Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 58 of 138
Found at i:12012150 original size:20 final size:20
Alignment explanation
Indices: 12012125--12012172 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
12012115 TAGTCCAAAG
12012125 GTTGCTGTATCCAGTACACC
1 GTTGCTGTATCCAGTACACC
12012145 GTTGCTGTATCCAGTACACC
1 GTTGCTGTATCCAGTACACC
*
12012165 ATTGCTGT
1 GTTGCTGT
12012173 GCATCTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (20 bp):
GTTGCTGTATCCAGTACACC
Found at i:12032830 original size:372 final size:363
Alignment explanation
Indices: 12031877--12032859 Score: 1191
Period size: 364 Copynumber: 2.7 Consensus size: 363
12031867 GAAAGACTTG
* *
12031877 TGTCACGGACCTAAAAAAGAGTCCCGAATCTCACATCGAACATAATAGGAGGGTCACTAGGGTAT
1 TGTCACGGACCTAAAGAAGAGTCCTGAATCTCACATCGAACATAATAGGAGGGTCACT-GGGTAT
* * ** *
12031942 AAAAGGGTTCACACCACCTATGCCTTGTGAGGCACCTTTTGTAGGATAAAACCATGAGGCC-AGA
65 AAAAGGGTTCACACCACCTCTACCTTGTGAGGCACCTTTTGTAGGATAAAACTGTGAGGCCAAGG
* * * *
12032006 GGGGCTAGAGCAGACAATACCTCATAAGGGGGTGAACCATGGTAGGTAAACTGATCTGAGACGTC
130 GGGGCCAGAGCAGACAATACCTCATAAGGGTGTGAACCATGGTAGGTAAATTGATCTGGGACGTC
* ** * * *
12032071 AGAAGGGTGAATGGCCAGGTCTCAAAGTCACACGGGTTCGAAGCTTAAGTTTTAACCCATGACAA
195 AGAAGGGTGAAT-GCCAGGTCTCGAAGTCACGTGGGTTCGGAGCTTAAGTCTCAACCCATGACAA
* * *** * * *
12032136 GTGGTATCAGAGCTAGCCCTAAATTGTTCGATCCACGTCGAGCGCCTCGAAGGAGGTAAGCAGGG
259 GTGGTATCAAAGCCAGCCCTAAACCATTCGATCCACGCCAAGCACCTCGAAGGAGGTAAGCAGGG
* *
12032201 TGGTCAGCCTCCGTGACAAGGGCGTCACGAGGAGGGAGAA
324 TGGCCAGCCTCCGTGACAAGAGCGTCACGAGGAGGGAGAA
** * *
12032241 TGTCATAGACCT-AAGAAAGAGTCCTGAATCCCACATCGAACATAATAAGAGGGTCACTGGGTAT
1 TGTCACGGACCTAAAG-AAGAGTCCTGAATCTCACATCGAACATAATAGGAGGGTCACTGGGTAT
* * * * *
12032305 AAAAGGGTTCACACCACCTCTACCTTATAAAGCATCTTTTGTAGGACAAAA-TCGTGAGGCCAAG
65 AAAAGGGTTCACACCACCTCTACCTTGTGAGGCACCTTTTGTAGGATAAAACT-GTGAGGCCAAG
* * * ** *
12032369 GGGGGCCAGAGCAGATAATACCTCATAAGGGTGTGAATCGTGGTAGAAAAATTGATCTAGGACGT
129 GGGGGCCAGAGCAGACAATACCTCATAAGGGTGTGAACCATGGTAGGTAAATTGATCTGGGACGT
* * * *
12032434 CAGATGGGTGAATGCTCGGGTCTCGAAGTCACGTGGGTTCGGAGCTTAACTCTCAACTCATGACA
194 CAGAAGGGTGAATGC-CAGGTCTCGAAGTCACGTGGGTTCGGAGCTTAAGTCTCAACCCATGACA
* * * *
12032499 GGTGGTATCAAAGCCAGCCCTATACCATTCGATCCATGCCAAGCACCTCGAAGGAGGTAGGCAGG
258 AGTGGTATCAAAGCCAGCCCTAAACCATTCGATCCACGCCAAGCACCTCGAAGGAGGTAAGCAGG
* *
12032564 GTGGCCAGCCTCCGTGACGAGAGCGTCACGAGGTTGGGTGCAAGAGAA
323 GTGGCCAGCCTCCGTGACAAGAGCGTCACGA-G--GAG-G---GAGAA
*
12032612 TGTCACGGACCTAAAGAAGAGTCATGAATCTCACATCGAACATAATAGGAGGGTCACTGGGGTAT
1 TGTCACGGACCTAAAGAAGAGTCCTGAATCTCACATCGAACATAATAGGAGGGTCACT-GGGTAT
* * ** *
12032677 AAAAAGGTTCATACCACCTCTACCTTGTGAGGTGCCTTTTGTAGGATAAAACTGTAAGGCCAAGG
65 AAAAGGGTTCACACCACCTCTACCTTGTGAGGCACCTTTTGTAGGATAAAACTGTGAGGCCAAGG
* * ** *
12032742 GGGGCCAGAGCAGACAATACCTCACAAGGGTGTGAACCATGGCAGGTAGGTTGATCTGGGATGTC
130 GGGGCCAGAGCAGACAATACCTCATAAGGGTGTGAACCATGGTAGGTAAATTGATCTGGGACGTC
* * * * *
12032807 AAAAGTGTGAATGCCAAGGTCTCGAAG-CGGCGTGAGTTTGGAGCTTAAGTCTC
195 AGAAGGGTGAATGCC-AGGTCTCGAAGTC-ACGTGGGTTCGGAGCTTAAGTCTC
12032860 GATCCGTGAC
Statistics
Matches: 517, Mismatches: 86, Indels: 24
0.82 0.14 0.04
Matches are distributed among these distances:
363 61 0.12
364 238 0.46
365 1 0.00
367 2 0.00
368 1 0.00
371 56 0.11
372 157 0.30
373 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (363 bp):
TGTCACGGACCTAAAGAAGAGTCCTGAATCTCACATCGAACATAATAGGAGGGTCACTGGGTATA
AAAGGGTTCACACCACCTCTACCTTGTGAGGCACCTTTTGTAGGATAAAACTGTGAGGCCAAGGG
GGGCCAGAGCAGACAATACCTCATAAGGGTGTGAACCATGGTAGGTAAATTGATCTGGGACGTCA
GAAGGGTGAATGCCAGGTCTCGAAGTCACGTGGGTTCGGAGCTTAAGTCTCAACCCATGACAAGT
GGTATCAAAGCCAGCCCTAAACCATTCGATCCACGCCAAGCACCTCGAAGGAGGTAAGCAGGGTG
GCCAGCCTCCGTGACAAGAGCGTCACGAGGAGGGAGAA
Found at i:12036172 original size:17 final size:17
Alignment explanation
Indices: 12036150--12036186 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
12036140 TGGATTCTAT
12036150 ATATTTAGGGAACTAAG
1 ATATTTAGGGAACTAAG
12036167 ATATTTAGGGAACTAAG
1 ATATTTAGGGAACTAAG
12036184 ATA
1 ATA
12036187 GTGGCTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.30
Consensus pattern (17 bp):
ATATTTAGGGAACTAAG
Found at i:12048574 original size:12 final size:12
Alignment explanation
Indices: 12048557--12048582 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12048547 TAATAAGTCT
12048557 AGGAGAATATCA
1 AGGAGAATATCA
12048569 AGGAGAATATCA
1 AGGAGAATATCA
12048581 AG
1 AG
12048583 CTAGCTATCT
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:0.27, T:0.15
Consensus pattern (12 bp):
AGGAGAATATCA
Found at i:12098339 original size:83 final size:83
Alignment explanation
Indices: 12098181--12098344 Score: 206
Period size: 83 Copynumber: 2.0 Consensus size: 83
12098171 TCAGTATCGA
* * *
12098181 CCGCCCGCATGCATGATTGACACCCAACATTATGCTAGCCCCGGAAGGGGCTTGGGAGGACTACC
1 CCGCCCGCATGCATGACTGACACCCAACATCATGCTAGCCCCGCAAGGGGCTTGGGAGGACTACC
* *
12098246 TCAGCTGCAGCACACCAG
66 CCAGCAGCAGCACACCAG
* * * * *
12098264 CCGCCCGCATGCATGGCTGACA-CCAACCATCATGTTAGTCCCGCAAGGGGACTTGGG-TGACTG
1 CCGCCCGCATGCATGACTGACACCCAA-CATCATGCTAGCCCCGCAAGGGG-CTTGGGAGGACTA
12098327 CCCCAGCAGCAGCACACC
64 CCCCAGCAGCAGCACACC
12098345 TCTCTCGACT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
82 4 0.06
83 59 0.86
84 6 0.09
ACGTcount: A:0.23, C:0.35, G:0.26, T:0.15
Consensus pattern (83 bp):
CCGCCCGCATGCATGACTGACACCCAACATCATGCTAGCCCCGCAAGGGGCTTGGGAGGACTACC
CCAGCAGCAGCACACCAG
Found at i:12101708 original size:83 final size:83
Alignment explanation
Indices: 12101567--12101726 Score: 207
Period size: 83 Copynumber: 1.9 Consensus size: 83
12101557 TATCGACCGT
12101567 CCGCACGCATGATTGACACCCAACATCATGCTAGTCCCGCAAGAGGCTTGGATGGACTGCCCCAG
1 CCGCACGCATGATTGACACCCAACATCATGCTAGTCCCGCAAGAGGCTTGGATGGACTGCCCCAG
**
12101632 CTGCAGCACACCAGCCAC
66 AAGCAGCACACCAGCCAC
* * * * * * *
12101650 CCGCACGTATGGTTGACA-GCAACCATCATGTTAGTCCCGCAAGGGGACTTGGGT-GACTGTCCC
1 CCGCACGCATGATTGACACCCAA-CATCATGCTAGTCCCGCAAGAGG-CTTGGATGGACTGCCCC
12101713 AGAAGCAGCACACC
64 AGAAGCAGCACACC
12101727 TCTCCCGACT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 3 0.05
83 57 0.86
84 6 0.09
ACGTcount: A:0.25, C:0.34, G:0.25, T:0.16
Consensus pattern (83 bp):
CCGCACGCATGATTGACACCCAACATCATGCTAGTCCCGCAAGAGGCTTGGATGGACTGCCCCAG
AAGCAGCACACCAGCCAC
Found at i:12115223 original size:19 final size:19
Alignment explanation
Indices: 12115199--12115235 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12115189 ATCATTAAAA
*
12115199 ATCATCGCAAATCATCATC
1 ATCATCACAAATCATCATC
*
12115218 ATCATCATAAATCATCAT
1 ATCATCACAAATCATCAT
12115236 TATTATTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.30
Consensus pattern (19 bp):
ATCATCACAAATCATCATC
Found at i:12118005 original size:29 final size:29
Alignment explanation
Indices: 12117925--12118006 Score: 114
Period size: 28 Copynumber: 2.9 Consensus size: 29
12117915 ACAAAATCAT
*
12117925 CACTTGTAAGATTTCAACCAATCA-TTTG
1 CACTTGTAAGATTTCAAACAATCATTTTG
* * *
12117953 CCCTTGTAA-AATTCAAATAATCATTTTG
1 CACTTGTAAGATTTCAAACAATCATTTTG
12117981 CACTTGTAAGATTTCAAACAATCATT
1 CACTTGTAAGATTTCAAACAATCATT
12118007 CTTAACCAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 11 0.24
28 20 0.44
29 14 0.31
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.37
Consensus pattern (29 bp):
CACTTGTAAGATTTCAAACAATCATTTTG
Found at i:12119895 original size:16 final size:16
Alignment explanation
Indices: 12119874--12119907 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
12119864 ATCATTAAAA
*
12119874 ATCATCGTAAATCATC
1 ATCATCATAAATCATC
12119890 ATCATCATAAATCATC
1 ATCATCATAAATCATC
12119906 AT
1 AT
12119908 TATTATTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.32
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:12124245 original size:73 final size:72
Alignment explanation
Indices: 12124127--12124272 Score: 247
Period size: 73 Copynumber: 2.0 Consensus size: 72
12124117 GAATAAGTAC
*
12124127 GGCCCTAAAAAAAAAAAAGAAAAAAAGGGGCAAAACGCCAATTTAAAGTGGCGAAGGTCTATGCT
1 GGCCCTAAAAAAAAAAAAGAAAAAAAGGGGCAAAACGCCAATTTAAAGTGGCGAAGGCCTATGCT
12124192 AAAATAA
66 AAAATAA
* **
12124199 GGCCCTAGAAAAAAAAAAAGAAAAAAAGGGGCGAAACGCCCGTTTAAAGTGGCGAAGGCCTATGC
1 GGCCCTA-AAAAAAAAAAAGAAAAAAAGGGGCAAAACGCCAATTTAAAGTGGCGAAGGCCTATGC
12124264 TAAAATAA
65 TAAAATAA
12124272 G
1 G
12124273 AAAGAAAGTA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
72 7 0.10
73 62 0.90
ACGTcount: A:0.49, C:0.15, G:0.23, T:0.13
Consensus pattern (72 bp):
GGCCCTAAAAAAAAAAAAGAAAAAAAGGGGCAAAACGCCAATTTAAAGTGGCGAAGGCCTATGCT
AAAATAA
Found at i:12141091 original size:22 final size:22
Alignment explanation
Indices: 12141066--12141128 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
12141056 GATTATTACT
12141066 TACGATATTCTTATGAAACTTC
1 TACGATATTCTTATGAAACTTC
12141088 TACG--A----TATGAAACTAT-
1 TACGATATTCTTATGAAACT-TC
12141104 TACGATATTCTTATGAAACTTC
1 TACGATATTCTTATGAAACTTC
12141126 TAC
1 TAC
12141129 TTCTTTCGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 16
0.67 0.00 0.33
Matches are distributed among these distances:
16 13 0.39
17 1 0.03
18 1 0.03
20 1 0.03
21 1 0.03
22 16 0.48
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (22 bp):
TACGATATTCTTATGAAACTTC
Found at i:12141098 original size:16 final size:16
Alignment explanation
Indices: 12141077--12141111 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12141067 ACGATATTCT
12141077 TATGAAACT-TCTACGA
1 TATGAAACTAT-TACGA
12141093 TATGAAACTATTACGA
1 TATGAAACTATTACGA
12141109 TAT
1 TAT
12141112 TCTTATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (16 bp):
TATGAAACTATTACGA
Found at i:12143910 original size:30 final size:30
Alignment explanation
Indices: 12143867--12143927 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
12143857 AATTAATTAA
* * * *
12143867 TTAATTATATATATTTATATAATGATATTT
1 TTAAATATATATATTTAAAAAATAATATTT
*
12143897 TTAAATATTTATATTTAAAAAATAATATTT
1 TTAAATATATATATTTAAAAAATAATATTT
12143927 T
1 T
12143928 ATATTTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
TTAAATATATATATTTAAAAAATAATATTT
Found at i:12143949 original size:22 final size:21
Alignment explanation
Indices: 12143900--12143952 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
12143890 GATATTTTTA
12143900 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
12143920 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
12143941 AATATTTT-TATT
1 AATATTTTATATT
12143953 AATTTCGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 8 0.25
21 24 0.75
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:12151812 original size:24 final size:24
Alignment explanation
Indices: 12151785--12151839 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
12151775 TCGTGATCCC
12151785 CTGACCATAAG-AACTCACGGTCCA
1 CTGACCA-AAGCAACTCACGGTCCA
* * *
12151809 CTGACCAACGCAGCTCATGGTCCA
1 CTGACCAAAGCAACTCACGGTCCA
12151833 CTGACCA
1 CTGACCA
12151840 CCTCGCTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.16
Consensus pattern (24 bp):
CTGACCAAAGCAACTCACGGTCCA
Found at i:12173474 original size:13 final size:13
Alignment explanation
Indices: 12173456--12173481 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12173446 TTACGGTTAC
12173456 TCTTTTATTGTAA
1 TCTTTTATTGTAA
12173469 TCTTTTATTGTAA
1 TCTTTTATTGTAA
12173482 AGTAAAGGCT
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:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TCTTTTATTGTAA
Found at i:12185585 original size:41 final size:41
Alignment explanation
Indices: 12185540--12185619 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
12185530 GATCCTTAAT
12185540 AGCCTCAATTTAGAGTTTAGCATTAAAAGCAAAAGGCATAC
1 AGCCTCAATTTAGAGTTTAGCATTAAAAGCAAAAGGCATAC
*
12185581 AGCCTCAATTTAGAGTTTAGCATTAAAAGTAAAAGGCAT
1 AGCCTCAATTTAGAGTTTAGCATTAAAAGCAAAAGGCAT
12185620 GCATAGCGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (41 bp):
AGCCTCAATTTAGAGTTTAGCATTAAAAGCAAAAGGCATAC
Found at i:12204133 original size:32 final size:33
Alignment explanation
Indices: 12204092--12204154 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
12204082 ACTAGACCAT
*
12204092 CGTGTAGCACTTAGTGACT-CCCACGGCTGCAC
1 CGTGTAGCACTTAGTGACTCCCCACGACTGCAC
12204124 CGTGTAGCACTTAGTGACTCCCCACGACTGC
1 CGTGTAGCACTTAGTGACTCCCCACGACTGC
12204155 GGACCGGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.19, C:0.35, G:0.24, T:0.22
Consensus pattern (33 bp):
CGTGTAGCACTTAGTGACTCCCCACGACTGCAC
Found at i:12216709 original size:24 final size:24
Alignment explanation
Indices: 12216677--12216733 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
12216667 GAGGATGAAG
* *
12216677 CCATGAGTTGTGATGGTTGGTGGA
1 CCATGAGTTGCGATGGTCGGTGGA
*
12216701 CCATGAGTTGCGTTGGTCGGTGGA
1 CCATGAGTTGCGATGGTCGGTGGA
12216725 CCATGAGTT
1 CCATGAGTT
12216734 CTCGTGATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.16, C:0.14, G:0.39, T:0.32
Consensus pattern (24 bp):
CCATGAGTTGCGATGGTCGGTGGA
Found at i:12232458 original size:21 final size:21
Alignment explanation
Indices: 12232434--12232473 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
12232424 TACTACTTTT
12232434 CGCTTGACTACTATCACTTAC
1 CGCTTGACTACTATCACTTAC
12232455 CGCTTGACTACTATCACTT
1 CGCTTGACTACTATCACTT
12232474 TCAGACAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.35
Consensus pattern (21 bp):
CGCTTGACTACTATCACTTAC
Found at i:12235934 original size:26 final size:27
Alignment explanation
Indices: 12235882--12235943 Score: 99
Period size: 26 Copynumber: 2.3 Consensus size: 27
12235872 AAAACAATTG
*
12235882 TTATTAATAATTTGTATATTTAAATAA
1 TTATTAATAATTTGTATATTGAAATAA
*
12235909 TTATTAATAATTT-TTTATTGAAATAA
1 TTATTAATAATTTGTATATTGAAATAA
12235935 TTATTAATA
1 TTATTAATA
12235944 TTAAATAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 20 0.61
27 13 0.39
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (27 bp):
TTATTAATAATTTGTATATTGAAATAA
Found at i:12236081 original size:19 final size:20
Alignment explanation
Indices: 12236045--12236088 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
12236035 AATATTTTCT
12236045 ATTATATAAGCAAATTATAA
1 ATTATATAAGCAAATTATAA
12236065 ATTATATAAGC-AATTATAA
1 ATTATATAAGCAAATTATAA
*
12236084 TTTAT
1 ATTAT
12236089 CTAGTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTATATAAGCAAATTATAA
Found at i:12236306 original size:27 final size:26
Alignment explanation
Indices: 12236252--12236307 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
12236242 TTAATTAATA
*
12236252 ATATAATTAATAATTGTTACTATTTT
1 ATATAATTAATAATTGTTACTATATT
12236278 ATATAAATT-ATAATTAGTTA-TAATATT
1 ATAT-AATTAATAATT-GTTACT-ATATT
12236305 ATA
1 ATA
12236308 ATACATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (26 bp):
ATATAATTAATAATTGTTACTATATT
Found at i:12236316 original size:17 final size:18
Alignment explanation
Indices: 12236278--12236320 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
12236268 TTACTATTTT
*
12236278 ATATAA-ATTATAATTAG
1 ATATAATATTATAATTAC
*
12236295 TTATAATATTATAA-TAC
1 ATATAATATTATAATTAC
12236312 ATATAATAT
1 ATATAATAT
12236321 AATAGTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
ATATAATATTATAATTAC
Found at i:12236900 original size:181 final size:180
Alignment explanation
Indices: 12236675--12237158 Score: 534
Period size: 176 Copynumber: 2.7 Consensus size: 180
12236665 TATTAAATCT
* * * * *
12236675 CTTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTTCGAACAAACTTATATGAACAA
1 CTTATTAATATTTCAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTATATGAAGAA
* * *
12236740 AAACATTTTTTTTACGACAAAACAAAATGTCATAACAATTTGAAATAGATAATTATTCATATAAC
66 AAACAATTGTTTTACGACAAAACAAAA-GTCATAACAATTTGAAATAGATAATTATTCAAATAAC
* * * *
12236805 CTTAACTATTTGAATTGGTTCAGTAAACAAATTTATTTTTTAAATCTATC-A
130 CATAACTATTTGAACTGATTCAATAAACAAATTTATTTTTTAAATCT-TCTA
* * * * *
12236856 GTTATTAA-ATTTCATAATATTACTAGATTAGTATTATTTTATTTCAAATAAGCTTGA-ATGAAG
1 CTTATTAATATTTCA-AATATTAATAAATTAGTATTATTTTATTTCGAATAAACTT-ATATGAAG
* * * * * * * *
12236919 ATAAATAATTGTATTATGACAAAACAAAAG--AT--CAATTGGAAATATATAATTGTTCAAATAG
64 AAAAACAATTGTTTTACGACAAAACAAAAGTCATAACAATTTGAAATAGATAATTATTCAAATAA
* *
12236980 TCATAACTATTTGAACTGATTCAATAAACAGATTTATTTTTTAAATCTTCTA
129 CCATAACTATTTGAACTGATTCAATAAACAAATTTATTTTTTAAATCTTCTA
* ** * *
12237032 CTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTAT-GAATATTCTTGTATGATGA
1 CTTATTAATATTTCAAATATTAATAAATTAGTATTATTTTATT-TCGAATAAACTTATATGAAGA
* ** *
12237096 AAAACAATTGTTTTACAACAAAACAAAAGTTCATAATGATTTGAAATAGATAATTATTTAAAT
65 AAAACAATTGTTTTACGACAAAACAAAAG-TCATAACAATTTGAAATAGATAATTATTCAAAT
12237159 GGAATTATTA
Statistics
Matches: 245, Mismatches: 47, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
175 2 0.01
176 137 0.56
177 6 0.02
178 2 0.01
179 2 0.01
180 5 0.02
181 90 0.37
182 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.41
Consensus pattern (180 bp):
CTTATTAATATTTCAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTATATGAAGAA
AAACAATTGTTTTACGACAAAACAAAAGTCATAACAATTTGAAATAGATAATTATTCAAATAACC
ATAACTATTTGAACTGATTCAATAAACAAATTTATTTTTTAAATCTTCTA
Found at i:12237451 original size:28 final size:27
Alignment explanation
Indices: 12237420--12237492 Score: 67
Period size: 31 Copynumber: 2.4 Consensus size: 27
12237410 TATTTATTCA
12237420 AATAATATATTTAATTATTATT-ATATAT
1 AATAATATATTTAATT-TTATTAAT-TAT
12237448 AATAATTATAATCATTAATTTTATTAATTAT
1 AATAA-TAT-AT--TTAATTTTATTAATTAT
12237479 AAGTAATACTATTT
1 AA-TAATA-TATTT
12237493 TATAATAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
28 5 0.13
29 5 0.13
30 2 0.05
31 14 0.37
32 12 0.32
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (27 bp):
AATAATATATTTAATTTTATTAATTAT
Found at i:12237507 original size:16 final size:17
Alignment explanation
Indices: 12237475--12237508 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
12237465 ATTTTATTAA
12237475 TTATAAGTAATACTATT
1 TTATAAGTAATACTATT
*
12237492 TTATAA-TAATATTATT
1 TTATAAGTAATACTATT
12237508 T
1 T
12237509 GAATGATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TTATAAGTAATACTATT
Found at i:12237553 original size:16 final size:16
Alignment explanation
Indices: 12237527--12237577 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
12237517 TCTTATACAT
12237527 TATATTTAATAATATAA
1 TATA-TTAATAATATAA
12237544 -ATAGTTAATAAT-TAA
1 TATA-TTAATAATATAA
12237559 TTATATTAATAATAATAA
1 -TATATTAATAAT-ATAA
12237577 T
1 T
12237578 TATCTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 3 0.10
16 19 0.66
17 4 0.14
18 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TATATTAATAATATAA
Found at i:12237577 original size:22 final size:22
Alignment explanation
Indices: 12237549--12237601 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
12237539 TATAAATAGT
12237549 TAATAATTAAT-TATATTAATAA
1 TAATAATT-ATCTATATTAATAA
* *
12237571 TAATAATTATCTATTTTAATTA
1 TAATAATTATCTATATTAATAA
12237593 TCAATAATT
1 T-AATAATT
12237602 TATCATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 18 0.67
23 7 0.26
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATAATTATCTATATTAATAA
Found at i:12237751 original size:14 final size:14
Alignment explanation
Indices: 12237736--12237774 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
12237726 AATAAAAATT
12237736 AAATATTTTAATTTA
1 AAAT-TTTTAATTTA
*
12237751 AAATTTTTAATTTT
1 AAATTTTTAATTTA
*
12237765 TAATTTTTAA
1 AAATTTTTAA
12237775 CATTCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AAATTTTTAATTTA
Found at i:12237772 original size:8 final size:7
Alignment explanation
Indices: 12237741--12237774 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
12237731 AAATTAAATA
12237741 TTTTAAT
1 TTTTAAT
**
12237748 TTAAAAT
1 TTTTAAT
12237755 TTTTAAT
1 TTTTAAT
12237762 TTTTAAT
1 TTTTAAT
12237769 TTTTAA
1 TTTTAA
12237775 CATTCAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (7 bp):
TTTTAAT
Found at i:12238119 original size:181 final size:177
Alignment explanation
Indices: 12237765--12238335 Score: 579
Period size: 181 Copynumber: 3.2 Consensus size: 177
12237755 TTTTAATTTT
* * * * * *
12237765 TAATTT-TTAACA-TTCAAAAAATTAATAAACAAAAGTTATGAAAAAATAAATCTGTTTACCAAT
1 TAATTTATTAATATTTC-AAAAATTAATAAGCAAGAGTT-T-AAAAAATTAATTTGTTTA-CAAA
*
12237828 CAAATTCAAATAGTTATGATTATTTGAACAATTATTTATTTAAAATCATTATTACCTTTTGTTTT
62 CAAATTCAAATAGTTATGATTATTTGAACAATTATCTATTTAAAATCATTATTACCTTTTGTTTT
* *
12237893 GCCAAAAAACAATTGTTTTAGTTCATAAAAGCTTA-TCGAAAATAAAATAATAC
127 GTCATAAAACAATTG-TTTAGTTCATAAAA-CTTATTCG-AAATAAAATAATAC
* *
12237946 TAATTTCTTAATATTTCAAAAATTAATAAGCAAGAGTTTAAAAAAATTAATTTGTTTACTGAACA
1 TAATTTATTAATATTTCAAAAATTAATAAGCAAGAGTTT-AAAAAATTAATTTGTTTAC-AAACA
* ** *
12238011 AATTCAAATAGTTATAACGATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGT
64 AATTCAAATAGTTATGATTATTTGAACAATTATCTATTTAAAATCATTATTACCTTTTGTTTTGT
* *
12238076 CATAAAACTATTGTTTCAGTTCATATAAACTTATTCGAAATAAAATAATAG
129 CATAAAACAATTGTTT-AGTTCATA-AAACTTATTCGAAATAAAATAATAC
* * * * * **
12238127 TAATTTATTAATATGTCAAAAACTAATAAG--TGA-TTTAAAAAA-TGATTATGTTTGCCAAATT
1 TAATTTATTAATATTTCAAAAATTAATAAGCAAGAGTTTAAAAAATTAATT-TGTTT-ACAAACA
* * * * * * * *
12238188 AGTTCAAATAATTATGGTTTTTTCAACAATTATCTATTTGAAATCAATATTACCTTTTGTTTGGT
64 AATTCAAATAGTTATGATTATTTGAACAATTATCTATTTAAAATCATTATTACCTTTTGTTTTGT
* ** *
12238253 CATATAACAATTGTTTTTTATCATACAAGC---TTC-AGAATAAAATAATAC
129 CATAAAACAATTGTTTAGT-TCATA-AAACTTATTCGA-AATAAAATAATAC
* *
12238301 TAATTTATTAATATTTCAAAAGTTAATAAGTAAGA
1 TAATTTATTAATATTTCAAAAATTAATAAGCAAGA
12238336 AATTTTAAAA
Statistics
Matches: 329, Mismatches: 49, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
173 1 0.00
174 42 0.13
176 7 0.02
177 88 0.27
178 4 0.01
179 2 0.01
180 4 0.01
181 148 0.45
182 30 0.09
183 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (177 bp):
TAATTTATTAATATTTCAAAAATTAATAAGCAAGAGTTTAAAAAATTAATTTGTTTACAAACAAA
TTCAAATAGTTATGATTATTTGAACAATTATCTATTTAAAATCATTATTACCTTTTGTTTTGTCA
TAAAACAATTGTTTAGTTCATAAAACTTATTCGAAATAAAATAATAC
Found at i:12238592 original size:457 final size:457
Alignment explanation
Indices: 12237964--12238789 Score: 1094
Period size: 457 Copynumber: 1.8 Consensus size: 457
12237954 TAATATTTCA
*
12237964 AAAATTAATAAGCAAGAGTTTAAAAAAATTAATTTGTTTACTGAACAAATTCAAATAGTTATAAC
1 AAAATTAATAAGCAAGAGTTTAAAAAAATAAATTTGTTTACTGAACAAATTCAAATAGTTATAAC
*
12238029 GATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGTCATAAAACTATTGTTTCA
66 GATATGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGTCATAAAACTATTGTTTCA
* * * *
12238094 GTTCATATAAACTTATTCGAAATAAAATAATAGTAATTTATTAATATGTCAAAAACTAATAAGTG
131 ATTCATAT-AACTTATTCAAAATAAAATAAAAGTAATTTATTAATATGTCAAAAACTAATAAGAG
* ** ** * *
12238159 ATTTAAAAAATGATTATGTTTGCCAAATTAGTTCAAATAATTATGGTTTTTTCAACAATTATCTA
195 ATTTAAAAAATAATTATGTTTAACAAACCAGTTCAAATAATTATGATTATTTCAACAATTATCTA
* * * * *
12238224 TTTGAAATCAA-TATTACCTTTTGTTTGGTCATATAACAATTGTTTTTTAT-CATACAAG-CTTC
260 TTTCAAAT-AATTATGACATTTTGTTTGGTCATAAAACAAATG-TTTTTATCCATACAAGTCTTC
* *
12238286 AGAATAAAATAATACTAATTTATTAATATTTCAAAAGTTAATAAGTAAGAAATTTTAAAAATAAA
323 AGAATAAAATAATACTAATCTATTAATATTTCAAAAATTAATAAGTAAGAAATTTTAAAAATAAA
12238351 CTTTTTTTGTTCTGTCATAAAACAATTATTCATGTTCATACAAGCTTATTCTAAATATAATAATA
388 CTTTTTTTGTTCTGTCATAAAACAATTATTCATGTTCATACAAGCTTATTCTAAATATAATAATA
12238416 CTCTG
453 CTCTG
* * *
12238421 AAAATTAATAA-CTAAGAGATTT-AAAAAATAAATTTGTTTATTGAACCAATTTAAATAGTTA-A
1 AAAATTAATAAGC-AAGAG-TTTAAAAAAATAAATTTGTTTACTGAACAAATTCAAATAGTTATA
** * * * *
12238483 GATTATATGAATAATTATCTATTTTAAATCGTTATGACCTTTTGTTTTGTCATAAAA-TAATTTT
64 -ACGATATGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGTCATAAAACT-ATTGT
* * *
12238547 TTCAATTCATACT-AGTTGATTCAAAATAAAATAAAA-TGAATTTATTAATATTTCAAAAATTAA
127 TTCAATTCATA-TAACTT-ATTCAAAATAAAATAAAAGT-AATTTATTAATATGTCAAAAACTAA
* * *
12238610 TAAGAGATTTAACAAATAATTATGTTTAACTAACCAGTTCAAATAATTATGATTATTTGAACAAT
189 TAAGAGATTTAAAAAATAATTATGTTTAACAAACCAGTTCAAATAATTATGATTATTTCAACAAT
* * *
12238675 TATTTATTTCAAATAATTATGACATTTTGTTTTGTCATAAAACAAATGTTTTTATCCATATAAGT
254 TATCTATTTCAAATAATTATGACATTTTGTTTGGTCATAAAACAAATGTTTTTATCCATACAAG-
* * * * *
12238740 TTGTTCGGAATAAATTAATACTACTCTATTAATATTTTAAAAATTAATAA
318 -TCTTCAGAATAAAATAATACTAATCTATTAATATTTCAAAAATTAATAA
12238790 TAGATCTAAA
Statistics
Matches: 314, Mismatches: 43, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
456 16 0.05
457 253 0.81
458 4 0.01
460 41 0.13
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (457 bp):
AAAATTAATAAGCAAGAGTTTAAAAAAATAAATTTGTTTACTGAACAAATTCAAATAGTTATAAC
GATATGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGTCATAAAACTATTGTTTCA
ATTCATATAACTTATTCAAAATAAAATAAAAGTAATTTATTAATATGTCAAAAACTAATAAGAGA
TTTAAAAAATAATTATGTTTAACAAACCAGTTCAAATAATTATGATTATTTCAACAATTATCTAT
TTCAAATAATTATGACATTTTGTTTGGTCATAAAACAAATGTTTTTATCCATACAAGTCTTCAGA
ATAAAATAATACTAATCTATTAATATTTCAAAAATTAATAAGTAAGAAATTTTAAAAATAAACTT
TTTTTGTTCTGTCATAAAACAATTATTCATGTTCATACAAGCTTATTCTAAATATAATAATACTC
TG
Found at i:12238772 original size:177 final size:175
Alignment explanation
Indices: 12238433--12238805 Score: 414
Period size: 177 Copynumber: 2.1 Consensus size: 175
12238423 AATTAATAAC
* * * *
12238433 TAAGAGATTTAAAAAATAAATTTGTTTATTGAACCAATTTAAATAGTTAAGATTATATGAATAAT
1 TAAGAGATTTAAAAAAT-AATTTGTTTACTGAACCAATTCAAATAATTAAGATTATATGAACAAT
* ** * * *
12238498 TATCTATTTTAAATCGTTATGACCTTTTGTTTTGTCATAAAATAATTTTTTCAATTCATACTAGT
65 TATCTATTTCAAATAATTATGACATTTTGTTTTGTCATAAAAAAATTTTTT-AATCCATACTAGT
*
12238563 TGATTCAAAATAAAATAAAATGAATTTATTAATATTTCAAAAATTAA
129 TGATTCAAAATAAAATAAAATGAATCTATTAATATTTCAAAAATTAA
* * * *
12238610 TAAGAGATTTAACAAATAATTATGTTTAACT-AACCAGTTCAAATAATTATGATTATTTGAACAA
1 TAAGAGATTTAAAAAATAATT-TGTTT-ACTGAACCAATTCAAATAATTAAGATTATATGAACAA
*
12238674 TTATTTATTTCAAATAATTATGACATTTTGTTTTGTCATAAAACAAATGTTTTT-ATCCATA-TA
64 TTATCTATTTCAAATAATTATGACATTTTGTTTTGTCATAAAA-AAAT-TTTTTAATCCATACT-
** * * * *
12238737 AGTTTG-TTCGGAATAAATTAATACT-ACTCTATTAATATTTTAAAAATTAA
126 AG-TTGATTCAAAATAAAATAA-AATGAATCTATTAATATTTCAAAAATTAA
* *
12238787 TAATAGATCTAAAAAATAA
1 TAAGAGATTTAAAAAATAA
12238806 ATCTTTTTAG
Statistics
Matches: 164, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
176 5 0.03
177 144 0.88
178 10 0.06
179 5 0.03
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (175 bp):
TAAGAGATTTAAAAAATAATTTGTTTACTGAACCAATTCAAATAATTAAGATTATATGAACAATT
ATCTATTTCAAATAATTATGACATTTTGTTTTGTCATAAAAAAATTTTTTAATCCATACTAGTTG
ATTCAAAATAAAATAAAATGAATCTATTAATATTTCAAAAATTAA
Found at i:12238883 original size:23 final size:25
Alignment explanation
Indices: 12238853--12238902 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
12238843 TTAAGATAAT
*
12238853 TAATAATAAATT-A-TAAGTATTTA
1 TAATAATAAATTAATTAAATATTTA
*
12238876 TAATAATAATTTAATTAAATATTTA
1 TAATAATAAATTAATTAAATATTTA
12238901 TA
1 TA
12238903 TTTTAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TAATAATAAATTAATTAAATATTTA
Found at i:12238909 original size:27 final size:26
Alignment explanation
Indices: 12238879--12238952 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 26
12238869 GTATTTATAA
*
12238879 TAATAATTTAATTAAATATTTATATTT
1 TAATAATTAAATT-AATATTTATATTT
12238906 TAATTAATTCAAA-TAATA-TTATATTT
1 TAA-TAATT-AAATTAATATTTATATTT
*
12238932 TTATAAATTAAATTTAATATT
1 TAAT-AATTAAA-TTAATATT
12238953 ATAAGTCCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
25 4 0.10
26 14 0.36
27 12 0.31
28 7 0.18
29 2 0.05
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (26 bp):
TAATAATTAAATTAATATTTATATTT
Found at i:12238953 original size:27 final size:27
Alignment explanation
Indices: 12238879--12238955 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
12238869 GTATTTATAA
* *
12238879 TAAT-AATTTAATTAAATATTTATATTT
1 TAATAAATTAAATTTAATA-TTATATTT
*
12238906 TAATTAATTCAAA--TAATATTATATTT
1 TAATAAATT-AAATTTAATATTATATTT
*
12238932 TTATAAATTAAATTTAATATTATA
1 TAATAAATTAAATTTAATATTATA
12238956 AGTCCAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
25 3 0.07
26 15 0.36
27 18 0.43
28 4 0.10
29 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (27 bp):
TAATAAATTAAATTTAATATTATATTT
Found at i:12239447 original size:17 final size:17
Alignment explanation
Indices: 12239425--12239460 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
12239415 AAATCTTTAC
12239425 TTATTAATTTTAG-AATA
1 TTATTAA-TTTAGCAATA
12239442 TTATTAATTTAGCAATA
1 TTATTAATTTAGCAATA
12239459 TT
1 TT
12239461 TTACTCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
TTATTAATTTAGCAATA
Found at i:12240275 original size:24 final size:23
Alignment explanation
Indices: 12240247--12240303 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 23
12240237 AATAATGTGA
*
12240247 AATATTTA-TGTTAATAGATATAAT
1 AATATTTAGTATTAATA-AT-TAAT
12240271 AATATATTAGTATTAATAATTAAT
1 AATAT-TTAGTATTAATAATTAAT
12240295 AATTATTTA
1 AA-TATTTA
12240304 AAAATTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 14 0.48
25 8 0.28
26 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (23 bp):
AATATTTAGTATTAATAATTAAT
Found at i:12240329 original size:15 final size:15
Alignment explanation
Indices: 12240309--12240341 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
12240299 ATTTAAAAAT
*
12240309 TTAATATATTTAATA
1 TTAATATAATTAATA
12240324 TTAATATAATTAATA
1 TTAATATAATTAATA
12240339 TTA
1 TTA
12240342 TATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:12240441 original size:21 final size:18
Alignment explanation
Indices: 12240406--12240487 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 18
12240396 TTAATAACCT
*
12240406 TTAATTATAATTAATTTA
1 TTAAATATAATTAATTTA
*
12240424 CTTAAAGTATTATTTAA-TTA
1 -TTAAA-TA-TAATTAATTTA
12240444 TTAAATATAATTAATTTAA
1 TTAAATATAATTAATTT-A
* *
12240463 TTTAATTTAA-T-ATTCTA
1 TTAAATATAATTAATT-TA
12240480 TTAAATAT
1 TTAAATAT
12240488 TTAACAATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 16 0.31
18 6 0.12
19 18 0.35
20 5 0.10
21 6 0.12
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (18 bp):
TTAAATATAATTAATTTA
Found at i:12240652 original size:8 final size:8
Alignment explanation
Indices: 12240621--12240682 Score: 54
Period size: 8 Copynumber: 7.2 Consensus size: 8
12240611 TTATTTTATA
*
12240621 TATAATAG
1 TATAATAT
12240629 TATAATAACT
1 TATAAT-A-T
12240639 TGATAATAT
1 T-ATAATAT
12240648 TATAACTAT
1 TATAA-TAT
12240657 TATAATAT
1 TATAATAT
*
12240665 TATTAT-T
1 TATAATAT
12240672 TGATAATAT
1 T-ATAATAT
12240681 TA
1 TA
12240683 ACTATAATAG
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
7 2 0.04
8 23 0.51
9 13 0.29
10 2 0.04
11 5 0.11
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (8 bp):
TATAATAT
Found at i:12240654 original size:16 final size:16
Alignment explanation
Indices: 12240633--12240682 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
12240623 TAATAGTATA
12240633 ATAACTTGATAATATT
1 ATAACTTGATAATATT
*
12240649 ATAACTATTATAATATT
1 ATAACT-TGATAATATT
* *
12240666 ATTATTTGATAATATT
1 ATAACTTGATAATATT
12240682 A
1 A
12240683 ACTATAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (16 bp):
ATAACTTGATAATATT
Found at i:12240808 original size:27 final size:26
Alignment explanation
Indices: 12240773--12240823 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
12240763 ATAATATTTG
12240773 ATTTATAGTATAATATAATATTATATA
1 ATTTATAGTATAATATAA-ATTATATA
*
12240800 ATTTATAGTTTAATATAAATTATA
1 ATTTATAGTATAATATAAATTATA
12240824 AGTAACAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
ATTTATAGTATAATATAAATTATATA
Found at i:12240899 original size:18 final size:19
Alignment explanation
Indices: 12240868--12240928 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 19
12240858 TATATTATGA
12240868 TAATAATTAATTATTATTAAT
1 TAATAATT--TTATTATTAAT
12240889 TAAT-ATTTTA-TATTTAAT
1 TAATAATTTTATTA-TTAAT
* *
12240907 TTATAATTTATATTATAAAT
1 TAATAATTT-TATTATTAAT
12240927 TA
1 TA
12240929 TTAAATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
17 2 0.06
18 11 0.33
19 4 0.12
20 10 0.30
21 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TAATAATTTTATTATTAAT
Found at i:12240992 original size:12 final size:12
Alignment explanation
Indices: 12240900--12240993 Score: 50
Period size: 12 Copynumber: 7.4 Consensus size: 12
12240890 AATATTTTAT
*
12240900 ATTTAATTTATA
1 ATTTAATTAATA
12240912 ATTTATATT-ATA
1 ATTTA-ATTAATA
*
12240924 AATT-ATTAAATATA
1 ATTTAATT--A-ATA
*
12240938 ATATAATATAATA
1 ATTTAAT-TAATA
12240951 TGATTT-ATTAATA
1 --ATTTAATTAATA
* *
12240964 ATATAATTAAAA
1 ATTTAATTAATA
12240976 TATTTAATTAATA
1 -ATTTAATTAATA
12240989 ATTTA
1 ATTTA
12240994 TAATTATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 22
0.68 0.09 0.24
Matches are distributed among these distances:
10 3 0.05
11 3 0.05
12 22 0.35
13 21 0.33
14 8 0.13
15 5 0.08
16 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (12 bp):
ATTTAATTAATA
Found at i:12241197 original size:9 final size:9
Alignment explanation
Indices: 12241180--12241223 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
12241170 TACTAATTTA
*
12241180 TATATTTAT
1 TATAATTAT
12241189 TATAATTAT
1 TATAATTAT
*
12241198 TA-AATAAT
1 TATAATTAT
*
12241206 TATAATAAT
1 TATAATTAT
12241215 TATAATTAT
1 TATAATTAT
12241224 ATTAAGATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
8 7 0.23
9 24 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TATAATTAT
Found at i:12241385 original size:13 final size:13
Alignment explanation
Indices: 12241369--12241398 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12241359 AATTATATAA
*
12241369 TATTATAATAGTT
1 TATTATAATAGCT
12241382 TATTATAATAGCT
1 TATTATAATAGCT
12241395 TATT
1 TATT
12241399 TTGAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (13 bp):
TATTATAATAGCT
Found at i:12242361 original size:13 final size:12
Alignment explanation
Indices: 12242331--12242364 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
12242321 TTATATTTGA
12242331 ATTAATA-TACT
1 ATTAATATTACT
12242342 ATTAATATTACT
1 ATTAATATTACT
12242354 ACTTAATATTA
1 A-TTAATATTA
12242365 AGTCTTGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 5 0.24
13 9 0.43
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTAATATTACT
Found at i:12242678 original size:23 final size:23
Alignment explanation
Indices: 12242651--12242695 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12242641 TTTAAAATAA
12242651 ATTGTATAACAAT-TAATTAATTT
1 ATTGTATAACAATATAA-TAATTT
*
12242674 ATTGTATAATAATATAATAATT
1 ATTGTATAACAATATAATAATT
12242696 AACAATTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
ATTGTATAACAATATAATAATTT
Found at i:12242729 original size:27 final size:26
Alignment explanation
Indices: 12242674--12242729 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
12242664 TAATTAATTT
* *
12242674 ATTGTATAATAATATAATAATTAACA
1 ATTGTATAATAATACAATAATTAAAA
*
12242700 ATTGTATAGTTAATACAATAA-TAATAA
1 ATTGTATA-ATAATACAATAATTAA-AA
12242727 ATT
1 ATT
12242730 AATAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (26 bp):
ATTGTATAATAATACAATAATTAAAA
Found at i:12242741 original size:19 final size:20
Alignment explanation
Indices: 12242709--12242746 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
12242699 AATTGTATAG
* *
12242709 TTAATACAATAATA-ATAAA
1 TTAATAAAAAAATATATAAA
12242728 TTAATAAAAAAATATATAA
1 TTAATAAAAAAATATATAA
12242747 TTTTTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TTAATAAAAAAATATATAAA
Found at i:12242937 original size:20 final size:20
Alignment explanation
Indices: 12242901--12242944 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
12242891 TAATTATCGA
*
12242901 TTAT-AACTAATCTAATAAT
1 TTATAAACTAATCAAATAAT
*
12242920 TTATAAACTATTCAAATAAT
1 TTATAAACTAATCAAATAAT
*
12242940 GTATA
1 TTATA
12242945 TTTTAGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (20 bp):
TTATAAACTAATCAAATAAT
Found at i:12243006 original size:16 final size:17
Alignment explanation
Indices: 12242987--12243033 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
12242977 TTATTCATAA
12242987 AACTAATTA-TAATTAT
1 AACTAATTATTAATTAT
12243003 AACTAATTATTAATTA-
1 AACTAATTATTAATTAT
12243019 AA-T-ATT-TTAATTAT
1 AACTAATTATTAATTAT
12243033 A
1 A
12243034 TTATTAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.24
14 4 0.14
15 1 0.03
16 11 0.38
17 6 0.21
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
AACTAATTATTAATTAT
Found at i:12243079 original size:29 final size:30
Alignment explanation
Indices: 12243019--12243090 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
12243009 TTATTAATTA
*
12243019 AATATTTTAATTATATTATTAATAAATCAT
1 AATATATTAATTATATTATTAATAAATCAT
* *
12243049 AATATATTATATTATA-T-TTAATAATTTAT
1 AATATATTA-ATTATATTATTAATAAATCAT
12243078 AATATA--AATTATA
1 AATATATTAATTATA
12243091 AATAAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 6 0.16
27 1 0.03
29 16 0.42
30 9 0.24
31 6 0.16
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (30 bp):
AATATATTAATTATATTATTAATAAATCAT
Found at i:12243097 original size:11 final size:11
Alignment explanation
Indices: 12243068--12243104 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
12243058 TATTATATTT
*
12243068 AATAATTTATA
1 AATAAATTATA
12243079 ATATAAATTATA
1 A-ATAAATTATA
12243091 AATAAATTATA
1 AATAAATTATA
12243102 AAT
1 AAT
12243105 TATTAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AATAAATTATA
Found at i:12243120 original size:18 final size:17
Alignment explanation
Indices: 12243077--12243116 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
12243067 TAATAATTTA
12243077 TAATATAAATTATAAAT
1 TAATATAAATTATAAAT
* *
12243094 AAATTATAAATTATTAAT
1 TAA-TATAAATTATAAAT
12243112 TAATA
1 TAATA
12243117 ATAATTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATATAAATTATAAAT
Found at i:12243418 original size:20 final size:19
Alignment explanation
Indices: 12243393--12243483 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 19
12243383 GTTATTAAAT
*
12243393 TAAATAAGTATTTAATTATA
1 TAAATAAAT-TTTAATTATA
12243413 TAAATATAATTATTAATT-TAA
1 TAAATA-AATT-TTAATTAT-A
*
12243434 TTAATTAATAATTAATTAATTATA
1 -TAAAT-A-AATT--TTAATTATA
12243458 TAAGATAAATTTTAATTATA
1 TAA-ATAAATTTTAATTATA
12243478 TAAATA
1 TAAATA
12243484 TTAATAATTA
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
19 3 0.05
20 20 0.33
21 9 0.15
22 8 0.13
23 10 0.17
24 9 0.15
25 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TAAATAAATTTTAATTATA
Found at i:12243439 original size:4 final size:4
Alignment explanation
Indices: 12243390--12243455 Score: 55
Period size: 4 Copynumber: 16.2 Consensus size: 4
12243380 ATTGTTATTA
* * * *
12243390 AATT AAAT AAGT ATTT AATT ATATA AATAT AATT -ATT AATTT AATT AATT
1 AATT AATT AATT AATT AATT A-ATT AAT-T AATT AATT AA-TT AATT AATT
12243440 AA-T AATT AATT AATT A
1 AATT AATT AATT AATT A
12243456 TATAAGATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
3 6 0.12
4 34 0.68
5 10 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:12243492 original size:24 final size:24
Alignment explanation
Indices: 12243395--12243493 Score: 72
Period size: 24 Copynumber: 4.3 Consensus size: 24
12243385 TATTAAATTA
*
12243395 AATAAGTATTTAATTATATAA-A-T
1 AATAATTA-TTAATTATATAAGATT
*
12243418 -ATAATTATTAATT-TAATTA-ATT
1 AATAATTATTAATTAT-ATAAGATT
12243440 AATAATTAATTAATTATATAAGA-T
1 AATAATT-ATTAATTATATAAGATT
*
12243464 -A-AATT-TTAATTATATAAATATT
1 AATAATTATTAATTATAT-AAGATT
12243486 AATAATTA
1 AATAATTA
12243494 GCTATAAGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
20 11 0.18
21 13 0.21
22 12 0.20
23 8 0.13
24 15 0.25
25 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
AATAATTATTAATTATATAAGATT
Found at i:12244063 original size:180 final size:177
Alignment explanation
Indices: 12243780--12244277 Score: 493
Period size: 180 Copynumber: 2.8 Consensus size: 177
12243770 GATCAAGTTG
* * * *
12243780 AAATAGTTATGACTATCTAAACAATTATTTATTTCAAAACATTATGACATTTTGTTTTGTTATAA
1 AAATAGTTATGATTATTTGAACAATTATTTATTTCAAATCATTATGACA-TTTGTTTTGTTATAA
* * * * *
12243845 GACAATTGGTTCTGTTCATGCAAGCATAAGTTGAATAAAATAATATAAATTTATTAATATTCCAA
65 -ACAATTGTTTCTGTTCATACAAG-TTTATTTGAATAAAATAATAT-AATTTATTAATATTCCAA
* * *
12243910 AAATTAATAAGTATAA-TTTTAGAAAATAAAGCTATTT-TCTGA-ACACATTA
127 AAATTAATAAGTAAAAGATTTAAAAAATAAAGCTATTTATC-GAGACA-ATTA
* ** **
12243960 AAATAGTTATGATTATTTGAACAATTATCTATTTCAAATCATTATGACCATTCATTTTGCCATAA
1 AAATAGTTATGATTATTTGAACAATTATTTATTTCAAATCATTATGA-CATTTGTTTTGTTATAA
* * *
12244025 ACCAATTGTTTTTGTTCAAACAAGTTTATTTGGAATAAAATAAT-TCCAATTAATTAATATTCC-
65 A-CAATTGTTTCTGTTCATACAAGTTTATTT-GAATAAAATAATAT--AATTTATTAATATTCCA
** * ** * *
12244088 AAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTATCGAGTGAGTTC
126 AAAATTAATAAGTAAAAGATTTAAAAAATAAAGCTATTTATCGAGACAATTA
* * * *
12244140 AAATAGTTTTGATTGTTTGAACAATTATTTATTTCAAATTATTATGATCTTTTGTTTTGTTATAA
1 AAATAGTTATGATTATTTGAACAATTATTTATTTCAAATCATTATGA-CATTTGTTTTGTTAT-A
* * * * **
12244205 AACAATTATTTCTATTCATACAAGTTTATTTTGAATAAAATAATACTAATATATTAACATTTTAA
64 AACAATTGTTTCTGTTCATACAAGTTTA-TTTGAATAAAATAATA-TAATTTATTAATATTCCAA
12244270 AAATTAAT
127 AAATTAAT
12244278 TAGTTTACCA
Statistics
Matches: 259, Mismatches: 47, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
179 22 0.08
180 216 0.83
181 20 0.08
182 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (177 bp):
AAATAGTTATGATTATTTGAACAATTATTTATTTCAAATCATTATGACATTTGTTTTGTTATAAA
CAATTGTTTCTGTTCATACAAGTTTATTTGAATAAAATAATATAATTTATTAATATTCCAAAAAT
TAATAAGTAAAAGATTTAAAAAATAAAGCTATTTATCGAGACAATTA
Found at i:12244699 original size:10 final size:10
Alignment explanation
Indices: 12244684--12244714 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
12244674 ATTTAGTAAA
12244684 TTAATTATAT
1 TTAATTATAT
12244694 TTAATTATAT
1 TTAATTATAT
12244704 TATAATTATAT
1 T-TAATTATAT
12244715 GAAATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.55
11 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTAATTATAT
Found at i:12244710 original size:21 final size:22
Alignment explanation
Indices: 12244685--12244728 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
12244675 TTTAGTAAAT
**
12244685 TAATTATATTTAATTAT-ATTA
1 TAATTATATGAAATTATAATTA
12244706 TAATTATATGAAATTATAATTA
1 TAATTATATGAAATTATAATTA
12244728 T
1 T
12244729 TAAATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATTATATGAAATTATAATTA
Found at i:12244737 original size:16 final size:17
Alignment explanation
Indices: 12244700--12244737 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
12244690 ATATTTAATT
*
12244700 ATATTATAATTATATGA
1 ATATTATAATTATATAA
12244717 A-ATTATAATTAT-TAA
1 ATATTATAATTATATAA
12244732 ATATTA
1 ATATTA
12244738 ATAAATTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 3 0.16
16 15 0.79
17 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATATTATAATTATATAA
Found at i:12244895 original size:24 final size:22
Alignment explanation
Indices: 12244856--12244899 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
12244846 AATATGTTTA
12244856 TTAGTTTAAAACTAATTATATAG
1 TTAGTTTAAAACTAA-TATATAG
12244879 TTAGTTTTAAATA-TAATATAT
1 TTAG-TTTAAA-ACTAATATAT
12244900 TTTAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 9 0.47
24 9 0.47
25 1 0.05
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAGTTTAAAACTAATATATAG
Found at i:12244936 original size:27 final size:26
Alignment explanation
Indices: 12244885--12244939 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
12244875 ATAGTTAGTT
*
12244885 TTAAATATAATATATTTTAATTATAA
1 TTAAATATAATATATTTTAACTATAA
*
12244911 TTAAA-ATAATATATATTATTACTATAA
1 TTAAATATAATATAT-TT-TAACTATAA
12244938 TT
1 TT
12244940 GTTTTAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.36
26 7 0.28
27 9 0.36
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
TTAAATATAATATATTTTAACTATAA
Found at i:12245263 original size:13 final size:14
Alignment explanation
Indices: 12245247--12245275 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12245237 ATACTATATT
12245247 TAATTAT-ATATAA
1 TAATTATCATATAA
12245260 TAATTATCATATAA
1 TAATTATCATATAA
12245274 TA
1 TA
12245276 TAAATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTATCATATAA
Found at i:12245970 original size:6 final size:6
Alignment explanation
Indices: 12245945--12246045 Score: 58
Period size: 5 Copynumber: 17.3 Consensus size: 6
12245935 TACCAAATTA
*
12245945 ATTAA- ATTAAAT ATTTAT ATTAAT ATTTAAAT ATTAAT A-TAA- ATTAAT
1 ATTAAT ATT-AAT ATTAAT ATTAAT A-TT-AAT ATTAAT ATTAAT ATTAAT
* *
12245993 ATTAAT ATTTTAAT -TTAA- ATTAAT -TT-AT AATAA- ATTATAT ATTTAT
1 ATTAAT A--TTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTA-AT ATTAAT
12246039 -TTAAT AT
1 ATTAAT AT
12246046 ATTATACAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 29
0.68 0.05 0.26
Matches are distributed among these distances:
4 3 0.04
5 27 0.36
6 26 0.35
7 10 0.13
8 9 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATTAAT
Found at i:12245982 original size:36 final size:38
Alignment explanation
Indices: 12245940--12246045 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 38
12245930 CTATTTACCA
12245940 AATTAATTAAATTAAATATTTATATTAATATTTAAA-T
1 AATTAATTAAATTAAATATTTATATTAATATTTAAATT
* *
12245977 -ATTAATATAAATT-AATATTAATATT-TTAATTTAAATT
1 AATTAAT-TAAATTAAATATTTATATTAAT-ATTTAAATT
* *
12246014 AATTTATAATAAATTATATATTTAT-TTAATAT
1 AA-TTA-ATTAAATTAAATATTTATATTAATAT
12246046 ATTATACAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
35 1 0.02
36 24 0.44
37 7 0.13
38 1 0.02
39 13 0.24
40 9 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (38 bp):
AATTAATTAAATTAAATATTTATATTAATATTTAAATT
Found at i:12245992 original size:24 final size:24
Alignment explanation
Indices: 12245963--12246059 Score: 80
Period size: 24 Copynumber: 4.2 Consensus size: 24
12245953 AAATATTTAT
12245963 ATTAATATTTAA-ATATTAATATAA
1 ATTAATA-TTAATATATTAATATAA
* *
12245987 ATTAATATTAATATTTTAATTTAA
1 ATTAATATTAATATATTAATATAA
* *
12246011 ATTAAT-TT-ATA-ATAAATTATAT
1 ATTAATATTAATATATTAA-TATAA
* *
12246033 ATTTAT-TTAATATATT-ATACAA
1 ATTAATATTAATATATTAATATAA
12246055 ATTAA
1 ATTAA
12246060 GTTAACAGAT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
21 3 0.05
22 20 0.34
23 10 0.17
24 25 0.43
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTAATATTAATATATTAATATAA
Found at i:12245995 original size:16 final size:17
Alignment explanation
Indices: 12245941--12246000 Score: 70
Period size: 16 Copynumber: 3.5 Consensus size: 17
12245931 TATTTACCAA
12245941 ATTAAT-TAAATTAAAT
1 ATTAATATAAATTAAAT
*
12245957 ATTTATATTAATATTTAAAT
1 ATTAATA-TAA-A-TTAAAT
12245977 ATTAATATAAATT-AAT
1 ATTAATATAAATTAAAT
12245993 ATTAATAT
1 ATTAATAT
12246001 TTTAATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 16 0.42
17 2 0.05
18 4 0.11
19 4 0.11
20 12 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTAATATAAATTAAAT
Found at i:12246106 original size:16 final size:16
Alignment explanation
Indices: 12246085--12246126 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
12246075 TTTGAATTAT
12246085 ATTAATA-AATATATAA
1 ATTAATATAAT-TATAA
12246101 ATTAATATAATTATAA
1 ATTAATATAATTATAA
*
12246117 CCTTAATATA
1 -ATTAATATA
12246127 GAGATTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTAATATAATTATAA
Found at i:12246596 original size:176 final size:174
Alignment explanation
Indices: 12246298--12246689 Score: 418
Period size: 176 Copynumber: 2.2 Consensus size: 174
12246288 TATTTAATAA
* * * * *
12246298 TTTGTCATAAAACAATTGTTT-CTGTTCATA-TAGAATTATTCAAAATAAAATAATTTGATTTAT
1 TTTGTCATAAAACAATTGTTTCCT-TTCATACAAG-CTTATTCAAAATAAAATAATCTAATTTAA
* * *
12246361 TAATATTTTAAAAATTAATAAGAGATTTTAAAACTAAATCTATTTACTAAACCAGTTCAAATAGT
64 TAATATTTCAAAAATTAATAAGAGATTTAAAAACTAAA-CTATTTACCAAACCAGTTCAAATAGT
* * ***
12246426 TATGACTATTTGAACAATTATCTATCTCAAATCATAATGAT-CTTTAT-
128 TAAGACAATCAAAACAATTATCTATCTCAAATCATAAT-ATCCTTT-TG
* * * *
12246473 TTTGTCATACAACAATTGTTTCCTTTCATACAAGCTTATTCGAATTAAAATGATACTAATTTAAT
1 TTTGTCATAAAACAATTGTTTCCTTTCATACAAGCTTATTCAAAATAAAATAAT-CTAATTTAAT
* *
12246538 AATATTTCAAAAATTAATAAGAGATTTAAAAAAC-AAA-TATGTTAGCCGAACTAGTTCAAATAG
65 AATATTTCAAAAATTAATAAGAGATTT-AAAAACTAAACTAT-TTA-CCAAACCAGTTCAAATAG
* * **
12246601 TTAAGACAATCAAAATAATTATCTATTTCAAATCATTCTATCCTTTTG
127 TTAAGACAATCAAAACAATTATCTATCTCAAATCATAATATCCTTTTG
* **
12246649 TTTAGTCATAAAACAATTATTTCAGTTCATACAAGCTTATT
1 TTT-GTCATAAAACAATTGTTTCCTTTCATACAAGCTTATT
12246690 TGGAATAAAA
Statistics
Matches: 181, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
174 3 0.02
175 48 0.27
176 92 0.51
177 38 0.21
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (174 bp):
TTTGTCATAAAACAATTGTTTCCTTTCATACAAGCTTATTCAAAATAAAATAATCTAATTTAATA
ATATTTCAAAAATTAATAAGAGATTTAAAAACTAAACTATTTACCAAACCAGTTCAAATAGTTAA
GACAATCAAAACAATTATCTATCTCAAATCATAATATCCTTTTG
Found at i:12246832 original size:23 final size:24
Alignment explanation
Indices: 12246786--12246836 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
12246776 TAGTTTTATG
*
12246786 AATAATAATCATATATAATCTATTA
1 AATAATAAT-ATAAATAATCTATTA
*
12246811 AATAATAAT-TAAATAATTTATTA
1 AATAATAATATAAATAATCTATTA
12246834 AAT
1 AAT
12246837 TTAATAGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 15 0.62
25 9 0.38
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (24 bp):
AATAATAATATAAATAATCTATTA
Found at i:12247635 original size:19 final size:19
Alignment explanation
Indices: 12247611--12247656 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
12247601 AAGGTGTATA
*
12247611 ATTAATTTAAAAATTAATT
1 ATTAATATAAAAATTAATT
* *
12247630 ATTAATATAACATTTAATT
1 ATTAATATAAAAATTAATT
12247649 ATCTAATA
1 AT-TAATA
12247657 ATATTATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTAATATAAAAATTAATT
Found at i:12247687 original size:6 final size:6
Alignment explanation
Indices: 12247668--12247708 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
12247658 TATTATTAAC
12247668 ATAATT AT-ATT ATAATT ATAA-- AGTAATT ATAATT ATAATT A
1 ATAATT ATAATT ATAATT ATAATT A-TAATT ATAATT ATAATT A
12247709 CTACAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 1 0.03
5 8 0.26
6 21 0.68
7 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:12247688 original size:17 final size:16
Alignment explanation
Indices: 12247668--12247708 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
12247658 TATTATTAAC
12247668 ATAATTATATTATAATT
1 ATAATTA-ATTATAATT
*
12247685 ATAAAGTAATTATAATT
1 AT-AATTAATTATAATT
12247702 ATAATTA
1 ATAATTA
12247709 CTACAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 4 0.19
17 13 0.62
18 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
ATAATTAATTATAATT
Found at i:12247723 original size:23 final size:23
Alignment explanation
Indices: 12247659--12247728 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 23
12247649 ATCTAATAAT
*
12247659 ATTATTAACATAATTAT-ATTATA
1 ATTA-TAAAATAATTATAATTATA
*
12247682 ATTATAAAGTAATTATAATTATA
1 ATTATAAAATAATTATAATTATA
*
12247705 ATTACTACAAATATTTAATAATTA
1 ATTA-TA-AAATAATT-ATAATTA
12247729 AAGTATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 10 0.26
23 14 0.36
24 2 0.05
25 6 0.15
26 7 0.18
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (23 bp):
ATTATAAAATAATTATAATTATA
Found at i:12248166 original size:26 final size:26
Alignment explanation
Indices: 12248119--12248185 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
12248109 TAGTTAATTA
*
12248119 ATTATAAAATTAATTATATTATATTAAT
1 ATTAT-AAACTAATTATATTATA-TAAT
* *
12248147 GTTATAAACTAATTAT-TTATATATT
1 ATTATAAACTAATTATATTATATAAT
12248172 ATTATTAAACTAAT
1 ATTA-TAAACTAAT
12248186 ATCTAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 6 0.18
26 14 0.41
27 10 0.29
28 4 0.12
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (26 bp):
ATTATAAACTAATTATATTATATAAT
Found at i:12248212 original size:35 final size:34
Alignment explanation
Indices: 12248171--12248251 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 34
12248161 ATTTATATAT
12248171 TATTATTAA-ACTAATATCT-AATTAACTATTAATAA
1 TATTATTAATACTAATATCTGAATTAA--ATTAAT-A
* *
12248206 TATTATTAATATTAATATGTGAATTAAATTAATA
1 TATTATTAATACTAATATCTGAATTAAATTAATA
12248240 TAATTATTAATA
1 T-ATTATTAATA
12248252 ATCAAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
34 2 0.05
35 25 0.61
36 8 0.20
37 6 0.15
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (34 bp):
TATTATTAATACTAATATCTGAATTAAATTAATA
Found at i:12249370 original size:13 final size:13
Alignment explanation
Indices: 12249348--12249377 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12249338 NNNNNNNNNN
*
12249348 AATAAGCTATTAT
1 AATAAACTATTAT
12249361 AATAAACTATTAT
1 AATAAACTATTAT
12249374 AATA
1 AATA
12249378 TTATATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (13 bp):
AATAAACTATTAT
Found at i:12249792 original size:5 final size:5
Alignment explanation
Indices: 12249765--12249808 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
12249755 AAATATTTTA
* * *
12249765 ATTAT ATTATT AATAA ATCAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
12249809 TAATAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:12249843 original size:18 final size:18
Alignment explanation
Indices: 12249820--12249856 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12249810 AATAATTTAT
*
12249820 AATATAAATTATAAATTA
1 AATATAAAATATAAATTA
*
12249838 AATATAAAATATTAATTA
1 AATATAAAATATAAATTA
12249856 A
1 A
12249857 TAATAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATATAAAATATAAATTA
Found at i:12249862 original size:18 final size:19
Alignment explanation
Indices: 12249812--12249862 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
12249802 TTATATTTAA
*
12249812 TAATTTATAATATAAATTAT
1 TAATTAATAATA-AAATTAT
*
12249832 AAATTAA-ATATAAAA-TAT
1 TAATTAATA-ATAAAATTAT
12249850 TAATTAATAATAA
1 TAATTAATAATAA
12249863 TTAATTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 13 0.50
19 5 0.19
20 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATTAATAATAAAATTAT
Found at i:12249877 original size:15 final size:15
Alignment explanation
Indices: 12249833--12249887 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 15
12249823 ATAAATTATA
* *
12249833 AATTAAATATAAAAT
1 AATTAATTATATAAT
12249848 -ATTAATTA-ATAAT
1 AATTAATTATATAAT
*
12249861 AATTAATTATATCAT
1 AATTAATTATATAAT
12249876 AA-TATATTATAT
1 AATTA-ATTATAT
12249888 TATTCTAGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.12
14 17 0.50
15 13 0.38
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAATTATATAAT
Found at i:12249955 original size:27 final size:26
Alignment explanation
Indices: 12249916--12249966 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
12249906 AATTGTTACT
12249916 TATAATTTATATTAAACTATAAATTA
1 TATAATTTATATTAAACTATAAATTA
**
12249942 TATAATATTATATTATGCTATAAAT
1 TATAAT-TTATATTAAACTATAAAT
12249967 CAAATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
TATAATTTATATTAAACTATAAATTA
Found at i:12250085 original size:8 final size:8
Alignment explanation
Indices: 12250057--12250118 Score: 54
Period size: 8 Copynumber: 7.2 Consensus size: 8
12250047 CTATTATAGT
12250057 TAATATTA
1 TAATATTA
*
12250065 TCAA-ATAA
1 T-AATATTA
12250073 TAATATTA
1 TAATATTA
12250081 TAATAGTTA
1 TAATA-TTA
12250090 TAATATTA
1 TAATATTA
12250098 TCAAGTTATTA
1 T-AA--TATTA
*
12250109 TACTATTA
1 TAATATTA
12250117 TA
1 TA
12250119 TATAAAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
7 2 0.04
8 24 0.53
9 12 0.27
10 1 0.02
11 6 0.13
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (8 bp):
TAATATTA
Found at i:12250106 original size:16 final size:16
Alignment explanation
Indices: 12250057--12250106 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
12250047 CTATTATAGT
* *
12250057 TAATATTATCAAATAA
1 TAATATTATCAAGTTA
*
12250073 TAATATTATAATAGTTA
1 TAATATTATCA-AGTTA
12250090 TAATATTATCAAGTTA
1 TAATATTATCAAGTTA
12250106 T
1 T
12250107 TATACTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (16 bp):
TAATATTATCAAGTTA
Found at i:12250321 original size:21 final size:19
Alignment explanation
Indices: 12250278--12250323 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
12250268 TAAATTAAAT
*
12250278 TAAATT-AATTATATTTAA
1 TAAATTAAATAATATTTAA
12250296 T-AATTAAATAATACTTTAA
1 TAAATTAAATAATA-TTTAA
12250315 GTAAATTAA
1 -TAAATTAA
12250324 TTATAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 7 0.30
19 5 0.22
20 1 0.04
21 6 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
TAAATTAAATAATATTTAA
Found at i:12250416 original size:15 final size:15
Alignment explanation
Indices: 12250377--12250430 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
12250367 TGATTATTTA
12250377 AAAT-TATT-ATATT
1 AAATATATTAATATT
*
12250390 AAA-AAATATAATATT
1 AAATATAT-TAATATT
*
12250405 AATTATATTAATATT
1 AAATATATTAATATT
12250420 AAATATATTAA
1 AAATATATTAA
12250431 ATTTTTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 5 0.15
14 1 0.03
15 24 0.73
16 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATATTAATATT
Found at i:12250472 original size:20 final size:20
Alignment explanation
Indices: 12250400--12250473 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 20
12250390 AAAAAATATA
12250400 ATATTAATTATATTAATATTAAAT
1 ATATTAA-T-TATTAATA-T-AAT
*
12250424 ATATTAAATTTTTAA-ATAAT
1 ATATT-AATTATTAATATAAT
12250444 -TATTAATTATTAATACTAAT
1 ATATTAATTATTAATA-TAAT
12250464 ATATT-ATTAT
1 ATATTAATTAT
12250474 ATCTATTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
18 8 0.18
19 5 0.11
20 12 0.27
21 5 0.11
22 1 0.02
23 5 0.11
24 6 0.14
25 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTAATTATTAATATAAT
Found at i:12250617 original size:14 final size:14
Alignment explanation
Indices: 12250580--12250617 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
12250570 TTATAAAATA
12250580 ATATTTTATTAATT
1 ATATTTTATTAATT
*
12250594 -TATTAATATTAATT
1 ATATT-TTATTAATT
12250608 ATATTTTATT
1 ATATTTTATT
12250618 TGTTGCTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.20
14 12 0.60
15 4 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATTTTATTAATT
Found at i:12250729 original size:16 final size:15
Alignment explanation
Indices: 12250693--12250732 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
12250683 TAAATAAATT
*
12250693 ATATTATTAATTTAA
1 ATATTAATAATTTAA
*
12250708 ATATTAATAATTTTA
1 ATATTAATAATTTAA
12250723 ATAATTAATA
1 AT-ATTAATA
12250733 TTATTATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTAATAATTTAA
Found at i:12250747 original size:23 final size:24
Alignment explanation
Indices: 12250721--12250771 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
12250711 TTAATAATTT
*
12250721 TAATAATTAA-TATTATT-ATTTGA
1 TAATAATTAATTA-TATTAATTTAA
12250744 TAAT-ATTAATTATATTAATTTAA
1 TAATAATTAATTATATTAATTTAA
12250767 TAATA
1 TAATA
12250772 TATATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TAATAATTAATTATATTAATTTAA
Found at i:12250772 original size:14 final size:15
Alignment explanation
Indices: 12250678--12250753 Score: 54
Period size: 13 Copynumber: 5.3 Consensus size: 15
12250668 ATAAATCTAG
*
12250678 TAATATAAATAA-AT
1 TAATATTAATAATAT
*
12250692 T-ATATTATTAAT-T
1 TAATATTAATAATAT
*
12250705 TAAATATTAATAATTT
1 T-AATATTAATAATAT
*
12250721 TAATAATTAATATTAT
1 TAAT-ATTAATAATAT
*
12250737 T-AT-TTGATAATAT
1 TAATATTAATAATAT
12250750 TAAT
1 TAAT
12250754 TATATTAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
13 19 0.39
14 3 0.06
15 15 0.31
16 12 0.24
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (15 bp):
TAATATTAATAATAT
Found at i:12251861 original size:23 final size:23
Alignment explanation
Indices: 12251828--12251890 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 23
12251818 ATATTAATAT
12251828 TATTTGAATTAATTAAAATATAAA
1 TATTT-AATTAATTAAAATATAAA
*
12251852 TATTTAATTAAATT-ATATATAAA
1 TATTTAATT-AATTAAAATATAAA
*
12251875 TACTTATAATTTATTA
1 TA-TT-TAATTAATTA
12251891 TTAATTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 14 0.42
24 14 0.42
25 5 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTTAATTAATTAAAATATAAA
Found at i:12253186 original size:22 final size:22
Alignment explanation
Indices: 12253139--12253191 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
12253129 TTTTATGATA
12253139 AATTATTGATAATTAAAATAGAT
1 AATTATT-ATAATTAAAATAGAT
* *
12253162 AATTATTATTATTAATATA-ATT
1 AATTATTATAATTAAAATAGA-T
12253184 AATTATTA
1 AATTATTA
12253192 ACTATTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 19 0.70
23 7 0.26
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
AATTATTATAATTAAAATAGAT
Found at i:12253201 original size:22 final size:22
Alignment explanation
Indices: 12253161--12253207 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
12253151 TTAAAATAGA
*
12253161 TAATTATTATTATTAATATAAT
1 TAATTATTACTATTAATATAAT
*
12253183 TAATTATTAACTATT-ATATTAT
1 TAATTATT-ACTATTAATATAAT
12253205 TAA
1 TAA
12253208 ATATAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TAATTATTACTATTAATATAAT
Found at i:12253203 original size:15 final size:15
Alignment explanation
Indices: 12253163--12253207 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
12253153 AAAATAGATA
12253163 ATTATTATTATTAAT
1 ATTATTATTATTAAT
*
12253178 ATAATTAATTATTAACT
1 ATTATT-ATTATTAA-T
12253195 ATTA-TATTATTAA
1 ATTATTATTATTAA
12253208 ATATAATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 13 0.50
16 9 0.35
17 4 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATTATTATTAAT
Found at i:12253250 original size:16 final size:17
Alignment explanation
Indices: 12253231--12253264 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
12253221 GATATCATTC
12253231 AAATAATATTA-TTATA
1 AAATAATATTACTTATA
*
12253247 AAATAGTATTACTTATA
1 AAATAATATTACTTATA
12253264 A
1 A
12253265 TTAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
AAATAATATTACTTATA
Found at i:12253317 original size:28 final size:27
Alignment explanation
Indices: 12253247--12253319 Score: 67
Period size: 31 Copynumber: 2.4 Consensus size: 27
12253237 TATTATTATA
12253247 AAATAGTATTACTTATAATTAATAAAATT
1 AAATA-TATTA-TTATAATTAATAAAATT
12253276 AATGATTATAATTATTAT-ATATAATAATAATT
1 AA--A-TAT-ATTATTATAAT-TAATAA-AATT
12253308 AAATATATTATT
1 AAATATATTATT
12253320 TGAATAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
28 6 0.16
29 5 0.13
30 3 0.08
31 12 0.32
32 12 0.32
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (27 bp):
AAATATATTATTATAATTAATAAAATT
Found at i:12253364 original size:38 final size:36
Alignment explanation
Indices: 12253305--12253376 Score: 83
Period size: 38 Copynumber: 1.9 Consensus size: 36
12253295 TATAATAATA
* *
12253305 ATTAAATATATTATTTGAATAAATAATATATTTTTTAT
1 ATTAAATATATAAATTGAAT-AAT-ATATATTTTTTAT
*
12253343 ATTAAATATAATAAATT-AATAATATTTATTTTTT
1 ATTAAATAT-ATAAATTGAATAATATATATTTTTT
12253377 CATAAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 10 0.33
37 3 0.10
38 12 0.40
39 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (36 bp):
ATTAAATATATAAATTGAATAATATATATTTTTTAT
Found at i:12254063 original size:181 final size:179
Alignment explanation
Indices: 12253586--12254063 Score: 502
Period size: 176 Copynumber: 2.7 Consensus size: 179
12253576 ATTCCATTTA
*
12253586 AACAATTATCTATTTCAAATTATTATGA-ACTTTTGTTTTGTCATAAAACAATTGTTTTTCATCA
1 AACAATTATCTATTTCAAATT-TTATGATA-TTTTGTTTTGTCATAAAACAATTGTTTTTCTTCA
* * * * *
12253650 TACAAGAATATTCATAATAAAATAATACTAATTTATTAATATTTGAAAAATTAATAAGTAGGAGA
64 TATAAGATTATTCAAAATAAAATAATACTAATTTATTAATATTT-AAAAATTAATAACTAGGAAA
* ** * ** *
12253715 TTTAAAAAATAAAACTGTTTATTGAATTAGTTCAAATAGTTATTACTATTTG
128 TTTAAAAAATAAAACTGTTTACTGAACCAATTCAAATAGTTAAGACTATATG
* * * * * *
12253767 AACAATTATATATTTCCAA---T-TGATCTTTTGTTTTGTCATAATACAATTATTTATCTTCAT-
1 AACAATTATCTATTTCAAATTTTATGATATTTTGTTTTGTCATAAAACAATTGTTTTTCTTCATA
* ** * * * *
12253827 TCAAGCTTATTTGAAATAAAATAATACTAATTTAGTAATATTATGAAATTTAATAACT-GATAAA
66 T-AAGATTATTCAAAATAAAATAATACTAATTTATTAATATT-TAAAAATTAATAACTAG-GAAA
** *
12253891 TTTAAAAAATAAATTTGTTTACTGAACCAATTCAAATAGTTAAGGCTATATG
128 TTTAAAAAATAAAACTGTTTACTGAACCAATTCAAATAGTTAAGACTATATG
* ** * *
12253943 AATAATTATCTATTTCAAATTGTTATGATATTTTGTTTTGTTGTAAAACAAATGTTTTTGTTCAT
1 AACAATTATCTATTTCAAATT-TTATGATATTTTGTTTTGTCATAAAACAATTGTTTTTCTTCAT
* * *
12254008 ATAAGTTTGTTCAAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAA
65 ATAAGATTATTCAAAATAAAATAATACTAATTTATTAATATTT-AAAAATTAATAA
12254064 GAAATTTAAT
Statistics
Matches: 238, Mismatches: 48, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
175 1 0.00
176 139 0.58
177 2 0.01
180 2 0.01
181 93 0.39
182 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (179 bp):
AACAATTATCTATTTCAAATTTTATGATATTTTGTTTTGTCATAAAACAATTGTTTTTCTTCATA
TAAGATTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAATTAATAACTAGGAAATTT
AAAAAATAAAACTGTTTACTGAACCAATTCAAATAGTTAAGACTATATG
Found at i:12254313 original size:17 final size:17
Alignment explanation
Indices: 12254275--12254329 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 17
12254265 AGTATAGTTG
*
12254275 TTAATTATA-AAATAAT
1 TTAATTATATAAATAGT
*
12254291 GT-ATTATATAAATAGT
1 TTAATTATATAAATAGT
*
12254307 TTAATTAATATAATTAGT
1 TTAATT-ATATAAATAGT
12254325 TTAAT
1 TTAAT
12254330 AATAATGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 6 0.19
16 8 0.25
17 3 0.09
18 15 0.47
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
TTAATTATATAAATAGT
Found at i:12254319 original size:18 final size:17
Alignment explanation
Indices: 12254296--12254333 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
12254286 ATAATGTATT
12254296 ATATAAATAGTTTAATTA
1 ATATAAATAGTTTAA-TA
*
12254314 ATATAATTAGTTTAATA
1 ATATAAATAGTTTAATA
12254331 ATA
1 ATA
12254334 ATGATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
ATATAAATAGTTTAATA
Found at i:12254441 original size:17 final size:18
Alignment explanation
Indices: 12254419--12254461 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
12254409 ATATACTATT
*
12254419 ATATTATATGT-ATTATA
1 ATATTATATCTAATTATA
*
12254436 ATATTATAACTAATTATA
1 ATATTATATCTAATTATA
12254454 AT-TTATAT
1 ATATTATAT
12254462 AAAATAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
ATATTATATCTAATTATA
Found at i:12254594 original size:22 final size:22
Alignment explanation
Indices: 12254564--12254605 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12254554 TTAAATAAAT
*
12254564 ATTAGTAATTAAATTATTATAC
1 ATTAATAATTAAATTATTATAC
* *
12254586 ATTAATAATTTATTTATTAT
1 ATTAATAATTAAATTATTAT
12254606 TGTTATATAT
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:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTAATAATTAAATTATTATAC
Found at i:12254703 original size:20 final size:19
Alignment explanation
Indices: 12254663--12254706 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
12254653 TAATTACTAG
* *
12254663 ATAAATTATAATTGTTTAT
1 ATAATTTATAATTGCTTAT
12254682 ATAATTTATAATTTGCTTAT
1 ATAATTTATAA-TTGCTTAT
12254702 ATAAT
1 ATAAT
12254707 AGAAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (19 bp):
ATAATTTATAATTGCTTAT
Found at i:12254748 original size:15 final size:14
Alignment explanation
Indices: 12254722--12254757 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
12254712 ATATTAAATA
12254722 TATTAATAATATAT
1 TATTAATAATATAT
*
12254736 TTTTAATAGATATAT
1 TATTAATA-ATATAT
12254751 TATTAAT
1 TATTAAT
12254758 TATAATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TATTAATAATATAT
Found at i:12254832 original size:26 final size:27
Alignment explanation
Indices: 12254803--12254864 Score: 99
Period size: 26 Copynumber: 2.3 Consensus size: 27
12254793 GTTTATTTAA
*
12254803 TATTAATAATTATTTCAATA-AAAAAT
1 TATTAATAATTATTTAAATATAAAAAT
*
12254829 TATTAATAATTATTTAAATATACAAAT
1 TATTAATAATTATTTAAATATAAAAAT
12254856 TATTAATAA
1 TATTAATAA
12254865 CAATTGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 19 0.58
27 14 0.42
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
TATTAATAATTATTTAAATATAAAAAT
Found at i:12275630 original size:52 final size:52
Alignment explanation
Indices: 12275544--12275688 Score: 191
Period size: 52 Copynumber: 2.8 Consensus size: 52
12275534 TATAACCATA
* * * * *
12275544 CAAACTTGCCCATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTACTCTTAGAATTCTTCTCCTGCAAGT
* *
12275596 CAAACTTGCCTATTAAGAATCCCTTTACTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTACTCTTAGAATTCTTCTCCTGCAAGT
* * * *
12275648 CAAACTTACCTATTAAGAATCCTTTTTCTCTTGGAATTCTT
1 CAAACTTGCCTATTAAGAATCCCTTTACTCTTAGAATTCTT
12275689 TTTTTGCAAG
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 81 1.00
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.40
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTACTCTTAGAATTCTTCTCCTGCAAGT
Found at i:12275741 original size:11 final size:11
Alignment explanation
Indices: 12275725--12275777 Score: 88
Period size: 11 Copynumber: 4.8 Consensus size: 11
12275715 GTAATATCTG
12275725 ACAAATCTCAA
1 ACAAATCTCAA
12275736 ACAAATCTCAA
1 ACAAATCTCAA
* *
12275747 ATAAATCTCTA
1 ACAAATCTCAA
12275758 ACAAATCTCAA
1 ACAAATCTCAA
12275769 ACAAATCTC
1 ACAAATCTC
12275778 TTATGAGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:12285046 original size:13 final size:13
Alignment explanation
Indices: 12285030--12285057 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12285020 AGGAATCGAC
12285030 TCTAAGAGCAGAG
1 TCTAAGAGCAGAG
12285043 TCTAAGAGCAGAG
1 TCTAAGAGCAGAG
12285056 TC
1 TC
12285058 CAACTAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.18
Consensus pattern (13 bp):
TCTAAGAGCAGAG
Found at i:12285929 original size:13 final size:13
Alignment explanation
Indices: 12285911--12285935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12285901 GGATGTTCCC
12285911 TTGTCTTTCTTTA
1 TTGTCTTTCTTTA
12285924 TTGTCTTTCTTT
1 TTGTCTTTCTTT
12285936 GAGGGCCTTA
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:0.04, C:0.16, G:0.08, T:0.72
Consensus pattern (13 bp):
TTGTCTTTCTTTA
Found at i:12295411 original size:29 final size:30
Alignment explanation
Indices: 12295339--12295408 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
12295329 AGGATGGGAA
* *
12295339 TGAAGGGAGAGGTTCGAAAGAGGCTCGAGC
1 TGAAAGGAGAGGTTCGAAAGACGCTCGAGC
*
12295369 -GACAGCGAGAGGTTC-AAAGACGCTCGA-C
1 TGAAAG-GAGAGGTTCGAAAGACGCTCGAGC
12295397 TGAAAGGAGAGG
1 TGAAAGGAGAGG
12295409 GTTGAAGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 7 0.21
29 18 0.53
30 9 0.26
ACGTcount: A:0.33, C:0.16, G:0.40, T:0.11
Consensus pattern (30 bp):
TGAAAGGAGAGGTTCGAAAGACGCTCGAGC
Found at i:12295630 original size:80 final size:79
Alignment explanation
Indices: 12295507--12295664 Score: 289
Period size: 80 Copynumber: 2.0 Consensus size: 79
12295497 CTCTTTCCTG
12295507 ACCTAGAAAGATGCCCAAGCTCTTTGATAGATCAGAGTCTACTGTGTTGATGGGCTTGTTCTCGA
1 ACCTAGAAAGATGCCCAAGCTCTTTGATAGATCAGAGTCTACTGTGTTGATGGGCTTGTTCTCGA
12295572 ATGCCCTCTTGCTA
66 ATGCCCTCTTGCTA
* *
12295586 ACCTATAAAGATGCCTAAGCTCTTTTGATAGATCAGAGTCTACTGTGTTGATGGGCTTGTTCTCG
1 ACCTAGAAAGATGCCCAAGCTC-TTTGATAGATCAGAGTCTACTGTGTTGATGGGCTTGTTCTCG
12295651 AATGCCCTCTTGCT
65 AATGCCCTCTTGCT
12295665 GCTCGAGAAG
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
79 20 0.26
80 56 0.74
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (79 bp):
ACCTAGAAAGATGCCCAAGCTCTTTGATAGATCAGAGTCTACTGTGTTGATGGGCTTGTTCTCGA
ATGCCCTCTTGCTA
Found at i:12309416 original size:22 final size:22
Alignment explanation
Indices: 12309391--12309445 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
12309381 GTCTCGATTG
12309391 TTGTCTCGATGTATTTTTCTCT
1 TTGTCTCGATGTATTTTTCTCT
12309413 TTGTCTCGATGTATTTTTCTCT
1 TTGTCTCGATGTATTTTTCTCT
12309435 TTGTCTCGATG
1 TTGTCTCGATG
12309446 CGAATATACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.09, C:0.18, G:0.16, T:0.56
Consensus pattern (22 bp):
TTGTCTCGATGTATTTTTCTCT
Found at i:12311612 original size:25 final size:25
Alignment explanation
Indices: 12311557--12311613 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
12311547 TGTTTTATTA
*
12311557 TATTATAAATTAAATAAAAAATTTT
1 TATTTTAAATTAAATAAAAAATTTT
* *
12311582 TATTTTAAATTTAATTAAAAATTATT
1 TATTTTAAATTAAATAAAAAATT-TT
12311608 T-TTTTA
1 TATTTTA
12311614 TTTTTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 25 0.89
26 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTTAAATTAAATAAAAAATTTT
Found at i:12317131 original size:20 final size:19
Alignment explanation
Indices: 12317108--12317153 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
12317098 CCGAATGTTA
12317108 TCTCGATATATTTTTCTTTT
1 TCTCGATATATTTTT-TTTT
* *
12317128 TCTCGATGTGTTTTTTTTT
1 TCTCGATATATTTTTTTTT
12317147 TCTCGAT
1 TCTCGAT
12317154 GTGAATGTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.11, C:0.15, G:0.11, T:0.63
Consensus pattern (19 bp):
TCTCGATATATTTTTTTTT
Found at i:12317146 original size:19 final size:20
Alignment explanation
Indices: 12317108--12317156 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
12317098 CCGAATGTTA
* *
12317108 TCTCGATATATTTTTCTTTT
1 TCTCGATGTGTTTTTCTTTT
12317128 TCTCGATGTGTTTTT-TTTT
1 TCTCGATGTGTTTTTCTTTT
12317147 TCTCGATGTG
1 TCTCGATGTG
12317157 AATGTGCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.10, C:0.14, G:0.14, T:0.61
Consensus pattern (20 bp):
TCTCGATGTGTTTTTCTTTT
Done.