Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 77 of 135
Found at i:23381337 original size:113 final size:113
Alignment explanation
Indices: 23381139--23381454 Score: 501
Period size: 113 Copynumber: 2.8 Consensus size: 113
23381129 CAATGTTTGC
* *
23381139 ATTCATGCGAGCTTTGCCTCCAGTAAAATTTAATTTTATCCACCTCACAACCATGTTCAAACATT
1 ATTCATGCGAGCTTTGCCTCCAATAAAATTTAATTTTATCCACCTCACAACCATGTTCAAGCATT
23381204 TTTGCATT-AACATAACGATTAGTGGACTAATGATTTTTTAATCATTTA
66 TTTGCATTGAA-ATAACGATTAGTGGACTAATGATTTTTTAATCATTTA
* *
23381252 ATTCATGCGAGCTTTGCCTCCAATAAAATTTAATTTTATCCACCTCACAACCATGCTCAAGCCTT
1 ATTCATGCGAGCTTTGCCTCCAATAAAATTTAATTTTATCCACCTCACAACCATGTTCAAGCATT
*
23381317 TTTGCATTGAAATAACGATTAGTGGACTAATGATTTTTTAATCTTTTA
66 TTTGCATTGAAATAACGATTAGTGGACTAATGATTTTTTAATCATTTA
* * * * *
23381365 ATTCACT-CGAGCTTTGCCTCTAATAAAAATCAATTTTATCCACCTTACAACCCTGTTCAAGCAT
1 ATTCA-TGCGAGCTTTGCCTCCAATAAAATTTAATTTTATCCACCTCACAACCATGTTCAAGCAT
*
23381429 TTTTGCATTGAAATAACGGTTAGTGG
65 TTTTGCATTGAAATAACGATTAGTGG
23381455 TCTATAAGGA
Statistics
Matches: 188, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
113 185 0.98
114 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (113 bp):
ATTCATGCGAGCTTTGCCTCCAATAAAATTTAATTTTATCCACCTCACAACCATGTTCAAGCATT
TTTGCATTGAAATAACGATTAGTGGACTAATGATTTTTTAATCATTTA
Found at i:23381764 original size:113 final size:113
Alignment explanation
Indices: 23381615--23381835 Score: 327
Period size: 113 Copynumber: 2.0 Consensus size: 113
23381605 TAACAATTAG
* * * * *
23381615 TGATTTTTTAATCATTTAATTTATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCATCTCA
1 TGATTTTTTAATCATTTAATTCACACAAGCTTTGCCTCCAATAAAAATCAATTTTATCCACCTCA
23381680 CAACCAAGTTCAAGCATTTTTGCATTGAAATAAC-GATTAGTGGACTAA
66 CAACCAAGTTCAAGCATTTTTGCATTGAAATAACAG-TTAGTGGACTAA
* * * *
23381728 TGATTTTTTAATCTTTTAATTCACGCAAGCTTTGCCTCTAATAAAAATCAATTTTATCCACCTTA
1 TGATTTTTTAATCATTTAATTCACACAAGCTTTGCCTCCAATAAAAATCAATTTTATCCACCTCA
**
23381793 CAACCCTGTTCAAGCATTTTTGCATTGAAATAACAGTTAGTGG
66 CAACCAAGTTCAAGCATTTTTGCATTGAAATAACAGTTAGTGG
23381836 TCTATAAGGA
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
113 95 0.99
114 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (113 bp):
TGATTTTTTAATCATTTAATTCACACAAGCTTTGCCTCCAATAAAAATCAATTTTATCCACCTCA
CAACCAAGTTCAAGCATTTTTGCATTGAAATAACAGTTAGTGGACTAA
Found at i:23381898 original size:381 final size:381
Alignment explanation
Indices: 23381234--23382339 Score: 2086
Period size: 381 Copynumber: 2.9 Consensus size: 381
23381224 AGTGGACTAA
* * *
23381234 TGATTTTTTAATCATTTAATTCATGCGAGCTTTGCCTCCAATAAAATTTAATTTTATCCACCTCA
1 TGATTTTTTAATCATTTAATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCATCTCA
* *
23381299 CAACCATGCTCAAGCCTTTTTGCATTGAAATAACGATTAGTGGACTAATGATTTTTTAATCTTTT
66 CAACCATGTTCAAGCATTTTTGCATTGAAATAACGATTAGTGGACTAATGATTTTTTAATCTTTT
*
23381364 AATTCACTCGAGCTTTGCCTCTAATAAAAATCAATTTTATCCACCTTACAACCCTGTTCAAGCAT
131 AATTCACGCGAGCTTTGCCTCTAATAAAAATCAATTTTATCCACCTTACAACCCTGTTCAAGCAT
* *
23381429 TTTTGCATTGAAATAACGGTTAGTGGTCTATAAGGAATAAAAGGATTTCTGCATATTGCTCTAGA
196 TTTTGCATTGAAATAACAGTTAGTGGTCTATAAGGAATAAAAGGATTTCTGCATATCGCTCTAGA
*
23381494 AAATTTCTAAATAGTACAGGGACCTGAAACACGACCACTAGTTGGAAATAACCAAACCCGAGGGT
261 AAATTTCTAAATAGTACAGGGACCTGAAACATGACCACTAGTTGGAAATAACCAAACCCGAGGGT
23381559 TAGAAGGGTCTTGAAACAACCATGTTCGAACATTTTTGCATTGACATAACAATTAG
326 TAGAAGGGTCTTGAAACAACCATGTTCGAACATTTTTGCATTGACATAACAATTAG
*
23381615 TGATTTTTTAATCATTTAATTTATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCATCTCA
1 TGATTTTTTAATCATTTAATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCATCTCA
*
23381680 CAACCAAGTTCAAGCATTTTTGCATTGAAATAACGATTAGTGGACTAATGATTTTTTAATCTTTT
66 CAACCATGTTCAAGCATTTTTGCATTGAAATAACGATTAGTGGACTAATGATTTTTTAATCTTTT
*
23381745 AATTCACGCAAGCTTTGCCTCTAATAAAAATCAATTTTATCCACCTTACAACCCTGTTCAAGCAT
131 AATTCACGCGAGCTTTGCCTCTAATAAAAATCAATTTTATCCACCTTACAACCCTGTTCAAGCAT
23381810 TTTTGCATTGAAATAACAGTTAGTGGTCTATAAGGAATAAAAGGATTTCTGCATATCGCTCTAGA
196 TTTTGCATTGAAATAACAGTTAGTGGTCTATAAGGAATAAAAGGATTTCTGCATATCGCTCTAGA
*
23381875 AAATTTCTAAATAGTATAGGGACCTGAAACATGACCACTAGTTGGAAATAACCAAACCCGAGGGT
261 AAATTTCTAAATAGTACAGGGACCTGAAACATGACCACTAGTTGGAAATAACCAAACCCGAGGGT
23381940 TAGAAGGGTCTTGAAACAACCATGTTCGAACATTTTTGCATTGACATAACAATTAG
326 TAGAAGGGTCTTGAAACAACCATGTTCGAACATTTTTGCATTGACATAACAATTAG
*
23381996 TGATTTTGTAATCATTTAATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCATCTCA
1 TGATTTTTTAATCATTTAATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCATCTCA
23382061 CAACCATGTTCAAGCATTTTTGCATTGAAATAACGATTAGTGGACTAATGATTTTTTAATCTTTT
66 CAACCATGTTCAAGCATTTTTGCATTGAAATAACGATTAGTGGACTAATGATTTTTTAATCTTTT
23382126 AATTCACGCGAGCTTTGCCTCTAATAAAAATCAATTTTATCCACCTTACAACCCTGTTCAAGCAT
131 AATTCACGCGAGCTTTGCCTCTAATAAAAATCAATTTTATCCACCTTACAACCCTGTTCAAGCAT
23382191 TTTTGCATTGAAATAACAGTTAGTGGTCTATAAGGAATAAAAGGATTTCTGCATATCGCTCTAGA
196 TTTTGCATTGAAATAACAGTTAGTGGTCTATAAGGAATAAAAGGATTTCTGCATATCGCTCTAGA
23382256 AAATTTCTAAATAGTACAGGGACCTGAAACATGACCACTAGTTGGAAATAACCAAACCCGAGGGT
261 AAATTTCTAAATAGTACAGGGACCTGAAACATGACCACTAGTTGGAAATAACCAAACCCGAGGGT
23382321 TAGAAGGGTCTTGAAACAA
326 TAGAAGGGTCTTGAAACAA
23382340 ATAGTTCAAA
Statistics
Matches: 707, Mismatches: 18, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
381 707 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (381 bp):
TGATTTTTTAATCATTTAATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCATCTCA
CAACCATGTTCAAGCATTTTTGCATTGAAATAACGATTAGTGGACTAATGATTTTTTAATCTTTT
AATTCACGCGAGCTTTGCCTCTAATAAAAATCAATTTTATCCACCTTACAACCCTGTTCAAGCAT
TTTTGCATTGAAATAACAGTTAGTGGTCTATAAGGAATAAAAGGATTTCTGCATATCGCTCTAGA
AAATTTCTAAATAGTACAGGGACCTGAAACATGACCACTAGTTGGAAATAACCAAACCCGAGGGT
TAGAAGGGTCTTGAAACAACCATGTTCGAACATTTTTGCATTGACATAACAATTAG
Found at i:23382194 original size:113 final size:113
Alignment explanation
Indices: 23381996--23382216 Score: 345
Period size: 113 Copynumber: 2.0 Consensus size: 113
23381986 TAACAATTAG
* * *
23381996 TGATTTTGTAATCATTTAATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCATCTCA
1 TGATTTTGTAATCATTTAATTCACACGAGCTTTGCCTCCAATAAAAATCAATTTTATCCACCTCA
23382061 CAACCATGTTCAAGCATTTTTGCATTGAAATAAC-GATTAGTGGACTAA
66 CAACCATGTTCAAGCATTTTTGCATTGAAATAACAG-TTAGTGGACTAA
* * * * *
23382109 TGATTTTTTAATCTTTTAATTCACGCGAGCTTTGCCTCTAATAAAAATCAATTTTATCCACCTTA
1 TGATTTTGTAATCATTTAATTCACACGAGCTTTGCCTCCAATAAAAATCAATTTTATCCACCTCA
*
23382174 CAACCCTGTTCAAGCATTTTTGCATTGAAATAACAGTTAGTGG
66 CAACCATGTTCAAGCATTTTTGCATTGAAATAACAGTTAGTGG
23382217 TCTATAAGGA
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
113 97 0.99
114 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (113 bp):
TGATTTTGTAATCATTTAATTCACACGAGCTTTGCCTCCAATAAAAATCAATTTTATCCACCTCA
CAACCATGTTCAAGCATTTTTGCATTGAAATAACAGTTAGTGGACTAA
Found at i:23382717 original size:50 final size:50
Alignment explanation
Indices: 23382641--23383069 Score: 296
Period size: 50 Copynumber: 8.6 Consensus size: 50
23382631 GAGGGAACAT
* * * *
23382641 GAAGATATGAAGGGAAAGGTTGAGGCCACAACAGCGAACCCGGTACCTTA
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCCAGTACCTTA
* * * * ** * *
23382691 AAAGATGTGATGGG-AAGGATTAAGGCCGTAACGGCGAATTCGGTACCAT-
1 GAAGATGTGATGGGAAAGG-TTGAGGCCGCAACAGCGAACCCAGTACCTTA
* * * **
23382740 GAAGATATGAAGGGAAAGG-TGAAGGCTGCAACAAAGAACCCAGTACCTTA
1 GAAGATGTGATGGGAAAGGTTG-AGGCCGCAACAGCGAACCCAGTACCTTA
* ** * * * * * *
23382790 GAAGATGTGATGGCAAATATTAAGGCCGTAACAACGAATCCAATACCAT-
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCCAGTACCTTA
* * * * ** * *
23382839 GAAGATATGAAGGGAAAGGTTGAGGCCACAACGGCGAACCTGGTACCCTG
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCCAGTACCTTA
** **
23382889 GAAGATGTGATGGGAAAGGTTGAGGCTACAATGGCGAACCCAGTACCTTA
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCCAGTACCTTA
* * * * * * * *
23382939 AAAGATGTGATGGG-AAGGATTGAGGCTGCAACGGCAAATCCAATAACAT-
1 GAAGATGTGATGGGAAAGG-TTGAGGCCGCAACAGCGAACCCAGTACCTTA
* * * * *
23382988 GAAGATATGAAGGGAAAGGTGGAGGCCGCAATAGCGAACCCGGTACCTTA
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCCAGTACCTTA
* *
23383038 GAAGATGTGATAGG-AAGGATTGAGGCAGCAAC
1 GAAGATGTGATGGGAAAGG-TTGAGGCCGCAAC
23383070 GACGAATCTT
Statistics
Matches: 284, Mismatches: 85, Indels: 20
0.73 0.22 0.05
Matches are distributed among these distances:
48 1 0.00
49 106 0.37
50 176 0.62
51 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.17
Consensus pattern (50 bp):
GAAGATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCCAGTACCTTA
Found at i:23382878 original size:99 final size:99
Alignment explanation
Indices: 23382638--23382906 Score: 351
Period size: 99 Copynumber: 2.7 Consensus size: 99
23382628 ATCGAGGGAA
*
23382638 CATGAAGATATGAAGGGAAAGGTTGAGGCCACAACAGCGAACCCGGTACCTTAAAAGATGTGATG
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCACAACAGCGAACCCGGTACCTTAGAAGATGTGATG
* * ** * **
23382703 GGAAGGATTAAGGCCGTAACGGCGAATTCGGTAC
66 GCAAAGATTAAGGCCGTAACAACGAATCCAATAC
** ** *
23382737 CATGAAGATATGAAGGGAAAGG-TGAAGGCTGCAACAAAGAACCCAGTACCTTAGAAGATGTGAT
1 CATGAAGATATGAAGGGAAAGGTTG-AGGCCACAACAGCGAACCCGGTACCTTAGAAGATGTGAT
*
23382801 GGCAAATATTAAGGCCGTAACAACGAATCCAATAC
65 GGCAAAGATTAAGGCCGTAACAACGAATCCAATAC
* * * *
23382836 CATGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGCGAACCTGGTACCCTGGAAGATGTGATG
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCACAACAGCGAACCCGGTACCTTAGAAGATGTGATG
*
23382901 GGAAAG
66 GCAAAG
23382907 GTTGAGGCTA
Statistics
Matches: 143, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
98 2 0.01
99 139 0.97
100 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.17
Consensus pattern (99 bp):
CATGAAGATATGAAGGGAAAGGTTGAGGCCACAACAGCGAACCCGGTACCTTAGAAGATGTGATG
GCAAAGATTAAGGCCGTAACAACGAATCCAATAC
Found at i:23382915 original size:149 final size:148
Alignment explanation
Indices: 23382731--23383069 Score: 385
Period size: 149 Copynumber: 2.3 Consensus size: 148
23382721 ACGGCGAATT
* * *
23382731 CGGTACCATGAAGATATGAAGGGAAAGG-TGAAGGCTGCAACAAAGAACCCAGTACCTTAGAAGA
1 CGGTACCATGAAGATGTGATGGGAAAGGTTG-AGGCTGCAACAAAGAACCCAGTACCTTAAAAGA
* * * * *
23382795 TGTGATGGCAAATATTAAGGCCGTAACAACGAATCCAATACCATGAAGATATGAAGGGAAAGGTT
65 TGTGATGGCAAAGATTAAGGCCGCAACAACAAATCCAATAACATGAAGATATGAAGGGAAAGGTG
*
23382860 GAGGCCACAACGGCGAACC
130 GAGGCCACAACAGCGAACC
* * * ****
23382879 TGGTACCCTGGAAGATGTGATGGGAAAGGTTGAGGCTACAATGGCGAACCCAGTACCTTAAAAGA
1 CGGTACCAT-GAAGATGTGATGGGAAAGGTTGAGGCTGCAACAAAGAACCCAGTACCTTAAAAGA
* * * * **
23382944 TGTGATGGGAAGGATTGAGGCTGCAACGGCAAATCCAATAACATGAAGATATGAAGGGAAAGGTG
65 TGTGATGGCAAAGATTAAGGCCGCAACAACAAATCCAATAACATGAAGATATGAAGGGAAAGGTG
* *
23383009 GAGGCCGCAATAGCGAACC
130 GAGGCCACAACAGCGAACC
* * *
23383028 CGGTACCTTAGAAGATGTGATAGG-AAGGATTGAGGCAGCAAC
1 CGGTACCAT-GAAGATGTGATGGGAAAGG-TTGAGGCTGCAAC
23383070 GACGAATCTT
Statistics
Matches: 157, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
148 11 0.07
149 144 0.92
150 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (148 bp):
CGGTACCATGAAGATGTGATGGGAAAGGTTGAGGCTGCAACAAAGAACCCAGTACCTTAAAAGAT
GTGATGGCAAAGATTAAGGCCGCAACAACAAATCCAATAACATGAAGATATGAAGGGAAAGGTGG
AGGCCACAACAGCGAACC
Found at i:23383025 original size:99 final size:100
Alignment explanation
Indices: 23382887--23383106 Score: 282
Period size: 99 Copynumber: 2.2 Consensus size: 100
23382877 CCTGGTACCC
* * * * * *
23382887 TGGAAGATGTGATGGGAAAGGTTGAGGCTACAATGGCGAACCCAGTACCTTAAAAGATGTGATGG
1 TGGAAGATATGAAGGGAAAGGTGGAGGCCACAATAGCGAACCCAGTACCTTAAAAGATGTGATAG
* *
23382952 GAAGGATTGAGGCTGCAACGGCAAATCCAATAACA
66 GAAGGATTGAGGCAGCAACGACAAATCCAATAACA
* * *
23382987 T-GAAGATATGAAGGGAAAGGTGGAGGCCGCAATAGCGAACCCGGTACCTTAGAAGATGTGATAG
1 TGGAAGATATGAAGGGAAAGGTGGAGGCCACAATAGCGAACCCAGTACCTTAAAAGATGTGATAG
* *** *
23383051 GAAGGATTGAGGCAGCAACGACGAATCTTGTACCA
66 GAAGGATTGAGGCAGCAACGACAAATCCAATAACA
23383086 TGGAA-ATATGAAGGGAAAGGT
1 TGGAAGATATGAAGGGAAAGGT
23383107 TGAAATCGTA
Statistics
Matches: 103, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
99 99 0.96
100 4 0.04
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.18
Consensus pattern (100 bp):
TGGAAGATATGAAGGGAAAGGTGGAGGCCACAATAGCGAACCCAGTACCTTAAAAGATGTGATAG
GAAGGATTGAGGCAGCAACGACAAATCCAATAACA
Found at i:23383097 original size:248 final size:248
Alignment explanation
Indices: 23382641--23383109 Score: 645
Period size: 248 Copynumber: 1.9 Consensus size: 248
23382631 GAGGGAACAT
*
23382641 GAAGATATGAAGGGAAAGGTTGAGGCCACAACAGCGAACCCGGTACCTTAAAAGATGTGATGGGA
1 GAAGATATGAAGGGAAAGGTTGAGGCCACAACAGCGAACCCAGTACCTTAAAAGATGTGATGGGA
* * * ** * *
23382706 AGGATTAAGGCCGTAACGGCGAATTCGGTACCATGAAGATATGAAGGGAAAGGTGAAGGCTGCAA
66 AGGATTAAGGCCGCAACGGCAAATCCAATAACATGAAGATATGAAGGGAAAGGTGAAGGCCGCAA
* * *
23382771 CAAAGAACCCAGTACCTTAGAAGATGTGATGGCAAATATTAAGGCCGTAACAACGAATCCAATAC
131 CAAAGAACCCAGTACCTTAGAAGATGTGATGGCAAAGATTAAGGCAGCAACAACGAATCCAATAC
23382836 CATGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGCGAACCTGGTACCCTG
196 CATGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGCGAACCTGGTACCCTG
* * * **
23382889 GAAGATGTGATGGGAAAGGTTGAGGCTACAATGGCGAACCCAGTACCTTAAAAGATGTGATGGGA
1 GAAGATATGAAGGGAAAGGTTGAGGCCACAACAGCGAACCCAGTACCTTAAAAGATGTGATGGGA
* * *
23382954 AGGATTGAGGCTGCAACGGCAAATCCAATAACATGAAGATATGAAGGGAAAGGTGGAGGCCGCAA
66 AGGATTAAGGCCGCAACGGCAAATCCAATAACATGAAGATATGAAGGGAAAGGTGAAGGCCGCAA
* ** * * * * ***
23383019 TAGCGAACCCGGTACCTTAGAAGATGTGATAGG-AAGGATTGAGGCAGCAACGACGAATCTTGTA
131 CAAAGAACCCAGTACCTTAGAAGATGTGAT-GGCAAAGATTAAGGCAGCAACAACGAATCCAATA
23383083 CCATGGAA-ATATGAAGGGAAAGGTTGA
195 CCAT-GAAGATATGAAGGGAAAGGTTGA
23383110 AATCGTAACA
Statistics
Matches: 190, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
248 185 0.97
249 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.17
Consensus pattern (248 bp):
GAAGATATGAAGGGAAAGGTTGAGGCCACAACAGCGAACCCAGTACCTTAAAAGATGTGATGGGA
AGGATTAAGGCCGCAACGGCAAATCCAATAACATGAAGATATGAAGGGAAAGGTGAAGGCCGCAA
CAAAGAACCCAGTACCTTAGAAGATGTGATGGCAAAGATTAAGGCAGCAACAACGAATCCAATAC
CATGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGCGAACCTGGTACCCTG
Found at i:23385246 original size:30 final size:30
Alignment explanation
Indices: 23385221--23385290 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
23385211 AAAATTATAT
23385221 TTTAA-CCCTAAAATTTCCCAAAAATTCAAA
1 TTTAACCCCTAAAATTT-CCAAAAATTCAAA
* *
23385251 TTTAACCCCTAAACTTTCTAAAAATTGC-AA
1 TTTAACCCCTAAAATTTCCAAAAATT-CAAA
23385281 TTTAACCCCT
1 TTTAACCCCT
23385291 TTTTTACTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
30 25 0.69
31 11 0.31
ACGTcount: A:0.40, C:0.26, G:0.01, T:0.33
Consensus pattern (30 bp):
TTTAACCCCTAAAATTTCCAAAAATTCAAA
Found at i:23395171 original size:27 final size:27
Alignment explanation
Indices: 23395110--23395175 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
23395100 CATTGCAAGA
* * *
23395110 TAGGGTTCGCTAGTTGTTTTGGCGAAC
1 TAGGGTTCGCCAGTTGGTTTGGAGAAC
**
23395137 T-GGTGTTCGCCAGTTGGTTTGGAGAGT
1 TAGG-GTTCGCCAGTTGGTTTGGAGAAC
23395164 TAGGGTTCGCCA
1 TAGGGTTCGCCA
23395176 ATTAAGTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.06
27 28 0.88
28 2 0.06
ACGTcount: A:0.14, C:0.15, G:0.36, T:0.35
Consensus pattern (27 bp):
TAGGGTTCGCCAGTTGGTTTGGAGAAC
Found at i:23395755 original size:17 final size:16
Alignment explanation
Indices: 23395733--23395766 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
23395723 AGTGTTATTG
23395733 TTTACGACCCCTGAATA
1 TTTACGACCCCT-AATA
23395750 TTTACGACCCCTAATA
1 TTTACGACCCCTAATA
23395766 T
1 T
23395767 GCATGCGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (16 bp):
TTTACGACCCCTAATA
Found at i:23396618 original size:24 final size:23
Alignment explanation
Indices: 23396563--23396641 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 23
23396553 ATAATCTTTT
*
23396563 AGTTAAACTCTGTTTATTTGGTTCA
1 AGTTAAACT-TGTTTATTT-GTTTA
*
23396588 A-TTAAACTTTGTTTATTTGTTTG
1 AGTTAAAC-TTGTTTATTTGTTTA
* *
23396611 AGTCAAAC-TATTTATTTGTTTA
1 AGTTAAACTTGTTTATTTGTTTA
23396633 AGTTAAACT
1 AGTTAAACT
23396642 ATTATTAGTC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
22 19 0.42
23 4 0.09
24 20 0.44
25 2 0.04
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.51
Consensus pattern (23 bp):
AGTTAAACTTGTTTATTTGTTTA
Found at i:23396627 original size:22 final size:22
Alignment explanation
Indices: 23396599--23396644 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
23396589 TTAAACTTTG
*
23396599 TTTATTTGTTTGAGTCAAACTA
1 TTTATTTGTTTAAGTCAAACTA
*
23396621 TTTATTTGTTTAAGTTAAACTA
1 TTTATTTGTTTAAGTCAAACTA
23396643 TT
1 TT
23396645 ATTAGTCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (22 bp):
TTTATTTGTTTAAGTCAAACTA
Found at i:23405988 original size:18 final size:18
Alignment explanation
Indices: 23405945--23405988 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23405935 AATAAGTCAA
23405945 AATAAAAAGGAAATTTTT
1 AATAAAAAGGAAATTTTT
* *
23405963 AATCAAAATGAAA-TTTT
1 AATAAAAAGGAAATTTTT
23405980 ATATAAAAA
1 A-ATAAAAA
23405989 ATTTTAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (18 bp):
AATAAAAAGGAAATTTTT
Found at i:23406135 original size:30 final size:29
Alignment explanation
Indices: 23406112--23406207 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
23406102 GTTAAATTGC
*
23406112 AATTTTTAAAAAGTTCGAGGGTTAAAATG
1 AATTTTTAAAAAGTTCGAGGGTCAAAATG
* * *
23406141 TAATTTTCAAAAAG-TCTAGAGTCAAAATG
1 -AATTTTTAAAAAGTTCGAGGGTCAAAATG
* * *
23406170 AAATTTTAGAAAGTTCGAGGGGTCAAATTTG
1 AATTTTTAAAAAGTTCGA-GGGTCAAA-ATG
23406201 AATTTTT
1 AATTTTT
23406208 GGGAAAGTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
28 10 0.19
29 15 0.29
30 19 0.37
31 8 0.15
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (29 bp):
AATTTTTAAAAAGTTCGAGGGTCAAAATG
Found at i:23406167 original size:29 final size:30
Alignment explanation
Indices: 23406112--23406188 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
23406102 GTTAAATTGC
* * * *
23406112 AATTTTTAAAAAGTTCGAGGGTTAAAATGT
1 AATTTTCAAAAAGTTCGAGAGTCAAAATGA
*
23406142 AATTTTCAAAAAG-TCTAGAGTCAAAATGA
1 AATTTTCAAAAAGTTCGAGAGTCAAAATGA
*
23406171 AATTTT-AGAAAGTTCGAG
1 AATTTTCAAAAAGTTCGAG
23406189 GGGTCAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 5 0.13
29 22 0.56
30 12 0.31
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.32
Consensus pattern (30 bp):
AATTTTCAAAAAGTTCGAGAGTCAAAATGA
Found at i:23406197 original size:29 final size:29
Alignment explanation
Indices: 23406115--23406197 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 29
23406105 AAATTGCAAT
* * *
23406115 TTTTAAAAAGTTCGAGGGTTAAAATGTAA
1 TTTTAAAAAGTTCGAGGGGTCAAATGAAA
* *
23406144 TTTTCAAAAAG-TCTA-GAGTCAAAATGAAA
1 TTTT-AAAAAGTTCGAGGGGTC-AAATGAAA
*
23406173 TTTTAGAAAGTTCGAGGGGTCAAAT
1 TTTTAAAAAGTTCGAGGGGTCAAAT
23406198 TTGAATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
28 7 0.17
29 25 0.60
30 10 0.24
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.31
Consensus pattern (29 bp):
TTTTAAAAAGTTCGAGGGGTCAAATGAAA
Found at i:23408078 original size:42 final size:42
Alignment explanation
Indices: 23408023--23408135 Score: 174
Period size: 42 Copynumber: 2.7 Consensus size: 42
23408013 GATTGGATGA
* *
23408023 CTTCAATCTGCCCCATGATCGGGGTAAGATATTAGATGATAT
1 CTTCAATCAGCCCCATGATCGGGGTAAGAGATTAGATGATAT
* *
23408065 CTTCAATCAGCCCCATGATCGGGGTAAGAGATTGGATGATGT
1 CTTCAATCAGCCCCATGATCGGGGTAAGAGATTAGATGATAT
23408107 CTTCAATCTA-CCCCATGATCGGGGTAAGA
1 CTTCAATC-AGCCCCATGATCGGGGTAAGA
23408136 ATTGGACAGC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
42 65 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (42 bp):
CTTCAATCAGCCCCATGATCGGGGTAAGAGATTAGATGATAT
Found at i:23408532 original size:99 final size:99
Alignment explanation
Indices: 23408421--23408646 Score: 276
Period size: 99 Copynumber: 2.3 Consensus size: 99
23408411 AAGGTATAAA
* *
23408421 GTTCGTCATTGCGGCTTCAACCTTTCCCTCCATAT-TTCCATGGTA-CAAGATTCGCCGTTGCAG
1 GTTCGTCATTGCGGCCTCAACCTTTCCCTCCATATCTT-CATGGTATCAA-ATTCACCGTTGCAG
* * **
23408484 CCTTAATCCTTCTCACCACATCTTCTAAGGTACTGG
64 CCTCAATCCTTCCCACCACATCTTCTAAGAAACTGG
* * * * *
23408520 GTTTGTCATTGCGGCCTCCACCTTTCCCTTCATATCTTCATGGTATCGAATTCATCGTTGCAGCC
1 GTTCGTCATTGCGGCCTCAACCTTTCCCTCCATATCTTCATGGTATCAAATTCACCGTTGCAGCC
* *
23408585 TCAATCCTTCCCATCACATCTTTTAAGAAACTGG
66 TCAATCCTTCCCACCACATCTTCTAAGAAACTGG
* **
23408619 GTTCGCCATTGCATCCTCAACCTTTCCC
1 GTTCGTCATTGCGGCCTCAACCTTTCCC
23408647 ATCACATCTT
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 103 0.96
100 4 0.04
ACGTcount: A:0.19, C:0.32, G:0.15, T:0.34
Consensus pattern (99 bp):
GTTCGTCATTGCGGCCTCAACCTTTCCCTCCATATCTTCATGGTATCAAATTCACCGTTGCAGCC
TCAATCCTTCCCACCACATCTTCTAAGAAACTGG
Found at i:23408557 original size:50 final size:50
Alignment explanation
Indices: 23408500--23408905 Score: 292
Period size: 50 Copynumber: 8.2 Consensus size: 50
23408490 TCCTTCTCAC
* * * *
23408500 CACATCTTCTAAGGTA-CTGGGTTTGTCATTGCGGCCTCCACCTTTCCCTT
1 CACATCTTCTAAGGTATC-GGGTTCGCCATTGCGGCCTCAACCTTTCCCAT
* * ** ** * *
23408550 CATATCTTC-ATGGTATCGAATTCATCGTTGCAGCCTCAATCC-TTCCCAT
1 CACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAA-CCTTTCCCAT
* * * **
23408599 CACATCTTTTAA-GAAACTGGGTTCGCCATTGCATCCTCAACCTTTCCCAT
1 CACATCTTCTAAGGTATC-GGGTTCGCCATTGCGGCCTCAACCTTTCCCAT
* * ** *
23408649 CACATCTTCTAGGGTA-CTGGGTTCGCCGTTATGGCCTCAACCTTTCCCGT
1 CACATCTTCTAAGGTATC-GGGTTCGCCATTGCGGCCTCAACCTTTCCCAT
* * * * * **
23408699 CATATCTTC-ATGGTATCGGATTCGTCATTGTGGCCTCAATATTTCCCAT
1 CACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAACCTTTCCCAT
* ** *
23408748 CACATCTTCTAAGGTA-CAGGGTTCGTCATTGTAGCCTTC-ACCTTTCCCTT
1 CACATCTTCTAAGGTATC-GGGTTCGCCATTGCGGCC-TCAACCTTTCCCAT
* * * * *
23408798 CATATCTTC-ATGGTATCGGATTCGCCGTTGCGACCTCAATCC-TTCCCAT
1 CACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAA-CCTTTCCCAT
* * * *
23408847 CACATCTTTTAAGGTATCGAGTTCGCCGTTGCGGCCTCAACCTTTCCCTT
1 CACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAACCTTTCCCAT
*
23408897 CATATCTTC
1 CACATCTTC
23408906 ATGTGCCCTC
Statistics
Matches: 277, Mismatches: 64, Indels: 30
0.75 0.17 0.08
Matches are distributed among these distances:
48 2 0.01
49 110 0.40
50 161 0.58
51 4 0.01
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (50 bp):
CACATCTTCTAAGGTATCGGGTTCGCCATTGCGGCCTCAACCTTTCCCAT
Found at i:23408668 original size:149 final size:149
Alignment explanation
Indices: 23408471--23408806 Score: 388
Period size: 149 Copynumber: 2.3 Consensus size: 149
23408461 TGGTACAAGA
* * * * * * *
23408471 TTCGCCGTTGCAGCCTTAATCC-TTCTCACCACATCTTCTAAGGTACTGGGTTTGTCATTGCGGC
1 TTCGCCATTGCAGCCTTCA-CCTTTCCCATCACATCTTCTAAGGTACTGGGTTCGCCATTACGGC
* * * *
23408535 CTCCACCTTTCCCTTCATATCTTCATGGTATCGAATTCATCGTTGCAGCCTCAATCCTTCCCATC
65 CTCAACCTTTCCCGTCATATCTTCATGGTATCGAATTCATCATTGCAGCCTCAATACTTCCCATC
* *
23408600 ACATCTTTTAAGAAACTGGG
130 ACATCTTCTAAGAAACAGGG
* * * *
23408620 TTCGCCATTGCATCC-TCAACCTTTCCCATCACATCTTCTAGGGTACTGGGTTCGCCGTTATGGC
1 TTCGCCATTGCAGCCTTC-ACCTTTCCCATCACATCTTCTAAGGTACTGGGTTCGCCATTACGGC
* * ** *
23408684 CTCAACCTTTCCCGTCATATCTTCATGGTATCGGATTCGTCATTGTGGCCTCAATATTTCCCATC
65 CTCAACCTTTCCCGTCATATCTTCATGGTATCGAATTCATCATTGCAGCCTCAATACTTCCCATC
**
23408749 ACATCTTCTAAGGTACAGGG
130 ACATCTTCTAAGAAACAGGG
* * * *
23408769 TTCGTCATTGTAGCCTTCACCTTTCCCTTCATATCTTC
1 TTCGCCATTGCAGCCTTCACCTTTCCCATCACATCTTC
23408807 ATGGTATCGG
Statistics
Matches: 155, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
148 3 0.02
149 150 0.97
150 2 0.01
ACGTcount: A:0.18, C:0.31, G:0.15, T:0.35
Consensus pattern (149 bp):
TTCGCCATTGCAGCCTTCACCTTTCCCATCACATCTTCTAAGGTACTGGGTTCGCCATTACGGCC
TCAACCTTTCCCGTCATATCTTCATGGTATCGAATTCATCATTGCAGCCTCAATACTTCCCATCA
CATCTTCTAAGAAACAGGG
Found at i:23408728 original size:99 final size:98
Alignment explanation
Indices: 23408620--23408908 Score: 359
Period size: 99 Copynumber: 2.9 Consensus size: 98
23408610 AGAAACTGGG
* *
23408620 TTCGCCATTGCATCCTCAACCTTTCCCATCACATCTTCTAGGGTACTGGGTTCGCCGTTATGGCC
1 TTCGCCATTGCA-CCTCAACCTTTCCCATCACATCTTCTAAGGTACTGGGTTCGCCGTTGTGGCC
*
23408685 TCAACCTTTCCCGTCATATCTTCATGGTATCGGA
65 TCAACCTTTCCCTTCATATCTTCATGGTATCGGA
* ** ** * * * *
23408719 TTCGTCATTGTGGCCTCAATATTTCCCATCACATCTTCTAAGGTACAGGGTTCGTCATTGTAGCC
1 TTCGCCATTG-CACCTCAACCTTTCCCATCACATCTTCTAAGGTACTGGGTTCGCCGTTGTGGCC
23408784 TTC-ACCTTTCCCTTCATATCTTCATGGTATCGGA
65 -TCAACCTTTCCCTTCATATCTTCATGGTATCGGA
* * * *
23408818 TTCGCCGTTGCGACCTCAATCC-TTCCCATCACATCTTTTAAGGTA-TCGAGTTCGCCGTTGCGG
1 TTCGCCATTGC-ACCTCAA-CCTTTCCCATCACATCTTCTAAGGTACT-GGGTTCGCCGTTGTGG
23408881 CCTCAACCTTTCCCTTCATATCTTCATG
63 CCTCAACCTTTCCCTTCATATCTTCATG
23408909 TGCCCTCGAT
Statistics
Matches: 159, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
98 2 0.01
99 155 0.97
100 2 0.01
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (98 bp):
TTCGCCATTGCACCTCAACCTTTCCCATCACATCTTCTAAGGTACTGGGTTCGCCGTTGTGGCCT
CAACCTTTCCCTTCATATCTTCATGGTATCGGA
Found at i:23408863 original size:149 final size:149
Alignment explanation
Indices: 23408471--23408905 Score: 360
Period size: 149 Copynumber: 2.9 Consensus size: 149
23408461 TGGTACAAGA
* * * * * * * * * * *
23408471 TTCGCCGTTGCAGCCTTAATCC-TTCTCACCACATCTTCTAAGGTACTGGGTTTGTCATTGCGGC
1 TTCGCCATTGCAGCCTCAA-CCTTTCCCATCACATCTTCTAGGGTACTGGATTCGCCGTTACGAC
* * * * * ** * * *
23408535 CTCCACCTTTCCCTTCATATCTTCATGGTATCGAATTCATCGTTGCAGCCTCAATCCTTCCCATC
65 CTCAACCTTTCCCATCACATCTTCAAGGTATCGAGTTCGCCATTGCGGCCTCAATCTTTCCCATC
* *
23408600 ACATCTTTTAAGAAACTGGG
130 ACATCTTCTAAGAAACAGGG
* * * *
23408620 TTCGCCATTGCATCCTCAACCTTTCCCATCACATCTTCTAGGGTACTGGGTTCGCCGTTATGGCC
1 TTCGCCATTGCAGCCTCAACCTTTCCCATCACATCTTCTAGGGTACTGGATTCGCCGTTACGACC
* * * * * *
23408685 TCAACCTTTCCCGTCATATCTTCATGGTATCG-GATTCGTCATTGTGGCCTCAATATTTCCCATC
66 TCAACCTTTCCCATCACATCTTCAAGGTATCGAG-TTCGCCATTGCGGCCTCAATCTTTCCCATC
**
23408749 ACATCTTCTAAGGTACAGGG
130 ACATCTTCTAAGAAACAGGG
* * * * * *
23408769 TTCGTCATTGTAGCCTTC-ACCTTTCCCTTCATATCTTC-ATGGTA-TCGGATTCGCCGTTGCGA
1 TTCGCCATTGCAGCC-TCAACCTTTCCCATCACATCTTCTAGGGTACT-GGATTCGCCGTTACGA
* * *
23408831 CCTCAATCC-TTCCCATCACATCTTTTAAGGTATCGAGTTCGCCGTTGCGGCCTCAACCTTTCCC
64 CCTCAA-CCTTTCCCATCACATC-TTCAAGGTATCGAGTTCGCCATTGCGGCCTCAATCTTTCCC
* *
23408895 TTCATATCTTC
127 ATCACATCTTC
23408906 ATGTGCCCTC
Statistics
Matches: 234, Mismatches: 45, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
147 1 0.00
148 36 0.15
149 194 0.83
150 3 0.01
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (149 bp):
TTCGCCATTGCAGCCTCAACCTTTCCCATCACATCTTCTAGGGTACTGGATTCGCCGTTACGACC
TCAACCTTTCCCATCACATCTTCAAGGTATCGAGTTCGCCATTGCGGCCTCAATCTTTCCCATCA
CATCTTCTAAGAAACAGGG
Found at i:23409868 original size:6 final size:6
Alignment explanation
Indices: 23409851--23409922 Score: 58
Period size: 6 Copynumber: 11.8 Consensus size: 6
23409841 ACCTCTCCTT
*
23409851 TTTTTCC TTTTTC TTTTT- TTCTTTC TTTTTTC TTTTTC TTTTTC TCTTTC
1 TTTTT-C TTTTTC TTTTTC TT-TTTC -TTTTTC TTTTTC TTTTTC TTTTTC
* * * *
23409901 CTCTT- TTTTTA TTTTTA TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTT
23409923 TGGGGGTGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
5 5 0.09
6 39 0.71
7 9 0.16
8 2 0.04
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:23409879 original size:17 final size:17
Alignment explanation
Indices: 23409848--23409891 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
23409838 TCGACCTCTC
*
23409848 CTTTTT-TTCCTTTTTCT
1 CTTTTTCTTTCTTTTT-T
*
23409865 TTTTTTCTTTCTTTTTT
1 CTTTTTCTTTCTTTTTT
23409882 CTTTTTCTTT
1 CTTTTTCTTT
23409892 TTCTCTTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
CTTTTTCTTTCTTTTTT
Found at i:23409879 original size:25 final size:25
Alignment explanation
Indices: 23409851--23409900 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
23409841 ACCTCTCCTT
*
23409851 TTTTTCCTTTTTCTTTTTTTCTTTC
1 TTTTTCCTTTTTCTTTTTCTCTTTC
*
23409876 TTTTTTCTTTTTCTTTTTCTCTTTC
1 TTTTTCCTTTTTCTTTTTCTCTTTC
23409901 CTCTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTCCTTTTTCTTTTTCTCTTTC
Found at i:23409880 original size:19 final size:18
Alignment explanation
Indices: 23409849--23409910 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 18
23409839 CGACCTCTCC
*
23409849 TTTTTTTCCTTTTTCTTT
1 TTTTTTTCTTTTTTCTTT
23409867 TTTTCTTTCTTTTTTCTTT
1 TTTT-TTTCTTTTTTCTTT
*
23409886 TTCTTTTTCTCTTTCCTCTTT
1 TT-TTTTTCT-TTT-TTCTTT
23409907 TTTT
1 TTTT
23409911 ATTTTTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.11
19 20 0.53
20 7 0.18
21 7 0.18
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTTCTTTTTTCTTT
Found at i:23410453 original size:81 final size:81
Alignment explanation
Indices: 23410348--23410514 Score: 246
Period size: 81 Copynumber: 2.1 Consensus size: 81
23410338 CCCCAACAAA
* * *
23410348 TCTTGATTGATGTTTAATAGGCGTAGAGAGAAAATGATAACTTCTCATACAAATCTTTGCAAGTC
1 TCTTGATTCATGTTCAATAAGCGTAGAGAGAAAATGATAACTTCTCATACAAATCTTTGCAAGTC
23410413 TCT-ATCTTCTTGATAT
66 T-TGATCTTCTTGATAT
* * * * *
23410429 TCTTGATTCATGTTCAATAAGCGTAGAGAGCAAATGATAACTTCTCATGCCAATCTTTGTAGGTC
1 TCTTGATTCATGTTCAATAAGCGTAGAGAGAAAATGATAACTTCTCATACAAATCTTTGCAAGTC
23410494 TTGATCTTCTTGATAT
66 TTGATCTTCTTGATAT
23410510 TCTTG
1 TCTTG
23410515 TTAACTGCCT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.01
81 76 0.99
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (81 bp):
TCTTGATTCATGTTCAATAAGCGTAGAGAGAAAATGATAACTTCTCATACAAATCTTTGCAAGTC
TTGATCTTCTTGATAT
Found at i:23415254 original size:30 final size:28
Alignment explanation
Indices: 23415232--23415407 Score: 99
Period size: 30 Copynumber: 6.0 Consensus size: 28
23415222 GTTAAATTGC
* *
23415232 AATTTTCAAAAAGTTTGAGGGTTAAAATAT
1 AATTTTCAAAAAGTTT-AGGGTCAAAAT-G
*
23415262 AATTCTT-AGAAAG-TTAGGGTCAAAATG
1 AATT-TTCAAAAAGTTTAGGGTCAAAATG
*
23415289 ATATTTTTAAAAAGTTTAAGGGTCAAAATG
1 A-ATTTTCAAAAAGTTT-AGGGTCAAAATG
* *
23415319 AAATTTTCAAAAA-TATAAGGGAACAAAAATG
1 -AATTTTCAAAAAGT-TTAGGG-TC-AAAATG
* * *
23415350 AAATTTT-AGAAAGTTTGGGGGTCAAATTTG
1 -AATTTTCAAAAAGTTT-AGGGTCAAA-ATG
** *
23415380 AATTTTTGGAAAAGTTTAGGGTTAAAAT
1 AA-TTTTCAAAAAGTTTAGGGTCAAAAT
23415408 ATAATTTTAA
Statistics
Matches: 115, Mismatches: 17, Indels: 29
0.71 0.11 0.18
Matches are distributed among these distances:
27 3 0.03
28 18 0.16
29 15 0.13
30 52 0.45
31 27 0.23
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (28 bp):
AATTTTCAAAAAGTTTAGGGTCAAAATG
Found at i:23416571 original size:9 final size:9
Alignment explanation
Indices: 23416557--23416581 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23416547 TTAGTTTAGG
23416557 ATTTGGGCC
1 ATTTGGGCC
23416566 ATTTGGGCC
1 ATTTGGGCC
23416575 ATTTGGG
1 ATTTGGG
23416582 TAATTGGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.16, G:0.36, T:0.36
Consensus pattern (9 bp):
ATTTGGGCC
Found at i:23429412 original size:81 final size:81
Alignment explanation
Indices: 23429271--23429431 Score: 277
Period size: 81 Copynumber: 2.0 Consensus size: 81
23429261 TTAGTGCTAA
* * *
23429271 AGGTCTTATTTATAGCTTTACATGGTCGTTTTTCCTCGACCCTAAGTTAGTTACCGTCCTTCGTG
1 AGGTCTTATTTATAGCTTTACATGGTCGTTTTTCCTCGAACCTAAGTCAGTTACCATCCTTCGTG
23429336 TTTAAATTGTATTGTG
66 TTTAAATTGTATTGTG
* *
23429352 AGGTCTTATTTATAGCTTTACATGGTCGTTTTTCCTCTAACCTAAGTCAGTTATCATCCTTCGTG
1 AGGTCTTATTTATAGCTTTACATGGTCGTTTTTCCTCGAACCTAAGTCAGTTACCATCCTTCGTG
23429417 TTTAAATTGTATTGT
66 TTTAAATTGTATTGT
23429432 AAAGATGAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.45
Consensus pattern (81 bp):
AGGTCTTATTTATAGCTTTACATGGTCGTTTTTCCTCGAACCTAAGTCAGTTACCATCCTTCGTG
TTTAAATTGTATTGTG
Found at i:23433509 original size:18 final size:18
Alignment explanation
Indices: 23433486--23433552 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
23433476 CAGCCTGATC
23433486 AGATGCAGTCACATACTT
1 AGATGCAGTCACATACTT
* * *
23433504 AGATGCAGTCATATAATC
1 AGATGCAGTCACATACTT
** *
23433522 AGATGCAACCACATGCTT
1 AGATGCAGTCACATACTT
23433540 -GAATGCAGTCACA
1 AG-ATGCAGTCACA
23433553 ACAGACTGTG
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
17 1 0.03
18 36 0.97
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (18 bp):
AGATGCAGTCACATACTT
Found at i:23440122 original size:17 final size:17
Alignment explanation
Indices: 23440100--23440147 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
23440090 TTTTATCTAG
23440100 TTGTCATTACATTTTAA
1 TTGTCATTACATTTTAA
* * *
23440117 TTGTCACTGCATTTTAC
1 TTGTCATTACATTTTAA
* *
23440134 TTGTTATCACATTT
1 TTGTCATTACATTT
23440148 GCATTGTAGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (17 bp):
TTGTCATTACATTTTAA
Found at i:23447061 original size:11 final size:11
Alignment explanation
Indices: 23447045--23447079 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
23447035 TGTTTTAATA
*
23447045 TATTTTAACTT
1 TATTTTAACAT
23447056 TATTTTAACAT
1 TATTTTAACAT
*
23447067 TAATTTAACAT
1 TATTTTAACAT
23447078 TA
1 TA
23447080 AAATAACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (11 bp):
TATTTTAACAT
Found at i:23449600 original size:20 final size:20
Alignment explanation
Indices: 23449522--23449605 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
23449512 GCTTGGAGCT
* *
23449522 ATTTTGACTTGTTTGAAAAAC
1 ATTTTGACATGTTT-AAAATC
*
23449543 ATTTTGA-A-GTGTTAAAATG
1 ATTTTGACATGT-TTAAAATC
* * * *
23449562 ATTTTGACTTATTTCAAATT
1 ATTTTGACATGTTTAAAATC
23449582 ATTTTGACATGTTTAAAATC
1 ATTTTGACATGTTTAAAATC
23449602 ATTT
1 ATTT
23449606 CTAATAGTTG
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
19 13 0.27
20 28 0.57
21 8 0.16
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (20 bp):
ATTTTGACATGTTTAAAATC
Found at i:23450064 original size:522 final size:523
Alignment explanation
Indices: 23449078--23450127 Score: 1967
Period size: 522 Copynumber: 2.0 Consensus size: 523
23449068 CCCCAAATTG
* * *
23449078 ATTTCTAAAAGTTGTGGTTGTTGGTGTAATAATTGTAGCTGTTGGAGATGAAAAACCAGAGTATT
1 ATTTCTAAAAGTTGTGGTTATTGGTGTAATAATTATAGCTGTTGGAGATGAAAAACCAGAGCATT
*
23449143 TATGTTATCTGCAACTTCAAGTATCGATACCATACAAAAGGGTATCGATATTTTTTGTAATTAAT
66 TATGTCA-CTGCAACTTCAAGTATCGATACCATACAAAAGGGTATCGATATTTTTTGTAATTAAT
*
23449208 GCAAACTCAGTGACCGTTGGTACCTTTAAAAATCGATACCAAAAATAAAATATTGGTACCTTCTC
130 GCAAACTCAGTGACCGTTGGTACCTTTAAAAATCGATACCAAAAATAAAAGATTGGTACCTTCTC
* *
23449273 TAAAAGGTATCGATACTGGATCGATACCTCCTAGGGTTTGTGGAAAACATAATGGTCTTTTGATA
195 CAAAAGGTATCGATACCGGATCGATACCTCCTAGGGTTTGTGGAAAACATAATGGTCTTTTGATA
23449338 TTGTTTTTAAGCAAGGGTATCAATGCTTTTAAGAAATTATCGATACCTATAAATTGGTATCGATA
260 TTGTTTTTAAGCAAGGGTATCAATGCTTTTAAGAAATTATCGATACCTATAAATTGGTATCGATA
23449403 TTTTTCAAGTGTTGTCGAAACAAAATACAAGTTTCGTCTCGATTTTTCAAAGGGTACCGATATTT
325 TTTTTCAAGTGTTGTCGAAACAAAATACAAGTTTCGTCTCGATTTTTCAAAGGGTACCGATATTT
*
23449468 TAAGAATTAGCGATACTTGGCCAAAAAAGTATCGATACTTTTTGGCTTGGAGCTATTTTGACTTG
390 TAAGAATTAGCGATACTTGGCCAAAAAAGTACCGATACTTTTTGGCTTGGAGCTATTTTGACTTG
23449533 TTTGAAAAACATTTTGAAGTGTTAAAATGATTTTGACTTATTTCAAATTATTTTGACATGTTTAA
455 TTTGAAAAACATTTTGAAGTGTTAAAATGATTTTGACTTATTTCAAATTATTTTGACATGTTTAA
23449598 AATC
520 AATC
*
23449602 ATTTCTAATAGTTGTGGTTATTGGTGTAATAATTATAGCTGTTGGAGATGAAAAACCAGAGCATT
1 ATTTCTAAAAGTTGTGGTTATTGGTGTAATAATTATAGCTGTTGGAGATGAAAAACCAGAGCATT
*
23449667 TATGTCA-TGCAACTTTAAGTATCGATACCATACAAAAGGGTATCGATATTTTTTGTAATTAATG
66 TATGTCACTGCAACTTCAAGTATCGATACCATACAAAAGGGTATCGATATTTTTTGTAATTAATG
* *
23449731 CAAAGTCAGTGACCGTTGGTACCTTTAAAAATTGATACCAAAAATAAAAGATTGGTACCTTCTCC
131 CAAACTCAGTGACCGTTGGTACCTTTAAAAATCGATACCAAAAATAAAAGATTGGTACCTTCTCC
23449796 AAAAGGTATCGATACCGGATCGATACCTCCTAGGGTTTGTGGAAAACATAATGGTCTTTTGATAT
196 AAAAGGTATCGATACCGGATCGATACCTCCTAGGGTTTGTGGAAAACATAATGGTCTTTTGATAT
*
23449861 TGTTTTTAAGCAAGGGTATCGATGCTTTTAAGAAATTATCGATACCTATAAATTGGTATCGATAT
261 TGTTTTTAAGCAAGGGTATCAATGCTTTTAAGAAATTATCGATACCTATAAATTGGTATCGATAT
23449926 TTTTCAAGTGTTGTCGAAACAAAATACAAGTTTCGTCTCGATTTTTCAAAGGGTACCGATATTTT
326 TTTTCAAGTGTTGTCGAAACAAAATACAAGTTTCGTCTCGATTTTTCAAAGGGTACCGATATTTT
23449991 AAGAATTAGCGATACTTGGCCAAAAAAGTACCGATACTTTTTGGCTTGGAGCTATTTTGACTTGT
391 AAGAATTAGCGATACTTGGCCAAAAAAGTACCGATACTTTTTGGCTTGGAGCTATTTTGACTTGT
23450056 TTGAAAAACATTTTGAAGTGTTAAAATGATTTTGACTTATTTCAAATTATTTTGACATGTTTAAA
456 TTGAAAAACATTTTGAAGTGTTAAAATGATTTTGACTTATTTCAAATTATTTTGACATGTTTAAA
23450121 ATC
521 ATC
23450124 ATTT
1 ATTT
23450128 TAACTTGATT
Statistics
Matches: 513, Mismatches: 13, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
522 446 0.87
524 67 0.13
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (523 bp):
ATTTCTAAAAGTTGTGGTTATTGGTGTAATAATTATAGCTGTTGGAGATGAAAAACCAGAGCATT
TATGTCACTGCAACTTCAAGTATCGATACCATACAAAAGGGTATCGATATTTTTTGTAATTAATG
CAAACTCAGTGACCGTTGGTACCTTTAAAAATCGATACCAAAAATAAAAGATTGGTACCTTCTCC
AAAAGGTATCGATACCGGATCGATACCTCCTAGGGTTTGTGGAAAACATAATGGTCTTTTGATAT
TGTTTTTAAGCAAGGGTATCAATGCTTTTAAGAAATTATCGATACCTATAAATTGGTATCGATAT
TTTTCAAGTGTTGTCGAAACAAAATACAAGTTTCGTCTCGATTTTTCAAAGGGTACCGATATTTT
AAGAATTAGCGATACTTGGCCAAAAAAGTACCGATACTTTTTGGCTTGGAGCTATTTTGACTTGT
TTGAAAAACATTTTGAAGTGTTAAAATGATTTTGACTTATTTCAAATTATTTTGACATGTTTAAA
ATC
Found at i:23450122 original size:20 final size:20
Alignment explanation
Indices: 23450044--23450128 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
23450034 GCTTGGAGCT
* *
23450044 ATTTTGACTTGTTTGAAAAAC
1 ATTTTGACATGTTT-AAAATC
*
23450065 ATTTTGA-A-GTGTTAAAATG
1 ATTTTGACATGT-TTAAAATC
* * * *
23450084 ATTTTGACTTATTTCAAATT
1 ATTTTGACATGTTTAAAATC
23450104 ATTTTGACATGTTTAAAATC
1 ATTTTGACATGTTTAAAATC
23450124 ATTTT
1 ATTTT
23450129 AACTTGATTT
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
19 13 0.26
20 29 0.58
21 8 0.16
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (20 bp):
ATTTTGACATGTTTAAAATC
Found at i:23452270 original size:20 final size:20
Alignment explanation
Indices: 23452234--23452272 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23452224 CTATGGTTTC
*
23452234 GATATTTTTTCACAAGTATT
1 GATATTTTTTCAAAAGTATT
23452254 GATATTTTTAT-AAAAGTAT
1 GATATTTTT-TCAAAAGTAT
23452273 CAGTAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (20 bp):
GATATTTTTTCAAAAGTATT
Found at i:23456667 original size:29 final size:30
Alignment explanation
Indices: 23456633--23456691 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
23456623 TATGGTTTAA
*
23456633 TGTGCAATTGTATACCTG-AACTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
* *
23456662 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
23456692 GATCAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.47
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAACTTTGATTT
Found at i:23456946 original size:29 final size:27
Alignment explanation
Indices: 23456880--23456946 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
23456870 AAGTTTCACG
*
23456880 TGTATAATTGCACCAAATTAAAATTCA
1 TGTATAATTGCACCAAATCAAAATTCA
* *
23456907 TGTATACAATTGCACATTAAATCAAAGTTCA
1 TGTAT--AATTGCAC--CAAATCAAAATTCA
23456938 TGTATAATT
1 TGTATAATT
23456947 TTGAGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
29 12 0.36
31 16 0.48
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (27 bp):
TGTATAATTGCACCAAATCAAAATTCA
Found at i:23470252 original size:14 final size:14
Alignment explanation
Indices: 23470233--23470264 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
23470223 ATACTAACTC
23470233 CATTTAATCTCACA
1 CATTTAATCTCACA
23470247 CATTTAATCTCACA
1 CATTTAATCTCACA
23470261 CATT
1 CATT
23470265 CATTTACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (14 bp):
CATTTAATCTCACA
Found at i:23474600 original size:21 final size:19
Alignment explanation
Indices: 23474562--23474600 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
23474552 TCACTACTTC
*
23474562 CTTCATTTTCTCATTTAAT
1 CTTCATTTTCTCAATTAAT
23474581 CTTCATTGTTGCTCAATTAA
1 CTTCATT-TT-CTCAATTAA
23474601 CTATTTCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (19 bp):
CTTCATTTTCTCAATTAAT
Found at i:23476272 original size:18 final size:17
Alignment explanation
Indices: 23476251--23476296 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
23476241 AGCTTGTGGT
*
23476251 TGCATCTGATTGTATGA
1 TGCATCTGATTCTATGA
*
23476268 CTGCATCTGGTTCTATGA
1 -TGCATCTGATTCTATGA
23476286 TCGCATCTGAT
1 T-GCATCTGAT
23476297 CAGGCTGCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (17 bp):
TGCATCTGATTCTATGA
Found at i:23483066 original size:22 final size:22
Alignment explanation
Indices: 23483023--23483066 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
23483013 TGGAAAATTT
*
23483023 AATAATTTTATTATTTCAAAAA
1 AATAATTTTATAATTTCAAAAA
*
23483045 AATAATTTTAATAATTTTAAAA
1 AATAATTTT-ATAATTTCAAAA
23483067 TCATTTGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAATTTTATAATTTCAAAAA
Found at i:23486385 original size:12 final size:12
Alignment explanation
Indices: 23486370--23486394 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23486360 TTCTTCTTCA
23486370 TCTTCTTTCTCT
1 TCTTCTTTCTCT
23486382 TCTTCTTTCTCT
1 TCTTCTTTCTCT
23486394 T
1 T
23486395 TCTTGTCTTG
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (12 bp):
TCTTCTTTCTCT
Found at i:23502043 original size:5 final size:5
Alignment explanation
Indices: 23502033--23502080 Score: 60
Period size: 5 Copynumber: 9.2 Consensus size: 5
23502023 TATACTGAGT
* *
23502033 AATAA AATAA AATGA AATAAA AATAAA AATAA AATAG AATAA AATAA A
1 AATAA AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA A
23502081 TGTTCCTTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 28 0.74
6 10 0.26
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:23502057 original size:16 final size:14
Alignment explanation
Indices: 23502033--23502081 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 14
23502023 TATACTGAGT
23502033 AATAAAATAAAATGA
1 AATAAAATAAAAT-A
23502048 AATAAAAATAAAAATAA
1 AAT-AAAAT-AAAAT-A
*
23502065 AATAGAATAAAATA
1 AATAAAATAAAATA
23502079 AAT
1 AAT
23502082 GTTCCTTCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 4 0.13
15 8 0.27
16 9 0.30
17 9 0.30
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:23502061 original size:22 final size:21
Alignment explanation
Indices: 23502036--23502080 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
23502026 ACTGAGTAAT
23502036 AAAATAAAAT-GAAATAAAAATA
1 AAAATAAAATAG-AAT-AAAATA
23502058 AAAATAAAATAGAATAAAATA
1 AAAATAAAATAGAATAAAATA
23502079 AA
1 AA
23502081 TGTTCCTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.36
22 13 0.59
23 1 0.05
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (21 bp):
AAAATAAAATAGAATAAAATA
Found at i:23512471 original size:41 final size:43
Alignment explanation
Indices: 23512426--23512650 Score: 142
Period size: 42 Copynumber: 5.3 Consensus size: 43
23512416 TTCATAGGTT
* * *
23512426 CATAAGTCTTCCTTTTTAAAC-AATCTTATGCTC-TACCGAGG
1 CATAAGTCTTCCTTTTCAAACAAATCTCATGCTCATACCGAGA
* * *
23512467 CATAAGTCTTCATTTTCAAACATAATCTCATGCTCATTCTGAGA
1 CATAAGTCTTCCTTTTCAAACA-AATCTCATGCTCATACCGAGA
* * *
23512511 CATGAGTCTTCC-TTT-AAACATAATCTCATTCTCAT-CCTTAGA
1 CATAAGTCTTCCTTTTCAAACA-AATCTCATGCTCATACC-GAGA
* * * * * * *
23512553 CATGAGTCTTCC-TTTCTAAACATATTCTCGTGCTTATTCTGAGT
1 CATAAGTCTTCCTTTTC-AAACA-AATCTCATGCTCATACCGAGA
* * * * *
23512597 CATGAGTCTTCC-TCT-AAACATATTCTCATGCTCATTCCAAGA
1 CATAAGTCTTCCTTTTCAAACA-AATCTCATGCTCATACCGAGA
*
23512639 CATGAGTCTTCC
1 CATAAGTCTTCC
23512651 ATTTATACAT
Statistics
Matches: 153, Mismatches: 24, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
41 20 0.13
42 71 0.46
43 14 0.09
44 47 0.31
45 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (43 bp):
CATAAGTCTTCCTTTTCAAACAAATCTCATGCTCATACCGAGA
Found at i:23512536 original size:42 final size:43
Alignment explanation
Indices: 23512471--23512660 Score: 215
Period size: 42 Copynumber: 4.4 Consensus size: 43
23512461 CCGAGGCATA
23512471 AGTCTT-CATTTTCAAACATAATCTCATGCTCATTCTGAGACATG
1 AGTCTTCCA-TTT-AAACATAATCTCATGCTCATTCTGAGACATG
* * *
23512515 AGTCTTCC-TTTAAACATAATCTCATTCTCATCCTTAGACATG
1 AGTCTTCCATTTAAACATAATCTCATGCTCATTCTGAGACATG
* * * * *
23512557 AGTCTTCCTTTCTAAACATATTCTCGTGCTTATTCTGAGTCATG
1 AGTCTTCCATT-TAAACATAATCTCATGCTCATTCTGAGACATG
* * **
23512601 AGTCTTCC-TCTAAACATATTCTCATGCTCATTCCAAGACATG
1 AGTCTTCCATTTAAACATAATCTCATGCTCATTCTGAGACATG
*
23512643 AGTCTTCCATTTATACAT
1 AGTCTTCCATTTAAACAT
23512661 CAAGTGTTTC
Statistics
Matches: 124, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
42 71 0.57
43 13 0.10
44 39 0.31
45 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (43 bp):
AGTCTTCCATTTAAACATAATCTCATGCTCATTCTGAGACATG
Found at i:23512592 original size:86 final size:86
Alignment explanation
Indices: 23512471--23512650 Score: 247
Period size: 86 Copynumber: 2.1 Consensus size: 86
23512461 CCGAGGCATA
* *
23512471 AGTCTTCATTTTCAAACATAATCTCATGCTCATTCTGAGACATGAGTCTTCCTTTAAACATAATC
1 AGTCTTCCTTTTCAAACATAATCTCATGCTCATTCTGAGACATGAGTCTTCCTCTAAACATAATC
* *
23512536 TCATTCTCA-TCCTTAGACATG
66 TCATGCTCATTCC-AAGACATG
* * * * *
23512557 AGTCTTCC-TTTCTAAACATATTCTCGTGCTTATTCTGAGTCATGAGTCTTCCTCTAAACATATT
1 AGTCTTCCTTTTC-AAACATAATCTCATGCTCATTCTGAGACATGAGTCTTCCTCTAAACATAAT
23512621 CTCATGCTCATTCCAAGACATG
65 CTCATGCTCATTCCAAGACATG
23512643 AGTCTTCC
1 AGTCTTCC
23512651 ATTTATACAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
85 4 0.05
86 76 0.92
87 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (86 bp):
AGTCTTCCTTTTCAAACATAATCTCATGCTCATTCTGAGACATGAGTCTTCCTCTAAACATAATC
TCATGCTCATTCCAAGACATG
Found at i:23520364 original size:17 final size:17
Alignment explanation
Indices: 23520342--23520375 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
23520332 TCAACTCTTG
23520342 CTTTTCT-TTTCTATTTT
1 CTTTTCTCTTT-TATTTT
23520359 CTTTTCTCTTTTATTTT
1 CTTTTCTCTTTTATTTT
23520376 TTATCCTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTTTCTCTTTTATTTT
Found at i:23521732 original size:27 final size:27
Alignment explanation
Indices: 23521690--23521758 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
23521680 TAAATCCATT
* *
23521690 TTGA-TTTGACTCATTGACCCAAACCTA
1 TTGACTTTGACCCATTGA-CCAAACCCA
*
23521717 -TGACTTTGACCCATTGACCTAACCCA
1 TTGACTTTGACCCATTGACCAAACCCA
*
23521743 TTGACTTTTACCCATT
1 TTGACTTTGACCCATT
23521759 AACTTTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 10 0.28
27 26 0.72
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.35
Consensus pattern (27 bp):
TTGACTTTGACCCATTGACCAAACCCA
Found at i:23521757 original size:14 final size:14
Alignment explanation
Indices: 23521717--23521766 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
23521707 CCCAAACCTA
*
23521717 TGACTTTGACCCAT
1 TGACTTTAACCCAT
*
23521731 TGAC-CTAACCCAT
1 TGACTTTAACCCAT
*
23521744 TGACTTTTACCCAT
1 TGACTTTAACCCAT
*
23521758 TAACTTTAA
1 TGACTTTAA
23521767 ATCGTTGACT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (14 bp):
TGACTTTAACCCAT
Found at i:23522290 original size:29 final size:30
Alignment explanation
Indices: 23522238--23522304 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
23522228 ATGCCATGTC
* * *
23522238 ATGTGTTAATTGTATGAATCTGATTTGAG-
1 ATGTGATAATGGTATGAATCTGATATGAGT
23522267 ATGTGATAATGGTATG-ATCTTGATATGAGTT
1 ATGTGATAATGGTATGAATC-TGATATGAG-T
23522298 ATGTGAT
1 ATGTGAT
23522305 CGCATGATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 3 0.09
29 22 0.69
31 7 0.22
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.43
Consensus pattern (30 bp):
ATGTGATAATGGTATGAATCTGATATGAGT
Found at i:23524717 original size:23 final size:24
Alignment explanation
Indices: 23524691--23524747 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
23524681 AAAGTCAATG
23524691 GTCAATGGGTCT-AGTCGATCAAA
1 GTCAATGGGTCTAAGTCGATCAAA
* * *
23524714 GTCAACGGGT-TAAGTTGGTCAAA
1 GTCAATGGGTCTAAGTCGATCAAA
*
23524737 GTCAATTGGTC
1 GTCAATGGGTC
23524748 GGGTCGATTC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (24 bp):
GTCAATGGGTCTAAGTCGATCAAA
Found at i:23528346 original size:85 final size:83
Alignment explanation
Indices: 23528202--23528371 Score: 270
Period size: 85 Copynumber: 2.0 Consensus size: 83
23528192 AATTTTTTCG
* * *
23528202 TTGTAGGTGTTCTCCGGATAAGTAAACGATTAACTATGAAATGTTATAAATTTTTATGAGTAGAT
1 TTGTAGGTGTTCTCCAGATAAGTAAACAATTAACTATGAAATGTTATAAATTTTCATGAGTAGAT
23528267 AAACCCCCTGAATAACATGA
66 AAACCCCC--AATAACATGA
*
23528287 TTGTAGGTGTTTTCCAGATAAGTAAACAATTAA-TCATGAAATGTTATAAATTTTCATGAGTAGA
1 TTGTAGGTGTTCTCCAGATAAGTAAACAATTAACT-ATGAAATGTTATAAATTTTCATGAGTAGA
23528351 TAAACCCCCAATAACATGA
65 TAAACCCCCAATAACATGA
23528370 TT
1 TT
23528372 AAGAGACTAG
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
83 12 0.15
84 1 0.01
85 67 0.84
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.34
Consensus pattern (83 bp):
TTGTAGGTGTTCTCCAGATAAGTAAACAATTAACTATGAAATGTTATAAATTTTCATGAGTAGAT
AAACCCCCAATAACATGA
Found at i:23529577 original size:18 final size:18
Alignment explanation
Indices: 23529554--23529591 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23529544 TAAAATCGAA
23529554 TTAATT-GATTCAACTGAT
1 TTAATTCGATT-AACTGAT
*
23529572 TTAATTCGATTAATTGAT
1 TTAATTCGATTAACTGAT
23529590 TT
1 TT
23529592 GTTAATCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (18 bp):
TTAATTCGATTAACTGAT
Found at i:23530968 original size:24 final size:24
Alignment explanation
Indices: 23530941--23530987 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
23530931 TCAATTAAAA
23530941 TATATTAAAATT-ATTTTATAATTC
1 TATA-TAAAATTAATTTTATAATTC
*
23530965 TATATAAATTTAATTTTATAATT
1 TATATAAAATTAATTTTATAATT
23530988 GATACTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TATATAAAATTAATTTTATAATTC
Found at i:23531184 original size:15 final size:16
Alignment explanation
Indices: 23531159--23531196 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
23531149 ATACTAAATT
23531159 TATTAATTTTTTATAA
1 TATTAATTTTTTATAA
*
23531175 TATT-ATTTTTTTTAA
1 TATTAATTTTTTATAA
*
23531190 TTTTAAT
1 TATTAAT
23531197 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTAATTTTTTATAA
Found at i:23578050 original size:21 final size:21
Alignment explanation
Indices: 23578002--23578050 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
23577992 CAATCAGCAT
23578002 AATCAGATACATCCACAACAC
1 AATCAGATACATCCACAACAC
** * * *
23578023 ACCCAGATGCATCCACACCAG
1 AATCAGATACATCCACAACAC
23578044 AATCAGA
1 AATCAGA
23578051 AGCAATCATA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.35, G:0.10, T:0.12
Consensus pattern (21 bp):
AATCAGATACATCCACAACAC
Found at i:23584714 original size:236 final size:236
Alignment explanation
Indices: 23584301--23584772 Score: 944
Period size: 236 Copynumber: 2.0 Consensus size: 236
23584291 TATCGTAAGG
23584301 CCTATAATCCATTTTTGGATTCATTTCTCATTTCCCGACTCATGATGCTGCTCACACGAGCTGTC
1 CCTATAATCCATTTTTGGATTCATTTCTCATTTCCCGACTCATGATGCTGCTCACACGAGCTGTC
23584366 GAGGACTCACAACATATGCGGTACCCCAACCATCGCGTTGGTTTCAAATCATCGGCTTAAAGCCT
66 GAGGACTCACAACATATGCGGTACCCCAACCATCGCGTTGGTTTCAAATCATCGGCTTAAAGCCT
23584431 GATATCTCTTCTTTCTTTTCTTTCATCTTTCTCGATCCCATACCATTGTAACACATTTGCAACAA
131 GATATCTCTTCTTTCTTTTCTTTCATCTTTCTCGATCCCATACCATTGTAACACATTTGCAACAA
23584496 TGTATACAAAATACAATAATATTCAGTTTTTTAAATGTAAA
196 TGTATACAAAATACAATAATATTCAGTTTTTTAAATGTAAA
23584537 CCTATAATCCATTTTTGGATTCATTTCTCATTTCCCGACTCATGATGCTGCTCACACGAGCTGTC
1 CCTATAATCCATTTTTGGATTCATTTCTCATTTCCCGACTCATGATGCTGCTCACACGAGCTGTC
23584602 GAGGACTCACAACATATGCGGTACCCCAACCATCGCGTTGGTTTCAAATCATCGGCTTAAAGCCT
66 GAGGACTCACAACATATGCGGTACCCCAACCATCGCGTTGGTTTCAAATCATCGGCTTAAAGCCT
23584667 GATATCTCTTCTTTCTTTTCTTTCATCTTTCTCGATCCCATACCATTGTAACACATTTGCAACAA
131 GATATCTCTTCTTTCTTTTCTTTCATCTTTCTCGATCCCATACCATTGTAACACATTTGCAACAA
23584732 TGTATACAAAATACAATAATATTCAGTTTTTTAAATGTAAA
196 TGTATACAAAATACAATAATATTCAGTTTTTTAAATGTAAA
23584773 TTTAACATTA
Statistics
Matches: 236, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
236 236 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (236 bp):
CCTATAATCCATTTTTGGATTCATTTCTCATTTCCCGACTCATGATGCTGCTCACACGAGCTGTC
GAGGACTCACAACATATGCGGTACCCCAACCATCGCGTTGGTTTCAAATCATCGGCTTAAAGCCT
GATATCTCTTCTTTCTTTTCTTTCATCTTTCTCGATCCCATACCATTGTAACACATTTGCAACAA
TGTATACAAAATACAATAATATTCAGTTTTTTAAATGTAAA
Found at i:23604908 original size:17 final size:16
Alignment explanation
Indices: 23604888--23604935 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
23604878 ACTACAATGC
23604888 AAATGTGTTGACAAAAA
1 AAATGTG-TGACAAAAA
* *
23604905 AAATGCAGTGACAATAA
1 AAATG-TGTGACAAAAA
23604922 AAATGTGATGACAA
1 AAATGTG-TGACAA
23604936 CTACATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 24 0.92
18 1 0.04
ACGTcount: A:0.52, C:0.08, G:0.19, T:0.21
Consensus pattern (16 bp):
AAATGTGTGACAAAAA
Found at i:23616748 original size:18 final size:15
Alignment explanation
Indices: 23616725--23616764 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
23616715 ACGAACGAGT
*
23616725 AGAAGAAG-TGGAAGA
1 AGAAGAAGAAGGAA-A
23616740 AGAAGAAGAAGGAAA
1 AGAAGAAGAAGGAAA
23616755 AGAAGAAGAA
1 AGAAGAAGAA
23616765 AGAGAGGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (15 bp):
AGAAGAAGAAGGAAA
Found at i:23616774 original size:24 final size:21
Alignment explanation
Indices: 23616735--23616783 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 21
23616725 AGAAGAAGTG
23616735 GAAGAAGAAGAAGAAGGAAAA
1 GAAGAAGAAGAAGAAGGAAAA
23616756 GAAGAAGAAAGAGAGGAAGGAAAA
1 GAAGAAG-AAGA-A-GAAGGAAAA
23616780 GAAG
1 GAAG
23616784 TCGAGGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.28
22 4 0.16
23 1 0.04
24 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (21 bp):
GAAGAAGAAGAAGAAGGAAAA
Found at i:23617169 original size:17 final size:17
Alignment explanation
Indices: 23617116--23617169 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
23617106 CACATTCCCT
**
23617116 TTGTCATTGCATTTTTAA
1 TTGTCATTGCA-TTTCCA
* * *
23617134 TTGTCACTGCATGTGCA
1 TTGTCATTGCATTTCCA
23617151 TTGTCATTGCATTTCCA
1 TTGTCATTGCATTTCCA
23617168 TT
1 TT
23617170 TTTCATTGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 19 0.66
18 10 0.34
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (17 bp):
TTGTCATTGCATTTCCA
Found at i:23617748 original size:18 final size:18
Alignment explanation
Indices: 23617725--23617763 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
23617715 CCTCAGTTAC
23617725 ATTTATGAATATATATGT
1 ATTTATGAATATATATGT
*
23617743 ATTTATGAATATATATTT
1 ATTTATGAATATATATGT
23617761 ATT
1 ATT
23617764 ATATTACTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
ATTTATGAATATATATGT
Found at i:23619758 original size:19 final size:20
Alignment explanation
Indices: 23619730--23619769 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23619720 ATCTTCAAGG
23619730 AATTCAA-TTTCAAAAATTA
1 AATTCAATTTTCAAAAATTA
* *
23619749 AATTCCATTTTTAAAAATTA
1 AATTCAATTTTCAAAAATTA
23619769 A
1 A
23619770 TTAAAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTCAATTTTCAAAAATTA
Found at i:23620599 original size:21 final size:22
Alignment explanation
Indices: 23620566--23620623 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
23620556 AGTTGGATGT
*
23620566 AGGGCATCGATACCCT-TAACA-
1 AGGG-ATCAATACCCTATAACAG
23620587 AGGGTATCAATACCCTATAACATG
1 AGGG-ATCAATACCCTATAACA-G
23620611 AGGGATCAATACC
1 AGGGATCAATACC
23620624 TAGTGTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 14 0.44
22 5 0.16
23 9 0.28
24 4 0.12
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (22 bp):
AGGGATCAATACCCTATAACAG
Found at i:23622181 original size:58 final size:58
Alignment explanation
Indices: 23622113--23622229 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
23622103 TATAACTAAC
23622113 ATATATATTACATGTAATACTAGTCATTATTATCCACTATCAATCAACATATATATAT
1 ATATATATTACATGTAATACTAGTCATTATTATCCACTATCAATCAACATATATATAT
23622171 ATATATATTACATGTAATACTAGTCATTATTATCCACTATCAATCAACATATATATAT
1 ATATATATTACATGTAATACTAGTCATTATTATCCACTATCAATCAACATATATATAT
23622229 A
1 A
23622230 ATGGCTTATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (58 bp):
ATATATATTACATGTAATACTAGTCATTATTATCCACTATCAATCAACATATATATAT
Found at i:23622823 original size:13 final size:14
Alignment explanation
Indices: 23622796--23622826 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
23622786 CTGAAATTTC
23622796 TCAAGATTCTTCAA
1 TCAAGATTCTTCAA
23622810 TCAAGATT-TTCAA
1 TCAAGATTCTTCAA
23622823 TCAA
1 TCAA
23622827 AGGATTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.35
Consensus pattern (14 bp):
TCAAGATTCTTCAA
Found at i:23638085 original size:14 final size:14
Alignment explanation
Indices: 23638033--23638079 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 14
23638023 TATAATTATT
*
23638033 TTTAATATAATATAA
1 TTTAATATTATAT-A
*
23638048 TTTAAAATT-T-TA
1 TTTAATATTATATA
23638060 TTTAATATTATATA
1 TTTAATATTATATA
23638074 TTTAAT
1 TTTAAT
23638080 CATATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 9 0.33
15 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTAATATTATATA
Found at i:23642987 original size:41 final size:41
Alignment explanation
Indices: 23642930--23643011 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
23642920 TCAAAATTCA
23642930 TTTCAGTGATATATATTTCATCGGAGGGTTTAAAACTGTTG
1 TTTCAGTGATATATATTTCATCGGAGGGTTTAAAACTGTTG
* **
23642971 TTTCAGTGATATATATTTCATTGGAGGGTTTGGAACTGTTG
1 TTTCAGTGATATATATTTCATCGGAGGGTTTAAAACTGTTG
23643012 CATGGATTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (41 bp):
TTTCAGTGATATATATTTCATCGGAGGGTTTAAAACTGTTG
Found at i:23646763 original size:18 final size:18
Alignment explanation
Indices: 23646730--23646764 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23646720 AATTTTATTA
*
23646730 TTTTTTAAATCATAAAAT
1 TTTTTTAAACCATAAAAT
*
23646748 TTTTTTAAACCTTAAAA
1 TTTTTTAAACCATAAAA
23646765 CCCTAAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTTTAAACCATAAAAT
Found at i:23648684 original size:41 final size:41
Alignment explanation
Indices: 23648625--23648725 Score: 157
Period size: 41 Copynumber: 2.5 Consensus size: 41
23648615 GGATCAGTTT
23648625 AATTGGATCAATGATTGTACGATTAATAATACAATTTATTA
1 AATTGGATCAATGATTGTACGATTAATAATACAATTTATTA
* * * *
23648666 GATTGGATTAATGTTTGTACGGTTAATAATACAATTTATTA
1 AATTGGATCAATGATTGTACGATTAATAATACAATTTATTA
*
23648707 AATTGGATCAATGGTTGTA
1 AATTGGATCAATGATTGTA
23648726 ATTGTTGCAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.41
Consensus pattern (41 bp):
AATTGGATCAATGATTGTACGATTAATAATACAATTTATTA
Found at i:23650309 original size:16 final size:16
Alignment explanation
Indices: 23650288--23650327 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
23650278 ATCGAGTTGA
*
23650288 AAAATTATTTAATTAG
1 AAAATTAATTAATTAG
23650304 AAAATTAATTAATT--
1 AAAATTAATTAATTAG
23650318 AAAATTAATT
1 AAAATTAATT
23650328 TATAAGGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
16 13 0.57
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAATTAATTAATTAG
Found at i:23651527 original size:244 final size:240
Alignment explanation
Indices: 23651102--23651581 Score: 773
Period size: 244 Copynumber: 2.0 Consensus size: 240
23651092 GGCATTGTTA
* * * * *
23651102 TAGTTATCAGCATGTTTAGGGATATGTGAATGAATGTATGTTATTATTTTTTATTTATGATAAAG
1 TAGTTATCAGCATATTTAGGGATATGTAAATGAATGCATGTTATTATTATTTATTTATGATAAAA
* *
23651167 TAATTTTGCCAAAATTGTGATTATTAGAAATTTGATTGTAATTTTTATTAATTCTTGGGTATGTA
66 TAATTTTGCCAAAATTGTGATTATTAGAAATTTGATTGTAATTATCATTAATTCTTGGGTATGTA
* *
23651232 ATTAGATCGTGGGCTATCATCTACTTATAGGATTTATTTATTTTATTATTTTAGAATAAATCATG
131 ATTAGATCGCGGACTATCATCTACTTATAGGATTTATTTATTTTATTATTTTAGAATAAATCATG
** *
23651297 TGAGTCGAAAACAGACATAAGTATTATGTAATTGATATTTTAGTG
196 TGAGTAAAAAACAGACATAAGTATTATGTAACTGATATTTTAGTG
23651342 TAGTTATCAGCATATTTAGGGATATATATGTAAATGAATGCATGTTATTATTATTTATTTATGAT
1 TAGTTATCAGCATATTTAGGG----ATATGTAAATGAATGCATGTTATTATTATTTATTTATGAT
*
23651407 AAAATAATTTTGCCAAAATTGTGATTATTAGAAATTTGGTTGTAATTATCATTAATTCTTGGGTA
62 AAAATAATTTTGCCAAAATTGTGATTATTAGAAATTTGATTGTAATTATCATTAATTCTTGGGTA
23651472 TGTAATTAGATCGCGGACTATCATCTAC-TAGTAGGATTTATTTATTTTATTATTTTAGAATAAA
127 TGTAATTAGATCGCGGACTATCATCTACTTA-TAGGATTTATTTATTTTATTATTTTAGAATAAA
* *
23651536 TCATGTGAGTAAAAAACAGACATAAGTCTTATGTAACTGATGTTTT
191 TCATGTGAGTAAAAAACAGACATAAGTATTATGTAACTGATATTTT
23651582 CGATGGAACC
Statistics
Matches: 220, Mismatches: 15, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
240 20 0.09
243 2 0.01
244 198 0.90
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (240 bp):
TAGTTATCAGCATATTTAGGGATATGTAAATGAATGCATGTTATTATTATTTATTTATGATAAAA
TAATTTTGCCAAAATTGTGATTATTAGAAATTTGATTGTAATTATCATTAATTCTTGGGTATGTA
ATTAGATCGCGGACTATCATCTACTTATAGGATTTATTTATTTTATTATTTTAGAATAAATCATG
TGAGTAAAAAACAGACATAAGTATTATGTAACTGATATTTTAGTG
Found at i:23652203 original size:88 final size:88
Alignment explanation
Indices: 23652054--23652234 Score: 317
Period size: 88 Copynumber: 2.1 Consensus size: 88
23652044 ATGTCACTCA
*
23652054 GTAAGGTTGGTACATAATGTGATATGTGTTGAGTTGATGGTTATACACTCAAGATCTTCTAGTTA
1 GTAAGGTTGGTACATAATGTGATATGTGTTGAGTTGATAGTTATACACTCAAGATCTTCTAGTTA
*
23652119 ACTAACTTCATATGAAGCCCTAC
66 ACTAACTTCACATGAAGCCCTAC
23652142 GTAAGGTTGGTACATAATGTGATATGTGTTGAGTTGATAGTTATACACTCAAGATCTTCTAGTTA
1 GTAAGGTTGGTACATAATGTGATATGTGTTGAGTTGATAGTTATACACTCAAGATCTTCTAGTTA
* *
23652207 AGTAACTTCACATGAAGCTCTAC
66 ACTAACTTCACATGAAGCCCTAC
*
23652230 ATAAG
1 GTAAG
23652235 CTAGAATGAT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (88 bp):
GTAAGGTTGGTACATAATGTGATATGTGTTGAGTTGATAGTTATACACTCAAGATCTTCTAGTTA
ACTAACTTCACATGAAGCCCTAC
Found at i:23653909 original size:28 final size:30
Alignment explanation
Indices: 23653854--23653914 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
23653844 CACCATTTCC
23653854 TTAGTTTAATTTTCCTTTCTTAAATTTAGGT
1 TTAGTTTAATTTTCCTTTCTTAAATTTA-GT
**
23653885 TTAGTTT-A-TTT-CTTTCTTAGGTTTAGT
1 TTAGTTTAATTTTCCTTTCTTAAATTTAGT
23653912 TTA
1 TTA
23653915 TTTCCATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.18
28 12 0.43
29 3 0.11
30 1 0.04
31 7 0.25
ACGTcount: A:0.20, C:0.08, G:0.11, T:0.61
Consensus pattern (30 bp):
TTAGTTTAATTTTCCTTTCTTAAATTTAGT
Found at i:23660854 original size:26 final size:26
Alignment explanation
Indices: 23660825--23660883 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
23660815 ACACCGACCA
* ** * *
23660825 TTCCTTTCAGGATTTTCCATAAAGGC
1 TTCCTTTCAAGATTCGCCACAAAGAC
23660851 TTCCTTTCAAGATTCGCCACAAAGAC
1 TTCCTTTCAAGATTCGCCACAAAGAC
23660877 TTCCTTT
1 TTCCTTT
23660884 TTCCAAATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (26 bp):
TTCCTTTCAAGATTCGCCACAAAGAC
Found at i:23663679 original size:47 final size:47
Alignment explanation
Indices: 23663606--23663762 Score: 242
Period size: 47 Copynumber: 3.3 Consensus size: 47
23663596 ATAGTAATGT
* ** *
23663606 AGATAAACTGCCGCTTAATAATATTGTAAACAAGCCACCATTTTTGC
1 AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGC
* *
23663653 AGATAAACTGTCACTTAATAAAATTGTGGACAAGCCACCACTTTTGC
1 AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGC
* *
23663700 AGATAAACTGCCACTTTATAATATTGTGGACAAGTCACCACTTTTGC
1 AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGC
23663747 AGATAAACTGCCACTT
1 AGATAAACTGCCACTT
23663763 CTTCCTCTTT
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (47 bp):
AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGC
Found at i:23671943 original size:16 final size:17
Alignment explanation
Indices: 23671922--23671955 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23671912 CTTGAAACCC
*
23671922 TAAATA-CTAACCATTA
1 TAAATATCTAAACATTA
23671938 TAAATATCTAAACATTA
1 TAAATATCTAAACATTA
23671955 T
1 T
23671956 TCTAACTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAATATCTAAACATTA
Found at i:23672377 original size:37 final size:37
Alignment explanation
Indices: 23672284--23672377 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 37
23672274 ATTTTTGGAA
* *
23672284 TGCACCCAAGACTGTCACTGCATAAATATTCTTCAAAT
1 TGCACCC-AGAATGTCGCTGCATAAATATTCTTCAAAT
* * * *
23672322 TGCATCCAGAACTATCGCTGCATAAGTATTCTTC-GAT
1 TGCACCCAGAA-TGTCGCTGCATAAATATTCTTCAAAT
23672359 TGCACCCAGGAATGTCGCT
1 TGCACCCA-GAATGTCGCT
23672378 ATATAAACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
37 18 0.39
38 28 0.61
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (37 bp):
TGCACCCAGAATGTCGCTGCATAAATATTCTTCAAAT
Found at i:23675581 original size:16 final size:15
Alignment explanation
Indices: 23675554--23675595 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
23675544 CCTCAATCTC
23675554 ATAAAA-AAAAGAAGA
1 ATAAAAGAAAAGAA-A
23675569 ATAAAAGAAAAGAAA
1 ATAAAAGAAAAGAAA
*
23675584 AGAAAAAGAAAA
1 A-TAAAAGAAAA
23675596 ATATTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (15 bp):
ATAAAAGAAAAGAAA
Found at i:23676989 original size:16 final size:16
Alignment explanation
Indices: 23676968--23676998 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23676958 TTGTGGATCC
23676968 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
23676984 CATTTTATCTTTATT
1 CATTTTACCTTTATT
23676999 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:23686050 original size:18 final size:17
Alignment explanation
Indices: 23686024--23686098 Score: 57
Period size: 18 Copynumber: 4.4 Consensus size: 17
23686014 GTAAAATAAC
*
23686024 ATAAGAAATAAATATCAA
1 ATAAAAAATAAATA-CAA
*
23686042 ATAAAAAATAAATAATGAA
1 ATAAAAAATAAAT-A-CAA
*
23686061 TATAAAAAAT-GATA-AA
1 -ATAAAAAATAAATACAA
*
23686077 ATATAAAATAAATACAA
1 ATAAAAAATAAATACAA
23686094 A-AAAA
1 ATAAAA
23686099 TAGTAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
15 8 0.17
16 8 0.17
17 3 0.06
18 13 0.28
19 6 0.13
20 9 0.19
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (17 bp):
ATAAAAAATAAATACAA
Found at i:23686340 original size:23 final size:22
Alignment explanation
Indices: 23686314--23686356 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
23686304 GGCAAAATCG
23686314 AATT-AAAAAAACACAATAAATTA
1 AATTGAAAAAAAC-CAA-AAATTA
*
23686337 AATTGAAATAAACCAAAAAT
1 AATTGAAAAAAACCAAAAAT
23686357 ACGGATGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.21
Consensus pattern (22 bp):
AATTGAAAAAAACCAAAAATTA
Found at i:23687264 original size:100 final size:100
Alignment explanation
Indices: 23687160--23687695 Score: 319
Period size: 100 Copynumber: 5.4 Consensus size: 100
23687150 TGATCCATTG
* * *
23687160 CAACTTTTGGGATATAAGATTTGATGTCGTAACTTCATCTTACTCCACTGTATCTTCAAGGAGAT
1 CAACTTTAGGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCACTGCATCTTCAAGGAGAT
23687225 AAGATTTGCTTTTGTAGCTCCAACTT-GACCCACT-A
66 AAGATTTGCTTTTGTAGCTCCAA-TTCGACCC-CTGA
* * * * * *
23687260 CAACTTTAGGGGTATAGGATTTGATGT-G-AATGCTTCATTTTGCTCTACTGCAACTTCAAAGAG
1 CAACTTTAGGGATATAAGATTTGATGTCGTAA--CTTCATCTTGCTCCACTGCATCTTCAAGGAG
* * ** * *
23687323 ATAAAGATTTGCTATTGTAGTTTTAATTCGATCCTTGA
64 AT-AAGATTTGCTTTTGTAGCTCCAATTCGACCCCTGA
* * * * *
23687361 -AACTTCAGGGATATAAGATTTTATGTCGTAGCTTCATCTTGCTCCATTGCATCTTCAGGGAGAT
1 CAACTTTAGGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCACTGCATCTTCAAGGAGAT
* ** * * * *
23687425 AAGATTTGTTTTTGTAGCTTTAATTCAATCCATTA
66 AAGATTTGCTTTTGTAGCTCCAATTCGACCCCTGA
* * * * * * * * ** *
23687460 CAAATTCAGGGGTATAGGATTTGATGTTGTAGCCTCATCTTGCTCTACTGCAAATT-TAGAGAGA
1 CAACTTTAGGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCACTGCATCTTCAAG-GAGA
* * * *** * * **
23687524 TAAAATTTGCTTTCGTAACTTTTGATCCAATCTACTG-
65 TAAGATTTGCTTTTGTAGC-TCCAATTCGA-CCCCTGA
* * * * *
23687561 CAACTTGT-GGGATAT-AGATCTTAATGTTGT---TTCCTCTTGCTCCACTACAACTTCAAGGAG
1 CAACTT-TAGGGATATAAGAT-TTGATGTCGTAACTTCATCTTGCTCCACTGCATCTTCAAGGAG
*
23687621 ATCAAGATTTG-TTTCTGTAGCTTCAA-TCTGACCCACT-A
64 AT-AAGATTTGCTTT-TGTAGCTCCAATTC-GACCC-CTGA
* * * *
23687659 CAACTTTAGGGGTATAAGATTTGGTATTGTAACTTCA
1 CAACTTTAGGGATATAAGATTTGATGTCGTAACTTCA
23687696 CTCCATTCCA
Statistics
Matches: 332, Mismatches: 80, Indels: 47
0.72 0.17 0.10
Matches are distributed among these distances:
97 3 0.01
98 53 0.16
99 48 0.14
100 170 0.51
101 56 0.17
102 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (100 bp):
CAACTTTAGGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCACTGCATCTTCAAGGAGAT
AAGATTTGCTTTTGTAGCTCCAATTCGACCCCTGA
Found at i:23687425 original size:200 final size:197
Alignment explanation
Indices: 23687130--23687681 Score: 587
Period size: 200 Copynumber: 2.8 Consensus size: 197
23687120 GAGATAGGAC
* * * * * * *
23687130 TTGCTAATGTAGTTTCATTTTGATCCATTGCAACTTTTGGGATATAAGATTTGATGTCGTAACTT
1 TTGCTATTGTAGTTTTAATTCGATCC-TTGCAACTTCTGGGATATAAGATTTAATGTCGTAGCTT
* * *
23687195 CATCTTACTCCACTGTATCTTCAAGGAGATAAGATTTGCTTTTGTAGCTCCAACTTGACCCACTA
65 CATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTG-TTTTGTAGCTTCAA-TTGACCCACTA
* * *
23687260 CAACTTTAGGGGTATAGGATTTGATG-TGAATGCTTCATTTTGCTCTACTGCAACTTCAAAGAGA
128 CAACTTTAGGGGTATAGGATTTGATGTTGAA-GCCTCATCTTGCTCTACTGCAAATTCAAAGAGA
23687324 TAAAGAT
192 TAAA-AT
* * *
23687331 TTGCTATTGTAGTTTTAATTCGATCCTTGAAACTTCAGGGATATAAGATTTTATGTCGTAGCTTC
1 TTGCTATTGTAGTTTTAATTCGATCCTTGCAACTTCTGGGATATAAGATTTAATGTCGTAGCTTC
* * * * * *
23687396 ATCTTGCTCCATTGCATCTTCAGGGAGATAAGATTTGTTTTTGTAGCTTTAATTCAATCCATTAC
66 ATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTG-TTTTGTAGCTTCAATT-GACCCACTAC
* * * * *
23687461 AAATTCAGGGGTATAGGATTTGATGTTGTAGCCTCATCTTGCTCTACTGCAAATTTAGAGAGATA
129 AACTTTAGGGGTATAGGATTTGATGTTGAAGCCTCATCTTGCTCTACTGCAAATTCAAAGAGATA
23687526 AAAT
194 AAAT
* * * * *
23687530 TTGCT-TTCGTAACTTTTGATCCAAT-CTACTGCAACTTGTGGGATAT-AGATCTTAATGT--T-
1 TTGCTATT-GT-AGTTTTAATTCGATCCT--TGCAACTTCTGGGATATAAGAT-TTAATGTCGTA
* * * *
23687589 GTTTCCTCTTGCTCCACTACAACTTCAAGGAGATCAAGATTTGTTTCTGTAGCTTCAATCTGACC
61 GCTTCATCTTGCTCCACTGCATCTTCAAGGAGAT-AAGATTTGTTT-TGTAGCTTCAAT-TGACC
*
23687654 CACTACAACTTTAGGGGTATAAGATTTG
123 CACTACAACTTTAGGGGTATAGGATTTG
23687682 GTATTGTAAC
Statistics
Matches: 293, Mismatches: 48, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
198 33 0.11
199 59 0.20
200 156 0.53
201 45 0.15
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (197 bp):
TTGCTATTGTAGTTTTAATTCGATCCTTGCAACTTCTGGGATATAAGATTTAATGTCGTAGCTTC
ATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTGTTTTGTAGCTTCAATTGACCCACTACAA
CTTTAGGGGTATAGGATTTGATGTTGAAGCCTCATCTTGCTCTACTGCAAATTCAAAGAGATAAA
AT
Found at i:23687442 original size:50 final size:50
Alignment explanation
Indices: 23687064--23687723 Score: 201
Period size: 50 Copynumber: 13.2 Consensus size: 50
23687054 TCTCTGCAGG
* * * * *
23687064 TTCAGGGAAATAGGATTTGAC-ATTGTAGCCTT-ATCTTGCTCCACTACATC
1 TTCAGGGAGATAAGATTTG-CTTTTGTAG-CTTCATCTTGCTCCACTGCAAC
* * * ** * * * *
23687114 ATCAGGGAGATAGGACTTGCTAATGTAGTTTCATTTTGATCCATTGCAAC
1 TTCAGGGAGATAAGATTTGCTTTTGTAGCTTCATCTTGCTCCACTGCAAC
** * * * * * * * *
23687164 TTTTGGGATATAAGATTTGATGTCGTAACTTCATCTTACTCCACTGTATC
1 TTCAGGGAGATAAGATTTGCTTTTGTAGCTTCATCTTGCTCCACTGCAAC
* * * *
23687214 TTCAAGGAGATAAGATTTGCTTTTGTAGCTCCAACTTGAC-CCACTACAAC
1 TTCAGGGAGATAAGATTTGCTTTTGTAGCTTCATCTTG-CTCCACTGCAAC
* * * * * * *
23687264 TTTAGGG-GTATAGGATTTG-ATGTGAATGCTTCATTTTGCTCTACTGCAAC
1 TTCAGGGAG-ATAAGATTTGCTTTTGTA-GCTTCATCTTGCTCCACTGCAAC
** * * * * * * *
23687314 TTCAAAGAGATAAAGATTTGCTATTGTAGTTTTAAT-TCGATCC-TTGAAAC
1 TTCAGGGAGAT-AAGATTTGCTTTTGTAG-CTTCATCTTGCTCCACTGCAAC
* ** * * * *
23687364 TTCAGGGATATAAGATTTTATGTCGTAGCTTCATCTTGCTCCATTGCATC
1 TTCAGGGAGATAAGATTTGCTTTTGTAGCTTCATCTTGCTCCACTGCAAC
* * * * * *
23687414 TTCAGGGAGATAAGATTTGTTTTTGTAGCTTTA-ATT-CAATCCATTACAAA
1 TTCAGGGAGATAAGATTTGCTTTTGTAGCTTCATCTTGC--TCCACTGCAAC
* * * * * *
23687464 TTCAGGG-GTATAGGATTTGATGTTGTAGCCTCATCTTGCTCTACTGCAAA
1 TTCAGGGAG-ATAAGATTTGCTTTTGTAGCTTCATCTTGCTCCACTGCAAC
* * * * * * *** *
23687514 TTTAGAGAGATAAAATTTGCTTTCGTAACTTTTGATC-CAATCTACTGCAAC
1 TTCAGGGAGATAAGATTTGCTTTTGTAGC--TTCATCTTGCTCCACTGCAAC
** * * * * * *
23687565 TTGTGGGATAT-AGA--T-CTTAATGTTGTTTCCTCTTGCTCCACTACAAC
1 TTCAGGGAGATAAGATTTGCTT-TTGTAGCTTCATCTTGCTCCACTGCAAC
* *
23687612 TTCAAGGAGATCAAGATTTG-TTTCTGTAGCTTCAATC-TGAC-CCACTACAAC
1 TTCAGGGAGAT-AAGATTTGCTTT-TGTAGCTTC-ATCTTG-CTCCACTGCAAC
* * * * *
23687663 TTTAGGG-GTATAAGATTTGGTATTGTAACTTCA-C-TCCATTCCACTGCAAC
1 TTCAGGGAG-ATAAGATTTGCTTTTGTAGCTTCATCTTGC--TCCACTGCAAC
23687713 TTCAGGGAGAT
1 TTCAGGGAGAT
23687724 TGAGATCTGC
Statistics
Matches: 428, Mismatches: 146, Indels: 72
0.66 0.23 0.11
Matches are distributed among these distances:
46 4 0.01
47 20 0.05
48 10 0.02
49 34 0.08
50 279 0.65
51 66 0.15
52 15 0.04
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (50 bp):
TTCAGGGAGATAAGATTTGCTTTTGTAGCTTCATCTTGCTCCACTGCAAC
Found at i:23687926 original size:9 final size:9
Alignment explanation
Indices: 23687912--23687936 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23687902 AACTAGATGA
23687912 GTATGAATG
1 GTATGAATG
23687921 GTATGAATG
1 GTATGAATG
23687930 GTATGAA
1 GTATGAA
23687937 CGCAAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (9 bp):
GTATGAATG
Found at i:23693806 original size:22 final size:22
Alignment explanation
Indices: 23693781--23693835 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
23693771 GATGATGGCA
*
23693781 AAATAAAATAAATAACATTAAT
1 AAATAAAATAAATAACATAAAT
* *
23693803 AAATACAATTAATAACATAAAT
1 AAATAAAATAAATAACATAAAT
23693825 AAA-AAATATAA
1 AAATAAA-ATAA
23693836 TAGTAATGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (22 bp):
AAATAAAATAAATAACATAAAT
Found at i:23694784 original size:113 final size:113
Alignment explanation
Indices: 23694632--23694864 Score: 439
Period size: 113 Copynumber: 2.1 Consensus size: 113
23694622 GTTAGGGTAA
23694632 TTGATTTTTGGGTTGTAATTTGGATTATGAGTATTTGGGTTAGTTCGGCTTCGAGTTATTTAGGT
1 TTGATTTTTGGGTTGTAATTTGGATTATGAGTATTTGGGTTAGTTCGGCTTCGAGTTATTTAGGT
23694697 AGTTAGGTTTTGTAAAAAAAAAAAAAAAAATATTAATGGACTTAGATT
66 AGTTAGGTTTTGTAAAAAAAAAAAAAAAAATATTAATGGACTTAGATT
23694745 TTGATTTTTGGGTTGTAATTTGGATTATGAGTATTTGGGTTAGTTCGGCTTCGAGTTATTTAGGT
1 TTGATTTTTGGGTTGTAATTTGGATTATGAGTATTTGGGTTAGTTCGGCTTCGAGTTATTTAGGT
* *
23694810 AGTTAGGTTTTGTAAAAAAAAAAAAATATATATTAATGGACTTAGATT
66 AGTTAGGTTTTGTAAAAAAAAAAAAAAAAATATTAATGGACTTAGATT
*
23694858 TTTATTT
1 TTGATTT
23694865 AATTTTTTAT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
113 117 1.00
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.44
Consensus pattern (113 bp):
TTGATTTTTGGGTTGTAATTTGGATTATGAGTATTTGGGTTAGTTCGGCTTCGAGTTATTTAGGT
AGTTAGGTTTTGTAAAAAAAAAAAAAAAAATATTAATGGACTTAGATT
Found at i:23699929 original size:2 final size:2
Alignment explanation
Indices: 23699922--23699949 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23699912 TATGGTGATA
23699922 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23699950 AAGTGATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:23700814 original size:83 final size:81
Alignment explanation
Indices: 23700710--23700944 Score: 299
Period size: 84 Copynumber: 2.8 Consensus size: 81
23700700 ATTAAAATCA
*
23700710 AATAAATCTATTTGGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTTAATTTTGTTTC
1 AATAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTTAATTTTGTTTC
*
23700775 CAATTAATAAATTAATTG
66 CAA-TAAT-AATTAAGTG
* * * * **
23700793 AATAAATCTATTTCAGGATTTATTTCTGCCGCTCAGTAGATTTTATTCTATATTTGAATTTTGTT
1 AATAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTAT-TTT-AATTTTGTT
*
23700858 TCTAGATAATAATTAAGTG
64 TCCA-ATAATAATTAAGTG
* * * * *
23700877 AATAATTCTATTTCGGGATTTATTCTCGCCGTTTAACAAATTTTATTCTATTTTGATTTTGTTTC
1 AATAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTTAATTTTGTTTC
23700942 CAA
66 CAA
23700945 AACAAGAATA
Statistics
Matches: 128, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
81 1 0.01
82 11 0.09
83 47 0.37
84 52 0.41
85 16 0.12
86 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (81 bp):
AATAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTTAATTTTGTTTC
CAATAATAATTAAGTG
Found at i:23700896 original size:84 final size:84
Alignment explanation
Indices: 23700710--23700944 Score: 300
Period size: 83 Copynumber: 2.8 Consensus size: 84
23700700 ATTAAAATCA
* * *
23700710 AATAAATCTATTTGGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTT-AATTTTGTTT
1 AATAAATCTATTTCGGGATTTATTTCTGCCGTTCAACAGATTTTATTCTATTTTGAATTTTGTTT
*
23700774 CCAATTAATAAATTAATTG
66 CCAATTAATAAATTAAGTG
* * **
23700793 AATAAATCTATTTCAGGATTTATTTCTGCCGCTCAGTAGATTTTATTCTATATTTGAATTTTGTT
1 AATAAATCTATTTCGGGATTTATTTCTGCCGTTCAACAGATTTTATTCTAT-TTTGAATTTTGTT
*
23700858 TCTAGA-TAAT-AATTAAGTG
65 TCCA-ATTAATAAATTAAGTG
* * *
23700877 AATAATTCTATTTCGGGATTTA-TTCTCGCCGTTTAACAAATTTTATTCTATTTTG-ATTTTGTT
1 AATAAATCTATTTCGGGATTTATTTCT-GCCGTTCAACAGATTTTATTCTATTTTGAATTTTGTT
23700940 TCCAA
65 TCCAA
23700945 AACAAGAATA
Statistics
Matches: 131, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
81 1 0.01
82 11 0.08
83 52 0.40
84 50 0.38
85 16 0.12
86 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (84 bp):
AATAAATCTATTTCGGGATTTATTTCTGCCGTTCAACAGATTTTATTCTATTTTGAATTTTGTTT
CCAATTAATAAATTAAGTG
Found at i:23702146 original size:7 final size:7
Alignment explanation
Indices: 23702136--23702231 Score: 52
Period size: 7 Copynumber: 13.9 Consensus size: 7
23702126 TGATCAGCCA
23702136 TTGACCG
1 TTGACCG
*
23702143 TTGACAG
1 TTGACCG
23702150 TTGACCG
1 TTGACCG
* *
23702157 TTAACTG
1 TTGACCG
*
23702164 TTGACAG
1 TTGACCG
*
23702171 TTGATCG
1 TTGACCG
*
23702178 TTGATCG
1 TTGACCG
**
23702185 TT-ATTAG
1 TTGA-CCG
23702192 TTGACCG
1 TTGACCG
* *
23702199 CTGATCG
1 TTGACCG
*
23702206 TTGACCT
1 TTGACCG
**
23702213 TTGAAAG
1 TTGACCG
23702220 TTGACC-
1 TTGACCG
23702226 TTGACC
1 TTGACC
23702232 CATTGACTTT
Statistics
Matches: 66, Mismatches: 21, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
6 7 0.11
7 58 0.88
8 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (7 bp):
TTGACCG
Found at i:23702155 original size:14 final size:14
Alignment explanation
Indices: 23702136--23702230 Score: 63
Period size: 14 Copynumber: 6.9 Consensus size: 14
23702126 TGATCAGCCA
23702136 TTGACCGTTGACAG
1 TTGACCGTTGACAG
* *
23702150 TTGACCGTTAACTG
1 TTGACCGTTGACAG
*
23702164 TTGACAGTTGATC-G
1 TTGACCGTTGA-CAG
* *
23702178 TTGATCGTT-ATTAG
1 TTGACCGTTGA-CAG
*
23702192 TTGACCGCTGATC-G
1 TTGACCGTTGA-CAG
* *
23702206 TTGACCTTTGAAAG
1 TTGACCGTTGACAG
23702220 TTGACC-TTGAC
1 TTGACCGTTGAC
23702231 CCATTGACTT
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
13 6 0.10
14 54 0.86
15 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (14 bp):
TTGACCGTTGACAG
Found at i:23707635 original size:17 final size:18
Alignment explanation
Indices: 23707605--23707638 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23707595 AATTTCTATT
23707605 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
23707623 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
23707639 AATTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:23711768 original size:15 final size:16
Alignment explanation
Indices: 23711736--23711770 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
23711726 ACCCAATAAC
23711736 CCAAACCCAAAGTGAA
1 CCAAACCCAAAGTGAA
*
23711752 CCAAACCC-AATTGAA
1 CCAAACCCAAAGTGAA
23711767 CCAA
1 CCAA
23711771 GTACACACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.49, C:0.34, G:0.09, T:0.09
Consensus pattern (16 bp):
CCAAACCCAAAGTGAA
Found at i:23711809 original size:11 final size:11
Alignment explanation
Indices: 23711793--23711824 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
23711783 ACCAAGTCAA
23711793 ACCGTTGACCG
1 ACCGTTGACCG
*
23711804 ACCGTTGACTG
1 ACCGTTGACCG
23711815 ACCGTTGACC
1 ACCGTTGACC
23711825 TTCGATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.34, G:0.25, T:0.22
Consensus pattern (11 bp):
ACCGTTGACCG
Found at i:23711854 original size:14 final size:13
Alignment explanation
Indices: 23711793--23711858 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 13
23711783 ACCAAGTCAA
23711793 ACCGTTGACC--G
1 ACCGTTGACCTTG
23711804 ACCGTTGA-C-TG
1 ACCGTTGACCTTG
23711815 ACCGTTGACCTT-
1 ACCGTTGACCTTG
*
23711827 --CGAT-A-CTTG
1 ACCGTTGACCTTG
23711836 ACCGTTGACCTTG
1 ACCGTTGACCTTG
23711849 ACCCGTTGAC
1 A-CCGTTGAC
23711859 TTTTTTCGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
8 3 0.07
9 1 0.02
10 4 0.09
11 20 0.45
12 2 0.05
13 6 0.14
14 8 0.18
ACGTcount: A:0.18, C:0.32, G:0.23, T:0.27
Consensus pattern (13 bp):
ACCGTTGACCTTG
Found at i:23717426 original size:14 final size:15
Alignment explanation
Indices: 23717409--23717438 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23717399 AAATAAAGGC
23717409 AAAA-TTGATAAAAA
1 AAAATTTGATAAAAA
23717423 AAAATTTGATAAAAA
1 AAAATTTGATAAAAA
23717438 A
1 A
23717439 TGGGCCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
AAAATTTGATAAAAA
Found at i:23718391 original size:12 final size:12
Alignment explanation
Indices: 23718374--23718398 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23718364 AAGAAGATCC
23718374 GGACCTTTAGGG
1 GGACCTTTAGGG
23718386 GGACCTTTAGGG
1 GGACCTTTAGGG
23718398 G
1 G
23718399 TCGTACACTG
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:0.16, C:0.16, G:0.44, T:0.24
Consensus pattern (12 bp):
GGACCTTTAGGG
Found at i:23721227 original size:23 final size:25
Alignment explanation
Indices: 23721201--23721246 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23721191 CCAATTAGGG
23721201 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
23721224 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
23721247 TAGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:23722338 original size:12 final size:13
Alignment explanation
Indices: 23722308--23722350 Score: 54
Period size: 12 Copynumber: 3.3 Consensus size: 13
23722298 ATTTTTTTTG
23722308 TTTTACTATTTATAT
1 TTTTA-TATTTA-AT
23722323 TTTTA-ATTTAAT
1 TTTTATATTTAAT
23722335 TTTTATATTT-AT
1 TTTTATATTTAAT
23722347 TTTT
1 TTTT
23722351 TTTCTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 13 0.48
13 9 0.33
15 5 0.19
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATATTTAAT
Found at i:23722351 original size:13 final size:13
Alignment explanation
Indices: 23722308--23722351 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
23722298 ATTTTTTTTG
23722308 TTTTACTATTTATAT
1 TTTTA-TATTTAT-T
*
23722323 TTTTA-ATTTAAT
1 TTTTATATTTATT
23722335 TTTTATATTTATT
1 TTTTATATTTATT
23722348 TTTT
1 TTTT
23722352 TTCTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 6 0.23
13 15 0.58
15 5 0.19
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTATATTTATT
Found at i:23727630 original size:25 final size:23
Alignment explanation
Indices: 23727586--23727631 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
23727576 CCAATTAGGG
*
23727586 AATTATTGTTTAGATTTAATTCT
1 AATTATTGTTTAGATCTAATTCT
*
23727609 AATTATCTTTTTAGAATCTAATT
1 AATTAT-TGTTTAG-ATCTAATT
23727632 TGGATCCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 6 0.32
25 7 0.37
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.54
Consensus pattern (23 bp):
AATTATTGTTTAGATCTAATTCT
Found at i:23728744 original size:20 final size:20
Alignment explanation
Indices: 23728698--23728750 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
23728688 TACTTTAGCC
* **
23728698 ATTTTTTTATTTTTGTTTTA
1 ATTTTTATATTTTTAATTTA
* *
23728718 CTATTTATATTTTTAATTTA
1 ATTTTTATATTTTTAATTTA
*
23728738 ATTTTTATGTTTT
1 ATTTTTATATTTT
23728751 ATTTTTTCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (20 bp):
ATTTTTATATTTTTAATTTA
Found at i:23733143 original size:9 final size:10
Alignment explanation
Indices: 23733117--23733141 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23733107 AAAAAATGAC
23733117 AAAAAATTTG
1 AAAAAATTTG
23733127 AAAAAATTTG
1 AAAAAATTTG
23733137 AAAAA
1 AAAAA
23733142 TTCAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAAAATTTG
Found at i:23734144 original size:17 final size:18
Alignment explanation
Indices: 23734124--23734163 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
23734114 AAAAAAAATC
23734124 AAAAAGAAAATTTGAA-AA
1 AAAAAGAAAA-TTGAAGAA
23734142 AAAAAGAAAATTG-AGAA
1 AAAAAGAAAATTGAAGAA
23734159 AAAAA
1 AAAAA
23734164 AAGAGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 10 0.48
18 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAAAGAAAATTGAAGAA
Found at i:23734147 original size:18 final size:19
Alignment explanation
Indices: 23734124--23734167 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
23734114 AAAAAAAATC
*
23734124 AAAAAGAAAATT-TGAAAA
1 AAAAAGAAAATTGAGAAAA
23734142 AAAAAGAAAATTGAGAAAA
1 AAAAAGAAAATTGAGAAAA
23734161 AAAAAGA
1 AAAAAGA
23734168 GAAGAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (19 bp):
AAAAAGAAAATTGAGAAAA
Found at i:23735259 original size:25 final size:23
Alignment explanation
Indices: 23735218--23735263 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
23735208 CCAATTAGGG
23735218 AATTATTATTTAGATTTAATTCT
1 AATTATTATTTAGATTTAATTCT
*
23735241 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
23735264 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCT
Found at i:23743278 original size:6 final size:6
Alignment explanation
Indices: 23743253--23743291 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
23743243 ACAATTCATA
* * *
23743253 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
23743292 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:23752452 original size:20 final size:20
Alignment explanation
Indices: 23752438--23752475 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23752428 ATTTTTTCTT
*
23752438 TTGAATTTTAATTTTTTTAA
1 TTGAATTTAAATTTTTTTAA
23752458 TTGAATTTAAATTTTTTT
1 TTGAATTTAAATTTTTTT
23752476 CAAGAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TTGAATTTAAATTTTTTTAA
Found at i:23756341 original size:23 final size:23
Alignment explanation
Indices: 23756306--23756355 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
23756296 AAAGCTTTAA
* *
23756306 AAATATTAATTTTGTT-AAATAAT
1 AAATAATAATTTT-TTAAAACAAT
*
23756329 AAATAATACTTTTTTAAAACAAT
1 AAATAATAATTTTTTAAAACAAT
23756352 AAAT
1 AAAT
23756356 GTTAACTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATAATAATTTTTTAAAACAAT
Found at i:23760342 original size:19 final size:19
Alignment explanation
Indices: 23760315--23760388 Score: 73
Period size: 19 Copynumber: 3.9 Consensus size: 19
23760305 CCAATAAATT
23760315 AATTT-AAAAATTATAAAA
1 AATTTCAAAAATTATAAAA
*
23760333 AATTTCAAAAATAATAAAAA
1 AATTTCAAAAATTAT-AAAA
* *
23760353 AATTTCAAGAAA-CATATAA
1 AATTTCAA-AAATTATAAAA
23760372 AA-TTCAAAAACTTATAA
1 AATTTCAAAAA-TTATAA
23760389 TGGGTGAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
17 3 0.07
18 10 0.22
19 16 0.35
20 14 0.30
21 3 0.07
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.28
Consensus pattern (19 bp):
AATTTCAAAAATTATAAAA
Found at i:23760352 original size:20 final size:19
Alignment explanation
Indices: 23760315--23760381 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 19
23760305 CCAATAAATT
*
23760315 AATTT-AAAAATTATAAAA
1 AATTTCAAAAATAATAAAA
23760333 AATTTCAAAAATAATAAAAA
1 AATTTCAAAAATAAT-AAAA
* *
23760353 AATTTCAAGAAA-CATATAA
1 AATTTCAA-AAATAATAAAA
23760372 AA-TTCAAAAA
1 AATTTCAAAAA
23760382 CTTATAATGG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 3 0.07
18 10 0.23
19 13 0.30
20 14 0.33
21 3 0.07
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (19 bp):
AATTTCAAAAATAATAAAA
Found at i:23760387 original size:17 final size:19
Alignment explanation
Indices: 23760351--23760388 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
23760341 AAATAATAAA
23760351 AAAATTTCAAGAAACATAT
1 AAAATTTCAAGAAACATAT
*
23760370 AAAA-TTCAA-AAACTTAT
1 AAAATTTCAAGAAACATAT
23760387 AA
1 AA
23760389 TGGGTGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 5 0.28
19 4 0.22
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAATTTCAAGAAACATAT
Done.