Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 42 of 221
Found at i:11739424 original size:19 final size:20
Alignment explanation
Indices: 11739373--11739434 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 20
11739363 TTCAATAATC
* *
11739373 ATTTTTAATTTT-TATATTT
1 ATTTTAAATTTTATTTATTT
11739392 -TTTTAAATTTTA-TTATTAT
1 ATTTTAAATTTTATTTATT-T
11739411 ATTTTAAA-TTTATTTATTT
1 ATTTTAAATTTTATTTATTT
11739430 ATTTT
1 ATTTT
11739435 TATATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 14 0.38
19 11 0.30
20 12 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTAAATTTTATTTATTT
Found at i:11739435 original size:20 final size:19
Alignment explanation
Indices: 11739373--11739442 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
11739363 TTCAATAATC
*
11739373 ATTTTTAATTTTTA-TATT
1 ATTTTTAAATTTTATTATT
11739391 -TTTTTAAATTTTATTATT
1 ATTTTTAAATTTTATTATT
11739409 ATATTTTAAA-TTTATTTATTT
1 AT-TTTTAAATTTTA-TTA-TT
*
11739430 ATTTTTATATTTT
1 ATTTTTAAATTTT
11739443 TTTTGAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 12 0.27
18 4 0.09
19 5 0.11
20 16 0.36
21 7 0.16
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTTTAAATTTTATTATT
Found at i:11747303 original size:29 final size:29
Alignment explanation
Indices: 11747266--11747352 Score: 131
Period size: 29 Copynumber: 2.9 Consensus size: 29
11747256 ATAATAAATA
11747266 TTTTT-ATTTTTTTAATTTTAAAATACTT
1 TTTTTAATTTTTTTAATTTTAAAATACTT
11747294 TTTTTAATTTTTTTAATTTTAAAATACTT
1 TTTTTAATTTTTTTAATTTTAAAATACTT
11747323 TTTTTAATTTTTATTTTAATTTTTAAAATA
1 TTTTTAA--TTT-TTTTAA-TTTTAAAATA
11747353 AAATTTTGGT
Statistics
Matches: 54, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
28 5 0.09
29 30 0.56
31 3 0.06
32 6 0.11
33 10 0.19
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTTAATTTTTTTAATTTTAAAATACTT
Found at i:11753705 original size:17 final size:18
Alignment explanation
Indices: 11753683--11753718 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11753673 CAATTTGGGT
11753683 CATGTGGG-CCACACGGG
1 CATGTGGGCCCACACGGG
11753700 CATGTGGGCCCACACGGG
1 CATGTGGGCCCACACGGG
11753718 C
1 C
11753719 GAACACCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.17, C:0.33, G:0.39, T:0.11
Consensus pattern (18 bp):
CATGTGGGCCCACACGGG
Found at i:11754069 original size:23 final size:24
Alignment explanation
Indices: 11754043--11754087 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
11754033 ATATCCCCAC
*
11754043 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
11754066 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
11754088 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:11756625 original size:507 final size:507
Alignment explanation
Indices: 11755667--11756673 Score: 1606
Period size: 507 Copynumber: 2.0 Consensus size: 507
11755657 GGGGAGTGAG
*
11755667 ATCTTTCTACCTTGGTCGAGAAGGCGAAAATAGCCAAGAAGGATATGGAGGTAGTCATGATCGGA
1 ATCTTTCTACCTTGGTCGAAAAGGCGAAAATAGCCAAGAAGGATATGGAGGTAGTCATGATCGGA
* * * ** *
11755732 GAACATCGAAACTACTTATCTAATGTGATCTCTGTACTGGTGGCGGAGAAGTTGGTTCGTAAGGG
66 GAACATCAAAACTACTTATCTAATGTGATCTCTGCACTAGTGGCGGAGAAGTTAATTCATAAGGG
11755797 ATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATCA
131 ATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATCA
* * * *
11755862 GAACAGAAAAGGATGTTCCAGACATTTTTCCTGATGAGCTATCGGGTTTACCTCCGAATTGTGAA
196 AAACAGAAAAGGATGTTCCAGACATCTTTCCTAATGAGCTATCGGGTTTACCTCCGAATCGTGAA
* *
11755927 GTGGAGTTTGGGATAGAGCTCATTCCTGGTACAGCTCCGGTGTCCATCGCTTCTTATAGAATGGC
261 GTGGAGTTTGGGATAGAGCTCATTCCTAGTACAGCTCCGGTGTCCATCGCTCCTTATAGAATGGC
* * *
11755992 ACCGAAGGAGTTTGTGGAGTTTAAAGCTCAGATTCAAGAGCTTTTAGATCATGGGTTCATCTACC
326 ACCGAAGGAGCTTGAGGAGCTTAAAGCTCAGATTCAAGAGCTTTTAGATCATGGGTTCATCTACC
11756057 CTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAAAGAAAAAGGATGGATACATGCGTATG
391 CTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAAAGAAAAAGGATGGATACATGCGTATG
* * *
11756122 TGCATCGACTACAAACAGCTGAATAAATTAACCATTAAGAATAAGTAATGAA
456 TGCATCAACTACAAACAACTAAATAAATTAACCATTAAGAATAAGTAATGAA
* * *
11756174 ATCTTTCTGCCTTGGTCGAAAAGGCGAAAATCA-CCGAGGAGGATATGGAGGTAGTCATGATCGG
1 ATCTTTCTACCTTGGTCGAAAAGGCGAAAAT-AGCCAAGAAGGATATGGAGGTAGTCATGATCGG
*
11756238 AGAACTTCAAAACTACTTATCTAATGTGATCTCTGCACTAGTGGCGGAGAAGTTAATTCATAAGG
65 AGAACATCAAAACTACTTATCTAATGTGATCTCTGCACTAGTGGCGGAGAAGTTAATTCATAAGG
*
11756303 GATGTGAGGCATTCTTGGCCTATGTAAGTGTTTTAGATTCTAGGGACTCTACAGTTAAGGATATC
130 GATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATC
** * * * * *
11756368 AAAATGGTAAATGATGTTCC-GAACGTCTTTCCTAATGAGCTATTGGGTTTACCTTCGAATCGTG
195 AAAACAGAAAAGGATGTTCCAG-ACATCTTTCCTAATGAGCTATCGGGTTTACCTCCGAATCGTG
*
11756432 AAGTGGAGTTTGGGATAGAGCTCTTTCCTAGTACAGCTCCGGTGTCCATCGCTCCTTATAGAATG
259 AAGTGGAGTTTGGGATAGAGCTCATTCCTAGTACAGCTCCGGTGTCCATCGCTCCTTATAGAATG
* * *
11756497 GCACCGAAGGAGCTTGAGGAGCTTAAGGCTCAGATTCAAGAGCTTTTAGATCGTGGGTTCATCTG
324 GCACCGAAGGAGCTTGAGGAGCTTAAAGCTCAGATTCAAGAGCTTTTAGATCATGGGTTCATCTA
* * *
11756562 CCCTAGTGTGTCTCCGTGGGGAGCACCGGTTCTGTTTGTAAAGAAACAA-GATGGATCCATGCGT
389 CCCTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAAAGAAA-AAGGATGGATACATGCGT
**
11756626 ATGTGCATCAACTACAGGCAACTAAATAAATTAACCATTAAGAATAAG
453 ATGTGCATCAACTACAAACAACTAAATAAATTAACCATTAAGAATAAG
11756674 GGCCCCTACC
Statistics
Matches: 457, Mismatches: 40, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
506 1 0.00
507 453 0.99
508 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (507 bp):
ATCTTTCTACCTTGGTCGAAAAGGCGAAAATAGCCAAGAAGGATATGGAGGTAGTCATGATCGGA
GAACATCAAAACTACTTATCTAATGTGATCTCTGCACTAGTGGCGGAGAAGTTAATTCATAAGGG
ATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATCA
AAACAGAAAAGGATGTTCCAGACATCTTTCCTAATGAGCTATCGGGTTTACCTCCGAATCGTGAA
GTGGAGTTTGGGATAGAGCTCATTCCTAGTACAGCTCCGGTGTCCATCGCTCCTTATAGAATGGC
ACCGAAGGAGCTTGAGGAGCTTAAAGCTCAGATTCAAGAGCTTTTAGATCATGGGTTCATCTACC
CTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAAAGAAAAAGGATGGATACATGCGTATG
TGCATCAACTACAAACAACTAAATAAATTAACCATTAAGAATAAGTAATGAA
Found at i:11758144 original size:19 final size:20
Alignment explanation
Indices: 11758120--11758165 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
11758110 CATCCAAATA
11758120 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
11758139 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
11758159 CCAGAAA
1 CCAGAAA
11758166 TTATTTTCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:11762074 original size:47 final size:48
Alignment explanation
Indices: 11762005--11762107 Score: 154
Period size: 47 Copynumber: 2.2 Consensus size: 48
11761995 GGTGACCAGG
**
11762005 CACTATTATTCATTATTCGTGTAGGTTTAACCCTGATAGGTAACCAAA
1 CACTATTATTCATTATTCGTGTAGGTTTAACCCAAATAGGTAACCAAA
* * *
11762053 CACTATTATTCATT-TTTGTGTAGGTTTAACCCAAATGGGTAACCAGA
1 CACTATTATTCATTATTCGTGTAGGTTTAACCCAAATAGGTAACCAAA
11762100 CACTATTA
1 CACTATTA
11762108 CTTTCACCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 36 0.72
48 14 0.28
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (48 bp):
CACTATTATTCATTATTCGTGTAGGTTTAACCCAAATAGGTAACCAAA
Found at i:11767782 original size:25 final size:26
Alignment explanation
Indices: 11767745--11767795 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
11767735 ACTAATCCCT
11767745 ATAGAGGGAATTAGTGAGTGGAGATA
1 ATAGAGGGAATTAGTGAGTGGAGATA
11767771 ATAGA-GGAATTAGTGAGTGGAGATA
1 ATAGAGGGAATTAGTGAGTGGAGATA
11767796 TGAATAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.37, T:0.24
Consensus pattern (26 bp):
ATAGAGGGAATTAGTGAGTGGAGATA
Found at i:11769288 original size:54 final size:54
Alignment explanation
Indices: 11769171--11769582 Score: 269
Period size: 54 Copynumber: 7.8 Consensus size: 54
11769161 AATTTGCTAA
* * * * * *
11769171 TTACAAGATTTTTTGAGTCTTG-TGACTTGTC-AATTAAGATTGCAACCTTATAC
1 TTACAAGATTTTTCGAATCTTGCAG-CTTGTCGATTTAAGATCGTAACCTTATAC
*** * * *
11769224 TTATTGGATTTTTCGAATCTTGCAGTTTGTCGATTTAAGATCGTAATCTTATGC
1 TTACAAGATTTTTCGAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
*
11769278 TTAAAAGA-TTTTCTGAATCTTGCAGCTTGTCGATTTAAGATCG-AAGCCTTATAC
1 TTACAAGATTTTTC-GAATCTTGCAGCTTGTCGATTTAAGATCGTAA-CCTTATAC
* * * * * * * * *
11769332 TTACAAGATTTTTTGTATCTTACGGCTCGTCAATTTAATATTGTAGCCTTATAC
1 TTACAAGATTTTTCGAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
* * * * *
11769386 TCATAAGATTTTTCGAATCTTGCAGCTT-TCTGATTTAAGATTGCAGCCTTATAC
1 TTACAAGATTTTTCGAATCTTGCAGCTTGTC-GATTTAAGATCGTAACCTTATAC
* * * * *
11769440 TTACAAGA-TTTTCTGAATCTTG-TGGTT-T-G---CAATATCGCAACCTTATAC
1 TTACAAGATTTTTC-GAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
* * * * ** *
11769488 TTACAAGA-TTCTCAGAATCTTGCAGCTCGTCGATGTAAAATCCCAAACTTATAC
1 TTACAAGATTTTTC-GAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
* * * *
11769542 TTACAAGA-TTTCCAAAATCTTGTAG-TTGCCGATTTAAGATC
1 TTACAAGATTTTTC-GAATCTTGCAGCTTGTCGATTTAAGATC
11769583 ACAACATTCT
Statistics
Matches: 282, Mismatches: 63, Indels: 28
0.76 0.17 0.08
Matches are distributed among these distances:
48 35 0.12
49 2 0.01
50 1 0.00
51 2 0.01
53 52 0.18
54 185 0.66
55 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (54 bp):
TTACAAGATTTTTCGAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
Found at i:11769404 original size:162 final size:161
Alignment explanation
Indices: 11769171--11769461 Score: 388
Period size: 162 Copynumber: 1.8 Consensus size: 161
11769161 AATTTGCTAA
** * * **
11769171 TTACAAGATTTTTTGAGTCTTGTGACTTGTCAATTAAGATTGCAACCTTATACTTATTGGATTTT
1 TTACAAGATTTTTTGAGTCTTACGACTCGTCAATTAAGATTGCAACCTTATACTCATAAGATTTT
* * * *
11769236 TCGAATCTTGCAG-TTTGTCGATTTAAGATCGTAATCTTATGCTTAAAAGATTTTCTGAATCTTG
66 TCGAATCTTGCAGCTTTCT-GATTTAAGATCGCAACCTTATACTTAAAAGATTTTCTGAATCTTG
11769300 CAGCTTGTCGATTTAAGATCGAAGCCTTATAC
130 CAGCTTGTCGATTTAAGATCGAAGCCTTATAC
* * * *
11769332 TTACAAGATTTTTTGTA-TCTTACGGCTCGTCAATTTAATATTGTAGCCTTATACTCATAAGATT
1 TTACAAGATTTTTTG-AGTCTTACGACTCGTCAA-TTAAGATTGCAACCTTATACTCATAAGATT
* * *
11769396 TTTCGAATCTTGCAGCTTTCTGATTTAAGATTGCAGCCTTATACTTACAAGATTTTCTGAATCTT
64 TTTCGAATCTTGCAGCTTTCTGATTTAAGATCGCAACCTTATACTTAAAAGATTTTCTGAATCTT
11769461 G
129 G
11769462 TGGTTTGCAA
Statistics
Matches: 110, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
161 27 0.25
162 79 0.72
163 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.42
Consensus pattern (161 bp):
TTACAAGATTTTTTGAGTCTTACGACTCGTCAATTAAGATTGCAACCTTATACTCATAAGATTTT
TCGAATCTTGCAGCTTTCTGATTTAAGATCGCAACCTTATACTTAAAAGATTTTCTGAATCTTGC
AGCTTGTCGATTTAAGATCGAAGCCTTATAC
Found at i:11769823 original size:23 final size:23
Alignment explanation
Indices: 11769797--11769853 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
11769787 AGCACAACTT
11769797 GCTGAA-ATTTCATTGTACAGCTC
1 GCTGAATATTTCA-TGTACAGCTC
* *
11769820 GCTGAATTTTTGATGTACAGCTC
1 GCTGAATATTTCATGTACAGCTC
*
11769843 GCTTAAT-TTTC
1 GCTGAATATTTC
11769854 GATTTATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 3 0.10
23 22 0.76
24 4 0.14
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (23 bp):
GCTGAATATTTCATGTACAGCTC
Found at i:11772094 original size:3 final size:3
Alignment explanation
Indices: 11772086--11772110 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11772076 TGAGGAAGAC
11772086 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
11772111 TTGCTGCTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:11775659 original size:21 final size:21
Alignment explanation
Indices: 11775611--11775661 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
11775601 GAAAAAAAAC
*
11775611 AAGAAAAAAAAAGCAAACAAT
1 AAGAAAAAAAAAGAAAACAAT
* *
11775632 AATAAAAAAACAAGAAAACAGT
1 AAGAAAAAAA-AAGAAAACAAT
11775654 -AGAAAAAA
1 AAGAAAAAA
11775662 CAATTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.76, C:0.08, G:0.10, T:0.06
Consensus pattern (21 bp):
AAGAAAAAAAAAGAAAACAAT
Found at i:11777216 original size:13 final size:13
Alignment explanation
Indices: 11777198--11777225 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11777188 ATTGGGAATA
11777198 AGTTAAAAATTTT
1 AGTTAAAAATTTT
11777211 AGTTAAAAATTTT
1 AGTTAAAAATTTT
11777224 AG
1 AG
11777226 GCCGAGCCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
AGTTAAAAATTTT
Found at i:11785023 original size:46 final size:47
Alignment explanation
Indices: 11784888--11785286 Score: 617
Period size: 46 Copynumber: 8.6 Consensus size: 47
11784878 ATTCATGAAT
* ** **
11784888 TTGGTCAGCATATATAAAACAGTTTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
11784935 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
* *
11784982 TTGGACAGCAT-TATGTAACAAATTGGGCAGCTTTTATGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
* *
11785028 TTGGACAGCAT-TATGTAACAAATTGGGCAGCTTTTATGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
11785074 TTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
* * *
11785121 TTGGACAGCAT-TATGTAACAAATTGAGCAGCTTTTATGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
* *
11785167 TTGGACAGCATATATGTAATAAATTGAGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
11785214 TTGGACAGCAT-TATGTAACAAATTGGGCAGCATTTATGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
11785260 TTGGACAGCATATATGTAATAAATTGG
1 TTGGACAGCATATATGTAACAAATTGG
11785287 TTCAACTCAT
Statistics
Matches: 328, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 175 0.53
47 153 0.47
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (47 bp):
TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
Found at i:11785091 original size:93 final size:93
Alignment explanation
Indices: 11784911--11785286 Score: 664
Period size: 93 Copynumber: 4.0 Consensus size: 93
11784901 ATAAAACAGT
* *
11784911 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCAT-TATGTAACAAATTGGGCAGCTTTTATGCA
*
11784976 TCAAAATTGGACAGCAT-TATGTAACAAA
65 TCAAAATTGGACAGCATATATGTAATAAA
* *
11785004 TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCTTTTATGCAT
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCTTTTATGCAT
11785069 CAAAATTGGACAGCATATATGTAATAAA
66 CAAAATTGGACAGCATATATGTAATAAA
*
11785097 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGAGCAGCTTTTATGCAT
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCTTTTATGCAT
11785162 CAAAATTGGACAGCATATATGTAATAAA
66 CAAAATTGGACAGCATATATGTAATAAA
* *
11785190 TTGAGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTATGCAT
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCTTTTATGCAT
11785255 CAAAATTGGACAGCATATATGTAATAAA
66 CAAAATTGGACAGCATATATGTAATAAA
11785283 TTGG
1 TTGG
11785287 TTCAACTCAT
Statistics
Matches: 270, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
92 44 0.16
93 226 0.84
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (93 bp):
TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCTTTTATGCAT
CAAAATTGGACAGCATATATGTAATAAA
Found at i:11785120 original size:139 final size:140
Alignment explanation
Indices: 11784865--11785286 Score: 661
Period size: 139 Copynumber: 3.0 Consensus size: 140
11784855 TCTACCCTAT
* * * * * ** **
11784865 TTGGACAGCTTTTATTCAT-GAATTTGGTCAGCATATATAAAACAGTTTGGGCAGCATTTAAGCA
1 TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
11784929 TCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATT
66 TCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATT
11784994 ATGTAACAAA
131 ATGTAACAAA
* *
11785004 TTGGGCAGCTTTTATGCATCAAAATTGGACAGCAT-TATGTAACAAATTGGGCAGCTTTTATGCA
1 TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
*
11785068 TCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATT
66 TCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATT
11785133 ATGTAACAAA
131 ATGTAACAAA
* * *
11785143 TTGAGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGAGCAGCATTTAAGCA
1 TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
*
11785208 TCAAAATTGGACAGCAT-TATGTAACAAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATA
66 TCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCAT-
*
11785272 TATGTAATAAA
130 TATGTAACAAA
11785283 TTGG
1 TTGG
11785287 TTCAACTCAT
Statistics
Matches: 259, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
139 192 0.74
140 67 0.26
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (140 bp):
TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
TCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATT
ATGTAACAAA
Found at i:11786200 original size:43 final size:42
Alignment explanation
Indices: 11786131--11786259 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 42
11786121 AACTCGTACA
* *
11786131 ATGCAAACGTCCCAGAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGTAA-CACATATCG
*
11786174 ATGCC-ACTGTCCCAGATAGGGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGT-AACACATA-TCG
*
11786217 ATGCCAACGTCCCAGACATGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACG-TAACACATATCG
11786260 GAAATCCTAT
Statistics
Matches: 74, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
42 3 0.04
43 64 0.86
44 7 0.09
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAACACATATCG
Found at i:11792599 original size:28 final size:28
Alignment explanation
Indices: 11792562--11792622 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
11792552 GAATTTAGAA
*
11792562 GAATGGCGTTGAATGCTATTTTGAATTT
1 GAATGACGTTGAATGCTATTTTGAATTT
11792590 GAATGACGTTGAATGCTATTTTGAATTT
1 GAATGACGTTGAATGCTATTTTGAATTT
11792618 GAATG
1 GAATG
11792623 TTATTTTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.41
Consensus pattern (28 bp):
GAATGACGTTGAATGCTATTTTGAATTT
Found at i:11798559 original size:9 final size:9
Alignment explanation
Indices: 11798545--11798602 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
11798535 AATTTTTGGG
11798545 TAATTCGGT
1 TAATTCGGT
*
11798554 TAATTCAGT
1 TAATTCGGT
11798563 TAATTCGGT
1 TAATTCGGT
11798572 TAATTCGGT
1 TAATTCGGT
*
11798581 TAA-TCGGG
1 TAATTCGGT
*
11798589 TAATTCGGG
1 TAATTCGGT
11798598 TAATT
1 TAATT
11798603 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
8 7 0.16
9 38 0.84
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (9 bp):
TAATTCGGT
Found at i:11798576 original size:27 final size:26
Alignment explanation
Indices: 11798542--11798602 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
11798532 GGTAATTTTT
*
11798542 GGGTAATTCGGTTAATTCAGTTAATTC
1 GGGTAATTCGGTTAA-TCAGGTAATTC
* *
11798569 GGTTAATTCGGTTAATCGGGTAATTC
1 GGGTAATTCGGTTAATCAGGTAATTC
11798595 GGGTAATT
1 GGGTAATT
11798603 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 16 0.53
27 14 0.47
ACGTcount: A:0.25, C:0.10, G:0.26, T:0.39
Consensus pattern (26 bp):
GGGTAATTCGGTTAATCAGGTAATTC
Found at i:11798592 original size:17 final size:17
Alignment explanation
Indices: 11798549--11798601 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
11798539 TTTGGGTAAT
*
11798549 TCGGTTAATTCAGTTAA
1 TCGGTTAATTCGGTTAA
11798566 TTCGGTTAATTCGGTTAA
1 -TCGGTTAATTCGGTTAA
* *
11798584 TCGGGTAATTCGGGTAA
1 TCGGTTAATTCGGTTAA
11798601 T
1 T
11798602 TTTTAACCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 16 0.50
18 16 0.50
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.40
Consensus pattern (17 bp):
TCGGTTAATTCGGTTAA
Found at i:11798779 original size:12 final size:12
Alignment explanation
Indices: 11798762--11798786 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11798752 AGCAATTTCG
11798762 GGTCGGTTAACC
1 GGTCGGTTAACC
11798774 GGTCGGTTAACC
1 GGTCGGTTAACC
11798786 G
1 G
11798787 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:11799579 original size:4 final size:4
Alignment explanation
Indices: 11799566--11799597 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
11799556 ATGCAAATTT
11799566 GAAA GAAAA GAAA GAAA GAAA GAAA GAAA GAA
1 GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GAA
11799598 GAAGGGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:11800776 original size:20 final size:18
Alignment explanation
Indices: 11800729--11800785 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 18
11800719 GACGAAAAGG
*
11800729 ATGAGAAATGGATATGAT
1 ATGAGAAATGGATATGAA
*
11800747 ATGGGAAATGGAATATGAA
1 ATGAGAAATGG-ATATGAA
11800766 ATGATGAAATGGGATATGAA
1 ATGA-GAAAT-GGATATGAA
11800786 TATTGAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 10 0.30
19 9 0.27
20 12 0.36
21 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.25
Consensus pattern (18 bp):
ATGAGAAATGGATATGAA
Found at i:11800777 original size:27 final size:27
Alignment explanation
Indices: 11800742--11800796 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
11800732 AGAAATGGAT
*
11800742 ATGATATGGGAAATGGAATA-TGAAATG
1 ATGAAATGGGAAAT-GAATATTGAAATG
*
11800769 ATGAAATGGGATATGAATATTGAAATG
1 ATGAAATGGGAAATGAATATTGAAATG
11800796 A
1 A
11800797 ATTCATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (27 bp):
ATGAAATGGGAAATGAATATTGAAATG
Found at i:11800794 original size:19 final size:20
Alignment explanation
Indices: 11800733--11800795 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 20
11800723 AAAAGGATGA
*
11800733 GAAAT-GGATATG-ATATGG
1 GAAATGGGATATGAATATGT
*
11800751 GAAATGGAATATGAA-ATGAT
1 GAAATGGGATATGAATATG-T
11800771 GAAATGGGATATGAATAT-T
1 GAAATGGGATATGAATATGT
11800790 GAAATG
1 GAAATG
11800796 AATTCATGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.13
19 16 0.42
20 15 0.39
21 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (20 bp):
GAAATGGGATATGAATATGT
Found at i:11812953 original size:16 final size:16
Alignment explanation
Indices: 11812931--11812967 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
11812921 AGCACACTTC
11812931 CTTTTTTTCTTTT--TT
1 CTTTTTTT-TTTTGATT
11812946 CTTTTTTTTTTTGATT
1 CTTTTTTTTTTTGATT
11812962 CTTTTT
1 CTTTTT
11812968 AATGCCTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 8 0.40
16 8 0.40
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84
Consensus pattern (16 bp):
CTTTTTTTTTTTGATT
Found at i:11814508 original size:24 final size:24
Alignment explanation
Indices: 11814473--11814529 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
11814463 ACAGCAGCAG
*
11814473 CAACAGCAGAATTCACAACTGCAA
1 CAACAGCAGAATCCACAACTGCAA
* *
11814497 CAGCAGCAGAATCCACAGCTGCAA
1 CAACAGCAGAATCCACAACTGCAA
11814521 CAACAGCAG
1 CAACAGCAG
11814530 CTTCCGCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.42, C:0.32, G:0.18, T:0.09
Consensus pattern (24 bp):
CAACAGCAGAATCCACAACTGCAA
Found at i:11814543 original size:24 final size:24
Alignment explanation
Indices: 11814512--11814578 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
11814502 GCAGAATCCA
*
11814512 CAGCTGCAACAACAGCAGCTTCCG
1 CAGCTGCAACAACAGCAGCTCCCG
* * * *
11814536 CA-CTTGCAGCAGCAGCAACTCCCT
1 CAGC-TGCAACAACAGCAGCTCCCG
*
11814560 CAGCTACAACAACAGCAGC
1 CAGCTGCAACAACAGCAGC
11814579 AGCAGCTACC
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
23 1 0.03
24 30 0.94
25 1 0.03
ACGTcount: A:0.31, C:0.39, G:0.18, T:0.12
Consensus pattern (24 bp):
CAGCTGCAACAACAGCAGCTCCCG
Found at i:11814578 original size:30 final size:30
Alignment explanation
Indices: 11814542--11814608 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
11814532 TCCGCACTTG
* *
11814542 CAGCAGCAGCAACTCCCTCAGCTACAACAA
1 CAGCAGCAGCAACTACCACAGCTACAACAA
* * *
11814572 CAGCAGCAGCAGCTACCACAGCTGCAACAG
1 CAGCAGCAGCAACTACCACAGCTACAACAA
11814602 CAGCAGC
1 CAGCAGC
11814609 TTTCCCAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.39, G:0.19, T:0.07
Consensus pattern (30 bp):
CAGCAGCAGCAACTACCACAGCTACAACAA
Found at i:11814607 original size:24 final size:24
Alignment explanation
Indices: 11814572--11814656 Score: 91
Period size: 24 Copynumber: 3.5 Consensus size: 24
11814562 GCTACAACAA
11814572 CAGCAGCAGCAGCTACCACAGCTG
1 CAGCAGCAGCAGCTACCACAGCTG
* *
11814596 CAACAGCAGCAGCTTTCC-CAGCTG
1 CAGCAGCAGCAGC-TACCACAGCTG
* * * * *
11814620 CAGCAGCAACAACAACAACAGCAG
1 CAGCAGCAGCAGCTACCACAGCTG
11814644 CAGCAGCAGCAGC
1 CAGCAGCAGCAGC
11814657 AGCAGCAGCA
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
23 1 0.02
24 44 0.92
25 3 0.06
ACGTcount: A:0.34, C:0.36, G:0.22, T:0.07
Consensus pattern (24 bp):
CAGCAGCAGCAGCTACCACAGCTG
Found at i:11814625 original size:3 final size:3
Alignment explanation
Indices: 11814614--11814666 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
11814604 GCAGCTTTCC
* * * * *
11814614 CAG CTG CAG CAG CAA CAA CAA CAA CAG CAG CAG CAG CAG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
11814662 CAG CA
1 CAG CA
11814667 ACTGCAGCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.40, C:0.34, G:0.25, T:0.02
Consensus pattern (3 bp):
CAG
Found at i:11814654 original size:78 final size:78
Alignment explanation
Indices: 11814494--11814662 Score: 188
Period size: 78 Copynumber: 2.2 Consensus size: 78
11814484 TTCACAACTG
* * *
11814494 CAACAGCAGCAG-A-AT-CCACAGCTGCAACAACAGCAGCTTCCGCACTTGCAGCAGCAGCAACT
1 CAACAGCAGCAGCAGCTACCACAGCTGCAACAACAGCAGCTTCCGCACTTGCAGCAGCAACAACA
* **
11814556 CCCTCAGCTACAA
66 ACAACAGCTACAA
*
11814569 CAACAGCAGCAGCAGCTACCACAGCTGCAACAGCAGCAGCTTTCC-CAGC-TGCAGCAGCAACAA
1 CAACAGCAGCAGCAGCTACCACAGCTGCAACAACAGCAGC-TTCCGCA-CTTGCAGCAGCAACAA
*
11814632 CAACAACAGC-AGCAG
64 CAACAACAGCTA-CAA
*
11814647 CAGCAGCAGCAGCAGC
1 CAACAGCAGCAGCAGC
11814663 AGCAACTGCA
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
75 12 0.15
76 1 0.01
77 2 0.03
78 59 0.75
79 5 0.06
ACGTcount: A:0.34, C:0.37, G:0.20, T:0.09
Consensus pattern (78 bp):
CAACAGCAGCAGCAGCTACCACAGCTGCAACAACAGCAGCTTCCGCACTTGCAGCAGCAACAACA
ACAACAGCTACAA
Found at i:11821402 original size:21 final size:21
Alignment explanation
Indices: 11821352--11821403 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
11821342 AATAATAATG
*
11821352 TCTATTCAAACAACAAAAGAA
1 TCTATTCAAACAACAAAACAA
* * *
11821373 TCGAGTCAATCAACAAAACAA
1 TCTATTCAAACAACAAAACAA
11821394 TCTATTCAAA
1 TCTATTCAAA
11821404 GTGGCTACAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.52, C:0.21, G:0.06, T:0.21
Consensus pattern (21 bp):
TCTATTCAAACAACAAAACAA
Found at i:11821990 original size:15 final size:15
Alignment explanation
Indices: 11821938--11821995 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 15
11821928 CATCTTGGCC
11821938 AGCTCGCATTTTGATG
1 AGCTCGCATTTTG-TG
11821954 AGCTCGCATTTTGGTG
1 AGCTCGCATTTT-GTG
11821970 AGCTCGCACTTTTGT-
1 AGCTCGCA-TTTTGTG
11821985 AGCTCGC-TTTT
1 AGCTCGCATTTT
11821996 CATTCAACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.10
15 7 0.17
16 24 0.60
17 5 0.12
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (15 bp):
AGCTCGCATTTTGTG
Found at i:11831895 original size:18 final size:18
Alignment explanation
Indices: 11831852--11831897 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
11831842 CAAAGTCACG
* *
11831852 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTAGC
11831870 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTAGC
11831888 ATCAATATCG
1 ATCAATATCG
11831898 ATATCATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (18 bp):
ATCAATATCGTCACTAGC
Found at i:11832994 original size:24 final size:24
Alignment explanation
Indices: 11832948--11833018 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 24
11832938 ATCTATGTAG
11832948 ATTTTATATATTTTATTATAAAT-CAT
1 ATTTTATATA-TTTA-TA-AAATACAT
*
11832974 ATTTTATATATTTATACAAATATAT
1 ATTTTATATATTTATA-AAATACAT
11832999 ATTTTATAT-TTTATAAAATA
1 ATTTTATATATTTATAAAATA
11833019 GGCTGCGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 5 0.12
24 12 0.29
25 15 0.36
26 10 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTTATATATTTATAAAATACAT
Found at i:11833006 original size:23 final size:23
Alignment explanation
Indices: 11832948--11833018 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 23
11832938 ATCTATGTAG
11832948 ATTTTATATATTTTATTATAAATCAT
1 ATTTTATATATTTTA-TA-AAAT-AT
11832974 ATTTTATATA-TTTATACAAATAT
1 ATTTTATATATTTTATA-AAATAT
11832997 ATATTT-TATATTTTATAAAATA
1 AT-TTTATATATTTTATAAAATA
11833019 GGCTGCGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
23 13 0.31
24 15 0.36
25 4 0.10
26 10 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTATATATTTTATAAAATAT
Found at i:11833466 original size:43 final size:43
Alignment explanation
Indices: 11833338--11833685 Score: 340
Period size: 42 Copynumber: 8.3 Consensus size: 43
11833328 AAAGTACCAA
* **
11833338 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
11833381 AAACACCGCTAAAGACCA-AACCTTTAGCGGCACTTTTACCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
11833423 AAACGCCGCTAAAGACCATGACCTTTAGCAGTGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
11833466 AAACGCCGCTAAAGACGAAGACCTTTA-----GCTTTTACCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
11833504 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
11833547 AAACGCCGCTATAGA--ATCGACCTGTAGCGGCGTTTTTCCCAC
1 AAACGCCGCTAAAGACCAT-GACCTTTAGCGGCGCTTTTCCCAC
* * *
11833589 AAACACCGCTATAGA--ATAGACCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGCTAAAGACCAT-GACCTTTAGCGGCGCTTTTCCCAC
* * * * * * * *
11833631 AAACGCCGATATAGAACA-AACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
11833673 AAACGCCACTAAA
1 AAACGCCGCTAAA
11833686 AACATAACAT
Statistics
Matches: 256, Mismatches: 40, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
38 34 0.13
41 2 0.01
42 136 0.53
43 83 0.32
44 1 0.00
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:11833528 original size:81 final size:82
Alignment explanation
Indices: 11833332--11833657 Score: 331
Period size: 85 Copynumber: 3.9 Consensus size: 82
11833322 CCGCTAAAAG
* * * *
11833332 TACCAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTAACAAACACCGCTAAAGAC
1 TACCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGAC
11833397 CAAACCTTTAGCGGCACTTT
66 CAAACCTTTA--GG-ACTTT
* * *
11833417 TACCACAAACGCCGCTAAAGACCATGACCTTTAGCAGTGCTTTTCCCACAAACGCCGCTAAAGAC
1 TACCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGAC
*
11833482 GAAGACCTTTA-G-CTTT
66 CAA-ACCTTTAGGACTTT
* * *
11833498 TACCACAAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTATAGAA
1 TACCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAG-A
* * * *
11833563 TC-GACCTGTAGCGGCGTTTT
65 CCAAACCTTTAG-GAC--TTT
* * * * *
11833583 TCCCACAAACACCGCTATAGA--ATAGACCTTTAGCGGCGCTTTT-CACACAAACGCCGATATAG
1 TACCACAAACGCCGCTAAAGACCAT-GACCTTTAGCGGCGCTTTTCCA-ACAAACGCCGCTAAAG
*
11833645 AACAAACCTTTAG
64 ACCAAACCTTTAG
11833658 CGACGCTTCT
Statistics
Matches: 205, Mismatches: 26, Indels: 21
0.81 0.10 0.08
Matches are distributed among these distances:
80 6 0.03
81 62 0.30
82 2 0.01
83 7 0.03
84 41 0.20
85 80 0.39
86 7 0.03
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (82 bp):
TACCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGAC
CAAACCTTTAGGACTTT
Found at i:11841341 original size:8 final size:8
Alignment explanation
Indices: 11841328--11841360 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
11841318 ACCCGGCCCT
11841328 TAAATCCC
1 TAAATCCC
11841336 TAAAT-CC
1 TAAATCCC
11841343 TAAA-CCC
1 TAAATCCC
11841350 TAAATCCC
1 TAAATCCC
11841358 TAA
1 TAA
11841361 CTCTTACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 12 0.52
8 11 0.48
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24
Consensus pattern (8 bp):
TAAATCCC
Found at i:11841681 original size:7 final size:7
Alignment explanation
Indices: 11841669--11841817 Score: 50
Period size: 7 Copynumber: 20.7 Consensus size: 7
11841659 ACTAGTTAAT
11841669 CTAAACC
1 CTAAACC
11841676 CTAAACC
1 CTAAACC
*
11841683 CTAAAACT
1 CT-AAACC
11841691 CTAAAACC
1 CT-AAACC
*
11841699 ATAAACC
1 CTAAACC
* *
11841706 CTTAACA
1 CTAAACC
11841713 C-ATAACC
1 CTA-AACC
*
11841720 TCTAAAGC
1 -CTAAACC
11841728 CTAAACC
1 CTAAACC
* *
11841735 C-CAGCC
1 CTAAACC
*
11841741 TTTAAACC
1 -CTAAACC
*
11841749 ATAAACC
1 CTAAACC
*
11841756 ATAAACC
1 CTAAACC
**
11841763 AAAAACC
1 CTAAACC
*
11841770 GTAAACC
1 CTAAACC
* *
11841777 ATAAATC
1 CTAAACC
* *
11841784 ATAACCC
1 CTAAACC
11841791 CTAAACC
1 CTAAACC
*
11841798 CATAATCC
1 C-TAAACC
*
11841806 ATAAACC
1 CTAAACC
*
11841813 TTAAA
1 CTAAA
11841818 ATGGTAACAC
Statistics
Matches: 106, Mismatches: 29, Indels: 14
0.71 0.19 0.09
Matches are distributed among these distances:
6 3 0.03
7 78 0.74
8 24 0.23
9 1 0.01
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:11841760 original size:14 final size:14
Alignment explanation
Indices: 11841743--11841817 Score: 78
Period size: 14 Copynumber: 5.3 Consensus size: 14
11841733 CCCCAGCCTT
11841743 TAAACCATAAACCA
1 TAAACCATAAACCA
* *
11841757 TAAACCAAAAACCG
1 TAAACCATAAACCA
*
11841771 TAAACCATAAATCA
1 TAAACCATAAACCA
* *
11841785 TAACCCCTAAACCCA
1 TAAACCATAAA-CCA
* *
11841800 TAATCCATAAACCT
1 TAAACCATAAACCA
11841814 TAAA
1 TAAA
11841818 ATGGTAACAC
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
14 37 0.77
15 11 0.23
ACGTcount: A:0.52, C:0.29, G:0.01, T:0.17
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:11841768 original size:21 final size:21
Alignment explanation
Indices: 11841743--11841817 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
11841733 CCCCAGCCTT
11841743 TAAACCATAAACCATAAACCA
1 TAAACCATAAACCATAAACCA
* * *
11841764 AAAACCGTAAACCATAAATCA
1 TAAACCATAAACCATAAACCA
* * *
11841785 TAACCCCTAAACCCATAATCCA
1 TAAACCATAAA-CCATAAACCA
*
11841807 TAAACCTTAAA
1 TAAACCATAAA
11841818 ATGGTAACAC
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
21 26 0.60
22 17 0.40
ACGTcount: A:0.52, C:0.29, G:0.01, T:0.17
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCA
Found at i:11841847 original size:14 final size:14
Alignment explanation
Indices: 11841828--11841879 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
11841818 ATGGTAACAC
*
11841828 CTAAACCTTAAACT
1 CTAAACCATAAACT
*
11841842 CTAAACCATATAC-
1 CTAAACCATAAACT
*
11841855 CTAAACCAAAAACT
1 CTAAACCATAAACT
*
11841869 CTAAACTATAA
1 CTAAACCATAA
11841880 TGATAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (14 bp):
CTAAACCATAAACT
Found at i:11842196 original size:41 final size:41
Alignment explanation
Indices: 11842048--11842215 Score: 162
Period size: 41 Copynumber: 4.1 Consensus size: 41
11842038 TAAATTATTT
* ** *
11842048 TAAATCCTTGAGCATTAGCGGCGCATTTTAC-AAGACGCCGC
1 TAAATCCATGAGCATTAGCGGCGC-TTTCCCAAAAACGCCGC
* * ** *
11842089 TAAA--AATAGAGCATTAGCAGCGCTTTATCAAAAACGTCGC
1 TAAATCCAT-GAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* * * * *
11842129 TAAAAGCCCTGAGCATTAGCGACGCTTTCCCGAAAACGCTGC
1 T-AAATCCATGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
11842171 TAAATCCATGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
1 TAAATCCATGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
11842212 TAAA
1 TAAA
11842216 GCCCCGAAAA
Statistics
Matches: 101, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
39 5 0.05
40 23 0.23
41 46 0.46
42 26 0.26
43 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (41 bp):
TAAATCCATGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
Found at i:11842311 original size:39 final size:40
Alignment explanation
Indices: 11842268--11842400 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 40
11842258 CGCTTTCTGG
* * *
11842268 AAAGCGCCGCTAATTCTTG-TTTTTAACGGCGTTTTTCAT
1 AAAGCGCCGCTAATACTCGATTTTTAGCGGCGTTTTTCAT
* * * * * *
11842307 AAAGCACCGCTAGTACTCGATCTTTAGCGGTGTTTTCCAA
1 AAAGCGCCGCTAATACTCGATTTTTAGCGGCGTTTTTCAT
* * *
11842347 AAAGCGCCGTTAATGCTCGATTTTTAGCGGCGTTTTTTAT
1 AAAGCGCCGCTAATACTCGATTTTTAGCGGCGTTTTTCAT
*
11842387 CCAAGCGCCGCTAA
1 -AAAGCGCCGCTAA
11842401 AGCCTGTTTT
Statistics
Matches: 72, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
39 15 0.21
40 46 0.64
41 11 0.15
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (40 bp):
AAAGCGCCGCTAATACTCGATTTTTAGCGGCGTTTTTCAT
Found at i:11842934 original size:19 final size:20
Alignment explanation
Indices: 11842892--11842936 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
11842882 TTTAGCCACC
*
11842892 AAAAAAAATATCGAAAATTA
1 AAAAAAAATATCGAAAACTA
11842912 AAAAAAAA-ATCGAAAACTGA
1 AAAAAAAATATCGAAAACT-A
11842932 AAAAA
1 AAAAA
11842937 GAAAAAGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (20 bp):
AAAAAAAATATCGAAAACTA
Found at i:11842935 original size:21 final size:19
Alignment explanation
Indices: 11842892--11842942 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
11842882 TTTAGCCACC
* *
11842892 AAAAAAAATATCGAAAATT
1 AAAAAAAAAATCGAAAATA
11842911 AAAAAAAAAATCGAAAACTGA
1 AAAAAAAAAATCGAAAA-T-A
11842932 AAAAAGAAAAA
1 AAAAA-AAAAA
11842943 GTGGTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 16 0.59
20 1 0.04
21 5 0.19
22 5 0.19
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.12
Consensus pattern (19 bp):
AAAAAAAAAATCGAAAATA
Found at i:11844640 original size:26 final size:26
Alignment explanation
Indices: 11844605--11844658 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
11844595 CTTGTGATGT
11844605 TAAATCGGTGTCCTTAACTATTCATG
1 TAAATCGGTGTCCTTAACTATTCATG
*
11844631 TAAATTGGTGTCCTTAACTATTCATG
1 TAAATCGGTGTCCTTAACTATTCATG
11844657 TA
1 TA
11844659 TTGGCACGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (26 bp):
TAAATCGGTGTCCTTAACTATTCATG
Found at i:11848839 original size:26 final size:26
Alignment explanation
Indices: 11848808--11848882 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 26
11848798 ATGAATTTTC
*
11848808 TCAAAATTTT-TCTAAGGG-TACAATTG
1 TCAAAATTTTAT-T-AGGGATAAAATTG
*
11848834 TCAAAATTTTATTGGGGATAAAATTG
1 TCAAAATTTTATTAGGGATAAAATTG
11848860 TCAAAATTTTACTT--GGATAAAAT
1 TCAAAATTTTA-TTAGGGATAAAAT
11848883 CGGGGTGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 12 0.27
26 29 0.66
27 3 0.07
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (26 bp):
TCAAAATTTTATTAGGGATAAAATTG
Found at i:11857280 original size:45 final size:45
Alignment explanation
Indices: 11857224--11857309 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
11857214 GAATACCGAA
* * * *
11857224 TATAATGCCATGGTATCTTTCAACCATGGTCTTTTCCTTTTTGAG
1 TATAATACCATGATATATTTCAACCACGGTCTTTTCCTTTTTGAG
* *
11857269 TATAATACCATGATGTATTTCAATCACGGTCTTTTCCTTTT
1 TATAATACCATGATATATTTCAACCACGGTCTTTTCCTTTT
11857310 CCCAAATCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (45 bp):
TATAATACCATGATATATTTCAACCACGGTCTTTTCCTTTTTGAG
Found at i:11861228 original size:17 final size:18
Alignment explanation
Indices: 11861194--11861230 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
11861184 TGTCATTTAC
11861194 AATATAAGTTCAATATCA
1 AATATAAGTTCAATATCA
11861212 AATAT-AGTTCCAA-ATCA
1 AATATAAGTT-CAATATCA
11861229 AA
1 AA
11861231 CTTATCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATATAAGTTCAATATCA
Found at i:11865152 original size:44 final size:44
Alignment explanation
Indices: 11865082--11865757 Score: 568
Period size: 44 Copynumber: 15.4 Consensus size: 44
11865072 CCAATATAAA
* * *
11865082 AAGACAGGATCTGCTATCTTCGATCTACTTCACGCTAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAGG
* * * * * **
11865126 AAGATAAGATCTGCTTTCGTT-GATCTATTTCGCCACCAATATGGG
1 AAGACAAGATCTGCTATC-TTCGATCTACTTC-ACGCCAATACAGG
* * *
11865171 AATACAAGATCTGC-ATCTTCGATCTACTTC-CTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACAGG
* * *
11865214 AAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAGG
* * * * *
11865258 AAGACGAGATCTGCTTTCTTCGATCCACTTC-CTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACAGG
* * * *
11865302 AAGACAGGATCTGCTAACTTCGATCTACTTCACACCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAGG
* *
11865346 AATACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAGG
* * **
11865390 AAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCA-CGCCAATACAGG
* * * * *
11865435 AAGATAAGATTTGC-ATCTTCGATCCACTTC-CTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACAGG
* * *
11865478 AAGACATGATCTGCTATCTTCGATCTACTTCACGCTAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAGG
* * * * * **
11865522 AAGACAAGATATGCTTTCTTTGATCTACTTTGC-CACCAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTAC-TT-CACGCCAATACAGG
* * * * *
11865567 AAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACTAGTATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACAGG
* * * *
11865610 AAGACATGATCTGCTATCTTCGATCTATTTCACGCAAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAGG
* * **
11865654 AAGACAAGATTTGCTTTCTTCGATCTACTT--CGCCACTAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCA--A-TACAGG
* * * *
11865699 AAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAGTATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACAGG
*
11865742 AAGACAGGATCTGCTA
1 AAGACAAGATCTGCTA
11865758 CTTTTTAACC
Statistics
Matches: 511, Mismatches: 98, Indels: 46
0.78 0.15 0.07
Matches are distributed among these distances:
42 8 0.02
43 87 0.17
44 329 0.64
45 83 0.16
46 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAGG
Found at i:11865225 original size:88 final size:87
Alignment explanation
Indices: 11865071--11865756 Score: 641
Period size: 88 Copynumber: 7.8 Consensus size: 87
11865061 CTGCCTCACT
** * * * *
11865071 ACCAATATAAAAAGACAGGATCTGCTATCTTCGATCTACTT-CACGCTAATACATGAAGATAAGA
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCAC-C-AATATAGGAAGACAAGA
*
11865135 TCTGCTTTCGTT-GATCTATTTCGCC
64 TCTGCTTTC-TTCGATCTACTTC-CC
* * *
11865160 ACCAATATGGGAATACAAGATCTGC-ATCTTCGATCTACTTCCTACCAATATAGGAAGACAGGAT
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAGAT
*
11865224 CTG-TTATCTTCGATCTACTTCAC
65 CTGCTT-TCTTCGATCTACTTCCC
* * * * * * *
11865247 GCCAATACATGAAGACGAGATCTGCTTTCTTCGATCCACTTCCTACCAATATAGGAAGACAGGAT
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAGAT
** *
11865312 CTGCTAACTTCGATCTACTTCAC
65 CTGCTTTCTTCGATCTACTTCCC
* * * * * *
11865335 ACCAATACATGAATACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAGAT
11865400 CTGCTTTCTTCGATCTACTTCACC
65 CTGCTTTCTTCGATCTACTTC-CC
* * * * *
11865424 ACCAATATGGGAAGATAAGATTTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACATGAT
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAGAT
* *
11865488 CTGCTATCTTCGATCTACTTCAC
65 CTGCTTTCTTCGATCTACTTCCC
* * * * * * * * *
11865511 GCTAATACATGAAGACAAGATATGCTTTCTTTGATCTACTTTGCCACCAGTATGGGAAGACAAGA
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC-TT-CCACCAATATAGGAAGACAAGA
* * *
11865576 TCTGC-ATCTTCGATCCACTTCCT
64 TCTGCTTTCTTCGATCTACTTCCC
* * * * * *
11865599 ACTAGTATAGGAAGACATGATCTGCTATCTTCGATCTA-TTTCACGCAAATACATGAAGACAAGA
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCAC-C-AATATAGGAAGACAAGA
*
11865663 TTTGCTTTCTTCGATCTACTTCGCC
64 TCTGCTTTCTTCGATCTACTTC-CC
* * * * * *
11865688 ACTAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAGTATAGGAAGACAGGAT
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAGAT
11865752 CTGCT
65 CTGCT
11865757 ACTTTTTAAC
Statistics
Matches: 491, Mismatches: 88, Indels: 37
0.80 0.14 0.06
Matches are distributed among these distances:
85 3 0.01
86 3 0.01
87 61 0.12
88 322 0.66
89 96 0.20
90 6 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (87 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCACCAATATAGGAAGACAAGATC
TGCTTTCTTCGATCTACTTCCC
Found at i:11865323 original size:132 final size:132
Alignment explanation
Indices: 11865069--11865757 Score: 997
Period size: 132 Copynumber: 5.2 Consensus size: 132
11865059 GTCTGCCTCA
** * *
11865069 CTACCAATATAAAAAGACAGGATCTGCTATCTTCGATCTACTTCACGCTAATACATGAAGATAAG
1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
* * *
11865134 ATCTGCTTTCGTT-GATCTATTTCGCCACCAATATGGGAATACAAGATCTGCATCTTCGATCTAC
66 ATCTGCTTTC-TTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
11865198 TTC
130 TTC
* *
11865201 CTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAG
1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
* * * * * *
11865266 ATCTGCTTTCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTAACTTCGATCTAC
66 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCAC
11865330 TTC
130 TTC
* * * *
11865333 AC-ACCAATACATGAATACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 -CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
* * *
11865397 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGATAAGATTTGCATCTTCGATCCAC
65 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
11865462 TTC
130 TTC
* *
11865465 CTACCAATATAGGAAGACATGATCTGCTATCTTCGATCTACTTCACGCTAATACATGAAGACAAG
1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
* * * *
11865530 ATATGCTTTCTTTGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACT
66 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACT
11865595 TC
131 TC
* * * * *
11865597 CTACTAGTATAGGAAGACATGATCTGCTATCTTCGATCTATTTCACGCAAATACATGAAGACAAG
1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
* * *
11865662 ATTTGCTTTCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTGCATCTTCGATCCACT
66 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACT
11865727 TC
131 TC
*
11865729 CTACCAGTATAGGAAGACAGGATCTGCTA
1 CTACCAATATAGGAAGACAGGATCTGCTA
11865758 CTTTTTAACC
Statistics
Matches: 503, Mismatches: 49, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
131 26 0.05
132 454 0.90
133 23 0.05
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (132 bp):
CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACT
TC
Found at i:11868982 original size:45 final size:45
Alignment explanation
Indices: 11868918--11869003 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
11868908 TTAAAGGGTC
11868918 TAATTTTGAAATCAGCCAAGTCCTATGATAAAGCAAGTATTGCCT
1 TAATTTTGAAATCAGCCAAGTCCTATGATAAAGCAAGTATTGCCT
11868963 TAATTTTGAAATCAGCCAAGTCCTATGATAAAGCAAGTATT
1 TAATTTTGAAATCAGCCAAGTCCTATGATAAAGCAAGTATT
11869004 CCCTCAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (45 bp):
TAATTTTGAAATCAGCCAAGTCCTATGATAAAGCAAGTATTGCCT
Found at i:11878023 original size:30 final size:31
Alignment explanation
Indices: 11877987--11878046 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11877977 GTATAAATAT
*
11877987 AAAAATATTCATTTAAAAAA-ACAAATATAG
1 AAAAATATTCATTAAAAAAATACAAATATAG
* *
11878017 AAAAATATTTATTAAAAAAATAGAAATATA
1 AAAAATATTCATTAAAAAAATACAAATATA
11878047 TATGCATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (31 bp):
AAAAATATTCATTAAAAAAATACAAATATAG
Found at i:11878079 original size:22 final size:21
Alignment explanation
Indices: 11878051--11878096 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
11878041 AATATATATG
11878051 CATATATAGATAAGAAAAATTA
1 CATATATAGATAA-AAAAATTA
* *
11878073 CATATATATATAAAATAATTA
1 CATATATAGATAAAAAAATTA
11878094 CAT
1 CAT
11878097 TATCAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (21 bp):
CATATATAGATAAAAAAATTA
Found at i:11887824 original size:12 final size:12
Alignment explanation
Indices: 11887807--11887831 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11887797 TTCTCTTGAT
11887807 CCAAGTTGTGAG
1 CCAAGTTGTGAG
11887819 CCAAGTTGTGAG
1 CCAAGTTGTGAG
11887831 C
1 C
11887832 GTCAGACATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (12 bp):
CCAAGTTGTGAG
Found at i:11896122 original size:161 final size:161
Alignment explanation
Indices: 11895857--11896249 Score: 707
Period size: 161 Copynumber: 2.4 Consensus size: 161
11895847 TGTGTTGTTG
*
11895857 AAGGATGGATTTAACTGGCACAGGTGACTTC-GGGAGTAACTCATGTGAAACAAACAGATACTAA
1 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGG-GTAACTCATGTGAAACAAACAGATACTAA
11895921 CCGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAA
65 CCGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAA
*
11895986 CGAAAGAGTAAATTGGCACCTTATTTTTTTTT
130 CGAAAGAGTAAATTGGCACCTTATTTTTTTCT
11896018 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
1 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
*
11896083 CGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGATACTAGCCAAC
66 CGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAAC
11896148 GAAAGAGTAAATTGGCACCTTATTTTTTTCT
131 GAAAGAGTAAATTGGCACCTTATTTTTTTCT
* * * *
11896179 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGCAACTCACGTGAAGCCAACAGATACTAAC
1 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
11896244 CGGCCA
66 CGGCCA
11896250 AGTAAATTTT
Statistics
Matches: 224, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
161 221 0.99
162 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (161 bp):
AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
CGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAAC
GAAAGAGTAAATTGGCACCTTATTTTTTTCT
Found at i:11901708 original size:37 final size:37
Alignment explanation
Indices: 11901656--11901746 Score: 123
Period size: 37 Copynumber: 2.5 Consensus size: 37
11901646 TTAGTGCCGA
*
11901656 GGCGTGTTATCGGTTGGATTAGGT-TACATGAGCATTT
1 GGCGTGTTATCGGTTGGATTAGCTCT-CATGAGCATTT
* *
11901693 GGCGTGTTATTGGTTGGATTAGCTCTTATGAGCATTT
1 GGCGTGTTATCGGTTGGATTAGCTCTCATGAGCATTT
*
11901730 GGCGTGTT-TCAGTTGGA
1 GGCGTGTTATCGGTTGGA
11901747 CTACTTGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 7 0.15
37 40 0.83
38 1 0.02
ACGTcount: A:0.16, C:0.11, G:0.33, T:0.40
Consensus pattern (37 bp):
GGCGTGTTATCGGTTGGATTAGCTCTCATGAGCATTT
Found at i:11904339 original size:37 final size:37
Alignment explanation
Indices: 11904289--11904368 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
11904279 CTTATTACGA
* *
11904289 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
11904326 AGTCTTACCCGGACAAAATTCCCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
11904363 GGTCTT
1 AGTCTT
11904369 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:11904558 original size:47 final size:47
Alignment explanation
Indices: 11904499--11904923 Score: 638
Period size: 47 Copynumber: 9.1 Consensus size: 47
11904489 TATCACATTT
* * * *
11904499 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
11904544 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
11904591 ATACACCTGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
11904638 ATATACATGTTTACTTTCATCACATTGGCCATTCGGTCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
11904685 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
11904732 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
11904779 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
** *
11904826 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
11904873 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTA-TCACAC
11904921 ATA
1 ATA
11904924 TACACTTTCA
Statistics
Matches: 347, Mismatches: 30, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
45 6 0.02
46 1 0.00
47 331 0.95
48 9 0.03
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.33
Consensus pattern (47 bp):
ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:11906533 original size:13 final size:13
Alignment explanation
Indices: 11906515--11906539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11906505 TACTAAATTT
11906515 TCATGGATTCAAG
1 TCATGGATTCAAG
11906528 TCATGGATTCAA
1 TCATGGATTCAA
11906540 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:11909732 original size:13 final size:13
Alignment explanation
Indices: 11909714--11909739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11909704 GAAGTTTCGT
11909714 TAAGCTTATGATA
1 TAAGCTTATGATA
11909727 TAAGCTTATGATA
1 TAAGCTTATGATA
11909740 ACTAATGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TAAGCTTATGATA
Found at i:11911662 original size:19 final size:20
Alignment explanation
Indices: 11911630--11911680 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
11911620 GATTAAAAAC
11911630 TAGTTTATTAAGTAAATTAT
1 TAGTTTATTAAGTAAATTAT
*
11911650 TAGTTT-TTGAGTAAATTAT
1 TAGTTTATTAAGTAAATTAT
*
11911669 TAATTTGATTAA
1 TAGTTT-ATTAA
11911681 ATATTAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 17 0.65
20 6 0.23
21 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (20 bp):
TAGTTTATTAAGTAAATTAT
Found at i:11911685 original size:16 final size:17
Alignment explanation
Indices: 11911640--11911687 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
11911630 TAGTTTATTA
*
11911640 AGTAAATTATTAGTTTTTG
1 AGTAAATTATTA--ATTTG
11911659 AGTAAATTATTAATTTG
1 AGTAAATTATTAATTTG
*
11911676 ATTAAA-TATTAA
1 AGTAAATTATTAA
11911688 AAGTTGCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 6 0.22
17 9 0.33
19 12 0.44
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (17 bp):
AGTAAATTATTAATTTG
Found at i:11916677 original size:23 final size:23
Alignment explanation
Indices: 11916651--11916694 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11916641 ACACAAAAAT
11916651 TTGGACAACATAAATACAACAAC
1 TTGGACAACATAAATACAACAAC
* * *
11916674 TTGGGCAGCATATATACAACA
1 TTGGACAACATAAATACAACA
11916695 GTTTGAGCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.20
Consensus pattern (23 bp):
TTGGACAACATAAATACAACAAC
Found at i:11916731 original size:46 final size:47
Alignment explanation
Indices: 11916679--11916875 Score: 202
Period size: 47 Copynumber: 4.2 Consensus size: 47
11916669 ACAACTTGGG
** *
11916679 CAGCATATATACAACAGTTTGAGCA-CATTTTTA-CACCAAAACTGGA
1 CAGCATATATACAACAAATTGAGCAGCA-TTTAAGCACCAAAACTGGA
* * * *
11916725 CAGCATATATGCAACAAATTGGGCAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGA
** * *
11916772 CAGCATATATGTAACAAATTG-GACAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATACAACAAATTGAG-CAGCATTTAAGCACCAAAACTGGA
** * * * *
11916819 CAGCATATATGTAACAAATTGGGTAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGA
11916866 CAGCATATAT
1 CAGCATATAT
11916876 GTAAAAAATT
Statistics
Matches: 138, Mismatches: 9, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
46 26 0.19
47 111 0.80
48 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (47 bp):
CAGCATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGA
Found at i:11916742 original size:24 final size:24
Alignment explanation
Indices: 11916715--11916887 Score: 174
Period size: 23 Copynumber: 7.4 Consensus size: 24
11916705 ATTTTTACAC
*
11916715 CAAAACTGGACAGCATATATGCAA
1 CAAAATTGGACAGCATATATGCAA
* * * *
11916739 C-AAATTGGGCAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGCAA
*
11916762 CAAAATTGGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATGCAA
* * *
11916786 C-AAATTGGACAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGCAA
*
11916809 CAAAATTGGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATGCAA
** * * *
11916833 C-AAATTGGGTAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGCAA
*
11916856 CAAAATTGGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATGCAA
11916880 -AAAATTGG
1 CAAAATTGG
11916888 TTCAACTCAT
Statistics
Matches: 116, Mismatches: 30, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
23 62 0.53
24 54 0.47
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25
Consensus pattern (24 bp):
CAAAATTGGACAGCATATATGCAA
Found at i:11916772 original size:47 final size:47
Alignment explanation
Indices: 11916715--11916887 Score: 301
Period size: 47 Copynumber: 3.7 Consensus size: 47
11916705 ATTTTTACAC
* *
11916715 CAAAACTGGACAGCATATATGCAACAAATTGGGCAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
*
11916762 CAAAATTGGACAGCATATATGTAACAAATTGGACAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
*
11916809 CAAAATTGGACAGCATATATGTAACAAATTGGGTAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
*
11916856 CAAAATTGGACAGCATATATGTAAAAAATTGG
1 CAAAATTGGACAGCATATATGTAACAAATTGG
11916888 TTCAACTCAT
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25
Consensus pattern (47 bp):
CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
Found at i:11917795 original size:43 final size:42
Alignment explanation
Indices: 11917727--11917856 Score: 158
Period size: 43 Copynumber: 3.0 Consensus size: 42
11917717 AACTCGTACA
*
11917727 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
*
11917770 ATGCC-ACTGTCCCAGACAGT-TTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGT-AACACATA-TCG
*
11917813 ATGCCAACGTTCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATATCG
11917856 A
1 A
11917857 AAATCCTATG
Statistics
Matches: 75, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
42 5 0.07
43 62 0.83
44 8 0.11
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:11923367 original size:51 final size:49
Alignment explanation
Indices: 11923278--11923460 Score: 197
Period size: 51 Copynumber: 3.6 Consensus size: 49
11923268 GTTCACATAT
* *
11923278 TAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTGG
1 TAGCCTGCACATAGTACTACACACGTGACCA--ACTATCTGATACACGTAG
* * * * ***
11923329 TAGCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGTATAG
1 TAGCCTGCACATAGTACTACACACGTGA-CCAA-CTATCTGATACACGTAG
* * *
11923380 TAGCCTGCACATAGTACTACACATGCGACCTA-TCATTCTGATACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCAACT-A-TCTGATACACGTAG
11923430 TAGCCTGCACATAGTACTACACACGTGACCA
1 TAGCCTGCACATAGTACTACACACGTGACCA
11923461 TCACTTTCAC
Statistics
Matches: 106, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 40 0.38
51 62 0.58
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGCCTGCACATAGTACTACACACGTGACCAACTATCTGATACACGTAG
Found at i:11923481 original size:101 final size:101
Alignment explanation
Indices: 11923263--11923457 Score: 279
Period size: 101 Copynumber: 1.9 Consensus size: 101
11923253 TAATTAATGA
* * * *
11923263 TATCGGTTCACATATTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTG
1 TATCCGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCTGATACACGTA
* *
11923328 GTAGCTTGCACATAGTACTACACACGTGATCGAAGC
66 GTAGCCTGCACATAGTACTACACACGTGATCCAAGC
*
11923364 TATCCGGT-ACGTATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGATACAC
1 TATCCGTTCAC--ATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCTGATACAC
11923426 GTAGTAGCCTGCACATAGTACTACACACGTGA
63 GTAGTAGCCTGCACATAGTACTACACACGTGA
11923458 CCATCACTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
100 2 0.02
101 46 0.54
102 33 0.39
103 4 0.05
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
TATCCGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCTGATACACGTA
GTAGCCTGCACATAGTACTACACACGTGATCCAAGC
Found at i:11925997 original size:23 final size:23
Alignment explanation
Indices: 11925953--11925997 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
11925943 TTATATTAAT
* **
11925953 ATAATTTAATTAGATATTTATTA
1 ATAATTTAATTAGAAAAATATTA
*
11925976 ATAATTTAATTATAAAAATATT
1 ATAATTTAATTAGAAAAATATT
11925998 GATATAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATAATTTAATTAGAAAAATATTA
Found at i:11946799 original size:23 final size:23
Alignment explanation
Indices: 11946773--11946818 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11946763 TTTTTAACCA
*
11946773 CTTTTT-TTTCTTTTAGATTTTTT
1 CTTTTTCTTT-TTTTACATTTTTT
*
11946796 CTTTTTCTTTTTTTCCATTTTTT
1 CTTTTTCTTTTTTTACATTTTTT
11946819 GTGGCTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (23 bp):
CTTTTTCTTTTTTTACATTTTTT
Found at i:11953779 original size:15 final size:17
Alignment explanation
Indices: 11953759--11953795 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
11953749 GTCAAACATT
11953759 ATTATAAT-TATGG-TA
1 ATTATAATATATGGTTA
*
11953774 ATTATAATATTTGGTTA
1 ATTATAATATATGGTTA
11953791 ATTAT
1 ATTAT
11953796 TATGATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
ATTATAATATATGGTTA
Found at i:11962535 original size:46 final size:46
Alignment explanation
Indices: 11962450--11962555 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 46
11962440 GAAAGAGAAG
* * * * *
11962450 AAGAGAAGAAGAAGAAAGAGAAGGAGATGGCGGGAAGGGAAGGGAAA
1 AAGAGAAGAAAAAAAAAGAGAAGGAGATAGAGAGAAGGGAA-GGAAA
*
11962497 AAGA-AAGAAAAAAAAAGAGAAGGAGAATAGAGAG-AGGGAAGGAGA
1 AAGAGAAGAAAAAAAAAGAGAAGGAG-ATAGAGAGAAGGGAAGGAAA
11962542 AAGAGAAGAAAAAA
1 AAGAGAAGAAAAAA
11962556 GTAAATAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
45 8 0.16
46 34 0.67
47 9 0.18
ACGTcount: A:0.59, C:0.01, G:0.38, T:0.02
Consensus pattern (46 bp):
AAGAGAAGAAAAAAAAAGAGAAGGAGATAGAGAGAAGGGAAGGAAA
Found at i:11963109 original size:21 final size:20
Alignment explanation
Indices: 11963069--11963109 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11963059 AGAATAAGAG
*
11963069 TTTATGTTTTTAAATTTTAT
1 TTTATGTTTTTAAATATTAT
*
11963089 TTTATTTTTTATAAATATTAT
1 TTTATGTTTT-TAAATATTAT
11963110 AAATGAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTATGTTTTTAAATATTAT
Found at i:11967595 original size:14 final size:14
Alignment explanation
Indices: 11967576--11967610 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
11967566 GACATTTTTT
*
11967576 TTCTAATGACACTA
1 TTCTAACGACACTA
*
11967590 TTCTAACGATACTA
1 TTCTAACGACACTA
11967604 TTCTAAC
1 TTCTAAC
11967611 ATGTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (14 bp):
TTCTAACGACACTA
Found at i:11968923 original size:62 final size:61
Alignment explanation
Indices: 11968836--11969124 Score: 397
Period size: 62 Copynumber: 4.7 Consensus size: 61
11968826 CAACATTACA
* * * * * *
11968836 ACATTAAAACACTAAAACTTGGAACAAACTTTGTAATATAATTTTTGTAATATAAATTATAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGT-ATATAAATTAAAT
11968898 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAA-TTTGCTATATAAATTAAAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTG-TATATAAATTAAAT
**
11968959 ACATTACAACATTAAAAATTAGGGCAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTG-TATATAAATTAAAT
* *
11969021 ACCTTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGT-TACTAAATTAAAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGTATA-TAAATTAAAT
* *
11969082 ACATTACAACATT--AAATTTGAAACAAAATTTGTAATATAAATT
1 ACATTACAACATTAAAAATTAG-AACAAACTTTGTAATATAAATT
11969125 AGGTACATTG
Statistics
Matches: 207, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
59 6 0.03
60 23 0.11
61 79 0.38
62 99 0.48
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (61 bp):
ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGTATATAAATTAAAT
Found at i:11969005 original size:123 final size:123
Alignment explanation
Indices: 11968860--11969097 Score: 399
Period size: 123 Copynumber: 1.9 Consensus size: 123
11968850 AAACTTGGAA
* *
11968860 CAAACTTTGTAATATAATTTTTGTAATATAAATTATATACATTACAACATTAAAAATTAGAACAA
1 CAAACTTTGTAATATAAATTTTGTAATATAAATTAAATACATTACAACATTAAAAATTAGAACAA
11968925 ACTTTGTAATATAAA-TTTGCTATA-TAAATTAAATACATTACAACATTAAAAATTAGGG
66 ACTTTGTAATATAAATTTTG-T-TACTAAATTAAATACATTACAACATTAAAAATTAGGG
* * *
11968983 CAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACCTTACAACATTAAAAATTGGAACAA
1 CAAACTTTGTAATATAAATTTTGTAATATAAATTAAATACATTACAACATTAAAAATTAGAACAA
11969048 ACTTTGTAATATAAATTTTGTTACTAAATTAAATACATTACAACATTAAA
66 ACTTTGTAATATAAATTTTGTTACTAAATTAAATACATTACAACATTAAA
11969098 TTTGAAACAA
Statistics
Matches: 108, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
122 2 0.02
123 102 0.94
124 4 0.04
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (123 bp):
CAAACTTTGTAATATAAATTTTGTAATATAAATTAAATACATTACAACATTAAAAATTAGAACAA
ACTTTGTAATATAAATTTTGTTACTAAATTAAATACATTACAACATTAAAAATTAGGG
Found at i:11972519 original size:19 final size:20
Alignment explanation
Indices: 11972495--11972538 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11972485 TTTCTGCTTC
11972495 TTCTTCT-CGTACGTTTCTT
1 TTCTTCTACGTACGTTTCTT
**
11972514 TTCTTCTATTTACGTTTCTT
1 TTCTTCTACGTACGTTTCTT
11972534 TTCTT
1 TTCTT
11972539 TTCTCCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.07, C:0.23, G:0.07, T:0.64
Consensus pattern (20 bp):
TTCTTCTACGTACGTTTCTT
Found at i:11977459 original size:16 final size:16
Alignment explanation
Indices: 11977438--11977468 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11977428 AAATTATATT
11977438 TTTTTATTTTTAATAA
1 TTTTTATTTTTAATAA
11977454 TTTTTATTTTTAATA
1 TTTTTATTTTTAATA
11977469 TTCCAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTATTTTTAATAA
Found at i:11979886 original size:49 final size:49
Alignment explanation
Indices: 11979813--11979916 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
11979803 TCATGTAATA
* * * *
11979813 TAATTTTATAAAGTGTTGAGCTTTTGGTACATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATACATGATATTAAACTTAATTT
*
11979862 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATACATGATATTAAACTTAATTT
11979911 TAATTT
1 TAATTT
11979917 GTTTTTTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.49
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATACATGATATTAAACTTAATTT
Found at i:11981648 original size:16 final size:18
Alignment explanation
Indices: 11981611--11981646 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11981601 AATATTAAGA
11981611 ATTTTTATTAAATTATAT
1 ATTTTTATTAAATTATAT
11981629 ATTTTTATTAAATTATAT
1 ATTTTTATTAAATTATAT
11981647 TTAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTATTAAATTATAT
Found at i:11981900 original size:120 final size:120
Alignment explanation
Indices: 11981305--11981906 Score: 1079
Period size: 120 Copynumber: 5.0 Consensus size: 120
11981295 AAGTAGATTA
11981305 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
11981370 AAAAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAAT-T
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT-ATGT
11981425 TAAATTATA-TTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* *
11981486 AAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATA-TTTAATAATAATTATGT
*
11981542 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
11981607 AAGAATTTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
66 AAGAA-TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
*
11981663 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
11981728 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
*
11981783 TAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
11981848 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
11981903 TAAA
1 TAAA
11981907 ATATGCTTAA
Statistics
Matches: 467, Mismatches: 8, Indels: 14
0.96 0.02 0.03
Matches are distributed among these distances:
116 55 0.12
117 23 0.05
118 35 0.07
119 35 0.07
120 180 0.39
121 107 0.23
122 32 0.07
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
Found at i:11983124 original size:3 final size:3
Alignment explanation
Indices: 11983110--11983138 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11983100 GGAAGAAAGA
11983110 ATC ATC AT- ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
11983139 TATTCGGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:11990655 original size:65 final size:64
Alignment explanation
Indices: 11990562--11990751 Score: 281
Period size: 65 Copynumber: 2.9 Consensus size: 64
11990552 CTAGTCATAA
*
11990562 ATTACCAGCAAAAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
1 ATTACCAGC-ATAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
* * * *
11990627 ATTATCAGCGTTAAAAAACCTTAATTTCTATGATACTTCCTTATTGAGGAATTACTCTATAATAC
1 ATTACCAGC-ATAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
* * *
11990692 ATTACCAGCATAAAAAACCCTTACGTTCTATGATACTTCCTCATCAAGGAATTACTCTAT
1 ATTACCAGCATAAAAAA-CCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTAT
11990752 GCTCTTACCT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 7 0.06
65 104 0.94
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.34
Consensus pattern (64 bp):
ATTACCAGCATAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
Found at i:11995066 original size:16 final size:16
Alignment explanation
Indices: 11995045--11995075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11995035 AACTACAATT
11995045 ATTTTTATGTAAAAGA
1 ATTTTTATGTAAAAGA
*
11995061 ATTTTTTTGTAAAAG
1 ATTTTTATGTAAAAG
11995076 TCAAAAGAGA
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:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (16 bp):
ATTTTTATGTAAAAGA
Found at i:11997884 original size:64 final size:63
Alignment explanation
Indices: 11997764--11997884 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
11997754 TATCCCTAGA
**
11997764 GAATGTGTTGATGTAAGGAATGATGGGGCATGCTGTGGTGCTTGTGTAAAATAAACTAGTGCT
1 GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTAGTGCT
* * * *
11997827 GAATGTGTTGATGTAGGGAATGATTGTGCAATAATGTGGTGGTTGTGTAAAATAAACT
1 GAATGTGTTGATGTAAGGAATGATGGGGC-ATAATGTGGTGCTTGTGTAAAATAAACT
11997885 GAAACTGAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
63 26 0.51
64 25 0.49
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.33
Consensus pattern (63 bp):
GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTAGTGCT
Found at i:11997893 original size:64 final size:63
Alignment explanation
Indices: 11997764--11997902 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 63
11997754 TATCCCTAGA
** **
11997764 GAATGTGTTGATGTAAGGAATGATGGGGCATGCTGTGGTGCTTGTGTAAAATAAACTAGTGCT
1 GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTAGAACT
* * * *
11997827 GAATGTGTTGATGTAGGGAATGATTGTGCAATAATGTGGTGGTTGTGTAAAATAAACT-GAAACT
1 GAATGTGTTGATGTAAGGAATGATGGGGC-ATAATGTGGTGCTTGTGTAAAATAAACTAG-AACT
* *
11997891 GAAGGTGATGAT
1 GAATGTGTTGAT
11997903 ACGAGGAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
63 27 0.42
64 37 0.58
ACGTcount: A:0.30, C:0.06, G:0.32, T:0.32
Consensus pattern (63 bp):
GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTAGAACT
Found at i:11997911 original size:64 final size:64
Alignment explanation
Indices: 11997764--11997919 Score: 153
Period size: 64 Copynumber: 2.5 Consensus size: 64
11997754 TATCCCTAGA
* * ** **
11997764 GAATGTGTTGATGTAAGGAATGA-TGGGGC-ATGCTGTGGTGCTTGTGTAAAATAAACTAGTGCT
1 GAATGTGTTGATGTAGGGAATGAGT-GTGCAATAATGTGGTGCTTGTGTAAAATAAACTAGAACT
* *
11997827 GAATGTGTTGATGTAGGGAATGATTGTGCAATAATGTGGTGGTTGTGTAAAATAAACT-GAAACT
1 GAATGTGTTGATGTAGGGAATGAGTGTGCAATAATGTGGTGCTTGTGTAAAATAAACTAG-AACT
11997891 GAA-G-G-TGATGATACGAGGAATGAGTGTGC
1 GAATGTGTTGATG-TA-G-GGAATGAGTGTGC
11997920 GTGTTGTGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
61 5 0.06
62 3 0.04
63 28 0.35
64 43 0.54
ACGTcount: A:0.30, C:0.06, G:0.33, T:0.30
Consensus pattern (64 bp):
GAATGTGTTGATGTAGGGAATGAGTGTGCAATAATGTGGTGCTTGTGTAAAATAAACTAGAACT
Found at i:12004353 original size:7 final size:7
Alignment explanation
Indices: 12004332--12004424 Score: 66
Period size: 7 Copynumber: 13.3 Consensus size: 7
12004322 AGACTGAGGT
12004332 TTGAAAA
1 TTGAAAA
12004339 TTTG-AAA
1 -TTGAAAA
12004346 TTGAAAA
1 TTGAAAA
12004353 TT-AAAA
1 TTGAAAA
*
12004359 TTTGAAGA
1 -TTGAAAA
12004367 TTGAAAA
1 TTGAAAA
12004374 TAT-AAAA
1 T-TGAAAA
12004381 TTGAAAA
1 TTGAAAA
***
12004388 TTGGGGA
1 TTGAAAA
**
12004395 TTGAGGA
1 TTGAAAA
**
12004402 TTGAAGG
1 TTGAAAA
12004409 TTGAAAA
1 TTGAAAA
12004416 TTGAAAA
1 TTGAAAA
12004423 TT
1 TT
12004425 TAGGAAGGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
6 8 0.11
7 55 0.79
8 7 0.10
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.32
Consensus pattern (7 bp):
TTGAAAA
Found at i:12004371 original size:21 final size:21
Alignment explanation
Indices: 12004335--12004386 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
12004325 CTGAGGTTTG
12004335 AAAATTTGAAATTGAAAAT-T
1 AAAATTTGAAATTGAAAATAT
12004355 AAAATTTGAAGATTGAAAATAT
1 AAAATTTGAA-ATTGAAAATAT
12004377 AAAA-TTGAAA
1 AAAATTTGAAA
12004387 ATTGGGGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.37
21 14 0.47
22 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.31
Consensus pattern (21 bp):
AAAATTTGAAATTGAAAATAT
Found at i:12007374 original size:30 final size:30
Alignment explanation
Indices: 12007340--12007400 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
12007330 TTAGAGGAAA
12007340 TTTAGTTATTAGACTCTGCATTGAAGTCTT
1 TTTAGTTATTAGACTCTGCATTGAAGTCTT
12007370 TTTAGTTATTAGACTCTGCATTGAAGTCTT
1 TTTAGTTATTAGACTCTGCATTGAAGTCTT
12007400 T
1 T
12007401 CTTTTCGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (30 bp):
TTTAGTTATTAGACTCTGCATTGAAGTCTT
Found at i:12009273 original size:31 final size:31
Alignment explanation
Indices: 12009235--12009296 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
12009225 GTAAGTATGA
12009235 AAAATCTTAAGTCTTAATCCATTATCTTTTC
1 AAAATCTTAAGTCTTAATCCATTATCTTTTC
12009266 AAAATCTTAAGTCTTAATCCATTATCTTTTC
1 AAAATCTTAAGTCTTAATCCATTATCTTTTC
12009297 TGATGATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.45
Consensus pattern (31 bp):
AAAATCTTAAGTCTTAATCCATTATCTTTTC
Found at i:12019365 original size:54 final size:55
Alignment explanation
Indices: 12019306--12019491 Score: 175
Period size: 54 Copynumber: 3.4 Consensus size: 55
12019296 CTATCATGCA
* * *
12019306 CCTTCTCCCTTCTCCTTTCACCATCT-AGATCCCTGTCCCGGCTCTTCCCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCTCAGATCCCTCTCCCGACTCCTCCCTCGCT
** * * *
12019360 CCTTCTCCCTTCTCCTTTC-CC-TCTCCATTTCTCTCTCCCTACTCCTCTCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCT-CAGATCCCTCTCCCGACTCCTCCCTCGCT
* * * * **
12019414 CCTTCTCCCTTCTCCTTTCACCA-CTCATG-TCTCTATCTCTACTCCTTGCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCTCA-GATCCCTCTCCCGACTCCTCCCTCGCT
* *
12019468 CCCTCTCCCTTCTCCTCTCACCAT
1 CCTTCTCCCTTCTCCTTTCACCAT
12019492 AAATCTCCCT
Statistics
Matches: 111, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
52 3 0.03
53 2 0.02
54 102 0.92
55 4 0.04
ACGTcount: A:0.07, C:0.49, G:0.05, T:0.39
Consensus pattern (55 bp):
CCTTCTCCCTTCTCCTTTCACCATCTCAGATCCCTCTCCCGACTCCTCCCTCGCT
Found at i:12019385 original size:24 final size:24
Alignment explanation
Indices: 12019356--12019432 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 24
12019346 GCTCTTCCCT
12019356 CGCTCCTTCTCCCTTCTCCTTTCC
1 CGCTCCTTCTCCCTTCTCCTTTCC
* * * *
12019380 CTCTCCATTTCTCTCTCCCTACTCCTCTCT
1 CGCT-C----CT-TCTCCCTTCTCCTTTCC
12019410 CGCTCCTTCTCCCTTCTCCTTTC
1 CGCTCCTTCTCCCTTCTCCTTTC
12019433 ACCACTCATG
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
24 17 0.43
25 3 0.08
29 3 0.08
30 17 0.43
ACGTcount: A:0.03, C:0.52, G:0.03, T:0.43
Consensus pattern (24 bp):
CGCTCCTTCTCCCTTCTCCTTTCC
Found at i:12020988 original size:15 final size:15
Alignment explanation
Indices: 12020970--12021003 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12020960 TGCGATGGCG
*
12020970 GTGGTGACGATGTTT
1 GTGGTGACGATGCTT
*
12020985 GTGGTGGCGATGCTT
1 GTGGTGACGATGCTT
12021000 GTGG
1 GTGG
12021004 CGTTTGGAGG
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:0.09, C:0.09, G:0.47, T:0.35
Consensus pattern (15 bp):
GTGGTGACGATGCTT
Found at i:12028311 original size:12 final size:13
Alignment explanation
Indices: 12028287--12028315 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
12028277 CGCCACAGCC
12028287 AAAACAAACCAAA
1 AAAACAAACCAAA
12028300 AAAACAAA-CAAA
1 AAAACAAACCAAA
12028312 AAAA
1 AAAA
12028316 AAAAGGAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAACCAAA
Found at i:12028316 original size:13 final size:13
Alignment explanation
Indices: 12028287--12028316 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12028277 CGCCACAGCC
*
12028287 AAAACAAACCAAA
1 AAAACAAACAAAA
12028300 AAAACAAACAAAA
1 AAAACAAACAAAA
12028313 AAAA
1 AAAA
12028317 AAAGGAGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAACAAAA
Found at i:12031909 original size:54 final size:54
Alignment explanation
Indices: 12031834--12031941 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
12031824 CAAAACAAAG
12031834 TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
1 TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
12031888 TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
1 TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
12031942 AACTTTCCTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (54 bp):
TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
Found at i:12039817 original size:14 final size:14
Alignment explanation
Indices: 12039798--12039830 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
12039788 TAATATAGTT
12039798 TTATTTATTTATTA
1 TTATTTATTTATTA
*
12039812 TTATTTATTTATTG
1 TTATTTATTTATTA
12039826 TTATT
1 TTATT
12039831 ATTATTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TTATTTATTTATTA
Found at i:12039844 original size:20 final size:20
Alignment explanation
Indices: 12039806--12039844 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12039796 TTTTATTTAT
*
12039806 TTATTATTATTTATTTATTG
1 TTATTATTATTTATATATTG
*
12039826 TTATTATTATTTCTATATT
1 TTATTATTATTTATATATT
12039845 TATGCACGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (20 bp):
TTATTATTATTTATATATTG
Found at i:12039899 original size:22 final size:21
Alignment explanation
Indices: 12039857--12039899 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
12039847 TGCACGCATT
12039857 TTTTAATATATATATGCATTTA
1 TTTTAATATATATAT-CATTTA
12039879 TTTTATATAATATATAT-ATTT
1 TTTTA-AT-ATATATATCATTT
12039900 TTTGACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 8 0.42
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTAATATATATATCATTTA
Found at i:12043518 original size:12 final size:12
Alignment explanation
Indices: 12043501--12043525 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12043491 GAAGCAAATG
12043501 AAAGTCGTAATA
1 AAAGTCGTAATA
12043513 AAAGTCGTAATA
1 AAAGTCGTAATA
12043525 A
1 A
12043526 TGAACAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
AAAGTCGTAATA
Found at i:12046004 original size:14 final size:15
Alignment explanation
Indices: 12045978--12046010 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12045968 TCCCAAGCTG
12045978 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
12045993 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
12046007 GGAA
1 GGAA
12046011 AAGAGTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:12047393 original size:44 final size:42
Alignment explanation
Indices: 12047343--12047481 Score: 102
Period size: 43 Copynumber: 3.2 Consensus size: 42
12047333 GATAGTAGAT
12047343 CTTGCCTTACTGTACCGGCAGCGAAGCAGATCAAAGACACCAGC
1 CTTGCCTT-CTGTA-CGGCAGCGAAGCAGATCAAAGACACCAGC
* * * * * * * *
12047387 CTTGCC-TCTCTAGGTTGCAGTGGAGCAGA-CTGAAGATAGCAGAT
1 CTTGCCTTCTGTACG--GCAGCGAAGCAGATC-AAAGACACCAG-C
* *
12047431 CTTGCCTTCCTGTATCGGCAGCAAAGCAGATCAAAGACACGAGC
1 CTTGCCTT-CTGTA-CGGCAGCGAAGCAGATCAAAGACACCAGC
12047475 CTTGCCT
1 CTTGCCT
12047482 CCCTGGGTTA
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
41 1 0.01
42 5 0.07
43 20 0.29
44 19 0.28
45 18 0.26
46 5 0.07
47 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (42 bp):
CTTGCCTTCTGTACGGCAGCGAAGCAGATCAAAGACACCAGC
Found at i:12047822 original size:263 final size:263
Alignment explanation
Indices: 12047334--12047960 Score: 724
Period size: 263 Copynumber: 2.4 Consensus size: 263
12047324 ATCATTGAAG
* * * *
12047334 ATAGTAGATCTTGCCTTACTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCTCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTA
* * * * * * * ***
12047399 GGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTATCGGCAGCAAAGCAGATCA
66 GGTTGCAGCGGAGCAG-TTGAAAATAGTAGATCTTACCTCCCTGAAGAAGCAGCAAAGCAGATCA
** * *
12047464 AAGACACGAGCCTTGCCTCCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCC
130 AAGACACGAGCCTTGCCTCCCTCAGTGACAGCAGAGCAGGTTGAAAATAGCAGATCTTGCCTTCC
* * *
12047529 TGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTG-CTT-CCCTGGGGTGCAGCGGAGTAGG
195 TGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTTCCCCT-GGG-GCAACAGAGCAGG
12047592 TTAAAA
258 TTAAAA
*
12047598 ATAGCATATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTA
* * * * *** * *
12047663 GGTTGCAGCGAAGCATGTTGAAAATTGTAGATCTTATCTCCCT-AAGAAGTAGTGGAGTAGATCG
66 GGTTGCAGCGGAGCA-GTTGAAAATAGTAGATCTTACCTCCCTGAAGAAGCAGCAAAGCAGATCA
* * * *
12047727 AATACACTAGCCTTGCCTCCCTCAGTGGCAGCAGAGCAGGTT-AAAGATAGCAGATCTTGCCTTT
130 AAGACACGAGCCTTGCCTCCCTCAGTGACAGCAGAGCAGGTTGAAA-ATAGCAGATCTTGCCTTC
* * *
12047791 TTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTTCCCCTGTGGCAACAGAGCAGGT
194 CTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTTCCCCTGGGGCAACAGAGCAGGT
*
12047856 TAAAG
259 TAAAA
* * ** ** * *
12047861 ATAGCAGATCTTGCCTTCCTGTACTGATAATGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTC
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTA
*
12047926 GGTGGCAGCGGAGCAGGTT-AAAGATAGTAGATCTT
66 GGTTGCAGCGGAGCA-GTTGAAA-ATAGTAGATCTT
12047961 GTCTTCCCAT
Statistics
Matches: 306, Mismatches: 52, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
262 6 0.02
263 198 0.65
264 97 0.32
265 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (263 bp):
ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTA
GGTTGCAGCGGAGCAGTTGAAAATAGTAGATCTTACCTCCCTGAAGAAGCAGCAAAGCAGATCAA
AGACACGAGCCTTGCCTCCCTCAGTGACAGCAGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCT
GTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTTCCCCTGGGGCAACAGAGCAGGTTA
AAA
Found at i:12047974 original size:88 final size:88
Alignment explanation
Indices: 12047331--12047967 Score: 615
Period size: 88 Copynumber: 7.2 Consensus size: 88
12047321 CAGATCATTG
* * * * * * * *
12047331 AAGATAGTAGATCTTGCCTTACTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCT
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
* * * ** *
12047396 CTAGGTTGCAGTGGAGCAGACTG
66 CTCGGTGGCAGCGGAGCAGGTTA
* ** * *
12047419 AAGATAGCAGATCTTGCCTTCCTGTA-TCGGCAGCAAAGCAGATCAAAGACACGAGCCTTGCCTC
1 AAGATAGCAGATCTTGCCTTCCTGTACT-GACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTC
* **
12047483 CCTGGGTTACAGCGGAGCAGGTTGA
65 CCTCGGTGGCAGCGGAGCAGGTT-A
* *
12047508 AA-ATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCTTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
* *
12047572 CT-GGGGTGCAGCGGAGTAGGTTA
66 CTCGGTG-GCAGCGGAGCAGGTTA
* * * * * *
12047595 AAAATAGCATATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
* * * *
12047660 CTAGGTTGCAGCGAAGCATGTTGA
66 CTCGGTGGCAGCGGAGCAGGTT-A
* * ** * * * * * *
12047684 AA-ATTGTAGATCTTATC-TCC-CTA-AGAAGTAGTGGAGTAGATCGAATACACTAGCCTTGCCT
1 AAGATAGCAGATCTTGCCTTCCTGTACTG-A-CAGTGAAGCAGATCGAAGACACTAGCCTTGCCT
* *
12047745 CCCTCAGTGGCAGCAGAGCAGGTTA
64 CCCTCGGTGGCAGCGGAGCAGGTTA
** * *
12047770 AAGATAGCAGATCTTGCCTTTTTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTTC
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCC-TC
* * *
12047835 CC-CTGTGGCAACAGAGCAGGTTA
65 CCTCGGTGGCAGCGGAGCAGGTTA
* * *
12047858 AAGATAGCAGATCTTGCCTTCCTGTACTGATAATGAAGCAGATTGAAGACACTAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
12047923 CTCGGTGGCAGCGGAGCAGGTTA
66 CTCGGTGGCAGCGGAGCAGGTTA
* *
12047946 AAGATAGTAGATCTTGTCTTCC
1 AAGATAGCAGATCTTGCCTTCC
12047968 CATACTGGTG
Statistics
Matches: 453, Mismatches: 81, Indels: 30
0.80 0.14 0.05
Matches are distributed among these distances:
85 1 0.00
86 6 0.01
87 67 0.15
88 364 0.80
89 15 0.03
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (88 bp):
AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
CTCGGTGGCAGCGGAGCAGGTTA
Found at i:12048034 original size:132 final size:131
Alignment explanation
Indices: 12047954--12048568 Score: 955
Period size: 132 Copynumber: 4.7 Consensus size: 131
12047944 TAAAGATAGT
*
12047954 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG-ATGACAGATCTTGTCTTCATGTAT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG-CAGATCTTGTCTTCATGTAT
* * * *
12048018 TGGCATGAAGTAGATTGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGAAAGTGGATTGAAGA
65 TGGCATGAAGTAGATCGAAGATAGCAGA-CCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGA
*
12048083 TTC
129 TGC
* * * * *
12048086 AGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAAGCGGATCTTATCTTTATGTGTT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* *
12048151 GGCGTGAAGTAGATTGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
66 GGCATGAAGTAGATCGAAGATAGCAGA-CCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
12048216 GC
130 GC
* * *
12048218 AGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCGTGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* * *
12048283 GGCGTGAAGTTGATCGAAGATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
66 GGCATGAAGTAGATCGAAGATAGCAGA-CCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
12048348 GC
130 GC
12048350 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAT-TATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* *
12048414 GGCATGAAGTAGATCGAGGATAGCAGATCCTGTCTTCCTAAATTGGTAGCGAAGTGGATCGAAGA
66 GGCATGAAGTAGATCGAAGATAGCAGA-CCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGA
12048479 TGC
129 TGC
*
12048482 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
*
12048547 GGCGTGAAGTAGATCGAAGATA
66 GGCATGAAGTAGATCGAAGATA
12048569 TCAAATTTTG
Statistics
Matches: 449, Mismatches: 31, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
131 48 0.11
132 375 0.84
133 26 0.06
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (131 bp):
AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
GGCATGAAGTAGATCGAAGATAGCAGACCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATG
C
Found at i:12048053 original size:44 final size:43
Alignment explanation
Indices: 12047946--12048568 Score: 458
Period size: 44 Copynumber: 14.1 Consensus size: 43
12047936 GAGCAGGTTA
* **
12047946 AAGATAGTAGATCTTGTCTTCCCATACTGGTGGC-GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTT--CATA-TATTGGCAGAAGTAGATCG
* *
12047991 AAGAT-GACAGATCTTGTCTTCATGTATTGGCATGAAGTAGATTG
1 AAGATAG-CAGATCTTGTCTTCATATATTGGCA-GAAGTAGATCG
* * * * * *
12048035 AAGATAGCTGATCCTGTCTTCCTATATTGGTAGAAAGTGGATTG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCAG-AAGTAGATCG
* *
12048079 AAGAT-TCAGATCTTGTCTTCCTATACTGGTGGC-GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATA-T--TGGCAGAAGTAGATCG
* * * * * * * *
12048123 AAGAAAGCGGATCTTATCTTTATGTGTTGGCGTGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCATATATTGGC-AGAAGTAGATCG
* * * *
12048167 AAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCA-GAAGTAGATCG
* **
12048211 AAGAT-GCAGATCTTATCTTCCCATACTGGTGGC-GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTT--CATA-TATTGGCAGAAGTAGATCG
* * * * * *
12048255 AAGAAAGCAGATCTTATCTTCGTGTATTGGCGTGAAGTTGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGC-AGAAGTAGATCG
* * * *
12048299 AAGATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCA-GAAGTAGATCG
**
12048343 AAGAT-GCAGATCTTGTCTTCCCATACTGGTGGC-GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTT--CATA-TATTGGCAGAAGTAGATCG
*
12048387 AAGAAAGCAGATCTTGTCTTCAT-TATTGGCATGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCA-GAAGTAGATCG
* * * * * *
12048430 AGGATAGCAGATCCTGTCTTCCTAAATTGGTAGCGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCA--GAAGTAGATCG
**
12048475 AAGAT-GCAGATCTTGTCTTCCCATACTGGTGGC-GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTT--CATA-TATTGGCAGAAGTAGATCG
* * * *
12048519 AAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGC-AGAAGTAGATCG
12048563 AAGATA
1 AAGATA
12048569 TCAAATTTTG
Statistics
Matches: 455, Mismatches: 90, Indels: 67
0.74 0.15 0.11
Matches are distributed among these distances:
41 5 0.01
42 19 0.04
43 84 0.18
44 237 0.52
45 93 0.20
46 14 0.03
47 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
AAGATAGCAGATCTTGTCTTCATATATTGGCAGAAGTAGATCG
Found at i:12048120 original size:88 final size:87
Alignment explanation
Indices: 12047946--12048568 Score: 524
Period size: 88 Copynumber: 7.1 Consensus size: 87
12047936 GAGCAGGTTA
* * * *
12047946 AAGATAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATGACAGATCTTGTCTT
1 AAGATAGCAGATCTTGTCTTCCTATATTGGT--AGAAGTAGATCGAAGATG-CAGATCTTGTCTT
* * * * *
12048011 CATGTATTGGCA-TGAAGTAGATTG
63 CCTATATTGGTAGCGAAGTAGATCG
* * * * *
12048035 AAGATAGCTGATCCTGTCTTCCTATATTGGTAGAAAGTGGATTGAAGATTCAGATCTTGTCTTCC
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAG-AAGTAGATCGAAGATGCAGATCTTGTCTTCC
* *
12048100 TATACTGGTGGCGAAGTAGATCG
65 TATATTGGTAGCGAAGTAGATCG
* * * ** * * * *
12048123 AAGAAAGCGGATCTTATCTTTATGTGTTGGCGT-GAAGTAGATTGAAGATAGCAGATCCTGTCTT
1 AAGATAGCAGATCTTGTCTTCCTATATT-G-GTAGAAGTAGATCGAAGAT-GCAGATCTTGTCTT
*
12048187 CCTATATTGGTAG-GAAGTGGATCG
63 CCTATATTGGTAGCGAAGTAGATCG
* * * * * *
12048211 AAGAT-GCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTT
1 AAGATAGCAGATCTTGTCTTCCTATATTGGT--AGAAGTAGATCGAAG-ATGCAGATCTTGTCTT
* * * * *
12048275 CGTGTATTGG-CGTGAAGTTGATCG
63 CCTATATTGGTAGCGAAGTAGATCG
* *
12048299 AAGATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTA-GAAGTAGATCGAAGATGCAGATCTTGTCTTCC
* * *
12048364 CATACTGGTGGCGAAGTAGATCG
65 TATATTGGTAGCGAAGTAGATCG
* * * * *
12048387 AAGAAAGCAGATCTTGTCTTCAT-TATTGGCATGAAGTAGATCGAGGATAGCAGATCCTGTCTTC
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTA-GAAGTAGATCGAAGAT-GCAGATCTTGTCTTC
* *
12048451 CTAAATTGGTAGCGAAGTGGATCG
64 CTATATTGGTAGCGAAGTAGATCG
* * * * *
12048475 AAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTT
1 AAGATAGCAGATCTTGTCTTCCTATATTGGT--AGAAGTAGATCGAAG-ATGCAGATCTTGTCTT
* * * *
12048539 CATGTATTGG-CGTGAAGTAGATCG
63 CCTATATTGGTAGCGAAGTAGATCG
12048563 AAGATA
1 AAGATA
12048569 TCAAATTTTG
Statistics
Matches: 425, Mismatches: 90, Indels: 38
0.77 0.16 0.07
Matches are distributed among these distances:
85 2 0.00
86 1 0.00
87 93 0.22
88 221 0.52
89 105 0.25
90 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (87 bp):
AAGATAGCAGATCTTGTCTTCCTATATTGGTAGAAGTAGATCGAAGATGCAGATCTTGTCTTCCT
ATATTGGTAGCGAAGTAGATCG
Found at i:12049227 original size:19 final size:17
Alignment explanation
Indices: 12049193--12049245 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 17
12049183 ATTATCGTTC
*
12049193 TTTTATTTTTCATATATATA
1 TTTTATTTTT--T-TATATT
12049213 TTTTATTTTTTTATATT
1 TTTTATTTTTTTATATT
12049230 TTCTCTATTTTTTTAT
1 TT-T-TATTTTTTTAT
12049246 TTATTTCTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.23
18 2 0.07
19 11 0.37
20 10 0.33
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATTTTTTTATATT
Found at i:12049887 original size:3 final size:3
Alignment explanation
Indices: 12049879--12049922 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
12049869 ATAGTTTTAT
* * *
12049879 TTA TTA TTA TTA TTT TTG TTA TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12049923 TCTATATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:12049955 original size:21 final size:24
Alignment explanation
Indices: 12049931--12049979 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
12049921 TTTCTATATT
12049931 TATACACGCA-TTTTT-T-TAATA
1 TATACACGCAGTTTTTATATAATA
* *
12049952 TATATATGCAGTTTTTATATAATA
1 TATACACGCAGTTTTTATATAATA
12049976 TATA
1 TATA
12049980 TTTTTGACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 5 0.22
23 1 0.04
24 9 0.39
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (24 bp):
TATACACGCAGTTTTTATATAATA
Done.