* *
43604546 ATACGATGCCGATGTCCCAGACATGGTCTTACACGTAAATCATA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-A
* *
43604590 AGT-TGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCA
1 A-TACGATGCCAACGTCCCAGACATGGTCTTACACGAAATCA
43604631 CATATCCAAA
Statistics
Matches: 104, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
42 31 0.30
43 42 0.40
44 30 0.29
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:43606206 original size:22 final size:22
Alignment explanation
Indices: 43606178--43606220 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
43606168 CACTAAGTCA
*
43606178 ACAGAACAGCTCAAGGCCATAG
1 ACAGAACAGCTAAAGGCCATAG
*
43606200 ACAGAACGGCTAAAGGCCATA
1 ACAGAACAGCTAAAGGCCATA
43606221 AATATCACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.23, T:0.09
Consensus pattern (22 bp):
ACAGAACAGCTAAAGGCCATAG
Found at i:43606512 original size:27 final size:27
Alignment explanation
Indices: 43606455--43606512 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
43606445 AGCATAATCG
* *
43606455 TCATTCTACCATATAGGGGTATTATGC
1 TCATTCTACCATATAGGGGTATTACGA
* *
43606482 TCATTTTACCCTATAGGGGTATTACGA
1 TCATTCTACCATATAGGGGTATTACGA
43606509 TCAT
1 TCAT
43606513 AATACAACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
TCATTCTACCATATAGGGGTATTACGA
Found at i:43608109 original size:23 final size:23
Alignment explanation
Indices: 43608083--43608129 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
43608073 AAACTCTCCA
43608083 TCACTAGTGTTTAAACCCAACAC
1 TCACTAGTGTTTAAACCCAACAC
43608106 TCACTAGTGTTTAAACCCAACAC
1 TCACTAGTGTTTAAACCCAACAC
43608129 T
1 T
43608130 AACTTGTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.28
Consensus pattern (23 bp):
TCACTAGTGTTTAAACCCAACAC
Found at i:43621119 original size:47 final size:49
Alignment explanation
Indices: 43621048--43621179 Score: 153
Period size: 49 Copynumber: 2.7 Consensus size: 49
43621038 AGGGTATAAT
* * * * **
43621048 GCCGATGCCAGGTCCTAAACATGGTATTACACTGGCTCA-T-CCATC-AA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACT-ATTGAAATCGAA
* * *
43621095 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATTGAAATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTATTGAAATCGAA
43621144 GCCGATGCCATGTCCCAAACATGGTCTTACACTGAC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGAC
43621180 ACATCTCATA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
46 1 0.01
47 32 0.45
48 3 0.04
49 35 0.49
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTATTGAAATCGAA
Found at i:43621247 original size:46 final size:45
Alignment explanation
Indices: 43621048--43621360 Score: 179
Period size: 46 Copynumber: 6.7 Consensus size: 45
43621038 AGGGTATAAT
* * * *
43621048 GCCGATGCCAGGTCCTAAACATGGTATTACACTGGC-T-CATCCATCAA
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACAT-C-TCGA
* * * ** **
43621095 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATTGAAATCGA
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACATCTCGA
* *
43621143 GGCCGATGCCATGTCCCAAACATGGTCTTACACTGAC--ACATCTCATA
1 -GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACATCTC-GA
* *
43621190 GCCAATGCATGTCCCAAACATGTCTCACACTGGCTTACATCTCGA
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGA
* * * *
43621235 GCCCGATGCATGTCCCAAACATGTCTTACACTAGCTTTCGTCTCAA
1 G-CCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGA
* * * * * *
43621281 TGCCAATGCCATGTCCCAGACATGGTCTTACATTGTCTCTTATAATGT-G-
1 -GCCGATG-CATGTCCCAAACAT-GTCTTACACTG--GCTTA-CATCTCGA
* *
43621330 GCTGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
43621361 AGCACACAAA
Statistics
Matches: 212, Mismatches: 40, Indels: 29
0.75 0.14 0.10
Matches are distributed among these distances:
44 11 0.05
45 16 0.08
46 68 0.32
47 59 0.28
48 17 0.08
49 35 0.17
50 4 0.02
51 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGA
Found at i:43621986 original size:38 final size:38
Alignment explanation
Indices: 43621935--43622010 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
43621925 GTTTATTTCA
*
43621935 CAACCATAACTCATATTTTTCCATAAAATTTTAGAAAT
1 CAACCATAACTCATATTTTTCCATAAAATTTCAGAAAT
**
43621973 CAACCATAACTCATATTTTTCTGTAAAATTTCAGAAAT
1 CAACCATAACTCATATTTTTCCATAAAATTTCAGAAAT
43622011 AAACATGTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (38 bp):
CAACCATAACTCATATTTTTCCATAAAATTTCAGAAAT
Found at i:43625869 original size:39 final size:39
Alignment explanation
Indices: 43625811--43625900 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 39
43625801 CAATCTCTAC
* *
43625811 ACACTTTATCAACTGTCAAATGCCTGCCTAACGGGTTTT
1 ACACTTTATCAACTATCAAATGCCTGCCTAACGAGTTTT
*
43625850 ACACTTTATCAATTATCAAATGCCTGCCTAACGAGTTTT
1 ACACTTTATCAACTATCAAATGCCTGCCTAACGAGTTTT
43625889 ACACTTTTATCA
1 ACAC-TTTATCA
43625901 CAAATTCGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 40 0.85
40 7 0.15
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (39 bp):
ACACTTTATCAACTATCAAATGCCTGCCTAACGAGTTTT
Found at i:43636040 original size:40 final size:40
Alignment explanation
Indices: 43636007--43636118 Score: 188
Period size: 40 Copynumber: 2.8 Consensus size: 40
43635997 ATAGCAATTC
**
43636007 GCACAAATGCCTTTGGGTTTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTTGGGACTTAGCCCGGATATAGTCACTA
*
43636047 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTTGGGACTTAGCCCGGATATAGTCACTA
*
43636087 GCACAAATGCCTTTGGGACTTCGCCCGGATAT
1 GCACAAATGCCTTTGGGACTTAGCCCGGATAT
43636119 CATCCGAATA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTTGGGACTTAGCCCGGATATAGTCACTA
Found at i:43644087 original size:40 final size:40
Alignment explanation
Indices: 43644012--43644236 Score: 294
Period size: 40 Copynumber: 5.6 Consensus size: 40
43644002 AACCCAAGTA
* * *
43644012 CCTTCGGGATTTAG-CCGGATATAG-CAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
43644051 CCTTCGGGTCTTAGCCCGGATATAGTCACTATCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43644091 CCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
* *
43644134 CCTTCGGGACTTCGCCCGGATATAGACACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43644174 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43644214 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
43644237 CATCTGAATA
Statistics
Matches: 164, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 13 0.08
40 114 0.70
41 1 0.01
43 35 0.21
44 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:43644132 original size:83 final size:82
Alignment explanation
Indices: 43644012--43644236 Score: 318
Period size: 83 Copynumber: 2.8 Consensus size: 82
43644002 AACCCAAGTA
* *
43644012 CCTTCGGGATTTAG-CCGGATATAGCAA-T-TCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTATCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
* *
43644074 AGTCACTATCACAAATG
66 AGACACTAGCACAAATG
* *
43644091 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGCAACTA-TCGCACAAATGCCTTCGGGACTTAGCCCGGATA
43644156 TAGACACTAGCACAAATG
65 TAGACACTAGCACAAATG
* *
43644174 CCTTCAGGACTTAGCCCGGATATAGTC-ACTA--GCACAAATGCCTTCGAGACTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTATCGCACAAATGCCTTCGGGACTTAGCCCGGATA
43644236 T
65 T
43644237 CATCTGAATA
Statistics
Matches: 131, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
79 13 0.10
80 42 0.32
81 1 0.01
83 74 0.56
84 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTATCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
AGACACTAGCACAAATG
Found at i:43652104 original size:27 final size:27
Alignment explanation
Indices: 43652074--43652271 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
43652064 TACTGAAATG
** * *
43652074 CCCTCGATTTGTAGAATTATCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * * *
43652101 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
*
43652128 CCCTTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
43652155 CCCTCAATTTATAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
43652182 CCCTCAATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
43652209 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
43652236 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
43652263 CCCTCGATT
1 CCCTCGATT
43652272 GTGAAATTAC
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 148 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:43652192 original size:81 final size:81
Alignment explanation
Indices: 43652074--43652267 Score: 280
Period size: 81 Copynumber: 2.4 Consensus size: 81
43652064 TACTGAAATG
* * * * * * * *
43652074 CCCTCGATTTGTAGAATTATCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTTGATTTA
1 CCCTCAATTTATAAAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTCACCCTCGATTTA
43652139 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
*
43652155 CCCTCAATTTATAAAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCAATTTATAAAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTCACCCTCGATTTA
43652220 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * *
43652236 CCCTCAGTTTACAAAATTACCGTTTTACCCTC
1 CCCTCAATTTATAAAATTACCATTTTACCCTC
43652268 GATTGTGAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 101 1.00
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (81 bp):
CCCTCAATTTATAAAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:43652333 original size:27 final size:28
Alignment explanation
Indices: 43652303--43652440 Score: 131
Period size: 27 Copynumber: 5.1 Consensus size: 28
43652293 TGTAGGATAG
43652303 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTCAGTTTGTAA
* * * *
43652330 AATTATCAAAATACCACT-GGTTTGTGA
1 AATTACCAAAATACCCCTCAGTTTGTAA
** *
43652357 AATTACTGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCTCAGTTTGTAA
**
43652384 AATTACCAAAATACCCCTCA-TTTACAA
1 AATTACCAAAATACCCCTCAGTTTGTAA
* * * *
43652411 AATTACAAAAATACCCTTCACTTTTTAA
1 AATTACCAAAATACCCCTCAGTTTGTAA
43652439 AA
1 AA
43652441 ATTATAGAAA
Statistics
Matches: 89, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
26 3 0.03
27 73 0.82
28 13 0.15
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (28 bp):
AATTACCAAAATACCCCTCAGTTTGTAA
Found at i:43652413 original size:81 final size:81
Alignment explanation
Indices: 43652270--43652425 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 81
43652260 TTACCCTCGA
** * **
43652270 TTGTGAAATTACTGAAATACCTCTGTAGGATAGAATTACCAAAATACCCCTAGTTTGTAAAATTA
1 TTGTGAAATTACTGAAATACCTCAATAGGATAAAATTACCAAAATACCCCTAGTTTACAAAATTA
43652335 TC-AAAATACCACTGGT
66 -CAAAAATACCACTGGT
**
43652351 TTGTGAAATTACTGAAATACCCTCAATTTG-TAAAATTACCAAAATACCCCTCA-TTTACAAAAT
1 TTGTGAAATTACTGAAATA-CCTCAATAGGATAAAATTACCAAAATACCCCT-AGTTTACAAAAT
43652414 TACAAAAATACC
64 TACAAAAATACC
43652426 CTTCACTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
80 1 0.02
81 57 0.88
82 7 0.11
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (81 bp):
TTGTGAAATTACTGAAATACCTCAATAGGATAAAATTACCAAAATACCCCTAGTTTACAAAATTA
CAAAAATACCACTGGT
Found at i:43652414 original size:54 final size:53
Alignment explanation
Indices: 43652323--43652483 Score: 160
Period size: 54 Copynumber: 2.9 Consensus size: 53
43652313 ATACCCCTAG
***
43652323 TTTGTAAAATTATCAAAATACCACTGGTTTGTGAAATTACTGAAATACCCTCAA
1 TTTGTAAAATTA-CAAAATACCACTGGTTTACAAAATTACTGAAATACCCTCAA
* ** ** *
43652377 TTTGTAAAATTACCAAAATACCCCTCATTTACAAAATTACAAAAATACCCTTCAC
1 TTTGTAAAATTA-CAAAATACCACTGGTTTACAAAATTACTGAAATACCC-TCAA
* * * *
43652432 TTTTTAAAAATTATAGAAATACCATTGGTTTACAAAACTACTGAAATACCCT
1 TTTGT-AAAATTACA-AAATACCACTGGTTTACAAAATTACTGAAATACCCT
43652484 TGGTTTGTAG
Statistics
Matches: 85, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
54 41 0.48
55 9 0.11
56 35 0.41
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (53 bp):
TTTGTAAAATTACAAAATACCACTGGTTTACAAAATTACTGAAATACCCTCAA
Found at i:43652491 original size:110 final size:108
Alignment explanation
Indices: 43652303--43652509 Score: 245
Period size: 110 Copynumber: 1.9 Consensus size: 108
43652293 TGTAGGATAG
* * *** *
43652303 AATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCACTGGTTTGTGAAATTACTGAAA
1 AATTACAAAAATACCCCTACTTTGTAAAATTATCAAAATACCACTGGTTTACAAAACTACTGAAA
*
43652368 TACCCTCAATTTGTAAAATTACCAAAATACCCCTCATTTACAA
66 TACCCTCAATTTGTAAAATTACCAAAACACCCCTCATTTACAA
* * *
43652411 AATTACAAAAATACCCTTCACTTTTTAAAAATTAT-AGAAATACCATTGGTTTACAAAACTACTG
1 AATTACAAAAATACCCCT-ACTTTGT-AAAATTATCA-AAATACCACTGGTTTACAAAACTACTG
*** * *
43652475 AAATACCCTTGGTTTGTAGATTTACCAAAACACCC
63 AAATACCCTCAATTTGTAAAATTACCAAAACACCC
43652510 TTGTAGGATG
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
108 16 0.20
109 6 0.07
110 59 0.73
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (108 bp):
AATTACAAAAATACCCCTACTTTGTAAAATTATCAAAATACCACTGGTTTACAAAACTACTGAAA
TACCCTCAATTTGTAAAATTACCAAAACACCCCTCATTTACAA
Found at i:43653571 original size:42 final size:42
Alignment explanation
Indices: 43653512--43653603 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
43653502 TAGTCTCCCC
* *
43653512 AAATGGGCTTGCATACATTCATTGACATTACATGCGATATTG
1 AAATGGGCTTGCATACATCCATTGACATCACATGCGATATTG
*
43653554 AAATGGGCTTGCATACATCCATTGACATCACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATCACATGCGATATTG
43653596 AAATGGGC
1 AAATGGGC
43653604 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATCACATGCGATATTG
Found at i:43653662 original size:31 final size:31
Alignment explanation
Indices: 43653627--43653710 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
43653617 CGTTTACAGT
*
43653627 AAAGGCTTCGGCCCTGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
43653658 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
43653689 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
43653711 TTAAGACTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:43656516 original size:53 final size:53
Alignment explanation
Indices: 43656436--43656540 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
43656426 ATAAACTACG
* ** * *
43656436 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGAAATAGTGAGTTC
1 ATAAGGCAAAGATACCACATAAGACCATGCCAAGACATGGAAATAGTAAGTTC
* * *
43656489 ATAAGGCAAGGATACCACATAAGACCATGTCAAGACATGGCAATAGTAAGTT
1 ATAAGGCAAAGATACCACATAAGACCATGCCAAGACATGGAAATAGTAAGTT
43656541 TAAAAAAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACATAAGACCATGCCAAGACATGGAAATAGTAAGTTC
Found at i:43658104 original size:28 final size:29
Alignment explanation
Indices: 43658064--43658169 Score: 119
Period size: 28 Copynumber: 3.8 Consensus size: 29
43658054 TGTAAATCTT
*
43658064 ATCTAGGCCTAAT-GGCAATATGAATGTG
1 ATCTAGGCCTAATGGGCCATATGAATGTG
* *
43658092 ATCTAGGCCTAATGGGCCACATAAATGTG
1 ATCTAGGCCTAATGGGCCATATGAATGTG
* * *
43658121 AT-TGGGCCTAATGGGCCATATGAAAGAG
1 ATCTAGGCCTAATGGGCCATATGAATGTG
* *
43658149 A-CTGGGCCTAGTGGGCCATAT
1 ATCTAGGCCTAATGGGCCATAT
43658170 ACAGGTATGT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
28 53 0.79
29 14 0.21
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (29 bp):
ATCTAGGCCTAATGGGCCATATGAATGTG
Found at i:43662402 original size:16 final size:16
Alignment explanation
Indices: 43662373--43662417 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
43662363 TGACAAAAGC
* *
43662373 CGAAAAGACGAAATAA
1 CGAAAAGCCAAAATAA
* *
43662389 TGAAAAGCCAAAATAC
1 CGAAAAGCCAAAATAA
43662405 CGAAAAGCCAAAA
1 CGAAAAGCCAAAA
43662418 GCTTGGCTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.60, C:0.18, G:0.16, T:0.07
Consensus pattern (16 bp):
CGAAAAGCCAAAATAA
Found at i:43662673 original size:28 final size:28
Alignment explanation
Indices: 43662631--43662717 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
43662621 AGCATAACTG
43662631 TAAATGTGATTTGGGCCTAAT-GGCCATA
1 TAAATGTGA-TTGGGCCTAATGGGCCATA
*
43662659 TGAATGTGATCTGGGCCTAATGGGCCATA
1 TAAATGTGAT-TGGGCCTAATGGGCCATA
* * * *
43662688 TAAAAGAGATTGGGCCTAGTGGGCTATA
1 TAAATGTGATTGGGCCTAATGGGCCATA
43662716 TA
1 TA
43662718 CAGGTATGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
27 1 0.02
28 36 0.71
29 14 0.27
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
TAAATGTGATTGGGCCTAATGGGCCATA
Found at i:43664974 original size:15 final size:15
Alignment explanation
Indices: 43664956--43664985 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43664946 TATGAATAGG
43664956 TATATTTAATTTAGT
1 TATATTTAATTTAGT
43664971 TATATTTAATTTAGT
1 TATATTTAATTTAGT
43664986 GATTTGTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TATATTTAATTTAGT
Found at i:43669341 original size:16 final size:16
Alignment explanation
Indices: 43669317--43669353 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
43669307 TTTAAAAAGG
*
43669317 AAAACAAATGAATCTT
1 AAAAAAAATGAATCTT
*
43669333 AAAAAAAATGAGTCTT
1 AAAAAAAATGAATCTT
43669349 AAAAA
1 AAAAA
43669354 CTTAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAAAAATGAATCTT
Found at i:43679820 original size:53 final size:53
Alignment explanation
Indices: 43679641--43679844 Score: 140
Period size: 53 Copynumber: 3.8 Consensus size: 53
43679631 AGGGTTTAAG
* * * * * * *
43679641 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTAGAAGGCAAG
1 GATACCACGTAAAACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * * * * * * * *
43679695 GA-ATTCATGTAAGACCATGTCACGACAAGGCATTGATAAACTACGATAAGGCAAA
1 GATA-CCACGTAAAACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAA
* * * * * *
43679750 GATCCCATGTAAAACCATGCCAAGGCTTGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCACGTAAAACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
* *
43679803 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCACGTAAAACCATGCCAAGACATGGCAATGGTAAGTT
43679845 TAAAAAGGAA
Statistics
Matches: 113, Mismatches: 33, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
53 45 0.40
54 32 0.28
55 36 0.32
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (53 bp):
GATACCACGTAAAACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:43691125 original size:41 final size:40
Alignment explanation
Indices: 43691025--43691126 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
43691015 GGGTTTAAAT
* * *
43691025 CTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAA
1 CTGAGCTTGGTCTCGAAGGGCCTTCGAGCCAATGTCATAA
* * * * *
43691065 CTGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCATAA
1 CTGAGCTTGGTCTCGAAGGGCCTTCGAGCCAATGTCATAA
*
43691105 TTCGAGCTTGGTCTCGAAGGGC
1 CT-GAGCTTGGTCTCGAAGGGC
43691127 TTTTTGAGTC
Statistics
Matches: 48, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
40 33 0.69
41 15 0.31
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CTGAGCTTGGTCTCGAAGGGCCTTCGAGCCAATGTCATAA
Found at i:43699263 original size:41 final size:41
Alignment explanation
Indices: 43699206--43699355 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
43699196 TCAGGGTTTA
43699206 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
43699247 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCTGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
43699288 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
43699328 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
43699356 TGATTCACCG
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:43712045 original size:18 final size:18
Alignment explanation
Indices: 43712019--43712054 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
43712009 CCTTTCAGGA
*
43712019 GTTTGGTGTTTTCTTTAT
1 GTTTGGTGTATTCTTTAT
*
43712037 GTTTTGTGTATTCTTTAT
1 GTTTGGTGTATTCTTTAT
43712055 TCTTCTGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.06, G:0.19, T:0.67
Consensus pattern (18 bp):
GTTTGGTGTATTCTTTAT
Found at i:43715462 original size:17 final size:17
Alignment explanation
Indices: 43715440--43715477 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
43715430 AGGACTAACG
43715440 TAGCATATGTGAGAGTC
1 TAGCATATGTGAGAGTC
*
43715457 TAGCATGTGTGAGAGTC
1 TAGCATATGTGAGAGTC
43715474 TAGC
1 TAGC
43715478 TATACATATT
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:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (17 bp):
TAGCATATGTGAGAGTC
Found at i:43720943 original size:41 final size:44
Alignment explanation
Indices: 43720864--43720951 Score: 137
Period size: 41 Copynumber: 2.1 Consensus size: 44
43720854 AAATAAAAAA
* *
43720864 TTTCATAAAATCCCAAAAATATTTTTTTGTTTTTGTTTTTAATT
1 TTTCATAAAATCCCAAAAATATTTTTCTGTCTTTGTTTTTAATT
43720908 TTTCA-AAAAT-CCAAAAATATTTTTCT-TCTTTGTTTTTAATT
1 TTTCATAAAATCCCAAAAATATTTTTCTGTCTTTGTTTTTAATT
43720949 TTT
1 TTT
43720952 GTTATTGCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
41 17 0.40
42 15 0.36
43 5 0.12
44 5 0.12
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (44 bp):
TTTCATAAAATCCCAAAAATATTTTTCTGTCTTTGTTTTTAATT
Found at i:43722931 original size:33 final size:36
Alignment explanation
Indices: 43722890--43722969 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 36
43722880 TTTTAGGGTT
43722890 TTTATTTTT-C-TCT-TCTTCTGCCTTAGATTAGAG
1 TTTATTTTTGCATCTATCTTCTGCCTTAGATTAGAG
*
43722923 TTTATTTTTATGCATTTATCTTCTGCCTTAGATTAGAG
1 TTTA-TTTT-TGCATCTATCTTCTGCCTTAGATTAGAG
43722961 TTTATTTTT
1 TTTATTTTT
43722970 ATGCATTTAC
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
33 4 0.10
34 4 0.10
35 1 0.02
36 2 0.05
37 6 0.15
38 24 0.59
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.57
Consensus pattern (36 bp):
TTTATTTTTGCATCTATCTTCTGCCTTAGATTAGAG
Found at i:43722947 original size:38 final size:38
Alignment explanation
Indices: 43722903--43722983 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
43722893 ATTTTTCTCT
43722903 TCTTCTGCCTTAGATTAGAGTTTATTTTTATGCATTTA
1 TCTTCTGCCTTAGATTAGAGTTTATTTTTATGCATTTA
43722941 TCTTCTGCCTTAGATTAGAGTTTATTTTTATGCATTTA
1 TCTTCTGCCTTAGATTAGAGTTTATTTTTATGCATTTA
43722979 -CTTCT
1 TCTTCT
43722984 TGTTCTTGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 5 0.12
38 38 0.88
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (38 bp):
TCTTCTGCCTTAGATTAGAGTTTATTTTTATGCATTTA
Found at i:43726438 original size:18 final size:17
Alignment explanation
Indices: 43726409--43726471 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
43726399 AACAGAATGA
43726409 GAAAAAGAAAAATGAAATT
1 GAAAAAG-AAAA-GAAATT
43726428 GAAAAAGAAAA-AGAATT
1 GAAAAAGAAAAGA-AATT
* *
43726445 TAACCAAGAAAAGAAAATT
1 GAA-AAAGAAAAG-AAATT
43726464 GAAAAAGA
1 GAAAAAGA
43726472 GATTGAGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 1 0.03
17 6 0.17
18 15 0.42
19 13 0.36
20 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.16, T:0.13
Consensus pattern (17 bp):
GAAAAAGAAAAGAAATT
Found at i:43735873 original size:29 final size:29
Alignment explanation
Indices: 43735828--43735928 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
43735818 CATGAAATTG
43735828 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* *
43735857 GCACTAAGTGTGTGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * *
43735886 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
43735914 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
43735929 ACTTACTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 19 0.30
29 44 0.70
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:43737196 original size:12 final size:12
Alignment explanation
Indices: 43737179--43737207 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
43737169 ACAATAAGAA
43737179 CATTCAAATATT
1 CATTCAAATATT
43737191 CATTCAAATATT
1 CATTCAAATATT
43737203 -ATTCA
1 CATTCA
43737208 TCATTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (12 bp):
CATTCAAATATT
Found at i:43743820 original size:68 final size:66
Alignment explanation
Indices: 43743606--43743820 Score: 183
Period size: 64 Copynumber: 3.3 Consensus size: 66
43743596 CCTCATTTTG
* * ** * * * * *
43743606 GCTCTCTTGTACACATGGTGAACACTTACTACCACCCATGTGACCTAGC--CAGCTTA-TCTCGT
1 GCTCTCTTGTACACATGGTGTACACATGGTAACACCCATGCGACCTAGCTACATCATATTCTCAT
43743668 A
66 A
* * *
43743669 GCTCTCTTGT-CTACATGGTGTCCTTCACCTGG-AACCACGCATGCGACCTAGCTACAT-ATA-T
1 GCTCTCTTGTAC-ACATGGTG---TACACATGGTAA-CACCCATGCGACCTAGCTACATCATATT
*
43743730 CCCATA
61 CTCATA
**
43743736 GCTCTCTTGTTTACATGGTGTACACATGGTAACACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTACACATGGTGTACACATGGTAACACCCATGCGACCTAGCTACATCAT-AT-TCTC
43743801 ATA
64 ATA
43743804 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
43743821 ATGTGCACTC
Statistics
Matches: 120, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
62 1 0.01
63 18 0.15
64 28 0.23
65 5 0.04
66 20 0.17
67 25 0.21
68 23 0.19
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (66 bp):
GCTCTCTTGTACACATGGTGTACACATGGTAACACCCATGCGACCTAGCTACATCATATTCTCAT
A
Found at i:43752171 original size:34 final size:34
Alignment explanation
Indices: 43752125--43752209 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
43752115 TATTGTACTA
* *
43752125 AAATGGGCTAAGGCCCATACTAATACTGCTACTG
1 AAATGGGCTAAGGCCCACACTAATACTGCAACTG
* * * *
43752159 TATTGGGCTAAGGCCCACACTGATATTGCAACTG
1 AAATGGGCTAAGGCCCACACTAATACTGCAACTG
*
43752193 AAATGGGCTTAGGCCCA
1 AAATGGGCTAAGGCCCA
43752210 GACTGTTCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (34 bp):
AAATGGGCTAAGGCCCACACTAATACTGCAACTG
Found at i:43757930 original size:21 final size:23
Alignment explanation
Indices: 43757890--43757931 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
43757880 TAGAAAAATT
*
43757890 TTGGTTTCTTCTTGAATAAACCC
1 TTGGTTTCTACTTGAATAAACCC
43757913 TTGGTTTCTAC-T-AATAAAC
1 TTGGTTTCTACTTGAATAAAC
43757932 TCTGAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (23 bp):
TTGGTTTCTACTTGAATAAACCC
Found at i:43775902 original size:31 final size:31
Alignment explanation
Indices: 43775859--43775935 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
43775849 TAACGGTTAC
*
43775859 TGGGCTGAAGCCTTTTCATAAATCATATCACT
1 TGGGCCGAAGCCTTTTCATAAATCATATCA-T
43775891 T-GGCCGAAGCCTTTTCATAAATCATATCAT
1 TGGGCCGAAGCCTTTTCATAAATCATATCAT
43775921 TGGGCCGAAGCCTTT
1 TGGGCCGAAGCCTTT
43775936 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
30 2 0.05
31 40 0.93
32 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTTCATAAATCATATCAT
Found at i:43776225 original size:26 final size:26
Alignment explanation
Indices: 43776141--43776302 Score: 251
Period size: 26 Copynumber: 6.3 Consensus size: 26
43776131 TTGGAGGCCT
43776141 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
43776165 AGCCCTTTTCAGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
43776190 AGCCCTTTTCGATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
43776216 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
43776242 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
43776268 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
43776294 AGCCCTTTT
1 AGCCCTTTT
43776303 GCACTTCCTC
Statistics
Matches: 127, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 5 0.04
24 6 0.05
25 33 0.26
26 83 0.65
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:43777200 original size:27 final size:27
Alignment explanation
Indices: 43777105--43777191 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
43777095 TATTCGTCAT
* * *
43777105 TTTACCATACAGGGG-TATTACAGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
43777132 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
*
43777159 TTTACCCTACAGGGGCTTTACGGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
43777186 TTTACC
1 TTTACC
43777192 TAATAGGGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:43777275 original size:27 final size:27
Alignment explanation
Indices: 43777230--43777580 Score: 237
Period size: 27 Copynumber: 13.0 Consensus size: 27
43777220 TACAATGGTG
* * *
43777230 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
** ** * **
43777257 TTTCAGTAATTTTGTAAACCAATAGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
*** *
43777284 TTTCCATAATTTTTAGAAAGTCAAGGGTA
1 TTTTGGTAA-TTTTACAAA-TCAAGGGTA
* ** *
43777313 TTTCT-GTAACTTTGTAAATCAGGGGTA
1 TTT-TGGTAATTTTACAAATCAAGGGTA
**
43777340 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
** * *
43777367 TTTCAGTAATTTCACAAA-CTAGTGGTA
1 TTTTGGTAATTTTACAAATCAAG-GGTA
*
43777394 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
**
43777421 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* *
43777448 TTTCGGTAATTTTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* * *
43777475 TTTTAGTAATTTTACAGA-CTA-GGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
** *
43777500 TTTTGGTAATTTTACTGATCGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
**
43777527 TTTTGGTAATTTTGTAAA-CTAAGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
* ** *
43777554 TTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
43777581 AAACAGTAAT
Statistics
Matches: 255, Mismatches: 58, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
25 20 0.08
26 8 0.03
27 200 0.78
28 15 0.06
29 12 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAAGGGTA
Found at i:43777394 original size:54 final size:54
Alignment explanation
Indices: 43777335--43777580 Score: 275
Period size: 54 Copynumber: 4.6 Consensus size: 54
43777325 TGTAAATCAG
* * *
43777335 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACT-A
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACTAA
* * * *
43777388 GTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTAGTAATTTTACAAACTAA
* * * *
43777443 GGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAGACT-A
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACTAA
** * **
43777496 -GGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACTAA
* **
43777549 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTA
43777581 AAACAGTAAT
Statistics
Matches: 162, Mismatches: 25, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
52 42 0.26
53 4 0.02
54 112 0.69
55 4 0.02
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACTAA
Found at i:43777427 original size:81 final size:80
Alignment explanation
Indices: 43777333--43777566 Score: 328
Period size: 81 Copynumber: 2.9 Consensus size: 80
43777323 TTTGTAAATC
* *
43777333 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACTAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACTAG-GGTATTTT
*
43777398 GGTAATTTTACAAACT
65 AGTAATTTTACAAACT
*
43777414 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAA-CTAGGGTATTTT
*
43777479 AGTAATTTTACAGACT
65 AGTAATTTTACAAACT
** * * **
43777495 A--GGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACT-AGGGTATTTT
43777558 AGTAATTTT
65 AGTAATTTT
43777567 GTAAATCGAG
Statistics
Matches: 139, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 62 0.45
81 73 0.53
82 3 0.02
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACTAGGGTATTTTA
GTAATTTTACAAACT
Found at i:43777588 original size:27 final size:27
Alignment explanation
Indices: 43777557--43777688 Score: 156
Period size: 27 Copynumber: 4.9 Consensus size: 27
43777547 AAGGGTATTT
* * *
43777557 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCAAGGGTAAAA
* *
43777584 CAGTAATTCTATAAATTAAGGGTAAAA
1 TAGTAATTCTATAAATCAAGGGTAAAA
* *
43777611 TAATAATTCCATAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCAAGGGTAAAA
* *
43777638 TGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCAAGGGTAAAA
* * *
43777665 TGGTGATTCTATAAATTAAGGGTA
1 TAGTAATTCTATAAATCAAGGGTA
43777689 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (27 bp):
TAGTAATTCTATAAATCAAGGGTAAAA
Found at i:43780004 original size:31 final size:31
Alignment explanation
Indices: 43779961--43780039 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
43779951 TTTAACGGTT
*
43779961 ACTGGGCTGAAGCCTTTCCATAAATCATATC
1 ACTGGGCCGAAGCCTTTCCATAAATCATATC
* *
43779992 ACTGGGCCGAAGCCTTTTCGTAAATCATATC
1 ACTGGGCCGAAGCCTTTCCATAAATCATATC
*
43780023 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
43780040 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTCCATAAATCATATC
Found at i:43780287 original size:25 final size:25
Alignment explanation
Indices: 43780250--43780380 Score: 135
Period size: 26 Copynumber: 5.2 Consensus size: 25
43780240 GGCCTAACCT
43780250 CTTTT-AAT-AACTGGGACA-AAGCC
1 CTTTTCAATAAACTGGG-CATAAGCC
**
43780273 CTTTTCCGTAAACTGAGGCA-AAGCC
1 CTTTTCAATAAACTG-GGCATAAGCC
*
43780298 CTTTTCAATAAATTGGAGCATAAGCC
1 CTTTTCAATAAACTGG-GCATAAGCC
*
43780324 CTTTTCGATAAACTAGGGCATAAGCC
1 CTTTTCAATAAACT-GGGCATAAGCC
* *
43780350 ATTTTCAATAAACTGGGGCAGAAGCC
1 CTTTTCAATAAACT-GGGCATAAGCC
43780376 CTTTT
1 CTTTT
43780381 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
23 5 0.06
24 2 0.02
25 27 0.30
26 54 0.60
27 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (25 bp):
CTTTTCAATAAACTGGGCATAAGCC
Found at i:43780375 original size:52 final size:50
Alignment explanation
Indices: 43780251--43780380 Score: 151
Period size: 52 Copynumber: 2.6 Consensus size: 50
43780241 GCCTAACCTC
* *
43780251 TTTT-AAT-AACTGGGACAAAGCCCTTTTCCGTAAACTGAGGCAAAGCCC
1 TTTTCAATAAACTGGGGCAAAGCCCTTTTCCGTAAACTGAGGCAAAGCCA
* *
43780299 TTTTCAATAAATTGGAGCATAAGCCCTTTT-CGATAAACT-AGGGCATAAGCCA
1 TTTTCAATAAACTGGGGCA-AAGCCCTTTTCCG-TAAACTGA-GGCA-AAGCCA
43780351 TTTTCAATAAACTGGGGCAGAAGCCCTTTT
1 TTTTCAATAAACTGGGGCA-AAGCCCTTTT
43780381 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
48 4 0.06
49 3 0.04
50 10 0.14
51 20 0.29
52 32 0.46
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (50 bp):
TTTTCAATAAACTGGGGCAAAGCCCTTTTCCGTAAACTGAGGCAAAGCCA
Found at i:43781227 original size:27 final size:27
Alignment explanation
Indices: 43781161--43781239 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
43781151 GGGCATATTC
* *
43781161 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACCCTACAGGGGTATTACG
43781188 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCACTTTACCCTACAGGGG-TATTACG
* * *
43781215 GTCTCTTTTCCCTAATAGGGGTATT
1 GTCACTTTACCCT-ACAGGGGTATT
43781240 TTAGTCATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
27 35 0.80
28 9 0.20
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGTATTACG
Found at i:43781310 original size:27 final size:27
Alignment explanation
Indices: 43781257--43781615 Score: 280
Period size: 27 Copynumber: 13.3 Consensus size: 27
43781247 TTTCATCCTA
* * * *
43781257 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
** ** *
43781284 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** *
43781311 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-T
* **
43781340 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
43781367 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * *
43781394 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
43781420 CTAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
*
43781447 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTGGTAATTTTACAAAT
** * *
43781475 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
43781502 CAAGGGTATTTTAGCAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
43781528 CTA-GGTATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
43781554 CGAGGGTATTTTGGTAATTTTGTAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
43781580 CTAAGGGTATTTTAGTAATTTTATAAAT
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*
43781608 CGAGGGTA
1 CAAGGGTA
43781616 AAATAGTAAT
Statistics
Matches: 265, Mismatches: 56, Indels: 22
0.77 0.16 0.06
Matches are distributed among these distances:
25 18 0.07
26 8 0.03
27 211 0.80
28 15 0.06
29 13 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:43781465 original size:81 final size:79
Alignment explanation
Indices: 43781369--43781602 Score: 335
Period size: 81 Copynumber: 2.9 Consensus size: 79
43781359 TTGTAAATCA
* *
43781369 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACTAG-GGTATTTTA
43781434 GTAATTTTACAAACT
65 GTAATTTTACAAACT
*
43781449 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 A-GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAA-CTAGGGTATTTT
*
43781514 AGCAATTTTACAAACT
64 AGTAATTTTACAAACT
** * * **
43781530 A-GGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTA
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACT-AGGGTATTTTA
43781594 GTAATTTTA
65 GTAATTTTA
43781603 TAAATCGAGG
Statistics
Matches: 139, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 62 0.45
80 1 0.01
81 72 0.52
82 3 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (79 bp):
AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACTAGGGTATTTTAG
TAATTTTACAAACT
Found at i:43781731 original size:27 final size:27
Alignment explanation
Indices: 43781342--43781753 Score: 260
Period size: 27 Copynumber: 15.3 Consensus size: 27
43781332 TAGAAAGTCA
* * **
43781342 AGGGTATTTCT-GTAACTTTGTAAATCA
1 AGGGTATTT-TGGTAATTTTATAAATTG
*
43781369 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTATAAATTG
* * * *
43781396 AGGGTATTTCGGTAATTTCACAAACT-
1 AGGGTATTTTGGTAATTTTATAAATTG
* *
43781422 AGTGGTATTTTGGTAATTTTACAAACT-
1 AG-GGTATTTTGGTAATTTTATAAATTG
*
43781449 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTATAAATTG
* * ***
43781477 AGGGTATTTCGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAATTG
* * * *
43781504 AGGGTATTTTAGCAATTTTACAAACT-
1 AGGGTATTTTGGTAATTTTATAAATTG
* *
43781530 A-GGTATTTTGGTAATTTTACT-GATCG
1 AGGGTATTTTGGTAATTTTA-TAAATTG
* * *
43781556 AGGGTATTTTGGTAATTTTGTAAACTA
1 AGGGTATTTTGGTAATTTTATAAATTG
* *
43781583 AGGGTATTTTAGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATTG
*** * * * *
43781610 AGGGTAAAATAGTAATTCTGTAAATTA
1 AGGGTATTTTGGTAATTTTATAAATTG
*** ** * *
43781637 AGGGTAAAATAATAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATTG
*** * * *
43781664 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATTG
**** *
43781691 AGGGTAAAACGGTAATTCTATAAATTG
1 AGGGTATTTTGGTAATTTTATAAATTG
*
43781718 AGGGTATTTTGGTAATTTTATAATTTG
1 AGGGTATTTTGGTAATTTTATAAATTG
43781745 AGGGTATTT
1 AGGGTATTT
43781754 CATAAATTTG
Statistics
Matches: 319, Mismatches: 58, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
25 17 0.05
26 6 0.02
27 294 0.92
28 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATTG
Found at i:43793951 original size:27 final size:27
Alignment explanation
Indices: 43793910--43794175 Score: 331
Period size: 27 Copynumber: 9.9 Consensus size: 27
43793900 AGTGGATAAG
43793910 TTGTAAAATTACCAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCTTGGT
*
43793937 TTATAAAATTACCAAAATA-CCTCTGGT
1 TTGTAAAATTACCAAAATACCCT-TGGT
* * *
43793964 TTGTAAAAGTACTAAAATACCCTTGTT
1 TTGTAAAATTACCAAAATACCCTTGGT
* *
43793991 TTATAAAATTAGCAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCTTGGT
* *
43794018 TTATAAAATTACCAAAATACCCTTAGT
1 TTGTAAAATTACCAAAATACCCTTGGT
*
43794045 TTGTAAAATTACCAAAATATTCC-TGGT
1 TTGTAAAATTACCAAAATA-CCCTTGGT
* *
43794072 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCTTGGT
43794099 TTGTAAAATTACCAAAATATCCC-TGGT
1 TTGTAAAATTACCAAAATA-CCCTTGGT
* **
43794126 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCTTGGT
* **
43794153 TTGTGAAATTACTGAAATACCCT
1 TTGTAAAATTACCAAAATACCCT
43794176 CAACCTATAA
Statistics
Matches: 209, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
26 8 0.04
27 193 0.92
28 8 0.04
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTTGGT
Found at i:43794048 original size:81 final size:80
Alignment explanation
Indices: 43793913--43794246 Score: 339
Period size: 81 Copynumber: 4.1 Consensus size: 80
43793903 GGATAAGTTG
* *
43793913 TAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATA-CCTCTGGTTTGTAAAAGTACT
1 TAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCT-TGGTTTGTAAAATTACC
*
43793977 AAAATACCCTTGTTTTA
65 AAAATACCC-TGGTTTA
* *
43793994 TAAAATTAGCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCA
1 TAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCA
* *
43794059 AAATATTCCTGGTTTG
66 AAATA-CCCTGGTTTA
* * *
43794075 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCC-TGGTTTGTAAAATTACC
1 TAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATA-CCCTTGGTTTGTAAAATTACC
** *
43794139 AAAATACCCCTAATTTG
65 AAAATA-CCCTGGTTTA
* ** ***** ** * **
43794156 TGAAATTACTGAAATACCCTCAACCTATAAAATTACTGAAATACCCTCGACTTGTAAAATTACCA
1 TAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCA
* *
43794221 AAGTACCCCTGATTTA
66 AAATA-CCCTGGTTTA
*
43794237 TAGAATTACC
1 TAAAATTACC
43794247 GTTTTACCCT
Statistics
Matches: 213, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
80 3 0.01
81 202 0.95
82 8 0.04
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (80 bp):
TAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCA
AAATACCCTGGTTTA
Found at i:43794227 original size:27 final size:27
Alignment explanation
Indices: 43793910--43794246 Score: 274
Period size: 27 Copynumber: 12.5 Consensus size: 27
43793900 AGTGGATAAG
* *
43793910 TTGTAAAATTACCAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCTCGAT
* *
43793937 TTATAAAATTACCAAAATA-CCTCTGGT
1 TTGTAAAATTACCAAAATACCCTC-GAT
* * * *
43793964 TTGTAAAAGTACTAAAATACCCTTGTT
1 TTGTAAAATTACCAAAATACCCTCGAT
* * * *
43793991 TTATAAAATTAGCAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCTCGAT
* *
43794018 TTATAAAATTACCAAAATACCCT-TAGT
1 TTGTAAAATTACCAAAATACCCTCGA-T
* *
43794045 TTGTAAAATTACCAAAATATTCCT-GGT
1 TTGTAAAATTACCAAAATA-CCCTCGAT
*
43794072 TTGTAAAATTACCAAAATACCC-CTAGT
1 TTGTAAAATTACCAAAATACCCTCGA-T
*
43794099 TTGTAAAATTACCAAAATATCCCT-GGT
1 TTGTAAAATTACCAAAATA-CCCTCGAT
*
43794126 TTGTAAAATTACCAAAATACCC-CTAAT
1 TTGTAAAATTACCAAAATACCCTC-GAT
* ** * *
43794153 TTGTGAAATTACTGAAATACCCTCAAC
1 TTGTAAAATTACCAAAATACCCTCGAT
* * ** *
43794180 CTATAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACCAAAATACCCTCGAT
*
43794207 TTGTAAAATTACCAAAGTACCC-CTGAT
1 TTGTAAAATTACCAAAATACCCTC-GAT
* *
43794234 TTATAGAATTACC
1 TTGTAAAATTACC
43794247 GTTTTACCCT
Statistics
Matches: 256, Mismatches: 42, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
26 9 0.04
27 237 0.93
28 10 0.04
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTCGAT
Found at i:43794244 original size:54 final size:54
Alignment explanation
Indices: 43793913--43794246 Score: 307
Period size: 54 Copynumber: 6.2 Consensus size: 54
43793903 GGATAAGTTG
* * * * *
43793913 TAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCTCTGGTTTG
1 TAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGGTTTA
* * * * * * *
43793967 TAAAAGTACTAAAATACCCTTGTTTTATAAAATTAGCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGGTTTA
* ** *
43794021 TAAAATTACCAAAATACCCT-TAGTTTGTAAAATTACCAAAATATTCCTGGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCCTGGTTTA
* * *
43794075 TAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATATCCCTGGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCCTGGTTTA
* * ** ****
43794129 TAAAATTACCAAAATACCC-CTAATTTGTGAAATTACTGAAATA-CCCTCAACCTA
1 TAAAATTACCAAAATACCCTC-GATTTGTAAAATTACCAAAATACCCCT-GGTTTA
** * * *
43794183 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTGATTTA
1 TAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGGTTTA
*
43794237 TAGAATTACC
1 TAAAATTACC
43794247 GTTTTACCCT
Statistics
Matches: 234, Mismatches: 40, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.02
54 224 0.96
55 6 0.03
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGGTTTA
Found at i:43794255 original size:81 final size:81
Alignment explanation
Indices: 43794126--43794283 Score: 194
Period size: 81 Copynumber: 2.0 Consensus size: 81
43794116 TATCCCTGGT
* * *
43794126 TTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCAACCTATAAAATTA
1 TTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCAACCTACAAAATTA
43794191 -CTGAAATACCCTCGAC
66 TC-GAAATACCCTCGAC
* * *** **
43794207 TTGTAAAATTACCAAAGTACCCCTGATTTAT-AGAATTACCGTTTTACCCTCAATTTACAAAATT
1 TTGTAAAATTACCAAAATACCCCTAATTTATGA-AATTACCGAAATACCCTCAACCTACAAAATT
43794271 ATCGAAATACCCT
65 ATCGAAATACCCT
43794284 TGTAGGGTAG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 1 0.02
81 63 0.97
82 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.31
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCAACCTACAAAATTA
TCGAAATACCCTCGAC
Found at i:43794303 original size:27 final size:27
Alignment explanation
Indices: 43794273--43794347 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
43794263 ACAAAATTAT
43794273 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
43794300 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
* * *
43794327 TGAAATACCCCTATAGGGTAG
1 CGAAATACCCTTGTAGGGTAG
43794348 GACTACCAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (27 bp):
CGAAATACCCTTGTAGGGTAGAAATAC
Found at i:43804851 original size:80 final size:78
Alignment explanation
Indices: 43804767--43804938 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 78
43804757 GGACTAAGAT
*
43804767 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
43804830 TAAATCCGGGTTAAGTC
62 TAAAACCGGGCTAAGTC
* * * *
43804847 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
43804912 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
43804926 CCGAAGGCATTTG
1 CCGAAGGCATTTG
43804939 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
79 38 0.47
80 37 0.46
82 3 0.04
83 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:43804929 original size:39 final size:39
Alignment explanation
Indices: 43804714--43804936 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
43804704 TTGAATGCTG
* * * * * *
43804714 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
43804754 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
43804794 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
43804834 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
43804874 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
43804913 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43804937 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 37 0.24
40 105 0.69
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:43804956 original size:79 final size:80
Alignment explanation
Indices: 43804794--43804971 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
43804784 AGATACAAGT
* * * *
43804794 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
43804859 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
43804874 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
43804938 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
43804953 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
43804972 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:43806443 original size:11 final size:11
Alignment explanation
Indices: 43806427--43806456 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
43806417 ATCCCAAATA
43806427 GTTTCTAAAGT
1 GTTTCTAAAGT
43806438 GTTTCTAAAGT
1 GTTTCTAAAGT
43806449 GTTTCTAA
1 GTTTCTAA
43806457 GGCCTCGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (11 bp):
GTTTCTAAAGT
Found at i:43809268 original size:42 final size:41
Alignment explanation
Indices: 43809125--43809353 Score: 205
Period size: 41 Copynumber: 5.6 Consensus size: 41
43809115 ATTAGAGTGT
* *
43809125 AAACAGAGGCACGTATGTGCAAGTT-AGGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCAA-TTCAGGGGTATCAAAGTAC
* * * * *
43809166 AAATAGGGACACGTATGTGAAATTTAGGGGTAAT-GAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGT-ATCAAAGTAC
* * *
43809207 AAATAGGGGCATGTATGTGCAATTCAGGGGGTATCAAAGTAG
1 AAACAGGGGCACGTATGTGCAATTCA-GGGGTATCAAAGTAC
* * * * *
43809249 AAACAGGGTCACGTTTGTGCAATTCA-GGGTATCGAAGCAG
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTATCAAAGTAC
* * * *
43809289 GAACAGGGGCACATATGTGTAATTCAGGGGTACCGAAA-TAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTATC-AAAGTAC
* *
43809330 AAACAGGGGCATGTATGTACAATT
1 AAACAGGGGCACGTATGTGCAATT
43809354 TAAGAAATAA
Statistics
Matches: 150, Mismatches: 32, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
40 35 0.23
41 80 0.53
42 35 0.23
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.22
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTATCAAAGTAC
Found at i:43809294 original size:40 final size:40
Alignment explanation
Indices: 43809211--43809317 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
43809201 AAGTACAAAT
** *
43809211 AGGGGCATGTATGTGCAATTCAGGGGGTATCAAAGTAGAAAC
1 AGGGGCACATATGTGCAATTCA--GGGTATCAAAGCAGAAAC
* * * * *
43809253 AGGGTCACGTTTGTGCAATTCAGGGTATCGAAGCAGGAAC
1 AGGGGCACATATGTGCAATTCAGGGTATCAAAGCAGAAAC
*
43809293 AGGGGCACATATGTGTAATTCAGGG
1 AGGGGCACATATGTGCAATTCAGGG
43809318 GTACCGAAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 36 0.65
42 19 0.35
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (40 bp):
AGGGGCACATATGTGCAATTCAGGGTATCAAAGCAGAAAC
Found at i:43810955 original size:41 final size:41
Alignment explanation
Indices: 43810878--43811011 Score: 178
Period size: 41 Copynumber: 3.2 Consensus size: 41
43810868 ACGCCGCCAT
* *
43810878 GACCTTTAGTGGTGCTTTTTCCACAAATGCCGCTATAGAACA
1 GACCTTTAGTGGCGC-TTTTCCACAAATGCCACTATAGAACA
*
43810920 GACCTTTAGTGGCGCTTTGCCACAAATGCCACTATAGAACA
1 GACCTTTAGTGGCGCTTTTCCACAAATGCCACTATAGAACA
* * * *
43810961 GACCTTTAGAGGCGCTTTTCTCACAAACGTCACTAAAGAACA
1 GACCTTTAGTGGCGCTTTTC-CACAAATGCCACTATAGAACA
43811003 TGACCTTTA
1 -GACCTTTA
43811012 AAAAATATAT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
41 42 0.51
42 32 0.39
43 8 0.10
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (41 bp):
GACCTTTAGTGGCGCTTTTCCACAAATGCCACTATAGAACA
Found at i:43811848 original size:34 final size:35
Alignment explanation
Indices: 43811810--43811884 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 35
43811800 TCTGGGCCTA
* *
43811810 AGCCCATA-ACAGTCACAATATCAGTGTAGGACTT
1 AGCCCATATACAGTAACAATATCAATGTAGGACTT
* * * *
43811844 AGCCCA-ATATAGTAACAGTATCAATGTGGGCCTT
1 AGCCCATATACAGTAACAATATCAATGTAGGACTT
43811878 AGCCCAT
1 AGCCCAT
43811885 TTCAGTACAG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (35 bp):
AGCCCATATACAGTAACAATATCAATGTAGGACTT
Found at i:43812378 original size:26 final size:26
Alignment explanation
Indices: 43812348--43812406 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
43812338 GCCAATGTGG
*
43812348 GCCCACACACTTATGTGGCCCAATAA
1 GCCCACACACTCATGTGGCCCAATAA
* *
43812374 GCCCACACACTCGTGTGGCCTAATAA
1 GCCCACACACTCATGTGGCCCAATAA
43812400 GCCCACA
1 GCCCACA
43812407 TACTGGCCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.37, G:0.17, T:0.17
Consensus pattern (26 bp):
GCCCACACACTCATGTGGCCCAATAA
Found at i:43816037 original size:11 final size:12
Alignment explanation
Indices: 43816010--43816034 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43816000 ATAATAAGCC
43816010 TTAATTTTTATA
1 TTAATTTTTATA
43816022 TTAATTTTTATA
1 TTAATTTTTATA
43816034 T
1 T
43816035 AATAAACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTAATTTTTATA
Found at i:43817101 original size:115 final size:108
Alignment explanation
Indices: 43816834--43817116 Score: 257
Period size: 115 Copynumber: 2.5 Consensus size: 108
43816824 GCGTTTATCC
* * * **
43816834 ACTAGCACCGCTAAATCCCTACGTATTGCGGTGTTTAACCAAAAAATGCCACT-AAAAA-CCTAC
1 ACTAGCACCGCTAAA-CCCGACATATTGCGGAGTTTAACC-AAAAATGCCACTAAAAAATCAAAC
*** * *
43816897 AAAACGGTGTCGTTTTGATTAAAAAAACATTTTGCGGCATTTTTA
64 AAAACGACATCATTTTGATTAAAAAAAAATTTTGCGGCATTTTTA
* * *
43816942 ACCTAGCACCGCTAAACCCGGACCTATTGTGGCATTTTAA-CAAAAATGCCACTAAAAAATCAAA
1 A-CTAGCACCGCTAAACCC-GACATATTGCGG-AGTTTAACCAAAAATGCCACTAAAAAATCAAA
* *
43817006 TAAAACGACATCATTTTGATTAAAACAAAATAAATTTTTGTGGCATTTTTTA
63 CAAAACGACATCATTTTGATT--AA-AAAA-AAA-TTTTGCGGCA-TTTTTA
* * * * *
43817058 ACTAGCACCGCTAAAGCCCGACATATTACGGAGTTTCACCAAAAACGCCATTAAGAAAT
1 ACTAGCACCGCTAAA-CCCGACATATTGCGGAGTTTAACCAAAAATGCCACTAAAAAAT
43817117 TGTAACACCC
Statistics
Matches: 140, Mismatches: 22, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
108 16 0.11
109 29 0.21
110 23 0.16
112 2 0.01
113 4 0.03
114 7 0.05
115 49 0.35
116 10 0.07
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (108 bp):
ACTAGCACCGCTAAACCCGACATATTGCGGAGTTTAACCAAAAATGCCACTAAAAAATCAAACAA
AACGACATCATTTTGATTAAAAAAAAATTTTGCGGCATTTTTA
Found at i:43820337 original size:41 final size:41
Alignment explanation
Indices: 43820280--43820361 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
43820270 TAAATGGTTG
43820280 TAATTAATTATTAAGTTAGAATTATCCAATCTAAGCAATCA
1 TAATTAATTATTAAGTTAGAATTATCCAATCTAAGCAATCA
43820321 TAATTAATTATTAAGTTAGAATTATCCAATCTAAGCAATCA
1 TAATTAATTATTAAGTTAGAATTATCCAATCTAAGCAATCA
43820362 ATCTCTCACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (41 bp):
TAATTAATTATTAAGTTAGAATTATCCAATCTAAGCAATCA
Found at i:43820390 original size:47 final size:47
Alignment explanation
Indices: 43820336--43820430 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
43820326 AATTATTAAG
43820336 TTAGAATTATCCAATCTAAGCAATCAATCTCTCACATATCAAATTTC
1 TTAGAATTATCCAATCTAAGCAATCAATCTCTCACATATCAAATTTC
*
43820383 TTAGAATTATCTAATCTAAGCAATCAATCTCTCACATATCAAATTTC
1 TTAGAATTATCCAATCTAAGCAATCAATCTCTCACATATCAAATTTC
43820430 T
1 T
43820431 ATTAAAGATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (47 bp):
TTAGAATTATCCAATCTAAGCAATCAATCTCTCACATATCAAATTTC
Found at i:43820944 original size:7 final size:7
Alignment explanation
Indices: 43820929--43821089 Score: 76
Period size: 7 Copynumber: 22.7 Consensus size: 7
43820919 ACTAATTAAT
43820929 CTAAACC
1 CTAAACC
*
43820936 CTAATCC
1 CTAAACC
* *
43820943 CTTAACA
1 CTAAACC
* *
43820950 CTTATCC
1 CTAAACC
43820957 CTTAAACC
1 C-TAAACC
*
43820965 CTAAATC
1 CTAAACC
*
43820972 ATAAACC
1 CTAAACC
*
43820979 ATAAACC
1 CTAAACC
43820986 CTAAACCC
1 CTAAA-CC
43820994 CT-AACC
1 CTAAACC
*
43821000 CTTAACC
1 CTAAACC
*
43821007 CTTAACC
1 CTAAACC
*
43821014 CTTAACCC
1 C-TAAACC
43821022 CT-AACC
1 CTAAACC
43821028 ACTAAACC
1 -CTAAACC
*
43821036 TTAAACC
1 CTAAACC
*
43821043 C-CAACAC
1 CTAAAC-C
*
43821050 TTAAACC
1 CTAAACC
*
43821057 ATAAACC
1 CTAAACC
*
43821064 ATAAACC
1 CTAAACC
* *
43821071 ATAATCC
1 CTAAACC
*
43821078 ATAAACC
1 CTAAACC
*
43821085 TTAAA
1 CTAAA
43821090 ATAGTAACTC
Statistics
Matches: 122, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
6 10 0.08
7 91 0.75
8 21 0.17
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:43820976 original size:14 final size:14
Alignment explanation
Indices: 43820959--43821152 Score: 83
Period size: 14 Copynumber: 13.7 Consensus size: 14
43820949 ACTTATCCCT
* * *
43820959 TAAACCCTAAATCA
1 TAAACCATAAACCC
43820973 TAAACCATAAACCC
1 TAAACCATAAACCC
*
43820987 TAAACCCCT-AACCC
1 TAAA-CCATAAACCC
* * *
43821001 TTAACCCTTAACCC
1 TAAACCATAAACCC
* *
43821015 TTAACCCCT-AACCAC
1 -TAAACCATAAACC-C
*
43821030 TAAACCTTAAACCC
1 TAAACCATAAACCC
* * *
43821044 -CAACACTTAAACCA
1 TAAAC-CATAAACCC
*
43821058 TAAACCATAAACCA
1 TAAACCATAAACCC
* *
43821072 TAATCCATAAACCT
1 TAAACCATAAACCC
43821086 TAAA--ATAGTAACTCC
1 TAAACCATA--AAC-CC
* **
43821101 TAAACCTTAAAATC
1 TAAACCATAAACCC
*
43821115 TAAACCATATACCC
1 TAAACCATAAACCC
*
43821129 TGAACCATAAACCC
1 TAAACCATAAACCC
* *
43821143 AAAACTATAA
1 TAAACCATAA
43821153 TGATAATTAA
Statistics
Matches: 139, Mismatches: 29, Indels: 24
0.72 0.15 0.12
Matches are distributed among these distances:
12 3 0.02
13 7 0.05
14 103 0.74
15 24 0.17
17 2 0.01
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:43821530 original size:49 final size:49
Alignment explanation
Indices: 43821470--43821567 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 49
43821460 GATTAAGCGT
*
43821470 CACTAAAGCTTGATCTATAGCAATGTCTTT-CAAAAAGCGTCGCTAATGC
1 CACTAAAGCTTGATCTATAGCAACGT-TTTACAAAAAGCGTCGCTAATGC
* * ** *
43821519 CACTAATGCTTGATCTGTAGCGGCGTTTTACAAAAGGCGTCGCTAATGC
1 CACTAAAGCTTGATCTATAGCAACGTTTTACAAAAAGCGTCGCTAATGC
43821568 TCAATCTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 3 0.07
49 39 0.93
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (49 bp):
CACTAAAGCTTGATCTATAGCAACGTTTTACAAAAAGCGTCGCTAATGC
Found at i:43821667 original size:39 final size:40
Alignment explanation
Indices: 43821561--43821678 Score: 107
Period size: 40 Copynumber: 3.0 Consensus size: 40
43821551 AAAGGCGTCG
* * * * * * *
43821561 CTAATGCTCAATCTATAGCATCATTTTCTAAAAAACACCG
1 CTAATGCTCGACCTATAGCAGCATTTTTTAAAAAGCGCCA
* * *
43821601 CTAATGGTCGACCTATAG-AGTCGTTTTTTAAAAAGCGCTA
1 CTAATGCTCGACCTATAGCAG-CATTTTTTAAAAAGCGCCA
43821641 CTAATGCTCGA-CTATAGCAGCATTTTTCT-AAAAGCGCC
1 CTAATGCTCGACCTATAGCAGCATTTTT-TAAAAAGCGCC
43821679 GTTAATTCTC
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
39 21 0.34
40 41 0.66
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (40 bp):
CTAATGCTCGACCTATAGCAGCATTTTTTAAAAAGCGCCA
Found at i:43824290 original size:98 final size:97
Alignment explanation
Indices: 43824121--43824317 Score: 304
Period size: 98 Copynumber: 2.0 Consensus size: 97
43824111 CAACTATGTT
* *
43824121 TCTATATTGAGCCATAGTCGTTAATACACCTTATGCTTACTACCTAATCAACGCATCAACTTTCA
1 TCTATATCGAGCCATAGTCGTTAATACACCTTATGCTTACTACCTAATCAACGCATCAACTCTCA
*
43824186 ATACAAATTTTCATTACTTAATAGACCAAGTTC
66 ATACAAATTTTCATTACTT-AGAGACCAAGTTC
* * * * * *
43824219 TCTATATCGAGCCATAGTTGTTAATACCCCTTATGTTTACTAGCTTATCAATGCATCAACTCTCA
1 TCTATATCGAGCCATAGTCGTTAATACACCTTATGCTTACTACCTAATCAACGCATCAACTCTCA
43824284 ATACAAATTTTCATTACTTAGAGACCAAGTTC
66 ATACAAATTTTCATTACTTAGAGACCAAGTTC
43824316 TC
1 TC
43824318 ATGCTTTTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
97 14 0.16
98 76 0.84
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (97 bp):
TCTATATCGAGCCATAGTCGTTAATACACCTTATGCTTACTACCTAATCAACGCATCAACTCTCA
ATACAAATTTTCATTACTTAGAGACCAAGTTC
Found at i:43824374 original size:3 final size:3
Alignment explanation
Indices: 43824366--43824395 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
43824356 TATCAAATCC
43824366 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
43824396 CAAATTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:43824915 original size:13 final size:13
Alignment explanation
Indices: 43824860--43824917 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
43824850 CTCGAACCCA
43824860 AAACCTTGAACCAT
1 AAACCTTGAACC-T
* *
43824874 GAACC-CGAACCT
1 AAACCTTGAACCT
**
43824886 AAATTTTGAATCCT
1 AAACCTTGAA-CCT
43824900 AAACCTTGAACCT
1 AAACCTTGAACCT
43824913 AAACC
1 AAACC
43824918 CCAAACCCCA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
12 3 0.09
13 16 0.47
14 15 0.44
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.22
Consensus pattern (13 bp):
AAACCTTGAACCT
Found at i:43827922 original size:79 final size:82
Alignment explanation
Indices: 43827811--43827995 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
43827801 GCTACTCGTT
* * *
43827811 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
43827874 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
43827891 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
43827954 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
43827971 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43827996 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:43827995 original size:40 final size:40
Alignment explanation
Indices: 43827792--43827995 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
43827782 CGGAATTTAA
** *
43827792 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
43827832 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43827872 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43827911 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
43827951 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43827991 CCGGA
1 CCGGA
43827996 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43835786 original size:39 final size:40
Alignment explanation
Indices: 43835741--43835923 Score: 189
Period size: 39 Copynumber: 4.6 Consensus size: 40
43835731 GCTACTCGTT
*
43835741 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
43835781 C-AATGCCTTCGGGACTTAACCCGGATT-TAGAAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
43835820 CAAATGCCTTCGTG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
43835859 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
43835900 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
43835924 ACATCATTCA
Statistics
Matches: 118, Mismatches: 16, Indels: 18
0.78 0.11 0.12
Matches are distributed among these distances:
38 1 0.01
39 63 0.53
40 42 0.36
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43840638 original size:17 final size:17
Alignment explanation
Indices: 43840618--43840651 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43840608 TGTTATTAAA
*
43840618 GGTTAAAATGGTAAAAT
1 GGTTAAAATGATAAAAT
43840635 GGTTAAAATGATAAAAT
1 GGTTAAAATGATAAAAT
43840652 AATTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (17 bp):
GGTTAAAATGATAAAAT
Found at i:43840657 original size:17 final size:17
Alignment explanation
Indices: 43840620--43840660 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
43840610 TTATTAAAGG
* **
43840620 TTAAAATGGTAAAATGG
1 TTAAAATGATAAAATAA
43840637 TTAAAATGATAAAATAA
1 TTAAAATGATAAAATAA
43840654 TTAAAAT
1 TTAAAAT
43840661 AAAGCCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
TTAAAATGATAAAATAA
Found at i:43841591 original size:43 final size:43
Alignment explanation
Indices: 43841501--43841650 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 43
43841491 TACCGAAAGG
* * *
43841501 TGATTACATGTAAGACCATGTATGGGCCATTGGCAT--TGTATTG
1 TGATTACATGTAAGACCATATATGGGACATTGGCATCAT-TA-TA
* *
43841544 TGATTACATGTAAGACCATATTTGGGACATTGACATCATTATA
1 TGATTACATGTAAGACCATATATGGGACATTGGCATCATTATA
* * * * * * * *
43841587 TGATTTCGTATAAAACCCTGTATGGGACAATGGCATCGA-TACA
1 TGATTACATGTAAGACCATATATGGGACATTGGCATC-ATTATA
*
43841630 TGATAACATGTAAGACCATAT
1 TGATTACATGTAAGACCATAT
43841651 CCGAGATATG
Statistics
Matches: 82, Mismatches: 22, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
43 78 0.95
44 3 0.04
45 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (43 bp):
TGATTACATGTAAGACCATATATGGGACATTGGCATCATTATA
Found at i:43856308 original size:47 final size:46
Alignment explanation
Indices: 43856210--43856332 Score: 135
Period size: 47 Copynumber: 2.6 Consensus size: 46
43856200 GAGGCTAATA
* *
43856210 CATGTCCTGGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATGC
1 CATGTCCTAGACATGTCTTACACTAGCTCTCG-CTCAATGTCAATGC
*
43856257 CATGTCCTAGACATGGTCTTACACTGGCTCTCG-T-AATGTGTCCAATG-
1 CATGTCCTAGACAT-GTCTTACACTAGCTCTCGCTCAA--TGT-CAATGC
* *
43856304 CATGTCCCAGACATATCTTACACTAGCTC
1 CATGTCCTAGACATGTCTTACACTAGCTC
43856333 ACAATAACCC
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
45 2 0.03
46 14 0.21
47 29 0.44
48 21 0.32
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (46 bp):
CATGTCCTAGACATGTCTTACACTAGCTCTCGCTCAATGTCAATGC
Found at i:43858031 original size:17 final size:17
Alignment explanation
Indices: 43858011--43858044 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43858001 TGTCATTAAA
43858011 GGTTAAAATGATAAAAT
1 GGTTAAAATGATAAAAT
*
43858028 GGTTTAAATGATAAAAT
1 GGTTAAAATGATAAAAT
43858045 AATTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
GGTTAAAATGATAAAAT
Found at i:43858053 original size:17 final size:17
Alignment explanation
Indices: 43858013--43858053 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
43858003 TCATTAAAGG
**
43858013 TTAAAATGATAAAATGG
1 TTAAAATGATAAAATAA
*
43858030 TTTAAATGATAAAATAA
1 TTAAAATGATAAAATAA
43858047 TTAAAAT
1 TTAAAAT
43858054 AAAGCCAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (17 bp):
TTAAAATGATAAAATAA
Found at i:43858950 original size:43 final size:43
Alignment explanation
Indices: 43858902--43859050 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 43
43858892 TTACCGAGAG
*
43858902 GTGATTACATGTAAGACCATGTATGGTACATTGGCATTGTAT-T
1 GTGATTACATGTAAGACCATGTCTGG-ACATTGGCATTGTATAT
* * *
43858945 GTGATTACGTGTAAGACCGTGTCTAGGACATTGGTATTGT-TAT
1 GTGATTACATGTAAGACCATGTCT-GGACATTGGCATTGTATAT
* * ** * * * *
43858988 ATGATTTCGCGTAAGACCTTTTCTGGGACAGTGGCATCG-ATAT
1 GTGATTACATGTAAGACCATGTCT-GGACATTGGCATTGTATAT
*
43859031 GTGATAACATGTAAGACCAT
1 GTGATTACATGTAAGACCAT
43859051 ATCCGGGATA
Statistics
Matches: 84, Mismatches: 19, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
42 1 0.01
43 81 0.96
44 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
GTGATTACATGTAAGACCATGTCTGGACATTGGCATTGTATAT
Found at i:43870774 original size:27 final size:29
Alignment explanation
Indices: 43870727--43870798 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 29
43870717 AAACCTAAAG
* * *
43870727 ATAAAGTAAAAA-TAGTATTAAAGAGA-A
1 ATAAAATAAAAAGTAATATTAAAAAGATA
43870754 ATAAAATAAAAAGTAAT-TTAAAAAGATA
1 ATAAAATAAAAAGTAATATTAAAAAGATA
43870782 A-ATAAATATAAAAGTAA
1 ATA-AAATA-AAAAGTAA
43870799 AATAATAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 20 0.53
28 10 0.26
29 8 0.21
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (29 bp):
ATAAAATAAAAAGTAATATTAAAAAGATA
Found at i:43872317 original size:46 final size:46
Alignment explanation
Indices: 43872267--43872442 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
43872257 TGGTTGAGCA
*
43872267 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
43872313 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ACG
* *
43872358 AATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
43872406 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43872443 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
45 2 0.02
46 64 0.57
47 27 0.24
48 2 0.02
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:43872425 original size:93 final size:93
Alignment explanation
Indices: 43872266--43872434 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 93
43872256 ATGGTTGAGC
* *
43872266 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
43872331 AGTCCGAGTTCGAGAGATGTAACTAGGA
66 AGTCCGAGTTCGAGAGATGTAACTAGGA
* * *
43872359 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
43872424 AGTCCGAGTTC
66 AGTCCGAGTTC
43872435 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGAGAGATGTAACTAGGA
Found at i:43891736 original size:27 final size:27
Alignment explanation
Indices: 43891706--43891759 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
43891696 AGACAATGCA
*
43891706 ATCAACCTAACACTAATTAAATTTAAG
1 ATCAACCTAACACAAATTAAATTTAAG
*
43891733 ATCAACCTAGCACAAATTAAATTTAAG
1 ATCAACCTAACACAAATTAAATTTAAG
43891760 CCATATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.28
Consensus pattern (27 bp):
ATCAACCTAACACAAATTAAATTTAAG
Found at i:43893704 original size:37 final size:37
Alignment explanation
Indices: 43893654--43893732 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43893644 TTATTACGAA
* *
43893654 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
43893691 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
43893728 GTCTT
1 GTCTT
43893733 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:43894001 original size:47 final size:47
Alignment explanation
Indices: 43893851--43894278 Score: 696
Period size: 47 Copynumber: 9.1 Consensus size: 47
43893841 CCCTTCGGGA
* * * * * * *
43893851 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43893898 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43893944 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43893991 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43894038 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43894085 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43894132 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43894181 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43894228 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43894275 CTTA
1 CTTA
43894279 CTATCATTTC
Statistics
Matches: 361, Mismatches: 17, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 40 0.11
47 274 0.76
49 47 0.13
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43894195 original size:143 final size:143
Alignment explanation
Indices: 43893851--43894278 Score: 704
Period size: 143 Copynumber: 3.0 Consensus size: 143
43893841 CCCTTCGGGA
* * * * * * * * *
43893851 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
43893914 ACTTTCACATTCA-CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
43893978 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
43893991 CTTATTAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
*
43894054 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
43894119 TCGGCTATTAGGC
131 TCGGCCATTAGGC
*
43894132 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
43894197 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
43894262 TCGGCCATTAGGC
131 TCGGCCATTAGGC
43894275 CTTA
1 CTTA
43894279 CTATCATTTC
Statistics
Matches: 267, Mismatches: 16, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
139 1 0.00
140 63 0.24
141 69 0.26
143 134 0.50
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:43897958 original size:80 final size:80
Alignment explanation
Indices: 43897857--43898014 Score: 201
Period size: 80 Copynumber: 2.0 Consensus size: 80
43897847 CGAATACACG
* * * *
43897857 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATA-TCACTAGAACGAATGCTCTTCGGA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGAACCAATGC-CTTCGGA
43897921 ACTTAGCCCGGATACA
65 ACTTAGCCCGGATACA
* * * * * *
43897937 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGAT
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGAACCAATGCCTTCGGAA
*
43898002 CTTAGTCCGGATA
66 CTTAGCCCGGATA
43898015 TGGTCACTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 54 0.82
81 12 0.18
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGAACCAATGCCTTCGGAA
CTTAGCCCGGATACA
Done.