Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 78 of 186
Found at i:25109212 original size:29 final size:29
Alignment explanation
Indices: 25109179--25109237 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
25109169 AATACCAAAG
*
25109179 ATATATAAAATTCTGCATTTGAAGATGTA
1 ATATATAAAATTCAGCATTTGAAGATGTA
25109208 ATATATAAAATTCAGCATTTGAAGATGTA
1 ATATATAAAATTCAGCATTTGAAGATGTA
25109237 A
1 A
25109238 AAATTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.36
Consensus pattern (29 bp):
ATATATAAAATTCAGCATTTGAAGATGTA
Found at i:25113246 original size:1 final size:1
Alignment explanation
Indices: 25113240--25113301 Score: 106
Period size: 1 Copynumber: 62.0 Consensus size: 1
25113230 TGGAGTGTAC
**
25113240 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGTAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
25113302 CAACAACAAC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.97, C:0.00, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:25118295 original size:13 final size:13
Alignment explanation
Indices: 25118277--25118305 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
25118267 AAACAATGGA
25118277 TTTATTTTTATTT
1 TTTATTTTTATTT
25118290 TTTATTTTTATTT
1 TTTATTTTTATTT
25118303 TTT
1 TTT
25118306 CAGAGCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:25118590 original size:83 final size:83
Alignment explanation
Indices: 25118451--25118622 Score: 326
Period size: 83 Copynumber: 2.1 Consensus size: 83
25118441 ATTTACAGGC
25118451 TCTAATGAGCCGAGCCAGAGCGGCCCACTTCAGTCAACGACATGGCTCAACAAAGCCGGCCGAGC
1 TCTAATGAGCCGAGCCAGAGCGGCCCACTTCAGTCAACGACATGGCTCAACAAAGCCGGCCGAGC
25118516 CCGTTATTGACTTTTTTT
66 CCGTTATTGACTTTTTTT
*
25118534 TCTAATGAGCCTAGCCAGAGCGGCCCACTTCAGTCAACGACATGGCTCAACAAAGCCGGCCGAGC
1 TCTAATGAGCCGAGCCAGAGCGGCCCACTTCAGTCAACGACATGGCTCAACAAAGCCGGCCGAGC
25118599 CCGTTATTGACTTTTTTT
66 CCGTTATTGACTTTTTTT
*
25118617 TTTAAT
1 TCTAAT
25118623 TTTTCCTTTT
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 87 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (83 bp):
TCTAATGAGCCGAGCCAGAGCGGCCCACTTCAGTCAACGACATGGCTCAACAAAGCCGGCCGAGC
CCGTTATTGACTTTTTTT
Found at i:25120404 original size:2 final size:2
Alignment explanation
Indices: 25120399--25120454 Score: 50
Period size: 2 Copynumber: 29.0 Consensus size: 2
25120389 ATATATTAAA
25120399 AT AT AT A- AT AT A- AT AT AT -T A- AT AT AT AT GAT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT -AT AT
25120439 AT CAT AT AT AT -T AT AT
1 AT -AT AT AT AT AT AT AT
25120455 TAAAAGGTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
1 5 0.11
2 35 0.76
3 6 0.13
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:25120414 original size:22 final size:22
Alignment explanation
Indices: 25120388--25120432 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
25120378 TGAAATTATA
25120388 AATATATTAAAATATATAATAT
1 AATATATTAAAATATATAATAT
* *
25120410 AATATATTAATATATATGATAT
1 AATATATTAAAATATATAATAT
25120432 A
1 A
25120433 TCATATATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AATATATTAAAATATATAATAT
Found at i:25121020 original size:32 final size:30
Alignment explanation
Indices: 25120946--25121020 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 30
25120936 CGAAACTATA
*
25120946 AATATATTAAAATATATAATATAATTTATT
1 AATATATTAAAATATATAATATAATATATT
*
25120976 AATATATATAAAATCATATCATAT-ATCATATAT
1 AATATAT-TAAAAT-ATATAATATAAT-ATAT-T
*
25121009 ATTATATTAAAA
1 AATATATTAAAA
25121021 GGTATACTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
30 7 0.18
31 8 0.21
32 16 0.42
33 7 0.18
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (30 bp):
AATATATTAAAATATATAATATAATATATT
Found at i:25121146 original size:70 final size:70
Alignment explanation
Indices: 25121031--25121161 Score: 208
Period size: 70 Copynumber: 1.9 Consensus size: 70
25121021 GGTATACTTG
* * *
25121031 TGGTAAGTTTTTAATCTGGATTTTTTATAATGCGACATTTTTCACAATAATTGTGTGACATTTGC
1 TGGTAAGTTTCTAATCTGGATTTTTTATAATGCGACATTTGTCACAATAATTGCGTGACATTTGC
25121096 ATATA
66 ATATA
* * *
25121101 TGGTAAGTTTCTAATTTGGATTTTTTATAATGTGACATTTGTCACAATATTTGCGTGACAT
1 TGGTAAGTTTCTAATCTGGATTTTTTATAATGCGACATTTGTCACAATAATTGCGTGACAT
25121162 GTGTCATTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (70 bp):
TGGTAAGTTTCTAATCTGGATTTTTTATAATGCGACATTTGTCACAATAATTGCGTGACATTTGC
ATATA
Found at i:25127234 original size:43 final size:43
Alignment explanation
Indices: 25127186--25127288 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
25127176 TTGGTTTTCA
25127186 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
25127229 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
25127272 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
25127289 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:25127305 original size:29 final size:29
Alignment explanation
Indices: 25127270--25127343 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
25127260 GTTGTGAGAT
* *
25127270 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
25127299 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
*
25127328 TGGCACTAAGTATGCG
1 TGGCACTAAGTGTGCG
25127344 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:25127777 original size:40 final size:40
Alignment explanation
Indices: 25127654--25127836 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 40
25127644 TCGAATGATG
** *
25127654 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
25127694 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
25127734 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
25127774 TCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
25127814 TCTGTGCTAAATCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
25127837 ATATGCTGGT
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 97 0.83
41 19 0.16
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:25131315 original size:47 final size:47
Alignment explanation
Indices: 25131249--25131534 Score: 482
Period size: 47 Copynumber: 6.1 Consensus size: 47
25131239 GAAATGATAG
*
25131249 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
25131296 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
25131343 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
25131390 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
25131437 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
25131484 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
25131531 TAAG
1 TAAG
25131535 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 227 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:25132494 original size:37 final size:37
Alignment explanation
Indices: 25131653--25132493 Score: 1646
Period size: 37 Copynumber: 22.7 Consensus size: 37
25131643 CCGAGCTCTA
25131653 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25131690 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25131727 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25131764 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25131801 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25131838 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25131875 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25131912 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25131949 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25131986 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25132023 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25132060 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25132097 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25132134 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25132171 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25132208 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25132245 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25132282 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25132319 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25132356 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
25132393 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
* *
25132430 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
* *
25132467 AAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
25132494 TCGTCTGAGC
Statistics
Matches: 800, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 800 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGTGT
Found at i:25133806 original size:40 final size:40
Alignment explanation
Indices: 25133762--25134159 Score: 728
Period size: 40 Copynumber: 9.9 Consensus size: 40
25133752 GAGAATTGAG
*
25133762 AGTGATGTATCCAGG-CTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCC-GGACTAAGTCTCGAAGAGCATTCGTGCT
* *
25133802 AGTGATGTATCCAGG-GTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCC-GGACTAAGTCTCGAAGAGCATTCGTGCT
*
25133842 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
25133882 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
25133922 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
25133962 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
25134002 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
25134042 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
25134082 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
25134122 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTG
1 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTG
25134160 GGGCCTTCGT
Statistics
Matches: 353, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
39 2 0.01
40 351 0.99
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
Found at i:25135963 original size:13 final size:13
Alignment explanation
Indices: 25135945--25135969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25135935 TAATGGTATA
25135945 TTGAATCCATGAT
1 TTGAATCCATGAT
25135958 TTGAATCCATGA
1 TTGAATCCATGA
25135970 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:25138417 original size:37 final size:37
Alignment explanation
Indices: 25138361--25138579 Score: 341
Period size: 37 Copynumber: 5.9 Consensus size: 37
25138351 CCGAGCTCTA
*
25138361 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTTTGTCCGGGT
* *
25138398 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTTGTCCGGGT
*
25138435 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTTGTCCGGGT
* *
25138472 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTTGTCCGGGT
*
25138509 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTTGTCCGGGT
* *
25138546 AAGACCCGATAACTTCGTGTGGAGATTTCGTCCG
1 AAGACCCGATAACTACGTGTGGAGATTTTGTCCG
25138580 AGCTAAAGGT
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
37 165 0.99
38 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTTTGTCCGGGT
Found at i:25138579 original size:74 final size:74
Alignment explanation
Indices: 25138361--25138572 Score: 408
Period size: 74 Copynumber: 2.9 Consensus size: 74
25138351 CCGAGCTCTA
25138361 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAG-ATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
25138425 ATGTCCGGGT
65 ATGTCCGGGT
25138435 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTA
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTA
25138500 TGTCCGGGT
66 TGTCCGGGT
25138509 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
25138573 TCGTCCGAGC
Statistics
Matches: 137, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
74 136 0.99
75 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (74 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTA
TGTCCGGGT
Found at i:25141576 original size:32 final size:32
Alignment explanation
Indices: 25141540--25141604 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
25141530 GGTAGCCTGG
* * **
25141540 ACTTAAATGAGAAGTAACGGAGTTTGTAGGGA
1 ACTTAAACGAGAAGTAACAGAGTACGTAGGGA
*
25141572 ACTTAAACGGGAAGTAACAGAGTACGTAGGGA
1 ACTTAAACGAGAAGTAACAGAGTACGTAGGGA
25141604 A
1 A
25141605 ATGTTTGACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.40, C:0.09, G:0.31, T:0.20
Consensus pattern (32 bp):
ACTTAAACGAGAAGTAACAGAGTACGTAGGGA
Found at i:25143084 original size:26 final size:26
Alignment explanation
Indices: 25143055--25143110 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
25143045 TGATAAAAAT
25143055 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25143081 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25143107 TGAT
1 TGAT
25143111 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25143833 original size:27 final size:27
Alignment explanation
Indices: 25143793--25143932 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
25143783 AGGAAGCGTC
*
25143793 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
25143820 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
25143846 CCTGGTGGCTATGCCACAATTAT-TGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
25143873 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
25143900 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
25143927 CTGGTG
1 CTGGTG
25143933 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 5, Indels: 16
0.83 0.04 0.13
Matches are distributed among these distances:
25 2 0.02
26 29 0.29
27 66 0.66
28 3 0.03
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:25143943 original size:27 final size:26
Alignment explanation
Indices: 25143793--25143950 Score: 149
Period size: 27 Copynumber: 5.9 Consensus size: 26
25143783 AGGAAGCGTC
* * *
25143793 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
* *
25143820 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGACTCTGCCACA-ATATCTGTT
* * *
25143847 CTGGTGGCTATGCCACAATTAT-TGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
*
25143873 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
25143900 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
25143927 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
25143951 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
26 31 0.27
27 83 0.72
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:25143950 original size:53 final size:54
Alignment explanation
Indices: 25143790--25143932 Score: 245
Period size: 53 Copynumber: 2.7 Consensus size: 54
25143780 TGGAGGAAGC
25143790 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
25143844 GTCCTGGTGGCTATGCCACAATTAT-TGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
25143897 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
25143933 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
52 3 0.04
53 49 0.58
54 33 0.39
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:25158675 original size:46 final size:46
Alignment explanation
Indices: 25158598--25158709 Score: 151
Period size: 46 Copynumber: 2.5 Consensus size: 46
25158588 CGATGCTGTA
*
25158598 TCCCAGACATGGTCTTACAC-AGACACATCTCGCA-GCCGATGCATG
1 TCCCAGACATGGTCTTACACTAGACACATCTCG-AGGCCGATGAATG
*
25158643 TCCCAGACAT-GTCTTACACTA-ACTTACGTCTCGAGGCCGATGAATG
1 TCCCAGACATGGTCTTACACTAGAC--ACATCTCGAGGCCGATGAATG
25158689 TCCCAGACATGGTCTTACACT
1 TCCCAGACATGGTCTTACACT
25158710 GGCTCTCATA
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
44 11 0.18
45 12 0.20
46 27 0.45
47 10 0.17
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (46 bp):
TCCCAGACATGGTCTTACACTAGACACATCTCGAGGCCGATGAATG
Found at i:25164989 original size:20 final size:20
Alignment explanation
Indices: 25164964--25165008 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25164954 AGGGACTAAA
*
25164964 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTGTAAAATTTG
* *
25164984 ATGAAAAATTTTAAAATTTT
1 ATGAAAAATTGTAAAATTTG
25165004 ATGAA
1 ATGAA
25165009 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTGTAAAATTTG
Found at i:25173232 original size:23 final size:23
Alignment explanation
Indices: 25173192--25173250 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
25173182 CCCTTGTTTT
* * *
25173192 GTTACTATTTGTAGCTTTACTAC
1 GTTACTATTAGCACCTTTACTAC
* *
25173215 GTTACTATTAGCACCTTTGCTAT
1 GTTACTATTAGCACCTTTACTAC
*
25173238 ATTACTATTAGCA
1 GTTACTATTAGCA
25173251 ACTATGCTGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (23 bp):
GTTACTATTAGCACCTTTACTAC
Found at i:25181139 original size:30 final size:29
Alignment explanation
Indices: 25181103--25181163 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
25181093 GGTGTCAAGT
**
25181103 TTTGGCACTAAGTGTGTGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCCATTT-AACTAGC
25181133 TTTGGCACTAAGTGTGCCATTTAACTAGC
1 TTTGGCACTAAGTGTGCCATTTAACTAGC
25181162 TT
1 TT
25181164 CGGTTACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCCATTTAACTAGC
Found at i:25185709 original size:40 final size:40
Alignment explanation
Indices: 25185625--25185809 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
25185615 TCGAATGATG
* *
25185625 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
25185664 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
25185705 TCCGGGCTAAG-CCAGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
25185744 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTGCT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
25185783 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
25185810 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:25185831 original size:79 final size:79
Alignment explanation
Indices: 25185626--25185832 Score: 201
Period size: 79 Copynumber: 2.6 Consensus size: 79
25185616 CGAATGATGT
* *
25185626 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
* * *
25185689 TGTGCTAGTTACTAATT
63 TATGCGAGTTACTAATA
* * *
25185706 CCGGGCTAAG-CCAGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
*
25185768 TATGCGAGTTGCT-ATAA
63 TATGCGAGTTACTAAT-A
* **
25185785 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAA
25185833 ATTCTGAAGG
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
78 3 0.03
79 59 0.57
80 42 0.40
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTAT
GCGAGTTACTAATA
Found at i:25192292 original size:49 final size:49
Alignment explanation
Indices: 25192239--25193153 Score: 1714
Period size: 49 Copynumber: 18.8 Consensus size: 49
25192229 TTAGGATTCT
*
25192239 ATGTGATGGATGTGAACA-TGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCG
25192288 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192337 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192386 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192435 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192484 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192533 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192582 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192631 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192680 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192729 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192778 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192827 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192876 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192925 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25192974 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
25193023 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * *
25193072 ATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
25193119 ACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
25193154 TCCCTGTCAG
Statistics
Matches: 853, Mismatches: 10, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
47 48 0.06
48 2 0.00
49 803 0.94
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:25193316 original size:37 final size:37
Alignment explanation
Indices: 25193260--25193338 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
25193250 CCGAGCTCTA
* *
25193260 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
25193297 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
25193334 AAGAC
1 AAGAC
25193339 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:25193523 original size:14 final size:14
Alignment explanation
Indices: 25193504--25193531 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25193494 AATGTGCTTT
25193504 GGAAATATTTGACC
1 GGAAATATTTGACC
25193518 GGAAATATTTGACC
1 GGAAATATTTGACC
25193532 ATCTAGGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
GGAAATATTTGACC
Found at i:25198905 original size:3 final size:3
Alignment explanation
Indices: 25198892--25198926 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
25198882 AATTTGGATG
*
25198892 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25198927 TTGTATGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:25200688 original size:27 final size:27
Alignment explanation
Indices: 25200657--25200718 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
25200647 ATTTACTAAA
25200657 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
* *
25200684 TTACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
25200710 ATACCCCTA
1 ATACCCCTA
25200719 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 21 0.70
27 7 0.23
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.29
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:25200863 original size:27 final size:27
Alignment explanation
Indices: 25200825--25200930 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
25200815 GAGGAAGCTT
25200825 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
* *
25200852 TCTGGTGGCTCTACCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
25200880 TTTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* *
25200907 TCTGGTGACTCTGTCACAATATCT
1 TCTGGTGGCTCTGCCACAATATCT
25200931 ATTTTGGCAG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
27 55 0.79
28 15 0.21
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:25200911 original size:55 final size:54
Alignment explanation
Indices: 25200827--25200935 Score: 157
Period size: 55 Copynumber: 2.0 Consensus size: 54
25200817 GGAAGCTTTC
* *
25200827 TGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTACCACAAATATCTGTTTT
1 TGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTACCAC-AATATCTATTTT
**
25200882 TGGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTCTGTCACAATATCTATTTT
1 TGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCTACCACAATATCTATTTT
25200936 GGCAGCCATG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 19 0.39
55 30 0.61
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (54 bp):
TGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTACCACAATATCTATTTT
Found at i:25216576 original size:40 final size:40
Alignment explanation
Indices: 25216508--25216632 Score: 146
Period size: 40 Copynumber: 3.1 Consensus size: 40
25216498 GGACTAAGAT
** ** *
25216508 CCGAAGGCATTCGTGCGAGTTGCCATATCCGGGCTATGTC
1 CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
* *
25216548 CCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGAC
1 CCGAAGGCATTTATGCGAGTTG-TTATATCCGGGCTAAGTC
* *
25216588 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
25216627 CCGAAG
1 CCGAAG
25216633 ATACTTGGGT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.21
40 55 0.76
41 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
Found at i:25216900 original size:22 final size:22
Alignment explanation
Indices: 25216860--25216901 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
25216850 GAATGTGCAT
*
25216860 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
25216882 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
25216902 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:25218499 original size:34 final size:34
Alignment explanation
Indices: 25218456--25218526 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
25218446 ATATAGATCT
25218456 CTGATACTG-TACTGAAATGGGGCTAAGGCCCACA
1 CTGATACTGTTACTGAAAT-GGGCTAAGGCCCACA
* *
25218490 CTGATACTGTTACTGTAATGGGCTAAGGCCCAGA
1 CTGATACTGTTACTGAAATGGGCTAAGGCCCACA
25218524 CTG
1 CTG
25218527 TTTTGCACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 26 0.76
35 8 0.24
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (34 bp):
CTGATACTGTTACTGAAATGGGCTAAGGCCCACA
Found at i:25227520 original size:55 final size:52
Alignment explanation
Indices: 25227378--25227560 Score: 152
Period size: 55 Copynumber: 3.4 Consensus size: 52
25227368 TTACCATTTT
* * *
25227378 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGC
1 CATGTCTTGACATGGTCTTACATGAT-TCCTTGCCTTATGAACTCACCAATGC
* * * * * * **
25227431 CATGCCTTGGCATGGTTTTACATTGGA-TCTTTGCCTTATCGTAGTTTCTCAATGC
1 CATGTCTTGACATGGTCTTACA-T-GATTCCTTGCCTTAT-GAACTCAC-CAATGC
* * *
25227486 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGC
1 CATGTCTTGACATGGTCTTACATGA-TTCCTTGCCTTAT-GAACTCACCAATGC
* *
25227540 CATGCCTTGGCATGGTCTTAC
1 CATGTCTTGACATGGTCTTAC
25227561 TTGGTATCCT
Statistics
Matches: 101, Mismatches: 23, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
53 31 0.31
54 31 0.31
55 39 0.39
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (52 bp):
CATGTCTTGACATGGTCTTACATGATTCCTTGCCTTATGAACTCACCAATGC
Found at i:25227939 original size:30 final size:30
Alignment explanation
Indices: 25227905--25227962 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
25227895 CCTTAACTCT
25227905 AACTTTGGCAAAATTACAATTTTGCCCCTA
1 AACTTTGGCAAAATTACAATTTTGCCCCTA
* * *
25227935 AACTTTTGCAAATTTACACTTTTGCCCC
1 AACTTTGGCAAAATTACAATTTTGCCCC
25227963 AAGGCTCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (30 bp):
AACTTTGGCAAAATTACAATTTTGCCCCTA
Found at i:25229239 original size:122 final size:122
Alignment explanation
Indices: 25229020--25229266 Score: 397
Period size: 122 Copynumber: 2.0 Consensus size: 122
25229010 CTCAATTTTC
* * * *
25229020 AAAAGACAAATGATTTTCAACTACCACGTTTCGCAACTTGTTTTAAAAGCTTTTGCAATGAACAA
1 AAAAGACAAATGATTTTCAACTACCACGTTCCACAACTCGTTTTAAAAGCTTTTGCAATGAAAAA
** * *
25229085 TGTTTTTAAAATGTAATAACAACTTATTATGACACTTGTTTTGCTAAAA-AAACCTTT
66 TGTTTTTAAAATGTAATAACAACTTAGCATGACACTTGTTTTG-GAAAACAAACCTGT
*
25229142 AAAAGACAAATGATTTTCAACTACCATGTTCCACAACTCGTTTTAAAAGCTTTTGCAATGAAAAA
1 AAAAGACAAATGATTTTCAACTACCACGTTCCACAACTCGTTTTAAAAGCTTTTGCAATGAAAAA
25229207 TGTTTTTAAAATGTAATAACAACTTAGCATGACACTTGTTTTGGAAAACAAACCTGT
66 TGTTTTTAAAATGTAATAACAACTTAGCATGACACTTGTTTTGGAAAACAAACCTGT
25229264 AAA
1 AAA
25229267 TTAACAAGCA
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
121 4 0.03
122 111 0.97
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (122 bp):
AAAAGACAAATGATTTTCAACTACCACGTTCCACAACTCGTTTTAAAAGCTTTTGCAATGAAAAA
TGTTTTTAAAATGTAATAACAACTTAGCATGACACTTGTTTTGGAAAACAAACCTGT
Found at i:25231260 original size:13 final size:13
Alignment explanation
Indices: 25231242--25231279 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
25231232 AAGTAATCGA
25231242 ACACGGGCGTGTT
1 ACACGGGCGTGTT
25231255 ACACGGGCGTGTT
1 ACACGGGCGTGTT
25231268 ACACGGGCGTGT
1 ACACGGGCGTGT
25231280 CCCTACCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.39, T:0.21
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:25235422 original size:55 final size:55
Alignment explanation
Indices: 25235328--25235431 Score: 136
Period size: 55 Copynumber: 1.9 Consensus size: 55
25235318 TGCGATATGG
* * ** *
25235328 CCATGGTCGAGCCTGCCAAAATAACACGGGTGTGCGACACACCCGTGTGGAAGAA
1 CCATGGTCGAGCCTGCCAAAACAACACAGGCATGCGACACACCCATGTGGAAGAA
** *
25235383 CCATGGTCGAGCCTGCCAAAACAACACAGGCATTTGACACGCCCATGTG
1 CCATGGTCGAGCCTGCCAAAACAACACAGGCATGCGACACACCCATGTG
25235432 AAACACCCGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 41 1.00
ACGTcount: A:0.29, C:0.30, G:0.26, T:0.15
Consensus pattern (55 bp):
CCATGGTCGAGCCTGCCAAAACAACACAGGCATGCGACACACCCATGTGGAAGAA
Found at i:25235445 original size:55 final size:55
Alignment explanation
Indices: 25235328--25235452 Score: 133
Period size: 55 Copynumber: 2.3 Consensus size: 55
25235318 TGCGATATGG
* * ** * * *
25235328 CCATGGTCGAGCCTGCCAAAATAACACGGGTGTGCGACACACCCGTGTGGAAGAA
1 CCATGGTCGAGCCTGCCAAAACAACACAGGCATGCGACACACCCATGTGAAACAA
** * *
25235383 CCATGGTCGAGCCTGCCAAAACAACACAGGCATTTGACACGCCCATGTGAAACAC
1 CCATGGTCGAGCCTGCCAAAACAACACAGGCATGCGACACACCCATGTGAAACAA
* *
25235438 CCGTGGTCGACCCTG
1 CCATGGTCGAGCCTG
25235453 TTAAATTAAC
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.28, C:0.31, G:0.26, T:0.15
Consensus pattern (55 bp):
CCATGGTCGAGCCTGCCAAAACAACACAGGCATGCGACACACCCATGTGAAACAA
Found at i:25251593 original size:33 final size:34
Alignment explanation
Indices: 25251543--25251610 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
25251533 CTAAGCCCAG
*
25251543 ATCAGTAACAGTCTGGGCCTGAGCCCTATTCAGT
1 ATCAGTAACAGTCTGGGCCTGAGCCCTATACAGT
* **
25251577 ATCAGT-ACAGTTTGGGCCTTCGCCCTATACAGT
1 ATCAGTAACAGTCTGGGCCTGAGCCCTATACAGT
25251610 A
1 A
25251611 ATAGTGTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (34 bp):
ATCAGTAACAGTCTGGGCCTGAGCCCTATACAGT
Found at i:25252024 original size:27 final size:27
Alignment explanation
Indices: 25251994--25252217 Score: 186
Period size: 27 Copynumber: 8.3 Consensus size: 27
25251984 GCATAATTCC
* *
25251994 CATTTTACCATACAAGAATATTACGGT
1 CATTTTACCATACAGGGATATTACGGT
* *
25252021 CATTTAATCC-TACAGGGACATTACGGT
1 CATTTTA-CCATACAGGGATATTACGGT
*
25252048 CATTTTACCCTACAGGGATATTACGGT
1 CATTTTACCATACAGGGATATTACGGT
**
25252075 CATTTTA-CACTACAGGGGCATTACGGT
1 CATTTTACCA-TACAGGGATATTACGGT
* *
25252102 CATTTTA-CTTATAGAGG-TATTACGGT
1 CATTTTACCATACAG-GGATATTACGGT
* ***
25252128 CATTTTACCTTACAGGGGCGTTACGGT
1 CATTTTACCATACAGGGATATTACGGT
* * * **
25252155 CATTTTACCCTATAGGGGTATTATAGT
1 CATTTTACCATACAGGGATATTACGGT
* * ** *
25252182 CATTTTACCCTATAGGGGCATTACGAT
1 CATTTTACCATACAGGGATATTACGGT
25252209 CATTTTACC
1 CATTTTACC
25252218 TATTTTGGGG
Statistics
Matches: 166, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
26 24 0.14
27 140 0.84
28 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
CATTTTACCATACAGGGATATTACGGT
Found at i:25252069 original size:54 final size:53
Alignment explanation
Indices: 25251994--25252217 Score: 263
Period size: 54 Copynumber: 4.2 Consensus size: 53
25251984 GCATAATTCC
* * * * *
25251994 CATTTTACCATACAAGAATATTACGGTCATTTAATCCTACAGGGACATTACGGT
1 CATTTTACCCTACAGGGATATTACGGTCATTTTA-CCTACAGGGGCATTACGGT
25252048 CATTTTACCCTACAGGGATATTACGGTCATTTTACACTACAGGGGCATTACGGT
1 CATTTTACCCTACAGGGATATTACGGTCATTTTAC-CTACAGGGGCATTACGGT
* * *
25252102 CATTTTA-CTTATAGAGG-TATTACGGTCATTTTACCTTACAGGGGCGTTACGGT
1 CATTTTACCCTACAG-GGATATTACGGTCATTTTACC-TACAGGGGCATTACGGT
* * ** * *
25252155 CATTTTACCCTATAGGGGTATTATAGTCATTTTACCCTATAGGGGCATTACGAT
1 CATTTTACCCTACAGGGATATTACGGTCATTTTA-CCTACAGGGGCATTACGGT
25252209 CATTTTACC
1 CATTTTACC
25252218 TATTTTGGGG
Statistics
Matches: 150, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
52 1 0.01
53 48 0.32
54 99 0.66
55 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (53 bp):
CATTTTACCCTACAGGGATATTACGGTCATTTTACCTACAGGGGCATTACGGT
Found at i:25252154 original size:107 final size:107
Alignment explanation
Indices: 25252012--25252216 Score: 304
Period size: 107 Copynumber: 1.9 Consensus size: 107
25252002 CATACAAGAA
*
25252012 TATTACGGTCATTTAATCCTACAGGGACATTACGGTCATTTTACCCTACAGGGATATTACGGTCA
1 TATTACGGTCATTTAATCCTACAGGGACATTACGGTCATTTTACCCTACAGGGATATTACAGTCA
*
25252077 TTTTACACTACAGGGGCATTACGGTCATTTTACTTATAGAGG
66 TTTTACACTACAGGGGCATTACGATCATTTTACTTATAGAGG
* * * * * *
25252119 TATTACGGTCATTTTA-CCTTACAGGGGCGTTACGGTCATTTTACCCTATAGGGGTATTATAGTC
1 TATTACGGTCATTTAATCC-TACAGGGACATTACGGTCATTTTACCCTACAGGGATATTACAGTC
* *
25252183 ATTTTACCCTATAGGGGCATTACGATCATTTTAC
65 ATTTTACACTACAGGGGCATTACGATCATTTTAC
25252217 CTATTTTGGG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 2 0.02
107 85 0.98
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (107 bp):
TATTACGGTCATTTAATCCTACAGGGACATTACGGTCATTTTACCCTACAGGGATATTACAGTCA
TTTTACACTACAGGGGCATTACGATCATTTTACTTATAGAGG
Found at i:25252493 original size:132 final size:132
Alignment explanation
Indices: 25252254--25252516 Score: 472
Period size: 132 Copynumber: 2.0 Consensus size: 132
25252244 GACCCCTCCA
*
25252254 AAGGTCTACAATCGCCTCGAATGACACAAATAACCAAAATGATCATAACGGTGTAAATGGGCCCA
1 AAGGTCTACAATCGCCTCGAACGACACAAATAACCAAAATGATCATAACGGTGTAAATGGGCCCA
25252319 AGGCACATTACTCGGCCCAAGTGGGCCCACACGCTCGCGTGGCCCATTTAGCCCAAACTTAGTTA
66 AGGCACATTACTCGGCCCAAGTGGGCCCACACGCTCGCGTGGCCCATTTAGCCCAAACTTAGTTA
25252384 CC
131 CC
*
25252386 AAGGTCTACAATCGCCTCGAACGACACAAATAACCTAAATGATCATAACGGTGTAAATGGGCCCA
1 AAGGTCTACAATCGCCTCGAACGACACAAATAACCAAAATGATCATAACGGTGTAAATGGGCCCA
* * * *
25252451 AGGCGCATTACTCGGCCTAAGTGGGCCCACACGCTCGTGTGGCCCATTTAGCCCAAATTTAGTTA
66 AGGCACATTACTCGGCCCAAGTGGGCCCACACGCTCGCGTGGCCCATTTAGCCCAAACTTAGTTA
25252516 C
131 C
25252517 GGCTATGTGA
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 125 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (132 bp):
AAGGTCTACAATCGCCTCGAACGACACAAATAACCAAAATGATCATAACGGTGTAAATGGGCCCA
AGGCACATTACTCGGCCCAAGTGGGCCCACACGCTCGCGTGGCCCATTTAGCCCAAACTTAGTTA
CC
Found at i:25258682 original size:11 final size:11
Alignment explanation
Indices: 25258662--25258716 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 11
25258652 TATGAACTTG
*
25258662 TCGACCATGAT
1 TCGACAATGAT
25258673 TCGACAATGAT
1 TCGACAATGAT
* *
25258684 TCGACAGTGTT
1 TCGACAATGAT
*
25258695 TTGA-AATGAT
1 TCGACAATGAT
*
25258705 TCGACTATGAT
1 TCGACAATGAT
25258716 T
1 T
25258717 TGGTATTGGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
10 7 0.20
11 28 0.80
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (11 bp):
TCGACAATGAT
Found at i:25258718 original size:21 final size:21
Alignment explanation
Indices: 25258662--25258718 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
25258652 TATGAACTTG
*
25258662 TCGACCATGATTCGACAATGAT
1 TCGA-CATGATTTGACAATGAT
*
25258684 TCGACAGTGTTTTGA-AATGAT
1 TCGACA-TGATTTGACAATGAT
25258705 TCGACTATGATTTG
1 TCGAC-ATGATTTG
25258719 GTATTGGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (21 bp):
TCGACATGATTTGACAATGAT
Found at i:25268136 original size:27 final size:27
Alignment explanation
Indices: 25268106--25268283 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25268096 ATATTGAGTC
* * * *
25268106 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25268133 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25268160 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25268188 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25268215 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25268242 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25268269 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25268284 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25268245 original size:82 final size:81
Alignment explanation
Indices: 25268127--25268282 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25268117 TGCTATATAA
* *
25268127 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25268192 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25268209 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25268273 CACTTAGTGC
65 CACTTAGTGC
25268283 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25283497 original size:40 final size:40
Alignment explanation
Indices: 25283453--25283714 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
25283443 GCTCCTCGTT
* *
25283453 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
25283493 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
25283533 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
25283572 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
25283611 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
25283650 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
25283691 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25283715 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:25287006 original size:95 final size:95
Alignment explanation
Indices: 25286830--25287621 Score: 890
Period size: 95 Copynumber: 8.4 Consensus size: 95
25286820 TTAGTTTATT
* * * * * *
25286830 TATCGTGAACAATCTTATCTGAGTTAGCTGATTTAATATCGTTGCTCCAAACAGCTCGCTAATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCACTGATTT
*
25286895 AAGATTGCAAG-CTAAGTTCATTTGATTTAC
66 AAGATCGC-AGCCTAAGTTCATTTGATTTAC
* ** * * * *
25286925 TATCATGAACAATCTTCTCTGAGTTAGCTTATTTAATATAACTGCTCCAAGCAGCTCGCTAATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCACTGATTT
* * *
25286990 AAGATCACAGCTTAAGTTTATTTGATTTAC
66 AAGATCGCAGCCTAAGTTCATTTGATTTAC
* * * * * * *
25287020 TATTATGAACAATCATCTCTAAGTTAGCTGATTTAATATTGTTGCTCCGAACGGTTCACTGATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCACTGATTT
* * * *
25287085 AAGATTGCAACCTAAGTTCGTTTAATTTAC
66 AAGATCGCAGCCTAAGTTCATTTGATTTAC
* * *
25287115 TATCATGAACAATCTTCTCCGAGTTAACTGATTTAATATCGCTACTCCAAACGGCTCACTGATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCACTGATTT
* * * *
25287180 AATATTGCAGCTTGAGTTCATTTGATTTAC
66 AAGATCGCAGCCTAAGTTCATTTGATTTAC
* * * * * * *
25287210 TATCATGAACAGTCTTCTTTGAGTTAACTGATTTAATATTGCTACTCCCAACGGCTCACTCATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCACTGATTT
*
25287275 AAGATTGCAGCCTAAGTTCATTTGATTTAC
66 AAGATCGCAGCCTAAGTTCATTTGATTTAC
* * * * * ** *
25287305 TATCATGAACAATCTTATCTGAGTTAGTTTATTTAATATTGTTGCTCCAAACGGCTCGGTAATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCACTGATTT
** * *
25287370 AAGATCATAGTCTAAGTTCATTTGATTTAT
66 AAGATCGCAGCCTAAGTTCATTTGATTTAC
* * *
25287400 TATCATGAACAATCTTCTCTGAGTTAGCTAATTTAATATCACTGCTCCAAACGACTCACTGATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCACTGATTT
* *
25287465 AAGATCGTAACCTAAGTTCATTTGATTTAC
66 AAGATCGCAGCCTAAGTTCATTTGATTTAC
* * * **
25287495 TATCATGAACAGTCTTCTCTGAGTTA-CTTGAATTAATATCGCTGCTTCAAACAACTCACTGATT
1 TATCATGAACAATCTTCTCTGAGTTAGC-TGATTTAATATCGCTGCTCCAAACGGCTCACTGATT
* * * *
25287559 TAAGATTGCA-ACTAAGTTCATTTGATATAT
65 TAAGATCGCAGCCTAAGTTCATTTGATTTAC
* * *
25287589 TATCATGAACAATCTTATCT-AATTAGTTGATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTT
25287622 CCAAACCACC
Statistics
Matches: 591, Mismatches: 103, Indels: 8
0.84 0.15 0.01
Matches are distributed among these distances:
93 9 0.02
94 38 0.06
95 544 0.92
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (95 bp):
TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCACTGATTT
AAGATCGCAGCCTAAGTTCATTTGATTTAC
Found at i:25296808 original size:11 final size:10
Alignment explanation
Indices: 25296791--25296824 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
25296781 TTATATTAGG
25296791 TTTTAGGGTT
1 TTTTAGGGTT
25296801 TGTTTAGGGTT
1 T-TTTAGGGTT
25296812 TTTTAGTGGTT
1 TTTTAG-GGTT
25296823 TT
1 TT
25296825 GGTATTAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.09, C:0.00, G:0.29, T:0.62
Consensus pattern (10 bp):
TTTTAGGGTT
Found at i:25300738 original size:32 final size:32
Alignment explanation
Indices: 25300697--25300777 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
25300687 GCGCAGTTCC
* * *
25300697 GTGAAATGATAACAAATAT-GAGCTTTCATTTT
1 GTGAAATGATAACAAATATACAACTTT-AATTT
25300729 GTGAAATGATAACAAAT-TACAACTTTAATTT
1 GTGAAATGATAACAAATATACAACTTTAATTT
*
25300760 GTTAAATGATAACAAATA
1 GTGAAATGATAACAAATA
25300778 CTAACTTGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 21 0.49
32 22 0.51
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (32 bp):
GTGAAATGATAACAAATATACAACTTTAATTT
Found at i:25300767 original size:31 final size:31
Alignment explanation
Indices: 25300697--25300784 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 31
25300687 GCGCAGTTCC
* * *
25300697 GTGAAATGATAACAAATATGAGCTTTCATTTT
1 GTGAAATGATAACAAATA-CAACTTTCAATTT
25300729 GTGAAATGATAACAAATTACAACTTT-AATTT
1 GTGAAATGATAACAAA-TACAACTTTCAATTT
*
25300760 GTTAAATGATAACAAATACTAACTT
1 GTGAAATGATAACAAATAC-AACTT
25300785 GGTATGACAG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
30 3 0.06
31 24 0.48
32 21 0.42
33 2 0.04
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.35
Consensus pattern (31 bp):
GTGAAATGATAACAAATACAACTTTCAATTT
Found at i:25303326 original size:41 final size:41
Alignment explanation
Indices: 25303272--25303371 Score: 164
Period size: 41 Copynumber: 2.4 Consensus size: 41
25303262 GGGGAACGTG
* *
25303272 TCCAACTGAAAGCATTTTACTGGTAACACGCGGAAAGCGCT
1 TCCAGCTGGAAGCATTTTACTGGTAACACGCGGAAAGCGCT
25303313 TCCAGCTGGAAGCATTTTACTGGTAACACGCGGAAAGCGCT
1 TCCAGCTGGAAGCATTTTACTGGTAACACGCGGAAAGCGCT
* *
25303354 TCCAGCTAGAAGCGTTTT
1 TCCAGCTGGAAGCATTTT
25303372 TCTACATTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (41 bp):
TCCAGCTGGAAGCATTTTACTGGTAACACGCGGAAAGCGCT
Found at i:25304249 original size:26 final size:26
Alignment explanation
Indices: 25304217--25304276 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
25304207 ATTATTTTCA
*
25304217 TATATATTATTAATTAAT-AAATT-AT
1 TATATATTA-AAATTAATAAAATTAAT
*
25304242 TATAATATTAAAATTATTAAAATTAAT
1 TAT-ATATTAAAATTAATAAAATTAAT
25304269 TATATATT
1 TATATATT
25304277 TTATTTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 9 0.30
26 16 0.53
27 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TATATATTAAAATTAATAAAATTAAT
Found at i:25311085 original size:16 final size:16
Alignment explanation
Indices: 25311061--25311105 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
25311051 AGCATAATGT
*
25311061 TAATTAAAGTAAAATA
1 TAATGAAAGTAAAATA
25311077 TAATGAAAGTAAAATA
1 TAATGAAAGTAAAATA
*
25311093 TAAAGAAAGTAAA
1 TAATGAAAGTAAA
25311106 GCATTCCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.24
Consensus pattern (16 bp):
TAATGAAAGTAAAATA
Found at i:25311624 original size:20 final size:20
Alignment explanation
Indices: 25311599--25311658 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
25311589 TCTTGTACAC
25311599 CACACAATTATCATATGAAA
1 CACACAATTATCATATGAAA
* *
25311619 CACACAATAATC-T-TGTACAC
1 CACACAATTATCATATG-A-AA
25311639 CACACAATTATCATATGAAA
1 CACACAATTATCATATGAAA
25311659 TACAAAGTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 24 0.75
21 2 0.06
22 2 0.06
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (20 bp):
CACACAATTATCATATGAAA
Found at i:25319613 original size:24 final size:24
Alignment explanation
Indices: 25319557--25319623 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
25319547 AAATTGCTTA
* *
25319557 ATTGGGAAGTTCACAACGAACCTT
1 ATTGGGAAGTTCACAAAGAACCAT
***
25319581 ATCACGAAGTTCACAAAGAACCAT
1 ATTGGGAAGTTCACAAAGAACCAT
* *
25319605 ATTGGGAAGCTCACGAAGA
1 ATTGGGAAGTTCACAAAGA
25319624 GTCTATCAGG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
ATTGGGAAGTTCACAAAGAACCAT
Found at i:25331006 original size:23 final size:23
Alignment explanation
Indices: 25330974--25331017 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
25330964 GCTAATAACA
25330974 GTAAGATCTAAT-GAGCTGAAACG
1 GTAAGATCT-ATCGAGCTGAAACG
*
25330997 GTAAGCTCTATCGAGCTGAAA
1 GTAAGATCTATCGAGCTGAAA
25331018 ATAGTAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (23 bp):
GTAAGATCTATCGAGCTGAAACG
Found at i:25333161 original size:24 final size:24
Alignment explanation
Indices: 25333095--25333199 Score: 68
Period size: 24 Copynumber: 4.4 Consensus size: 24
25333085 GAAAGCTCAT
* *
25333095 AAGAGCCATAATTGGAAAGTTCACA
1 AAGAACCAT-ATTGGGAAGTTCACA
* * *
25333120 AAGAACCTTATCGAGAAGTTCACA
1 AAGAACCATATTGGGAAGTTCACA
* * * *
25333144 AGGAATCATATTGGGAAGCTCACG
1 AAGAACCATATTGGGAAGTTCACA
* ** *
25333168 AAGAGCC-TATCAGGAAGCTCACA
1 AAGAACCATATTGGGAAGTTCACA
*
25333191 AATAACCAT
1 AAGAACCAT
25333200 GTAACAGGAA
Statistics
Matches: 59, Mismatches: 20, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
23 18 0.31
24 34 0.58
25 7 0.12
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (24 bp):
AAGAACCATATTGGGAAGTTCACA
Found at i:25335633 original size:18 final size:17
Alignment explanation
Indices: 25335606--25335639 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
25335596 TCCCCTTTAA
25335606 CCTTTCCCTTCCCCTTC
1 CCTTTCCCTTCCCCTTC
25335623 CCTTCTCCCTTCCCCTT
1 CCTT-TCCCTTCCCCTT
25335640 GTGTTGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (17 bp):
CCTTTCCCTTCCCCTTC
Found at i:25335761 original size:25 final size:27
Alignment explanation
Indices: 25335699--25335761 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 27
25335689 CAGGTAAGGC
25335699 TCCTTCTTCTTCTTCTTCCATTCTTCAT
1 TCCTTC-TCTTCTTCTTCCATTCTTCAT
**
25335727 TCCTT-T-TTCTTCTTCTGTTCTTCA-
1 TCCTTCTCTTCTTCTTCCATTCTTCAT
25335751 T-CTTCTCTTCT
1 TCCTTCTCTTCT
25335762 CAGCATATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 3 0.10
24 2 0.06
25 20 0.65
26 1 0.03
28 5 0.16
ACGTcount: A:0.05, C:0.33, G:0.02, T:0.60
Consensus pattern (27 bp):
TCCTTCTCTTCTTCTTCCATTCTTCAT
Found at i:25338592 original size:20 final size:20
Alignment explanation
Indices: 25338567--25338606 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25338557 AATATTTTCC
*
25338567 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
25338587 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
25338607 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:25338621 original size:34 final size:35
Alignment explanation
Indices: 25338555--25338621 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
25338545 CAAACACCAG
*
25338555 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
25338590 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
25338622 TATTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:25338676 original size:23 final size:23
Alignment explanation
Indices: 25338646--25338692 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
25338636 TCAAACAGAC
25338646 CCTTATTTTATGAAAATTAACCT
1 CCTTATTTTATGAAAATTAACCT
25338669 CCTTATTTTATGAAAATTAACCT
1 CCTTATTTTATGAAAATTAACCT
25338692 C
1 C
25338693 ACTTCACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (23 bp):
CCTTATTTTATGAAAATTAACCT
Found at i:25340294 original size:27 final size:27
Alignment explanation
Indices: 25340264--25340330 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
25340254 GTGTGGGTCC
25340264 CAGAGGCGGCACCGGTTGTGTCC-CTAG
1 CAGAGGCGGCACCGGTTGTG-CCTCTAG
25340291 CAGAGGCGGCACCGGTTGTGCCTCTAG
1 CAGAGGCGGCACCGGTTGTGCCTCTAG
*
25340318 CATAGGCGGCACC
1 CAGAGGCGGCACC
25340331 AGTTTTGCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.16, C:0.31, G:0.36, T:0.16
Consensus pattern (27 bp):
CAGAGGCGGCACCGGTTGTGCCTCTAG
Found at i:25340635 original size:153 final size:151
Alignment explanation
Indices: 25340463--25341182 Score: 1049
Period size: 151 Copynumber: 4.8 Consensus size: 151
25340453 TCATTTTTTT
25340463 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAA
1 ATATAAAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAA
*
25340528 TACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATATTAAAAATACAAACAAAAGGCCAAA
65 TACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTAAAAATACAAACAAAAGGCCAAA
*
25340593 ATCAGGGTTATTTATTAAATTA
130 ATCAGGGTTATTTACTAAATTA
25340615 ATATAAAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAA
1 ATAT-AAAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAA
* * *
25340680 ATACTAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAAGGGCCA
64 ATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTAAAAATACAAACAAAA-GGCCA
25340745 AAATCA-GGTTATTTACTAAATTA
128 AAATCAGGGTTATTTACTAAATTA
* *
25340768 ATATAAAAAAACTAAAATAATACATTTGAAAGATTATGTACTGAAATAATAT-AAAAAATAAAAT
1 ATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAAT
* * ***
25340832 AAGAAAATAGTATATTTTTAAAAATAAAATTTTAAAATTTTAAAAATACAAACAAAAGGCCAAAA
66 ACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTAAAAATACAAACAAAAGGCCAAAA
*
25340897 TCAGGGTTATTTTCTAAATTA
131 TCAGGGTTATTTACTAAATTA
* *
25340918 ATATAAAAAACACTAAAATAATACATTTGAAACATGATGTACTAAAATAATAT-AAAAAATAATA
1 ATATAAAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAA
* * **** * ** *
25340982 TACAAAAATAATATATGTTT-AAAAATAAAATCTGGGAATTTTAAAAATGCAAACAAATTGACAA
65 TACGAAAATAGTATAT-TTTAAAAAATAAAATCCAAAAATTTTAAAAATACAAACAAAAGGCCAA
* *
25341046 ATTTAGGGTTATTTACTAAATTA
129 AATCAGGGTTATTTACTAAATTA
* *
25341069 ATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTATTAAAAT-A-ATAATAAAATAAAAT
1 ATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAAT
* * *
25341131 ATGAAAATAGTATATTTTAAAAAATAAGATCCAAAAATTTTAAAAATGCAAA
66 ACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTAAAAATACAAA
25341183 AATTTTTTAT
Statistics
Matches: 515, Mismatches: 46, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
147 5 0.01
148 51 0.10
149 46 0.09
150 93 0.18
151 162 0.31
152 13 0.03
153 134 0.26
154 11 0.02
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (151 bp):
ATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAAT
ACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTAAAAATACAAACAAAAGGCCAAAA
TCAGGGTTATTTACTAAATTA
Found at i:25340860 original size:22 final size:22
Alignment explanation
Indices: 25340835--25340879 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
25340825 ATAAAATAAG
* *
25340835 AAAATAGTATATTTTTAAAAAT
1 AAAATAGTAAAATTTTAAAAAT
**
25340857 AAAATTTTAAAATTTTAAAAAT
1 AAAATAGTAAAATTTTAAAAAT
25340879 A
1 A
25340880 CAAACAAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATAGTAAAATTTTAAAAAT
Found at i:25340978 original size:12 final size:13
Alignment explanation
Indices: 25340961--25340996 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
25340951 ATGATGTACT
25340961 AAAATAATATA-A
1 AAAATAATATACA
25340973 AAAATAATATACA
1 AAAATAATATACA
25340986 AAAATAATATA
1 AAAATAATATA
25340997 TGTTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:25341495 original size:27 final size:27
Alignment explanation
Indices: 25341460--25341520 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
25341450 AACAGGTGTC
*
25341460 GCCTATGCCAGAGGCACAACTGGTGCCT
1 GCCTCTGCCAGAGGCACAACTGGTG-CT
*
25341488 -CCTCTGCCAGAGGCACAATTGGTGCT
1 GCCTCTGCCAGAGGCACAACTGGTGCT
25341514 GCCTCTG
1 GCCTCTG
25341521 GGACCCACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (27 bp):
GCCTCTGCCAGAGGCACAACTGGTGCT
Found at i:25341568 original size:19 final size:19
Alignment explanation
Indices: 25341546--25341583 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
25341536 CCTTTTTTTG
*
25341546 TTTTTTTTTTATTTTTAAC
1 TTTTTTTTTCATTTTTAAC
*
25341565 TTTTTTTTTCCTTTTTAAC
1 TTTTTTTTTCATTTTTAAC
25341584 AAAAAATGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTTTCATTTTTAAC
Found at i:25342708 original size:12 final size:12
Alignment explanation
Indices: 25342688--25342718 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25342678 ATTAAATAAT
25342688 TTATAAAAAAAA
1 TTATAAAAAAAA
*
25342700 TTGTAAAAAAAA
1 TTATAAAAAAAA
25342712 TTATAAA
1 TTATAAA
25342719 TTTTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (12 bp):
TTATAAAAAAAA
Found at i:25344753 original size:33 final size:33
Alignment explanation
Indices: 25344698--25344850 Score: 132
Period size: 33 Copynumber: 4.7 Consensus size: 33
25344688 TTTCCAATAG
* * *
25344698 ACATAACCTTTTTC-AGTCGTACACTCGAGGTGT
1 ACAT-ACCCTTTTCAAGTCGTACACTCAAAGTGT
* *
25344731 ACATTCCCTTTTCAAGTGGTACACTCAAAGTGT
1 ACATACCCTTTTCAAGTCGTACACTCAAAGTGT
** *
25344764 ACATAGTCTTTTCAAGTTGTACACGT-AAAGTGT
1 ACATACCCTTTTCAAGTCGTACAC-TCAAAGTGT
* * * *
25344797 ACATAGCCTTTTCAAATTGTACACACAAAGTGT
1 ACATACCCTTTTCAAGTCGTACACTCAAAGTGT
* * *
25344830 ATATAACCATTTCAAGT-GTAC
1 ACATACCCTTTTCAAGTCGTAC
25344851 CATTTAGGTA
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
32 11 0.11
33 89 0.88
34 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (33 bp):
ACATACCCTTTTCAAGTCGTACACTCAAAGTGT
Found at i:25344843 original size:66 final size:65
Alignment explanation
Indices: 25344727--25344850 Score: 158
Period size: 66 Copynumber: 1.9 Consensus size: 65
25344717 TACACTCGAG
* * * ** *
25344727 GTGTACATTCCCTTTTCAAGTGGTACACTCAAAGTGTACATAGTCTTTTCAAGTTGTACACGTAA
1 GTGTACATACCCTTTTCAAATGGTACACACAAAGTGTACATAACCATTTCAAG-TGTACACGTAA
25344792 A
65 A
* * *
25344793 GTGTACATAGCCTTTTCAAATTGTACACACAAAGTGTATATAACCATTTCAAGTGTAC
1 GTGTACATACCCTTTTCAAATGGTACACACAAAGTGTACATAACCATTTCAAGTGTAC
25344851 CATTTAGGTA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
65 5 0.10
66 44 0.90
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (65 bp):
GTGTACATACCCTTTTCAAATGGTACACACAAAGTGTACATAACCATTTCAAGTGTACACGTAAA
Found at i:25350892 original size:19 final size:20
Alignment explanation
Indices: 25350854--25350893 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
25350844 TTGTGAAATT
*
25350854 AAATTAAAATTTAATGTATA
1 AAATTAAAATTTAATATATA
25350874 AAATTAAAATTT-ATATATA
1 AAATTAAAATTTAATATATA
25350893 A
1 A
25350894 TATTGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
AAATTAAAATTTAATATATA
Found at i:25351298 original size:8 final size:8
Alignment explanation
Indices: 25351285--25351311 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
25351275 GACAGGAAAG
25351285 AAAAGAAT
1 AAAAGAAT
25351293 AAAAGAAT
1 AAAAGAAT
25351301 AAAAGAAT
1 AAAAGAAT
25351309 AAA
1 AAA
25351312 TAAATATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAGAAT
Found at i:25353020 original size:25 final size:23
Alignment explanation
Indices: 25352974--25353018 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
25352964 TAGCAATTAA
25352974 TTATTTTTTAAAATTTAAAAATT
1 TTATTTTTTAAAATTTAAAAATT
25352997 TTATATTTTTAAAATTTAAAAA
1 TTAT-TTTTTAAAATTTAAAAA
25353019 ATAATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATTTTTTAAAATTTAAAAATT
Found at i:25353180 original size:29 final size:29
Alignment explanation
Indices: 25353148--25353203 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
25353138 AGGCGAAAAA
* *
25353148 TTAAATTA-ATGGCTAAAATAATTTTTTTT
1 TTAAATTAGAGGGCT-AAATAAGTTTTTTT
25353177 TTAAATTAGAGGGCTAAATAAGTTTTT
1 TTAAATTAGAGGGCTAAATAAGTTTTT
25353204 ATGCATATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (29 bp):
TTAAATTAGAGGGCTAAATAAGTTTTTTT
Found at i:25358212 original size:27 final size:27
Alignment explanation
Indices: 25358180--25358233 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
25358170 TTTTCTTTTA
*
25358180 TTTGCTTCTGGCAGGTTCCTTTAGTTT
1 TTTGCTTCTGGCAGGTTCATTTAGTTT
* *
25358207 TTTGCTTCTGGTAGGTTTATTTAGTTT
1 TTTGCTTCTGGCAGGTTCATTTAGTTT
25358234 ATAACTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.09, C:0.13, G:0.22, T:0.56
Consensus pattern (27 bp):
TTTGCTTCTGGCAGGTTCATTTAGTTT
Found at i:25367751 original size:21 final size:21
Alignment explanation
Indices: 25367726--25367765 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25367716 AGGTGAATAG
* *
25367726 TAGCCCTTATGCTGTGCATAA
1 TAGCCCCTATGCTATGCATAA
25367747 TAGCCCCTATGCTATGCAT
1 TAGCCCCTATGCTATGCAT
25367766 CTTGGCGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.33
Consensus pattern (21 bp):
TAGCCCCTATGCTATGCATAA
Found at i:25374012 original size:16 final size:16
Alignment explanation
Indices: 25373931--25374023 Score: 52
Period size: 16 Copynumber: 5.6 Consensus size: 16
25373921 CCCTTCTATG
25373931 TTATTTATTTAATTATTTA
1 TTATTTA-TT-ATTA-TTA
*
25373950 TTTATTTTTTATATATTA
1 -TTATTTATTAT-TATTA
*
25373968 TTATTAATATATTATT-
1 TTATTTAT-TATTATTA
*
25373984 TTCTTTCCA-TATTA-T-
1 TTATTT--ATTATTATTA
25373999 TTA-TTATTATTATTA
1 TTATTTATTATTATTA
25374014 TTATTTATTA
1 TTATTTATTA
25374024 GCAGTTATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
12 1 0.02
13 5 0.08
14 3 0.05
15 6 0.10
16 15 0.25
17 10 0.17
18 9 0.15
19 4 0.07
20 6 0.10
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTTATTATTATTA
Found at i:25376185 original size:20 final size:18
Alignment explanation
Indices: 25376128--25376187 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 18
25376118 TTTTATATAT
25376128 TAAATTATTATATT--AA
1 TAAATTATTATATTAAAA
* *
25376144 TAAAATATTATATTAAAT
1 TAAATTATTATATTAAAA
25376162 TAAATTATTATATTATAAAA
1 TAAATTATTATA-T-TAAAA
25376182 TAAATT
1 TAAATT
25376188 GAGTTGTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 13 0.36
18 12 0.33
19 1 0.03
20 10 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTATTATATTAAAA
Found at i:25377980 original size:34 final size:35
Alignment explanation
Indices: 25377942--25378007 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
25377932 CTATTAAAAT
*
25377942 TTTAACTTTAAAA-CTAAATATAA-AAATTAATGAA
1 TTTAAATTTAAAATCTAAA-ATAATAAATTAATGAA
*
25377976 TTTAAATTTAAAATTTAAAATAATAAATTAAT
1 TTTAAATTTAAAATCTAAAATAATAAATTAAT
25378008 AACGCAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (35 bp):
TTTAAATTTAAAATCTAAAATAATAAATTAATGAA
Found at i:25383672 original size:7 final size:7
Alignment explanation
Indices: 25383641--25383695 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
25383631 ATATTAAATA
25383641 TTTAAGTT
1 TTTAA-TT
*
25383649 TTTTATCT
1 TTTAAT-T
*
25383657 TTTATTT
1 TTTAATT
25383664 TTTAATT
1 TTTAATT
25383671 TTTAATT
1 TTTAATT
25383678 TTTAAATT
1 TTT-AATT
*
25383686 TTAAATT
1 TTTAATT
25383693 TTT
1 TTT
25383696 TTTGAATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
7 24 0.62
8 15 0.38
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (7 bp):
TTTAATT
Found at i:25383678 original size:15 final size:15
Alignment explanation
Indices: 25383641--25383696 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
25383631 ATATTAAATA
25383641 TTTAAGTTTTTT-ATCT
1 TTTAA-TTTTTTAAT-T
25383657 TTT-ATTTTTTAATT
1 TTTAATTTTTTAATT
*
25383671 TTTAATTTTTAAATT
1 TTTAATTTTTTAATT
*
25383686 TTAAATTTTTT
1 TTTAATTTTTT
25383697 TTGAATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.29
15 22 0.63
16 3 0.09
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTAATTTTTTAATT
Found at i:25384103 original size:15 final size:15
Alignment explanation
Indices: 25384083--25384116 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
25384073 CAATATATAA
25384083 ATATCAAATGATGTT
1 ATATCAAATGATGTT
25384098 ATATCAAATGATGTT
1 ATATCAAATGATGTT
25384113 ATAT
1 ATAT
25384117 TAATAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (15 bp):
ATATCAAATGATGTT
Found at i:25384497 original size:21 final size:21
Alignment explanation
Indices: 25384480--25384543 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
25384470 AAACCTAACA
* *
25384480 CTTAACCCTTAACCCCTAAAC
1 CTTAAACCTCAACCCCTAAAC
*
25384501 CTTAAACCTCAACCCTTAAAC
1 CTTAAACCTCAACCCCTAAAC
* *
25384522 CATAAACCAT-AATCCCTAAAC
1 CTTAAACC-TCAACCCCTAAAC
25384543 C
1 C
25384544 CATAATCCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 35 0.97
22 1 0.03
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (21 bp):
CTTAAACCTCAACCCCTAAAC
Found at i:25384546 original size:15 final size:14
Alignment explanation
Indices: 25384521--25384556 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
25384511 AACCCTTAAA
25384521 CCATAAACCATAAT
1 CCATAAACCATAAT
*
25384535 CCCTAAACCCATAAT
1 CCATAAA-CCATAAT
25384550 CCATAAA
1 CCATAAA
25384557 TCTTAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.19
Consensus pattern (14 bp):
CCATAAACCATAAT
Found at i:25384563 original size:22 final size:21
Alignment explanation
Indices: 25384496--25384563 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
25384486 CCTTAACCCC
* ** *
25384496 TAAACCTTAAACCTCAACCCT
1 TAAACCATAAACCATAATCCT
*
25384517 TAAACCATAAACCATAATCCC
1 TAAACCATAAACCATAATCCT
*
25384538 TAAACCCATAATCCATAAAT-CT
1 TAAA-CCATAAACCAT-AATCCT
25384560 TAAA
1 TAAA
25384564 ATAGTAACTC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
21 20 0.53
22 15 0.39
23 3 0.08
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCATAAACCATAATCCT
Found at i:25384616 original size:14 final size:14
Alignment explanation
Indices: 25384582--25384626 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
25384572 TCATACACTT
*
25384582 TAAACCCTCAACTA
1 TAAACCCTAAACTA
* *
25384596 TATACCCTAAACCA
1 TAAACCCTAAACTA
25384610 TAAACCCTAAACTA
1 TAAACCCTAAACTA
25384624 TAA
1 TAA
25384627 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:25384744 original size:7 final size:7
Alignment explanation
Indices: 25384721--25384826 Score: 72
Period size: 7 Copynumber: 14.9 Consensus size: 7
25384711 CTAATTAATT
25384721 TAAACCC
1 TAAACCC
25384728 TAAACTCC
1 TAAAC-CC
*
25384736 TAATCCC
1 TAAACCC
25384743 TAAACCC
1 TAAACCC
*
25384750 TAAACCA
1 TAAACCC
*
25384757 TAAATCC
1 TAAACCC
* *
25384764 TAAAACA
1 TAAACCC
*
25384771 TAAACCT
1 TAAACCC
* *
25384778 TGAACCA
1 TAAACCC
25384785 TAAACCAC
1 TAAACC-C
25384793 T-AACCAC
1 TAAACC-C
25384800 T-AACCC
1 TAAACCC
*
25384806 TTAACCC
1 TAAACCC
*
25384813 TTAACACC
1 TAAAC-CC
25384821 TAAACC
1 TAAACC
25384827 TTAGACCCCA
Statistics
Matches: 81, Mismatches: 14, Indels: 8
0.79 0.14 0.08
Matches are distributed among these distances:
6 2 0.02
7 66 0.81
8 13 0.16
ACGTcount: A:0.43, C:0.36, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:25384769 original size:22 final size:22
Alignment explanation
Indices: 25384721--25384767 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
25384711 CTAATTAATT
*
25384721 TAAACCCTAAACTCCTAATCCC
1 TAAACCCTAAACTCATAATCCC
25384743 TAAACCCTAAAC-CATAAAT-CC
1 TAAACCCTAAACTCAT-AATCCC
25384764 TAAA
1 TAAA
25384768 ACATAAACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAACCCTAAACTCATAATCCC
Found at i:25385259 original size:76 final size:76
Alignment explanation
Indices: 25385086--25385269 Score: 208
Period size: 76 Copynumber: 2.4 Consensus size: 76
25385076 GTATTTTATT
* * * * * * * * **
25385086 TTTTGTGGCATTTTTCAAAAAGCACCACTAAAGCCACTAAAAGCTTAAGACAAAATGATGGTGTT
1 TTTTGCGGCGTTTTTCAAAAAACGCCGCTAAAGCCACTAAAAGCTCAAGACAAAACGACGACGTT
25385151 TCTCAAAATTC
66 TCTCAAAATTC
* * * *
25385162 TTTTGTGGTGTTTTTCAAAAAATGCCGCTAAAGCCACTAAAAGCTCAATACAAAACGACGACGTT
1 TTTTGCGGCGTTTTTCAAAAAACGCCGCTAAAGCCACTAAAAGCTCAAGACAAAACGACGACGTT
25385227 T-TGCAAAATTC
66 TCT-CAAAATTC
**
25385238 TTTTGCGGCGTTTTTTTAAAAACGCCGCTAAA
1 TTTTGCGGCGTTTTTCAAAAAACGCCGCTAAA
25385270 TGTGTACATA
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
75 1 0.01
76 89 0.99
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (76 bp):
TTTTGCGGCGTTTTTCAAAAAACGCCGCTAAAGCCACTAAAAGCTCAAGACAAAACGACGACGTT
TCTCAAAATTC
Found at i:25385476 original size:40 final size:39
Alignment explanation
Indices: 25385409--25385501 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 39
25385399 AGATCGAGTA
*
25385409 TTAGCAGCGTTTTTTAAAAGGTACCGCTAATACTTGATCT
1 TTAGCAGCGTTTTTTAAAAGG-ACCGCTAATACTCGATCT
* * *
25385449 TTAGCTGCGTTTTTTGAAAAGCG-CCGCTAATGCTCGTTCT
1 TTAGCAGCGTTTTTT-AAAAG-GACCGCTAATACTCGATCT
*
25385489 TTAGCGGC-TTTTT
1 TTAGCAGCGTTTTT
25385502 CATTCAAACG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 5 0.11
40 35 0.76
41 5 0.11
42 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (39 bp):
TTAGCAGCGTTTTTTAAAAGGACCGCTAATACTCGATCT
Found at i:25391711 original size:40 final size:40
Alignment explanation
Indices: 25391637--25391778 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
25391627 AACCCAAGTA
* *
25391637 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
25391676 CCTTCGGGTCTTAGCCTGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
25391716 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
25391756 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
25391779 CATTCGAATA
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 12 0.13
40 77 0.84
41 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:25399739 original size:40 final size:40
Alignment explanation
Indices: 25399665--25400046 Score: 687
Period size: 40 Copynumber: 9.6 Consensus size: 40
25399655 AACCCAAGTA
* * *
25399665 CCTTCGGGATTTAG-CTGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
25399704 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
25399744 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
25399784 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
25399824 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
25399864 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
25399904 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
25399944 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
25399984 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
25400024 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
25400047 CATTCGAATA
Statistics
Matches: 332, Mismatches: 9, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
39 12 0.04
40 319 0.96
41 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:25403575 original size:19 final size:19
Alignment explanation
Indices: 25403553--25403619 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 19
25403543 TTTATTTCTA
25403553 TCTTTTATTATTTTTTATT
1 TCTTTTATTATTTTTTATT
*
25403572 TC--TTACTT-TATTTTATT
1 TCTTTTA-TTATTTTTTATT
*
25403589 TCATTTTGTTTATTTTTTA-T
1 TC-TTTT-ATTATTTTTTATT
*
25403609 TATTTTATTAT
1 TCTTTTATTAT
25403620 ATTAATAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 13
0.67 0.09 0.24
Matches are distributed among these distances:
17 13 0.35
18 6 0.16
19 6 0.16
20 6 0.16
21 6 0.16
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (19 bp):
TCTTTTATTATTTTTTATT
Found at i:25403580 original size:23 final size:24
Alignment explanation
Indices: 25403542--25403589 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
25403532 TAATTTTTAA
25403542 TTTTATTTCTATCTTT-TATTATT
1 TTTTATTTCTATCTTTATATTATT
*
25403565 TTTTATTTCT-TACTTTATTTTATT
1 TTTTATTTCTAT-CTTTATATTATT
25403589 T
1 T
25403590 CATTTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 14 0.64
24 7 0.32
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTATTTCTATCTTTATATTATT
Found at i:25407103 original size:10 final size:10
Alignment explanation
Indices: 25407088--25407139 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
25407078 TTATTTTAGG
25407088 ATTTATTTTT
1 ATTTATTTTT
*
25407098 ATTTATCTTT
1 ATTTATTTTT
* *
25407108 AATTATCTTT
1 ATTTATTTTT
*
25407118 ATTTATTTAT
1 ATTTATTTTT
25407128 ATTTATCTTTT
1 ATTTAT-TTTT
25407139 A
1 A
25407140 GAATTTCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:25408065 original size:12 final size:12
Alignment explanation
Indices: 25408048--25408080 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
25408038 CTACTTCCCC
25408048 TTTACTATTATT
1 TTTACTATTATT
25408060 TTTACTATTATT
1 TTTACTATTATT
25408072 TTTACTATT
1 TTTACTATT
25408081 TTGCAGGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTACTATTATT
Found at i:25411957 original size:18 final size:19
Alignment explanation
Indices: 25411919--25411957 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
25411909 AGTAAAATTA
*
25411919 AATTAATCATATTAATTTT
1 AATTAATCATAATAATTTT
*
25411938 AATTAAT-ATAATATTTTT
1 AATTAATCATAATAATTTT
25411956 AA
1 AA
25411958 AAATTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTAATCATAATAATTTT
Found at i:25412344 original size:32 final size:33
Alignment explanation
Indices: 25412303--25412366 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
25412293 TCCTATTATA
*
25412303 CCTCATTTTCTT-TTTATTTTCTTTT-TTATTTC
1 CCTCATTTTCTTCTAT-TTTTCTTTTCTTATTTC
25412335 CCTCATTTTCTTCTATTTTTCTTTTCTTATTT
1 CCTCATTTTCTTCTATTTTTCTTTTCTTATTT
25412367 TTCTGTTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 21 0.72
33 8 0.28
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.70
Consensus pattern (33 bp):
CCTCATTTTCTTCTATTTTTCTTTTCTTATTTC
Found at i:25412367 original size:14 final size:15
Alignment explanation
Indices: 25412348--25412376 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25412338 CATTTTCTTC
25412348 TATTTTTCT-TTTCT
1 TATTTTTCTGTTTCT
25412362 TATTTTTCTGTTTCT
1 TATTTTTCTGTTTCT
25412377 GACCTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.14, G:0.03, T:0.76
Consensus pattern (15 bp):
TATTTTTCTGTTTCT
Found at i:25413431 original size:6 final size:6
Alignment explanation
Indices: 25413420--25413466 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
25413410 AAGCAGGACT
* *
25413420 AGAAAA AGAAAA AAAAAGA AAATAAA AGAAAA AGAAAA AGAAAA AGA
1 AGAAAA AGAAAA AGAAA-A AGA-AAA AGAAAA AGAAAA AGAAAA AGA
25413467 GGTACAAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 28 0.76
7 7 0.19
8 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:25413437 original size:10 final size:10
Alignment explanation
Indices: 25413422--25413464 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
25413412 GCAGGACTAG
25413422 AAAAAGAAAA
1 AAAAAGAAAA
25413432 AAAAAGAAAA
1 AAAAAGAAAA
*
25413442 TAAAAGAAAAA
1 AAAAAG-AAAA
25413453 GAAAAAGAAAA
1 -AAAAAGAAAA
25413464 A
1 A
25413465 GAGGTACAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 16 0.55
11 8 0.28
12 5 0.17
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:25413965 original size:13 final size:14
Alignment explanation
Indices: 25413928--25413958 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25413918 TAGTAAGAAG
*
25413928 ATTAAATTATATAA
1 ATTAAAGTATATAA
25413942 ATTAAAGTATATAA
1 ATTAAAGTATATAA
25413956 ATT
1 ATT
25413959 GAGTATAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
ATTAAAGTATATAA
Found at i:25422028 original size:16 final size:16
Alignment explanation
Indices: 25422007--25422037 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25421997 CTATGCATGC
25422007 AAAATAAAAAAGACAA
1 AAAATAAAAAAGACAA
25422023 AAAATAAAAAAGACA
1 AAAATAAAAAAGACA
25422038 TAATAGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (16 bp):
AAAATAAAAAAGACAA
Found at i:25425759 original size:45 final size:45
Alignment explanation
Indices: 25425708--25425822 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 45
25425698 GTGCCAATGC
*
25425708 CATGTCCCAGACATGGTCTTACACTAAC-ACATCGCGTAGTC-GATG
1 CATGTCCCAGACAT-GTCTTACACTAACTACATCGCG-AGGCTGATG
** **
25425753 CATGTCCCAGACATGTCTTACACTGGCTTACATCTTGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAAC-TACATCGCGAGGCTGATG
25425799 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
25425823 GGCACACAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 11 0.18
45 17 0.27
46 34 0.55
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAACTACATCGCGAGGCTGATG
Found at i:25427856 original size:230 final size:231
Alignment explanation
Indices: 25427208--25427898 Score: 1321
Period size: 231 Copynumber: 3.0 Consensus size: 231
25427198 AAAATCGGCT
*
25427208 TGTTACACGGCCGAGGACACGCCTTTGTGCCATGGCCGTGGGAAAACTGGAGGGGTTACTGACTT
1 TGTTACACGGCCGAGGACATGCCTTTGTGCCATGGCCGTGGGAAAACTGGAGGGGTTACTGACTT
25427273 GGGTCACACGGTCGGCCACACGTCCATGTGCTAGCCCGTGTGTCACACACGGCCAGTAAACACAC
66 GGGTCACACGGTCGGCCACACGTCCATGTGCTAGCCCGTGTGTCACACACGGCCAGTAAACACAC
*
25427338 CCGTGTGTCTAGACCCTGTCAAACTTGTAGGGTATACTACATTAAGTCGAAAGGGTATCTTAGGG
131 CCGTGTGTCTAGACCCTGTCAAACTTGTAGGGTATACTACATTAAGTCGAAAGGGTACCTTAGGG
*
25427403 GACACACGGCCTTACAATATGACCGTGTGTCACACC
196 GACACACGGCCTTACAATATGACCGTGTGTCATACC
25427439 TGTTACACGGCCGAGGACATGCCTTTGTGCCATGGCCGTGGGAAAACTGGAGGGGTTACTGACTT
1 TGTTACACGGCCGAGGACATGCCTTTGTGCCATGGCCGTGGGAAAACTGGAGGGGTTACTGACTT
*
25427504 GGGTCACACGGTCGGCCACACGTCCATGTGCTAGCCCGTGGGTCACACACGGCCAGTAAACACAC
66 GGGTCACACGGTCGGCCACACGTCCATGTGCTAGCCCGTGTGTCACACACGGCCAGTAAACACAC
25427569 CCGTGTGTCTAGACCCTGTCAAACTTGTAGGGTATACTACATTAAGTCGAAAGGGTACCTTAGGG
131 CCGTGTGTCTAGACCCTGTCAAACTTGTAGGGTATACTACATTAAGTCGAAAGGGTACCTTAGGG
25427634 GACACACGGCCTTACAATATGACCGTGTGTCATACC
196 GACACACGGCCTTACAATATGACCGTGTGTCATACC
25427670 TGTTACACGGCCGAGGACATGCCTTTGTGCCATGGCCGTGGGAAAACTGGAGGGGTTACTGACTT
1 TGTTACACGGCCGAGGACATGCCTTTGTGCCATGGCCGTGGGAAAACTGGAGGGGTTACTGACTT
*
25427735 -GGTTACACGGTCGGCCACACGTCCATGTGCTAGCCCGTGTGTCACACACGGCCAGTAAACACAC
66 GGGTCACACGGTCGGCCACACGTCCATGTGCTAGCCCGTGTGTCACACACGGCCAGTAAACACAC
25427799 CCGTGTGTCTAGACCCTGTCAAACTTGTAGGGTATACTACATTAAGTCGAAAGGGTACCTTAGGG
131 CCGTGTGTCTAGACCCTGTCAAACTTGTAGGGTATACTACATTAAGTCGAAAGGGTACCTTAGGG
*
25427864 GACACACGACCTTACAATATGACCGTGTGTCATAC
196 GACACACGGCCTTACAATATGACCGTGTGTCATAC
25427899 ACGGTTCAGA
Statistics
Matches: 453, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
230 161 0.36
231 292 0.64
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.22
Consensus pattern (231 bp):
TGTTACACGGCCGAGGACATGCCTTTGTGCCATGGCCGTGGGAAAACTGGAGGGGTTACTGACTT
GGGTCACACGGTCGGCCACACGTCCATGTGCTAGCCCGTGTGTCACACACGGCCAGTAAACACAC
CCGTGTGTCTAGACCCTGTCAAACTTGTAGGGTATACTACATTAAGTCGAAAGGGTACCTTAGGG
GACACACGGCCTTACAATATGACCGTGTGTCATACC
Found at i:25428982 original size:42 final size:40
Alignment explanation
Indices: 25428920--25429029 Score: 116
Period size: 40 Copynumber: 2.7 Consensus size: 40
25428910 TTCATAGATG
*
25428920 AAGCTATCTC-AGTCTCGCACATTAAGTGCCATATAAATAGCCA
1 AAGCTATCTCGA-T-TCGCACACTAAGTG-C-TATAAATAGCCA
* * *
25428963 AAGCTAT-TCCGATTCGCACACTAAGTGCTTTATATAGCCG
1 AAGCTATCT-CGATTCGCACACTAAGTGCTATAAATAGCCA
*
25429003 AAGCTATCTCGATACGCACACTAAGTG
1 AAGCTATCTCGATTCGCACACTAAGTG
25429030 GCAAACATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
40 33 0.56
41 2 0.03
42 14 0.24
43 9 0.15
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
AAGCTATCTCGATTCGCACACTAAGTGCTATAAATAGCCA
Found at i:25431752 original size:54 final size:54
Alignment explanation
Indices: 25431670--25431772 Score: 206
Period size: 54 Copynumber: 1.9 Consensus size: 54
25431660 TGTTTCATAA
25431670 GATTATTAAGCTAGCTCGAGTTGGAGATCGTCGGAGATCCTATCACATTTATAG
1 GATTATTAAGCTAGCTCGAGTTGGAGATCGTCGGAGATCCTATCACATTTATAG
25431724 GATTATTAAGCTAGCTCGAGTTGGAGATCGTCGGAGATCCTATCACATT
1 GATTATTAAGCTAGCTCGAGTTGGAGATCGTCGGAGATCCTATCACATT
25431773 ATCCAGCTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (54 bp):
GATTATTAAGCTAGCTCGAGTTGGAGATCGTCGGAGATCCTATCACATTTATAG
Found at i:25432324 original size:15 final size:13
Alignment explanation
Indices: 25432291--25432323 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
25432281 GACACACGGG
25432291 CGTGTGTCTAGGC
1 CGTGTGTCTAGGC
25432304 CGTGTGTCTAGGC
1 CGTGTGTCTAGGC
25432317 CGTGTGT
1 CGTGTGT
25432324 GACACACGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.21, G:0.39, T:0.33
Consensus pattern (13 bp):
CGTGTGTCTAGGC
Found at i:25434771 original size:12 final size:12
Alignment explanation
Indices: 25434754--25434783 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25434744 AGTAACATGC
25434754 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
25434766 CCGTGTGCTAGG
1 CCGTGTGCCAGG
25434778 CCGTGT
1 CCGTGT
25434784 AATTGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:25436718 original size:18 final size:20
Alignment explanation
Indices: 25436682--25436728 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
25436672 AGTTGTAAGT
25436682 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
25436702 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
25436721 ATGATATA
1 AT-ATATA
25436729 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:25437156 original size:50 final size:50
Alignment explanation
Indices: 25437077--25437320 Score: 283
Period size: 50 Copynumber: 4.9 Consensus size: 50
25437067 TTCGTTGTGA
*
25437077 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* ** * * *
25437127 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATACGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* * * * ** * * *
25437178 ATCACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTATTAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
*
25437228 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * *
25437278 GTCACATTTGTAGTACTAAGTGAAGGCTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
25437321 GAGCTTCGGT
Statistics
Matches: 157, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 3 0.02
50 119 0.76
51 34 0.22
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
Done.