Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 74 of 313
Found at i:25102414 original size:22 final size:21
Alignment explanation
Indices: 25102380--25102420 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
25102370 GTCTTTATGT
*
25102380 AATTTTTAATATTTTGATTTTA
1 AATTATTAATATTTT-ATTTTA
*
25102402 AATTATTACTATTTTATTT
1 AATTATTAATATTTTATTT
25102421 GGGTTGTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
AATTATTAATATTTTATTTTA
Found at i:25108152 original size:28 final size:28
Alignment explanation
Indices: 25108081--25108157 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 28
25108071 TGTAAAAGTA
* * *
25108081 ATTGGGCCTATTGTGCCATATAGATGTG
1 ATTGGGCCTAATGGGCCATATAGATGAG
25108109 ATTTGGGCCTAATGGGCCATAT-GAATGAG
1 A-TTGGGCCTAATGGGCCATATAG-ATGAG
*
25108138 ATTGGGCCTAGTGGGCCATA
1 ATTGGGCCTAATGGGCCATA
25108158 AGCATGTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 20 0.47
29 23 0.53
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (28 bp):
ATTGGGCCTAATGGGCCATATAGATGAG
Found at i:25115894 original size:47 final size:47
Alignment explanation
Indices: 25115840--25116923 Score: 1909
Period size: 47 Copynumber: 23.1 Consensus size: 47
25115830 TTAGGATTTT
* * * ** * *
25115840 ATGTGATAAATGTGAATGTGTATAAATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
25115887 ATGTGATAAATGTGAACATTCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
*
25115934 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25115981 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116028 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116075 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116122 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116169 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116216 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116263 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116310 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116357 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116404 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116451 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116498 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116545 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116592 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116639 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116686 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
*
25116733 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
** *
25116780 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
* * *
25116827 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
* * * * * * *
25116874 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGTCGAATGGCTA
1 ATGTGATGAATGT-GAACGTGCATATGTGTGATAAGGCCGAATGGCCA
25116921 ATG
1 ATG
25116924 CGAAATGTGT
Statistics
Matches: 1012, Mismatches: 24, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
47 1009 1.00
48 3 0.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:25116880 original size:22 final size:22
Alignment explanation
Indices: 25116759--25116880 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
25116749 CATGCATATG
*
25116759 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * * *
25116781 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCAGAAT-GGC-CA-A
*
25116806 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
25116828 TGTGATGAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
25116853 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
25116875 TGTGAT
1 TGTGAT
25116881 GAACGTGGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 28
0.66 0.10 0.25
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 15 0.20
25 19 0.25
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:25116953 original size:46 final size:46
Alignment explanation
Indices: 25116897--25117033 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
25116887 GGAAGTGTAT
*
25116897 ATATGTGGTAAAGTCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
25116943 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
25116989 ATATGTGGTAAAGCCAAATGACTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
25117034 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:25120071 original size:38 final size:38
Alignment explanation
Indices: 25120000--25120129 Score: 165
Period size: 39 Copynumber: 3.3 Consensus size: 38
25119990 GCTACTCGTT
*
25120000 CAAATGCCTTCGGGATATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACA-A-CCCGGATT-TAGTAACTCGCA
25120040 CAAATGCCTTCGGGACAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACAACCCGGATTTAGTAACTCGCA
* * *
25120078 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGAC--AACCCGGATTTAGTAACTCGCA
25120117 CAAATGCCTTCGG
1 CAAATGCCTTCGG
25120130 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
37 1 0.01
38 30 0.37
39 35 0.43
40 16 0.20
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (38 bp):
CAAATGCCTTCGGGACAACCCGGATTTAGTAACTCGCA
Found at i:25120112 original size:39 final size:39
Alignment explanation
Indices: 25120000--25120182 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
25119990 GCTACTCGTT
*
25120000 CAAATGCCTTCGGGATATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGCT-TAGCCCGGATT-TAGTAACTCGCA
*
25120040 CAAATGCCTTCGGGAC--AACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGTAACTCGCA
* *
25120078 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
25120117 CAAATGCCTTCGGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATTTAGTAAC-TCGCA
25120158 CAAA-GCCTTCGGGGCTTAGCCCGGA
1 CAAATGCCTTC-GGGCTTAGCCCGGA
25120183 CATCATTCGA
Statistics
Matches: 119, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
37 1 0.01
38 31 0.26
39 34 0.29
40 43 0.36
41 10 0.08
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
Found at i:25125428 original size:102 final size:102
Alignment explanation
Indices: 25125247--25125452 Score: 331
Period size: 102 Copynumber: 2.0 Consensus size: 102
25125237 TGCAGCTATC
* *
25125247 ATCGAGAAACCTTTTACAAATCGTCGGTAATAACCGGCGAGCCCCAGGAAGCTCCAAACTTCGGT
1 ATCGAGAAACCTTTGACAAATCGTCGGTAATAACCGGCGAGCCCCAGAAAGCTCCAAACTTCGGT
* * *
25125312 AATATTTCTTGGAGGCTTCCAGTTAAGTATGGCTGAA
66 AACATTTCTCGGAGGCTTCCAGTTAAGTATGGCTAAA
* * **
25125349 ATCGAGAAACCTTTGACAAATCGTCGGTAATAATCGGCGAGCCCTAGAAAGCTCCGGACTTCGGT
1 ATCGAGAAACCTTTGACAAATCGTCGGTAATAACCGGCGAGCCCCAGAAAGCTCCAAACTTCGGT
25125414 AACATTTCTCGGAGGCTTCCAGTTAAGTATGGCTAAA
66 AACATTTCTCGGAGGCTTCCAGTTAAGTATGGCTAAA
25125451 AT
1 AT
25125453 TTTGCTCGGG
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (102 bp):
ATCGAGAAACCTTTGACAAATCGTCGGTAATAACCGGCGAGCCCCAGAAAGCTCCAAACTTCGGT
AACATTTCTCGGAGGCTTCCAGTTAAGTATGGCTAAA
Found at i:25136330 original size:28 final size:28
Alignment explanation
Indices: 25136290--25136373 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
25136280 CCTGTATCTA
* *
25136290 GCCCATTAAGCCCAATCATATTCATATG
1 GCCCATTAGGCCCAATCACATTCATATG
25136318 GCCCATTAGGCCCAAATCACA-TCTATATG
1 GCCCATTAGGCCC-AATCACATTC-ATATG
* * *
25136347 GACCGTTAGGCCCAGTCACATTCATAT
1 GCCCATTAGGCCCAATCACATTCATAT
25136374 TCATGCTCAC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
28 24 0.50
29 24 0.50
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTCATATG
Found at i:25136611 original size:16 final size:16
Alignment explanation
Indices: 25136592--25136622 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25136582 ACTTTCGGCT
25136592 TTTCAGCATTTCGACA
1 TTTCAGCATTTCGACA
*
25136608 TTTCGGCATTTCGAC
1 TTTCAGCATTTCGAC
25136623 TTTTGCCGAT
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:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (16 bp):
TTTCAGCATTTCGACA
Found at i:25145376 original size:39 final size:40
Alignment explanation
Indices: 25145325--25145424 Score: 166
Period size: 39 Copynumber: 2.5 Consensus size: 40
25145315 CTAATTCTGG
* *
25145325 GCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT-ACCGA
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGA
*
25145364 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGA
25145404 GCTAAGTCCCGAAGGCATTTG
1 GCTAAGTCCCGAAGGCATTTG
25145425 AGCTAGTGGC
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 32 0.56
40 25 0.44
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGA
Found at i:25145438 original size:40 final size:40
Alignment explanation
Indices: 25145277--25145447 Score: 179
Period size: 40 Copynumber: 4.3 Consensus size: 40
25145267 TGTTCGGATG
*
25145277 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGACT
* * * * * *
25145317 A-ATTCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACT
* * * *
25145357 AT-ACCGAGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACT
*
25145396 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACT
*
25145436 ATATCC-GGCTAA
1 ATAACCGGGCTAA
25145448 ACTCCGGAGG
Statistics
Matches: 109, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
39 41 0.38
40 66 0.61
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACT
Found at i:25153650 original size:40 final size:40
Alignment explanation
Indices: 25152810--25153631 Score: 1499
Period size: 40 Copynumber: 20.6 Consensus size: 40
25152800 GATGATAATA
* * *
25152810 GGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTAATTCC
1 GGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTAATTCC
25152850 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
* * *
25152890 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
* * * *
25152929 GAGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAT-TCC
25152969 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153009 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153049 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153089 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153129 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153169 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153209 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153249 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153289 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153329 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153369 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153409 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153449 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153489 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153529 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153569 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
25153609 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
25153632 AGCTAGTGGC
Statistics
Matches: 765, Mismatches: 12, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
39 37 0.05
40 723 0.95
41 5 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
Found at i:25158273 original size:42 final size:42
Alignment explanation
Indices: 25158206--25158297 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 42
25158196 GTTTTATGTA
* * * *
25158206 TAAGACCATGTCTGGACATTGGCATC-GTATTTGATTTCGTG
1 TAAGACCATGTCTGGACAGTGGCATCAATATTTGATTACATG
* *
25158247 TAAGACCCTGTCTAGGACAGTGGCATCAATGTTTGATTACATG
1 TAAGACCATGTCT-GGACAGTGGCATCAATATTTGATTACATG
25158290 TAAGACCA
1 TAAGACCA
25158298 CATCTGGTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 12 0.29
42 12 0.29
43 18 0.43
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (42 bp):
TAAGACCATGTCTGGACAGTGGCATCAATATTTGATTACATG
Found at i:25162934 original size:57 final size:57
Alignment explanation
Indices: 25162867--25162978 Score: 197
Period size: 57 Copynumber: 2.0 Consensus size: 57
25162857 CATTTTTGAA
* *
25162867 CCCTTAAAGCATGAGCTTTCAAATGAGGGTACTATTTTGCAAAATGGTTGAAAGTAC
1 CCCTTAAAGCATGAGCTTTCAAATGAGGGTACTATATTGCAAAATGATTGAAAGTAC
*
25162924 CCCTTGAAGCATGAGCTTTCAAATGAGGGTACTATATTGCAAAATGATTGAAAGT
1 CCCTTAAAGCATGAGCTTTCAAATGAGGGTACTATATTGCAAAATGATTGAAAGT
25162979 CTAAGGTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (57 bp):
CCCTTAAAGCATGAGCTTTCAAATGAGGGTACTATATTGCAAAATGATTGAAAGTAC
Found at i:25165103 original size:40 final size:40
Alignment explanation
Indices: 25165048--25165265 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
25165038 CGGATGATAA
*
25165048 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
* * *
25165088 CCGGGCTAAGCCCCGAAGGCATTTGTTCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
* * *
25165128 CTGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * * *
25165168 CCGAGCTAAGTCACGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
25165208 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
*
25165248 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
25165266 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 16 0.10
40 143 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:25166042 original size:56 final size:56
Alignment explanation
Indices: 25165956--25166131 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
25165946 ACAAGGGATG
25165956 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
25166012 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
25166068 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
25166124 ATGGGCAA
1 ATGGGCAA
25166132 TAAACTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:25167636 original size:47 final size:47
Alignment explanation
Indices: 25167579--25168173 Score: 797
Period size: 47 Copynumber: 12.6 Consensus size: 47
25167569 TATTTGAATA
* *
25167579 AATGTGAA-AGTGTATATATGTGATAAGGCCTACTGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25167626 AATGT-AAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25167675 AATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
25167724 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGAGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
25167771 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGAGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
25167818 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGAGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
25167865 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGAGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25167912 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25167959 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
25168006 AATGTGAACATG-AGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTA-TATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25168053 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
25168100 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
** * *
25168147 GGTGTGGAA-GTGTATAAATGTGATAAG
1 AATGT-GAACATGTATATATGTGATAAG
25168174 TCCCGAAGGG
Statistics
Matches: 517, Mismatches: 22, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
46 4 0.01
47 417 0.81
48 4 0.01
49 89 0.17
50 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:25168051 original size:22 final size:22
Alignment explanation
Indices: 25168024--25168145 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
25168014 CATGAGTATG
25168024 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
25168046 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
25168071 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
25168093 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
25168118 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
25168140 TGTGAT
1 TGTGAT
25168146 GGGTGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:25175934 original size:27 final size:27
Alignment explanation
Indices: 25175904--25176059 Score: 161
Period size: 27 Copynumber: 5.7 Consensus size: 27
25175894 ATATTAAGTC
* *
25175904 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
25175931 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
25175958 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
25175986 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
25176013 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
25176040 CGCACACTTAGTGCAACATA
1 CGCACACTTAGTGCTACATA
25176060 GTAAATCGTA
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
27 87 0.78
28 24 0.22
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25175996 original size:55 final size:54
Alignment explanation
Indices: 25175904--25176080 Score: 187
Period size: 55 Copynumber: 3.3 Consensus size: 54
25175894 ATATTAAGTC
* * * * *
25175904 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
25175958 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
25176013 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGT-AAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* *
25176066 CGTACACATAGTGCT
1 CGCACACTTAGTGCT
25176081 GTACAATTTA
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
53 15 0.15
54 42 0.41
55 45 0.44
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:25176043 original size:82 final size:80
Alignment explanation
Indices: 25175925--25176079 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 80
25175915 TGCTATATAA
* *
25175925 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-AAA-TCGCA
*
25175990 CACTTAGTGCCGCATGG
64 CACATAGTGCCGCATGG
* * ** *
25176007 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTAAATCGTAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTAAATCGCAC
25176071 ACATAGTGC
65 ACATAGTGC
25176080 TGTACAATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 13 0.20
81 4 0.06
82 47 0.73
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTAAATCGCACA
CATAGTGCCGCATGG
Found at i:25179663 original size:50 final size:49
Alignment explanation
Indices: 25179588--25179939 Score: 399
Period size: 50 Copynumber: 7.3 Consensus size: 49
25179578 CATCTATCAA
25179588 ATGGTCTTACACTAGCTCTTACATATCTATGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACTAGCTCTT-CATATCTATGCCGATGCCATGTCCCAGAC
25179638 ATGGTCTTACACTAGCTCTTACATATCTATGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACTAGCTCTT-CATATCTATGCCGATGCCATGTCCCAGAC
25179688 ATGGTCTTACACTAGCTCTTACATATCTATGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACTAGCTCTT-CATATCTATGCCGATGCCATGTCCCAGAC
* * * * * *
25179738 ATGGTCTTACACT-GACACCTC-TATAC-GTGTCAATGCCATATCCCAGAC
1 ATGGTCTTACACTAG-CTCTTCATAT-CTATGCCGATGCCATGTCCCAGAC
* * *
25179786 ATGGTCTTACACTAACACTTC---TCGTA-GCCGATG-CATGTCCCGGAC
1 ATGGTCTTACACTAGCTCTTCATATC-TATGCCGATGCCATGTCCCAGAC
* * * *
25179831 AT-GTCTTACACTAGCTC-TCGTCTCAATGTCGATGCCATGTCCCAGAC
1 ATGGTCTTACACTAGCTCTTCATATCTATGCCGATGCCATGTCCCAGAC
* * *
25179878 ATGGTCTTACACTAGCTC-TCATAATGT-GGCCGATG-CATGTCCCAAAC
1 ATGGTCTTACACTAGCTCTTCAT-ATCTATGCCGATGCCATGTCCCAGAC
25179925 AT-GTCTTACACTAGC
1 ATGGTCTTACACTAGC
25179940 ACACAATATC
Statistics
Matches: 265, Mismatches: 25, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
43 2 0.01
44 13 0.05
45 14 0.05
46 27 0.10
47 26 0.10
48 63 0.24
49 4 0.02
50 116 0.44
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (49 bp):
ATGGTCTTACACTAGCTCTTCATATCTATGCCGATGCCATGTCCCAGAC
Found at i:25183831 original size:41 final size:41
Alignment explanation
Indices: 25183774--25183856 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
25183764 GAAGTTTTCA
25183774 ATAGATCTAGTCCATCCTCCCTTGGGTACATGATAACCTAT
1 ATAGATCTAGTCCATCCTCCCTTGGGTACATGATAACCTAT
* *
25183815 ATAGATCTAGTCCATCCTTCGTTGGGTACATGATAACCTAT
1 ATAGATCTAGTCCATCCTCCCTTGGGTACATGATAACCTAT
25183856 A
1 A
25183857 AAAGTAACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (41 bp):
ATAGATCTAGTCCATCCTCCCTTGGGTACATGATAACCTAT
Found at i:25192710 original size:22 final size:22
Alignment explanation
Indices: 25192671--25192712 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
25192661 AGGACCAATT
* *
25192671 TGTAAAAAGGTTATTAAATGTG
1 TGTAAAAAGGTAACTAAATGTG
*
25192693 TGTAAAAATGTAACTAAATG
1 TGTAAAAAGGTAACTAAATG
25192713 AAAAATATGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.33
Consensus pattern (22 bp):
TGTAAAAAGGTAACTAAATGTG
Found at i:25193211 original size:42 final size:42
Alignment explanation
Indices: 25193158--25193307 Score: 158
Period size: 42 Copynumber: 3.5 Consensus size: 42
25193148 TAAGACTAAG
* * * * *
25193158 TGTATGACCATATCTTGGATATGACATCTATATGGGACTTTA
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTCA
*
25193200 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTCA
* * * * * * *
25193242 TGTGAGACCATAGCAGGGCTATTGGCATCGATACGAGA-TCCTA
1 TGTAAGACCATATCTGGGATA-TGACATCGATATGAGACTTC-A
25193285 TGTAAGACCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
25193308 GCATTGGTAT
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
42 57 0.63
43 33 0.37
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTCA
Found at i:25193293 original size:43 final size:41
Alignment explanation
Indices: 25193198--25193311 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 41
25193188 TATGGGACTT
* * * *
25193198 TATGTAAGACCATATCTGGGATATGGCATCGATATGAGACT
1 TATGTAAGACCATAGCAGGGATATGGCATCGATACGAGACC
* *
25193239 TCATGTGAGACCATAGCAGGGCTATTGGCATCGATACGAGATCC
1 T-ATGTAAGACCATAGCAGGGATA-TGGCATCGATACGAGA-CC
* *
25193283 TATGTAAGACCATATCTGGGATATGGCAT
1 TATGTAAGACCATAGCAGGGATATGGCAT
25193312 TGGTATGGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 24 0.40
43 33 0.55
44 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (41 bp):
TATGTAAGACCATAGCAGGGATATGGCATCGATACGAGACC
Found at i:25203170 original size:25 final size:25
Alignment explanation
Indices: 25203141--25203188 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
25203131 TTATAACATG
* *
25203141 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
25203166 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
25203189 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:25203291 original size:20 final size:20
Alignment explanation
Indices: 25203233--25203293 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
25203223 AAACATGGTA
**
25203233 TGTATGATATGCACATGACA
1 TGTATGATATGCACATGATG
25203253 TGTATGATATGCACATGATG
1 TGTATGATATGCACATGATG
25203273 TGTATGATATGCACATGATG
1 TGTATGATATGCACATGATG
25203293 T
1 T
25203294 AATCATAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (20 bp):
TGTATGATATGCACATGATG
Found at i:25203414 original size:23 final size:23
Alignment explanation
Indices: 25203342--25203415 Score: 139
Period size: 23 Copynumber: 3.2 Consensus size: 23
25203332 AGGAAGTGTA
25203342 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
25203365 AAAAGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
25203388 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
25203411 AAAGG
1 AAAGG
25203416 CCTCCATTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:25203655 original size:31 final size:30
Alignment explanation
Indices: 25203620--25203700 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 30
25203610 CGTTTACAGT
25203620 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTT-GGCCCAGTAATATGAAATATGA
**
25203651 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
1 AAAGGC-TTGGCCCAGTAATATGAAATATGA
25203682 AAAGGGCTATGGCCCAGTA
1 AAA-GGCT-TGGCCCAGTA
25203701 CATGTTGAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
31 30 0.68
32 14 0.32
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (30 bp):
AAAGGCTTGGCCCAGTAATATGAAATATGA
Found at i:25204451 original size:13 final size:13
Alignment explanation
Indices: 25204433--25204457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25204423 GTGGATCAGG
25204433 TTCAAAAAAAAAT
1 TTCAAAAAAAAAT
25204446 TTCAAAAAAAAA
1 TTCAAAAAAAAA
25204458 CTTATGCCTA
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:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (13 bp):
TTCAAAAAAAAAT
Found at i:25211304 original size:11 final size:11
Alignment explanation
Indices: 25211268--25211323 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
25211258 TATGGTATGT
25211268 ATGATATGCAC
1 ATGATATGCAC
* *
25211279 ATGACATG--T
1 ATGATATGCAC
25211288 ATGATATGCAC
1 ATGATATGCAC
*
25211299 ATGATATG--T
1 ATGATATGCAC
25211308 ATGATATGCAC
1 ATGATATGCAC
25211319 ATGAT
1 ATGAT
25211324 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:25211323 original size:20 final size:20
Alignment explanation
Indices: 25211263--25211323 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
25211253 ATAAATATGG
25211263 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
25211283 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
25211303 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
25211323 T
1 T
25211324 GTAATCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:25211464 original size:25 final size:24
Alignment explanation
Indices: 25211372--25211491 Score: 149
Period size: 23 Copynumber: 5.0 Consensus size: 24
25211362 GGAGGAAGTG
*
25211372 TAAAAGGGCTTATGCCCCAAG-T-G
1 TAAAAGGGCTTATGCCCC-AGTTAT
25211395 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
25211419 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
25211442 TAAAAGGGCTTTTTGCCCCAGTTAT
1 TAAAAGGGC-TTATGCCCCAGTTAT
*
25211467 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
25211492 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
22 2 0.02
23 42 0.48
24 12 0.14
25 28 0.32
26 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:25211719 original size:31 final size:31
Alignment explanation
Indices: 25211684--25211764 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
25211674 CGTTTACAGT
25211684 AAAGGCTTAGGCCCAGTAATATGAAATATGA
1 AAAGGCTTAGGCCCAGTAATATGAAATATGA
* * **
25211715 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTAGGCCCAGTAATATGAAATATGA
25211746 AAAGGGCTATA-GCCCAGTA
1 AAA-GGCT-TAGGCCCAGTA
25211765 CATGTTGAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
31 30 0.73
32 10 0.24
33 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTAGGCCCAGTAATATGAAATATGA
Found at i:25214182 original size:8 final size:8
Alignment explanation
Indices: 25214169--25214195 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
25214159 TATACATTGT
25214169 TTACTAAA
1 TTACTAAA
25214177 TTACTAAA
1 TTACTAAA
25214185 TTACTAAA
1 TTACTAAA
25214193 TTA
1 TTA
25214196 ACCTTGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (8 bp):
TTACTAAA
Found at i:25216709 original size:6 final size:6
Alignment explanation
Indices: 25216698--25216739 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
25216688 AGGTTTCTTA
* *
25216698 AAATGG AAATGG AAATGG AAATGA AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
25216740 ATATATTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:25227794 original size:26 final size:26
Alignment explanation
Indices: 25227760--25227832 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
25227750 CTCTTTTAAT
* *
25227760 AACTAGGGCAAAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
25227786 AACTGGGGCTTAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
25227812 AACTGGGGCATAAGTCCTTTT
1 AACTGGGGCATAAGCCCTTTT
25227833 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:25227907 original size:20 final size:20
Alignment explanation
Indices: 25227882--25227928 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
25227872 TTATGAATAC
25227882 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
25227901 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
25227922 ATCATGT
1 ATCATGT
25227929 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:25233534 original size:5 final size:5
Alignment explanation
Indices: 25233524--25233562 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
25233514 GTATTTAAGG
25233524 ATATA ATATA ATA-A TATATTA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA -ATA-TA ATATA ATATA ATATA ATA
25233563 AAAGAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 1 0.03
5 26 0.84
6 3 0.10
7 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:25233573 original size:9 final size:9
Alignment explanation
Indices: 25233559--25233590 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
25233549 AATATAATAT
25233559 AATAAAAGA
1 AATAAAAGA
25233568 AAT-AAAGA
1 AATAAAAGA
25233576 AATAAAAGA
1 AATAAAAGA
25233585 AATAAA
1 AATAAA
25233591 CAAAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (9 bp):
AATAAAAGA
Found at i:25233599 original size:17 final size:17
Alignment explanation
Indices: 25233562--25233599 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
25233552 ATAATATAAT
* *
25233562 AAAAGAAATAAAGAAAT
1 AAAAGAAATAAACAAAG
25233579 AAAAGAAATAAACAAAG
1 AAAAGAAATAAACAAAG
25233596 AAAA
1 AAAA
25233600 AGAACATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.11, T:0.08
Consensus pattern (17 bp):
AAAAGAAATAAACAAAG
Found at i:25240659 original size:42 final size:42
Alignment explanation
Indices: 25240613--25240697 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
25240603 TGATTTATTC
* *
25240613 ACTTGGTATCTTGATATGTTAAAATCCCTAAATTATTGTAAT
1 ACTTGGTATCTTGACACGTTAAAATCCCTAAATTATTGTAAT
25240655 ACTTGGTATCTTGACACGTTAAAATCCCTAAATTATTGTAAT
1 ACTTGGTATCTTGACACGTTAAAATCCCTAAATTATTGTAAT
25240697 A
1 A
25240698 TCTCTTACGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (42 bp):
ACTTGGTATCTTGACACGTTAAAATCCCTAAATTATTGTAAT
Found at i:25240747 original size:28 final size:28
Alignment explanation
Indices: 25240715--25240799 Score: 143
Period size: 28 Copynumber: 3.0 Consensus size: 28
25240705 CGAGAGTAAG
25240715 AGCAACTAACTCTAGGTTGATTAATTGA
1 AGCAACTAACTCTAGGTTGATTAATTGA
* *
25240743 AGCAATTAACTCTAGGATGATTAATTGA
1 AGCAACTAACTCTAGGTTGATTAATTGA
*
25240771 AGCAACTGACTCTAGGTTGATTAATTGA
1 AGCAACTAACTCTAGGTTGATTAATTGA
25240799 A
1 A
25240800 ATTTCTTTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (28 bp):
AGCAACTAACTCTAGGTTGATTAATTGA
Found at i:25249174 original size:18 final size:18
Alignment explanation
Indices: 25249147--25249194 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
25249137 ATGCGCATTT
25249147 TGATTATTTTTTAAAATA
1 TGATTATTTTTTAAAATA
* *
25249165 TGATTCTTTTTTGAAAT-
1 TGATTATTTTTTAAAATA
**
25249182 TTTTTATTTTTTA
1 TGATTATTTTTTA
25249195 TTTTTTGTTG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (18 bp):
TGATTATTTTTTAAAATA
Found at i:25255161 original size:15 final size:15
Alignment explanation
Indices: 25255137--25255166 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25255127 TTAGCATTTG
25255137 TATGTGATAAGGCCA
1 TATGTGATAAGGCCA
*
25255152 TATGTTATAAGGCCA
1 TATGTGATAAGGCCA
25255167 ACATTCCAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (15 bp):
TATGTGATAAGGCCA
Found at i:25255448 original size:56 final size:56
Alignment explanation
Indices: 25255291--25255450 Score: 182
Period size: 56 Copynumber: 2.9 Consensus size: 56
25255281 TTTGATGACA
* ** * *
25255291 TGATACATGCTAGGTCTAAGATCTTATGTAGCCCTGTTGAGAGGCAT-GTAATTATG
1 TGATACACGCTAGGTCCGAGAGCTTATGTAGCCCTGTTGAGAGGCGTGGTAA-TATG
*
25255347 TGGTACACGCTAGGTCCGAGAGCTTATGTAGCCCTGTTGAGAGGCGTGGT-A-ATG
1 TGATACACGCTAGGTCCGAGAGCTTATGTAGCCCTGTTGAGAGGCGTGGTAATATG
* * * *
25255401 TGATGCATGCTAGGTCCGGGTGCTCATATGTAGCCCTGTTGAGAGGCGTG
1 TGATACACGCTAGGTCCGAGAGCT--TATGTAGCCCTGTTGAGAGGCGTG
25255451 CTATGTCATG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
54 22 0.24
56 66 0.73
57 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.29
Consensus pattern (56 bp):
TGATACACGCTAGGTCCGAGAGCTTATGTAGCCCTGTTGAGAGGCGTGGTAATATG
Found at i:25265434 original size:11 final size:11
Alignment explanation
Indices: 25265418--25265460 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
25265408 TGGAGAGTGA
25265418 CTTGATTTTTT
1 CTTGATTTTTT
25265429 CTTGATTTTCTTT
1 CTTGA-TTT-TTT
* *
25265442 CTTGATTCTTG
1 CTTGATTTTTT
25265453 CTTGATTT
1 CTTGATTT
25265461 GTGGCATGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 14 0.52
12 5 0.19
13 8 0.30
ACGTcount: A:0.09, C:0.14, G:0.12, T:0.65
Consensus pattern (11 bp):
CTTGATTTTTT
Found at i:25269863 original size:23 final size:23
Alignment explanation
Indices: 25269837--25269881 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
25269827 ATTTACAAAG
*
25269837 ATAGATCCTTCATTACTAATTAA
1 ATAGATCCTTCATCACTAATTAA
25269860 ATAGATCCTTCATCACTAATTA
1 ATAGATCCTTCATCACTAATTA
25269882 TAGCTCTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAGATCCTTCATCACTAATTAA
Found at i:25271378 original size:44 final size:48
Alignment explanation
Indices: 25271295--25271412 Score: 122
Period size: 50 Copynumber: 2.5 Consensus size: 48
25271285 ATAAGCCAGT
**
25271295 GTAAGA-CATGTCTGGGACAT-GCATCGACTATGAGATATGT-C-AGA
1 GTAAGACCATGTCTGGGACATGGCATCGACTACAAGATATGTGCTAGA
* *
25271339 GTAAGACCATGTCTGGGACATGGCATCGGC-ACAAG-TATGTGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACTACAAGATATGT----GCTAGA
25271389 GTAAGACCATGTCTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
25271413 GTCCGCCTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
44 11 0.18
45 17 0.27
46 7 0.11
49 1 0.02
50 26 0.42
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.23
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGACTACAAGATATGTGCTAGA
Found at i:25276881 original size:29 final size:29
Alignment explanation
Indices: 25276839--25276900 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
25276829 GATTATCATA
25276839 ACATCATAACCTCCCCACACTTAAGATGT
1 ACATCATAACCTCCCCACACTTAAGATGT
25276868 ACATCATAACCTCCCCACACTTAAGATGT
1 ACATCATAACCTCCCCACACTTAAGATGT
25276897 ACAT
1 ACAT
25276901 TGTCCTCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.35, C:0.34, G:0.06, T:0.24
Consensus pattern (29 bp):
ACATCATAACCTCCCCACACTTAAGATGT
Found at i:25278938 original size:3 final size:3
Alignment explanation
Indices: 25278930--25278968 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
25278920 GAAATAAGAT
* * *
25278930 TAA TAA TAA TGA TAA TAA GAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25278969 AAGAATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:25285888 original size:117 final size:117
Alignment explanation
Indices: 25285725--25285957 Score: 396
Period size: 117 Copynumber: 2.0 Consensus size: 117
25285715 GCAACGAGGC
25285725 TGCCAGAACACTTACTCCATCAATATAAACCCATGTCCCATGCAACAGAAATAATATGTCATGGC
1 TGCCAGAACACTTACTCCATCAATATAAACCCATGTCCCATGCAACAGAAATAATATGTCATGGC
* *
25285790 ATACGTATACAGAAACAGAACATCATGCTTTTTAGAAAAAAAAT-AACCCTT
66 ATACGTATACAGAAACAAAACATCATGCTTTTCAGAAAAAAAATCAACCCTT
* *
25285841 TNGCCAGAACGCTTCCTCCATCAATATAAACCCATGTCCCATGCAACAGAAATAATATGTCATGG
1 T-GCCAGAACACTTACTCCATCAATATAAACCCATGTCCCATGCAACAGAAATAATATGTCATGG
* *
25285906 CATACGTATACAGAAATAAAACATCATGCTTTTCAGGAAAAAAATCAACCCT
65 CATACGTATACAGAAACAAAACATCATGCTTTTCAGAAAAAAAATCAACCCT
25285958 AGGGGTAAAA
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
116 1 0.01
117 102 0.94
118 6 0.06
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (117 bp):
TGCCAGAACACTTACTCCATCAATATAAACCCATGTCCCATGCAACAGAAATAATATGTCATGGC
ATACGTATACAGAAACAAAACATCATGCTTTTCAGAAAAAAAATCAACCCTT
Found at i:25286517 original size:27 final size:27
Alignment explanation
Indices: 25286487--25286540 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
25286477 ATCGGTAGTC
*
25286487 CTACCCTACAGGGGTATTTTAGTAATT
1 CTACCCTACAAGGGTATTTTAGTAATT
*
25286514 CTACCCTACAAGGGTATTTTGGTAATT
1 CTACCCTACAAGGGTATTTTAGTAATT
25286541 TTGTAAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
CTACCCTACAAGGGTATTTTAGTAATT
Found at i:25286723 original size:27 final size:27
Alignment explanation
Indices: 25286684--25286850 Score: 205
Period size: 27 Copynumber: 6.2 Consensus size: 27
25286674 TAATCCGCGC
* * * *
25286684 TAATTTTATAAACCAAGGGTATTCTAG
1 TAATTTTACAAACTAAGGGTATTTTGG
*
25286711 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACTAAGGGTATTTTGG
25286738 TAATTTTACAAACTAAGGGTATTTTGG
1 TAATTTTACAAACTAAGGGTATTTTGG
* *
25286765 TAATTTCACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACTAAGGGTATTTTGG
25286792 TAATTTTACAAAC-AAGGGGTATTTTGG
1 TAATTTTACAAACTAA-GGGTATTTTGG
* * *
25286819 TAATTTTTCTAA-TCGAGGGTA-TTTGG
1 TAATTTTACAAACT-AAGGGTATTTTGG
25286845 TAATTT
1 TAATTT
25286851 GGTAAACTAA
Statistics
Matches: 124, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
26 12 0.10
27 111 0.90
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAACTAAGGGTATTTTGG
Found at i:25302474 original size:46 final size:45
Alignment explanation
Indices: 25302406--25302673 Score: 204
Period size: 49 Copynumber: 5.7 Consensus size: 45
25302396 TATGAGCCAA
* *
25302406 TGTAAGACCATGTCTGGGACATGCATTGACCTCGAGACGTAAGCTAG
1 TGTAAGACCATGTCTGGGACATGCATCG-GCTCGAGA-GTAAGCTAG
* * *
25302453 TGTAAGA-CATGTCTGAGACATGCATCGGCTACGAGA-TATGTTAG
1 TGTAAGACCATGTCTGGGACATGCATCGGCT-CGAGAGTAAGCTAG
*
25302497 TGTAAGACCATGTCTGGGACATGGCATCGGCACGAGTATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGGCTCGAG-A-GT-A-AGCTAG
* * * *
25302547 TGTAAGACCATGTCTGGGACATGGCGTCGAC-CTATATGATGATAG-TCAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGGCTCGAGA-G-T-A-AGCT-AG
* * * *
25302596 TGTAAGACCATGTCTGGGATATGGCATCGACTTGAGA-TATGAGCCAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGGCTCGAGAGTA--AGCTAG
*
25302643 TGTAAGACCATGTCTGAGACATGACATCGGC
1 TGTAAGACCATGTCTGGGACATG-CATCGGC
25302674 ATTCTACCCC
Statistics
Matches: 183, Mismatches: 24, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
44 13 0.07
45 19 0.10
46 34 0.19
47 38 0.21
48 5 0.03
49 39 0.21
50 35 0.19
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATGCATCGGCTCGAGAGTAAGCTAG
Found at i:25302613 original size:99 final size:94
Alignment explanation
Indices: 25302406--25302671 Score: 301
Period size: 96 Copynumber: 2.8 Consensus size: 94
25302396 TATGAGCCAA
* *
25302406 TGTAAGACCATGTCTGGGACAT-GCATTGACCTCGAGACGTA-AGCTAGTGTAAGA-CATGTCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CTCGAGATGTAGAGCTAGTGTAAGACCATGTCTG
* *
25302468 AGACAT-GCATCGGCTACGAGATATGTTAG
65 AGACATGGCATCGCCTACGAGATATGTCAG
* *
25302497 TGTAAGACCATGTCTGGGACATGGCATCGGCACGAGTATGTGAGAGCTAGTGTAAGACCATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCGACTCGAG-ATGT-AGAGCTAGTGTAAGACCATGTCT
* * *
25302562 GGGACATGGCGTCGACCTA-TATGATGATAGTCAG
64 GAGACATGGCATCG-CCTACGA-GAT-AT-GTCAG
* * * *
25302596 TGTAAGACCATGTCTGGGATATGGCATCGACTTGAGATAT-GAGCCAGTGTAAGACCATGTCTGA
1 TGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGTAGAGCTAGTGTAAGACCATGTCTGA
*
25302660 GACATGACATCG
66 GACATGGCATCG
25302672 GCATTCTACC
Statistics
Matches: 147, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
91 27 0.18
92 8 0.05
93 1 0.01
94 13 0.09
95 13 0.09
96 38 0.26
97 6 0.04
98 5 0.03
99 36 0.24
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (94 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGTAGAGCTAGTGTAAGACCATGTCTGA
GACATGGCATCGCCTACGAGATATGTCAG
Found at i:25302620 original size:49 final size:48
Alignment explanation
Indices: 25302406--25302671 Score: 200
Period size: 47 Copynumber: 5.6 Consensus size: 48
25302396 TATGAGCCAA
* ** *
25302406 TGTAAGACCATGTCTGGGACAT-GCATTGACCTCGA-GACG-TAAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTATATGATGAT-AGC-AG
* * * *
25302453 TGTAAGA-CATGTCTGAGACAT-GCATCG-GC--TACGA-GATATGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTATATGATGATA-G-CAG
* * *
25302497 TGTAAGACCATGTCTGGGACATGGCATCGGCACGAGTATG-TGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-CTA-TATGATGATAGC-AG
*
25302547 TGTAAGACCATGTCTGGGACATGGCGTCGACCTATATGATGATAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTATATGATGATAG-CAG
*
25302596 TGTAAGACCATGTCTGGGATATGGCATCGA-CT-TGA-GAT-ATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTAT-ATGATGAT-AG-CAG
* *
25302643 TGTAAGACCATGTCTGAGACATGACATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
25302672 GCATTCTACC
Statistics
Matches: 182, Mismatches: 20, Indels: 34
0.77 0.08 0.14
Matches are distributed among these distances:
43 3 0.02
44 13 0.07
45 14 0.08
46 26 0.14
47 42 0.23
48 8 0.04
49 37 0.20
50 33 0.18
51 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACCTATATGATGATAGCAG
Found at i:25310030 original size:37 final size:37
Alignment explanation
Indices: 25309980--25310052 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
25309970 TGTAACTGAG
25309980 TAAGAACCAACATCATTAAAGCAATAATAATAACAAA
1 TAAGAACCAACATCATTAAAGCAATAATAATAACAAA
25310017 TAAGAACCAACATCATTAAAGCAATAATAATAACAA
1 TAAGAACCAACATCATTAAAGCAATAATAATAACAA
25310053 TATGTCAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.59, C:0.16, G:0.05, T:0.19
Consensus pattern (37 bp):
TAAGAACCAACATCATTAAAGCAATAATAATAACAAA
Found at i:25310110 original size:3 final size:3
Alignment explanation
Indices: 25310102--25310155 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
25310092 GAAATAAGAT
* * *
25310102 TAA TAA TAA TGA TAA TAA GAA TAA TAA TAG TAA TAA TAA -AA TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
25310150 -AA TAA T
1 TAA TAA T
25310156 GTAAAGGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:25322328 original size:9 final size:9
Alignment explanation
Indices: 25322314--25322339 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25322304 TGTTGTTACC
25322314 ATTTGATGA
1 ATTTGATGA
25322323 ATTTGATGA
1 ATTTGATGA
25322332 ATTTGATG
1 ATTTGATG
25322340 TAATACTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (9 bp):
ATTTGATGA
Found at i:25329102 original size:48 final size:48
Alignment explanation
Indices: 25329031--25329360 Score: 382
Period size: 48 Copynumber: 6.9 Consensus size: 48
25329021 TGAATTGCCA
* * *
25329031 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCAAGGTCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCATGGCCG
* * *
25329079 ATGCCATGTCCCAGACATGGTCTTACACT-GTCTCTCAT-TACATTGTCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAG-CTCTCATAT-CATGGCCG
* * *
25329127 ATTCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCATGGCCG
* * * *
25329175 ATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT-ACCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGCCG
* *
25329223 ATGCAATGTTCCAGACATGGTCTTACACT-GACTCTCAT-TACATTGCCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAG-CTCTCATAT-CATGGCCG
* * *
25329271 ATGTCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCGTGGCCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCATGGCCG
* * * *
25329319 ATGCCATGTCCCAGACATGGTCTTACGCTAGCACACATATCA
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCA
25329361 CCCAAATGTC
Statistics
Matches: 239, Mismatches: 33, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
47 6 0.03
48 227 0.95
49 6 0.03
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCATGGCCG
Found at i:25329291 original size:144 final size:144
Alignment explanation
Indices: 25329031--25329360 Score: 509
Period size: 144 Copynumber: 2.3 Consensus size: 144
25329021 TGAATTGCCA
* * * * ** *
25329031 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCAAGGTCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGACCGATGCAATGTCCCAGACA
* * *
25329096 TGGTCTTACACTGTCTCTCATTACATTGTCGATTCCATGTTCCAAACATGGTCTTACACTGGCTC
66 TGGTCTTACACTGACTCTCATTACATTGCCGATTCCATGTTCCAAACATGGTCTTACACTAGCTC
25329161 TCATATCATGGCCG
131 TCATATCATGGCCG
* * *
25329175 ATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATACCGATGCAATGTTCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGACCGATGCAATGTCCCAGACA
25329240 TGGTCTTACACTGACTCTCATTACATTGCCGATGT-CATGTTCCAAACATGGTCTTACACTAGCT
66 TGGTCTTACACTGACTCTCATTACATTGCCGAT-TCCATGTTCCAAACATGGTCTTACACTAGCT
*
25329304 CTCATATCGTGGCCG
130 CTCATATCATGGCCG
*
25329319 ATGCCATGTCCCAGACATGGTCTTACGCTAGCACACATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
25329361 CCCAAATGTC
Statistics
Matches: 170, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
144 169 0.99
145 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (144 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGACCGATGCAATGTCCCAGACA
TGGTCTTACACTGACTCTCATTACATTGCCGATTCCATGTTCCAAACATGGTCTTACACTAGCTC
TCATATCATGGCCG
Found at i:25330980 original size:26 final size:26
Alignment explanation
Indices: 25330944--25330996 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
25330934 CTTGAACTTA
25330944 ATTTTTCTTTCCTACCAAATATAAGG
1 ATTTTTCTTTCCTACCAAATATAAGG
*
25330970 ATTTTTCTTTCCTACCAAATCTAAGG
1 ATTTTTCTTTCCTACCAAATATAAGG
25330996 A
1 A
25330997 CTTTCTTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.42
Consensus pattern (26 bp):
ATTTTTCTTTCCTACCAAATATAAGG
Found at i:25332684 original size:9 final size:9
Alignment explanation
Indices: 25332670--25332705 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
25332660 TAACTGTACT
25332670 TTTAACTCC
1 TTTAACTCC
25332679 TTTAACTCC
1 TTTAACTCC
*
25332688 TTTAACTCT
1 TTTAACTCC
25332697 TTTAACTCC
1 TTTAACTCC
25332706 GTCGAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (9 bp):
TTTAACTCC
Found at i:25337126 original size:82 final size:82
Alignment explanation
Indices: 25337022--25337186 Score: 294
Period size: 82 Copynumber: 2.0 Consensus size: 82
25337012 ACTCAAATAT
* * * *
25337022 TGAGCACATTTCTTATAATTTTCATGAACATATACCTGCACTTATTCATTATATAATCATGTTCA
1 TGAGCACATTGCTCATAATTTTCATAAACATATACCTGCACTTATTCATCATATAATCATGTTCA
25337087 CATGTATTTTTACTTAA
66 CATGTATTTTTACTTAA
25337104 TGAGCACATTGCTCATAATTTTCATAAACATATACCTGCACTTATTCATCATATAATCATGTTCA
1 TGAGCACATTGCTCATAATTTTCATAAACATATACCTGCACTTATTCATCATATAATCATGTTCA
25337169 CATGTATTTTTACTTAA
66 CATGTATTTTTACTTAA
25337186 T
1 T
25337187 CGATTTTCCC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.42
Consensus pattern (82 bp):
TGAGCACATTGCTCATAATTTTCATAAACATATACCTGCACTTATTCATCATATAATCATGTTCA
CATGTATTTTTACTTAA
Found at i:25337525 original size:10 final size:10
Alignment explanation
Indices: 25337510--25337540 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
25337500 ATTTCATATG
25337510 ATAACAAAAT
1 ATAACAAAAT
25337520 ATAACAAAAT
1 ATAACAAAAT
*
25337530 ATAATAAAAT
1 ATAACAAAAT
25337540 A
1 A
25337541 AAAAGAATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (10 bp):
ATAACAAAAT
Found at i:25338953 original size:48 final size:48
Alignment explanation
Indices: 25338877--25339255 Score: 376
Period size: 48 Copynumber: 7.9 Consensus size: 48
25338867 GGTGAATTGT
* * *
25338877 CGATGCCATGTTCCAAACATAGTCTTACACTAGCTCTCATATCCTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATGGC
* * * * *
25338925 CAATGCCATGTCCCAGACATGGTTTTACACTAG-TGCACATATCAAT-AC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCT-CTCATATC-ATGGC
* * * * * *
25338973 CAATGCCATGTCTCAGACATTGTCTTACACTGGCTCTCAT-TACATGTC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT-CATGGC
* * * *
25339021 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATGGC
* * *
25339069 CGATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAAT-GT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCT-CTCATATC-ATGGC
* * * *
25339117 CGAT-CAATGTCCCAAACATAGTCTTACACTGGCTCTCAT-TACATTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT-CATGGC
* * *
25339164 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATGGC
* * *
25339212 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
25339256 CCCAAATGTC
Statistics
Matches: 272, Mismatches: 46, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
46 3 0.01
47 39 0.14
48 225 0.83
49 5 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATGGC
Found at i:25339166 original size:95 final size:96
Alignment explanation
Indices: 25338975--25339242 Score: 287
Period size: 95 Copynumber: 2.8 Consensus size: 96
25338965 ATCAATACCA
* * * * * *
25338975 ATGCCATGTCTCAGACATTGTCTTACACTGGCTCTCATTACATGTCTGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCACATGTCTGATGCAATGTCCCAAACA
* *
25339040 TGGTCTTACACTGGCTCTCATATCGTGGCCG
66 TAGTCTTACACTGGCTCTCATATCATGGCCG
25339071 ATGCCATGTCCCAGACATGGTCTTACACTAGTGCACAT-ATCA-ATGTC-GAT-CAATGTCCCAA
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-GCAC-TCATCACATGTCTGATGCAATGTCCCAA
*
25339132 ACATAGTCTTACACTGGCTCTCAT-TACATTGCCG
63 ACATAGTCTTACACTGGCTCTCATAT-CATGGCCG
* * * * * * * *
25339166 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATCGTGGCCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCA-CATGTCTGATGCAATGTCCCAAAC
*
25339230 ATGGTCTTACACT
65 ATAGTCTTACACT
25339243 AGCACACATA
Statistics
Matches: 146, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
92 2 0.01
93 5 0.03
94 5 0.03
95 68 0.47
96 53 0.36
97 6 0.04
98 6 0.04
99 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCACATGTCTGATGCAATGTCCCAAACA
TAGTCTTACACTGGCTCTCATATCATGGCCG
Found at i:25339195 original size:143 final size:144
Alignment explanation
Indices: 25338872--25339255 Score: 601
Period size: 143 Copynumber: 2.7 Consensus size: 144
25338862 AAGAGGGTGA
* * * * *
25338872 ATTGTCGATGCCATGTTCCAAACATAGTCTTACACTAGCTCTCATATCCTGGCCAATGCCATGTC
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTC
* * * * *
25338937 CCAGACATGGTTTTACACTAGTGCACATATCAATACCAATGCCATGTCTCAGACATTGTCTTACA
66 CCAGACATGGTCTTACACTAGTGCACATATCAATACCAATGCAATGTCCCAAACATAGTCTTACA
25339002 CTGGCTCTCATTAC
131 CTGGCTCTCATTAC
*
25339016 A-TGTCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGT
1 ATTG-CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGT
** *
25339080 CCCAGACATGGTCTTACACTAGTGCACATATCAATGTCGAT-CAATGTCCCAAACATAGTCTTAC
65 CCCAGACATGGTCTTACACTAGTGCACATATCAATACCAATGCAATGTCCCAAACATAGTCTTAC
25339144 ACTGGCTCTCATTAC
130 ACTGGCTCTCATTAC
25339159 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTC
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTC
**
25339224 CCAGACATGGTCTTACACTAGCACACATATCA
66 CCAGACATGGTCTTACACTAGTGCACATATCA
25339256 CCCAAATGTC
Statistics
Matches: 221, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
143 127 0.57
144 94 0.43
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (144 bp):
ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTC
CCAGACATGGTCTTACACTAGTGCACATATCAATACCAATGCAATGTCCCAAACATAGTCTTACA
CTGGCTCTCATTAC
Found at i:25339340 original size:28 final size:28
Alignment explanation
Indices: 25339309--25339365 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
25339299 ATCAGGACTC
25339309 TGCTACATTAAATTTCATCATGCATTCT
1 TGCTACATTAAATTTCATCATGCATTCT
25339337 TGCTACATTAAATTTCATCATGCATTCT
1 TGCTACATTAAATTTCATCATGCATTCT
25339365 T
1 T
25339366 CGTAAGCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (28 bp):
TGCTACATTAAATTTCATCATGCATTCT
Found at i:25343478 original size:15 final size:17
Alignment explanation
Indices: 25343448--25343479 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
25343438 TTGATACTTG
25343448 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
25343465 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
25343480 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:25345416 original size:15 final size:17
Alignment explanation
Indices: 25345386--25345417 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
25345376 TTGATACTTG
25345386 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
25345403 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
25345418 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:25347184 original size:39 final size:39
Alignment explanation
Indices: 25347140--25347218 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
25347130 GTATAACTAT
25347140 CACCAAGACATTCATGTTAAATTTGCATTTACTATCTTA
1 CACCAAGACATTCATGTTAAATTTGCATTTACTATCTTA
*
25347179 CACCAAGACATTCATGTTACATTTGCATTTACTATCTTA
1 CACCAAGACATTCATGTTAAATTTGCATTTACTATCTTA
25347218 C
1 C
25347219 CACGATTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (39 bp):
CACCAAGACATTCATGTTAAATTTGCATTTACTATCTTA
Found at i:25358492 original size:22 final size:22
Alignment explanation
Indices: 25358467--25358549 Score: 122
Period size: 22 Copynumber: 4.0 Consensus size: 22
25358457 TTTCAAATAG
25358467 AGATAGCCATTTCCCCTTTTGT
1 AGATAGCCATTTCCCCTTTTGT
25358489 AGATAGCCATTTCCCC-TTT-T
1 AGATAGCCATTTCCCCTTTTGT
*
25358509 -G-T-CCCATTTCCCCTTTTGT
1 AGATAGCCATTTCCCCTTTTGT
25358528 AGATAGCCATTTCCCCTTTTGT
1 AGATAGCCATTTCCCCTTTTGT
25358550 CTTCAGATTC
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
17 10 0.19
18 4 0.07
19 2 0.04
20 2 0.04
21 4 0.07
22 32 0.59
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (22 bp):
AGATAGCCATTTCCCCTTTTGT
Found at i:25358516 original size:39 final size:39
Alignment explanation
Indices: 25358473--25358550 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
25358463 ATAGAGATAG
25358473 CCATTTCCCCTTTTGTAGATAGCCATTTCCCCTTTTGTC
1 CCATTTCCCCTTTTGTAGATAGCCATTTCCCCTTTTGTC
25358512 CCATTTCCCCTTTTGTAGATAGCCATTTCCCCTTTTGTC
1 CCATTTCCCCTTTTGTAGATAGCCATTTCCCCTTTTGTC
25358551 TTCAGATTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.13, C:0.33, G:0.10, T:0.44
Consensus pattern (39 bp):
CCATTTCCCCTTTTGTAGATAGCCATTTCCCCTTTTGTC
Found at i:25358517 original size:17 final size:17
Alignment explanation
Indices: 25358495--25358527 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25358485 TTGTAGATAG
25358495 CCATTTCCCCTTTTGTC
1 CCATTTCCCCTTTTGTC
25358512 CCATTTCCCCTTTTGT
1 CCATTTCCCCTTTTGT
25358528 AGATAGCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.06, T:0.48
Consensus pattern (17 bp):
CCATTTCCCCTTTTGTC
Found at i:25364164 original size:132 final size:133
Alignment explanation
Indices: 25363836--25364301 Score: 331
Period size: 132 Copynumber: 3.5 Consensus size: 133
25363826 AATGAAAAAG
* * * * * * *
25363836 TGCAACCCAGCACGA-TAGGGCACAATTCTCA--AATTGCCAAACATCTAAAATCGCCTTCGTTT
1 TGCAACCCAACAC-ATTAGGGCACGATTC-CACGAATTACCAAATATCGAATATTGCCTTCGTTT
* * ** * * * **
25363898 TGAAAGG-TTTTTAATAA-ACATGAGTAAAAAACCTAAAGGAATATTCAATTGTTTTGAA-CAAA
64 T-AAAGGATTTTTAAAAAGACATGAGT-GAAATTCTAAAGGGACATTCGATTACTTT-AAGCAAA
*
25363960 TAAGAAAT
126 CAAGAAAT
** * ** *** *
25363968 CACAACCCAACACGA-TAGGGCATGATTCC-CGAATTGTCAAACCCCGAGTATTGCCTTCGTTTT
1 TGCAACCCAACAC-ATTAGGGCACGATTCCACGAATTACCAAATATCGAATATTGCCTTCGTTTT
* * * * ** *
25364031 AAAGGATTTTTAAAAAGATATGAGTGAAATTTTAAAGGGATATTTGATTGTTTTAAGCAGACAAG
65 AAAGGATTTTTAAAAAGACATGAGTGAAATTCTAAAGGGACATTCGATTACTTTAAGCAAACAAG
25364096 AAAT
130 AAAT
* ** * ** * *
25364100 TGCAACCCAGCATGTTAGGGTACGATTCCGTGAATTCCCAAATATCGCATA-TGACCTTCG-TTT
1 TGCAACCCAACACATTAGGGCACGATTCCACGAATTACCAAATATCGAATATTG-CCTTCGTTTT
* * * * * * * * *
25364163 AAGGGATTTTTTAATAGCCGTGGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAGCAAACGAG
65 AAAGGATTTTTAAAAAGACATGAGTGAAATTCTAAAGGGACATTCGATTACTTTAAGCAAACAAG
*
25364228 GAAT
130 AAAT
*
25364232 TGCAACCCAACACATTAGGGCACGATTCCACGAATTACCAAGTATCGAATATTGCCTTCGTTTTA
1 TGCAACCCAACACATTAGGGCACGATTCCACGAATTACCAAATATCGAATATTGCCTTCGTTTTA
25364297 AAGGA
66 AAGGA
25364302 AATTGTGAAA
Statistics
Matches: 259, Mismatches: 65, Indels: 19
0.76 0.19 0.06
Matches are distributed among these distances:
131 8 0.03
132 215 0.83
133 36 0.14
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (133 bp):
TGCAACCCAACACATTAGGGCACGATTCCACGAATTACCAAATATCGAATATTGCCTTCGTTTTA
AAGGATTTTTAAAAAGACATGAGTGAAATTCTAAAGGGACATTCGATTACTTTAAGCAAACAAGA
AAT
Found at i:25364998 original size:27 final size:26
Alignment explanation
Indices: 25364958--25365014 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
25364948 TATGTATAAA
*
25364958 AAAT-GATTTAAAAGGAAATGTACAATG
1 AAATAGATTTAAAAGGAAA-ATAC-ATG
25364985 AAATAGATTT-AAAGGAAAATACATG
1 AAATAGATTTAAAAGGAAAATACATG
25365010 AAATA
1 AAATA
25365015 ATAGAAGATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 8 0.29
26 3 0.11
27 12 0.43
28 5 0.18
ACGTcount: A:0.56, C:0.04, G:0.16, T:0.25
Consensus pattern (26 bp):
AAATAGATTTAAAAGGAAAATACATG
Found at i:25365130 original size:21 final size:21
Alignment explanation
Indices: 25365116--25365157 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
25365106 TAAATTTATA
25365116 ACAAAACAATATAAACAATAT
1 ACAAAACAATATAAACAATAT
25365137 ACAAAACAATATGGAAACAAT
1 ACAAAACAATAT--AAACAAT
25365158 TTGAAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.64, C:0.14, G:0.05, T:0.17
Consensus pattern (21 bp):
ACAAAACAATATAAACAATAT
Found at i:25365653 original size:11 final size:11
Alignment explanation
Indices: 25365637--25365663 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25365627 TACATGTATT
25365637 AATATAAATTA
1 AATATAAATTA
25365648 AATATAAATTA
1 AATATAAATTA
25365659 AATAT
1 AATAT
25365664 TATACAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATATAAATTA
Found at i:25368437 original size:28 final size:29
Alignment explanation
Indices: 25368397--25368453 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
25368387 CATGGGCCAG
*
25368397 GGACACAGACATGT-CTAGGCCGTGTGAA
1 GGACACAGACATGTGCTAGGCCATGTGAA
* * *
25368425 GGACACGGGCATGTGCTTGGCCATGTGAA
1 GGACACAGACATGTGCTAGGCCATGTGAA
25368454 AACCCTTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.25, C:0.21, G:0.35, T:0.19
Consensus pattern (29 bp):
GGACACAGACATGTGCTAGGCCATGTGAA
Found at i:25371776 original size:55 final size:55
Alignment explanation
Indices: 25371656--25371826 Score: 236
Period size: 55 Copynumber: 3.1 Consensus size: 55
25371646 TAGCTTTTCA
* * *
25371656 ATCGAATAGAGAGCCTAAATTGTTT-TCAGCAAAATAAAAAAAAACACTAAAACCCTT
1 ATCGAATAGAGAACCTGAATT-TTTGTCAGCAAAAT--AAAAGAACACTAAAACCCTT
* * *
25371713 ATCTAATAGAGATCCTGAATTTTTGTCAGCAAAATAGAAGAACACTAAAACCCTT
1 ATCGAATAGAGAACCTGAATTTTTGTCAGCAAAATAAAAGAACACTAAAACCCTT
* *
25371768 ATCGAATAGAGAACCTGAATTTTTGTCGGCAAAATAAAAGAGCACTAAAACCCTT
1 ATCGAATAGAGAACCTGAATTTTTGTCAGCAAAATAAAAGAACACTAAAACCCTT
25371823 ATCG
1 ATCG
25371827 TAAAGCTCAA
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
55 72 0.70
56 3 0.03
57 28 0.27
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (55 bp):
ATCGAATAGAGAACCTGAATTTTTGTCAGCAAAATAAAAGAACACTAAAACCCTT
Found at i:25373277 original size:27 final size:27
Alignment explanation
Indices: 25373243--25373305 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
25373233 CCATTTTATA
25373243 TATTAAAAATTAATTTTA-TTCTTTTTT
1 TATTAAAAATTAATTTTAGTT-TTTTTT
*
25373270 TATT-AAAATTCATTTTAGGTTTTTTTT
1 TATTAAAAATTAATTTTA-GTTTTTTTT
*
25373297 TAATAAAAA
1 TATTAAAAA
25373306 ATATTGGAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 12 0.39
27 13 0.42
28 6 0.19
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (27 bp):
TATTAAAAATTAATTTTAGTTTTTTTT
Found at i:25375412 original size:16 final size:16
Alignment explanation
Indices: 25375388--25375418 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25375378 CCACATAAAA
25375388 AATTAAACTTTTTTTT
1 AATTAAACTTTTTTTT
*
25375404 AATTCAACTTTTTTT
1 AATTAAACTTTTTTT
25375419 CAAAAATAAA
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:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTAAACTTTTTTTT
Found at i:25378175 original size:44 final size:44
Alignment explanation
Indices: 25378112--25378201 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
25378102 AAAAAATTTA
25378112 AAATTGCTACAACGTTATGATAAGAATCAACCTGATGTTGCGAC
1 AAATTGCTACAACGTTATGATAAGAATCAACCTGATGTTGCGAC
25378156 AAATTGCTACAACGTTATGATAAGAATCAACCTGATGTTGCGAC
1 AAATTGCTACAACGTTATGATAAGAATCAACCTGATGTTGCGAC
25378200 AA
1 AA
25378202 CACAACGTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (44 bp):
AAATTGCTACAACGTTATGATAAGAATCAACCTGATGTTGCGAC
Found at i:25398975 original size:361 final size:361
Alignment explanation
Indices: 25398311--25399034 Score: 1405
Period size: 361 Copynumber: 2.0 Consensus size: 361
25398301 ATTGAGTGAA
25398311 CCAAACCAGCCACTAAATGGGCAGCCCAGAACTGTCCATATGCTGACCCAAATCAGTATTTTATC
1 CCAAACCAGCCACTAAATGGGCAGCCCAGAACTGTCCATATGCTGACCCAAATCAGTATTTTATC
25398376 TGATTAAATATGCTTGCAAAAATGCCCTCAAAAGACTTTTAAATTGCATTCAAACCCCACCTTAA
66 TGATTAAATATGCTTGCAAAAATGCCCTCAAAAGACTTTTAAATTGCATTCAAACCCCACCTTAA
25398441 ATTATGGCTTTGTAGATTTGCCCCAAGCTTAAAATAGCAAAGTTAAAACTCTCAACTTTGCCATG
131 ATTATGGCTTTGTAGATTTGCCCCAAGCTTAAAATAGCAAAGTTAAAACTCTCAACTTTGCCATG
*
25398506 TGTGTGGCCGTCCAAGGGAGGGCTCTTTGGCTGCTGGAATTTTCTATTTTTAGCAGCCACAATCA
196 TGTGTGGCCGTCCAAGGGAGGGCTCTTTGGATGCTGGAATTTTCTATTTTTAGCAGCCACAATCA
25398571 GCTATAAAAGCCACCCATTGCTGATCATTCAAAGCATCCCTCACTTCACATCATTCTCTCATTCC
261 GCTATAAAAGCCACCCATTGCTGATCATTCAAAGCATCCCTCACTTCACATCATTCTCTCATTCC
25398636 CCTCTCTCACTTTTCTCTCATTTTTTCCATTCCATT
326 CCTCTCTCACTTTTCTCTCATTTTTTCCATTCCATT
25398672 CCAAACCAGCCACTAAATGGGCAGCCCAGAACTGTCCATATGCTGACCCAAATCAGTATTTTATC
1 CCAAACCAGCCACTAAATGGGCAGCCCAGAACTGTCCATATGCTGACCCAAATCAGTATTTTATC
25398737 TGATTAAATATGCTTGCAAAAATGCCCTCAAAAGACTTTTAAATTGCATTCAAACCCCACCTTAA
66 TGATTAAATATGCTTGCAAAAATGCCCTCAAAAGACTTTTAAATTGCATTCAAACCCCACCTTAA
* *
25398802 ATTATGGCTTTGTAGATTTGCCCCAAGCTTAAACTAGCAAAGTTGAAACTCTCAACTTTGCCATG
131 ATTATGGCTTTGTAGATTTGCCCCAAGCTTAAAATAGCAAAGTTAAAACTCTCAACTTTGCCATG
25398867 TGTGTGGCCAG-CCAAGGGAGGGCTCTTTGGATGCTGGAATTTTCTATTTTTAGCAGCCACAATC
196 TGTGTGGCC-GTCCAAGGGAGGGCTCTTTGGATGCTGGAATTTTCTATTTTTAGCAGCCACAATC
25398931 AGCTATAAAAGCCACCCATTGCTGATCATTCAAAGCATCCCTCACTTCACATCATTCTCTCATTC
260 AGCTATAAAAGCCACCCATTGCTGATCATTCAAAGCATCCCTCACTTCACATCATTCTCTCATTC
25398996 CCCTCTCTCACTTTTCTCTCATTTTTTCCATTCCATT
325 CCCTCTCTCACTTTTCTCTCATTTTTTCCATTCCATT
25399033 CC
1 CC
25399035 CTCTTGTTCA
Statistics
Matches: 359, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
361 358 1.00
362 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (361 bp):
CCAAACCAGCCACTAAATGGGCAGCCCAGAACTGTCCATATGCTGACCCAAATCAGTATTTTATC
TGATTAAATATGCTTGCAAAAATGCCCTCAAAAGACTTTTAAATTGCATTCAAACCCCACCTTAA
ATTATGGCTTTGTAGATTTGCCCCAAGCTTAAAATAGCAAAGTTAAAACTCTCAACTTTGCCATG
TGTGTGGCCGTCCAAGGGAGGGCTCTTTGGATGCTGGAATTTTCTATTTTTAGCAGCCACAATCA
GCTATAAAAGCCACCCATTGCTGATCATTCAAAGCATCCCTCACTTCACATCATTCTCTCATTCC
CCTCTCTCACTTTTCTCTCATTTTTTCCATTCCATT
Found at i:25400260 original size:34 final size:34
Alignment explanation
Indices: 25400212--25400279 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
25400202 TATAGGTGTG
* *
25400212 TAAGGAAATTGATGACAATGCTTTGTATGACTTA
1 TAAGGAAATAGATGACAAAGCTTTGTATGACTTA
*
25400246 TAAGGAAATAGATGACAAAGTTTTGTATGACTTA
1 TAAGGAAATAGATGACAAAGCTTTGTATGACTTA
25400280 GTGAATGGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (34 bp):
TAAGGAAATAGATGACAAAGCTTTGTATGACTTA
Found at i:25402414 original size:29 final size:30
Alignment explanation
Indices: 25402382--25402440 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
25402372 TATGGTGTAA
*
25402382 TGTGTAATTGTATATA-TAAATTTTGATTT
1 TGTGTAATTGTATACATTAAATTTTGATTT
* *
25402411 TGTGTGATTTTATACATTAAATTTTGATTT
1 TGTGTAATTGTATACATTAAATTTTGATTT
25402441 GATTCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.56
Consensus pattern (30 bp):
TGTGTAATTGTATACATTAAATTTTGATTT
Found at i:25402613 original size:31 final size:29
Alignment explanation
Indices: 25402572--25402648 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 29
25402562 TTCATGAATA
*
25402572 AATCAAAATTAAAATTTCAAATATATATTT
1 AATC-AAATTAAAATTTCAAATATATAATT
* *
25402602 GAATCACAATTAGAATTTCACATATATAATT
1 -AATCA-AATTAAAATTTCAAATATATAATT
25402633 ACATCAAATTAAAATT
1 A-ATCAAATTAAAATT
25402649 CATATATGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 11 0.28
31 29 0.73
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (29 bp):
AATCAAATTAAAATTTCAAATATATAATT
Found at i:25402650 original size:29 final size:29
Alignment explanation
Indices: 25402577--25402664 Score: 79
Period size: 31 Copynumber: 2.9 Consensus size: 29
25402567 GAATAAATCA
*
25402577 AAATTAAAATTTCAAATATATATTTGA-ATC
1 AAATTAAAA-TTCAAATATATAATT-ACATC
* *
25402607 ACAATTAGAATTTCACATATATAATTACATC
1 A-AATTA-AAATTCAAATATATAATTACATC
* **
25402638 AAATTAAAATTCATATATGCAATTACA
1 AAATTAAAATTCAAATATATAATTACA
25402665 CATTAAATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
29 17 0.35
30 7 0.15
31 22 0.46
32 2 0.04
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.36
Consensus pattern (29 bp):
AAATTAAAATTCAAATATATAATTACATC
Found at i:25415823 original size:14 final size:14
Alignment explanation
Indices: 25415781--25415823 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
25415771 AGATCCCAAT
25415781 AATCATATTATAAC
1 AATCATATTATAAC
* * *
25415795 AATTAAATTACAAC
1 AATCATATTATAAC
*
25415809 AATCATATTGTAAC
1 AATCATATTATAAC
25415823 A
1 A
25415824 GTCAAATTTT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (14 bp):
AATCATATTATAAC
Found at i:25418303 original size:23 final size:22
Alignment explanation
Indices: 25418277--25418319 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
25418267 CTATATTCGG
25418277 ATTAGTTG-CCTTGTTATTTTGAA
1 ATTA-TTGTCCTTGTT-TTTTGAA
*
25418300 ATTATTGTCTTTGTTTTTTG
1 ATTATTGTCCTTGTTTTTTG
25418320 TTGCGTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.16, C:0.07, G:0.16, T:0.60
Consensus pattern (22 bp):
ATTATTGTCCTTGTTTTTTGAA
Found at i:25427961 original size:13 final size:13
Alignment explanation
Indices: 25427943--25427968 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25427933 TATTGAGATT
25427943 CTTTCTTTCAGAA
1 CTTTCTTTCAGAA
25427956 CTTTCTTTCAGAA
1 CTTTCTTTCAGAA
25427969 AGAATAAAAT
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:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
CTTTCTTTCAGAA
Found at i:25429051 original size:23 final size:21
Alignment explanation
Indices: 25429021--25429064 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
25429011 ATAGCTTAAT
25429021 ATAAATAATATATACAAAAATA
1 ATAAATAATATATA-AAAAATA
*
25429043 ATAATATAATATTTAAAAAATA
1 ATAA-ATAATATATAAAAAATA
25429065 TTCATAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAAATAATATATAAAAAATA
Found at i:25429610 original size:13 final size:13
Alignment explanation
Indices: 25429592--25429617 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25429582 GGTAATGGAG
25429592 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
25429605 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
25429618 GAAGTTAGTT
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:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:25429613 original size:30 final size:30
Alignment explanation
Indices: 25429577--25429717 Score: 152
Period size: 30 Copynumber: 4.9 Consensus size: 30
25429567 TTTGCAGGCA
*
25429577 AGTGGGGTAATGGAGTTAGTGGGGTGATTT
1 AGTGGGGTGATGGAGTTAGTGGGGTGATTT
* * ***
25429607 AGTGGGGTGATGAAGTTAGTTGCAAG-TTT
1 AGTGGGGTGATGGAGTTAGTGGGGTGATTT
* *
25429636 AGTGGGGTGATAGAGTTAGT--GG-CA---
1 AGTGGGGTGATGGAGTTAGTGGGGTGATTT
*
25429660 AGTGGGGTGGTGGAGTTAGTGGGGTGATTT
1 AGTGGGGTGATGGAGTTAGTGGGGTGATTT
25429690 AGTGGGGTGATGGAGTTAGTGGGGTGAT
1 AGTGGGGTGATGGAGTTAGTGGGGTGAT
25429718 GGAGTTAGTG
Statistics
Matches: 89, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
24 18 0.20
26 2 0.02
27 1 0.01
29 21 0.24
30 47 0.53
ACGTcount: A:0.20, C:0.01, G:0.48, T:0.31
Consensus pattern (30 bp):
AGTGGGGTGATGGAGTTAGTGGGGTGATTT
Found at i:25429663 original size:24 final size:24
Alignment explanation
Indices: 25429636--25429681 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
25429626 TTGCAAGTTT
25429636 AGTGGGGTGATAGAGTTAGTGGCA
1 AGTGGGGTGATAGAGTTAGTGGCA
* *
25429660 AGTGGGGTGGTGGAGTTAGTGG
1 AGTGGGGTGATAGAGTTAGTGG
25429682 GGTGATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.20, C:0.02, G:0.52, T:0.26
Consensus pattern (24 bp):
AGTGGGGTGATAGAGTTAGTGGCA
Found at i:25429682 original size:17 final size:17
Alignment explanation
Indices: 25429660--25429728 Score: 101
Period size: 17 Copynumber: 4.3 Consensus size: 17
25429650 GTTAGTGGCA
*
25429660 AGTGGGGTGGTGGAGTT
1 AGTGGGGTGATGGAGTT
25429677 AGTGGGGTGAT----TT
1 AGTGGGGTGATGGAGTT
25429690 AGTGGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
25429707 AGTGGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
25429724 AGTGG
1 AGTGG
25429729 TCGGTTTAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
13 13 0.28
17 34 0.72
ACGTcount: A:0.16, C:0.00, G:0.54, T:0.30
Consensus pattern (17 bp):
AGTGGGGTGATGGAGTT
Found at i:25429693 original size:13 final size:13
Alignment explanation
Indices: 25429675--25429700 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25429665 GGTGGTGGAG
25429675 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
25429688 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
25429701 GGAGTTAGTG
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:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:25444999 original size:25 final size:25
Alignment explanation
Indices: 25444971--25445021 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
25444961 TGAAAATTAG
25444971 AAAGAAACAATAAGCAAAGTGAAGA
1 AAAGAAACAATAAGCAAAGTGAAGA
25444996 AAAGAAACAATAAGCAAAGTGAAGA
1 AAAGAAACAATAAGCAAAGTGAAGA
25445021 A
1 A
25445022 CTCCAGCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.65, C:0.08, G:0.20, T:0.08
Consensus pattern (25 bp):
AAAGAAACAATAAGCAAAGTGAAGA
Found at i:25450418 original size:24 final size:24
Alignment explanation
Indices: 25450386--25450431 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
25450376 TAGGACATTG
25450386 TGAATAAAATGACCATTTTTATAA
1 TGAATAAAATGACCATTTTTATAA
25450410 TGAATAAAATGACCATTTTTAT
1 TGAATAAAATGACCATTTTTAT
25450432 GTGTTTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (24 bp):
TGAATAAAATGACCATTTTTATAA
Found at i:25453745 original size:46 final size:46
Alignment explanation
Indices: 25453693--25453896 Score: 345
Period size: 46 Copynumber: 4.4 Consensus size: 46
25453683 AGTGTGCTCT
25453693 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
25453739 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
** * *
25453785 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACTATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
25453831 GTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
25453877 CTGATATGAAATGTGTAAGA
1 CTGATATGAAATGTGTAAGA
25453897 TGGAACCAGA
Statistics
Matches: 146, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 146 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:25463666 original size:42 final size:42
Alignment explanation
Indices: 25463563--25463771 Score: 264
Period size: 42 Copynumber: 5.0 Consensus size: 42
25463553 TTAAGCCTAG
* * * *
25463563 TATAATACACCGGCATAGAA-CCTGCTAGGCAAT-AGGCCTGA
1 TATAATACACTGGCACA-AAGCCTGCTAGGCAATAAAGCCCGA
* * *
25463604 CATAATACA-TCGGCATAAAGCTTGCTAGGCAATAAAGCCCGA
1 TATAATACACT-GGCACAAAGCCTGCTAGGCAATAAAGCCCGA
* *
25463646 TATAATACACTGGCACAAAGCCTTCTAGGCATTAAAGCCCGA
1 TATAATACACTGGCACAAAGCCTGCTAGGCAATAAAGCCCGA
*
25463688 TATAATACA-TCGGCACAAAGCCTGCTAGGCAATAATGCCCGA
1 TATAATACACT-GGCACAAAGCCTGCTAGGCAATAAAGCCCGA
*
25463730 TATAATACACTGGCACAAAGCCTACTAGGCAATAAAGCCCGA
1 TATAATACACTGGCACAAAGCCTGCTAGGCAATAAAGCCCGA
25463772 ATATCACTAT
Statistics
Matches: 147, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
40 2 0.01
41 27 0.18
42 116 0.79
43 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (42 bp):
TATAATACACTGGCACAAAGCCTGCTAGGCAATAAAGCCCGA
Found at i:25463714 original size:84 final size:84
Alignment explanation
Indices: 25463563--25463771 Score: 296
Period size: 84 Copynumber: 2.5 Consensus size: 84
25463553 TTAAGCCTAG
* * * * * * * *
25463563 TATAATACACCGGCATAGAA-CCTGCTAGGCAAT-AGGCCTGACATAATACATCGGCATAAAGCT
1 TATAATACACTGGCACA-AAGCCTACTAGGCAATAAAGCCCGATATAATACATCGGCACAAAGCC
25463626 TGCTAGGCAATAAAGCCCGA
65 TGCTAGGCAATAAAGCCCGA
* *
25463646 TATAATACACTGGCACAAAGCCTTCTAGGCATTAAAGCCCGATATAATACATCGGCACAAAGCCT
1 TATAATACACTGGCACAAAGCCTACTAGGCAATAAAGCCCGATATAATACATCGGCACAAAGCCT
*
25463711 GCTAGGCAATAATGCCCGA
66 GCTAGGCAATAAAGCCCGA
25463730 TATAATACACTGGCACAAAGCCTACTAGGCAATAAAGCCCGA
1 TATAATACACTGGCACAAAGCCTACTAGGCAATAAAGCCCGA
25463772 ATATCACTAT
Statistics
Matches: 112, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
82 2 0.02
83 26 0.23
84 84 0.75
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (84 bp):
TATAATACACTGGCACAAAGCCTACTAGGCAATAAAGCCCGATATAATACATCGGCACAAAGCCT
GCTAGGCAATAAAGCCCGA
Found at i:25464689 original size:12 final size:12
Alignment explanation
Indices: 25464672--25464697 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25464662 TATGATATAA
25464672 ATATTATAACAT
1 ATATTATAACAT
25464684 ATATTATAACAT
1 ATATTATAACAT
25464696 AT
1 AT
25464698 TATTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATTATAACAT
Found at i:25471525 original size:27 final size:26
Alignment explanation
Indices: 25471485--25471597 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
25471475 AGCATGGTTG
* ** *
25471485 CCAGAACATATAATGTAATAGAGTCA
1 CCAGAACAGATAATGTGGTAGAGCCA
25471511 CCAGATACAGATAATTGTGGTAGAGCCA
1 CCAGA-ACAGATAA-TGTGGTAGAGCCA
25471539 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGTAGAGCCA
* * *
25471566 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGTAGAGCCA
25471594 CCAG
1 CCAG
25471598 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 6 0.08
27 38 0.51
28 31 0.41
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGTAGAGCCA
Found at i:25471535 original size:28 final size:28
Alignment explanation
Indices: 25471503--25471597 Score: 124
Period size: 27 Copynumber: 3.4 Consensus size: 28
25471493 TATAATGTAA
*
25471503 TAGAGTCACCAGATACAGATAATTGTGG
1 TAGAGCCACCAGATACAGATAATTGTGG
25471531 TAGAGCCACCAGA-ACAGAT-ATATGTGG
1 TAGAGCCACCAGATACAGATAAT-TGTGG
25471558 TAGAGCCACCAGAT-CAGATAATTTGTGG
1 TAGAGCCACCAGATACAGATAA-TTGTGG
* *
25471586 CATAGCCACCAG
1 TAGAGCCACCAG
25471598 GACGCTTCCT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.03
27 29 0.48
28 28 0.47
29 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (28 bp):
TAGAGCCACCAGATACAGATAATTGTGG
Found at i:25471568 original size:55 final size:54
Alignment explanation
Indices: 25471485--25471597 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
25471475 AGCATGGTTG
* * *
25471485 CCAGAACATATAATGTAATAGAGTCACCAGATACAGATAA-TTGTGGTAGAGCCA
1 CCAGAACAGATAATGTAATAGAGCCACCAGAT-CAGATAATTTGTGGCAGAGCCA
** *
25471539 CCAGAACAGATATATGTGGTAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTAATAGAGCCACCAGATCAGATAATTTGTGGCAGAGCCA
25471594 CCAG
1 CCAG
25471598 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 18 0.35
55 33 0.65
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (54 bp):
CCAGAACAGATAATGTAATAGAGCCACCAGATCAGATAATTTGTGGCAGAGCCA
Found at i:25479342 original size:27 final size:26
Alignment explanation
Indices: 25479302--25479414 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
25479292 AGCATGGTTG
* ** *
25479302 CCAGAACATATAATGTAATAGAGTCA
1 CCAGAACAGATAATGTGGTAGAGCCA
25479328 CCAGATACAGATAATTGTGGTAGAGCCA
1 CCAGA-ACAGATAA-TGTGGTAGAGCCA
25479356 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGTAGAGCCA
* * *
25479383 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGTAGAGCCA
25479411 CCAG
1 CCAG
25479415 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 6 0.08
27 38 0.51
28 31 0.41
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGTAGAGCCA
Found at i:25479352 original size:28 final size:28
Alignment explanation
Indices: 25479320--25479414 Score: 124
Period size: 27 Copynumber: 3.4 Consensus size: 28
25479310 TATAATGTAA
*
25479320 TAGAGTCACCAGATACAGATAATTGTGG
1 TAGAGCCACCAGATACAGATAATTGTGG
25479348 TAGAGCCACCAGA-ACAGAT-ATATGTGG
1 TAGAGCCACCAGATACAGATAAT-TGTGG
25479375 TAGAGCCACCAGAT-CAGATAATTTGTGG
1 TAGAGCCACCAGATACAGATAA-TTGTGG
* *
25479403 CATAGCCACCAG
1 TAGAGCCACCAG
25479415 GACGCTTCCT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.03
27 29 0.48
28 28 0.47
29 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (28 bp):
TAGAGCCACCAGATACAGATAATTGTGG
Found at i:25479385 original size:55 final size:54
Alignment explanation
Indices: 25479302--25479414 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
25479292 AGCATGGTTG
* * *
25479302 CCAGAACATATAATGTAATAGAGTCACCAGATACAGATAA-TTGTGGTAGAGCCA
1 CCAGAACAGATAATGTAATAGAGCCACCAGAT-CAGATAATTTGTGGCAGAGCCA
** *
25479356 CCAGAACAGATATATGTGGTAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTAATAGAGCCACCAGATCAGATAATTTGTGGCAGAGCCA
25479411 CCAG
1 CCAG
25479415 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 18 0.35
55 33 0.65
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (54 bp):
CCAGAACAGATAATGTAATAGAGCCACCAGATCAGATAATTTGTGGCAGAGCCA
Found at i:25481540 original size:42 final size:42
Alignment explanation
Indices: 25481446--25481568 Score: 160
Period size: 42 Copynumber: 3.0 Consensus size: 42
25481436 ATAAGCCTAG
* * * *
25481446 CATAATACACCGGAATAGAA-CCTGCTAGGTAAT-AGGCCTGA
1 CATAATACACCGGCATA-AAGCCTGCTAGGCAATAAAGCCCGA
*
25481487 CATAATACACCGGCATAAAGCCTACTAGGCAATAAAGCCCGA
1 CATAATACACCGGCATAAAGCCTGCTAGGCAATAAAGCCCGA
* *
25481529 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAAGCCC
1 CATAATACACCGGCATAAAGCCTGCTAGGCAATAAAGCCC
25481569 CAAAATATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
40 2 0.03
41 27 0.38
42 43 0.60
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.16
Consensus pattern (42 bp):
CATAATACACCGGCATAAAGCCTGCTAGGCAATAAAGCCCGA
Found at i:25486103 original size:11 final size:11
Alignment explanation
Indices: 25486084--25486112 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
25486074 CAATTTGTGA
25486084 AAAAT-AAAAT
1 AAAATAAAAAT
25486094 AAAATAAAAAT
1 AAAATAAAAAT
25486105 AAAATAAA
1 AAAATAAA
25486113 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:25486746 original size:12 final size:12
Alignment explanation
Indices: 25486729--25486756 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25486719 TTTATGATAT
25486729 ATATATTATAAC
1 ATATATTATAAC
25486741 ATATATTATAAC
1 ATATATTATAAC
25486753 ATAT
1 ATAT
25486757 TAATTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATATTATAAC
Found at i:25488843 original size:31 final size:31
Alignment explanation
Indices: 25488785--25488855 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
25488775 AATGATTAAC
*
25488785 TTAT-AACTT-TTTAAAATTAAGTAACCAAT
1 TTATAAACTTATTTAAAATTAAGTAACCAAA
* * * *
25488814 TTGTAAACTTATTTATAATTGAGTGACCAAA
1 TTATAAACTTATTTAAAATTAAGTAACCAAA
25488845 TTATAAACTTA
1 TTATAAACTTA
25488856 CTAGTCCCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 3 0.09
30 5 0.15
31 26 0.76
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
TTATAAACTTATTTAAAATTAAGTAACCAAA
Found at i:25489306 original size:22 final size:22
Alignment explanation
Indices: 25489270--25489312 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
25489260 TTTTGAACAT
25489270 TGGCAACGGTAAAATTTTTTAA
1 TGGCAACGGTAAAATTTTTTAA
*
25489292 TGGCTAACGGTAAATTTTTTT
1 TGGC-AACGGTAAAATTTTTT
25489313 TCCTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (22 bp):
TGGCAACGGTAAAATTTTTTAA
Found at i:25492841 original size:42 final size:42
Alignment explanation
Indices: 25492778--25492904 Score: 147
Period size: 42 Copynumber: 3.0 Consensus size: 42
25492768 CTTCGTTTTC
* *
25492778 TCGATGCCATAGTTCAA-CTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAG-CCAAGCTATGGTCTTACACATATTCACAT-A
*
25492821 T-GATGCCATAGCCAAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCAAGCTATGGTCTTACACATATTCACATA
*
25492862 TCGATGCCATAGCTC-AGCTATGCTCTTACACGA-A-TCACATA
1 TCGATGCCATAGC-CAAGCTATGGTCTTACAC-ATATTCACATA
25492903 TC
1 TC
25492905 TCACTTATGC
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
41 13 0.17
42 59 0.79
43 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCAAGCTATGGTCTTACACATATTCACATA
Found at i:25492999 original size:31 final size:31
Alignment explanation
Indices: 25492964--25493143 Score: 290
Period size: 31 Copynumber: 5.8 Consensus size: 31
25492954 CTTGTCACTT
*
25492964 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
25492995 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25493026 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
25493057 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
25493088 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25493119 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
25493144 TGTCATTTGT
Statistics
Matches: 140, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
30 3 0.02
31 135 0.96
32 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Done.