Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 90 of 328
Found at i:25214134 original size:136 final size:136
Alignment explanation
Indices: 25213889--25214310 Score: 772
Period size: 136 Copynumber: 3.1 Consensus size: 136
25213879 GAGTAGTCTC
*
25213889 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
25213954 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTTTGGCCCAGTATC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
25214019 ACTGTTA
130 ACTGTTA
25214026 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
25214091 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
25214156 CTGTTA
131 CTGTTA
*
25214162 CCCAAATGGGCTTGCACATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
25214227 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
25214292 CTGTTA
131 CTGTTA
**
25214298 CCTGAATGGGCTT
1 CCCAAATGGGCTT
25214311 AGGCCCAATA
Statistics
Matches: 278, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
136 258 0.93
137 20 0.07
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:25223512 original size:25 final size:25
Alignment explanation
Indices: 25223478--25223561 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 25
25223468 TGTCTAGCAA
* *
25223478 GCTTCGTGCCGATGTATATTGTCAG
1 GCTTTGTGCCGATGTAAATTGTCAG
*
25223503 GCTTTGTGCCGGTGTAAATTAGT-AG
1 GCTTTGTGCCGATGTAAATT-GTCAG
* * *
25223528 GCTTTGT-CCCAGGGTAAATTATCAG
1 GCTTTGTGCCGA-TGTAAATTGTCAG
25223553 GCTTTGTGC
1 GCTTTGTGC
25223562 TTACCAGGCT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 3 0.06
25 42 0.88
26 3 0.06
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.36
Consensus pattern (25 bp):
GCTTTGTGCCGATGTAAATTGTCAG
Found at i:25226534 original size:14 final size:14
Alignment explanation
Indices: 25226508--25226545 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
25226498 TCACATGACC
25226508 AATTAATTT-AATTT
1 AATT-ATTTAAATTT
*
25226522 AATTTTTTAAATTT
1 AATTATTTAAATTT
25226536 AATTATTTAA
1 AATTATTTAA
25226546 TTAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 3 0.14
14 18 0.86
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTATTTAAATTT
Found at i:25232685 original size:21 final size:21
Alignment explanation
Indices: 25232655--25232695 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25232645 AACAGCATAA
* *
25232655 TCGTCGTCATTGTCATCATCG
1 TCGTCATCATTATCATCATCG
25232676 TCGTCATCATTATCATCATC
1 TCGTCATCATTATCATCATC
25232696 ATCCTCACTG
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:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (21 bp):
TCGTCATCATTATCATCATCG
Found at i:25232690 original size:18 final size:18
Alignment explanation
Indices: 25232654--25232692 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
25232644 AAACAGCATA
**
25232654 ATCGTCGTCATTGTCATC
1 ATCGTCGTCATCATCATC
*
25232672 ATCGTCGTCATCATTATC
1 ATCGTCGTCATCATCATC
25232690 ATC
1 ATC
25232693 ATCATCCTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (18 bp):
ATCGTCGTCATCATCATC
Found at i:25234571 original size:20 final size:20
Alignment explanation
Indices: 25234535--25234578 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
25234525 TGATAATGTT
*
25234535 TTTAAAATTATCAAAAATTC
1 TTTAAAATTATCAAAAATTA
*
25234555 TTTAAAATT-TTAGAAAATTA
1 TTTAAAATTATCA-AAAATTA
25234575 TTTA
1 TTTA
25234579 TTTATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTAAAATTATCAAAAATTA
Found at i:25242253 original size:2 final size:2
Alignment explanation
Indices: 25242246--25242272 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25242236 TGTACGTGAA
25242246 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
25242273 ATACTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25249306 original size:16 final size:17
Alignment explanation
Indices: 25249285--25249322 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
25249275 TTATATCAAC
25249285 AAAATAAA-AAATTTTA
1 AAAATAAACAAATTTTA
**
25249301 AAAATAAACTTATTTTA
1 AAAATAAACAAATTTTA
25249318 AAAAT
1 AAAAT
25249323 TTAAATTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATAAACAAATTTTA
Found at i:25249412 original size:19 final size:18
Alignment explanation
Indices: 25249347--25249468 Score: 68
Period size: 19 Copynumber: 6.6 Consensus size: 18
25249337 AATTTGGACT
* *
25249347 AATTATAAATTCATTATGA
1 AATTATAAAAT-ATTATAA
* * * *
25249366 AATCATAAAAAAATAAAA
1 AATTATAAAATATTATAA
* *
25249384 AATAAAAAAAT-TTATTAA
1 AATTATAAAATATTA-TAA
25249402 AACTTATAAAATCATTATAA
1 AA-TTATAAAAT-ATTATAA
*
25249422 AATTATAAAATAATTA-GA
1 AATTATAAAAT-ATTATAA
* * *
25249440 AGTTATAAAAAATCATAAA
1 AATTATAAAATATTAT-AA
25249459 AATTATAAAA
1 AATTATAAAA
25249469 ACCATAACTT
Statistics
Matches: 77, Mismatches: 20, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
17 5 0.06
18 26 0.34
19 38 0.49
20 5 0.06
21 3 0.04
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (18 bp):
AATTATAAAATATTATAA
Found at i:25261886 original size:29 final size:29
Alignment explanation
Indices: 25261853--25261983 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
25261843 TGACGAGATC
*
25261853 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
25261882 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
25261911 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
25261940 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
25261969 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
25261984 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:25270001 original size:29 final size:29
Alignment explanation
Indices: 25269968--25270098 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
25269958 TGACGAGATC
*
25269968 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
25269997 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
25270026 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
25270055 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
25270084 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
25270099 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:25272564 original size:28 final size:28
Alignment explanation
Indices: 25272541--25272655 Score: 117
Period size: 28 Copynumber: 4.1 Consensus size: 28
25272531 TGTACATATA
*
25272541 AATCTGCATATATGATTTCGTA-CATATG
1 AATCTGCCTATATGATTTCGTATC-TATG
* *
25272569 AAT-TAGCTTATAAGATTTCGTATCTATG
1 AATCT-GCCTATATGATTTCGTATCTATG
* *
25272597 AATCTGCCTATGTGATTTTGTATCTATG
1 AATCTGCCTATATGATTTCGTATCTATG
* ** *
25272625 AATCTGCCTATGTGATCACGTTTCTATG
1 AATCTGCCTATATGATTTCGTATCTATG
25272653 AAT
1 AAT
25272656 TTCACCTATG
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.01
28 71 0.96
29 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (28 bp):
AATCTGCCTATATGATTTCGTATCTATG
Found at i:25279040 original size:24 final size:24
Alignment explanation
Indices: 25279013--25279062 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
25279003 GGTTATGAAG
25279013 TTCAACTCCACTTACTTATTTTAT
1 TTCAACTCCACTTACTTATTTTAT
25279037 TTCAACTCCACTTACTTATTTTAT
1 TTCAACTCCACTTACTTATTTTAT
25279061 TT
1 TT
25279063 TCGATTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (24 bp):
TTCAACTCCACTTACTTATTTTAT
Found at i:25281341 original size:14 final size:14
Alignment explanation
Indices: 25281317--25281353 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
25281307 CCTGAAAGAT
25281317 ATTAA-AACACA-A
1 ATTAAGAACACATA
25281329 GATTAAGAACACATA
1 -ATTAAGAACACATA
25281344 ATTAAGAACA
1 ATTAAGAACA
25281354 AGAAGAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 16 0.73
15 1 0.05
ACGTcount: A:0.59, C:0.14, G:0.08, T:0.19
Consensus pattern (14 bp):
ATTAAGAACACATA
Found at i:25286120 original size:27 final size:27
Alignment explanation
Indices: 25286101--25286246 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 27
25286091 ATTACCAAAG
* * *
25286101 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
25286128 TACCCTCGATTTATAGAAATACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
25286155 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
25286182 TATCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
25286209 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
25286236 TACCCTCGATT
1 TACCCTCGATT
25286247 GTGAAATTAC
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:25286159 original size:54 final size:53
Alignment explanation
Indices: 25286101--25286246 Score: 202
Period size: 54 Copynumber: 2.7 Consensus size: 53
25286091 ATTACCAAAG
25286101 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAAATACCATTT
1 TACCCTCGATTTACAGAATTA-CGTTTTACCCTCGATTTATAGAAATACCATTT
* * * * **
25286155 TACCCTCGATTTATAGAATTACCGTTTTATCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTA-CGTTTTACCCTCGATTTATAGAAATACCATTT
*
25286209 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTAC-GTTTTACCCTCGATT
25286247 GTGAAATTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 79 0.99
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (53 bp):
TACCCTCGATTTACAGAATTACGTTTTACCCTCGATTTATAGAAATACCATTT
Found at i:25286268 original size:27 final size:27
Alignment explanation
Indices: 25286238--25286377 Score: 115
Period size: 27 Copynumber: 5.2 Consensus size: 27
25286228 TACTGTTTTA
* **
25286238 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCTAGATTGTGAAATTACCAAAATAC
* **
25286265 CCCTATAGGGT-AGAATTACCAAAATAC
1 CCCTAGATTGTGA-AATTACCAAAATAC
* * *
25286292 CCTTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGATTGTGAAATTACCAAAATAC
* * *
25286319 CACTAGTTTGTGAAATTACCGAAATA-
1 CCCTAGATTGTGAAATTACCAAAATAC
*
25286345 CCCTCA-ATTTGTAAAATTACCAAAATAC
1 CCCT-AGA-TTGTGAAATTACCAAAATAC
25286373 CCCTA
1 CCCTA
25286378 ATTTACAAAA
Statistics
Matches: 89, Mismatches: 19, Indels: 10
0.75 0.16 0.08
Matches are distributed among these distances:
26 4 0.04
27 80 0.90
28 5 0.06
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.29
Consensus pattern (27 bp):
CCCTAGATTGTGAAATTACCAAAATAC
Found at i:25286319 original size:54 final size:54
Alignment explanation
Indices: 25286236--25286377 Score: 155
Period size: 54 Copynumber: 2.6 Consensus size: 54
25286226 ATTACTGTTT
* * **
25286236 TACCCTCGA-TTGTGAAATTACTGAAATACCCCTA-TAGGGT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGT-GGGTGA-AATTACCAAAA
* * * ** *
25286289 TACCCTTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTGGGTGAAATTACCAAAA
25286343 TACCCTCAATTTGTAAAATTACCAAAATACCCCTA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTA
25286378 ATTTACAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
53 6 0.08
54 65 0.89
55 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.29
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTGGGTGAAATTACCAAAA
Found at i:25286363 original size:81 final size:81
Alignment explanation
Indices: 25286245--25286400 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
25286235 TTACCCTCGA
* * * * * **
25286245 TTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACCAAAATACCCTTAGTTTGTAAAATTA
1 TTGTGAAATTACCGAAATACCCCAATAGGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
25286310 CCA-AAATACCACTAGT
66 -CAGAAATACCACTAGT
**
25286326 TTGTGAAATTACCGAAATACCCTCAAT-TTGTAAAATTACCAAAATACCCCTAATTTACAAAATT
1 TTGTGAAATTACCGAAATACCC-CAATAGGGTAAAATTACCAAAATACCCCTAATTTACAAAATT
25286390 ACAGAAATACC
65 ACAGAAATACC
25286401 CTTGACTTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 2 0.03
81 59 0.92
82 3 0.05
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACCGAAATACCCCAATAGGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
CAGAAATACCACTAGT
Found at i:25286380 original size:27 final size:27
Alignment explanation
Indices: 25286278--25286401 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
25286268 TATAGGGTAG
* *
25286278 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * *
25286305 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
25286332 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
25286359 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
25286386 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
25286402 TTGACTTTCT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.06
27 75 0.89
28 4 0.05
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:25286389 original size:54 final size:54
Alignment explanation
Indices: 25286278--25286458 Score: 175
Period size: 54 Copynumber: 3.3 Consensus size: 54
25286268 TATAGGGTAG
* * * * ***
25286278 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGA
1 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTAATTTACAA
*
25286332 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTAATTTACAA
* * * * * * **
25286386 AATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCC-TCAATTTGT-AAAATTACCA-AAATACCACTAATTTACAA
*
25286442 AATTACTGAAATACCCT
1 AATTACCGAAATACCCT
25286459 TGGTTTGTAG
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
54 61 0.58
55 8 0.08
56 37 0.35
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (54 bp):
AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTAATTTACAA
Found at i:25286452 original size:27 final size:27
Alignment explanation
Indices: 25286379--25286464 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
25286369 ATACCCCTAA
* *
25286379 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
*
25286407 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCCTTGG
25286435 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
25286462 TTT
1 TTT
25286465 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:25286548 original size:27 final size:27
Alignment explanation
Indices: 25286505--25286578 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
25286495 AAATGACTAA
*
25286505 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
25286532 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
25286559 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
25286579 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:25286582 original size:27 final size:27
Alignment explanation
Indices: 25286518--25286582 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
25286508 ACCCCTAATA
*
25286518 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
25286545 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
25286572 GGTAAAATGAC
1 GGTAAAATGAC
25286583 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:25287426 original size:25 final size:25
Alignment explanation
Indices: 25287392--25287461 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
25287382 AGGAAGTGCT
*
25287392 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
25287417 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
25287442 AAAAGGGCTTTGACCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
25287462 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:25287474 original size:24 final size:24
Alignment explanation
Indices: 25287391--25287474 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
25287381 GAGGAAGTGC
*
25287391 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
25287416 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
* *
25287440 CAAAAAGGGCTTTGACCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
25287464 TAAAAGAGGCT
1 TAAAAG-GGCT
25287475 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.15
25 39 0.75
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:25287485 original size:50 final size:50
Alignment explanation
Indices: 25287392--25287486 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
25287382 AGGAAGTGCT
* **
25287392 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGACCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
25287442 AAAAGGGCTTTGACCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGACCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
25287487 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGACCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:25287666 original size:41 final size:42
Alignment explanation
Indices: 25287609--25287699 Score: 166
Period size: 41 Copynumber: 2.2 Consensus size: 42
25287599 TAGTCTCCCC
25287609 AAATGGGCTTGCATACATTCATTG-TATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
25287650 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
25287692 AAATGGGC
1 AAATGGGC
25287700 CTATGGGCCA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 24 0.50
42 24 0.50
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:25289715 original size:27 final size:27
Alignment explanation
Indices: 25289696--25289841 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
25289686 ATTACCAAAG
* * *
25289696 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
25289723 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
25289750 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * **
25289777 TATCCTTGATTTACAGAATTATTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
25289804 TACCCTCGATTTACACAATTAGCATTT
1 TACCCTCGATTTATAGAATTACCATTT
25289831 TACCCTCGATT
1 TACCCTCGATT
25289842 GTGAAATTAC
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:25289863 original size:27 final size:26
Alignment explanation
Indices: 25289833--25289971 Score: 91
Period size: 27 Copynumber: 5.2 Consensus size: 26
25289823 TAGCATTTTA
*
25289833 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCGAAATAC
* * * *
25289860 CCCT-ATAGGGTAGAATTACCAAAATAT
1 CCCTGATTGTG-A-AATTACCGAAATAC
* *
25289887 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCT-GATTGTGAAATTACCGAAATAC
* * *
25289914 CACTGGTTTGTGAAATTATCGAAATAC
1 CCCT-GATTGTGAAATTACCGAAATAC
* * * *
25289941 CCTTAATTTGTAAAATTACCAAAATAC
1 CCCTGA-TTGTGAAATTACCGAAATAC
25289968 CCCT
1 CCCT
25289972 AATTTACAAA
Statistics
Matches: 84, Mismatches: 23, Indels: 10
0.72 0.20 0.09
Matches are distributed among these distances:
25 4 0.05
26 1 0.01
27 76 0.90
28 1 0.01
29 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCGAAATAC
Found at i:25289939 original size:81 final size:81
Alignment explanation
Indices: 25289840--25289995 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
25289830 TTACCCTCGA
* * * **
25289840 TTGTGAAATTACTGAAATACCCCT-ATAGGGTAGAATTACCAAAATATCCCTAGTTTGTAAAATT
1 TTGTGAAATTACTGAAATACCCCTAAT-GGGTAAAATTACCAAAATACCCCTAATTTACAAAATT
*
25289904 ACCGAAATACCACTGGT
65 ACAGAAATACCACTGGT
* **
25289921 TTGTGAAATTA-TCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATT
1 TTGTGAAATTACT-GAAATACCCCTAATGGGTAAAATTACCAAAATACCCCTAATTTACAAAATT
25289985 ACAGAAATACC
65 ACAGAAATACC
25289996 CTTGACTTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.02
81 61 0.95
82 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (81 bp):
TTGTGAAATTACTGAAATACCCCTAATGGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
CAGAAATACCACTGGT
Found at i:25289974 original size:27 final size:27
Alignment explanation
Indices: 25289873--25289996 Score: 124
Period size: 27 Copynumber: 4.6 Consensus size: 27
25289863 TATAGGGTAG
* *
25289873 AATTACCAAAATATCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * ** *
25289900 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* * *
25289927 AATTATCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
**
25289954 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
25289981 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
25289997 TTGACTTTCT
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.03
27 78 0.98
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:25289984 original size:54 final size:54
Alignment explanation
Indices: 25289893--25290074 Score: 170
Period size: 54 Copynumber: 3.3 Consensus size: 54
25289883 ATATCCCTAG
* ***
25289893 TTTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTATC-GAAATACCCTTAA
1 TTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTA-CAGAAATACCCTTAA
* ** *
25289947 TTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACCCTT-AA
* * * * **
25290002 TTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGG
1 TTTGT-AAAATTACCA-AAATACCACTGGTTTACAAAATTACAGAAATACCCTTAA
* *
25290057 TTTGTAGATTTACCAAAA
1 TTTGTAAAATTACCAAAA
25290075 CACCCTTGTA
Statistics
Matches: 102, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
53 1 0.01
54 51 0.50
55 11 0.11
56 39 0.38
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACCCTTAA
Found at i:25290047 original size:27 final size:27
Alignment explanation
Indices: 25289898--25290059 Score: 98
Period size: 27 Copynumber: 5.9 Consensus size: 27
25289888 CCTAGTTTGT
* **
25289898 AAAATTACCGAAATACCAC-TGGTTTGT
1 AAAATTACTGAAATACC-CTTGGTTTAC
* ** **
25289925 GAAATTA-TCGAAATACCCTTAATTTGT
1 AAAATTACT-GAAATACCCTTGGTTTAC
** * **
25289952 AAAATTACCAAAATACCCCTAATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
25289979 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
25290006 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
25290035 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
25290060 GTAGATTTAC
Statistics
Matches: 107, Mismatches: 19, Indels: 18
0.74 0.13 0.12
Matches are distributed among these distances:
26 1 0.01
27 80 0.75
28 7 0.07
29 19 0.18
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:25290143 original size:27 final size:27
Alignment explanation
Indices: 25290100--25290173 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
25290090 AAATGACTAA
*
25290100 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
25290127 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
25290154 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
25290174 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:25290177 original size:27 final size:27
Alignment explanation
Indices: 25290113--25290177 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
25290103 ACCCCTAATA
*
25290113 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
25290140 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
25290167 GGTAAAATGAC
1 GGTAAAATGAC
25290178 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:25291091 original size:42 final size:42
Alignment explanation
Indices: 25291032--25291123 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
25291022 TAGTCTCCCC
*
25291032 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
25291074 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
25291116 AAATGGGC
1 AAATGGGC
25291124 CTATGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:25293147 original size:27 final size:27
Alignment explanation
Indices: 25293117--25293262 Score: 170
Period size: 27 Copynumber: 5.4 Consensus size: 27
25293107 ATTACCAAAG
*
25293117 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
25293144 TACCCTCGATTTATC-GAATTACCATTT
1 TACCCTCGATTTA-CAGAATTACCGTTT
* *
25293171 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * ***
25293198 TATCCTTGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
25293225 TACCCGT-GATTTACAAAATTACCGTTT
1 TACCC-TCGATTTACAGAATTACCGTTT
25293252 TACCCTCGATT
1 TACCCTCGATT
25293263 GTAAAATTAC
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.01
27 97 0.97
28 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:25293164 original size:54 final size:54
Alignment explanation
Indices: 25293117--25293262 Score: 197
Period size: 54 Copynumber: 2.7 Consensus size: 54
25293107 ATTACCAAAG
25293117 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATC-GAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA-CAGAATTACCATTT
* * * * * **
25293171 TACCCTCGATTTATAGAATTATCGTTTTATCCTTGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
25293225 TACCCGT-GATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCC-TCGATTTACAAAATTACCGTTTTACCCTCGATT
25293263 GTAAAATTAC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 76 0.97
55 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
Found at i:25293284 original size:27 final size:26
Alignment explanation
Indices: 25293254--25293417 Score: 111
Period size: 27 Copynumber: 6.1 Consensus size: 26
25293244 TACCGTTTTA
*
25293254 CCCTCGATTGTAAAATTACTGAAATAC
1 CCCT-GATTGTAAAATTACCGAAATAC
*
25293281 CCCT-ATAGGATAAAATTACC-AATATAC
1 CCCTGAT-TG-TAAAATTACCGAA-ATAC
* *
25293308 CCCTAGTTTGTAAAATTATCGAAATAC
1 CCCT-GATTGTAAAATTACCGAAATAC
* * *
25293335 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-GATTGTAAAATTACCGAAATAC
* *
25293361 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTAAAATTACCGAAATAC
* *
25293389 CCCTAATT-TACAAAATTACAGAAATAC
1 CCCTGATTGT--AAAATTACCGAAATAC
25293416 CC
1 CC
25293418 TTGACTTTCT
Statistics
Matches: 110, Mismatches: 17, Indels: 20
0.75 0.12 0.14
Matches are distributed among these distances:
25 3 0.03
26 8 0.07
27 91 0.83
28 7 0.06
29 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTAAAATTACCGAAATAC
Found at i:25293405 original size:54 final size:53
Alignment explanation
Indices: 25293233--25293418 Score: 153
Period size: 54 Copynumber: 3.5 Consensus size: 53
25293223 TTTACCCGTG
*** * *
25293233 ATTTACAAAATTACCGTTTTACCCTCGA-TTGTAAAATTACTGAAATACCCCT
1 ATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCT
** * * * *
25293285 ATAGGATAAAATTACC-AATATACCC-CTAGTTTGTAAAATTATCGAAATACCACT
1 AT-TTACAAAATTACCGAA-ATACCCTC-AATTTGTAAAATTACCGAAATACCCCT
* *** *
25293339 GGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 -ATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCT
*
25293393 AATTTACAAAATTACAGAAATACCCT
1 -ATTTACAAAATTACCGAAATACCCT
25293419 TGACTTTCTA
Statistics
Matches: 101, Mismatches: 26, Indels: 12
0.73 0.19 0.09
Matches are distributed among these distances:
52 3 0.03
53 15 0.15
54 79 0.78
55 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (53 bp):
ATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCT
Found at i:25293469 original size:27 final size:28
Alignment explanation
Indices: 25293429--25293480 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
25293419 TGACTTTCTA
*
25293429 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACTAGAAATACCCTTGGTTTAC
25293456 AAAATTACTA-AAATACCCTTGGTTT
1 AAAATTACTAGAAATACCCTTGGTTT
25293481 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (28 bp):
AAAATTACTAGAAATACCCTTGGTTTAC
Found at i:25294441 original size:25 final size:25
Alignment explanation
Indices: 25294408--25294502 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
25294398 AAGAAGTGCT
* *
25294408 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
25294433 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
* * *
25294458 AAAAGGGCTTTGCCTCGGTTTATGA
1 AAAAGGGCTTTGCCCCAGTTTATCA
25294483 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
25294503 ATTAAAAGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:25294515 original size:24 final size:25
Alignment explanation
Indices: 25294408--25294515 Score: 100
Period size: 25 Copynumber: 4.4 Consensus size: 25
25294398 AAGAAGTGCT
* **
25294408 AAAAG-GGCTTTGCCCTAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATG
25294432 AAAA-AGGGCTTTGCCCCAGTTTATCG
1 AAAAGA-GGCTTTGCCCCAGTTTAT-G
* *
25294458 AAAAG-GGCTTTGCCTCGGTTTATG
1 AAAAGAGGCTTTGCCCCAGTTTATG
*
25294482 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATG
25294506 AAAAGAGGCT
1 AAAAGAGGCT
25294516 AGGCTCCAGT
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
24 21 0.30
25 44 0.64
26 4 0.06
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATG
Found at i:25294532 original size:50 final size:50
Alignment explanation
Indices: 25294432--25294537 Score: 119
Period size: 50 Copynumber: 2.1 Consensus size: 50
25294422 CTAGTTTACC
** *
25294432 AAAAAGGGCTTTGCCCCAGTTTATCGAAAAGGGCTTTGCCTCGGTTTATG
1 AAAAAGGGCTTTGCCCCAGTTTATCGAAAAGGGCTAGGCCTCAGTTTATG
*
25294482 AAAAAGGGCTTTGCCCCAG-TTAT-TAAAAGAGGCTAGG-CTCCAGTTATATG
1 AAAAAGGGCTTTGCCCCAGTTTATCGAAAAG-GGCTAGGCCT-CAGTT-TATG
*
25294532 ATAAAG
1 AAAAAG
25294538 TAGCTATGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
48 7 0.15
49 13 0.27
50 28 0.58
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (50 bp):
AAAAAGGGCTTTGCCCCAGTTTATCGAAAAGGGCTAGGCCTCAGTTTATG
Found at i:25294708 original size:42 final size:42
Alignment explanation
Indices: 25294649--25294740 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
25294639 TAGTCTCCCC
**
25294649 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGAAATTTCATGTGATATTG
*
25294691 AAATGGGCTTGCATACATTCATTGAAATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGAAATTTCATGTGATATTG
25294733 AAATGGGC
1 AAATGGGC
25294741 CTATGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGAAATTTCATGTGATATTG
Found at i:25298916 original size:19 final size:19
Alignment explanation
Indices: 25298878--25298915 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
25298868 TGCAAATGGA
*
25298878 TCATTTCTCATTTTCATTT
1 TCATTTCTCATTTCCATTT
25298897 TCATTTC-CATTTCCATTT
1 TCATTTCTCATTTCCATTT
25298915 T
1 T
25298916 TTATAGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (19 bp):
TCATTTCTCATTTCCATTT
Found at i:25300536 original size:48 final size:48
Alignment explanation
Indices: 25300475--25300658 Score: 251
Period size: 48 Copynumber: 3.8 Consensus size: 48
25300465 CATTACGGTT
* * *
25300475 ATATAAGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCG
1 ATATGAGATCCCATGTAAGACCATGTTTAGGACATGGCATTAGCATCG
*
25300523 ATATGAGATCCCATGTAAGACCATGTTTAGGACATCGCATTAGCATCG
1 ATATGAGATCCCATGTAAGACCATGTTTAGGACATGGCATTAGCATCG
* * *
25300571 ATATGAGATCCCATGTAAGACCATATTTAGGATATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTTTAGGACATGGCATTAGCATCG
* ** * * *
25300619 ATATGTGATTTCGTGTAAGACAATGTTTGGGACATGGCAT
1 ATATGAGATCCCATGTAAGACCATGTTTAGGACATGGCAT
25300659 CGATATGAGA
Statistics
Matches: 120, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 120 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTTTAGGACATGGCATTAGCATCG
Found at i:25303790 original size:27 final size:27
Alignment explanation
Indices: 25303760--25304023 Score: 109
Period size: 26 Copynumber: 9.8 Consensus size: 27
25303750 GTTCTGACGA
25303760 ACTTCCCACATAAGATAGTCCTTGCGG
1 ACTTCCCACATAAGATAGTCCTTGCGG
* * *
25303787 ACTTTCCACATTAGATAGTCCTGATG-GA
1 ACTTCCCACATAAGATAGTCCT--TGCGG
* * * *
25303815 ATTTTCC-CATTAGATAGTCCTTGTGG
1 ACTTCCCACATAAGATAGTCCTTGCGG
* *
25303841 AC-TCCCATA-ATAGATGGTCCTTGCGG
1 ACTTCCCACATA-AGATAGTCCTTGCGG
* * ** **
25303867 A-TTTCCATA-ATAGATAGTTTTTGTAG
1 ACTTCCCACATA-AGATAGTCCTTGCGG
** * *
25303893 A-TTTTCACA-ATAGATAGTCCCTGGGG
1 ACTTCCCACATA-AGATAGTCCTTGCGG
* * *
25303919 ACTTCCCACATAATAAACGATCCTTGTGG
1 ACTTCCCACATAAGATA-G-TCCTTGCGG
* * *
25303948 ACTTCCCACATAATATAGT-GTTGACAG
1 ACTTCCCACATAAGATAGTCCTTG-CGG
* *
25303975 ACTTTCCTTA-ATAA-ATAGTCCTTGCAG
1 AC-TTCC-CACATAAGATAGTCCTTGCGG
*
25304002 ACTTCCCATATAAGATAGTCCT
1 ACTTCCCACATAAGATAGTCCT
25304024 GACGAACTTT
Statistics
Matches: 184, Mismatches: 37, Indels: 32
0.73 0.15 0.13
Matches are distributed among these distances:
25 6 0.03
26 66 0.36
27 65 0.35
28 21 0.11
29 26 0.14
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (27 bp):
ACTTCCCACATAAGATAGTCCTTGCGG
Found at i:25306016 original size:11 final size:11
Alignment explanation
Indices: 25306000--25306025 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25305990 TTGATTCTGA
25306000 AAAAATATTTT
1 AAAAATATTTT
25306011 AAAAATATTTT
1 AAAAATATTTT
25306022 AAAA
1 AAAA
25306026 TTTTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:25310607 original size:17 final size:18
Alignment explanation
Indices: 25310585--25310632 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
25310575 CCAACAATTA
25310585 AATGAAATAGAAAATG-G
1 AATGAAATAGAAAATGTG
*
25310602 AATGAAA-AGCAGAATGTG
1 AATGAAATAG-AAAATGTG
25310620 AATGAAATA-AAAA
1 AATGAAATAGAAAA
25310633 AGGCAAGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 2 0.08
17 15 0.58
18 8 0.31
19 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.21, T:0.17
Consensus pattern (18 bp):
AATGAAATAGAAAATGTG
Found at i:25311099 original size:21 final size:21
Alignment explanation
Indices: 25311061--25311104 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25311051 GAGGGAGAAT
* *
25311061 AGGAGAGGGGGAATAAGGGAA
1 AGGAGAGGGGGAAAAAGGAAA
25311082 AGGA-AGGGGGAACAAAGGAAA
1 AGGAGAGGGGGAA-AAAGGAAA
25311103 AG
1 AG
25311105 AAAGAACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.48, C:0.02, G:0.48, T:0.02
Consensus pattern (21 bp):
AGGAGAGGGGGAAAAAGGAAA
Found at i:25311101 original size:20 final size:21
Alignment explanation
Indices: 25311061--25311102 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
25311051 GAGGGAGAAT
* *
25311061 AGGAGAGGGGGAATAAGGGAA
1 AGGAGAGGGGGAACAAAGGAA
25311082 AGGA-AGGGGGAACAAAGGAA
1 AGGAGAGGGGGAACAAAGGAA
25311102 A
1 A
25311103 AGAAAGAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.48, C:0.02, G:0.48, T:0.02
Consensus pattern (21 bp):
AGGAGAGGGGGAACAAAGGAA
Found at i:25311608 original size:13 final size:15
Alignment explanation
Indices: 25311590--25311621 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25311580 AACACTCCTA
25311590 TGTGTC-CA-GGTCG
1 TGTGTCGCACGGTCG
25311603 TGTGTCGCACGGTCG
1 TGTGTCGCACGGTCG
25311618 TGTG
1 TGTG
25311622 GCTCGAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.06, C:0.22, G:0.41, T:0.31
Consensus pattern (15 bp):
TGTGTCGCACGGTCG
Found at i:25327914 original size:72 final size:72
Alignment explanation
Indices: 25327797--25328061 Score: 390
Period size: 72 Copynumber: 3.7 Consensus size: 72
25327787 CAATGCTAAA
* *
25327797 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGATGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
25327862 GTGTAAT
66 GTGTAAT
* *
25327869 CTAGTTTTATCAATGGATGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTAT
1 CTAGTTTTATCAATAGATGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
25327934 GTGTAAT
66 GTGTAAT
* * *
25327941 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGGTCTAATTATTTAT
1 CTAGTTTTATCAATAGATGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
*
25328006 GCT-TAGAG
66 G-TGTA-AT
* * *
25328014 CTAGTTTTATCAATA-ATTTTTTATGTTTGATTTTTGGATATTAAATTT
1 CTAGTTTTATCAATAGA-TGTTTATGTTTGGTTTTTGGATATTGAATTT
25328062 GTAACATCCC
Statistics
Matches: 176, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
72 131 0.74
73 45 0.26
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGATGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:25331346 original size:29 final size:29
Alignment explanation
Indices: 25331314--25331449 Score: 148
Period size: 29 Copynumber: 4.7 Consensus size: 29
25331304 ATACCCTCCG
** * *
25331314 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
25331343 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* *
25331372 AGCAT-ACACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
25331401 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
25331430 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
25331450 ATCTCGTCAT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
29 91 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:25331440 original size:58 final size:58
Alignment explanation
Indices: 25331260--25331448 Score: 168
Period size: 58 Copynumber: 3.3 Consensus size: 58
25331250 TACTCGATTT
* * * *** *
25331260 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
25331318 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
** * *
25331376 TACACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
25331434 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
25331449 AATCTCGTCA
Statistics
Matches: 103, Mismatches: 25, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 92 0.89
59 3 0.03
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:25332352 original size:143 final size:143
Alignment explanation
Indices: 25332094--25332391 Score: 587
Period size: 143 Copynumber: 2.1 Consensus size: 143
25332084 AAATTCTATA
25332094 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
25332159 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
66 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
*
25332224 AGGAAGACAACAT
131 AGGAAAACAACAT
25332237 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
25332302 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
66 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
25332367 AGGAAAACAACAT
131 AGGAAAACAACAT
25332380 GCATGGCCGAAT
1 GCATGGCCGAAT
25332392 TTTAACTCAC
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 154 1.00
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.21
Consensus pattern (143 bp):
GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
AGGAAAACAACAT
Found at i:25335511 original size:3 final size:3
Alignment explanation
Indices: 25335503--25335538 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
25335493 GTCAAGAAAG
* *
25335503 TGA TGA TGA TGA TGA CGA TGA TGA TGG TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
25335539 CGGTGAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.36, T:0.31
Consensus pattern (3 bp):
TGA
Found at i:25338510 original size:13 final size:13
Alignment explanation
Indices: 25338492--25338534 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
25338482 GTTCTGAAGT
25338492 AAAAAAATAAAAA
1 AAAAAAATAAAAA
25338505 AAAAAAATAAAAA
1 AAAAAAATAAAAA
*
25338518 AATAAAATAAAATA
1 AAAAAAATAAAA-A
25338532 AAA
1 AAA
25338535 TTGAAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 24 0.89
14 3 0.11
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAATAAAAA
Found at i:25338535 original size:5 final size:5
Alignment explanation
Indices: 25338495--25338535 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
25338485 CTGAAGTAAA
25338495 AAAAT AAAA- AAAA- AAAAT -AAA- AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
25338536 TGAAAAAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 14 0.42
5 19 0.58
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:25343644 original size:2 final size:2
Alignment explanation
Indices: 25343637--25343687 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
25343627 CATGTGTCTT
25343637 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25343679 TA TA TA TA T
1 TA TA TA TA T
25343688 GTATGTGATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25343904 original size:19 final size:18
Alignment explanation
Indices: 25343875--25343914 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
25343865 AAAATTAAAT
25343875 AATTTTAAAATATTTATC
1 AATTTTAAAATATTTATC
25343893 AATTTATAAAATATTTATC
1 AATTT-TAAAATATTTATC
25343912 AAT
1 AAT
25343915 AAATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTTAAAATATTTATC
Found at i:25348043 original size:28 final size:28
Alignment explanation
Indices: 25348007--25348081 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
25347997 TCAAATATGG
* * *
25348007 CACTCAGTGTACGAAATATTGAGATTGA
1 CACTTAGTGTGCGAAATATTGAGAATGA
* *
25348035 CACTTAGTGTGTGAGATATTGAGAATGA
1 CACTTAGTGTGCGAAATATTGAGAATGA
*
25348063 AACTTAGTGTGCGAAATAT
1 CACTTAGTGTGCGAAATAT
25348082 CGAATGATTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.31
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTGAGAATGA
Found at i:25348523 original size:21 final size:22
Alignment explanation
Indices: 25348492--25348532 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25348482 GAATGTATTG
*
25348492 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
25348514 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
25348533 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:25352441 original size:40 final size:40
Alignment explanation
Indices: 25352366--25352485 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 40
25352356 GCTTTATGCT
* * *
25352366 GGTGTTATTTATCAGGCTTTGTGCCA-ATCAGGCTTTGTGTA
1 GGTG-TATTTATCGGGCTTTGTG-CATAGCAAGCTTTGTGTA
*
25352407 GGTGTATTTATTGGGCTTTGTGCATAGCAAGCTTTGTGCTA
1 GGTGTATTTATCGGGCTTTGTGCATAGCAAGCTTTGTG-TA
* * * * * *
25352448 -ATGTGTTTATCGAGCTTTGTGCCTAGCATGCCTTGTGT
1 GGTGTATTTATCGGGCTTTGTGCATAGCAAGCTTTGTGT
25352486 CAATGTTGTC
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.05
40 57 0.86
41 6 0.09
ACGTcount: A:0.16, C:0.15, G:0.28, T:0.42
Consensus pattern (40 bp):
GGTGTATTTATCGGGCTTTGTGCATAGCAAGCTTTGTGTA
Found at i:25352725 original size:110 final size:107
Alignment explanation
Indices: 25352505--25352731 Score: 285
Period size: 110 Copynumber: 2.1 Consensus size: 107
25352495 CTATCAGGCA
* * *
25352505 ATGAGCCGGTGATCATTTAGCAGTACTATGTACAGGTGATACAGACAATAGCGATGGCTGAGATC
1 ATGAGCCGGTGATCATTTAACAGTACTATGTACAGATGATACAGACAATAACGATGGCTGAGATC
* *
25352570 CTCATCTGCTGCGGATTTTCTACAGCTTGTGTGAGTAGCATC
66 CTCATCTACTGCGGATTTTCTACAGCTTGTGTGAGCAGCATC
** * **
25352612 ATGAGCCGGTGATTTTTTAACAGGTACTATGTACTGATGATACAGACTGTAACGATGGCTTGAGA
1 ATGAGCCGGTGATCATTTAACA-GTACTATGTACAGATGATACAGACAATAACGATGGC-TGAGA
* * * *
25352677 TCCTACATCTATTGTGGATTCTT-TATAGCTTGTGTGAGCAGTATC
64 TCCT-CATCTACTGCGGATT-TTCTACAGCTTGTGTGAGCAGCATC
25352722 ATGAGCCGGT
1 ATGAGCCGGT
25352732 CAAAGTTCTG
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
107 19 0.19
108 31 0.30
109 9 0.09
110 41 0.40
111 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (107 bp):
ATGAGCCGGTGATCATTTAACAGTACTATGTACAGATGATACAGACAATAACGATGGCTGAGATC
CTCATCTACTGCGGATTTTCTACAGCTTGTGTGAGCAGCATC
Found at i:25353588 original size:128 final size:129
Alignment explanation
Indices: 25353413--25353660 Score: 408
Period size: 128 Copynumber: 1.9 Consensus size: 129
25353403 CTCGCTTTAG
* * *
25353413 AAAACACGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACGGGAAATCGAAACCCAG
1 AAAACACGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGAAAATCGAAACCCAG
* * *
25353478 CACGATAGGGCACTATTCCCCGAATTTCCAGACATCGGATATTGCC-TTGTTTTAGCGTTTGGA
66 CACGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTTGTTTTAGCGTTTGGA
* *
25353541 AAAACACGAGTAAAATTCTAAAGTAATATTCGATTATTTTGAACAAACGGAAAATCGAAACCCAG
1 AAAACACGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGAAAATCGAAACCCAG
*
25353606 CACGATAGGACACTATTCCCCGAATTTTCAAACATCGAATATTGCCTTTGTTTTA
66 CACGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTTGTTTTA
25353661 ATGAATTTTC
Statistics
Matches: 110, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
128 102 0.93
129 8 0.07
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (129 bp):
AAAACACGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGAAAATCGAAACCCAG
CACGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTTGTTTTAGCGTTTGGA
Found at i:25356650 original size:175 final size:174
Alignment explanation
Indices: 25356263--25356720 Score: 496
Period size: 175 Copynumber: 2.6 Consensus size: 174
25356253 GCTCTATTGT
* * * * *
25356263 AACTTCAGGGAGATAAGATCT-ACAATTTAGCTTGTTACCCTACTACTTAGGAGGTTAAGGCTCA
1 AACTTCAAGGAGATAAAATCTGA-AATTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGC-C-
* * * * * * * *** *
25356327 T-CGTCTTCGATCTGTTCCACTGTAACTTCAGGGAGACAAGATCTATGATCTTTAGCCTGTTACC
63 TGCTTTTTCGATTTGCTCCACTAT-ATTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACC
* * * ** *
25356391 CTACCACTTAGGGGGTTAAGGCTTGCTTGCTTTGATCTTTTCCACTGC
127 CTACCACTTAGAGGGTTAAGGCCTGCTTGCTTCGATCTGCTCCACTAC
*
25356439 AACTTCAAGGAGATAAGATCTGAAATTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCTGC
1 AACTTCAAGGAGATAAAATCTGAAATTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCTGC
25356504 TTTTTCGATTTGCTCCACTACTATTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTA
66 TTTTTCGATTTGCTCCACTA-TATTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTA
*
25356569 CTACTTAGAGGGTTAAGGCCTGCTT-CTTCGATCTGCTCCACTAC
130 CCACTTAGAGGGTTAAGGCCTGCTTGCTTCGATCTGCTCCACTAC
** * * * * * *
25356613 -TGTTTAGGGAGATAAAATTTGCAATCTTCATCCTGTTACCCTACTACTTAGGGGGTTAAGGCTT
1 AACTTCAAGGAGATAAAATCTG-AA-ATTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCT
*
25356677 GCTTCTTT-GATTTGCTCTACTAT-TGTTTAGGGAGACAAGATCTG
64 GCTT-TTTCGATTTGCTCCACTATAT-TTTAGGGAGACAAGATCTG
25356721 TGAATTCACT
Statistics
Matches: 243, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
173 16 0.07
174 38 0.16
175 129 0.53
176 59 0.24
177 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (174 bp):
AACTTCAAGGAGATAAAATCTGAAATTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCTGC
TTTTTCGATTTGCTCCACTATATTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTAC
CACTTAGAGGGTTAAGGCCTGCTTGCTTCGATCTGCTCCACTAC
Found at i:25356664 original size:44 final size:44
Alignment explanation
Indices: 25356447--25356665 Score: 123
Period size: 44 Copynumber: 5.0 Consensus size: 44
25356437 GCAACTTCAA
* *
25356447 GGAGATAAGATCTG-AA-ATTCAGCCTGTTACCCTACTACTTAG
1 GGAGATAAGATCTGCAATCTTCATCCTGTTACCCTACTACTTAG
* * ** * * * * *
25356489 GGGGTTAAGGCCTGC-TTTTTCGAT-TTGCT-CCACTACTATTTTAG
1 GGAGATAAGATCTGCAATCTTC-ATCCTGTTACC-CTACTA-CTTAG
* *
25356533 GGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAG
1 GGAGATAAGATCTGCAATCTTCATCCTGTTACCCTACTACTTAG
* ** * * **
25356577 AGG-GTTAAGGCCTGC-TTCTTCGAT-CTGCT-CCACTACTGTTTAG
1 -GGAGATAAGATCTGCAATCTTC-ATCCTGTTACC-CTACTACTTAG
* *
25356620 GGAGATAAAATTTGCAATCTTCATCCTGTTACCCTACTACTTAG
1 GGAGATAAGATCTGCAATCTTCATCCTGTTACCCTACTACTTAG
25356664 GG
1 GG
25356666 GGTTAAGGCT
Statistics
Matches: 123, Mismatches: 39, Indels: 28
0.65 0.21 0.15
Matches are distributed among these distances:
42 16 0.13
43 39 0.32
44 49 0.40
45 17 0.14
46 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (44 bp):
GGAGATAAGATCTGCAATCTTCATCCTGTTACCCTACTACTTAG
Found at i:25356704 original size:87 final size:87
Alignment explanation
Indices: 25356269--25356720 Score: 436
Period size: 87 Copynumber: 5.2 Consensus size: 87
25356259 TTGTAACTTC
* * * *
25356269 AGGGAGATAAGATCTACAAT-TT-AGCTTGTTACCCTACTACTTAGGAGGTTAAGGCTCAT-CGT
1 AGGGAGATAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGC-C-TGCTT
* * * * ** *
25356331 CTTCGATCTGTTCCACTGTAACTTC
64 CTTTGATTTGCTCCACTAT-TGTTT
* *** * * *
25356356 AGGGAGACAAGATCTATGATCTTTAGCCTGTTACCCTACCACTTAGGGGGTTAAGGCTTGCTTGC
1 AGGGAGATAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCTGCTT-C
* ** *
25356421 TTTGATCTT-TTCCACTGCA-ACTTC
65 TTTGAT-TTGCTCCACT--ATTGTTT
* *
25356445 AAGGAGATAAGATCTG-AA-ATTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCTGCTT-T
1 AGGGAGATAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCTGCTTCT
25356507 TTCGATTTGCTCCACTACTAT-TTT
66 TT-GATTTGCTCCACTA-T-TGTTT
* *
25356531 AGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCCTGCTTCT
1 AGGGAGATAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCTGCTTCT
* * *
25356596 TCGATCTGCTCCACTACTGTTT
66 TTGATTTGCTCCACTATTGTTT
* * * *
25356618 AGGGAGATAAAATTTGCAATCTTCATCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCT
1 AGGGAGATAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCTGCTTCT
*
25356683 TTGATTTGCTCTACTATTGTTT
66 TTGATTTGCTCCACTATTGTTT
*
25356705 AGGGAGACAAGATCTG
1 AGGGAGATAAGATCTG
25356721 TGAATTCACT
Statistics
Matches: 307, Mismatches: 42, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
84 1 0.00
85 5 0.02
86 26 0.08
87 152 0.50
88 59 0.19
89 63 0.21
90 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (87 bp):
AGGGAGATAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCTGCTTCT
TTGATTTGCTCCACTATTGTTT
Found at i:25364666 original size:21 final size:21
Alignment explanation
Indices: 25364637--25364676 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25364627 TGGGACAATT
25364637 GACTCATCATCT-CTCTTTGG
1 GACTCATCATCTGCTCTTTGG
*
25364657 GACTCCATCATTTGCTCTTT
1 GACT-CATCATCTGCTCTTT
25364677 CATCTCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.15, C:0.30, G:0.12, T:0.42
Consensus pattern (21 bp):
GACTCATCATCTGCTCTTTGG
Found at i:25368462 original size:128 final size:129
Alignment explanation
Indices: 25368285--25368532 Score: 390
Period size: 128 Copynumber: 1.9 Consensus size: 129
25368275 CTCGCTTTAG
* * * * *
25368285 AAAACACGAGTGAAATTCCGAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGAAACCTAG
1 AAAACACGAGTAAAATTCCAAAGGAATATTCAATTATTTTGAACAAACGGGAAATCGAAACCCAG
* * **
25368350 CACGATAGGGCATTATTCCCCGAATTTCCAAACATCGGATATTGCC-TTGTTTTAGCGTTTGGA
66 CACGATAGGACACTATTCCCCGAATTTCCAAACATCAAATATTGCCTTTGTTTTAGCGTTTGGA
*
25368413 AAAACACGAGTAAAATTCTAAAGGAATATTCAATTATTTTGAACAAACGGGAAATCGAAACCCAG
1 AAAACACGAGTAAAATTCCAAAGGAATATTCAATTATTTTGAACAAACGGGAAATCGAAACCCAG
*
25368478 CACGATAGGACACTATTCCCCTAATTTCCAAACATCAAATATTGCCTTTGTTTTA
66 CACGATAGGACACTATTCCCCGAATTTCCAAACATCAAATATTGCCTTTGTTTTA
25368533 ATGAATTTTC
Statistics
Matches: 108, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
128 100 0.93
129 8 0.07
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (129 bp):
AAAACACGAGTAAAATTCCAAAGGAATATTCAATTATTTTGAACAAACGGGAAATCGAAACCCAG
CACGATAGGACACTATTCCCCGAATTTCCAAACATCAAATATTGCCTTTGTTTTAGCGTTTGGA
Found at i:25371555 original size:30 final size:30
Alignment explanation
Indices: 25371519--25371575 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
25371509 GACTATTTCC
*
25371519 ACACGGGCTAAG-CACACGCCCGTGTGGGCT
1 ACACGGGCT-AGCCACACGCCCATGTGGGCT
*
25371549 ACACGGGCTGGCCACACGCCCATGTGG
1 ACACGGGCTAGCCACACGCCCATGTGG
25371576 TAGCCCATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.19, C:0.35, G:0.33, T:0.12
Consensus pattern (30 bp):
ACACGGGCTAGCCACACGCCCATGTGGGCT
Found at i:25376578 original size:16 final size:17
Alignment explanation
Indices: 25376557--25376588 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25376547 CATTCTTTTT
25376557 TTTATTTA-TTTTATTC
1 TTTATTTACTTTTATTC
25376573 TTTATTTACTTTTATT
1 TTTATTTACTTTTATT
25376589 ATTATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTTACTTTTATTC
Found at i:25378240 original size:6 final size:6
Alignment explanation
Indices: 25378226--25378271 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
25378216 TTGAGTCCGA
* *
25378226 TTATCT TTATTT TTATTT TTATTT TTATTT TGTATTT ATATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT T-TATTT TTATTT TTA
25378272 ACTCTATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:25378252 original size:18 final size:19
Alignment explanation
Indices: 25378226--25378271 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
25378216 TTGAGTCCGA
*
25378226 TTATCTTTATTTT-TATTT
1 TTATTTTTATTTTGTATTT
25378244 TTATTTTTATTTTGTATTT
1 TTATTTTTATTTTGTATTT
*
25378263 ATATTTTTA
1 TTATTTTTA
25378272 ACTCTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTATTTTTATTTTGTATTT
Found at i:25378279 original size:25 final size:25
Alignment explanation
Indices: 25378233--25378281 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
25378223 CGATTATCTT
* ** *
25378233 TATTTTTATTTTTATTTTTATTTTG
1 TATTTATATTTTTAACTCTATTTTG
25378258 TATTTATATTTTTAACTCTATTTT
1 TATTTATATTTTTAACTCTATTTT
25378282 AATTATTATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (25 bp):
TATTTATATTTTTAACTCTATTTTG
Found at i:25380059 original size:30 final size:30
Alignment explanation
Indices: 25380025--25380083 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25380015 AAGACCATTT
*
25380025 CCACACGGGCTGAG-CACATGCCCATGTGGG
1 CCACACGGGCTG-GCCACACGCCCATGTGGG
25380055 CCACACGGGCTGGCCACACGCCCATGTGG
1 CCACACGGGCTGGCCACACGCCCATGTGG
25380084 CAGCCTGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.19, C:0.37, G:0.32, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCATGTGGG
Found at i:25383097 original size:13 final size:14
Alignment explanation
Indices: 25383059--25383100 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
25383049 TATGTGAAGA
25383059 ATATTATTTAAAATT
1 ATATTA-TTAAAATT
*
25383074 ATCATTTTTAAAATT
1 AT-ATTATTAAAATT
25383089 -TATTATTAAAAT
1 ATATTATTAAAAT
25383101 AAAATTGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTAAAATT
Found at i:25391846 original size:41 final size:41
Alignment explanation
Indices: 25391760--25391874 Score: 126
Period size: 41 Copynumber: 2.8 Consensus size: 41
25391750 CAAAAATTGT
* * *
25391760 CAAACACAGAGCAATAGCGGCGTCTTACG--AAAAACGCCGT
1 CAAAAACAGAGCAATAGCGGCGTTTTA-GTAAAAAACGCCGC
* *
25391800 TAAAAACAAAGCAATAGCGGCGTTTTAGTAAAAAACGCCGC
1 CAAAAACAGAGCAATAGCGGCGTTTTAGTAAAAAACGCCGC
* * *
25391841 CAAAAATAGAGCATTAGCGGCGCTTTTGGTAAAA
1 CAAAAACAGAGCAATAGCGGCG-TTTTAGTAAAA
25391875 CGCCGCTAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.02
40 23 0.37
41 28 0.45
42 10 0.16
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (41 bp):
CAAAAACAGAGCAATAGCGGCGTTTTAGTAAAAAACGCCGC
Found at i:25391898 original size:41 final size:41
Alignment explanation
Indices: 25391809--25391966 Score: 194
Period size: 41 Copynumber: 3.9 Consensus size: 41
25391799 TTAAAAACAA
* * * * *
25391809 AGCAATAGCGGCG-TTTTAGTAAAAAACGCCGCCAAA-AATAG
1 AGCATTAGCGGCGCTTTTGGT--AAAACGCCGCTAAAGACTCG
25391850 AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACTCG
1 AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACTCG
* * *
25391891 AGTATTAGCGGCACTTTTGGTAAAACGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACTCG
* *
25391932 AGCATTAGCGGTGCTTTTGGTAAAACGCCGTTAAA
1 AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
25391967 AGTCATATAA
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 13 0.13
41 84 0.82
42 6 0.06
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACTCG
Found at i:25392329 original size:7 final size:7
Alignment explanation
Indices: 25392303--25392346 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
25392293 GATTTAATTG
25392303 TTAGGGT
1 TTAGGGT
*
25392310 TT-GTGGA
1 TTAG-GGT
25392317 TTAGGGT
1 TTAGGGT
25392324 TTAGGGT
1 TTAGGGT
25392331 TTAGGGT
1 TTAGGGT
*
25392338 TTAAGGT
1 TTAGGGT
25392345 TT
1 TT
25392347 TAAGTGTTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 1 0.03
7 30 0.94
8 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (7 bp):
TTAGGGT
Found at i:25392345 original size:14 final size:14
Alignment explanation
Indices: 25392321--25392405 Score: 59
Period size: 14 Copynumber: 5.9 Consensus size: 14
25392311 TGTGGATTAG
*
25392321 GGTTTAGGGTTTAG
1 GGTTTAGGGTTTAA
*
25392335 GGTTTAAGGTTTTAA
1 GGTTT-AGGGTTTAA
* *
25392350 GTGTTCATGGTTTAA
1 G-GTTTAGGGTTTAA
*
25392365 GGTTTAGGCCAATTTAA
1 GGTTTAGG---GTTTAA
25392382 ---TTAGGGTTTAA
1 GGTTTAGGGTTTAA
25392393 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
25392406 TAATTTAGAG
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
11 5 0.09
14 25 0.46
15 16 0.30
16 3 0.06
17 5 0.09
ACGTcount: A:0.22, C:0.04, G:0.31, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:25392345 original size:21 final size:21
Alignment explanation
Indices: 25392266--25392372 Score: 67
Period size: 21 Copynumber: 5.0 Consensus size: 21
25392256 ATGATTTGGA
*
25392266 GTTTAGGGTTT-AGGTTATGGG
1 GTTTAGGGTTTAAGGTT-TAGG
* * *
25392287 GTTTATGATTTAA-TTGTTAGG
1 GTTTAGGGTTTAAGGT-TTAGG
* *
25392308 GTTT-GTGGATTAGGGTTTAGG
1 GTTTAG-GGTTTAAGGTTTAGG
*
25392329 GTTTAGGGTTTAAGGTTTTAAGT
1 GTTTAGGGTTTAAGG-TTT-AGG
* *
25392352 GTTCATGGTTTAAGGTTTAGG
1 GTTTAGGGTTTAAGGTTTAGG
25392373 CCAATTTAAT
Statistics
Matches: 64, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
21 39 0.61
22 10 0.16
23 15 0.23
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.46
Consensus pattern (21 bp):
GTTTAGGGTTTAAGGTTTAGG
Found at i:25397602 original size:241 final size:240
Alignment explanation
Indices: 25397179--25397664 Score: 891
Period size: 241 Copynumber: 2.0 Consensus size: 240
25397169 ATGAATTAAT
* *
25397179 TTTATTACCATGTAGCTTGTTTGTCCATTAAAATTACAATAATAACTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACCTTCTCTCCAACCTT
* *
25397244 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGAAGGGTTGCCTTATATCGAG
25397309 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT-AAAAATTC
25397374 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
195 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
* *
25397420 TTTATTACCATGTAGCTTGCTTGTTCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACCTTCTCTCCAACCTT
25397485 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGAAGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGAAGGGTTGCCTTATATCGAG
25397550 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATTCA
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATTCA
* *
25397615 AAAAGACTTGGAAAAAGTTCTATCGATCTCATTTACTATTGAATA
196 AAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
25397660 TTTAT
1 TTTAT
25397665 ATAACCTTAA
Statistics
Matches: 237, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
240 57 0.24
241 180 0.76
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (240 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGAAGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATTCA
AAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:25397871 original size:9 final size:9
Alignment explanation
Indices: 25397844--25398010 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
25397834 ATTGATCATT
*
25397844 ACTTAAATA
1 ACTTACATA
*
25397853 AATTACATA
1 ACTTACATA
*
25397862 ACTTAAATA
1 ACTTACATA
* *
25397871 ACTCATATA
1 ACTTACATA
25397880 ACTTACATA
1 ACTTACATA
*
25397889 ATTTACATAACA
1 ACTTACAT---A
25397901 ACTTACATA
1 ACTTACATA
*
25397910 ACTCACATA
1 ACTTACATA
25397919 ACTTACATA
1 ACTTACATA
*
25397928 ATTTACATAACA
1 ACTTACAT---A
25397940 ACTTACATA
1 ACTTACATA
*
25397949 ACTCACATA
1 ACTTACATA
25397958 ACTTACATA
1 ACTTACATA
*
25397967 ATTTACATA
1 ACTTACATA
*
25397976 ACTCACATA
1 ACTTACATA
*
25397985 ACGTACATAACA
1 ACTTACAT---A
25397997 ACTTACATA
1 ACTTACATA
25398006 ACTTA
1 ACTTA
25398011 ACTAATACAT
Statistics
Matches: 127, Mismatches: 22, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
9 103 0.81
12 24 0.19
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:25397911 original size:48 final size:47
Alignment explanation
Indices: 25397855--25398011 Score: 170
Period size: 48 Copynumber: 3.3 Consensus size: 47
25397845 CTTAAATAAA
* * *
25397855 TTACATAACTTAAATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * * *
25397903 TTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAACTACATA-ACAAC
* * * *
25397951 TCACATAACTTACATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAAC-TACATAACAAC
25397999 TTACATAACTTAA
1 TTACATAACTTAA
25398012 CTAATACATG
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
47 4 0.05
48 80 0.91
49 4 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (47 bp):
TTACATAACTTAAATAACTTACATAACTTACATAACTACATAACAAC
Found at i:25397914 original size:39 final size:39
Alignment explanation
Indices: 25397861--25397977 Score: 216
Period size: 39 Copynumber: 3.0 Consensus size: 39
25397851 TAAATTACAT
* *
25397861 AACTTAAATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
25397900 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
25397939 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
25397978 TCACATAACG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:25397996 original size:57 final size:57
Alignment explanation
Indices: 25397844--25398008 Score: 183
Period size: 57 Copynumber: 2.9 Consensus size: 57
25397834 ATTGATCATT
* * * * *
25397844 ACTTAAATAAATTACATAACTTAAATAACT-CAT-ATAACTTACATAATTTACATAACA
1 ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACAT-A-A
* * *
25397901 ACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTCACAT-A
1 ACTTACATAAATTACATAACTTACATAA-CTACATAACAACTTACATAACTCACATAA
* *
25397958 ACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACTTACATAAATTACATAACTTACATAAC-TACATAACAACTTACATAACT
25398009 TAACTAATAC
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
57 71 0.77
58 1 0.01
59 3 0.03
60 17 0.18
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (57 bp):
ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACATAA
Found at i:25398006 original size:39 final size:37
Alignment explanation
Indices: 25397844--25397995 Score: 193
Period size: 39 Copynumber: 4.1 Consensus size: 37
25397834 ATTGATCATT
* * * *
25397844 ACTTAAATAAATTACAT-AACTTAAATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACTCACATA
25397880 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
25397919 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
*
25397958 ACTTACATAATTTACAT-AACTCACATAACGT-ACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TCACATA
25397994 AC
1 AC
25397996 AACTTACATA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
36 33 0.31
37 1 0.01
39 73 0.68
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (37 bp):
ACTTACATAATTTACATAAACTTACATAACTCACATA
Found at i:25403565 original size:20 final size:20
Alignment explanation
Indices: 25403540--25403579 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25403530 AACTTAGAAC
25403540 GGAGGCAGCAACGAGGGAGG
1 GGAGGCAGCAACGAGGGAGG
25403560 GGAGGCAGCAACGAGGGAGG
1 GGAGGCAGCAACGAGGGAGG
25403580 CAGAGCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.55, T:0.00
Consensus pattern (20 bp):
GGAGGCAGCAACGAGGGAGG
Found at i:25403925 original size:43 final size:43
Alignment explanation
Indices: 25403878--25404039 Score: 227
Period size: 43 Copynumber: 3.7 Consensus size: 43
25403868 ACTGGGCAAA
* *
25403878 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGATCCTGGTCT
1 TTAGCGGCGTTTTTTGAAAAAGCGCCGCTAAAGGTCCTGGTCT
* *
25403921 TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGGTCCTGGACT
1 TTAGCGGCGTTTTTTGAAAAAGCGCCGCTAAAGGTCCTGGTCT
* *
25403964 TTAGCGGCGTTTTTTGTAGAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTGAAAAAGCGCCGCTAAAGGTCCTGGTCT
*
25404007 TTAGCGACGCTTTTTTCTGAAAAA-CGCCGCTAA
1 TTAGCG--GCGTTTTT-TGAAAAAGCGCCGCTAA
25404040 TTTTTGTGGC
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
43 86 0.80
45 16 0.15
46 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTGAAAAAGCGCCGCTAAAGGTCCTGGTCT
Found at i:25405946 original size:116 final size:116
Alignment explanation
Indices: 25405739--25405974 Score: 382
Period size: 116 Copynumber: 2.0 Consensus size: 116
25405729 AATATGGTAT
* *
25405739 TTGATGAACAATGATTTCTGTCTCTATTGTCTGCTACGTCGGGGTTTGGTGGTTTGTATGCTATT
1 TTGATGAACAATGATTTCTGTCTCCATTGTCTGCTACATCGGGGTTTGGTGGTTTGTATGCTATT
* *
25405804 ATAACAACTTGTGTTCCTCCAATTCAAGCAGTTTCTTCTCGATCTACAGAC
66 ATAACAACTTGTGTTACTCCAATTCAAGCAGTTTCTTCTCAATCTACAGAC
* *
25405855 TTGATGAACAATGATTTCTGTCTCCGTTGTTTGCTACATCGGGGTTTGGTGGTTTGTATGCTATT
1 TTGATGAACAATGATTTCTGTCTCCATTGTCTGCTACATCGGGGTTTGGTGGTTTGTATGCTATT
* ** *
25405920 ATACCAACTTGTGTTACTCCGGTTCAAGCAGTTTCTTCTCAATCTACGGAC
66 ATAACAACTTGTGTTACTCCAATTCAAGCAGTTTCTTCTCAATCTACAGAC
25405971 TTGA
1 TTGA
25405975 CACCTGTTAT
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
116 110 1.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (116 bp):
TTGATGAACAATGATTTCTGTCTCCATTGTCTGCTACATCGGGGTTTGGTGGTTTGTATGCTATT
ATAACAACTTGTGTTACTCCAATTCAAGCAGTTTCTTCTCAATCTACAGAC
Found at i:25418501 original size:2 final size:2
Alignment explanation
Indices: 25418494--25418533 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
25418484 TATTAGGTTT
25418494 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25418534 AGATAAAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25419516 original size:13 final size:14
Alignment explanation
Indices: 25419492--25419520 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25419482 TAGGAAAGTC
25419492 AAAATAAAAATTTG
1 AAAATAAAAATTTG
25419506 AAAAT-AAAATTTG
1 AAAATAAAAATTTG
25419519 AA
1 AA
25419521 GCTTCTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (14 bp):
AAAATAAAAATTTG
Found at i:25423976 original size:19 final size:22
Alignment explanation
Indices: 25423937--25423976 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
25423927 AGAAACCCAA
25423937 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
25423959 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
25423977 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:25424075 original size:27 final size:26
Alignment explanation
Indices: 25424038--25424152 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
25424028 AGCATGGCTG
* *
25424038 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
25424064 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
25424092 CTAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
25424119 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
25424146 CGAGAAC
1 CCAGAAC
25424153 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.73
28 16 0.21
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:25424099 original size:54 final size:54
Alignment explanation
Indices: 25424040--25424152 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
25424030 CATGGCTGCC
* *
25424040 AGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACT
1 AGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCACG
* * * *
25424094 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCACG
1 AGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACG
25424148 AGAAC
1 AGAAC
25424153 GCTTCCTCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (54 bp):
AGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACG
Found at i:25425805 original size:26 final size:26
Alignment explanation
Indices: 25425769--25425903 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
25425759 CATGAAATTC
*
25425769 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
25425795 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
25425821 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
25425847 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
25425873 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
25425898 TTATCA
1 TTATCA
25425904 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:25429793 original size:19 final size:21
Alignment explanation
Indices: 25429755--25429793 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
25429745 AGAAACCCAA
*
25429755 CCATATCAACCGTATACACCC
1 CCATACCAACCGTATACACCC
25429776 CCATACCAACC-T-TACACC
1 CCATACCAACCGTATACACC
25429794 GTGTGGGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.33, C:0.46, G:0.03, T:0.18
Consensus pattern (21 bp):
CCATACCAACCGTATACACCC
Found at i:25429892 original size:27 final size:26
Alignment explanation
Indices: 25429855--25429969 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
25429845 AGCATGGCTG
* *
25429855 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
25429881 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
25429909 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
25429936 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
25429963 CCAGAAC
1 CCAGAAC
25429970 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:25429914 original size:54 final size:54
Alignment explanation
Indices: 25429855--25429969 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
25429845 AGCATGGCTG
*
25429855 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
25429909 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
25429963 CCAGAAC
1 CCAGAAC
25429970 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:25431611 original size:26 final size:26
Alignment explanation
Indices: 25431575--25431709 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
25431565 CATGAAATTC
*
25431575 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
25431601 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
25431627 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
25431653 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
25431679 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
25431704 TTATCA
1 TTATCA
25431710 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:25432552 original size:10 final size:10
Alignment explanation
Indices: 25432537--25432580 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
25432527 GCGATTAATC
25432537 CATACCAAAA
1 CATACCAAAA
25432547 CATACCAAAA
1 CATACCAAAA
*
25432557 CATAAGCCAAAGT
1 CAT-A-CCAAA-A
25432570 CATACCAAAA
1 CATACCAAAA
25432580 C
1 C
25432581 CTAAGATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 14 0.48
11 6 0.21
12 6 0.21
13 3 0.10
ACGTcount: A:0.55, C:0.30, G:0.05, T:0.11
Consensus pattern (10 bp):
CATACCAAAA
Found at i:25432774 original size:23 final size:22
Alignment explanation
Indices: 25432734--25432779 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
25432724 ATATAATTTA
* **
25432734 AACCAAAACTCATTCATAATCAC
1 AACCAAAACTAAGCCAT-ATCAC
25432757 AACCAAAACTAAGCCATATCAC
1 AACCAAAACTAAGCCATATCAC
25432779 A
1 A
25432780 TGGCTAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.17
Consensus pattern (22 bp):
AACCAAAACTAAGCCATATCAC
Found at i:25433387 original size:43 final size:42
Alignment explanation
Indices: 25433326--25433435 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
25433316 CAATACCAAC
**
25433326 GTCCCAGAC-GTGGTCTTACACGTAATCAAATATCAATGCCTCT
1 GTCCCAGACAG-GGTCTTACACGTAATCAAATA-CAATGCCGAT
* *
25433369 GTCCCAGACAGGGTCTTACACGAAATCAAATACGATGCCGAT
1 GTCCCAGACAGGGTCTTACACGTAATCAAATACAATGCCGAT
* *
25433411 ATCCCAGACATGGTCTTACACGTAA
1 GTCCCAGACAGGGTCTTACACGTAA
25433436 ATCTCAAATC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 29 0.49
43 29 0.49
44 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACACGTAATCAAATACAATGCCGAT
Found at i:25433438 original size:43 final size:42
Alignment explanation
Indices: 25433327--25433476 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 42
25433317 AATACCAACG
* * * *
25433327 TCCCAGACGTGGTCTTACACGT-AATCAAATATCAATGCCTCTG
1 TCCCAGACATGGTCTTACACGTAAATCAAATA-CGATGCC-ATA
*
25433370 TCCCAGACAGGGTCTTACACG-AAATCAAATACGATGCCGATA
1 TCCCAGACATGGTCTTACACGTAAATCAAATACGATGCC-ATA
*
25433412 TCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAAA
1 TCCCAGACATGGTCTTACACGTAAA--TCAAATACGATGCCATA
* *
25433455 GTTCCAGACTTGGTCTTACACG
1 -TCCCAGACATGGTCTTACACG
25433477 AAAACACATA
Statistics
Matches: 92, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
42 27 0.29
43 33 0.36
44 26 0.28
45 6 0.07
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGTAAATCAAATACGATGCCATA
Found at i:25440820 original size:16 final size:18
Alignment explanation
Indices: 25440782--25440825 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
25440772 TATATATATA
*
25440782 TATATCATATCTCATTCT
1 TATATCATATCTCATACT
*
25440800 CATATCA-A-CTCATACT
1 TATATCATATCTCATACT
25440816 TATATCATAT
1 TATATCATAT
25440826 GTTCACAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
16 13 0.62
17 2 0.10
18 6 0.29
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATCATATCTCATACT
Found at i:25441057 original size:43 final size:42
Alignment explanation
Indices: 25440996--25441076 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 42
25440986 TATTGCCAGC
*
25440996 GTCCCAAACGTGGTCTTACATA-TAATCAAATATCGATGCCTCT
1 GTCCCAAACGTGGTCTTACA-AGAAATCAAATAT-GATGCCTCT
25441039 GTCCCAAACAG-GGTCTTACAAGAAATCAAATATGATGC
1 GTCCCAAAC-GTGGTCTTACAAGAAATCAAATATGATGC
25441077 TAATGTCTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
42 6 0.17
43 28 0.80
44 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (42 bp):
GTCCCAAACGTGGTCTTACAAGAAATCAAATATGATGCCTCT
Found at i:25441097 original size:42 final size:42
Alignment explanation
Indices: 25441006--25441149 Score: 105
Period size: 44 Copynumber: 3.4 Consensus size: 42
25440996 GTCCCAAACG
* * * *
25441006 TGGTCTTACATA-TAATCAAATATCGATGCCT-CTGTCCCAAACA
1 TGGTCTTACA-AGAAATCAAATAT-GATG-CTAATGTCACAGACA
* *
25441049 GGGTCTTACAAGAAATCAAATATGATGCTAATGTCTCAGACA
1 TGGTCTTACAAGAAATCAAATATGATGCTAATGTCACAGACA
* * * * *
25441091 TGGTCTTACACGTAAATCTCAAGT-CGATGCCAATGTCACAGACG
1 TGGTCTTACAAG-AAA--TCAAATATGATGCTAATGTCACAGACA
*
25441135 TGGTCTTACACGAAA
1 TGGTCTTACAAGAAA
25441150 ACACATATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
41 2 0.02
42 24 0.29
43 25 0.30
44 28 0.33
45 5 0.06
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (42 bp):
TGGTCTTACAAGAAATCAAATATGATGCTAATGTCACAGACA
Found at i:25449686 original size:2 final size:2
Alignment explanation
Indices: 25449679--25449709 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25449669 AAAGAAAAGA
25449679 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25449710 AACAAAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25456002 original size:44 final size:43
Alignment explanation
Indices: 25455952--25456094 Score: 157
Period size: 42 Copynumber: 3.3 Consensus size: 43
25455942 TGTTATCGTG
25455952 TAAGACCACGTCTGGGACATTGGCATCGATTTGTGATTTACGTA
1 TAAGACCACGTCTGGGACATTGGCATCGATTT-TGATTTACGTA
* *
25455996 TAAGACCATGTCTGGGACATTGGCATCG-TATATGATTT-CGTA
1 TAAGACCACGTCTGGGACATTGGCATCGAT-TTTGATTTACGTA
** * * * *
25456038 TAAGACCTTGTCTGGGATAGTGGCATCGATATTTGA-TTACATG
1 TAAGACCACGTCTGGGACATTGGCATCGAT-TTTGATTTACGTA
*
25456081 TAAGACCACATCTG
1 TAAGACCACGTCTG
25456095 AGTTGTTGGC
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
42 31 0.36
43 26 0.31
44 28 0.33
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACATTGGCATCGATTTTGATTTACGTA
Found at i:25456051 original size:42 final size:43
Alignment explanation
Indices: 25455947--25456075 Score: 170
Period size: 44 Copynumber: 3.0 Consensus size: 43
25455937 ATATGTGTTA
* * * *
25455947 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTGTGATT
1 TCGTATAAGACCATGTCTGGGACATTGGCATCGATATATGATT
25455990 TACGTATAAGACCATGTCTGGGACATTGGCATCG-TATATGATT
1 T-CGTATAAGACCATGTCTGGGACATTGGCATCGATATATGATT
* * * *
25456033 TCGTATAAGACCTTGTCTGGGATAGTGGCATCGATATTTGATT
1 TCGTATAAGACCATGTCTGGGACATTGGCATCGATATATGATT
25456076 ACATGTAAGA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 29 0.38
43 17 0.22
44 30 0.39
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TCGTATAAGACCATGTCTGGGACATTGGCATCGATATATGATT
Found at i:25456306 original size:19 final size:20
Alignment explanation
Indices: 25456284--25456322 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
25456274 AATGACAACG
25456284 AATGATATGA-ATG-TATATA
1 AATGA-ATGATATGTTATATA
25456303 AATGAATGATATGTTATATA
1 AATGAATGATATGTTATATA
25456323 TGCTCGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (20 bp):
AATGAATGATATGTTATATA
Found at i:25456488 original size:18 final size:18
Alignment explanation
Indices: 25456465--25456501 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
25456455 TGAGTTTTCA
25456465 AATTCAAATAACTCGAAT
1 AATTCAAATAACTCGAAT
*
25456483 AATTCAAATAATTCGAAT
1 AATTCAAATAACTCGAAT
25456501 A
1 A
25456502 TCAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:25458126 original size:2 final size:2
Alignment explanation
Indices: 25458119--25458147 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25458109 TTTTGAGATC
25458119 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 T
25458148 TTGAAATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25475493 original size:23 final size:23
Alignment explanation
Indices: 25475467--25475510 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
25475457 CTATCGAGAA
*
25475467 ATCCTAAATCGAC-TGTTAATCAG
1 ATCC-AAATCCACTTGTTAATCAG
*
25475490 ATCCCAATCCACTTGTTAATC
1 ATCCAAATCCACTTGTTAATC
25475511 TCCCTTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (23 bp):
ATCCAAATCCACTTGTTAATCAG
Found at i:25478766 original size:22 final size:22
Alignment explanation
Indices: 25478726--25478780 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
25478716 ACTTATCAAA
25478726 TATTATCC-T-AAAATACTACC
1 TATTATCCTTAAAAATACTACC
*
25478746 TATTGATCCTTAAAAAT-CTACT
1 TATT-ATCCTTAAAAATACTACC
*
25478768 TATTATTCTTAAA
1 TATTATCCTTAAA
25478781 GAAACAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 4 0.13
21 12 0.40
22 9 0.30
23 5 0.17
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (22 bp):
TATTATCCTTAAAAATACTACC
Found at i:25483095 original size:21 final size:22
Alignment explanation
Indices: 25483071--25483112 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
25483061 ATCCCGAGTC
25483071 ACCAGAACCT-AAAATC-GTCAA
1 ACCA-AACCTCAAAATCAGTCAA
*
25483092 ACCAAACTTCAAAATCAGTCA
1 ACCAAACCTCAAAATCAGTCA
25483113 TAATTCTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.48, C:0.29, G:0.07, T:0.17
Consensus pattern (22 bp):
ACCAAACCTCAAAATCAGTCAA
Done.