Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 84 of 325
Found at i:24061308 original size:16 final size:16
Alignment explanation
Indices: 24061287--24061319 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24061277 AAATAAAGTA
*
24061287 AAAGAATAAAAGAAAC
1 AAAGAAGAAAAGAAAC
24061303 AAAGAAGAAAAGAAAC
1 AAAGAAGAAAAGAAAC
24061319 A
1 A
24061320 GAGACTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAAGAAAC
Found at i:24062064 original size:63 final size:63
Alignment explanation
Indices: 24061986--24062111 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
24061976 GTGTATGGTA
24061986 AGTAAAATTTTAAGGTAAGTATCAATATTGAAATGAATGAAATTGAGATGAAGTAAAATTATG
1 AGTAAAATTTTAAGGTAAGTATCAATATTGAAATGAATGAAATTGAGATGAAGTAAAATTATG
24062049 AGTAAAATTTTAAGGTAAGTATCAATATTGAAATGAATGAAATTGAGATGAAGTAAAATTATG
1 AGTAAAATTTTAAGGTAAGTATCAATATTGAAATGAATGAAATTGAGATGAAGTAAAATTATG
24062112 TATAGATATC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.48, C:0.02, G:0.19, T:0.32
Consensus pattern (63 bp):
AGTAAAATTTTAAGGTAAGTATCAATATTGAAATGAATGAAATTGAGATGAAGTAAAATTATG
Found at i:24062403 original size:23 final size:23
Alignment explanation
Indices: 24062377--24062442 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
24062367 CTAAGTGTCG
*
24062377 TTCTGGTGTGTTTGGGTGGATTA
1 TTCTGGTGTGTTTGGTTGGATTA
* *
24062400 TTCTAGTGTGTTTAGTTGGATTA
1 TTCTGGTGTGTTTGGTTGGATTA
*
24062423 TTTTGGTGTGTTTGGTTGGA
1 TTCTGGTGTGTTTGGTTGGA
24062443 ATTCGTGTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.11, C:0.03, G:0.35, T:0.52
Consensus pattern (23 bp):
TTCTGGTGTGTTTGGTTGGATTA
Found at i:24062714 original size:22 final size:22
Alignment explanation
Indices: 24062689--24062733 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
24062679 TATGAATTAA
24062689 TATATATTAATAAATTATTATT
1 TATATATTAATAAATTATTATT
* * **
24062711 TATATGTTTATACCTTATTATT
1 TATATATTAATAAATTATTATT
24062733 T
1 T
24062734 GTTATTATAG
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:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
TATATATTAATAAATTATTATT
Found at i:24065919 original size:30 final size:30
Alignment explanation
Indices: 24065873--24065933 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24065863 TTCCCGAGCC
24065873 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
24065903 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
24065933 T
1 T
24065934 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:24068556 original size:76 final size:76
Alignment explanation
Indices: 24068315--24068549 Score: 296
Period size: 80 Copynumber: 3.1 Consensus size: 76
24068305 TTACGTAAAT
* * * ** * * *
24068315 AATACAAAGTTTATTATTTAAATTGCAAAAAACTCC-TAAAATTAATAACTGAAATAGTGAAAAA
1 AATAAAAAGTTTACTATTTAAATTGAAAAAAAAACCATAAAATTAATAACTAAAATGGAGAAAAA
24068379 GTCATTACATA
66 GTCATTACATA
24068390 AATAAAAAGTTGT-CTATTTAAATTGCAAAAAAAAAAACTCATAAAATTAATAACTAAAATGGCA
1 AATAAAAAGTT-TACTATTTAAATTG---AAAAAAAAAC-CATAAAATTAATAACTAAAATGG-A
24068454 -AAAAAGTCATTACATA
60 GAAAAAGTCATTACATA
* *
24068470 AATACAAAGTTTACTATTTAAATTGTAAAAAAAACCATAAAATTAATAACTAAAATGGAGAAAAA
1 AATAAAAAGTTTACTATTTAAATTGAAAAAAAAACCATAAAATTAATAACTAAAATGGAGAAAAA
*
24068535 GTCATTATATA
66 GTCATTACATA
24068546 AATA
1 AATA
24068550 TGAAGTTATT
Statistics
Matches: 140, Mismatches: 11, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
75 22 0.16
76 43 0.31
77 9 0.06
78 7 0.05
79 2 0.01
80 57 0.41
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (76 bp):
AATAAAAAGTTTACTATTTAAATTGAAAAAAAAACCATAAAATTAATAACTAAAATGGAGAAAAA
GTCATTACATA
Found at i:24068821 original size:33 final size:32
Alignment explanation
Indices: 24068742--24068836 Score: 102
Period size: 33 Copynumber: 2.9 Consensus size: 32
24068732 AACTTGAGCT
* * * *
24068742 GGAAGTAGTGGAGTACGGCAGTGGATACAGGTC
1 GGAAG-AGTGGAGTACGACGGTGGATACGGGCC
24068775 GAGAAGAGTGGAGTACGACGGTGGATACGGGCC
1 G-GAAGAGTGGAGTACGACGGTGGATACGGGCC
*
24068808 GGAAGAAGCGGAGTACTGA-GGTGGATACG
1 GGAAG-AGTGGAGTAC-GACGGTGGATACG
24068837 AGTCGGGATG
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
32 4 0.07
33 44 0.81
34 6 0.11
ACGTcount: A:0.28, C:0.13, G:0.44, T:0.15
Consensus pattern (32 bp):
GGAAGAGTGGAGTACGACGGTGGATACGGGCC
Found at i:24070517 original size:3 final size:3
Alignment explanation
Indices: 24070509--24070536 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
24070499 TTGATATGTG
24070509 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
24070537 ATCAAAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:24070887 original size:15 final size:16
Alignment explanation
Indices: 24070869--24070898 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24070859 TAAAAATCAA
24070869 ATAAAA-TTACATTAT
1 ATAAAATTTACATTAT
24070884 ATAAAATTTACATTA
1 ATAAAATTTACATTA
24070899 AAAAAATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAAATTTACATTAT
Found at i:24071171 original size:60 final size:60
Alignment explanation
Indices: 24071097--24071220 Score: 203
Period size: 60 Copynumber: 2.1 Consensus size: 60
24071087 AATACTAAAC
* * *
24071097 TAAACACAATAATTTATAACATAACCCTAAATTACTAATAAATTAGTTTTAAAATAATTA
1 TAAACACAACAATTTATAACATAACCCTAAATTACTAACAAATTAATTTTAAAATAATTA
* *
24071157 TAAACACAACAATTTATAGCATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 TAAACACAACAATTTATAACATAACCCTAAATTACTAACAAATTAATTTTAAAATAATTA
24071217 TAAA
1 TAAA
24071221 AAATACGTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (60 bp):
TAAACACAACAATTTATAACATAACCCTAAATTACTAACAAATTAATTTTAAAATAATTA
Found at i:24071399 original size:16 final size:15
Alignment explanation
Indices: 24071370--24071430 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 15
24071360 ACTACATTAC
24071370 CTTC-TTTTTTCTTT
1 CTTCTTTTTTTCTTT
*
24071384 TTTCTTTTTATTCTTT
1 CTTCTTTTT-TTCTTT
*
24071400 CTTCTTCTTCCTTC-TT
1 CTTCTT-TT-TTTCTTT
24071416 CTTCTTCTTTTTCTT
1 CTTCTT-TTTTTCTT
24071431 CTCCTTTCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 3 0.08
15 7 0.18
16 23 0.61
17 5 0.13
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (15 bp):
CTTCTTTTTTTCTTT
Found at i:24071400 original size:13 final size:13
Alignment explanation
Indices: 24071378--24071439 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
24071368 ACCTTCTTTT
* *
24071378 TTCTTTTTTCTTT
1 TTCTTCTTTCTTC
*
24071391 TTATTCTTTCTTC
1 TTCTTCTTTCTTC
*
24071404 TTCTTCCTTCTTC
1 TTCTTCTTTCTTC
24071417 TTCTTCTTT-TTC
1 TTCTTCTTTCTTC
*
24071429 TTCTCCTTTCT
1 TTCTTCTTTCT
24071440 CTCCTTTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
12 11 0.27
13 30 0.73
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (13 bp):
TTCTTCTTTCTTC
Found at i:24071404 original size:7 final size:7
Alignment explanation
Indices: 24071371--24071450 Score: 62
Period size: 7 Copynumber: 11.9 Consensus size: 7
24071361 CTACATTACC
*
24071371 TTCTTTT
1 TTCTTCT
*
24071378 TTCTTTT
1 TTCTTCT
24071385 TTCTT-T
1 TTCTTCT
*
24071391 TTATTCT
1 TTCTTCT
24071398 TTCTTC-
1 TTCTTCT
*
24071404 TTCTTCC
1 TTCTTCT
24071411 TTCTTC-
1 TTCTTCT
24071417 TTCTTCT
1 TTCTTCT
24071424 TT-TTC-
1 TTCTTCT
*
24071429 TTCTCCT
1 TTCTTCT
24071436 TTCTCTCCT
1 TTCT-T-CT
24071445 TTCTTC
1 TTCTTC
24071451 CCTACACTGG
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
5 2 0.03
6 22 0.35
7 31 0.50
8 1 0.02
9 6 0.10
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (7 bp):
TTCTTCT
Found at i:24071406 original size:3 final size:3
Alignment explanation
Indices: 24071370--24071432 Score: 53
Period size: 3 Copynumber: 21.7 Consensus size: 3
24071360 ACTACATTAC
* *
24071370 CTT CTT -TT -TT CTT -TT -TT CTT TTT ATT CTTT CTT CTT CTT CCTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT -CTT
*
24071413 CTT CTT CTT CTT TTT CTT CT
1 CTT CTT CTT CTT CTT CTT CT
24071433 CCTTTCTCTC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 8 0.16
3 37 0.73
4 6 0.12
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (3 bp):
CTT
Found at i:24078347 original size:3 final size:3
Alignment explanation
Indices: 24078339--24078385 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
24078329 AATAACATCA
24078339 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24078386 GTGTTATTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:24078975 original size:14 final size:14
Alignment explanation
Indices: 24078956--24078982 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24078946 TATAAATTTA
24078956 ATAATAAAAAATAG
1 ATAATAAAAAATAG
24078970 ATAATAAAAAATA
1 ATAATAAAAAATA
24078983 ATTGTGAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
ATAATAAAAAATAG
Found at i:24082816 original size:27 final size:27
Alignment explanation
Indices: 24082768--24082872 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
24082758 GTGAGGCTGC
* *
24082768 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
24082795 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
24082821 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
24082848 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
24082873 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:24084424 original size:26 final size:26
Alignment explanation
Indices: 24084389--24084496 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
24084379 TGAAATGCCC
* *
24084389 ATCATAGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
24084415 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
24084441 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
24084467 ATCATGGAACAGTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24084493 ATCA
1 ATCA
24084497 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:24088469 original size:47 final size:46
Alignment explanation
Indices: 24088363--24088486 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
24088353 CTTCATATAT
* * * * *
24088363 CGATGTCATATCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
24088409 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
24088456 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
24088487 GAAATCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:24088539 original size:31 final size:31
Alignment explanation
Indices: 24088504--24088714 Score: 287
Period size: 31 Copynumber: 6.8 Consensus size: 31
24088494 CTTATCACTT
* *
24088504 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
24088535 GTAGCCGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
24088566 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
24088597 GTAGCAGAAGCTACCACTTTTCACTTATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
24088628 GCAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
24088659 GTAGCCGAAGCTACCACTTTTCACTAATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
24088690 GTAGCCAAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
24088715 TGTCATTTGT
Statistics
Matches: 161, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 161 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:24088791 original size:50 final size:51
Alignment explanation
Indices: 24088690--24088818 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
24088680 CACTAATTAG
* * * * *
24088690 GTAGCCAAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
*
24088741 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
24088791 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
24088819 TTCCATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 47 0.67
51 23 0.33
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
Found at i:24097593 original size:2 final size:2
Alignment explanation
Indices: 24097586--24097623 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
24097576 CATGCAAGGA
24097586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24097624 GCTATAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24098187 original size:2 final size:2
Alignment explanation
Indices: 24098182--24098235 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
24098172 ACATCGTGTG
24098182 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
24098224 TA TA TA TA TA TA
1 TA TA TA TA TA TA
24098236 ACTTTAAAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24100015 original size:17 final size:18
Alignment explanation
Indices: 24099990--24100027 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
24099980 ATTGGTTTGT
24099990 TTTATTTTTTTGTTTTTA
1 TTTATTTTTTTGTTTTTA
24100008 TTTA-TTTTTTGTTTTTA
1 TTTATTTTTTTGTTTTTA
24100025 TTT
1 TTT
24100028 TGGGCTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (18 bp):
TTTATTTTTTTGTTTTTA
Found at i:24100111 original size:33 final size:33
Alignment explanation
Indices: 24100074--24100136 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
24100064 ATTATAATTA
24100074 ATTCATATGATTATATTCAATTAACTCATATTT
1 ATTCATATGATTATATTCAATTAACTCATATTT
24100107 ATTCATATGATTATATTCAATTAACTCATA
1 ATTCATATGATTATATTCAATTAACTCATA
24100137 CACTATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (33 bp):
ATTCATATGATTATATTCAATTAACTCATATTT
Found at i:24100182 original size:12 final size:12
Alignment explanation
Indices: 24100160--24100222 Score: 56
Period size: 12 Copynumber: 5.0 Consensus size: 12
24100150 TTTCCTATTC
*
24100160 ATTCTATTTTCA
1 ATTCTAATTTCA
* *
24100172 CTTCTTATTTCA
1 ATTCTAATTTCA
24100184 ATATCTCAATTTCA
1 AT-TCT-AATTTCA
24100198 ATTC-ATATTTCA
1 ATTCTA-ATTTCA
24100210 ATTCATAATTTCA
1 ATTC-TAATTTCA
24100223 CTTTCTCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
11 1 0.02
12 20 0.49
13 11 0.27
14 9 0.22
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTCTAATTTCA
Found at i:24102074 original size:31 final size:28
Alignment explanation
Indices: 24102033--24102095 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 28
24102023 TGTTTACCTC
* *
24102033 ATAAATATCTTATAATTTAATTAATTATCAA
1 ATAAACATCTT-TAATTTAA-TAATAAT-AA
*
24102064 ATAAACATCTTTTATTTAATAATAATAA
1 ATAAACATCTTTAATTTAATAATAATAA
24102092 ATAA
1 ATAA
24102096 TAAATATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 6 0.21
30 7 0.24
31 10 0.34
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (28 bp):
ATAAACATCTTTAATTTAATAATAATAA
Found at i:24110113 original size:15 final size:15
Alignment explanation
Indices: 24110090--24110122 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24110080 AAATAATTGT
24110090 AAAGGAAAAGAAAAA
1 AAAGGAAAAGAAAAA
*
24110105 AAAGTAAAAGAAAAA
1 AAAGGAAAAGAAAAA
24110120 AAA
1 AAA
24110123 AAGAAGGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAGGAAAAGAAAAA
Found at i:24110117 original size:20 final size:22
Alignment explanation
Indices: 24110088--24110143 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
24110078 GTAAATAATT
*
24110088 GTAAAGGAAAAGAAAAAA-AA-
1 GTAAAAGAAAAGAAAAAAGAAG
24110108 GTAAAAGAAAA-AAAAAAGAAG
1 GTAAAAGAAAAGAAAAAAGAAG
* *
24110129 GTTAAAGAAAGGAAA
1 GTAAAAGAAAAGAAA
24110144 TCATAAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 6 0.20
20 12 0.40
21 9 0.30
22 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (22 bp):
GTAAAAGAAAAGAAAAAAGAAG
Found at i:24110380 original size:25 final size:25
Alignment explanation
Indices: 24110352--24110402 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
24110342 GAGTAACAGA
24110352 AGGAAAAGTAAAGGATAATCAACTT
1 AGGAAAAGTAAAGGATAATCAACTT
24110377 AGGAAAAGTAAAGGATAATCAACTT
1 AGGAAAAGTAAAGGATAATCAACTT
24110402 A
1 A
24110403 CTTTTCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.08, G:0.20, T:0.20
Consensus pattern (25 bp):
AGGAAAAGTAAAGGATAATCAACTT
Found at i:24119637 original size:19 final size:21
Alignment explanation
Indices: 24119613--24119657 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
24119603 ATATTAAAAA
24119613 TTTAATATCTTTT-AA-TAAT
1 TTTAATATCTTTTAAATTAAT
*
24119632 TTTAATATTTTTTAAATTAAT
1 TTTAATATCTTTTAAATTAAT
24119653 TTTAA
1 TTTAA
24119658 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
20 2 0.09
21 9 0.39
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTAATATCTTTTAAATTAAT
Found at i:24120944 original size:39 final size:40
Alignment explanation
Indices: 24120878--24120958 Score: 137
Period size: 39 Copynumber: 2.0 Consensus size: 40
24120868 CCAAATGAAC
* *
24120878 ATAAAAGAAAACTTGAAGCCATGTTTGAAAGCTCAAAACT
1 ATAAAAGAAAACCTGAAGCCATATTTGAAAGCTCAAAACT
24120918 ATAAAAG-AAACCTGAAGCCATATTTGAAAGCTCAAAACT
1 ATAAAAGAAAACCTGAAGCCATATTTGAAAGCTCAAAACT
24120957 AT
1 AT
24120959 TTAGTCCTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 32 0.82
40 7 0.18
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (40 bp):
ATAAAAGAAAACCTGAAGCCATATTTGAAAGCTCAAAACT
Found at i:24121537 original size:7 final size:7
Alignment explanation
Indices: 24121525--24121552 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
24121515 TGAAGATTAG
24121525 GTTGTTT
1 GTTGTTT
24121532 GTTGTTT
1 GTTGTTT
24121539 GTTGTTT
1 GTTGTTT
24121546 GTTGTTT
1 GTTGTTT
24121553 TGACTAGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (7 bp):
GTTGTTT
Found at i:24121567 original size:22 final size:22
Alignment explanation
Indices: 24121542--24121588 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
24121532 GTTGTTTGTT
* *
24121542 GTTTGTTGTTTTGACTAGGTAA
1 GTTTGTTATTTTGACCAGGTAA
24121564 GTTTGTTATTTTGACCAGGTAA
1 GTTTGTTATTTTGACCAGGTAA
24121586 GTT
1 GTT
24121589 CATGTGGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.49
Consensus pattern (22 bp):
GTTTGTTATTTTGACCAGGTAA
Found at i:24132577 original size:40 final size:41
Alignment explanation
Indices: 24132541--24132778 Score: 339
Period size: 40 Copynumber: 6.0 Consensus size: 41
24132531 GGCCCGGTTA
* *
24132541 TAGTAGCTCGTACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGATCTTAGT-CCGGATT
24132581 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGATCTTAGTCCGGATT
24132621 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGATCTTAGTCCGGATT
*
24132661 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCAGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGATCTTAGTCCGGATT
*
24132701 TAGTAACTCGCGCAAATGCCTTC-GGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGATCTTAGTCCGGATT
* * *
24132741 TAGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGATCTTAGTCCGGA
24132779 CATCATTCGA
Statistics
Matches: 185, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
39 3 0.02
40 171 0.92
41 11 0.06
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (41 bp):
TAGTAACTCGCACAAATGCCTTCGGGATCTTAGTCCGGATT
Found at i:24134362 original size:41 final size:41
Alignment explanation
Indices: 24134317--24134434 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
24134307 TGAAAGATAA
24134317 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
24134358 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
24134388 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
24134429 ATGTAG
1 ATGTAG
24134435 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:24134373 original size:71 final size:71
Alignment explanation
Indices: 24134285--24134448 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
24134275 GAGATGTATC
24134285 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
24134350 AGGACA
66 AGGACA
24134356 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
24134421 AGGACA
66 AGGACA
24134427 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
24134449 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:24142465 original size:47 final size:48
Alignment explanation
Indices: 24142355--24142624 Score: 258
Period size: 47 Copynumber: 5.8 Consensus size: 48
24142345 GTTATTGTAG
* *
24142355 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC--CAGATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-GA-GATGAGA
* * * *
24142401 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGTATCGAGATGAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGA
* * * * *
24142449 GCTAGTGTAAGA-CATGTCTGGGAC-TTGCATCGACCTCGTGACGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATG-AGA
* * *
24142495 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATAGGC-TACGAGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGATGAGA
* *
24142541 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-GAGAT-ATGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGA-GA
*
24142588 GCTAGTGTAAGACCGTGTCTGGGACATGGCATCGGCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
24142625 CCTTACCCAC
Statistics
Matches: 184, Mismatches: 28, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 69 0.38
47 82 0.45
48 27 0.15
49 3 0.02
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGA
Found at i:24142610 original size:140 final size:141
Alignment explanation
Indices: 24142358--24142621 Score: 358
Period size: 140 Copynumber: 1.9 Consensus size: 141
24142348 ATTGTAGGCT
*
24142358 AGTGTAAGACATGTCTGGGACATGCATCAGCCAGATTATGAGAGCCAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAGATGATGAGAGCCAATGTAAGACCATGTCTGG
** * *
24142423 GACATGGCATCGGTATCGAGATGAGTGCTAGTGTAAGACATGTCTGGGAC-TTGCATCGACCTCG
66 GACATGGCATCGACATCGAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACCTCG
24142487 TGACGTAAGCC
131 TGACGTAAGCC
* * ** *
24142498 AGTGTAAGACATGTCTGGGACATGCAT-AGGCTACGA-GATGATAGTTAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCA-GCCA-GATGATGAGAGCCAATGTAAGACCATGTCT
*
24142561 GGGACATGGCATCGACAT-GAGAT-ATGAGCTAGTGTAAGACCGTGTCTGGGACATGGCATCG
64 GGGACATGGCATCGACATCGAGATGA-GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCG
24142622 GCACCTTACC
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 79 0.73
141 9 0.08
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCAGATGATGAGAGCCAATGTAAGACCATGTCTGG
GACATGGCATCGACATCGAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACCTCG
TGACGTAAGCC
Found at i:24149839 original size:95 final size:95
Alignment explanation
Indices: 24149676--24149866 Score: 364
Period size: 95 Copynumber: 2.0 Consensus size: 95
24149666 CGATGCTTCC
* *
24149676 TTGAATGGTTTGAGGTGTGTGCTCATGCAAGAAGGCAAGGTTATAGCCTATGCCTCAAGAAAACT
1 TTGAATGGTTTGAGGTGTGTGCTCAAGCAAGAAGGCAAGGTTATAGCCTAAGCCTCAAGAAAACT
24149741 AAAGACACATGAGAGAAATTACTTGACCCA
66 AAAGACACATGAGAGAAATTACTTGACCCA
24149771 TTGAATGGTTTGAGGTGTGTGCTCAAGCAAGAAGGCAAGGTTATAGCCTAAGCCTCAAGAAAACT
1 TTGAATGGTTTGAGGTGTGTGCTCAAGCAAGAAGGCAAGGTTATAGCCTAAGCCTCAAGAAAACT
24149836 AAAGACACATGAGAGAAATTACTTGACCCA
66 AAAGACACATGAGAGAAATTACTTGACCCA
24149866 T
1 T
24149867 GACTTGGAAC
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (95 bp):
TTGAATGGTTTGAGGTGTGTGCTCAAGCAAGAAGGCAAGGTTATAGCCTAAGCCTCAAGAAAACT
AAAGACACATGAGAGAAATTACTTGACCCA
Found at i:24152541 original size:47 final size:44
Alignment explanation
Indices: 24152467--24152558 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 44
24152457 CTGTCCACTC
24152467 GAGTAATGGTCACTTTATTTATATCTTGAGCTACTAAATTCTAA
1 GAGTAATGGTCACTTTATTTATATCTTGAGCTACTAAATTCTAA
24152511 GAGTAATGGTCACTAAATTATTTATATCTTGAGCTACTAAATTCTAA
1 GAGTAATGGTCACT---TTATTTATATCTTGAGCTACTAAATTCTAA
24152558 G
1 G
24152559 TTAAGATCTG
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
44 14 0.31
47 31 0.69
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (44 bp):
GAGTAATGGTCACTTTATTTATATCTTGAGCTACTAAATTCTAA
Found at i:24153576 original size:21 final size:21
Alignment explanation
Indices: 24153547--24153598 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
24153537 TAAAAAAGGT
* *
24153547 TAAACGGAAGCTCATAAGAGC
1 TAAATGGAAGCCCATAAGAGC
* *
24153568 TAAATGGAAACCCATAAGAGT
1 TAAATGGAAGCCCATAAGAGC
24153589 TAAATGGAAG
1 TAAATGGAAG
24153599 TTTAAAAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.46, C:0.13, G:0.23, T:0.17
Consensus pattern (21 bp):
TAAATGGAAGCCCATAAGAGC
Found at i:24153636 original size:21 final size:21
Alignment explanation
Indices: 24153612--24153685 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
24153602 AAAAAAGCTA
*
24153612 AAACTGAAACTCGAAAGGGTT
1 AAACTGAAACTCGTAAGGGTT
* * *
24153633 AAACTGAAGCTCCTAAGAGTT
1 AAACTGAAACTCGTAAGGGTT
* *
24153654 TAACTGAAACCCGTAAGGGTT
1 AAACTGAAACTCGTAAGGGTT
*
24153675 -AACTAAAACTC
1 AAACTGAAACTC
24153686 ATATGAGTTA
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 9 0.21
21 33 0.79
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (21 bp):
AAACTGAAACTCGTAAGGGTT
Found at i:24163781 original size:26 final size:26
Alignment explanation
Indices: 24163752--24163804 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
24163742 TCAAACATGC
*
24163752 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
24163778 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
24163804 A
1 A
24163805 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:24165453 original size:94 final size:93
Alignment explanation
Indices: 24165308--24165529 Score: 258
Period size: 94 Copynumber: 2.4 Consensus size: 93
24165298 TCACTTGTGT
* * *
24165308 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAAGCCAGTGTAATACCATG
1 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATGATGAAAGCCAGTGTAAGA-CATG
*
24165373 TCTGGGACATCGCATCGGCAT-TGAGA-CTA
65 TCTGGGACAT-GCATCGGC-TGTGAGAGATA
* *
24165402 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGTCTCGA-GAT-ACAAGCCAGTGTAAGACAT
1 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATGATGA-AAGCCAGTGTAAGACAT
*
24165465 GTCTGGGACATGCGTCGGCTGTGAGATGATA
64 GTCTGGGACATGCATCGGCTGTGAGA-GATA
*
24165496 GT-C-AATGTAAGACCATGTTTGGGACATGGCATCG
1 GTGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCG
24165530 ACACCTTACC
Statistics
Matches: 113, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
91 1 0.01
92 20 0.18
93 30 0.27
94 61 0.54
95 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (93 bp):
GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATGATGAAAGCCAGTGTAAGACATGT
CTGGGACATGCATCGGCTGTGAGAGATA
Found at i:24165458 original size:46 final size:45
Alignment explanation
Indices: 24165313--24165529 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 45
24165303 TGTGTGTGCT
* *
24165313 AGTGTAAGACATGTCTGGGACATGCATCGGC-CACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTC-GA-GATGAAAGCC
* * ** *
24165359 AGTGTAATACCATGTCTGGGACATCGCATCGGCATTGAGACT-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGA-TGAAAGCC
*
24165407 AGTGTAAGACATGTTTGGGACATGCATCGGTCTCGAGAT-ACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGATGA-AAGCC
* * * *
24165453 AGTGTAAGACATGTCTGGGACATGCGTCGGCTGTGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGATGAAAGCC
* *
24165499 AATGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
24165530 ACACCTTACC
Statistics
Matches: 139, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
45 4 0.03
46 66 0.47
47 42 0.30
48 25 0.18
49 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGAAAGCC
Found at i:24166542 original size:85 final size:84
Alignment explanation
Indices: 24166398--24166590 Score: 314
Period size: 85 Copynumber: 2.3 Consensus size: 84
24166388 TGTGTGAAGG
* *
24166398 ACACGGCCTAGGACACAGGCGTGTGCCTTGGCCGTGTGACATATTGAGGATGCTAACGTCAGAAA
1 ACACGGGCTAGGACACGGGCGTGTGCCTTGGCCGTGTGACATATTGAGGATGCTAACGTCAGAAA
* *
24166463 CAGAATGTCTATGTCTTTGC
66 -AAAATGTCCATGTCTTTGC
* *
24166483 ACACGGGCTAGGACATGGGCGTGTGCCTTGGCCGTGTGACATATTGAGGATGCTGACGTCAGAAA
1 ACACGGGCTAGGACACGGGCGTGTGCCTTGGCCGTGTGACATATTGAGGATGCTAACGTCAGAAA
24166548 AAAATGTCCATGTCTTTGC
66 AAAATGTCCATGTCTTTGC
*
24166567 ACACGTGCTAGGACACGGGCGTGT
1 ACACGGGCTAGGACACGGGCGTGT
24166591 CATGGTCGTG
Statistics
Matches: 100, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 39 0.39
85 61 0.61
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (84 bp):
ACACGGGCTAGGACACGGGCGTGTGCCTTGGCCGTGTGACATATTGAGGATGCTAACGTCAGAAA
AAAATGTCCATGTCTTTGC
Found at i:24186400 original size:43 final size:43
Alignment explanation
Indices: 24186280--24186436 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
24186270 TGTGTTTTCG
* * * **
24186280 TGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTATG
1 TGTAAGACCACGTCTGGGATGTTGGCATC-AATATTTGA-TTACA
* * * * * * *
24186324 TGTAAGACCATGTTTGGGATATCGACA-CCATATTTGATTTCA
1 TGTAAGACCACGTCTGGGATGTTGGCATCAATATTTGATTACA
24186366 TGTAAGACC-CTGTCTGGGATAG-TGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAT-GTTGGCATCAATATTTGATTACA
24186409 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
24186437 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
42 24 0.27
43 42 0.48
44 22 0.25
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCAATATTTGATTACA
Found at i:24200432 original size:19 final size:19
Alignment explanation
Indices: 24200408--24200447 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
24200398 AAAATATCAT
*
24200408 ATTAATTTTAA-TTTATTTG
1 ATTAA-TTTAACTTTACTTG
24200427 ATTAATTTAACTTTACTTG
1 ATTAATTTAACTTTACTTG
24200446 AT
1 AT
24200448 AAAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTAATTTAACTTTACTTG
Found at i:24206433 original size:21 final size:21
Alignment explanation
Indices: 24206407--24206449 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
24206397 TGAGTAAGCT
24206407 TCAAGGAGCTTAGTAAGTTCA
1 TCAAGGAGCTTAGTAAGTTCA
24206428 TCAAGGAGCTTAGTAAGTTCA
1 TCAAGGAGCTTAGTAAGTTCA
24206449 T
1 T
24206450 AAACGGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (21 bp):
TCAAGGAGCTTAGTAAGTTCA
Found at i:24210126 original size:28 final size:28
Alignment explanation
Indices: 24210094--24210192 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
24210084 GCAATAAGCC
*
24210094 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
24210122 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
24210150 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
24210179 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24210193 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:24217807 original size:28 final size:28
Alignment explanation
Indices: 24217775--24217873 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
24217765 GCAATAAGCC
*
24217775 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
24217803 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
24217831 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
24217860 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24217874 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:24220633 original size:18 final size:17
Alignment explanation
Indices: 24220610--24220647 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
24220600 TTAATGTTTA
24220610 TATAATTAAAATGAATAT
1 TATAATTAAAATGAAT-T
24220628 TATAATTAAAATGAATT
1 TATAATTAAAATGAATT
24220645 TAT
1 TAT
24220648 TTTAAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
TATAATTAAAATGAATT
Found at i:24221087 original size:19 final size:19
Alignment explanation
Indices: 24221063--24221104 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
24221053 CAATTGAGGG
24221063 TAATTAGCAACTTAATCGA
1 TAATTAGCAACTTAATCGA
** *
24221082 TAATTAGTGATTTAATCGA
1 TAATTAGCAACTTAATCGA
24221101 TAAT
1 TAAT
24221105 AGGTCGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (19 bp):
TAATTAGCAACTTAATCGA
Found at i:24221595 original size:26 final size:26
Alignment explanation
Indices: 24221552--24221601 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
24221542 TAGTGTGCTA
*
24221552 ATTTTTATTTTTCATTATTTTTAGTT
1 ATTTTTATTTTTCATTATATTTAGTT
*
24221578 ATTTTTATTTTAT-TTTATATTTAG
1 ATTTTTATTTT-TCATTATATTTAG
24221602 CTACCTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (26 bp):
ATTTTTATTTTTCATTATATTTAGTT
Found at i:24221630 original size:12 final size:12
Alignment explanation
Indices: 24221613--24221637 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24221603 TACCTTGTTG
24221613 ACTGATTAATTT
1 ACTGATTAATTT
24221625 ACTGATTAATTT
1 ACTGATTAATTT
24221637 A
1 A
24221638 ATCATGGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (12 bp):
ACTGATTAATTT
Found at i:24230945 original size:39 final size:40
Alignment explanation
Indices: 24230884--24231027 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 40
24230874 TCGAATGATA
*
24230884 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
24230924 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
24230962 TCTGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
24231001 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
24231028 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
38 24 0.27
39 20 0.23
40 44 0.50
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:24239075 original size:40 final size:40
Alignment explanation
Indices: 24238978--24239107 Score: 178
Period size: 40 Copynumber: 3.3 Consensus size: 40
24238968 GGACTAAGAT
* *
24238978 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAG--
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
* *
24239016 CCGAAGGCA-TTGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
*
24239055 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTC
24239095 CCGAAGGCATTTG
1 CCGAAGGCATTTG
24239108 AACGAGTAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
37 24 0.30
38 9 0.11
39 9 0.11
40 37 0.46
41 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
Found at i:24240731 original size:43 final size:42
Alignment explanation
Indices: 24240620--24240769 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 42
24240610 AATGCCGACA
* * *
24240620 TCCCAGACGTGGTCTTACATGT-AATCAAATATTGATGCCACTG
1 TCCCAGACGTGGTCTTACACGTAAATCAAATA-CGATGCAAC-G
24240663 TCCCAGACAG-GGTCTTACACG-AAATCAAATACGATGCTAACG
1 TCCCAGAC-GTGGTCTTACACGTAAATCAAATACGATGC-AACG
* *
24240705 TCCCAGATGTGGTCTTACACGTAAATCATAAGT-CGATGCCAATG
1 TCCCAGACGTGGTCTTACACGTAAATCA-AA-TACGATG-CAACG
*
24240749 TCCTAGACGTGGTCTTACACG
1 TCCCAGACGTGGTCTTACACG
24240770 ATAACACATA
Statistics
Matches: 92, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
41 1 0.01
42 24 0.26
43 35 0.38
44 30 0.33
45 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACACGTAAATCAAATACGATGCAACG
Found at i:24240761 original size:44 final size:42
Alignment explanation
Indices: 24240620--24240769 Score: 162
Period size: 44 Copynumber: 3.5 Consensus size: 42
24240610 AATGCCGACA
* * *
24240620 TCCCAGACGTGGTCTTACATGT-AATCAAATATTGATGCCACTG
1 TCCCAGACGTGGTCTTACACGTAAATC-AA-ATCGATGCCAATG
* *
24240663 TCCCAGACAG-GGTCTTACACG-AAATCAAATACGATGCTAACG
1 TCCCAGAC-GTGGTCTTACACGTAAATCAAAT-CGATGCCAATG
*
24240705 TCCCAGATGTGGTCTTACACGTAAATCATAAGTCGATGCCAATG
1 TCCCAGACGTGGTCTTACACGTAAATCA-AA-TCGATGCCAATG
*
24240749 TCCTAGACGTGGTCTTACACG
1 TCCCAGACGTGGTCTTACACG
24240770 ATAACACATA
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
41 3 0.03
42 27 0.30
43 28 0.31
44 31 0.34
45 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACACGTAAATCAAATCGATGCCAATG
Found at i:24244071 original size:6 final size:6
Alignment explanation
Indices: 24244061--24244102 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
24244051 TTTTCATTTA
* * *
24244061 TTTAAT CTTAAT TTTAAT TTTAA- TTTCAT TTTATT TTTAAT T
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT T
24244103 AGTTGTCAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTAAT
Found at i:24244091 original size:17 final size:17
Alignment explanation
Indices: 24244061--24244102 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
24244051 TTTTCATTTA
24244061 TTTAATCTTAATTTTAAT
1 TTTAAT-TTAATTTTAAT
* *
24244079 TTTAATTTCATTTTATT
1 TTTAATTTAATTTTAAT
24244096 TTTAATT
1 TTTAATT
24244103 AGTTGTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTAATTTAATTTTAAT
Found at i:24246067 original size:101 final size:101
Alignment explanation
Indices: 24245912--24246385 Score: 547
Period size: 101 Copynumber: 4.7 Consensus size: 101
24245902 ATTGGTATAC
*
24245912 AAAATACGAGTTTTAAAAAAAAATTTGGGTGCTGGTCTGTCAATGGCCGGCACCAAGTACAAAAA
1 AAAATACGAGTTTTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTAC-AAAA
24245977 AAAAATTC-AAATTTTTTT-AAAAAAA-TTTCTCTCCG
65 AAAAA-TCAAAATTTTTTTAAAAAAAATTTTCTCTCCG
* * * * *
24246012 AAAATACGAGTTTTAAAAAAAAATTTGGGGTGTTTGTCTGTCAATGGCCGACACCAAGT-CCAAA
1 AAAATACGAGTTTTAAAAAAAAATTT-GGGTGCTGGCCTGTCAATGGCCGGCACCAAGTACAAAA
*
24246076 AAAAATCAAAATTTTTTTTAAAAAAAATTTTCTCTCCA
65 AAAAATCAAAA-TTTTTTTAAAAAAAATTTTCTCTCCG
* *
24246114 AAAATACGAGTTTTAAAAAAAAATTTGGGTGTTGGCCTGTCAATGGCCGGCACCAAGTACCAAAA
1 AAAATACGAGTTTTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTACAAAAA
* * *
24246179 AAATTC-AAATTTTTTTAAAAGAAAAAATTTTGCTATCAG
66 AAAATCAAAATTTTTTT--AA-AAAAAATTTT-CTCTCCG
* *
24246218 AAAATATGAGTTTT-AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCAAGTACAAAAA
1 AAAATACGAGTTTTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTAC-AAAA
* * * *
24246282 AAAAATCAAAA-ATTTTAAAAAAAAAATTTCTGTCCG
65 AAAAATCAAAATTTTTTTAAAAAAAATTTTCTCTCCG
* ** * * *
24246318 AAAATATGAGTTTTTTAAAAAAAAA-TT--G-AATGGCTTATCAATGACCGGCACCAAGTACTAA
1 AAAATACGAG--TTTTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTAC-AA
24246379 AAAAAAA
63 AAAAAAA
24246386 AATTCAAATT
Statistics
Matches: 330, Mismatches: 29, Indels: 31
0.85 0.07 0.08
Matches are distributed among these distances:
98 2 0.01
99 44 0.13
100 57 0.17
101 77 0.23
102 56 0.17
103 61 0.18
104 30 0.09
105 3 0.01
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (101 bp):
AAAATACGAGTTTTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTACAAAAA
AAAATCAAAATTTTTTTAAAAAAAATTTTCTCTCCG
Found at i:24246593 original size:85 final size:85
Alignment explanation
Indices: 24246501--24246670 Score: 252
Period size: 85 Copynumber: 2.0 Consensus size: 85
24246491 AATTTTTTTG
* * * *
24246501 GTGCTGGCCTGTAAATGGCCGACACCAATACGAGTTTTTTTTAAAAAAATTGATTTCCGAAAATA
1 GTGCTGGCCTGTAAATGGCCGACACCAATACGAG-TTTTTTAAAAAAAATTAATGTCCAAAAATA
*
24246566 TGAG-TTTTAAAAAAAAATTT
65 CGAGTTTTTAAAAAAAAATTT
* *
24246586 GTGCTGGCCTGTCAATGGCCGGCACCAATACGAGTTTTTTAAAAAAAATTAATGTCCAAAAATAC
1 GTGCTGGCCTGTAAATGGCCGACACCAATACGAGTTTTTTAAAAAAAATTAATGTCCAAAAATAC
24246651 GAGTTTTTTAAAAAAAAATT
66 GAG-TTTTTAAAAAAAAATT
24246671 AATGTTCACC
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
84 29 0.38
85 32 0.42
86 15 0.20
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (85 bp):
GTGCTGGCCTGTAAATGGCCGACACCAATACGAGTTTTTTAAAAAAAATTAATGTCCAAAAATAC
GAGTTTTTAAAAAAAAATTT
Found at i:24247104 original size:95 final size:95
Alignment explanation
Indices: 24246997--24247486 Score: 254
Period size: 109 Copynumber: 4.7 Consensus size: 95
24246987 TAAATTTTGA
* * * *
24246997 TTTTTTTTGTACTTGGTGTCAGCCATTGACAGGTCAGGA-CC-TAAATTTTTTTTTAAAAGAACT
1 TTTTTTTTGTACTTGGTGTCAGCAATTGACAGGCCAGCACCCAAAAATTTTTTTTT-AAA-AACT
**
24247060 CGTATTTTTGGACAGCAAAATTTTTTTTTTAT
64 CGTATTTTCAGACAGCAAAATTTTTTTTTTAT
** *
24247092 TTTTTTTTGTACTTGGTGTTGGCAATTGACAGGCCAGCACCCAAAAAAATTTTTTTTTTAAAACT
1 TTTTTTTTGTACTTGGTGTCAGCAATTGACAGGCCAGCACCC--AAAAATTTTTTTTTAAAAACT
24247157 CGTATTTTCAGACAGCAAAATTTTTTTTTTTAAAATTTGAAT
64 CGTATTTTCAGACAGCAAAA----TTTTTTT----TTT--AT
* * * ***
24247199 TTCTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAAAACTTTTTT-AAAA
1 TT-TTTTTTGTACTTGGTGTCAGCAATTGACAGGCCAGCACCC---AAAAATTTTTTTTTAAAAA
* *
24247263 CTCGTATTTTCGGAGAGCAAAAATTTTTTTTAAAAAATTTTGAATT
62 CTCGTATTTTCAGACAGC-AAAA--TTTTTT------TTTT--A-T
* * * * * *
24247309 TTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCATCACTCAAAAAACTTTTTTTTTTAAAACT
1 TTTTTTTTGTACTTGGTGTCAGCAATTGACAGGCCAGCAC-CCAAAAA-TTTTTTTTTAAAAACT
* **
24247374 CGTATTTTTGGAGAGCAAAAAAATTTTTTTTTAAATATTTAATTT
64 CGTA-TTTT-CAGA-CAGCAAAA---TTTTTT---T-TTT-A--T
* * * **
24247419 TTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA--AATTTTT-AAAACTCG
1 TTTTTTTTGTACTTGGTGTCAGCAATTGACAGGCCAGCACCCAAAAATTTTTTTTTAAAAACTCG
24247481 TATTTT
66 TATTTT
24247487 GTATACCAAT
Statistics
Matches: 331, Mismatches: 31, Indels: 57
0.79 0.07 0.14
Matches are distributed among these distances:
95 34 0.10
96 2 0.01
97 22 0.07
98 2 0.01
99 12 0.04
101 7 0.02
104 4 0.01
105 13 0.04
106 5 0.02
107 17 0.05
108 63 0.19
109 82 0.25
110 52 0.16
111 6 0.02
112 9 0.03
113 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (95 bp):
TTTTTTTTGTACTTGGTGTCAGCAATTGACAGGCCAGCACCCAAAAATTTTTTTTTAAAAACTCG
TATTTTCAGACAGCAAAATTTTTTTTTTAT
Found at i:24247228 original size:108 final size:108
Alignment explanation
Indices: 24247091--24247472 Score: 559
Period size: 108 Copynumber: 3.5 Consensus size: 108
24247081 TTTTTTTTTA
** *
24247091 TTTTTTTTTGTACTTGGTGTTGGCAATTGACAGGCCAGCACCCAAAAAAATTTTTTTTTTAAAAC
1 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTTTAAAAC
* * *
24247156 TCGTATTTTCAGACAGCAAAATTTTTTTTTTTAAAATTTGAAT
66 TCGTATTTTCGGAGAGCAAAAATTTTTTTTTTAAAATTTGAAT
* ****
24247199 TTCTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAAAACTTTTTTAAAAC
1 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTTTAAAAC
**
24247264 TCGTATTTTCGGAGAGCAAAAATTTTTTTTAAAAAATTTTGAAT
66 TCGTATTTTCGGAGAGCAAAAATTTTTTTTTTAAAA-TTTGAAT
* * *
24247308 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCATCACTCAAAAAACTTTTTTTTTTAAAAC
1 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTTTAAAAC
* *
24247373 TCGTATTTTTGGAGAGCAAAAAAATTTTTTTTTAAATATTT-AATT
66 TCGTATTTTCGGAGAGC-AAAAATTTTTTTTTTAAA-ATTTGAA-T
24247418 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTT
1 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTT
24247473 AAAACTCGTA
Statistics
Matches: 242, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
108 88 0.36
109 82 0.34
110 71 0.29
111 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (108 bp):
TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTTTAAAAC
TCGTATTTTCGGAGAGCAAAAATTTTTTTTTTAAAATTTGAAT
Found at i:24247520 original size:110 final size:103
Alignment explanation
Indices: 24247091--24247487 Score: 422
Period size: 109 Copynumber: 3.7 Consensus size: 103
24247081 TTTTTTTTTA
** *
24247091 TTTTTTTTTGTACTTGGTGTTGGCAATTGACAGGCCAGCACCCAAAAAAATTTTTTTTTTAAAAC
1 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAA-----TTTTTAAAAC
* * ** ***
24247156 TCGTATTTTCAGACAGCAAAATTTTTTTTTTTAAA-ATTTGAAT
61 TCGTATTTT-GGAGAGCAAAAAATTTTTTAAAAAATATTTGAAT
*
24247199 TTCTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAAAACTTTTTTAAAAC
1 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCC---AAAAAAA--TTTTTAAAAC
*
24247264 TCGTATTTTCGGAGAGCAAAAATTTTTTTTAAAAAAT-TTTGAAT
61 TCGTATTTT-GGAGAGCAAAAA-ATTTTTTAAAAAATATTTGAAT
* * *
24247308 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCATCACTCAAAAAACTTTTTTTTTTAAAAC
1 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA-----ATTTTTAAAAC
***
24247373 TCGTATTTTTGGAGAGCAAAAAAATTTTTTTTTAAATATTT-AATT
61 TCGTA-TTTTGGAGAGC-AAAAAATTTTTTAAAAAATATTTGAA-T
24247418 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTAAAACTCGTA
1 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTAAAACTCGTA
24247483 TTTTG
66 TTTTG
24247488 TATACCAATA
Statistics
Matches: 253, Mismatches: 22, Indels: 32
0.82 0.07 0.10
Matches are distributed among these distances:
104 5 0.02
105 15 0.06
106 6 0.02
108 69 0.27
109 91 0.36
110 60 0.24
111 7 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (103 bp):
TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTAAAACTCGTA
TTTTGGAGAGCAAAAAATTTTTTAAAAAATATTTGAAT
Found at i:24249819 original size:474 final size:474
Alignment explanation
Indices: 24248925--24249870 Score: 1387
Period size: 474 Copynumber: 2.0 Consensus size: 474
24248915 TCCCCGTTAT
*
24248925 AACCTTTATTAAGACCTATTGATTTAAACCACTAAGCTAACTACATTAATGGAAAGTGAAGTATT
1 AACCTTTATTAAGACCTATTGATTTAAACCACTAAGCTAACTACATTAATGGAAAGGGAAGTATT
* * *
24248990 GAATTCAACATATGAAGAAATTTGTTAAATCTGATGAATGATGCTTAGTTAAATTAAAGAAATTA
66 GAATTCAACATATGAAGAAATGTGTTAAATCTGAGGAATAATGCTTAGTTAAATTAAAGAAATTA
* *
24249055 ATCTTTTATGGAATTGAACTTACTCTACTCTTAAAATTAGTTGTTCAATTCATGATTTGTTAGCA
131 ATCTTTTATGGAATTGAACTTACTCTACTCTTAAAACTAGCTGTTCAATTCATGATTTGTTAGCA
* *
24249120 TTTAGAAACTTGAATAGATATTGGATGATATGCTGGATATGAACTACATATTTGAAAAAAATAAT
196 TTTAGAAACTTGAATAAATATTGAATGATATGCTGGATATGAACTACATATTTG-AAAAAATAAT
** * *
24249185 TTGAGAGTATAATTTTTTGTTTTTCCATGACCGCTTGAATGAATAAAGTTCTACATTACATCATG
260 TTGAGAGTATAATTTTTTGTTTTTCCATGACCGCGCGAATGAATAAAATTCTACATTACAACATG
* *
24249250 TTTTTAGCATTACTTAGGACGAGTAATGATTTAAGTTTAGAGGTGTGCAAACTCTAAAATATATA
325 TTTTTAGCATTACTCAGGACGAGCAATGATTTAAGTTTAGAGGTGTGCAAACTCTAAAATATATA
* * * * * *
24249315 GATATTTTAGCACTCTTTTATGTGCAATTTATGCATATTTCGAGTAAATAAATAACACTTTCTGG
390 GATATTTCAACACTCTTTTATGTACAATTTATGCAGATTACGAGTAAATAAATAACACTTTCTAG
*
24249380 GTTTTTTCACTTAATTTACA
455 ATTTTTTCACTTAATTTACA
* ** * * *
24249400 AACC-TTATTAAGACTTATTGATTTAAACTGCTAAGCTAACTACATTAGTGGAGAGGGAAGTCTT
1 AACCTTTATTAAGACCTATTGATTTAAACCACTAAGCTAACTACATTAATGGAAAGGGAAGTATT
* **
24249464 GAATTCAACATATGAAGACATGTGTTAAAT-TCGAGGAATAATGCTTAGTTAAATTAGGGAAAAT
66 GAATTCAACATATGAAGAAATGTGTTAAATCT-GAGGAATAATGCTTAGTTAAATTAAAG-AAAT
*
24249528 TAATCTTTTATGGAATTGAACTTACTTTACTCTTAAAACTAGCTGTTCAATTCATGATTTGTTAG
129 TAATCTTTTATGGAATTGAACTTACTCTACTCTTAAAACTAGCTGTTCAATTCATGATTTGTTAG
* * * * * *
24249593 CATTTATACACTTGAATAAATATTGAATGATATGTTGTATATGAACTACATATTTG-TAGAATCA
194 CATTTAGAAACTTGAATAAATATTGAATGATATGCTGGATATGAACTACATATTTGAAAAAAT-A
* * * * *
24249657 ATTTGATAGTATAATTTTTTGTTTTTCCATGACTGCGCGGATGTATAAAATTCTACATTATAACA
258 ATTTGAGAGTATAATTTTTTGTTTTTCCATGACCGCGCGAATGAATAAAATTCTACATTACAACA
* * *
24249722 TGTTTTTAGCATTGCTCGGGATGAGCAATGATTTAAGTTTACG-GGTGTGCAAACTCTAAAATAT
323 TGTTTTTAGCATTACTCAGGACGAGCAATGATTTAAGTTTA-GAGGTGTGCAAACTCTAAAATAT
* *
24249786 ATAGATATTTCAACACTCTTTTATGTACAATTTATGTAGATTACGAGTAAATAAATAATACTTTC
387 ATAGATATTTCAACACTCTTTTATGTACAATTTATGCAGATTACGAGTAAATAAATAACACTTTC
*
24249851 TATATTTTTTCACTTAATTT
452 TAGATTTTTTCACTTAATTT
24249871 CATGATATTT
Statistics
Matches: 419, Mismatches: 48, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
473 5 0.01
474 293 0.70
475 121 0.29
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.39
Consensus pattern (474 bp):
AACCTTTATTAAGACCTATTGATTTAAACCACTAAGCTAACTACATTAATGGAAAGGGAAGTATT
GAATTCAACATATGAAGAAATGTGTTAAATCTGAGGAATAATGCTTAGTTAAATTAAAGAAATTA
ATCTTTTATGGAATTGAACTTACTCTACTCTTAAAACTAGCTGTTCAATTCATGATTTGTTAGCA
TTTAGAAACTTGAATAAATATTGAATGATATGCTGGATATGAACTACATATTTGAAAAAATAATT
TGAGAGTATAATTTTTTGTTTTTCCATGACCGCGCGAATGAATAAAATTCTACATTACAACATGT
TTTTAGCATTACTCAGGACGAGCAATGATTTAAGTTTAGAGGTGTGCAAACTCTAAAATATATAG
ATATTTCAACACTCTTTTATGTACAATTTATGCAGATTACGAGTAAATAAATAACACTTTCTAGA
TTTTTTCACTTAATTTACA
Found at i:24250501 original size:82 final size:80
Alignment explanation
Indices: 24250353--24250506 Score: 182
Period size: 82 Copynumber: 1.9 Consensus size: 80
24250343 ACATGGAGAA
* * ** * *
24250353 AAATAAGCTAACTCCCTTGCTAAATTTAGCAAGTCAACAACCACCCCTCCACCATAAAAGTAATG
1 AAATAAGCTAACTCCCTTACTAAAATTAGCAAGGAAAAAACCACCCCTCCACCATAAAAGGAATG
24250418 ACATCAAGGGGAGAGT
66 ACA-CAAGGGGAGAGT
* * ** * *
24250434 AAATCAAGCTAACTTCCTTACTAAAATTAGCAAGGAAAAAACCACTCCTCCACTGTATAAGGGAT
1 AAAT-AAGCTAACTCCCTTACTAAAATTAGCAAGGAAAAAACCACCCCTCCACCATAAAAGGAAT
24250499 GACACAAG
65 GACACAAG
24250507 TAGAGGACAT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 8 0.13
82 52 0.87
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (80 bp):
AAATAAGCTAACTCCCTTACTAAAATTAGCAAGGAAAAAACCACCCCTCCACCATAAAAGGAATG
ACACAAGGGGAGAGT
Found at i:24251818 original size:14 final size:14
Alignment explanation
Indices: 24251799--24251831 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24251789 CAATTTGGAT
*
24251799 TATTTTTATTTTTA
1 TATTTTTATTATTA
24251813 TATTTTTATTATTA
1 TATTTTTATTATTA
24251827 -ATTTT
1 TATTTT
24251832 AACTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTTTTATTATTA
Found at i:24252337 original size:25 final size:25
Alignment explanation
Indices: 24252309--24252360 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
24252299 TTTAAGGTTG
*
24252309 GTTTGATTTCGAGGTTAAATGGCTA
1 GTTTGATTTCAAGGTTAAATGGCTA
24252334 GTTTGATTTCAAGGTTAAATGGCTA
1 GTTTGATTTCAAGGTTAAATGGCTA
24252359 GT
1 GT
24252361 AATATGGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (25 bp):
GTTTGATTTCAAGGTTAAATGGCTA
Found at i:24256770 original size:24 final size:24
Alignment explanation
Indices: 24256743--24256792 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
24256733 TTTATCACAA
*
24256743 TTCGTTGTAATAGATTAAACTAGT
1 TTCGTTATAATAGATTAAACTAGT
*
24256767 TTCGTTATAGTAGATTAAACTAGT
1 TTCGTTATAATAGATTAAACTAGT
24256791 TT
1 TT
24256793 TCTTACTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (24 bp):
TTCGTTATAATAGATTAAACTAGT
Found at i:24261682 original size:53 final size:54
Alignment explanation
Indices: 24261610--24261734 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
24261600 ACAAGCCTTG
* * * * *
24261610 AAAA-AATTATATGTATGGCTAAC-TTGGAAGATTGGTA-AGTATGGAAAAC-CAT
1 AAAAGAATGATATGTGTGGCTAACTTTGAAACACTGGTAGA-TATGGAAAACTC-T
*
24261662 AAAAGAATGATATGTGTGGCTAACTTTGAAACACTGGTAGATATGGTAAACTCT
1 AAAAGAATGATATGTGTGGCTAACTTTGAAACACTGGTAGATATGGAAAACTCT
*
24261716 AAGAGAATGATATGTGTGG
1 AAAAGAATGATATGTGTGG
24261735 TAAACTCTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
52 4 0.06
53 17 0.27
54 39 0.63
55 2 0.03
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AAAAGAATGATATGTGTGGCTAACTTTGAAACACTGGTAGATATGGAAAACTCT
Found at i:24261735 original size:27 final size:28
Alignment explanation
Indices: 24261703--24261778 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
24261693 CACTGGTAGA
* *
24261703 TATGGTAAACTCTAAGAGAATGA-TATG
1 TATGGTAAACTCTAAAAGAATGAGTACG
*
24261730 TGTGGTAAACTCTAAAAGAAT-AGTACG
1 TATGGTAAACTCTAAAAGAATGAGTACG
*
24261757 TATGGTGAACTCTAAAAGAATG
1 TATGGTAAACTCTAAAAGAATG
24261779 GTTCCTTAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 41 0.98
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (28 bp):
TATGGTAAACTCTAAAAGAATGAGTACG
Found at i:24263893 original size:50 final size:49
Alignment explanation
Indices: 24263768--24264088 Score: 167
Period size: 46 Copynumber: 6.8 Consensus size: 49
24263758 TGGGGTAAGT
* * *
24263768 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCTTCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATATTCGA
* * * ** *
24263817 GGCCAATTCCATGTCCCAGATTTGGTCTTACACTAGCTCTGGCATA-TCTG-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT--CATATTC-GA
* * *
24263867 TGCCGATGCCATGTCCCAGGCATGGTCTTACA-TTGAC-A-CAT-CTCG-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCATATTCGA
* * * * ** *
24263912 TAGTCGATG-CATGTCCCACACAT-GTCTTACACTGGCT-TACGT-CCCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CATATTCGA
* * * * * *
24263959 GGCCGATG-CATGTCCCAGACAT-GTCTTACATTGGC-A-CTTGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAT-TCGA
* * * *
24264005 TGCCGATGCCATGTCCCAGACATGGTATTACACTGGCTCTCATAAT-G-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATATTCGA
*
24264052 TGGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
24264089 CACATAAGTG
Statistics
Matches: 211, Mismatches: 42, Indels: 41
0.72 0.14 0.14
Matches are distributed among these distances:
44 11 0.05
45 16 0.08
46 68 0.32
47 29 0.14
48 17 0.08
49 35 0.17
50 31 0.15
51 4 0.02
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATATTCGA
Found at i:24263966 original size:46 final size:45
Alignment explanation
Indices: 24263916--24264084 Score: 173
Period size: 46 Copynumber: 3.6 Consensus size: 45
24263906 ATCTCGTAGT
* *
24263916 CGATGCATGTCCCACACATGTCTTACACTGGCTTACGTCCCAAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-TACGTCACAAGGC
* * *
24263962 CGATGCATGTCCCAGACATGTCTTACATTGGC-ACTTGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTAC--GTCACAAGGC
* *
24264008 CGATGCCATGTCCCAGACATGGTATTACACTGGCT-C-TCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTACGTCACAA---GGC
*
24264056 TGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
24264085 AGCTCACATA
Statistics
Matches: 104, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
44 2 0.02
45 4 0.04
46 52 0.50
47 28 0.27
48 18 0.17
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTACGTCACAAGGC
Found at i:24264036 original size:94 final size:88
Alignment explanation
Indices: 24263868--24264082 Score: 218
Period size: 94 Copynumber: 2.3 Consensus size: 88
24263858 GCATATCTGT
* * *
24263868 GCCGATGCCATGTCCCAGGCATGGTCTTACATTGACACATCTCGTAGTCGATGCATGTCCCACAC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGACACATCTCATAGCCGATGCATGTCCCACAC
* *
24263933 ATGTCTTACACTGGCTTACGTCCCAA-G
64 ATGTATTACACTGGC-T-C-TCACAATG
* * *
24263960 GCCGATGCATGTCCCAGACATGTCTTACATTGGCACTTGTCTCA-ATGCCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACATTGACAC--ATCTCATA-GCCGATG-CATGTCCCAC
*
24264024 ACATGGTATTACACTGGCTCTCATAATGTG
62 ACAT-GTATTACACTGGCTCTCACAA--TG
*
24264054 GCTGATGCATGTCCCAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
24264083 CTAGCTCACA
Statistics
Matches: 105, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
90 14 0.13
91 18 0.17
92 18 0.17
93 14 0.13
94 41 0.39
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (88 bp):
GCCGATGCATGTCCCAGACATGTCTTACATTGACACATCTCATAGCCGATGCATGTCCCACACAT
GTATTACACTGGCTCTCACAATG
Found at i:24267771 original size:119 final size:119
Alignment explanation
Indices: 24267614--24267840 Score: 328
Period size: 119 Copynumber: 1.9 Consensus size: 119
24267604 GAACTTTTCT
* **
24267614 TTTAGTTTTTAGTTCCTTTTGTACTTAGGATTTCTTTTTAGTTCTATTTTCATTCGTGTTCTTCG
1 TTTAGTTTTTAGTTCCTTTTATACTTACAATTTCTTTTTAGTTCTATTTTCATTCGTGTTCTTCG
*
24267679 GGGAATCTAACTTGTGGATTCAACAAACTCTTTGTGGATTTCTACATTTTTGGA
66 GGGAATCTAACTTGTAGATTCAACAAACTCTTTGTGGATTTCTACATTTTTGGA
** * * * *
24267733 TTTAGTTTTTAGTTTGTTTTATGCTTACAATTTTTTTTTAGTTTTATTTTCATTCGTGTTCTTTG
1 TTTAGTTTTTAGTTCCTTTTATACTTACAATTTCTTTTTAGTTCTATTTTCATTCGTGTTCTTCG
* * * *
24267798 GGGAATCTGACTTGTAGATTCAGCAAGCTCTTTGTTGATTTCT
66 GGGAATCTAACTTGTAGATTCAACAAACTCTTTGTGGATTTCT
24267841 GCACTTCAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
119 94 1.00
ACGTcount: A:0.18, C:0.13, G:0.17, T:0.53
Consensus pattern (119 bp):
TTTAGTTTTTAGTTCCTTTTATACTTACAATTTCTTTTTAGTTCTATTTTCATTCGTGTTCTTCG
GGGAATCTAACTTGTAGATTCAACAAACTCTTTGTGGATTTCTACATTTTTGGA
Found at i:24278198 original size:19 final size:20
Alignment explanation
Indices: 24278168--24278212 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
24278158 CAGAAAATAA
24278168 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
*
24278188 TTTCT-AAAAATTATTTACT
1 TTTCTGAAAAATGATTTACT
24278207 TTTCTG
1 TTTCTG
24278213 GTGTTTAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:24281455 original size:95 final size:96
Alignment explanation
Indices: 24281232--24281520 Score: 445
Period size: 96 Copynumber: 3.0 Consensus size: 96
24281222 TCGCTTCTTT
* * * * *
24281232 TTGCTTCTCTTAGCCCTATTGGCTTCGGCTTTACCCTTGCTCGAACCAAGTTTCTTGGGCTCCTT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCTT
24281297 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
66 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
*
24281328 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTTCCTTGCTCGAACCAAGCTTCTTGGGCTCCTT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCTT
24281393 GTCTGCTCCATCGTT-CCTTCGATGACAGAC
66 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
* * *
24281423 TTGCTCCTCTTTGCCCTCTTGGCTTCGACTTTTCCCTTGCTCGAACCAAGCTTCTTGGACTCCGT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCTT
* * * * *
24281488 ATCTGCTCGATCATTCCCATCGATAACAGAC
66 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
24281519 TT
1 TT
24281521 CCTCGGACAC
Statistics
Matches: 177, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
95 88 0.50
96 89 0.50
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.37
Consensus pattern (96 bp):
TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCTT
GTCTGCTCCATCGTTCCCTTCGATGACAGAC
Found at i:24285313 original size:32 final size:31
Alignment explanation
Indices: 24285254--24285321 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
24285244 TCTAACAAGT
24285254 TTAATTAATCAATATGAGTTATCAAATTAAA
1 TTAATTAATCAATATGAGTTATCAAATTAAA
**
24285285 TTAATTAATTTATCATGAGTTA-CTAAATTAAA
1 TTAATTAATCAAT-ATGAGTTATC-AAATTAAA
*
24285317 GTAAT
1 TTAAT
24285322 CAGTTTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (31 bp):
TTAATTAATCAATATGAGTTATCAAATTAAA
Found at i:24285329 original size:32 final size:32
Alignment explanation
Indices: 24285267--24285329 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
24285257 ATTAATCAAT
* *
24285267 ATGAGTTATCAAATTAAATTAATTAATTTATC
1 ATGAGTTATCAAATTAAAGTAATCAATTTATC
*
24285299 ATGAGTTA-CTAAATTAAAGTAATCAGTTTAT
1 ATGAGTTATC-AAATTAAAGTAATCAATTTAT
24285330 AAGTTTATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (32 bp):
ATGAGTTATCAAATTAAAGTAATCAATTTATC
Found at i:24287672 original size:13 final size:13
Alignment explanation
Indices: 24287656--24287680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24287646 CTTATTATTT
24287656 TAAAATATTAAAG
1 TAAAATATTAAAG
24287669 TAAAATATTAAA
1 TAAAATATTAAA
24287681 ATTTATAAAT
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
TAAAATATTAAAG
Found at i:24288447 original size:2 final size:2
Alignment explanation
Indices: 24288440--24288469 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24288430 CTTAATGTAA
24288440 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24288470 GGAGAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24290717 original size:18 final size:18
Alignment explanation
Indices: 24290696--24290741 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
24290686 CCTAAGAAAG
* *
24290696 AAGATGCCGGTGAGAAGA
1 AAGACGCCGGAGAGAAGA
*
24290714 AAGACGGCGGAGAGAAGA
1 AAGACGCCGGAGAGAAGA
*
24290732 ATGACGCCGG
1 AAGACGCCGG
24290742 CGGTGATAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.41, T:0.07
Consensus pattern (18 bp):
AAGACGCCGGAGAGAAGA
Found at i:24290810 original size:21 final size:20
Alignment explanation
Indices: 24290785--24290851 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
24290775 TGCTGCGGGC
24290785 GGAGGCGAGAAGGAGGAAGGA
1 GGAGGCGAGAA-GAGGAAGGA
*
24290806 GGAGGTG-GAA-A-GAAGGAA
1 GGAGGCGAGAAGAGGAAGG-A
*
24290824 GGCGGCGAGAAGAAGGAAGGA
1 GGAGGCGAGAAG-AGGAAGGA
24290845 GGAGGCG
1 GGAGGCG
24290852 GGGAGAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
17 5 0.14
18 7 0.19
19 3 0.08
20 3 0.08
21 14 0.38
22 5 0.14
ACGTcount: A:0.37, C:0.06, G:0.55, T:0.01
Consensus pattern (20 bp):
GGAGGCGAGAAGAGGAAGGA
Found at i:24290838 original size:18 final size:19
Alignment explanation
Indices: 24290815--24290909 Score: 86
Period size: 18 Copynumber: 4.7 Consensus size: 19
24290805 AGGAGGTGGA
24290815 AAGAAGGAAGGCGGCGAGAAG
1 AAGAAGGAAGGCGGCG-G-AG
24290836 AAGGAAGGAGGAGGCGG-GGAG
1 AA-GAAGGA--AGGCGGCGGAG
*
24290857 AAGAAAGAAGGCGGCGGAGAG
1 AAGAAGGAAGGCGGC-G-GAG
*
24290878 AAGAAGGAAGGTGG-GGAG
1 AAGAAGGAAGGCGGCGGAG
*
24290896 AAGAAAGAAGGCGG
1 AAGAAGGAAGGCGG
24290910 TGGTGAAGCC
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
18 21 0.33
19 1 0.02
20 6 0.10
21 21 0.33
22 7 0.11
23 1 0.02
24 6 0.10
ACGTcount: A:0.41, C:0.06, G:0.52, T:0.01
Consensus pattern (19 bp):
AAGAAGGAAGGCGGCGGAG
Found at i:24290842 original size:39 final size:39
Alignment explanation
Indices: 24290788--24290909 Score: 142
Period size: 39 Copynumber: 3.1 Consensus size: 39
24290778 TGCGGGCGGA
* *
24290788 GGCGAGAAGGAGGAAGGAGGAGGTGGA-AAGAAGGAAGGC
1 GGCGAGAAGAAGGAAGGAGGAGG-GGAGAAGAAAGAAGGC
24290827 GGCGAGAAGAAGGAAGGAGGAGGCGGGGAGAAGAAAGAAGGC
1 GGCGAGAAGAAGGAAGGAGGA---GGGGAGAAGAAAGAAGGC
*
24290869 GGCG-GAGAGAA-GAAGGAAGGTGGGGAGAAGAAAGAAGGC
1 GGCGAGA-AGAAGGAAGG-AGGAGGGGAGAAGAAAGAAGGC
24290908 GG
1 GG
24290910 TGGTGAAGCC
Statistics
Matches: 74, Mismatches: 3, Indels: 12
0.83 0.03 0.13
Matches are distributed among these distances:
39 40 0.54
41 10 0.14
42 24 0.32
ACGTcount: A:0.39, C:0.06, G:0.53, T:0.02
Consensus pattern (39 bp):
GGCGAGAAGAAGGAAGGAGGAGGGGAGAAGAAAGAAGGC
Found at i:24290858 original size:21 final size:21
Alignment explanation
Indices: 24290791--24290898 Score: 66
Period size: 21 Copynumber: 5.3 Consensus size: 21
24290781 GGGCGGAGGC
*
24290791 GAGAAGG-AGGAAGGAGGAGGTG
1 GAGAAGGAAGG-AGGAGGCGG-G
* *
24290813 GA-AA-GAAGGAAGGCGGCGAG
1 GAGAAGGAAGG-AGGAGGCGGG
*
24290833 AAGAAGGAAGGAGGAGGCGGG
1 GAGAAGGAAGGAGGAGGCGGG
* * * *
24290854 GAGAAGAAAGAAGGCGGCGGA
1 GAGAAGGAAGGAGGAGGCGGG
*
24290875 GAGAA-GAAGGA--AGGTGGG
1 GAGAAGGAAGGAGGAGGCGGG
24290893 GAGAAG
1 GAGAAG
24290899 AAAGAAGGCG
Statistics
Matches: 66, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
18 9 0.14
20 7 0.11
21 43 0.65
22 7 0.11
ACGTcount: A:0.40, C:0.05, G:0.54, T:0.02
Consensus pattern (21 bp):
GAGAAGGAAGGAGGAGGCGGG
Found at i:24290900 original size:21 final size:21
Alignment explanation
Indices: 24290815--24290906 Score: 93
Period size: 21 Copynumber: 4.3 Consensus size: 21
24290805 AGGAGGTGGA
*
24290815 AAGAAGGAAGGCGGCGAGAAG
1 AAGAAGGAAGGCGGGGAGAAG
24290836 AAGGAAGGAGGAGGCGGGGAGAAG
1 AA-GAAGGA--AGGCGGGGAGAAG
24290860 -A-AA-GAAGGCGGCGGAG-AG
1 AAGAAGGAAGGCGG-GGAGAAG
*
24290878 AAGAAGGAAGGTGGGGAGAAG
1 AAGAAGGAAGGCGGGGAGAAG
24290899 AAAGAAGG
1 -AAGAAGG
24290907 CGGTGGTGAA
Statistics
Matches: 60, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
18 8 0.13
19 5 0.08
20 8 0.13
21 13 0.22
22 13 0.22
23 1 0.02
24 12 0.20
ACGTcount: A:0.42, C:0.05, G:0.51, T:0.01
Consensus pattern (21 bp):
AAGAAGGAAGGCGGGGAGAAG
Found at i:24292962 original size:15 final size:15
Alignment explanation
Indices: 24292912--24292963 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
24292902 TAAGATTATT
24292912 TTTATTTTAAATTAAA
1 TTTATTTTAAATT-AA
* *
24292928 ATT-TTTGAAATT-A
1 TTTATTTTAAATTAA
*
24292941 TTAATTTTAAATTAA
1 TTTATTTTAAATTAA
24292956 TTTATTTT
1 TTTATTTT
24292964 TGTTCAAAGG
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
13 2 0.07
14 8 0.29
15 16 0.57
16 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TTTATTTTAAATTAA
Found at i:24300932 original size:22 final size:22
Alignment explanation
Indices: 24300907--24300949 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24300897 ATATGTGACA
24300907 GTTTATCTA-CAATTATGTGGTT
1 GTTTAT-TAGCAATTATGTGGTT
24300929 GTTTATTAGCAATTATGTGGT
1 GTTTATTAGCAATTATGTGGT
24300950 GGCTTGTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.23, C:0.07, G:0.21, T:0.49
Consensus pattern (22 bp):
GTTTATTAGCAATTATGTGGTT
Found at i:24306546 original size:28 final size:29
Alignment explanation
Indices: 24306505--24306572 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
24306495 ATTTTTTATA
* * *
24306505 TTAAAAATATTTAATTTTTTAAA-TAATT
1 TTAATAATTTTTAATTTTTAAAACTAATT
*
24306533 TTAATAATTTTTAATTTTTAAAACTAGTT
1 TTAATAATTTTTAATTTTTAAAACTAATT
24306562 TT-ATAATTTTT
1 TTAATAATTTTT
24306573 TTTTGAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 29 0.83
29 6 0.17
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (29 bp):
TTAATAATTTTTAATTTTTAAAACTAATT
Found at i:24308807 original size:24 final size:25
Alignment explanation
Indices: 24308774--24308821 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
24308764 AATATATAAC
*
24308774 AATTATATAAA-AATAGAAAACTATA
1 AATTATATAAATAA-AAAAAACTATA
24308799 AATT-TATAAATAAAAAAAACTAT
1 AATTATATAAATAAAAAAAACTAT
24308822 TTTCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (25 bp):
AATTATATAAATAAAAAAAACTATA
Found at i:24311031 original size:41 final size:39
Alignment explanation
Indices: 24310969--24311182 Score: 151
Period size: 41 Copynumber: 5.2 Consensus size: 39
24310959 GTTTGCAAGA
* * * *
24310969 AAACACCGCAAAAAGTTGAGCAATAGTGGCGTTTTTAGACT
1 AAACGCCGCAAAAA-CTGAGCAATAGTGGCGTTTTT-GTCC
* *
24311010 AAACGCCGCTAAAAACTGAGCAATAGTAGCGTCTTTGGTCC
1 AAACGCCGC-AAAAACTGAGCAATAGTGGCGT-TTTTGTCC
* * *
24311051 AAACGCTGCAAAAATTTG-GTCAATAGTGGCGTTTTTGTTTC
1 AAACGCCGCAAAAA-CTGAG-CAATAGTGGCGTTTTTG-TCC
* * * * *
24311092 AAACACTGCTAAAATCTGAGCAATTGTGGCTTTTTTGTCC
1 AAACGCCGC-AAAAACTGAGCAATAGTGGCGTTTTTGTCC
* ** * *
24311132 AAACGCCACAAAAGGTTGAGCTATAGTGGCGTTTTTTTATCC
1 AAACGCCGCAAAA-ACTGAGCAATAGTGGCG--TTTTTGTCC
24311174 AAACGCCGC
1 AAACGCCGC
24311183 GAATATGTAT
Statistics
Matches: 136, Mismatches: 27, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
39 4 0.03
40 30 0.22
41 73 0.54
42 29 0.21
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (39 bp):
AAACGCCGCAAAAACTGAGCAATAGTGGCGTTTTTGTCC
Found at i:24311113 original size:82 final size:81
Alignment explanation
Indices: 24310976--24311167 Score: 217
Period size: 82 Copynumber: 2.4 Consensus size: 81
24310966 AGAAAACACC
*
24310976 GCAAAAAGTTGAGCAATAGTGGCGTTTTTAGACTAAACGCCGCTAAAAACTGAGCAATAGTAGCG
1 GCAAAAAGTTGAGCAATAGTGGCGTTTTTAGACTAAACACCGCTAAAAACTGAGCAATAGTAGC-
24311041 TCTTTGGTCCAAACGCT
65 TCTTTGGTCCAAACGCT
* ** * * * *
24311058 GCAAAAATTTG-GTCAATAGTGGCGTTTTT-GTTTCAAACACTGCTAAAATCTGAGCAATTGTGG
1 GCAAAAAGTTGAG-CAATAGTGGCGTTTTTAGACT-AAACACCGCTAAAAACTGAGCAATAGTAG
* * *
24311121 CTTTTTTGTCCAAACGCC
64 CTCTTTGGTCCAAACGCT
* * *
24311139 ACAAAAGGTTGAGCTATAGTGGCGTTTTT
1 GCAAAAAGTTGAGCAATAGTGGCGTTTTT
24311168 TTATCCAAAC
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
81 40 0.43
82 52 0.57
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (81 bp):
GCAAAAAGTTGAGCAATAGTGGCGTTTTTAGACTAAACACCGCTAAAAACTGAGCAATAGTAGCT
CTTTGGTCCAAACGCT
Found at i:24311686 original size:21 final size:21
Alignment explanation
Indices: 24311662--24311737 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
24311652 AATTTTAGCC
*
24311662 CCTAAACCCTAAACTCTAAAG
1 CCTAAACCCTAAAATCTAAAG
**
24311683 CCTAATTCCTAAAAAT-TAACA-
1 CCTAAACCCT-AAAATCTAA-AG
24311704 CCTAAACCCTAAAATCTAAAG
1 CCTAAACCCTAAAATCTAAAG
* *
24311725 CATAACCCCTAAA
1 CCTAAACCCTAAA
24311738 TCCTAACCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 6 0.14
21 33 0.75
22 5 0.11
ACGTcount: A:0.46, C:0.30, G:0.03, T:0.21
Consensus pattern (21 bp):
CCTAAACCCTAAAATCTAAAG
Found at i:24311834 original size:22 final size:23
Alignment explanation
Indices: 24311791--24311840 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
24311781 ACTCTAGAAA
* * *
24311791 CTAAATCTTTAAACCTTTAAACT
1 CTAAATCTATAAACCCTAAAACT
24311814 CTAAATC-ATAAACCCTAAAACT
1 CTAAATCTATAAACCCTAAAACT
*
24311836 TTAAA
1 CTAAA
24311841 CCCTGATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (23 bp):
CTAAATCTATAAACCCTAAAACT
Found at i:24312502 original size:73 final size:72
Alignment explanation
Indices: 24312419--24312660 Score: 184
Period size: 73 Copynumber: 3.3 Consensus size: 72
24312409 GGTGTCGTCT
* * *
24312419 TTGTTTTTAGTGGCGCTTTGTTAAAAACGCCGCAAATATGTATTAGGAGTTCACGAAATGACACC
1 TTGTTATTAGTGGCGCTTTGTT-AAAACGCCGCAAATATGTATTAAGAGTTCACAAAATGACACC
24312484 GTTTAGCC
65 GTTTAGCC
* ** * * * * * ** ***
24312492 TTGTTATTAGTGGCGTTTTGCCCAGAATGCTGCAAATATGTGTTAAGTGTTTGCAAAATGGTGCC
1 TTGTTATTAGTGGCGCTTTG-TTAAAACGCCGCAAATATGTATTAAGAGTTCACAAAATGACACC
24312557 GTTTTATG-C
65 G-TTTA-GCC
* * * * *
24312566 TT-TATATTTAGTGGCGCTTCCG-TAAAACGCCGCAAATATGTATTAAGATTTCAAAAAATGTCC
1 TTGT-TA-TTAGTGGCGCTT-TGTTAAAACGCCGCAAATATGTATTAAGAGTTCACAAAATGACA
*
24312629 CCATTTTAGCC
63 CC-GTTTAGCC
*
24312640 TTGTTATTAGTGGCGTTTTGT
1 TTGTTATTAGTGGCGCTTTGT
24312661 CCAAAGCTCC
Statistics
Matches: 125, Mismatches: 34, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
72 1 0.01
73 62 0.50
74 48 0.38
75 13 0.10
76 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (72 bp):
TTGTTATTAGTGGCGCTTTGTTAAAACGCCGCAAATATGTATTAAGAGTTCACAAAATGACACCG
TTTAGCC
Found at i:24312645 original size:148 final size:142
Alignment explanation
Indices: 24312375--24312659 Score: 367
Period size: 148 Copynumber: 2.0 Consensus size: 142
24312365 TTTAAACAAA
* *
24312375 AATGCTACAAATATGTGTTAAGTGTTAGCAAAACGGTGTCGTCTTTGTTTTTAGTGGCGCTTTGT
1 AATGCTACAAATATGTGTTAAGTGTTAGCAAAACGGTGCCGTCTTTGTTTTTAGTGGCGCTTCGT
* **
24312440 TAAAAACGCCGCAAATATGTATTAGGAGTTCACGAAATGACACCGTTTAGCCTTGTTATTAGTGG
66 TAAAAACGCCGCAAATATGTATTAAGAGTTCAAAAAATGACACCGTTTAGCCTTGTTATTAGTGG
24312505 CGTTTTGCCCAG
131 CGTTTTGCCCAG
* * * *
24312517 AATGCTGCAAATATGTGTTAAGTGTTTGCAAAATGGTGCCGTTTTATGCTTTATATTTAGTGGCG
1 AATGCTACAAATATGTGTTAAGTGTTAGCAAAACGGTGCCGTCTT-TG---T-T-TTTAGTGGCG
* * * *
24312582 CTTCCG-T-AAAACGCCGCAAATATGTATTAAGATTTCAAAAAATGTCCCCATTTTAGCCTTGTT
60 CTT-CGTTAAAAACGCCGCAAATATGTATTAAGAGTTCAAAAAATGACACC-GTTTAGCCTTGTT
24312645 ATTAGTGGCGTTTTG
123 ATTAGTGGCGTTTTG
24312660 TCCAAAGCTC
Statistics
Matches: 122, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
142 40 0.33
143 2 0.02
146 1 0.01
147 37 0.30
148 41 0.34
149 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (142 bp):
AATGCTACAAATATGTGTTAAGTGTTAGCAAAACGGTGCCGTCTTTGTTTTTAGTGGCGCTTCGT
TAAAAACGCCGCAAATATGTATTAAGAGTTCAAAAAATGACACCGTTTAGCCTTGTTATTAGTGG
CGTTTTGCCCAG
Found at i:24312930 original size:20 final size:20
Alignment explanation
Indices: 24312887--24312937 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
24312877 CCCAACAAAA
*
24312887 TTTCCCCAAAT-CCTTAACT
1 TTTCCCCAAATCCCTAAACT
* *
24312906 TTTCCCCTAATCCCTAAATT
1 TTTCCCCAAATCCCTAAACT
24312926 TTTCCCCAAATC
1 TTTCCCCAAATC
24312938 AAAGTCGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.25, C:0.37, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTCCCCAAATCCCTAAACT
Found at i:24316680 original size:437 final size:437
Alignment explanation
Indices: 24315866--24316742 Score: 1754
Period size: 437 Copynumber: 2.0 Consensus size: 437
24315856 ATGTATTAAA
24315866 TGACTTTGTTGGACATTAGTAAATGGTTTATTAATGTTTAAATGCAAGGGTATTTTAGTAAAAGG
1 TGACTTTGTTGGACATTAGTAAATGGTTTATTAATGTTTAAATGCAAGGGTATTTTAGTAAAAGG
24315931 TTTATTATATGTTGTTTAATAAAATGAAGACATGAAATTGGCCATTATTATCATGCATATAGCCG
66 TTTATTATATGTTGTTTAATAAAATGAAGACATGAAATTGGCCATTATTATCATGCATATAGCCG
24315996 ATTATATCAAGAAAATAGAAAGAAGAAGACCATCCTAGGGTTCGGTCATTGATTTGCTTGATTAA
131 ATTATATCAAGAAAATAGAAAGAAGAAGACCATCCTAGGGTTCGGTCATTGATTTGCTTGATTAA
24316061 GGTATGAATTTTCGTCTGTTTTTGATAATTTCTACGTTTTTATGATCATTGCTTCGTGTTCTTCA
196 GGTATGAATTTTCGTCTGTTTTTGATAATTTCTACGTTTTTATGATCATTGCTTCGTGTTCTTCA
24316126 GAACCCATGTTTGAATTTCTGTTTCTGTTGAAGATTATGAAATGTGCCATTGATGATTATATGAG
261 GAACCCATGTTTGAATTTCTGTTTCTGTTGAAGATTATGAAATGTGCCATTGATGATTATATGAG
24316191 CTTTGTAATGTTTTTATATGTATTATGAAAGATATATGTGAGATTATCATACTTTGTTCTTGAAT
326 CTTTGTAATGTTTTTATATGTATTATGAAAGATATATGTGAGATTATCATACTTTGTTCTTGAAT
24316256 TTTTGATGGAATAGAGCTATTTGGGTTAATTTGTGAAAATAAGGTTT
391 TTTTGATGGAATAGAGCTATTTGGGTTAATTTGTGAAAATAAGGTTT
24316303 TGACTTTGTTGGACATTAGTAAATGGTTTATTAATGTTTAAATGCAAGGGTATTTTAGTAAAAGG
1 TGACTTTGTTGGACATTAGTAAATGGTTTATTAATGTTTAAATGCAAGGGTATTTTAGTAAAAGG
24316368 TTTATTATATGTTGTTTAATAAAATGAAGACATGAAATTGGCCATTATTATCATGCATATAGCCG
66 TTTATTATATGTTGTTTAATAAAATGAAGACATGAAATTGGCCATTATTATCATGCATATAGCCG
24316433 ATTATATCAAGAAAATAGAAAGAAGAAGACCATCCTAGGGTTCGGTCATTGATTTGCTTGATTAA
131 ATTATATCAAGAAAATAGAAAGAAGAAGACCATCCTAGGGTTCGGTCATTGATTTGCTTGATTAA
24316498 GGTATGAATTTTCGTCTGTTTTTGATAATTTCTACGTTTTTATGATCATTGCTTCGTGTTCTTCA
196 GGTATGAATTTTCGTCTGTTTTTGATAATTTCTACGTTTTTATGATCATTGCTTCGTGTTCTTCA
24316563 GAACCCATGTTTGAATTTCTGTTTCTGTTGAAGATTATGAAATGTGCCATTGATGATTATATGAG
261 GAACCCATGTTTGAATTTCTGTTTCTGTTGAAGATTATGAAATGTGCCATTGATGATTATATGAG
24316628 CTTTGTAATGTTTTTATATGTATTATGAAAGATATATGTGAGATTATCATACTTTGTTCTTGAAT
326 CTTTGTAATGTTTTTATATGTATTATGAAAGATATATGTGAGATTATCATACTTTGTTCTTGAAT
24316693 TTTTGATGGAATAGAGCTATTTGGGTTAATTTGTGAAAATAAGGTTT
391 TTTTGATGGAATAGAGCTATTTGGGTTAATTTGTGAAAATAAGGTTT
24316740 TGA
1 TGA
24316743 AGGACTAAAT
Statistics
Matches: 440, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
437 440 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (437 bp):
TGACTTTGTTGGACATTAGTAAATGGTTTATTAATGTTTAAATGCAAGGGTATTTTAGTAAAAGG
TTTATTATATGTTGTTTAATAAAATGAAGACATGAAATTGGCCATTATTATCATGCATATAGCCG
ATTATATCAAGAAAATAGAAAGAAGAAGACCATCCTAGGGTTCGGTCATTGATTTGCTTGATTAA
GGTATGAATTTTCGTCTGTTTTTGATAATTTCTACGTTTTTATGATCATTGCTTCGTGTTCTTCA
GAACCCATGTTTGAATTTCTGTTTCTGTTGAAGATTATGAAATGTGCCATTGATGATTATATGAG
CTTTGTAATGTTTTTATATGTATTATGAAAGATATATGTGAGATTATCATACTTTGTTCTTGAAT
TTTTGATGGAATAGAGCTATTTGGGTTAATTTGTGAAAATAAGGTTT
Found at i:24317288 original size:44 final size:43
Alignment explanation
Indices: 24317220--24317305 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 43
24317210 AGCGTTGACA
*
24317220 TTGATCTGAGATATCGTGTAAGACCGTGTCTGGGACACAGGCC
1 TTGATCTGAGATATCGTGTAAGACCATGTCTGGGACACAGGCC
* * *
24317263 TTGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATAGGC
1 TTGATCTGAGATAT-CGTGTAAGACCATGTCTGGGACACAGGC
24317306 ATCGTATCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 12 0.32
44 26 0.68
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
TTGATCTGAGATATCGTGTAAGACCATGTCTGGGACACAGGCC
Found at i:24317336 original size:42 final size:42
Alignment explanation
Indices: 24317222--24317337 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 42
24317212 CGTTGACATT
* * * *
24317222 GATCTGAGATATCGTGTAAGACCGTGTCTGGGACACAGGCCTT
1 GATCT-AGATTTCGTGTAAGACCATGTCTGGGACACAGGCATC
* *
24317265 GATTTGAGATTTACGTGTAAGACCATGTCTGGGACATAGGCATC
1 GATCT-AGATTT-CGTGTAAGACCATGTCTGGGACACAGGCATC
24317309 GTATCT-GATTTCGTGTAAGATCC-TGTCTG
1 G-ATCTAGATTTCGTGTAAGA-CCATGTCTG
24317338 AGACTGAGGC
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
42 15 0.24
43 17 0.27
44 28 0.44
45 3 0.05
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
GATCTAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATC
Found at i:24319211 original size:14 final size:14
Alignment explanation
Indices: 24319169--24319211 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
24319159 TTTTAAATAT
24319169 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
*
24319182 TCATAATGGTTTAA
1 TTATAATGGTTTAA
24319196 TTATAATGGTTTAA
1 TTATAATGGTTTAA
24319210 TT
1 TT
24319212 CATCGTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 6 0.22
14 21 0.78
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:24321417 original size:55 final size:54
Alignment explanation
Indices: 24321330--24321584 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
24321320 ATTAGGGTTT
* *
24321330 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
24321385 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
24321440 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
24321493 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
24321542 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
24321585 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 67 0.39
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:24321536 original size:108 final size:110
Alignment explanation
Indices: 24321340--24321537 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
24321330 AAGGATACCG
*
24321340 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
24321405 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* **
24321450 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
24321512 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
24321538 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 7 0.09
110 24 0.30
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:24321797 original size:16 final size:16
Alignment explanation
Indices: 24321776--24321806 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24321766 ATAAATTTGA
24321776 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
24321792 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
24321807 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:24328944 original size:55 final size:54
Alignment explanation
Indices: 24328857--24329111 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
24328847 ATTAGGGTTT
* *
24328857 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
24328912 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
24328967 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
24329020 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
24329069 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
24329112 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 67 0.39
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:24329063 original size:108 final size:110
Alignment explanation
Indices: 24328867--24329064 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
24328857 AAGGATACCG
*
24328867 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
24328932 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* **
24328977 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
24329039 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
24329065 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 7 0.09
110 24 0.30
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:24329327 original size:16 final size:16
Alignment explanation
Indices: 24329306--24329336 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24329296 ATAAATTTGA
24329306 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
24329322 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
24329337 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:24343251 original size:11 final size:12
Alignment explanation
Indices: 24343230--24343275 Score: 60
Period size: 11 Copynumber: 3.9 Consensus size: 12
24343220 GTATGAATCA
24343230 AATTCATATATT
1 AATTCATATATT
*
24343242 AATT-ATATATCA
1 AATTCATATAT-T
24343254 AATTCATATATT
1 AATTCATATATT
24343266 AATT-ATATAT
1 AATTCATATAT
24343276 ATGTTCTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 12 0.40
12 12 0.40
13 6 0.20
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTCATATATT
Found at i:24343251 original size:138 final size:138
Alignment explanation
Indices: 24342967--24343249 Score: 473
Period size: 138 Copynumber: 2.1 Consensus size: 138
24342957 TAGAAAAAAG
* * *
24342967 AATTATACTT-TTTCCAAAAGAATATTTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATT
1 AATTATA-TTCTTTCAAAAAGAATATTTAATTTCCATGACTTTTATATTTTGACCGAAATTAATT
24343031 AATATAAATATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAA
65 AATATAAATATTTATATTAATAAATTC-GTAAAATATATACAATTAATATTTTGTATGAATCAAA
24343096 TTCATATATT
129 TTCATATATT
*
24343106 AATTATATTCTTTCAAAAATAATA-TTAATTTCCATGACTTTTATATTTTGACCGAAATTAATTA
1 AATTATATTCTTTCAAAAAGAATATTTAATTTCCATGACTTTTATATTTTGACCGAAATTAATTA
* *
24343170 ATATAACTGTTTATATTAATAAATT-GTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 ATATAAATATTTATATTAATAAATTCGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
24343234 CATATATT
131 CATATATT
24343242 AATTATAT
1 AATTATAT
24343250 ATCAAATTCA
Statistics
Matches: 137, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
136 55 0.40
138 63 0.46
139 19 0.14
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCAAAAAGAATATTTAATTTCCATGACTTTTATATTTTGACCGAAATTAATTA
ATATAAATATTTATATTAATAAATTCGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:24343253 original size:24 final size:24
Alignment explanation
Indices: 24343226--24343275 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
24343216 TTTTGTATGA
24343226 ATCAAATTCATATATTAATTATAT
1 ATCAAATTCATATATTAATTATAT
24343250 ATCAAATTCATATATTAATTATAT
1 ATCAAATTCATATATTAATTATAT
24343274 AT
1 AT
24343276 ATGTTCTCTA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (24 bp):
ATCAAATTCATATATTAATTATAT
Found at i:24343262 original size:13 final size:13
Alignment explanation
Indices: 24343226--24343264 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
24343216 TTTTGTATGA
24343226 ATCAAATTCATAT
1 ATCAAATTCATAT
*
24343239 AT-TAATT-ATAT
1 ATCAAATTCATAT
24343250 ATCAAATTCATAT
1 ATCAAATTCATAT
24343263 AT
1 AT
24343265 TAATTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.27
12 8 0.36
13 8 0.36
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (13 bp):
ATCAAATTCATAT
Found at i:24347596 original size:16 final size:16
Alignment explanation
Indices: 24347543--24347653 Score: 82
Period size: 16 Copynumber: 6.9 Consensus size: 16
24347533 AGTCATAATG
24347543 ATGTGTGAGCTGTGTA
1 ATGTGTGAGCTGTGTA
* * *
24347559 ATTTGCGAGTCAT-AGT-
1 ATGTGTGAG-C-TGTGTA
24347575 ATGTGTGAGCTGTGTA
1 ATGTGTGAGCTGTGTA
*** *
24347591 ATGTGTGAGCTACAATG
1 ATGTGTGAGCT-GTGTA
* *
24347608 ATGTGCGAGTTGTGTA
1 ATGTGTGAGCTGTGTA
* *
24347624 ATGTGCGAGCTATGTA
1 ATGTGTGAGCTGTGTA
24347640 ATGTGTGAGCTGTG
1 ATGTGTGAGCTGTG
24347654 AAAATATGCA
Statistics
Matches: 70, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
14 1 0.01
15 3 0.04
16 52 0.74
17 13 0.19
18 1 0.01
ACGTcount: A:0.22, C:0.09, G:0.34, T:0.35
Consensus pattern (16 bp):
ATGTGTGAGCTGTGTA
Found at i:24350230 original size:32 final size:32
Alignment explanation
Indices: 24350172--24350242 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
24350162 TTACTGGATT
*
24350172 TTGAAATTATTATGTCTTGAATTTGTTAGATA
1 TTGAAATTATTATGTCTTGAACTTGTTAGATA
* * *
24350204 TTGAATTTATTATGT-TTTAAGCTTGTTGGATA
1 TTGAAATTATTATGTCTTGAA-CTTGTTAGATA
*
24350236 TCGAAAT
1 TTGAAAT
24350243 GATTGACAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 4 0.12
32 28 0.88
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.49
Consensus pattern (32 bp):
TTGAAATTATTATGTCTTGAACTTGTTAGATA
Found at i:24351721 original size:20 final size:19
Alignment explanation
Indices: 24351683--24351721 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
24351673 AACAGACCCT
*
24351683 AAAATTCAAAATATTTATA
1 AAAATTCAAAATATATATA
*
24351702 AAAATTCCAAATTATATATA
1 AAAATT-CAAAATATATATA
24351722 TTTTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTCAAAATATATATA
Found at i:24351737 original size:18 final size:17
Alignment explanation
Indices: 24351715--24351757 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
24351705 ATTCCAAATT
*
24351715 ATATATATTTTTGAAAAA
1 ATATATAATTTT-AAAAA
* *
24351733 TTATAAAATTTTAAAAA
1 ATATATAATTTTAAAAA
24351750 ATATATAA
1 ATATATAA
24351758 AGAATATATA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
ATATATAATTTTAAAAA
Found at i:24360479 original size:3 final size:3
Alignment explanation
Indices: 24360168--24360462 Score: 157
Period size: 3 Copynumber: 95.7 Consensus size: 3
24360158 TGAATTTCTA
* * * *
24360168 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T
* * *
24360216 TAT TAT T-T ATAC TA- TACT TAA TAT CAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
24360261 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TATT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * *
24360306 TATT TAT AAA TAT TAGT GTA- TAT T-T TAT T-T TAA TAT CAT TA- TAT
1 TA-T TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24360350 TAT GT-T TACT T-T T-T TGAAT T-T CTA- TAT TAT TAT TAT TAT TAT
1 TAT -TAT TA-T TAT TAT T--AT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * *
24360392 TGT TACT TAT TAT TAT TAC TGT TAT GTACA TAT TATT TAT GCTA- TACT
1 TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT TA-T TAT --TAT TA-T
*
24360440 TAA TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
24360463 CATTTACTAT
Statistics
Matches: 226, Mismatches: 33, Indels: 66
0.70 0.10 0.20
Matches are distributed among these distances:
2 23 0.10
3 167 0.74
4 30 0.13
5 6 0.03
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Done.