Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 96 of 345
Found at i:26101479 original size:18 final size:19
Alignment explanation
Indices: 26101409--26101472 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
26101399 AAAAGAATTT
* *
26101409 ATAAAATAACACATAATAT
1 ATAAAATAATACATAATAA
**
26101428 A-AAAAT-AT-CATTTTAAA
1 ATAAAATAATACATAAT-AA
26101445 ATAAAATAATACATAATAA
1 ATAAAATAATACATAATAA
26101464 AT-AAATAAT
1 ATAAAATAAT
26101473 TGATAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 4 0.11
17 3 0.09
18 17 0.49
19 7 0.20
20 4 0.11
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAATAATACATAATAA
Found at i:26101557 original size:12 final size:12
Alignment explanation
Indices: 26101553--26101618 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
26101543 AATATAATGA
26101553 ATAATAAATAAT
1 ATAATAAATAAT
**
26101565 ATAATGGATAAT
1 ATAATAAATAAT
*
26101577 ATAATATACATAAC
1 ATAATA-A-ATAAT
26101591 ATATATAAA-AAT
1 ATA-ATAAATAAT
*
26101603 AATAATAAGTAAT
1 -ATAATAAATAAT
26101616 ATA
1 ATA
26101619 GAATAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
12 24 0.57
13 7 0.17
14 8 0.19
15 3 0.07
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:26101560 original size:19 final size:19
Alignment explanation
Indices: 26101538--26101582 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
26101528 TTTAAAATTT
26101538 TAAATAATATAATGAATAA
1 TAAATAATATAATGAATAA
*
26101557 TAAATAATATAATGGATAA
1 TAAATAATATAATGAATAA
26101576 TATAATA
1 TA-AATA
26101583 TACATAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (19 bp):
TAAATAATATAATGAATAA
Found at i:26101662 original size:21 final size:19
Alignment explanation
Indices: 26101621--26101663 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
26101611 GTAATATAGA
*
26101621 ATAAAAAAATAAATTTTAT
1 ATAAAAAAATAAATTTAAT
*
26101640 ATAATAAAATATAATTTGAAT
1 ATAAAAAAATA-AATTT-AAT
26101661 ATA
1 ATA
26101664 TAGGAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 5 0.25
21 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAAAAAATAAATTTAAT
Found at i:26108006 original size:14 final size:15
Alignment explanation
Indices: 26107976--26108011 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
26107966 ATTATAAGCT
*
26107976 AAATATTTATTATTA
1 AAATATTTATTAATA
26107991 AAATATTT-TTAATA
1 AAATATTTATTAATA
26108005 AAATATT
1 AAATATT
26108012 AAAATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATATTTATTAATA
Found at i:26108534 original size:12 final size:12
Alignment explanation
Indices: 26108517--26108541 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26108507 ATATCAAATC
26108517 CATTCTCCAAAG
1 CATTCTCCAAAG
26108529 CATTCTCCAAAG
1 CATTCTCCAAAG
26108541 C
1 C
26108542 CACAAAACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (12 bp):
CATTCTCCAAAG
Found at i:26110593 original size:167 final size:167
Alignment explanation
Indices: 26110312--26111140 Score: 802
Period size: 167 Copynumber: 5.0 Consensus size: 167
26110302 AGAATTTGAC
* * * * *
26110312 CAGATCAACACATAAAAA-AACCCAAGTCCAATCTGTAACAAACATAAATTCATTTCGAGATATA
1 CAGATCAACACATAAAAAGAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAATA
* * * * * * *
26110376 CAAATCTGAGCAAACCAACGAGCTCAAGTCGCTTCTGAG-ATTCTGATCAGATAAGACTACGTAA
66 CAAATCTGAGCAAACCAACGAACTC-CGACGCTTCCGAGAATT-AGATCAGATAACACTACGCAA
** *
26110440 ATTGTCCAAAATTCAAAATATTTG-ACACAATTTCTGAG
129 ATAATCCAAAATTCAAAAGATTTGAACACAATTTCTGAG
* * * *
26110478 CAGATCAACACATAAAAAGAAGCTAAATCCAATCCGTAACAAACATAAATTCAAATAGAGAAATA
1 CAGATCAACACATAAAAAGAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAATA
* * * * *
26110543 CAAATCCGAGCAAACCAAGGAACTCGCGACGCTTCTGAGAATTAGATCAGATGACACTACGCGAA
66 CAAATCTGAGCAAACCAACGAACTC-CGACGCTTCCGAGAATTAGATCAGATAACACTACGCAAA
*
26110608 TAATTCAAAATTCAAAAGATTTGACACGACAATTTCTGAG
130 TAATCCAAAATTCAAAAGATTTGA-AC-ACAATTTCTGAG
*
26110648 CAGATCAAC-CA-AAAGAAGATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAAAA
1 CAGATCAACACATAAA-AAG--AATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAA
* * * * * *
26110711 ATACAAATCTGAGCAAACCAACGAGCT-C-A--CTTCCGAGATTTAGATCAGGTGACACTACTCG
63 ATACAAATCTGAGCAAACCAACGAACTCCGACGCTTCCGAGAATTAGATCAGATAACACTACGCA
*
26110772 AATAATTCAAAA-T-----GATTTGACACAACAATTTCTGAG
128 AATAATCCAAAATTCAAAAGATTTGA-AC-ACAATTTCTGAG
** * *
26110808 CAGAGT-AACATGTAGAAAATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAT
1 CAGA-TCAACACATA-AAAAGAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAA
* * * * * * *
26110872 TACAAATCTAAGCAAACCAATGAACT-C-AAG-ATCAGAG-ATTCAGATCAGATACCACTACGCG
64 TACAAATCTGAGCAAACCAACGAACTCCGACGCTTCCGAGAATT-AGATCAGATAACACTACGCA
* *
26110933 AATAATTCAGAATTCAAAAGATTTGACACACCAATTTCTGAG
128 AATAATCCAAAATTCAAAAGATTTGA-ACA-CAATTTCTGAG
* * *
26110975 CAGATCAACACTTAAAGGAGAAATCTAAATCCAATCTATAACAAACATAAATTCAATTCGAGAAA
1 CAGATCAACACATAAA-AAG-AATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAA
* * * * * *
26111040 TACAAATCTGAGCAAACGAACGAACTCAGACGCTTCCCAGATTTAGATCAGATTAA-ACTGCGCG
64 TACAAATCTGAGCAAACCAACGAACTCCGACGCTTCCGAGAATTAGATCAGA-TAACACTACGCA
* **
26111104 AA-GATTGAAAATTCAAAAGATTTGACACAACAATTTC
128 AATAATCCAAAATTCAAAAGATTTGA-AC-ACAATTTC
26111141 GAAACAAAAT
Statistics
Matches: 560, Mismatches: 72, Indels: 58
0.81 0.10 0.08
Matches are distributed among these distances:
160 98 0.17
161 33 0.06
162 4 0.01
163 2 0.00
165 1 0.00
166 62 0.11
167 139 0.25
168 72 0.13
169 8 0.01
170 53 0.09
171 84 0.15
172 4 0.01
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (167 bp):
CAGATCAACACATAAAAAGAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAATA
CAAATCTGAGCAAACCAACGAACTCCGACGCTTCCGAGAATTAGATCAGATAACACTACGCAAAT
AATCCAAAATTCAAAAGATTTGAACACAATTTCTGAG
Found at i:26110970 original size:327 final size:332
Alignment explanation
Indices: 26110338--26111092 Score: 950
Period size: 327 Copynumber: 2.3 Consensus size: 332
26110328 AAAACCCAAG
* *
26110338 TCCAATCTGTAACAAACATAAATTCATTTCGAGATATACAAATCTGAGCAAACCAACGAGCTCAA
1 TCCAATCTGTAACAAACATAAATTCAATTCGAGAAATACAAATCTGAGCAAACCAACGAGCTCAA
* *
26110403 GTCGCTTCTGAGATTCT-GATCAGATAAGACTACGTAAATTGTCCAAAATTCAAAATATTTGACA
66 ---GCTTCCGAGATT-TAGATCAGAT-AGACTACGT-AA-TCTCCAAAATTCAAAATATTTGACA
26110467 CAATTTCTGAGCAGATCAACACATAAAAAGAAGCTAAATCCAATCCGTAACAAACATAAATTCAA
124 CAATTTCTGAGCAGATCAACACATAAAAAGAAGCTAAATCCAATCCGTAACAAACATAAATTCAA
* * * *
26110532 ATAGAGAAATACAAATCCGAGCAAACCAAGGAACTCGCGACGCTTCTGAGAATTAGATCAGATGA
189 ATAGAGAAATACAAATCCAAGCAAACCAAGGAACTC-CGAAGCATCAGAGAATTAGATCAGATGA
26110597 CACTACGCGAATAATTCAAAATTCAAAAGATTTGACACGACAATTTCTGAGCAGATCAAC-C-AA
253 CACTACGCGAATAATTCAAAATTCAAAAGATTTGACACGACAATTTCTGAGCAGATCAACACTAA
26110660 AAGAAGATAATCTAAA
318 AAGAAGA-AATCTAAA
*
26110676 TCCAATCTGTAACAAACATAAATTCAATTCGAAAAATACAAATCTGAGCAAACCAACGAGCTC-A
1 TCCAATCTGTAACAAACATAAATTCAATTCGAGAAATACAAATCTGAGCAAACCAACGAGCTCAA
* *
26110740 -CTTCCGAGATTTAGATCAGGT-GAC-AC-T-A-CTCGAATAATTCAAAATGATTTGACACAACA
66 GCTTCCGAGATTTAGATCAGATAGACTACGTAATCTCCAA-AATTCAAAAT-ATTTG--AC-ACA
** * * *
26110799 ATTTCTGAGCAGAGT-AACATGTAGAAAATAATCTAAATCCAATCTGTAACAAACATAAATTCAA
126 ATTTCTGAGCAGA-TCAACACATA-AAAAGAAGCTAAATCCAATCCGTAACAAACATAAATTCAA
* * * * *
26110863 TTCGAGAATTACAAATCTAAGCAAACCAATGAACT-C-AAG-ATCAGAG-ATTCAGATCAGAT-A
189 ATAGAGAAATACAAATCCAAGCAAACCAAGGAACTCCGAAGCATCAGAGAATT-AGATCAGATGA
*
26110923 CCACTACGCGAATAATTCAGAATTCAAAAGATTTGACAC-ACCAATTTCTGAGCAGATCAACACT
253 -CACTACGCGAATAATTCAAAATTCAAAAGATTTGACACGA-CAATTTCTGAGCAGATCAACACT
* *
26110987 TAAAGGAGAAATCTAAA
316 AAAAGAAGAAATCTAAA
* * *
26111004 TCCAATCTATAACAAACATAAATTCAATTCGAGAAATACAAATCTGAGCAAACGAACGAACTCAG
1 TCCAATCTGTAACAAACATAAATTCAATTCGAGAAATACAAATCTGAGCAAACCAACGAGCTCA-
*
26111069 ACGCTTCCCAGATTTAGATCAGAT
65 A-GCTTCCGAGATTTAGATCAGAT
26111093 TAAACTGCGC
Statistics
Matches: 370, Mismatches: 30, Indels: 40
0.84 0.07 0.09
Matches are distributed among these distances:
325 4 0.01
326 15 0.04
327 77 0.21
328 70 0.19
329 11 0.03
330 25 0.07
331 70 0.19
332 20 0.05
333 17 0.05
337 1 0.00
338 60 0.16
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (332 bp):
TCCAATCTGTAACAAACATAAATTCAATTCGAGAAATACAAATCTGAGCAAACCAACGAGCTCAA
GCTTCCGAGATTTAGATCAGATAGACTACGTAATCTCCAAAATTCAAAATATTTGACACAATTTC
TGAGCAGATCAACACATAAAAAGAAGCTAAATCCAATCCGTAACAAACATAAATTCAAATAGAGA
AATACAAATCCAAGCAAACCAAGGAACTCCGAAGCATCAGAGAATTAGATCAGATGACACTACGC
GAATAATTCAAAATTCAAAAGATTTGACACGACAATTTCTGAGCAGATCAACACTAAAAGAAGAA
ATCTAAA
Found at i:26117020 original size:22 final size:22
Alignment explanation
Indices: 26116992--26117037 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
26116982 GAACCGACCC
26116992 ATCAACACTCTAATTCAAACTA
1 ATCAACACTCTAATTCAAACTA
*
26117014 ATCAACACTGTAATTCAAACTA
1 ATCAACACTCTAATTCAAACTA
26117036 AT
1 AT
26117038 ATCCTTACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.28
Consensus pattern (22 bp):
ATCAACACTCTAATTCAAACTA
Found at i:26121830 original size:40 final size:40
Alignment explanation
Indices: 26121739--26121814 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
26121729 ATTAAGTTCA
26121739 GCACCAAGTGTGCGGTTTGAAATAGCTTCGGCTACAAATG
1 GCACCAAGTGTGCGGTTTGAAATAGCTTCGGCTACAAATG
*
26121779 GCACCAAGTGTGCGAG-TTGGAATAGCTTCGGCTACA
1 GCACCAAGTGTGCG-GTTTGAAATAGCTTCGGCTACA
26121815 TGAGGCACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
GCACCAAGTGTGCGGTTTGAAATAGCTTCGGCTACAAATG
Found at i:26128168 original size:12 final size:12
Alignment explanation
Indices: 26128151--26128175 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26128141 TTGTGTTTAC
26128151 AGTATGTGTGAA
1 AGTATGTGTGAA
26128163 AGTATGTGTGAA
1 AGTATGTGTGAA
26128175 A
1 A
26128176 ATTTAATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (12 bp):
AGTATGTGTGAA
Found at i:26129279 original size:40 final size:40
Alignment explanation
Indices: 26129189--26129300 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 40
26129179 GATTAAGTTC
*
26129189 GGCACTAAGTGTGCGGTTTGAAATAGCTTCGGCTACAAATA
1 GGCACTAAGTGTACGGTTTGAAATAGCTTCGGCTAC-AATA
* *
26129230 -GCACCAAGTGTACGAG-TTGGAATAGCTTCGGCTAC-ATGA
1 GGCACTAAGTGTACG-GTTTGAAATAGCTTCGGCTACAAT-A
* * *
26129269 GGCACTAAGTGTATGATATTGAGATAGCTTCG
1 GGCACTAAGTGTACGGT-TTGAAATAGCTTCG
26129301 TTTATTGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
38 2 0.03
39 1 0.02
40 42 0.72
41 13 0.22
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCACTAAGTGTACGGTTTGAAATAGCTTCGGCTACAATA
Found at i:26132653 original size:2 final size:2
Alignment explanation
Indices: 26132648--26132684 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
26132638 AACTCATGTT
26132648 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26132685 TATTAGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26132736 original size:51 final size:51
Alignment explanation
Indices: 26132660--26132770 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
26132650 TATATATATA
*
26132660 TATATATATATATATATATATATATTATTAGAAATTTAAGTTTTATGAGAT
1 TATATATAAATATATATATATATATTATTAGAAATTTAAGTTTTATGAGAT
26132711 TATATATAAATATATATATATATATTATTAGAAATTTAAGTTTTATGAGAT
1 TATATATAAATATATATATATATATTATTAGAAATTTAAGTTTTATGAGAT
26132762 T-TA-ATAAAT
1 TATATATAAAT
26132771 TGTAAATGAT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
49 6 0.10
50 2 0.03
51 51 0.86
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (51 bp):
TATATATAAATATATATATATATATTATTAGAAATTTAAGTTTTATGAGAT
Found at i:26134155 original size:21 final size:21
Alignment explanation
Indices: 26134129--26134170 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26134119 CTTTACACCA
*
26134129 CATTGTGGAT-AAATCACTAAT
1 CATTGTAGATGAAAT-ACTAAT
26134150 CATTGTAGATGAAATACTAAT
1 CATTGTAGATGAAATACTAAT
26134171 GATAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (21 bp):
CATTGTAGATGAAATACTAAT
Found at i:26134270 original size:47 final size:46
Alignment explanation
Indices: 26134219--26134381 Score: 184
Period size: 47 Copynumber: 3.5 Consensus size: 46
26134209 ATAAAAGCTG
* * *
26134219 CTAAAATACGTTGTGGATATACCACTGGTCCAGCAGGTAATTGAT-GA
1 CTAAAATACGTTATGGATAAACCACTGGTCAAGCAGGTAA-TG-TCGA
* * *
26134266 CTAAAATACGTTATGGATAAACCACTAGTCAAGCAGATGACTGTCGA
1 CTAAAATACGTTATGGATAAACCACTGGTCAAGCAGGT-AATGTCGA
* * * * *
26134313 CTAAGATATGTTGTGGACAAACCACTGGTCAAACAGGTGAATGTCGA
1 CTAAAATACGTTATGGATAAACCACTGGTCAAGCAGGT-AATGTCGA
26134360 CTAAAATACGTTATGGATAAAC
1 CTAAAATACGTTATGGATAAAC
26134382 TACCGACTAC
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
46 1 0.01
47 94 0.98
48 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (46 bp):
CTAAAATACGTTATGGATAAACCACTGGTCAAGCAGGTAATGTCGA
Found at i:26134928 original size:19 final size:20
Alignment explanation
Indices: 26134901--26134938 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
26134891 ATGGACTACC
*
26134901 TTGACCAAATC-ATAAAATT
1 TTGACCAAAACAATAAAATT
*
26134920 TTGAGCAAAACAATAAAAT
1 TTGACCAAAACAATAAAAT
26134939 CTGAAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (20 bp):
TTGACCAAAACAATAAAATT
Found at i:26148441 original size:24 final size:24
Alignment explanation
Indices: 26148414--26148462 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
26148404 GATTTTGCAT
26148414 TATTTTCACCAATACATCTTTTCC
1 TATTTTCACCAATACATCTTTTCC
* * *
26148438 TATTTTCACCGATCCGTCTTTTCC
1 TATTTTCACCAATACATCTTTTCC
26148462 T
1 T
26148463 TGTCAATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.18, C:0.31, G:0.04, T:0.47
Consensus pattern (24 bp):
TATTTTCACCAATACATCTTTTCC
Found at i:26148701 original size:89 final size:90
Alignment explanation
Indices: 26148593--26148790 Score: 285
Period size: 91 Copynumber: 2.2 Consensus size: 90
26148583 TTAAAGGTGT
* * *
26148593 AAAAA-ACCCTCAAAATTTTTC-AAAAAAAAGCAATTAAGCCTCTACTTTTTTTGCACTCAATTG
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAAAGCAATTAAGCCCCTACTTTTTTTACACTCAATTG
* * **
26148656 GTTA-CTGGAATTTTCAAAATGGGTC
66 GGTACCT-GAACTTTCAAAATGCATC
*
26148681 AAAAAGACCCTCAAACTTTTTCAAAAAAAAAAGCAATTAATCCCCTACTTTTTTTACACTCAATT
1 AAAAAGACCCTCAAACTTTTTC-AAAAAAAAAGCAATTAAGCCCCTACTTTTTTTACACTCAATT
26148746 GGGTACCTGAACTTTCAAAATGCATC
65 GGGTACCTGAACTTTCAAAATGCATC
26148772 AAAAAGACCCTCAAACTTT
1 AAAAAGACCCTCAAACTTT
26148791 AGAAAGAAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
88 5 0.05
89 15 0.15
91 76 0.78
92 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (90 bp):
AAAAAGACCCTCAAACTTTTTCAAAAAAAAAGCAATTAAGCCCCTACTTTTTTTACACTCAATTG
GGTACCTGAACTTTCAAAATGCATC
Found at i:26148801 original size:91 final size:91
Alignment explanation
Indices: 26148593--26148815 Score: 274
Period size: 91 Copynumber: 2.5 Consensus size: 91
26148583 TTAAAGGTGT
* * * *
26148593 AAAAA-ACCCTCAAAATTTTTC--AAAAAAAAGCAATTAAGCCTCTACTTTTTTTGCACTCAATT
1 AAAAAGACCCTCAAACTTTTACAAAAAAAAAAGCAATTAAGCCCCTACTTTTTTTACACTCAATT
* * **
26148655 GGTTACTGGAATTTTCAAAATGGGTC
66 GGGTACTGGAACTTTCAAAATGCATC
* *
26148681 AAAAAGACCCTCAAACTTTTTCAAAAAAAAAAGCAATTAATCCCCTACTTTTTTTACACTCAATT
1 AAAAAGACCCTCAAACTTTTACAAAAAAAAAAGCAATTAAGCCCCTACTTTTTTTACACTCAATT
26148746 GGGTACCT-GAACTTTCAAAATGCATC
66 GGGTA-CTGGAACTTTCAAAATGCATC
* *
26148772 AAAAAGACCCTCAAACTTTAGAAAGAAAAAAAAAAGCAATTAAG
1 AAAAAGACCCTCAAACTTT---TACAAAAAAAAAAGCAATTAAG
26148816 ACTTTGCTTT
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
88 5 0.04
89 15 0.13
91 76 0.66
92 2 0.02
94 18 0.16
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (91 bp):
AAAAAGACCCTCAAACTTTTACAAAAAAAAAAGCAATTAAGCCCCTACTTTTTTTACACTCAATT
GGGTACTGGAACTTTCAAAATGCATC
Found at i:26148843 original size:10 final size:9
Alignment explanation
Indices: 26148829--26148853 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26148819 TTGCTTTTAT
26148829 TAAAAATTA
1 TAAAAATTA
26148838 TAAAAATTA
1 TAAAAATTA
26148847 TAAAAAT
1 TAAAAAT
26148854 AAAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:26148983 original size:19 final size:19
Alignment explanation
Indices: 26148929--26148993 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
26148919 AGAAAAAAAA
26148929 TATAAAAATCGTAACAAGTAT
1 TATAAAAATCGTAA-AA-TAT
* * *
26148950 TA-AAAAATTGAAAAATTT
1 TATAAAAATCGTAAAATAT
*
26148968 TATAAAAATCGTAAAAAAT
1 TATAAAAATCGTAAAATAT
26148987 TATAAAA
1 TATAAAA
26148994 TATATAATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
18 4 0.11
19 21 0.58
20 9 0.25
21 2 0.06
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (19 bp):
TATAAAAATCGTAAAATAT
Found at i:26148984 original size:21 final size:21
Alignment explanation
Indices: 26148929--26148987 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
26148919 AGAAAAAAAA
* * *
26148929 TATAAAAATCGTAACAAGTAT
1 TATAAAAATCGTAAAAAATTT
*
26148950 TA-AAAAAT--TGAAAAATTT
1 TATAAAAATCGTAAAAAATTT
26148968 TATAAAAATCGTAAAAAATT
1 TATAAAAATCGTAAAAAATT
26148988 ATAAAATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 8 0.27
19 6 0.20
20 6 0.20
21 10 0.33
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.31
Consensus pattern (21 bp):
TATAAAAATCGTAAAAAATTT
Found at i:26149056 original size:21 final size:20
Alignment explanation
Indices: 26149032--26149088 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
26149022 ATAAAGTCAT
26149032 AAGAAAATTATACAAAATGTA
1 AAGAAAATTATA-AAAATGTA
*
26149053 AAG-AAA-TATAAAATTTGTA
1 AAGAAAATTATAAAA-ATGTA
*
26149072 AAAAAAATTATAAAAAT
1 AAGAAAATTATAAAAAT
26149089 TATCGCACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.10
19 10 0.33
20 7 0.23
21 10 0.33
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (20 bp):
AAGAAAATTATAAAAATGTA
Found at i:26149303 original size:10 final size:10
Alignment explanation
Indices: 26149288--26149333 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
26149278 AAAAAAATTC
26149288 TAATTTTTAA
1 TAATTTTTAA
26149298 TAATTTTT-A
1 TAATTTTTAA
*
26149307 -AATTTTTAT
1 TAATTTTTAA
**
26149316 TAAAGTTTAA
1 TAATTTTTAA
26149326 TAATTTTT
1 TAATTTTT
26149334 CTAAAAGTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
8 7 0.25
9 1 0.04
10 20 0.71
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:26149332 original size:20 final size:19
Alignment explanation
Indices: 26149307--26149355 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
26149297 ATAATTTTTA
26149307 AATTTTTATTAAAGTTTAAT
1 AATTTTTATTAAAG-TTAAT
* * *
26149327 AATTTTTCTAAAAGTTATT
1 AATTTTTATTAAAGTTAAT
*
26149346 ATTTTTTATT
1 AATTTTTATT
26149356 TTTCTATAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
AATTTTTATTAAAGTTAAT
Found at i:26151969 original size:10 final size:9
Alignment explanation
Indices: 26151954--26152034 Score: 65
Period size: 9 Copynumber: 8.7 Consensus size: 9
26151944 TAAAAAATCA
*
26151954 ATAAAAGTT
1 ATAAAAATT
26151963 ATAAAAATT
1 ATAAAAATT
***
26151972 ATTAATTTTT
1 A-TAAAAATT
*
26151982 AATAAAAACT
1 -ATAAAAATT
26151992 ATAAAAA-T
1 ATAAAAATT
26152000 ATTAAAAATT
1 A-TAAAAATT
*
26152010 ATAAAAATC
1 ATAAAAATT
26152019 ATTAAAAATT
1 A-TAAAAATT
26152029 ATAAAA
1 ATAAAA
26152035 TAAATAGAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
8 2 0.04
9 35 0.61
10 19 0.33
11 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:26152007 original size:18 final size:19
Alignment explanation
Indices: 26151984--26152034 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
26151974 TAATTTTTAA
*
26151984 TAAAAACTATAAAAAT-AT
1 TAAAAATTATAAAAATCAT
26152002 TAAAAATTATAAAAATCAT
1 TAAAAATTATAAAAATCAT
26152021 TAAAAATTATAAAA
1 TAAAAATTATAAAA
26152035 TAAATAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAAATTATAAAAATCAT
Found at i:26152111 original size:19 final size:19
Alignment explanation
Indices: 26152079--26152133 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
26152069 TTATAAAGTT
26152079 GTAAGAAAATTATAAAAAAT-
1 GTAA-AAAA-TATAAAAAATC
*
26152099 GTAAAGAAATAT-AAAATTC
1 GTAAA-AAATATAAAAAATC
26152118 GTAAAAAATATAAAAA
1 GTAAAAAATATAAAAA
26152134 CTATCGTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 11 0.35
19 13 0.42
20 7 0.23
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
GTAAAAAATATAAAAAATC
Found at i:26152378 original size:20 final size:20
Alignment explanation
Indices: 26152355--26152396 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
26152345 TTTTTTAAAA
*
26152355 TTTTACAATTTTTTTATTTT
1 TTTTACAATTTTTATATTTT
*
26152375 TTTTACGATTTTTATATTTT
1 TTTTACAATTTTTATATTTT
26152395 TT
1 TT
26152397 CTAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTACAATTTTTATATTTT
Found at i:26152403 original size:18 final size:18
Alignment explanation
Indices: 26152361--26152406 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
26152351 AAAATTTTAC
* *
26152361 AATTTTTTTATTTTTTTT
1 AATTTTTATATTTTTTCT
26152379 ACGATTTTTATATTTTTTCT
1 A--ATTTTTATATTTTTTCT
26152399 AATTTTTA
1 AATTTTTA
26152407 ATAAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 8 0.33
20 16 0.67
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (18 bp):
AATTTTTATATTTTTTCT
Found at i:26152626 original size:33 final size:34
Alignment explanation
Indices: 26152587--26152667 Score: 146
Period size: 33 Copynumber: 2.4 Consensus size: 34
26152577 AATTAAGTGC
26152587 AAAAAAAAATTAAGGGTTTAATTGCTTCTTTTTT
1 AAAAAAAAATTAAGGGTTTAATTGCTTCTTTTTT
*
26152621 -TAAAAAAATTAAGGGTTTAATTGCTTCTTTTTT
1 AAAAAAAAATTAAGGGTTTAATTGCTTCTTTTTT
26152654 AAAAAAAAATTAAG
1 AAAAAAAAATTAAG
26152668 ATTCAATGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (34 bp):
AAAAAAAAATTAAGGGTTTAATTGCTTCTTTTTT
Found at i:26153123 original size:21 final size:22
Alignment explanation
Indices: 26153073--26153123 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
26153063 ATTGCAAGCA
* *
26153073 TAAATAT-AAATATATGCTCAAT
1 TAAATATAAAATAAAT-CTCAAC
*
26153095 TAATTATAAAATAAAT-TCAAC
1 TAAATATAAAATAAATCTCAAC
26153116 TAAATATA
1 TAAATATA
26153124 CACGTAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 11 0.46
22 6 0.25
23 7 0.29
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAATATAAAATAAATCTCAAC
Found at i:26153701 original size:31 final size:31
Alignment explanation
Indices: 26153663--26153722 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
26153653 GTTGTACTCA
*
26153663 TAAAATTTTGATTGTAATTTAAATATATACT
1 TAAAATTTTAATTGTAATTTAAATATATACT
* * *
26153694 TAAAATTTTAATTTTGATTTAATTATATA
1 TAAAATTTTAATTGTAATTTAAATATATA
26153723 TATTTAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (31 bp):
TAAAATTTTAATTGTAATTTAAATATATACT
Found at i:26153869 original size:30 final size:29
Alignment explanation
Indices: 26153835--26153893 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
26153825 AATATACGAG
26153835 AATTAGATC-AAATTAAAATTTTATGTATAA
1 AATTAGA-CAAAATTAAAA-TTTATGTATAA
*
26153865 AATTATACAAAATTAAAATTTATGTATAA
1 AATTAGACAAAATTAAAATTTATGTATAA
26153894 TTATATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (29 bp):
AATTAGACAAAATTAAAATTTATGTATAA
Found at i:26156054 original size:29 final size:29
Alignment explanation
Indices: 26155979--26156054 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 29
26155969 AAAATCAAGG
* *
26155979 GTTCATGTATACATATGAACCAACATTCAA
1 GTTCATGTATAAAT-TGAACCAACATTAAA
* *
26156009 GTTTCATGTGTATAATTGCACCAA-ATTAAA
1 G-TTCATGTATA-AATTGAACCAACATTAAA
26156039 GTTCATGTATCAAATT
1 GTTCATGTAT-AAATT
26156055 AGATATTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 12 0.32
30 8 0.21
31 16 0.42
32 2 0.05
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (29 bp):
GTTCATGTATAAATTGAACCAACATTAAA
Found at i:26156535 original size:2 final size:2
Alignment explanation
Indices: 26156528--26156578 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
26156518 AGCTAAGTTC
** *
26156528 AT AT AT AT AT AT AT AT AT AT AT AT AT GC AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
26156570 AT AC AT AT A
1 AT AT AT AT A
26156579 GATAACATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:26159995 original size:7 final size:8
Alignment explanation
Indices: 26159964--26159993 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
26159954 TATGAACCTT
26159964 TTTTTTTA
1 TTTTTTTA
26159972 TTTTTTTA
1 TTTTTTTA
26159980 TTTTTTTA
1 TTTTTTTA
26159988 TTTTTT
1 TTTTTT
26159994 ATGTTCACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:26166760 original size:29 final size:30
Alignment explanation
Indices: 26166697--26166752 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
26166687 TTTAGTAAAG
*
26166697 ATAAAATTATAATTTGACCCTCTTAAAATA
1 ATAAAATTATAATTTAACCCTCTTAAAATA
*
26166727 ATAAAATT-TAATTTAATCCT-TTAAAA
1 ATAAAATTATAATTTAACCCTCTTAAAA
26166753 ATTATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
29 10 0.42
30 8 0.33
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (30 bp):
ATAAAATTATAATTTAACCCTCTTAAAATA
Found at i:26171998 original size:12 final size:12
Alignment explanation
Indices: 26171981--26172005 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26171971 ACCCAAAGCT
26171981 CTTAGCCCAAAA
1 CTTAGCCCAAAA
26171993 CTTAGCCCAAAA
1 CTTAGCCCAAAA
26172005 C
1 C
26172006 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:26172714 original size:9 final size:9
Alignment explanation
Indices: 26172696--26172727 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
26172686 TGCAATGCCG
26172696 ATGC-ATGA
1 ATGCAATGA
26172704 ATGCAATGA
1 ATGCAATGA
26172713 ATGCAATGA
1 ATGCAATGA
26172722 ATGCAA
1 ATGCAA
26172728 AAAAAACGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:26176826 original size:25 final size:25
Alignment explanation
Indices: 26176792--26176839 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
26176782 AGACAATATC
*
26176792 ATCAAACTCT-TTAATTAACTCAAGG
1 ATCAAACTCTGGTAATTAA-TCAAGG
*
26176817 ATCAACCTCTGGTAATTAATCAA
1 ATCAAACTCTGGTAATTAATCAA
26176840 TTTGGGGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (25 bp):
ATCAAACTCTGGTAATTAATCAAGG
Found at i:26182548 original size:9 final size:9
Alignment explanation
Indices: 26182530--26182561 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
26182520 TGCAATGCCG
26182530 ATGC-ATGA
1 ATGCAATGA
26182538 ATGCAATGA
1 ATGCAATGA
26182547 ATGCAATGA
1 ATGCAATGA
26182556 ATGCAA
1 ATGCAA
26182562 AAAAACGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:26186055 original size:21 final size:21
Alignment explanation
Indices: 26186031--26186071 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26186021 TAACGTGCTA
* *
26186031 TTATTACTATTATTTTTATTT
1 TTATTACCATTATTGTTATTT
26186052 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
26186072 GTAATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (21 bp):
TTATTACCATTATTGTTATTT
Found at i:26186078 original size:21 final size:21
Alignment explanation
Indices: 26186033--26186078 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
26186023 ACGTGCTATT
* * * *
26186033 ATTACTATTATTTTTATTTTT
1 ATTACCATTATTGTTATTGTA
26186054 ATTACCATTATTGTTATTGTA
1 ATTACCATTATTGTTATTGTA
26186075 ATTA
1 ATTA
26186079 TATCTATATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (21 bp):
ATTACCATTATTGTTATTGTA
Found at i:26188881 original size:41 final size:41
Alignment explanation
Indices: 26188830--26188910 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
26188820 GTTCATGGCT
26188830 AAAAATTTAAAATTTGTAAAGTATAAAGACTAAAAATGATA
1 AAAAATTTAAAATTTGTAAAGTATAAAGACTAAAAATGATA
26188871 AAAAATTTAAAATTTGTAAAGTATAAAGACTAAAAATGAT
1 AAAAATTTAAAATTTGTAAAGTATAAAGACTAAAAATGAT
26188911 CAAATTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.30
Consensus pattern (41 bp):
AAAAATTTAAAATTTGTAAAGTATAAAGACTAAAAATGATA
Found at i:26188994 original size:14 final size:15
Alignment explanation
Indices: 26188975--26189004 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26188965 GAAAAATTTA
26188975 ACAAAAT-ATAATAT
1 ACAAAATGATAATAT
26188989 ACAAAATGATAATAT
1 ACAAAATGATAATAT
26189004 A
1 A
26189005 AATACGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (15 bp):
ACAAAATGATAATAT
Found at i:26196439 original size:34 final size:34
Alignment explanation
Indices: 26196380--26196444 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
26196370 CATAGTAATA
* *
26196380 TAAAATAATAAGTGATGATAGTGAAACTAATGGG
1 TAAAATAATAAGTAATGATAGTGAAAATAATGGG
*
26196414 TAAAATAATTA-TAATGATAGATGAAAATAAT
1 TAAAATAATAAGTAATGATAG-TGAAAATAAT
26196445 ACTATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 8 0.30
34 19 0.70
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.29
Consensus pattern (34 bp):
TAAAATAATAAGTAATGATAGTGAAAATAATGGG
Found at i:26196572 original size:31 final size:30
Alignment explanation
Indices: 26196535--26196596 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
26196525 TGTAATAATG
* * *
26196535 ATATATACACAATATGGTA-TTAAGAATAT
1 ATATATATACAATATAGTATTTAAAAATAT
26196564 ATATATATACAATATAGTATTTAAAAATAT
1 ATATATATACAATATAGTATTTAAAAATAT
26196594 ATA
1 ATA
26196597 CATAAGATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (30 bp):
ATATATATACAATATAGTATTTAAAAATAT
Found at i:26196612 original size:24 final size:23
Alignment explanation
Indices: 26196585--26196645 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 23
26196575 ATATAGTATT
26196585 TAAAAATATATACAT-AAGATGGTA
1 TAAAAATATATACATGAA-AT-GTA
*
26196609 TAAAAATATGTACATGGAAATGTA
1 TAAAAATATATACAT-GAAATGTA
26196633 TAAGAAATATATA
1 TAA-AAATATATA
26196646 TAATTAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 20 0.62
25 10 0.31
26 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.30
Consensus pattern (23 bp):
TAAAAATATATACATGAAATGTA
Found at i:26196772 original size:16 final size:17
Alignment explanation
Indices: 26196741--26196775 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
26196731 AACTACTTTG
26196741 TACACTACACAAATATA
1 TACACTACACAAATATA
*
26196758 TACAC-ACACACATATA
1 TACACTACACAAATATA
26196774 TA
1 TA
26196776 TAATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (17 bp):
TACACTACACAAATATA
Found at i:26196774 original size:18 final size:19
Alignment explanation
Indices: 26196742--26196777 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26196732 ACTACTTTGT
26196742 ACACTACACAAATATATAC
1 ACACTACACAAATATATAC
*
26196761 ACAC-ACACATATATATA
1 ACACTACACAAATATATA
26196778 ATATATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (19 bp):
ACACTACACAAATATATAC
Found at i:26196814 original size:23 final size:22
Alignment explanation
Indices: 26196780--26196873 Score: 102
Period size: 23 Copynumber: 4.2 Consensus size: 22
26196770 TATATATAAT
* *
26196780 ATATATAAATAATAGTATTAGAA
1 ATATAT-AATAATAGTATAAAAA
*
26196803 ATATACATATAATAGTATAAAAA
1 ATATATA-ATAATAGTATAAAAA
* *
26196826 ATATATAACTAATATTAT-TAAA
1 ATATATAA-TAATAGTATAAAAA
26196848 ATATATAATAATA-TATAAAAA
1 ATATATAATAATAGTATAAAAA
26196869 ATATA
1 ATATA
26196874 ATATTTAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.05
21 13 0.21
22 13 0.21
23 32 0.52
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (22 bp):
ATATATAATAATAGTATAAAAA
Found at i:26196845 original size:46 final size:43
Alignment explanation
Indices: 26196769--26196873 Score: 138
Period size: 46 Copynumber: 2.4 Consensus size: 43
26196759 ACACACACAC
* *
26196769 ATATATATAATATATATAAATAATAGTATTAGAAATATACATATA
1 ATATATAAAAAATATATAAATAATAGTATTA-AAATATACA-ATA
* * *
26196814 ATAGTATAAAAAATATATAACTAATATTATTAAAATATATAATA
1 ATA-TATAAAAAATATATAAATAATAGTATTAAAATATACAATA
26196858 ATATATAAAAAATATA
1 ATATATAAAAAATATA
26196874 ATATTTAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 13 0.24
44 6 0.11
45 11 0.20
46 24 0.44
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (43 bp):
ATATATAAAAAATATATAAATAATAGTATTAAAATATACAATA
Found at i:26196876 original size:16 final size:16
Alignment explanation
Indices: 26196855--26196889 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
26196845 AAAATATATA
26196855 ATAATATATAAAAAAT
1 ATAATATATAAAAAAT
* *
26196871 ATAATATTTAAAACAT
1 ATAATATATAAAAAAT
26196887 ATA
1 ATA
26196890 TACATAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATATATAAAAAAT
Found at i:26196979 original size:3 final size:3
Alignment explanation
Indices: 26196971--26197286 Score: 96
Period size: 3 Copynumber: 104.7 Consensus size: 3
26196961 AAATAATGAC
*
26196971 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAGA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
** * *
26197016 TGAA GTATA TAA -AA -AA GCA -AA T-A TAA T-A TAA TAG TAA TAT TAA
1 T-AA -TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
26197059 -AA TAA -AG TAA TTAA -AA TAG TAC T-A TATA TAA -ATA TATA TACA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA-A TAA TA-A TA-A TA-A
*
26197101 TACA TATA TAA T-A TACA TACA CTAA TAT TAA TAA TAA TAA TAA -AA
1 TA-A TA-A TAA TAA TA-A TA-A -TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
26197146 CTAGA -AA TAA TAA TAA TTAG TAA TAA TAA TACG TTA GAA -AA TAA TTAA
1 -TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TA-A TAA TAA TAA TAA -TAA
** * * * * *
26197194 T-A TGT TAA TAA AAA TAA TAG TAA TGAA -AA TAA TAC TAA CAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* *
26197238 TAA TAA -AGA TAA TAA TAGA -AA TAA -AA TAA TAG TAA TAA TAT TAA
1 TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
26197282 TAA TA
1 TAA TA
26197287 TGTAAAAAAA
Statistics
Matches: 236, Mismatches: 41, Indels: 72
0.68 0.12 0.21
Matches are distributed among these distances:
2 32 0.14
3 156 0.66
4 43 0.18
5 5 0.02
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:26197116 original size:17 final size:16
Alignment explanation
Indices: 26197090--26197121 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
26197080 CTATATATAA
26197090 ATATATATACATACAT
1 ATATATATACATACAT
26197106 ATATAATATACATACA
1 ATAT-ATATACATACA
26197122 CTAATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATATATACATACAT
Found at i:26197958 original size:11 final size:11
Alignment explanation
Indices: 26197921--26197959 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
26197911 GTATATATAT
26197921 AAAGAAAGAAAA
1 AAAGAAAG-AAA
* *
26197933 AAAAAAAAAAA
1 AAAGAAAGAAA
26197944 AAAGAAAGAAA
1 AAAGAAAGAAA
26197955 AAAGA
1 AAAGA
26197960 TTCGAAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:26198677 original size:21 final size:21
Alignment explanation
Indices: 26198651--26198693 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
26198641 AGTTCATAGG
*
26198651 TTTCAAATTTGATTTGTGGAC
1 TTTCAAATTCGATTTGTGGAC
*
26198672 TTTCAAATTCGCTTTGTGGAC
1 TTTCAAATTCGATTTGTGGAC
26198693 T
1 T
26198694 ATGTAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.47
Consensus pattern (21 bp):
TTTCAAATTCGATTTGTGGAC
Found at i:26199789 original size:12 final size:13
Alignment explanation
Indices: 26199769--26199805 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
26199759 GTTATCAATT
*
26199769 TAAATTTAT-TAA
1 TAAAATTATATAA
26199781 TAAAATTATATAA
1 TAAAATTATATAA
26199794 -AAAATTATATAA
1 TAAAATTATATAA
26199806 AGTAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 20 0.87
13 3 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAAATTATATAA
Found at i:26201136 original size:6 final size:7
Alignment explanation
Indices: 26201115--26201153 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
26201105 TTTCAAACAA
26201115 ATTTTAT
1 ATTTTAT
26201122 ATTTT-T
1 ATTTTAT
26201128 ATATTTAT
1 AT-TTTAT
26201136 ATTTTAT
1 ATTTTAT
26201143 AGTTTTAT
1 A-TTTTAT
26201151 ATT
1 ATT
26201154 AATAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 3 0.10
7 16 0.55
8 10 0.34
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (7 bp):
ATTTTAT
Found at i:26201864 original size:29 final size:30
Alignment explanation
Indices: 26201831--26201888 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
26201821 GCTTTATTAA
* *
26201831 ATAAAAATAAAATTATAAAA-ATGTAAAAT
1 ATAAAAATAAAACTAAAAAATATGTAAAAT
*
26201860 ATAAATATAAAACTAAAAAATATGTAAAA
1 ATAAAAATAAAACTAAAAAATATGTAAAA
26201889 GAAAAGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (30 bp):
ATAAAAATAAAACTAAAAAATATGTAAAAT
Found at i:26205628 original size:10 final size:9
Alignment explanation
Indices: 26205598--26205624 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
26205588 TAATATGTCT
26205598 TTAAAAATA
1 TTAAAAATA
26205607 TTAAAAATA
1 TTAAAAATA
26205616 TTAAAAATA
1 TTAAAAATA
26205625 ATTAGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAAAATA
Found at i:26209507 original size:16 final size:16
Alignment explanation
Indices: 26209486--26209519 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
26209476 CCGGTCTAAC
26209486 TTGACTATACTTTAAA
1 TTGACTATACTTTAAA
26209502 TTGACTATACTTTAAA
1 TTGACTATACTTTAAA
26209518 TT
1 TT
26209520 TAATCGAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (16 bp):
TTGACTATACTTTAAA
Found at i:26209701 original size:29 final size:29
Alignment explanation
Indices: 26209668--26209727 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
26209658 ATGATTAATA
26209668 AACTTAAGTGACAAATAAGTTAAAAACTG
1 AACTTAAGTGACAAATAAGTTAAAAACTG
*
26209697 AACTTAAGTGACGAATAAGTTAAAAACTG
1 AACTTAAGTGACAAATAAGTTAAAAACTG
26209726 AA
1 AA
26209728 TCTAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.23
Consensus pattern (29 bp):
AACTTAAGTGACAAATAAGTTAAAAACTG
Found at i:26211213 original size:67 final size:67
Alignment explanation
Indices: 26211105--26211236 Score: 219
Period size: 67 Copynumber: 2.0 Consensus size: 67
26211095 AAATCTGTTA
* *
26211105 GTATGGTCGGTCAGGTTTGTTGCCATGTGCATATCGAATGGTCCTACTTTGATATTCTCTTTATT
1 GTATGGTCGGTCAGGTTTGTTGCCATGTGCATACCGAATGGTCCTACTTTGACATTCTCTTTATT
26211170 TC
66 TC
* * *
26211172 GTATGGTCGGTTAGGTTTGTTGCCGTGTGCATACCGAATGGTCCTACTTTGGCATTCTCTTTATT
1 GTATGGTCGGTCAGGTTTGTTGCCATGTGCATACCGAATGGTCCTACTTTGACATTCTCTTTATT
26211237 AAGGTTGTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.42
Consensus pattern (67 bp):
GTATGGTCGGTCAGGTTTGTTGCCATGTGCATACCGAATGGTCCTACTTTGACATTCTCTTTATT
TC
Found at i:26212323 original size:28 final size:27
Alignment explanation
Indices: 26212266--26212324 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
26212256 GCTTTTTATT
*
26212266 AAATAAAATAAAATTATAAAAACTATA
1 AAATAAAATAAAATTATAAAAACTACA
26212293 AAATATAAATATAAA-TAT-AAAACTAACA
1 AAATA-AAATA-AAATTATAAAAACT-ACA
26212321 AAAT
1 AAAT
26212325 GGCATGTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 11 0.39
28 14 0.50
29 3 0.11
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (27 bp):
AAATAAAATAAAATTATAAAAACTACA
Found at i:26213080 original size:19 final size:17
Alignment explanation
Indices: 26213054--26213107 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
26213044 AGGGACATAA
26213054 TTATTTTTAAATTATTT
1 TTATTTTTAAATTATTT
* *
26213071 TTCAATTTTTAGATCATTT
1 TT--ATTTTTAAATTATTT
*
26213090 TTATTTTTATATTATTT
1 TTATTTTTAAATTATTT
26213107 T
1 T
26213108 GAGTTTTAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 16 0.52
19 15 0.48
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.69
Consensus pattern (17 bp):
TTATTTTTAAATTATTT
Found at i:26217682 original size:19 final size:21
Alignment explanation
Indices: 26217654--26217705 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
26217644 TGGTATAAAA
*
26217654 TTTTAAATTA-ATTTT-ATTT
1 TTTTATATTATATTTTAATTT
26217673 TTTTATATTATTATTTTAATTT
1 TTTTATATTA-TATTTTAATTT
*
26217695 TTTAATATTAT
1 TTTTATATTAT
26217706 TTAAATTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 9 0.32
21 6 0.21
22 13 0.46
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATATTATATTTTAATTT
Found at i:26217694 original size:22 final size:21
Alignment explanation
Indices: 26217664--26217706 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
26217654 TTTTAAATTA
*
26217664 ATTTTATTTTTTTATATTATT
1 ATTTTATTTTTTAATATTATT
26217685 ATTTTAATTTTTTAATATTATT
1 ATTTT-ATTTTTTAATATTATT
26217707 TAAATTGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTTATTTTTTAATATTATT
Found at i:26217706 original size:19 final size:19
Alignment explanation
Indices: 26217654--26217712 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
26217644 TGGTATAAAA
*
26217654 TTTTAA-ATTAATTTTATTT
1 TTTTAATATT-ATTTTAATT
26217673 TTTTATATTATTATTTTAATT
1 TTTTA-A-TATTATTTTAATT
*
26217694 TTTTAATATTATTTAAATT
1 TTTTAATATTATTTTAATT
26217713 GAACTAGACA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 17 0.49
20 2 0.06
21 13 0.37
22 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTAATATTATTTTAATT
Found at i:26224919 original size:15 final size:16
Alignment explanation
Indices: 26224899--26224931 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
26224889 ATATATATTT
26224899 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
26224914 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
26224931 T
1 T
26224932 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:26225016 original size:22 final size:22
Alignment explanation
Indices: 26224977--26225035 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
26224967 GTTTTAAGAA
*
26224977 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
26224998 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
26225020 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
26225036 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:26225052 original size:26 final size:24
Alignment explanation
Indices: 26225006--26225064 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
26224996 ATTTGTTTTA
*
26225006 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
26225030 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
*
26225056 -TTTTTATTT
1 ATATTTATTT
26225065 AATGAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 8 0.26
26 13 0.42
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:26226309 original size:60 final size:60
Alignment explanation
Indices: 26226239--26226360 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
26226229 AATTGAATGG
26226239 ATCAAATTTCATAGTATTAATTGATTTAATCAACTGACTTAACATTGGTTGGTTAAGTTT
1 ATCAAATTTCATAGTATTAATTGATTTAATCAACTGACTTAACATTGGTTGGTTAAGTTT
*
26226299 ATCAATTTTCATAGTATTAATTGATTTAATCAACTGACTTAACATTGGTTGGTTAAGTTT
1 ATCAAATTTCATAGTATTAATTGATTTAATCAACTGACTTAACATTGGTTGGTTAAGTTT
26226359 AT
1 AT
26226361 GGTATATTAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (60 bp):
ATCAAATTTCATAGTATTAATTGATTTAATCAACTGACTTAACATTGGTTGGTTAAGTTT
Found at i:26229741 original size:40 final size:40
Alignment explanation
Indices: 26229696--26229794 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
26229686 GATTTCGATA
* * **
26229696 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGT
1 TATATATGGCACTTAGTGTGCGATTCAAAATAGCTTCGAC
26229736 TATATATGGCACTTAGTGTGCGATTCAAAATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCGATTCAAAATAGCTTCGAC
* *
26229776 TCTATGTGGCACTTAGTGT
1 TATATATGGCACTTAGTGT
26229795 ACAAGACCGT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCAAAATAGCTTCGAC
Found at i:26232081 original size:20 final size:18
Alignment explanation
Indices: 26232053--26232091 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
26232043 TACTTATTAT
*
26232053 TTAAGAAATAATAATTATAA
1 TTAAAAAAT-ATAA-TATAA
26232073 TTAAAAAATATAATATAA
1 TTAAAAAATATAATATAA
26232091 T
1 T
26232092 AATATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TTAAAAAATATAATATAA
Found at i:26232117 original size:27 final size:26
Alignment explanation
Indices: 26232055--26232120 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
26232045 CTTATTATTT
*
26232055 AAGAAATAATAATTATAATTAAAAAA
1 AAGAAATAATAATTATAAGTAAAAAA
* *
26232081 TATAATATAATAA-TATAAAGTAAAATAA
1 AAGAA-ATAATAATTAT-AAGTAAAA-AA
26232109 AAGAAATAATAA
1 AAGAAATAATAA
26232121 AAAGAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 6 0.19
27 21 0.66
28 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (26 bp):
AAGAAATAATAATTATAAGTAAAAAA
Found at i:26232141 original size:11 final size:10
Alignment explanation
Indices: 26232095--26232147 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 10
26232085 ATATAATAAT
*
26232095 ATAAAGTAAA
1 ATAAAGAAAA
26232105 ATAAAAGAAATA
1 AT-AAAGAAA-A
*
26232117 ATAAA-AAGA
1 ATAAAGAAAA
26232126 ATAAAGAAACA
1 ATAAAGAAA-A
26232137 ATAAAGAAAA
1 ATAAAGAAAA
26232147 A
1 A
26232148 GAACAGAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 6 0.17
10 8 0.22
11 19 0.53
12 3 0.08
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.13
Consensus pattern (10 bp):
ATAAAGAAAA
Found at i:26247558 original size:13 final size:13
Alignment explanation
Indices: 26247540--26247587 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
26247530 ATATATATAT
26247540 ATATATTCTTTAA
1 ATATATTCTTTAA
* *
26247553 ATATATTTTTTTGA
1 ATATA-TTCTTTAA
26247567 ATCATATTCTTTAA
1 AT-ATATTCTTTAA
*
26247581 CTATATT
1 ATATATT
26247588 TTAAAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 10 0.36
14 15 0.54
15 3 0.11
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (13 bp):
ATATATTCTTTAA
Found at i:26251001 original size:25 final size:25
Alignment explanation
Indices: 26250955--26251012 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
26250945 GCTCTCTCTC
* **
26250955 GAGCCATATAACAAAAATCTCATGT
1 GAGCCATATAACAAAAAGCTCATAA
* * *
26250980 GAGCCATGTAACGAGAAGCTCATAA
1 GAGCCATATAACAAAAAGCTCATAA
26251005 GAGCCATA
1 GAGCCATA
26251013 ACAAGGAAGG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACAAAAAGCTCATAA
Found at i:26253080 original size:31 final size:30
Alignment explanation
Indices: 26253031--26253142 Score: 125
Period size: 31 Copynumber: 3.5 Consensus size: 30
26253021 ATTAAATATA
*
26253031 ATAAATAAGATTTAAATAATTTAATATAATG
1 ATAAATAA-ATTTTAATAATTTAATATAATG
*
26253062 ATAAATGATATTTTAATAATTTAATATAATG
1 ATAAAT-AAATTTTAATAATTTAATATAATG
*
26253093 ATATATAAATGATTTAGATAATTTAATATAATG
1 ATAAATAAAT--TTTA-ATAATTTAATATAATG
* *
26253126 ATACATAGAATATTAAT
1 ATAAATA-AATTTTAAT
26253143 TACTTTATTA
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
30 3 0.04
31 34 0.49
32 8 0.11
33 22 0.31
34 3 0.04
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (30 bp):
ATAAATAAATTTTAATAATTTAATATAATG
Found at i:26253119 original size:33 final size:31
Alignment explanation
Indices: 26253031--26253128 Score: 128
Period size: 31 Copynumber: 3.1 Consensus size: 31
26253021 ATTAAATATA
26253031 ATAAATAA-GATTTAAATAATTTAATATAATG
1 ATAAATAATGATTT-AATAATTTAATATAATG
*
26253062 ATAAATGAT-ATTTTAATAATTTAATATAATG
1 ATAAATAATGA-TTTAATAATTTAATATAATG
*
26253093 ATATATAAATGATTTAGATAATTTAATATAATG
1 ATAAAT-AATGATTTA-ATAATTTAATATAATG
26253126 ATA
1 ATA
26253129 CATAGAATAT
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
31 30 0.51
32 9 0.15
33 20 0.34
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (31 bp):
ATAAATAATGATTTAATAATTTAATATAATG
Found at i:26253570 original size:16 final size:17
Alignment explanation
Indices: 26253551--26253588 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
26253541 GTTTTTAGGG
26253551 TTTAGGGTT-AGGGTTT
1 TTTAGGGTTAAGGGTTT
*
26253567 TTTA-AGTTAAGGGTTT
1 TTTAGGGTTAAGGGTTT
26253583 TTTAGG
1 TTTAGG
26253589 TTTTATGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (17 bp):
TTTAGGGTTAAGGGTTT
Found at i:26253579 original size:22 final size:22
Alignment explanation
Indices: 26253535--26253581 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
26253525 ATTATTTAGA
* *
26253535 GTTAGGGTTTTTAGGGTTTAGG
1 GTTAGGGTTTTTAGAGTTAAGG
26253557 GTTAGGGTTTTTTA-AGTTAAGG
1 GTTAGGG-TTTTTAGAGTTAAGG
26253579 GTT
1 GTT
26253582 TTTTAGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (22 bp):
GTTAGGGTTTTTAGAGTTAAGG
Found at i:26254631 original size:126 final size:126
Alignment explanation
Indices: 26254275--26254631 Score: 579
Period size: 126 Copynumber: 2.8 Consensus size: 126
26254265 ACGTTTTTGG
* * * *
26254275 ACAAATAGTGTCGAAAAAAGCTTCAAGCAGGATGCACTGTTAGCAAAATTTATAGAAAAAGCTCC
1 ACAAATAGTGTCG-AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCTGGAAAAAGCTCC
* * * * *
26254340 CACGTGGACGCTCTTTTGCTATAGTAGTTCATAGAAAAACAATTATGAGTAGACGTTTCTGA
65 CACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAATAATTATGAATAGACATTTCTGA
* *
26254402 ACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTCAGTAAAATTTCTGAAAAAAGCTCCC
1 ACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCTGGAAAAAGCTCCC
*
26254467 ACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAATAGACATTTCTGA
66 ACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAATAATTATGAATAGACATTTCTGA
*
26254528 ACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCAGTGTCAGCAAAATTTCTGGAAAAAGCTCCC
1 ACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCTGGAAAAAGCTCCC
*
26254593 ACGTGGACGCTTTTTTGCTACAGTAGTTCGTAGAAAAAT
66 ACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAAT
26254632 GAGGCTATAA
Statistics
Matches: 214, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
126 201 0.94
127 13 0.06
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (126 bp):
ACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTCTGGAAAAAGCTCCC
ACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAATAATTATGAATAGACATTTCTGA
Found at i:26258072 original size:18 final size:18
Alignment explanation
Indices: 26258046--26258088 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
26258036 GACTAGGAAA
* *
26258046 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
26258064 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
26258082 AGGATAC
1 AGGATAC
26258089 GCACTTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:26258298 original size:24 final size:24
Alignment explanation
Indices: 26258270--26258322 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
26258260 GACAATAAAT
26258270 ATGGCTTGCCATGGAT-TATAAACC
1 ATGGCTTGCCATGGATCT-TAAACC
26258294 ATGGCTTGCCATGGATCTTAAACC
1 ATGGCTTGCCATGGATCTTAAACC
26258318 ATGGC
1 ATGGC
26258323 ATATATTCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
ATGGCTTGCCATGGATCTTAAACC
Found at i:26258706 original size:7 final size:7
Alignment explanation
Indices: 26258694--26258718 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
26258684 TATTACTTAT
26258694 ATACATA
1 ATACATA
26258701 ATACATA
1 ATACATA
26258708 ATACATA
1 ATACATA
26258715 ATAC
1 ATAC
26258719 TAAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:26258724 original size:7 final size:7
Alignment explanation
Indices: 26258714--26258739 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
26258704 CATAATACAT
26258714 AATACTA
1 AATACTA
26258721 AATACTA
1 AATACTA
26258728 AATACTA
1 AATACTA
26258735 AATAC
1 AATAC
26258740 GAAACGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:26258724 original size:14 final size:14
Alignment explanation
Indices: 26258694--26258739 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
26258684 TATTACTTAT
26258694 ATACATAATAC-ATA
1 ATACATAATACTA-A
26258708 ATACATAATACTAA
1 ATACATAATACTAA
26258722 ATAC-TAAATACTAA
1 ATACAT-AATACTAA
26258736 ATAC
1 ATAC
26258740 GAAACGACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.03
14 28 0.93
15 1 0.03
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (14 bp):
ATACATAATACTAA
Found at i:26260021 original size:11 final size:11
Alignment explanation
Indices: 26260002--26260058 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
26259992 AATTAAACAA
*
26260002 AGAATTTTGAT
1 AGAAATTTGAT
26260013 AGAAATTTGAT
1 AGAAATTTGAT
* *
26260024 AGAATTTTGAG
1 AGAAATTTGAT
*
26260035 A-AAATTTCA-
1 AGAAATTTGAT
26260044 ATGAAATTTGAT
1 A-GAAATTTGAT
26260056 AGA
1 AGA
26260059 TTTTTTAAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 1 0.03
10 6 0.16
11 29 0.78
12 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.37
Consensus pattern (11 bp):
AGAAATTTGAT
Found at i:26260030 original size:22 final size:21
Alignment explanation
Indices: 26260001--26260058 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
26259991 AAATTAAACA
*
26260001 AAGAATTTTGATAGAAATTTG
1 AAGAATTTTGATAGAAATTTC
*
26260022 ATAGAATTTTGAGA-AAATTTC
1 A-AGAATTTTGATAGAAATTTC
*
26260043 AATGAAATTTGATAGA
1 AA-GAATTTTGATAGA
26260059 TTTTTTAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.03
21 17 0.57
22 12 0.40
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (21 bp):
AAGAATTTTGATAGAAATTTC
Found at i:26271800 original size:45 final size:46
Alignment explanation
Indices: 26271749--26271841 Score: 152
Period size: 45 Copynumber: 2.0 Consensus size: 46
26271739 CAAGGCAAGC
26271749 ATTGAGACTCCTCCAAGCTCTATTT-CCATCTTTTAAATAGGGAAG
1 ATTGAGACTCCTCCAAGCTCTATTTCCCATCTTTTAAATAGGGAAG
* * *
26271794 ATTGAGACTTCTCTAAGCTCTATTTCCCATCTTTTAAATTGGGAAG
1 ATTGAGACTCCTCCAAGCTCTATTTCCCATCTTTTAAATAGGGAAG
26271840 AT
1 AT
26271842 CAAAGATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 23 0.52
46 21 0.48
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (46 bp):
ATTGAGACTCCTCCAAGCTCTATTTCCCATCTTTTAAATAGGGAAG
Found at i:26272044 original size:20 final size:20
Alignment explanation
Indices: 26272021--26272061 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
26272011 TGTAAAAAAA
26272021 TAAAGCTATGAGCCTTATGG
1 TAAAGCTATGAGCCTTATGG
26272041 TAAAGCTATGAGCCTTATGG
1 TAAAGCTATGAGCCTTATGG
26272061 T
1 T
26272062 TTTCTCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (20 bp):
TAAAGCTATGAGCCTTATGG
Found at i:26276402 original size:40 final size:39
Alignment explanation
Indices: 26276353--26276470 Score: 139
Period size: 39 Copynumber: 3.0 Consensus size: 39
26276343 AAATCCAATC
* *
26276353 ACCACCACAAAGCATGCGGGGCTTTAAGCCCGGATATAAT
1 ACCAGCACAAAGCATGCGGGACTTT-AGCCCGGATATAAT
* * *
26276393 ACCAGCACAAAGCCTGCGGGACTTTAGCCTGGATATAAC
1 ACCAGCACAAAGCATGCGGGACTTTAGCCCGGATATAAT
* * *
26276432 ACCAGCACGAATGCTTTCGGGAC-TTAGCCCGGATATAAT
1 ACCAGCAC-AAAGCATGCGGGACTTTAGCCCGGATATAAT
26276471 TCTCCATTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 34 0.51
40 33 0.49
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (39 bp):
ACCAGCACAAAGCATGCGGGACTTTAGCCCGGATATAAT
Found at i:26278714 original size:2 final size:2
Alignment explanation
Indices: 26278707--26278736 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26278697 CGGCTCTTGC
26278707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26278737 TTGCACATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26279531 original size:39 final size:40
Alignment explanation
Indices: 26279426--26279633 Score: 235
Period size: 40 Copynumber: 5.2 Consensus size: 40
26279416 TATTCGAATG
* * *
26279426 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
* *
26279467 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGATTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
*
26279507 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
26279546 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * **
26279586 ATAACCGGGCTATGTCCCGAAGGCGTTTGAACGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
26279626 ATATCCGG
1 ATATCCGG
26279634 TTAAATTTCA
Statistics
Matches: 143, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
39 36 0.25
40 78 0.55
41 28 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:26279566 original size:79 final size:81
Alignment explanation
Indices: 26279426--26279609 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
26279416 TATTCGAATG
* * *
26279426 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGC
*
26279491 ATTTGTGCGATTTACT
66 ATTTGTGCGAGTTACT
* * **
26279507 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAG
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAG
26279568 GCATTTGTGCGAGTTACT
64 GCATTTGTGCGAGTTACT
* *
26279586 ATAACCGGGCTATGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
26279610 GTTTGAACGA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 50 0.56
80 26 0.29
81 12 0.13
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGC
ATTTGTGCGAGTTACT
Found at i:26279636 original size:79 final size:79
Alignment explanation
Indices: 26279430--26279637 Score: 219
Period size: 79 Copynumber: 2.6 Consensus size: 79
26279420 CGAATGATAT
* * *
26279430 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
* *
26279494 TGTGCGATTTACTAATT
63 TGTGCGAGTTACTAATA
* *
26279511 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
26279573 TGTGCGAGTTACT-ATAA
63 TGTGCGAGTTACTAAT-A
* * **
26279590 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAA
26279638 ATTTCAAAGG
Statistics
Matches: 107, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
78 3 0.03
79 53 0.50
80 41 0.38
81 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:26287710 original size:15 final size:15
Alignment explanation
Indices: 26287692--26287780 Score: 91
Period size: 15 Copynumber: 6.1 Consensus size: 15
26287682 ATCATTTATT
26287692 TTATTAT-TCTATCTA
1 TTATTATAT-TATCTA
26287707 TTATTATATTATCTA
1 TTATTATATTATCTA
26287722 TTATTATATTATCTA
1 TTATTATATTATCTA
*
26287737 TT-TATATATTAT-TT
1 TTAT-TATATTATCTA
*
26287751 TTA-TATATTA-GTA
1 TTATTATATTATCTA
26287764 TTATATATATTAT-TA
1 TTAT-TATATTATCTA
26287779 TT
1 TT
26287781 TCTATTTAGT
Statistics
Matches: 65, Mismatches: 2, Indels: 14
0.80 0.02 0.17
Matches are distributed among these distances:
13 11 0.17
14 4 0.06
15 49 0.75
16 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (15 bp):
TTATTATATTATCTA
Found at i:26287755 original size:11 final size:11
Alignment explanation
Indices: 26287708--26287802 Score: 54
Period size: 13 Copynumber: 8.1 Consensus size: 11
26287698 TTCTATCTAT
*
26287708 TATTATATTATC
1 TATTAT-TTATA
26287720 TATTA-TTATA
1 TATTATTTATA
26287730 TTATCTATTTATA
1 -TAT-TATTTATA
26287743 TATTATTTTTATA
1 TATTA--TTTATA
26287756 TATTAGTATTATA
1 TATTA-T-TTATA
26287769 TA-TA-TTATTA
1 TATTATTTA-TA
*
26287779 TTTCTATTTAGT-
1 TAT-TATTTA-TA
26287791 TATTATTTATA
1 TATTATTTATA
26287802 T
1 T
26287803 TTAGTATATT
Statistics
Matches: 67, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
9 3 0.04
10 8 0.12
11 12 0.18
12 17 0.25
13 27 0.40
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTATTTATA
Found at i:26287760 original size:48 final size:47
Alignment explanation
Indices: 26287692--26287830 Score: 129
Period size: 48 Copynumber: 2.8 Consensus size: 47
26287682 ATCATTTATT
* *
26287692 TTATTATTCTATCTATTATTATATTATCTATTATTA-TATTATCTATTTA-
1 TTATTATT-TATATA-TATTATATTATATA-TATTATTATT-TCTATTTAG
*
26287741 TATATTATTTTTATATATTAGTATTATATATATTATTATTTCTATTTAG
1 T-TATTATTTATATATATTA-TATTATATATATTATTATTTCTATTTAG
* * * *
26287790 TTATTATTTATATTTAGTATATTTAGAATTTATTATTATTT
1 TTATTATTTATATATATTATA-TTA-TATATATTATTATTT
26287831 AATTTAAGTT
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
47 2 0.03
48 36 0.47
49 31 0.41
50 7 0.09
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (47 bp):
TTATTATTTATATATATTATATTATATATATTATTATTTCTATTTAG
Found at i:26287767 original size:26 final size:25
Alignment explanation
Indices: 26287738--26287830 Score: 73
Period size: 26 Copynumber: 3.5 Consensus size: 25
26287728 TATTATCTAT
26287738 TTATATATTATTTTTATATATTAGTA
1 TTATATATTATTTTTATAT-TTAGTA
*
26287764 TTATATATATTATTATTTCTATTTAGTTA
1 -T-TATATATTATT-TTTATATTTAG-TA
* * *
26287793 TTATTTA-TATTTAGTATATTTAGAA
1 TTATATATTATTT-TTATATTTAGTA
26287818 TT-TATTATTATTT
1 TTATA-TATTATTT
26287831 AATTTAAGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
24 1 0.02
25 6 0.11
26 17 0.31
27 6 0.11
28 16 0.30
29 8 0.15
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (25 bp):
TTATATATTATTTTTATATTTAGTA
Found at i:26287797 original size:17 final size:17
Alignment explanation
Indices: 26287743--26287841 Score: 77
Period size: 17 Copynumber: 6.1 Consensus size: 17
26287733 TCTATTTATA
* *
26287743 TATTATTTTTATATA-T
1 TATTATTTATATTTAGT
* *
26287759 TAGTA-TTATATATA-T
1 TATTATTTATATTTAGT
*
26287774 TATTATTTCTATTTAGT
1 TATTATTTATATTTAGT
26287791 TATTATTTATATTTAG-
1 TATTATTTATATTTAGT
*
26287807 TA-TATTTAGAATTTA-T
1 TATTATTTA-TATTTAGT
26287823 TATTATTTA-ATTTAAGT
1 TATTATTTATATTT-AGT
26287840 TA
1 TA
26287842 AATAGAAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
15 23 0.33
16 21 0.30
17 25 0.36
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (17 bp):
TATTATTTATATTTAGT
Found at i:26287848 original size:31 final size:32
Alignment explanation
Indices: 26287790--26287897 Score: 114
Period size: 31 Copynumber: 3.4 Consensus size: 32
26287780 TTCTATTTAG
* **
26287790 TTATTATTTATATTT-AGTATATTTAGAATTTA
1 TTATTATTTA-ATTTAAGTATAATTAGAATAAA
*
26287822 TTATTATTTAATTTAAGT-TAAATAGAA-AAA
1 TTATTATTTAATTTAAGTATAATTAGAATAAA
* *
26287852 TTAATAATTTAATTTAAGTATAATTAAAATAAA
1 TT-ATTATTTAATTTAAGTATAATTAGAATAAA
26287885 TTATTAATTTAAT
1 TTATT-ATTTAAT
26287898 AATTTAGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
30 3 0.05
31 26 0.41
32 22 0.35
33 12 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (32 bp):
TTATTATTTAATTTAAGTATAATTAGAATAAA
Found at i:26293592 original size:25 final size:24
Alignment explanation
Indices: 26293542--26293602 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
26293532 TTTAAATTTA
*
26293542 TAAATATATATATCATATGAAAAT
1 TAAATATATATATAATATGAAAAT
26293566 TAAATATACTATATAATA-GAAATAT
1 TAAATATA-TATATAATATGAAA-AT
26293591 TAAA-ATATATAT
1 TAAATATATATAT
26293603 TAAGTTGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 5 0.15
24 15 0.44
25 14 0.41
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (24 bp):
TAAATATATATATAATATGAAAAT
Found at i:26295087 original size:37 final size:37
Alignment explanation
Indices: 26295043--26295153 Score: 222
Period size: 37 Copynumber: 3.0 Consensus size: 37
26295033 GTTTACATGC
26295043 ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
1 ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
26295080 ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
1 ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
26295117 ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
1 ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
26295154 TTAACTACAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (37 bp):
ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
Found at i:26295255 original size:67 final size:70
Alignment explanation
Indices: 26295172--26295304 Score: 209
Period size: 70 Copynumber: 1.9 Consensus size: 70
26295162 ATAAACAACA
* * *
26295172 TAATGGTTTTGCCTTTTAAC-TTA-ATAA-GTAAACATTTATCAAAATAACGTAGCTTTACATTT
1 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAATAAAGTAGCTTTACATTT
26295234 TAACT
66 TAACT
*
26295239 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAATAAAGTAGTTTTACATTT
1 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAATAAAGTAGCTTTACATTT
26295304 T
66 T
26295305 TTTATTCAGA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
67 19 0.32
68 3 0.05
69 3 0.05
70 34 0.58
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (70 bp):
TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAATAAAGTAGCTTTACATTT
TAACT
Found at i:26298135 original size:6 final size:6
Alignment explanation
Indices: 26298121--26298201 Score: 108
Period size: 6 Copynumber: 13.5 Consensus size: 6
26298111 GCAAGCTCGA
* * * *
26298121 CTCAGG CTCATG CTCATG CTCAGG CTCAGG CTCAAG CTCAGG CTCAAG
1 CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG
* *
26298169 CTCAAG CTCAAG CTCAGG CTCAGG CTCAGG CTC
1 CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG CTC
26298202 GACCCACAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.21, C:0.35, G:0.25, T:0.20
Consensus pattern (6 bp):
CTCAGG
Found at i:26303478 original size:16 final size:16
Alignment explanation
Indices: 26303457--26303489 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
26303447 AAATAAAGTA
*
26303457 AAAGAATAAAAGAAAC
1 AAAGAAGAAAAGAAAC
26303473 AAAGAAGAAAAGAAAC
1 AAAGAAGAAAAGAAAC
26303489 A
1 A
26303490 GAGACTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAAGAAAC
Found at i:26304485 original size:23 final size:23
Alignment explanation
Indices: 26304454--26304543 Score: 101
Period size: 23 Copynumber: 3.9 Consensus size: 23
26304444 ACTAAGTGCC
26304454 ATTCTGGTGTGTTTGGGTGGATT
1 ATTCTGGTGTGTTTGGGTGGATT
*
26304477 GTTCTGGTGTGTTTGGGTGGATT
1 ATTCTGGTGTGTTTGGGTGGATT
* ** *
26304500 ATTTTAATGTGTTTGGTTGGATT
1 ATTCTGGTGTGTTTGGGTGGATT
* *
26304523 ATT-TCAGTGTGTTTGGTTGGA
1 ATTCT-GGTGTGTTTGGGTGGA
26304544 ATCTGTATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.02
23 58 0.98
ACGTcount: A:0.11, C:0.03, G:0.36, T:0.50
Consensus pattern (23 bp):
ATTCTGGTGTGTTTGGGTGGATT
Found at i:26304793 original size:23 final size:23
Alignment explanation
Indices: 26304749--26304793 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
26304739 ATCAATTTAA
*
26304749 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
26304772 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
26304794 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:26307292 original size:10 final size:11
Alignment explanation
Indices: 26307274--26307315 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
26307264 CATTAATAAC
26307274 ATTTCATAAAT
1 ATTTCATAAAT
26307285 ATTT-ATAAATT
1 ATTTCATAAA-T
26307296 ATTTCATAAAT
1 ATTTCATAAAT
26307307 ATTT-ATAAA
1 ATTTCATAAA
26307316 ATTATTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.34
11 14 0.48
12 5 0.17
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTCATAAAT
Found at i:26307299 original size:22 final size:23
Alignment explanation
Indices: 26307274--26307322 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 23
26307264 CATTAATAAC
26307274 ATTTCATAAATATTTAT-AAATT
1 ATTTCATAAATATTTATAAAATT
26307296 ATTTCATAAATATTTATAAAATT
1 ATTTCATAAATATTTATAAAATT
26307319 ATTT
1 ATTT
26307323 TTGACTCGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTTCATAAATATTTATAAAATT
Found at i:26307321 original size:12 final size:11
Alignment explanation
Indices: 26307274--26307322 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
26307264 CATTAATAAC
26307274 ATTTCATAAA-T
1 ATTT-ATAAATT
26307285 ATTTATAAATT
1 ATTTATAAATT
26307296 ATTTCATAAA-T
1 ATTT-ATAAATT
26307307 ATTTATAAAATT
1 ATTTAT-AAATT
26307319 ATTT
1 ATTT
26307323 TTGACTCGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.21
11 17 0.50
12 10 0.29
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTATAAATT
Found at i:26308322 original size:16 final size:16
Alignment explanation
Indices: 26308301--26308332 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26308291 TCCTTATACC
*
26308301 AAAAGATTTTTTAAAG
1 AAAAGATTTTTCAAAG
26308317 AAAAGATTTTTCAAAG
1 AAAAGATTTTTCAAAG
26308333 TAGGATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.34
Consensus pattern (16 bp):
AAAAGATTTTTCAAAG
Found at i:26317987 original size:26 final size:25
Alignment explanation
Indices: 26317957--26318005 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
26317947 TCTCATCCCT
26317957 ATTTTATTCCCAACAAAATTTTGATG
1 ATTTT-TTCCCAACAAAATTTTGATG
* **
26317983 ATTTTTTCCTAGTAAAATTTTGA
1 ATTTTTTCCCAACAAAATTTTGA
26318006 GAAAATATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (25 bp):
ATTTTTTCCCAACAAAATTTTGATG
Found at i:26318816 original size:19 final size:19
Alignment explanation
Indices: 26318794--26318850 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
26318784 TGAATTCCAC
26318794 TATTGTGAATGATGCTACA
1 TATTGTGAATGATGCTACA
* *
26318813 TA-T-TGCA-GAAG-T-CA
1 TATTGTGAATGATGCTACA
26318827 TATTGTGAATGATGCTACA
1 TATTGTGAATGATGCTACA
26318846 TATTG
1 TATTG
26318851 CAGAAGTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
14 4 0.14
15 2 0.07
16 6 0.21
17 6 0.21
18 2 0.07
19 9 0.31
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (19 bp):
TATTGTGAATGATGCTACA
Found at i:26318836 original size:33 final size:33
Alignment explanation
Indices: 26318794--26318861 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
26318784 TGAATTCCAC
26318794 TATTGTGAATGATGCTACATATTGCAGAAGTCA
1 TATTGTGAATGATGCTACATATTGCAGAAGTCA
26318827 TATTGTGAATGATGCTACATATTGCAGAAGTCA
1 TATTGTGAATGATGCTACATATTGCAGAAGTCA
26318860 TA
1 TA
26318862 CACCCAATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.34
Consensus pattern (33 bp):
TATTGTGAATGATGCTACATATTGCAGAAGTCA
Done.