Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 122 of 284
Found at i:40462352 original size:120 final size:120
Alignment explanation
Indices: 40462131--40462472 Score: 343
Period size: 121 Copynumber: 2.8 Consensus size: 120
40462121 CTCAAGAAAT
* * * * *
40462131 CTTCGGGATTTAG-CCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCTGGATGTGGTC
1 CTTCGGGATTTAGCCCGGATATAACTACTAGCACAAAGCCTTCGGGTCTTAGCCCGGATATAGTC
* * * *
40462195 ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCAAAAAAGC
* * *
40462249 CTTCGGGTTTTAGCCCGGATATAA-TCGCTAGCACAAAAGCCTTCGGGTGTTAGCCCGGATATAG
1 CTTCGGGATTTAGCCCGGATATAACT-ACTAGCAC-AAAGCCTTCGGGTCTTAGCCCGGATATAG
* * * *
40462313 -CAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCAAAAAAGC
64 TC-ACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTCACCTAGCAAAAAAGC
* * * * * * * * *
40462370 CTTCGTGACTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGATTTAGCCCGGATATAACTACTAGCAC-AAAGCCTTCGGGTCTTAGCCCGGATATAGT
* * *
40462435 CACCTAGCAAAAAAGCCTTCGTGACTTAGCCCGGATAT
65 CA-CTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
40462473 CATTCGAATA
Statistics
Matches: 178, Mismatches: 36, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
118 13 0.07
119 20 0.11
120 55 0.31
121 62 0.35
122 26 0.15
123 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (120 bp):
CTTCGGGATTTAGCCCGGATATAACTACTAGCACAAAGCCTTCGGGTCTTAGCCCGGATATAGTC
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCAAAAAAGC
Found at i:40462387 original size:81 final size:81
Alignment explanation
Indices: 40462131--40462472 Score: 399
Period size: 81 Copynumber: 4.3 Consensus size: 81
40462121 CTCAAGAAAT
* * * * * * * *
40462131 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAG-CCTGGATGTGG
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCC-GGATATAG
* *
40462193 TCA-CTAGCATAAATGC
65 TCACCTAGCAAAAAAGC
* * * * * * *
40462209 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATATAG
* *
40462273 TC-GCTAGCACAAAAGC
65 TCACCTAGCAAAAAAGC
** *
40462289 CTTCGGGTGTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATATAGT
40462354 CACCTAGCAAAAAAGC
66 CACCTAGCAAAAAAGC
* *
40462370 CTTCGTGACTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATATAGT
40462435 CACCTAGCAAAAAAGC
66 CACCTAGCAAAAAAGC
*
40462451 CTTCGTGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
40462473 CATTCGAATA
Statistics
Matches: 231, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
78 12 0.05
79 16 0.07
80 89 0.39
81 114 0.49
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATATAGT
CACCTAGCAAAAAAGC
Found at i:40468837 original size:24 final size:24
Alignment explanation
Indices: 40468810--40468920 Score: 84
Period size: 24 Copynumber: 4.6 Consensus size: 24
40468800 GAAATGACTT
40468810 TGGCACTATGTGTGCAGATTTGTA
1 TGGCACTATGTGTGCAGATTTGTA
** *
40468834 TGGCACTATGTGTGTGGATTTGAA
1 TGGCACTATGTGTGCAGATTTGTA
* *
40468858 TGTCAATACCTGTGTG--GA-TTGCTA
1 TGGCACTA--TGTGTGCAGATTTG-TA
* * **
40468882 AGGCACTATGTGTGCAGGTTAATA
1 TGGCACTATGTGTGCAGATTTGTA
*
40468906 TGGCACTATGGGTGC
1 TGGCACTATGTGTGC
40468921 GAATTTCCTT
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
22 6 0.09
23 3 0.04
24 51 0.76
25 1 0.01
26 6 0.09
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.34
Consensus pattern (24 bp):
TGGCACTATGTGTGCAGATTTGTA
Found at i:40472151 original size:39 final size:40
Alignment explanation
Indices: 40471947--40472169 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
40471937 TTGAATGCTG
* * * * * *
40471947 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
40471987 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
40472027 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
40472067 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
40472107 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
40472146 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
40472170 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:40472189 original size:79 final size:80
Alignment explanation
Indices: 40472022--40472204 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
40472012 GTGCGAGATA
* * *
40472022 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
40472087 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
40472102 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
40472166 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
40472181 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
40472205 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:40479941 original size:40 final size:40
Alignment explanation
Indices: 40479858--40480160 Score: 405
Period size: 40 Copynumber: 7.6 Consensus size: 40
40479848 TTGAATGCTG
* * * * * *
40479858 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
40479898 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
40479938 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
40479978 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
40480018 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
40480058 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
40480098 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
40480137 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
40480161 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:40487126 original size:24 final size:24
Alignment explanation
Indices: 40487099--40487263 Score: 165
Period size: 24 Copynumber: 6.9 Consensus size: 24
40487089 GAAATGACTT
* *
40487099 TGGCTCTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
40487123 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
*
40487147 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
40487171 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * ** *
40487195 TGTCAATACATGTGTGGA-TTGCTAA
1 TGGCACTATGTGTGCGGATTTG--AA
* *
40487220 -GGCACTATGTGTGCGG-GTTAATA
1 TGGCACTATGTGTGCGGATTTGA-A
* *
40487243 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGGATTT
40487264 CCTTGCTTTG
Statistics
Matches: 117, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
22 1 0.01
23 4 0.03
24 108 0.92
25 4 0.03
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:40487175 original size:48 final size:48
Alignment explanation
Indices: 40487099--40487263 Score: 183
Period size: 48 Copynumber: 3.4 Consensus size: 48
40487089 GAAATGACTT
* *
40487099 TGGCTCTATGTGTGCGAATTTGAATGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGGATTTGTA
* *
40487147 TGGCACTATGTGTGCGGATTTGTATGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGGATTTGTA
* * * * **
40487195 TGTCAATACATGTGTG-G-A-TTGCTAAGGCACTATGTGTGCGGGTTAATA
1 TGGCACT--ATGTGTGCGAATTTG-TATGGCACTATGTGTGCGGATTTGTA
*
40487243 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
40487264 CCTTGCTTTG
Statistics
Matches: 97, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
46 6 0.06
47 4 0.04
48 77 0.79
49 3 0.03
50 7 0.07
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.35
Consensus pattern (48 bp):
TGGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGGATTTGTA
Found at i:40487224 original size:72 final size:72
Alignment explanation
Indices: 40487099--40487263 Score: 206
Period size: 72 Copynumber: 2.3 Consensus size: 72
40487089 GAAATGACTT
* * ** *
40487099 TGGCTCTATGTGTGCGAATTTGAATGGCACTATGTGTGCGGATTTGTATGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATACATGTGCGGATTTGTAAGGCACTATGTGTGCGG
**
40487164 ATTTGTA
66 ATTAATA
* * *
40487171 TGGCACTATGTGTGCGGATTTGAATGTCAATACATGTGTGGA-TTGCTAAGGCACTATGTGTGCG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATACATGTGCGGATTTG-TAAGGCACTATGTGTGCG
*
40487235 GGTTAATA
65 GATTAATA
*
40487243 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
40487264 CCTTGCTTTG
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
71 3 0.04
72 76 0.96
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.35
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTTGAATGGCAATACATGTGCGGATTTGTAAGGCACTATGTGTGCGG
ATTAATA
Found at i:40488527 original size:27 final size:27
Alignment explanation
Indices: 40488496--40488549 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
40488486 GCTATATAGC
40488496 TTAGTAAGTCTATATGTAAGAAATAAG
1 TTAGTAAGTCTATATGTAAGAAATAAG
40488523 TTAGTAAGTCTATATGTAAGAAATAAG
1 TTAGTAAGTCTATATGTAAGAAATAAG
40488550 CAAACCTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.33
Consensus pattern (27 bp):
TTAGTAAGTCTATATGTAAGAAATAAG
Found at i:40499774 original size:40 final size:40
Alignment explanation
Indices: 40499719--40499864 Score: 240
Period size: 40 Copynumber: 3.7 Consensus size: 40
40499709 ACTTGAGGTA
* *
40499719 TTATCTGGGCTTAAAGACCCGTAGGCTTCGTGCTGGAATG
1 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
40499759 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
1 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
* *
40499799 TTATCCGGGCCTAAAGACCCACAGGCTTCGTGCTGGAATG
1 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
*
40499839 TTATCCGGGC-TAGAGACCCGCAGGCT
1 TTATCCGGGCTTAAAGACCCGCAGGCT
40499865 ATGAGTTGGT
Statistics
Matches: 100, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 14 0.14
40 86 0.86
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
Found at i:40509866 original size:15 final size:17
Alignment explanation
Indices: 40509848--40509879 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
40509838 TAACATATTT
40509848 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
40509863 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
40509880 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:40520468 original size:20 final size:21
Alignment explanation
Indices: 40520431--40520470 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
40520421 CGTATTTCGG
*
40520431 AAAAATGGGCCTCGATGGGCC
1 AAAAATGGGCCTCAATGGGCC
*
40520452 AAAATTGGGCC-CAATGGGC
1 AAAAATGGGCCTCAATGGGC
40520471 TTACGGACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.30, C:0.23, G:0.33, T:0.15
Consensus pattern (21 bp):
AAAAATGGGCCTCAATGGGCC
Found at i:40529250 original size:21 final size:22
Alignment explanation
Indices: 40529205--40529259 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
40529195 TGCAAGGCTC
*
40529205 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
**
40529227 ACACGCCCGTGT-GACCCTGGG
1 ACACGCCCGTGTGGACCAAGGG
*
40529248 ACACGCCTGTGT
1 ACACGCCCGTGT
40529260 TGGAGGCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:40531272 original size:26 final size:23
Alignment explanation
Indices: 40531195--40531400 Score: 229
Period size: 23 Copynumber: 8.7 Consensus size: 23
40531185 GACTCACCAT
40531195 AGCTCGTAAGAGCTTACCGTTTC
1 AGCTCGTAAGAGCTTACCGTTTC
*
40531218 AGCTTGTAAGAGCTTACCGTTTC
1 AGCTCGTAAGAGCTTACCGTTTC
*
40531241 AGCTCG-AATGAGCTTACAGATATATC
1 AGCTCGTAA-GAGCTTACCG-T-T-TC
40531267 AGCTCGTAAGAGCTTACCGTTTC
1 AGCTCGTAAGAGCTTACCGTTTC
* *
40531290 AGCTTGTAAGGGCTTACCGTTTC
1 AGCTCGTAAGAGCTTACCGTTTC
40531313 AGCTCG-AATGAGCTTACCGATATGTC
1 AGCTCGTAA-GAGCTTACCG-T-T-TC
*
40531339 AGCTCGTAAGAGCTTACCATTTC
1 AGCTCGTAAGAGCTTACCGTTTC
*
40531362 AGCTCAG-AGGAGCTTACCGTTTC
1 AGCTC-GTAAGAGCTTACCGTTTC
* **
40531385 AACTCAAAAGAGCTTA
1 AGCTCGTAAGAGCTTA
40531401 TTGATCATGC
Statistics
Matches: 157, Mismatches: 14, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
22 4 0.03
23 106 0.68
24 5 0.03
25 4 0.03
26 34 0.22
27 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (23 bp):
AGCTCGTAAGAGCTTACCGTTTC
Found at i:40531279 original size:49 final size:45
Alignment explanation
Indices: 40531195--40531400 Score: 202
Period size: 49 Copynumber: 4.4 Consensus size: 45
40531185 GACTCACCAT
*
40531195 AGCTCGTAAGAGCTTACCG-TTTCAGCTTGTAAGAGCTTACCGTTTC
1 AGCTCGTAAGAGCTTA-CGATTTCAGCTCG-AAGAGCTTACCGTTTC
40531241 AGCTCG-AATGAGCTTACAGATATATCAGCTCGTAAGAGCTTACCGTTTC
1 AGCTCGTAA-GAGCTTAC-GAT-T-TCAGCTCG-AAGAGCTTACCGTTTC
* *
40531290 AGCTTGTAAGGGCTTACCG-TTTCAGCTCGAATGAGCTTACCGATATGTC
1 AGCTCGTAAGAGCTTA-CGATTTCAGCTCGAA-GAGCTTACCG-T-T-TC
* *
40531339 AGCTCGTAAGAGCTTACCATTTCAGCTCAGAGGAGCTTACCGTTTC
1 AGCTCGTAAGAGCTTACGATTTCAGCTC-GAAGAGCTTACCGTTTC
* **
40531385 AACTCAAAAGAGCTTA
1 AGCTCGTAAGAGCTTA
40531401 TTGATCATGC
Statistics
Matches: 137, Mismatches: 10, Indels: 26
0.79 0.06 0.15
Matches are distributed among these distances:
45 5 0.04
46 47 0.34
47 4 0.03
48 5 0.04
49 71 0.52
50 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (45 bp):
AGCTCGTAAGAGCTTACGATTTCAGCTCGAAGAGCTTACCGTTTC
Found at i:40531312 original size:72 final size:72
Alignment explanation
Indices: 40531195--40531400 Score: 308
Period size: 72 Copynumber: 2.9 Consensus size: 72
40531185 GACTCACCAT
*
40531195 AGCTCGTAAGAGCTTACCGTTTCAGCTTGTAAGAGCTTACCGTTTCAGCTCGAATGAGCTTACAG
1 AGCTCGTAAGAGCTTACCGTTTCAGCTTGTAAGGGCTTACCGTTTCAGCTCGAATGAGCTTACAG
40531260 ATATATC
66 ATATATC
*
40531267 AGCTCGTAAGAGCTTACCGTTTCAGCTTGTAAGGGCTTACCGTTTCAGCTCGAATGAGCTTACCG
1 AGCTCGTAAGAGCTTACCGTTTCAGCTTGTAAGGGCTTACCGTTTCAGCTCGAATGAGCTTACAG
*
40531332 ATATGTC
66 ATATATC
* * * * *
40531339 AGCTCGTAAGAGCTTACCATTTCAGC-T-CAGAGGAGCTTACCGTTTCAACTCAAAAGAGCTTA
1 AGCTCGTAAGAGCTTACCGTTTCAGCTTGTA-AGG-GCTTACCGTTTCAGCTCGAATGAGCTTA
40531401 TTGATCATGC
Statistics
Matches: 124, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
70 1 0.01
71 4 0.03
72 119 0.96
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (72 bp):
AGCTCGTAAGAGCTTACCGTTTCAGCTTGTAAGGGCTTACCGTTTCAGCTCGAATGAGCTTACAG
ATATATC
Found at i:40540553 original size:40 final size:40
Alignment explanation
Indices: 40540505--40540756 Score: 359
Period size: 40 Copynumber: 6.3 Consensus size: 40
40540495 TATTCGGATG
* *
40540505 ATAACCGGGCTAAGTTCCGAAGGCATTTGTGCTGA-TGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
* * *
40540545 A-ATTCCGGGCTAAGTCCTGAAGGCATTTGTGTGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
40540585 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
40540625 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
40540665 ATAACCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTAAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
40540705 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
*
40540745 ATATCC-GGCTAA
1 ATAACCGGGCTAA
40540757 ACCCCGTAGG
Statistics
Matches: 192, Mismatches: 16, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
39 11 0.06
40 180 0.94
41 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:40568228 original size:15 final size:15
Alignment explanation
Indices: 40568208--40568237 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
40568198 ATGCACAACT
40568208 TAGGCAAATAAAACA
1 TAGGCAAATAAAACA
40568223 TAGGCAAATAAAACA
1 TAGGCAAATAAAACA
40568238 AAATATAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (15 bp):
TAGGCAAATAAAACA
Found at i:40572013 original size:63 final size:63
Alignment explanation
Indices: 40571935--40572187 Score: 488
Period size: 63 Copynumber: 4.0 Consensus size: 63
40571925 TAACTCTGCA
*
40571935 TGATGCTATTGTAAACTGTAGATGAAAGACTATTGAGTTGAAATGTCAAAATAGTGAAATTCT
1 TGATGCTGTTGTAAACTGTAGATGAAAGACTATTGAGTTGAAATGTCAAAATAGTGAAATTCT
40571998 TGATGCTGTTGTAAACTGTAGATGAAAGACTATTGAGTTGAAATGTCAAAATAGTGAAATTCT
1 TGATGCTGTTGTAAACTGTAGATGAAAGACTATTGAGTTGAAATGTCAAAATAGTGAAATTCT
40572061 TGATGCTGTTGTAAACTGTAGATGAAAGACTATTGAGTTGAAATGTCAAAATAGTGAAATTCT
1 TGATGCTGTTGTAAACTGTAGATGAAAGACTATTGAGTTGAAATGTCAAAATAGTGAAATTCT
*
40572124 TGATGCTGTTGTAAACTGTAGATGAAAGACTATTGAGTTGAAATGTTAAAATAGTGAAATTCT
1 TGATGCTGTTGTAAACTGTAGATGAAAGACTATTGAGTTGAAATGTCAAAATAGTGAAATTCT
40572187 T
1 T
40572188 TGTATTGAAT
Statistics
Matches: 188, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 188 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.34
Consensus pattern (63 bp):
TGATGCTGTTGTAAACTGTAGATGAAAGACTATTGAGTTGAAATGTCAAAATAGTGAAATTCT
Found at i:40574974 original size:28 final size:28
Alignment explanation
Indices: 40574892--40575096 Score: 272
Period size: 28 Copynumber: 7.4 Consensus size: 28
40574882 GAGATTGGCG
* * * *
40574892 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
40574921 CTAAGTGTGCGA-ATTGAATATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
40574948 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
40574976 CTAAGTGTGCGAGTATGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
40575004 CTAAGTGTGCGAG-TTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
40575031 CTAAGTGTGCGAGTATGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
40575059 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
40575086 CTGAGTGTGCG
1 CTAAGTGTGCG
40575097 GACTTAATAT
Statistics
Matches: 157, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
27 67 0.43
28 79 0.50
29 11 0.07
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:40574982 original size:55 final size:55
Alignment explanation
Indices: 40574917--40575096 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
40574907 TAAATTGTGC
* *
40574917 AGCACTAAGTGTGCGAAT-TGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
40574972 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* *
40575027 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
40575082 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40575097 GACTTAATAT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 94 0.79
56 25 0.21
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:40575032 original size:83 final size:82
Alignment explanation
Indices: 40574917--40575096 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
40574907 TAAATTGTGC
*
40574917 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
*
40574982 GTGCGAGTATGATTATGT
66 GTGCGAGT-TGATTATAT
* * *
40575000 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
40575065 GTGCGAGTTGATTATAT
66 GTGCGAGTTGATTATAT
*
40575082 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40575097 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 22 0.24
83 69 0.76
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
GTGCGAGTTGATTATAT
Found at i:40579067 original size:20 final size:21
Alignment explanation
Indices: 40579027--40579067 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
40579017 GACTGAGGCC
*
40579027 CTTGTTTTGATACAACTAGAG
1 CTTGTTTTGATACAACCAGAG
*
40579048 CTTG-TTTGATACAGCCAGAG
1 CTTGTTTTGATACAACCAGAG
40579068 TCTGGAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (21 bp):
CTTGTTTTGATACAACCAGAG
Found at i:40582706 original size:9 final size:9
Alignment explanation
Indices: 40582692--40582718 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
40582682 TGGGCCAAAC
40582692 AGCCCATTT
1 AGCCCATTT
40582701 AGCCCATTT
1 AGCCCATTT
40582710 AGCCCATTT
1 AGCCCATTT
40582719 TGGCCCGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (9 bp):
AGCCCATTT
Found at i:40582856 original size:16 final size:16
Alignment explanation
Indices: 40582835--40582895 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
40582825 ATAGCCAAAC
40582835 TTTTGGCTTTTCGATA
1 TTTTGGCTTTTCGATA
* * *
40582851 TTTTGGTTTTTAGACA
1 TTTTGGCTTTTCGATA
* *
40582867 TTTCGGCTATTT-GGTA
1 TTTTGGCT-TTTCGATA
*
40582883 TTTTGACTTTTCG
1 TTTTGGCTTTTCG
40582896 GGATTTGCCG
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
15 3 0.09
16 28 0.82
17 3 0.09
ACGTcount: A:0.13, C:0.11, G:0.20, T:0.56
Consensus pattern (16 bp):
TTTTGGCTTTTCGATA
Found at i:40587703 original size:98 final size:96
Alignment explanation
Indices: 40587530--40587727 Score: 369
Period size: 98 Copynumber: 2.0 Consensus size: 96
40587520 CCATAAATAC
40587530 CGCAGGGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCATAA
1 CGCAGGGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCATAA
40587595 AGCAGTTTTGGGTATGTCCGAATCTCGAATT
66 AGCAGTTTTGGGTATGTCCGAATCTCGAATT
*
40587626 GCGCAGGGGCATTAGTGAGCCGAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCAT
1 -CGCA-GGGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCAT
40587691 AAAGCAGTTTTGGGTATGTCCGAATCTCGAATT
64 AAAGCAGTTTTGGGTATGTCCGAATCTCGAATT
40587724 CGCA
1 CGCA
40587728 ACTGATAATA
Statistics
Matches: 99, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
97 8 0.08
98 91 0.92
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (96 bp):
CGCAGGGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCATAA
AGCAGTTTTGGGTATGTCCGAATCTCGAATT
Found at i:40589935 original size:80 final size:79
Alignment explanation
Indices: 40589851--40590022 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
40589841 GGACTAAGAT
*
40589851 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
40589915 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
40589931 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
40589996 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
40590010 CCGAAGGCATTTG
1 CCGAAGGCATTTG
40590023 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:40590002 original size:39 final size:39
Alignment explanation
Indices: 40589798--40590020 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
40589788 TTGAATGCTG
* * * * *
40589798 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
40589838 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
40589877 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
40589918 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
40589958 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
40589997 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
40590021 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:40590040 original size:79 final size:80
Alignment explanation
Indices: 40589878--40590055 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
40589868 AGATACAAAT
* * * *
40589878 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
40589943 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
40589958 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
40590022 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
40590037 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
40590056 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:40594833 original size:29 final size:29
Alignment explanation
Indices: 40594771--40594837 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
40594761 AATCAACCGT
40594771 GCACACTTAGTGCCATGCACTTTAAACTC
1 GCACACTTAGTGCCATGCACTTTAAACTC
* **
40594800 ACACACTTAGTGCCATGCA-TTTCAAGTTC
1 GCACACTTAGTGCCATGCACTTT-AAACTC
40594829 GCACACTTA
1 GCACACTTA
40594838 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCACTTTAAACTC
Found at i:40594951 original size:174 final size:174
Alignment explanation
Indices: 40594659--40594986 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
40594649 AACTCAAGGT
* * *
40594659 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATTTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
40594724 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGTGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
40594789 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
40594833 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
40594898 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
40594963 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
40594987 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:40594978 original size:29 final size:30
Alignment explanation
Indices: 40594939--40595017 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
40594929 CTTAATAATC
40594939 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
40594969 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
40594998 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
40595018 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:40598368 original size:27 final size:26
Alignment explanation
Indices: 40598332--40598421 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 26
40598322 GCCATCAGTG
40598332 ATGGT-AATATAATCGGCACACAGCC
1 ATGGTAAATATAATCGGCACACAGCC
* * * *
40598357 ATGGGTAAATATTATCGACACAGAGTC
1 AT-GGTAAATATAATCGGCACACAGCC
* * * *
40598384 ATCGATAAATATGATAGGCACATAGCC
1 AT-GGTAAATATAATCGGCACACAGCC
40598411 ACTGGTAAATA
1 A-TGGTAAATA
40598422 CAATTTGAAC
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 44 0.88
28 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (26 bp):
ATGGTAAATATAATCGGCACACAGCC
Found at i:40599555 original size:43 final size:42
Alignment explanation
Indices: 40599450--40599585 Score: 159
Period size: 43 Copynumber: 3.2 Consensus size: 42
40599440 TACATGCTAT
* * * *
40599450 ACATATCGATGCC-ACTGTTCCAGATAGGGTCTTACACGAATC
1 ACATATCGATGCCAAC-GTCCCAGACATGGTCTTACACAAATC
* *
40599492 AAATA-CGATGCCAATGTCCCAGACATGGTCTTACACATAATC
1 ACATATCGATGCCAACGTCCCAGACATGGTCTTACACA-AATC
* *
40599534 ACATATCGATGCCAACGTCCCAGACGTGGTCTTACACAAGAAC
1 ACATATCGATGCCAACGTCCCAGACATGGTCTTACACAA-ATC
40599577 ACATATCGA
1 ACATATCGA
40599586 AAATCCTATG
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
41 25 0.31
42 14 0.17
43 41 0.51
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
ACATATCGATGCCAACGTCCCAGACATGGTCTTACACAAATC
Found at i:40611356 original size:39 final size:40
Alignment explanation
Indices: 40611199--40611423 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
40611189 GCTCCTCGTT
*
40611199 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
40611239 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
40611279 CAAATGCCTTCGGGACTTACCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
40611319 CCAATGCCGTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
40611358 CAAATTCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
40611399 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40611424 CATCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 113 0.71
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40611383 original size:119 final size:120
Alignment explanation
Indices: 40611201--40611423 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
40611191 TCCTCGTTCA
* *
40611201 AATGCCTTCGGGACATAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCGTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
40611266 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTACCCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTACCCCGGATTTAGTAACTCGCACC
* * * **
40611321 AATGCCGTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATTCCTTC-GGATCTTAGTCCGG
1 AATGCCGTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
40611383 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTACCCCGGA
40611424 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 63 0.72
120 22 0.25
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCGTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTACCCCGGATTTAGTAACTCGCACC
Found at i:40616760 original size:43 final size:43
Alignment explanation
Indices: 40616643--40616779 Score: 174
Period size: 43 Copynumber: 3.2 Consensus size: 43
40616633 CAGACGTGCT
* *
40616643 ATCACATATCGATGCCAGTGTCCCAGATAG-GGTCTTACAC-GA
1 ATCACATATCGATGCCAATGTCCCAGA-CGTGGTCTTACACAGA
* * *
40616685 ATCAAATA-CGATGCCAATGTCCCAGACATGGTCTTACACATA
1 ATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACAGA
*
40616727 ATCACATATCGATGCCAATGTCCTAGACGTGGTCTTACACGAGA
1 ATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACAC-AGA
40616771 A-CACATATC
1 ATCACATATC
40616780 AGAAATCCTA
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
41 27 0.33
42 15 0.18
43 37 0.45
44 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACAGA
Found at i:40621590 original size:55 final size:54
Alignment explanation
Indices: 40621503--40621757 Score: 235
Period size: 55 Copynumber: 4.8 Consensus size: 54
40621493 ATTAGGGTTT
* *
40621503 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAACTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
40621558 AAGGATATCATGTAA-AGCCATGTCAAGACATGG-TATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGA-CCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
40621613 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * *
40621666 AAGGATACCATGTAAGACCATGTCGAGACATGG-AAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
40621715 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
40621758 GTACCCGTGT
Statistics
Matches: 165, Mismatches: 24, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
49 36 0.22
50 2 0.01
52 7 0.04
53 40 0.24
54 11 0.07
55 64 0.39
56 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:40621709 original size:108 final size:110
Alignment explanation
Indices: 40621510--40621710 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 110
40621500 TTTAAGGATA
*
40621510 CCATGTAAGACCATGCCAAGGCATGGCAACTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAACTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAAG
* *
40621575 CCATGTCAAGACATGGTATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
* *
40621620 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGT-AA
1 CCATGTAAGACCATGCCAAGGCATGGCAACTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAA
* *
40621681 GACCATGTCGAGACATGGAAATGGTAAGTT
65 G-CCATGTCAAGACATGGAAATGATAAGTT
40621711 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 6 0.07
108 43 0.52
109 6 0.07
110 27 0.33
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAACTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAAG
CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:40627268 original size:49 final size:49
Alignment explanation
Indices: 40627212--40627386 Score: 233
Period size: 49 Copynumber: 3.5 Consensus size: 49
40627202 CTAGTACGCA
*
40627212 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
* * * * * *
40627261 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATTCGGTACACG
* * *
40627312 TAGTAGCCTACACTTAGTACTACACATGCGACTAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
*
40627361 TAGTAGCCTGTACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
40627387 CGTGACCTCA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 63 0.59
50 6 0.06
51 38 0.36
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
Found at i:40627339 original size:100 final size:100
Alignment explanation
Indices: 40627205--40627391 Score: 329
Period size: 100 Copynumber: 1.9 Consensus size: 100
40627195 AAGCTATCTA
* * *
40627205 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACATGTAGTAGCCT
1 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
40627270 GCACTTAGTACTACACACGTGATCGAAGTTATTGG
66 GCACTTAGTACTACACACGTGATCGAAGTTATTGG
*
40627305 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACTAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
*
40627370 GTACTTAGTACTACACACGTGA
66 GCACTTAGTACTACACACGTGA
40627392 CCTCACAATA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (100 bp):
GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATCGAAGTTATTGG
Found at i:40629328 original size:45 final size:45
Alignment explanation
Indices: 40629274--40629420 Score: 145
Period size: 45 Copynumber: 3.3 Consensus size: 45
40629264 ACCAGAAACG
*
40629274 AGTAAGACCATGACTAAAAGATGTTATGGCATCACAATTCTATCA
1 AGTAAGACCATGACTAAAAGAAGTTATGGCATCACAATTCTATCA
* * * * * *
40629319 AGTACGACCACGGCTAAAAGAAGTTATGGCAACACGATTCTATCG
1 AGTAAGACCATGACTAAAAGAAGTTATGGCATCACAATTCTATCA
* * * * *
40629364 AGTAAGACCAT-AGCTGAAAGACGCTATGACATCACAAATCATAT-A
1 AGTAAGACCATGA-CTAAAAGAAGTTATGGCATCACAATTC-TATCA
*
40629409 AATAAGACCATG
1 AGTAAGACCATG
40629421 GTTGAAAGAC
Statistics
Matches: 80, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
45 77 0.96
46 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (45 bp):
AGTAAGACCATGACTAAAAGAAGTTATGGCATCACAATTCTATCA
Found at i:40629429 original size:90 final size:90
Alignment explanation
Indices: 40629272--40629446 Score: 194
Period size: 90 Copynumber: 1.9 Consensus size: 90
40629262 ATACCAGAAA
* * * * * *
40629272 CGAGTAAGACCATGACTAAAAGATGTTATGGCATCACAATTCTATCAAGTACGACCACGGCTAAA
1 CGAGTAAGACCATGACTAAAAGACGCTATGACATCACAAATCTATCAAATAAGACCACGGCTAAA
*
40629337 AGA-AGTTATGGCAACACGATTCTAT
66 AGACA-CTATGGCAACACGATTCTAT
* * * *
40629362 CGAGTAAGACCAT-AGCTGAAAGACGCTATGACATCACAAATCATAT-AAATAAGACCATGGTTG
1 CGAGTAAGACCATGA-CTAAAAGACGCTATGACATCACAAATC-TATCAAATAAGACCACGGCTA
*
40629425 AAAGACACTATGTCAACACGAT
64 AAAGACACTATGGCAACACGAT
40629447 AGAAAATGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
89 1 0.01
90 65 0.93
91 4 0.06
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (90 bp):
CGAGTAAGACCATGACTAAAAGACGCTATGACATCACAAATCTATCAAATAAGACCACGGCTAAA
AGACACTATGGCAACACGATTCTAT
Found at i:40629467 original size:46 final size:45
Alignment explanation
Indices: 40629409--40629615 Score: 288
Period size: 46 Copynumber: 4.5 Consensus size: 45
40629399 AAATCATATA
*
40629409 AATAAGACCATGGTTGAAAGACACTATGTCAACACGATAGAAAATG
1 AATAAGACCATGGTTGAAAGACACTATGGCAACACGAT-GAAAATG
* * * *
40629455 AATAAGACCATGGTTGAAAGACACTATTGTAACATGACAGAAAATG
1 AATAAGACCATGGTTGAAAGACACTATGGCAACACGA-TGAAAATG
*
40629501 AATAAGACCATGGTTGAAAGACACTATGGCAACACGGTGAAAAATG
1 AATAAGACCATGGTTGAAAGACACTATGGCAACACGATG-AAAATG
* * * *
40629547 AATAAGACCATGGTTGAAAGACACTATGGCATCAAGATGAGAATA
1 AATAAGACCATGGTTGAAAGACACTATGGCAACACGATGAAAATG
*
40629592 AATAAAACCATGGTTGAAAGACAC
1 AATAAGACCATGGTTGAAAGACAC
40629616 CATGACACTC
Statistics
Matches: 143, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
45 28 0.20
46 115 0.80
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.19
Consensus pattern (45 bp):
AATAAGACCATGGTTGAAAGACACTATGGCAACACGATGAAAATG
Found at i:40632444 original size:26 final size:27
Alignment explanation
Indices: 40632407--40632533 Score: 145
Period size: 26 Copynumber: 4.8 Consensus size: 27
40632397 TGTGCCTAGA
40632407 CCCTTAAT-TGATAAAATGACTGTTTTG
1 CCCTT-ATGTGATAAAATGACTGTTTTG
* * *
40632434 CCCTAAT-TGATTAAATGACTGTTTTA
1 CCCTTATGTGATAAAATGACTGTTTTG
*
40632460 CCCTTATATG-TAAAATGACTG-TTTG
1 CCCTTATGTGATAAAATGACTGTTTTG
* * *
40632485 GCCTTATGTGGTAAAATGATTGTTTTG
1 CCCTTATGTGATAAAATGACTGTTTTG
*
40632512 CCCTTATGTGGTAAAATGACTG
1 CCCTTATGTGATAAAATGACTG
40632534 CTGCAAATCA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
25 11 0.13
26 45 0.52
27 30 0.35
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACTGTTTTG
Found at i:40635343 original size:68 final size:68
Alignment explanation
Indices: 40635269--40635395 Score: 245
Period size: 68 Copynumber: 1.9 Consensus size: 68
40635259 TTTCCAAAGT
40635269 ATGATTTATGGACTGATTTGAACAATGTGATAATTAAATAAGTGAAATTTGATACTATAAATCAA
1 ATGATTTATGGACTGATTTGAACAATGTGATAATTAAATAAGTGAAATTTGATACTATAAATCAA
40635334 GAA
66 GAA
*
40635337 ATGATTTATGGACTTATTTGAACAATGTGATAATTAAATAAGTGAAATTTGATACTATA
1 ATGATTTATGGACTGATTTGAACAATGTGATAATTAAATAAGTGAAATTTGATACTATA
40635396 GATAAAAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.36
Consensus pattern (68 bp):
ATGATTTATGGACTGATTTGAACAATGTGATAATTAAATAAGTGAAATTTGATACTATAAATCAA
GAA
Found at i:40635759 original size:48 final size:48
Alignment explanation
Indices: 40635679--40635859 Score: 155
Period size: 48 Copynumber: 3.9 Consensus size: 48
40635669 GGGTTATGTG
* *
40635679 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATT
1 TGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGATATT
* * *
40635727 TGATCCCATGTAAGATCATATCTAGGATATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGATATT
* * * * * *
40635775 AGA-CATCGTGTAAGACCATAGT-T-GGGCTATCGTC-TTTG-ATC--TA--
1 TGATC-CCATGTAAGACCATA-TCTAGGAC-AT-GGCATTGGCATCGATATT
*
40635818 TGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATC
1 TGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATC
40635860 TTACTATGTG
Statistics
Matches: 104, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
42 3 0.03
43 21 0.20
44 6 0.06
45 2 0.02
47 6 0.06
48 63 0.61
49 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGATATT
Found at i:40643981 original size:55 final size:55
Alignment explanation
Indices: 40643905--40644011 Score: 171
Period size: 55 Copynumber: 1.9 Consensus size: 55
40643895 TTATTAGGGA
**
40643905 AAGAAAACCCAGAATCGCCTTTCCTGGTGGCCTAGTTTAACTTCCTATAATTCCT
1 AAGAAAACCCAGAATAACCTTTCCTGGTGGCCTAGTTTAACTTCCTATAATTCCT
*
40643960 AAGAAAACCC-GTAATAACCTTTCCTGGTGGCCTTGTTTAACTTCCTATAATT
1 AAGAAAACCCAG-AATAACCTTTCCTGGTGGCCTAGTTTAACTTCCTATAATT
40644012 TCTACAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
54 1 0.02
55 47 0.98
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (55 bp):
AAGAAAACCCAGAATAACCTTTCCTGGTGGCCTAGTTTAACTTCCTATAATTCCT
Found at i:40648247 original size:27 final size:26
Alignment explanation
Indices: 40648217--40648341 Score: 144
Period size: 27 Copynumber: 4.7 Consensus size: 26
40648207 TTACCCTACA
* *
40648217 AGGGTATTTCAATAATTTCACAATTT
1 AGGGTATTTCGATAATTTCACAAATT
* *
40648243 GAGGGTATTTCGTTAATTTCTCAAATT
1 -AGGGTATTTCGATAATTTCACAAATT
*
40648270 AGGGTATTTCGATCATTTCACAAATT
1 AGGGTATTTCGATAATTTCACAAATT
**
40648296 AGGGGTATTTCGATAATTTCACAACCT
1 A-GGGTATTTCGATAATTTCACAAATT
40648323 AGGGGTATTTC-AGTAATTT
1 A-GGGTATTTCGA-TAATTT
40648342 TATAAACCGG
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 25 0.29
27 61 0.71
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.40
Consensus pattern (26 bp):
AGGGTATTTCGATAATTTCACAAATT
Found at i:40648302 original size:53 final size:53
Alignment explanation
Indices: 40648217--40648341 Score: 153
Period size: 53 Copynumber: 2.3 Consensus size: 53
40648207 TTACCCTACA
* * * *
40648217 AGGGTATTTCAATAATTTCACAATTTGAGGGTATTTCGTTAATTTCTCAAATT
1 AGGGTATTTCAATAATTTCACAATTAGAGGGTATTTCGATAATTTCACAAACT
* * *
40648270 AGGGTATTTCGATCATTTCACAAATTAG-GGGTATTTCGATAATTTCACAACCT
1 AGGGTATTTCAATAATTTCAC-AATTAGAGGGTATTTCGATAATTTCACAAACT
*
40648323 AGGGGTATTTCAGTAATTT
1 A-GGGTATTTCAATAATTT
40648342 TATAAACCGG
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 41 0.68
54 19 0.32
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.40
Consensus pattern (53 bp):
AGGGTATTTCAATAATTTCACAATTAGAGGGTATTTCGATAATTTCACAAACT
Found at i:40648356 original size:27 final size:25
Alignment explanation
Indices: 40648325--40648399 Score: 107
Period size: 25 Copynumber: 2.9 Consensus size: 25
40648315 CACAACCTAG
40648325 GGGTATTTCAGTAATTTTATAAACCG-
1 GGGTATTTCAGTAATTTTATAAA--GA
*
40648351 GAGGTATTTCAGTAATTTTACAAAGA
1 G-GGTATTTCAGTAATTTTATAAAGA
40648377 GGGTATTTCAGTAATTTTATAAA
1 GGGTATTTCAGTAATTTTATAAA
40648400 TTGGGGTCCA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
25 22 0.49
26 2 0.04
27 21 0.47
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.39
Consensus pattern (25 bp):
GGGTATTTCAGTAATTTTATAAAGA
Found at i:40651119 original size:43 final size:42
Alignment explanation
Indices: 40651072--40651153 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
40651062 TCCCGGACGT
* * * *
40651072 GGTCTTACATGTAATTCA-ATATCGATGCCTCTGTCCCAGATAG
1 GGTCTTACACGAAATT-AGATAT-GATGCCTATGTCACAGATAG
40651115 GGTCTTACACGAAATTAGATATGATGCCTATGTCACAGA
1 GGTCTTACACGAAATTAGATATGATGCCTATGTCACAGA
40651154 CATGGTCCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 16 0.47
43 18 0.53
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (42 bp):
GGTCTTACACGAAATTAGATATGATGCCTATGTCACAGATAG
Found at i:40656015 original size:49 final size:49
Alignment explanation
Indices: 40655949--40656254 Score: 455
Period size: 49 Copynumber: 6.4 Consensus size: 49
40655939 ACGTGAGAAA
40655949 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* *
40655998 GTATATATATGCGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
40656047 G--TATATATGGGATAAGGCCTAATGGCCGATGTGATGAAAT-TGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATG-AATGTGAAAGT
*
40656094 GTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* *
40656143 GTATATATATGGGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * * *
40656192 GTATATATATTTGATAAGGCCTAA--CCCAACGTGATGGATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
40656239 GTATA-A-ATGTGATAAG
1 GTATATATATGTGATAAG
40656255 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 15, Indels: 12
0.90 0.06 0.05
Matches are distributed among these distances:
45 9 0.04
46 1 0.00
47 66 0.28
48 6 0.03
49 156 0.66
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (49 bp):
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:40656110 original size:96 final size:95
Alignment explanation
Indices: 40655945--40656254 Score: 453
Period size: 96 Copynumber: 3.2 Consensus size: 95
40655935 GTATACGTGA
* * *
40655945 GAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGC
1 GAAAGTGTATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
*
40656010 GATAAGGCCTAATGGCCGATGTGAAGAATGT
66 GATAAGGCCTAA-GGCCGATGTGATGAATGT
40656041 GAAAGTGTATATATGGGATAAGGCCTAATGGCCGATGTGATGAAAT-TGAAAGTGTATATATATG
1 GAAAGTGTATATATGGGATAAGGCCTAATGGCCGATGTGATG-AATGTGAAAGTGTATATATATG
40656105 TGATAAGGCCTAACGGCCGATGTGATGAATGT
65 TGATAAGGCCTAA-GGCCGATGTGATGAATGT
*
40656137 GAAAGTGTATATATATGGGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATAT
1 GAAAGTG--TATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
* * * * *
40656202 TTGATAAGGCCTAA-CCCAACGTGATGGATGT
64 GTGATAAGGCCTAAGGCCGATGTGATGAATGT
* *
40656233 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGGGATAAG
40656255 TCCCGAAGGG
Statistics
Matches: 197, Mismatches: 13, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
94 13 0.07
96 114 0.58
97 6 0.03
98 64 0.32
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (95 bp):
GAAAGTGTATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
GATAAGGCCTAAGGCCGATGTGATGAATGT
Found at i:40656226 original size:145 final size:144
Alignment explanation
Indices: 40655949--40656254 Score: 458
Period size: 145 Copynumber: 2.1 Consensus size: 144
40655939 ACGTGAGAAA
*
40655949 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGCGATA
1 GTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATATATATGCGATA
* * * *
40656014 AGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATATATGGGATAAGGCCTAATGGCCGATGT
66 AGGCCTAATGGCCAATGTGAAGAATGTGAAAGTGTATATATGGGATAAGGCCTAA-GCCCAACGT
40656079 GATGAAAT-TGAAAGT
130 GATG-AATGTGAAAGT
*
40656094 GTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATATATATGGGATA
1 GTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATATATATGCGATA
* **
40656159 AGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATTTGATAAGGCCTAA-CCCAACG
66 AGGCCTAATGGCCAATGTGAAGAATGTGAAAGTG--TATATATGGGATAAGGCCTAAGCCCAACG
*
40656223 TGATGGATGTGAAAGT
129 TGATGAATGTGAAAGT
40656239 GTATA-A-ATGTGATAAG
1 GTATATATATGTGATAAG
40656255 TCCCGAAGGG
Statistics
Matches: 148, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
143 10 0.07
144 3 0.02
145 116 0.78
147 19 0.13
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (144 bp):
GTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATATATATGCGATA
AGGCCTAATGGCCAATGTGAAGAATGTGAAAGTGTATATATGGGATAAGGCCTAAGCCCAACGTG
ATGAATGTGAAAGT
Found at i:40656405 original size:47 final size:47
Alignment explanation
Indices: 40656336--40656601 Score: 415
Period size: 47 Copynumber: 5.7 Consensus size: 47
40656326 CTGATTAATG
40656336 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * *
40656383 GATGAATGTGAAGGTGTATATATGTGGTAAGGCCTAATGGCCAAAGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
40656430 GATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
40656477 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * * * *
40656524 GATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
40656571 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAAGTGTATATATGTGATAAG
40656602 TCCCGAAGGG
Statistics
Matches: 199, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 199 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:40656640 original size:347 final size:349
Alignment explanation
Indices: 40655983--40656682 Score: 1151
Period size: 347 Copynumber: 2.0 Consensus size: 349
40655973 TGGCCGATGT
40655983 GATGAATGTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTG
1 GATGAATGTGAAAGTG-ATATATATGCGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTG
* * *
40656048 TATATATGGGATAAGGCCTAATGGCCGATGTGATGAAATTGAAAGTGTATATATATGTGATAAGG
65 TATATATGGGATAAGGCCTAATGGCCAAAGTGATGAAATCGAAAGTG-ATATATATGTGATAAGG
40656113 CCTAACGGCCGATGTGATGAATGTGAAAGTGTATATATATGGGATAAGGCCTAATGGCCAATGTG
129 CCTAACGGCCGATGTGATGAATGTGAAAGTG-ATATATATGGGATAAGGCCTAATGGCCAATGTG
* * *
40656178 ATGAATGTGAAAGTGTATATATATTTGATAAGGCCTAACCCAACGTGATGGATGTGAAAGTGTAT
193 ATGAATGTGAAAGTG-ATATATATGTGACAAGGCCGAACCCAACGTGATGGATGTGAAAGTGTAT
40656243 AAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAGGCTT
257 AAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAGGCTT
40656308 TATGCGAGAATATTATCACTGATTAATG
322 TATGCGAGAATATTATCACTGATTAATG
* * *
40656336 GATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
1 GATGAATGTGAAAGTGATATATATGCGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGT
40656400 ATATATGTGG-TAAGGCCTAATGGCCAAAGTGATG-AATGCGAAAGTG-TATATATGTGATAAGG
66 ATATATG-GGATAAGGCCTAATGGCCAAAGTGATGAAAT-CGAAAGTGATATATATGTGATAAGG
* * *
40656462 CCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGA
129 CCTAACGGCCGATGTGATGAATGTGAAAGTGATATATATGGGATAAGGCCTAATGGCCAATGTGA
* **
40656526 TGAATGTGAAAGTG-TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
194 TGAATGTGAAAGTGATATATATGTGACAAGGCCGA--ACCCAACGTGATGGATGTGAAAGTGTAT
40656590 AAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAGGCTT
257 AAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAGGCTT
40656655 TATGCGAGAATATTATCACTGATTAATG
322 TATGCGAGAATATTATCACTGATTAATG
40656683 TCCGTAAGCT
Statistics
Matches: 328, Mismatches: 15, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
345 16 0.05
347 164 0.50
349 46 0.14
350 3 0.01
351 81 0.25
352 2 0.01
353 16 0.05
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (349 bp):
GATGAATGTGAAAGTGATATATATGCGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGT
ATATATGGGATAAGGCCTAATGGCCAAAGTGATGAAATCGAAAGTGATATATATGTGATAAGGCC
TAACGGCCGATGTGATGAATGTGAAAGTGATATATATGGGATAAGGCCTAATGGCCAATGTGATG
AATGTGAAAGTGATATATATGTGACAAGGCCGAACCCAACGTGATGGATGTGAAAGTGTATAAAT
GTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAGGCTTTATG
CGAGAATATTATCACTGATTAATG
Found at i:40656789 original size:37 final size:37
Alignment explanation
Indices: 40656720--40656798 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
40656710 CCGAGCTCTA
* * * *
40656720 AAGACCCGATGACTACGCGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATGTCCAGGT
* *
40656757 AAGACCCGATAACTTCGTGTGGAGATTATGTCCAGGT
1 AAGACCCGATAACTACGCGTGGAGATTATGTCCAGGT
40656794 AAGAC
1 AAGAC
40656799 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGCGTGGAGATTATGTCCAGGT
Found at i:40663050 original size:42 final size:43
Alignment explanation
Indices: 40662973--40663111 Score: 133
Period size: 42 Copynumber: 3.2 Consensus size: 43
40662963 TCCCGGACGT
* * ** *
40662973 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCATACAG
1 GGTCTTACACGAAATTCAATATCGATGCCGATGTCCCAGACAG
*
40663016 GGTCTTACACGAAATT-AGATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATTCA-ATATCGATGCCGATGTCCCAGACAG
* * *
40663058 GGTCTTACACGTAAATCTCAA-ATTGAAGCCTG-TGTCCCAGACAC
1 GGTCTTACACG-AAAT-TCAATATCGATGCC-GATGTCCCAGACAG
40663102 GGTCTTACAC
1 GGTCTTACAC
40663112 AATATTTTAG
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
42 29 0.36
43 22 0.27
44 28 0.35
45 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGAAATTCAATATCGATGCCGATGTCCCAGACAG
Found at i:40668931 original size:25 final size:25
Alignment explanation
Indices: 40668902--40668949 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40668892 TTATAATATG
* * *
40668902 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
40668927 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
40668950 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:40669052 original size:20 final size:20
Alignment explanation
Indices: 40668994--40669054 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
40668984 AAACATGGTA
**
40668994 TGTATGATATGCACATGACA
1 TGTATGATATGCACATGATG
40669014 TGTATGATATGCACATGATG
1 TGTATGATATGCACATGATG
40669034 TGTATGATATGCACATGATG
1 TGTATGATATGCACATGATG
40669054 T
1 T
40669055 ATTCATAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (20 bp):
TGTATGATATGCACATGATG
Found at i:40669160 original size:24 final size:24
Alignment explanation
Indices: 40669101--40669221 Score: 174
Period size: 24 Copynumber: 5.0 Consensus size: 24
40669091 GGAGGAAGTG
*
40669101 TAAAAGGGCTTATACCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
40669125 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
40669150 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
40669174 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
40669197 TAAAAGAGGC-TATGTCTCCAGTTAT
1 TAAAAG-GGCTTATG-CCCCAGTTAT
40669222 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
23 19 0.21
24 39 0.44
25 31 0.35
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:40669173 original size:49 final size:48
Alignment explanation
Indices: 40669101--40669230 Score: 174
Period size: 49 Copynumber: 2.6 Consensus size: 48
40669091 GGAGGAAGTG
*
40669101 TAAAAGGGCTTATACCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTT-TGCCCCAGTTAT
*
40669150 TAAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTTGCCCCAGTTAT
*
40669197 TAAAAGAGGC-TATGTCTCCAGTTATATGATAAAG
1 TAAAAG-GGCTTATG-CCCCAG-T-TATGATAAAG
40669231 CAGCTATGCT
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
47 22 0.31
48 17 0.24
49 25 0.35
50 4 0.06
51 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (48 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTTGCCCCAGTTAT
Found at i:40669331 original size:37 final size:37
Alignment explanation
Indices: 40669281--40669353 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
40669271 AATTAATCCC
40669281 CACATGGTGTGTTGGTTGGTACGGGTGGAGAGTAGCG
1 CACATGGTGTGTTGGTTGGTACGGGTGGAGAGTAGCG
*
40669318 CACATGGTGTGTTGGTTGGTATGGGTGGAGAGTAGC
1 CACATGGTGTGTTGGTTGGTACGGGTGGAGAGTAGC
40669354 CGATGGTGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.16, C:0.10, G:0.45, T:0.29
Consensus pattern (37 bp):
CACATGGTGTGTTGGTTGGTACGGGTGGAGAGTAGCG
Found at i:40674549 original size:25 final size:25
Alignment explanation
Indices: 40674520--40674567 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40674510 TTATAATATG
* * *
40674520 AAAATGACCTTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
40674545 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
40674568 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:40674633 original size:20 final size:20
Alignment explanation
Indices: 40674604--40674650 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
40674594 ATTTTGATAA
*
40674604 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
40674624 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
40674644 ACATGAT
1 ACATGAT
40674651 GTATTCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:40674729 original size:25 final size:25
Alignment explanation
Indices: 40674701--40674830 Score: 158
Period size: 25 Copynumber: 5.2 Consensus size: 25
40674691 AGGAAGTGTA
40674701 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
40674726 AAAGGGCTTATGCCCTAGTTACGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
40674751 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
40674775 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
40674799 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
40674827 AAAG
1 AAAG
40674831 CAGCTATGCT
Statistics
Matches: 93, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
24 33 0.35
25 51 0.55
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:40674818 original size:49 final size:49
Alignment explanation
Indices: 40674699--40674830 Score: 160
Period size: 49 Copynumber: 2.6 Consensus size: 49
40674689 GGAGGAAGTG
*
40674699 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCTAGTTAC
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAC
* * *
40674748 GATAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAC
*
40674797 TAAAAGAGGC-TAGGCCTCCAGTTATATGATAAAG
1 TAAAAG-GGCTTATGCC-CCAG-T-TATGATAAAG
40674831 CAGCTATGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
48 9 0.13
49 29 0.41
50 24 0.34
51 4 0.06
52 4 0.06
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (49 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAC
Found at i:40678948 original size:51 final size:51
Alignment explanation
Indices: 40678871--40678973 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
40678861 CACCATTACA
* * *
40678871 TCTGGTTCAAATCGCTATACATCTTATTACTTATTGGATGAATAGATAAGC
1 TCTGGTTCAAATCACTATACAACTTATTACTTATCGGATGAATAGATAAGC
*
40678922 TCTGGTTCAAATCACTATACAACTTATTACTTCTCGGATGAATAGATAAGC
1 TCTGGTTCAAATCACTATACAACTTATTACTTATCGGATGAATAGATAAGC
40678973 T
1 T
40678974 AACATTATCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (51 bp):
TCTGGTTCAAATCACTATACAACTTATTACTTATCGGATGAATAGATAAGC
Found at i:40695664 original size:40 final size:40
Alignment explanation
Indices: 40695616--40695762 Score: 267
Period size: 40 Copynumber: 3.7 Consensus size: 40
40695606 ACAAACACAT
*
40695616 TTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
40695656 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
40695696 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
40695736 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
40695763 ATCGAATGTT
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:40704186 original size:40 final size:40
Alignment explanation
Indices: 40704138--40704365 Score: 366
Period size: 40 Copynumber: 5.7 Consensus size: 40
40704128 ACAAACACAT
* * *
40704138 TTGCCTTCGGGTCTTAACCCGGACATATGAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
40704178 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
40704218 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
40704258 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
40704298 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
40704338 TTGCCTTCGGGTCTTAACCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
40704366 TCCAATGTTC
Statistics
Matches: 172, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:40704271 original size:80 final size:80
Alignment explanation
Indices: 40704138--40704365 Score: 411
Period size: 80 Copynumber: 2.9 Consensus size: 80
40704128 ACAAACACAT
* * * *
40704138 TTGCCTTCGGGTCTTAACCCGGACATATGAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
40704203 TATCATCCCGCATAA
66 TATCATCCCGCATAA
40704218 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
40704283 TATCATCCCGCATAA
66 TATCATCCCGCATAA
*
40704298 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAACCCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
40704363 TAT
66 TAT
40704366 TCCAATGTTC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 143 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (80 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCATCCCGCATAA
Found at i:40706683 original size:47 final size:47
Alignment explanation
Indices: 40706624--40706830 Score: 216
Period size: 47 Copynumber: 4.6 Consensus size: 47
40706614 ATGTACAACA
40706624 GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACC
1 GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACC
* * * *
40706671 GTGGAATATCCACTTAGCACCAC----AT-TA-C-ATGT-T-TAATC
1 GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACC
* * *
40706709 GTGGTATATCCACTTAGCACCACGTTAGTGAATCAATATATGTAACT
1 GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACC
* * * * *
40706756 GTGGCATATCCACTTAGCACCACATTACATGTATCAATTTGTGTAATC
1 GTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACC
* *
40706804 GTGGTATATCCACTTTGCACCACGTTA
1 GTGGCATATCCACTTAGCACCACGTTA
40706831 TACGTATAAC
Statistics
Matches: 129, Mismatches: 21, Indels: 19
0.76 0.12 0.11
Matches are distributed among these distances:
38 26 0.20
39 1 0.01
40 3 0.02
41 1 0.01
42 2 0.02
43 3 0.02
44 1 0.01
45 3 0.02
46 1 0.01
47 50 0.39
48 38 0.29
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (47 bp):
GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACC
Found at i:40706765 original size:85 final size:85
Alignment explanation
Indices: 40706624--40706787 Score: 292
Period size: 85 Copynumber: 1.9 Consensus size: 85
40706614 ATGTACAACA
40706624 GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGAATATCCACTTAGC
1 GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGAATATCCACTTAGC
40706689 ACCACATTACATGTTTAATC
66 ACCACATTACATGTTTAATC
* * * *
40706709 GTGGTATATCCACTTAGCACCACGTTAGTGAATCAATATATGTAACTGTGGCATATCCACTTAGC
1 GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGAATATCCACTTAGC
40706774 ACCACATTACATGT
66 ACCACATTACATGT
40706788 ATCAATTTGT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 75 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (85 bp):
GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGAATATCCACTTAGC
ACCACATTACATGTTTAATC
Found at i:40706813 original size:48 final size:47
Alignment explanation
Indices: 40706704--40706826 Score: 158
Period size: 48 Copynumber: 2.6 Consensus size: 47
40706694 ATTACATGTT
* *
40706704 TAATCGTGGTATATCCACTTAGCACCACGTTAGTGAATCAATATATG
1 TAATCGTGGTATATCCACTTAGCACCACATTAATGAATCAATATATG
* * * *
40706751 TAA-CTGTGGCATATCCACTTAGCACCACATTACATGTATCAATTTGTG
1 TAATC-GTGGTATATCCACTTAGCACCACATTA-ATGAATCAATATATG
*
40706799 TAATCGTGGTATATCCACTTTGCACCAC
1 TAATCGTGGTATATCCACTTAGCACCAC
40706827 GTTATACGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
46 1 0.02
47 28 0.43
48 35 0.54
49 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (47 bp):
TAATCGTGGTATATCCACTTAGCACCACATTAATGAATCAATATATG
Found at i:40716807 original size:30 final size:30
Alignment explanation
Indices: 40716773--40716833 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
40716763 TCCTTAACTC
40716773 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
40716803 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
40716833 A
1 A
40716834 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:40721614 original size:19 final size:20
Alignment explanation
Indices: 40721590--40721627 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40721580 GGTACCACCA
40721590 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
40721609 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
40721628 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:40721963 original size:93 final size:93
Alignment explanation
Indices: 40721856--40722026 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
40721846 GCCCCTAAGT
* *
40721856 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
40721921 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
40721949 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
40722014 CGAGTTCGGATGC
66 CGAGTTCGGATGC
40722027 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:40722023 original size:46 final size:46
Alignment explanation
Indices: 40721851--40722023 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
40721841 AACCCGCCCC
* * *
40721851 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
40721897 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
40721945 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
40721990 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40722024 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:40732869 original size:46 final size:45
Alignment explanation
Indices: 40732729--40732869 Score: 119
Period size: 46 Copynumber: 3.0 Consensus size: 45
40732719 NNNNNNNNNN
* *
40732729 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTCACATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A-AC-CATCT-AGT
* * * *
40732776 GAACTCGAACTCAACTCAACGAGTTCGGACAT-TTGAATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAA-CCATCTAGT
*
40732822 GAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGT
40732868 GA
1 GA
40732870 CATGTCACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 17
0.73 0.11 0.17
Matches are distributed among these distances:
44 6 0.08
45 4 0.05
46 31 0.41
47 30 0.40
48 2 0.03
49 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGT
Found at i:40739396 original size:39 final size:40
Alignment explanation
Indices: 40739301--40739562 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
40739291 TTGAATGATG
*
40739301 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
40739339 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
40739380 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
40739419 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
40739458 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
40739497 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
40739536 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
40739563 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:40763258 original size:49 final size:49
Alignment explanation
Indices: 40763179--40763272 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
40763169 TCAAGAAGGG
* * * **
40763179 ATAAATAGTGATAAGAGTGTAAACAGTGGAATATTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGCAAACAATGGAAGACCAAGTTTAGCAATGT
*
40763228 ATAAATAGTGATAAGAGTGCAGACAATGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGCAAACAATGGAAGACCAAGTTTAGCA
40763273 TGAATCATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGCAAACAATGGAAGACCAAGTTTAGCAATGT
Found at i:40766037 original size:44 final size:41
Alignment explanation
Indices: 40765973--40766091 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 41
40765963 ATGTGTTTTT
* *
40765973 GTGTAAGACCACATCTGGGACATTGGCATCGACTTATGATTTATC
1 GTGTAAGACCATATCTGGGACAATGGCATCGA-TT-TGA-TT-TC
* *
40766018 -TGTAAGACCATGTCTGGGACAACGGCATCGTATTTGATTTC
1 GTGTAAGACCATATCTGGGACAATGGCATCG-ATTTGATTTC
* *
40766059 GTGTAAGACCCTATCTGGGACAGTGGCATCGAT
1 GTGTAAGACCATATCTGGGACAATGGCATCGAT
40766092 ATTTGGTTAC
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
41 4 0.06
42 28 0.44
43 3 0.05
44 28 0.44
45 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGACAATGGCATCGATTTGATTTC
Found at i:40766077 original size:42 final size:42
Alignment explanation
Indices: 40765973--40766111 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 42
40765963 ATGTGTTTTT
*
40765973 GTGTAAGACCAC-ATCTGGGACATTGGCATCG-ACTTATGATTTATC
1 GTGTAAGACC-CTATCTGGGACAATGGCATCGTA-TT-TGA-TT-TC
* * *
40766018 -TGTAAGACCATGTCTGGGACAACGGCATCGTATTTGATTTC
1 GTGTAAGACCCTATCTGGGACAATGGCATCGTATTTGATTTC
* * *
40766059 GTGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGGTTAC
1 GTGTAAGACCCTATCTGGGACAATGGCATCG-TATTTGATTTC
*
40766102 ATGTAAGACC
1 GTGTAAGACC
40766112 ACGTATGGGA
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.03
42 28 0.35
43 21 0.27
44 27 0.34
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCCTATCTGGGACAATGGCATCGTATTTGATTTC
Found at i:40766121 original size:43 final size:42
Alignment explanation
Indices: 40765974--40766130 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 42
40765964 TGTGTTTTTG
* * * *
40765974 TGTAAGACCACATCTGGGACATTGGCATCGACT-TATGATTTATC
1 TGTAAGACCACGTATGGGACAGTGGCATCGA-TATTTGA-TTA-C
* * ** *
40766018 TGTAAGACCATGTCTGGGACAACGGCATCG-TATTTGATTTC
1 TGTAAGACCACGTATGGGACAGTGGCATCGATATTTGATTAC
*
40766059 GTGTAAGACC-C-TATCTGGGACAGTGGCATCGATATTTGGTTAC
1 -TGTAAGACCACGTA--TGGGACAGTGGCATCGATATTTGATTAC
40766102 ATGTAAGACCACGTATGGGAC-GTTGGCAT
1 -TGTAAGACCACGTATGGGACAG-TGGCAT
40766131 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 27 0.29
43 34 0.37
44 27 0.29
45 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTATGGGACAGTGGCATCGATATTTGATTAC
Found at i:40773645 original size:43 final size:42
Alignment explanation
Indices: 40773540--40773646 Score: 101
Period size: 42 Copynumber: 2.5 Consensus size: 42
40773530 TTATGATTTA
* * * * *
40773540 CATGTAAGACCATGTTTGGGACATTGGCATCGTATTTGATTT
1 CATGTAAGACCACGTATGGGACAGTGGCACCGTATTTGATTC
* * *
40773582 CGTGTAAGACC-C-TATCTGGGATAGTGGCACCGATATTTGGTTC
1 CATGTAAGACCACGTA--TGGGACAGTGGCACCG-TATTTGATTC
40773625 CATGTAAGACCACGTATGGGAC
1 CATGTAAGACCACGTATGGGAC
40773647 GTTGGCATTG
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
40 1 0.02
42 23 0.46
43 23 0.46
44 1 0.02
45 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCACGTATGGGACAGTGGCACCGTATTTGATTC
Found at i:40773653 original size:43 final size:43
Alignment explanation
Indices: 40773498--40773654 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
40773488 TGTGTTTTCG
*
40773498 TGTAAGACCACGTCTGGGACGTTGGCATC-A-ACTTATGATTTACA
1 TGTAAGACCACGTATGGGACGTTGGCATCGATA-TT-TGA-TTACA
* * * * *
40773542 TGTAAGACCATGTTTGGGACATTGGCATCG-TATTTGATTTCG
1 TGTAAGACCACGTATGGGACGTTGGCATCGATATTTGATTACA
* * * *
40773584 TGTAAGACC-C-TATCTGGGATAG-TGGCACCGATATTTGGTTCCA
1 TGTAAGACCACGTA--TGGGA-CGTTGGCATCGATATTTGATTACA
40773627 TGTAAGACCACGTATGGGACGTTGGCAT
1 TGTAAGACCACGTATGGGACGTTGGCAT
40773655 TGTATGAGCT
Statistics
Matches: 89, Mismatches: 15, Indels: 19
0.72 0.12 0.15
Matches are distributed among these distances:
40 1 0.01
42 25 0.28
43 31 0.35
44 29 0.33
45 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTATGGGACGTTGGCATCGATATTTGATTACA
Found at i:40775343 original size:79 final size:78
Alignment explanation
Indices: 40775241--40775463 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
40775231 GCTCCTCGTT
* *
40775241 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
40775306 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
40775321 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
40775385 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
40775399 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
40775462 GA
63 GA
40775464 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:40775358 original size:39 final size:40
Alignment explanation
Indices: 40775241--40775463 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
40775231 GCTCCTCGTT
* *
40775241 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
40775281 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
40775321 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
40775360 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
40775399 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
40775440 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40775464 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:40783725 original size:7 final size:7
Alignment explanation
Indices: 40783715--40783746 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
40783705 ATGATGATGA
40783715 ATGAGGG
1 ATGAGGG
40783722 ATGAGGG
1 ATGAGGG
40783729 ATGAGGG
1 ATGAGGG
40783736 ATGAGGG
1 ATGAGGG
40783743 ATGA
1 ATGA
40783747 TTAGAAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.53, T:0.16
Consensus pattern (7 bp):
ATGAGGG
Found at i:40783731 original size:21 final size:21
Alignment explanation
Indices: 40783707--40783746 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
40783697 AGGAGAGAAT
*
40783707 GATGATGAATGAGGGATGAGG
1 GATGAGGAATGAGGGATGAGG
*
40783728 GATGAGGGATGAGGGATGA
1 GATGAGGAATGAGGGATGA
40783747 TTAGAAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.50, T:0.17
Consensus pattern (21 bp):
GATGAGGAATGAGGGATGAGG
Found at i:40793057 original size:21 final size:21
Alignment explanation
Indices: 40793033--40793079 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
40793023 TAGGGCACAT
40793033 GCCCGTATGGAAGGGAAACAC
1 GCCCGTATGGAAGGGAAACAC
* *
40793054 GCCCGTGTGGAAGGGCAACAC
1 GCCCGTATGGAAGGGAAACAC
40793075 GCCCG
1 GCCCG
40793080 AGTGGTCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.30, G:0.36, T:0.09
Consensus pattern (21 bp):
GCCCGTATGGAAGGGAAACAC
Found at i:40793084 original size:21 final size:21
Alignment explanation
Indices: 40793024--40793084 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
40793014 TTATTGAAAT
*
40793024 AGGGC-ACATGCCCGTA-TGGA
1 AGGGCAACACGCCCG-AGTGGA
* *
40793044 AGGGAAACACGCCCGTGTGGA
1 AGGGCAACACGCCCGAGTGGA
40793065 AGGGCAACACGCCCGAGTGG
1 AGGGCAACACGCCCGAGTGG
40793085 TCGTTATAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 4 0.12
21 30 0.88
ACGTcount: A:0.26, C:0.26, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGAGTGGA
Found at i:40794443 original size:48 final size:49
Alignment explanation
Indices: 40794274--40794546 Score: 240
Period size: 49 Copynumber: 5.6 Consensus size: 49
40794264 GATGCCGAAC
* * * ** **
40794274 CCATGTTCCAAACATGGTCTTACACTGGCTT-TCATATTGCGAGGCCAATG
1 CCATGTCCCAGACA-GGTCTTACACTAGCTTGTC-TACCGCGAGGCTGATG
* * * *
40794324 CCATGTCCTAGATAGGTCTTACACTAGCTCTCATCTA-C-C-AGTGTTGATG
1 CCATGTCCCAGACAGGTCTTACACTAGCT-T-GTCTACCGCGAG-GCTGATG
* *
40794373 CCATGTCTCAGACAGGTTTTACACTAGCTTGTCTACCGCGAGGCTGATG
1 CCATGTCCCAGACAGGTCTTACACTAGCTTGTCTACCGCGAGGCTGATG
* * *
40794422 -CATGTCCCAGACATGTCTTACACTAGCTCTCATCTA-C-C-AGTGTTGATG
1 CCATGTCCCAGACAGGTCTTACACTAGCT-T-GTCTACCGCGAG-GCTGATG
* *
40794470 CCATGTCTCAGACAGGTTTTACACTAGCTTGTCTACCGCGAGGCTGATG
1 CCATGTCCCAGACAGGTCTTACACTAGCTTGTCTACCGCGAGGCTGATG
*
40794519 -CATGTCCCAGACATGTCTTACACTAGCT
1 CCATGTCCCAGACAGGTCTTACACTAGCT
40794547 CTCATATTGT
Statistics
Matches: 181, Mismatches: 28, Indels: 30
0.76 0.12 0.13
Matches are distributed among these distances:
47 10 0.06
48 63 0.35
49 85 0.47
50 19 0.10
51 2 0.01
52 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTAGCTTGTCTACCGCGAGGCTGATG
Found at i:40794445 original size:97 final size:97
Alignment explanation
Indices: 40794325--40794551 Score: 427
Period size: 97 Copynumber: 2.3 Consensus size: 97
40794315 AGGCCAATGC
* * *
40794325 CATGTCCTAGATAGGTCTTACACTAGCTCTCATCTACCAGTGTTGATGCCATGTCTCAGACAGGT
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTACCAGTGTTGATGCCATGTCTCAGACAGGT
40794390 TTTACACTAGCTTGTCTACCGCGAGGCTGATG
66 TTTACACTAGCTTGTCTACCGCGAGGCTGATG
40794422 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTACCAGTGTTGATGCCATGTCTCAGACAGGT
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTACCAGTGTTGATGCCATGTCTCAGACAGGT
40794487 TTTACACTAGCTTGTCTACCGCGAGGCTGATG
66 TTTACACTAGCTTGTCTACCGCGAGGCTGATG
40794519 CATGTCCCAGACATGTCTTACACTAGCTCTCAT
1 CATGTCCCAGACATGTCTTACACTAGCTCTCAT
40794552 ATTGTGGCTT
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 127 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (97 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTACCAGTGTTGATGCCATGTCTCAGACAGGT
TTTACACTAGCTTGTCTACCGCGAGGCTGATG
Found at i:40807690 original size:11 final size:11
Alignment explanation
Indices: 40807658--40807684 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
40807648 TAAAACATGC
40807658 CAAACATACTT
1 CAAACATACTT
40807669 CAAACATACTT
1 CAAACATACTT
40807680 CAAAC
1 CAAAC
40807685 TAACTTATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (11 bp):
CAAACATACTT
Found at i:40818811 original size:215 final size:215
Alignment explanation
Indices: 40818440--40818868 Score: 831
Period size: 215 Copynumber: 2.0 Consensus size: 215
40818430 ATATTAGTAT
*
40818440 ATTTCAAAAAGTTTCGATTTTATTACCCGAGTATCGGTACTTGTGATAAGGCATCGATACCATAT
1 ATTTCAAAAAGTTTCGATTTTATTACCCGAGTATCGGTACTTGTGATAAGGCATCGATACCAAAT
*
40818505 TATAATACTGACTTCCTGCACACCAAAATATCATAGAGGTGTCATTTTTATAACCCGAATGACAA
66 TATAATACTGACTTCCTGCACACCAAAATATCATAGAGGTGTCATTTTTATAACCCGAATAACAA
40818570 TACCTCTACTCTAGAGCACAAAAAAATACAACACTTCTAAGCATTTAATCCATTCCAACAAATAT
131 TACCTCTACTCTAGAGCACAAAAAAATACAACACTTCTAAGCATTTAATCCATTCCAACAAATAT
40818635 CTAATCAACTTGCATCATTC
196 CTAATCAACTTGCATCATTC
40818655 ATTTCAAAAAGTTTCGATTTTATTACCCGAGTATCGGTACTTGTGATAAGGCATCGATACCAAAT
1 ATTTCAAAAAGTTTCGATTTTATTACCCGAGTATCGGTACTTGTGATAAGGCATCGATACCAAAT
40818720 TATAATACTGACTTCCTGCACACCAAAATATCATAGAGGTGTCATTTTTATAACCCGAATAACAA
66 TATAATACTGACTTCCTGCACACCAAAATATCATAGAGGTGTCATTTTTATAACCCGAATAACAA
*
40818785 TACCTCTGCTCTAGAGCACAAAAAAATACAACACTTCTAAGCATTTAATCCATTCCAACAAATAT
131 TACCTCTACTCTAGAGCACAAAAAAATACAACACTTCTAAGCATTTAATCCATTCCAACAAATAT
40818850 CTAATCAACTTGCATCATT
196 CTAATCAACTTGCATCATT
40818869 TTCCTCTTTA
Statistics
Matches: 211, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
215 211 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (215 bp):
ATTTCAAAAAGTTTCGATTTTATTACCCGAGTATCGGTACTTGTGATAAGGCATCGATACCAAAT
TATAATACTGACTTCCTGCACACCAAAATATCATAGAGGTGTCATTTTTATAACCCGAATAACAA
TACCTCTACTCTAGAGCACAAAAAAATACAACACTTCTAAGCATTTAATCCATTCCAACAAATAT
CTAATCAACTTGCATCATTC
Found at i:40819201 original size:116 final size:116
Alignment explanation
Indices: 40818997--40819219 Score: 437
Period size: 116 Copynumber: 1.9 Consensus size: 116
40818987 TTTATGATTA
40818997 TTATGAGGTCTATGATATGATTACATACTTGTGTGAAAATTTCATGAAGATATTTTACTGATAAA
1 TTATGAGGTCTATGATATGATTACATACTTGTGTGAAAATTTCATGAAGATATTTTACTGATAAA
40819062 GTTTCCAATTTAACATTTAGGACTAAATTGCAAAGGTTGCAAAATGTGAGT
66 GTTTCCAATTTAACATTTAGGACTAAATTGCAAAGGTTGCAAAATGTGAGT
*
40819113 TTATGAGGTCTATGATATGATTGCATACTTGTGTGAAAATTTCATGAAGATATTTTACTGATAAA
1 TTATGAGGTCTATGATATGATTACATACTTGTGTGAAAATTTCATGAAGATATTTTACTGATAAA
40819178 GTTTCCAATTTAACATTTAGGACTAAATTGCAAAGGTTGCAA
66 GTTTCCAATTTAACATTTAGGACTAAATTGCAAAGGTTGCAA
40819220 TGTGACAGCC
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 106 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (116 bp):
TTATGAGGTCTATGATATGATTACATACTTGTGTGAAAATTTCATGAAGATATTTTACTGATAAA
GTTTCCAATTTAACATTTAGGACTAAATTGCAAAGGTTGCAAAATGTGAGT
Found at i:40829966 original size:21 final size:21
Alignment explanation
Indices: 40829940--40829980 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
40829930 AATTTTGAAA
*
40829940 GAAAGGCCTGAAGGGCATTTT
1 GAAAGGCCTGAAAGGCATTTT
*
40829961 GAAAGGCCTTAAAGGCATTT
1 GAAAGGCCTGAAAGGCATTT
40829981 GGGTCATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (21 bp):
GAAAGGCCTGAAAGGCATTTT
Found at i:40831331 original size:42 final size:42
Alignment explanation
Indices: 40831284--40831375 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
40831274 TGGCCCTTAG
* *** *
40831284 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAAAACCAATGAATGTATGCAA
40831326 GCCCATTTCAATATCACATGAAAAACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAAAACCAATGAATGTATGCAA
40831368 GCCCATTT
1 GCCCATTT
40831376 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAAAACCAATGAATGTATGCAA
Found at i:40831588 original size:26 final size:26
Alignment explanation
Indices: 40831519--40831605 Score: 133
Period size: 25 Copynumber: 3.4 Consensus size: 26
40831509 CCTCTTTAAT
*
40831519 AACTGAGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
40831544 AACTGGGG-ATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
40831569 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
40831595 AACTGGGGCAT
1 AACTGGGGCAT
40831606 TTCAATAAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
24 1 0.02
25 28 0.51
26 26 0.47
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:40832499 original size:27 final size:27
Alignment explanation
Indices: 40832435--40832491 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
40832425 GGGCATATTC
40832435 GTCACTTTACCATACAGGGGTATTACG
1 GTCACTTTACCATACAGGGGTATTACG
*
40832462 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCACTTTACCATACAGGGG-TATTACG
40832489 GTC
1 GTC
40832492 TTTTTACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGTATTACG
Found at i:40832583 original size:27 final size:27
Alignment explanation
Indices: 40832553--40832755 Score: 149
Period size: 27 Copynumber: 7.4 Consensus size: 27
40832543 GTAAATCTAC
*
40832553 AAACCAATGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* * *
40832580 AAACCAATGGTGTTTCAGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
40832607 AAACTAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
40832633 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * ** **
40832663 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
40832690 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* * *** *
40832717 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
40832744 AAATCAAGGGTA
1 AAACCAAGGGTA
40832756 AAATAGTNNN
Statistics
Matches: 142, Mismatches: 28, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
26 1 0.01
27 117 0.82
28 7 0.05
29 16 0.11
30 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:40832702 original size:83 final size:83
Alignment explanation
Indices: 40832561--40832714 Score: 193
Period size: 83 Copynumber: 1.9 Consensus size: 83
40832551 ACAAACCAAT
* * * * * *
40832561 GGTATTTCAGTAATTTTGTAAACCAATGGTGTTTCAGTAATTTTATAAACTAATGGTATTTCTA-
1 GGTATTTCAGTAACTTTGTAAACCAAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTT-TAG
40832625 TAATTTTTAGAAAGTCAAG
65 TAATTTTTAGAAAGTCAAG
* * * **
40832644 GGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGT
1 GGTATTTCAGTAACTTTGTAAACCAAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTTAGT
40832709 AATTTT
66 AATTTT
40832715 GTAAATCGAG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
82 2 0.03
83 57 0.97
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (83 bp):
GGTATTTCAGTAACTTTGTAAACCAAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTTAGT
AATTTTTAGAAAGTCAAG
Found at i:40838191 original size:40 final size:40
Alignment explanation
Indices: 40838147--40838410 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
40838137 GCTACTCGTT
* *
40838147 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
40838187 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
40838227 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
40838267 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
40838307 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
40838346 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
40838387 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40838411 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40847168 original size:29 final size:29
Alignment explanation
Indices: 40847089--40847169 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
40847079 ACATACATGT
* *
40847089 ATATGGCCCACTAGGCCC-AATCTCATTC
1 ATATGGCCCACTAGGCCCGAATCACAGTC
*
40847117 ATATGGCCCAGTAGG-CCGAAATCACAGTC
1 ATATGGCCCACTAGGCCCG-AATCACAGTC
* *
40847146 ATATGGCCCATTCGGCCCGAATCA
1 ATATGGCCCACTAGGCCCGAATCA
40847170 ATTCCAAGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.04
28 14 0.31
29 26 0.58
30 3 0.07
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.21
Consensus pattern (29 bp):
ATATGGCCCACTAGGCCCGAATCACAGTC
Found at i:40851079 original size:26 final size:26
Alignment explanation
Indices: 40851050--40851107 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
40851040 AGTGTGTTTG
* *
40851050 GTGAGCCGGTGTTTGCCATGT-AAGTT
1 GTGAACCGGGGTTTGCCA-GTCAAGTT
* *
40851076 GTGAACTGGGGTTTGCTAGTCAAGTT
1 GTGAACCGGGGTTTGCCAGTCAAGTT
40851102 GTGAAC
1 GTGAAC
40851108 TAGGTTCGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.19, C:0.14, G:0.34, T:0.33
Consensus pattern (26 bp):
GTGAACCGGGGTTTGCCAGTCAAGTT
Found at i:40851119 original size:25 final size:26
Alignment explanation
Indices: 40851071--40851123 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
40851061 TTTGCCATGT
* *
40851071 AAGTTGTGAACTGGGGTTTGCTAGTC
1 AAGTTGTGAACTGAGGTTCGCTAGTC
40851097 AAGTTGTGAACT-AGGTTCGCTAGTC
1 AAGTTGTGAACTGAGGTTCGCTAGTC
40851122 AA
1 AA
40851124 AGATATAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (26 bp):
AAGTTGTGAACTGAGGTTCGCTAGTC
Found at i:40851932 original size:14 final size:14
Alignment explanation
Indices: 40851913--40851967 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
40851903 ATGGTAAGAG
40851913 TGGTATGAACGAAA
1 TGGTATGAACGAAA
*
40851927 TGGTATGAATGAAA
1 TGGTATGAACGAAA
*
40851941 TGGTATGAACGAAG
1 TGGTATGAACGAAA
*
40851955 GGGTATGAACGAA
1 TGGTATGAACGAA
40851968 TTAGTCGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.22
Consensus pattern (14 bp):
TGGTATGAACGAAA
Found at i:40854892 original size:94 final size:92
Alignment explanation
Indices: 40854699--40854911 Score: 248
Period size: 94 Copynumber: 2.3 Consensus size: 92
40854689 AAGCTGACGC
* * * * * *
40854699 TATGTCCCAGACAGGTCTTACACTAGCTTGTTTATCTGGAGGCCATGCATGTCCCAGACATGTCT
1 TATGTCCCAGACATGTCTTACACTAGCTAGTATAGCTCGAGGCCATGAATGTCCCAGACATGTCT
** * *
40854764 TACACTAGCTCTTGTCTCAATGCTGATA
66 TACACTAGCTCTAATAT-AATGCCGATA
*
40854792 CATGTCCCAGACATGTCTTACACTAGCTAGTATAGCTCGAGGCCGATGAATGTCCCAGACATGTC
1 TATGTCCCAGACATGTCTTACACTAGCTAGTATAGCTCGAGGCC-ATGAATGTCCCAGACATGTC
* * * *
40854857 TTACATTGGCTCTCAATAT-GTGGCCGATG
65 TTACACTAGCTCT-AATATAAT-GCCGATA
40854886 TATGTCCCAGACATGTCTTACACTAG
1 TATGTCCCAGACATGTCTTACACTAG
40854912 TACACATATC
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
93 39 0.39
94 60 0.59
95 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (92 bp):
TATGTCCCAGACATGTCTTACACTAGCTAGTATAGCTCGAGGCCATGAATGTCCCAGACATGTCT
TACACTAGCTCTAATATAATGCCGATA
Found at i:40856718 original size:46 final size:46
Alignment explanation
Indices: 40856651--40856743 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
40856641 ATAGTTTTAC
* *
40856651 AAGTTGTGTATCAGCCAAGCTCCCTACGCGAGCTCTCTATGATAAG
1 AAGTTGTGTATCAACCAAGCTCCCTACGCGAACTCTCTATGATAAG
* * *
40856697 AAGTTGTGTATCAACCAAGCTCCCTATGTGAACTCTCTGTGATAAG
1 AAGTTGTGTATCAACCAAGCTCCCTACGCGAACTCTCTATGATAAG
40856743 A
1 A
40856744 TTTTATTCCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (46 bp):
AAGTTGTGTATCAACCAAGCTCCCTACGCGAACTCTCTATGATAAG
Found at i:40858325 original size:79 final size:82
Alignment explanation
Indices: 40858214--40858398 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
40858204 GCTACTCGTT
* *
40858214 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
40858277 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
40858294 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
40858357 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
40858374 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40858399 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:40858398 original size:40 final size:40
Alignment explanation
Indices: 40858195--40858398 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
40858185 CGGAATTTAA
** *
40858195 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40858235 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
40858275 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40858314 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
40858354 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
40858394 CCGGA
1 CCGGA
40858399 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:40866276 original size:79 final size:82
Alignment explanation
Indices: 40866165--40866349 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
40866155 GCTACTCGTT
* * *
40866165 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
40866228 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
40866245 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
40866308 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
40866325 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40866350 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:40866349 original size:40 final size:40
Alignment explanation
Indices: 40866146--40866349 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
40866136 CGGAATTTAA
** *
40866146 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
40866186 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
40866226 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40866265 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
40866305 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
40866345 CCGGA
1 CCGGA
40866350 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:40878424 original size:2 final size:2
Alignment explanation
Indices: 40878417--40878443 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
40878407 TAGAAGGAAT
40878417 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
40878444 TAAGTATCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:40879964 original size:15 final size:15
Alignment explanation
Indices: 40879931--40879964 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
40879921 TAATTAAAAG
*
40879931 AATAATAATGAGAAT
1 AATAATAATGAGAAC
*
40879946 AATAATAATGATAAC
1 AATAATAATGAGAAC
40879961 AATA
1 AATA
40879965 TCTCAAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (15 bp):
AATAATAATGAGAAC
Found at i:40880301 original size:16 final size:16
Alignment explanation
Indices: 40880280--40880310 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40880270 TTATTAAAAT
*
40880280 TAATTAATTAATTTTA
1 TAATTAAATAATTTTA
40880296 TAATTAAATAATTTT
1 TAATTAAATAATTTT
40880311 CTAAACCTAA
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATTAAATAATTTTA
Found at i:40885118 original size:96 final size:96
Alignment explanation
Indices: 40884948--40885125 Score: 252
Period size: 96 Copynumber: 1.9 Consensus size: 96
40884938 TTATTTTTGC
* * *
40884948 TCCTTTTTGCTCTATTGGTTTCGGCTTTTCCCTTGCTCGAACTAAGCTTCTTGGGCTCATTGTCT
1 TCCTCTTTGCTCTATTGGTTTCGGCTTTTCCCTTACTCGAACTAAGCTTCTTGGCCTCATTGTCT
*
40885013 GTTCCATCGTTCCCTTCGATGACAGACTTGT
66 GCTCCATCGTTCCCTTCGATGACAGACTTGT
*
40885044 TCCTCTTTGCTCTCTTGGTTTCGGCTTTTCCCTTACTCGAA-TCAAGCTTCTTAGGCCTC-TTGT
1 TCCTCTTTGCTCTATTGGTTTCGGCTTTTCCCTTACTCGAACT-AAGCTTCTT-GGCCTCATTGT
* * *
40885107 TTGCTCTATCGTTCTCTTC
64 CTGCTCCATCGTTCCCTTC
40885126 AATAAAAGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
95 1 0.01
96 66 0.92
97 5 0.07
ACGTcount: A:0.10, C:0.29, G:0.17, T:0.44
Consensus pattern (96 bp):
TCCTCTTTGCTCTATTGGTTTCGGCTTTTCCCTTACTCGAACTAAGCTTCTTGGCCTCATTGTCT
GCTCCATCGTTCCCTTCGATGACAGACTTGT
Done.