Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 102 of 141
Found at i:33120460 original size:87 final size:87
Alignment explanation
Indices: 33120307--33120475 Score: 268
Period size: 87 Copynumber: 1.9 Consensus size: 87
33120297 CCTTTCAAAT
* *
33120307 TTAAGTTCGGTGAATTCATCAAGTCCATCTCAATATGATCACCCAAACTCTGGGATATGAACTCA
1 TTAAGTTCGGTGAATTCATCAAGTCCATCTCAATAGGACCACCCAAACTCTGGGATATGAACTCA
33120372 TTAAGAGTAATAAACTCAACCTC
66 TTAAGAGTAA-AAACTCAACCTC
* * * *
33120395 TTAAG-TCGGTGAATTCATCAAGTCCATCTCAATAGGACCACCCAAATTTTGGGCTATGAATTCA
1 TTAAGTTCGGTGAATTCATCAAGTCCATCTCAATAGGACCACCCAAACTCTGGGATATGAACTCA
33120459 TTAAGAGTAAAAACTCA
66 TTAAGAGTAAAAACTCA
33120476 TTTTTATACA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
86 7 0.09
87 63 0.84
88 5 0.07
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (87 bp):
TTAAGTTCGGTGAATTCATCAAGTCCATCTCAATAGGACCACCCAAACTCTGGGATATGAACTCA
TTAAGAGTAAAAACTCAACCTC
Found at i:33124337 original size:23 final size:23
Alignment explanation
Indices: 33124295--33124338 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
33124285 TAGTTATTAT
*
33124295 TTTATTAATATTTTGCTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
33124318 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
33124339 AAAATGGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:33135616 original size:50 final size:50
Alignment explanation
Indices: 33135560--33135666 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
33135550 ATTATCGCTT
* *
33135560 TGGCGTTGCAATGGAAAAGATTGAAGCAAC-ATCGACGAATCTTATTTCCC
1 TGGCGTTGCAACGGAAAAGATTGAAGCAACGA-CGACGAATCTTATCTCCC
* * ** * *
33135610 TGGCGTTGTAGCGGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCC
1 TGGCGTTGCAACGGAAAAGATTGAAGCAACGACGACGAATCTTATCTCCC
33135660 TGGCGTT
1 TGGCGTT
33135667 AAGGCTTGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 47 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (50 bp):
TGGCGTTGCAACGGAAAAGATTGAAGCAACGACGACGAATCTTATCTCCC
Found at i:33135978 original size:99 final size:100
Alignment explanation
Indices: 33135743--33136349 Score: 936
Period size: 100 Copynumber: 6.1 Consensus size: 100
33135733 ATAGTGGAGC
* ** *
33135743 AGATTGAAGCCTCAACGATGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
33135808 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
66 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* *
33135843 AGATT-AAGGCCGCAACGGCGAATCTTAATTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTATG
1 AGATTGAA-GCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACG
33135907 ACGGCGAATCTTGTTT-CCCAACATTGCAATTAAAA
65 ACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
33135942 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
33136007 CGGCGAATCTTGTTT-CCCAACATTGCAATTAAAA
66 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * *
33136041 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGTGGAATAGAATGAAGCTATGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* * *
33136106 TGACGAGTCTTGTTTCCCCAACATTGCAATTAAAA
66 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
*
33136141 AGATTGAAGCCGCAACGGCGAATCTTAC-TCCTTTGGCGGTGTAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCC-CTGGCGGTGTAGTGGAACAGATTGAAGCTACG
* * * *
33136205 ACGGTGAATCTTGTTTCCCCAAAATTACAACTAAAA
65 ACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* *
33136241 AGATTGAAGCCGCAACGGCGAATCTTACTTCCTTGGCGGTATAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* * * *
33136306 CGGTGAATCTTGTTTCCCCGACATTCCAGTTAAACA
66 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAA-A
33136342 A-ATTGAAG
1 AGATTGAAG
33136350 ATGGAAAATC
Statistics
Matches: 468, Mismatches: 33, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
99 191 0.41
100 272 0.58
101 5 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:33136314 original size:50 final size:50
Alignment explanation
Indices: 33135732--33136316 Score: 127
Period size: 50 Copynumber: 11.7 Consensus size: 50
33135722 TCTTTGGCAT
* * ** * *
33135732 TATAGTGGAGCAGATTGAAGCCTCAACGATGAATCTTACTCCCCTGGCGG
1 TATAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGG
* * * ** **** **
33135782 TGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACAT
1 TATAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGG
** * ** * * * *
33135832 TGCAATTAAAAAGATT-AAGGCCGCAACGGCGAATCTTAATTCCCTGGCGG
1 TATAGTGGAACAGATTGAA-GCCACAACGGCGAATCTTACTTCCTTGGCGG
* * ** ** *** **
33135882 TGTAGTGGAACAGATTGAAGCTATGACGGCGAATCTTGTTTCC-CAACAT
1 TATAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGG
** * ** * * *
33135931 TGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGG
1 TATAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGG
* * * ** *** **
33135981 TGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCC-CAACAT
1 TATAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGG
** * ** * * * *
33136030 TGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGT
1 TATAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGG
* * * * ** * * * ** **** **
33136080 TGTAGTGGAATAGAATGAAGCTATGATGACGAGTCTTGTTTCCCCAACAT
1 TATAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGG
** * ** * *
33136130 TGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTAC-TCCTTTGGCGG
1 TATAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCC-TTGGCGG
* * * * ** *******
33136180 TGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCAAAAT
1 TATAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGG
* * * * *
33136230 TACAACT-AAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCTTGGCGG
1 TA-TAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGG
* * *
33136280 TATAGTGGAACAGATTGAAGCTACGACGGTGAATCTT
1 TATAGTGGAACAGATTGAAGCCACAACGGCGAATCTT
33136317 GTTTCCCCGA
Statistics
Matches: 352, Mismatches: 175, Indels: 16
0.65 0.32 0.03
Matches are distributed among these distances:
49 74 0.21
50 271 0.77
51 7 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (50 bp):
TATAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGG
Found at i:33136453 original size:44 final size:44
Alignment explanation
Indices: 33136356--33136656 Score: 194
Period size: 44 Copynumber: 6.9 Consensus size: 44
33136346 GAAGATGGAA
*
33136356 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * **
33136400 AATCCTATCTCCCTGACGTTGCAGTGGAGCGGATTAAAG-TGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * *
33136443 AGATCTTATCTCTCTGAAGTTACAG-AGAGCAGA-T--CG-CATCT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * *
33136484 AGTCTTATCTCTCTGAAGTTGCAGGGGAGCAGACTGAGTAAG-C-A-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCCAAT
* ** * * * *
33136528 AGTCTTATC-CTTTTGAAGTTGCAATGGGGCAGACTGAAGATGGC-A-
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCAAT
33136573 AATCTTATCTCCCTGAAGTTTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAG--TTGCAGTGGAGCAGATTAAAGCCAAT
* * *
33136619 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
33136657 ACAGATCTTA
Statistics
Matches: 203, Mismatches: 36, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
40 22 0.11
41 9 0.04
42 2 0.01
43 11 0.05
44 106 0.52
45 17 0.08
46 21 0.10
47 15 0.07
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:33142118 original size:15 final size:15
Alignment explanation
Indices: 33142098--33142130 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
33142088 CAAAGATTAA
*
33142098 CAATGATGAAACACT
1 CAATGACGAAACACT
33142113 CAATGACGAAACACT
1 CAATGACGAAACACT
33142128 CAA
1 CAA
33142131 ACACACCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.12, T:0.15
Consensus pattern (15 bp):
CAATGACGAAACACT
Found at i:33146347 original size:24 final size:24
Alignment explanation
Indices: 33146320--33146365 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
33146310 TTTTTTTTAT
*
33146320 TTTTGGAAAAAAAACAAAAATTAA
1 TTTTCGAAAAAAAACAAAAATTAA
*
33146344 TTTTCGAAAAAAAATAAAAATT
1 TTTTCGAAAAAAAACAAAAATT
33146366 GGGAGTCGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (24 bp):
TTTTCGAAAAAAAACAAAAATTAA
Found at i:33147075 original size:15 final size:15
Alignment explanation
Indices: 33147055--33147085 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33147045 CAAATGCTAC
33147055 TAATAAATACAACAA
1 TAATAAATACAACAA
*
33147070 TAATAAATACATCAA
1 TAATAAATACAACAA
33147085 T
1 T
33147086 GGCATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (15 bp):
TAATAAATACAACAA
Found at i:33148740 original size:89 final size:90
Alignment explanation
Indices: 33148636--33149281 Score: 399
Period size: 89 Copynumber: 7.4 Consensus size: 90
33148626 ATTATCAGCT
*
33148636 TTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAAC
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAAC
33148701 TTCAGGAG-GATAAGACTTGCTTAC
66 TTCAGGAGAGATAAGACTTGCTTAC
* * * ** * * * * *
33148725 TTATTCTACTCCACTGCAACTTTAGGGAGATAAGACTAG--AT-GTGA-TCT-ACTCTCTGCAAC
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAAC
* * ** *
33148785 TTCA-AAGAAATAAGATCCAAGGTT--
66 TTCAGGAGAGATAAGA--CTTGCTTAC
* * * * * *
33148809 TTAATCCGTTCCACTGCAACTTCAGGGAGATAAGATTATCGGC--T-TTAACT-TGCTTCACTGC
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTT-T--GCAATCTTCAGTCTGCCTCACTGC
**
33148870 AACTTCAGG-GAGATAAGGTTTGC-TATC
63 AACTTCAGGAGAGATAAGACTTGCTTA-C
* ** * *
33148897 TTCAATCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTAC-TTACTT-AGTCTG-CTCCACTG
1 TT-AATCTGCTCCACTGCAACTTCAGGGA-GATAAGGTTTGCAAT-CTTCAGTCTGCCT-CACTG
* *
33148958 CAACTTTAGG-GAGATAAGACTAG---A-
62 CAACTTCAGGAGAGATAAGACTTGCTTAC
** * * * * * * * * *
33148982 TGGGATCTGCT-CTCTGCGACTTCAGAGAAATAA-G-ATCCAAGGT-TTTAATCTG-TTCCACTG
1 T-TAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAA--TCTTCAGTCTGCCT-CACTG
* *
33149042 CAACTTCAGG-GAGATAGGATTATCGGC-T--
62 CAACTTCAGGAGAGATAAGACT-T--GCTTAC
* *
33149070 TTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAAC
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAAC
* * *
33149135 TTTAGTA-CGATAAGACTTGCTTAC
66 TTCAGGAGAGATAAGACTTGCTTAC
* *
33149159 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAAC
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAAC
* * *
33149224 TTTAGTA-CGATAAGACTTGCTTAC
66 TTCAGGAGAGATAAGACTTGCTTAC
*
33149248 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
33149282 ACTAGATGGG
Statistics
Matches: 435, Mismatches: 82, Indels: 80
0.73 0.14 0.13
Matches are distributed among these distances:
82 2 0.00
83 4 0.01
84 96 0.22
85 14 0.03
86 10 0.02
87 17 0.04
88 51 0.12
89 236 0.54
90 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (90 bp):
TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAAC
TTCAGGAGAGATAAGACTTGCTTAC
Found at i:33148757 original size:44 final size:45
Alignment explanation
Indices: 33148644--33149284 Score: 208
Period size: 44 Copynumber: 14.6 Consensus size: 45
33148634 CTTTAACCTG
** *
33148644 CTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAATCTTCAGTCTA
* *
33148689 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGC-TTACTT-ATTCTA
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAAT-CTTCAGTCTA
* * * *
33148733 CTCCACTGCAACTTTAGGGAGATAAGACTAG--AT-GTGA-TCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAATCTTCAGTCTA
* ** * * * * **
33148774 CT-CTCTGCAACTTCAAAGAAATAAGA--TCCAAGGT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAA--TCTTCAGTCTA
* * * * *
33148817 TTCCACTGCAACTTCAGGGAGATAAGATTATCGGC--T-TTAACT-TG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCAATCTTCAGTCTA
* ** * * *
33148861 CTTCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAATCTTCAGTCTA
* * * *
33148906 CCCCACTGCAACTTCA-GGAGGATAAGACTTAC-TTACTT-AGTCTG
1 CTCCACTGCAACTTCAGGGA-GATAAGACTTGCAAT-CTTCAGTCTA
* * *** *
33148950 CTCCACTGCAACTTTAGGGAGATAAGACTAG--AT-GGGA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAATCTTCAGTCTA
* * * * * * * *
33148991 CT-CTCTGCGACTTCAGAGAAATAAGA--TCCAAGGT-TTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAA--TCTTCAGTCTA
* * * ** * ** *
33149034 TTCCACTGCAACTTCAGGGAGATAGGA-TTATC-GGCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCAATCTTCAGTCTA
* *
33149078 CTCCACTGCAACTTCAGGGAGATAAG-GTCTGCAATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGCAATCTTCAGTCTA
* * * *
33149123 C-CTCACTGCAACTTTA-GTACGATAAGACTTGC-TTACTT-AGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAAT-CTTCAGTCTA
* *
33149167 CTCCACTGCAACTTCAGGGAGATAAG-GTCTGCAATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGCAATCTTCAGTCTA
* * * *
33149212 C-CTCACTGCAACTTTA-GTACGATAAGACTTGC-TTACTT-AGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAAT-CTTCAGTCTA
33149256 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
33149285 AGATGGGATC
Statistics
Matches: 454, Mismatches: 90, Indels: 105
0.70 0.14 0.16
Matches are distributed among these distances:
40 40 0.09
41 15 0.03
42 7 0.02
43 13 0.03
44 235 0.52
45 139 0.31
46 3 0.01
47 1 0.00
49 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCAATCTTCAGTCTA
Found at i:33148892 original size:217 final size:217
Alignment explanation
Indices: 33148510--33149192 Score: 1123
Period size: 217 Copynumber: 3.1 Consensus size: 217
33148500 CTACTCCATC
* * *
33148510 AGTCTGTTCCACTGCAACTTTAAGGAGATAAGAGTAGATGCGATCTGCTCTCTGCAACTTCAGAG
1 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
* * * *
33148575 AGATAAGATCCAAGGTTTTAATCCGCTCCATTGCAACTTCAGGGAGATAGGATTATCAGCTTTAA
66 AAATAAGATCCAAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
33148640 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
131 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
33148705 GGAGGATAAGACTTGCTTACTT
196 GGAGGATAAGACTTGCTTACTT
* * * * *
33148727 ATTCTACTCCACTGCAACTTTAGGGAGATAAGACTAGATGTGATCTACTCTCTGCAACTTCAAAG
1 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
*
33148792 AAATAAGATCCAAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAA
66 AAATAAGATCCAAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
* * * * *
33148857 CTTGCTTCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAATCTGCCCCACTGCAACTTCA
131 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
*
33148922 GGAGGATAAGACTTACTTACTT
196 GGAGGATAAGACTTGCTTACTT
* *
33148944 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGGGATCTGCTCTCTGCGACTTCAGAG
1 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
*
33149009 AAATAAGATCCAAGGTTTTAATCTGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
66 AAATAAGATCCAAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
* *
33149074 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTTA
131 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
* *
33149139 GTACGATAAGACTTGCTTACTT
196 GGAGGATAAGACTTGCTTACTT
*
33149161 AGTCTGCTCCACTGCAACTTCAGGGAGATAAG
1 AGTCTGCTCCACTGCAACTTTAGGGAGATAAG
33149193 GTCTGCAATC
Statistics
Matches: 428, Mismatches: 38, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
217 428 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
AAATAAGATCCAAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
GGAGGATAAGACTTGCTTACTT
Found at i:33149348 original size:434 final size:430
Alignment explanation
Indices: 33148510--33149357 Score: 1084
Period size: 434 Copynumber: 2.0 Consensus size: 430
33148500 CTACTCCATC
* *
33148510 AGTCTGTTCCACTGCAACTTTAAGGAGATAAGAGTAGATGCGATCTGCTCTCTGCAACTTCAGAG
1 AGTCTGCTCCACTGCAACTTTAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
* *
33148575 AGATAAGATCCAAGGTTTTAATCCGCTCCATTGCAACTTCAGGGAGATAGGATTATCAGCTTTAA
66 AAATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAA
*
33148640 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
131 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
* * * *
33148705 GGAGGATAAGACTTGCTTACTTATTCTACTCCACTGCAACTTTAGGGAGATAAGACTAGATGTGA
196 GGACGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGTCA
* * *
33148770 TCTACTCTCTGCAACTTCAAAGAAATAAGATCCAAGGTTTTAATCCGTTCCACTGCAACTTCAGG
261 TCTACTCACTGCAACTT-AAAGAAATAAGA-CCAAGCTTTTAATCCGCTCCACTGCAACTTCAGG
* * * * * *
33148835 GAGATAAGATTATCGGCTTTAACTTGCTTCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTC
324 GAGATAAGATGATCGG--TGAACTTGCTTCACTGCAACTTCAGAGAGATAAGGTATCCAATCTTC
**
33148900 AATCTGCCCCACTGCAACTTCAGGAGGATAAGACTTACTTACTT
387 AATCCACCCCACTGCAACTTCAGGAGGATAAGACTTACTTACTT
* * *
33148944 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGGGATCTGCTCTCTGCGACTTCAGAG
1 AGTCTGCTCCACTGCAACTTTAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
* * *
33149009 AAATAAGATCCAAGGTTTTAATCTGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
66 AAATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAA
*
33149074 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTTA
131 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
* * *
33149139 GTACGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGTCT-GCAATC
196 GGACGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAA-GACTAG--AT-
* * * * ** * *
33149203 TTCAGTCTGCCTCACTGCAACTT-TAGTACGATAAGA-CTTGCTTACTTAGTCTGCTCCACTGCA
257 GTCA-TCT-ACTCACTGCAACTTAAAG-A-AATAAGACCAAGCTT--TTAATCCGCTCCACTGCA
* *
33149266 ACTTCAGGGAGATAAGACTAGAT-GG-GATC-TGC-TCTCTGCAACTTCAGAGAGATAA-G-ATC
316 ACTTCAGGGAGATAAGA-T-GATCGGTGAACTTGCTTCACTGCAACTTCAGAGAGATAAGGTATC
* * * *
33149325 CAATGTTTTAATCCACTCCACTGCAATTTCAGG
379 CAAT-CTTCAATCCACCCCACTGCAACTTCAGG
33149358 GAGATAGGAT
Statistics
Matches: 357, Mismatches: 44, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
433 4 0.01
434 255 0.71
435 24 0.07
436 5 0.01
437 10 0.03
438 4 0.01
439 50 0.14
440 3 0.01
441 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (430 bp):
AGTCTGCTCCACTGCAACTTTAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
AAATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAA
CCTGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
GGACGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGTCA
TCTACTCACTGCAACTTAAAGAAATAAGACCAAGCTTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAAGATGATCGGTGAACTTGCTTCACTGCAACTTCAGAGAGATAAGGTATCCAATCTTCAATC
CACCCCACTGCAACTTCAGGAGGATAAGACTTACTTACTT
Found at i:33157989 original size:20 final size:20
Alignment explanation
Indices: 33157964--33158007 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
33157954 CGATACCCAT
33157964 GCTTATGAGTCTTTCTACCA
1 GCTTATGAGTCTTTCTACCA
33157984 GCTTATGAGTCTTTCTACCA
1 GCTTATGAGTCTTTCTACCA
33158004 GCTT
1 GCTT
33158008 CTTGAACGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (20 bp):
GCTTATGAGTCTTTCTACCA
Found at i:33162372 original size:25 final size:25
Alignment explanation
Indices: 33162324--33162372 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
33162314 TTATTTTTGG
**
33162324 AAAAAAAACAAAAATTAGTTGTCGA
1 AAAAAAAACAAAAATTAGGAGTCGA
*
33162349 AAAAAAAACAAAAATTGGGAGTCG
1 AAAAAAAACAAAAATTAGGAGTCG
33162373 CCACCAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.59, C:0.08, G:0.16, T:0.16
Consensus pattern (25 bp):
AAAAAAAACAAAAATTAGGAGTCGA
Found at i:33163073 original size:15 final size:15
Alignment explanation
Indices: 33163055--33163088 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
33163045 CAAATGCCAT
33163055 AATAATAAATACAAC
1 AATAATAAATACAAC
*
33163070 AATAATAAATACATC
1 AATAATAAATACAAC
33163085 AATA
1 AATA
33163089 GCATAGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:33165182 original size:39 final size:40
Alignment explanation
Indices: 33165128--33165210 Score: 150
Period size: 39 Copynumber: 2.1 Consensus size: 40
33165118 TTCCGGTTCT
*
33165128 TTCATAACAACCAACACATTATA-GGAAAAAAATATACCA
1 TTCATAACAACCAACACATTATAGGGAAAAAAATACACCA
33165167 TTCATAACAACCAACACATTATAGGGAAAAAAATACACCA
1 TTCATAACAACCAACACATTATAGGGAAAAAAATACACCA
33165207 TTCA
1 TTCA
33165211 AAATCTTGAC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 23 0.55
40 19 0.45
ACGTcount: A:0.52, C:0.22, G:0.06, T:0.20
Consensus pattern (40 bp):
TTCATAACAACCAACACATTATAGGGAAAAAAATACACCA
Found at i:33167273 original size:33 final size:33
Alignment explanation
Indices: 33167236--33167304 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
33167226 ACTGCGAGTT
33167236 GAAGAATTTCATTCTCAAGTAGTAACAATTCGA
1 GAAGAATTTCATTCTCAAGTAGTAACAATTCGA
33167269 GAAGAATTTCATTCTCAAGTAGTAACAATTCGA
1 GAAGAATTTCATTCTCAAGTAGTAACAATTCGA
33167302 GAA
1 GAA
33167305 ATTTCCCCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (33 bp):
GAAGAATTTCATTCTCAAGTAGTAACAATTCGA
Found at i:33173958 original size:175 final size:173
Alignment explanation
Indices: 33173645--33173966 Score: 493
Period size: 175 Copynumber: 1.8 Consensus size: 173
33173635 ACTATTCATA
* *
33173645 GACTAAACTGAATAAATCATGGATTTTGGGCAAAATCGTAAAGTAAGGGTCACATAGTGGTGTGG
1 GACTAAACTAAATAAATCATGGATTTTGGGCAAAATCGTAAAGTAAGGGTCACATAATGGTGTGG
* ** * *
33173710 CCAGGCCATGTGAAAGGCTATAGGCCATGTGGAAGGGTTACACAACTGTGTGGCAAGGTCGTGTA
66 CCAAGCCATGTGAAAGGCTATAGGCCATGTGGAAGGGTTACACAACCATGTGGCAAGGCCATGTA
33173775 ACAGACTGTGGTCATGTCTAATACAATTTGAGGATTATTTAGG
131 ACAGACTGTGGTCATGTCTAATACAATTTGAGGATTATTTAGG
*
33173818 GACTAAACTAAATAAATCATGGATTTTTGGGCAAAATCGTAAAGTAGGGGTCACATAATGGTGTG
1 GACTAAACTAAATAAATCATGGA-TTTTGGGCAAAATCGTAAAGTAAGGGTCACATAATGGTGTG
* ** *
33173883 GCCAAAGCCATGTGAGAGGCTATAGGCTGTGTGGAAGGGTTACACAGCCATGTGGCCAA-GCCAT
65 GCC-AAGCCATGTGAAAGGCTATAGGCCATGTGGAAGGGTTACACAACCATGTGG-CAAGGCCAT
*
33173947 GTAATAGACTGTGGTCATGT
128 GTAACAGACTGTGGTCATGT
33173967 GACAATTGCA
Statistics
Matches: 133, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
173 22 0.17
174 42 0.32
175 66 0.50
176 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.26
Consensus pattern (173 bp):
GACTAAACTAAATAAATCATGGATTTTGGGCAAAATCGTAAAGTAAGGGTCACATAATGGTGTGG
CCAAGCCATGTGAAAGGCTATAGGCCATGTGGAAGGGTTACACAACCATGTGGCAAGGCCATGTA
ACAGACTGTGGTCATGTCTAATACAATTTGAGGATTATTTAGG
Found at i:33176695 original size:23 final size:22
Alignment explanation
Indices: 33176654--33176711 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
33176644 AAAAGCTATC
* *
33176654 TACAAATCAAATC-CCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
33176675 TACAGAATCATATCTTCTAAGCT
1 TACA-AATCATATCTTCTAAGAT
*
33176698 TACATATCATATCT
1 TACAAATCATATCT
33176712 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:33180038 original size:17 final size:19
Alignment explanation
Indices: 33179999--33180038 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33179989 AATACATACA
33179999 TTAATCCAATCAAGAAAAC
1 TTAATCCAATCAAGAAAAC
*
33180018 TTAATCCAA-CAA-AAAAG
1 TTAATCCAATCAAGAAAAC
33180035 TTAA
1 TTAA
33180039 ATTCATCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.23
Consensus pattern (19 bp):
TTAATCCAATCAAGAAAAC
Found at i:33182858 original size:54 final size:54
Alignment explanation
Indices: 33182799--33182901 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
33182789 TTGCTGTTAT
* * *
33182799 CATTTTATTGTAATTAC-CTGTGCAATTTAATTGATGCACCATAATTACTATTAC
1 CATTTTATTGTAATTACTC-ATGCAATTTAATCGATGCACCACAATTACTATTAC
*
33182853 CATTTTATTGTAATTACTCATGCAATTTAATCGATGCATCACAATTACT
1 CATTTTATTGTAATTACTCATGCAATTTAATCGATGCACCACAATTACT
33182902 TTTAATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 43 0.98
55 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (54 bp):
CATTTTATTGTAATTACTCATGCAATTTAATCGATGCACCACAATTACTATTAC
Found at i:33182970 original size:135 final size:135
Alignment explanation
Indices: 33182728--33183033 Score: 447
Period size: 135 Copynumber: 2.3 Consensus size: 135
33182718 ATTTTTGTGA
* * *
33182728 TAATTAATCATGCAATTTAATTGATGCACCACAATTGTTGTTAATTTTAAAAAACGATCAATTGC
1 TAATTACTCATGCAATTTAATTGATGCACCACAATTCTTGTTAATTTTAAAAAAAGATCAATTGC
* ** *
33182793 TGTTATCATTTTATTGTAATTACCTGTGCAATTTAATTGATGCACCATAATTACTATTACCATTT
66 TGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTACTATTACCATTT
33182858 TATTG
131 TATTG
* * *
33182863 TAATTACTCATGCAATTTAATCGATGCATCACAATTACTT-TTAATTTTAAAAACAAG-TCTATT
1 TAATTACTCATGCAATTTAATTGATGCACCACAATT-CTTGTTAATTTTAAAAA-AAGATCAATT
* * *
33182926 -CTTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTATTGTTATCA
64 GC-TGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTACTATTACCA
33182990 TTTTATTG
128 TTTTATTG
33182998 TAATTACTCATGCAATTTAATTGATGCACCACAATT
1 TAATTACTCATGCAATTTAATTGATGCACCACAATT
33183034 TAATTAAAAG
Statistics
Matches: 153, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
134 1 0.01
135 148 0.97
136 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (135 bp):
TAATTACTCATGCAATTTAATTGATGCACCACAATTCTTGTTAATTTTAAAAAAAGATCAATTGC
TGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTACTATTACCATTT
TATTG
Found at i:33182987 original size:54 final size:54
Alignment explanation
Indices: 33182927--33183033 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
33182917 AAGTCTATTC
33182927 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTA
1 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTA
* *
33182981 TTGTTATCATTTTATTGTAATTACTCATGCAATTTAATTGATGCACCACAATT
1 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATT
33183034 TAATTAAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (54 bp):
TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTA
Found at i:33185887 original size:5 final size:5
Alignment explanation
Indices: 33185872--33185905 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
33185862 TTTTAAAACA
33185872 AAAAT ATAAAT AAAAT AAAAT AAAAT -AAAT AAAA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAAA
33185906 AATAAGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:33193950 original size:86 final size:87
Alignment explanation
Indices: 33193733--33193990 Score: 349
Period size: 86 Copynumber: 3.0 Consensus size: 87
33193723 GCTTATTTGC
* * *
33193733 AGTTATTGCCACTTGTTGTGGGTGCACAACATATTTGTAGATTAAACAAACTGCCACTTGGTTCA
1 AGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAACTGCTACTTGGTTCA
* * *
33193798 TGATCGAACAACATATATTT-TA
66 TAATCGAACCACAT-TGTTTGTA
* * * * * *
33193820 AGTTACTACCACTTGTTGTGAGTGCACAAAATATTTGCAGATTAAATAAACTGTTGCTTGGTTCA
1 AGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAACTGCTACTTGGTTCA
*
33193885 TAATCTAACCACATTGTTTGTA
66 TAATCGAACCACATTGTTTGTA
* * *
33193907 A-TTACTGCCACTTGTTGTGAGTGCATAACATATTTGTAAATTAAACAAACTGCTACTTGGTTAA
1 AGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAACTGCTACTTGGTTCA
33193971 TAATCGAACCACATTGTTTG
66 TAATCGAACCACATTGTTTG
33193991 CATATTAAAC
Statistics
Matches: 147, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
86 77 0.52
87 70 0.48
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (87 bp):
AGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAACTGCTACTTGGTTCA
TAATCGAACCACATTGTTTGTA
Found at i:33194506 original size:19 final size:20
Alignment explanation
Indices: 33194479--33194516 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33194469 AGGTACTAAA
33194479 TTGGACAAAA-TATAAAATT
1 TTGGACAAAATTATAAAATT
*
33194498 TTGGGCAAAATTATAAAAT
1 TTGGACAAAATTATAAAAT
33194517 CTAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (20 bp):
TTGGACAAAATTATAAAATT
Found at i:33194571 original size:27 final size:28
Alignment explanation
Indices: 33194500--33194571 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
33194490 ATAAAATTTT
*
33194500 GGGCAAAATTATAAAATCTAAAAAATAG
1 GGGCAAAATTGTAAAATCTAAAAAATAG
* * * *
33194528 AGGCAAATTTGTCAAATC-CAAAAATAG
1 GGGCAAAATTGTAAAATCTAAAAAATAG
*
33194555 GGGCAAAACTGTAAAAT
1 GGGCAAAATTGTAAAAT
33194572 TTGGAAAACA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (28 bp):
GGGCAAAATTGTAAAATCTAAAAAATAG
Found at i:33199484 original size:2 final size:2
Alignment explanation
Indices: 33199477--33199517 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
33199467 ATCTCATGGA
33199477 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
33199518 TATCATGGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:33201364 original size:13 final size:15
Alignment explanation
Indices: 33201335--33201367 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
33201325 TTGGGTACCA
33201335 AAATTGCAACACAAC
1 AAATTGCAACACAAC
33201350 AAATTGC-AC-CAAC
1 AAATTGCAACACAAC
33201363 AAATT
1 AAATT
33201368 TGTCTACCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.52, C:0.24, G:0.06, T:0.18
Consensus pattern (15 bp):
AAATTGCAACACAAC
Found at i:33201483 original size:11 final size:11
Alignment explanation
Indices: 33201467--33201505 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
33201457 TTTTTGGGAA
33201467 AAAAATAAAAT
1 AAAAATAAAAT
33201478 AAAAATAAAAT
1 AAAAATAAAAT
*
33201489 -AAACTCAAAAT
1 AAAAAT-AAAAT
33201500 AAAAAT
1 AAAAAT
33201506 CCCACTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 4 0.17
11 16 0.67
12 4 0.17
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:33201487 original size:16 final size:16
Alignment explanation
Indices: 33201468--33201503 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33201458 TTTTGGGAAA
33201468 AAAATAAAATAAAAAT
1 AAAATAAAATAAAAAT
* *
33201484 AAAATAAACTCAAAAT
1 AAAATAAAATAAAAAT
33201500 AAAA
1 AAAA
33201504 ATCCCACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:33203479 original size:23 final size:24
Alignment explanation
Indices: 33203436--33203496 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 24
33203426 TATTGATGAT
* **
33203436 ATAAATATAT-TTATTTTAAAT-A
1 ATAAATAAATATTATTAAAAATAA
33203458 ATAAATAAATATTATTAAAAATAA
1 ATAAATAAATATTATTAAAAATAA
*
33203482 ATAGATAAA-ATTATT
1 ATAAATAAATATTATT
33203497 TTCTTGTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 9 0.27
23 15 0.45
24 9 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATAAATAAATATTATTAAAAATAA
Found at i:33203480 original size:20 final size:20
Alignment explanation
Indices: 33203447--33203484 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33203437 TAAATATATT
33203447 TATTTTAAATAATAAATAAA
1 TATTTTAAATAATAAATAAA
33203467 TATTATTAAA-AATAAATA
1 TATT-TTAAATAATAAATA
33203485 GATAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TATTTTAAATAATAAATAAA
Found at i:33203494 original size:20 final size:21
Alignment explanation
Indices: 33203451--33203494 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
33203441 TATATTTATT
**
33203451 TTAAATAATAAATAAATATTA
1 TTAAATAATAAATAAATAAAA
*
33203472 TTAAA-AATAAATAGATAAAA
1 TTAAATAATAAATAAATAAAA
33203492 TTA
1 TTA
33203495 TTTTCTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAAATAATAAATAAATAAAA
Found at i:33206966 original size:14 final size:14
Alignment explanation
Indices: 33206947--33206984 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
33206937 GTTTGGCAGT
33206947 AAAATGTTTTCCGG
1 AAAATGTTTTCCGG
* *
33206961 AAAATGATTTCTGG
1 AAAATGTTTTCCGG
33206975 AAAATGTTTT
1 AAAATGTTTT
33206985 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (14 bp):
AAAATGTTTTCCGG
Found at i:33206993 original size:20 final size:20
Alignment explanation
Indices: 33206968--33207007 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
33206958 CGGAAAATGA
*
33206968 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
33206988 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
33207008 GGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:33206997 original size:34 final size:35
Alignment explanation
Indices: 33206953--33207019 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
33206943 CAGTAAAATG
*
33206953 TTTTCCGGAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGGAAAATGATTTACTGGAAAATATTTTAC
*
33206987 TTTTCTGGAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGGAAAATGATTTACTGGAAAATATTTT
33207020 TTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (35 bp):
TTTTCCGGAAAATGATTTACTGGAAAATATTTTAC
Found at i:33209655 original size:19 final size:19
Alignment explanation
Indices: 33209631--33209667 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
33209621 CAGATCAAGA
*
33209631 GAGAACGAAAGGGAGAACG
1 GAGAACGAAAAGGAGAACG
33209650 GAGAACGAAAAGGAGAAC
1 GAGAACGAAAAGGAGAAC
33209668 AAAACCAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.38, T:0.00
Consensus pattern (19 bp):
GAGAACGAAAAGGAGAACG
Found at i:33219484 original size:58 final size:59
Alignment explanation
Indices: 33219413--33219526 Score: 185
Period size: 58 Copynumber: 1.9 Consensus size: 59
33219403 TTTTAAATGA
*
33219413 GTTTTGTTTTAAAAATAAATAAAATCAAGTAATTAATATATGATGTTTTAT-CTTTTTG
1 GTTTTGTTTTAAAAATAAATAAAATAAAGTAATTAATATATGATGTTTTATGCTTTTTG
* * *
33219471 GTTTTGTTTTAAAAATAAATAAAATAAAGTATTTAATATATGTTTTTTTATGCTTT
1 GTTTTGTTTTAAAAATAAATAAAATAAAGTAATTAATATATGATGTTTTATGCTTT
33219527 CCTTTTTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 47 0.92
59 4 0.08
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (59 bp):
GTTTTGTTTTAAAAATAAATAAAATAAAGTAATTAATATATGATGTTTTATGCTTTTTG
Found at i:33233952 original size:44 final size:44
Alignment explanation
Indices: 33233846--33233945 Score: 173
Period size: 44 Copynumber: 2.3 Consensus size: 44
33233836 AAATAAAAAA
*
33233846 CCTAGATCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
33233890 CTTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
33233934 CCTATCTCCCTG
1 CCTAGCTCCCTG
33233946 GTCAGCAATG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (44 bp):
CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
Found at i:33234108 original size:128 final size:128
Alignment explanation
Indices: 33233929--33234457 Score: 846
Period size: 128 Copynumber: 4.1 Consensus size: 128
33233919 TTGAAGATTG
* * * *
33233929 CAAGTCCTATCTCCCTGGTCAGCAATGGAGT-GGGTGCAAAATTACAAATCTTGTCTCCCTAAGC
1 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTG-GAAATTACAGATCTTGTCTCCCTAAGC
33233993 AGTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
65 AGTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* * * *
33234057 CAAGTCCTATATCCCTGGTCAGCAGTGGAATATGTTGGAAATTACAGATCTTGTCTCCCTAGGCA
1 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCA
* * * * *
33234122 GTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCAAGTGCAAGGAAGCATATTTAAGCCA
66 GTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* * *
33234185 CAAGTCCTATGTCCCCGGCCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCA
1 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCA
33234250 GTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
66 GTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* *
33234313 CAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTCGTCTCCCTAAGCA
1 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCA
*
33234378 GTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTGAAGCCGA
66 GTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC-A
*
33234442 TAA-TCCTATCTCCCTG
1 CAAGTCCTATCTCCCTG
33234458 AAGTTGTAGT
Statistics
Matches: 369, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
128 363 0.98
129 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (128 bp):
CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCA
GTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
Found at i:33239221 original size:8 final size:8
Alignment explanation
Indices: 33239208--33239275 Score: 59
Period size: 8 Copynumber: 8.8 Consensus size: 8
33239198 ACCACATTTT
33239208 AATAAACA
1 AATAAACA
*
33239216 AATAAACG
1 AATAAACA
*
33239224 AA-ACA-A
1 AATAAACA
***
33239230 AATAATTG
1 AATAAACA
33239238 AATAAACA
1 AATAAACA
*
33239246 AACAAACA
1 AATAAACA
*
33239254 AACAAACA
1 AATAAACA
33239262 AATAAACA
1 AATAAACA
33239270 AATAAA
1 AATAAA
33239276 TCGATCACAT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
6 2 0.04
7 3 0.06
8 42 0.89
ACGTcount: A:0.72, C:0.13, G:0.03, T:0.12
Consensus pattern (8 bp):
AATAAACA
Found at i:33239276 original size:4 final size:4
Alignment explanation
Indices: 33239241--33239271 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
33239231 ATAATTGAAT
*
33239241 AAAC AAAC AAAC AAAC AAAC AAAT AAAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAA
33239272 TAAATCGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.77, C:0.19, G:0.00, T:0.03
Consensus pattern (4 bp):
AAAC
Found at i:33239276 original size:12 final size:12
Alignment explanation
Indices: 33239238--33239276 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
33239228 AAAATAATTG
33239238 AATAAACAAACA
1 AATAAACAAACA
*
33239250 AACAAACAAACA
1 AATAAACAAACA
*
33239262 AATAAACAAATA
1 AATAAACAAACA
33239274 AAT
1 AAT
33239277 CGATCACATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.10
Consensus pattern (12 bp):
AATAAACAAACA
Found at i:33241301 original size:40 final size:40
Alignment explanation
Indices: 33241251--33241701 Score: 275
Period size: 40 Copynumber: 10.8 Consensus size: 40
33241241 GTCTCTTCTG
*
33241251 TCTGCTCCACTACTGCTTACGGAGATAAGACTGGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * *
33241291 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGTGA
** * * * **
33241334 TCTGCTCCACTACAACTTCAGGGAGATAGGA-TTGATTTCT
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTGGATGTGA
* *
33241374 TCTGTGTGTTCCACTACTGCTTAGGGAGATAAGACTGGATGCGA
1 TC----TGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * *
33241418 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT--GGATGTGA
* * * * * *
33241461 TCCGCTCCACT-GTAACTTCAGGGAGATAGGA-TTGATTTCTTCTG-
1 TCTGCTCCACTACT-GCTT-AGGGAGATAAGACTGGA-----TGTGA
* *
33241505 TCTGCTCCACTACTGCTTAAGGAGATAAGACTGGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * * * *
33241545 TCTGCTCCACTGCTGCTTAAGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGTGA
* ** * * *
33241588 TCTGCTCCACTGCAACTTCAGGGAGATATGA-TTGATTTCTTCTG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTGGA-----TGTGA
* * *
33241632 TCTGCTCCACTACCGTTTAGGGAGATAAGACTGAATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
33241672 TCTGCTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
33241702 TCAGTGGTTT
Statistics
Matches: 314, Mismatches: 64, Indels: 66
0.71 0.14 0.15
Matches are distributed among these distances:
39 5 0.02
40 123 0.39
41 4 0.01
42 2 0.01
43 92 0.29
44 83 0.26
45 5 0.02
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
Found at i:33241400 original size:87 final size:85
Alignment explanation
Indices: 33241291--33241702 Score: 278
Period size: 87 Copynumber: 4.9 Consensus size: 85
33241281 CTGGATGTGA
33241291 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCTCCACTACAACTTCAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCTCCACTACAACTT-AGG
*
33241356 GAGATAGGATTGATTTCTTCTG
65 GAGATAAGATTGATTT-TTCTG
* * * *** **
33241378 TGTGTTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGCGATCTGCTCCACTACTGCTTAGGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCTCCACTACAACTTAGGG
** **
33241440 AGATAAGATCTGCGGTTTT-AA
66 AGATAAGAT-TG-ATTTTTCTG
* * * * ** **
33241461 TCCGCTCCACT-GTAACTTCAGGGAGATAGGAT-TGAT--TTCTTCTGTCTGCTCCACTACTGCT
1 TCTGCTCCACTACT-GCTT-AGGGAGATAAGATCTG-TGGTT-TT-AATCTGCTCCACTACAACT
* * *
33241522 TAAGGAGATAAGACTGGA---TGC-G
61 TAGGGAGATAAGA-TTGATTTTTCTG
* * *
33241544 ATCTGCTCCACTGCTGCTTAAGGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCTCCACTACAACTT-AG
*
33241609 GGAGATATGATTGATTTCTTCTG
64 GGAGATAAGATTGATTT-TTCTG
* * ** * * **
33241632 TCTGCTCCACTACCGTTTAGGGAGATAAGA-C--TGAATGTGATCTGCTCCACTACTGCTTAGGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCTCCACTACAACTTAGGG
33241694 AGATAAGAT
66 AGATAAGAT
33241703 CAGTGGTTTT
Statistics
Matches: 247, Mismatches: 55, Indels: 50
0.70 0.16 0.14
Matches are distributed among these distances:
82 1 0.00
83 66 0.27
84 83 0.34
85 6 0.02
86 2 0.01
87 87 0.35
88 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (85 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCTCCACTACAACTTAGGG
AGATAAGATTGATTTTTCTG
Found at i:33241424 original size:127 final size:127
Alignment explanation
Indices: 33241198--33241752 Score: 903
Period size: 127 Copynumber: 4.4 Consensus size: 127
33241188 ATAGGATTTA
* * * *
33241198 TGGTTTTAATCTGCTCCACTGAAACTTAAGGGAGATAGGATTGGTCTCTTCTGTCTGCTCCACTA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
* *
33241263 CTGCTTACGGAGATAAGACTGGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 CTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
* * *
33241325 TGGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTGTGTGTTCCACTA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
33241390 CTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 CTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
* * *
33241452 CGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
* * *
33241517 CTGCTTAAGGAGATAAGACTGGATGCGATCTGCTCCACTGCTGCTTAAGGAGATAAGATCTG
66 CTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
*
33241579 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATATGATTGATTTCTTCTGTCTGCTCCACTA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
* * * * *
33241644 CCGTTTAGGGAGATAAGACTGAATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCAG
66 CTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
* *
33241706 TGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGATTT
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGATTT
33241753 TTTTCTTTAT
Statistics
Matches: 395, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 395 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (127 bp):
TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
CTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
Found at i:33241933 original size:100 final size:100
Alignment explanation
Indices: 33241756--33242371 Score: 851
Period size: 100 Copynumber: 6.2 Consensus size: 100
33241746 TTGATTTTTT
* * * * * * *
33241756 TCTTTATAATTGTAATGTCGGGGAA-CACGATTCATCGTTGTAGCTTCAAT-TAGTTCCACTGCA
1 TCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCT-GCTCCACTGCA
* * *
33241819 CCACCA-AGGAAGTAAGATTCGCCGTTGCAGCTTCAA
65 CCGCCAGA-AAAGTAAGATTCGCCGTTGCGGCTTCAA
*
33241855 TCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGTTTTAATCTGCTCCACTGCAC
1 TCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCAC
*
33241920 CGCCAGAAAAGTAAGATTCACCGTTGCGGCTTCAA
66 CGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
* ** * * * *
33241955 TATTTGAAATTACAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATTTGCTCCACTGCAC
1 TCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCAC
* * *
33242020 CGCCAGGAAAGTAAGATTCGCTGTTGCAGCTTCAA
66 CGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
* * *
33242055 TATTTTTAATTGCAATGTTGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCAC
1 TCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCAC
* *
33242120 CACCAGAAAAGTAAGATTTGCCGTTGCGGCTTCAA
66 CGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
* * *
33242155 TCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTCATAGCTTTAATCTGCTCCACTGCAT
1 TCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCAC
*
33242220 CGCCAGAAAATTAAGATTCGCCGTTGCGGCTTCAA
66 CGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
* * * * *
33242255 TCTTTTAAATTGCAATGTCGGGGAAGCAATATTCGCCATCGTAGCTTTAATCTGCTCCATTGCAC
1 TCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCAC
* *
33242320 CGCCAGGAAAGTAAGATTCGCCATTGCGGCTTCAA
66 CGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
33242355 TCTTTTTAATTGCAATG
1 TCTTTTTAATTGCAATG
33242372 GTGGGTATGA
Statistics
Matches: 460, Mismatches: 54, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
99 23 0.05
100 435 0.95
101 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (100 bp):
TCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCAC
CGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
Found at i:33242337 original size:300 final size:299
Alignment explanation
Indices: 33241762--33242376 Score: 937
Period size: 300 Copynumber: 2.1 Consensus size: 299
33241752 TTTTTCTTTA
* * * * * *
33241762 TAATTGTAATGTCGGGGAACACGATTCATCGTTGTAGCTTCAATTAGTTCCACTGCACCACCAAG
1 TAATTGCAATGTTGGGGAACAAGATTCACCGTCGTAGCTTCAATTAGCTCCACTGCACCACCAAG
* *
33241827 GAAGTAAGATTCGCCGTTGCAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACC
66 AAAGTAAGATTCGCCGTTGCAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACC
* *
33241892 GTCGTAGTTTTAATCTGCTCCACTGCACCGCCAGAAAAGTAAGATTCACCGTTGCGGCTTCAATA
131 GTCATAGCTTTAATCTGCTCCACTGCACCGCCAGAAAAGTAAGATTCACCGTTGCGGCTTCAATA
*
33241957 TTTGAAATTACAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATTTGCTCCACTGCACCG
196 TTTGAAATTACAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCACCG
**
33242022 CCAGGAAAGTAAGATTCGCTGTTGCAGCTTCAATATTTT
261 CCAGGAAAGTAAGATTCGCCATTGCAGCTTCAATATTTT
* *
33242061 TAATTGCAATGTTGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCT-GCTCCACTGCACCACC-
1 TAATTGCAATGTTGGGGAA-CAAGATTCACCGTCGTAGCTTCAAT-TAGCTCCACTGCACCACCA
* *
33242124 AGAAAAGTAAGATTTGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTC
64 AG-AAAGTAAGATTCGCCGTTGCAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTC
* * *
33242189 ACCGTCATAGCTTTAATCTGCTCCACTGCATCGCCAGAAAATTAAGATTCGCCGTTGCGGCTTCA
128 ACCGTCATAGCTTTAATCTGCTCCACTGCACCGCCAGAAAAGTAAGATTCACCGTTGCGGCTTCA
* * * * *
33242254 ATCTTTTAAATTGCAATGTCGGGGAAGCAATATTCGCCATCGTAGCTTTAATCTGCTCCATTGCA
193 ATATTTGAAATTACAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCA
* *
33242319 CCGCCAGGAAAGTAAGATTCGCCATTGCGGCTTCAATCTTTT
258 CCGCCAGGAAAGTAAGATTCGCCATTGCAGCTTCAATATTTT
*
33242361 TAATTGCAATGGTGGG
1 TAATTGCAATGTTGGG
33242377 TATGAATAAC
Statistics
Matches: 285, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
299 19 0.07
300 265 0.93
301 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (299 bp):
TAATTGCAATGTTGGGGAACAAGATTCACCGTCGTAGCTTCAATTAGCTCCACTGCACCACCAAG
AAAGTAAGATTCGCCGTTGCAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACC
GTCATAGCTTTAATCTGCTCCACTGCACCGCCAGAAAAGTAAGATTCACCGTTGCGGCTTCAATA
TTTGAAATTACAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCACCG
CCAGGAAAGTAAGATTCGCCATTGCAGCTTCAATATTTT
Found at i:33243375 original size:5 final size:5
Alignment explanation
Indices: 33243367--33243409 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
33243357 TTTTTCGTTC
* *
33243367 TTCTT TTCTT TTCTTT TTCTT TTCAT TT-TT TTCTT TTTTT TTC
1 TTCTT TTCTT TTC-TT TTCTT TTCTT TTCTT TTCTT TTCTT TTC
33243410 AAGTGAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 3 0.09
5 24 0.75
6 5 0.16
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:33243397 original size:19 final size:18
Alignment explanation
Indices: 33243351--33243409 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 18
33243341 GGCCTCTCCT
*
33243351 TTTTCTTTTTTCGTTCTTC
1 TTTTCTTTTTTC-TTTTTC
33243370 TTTTC--TTTTCTTTTTC
1 TTTTCTTTTTTCTTTTTC
33243386 TTTTCATTTTTTTCTTTTT-
1 TTTTC--TTTTTTCTTTTTC
33243405 TTTTC
1 TTTTC
33243410 AAGTGAAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 10 0.29
17 5 0.14
19 10 0.29
20 10 0.29
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTTTCTTTTTC
Found at i:33243852 original size:18 final size:18
Alignment explanation
Indices: 33243828--33243899 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
33243818 CCCGGTAGAG
33243828 TTTTTTT-ATTTTTTTCT
1 TTTTTTTGATTTTTTTCT
* * *
33243845 CATTTTTTGCTTTTTTACT
1 -TTTTTTTGATTTTTTTCT
33243864 TTTTTTTGCATTTTTTTCT
1 TTTTTTTG-ATTTTTTTCT
*
33243883 TTTTTTTTACTTTTTTT
1 TTTTTTTGA-TTTTTTT
33243900 ACCTCCACTG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
18 14 0.32
19 30 0.68
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTTTTTGATTTTTTTCT
Found at i:33243877 original size:38 final size:36
Alignment explanation
Indices: 33243828--33243898 Score: 97
Period size: 38 Copynumber: 1.9 Consensus size: 36
33243818 CCCGGTAGAG
*
33243828 TTTTTTTATTTTTTTCTCATTTTTTGCTTTTTTACT
1 TTTTTTTATTTTTTTCTCATTTTTTACTTTTTTACT
**
33243864 TTTTTTTGCATTTTTTTCTTTTTTTTTACTTTTTT
1 TTTTTTT--ATTTTTTTCTCATTTTTTACTTTTTT
33243899 TACCTCCACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 7 0.23
38 23 0.77
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (36 bp):
TTTTTTTATTTTTTTCTCATTTTTTACTTTTTTACT
Found at i:33243897 original size:27 final size:26
Alignment explanation
Indices: 33243829--33243887 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 26
33243819 CCGGTAGAGT
33243829 TTTTTTATTTTTTTCT-CATTTTTTGC
1 TTTTTTATTTTTTT-TGCATTTTTTGC
*
33243855 TTTTTTACTTTTTTTTGCATTTTTTTC
1 TTTTTTA-TTTTTTTTGCATTTTTTGC
33243882 TTTTTT
1 TTTTTT
33243888 TTTACTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (26 bp):
TTTTTTATTTTTTTTGCATTTTTTGC
Found at i:33247267 original size:8 final size:8
Alignment explanation
Indices: 33247254--33247321 Score: 59
Period size: 8 Copynumber: 8.8 Consensus size: 8
33247244 ACCACATTTT
33247254 AATAAACA
1 AATAAACA
*
33247262 AATAAACG
1 AATAAACA
*
33247270 AA-ACA-A
1 AATAAACA
***
33247276 AATAATTG
1 AATAAACA
33247284 AATAAACA
1 AATAAACA
*
33247292 AACAAACA
1 AATAAACA
*
33247300 AACAAACA
1 AATAAACA
33247308 AATAAACA
1 AATAAACA
33247316 AATAAA
1 AATAAA
33247322 TCGATCACAT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
6 2 0.04
7 3 0.06
8 42 0.89
ACGTcount: A:0.72, C:0.13, G:0.03, T:0.12
Consensus pattern (8 bp):
AATAAACA
Found at i:33247322 original size:4 final size:4
Alignment explanation
Indices: 33247287--33247317 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
33247277 ATAATTGAAT
*
33247287 AAAC AAAC AAAC AAAC AAAC AAAT AAAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAA
33247318 TAAATCGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.77, C:0.19, G:0.00, T:0.03
Consensus pattern (4 bp):
AAAC
Found at i:33247322 original size:12 final size:12
Alignment explanation
Indices: 33247284--33247322 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
33247274 AAAATAATTG
33247284 AATAAACAAACA
1 AATAAACAAACA
*
33247296 AACAAACAAACA
1 AATAAACAAACA
*
33247308 AATAAACAAATA
1 AATAAACAAACA
33247320 AAT
1 AAT
33247323 CGATCACATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.10
Consensus pattern (12 bp):
AATAAACAAACA
Found at i:33256845 original size:69 final size:69
Alignment explanation
Indices: 33256734--33256864 Score: 181
Period size: 69 Copynumber: 1.9 Consensus size: 69
33256724 CTTTTTTGTC
* * * * *
33256734 GTATTAGTTTTGTCTCATAAATTGAAAAATTAAATATAAAATATAAGGTTTTAACTTAATTATGT
1 GTATTAGTATTGTCTCACAAATTAAAAAATTAAATACAAAATATAAGATTTTAACTTAATTATGT
33256799 ATTT
66 ATTT
* * **
33256803 GTATTAGTATTGTTTGACAAATTAAAAAATTATGTACAAAATATAAGATTTTAACTTAATTA
1 GTATTAGTATTGTCTCACAAATTAAAAAATTAAATACAAAATATAAGATTTTAACTTAATTA
33256865 CGTGGACTCA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 53 1.00
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (69 bp):
GTATTAGTATTGTCTCACAAATTAAAAAATTAAATACAAAATATAAGATTTTAACTTAATTATGT
ATTT
Found at i:33263560 original size:12 final size:12
Alignment explanation
Indices: 33263539--33263578 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
33263529 CACACGGACG
*
33263539 TGTGCCAGGCCA
1 TGTGCGAGGCCA
33263551 TGTG-GTAGGCCA
1 TGTGCG-AGGCCA
33263563 TGTGCGAGGCCA
1 TGTGCGAGGCCA
33263575 TGTG
1 TGTG
33263579 TGACACACGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 24 0.96
13 1 0.04
ACGTcount: A:0.15, C:0.23, G:0.40, T:0.23
Consensus pattern (12 bp):
TGTGCGAGGCCA
Found at i:33265129 original size:43 final size:43
Alignment explanation
Indices: 33265068--33265152 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
33265058 NNNNNNNNNN
33265068 ATGTTAGTCTTAATGCATTATTGTTGTCCTATCCAACAATAAC
1 ATGTTAGTCTTAATGCATTATTGTTGTCCTATCCAACAATAAC
33265111 ATGTTAGTCTTAATGCATTATTGTTGTCCTATCCAACAATAA
1 ATGTTAGTCTTAATGCATTATTGTTGTCCTATCCAACAATAA
33265153 TACTTGACTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.40
Consensus pattern (43 bp):
ATGTTAGTCTTAATGCATTATTGTTGTCCTATCCAACAATAAC
Found at i:33265493 original size:18 final size:18
Alignment explanation
Indices: 33265470--33265511 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
33265460 ATAAAAATTC
*
33265470 ACTTTCTGTTTGTTTGTT
1 ACTTTCTGTTTGTTTATT
33265488 ACTTTCTGTTTGTTTATT
1 ACTTTCTGTTTGTTTATT
33265506 ACTTTC
1 ACTTTC
33265512 AGGTAACCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.10, C:0.14, G:0.12, T:0.64
Consensus pattern (18 bp):
ACTTTCTGTTTGTTTATT
Found at i:33274324 original size:38 final size:38
Alignment explanation
Indices: 33274280--33274357 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
33274270 ACACAATCAC
*
33274280 CTTACCTACTAAACGAGTAACGACAGAACCACACCTCT
1 CTTACCTACTAAACGAGTAACGACAGAACCACACCGCT
* *
33274318 CTTACCTACTAAACGAGTAACGGCAGAGCCACACCGCT
1 CTTACCTACTAAACGAGTAACGACAGAACCACACCGCT
33274356 CT
1 CT
33274358 AATGCTAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.35, G:0.14, T:0.18
Consensus pattern (38 bp):
CTTACCTACTAAACGAGTAACGACAGAACCACACCGCT
Found at i:33274862 original size:21 final size:21
Alignment explanation
Indices: 33274836--33274875 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33274826 TACCCCTTAA
33274836 ATCCCTTAA-TTAACTCCCCTT
1 ATCCC-TAATTTAACTCCCCTT
*
33274857 ATCCCTAATTTCACTCCCC
1 ATCCCTAATTTAACTCCCC
33274876 AACCATCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.23, C:0.42, G:0.00, T:0.35
Consensus pattern (21 bp):
ATCCCTAATTTAACTCCCCTT
Found at i:33289148 original size:3 final size:3
Alignment explanation
Indices: 33289140--33289171 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
33289130 AAGTATGAAC
33289140 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33289172 GAAGAAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33293850 original size:15 final size:15
Alignment explanation
Indices: 33293830--33293879 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
33293820 GGGGTAGGAC
*
33293830 ATGATATGATATAAT
1 ATGATAAGATATAAT
* * *
33293845 ATGATACGGTATATT
1 ATGATAAGATATAAT
33293860 ATGATAAGATATAAT
1 ATGATAAGATATAAT
*
33293875 TTGAT
1 ATGAT
33293880 GAAAAATCTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (15 bp):
ATGATAAGATATAAT
Found at i:33296395 original size:41 final size:41
Alignment explanation
Indices: 33296338--33296432 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
33296328 GGTCAACATG
* *
33296338 CCCATGTGAGGGGGAGACATGCCCGTATGAGGAAACACACA
1 CCCATGTGAGAGGGAGACACGCCCGTATGAGGAAACACACA
* * *
33296379 CCCATGTGAGAGGGAGACACGCTCGTGTGAGGAAACACACG
1 CCCATGTGAGAGGGAGACACGCCCGTATGAGGAAACACACA
*
33296420 CCCGTGTGAGAGG
1 CCCATGTGAGAGG
33296433 AGGCACACGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.28, C:0.24, G:0.35, T:0.13
Consensus pattern (41 bp):
CCCATGTGAGAGGGAGACACGCCCGTATGAGGAAACACACA
Found at i:33296439 original size:22 final size:22
Alignment explanation
Indices: 33296373--33296450 Score: 56
Period size: 22 Copynumber: 3.7 Consensus size: 22
33296363 TATGAGGAAA
* *
33296373 CACACACCCATGTGAGAGG-GAG
1 CACACGCCCGTGTGAGAGGAG-G
* **
33296395 -ACACGCTCGTGT--GAGGAAA
1 CACACGCCCGTGTGAGAGGAGG
33296414 CACACGCCCGTGTGAGAGGAGG
1 CACACGCCCGTGTGAGAGGAGG
* *
33296436 CACACGGCTGTGTGA
1 CACACGCCCGTGTGA
33296451 CTAAGGCATA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
19 4 0.10
20 11 0.26
21 9 0.21
22 18 0.43
ACGTcount: A:0.27, C:0.26, G:0.35, T:0.13
Consensus pattern (22 bp):
CACACGCCCGTGTGAGAGGAGG
Found at i:33299857 original size:14 final size:14
Alignment explanation
Indices: 33299838--33299867 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33299828 ATTTCGGATT
33299838 ATCCAAATCCACAA
1 ATCCAAATCCACAA
*
33299852 ATCCAAGTCCACAA
1 ATCCAAATCCACAA
33299866 AT
1 AT
33299868 TATCGAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.33, G:0.03, T:0.17
Consensus pattern (14 bp):
ATCCAAATCCACAA
Found at i:33300340 original size:114 final size:113
Alignment explanation
Indices: 33300168--33300809 Score: 604
Period size: 113 Copynumber: 5.6 Consensus size: 113
33300158 CGTAGCGTTC
* * * * * *
33300168 TGGTCTTGATGTATATTGGAATTAGTGGCGCTTACGAA-CAAACGCCGGTAATGCATAGTATTAG
1 TGGTCTTGATGTATATTAGAATTAGTGGCGCTTA-TAAGAAAACGCCGCTAAAGTATAGTATTAG
*
33300232 CGGCGCTTAGCAG-AAGCGCCGCAAAAGATGTTAACCAAAACGCAGAGTT
65 CGGCGCTTAGC-GTAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAGTT
* * *
33300281 TGGTCTTGATGTATATTACAATTAGTGGCGCTTATAAAGAAAACGCCGCTAATGTATAGTACTAG
1 TGGTCTTGATGTATATTAGAATTAGTGGCGCTTAT-AAGAAAACGCCGCTAAAGTATAGTATTAG
* * * *
33300346 CGGCGCTGAGCGTTAAACGCCGCAAAACATCTTAACCAAAACGCAGCGTTT
65 CGGCGCTTAGCG-TAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAG-TT
* * * * * *
33300397 TGGTCTTGATGTATACTATAATTAGTGGCG-TT-TAAGGAAAACGTCACTAAAGGATAGTAATAG
1 TGGTCTTGATGTATATTAGAATTAGTGGCGCTTATAA-GAAAACGCCGCTAAAGTATAGTATTAG
* * * * * * *
33300460 CAGCGTTTGGTGGTAAGCGCCTCAAAATATCTTAACCAAAACGGAGAGTT
65 CGGCGCTTAG-CGTAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAGTT
* * *
33300510 TGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACT-GGAAAACGCCGCTAAAGTATAGTAGTAG
1 TGGTCTTGATGTATATTAGAATTAGTGGCGCTTA-TAAGAAAACGCCGCTAAAGTATAGTATTAG
* * * *
33300574 CGGCG-TTTGTGGAAACCGCCGC-AAAGTATCTTAACCAAAACGCAGAGTT
65 CGGCGCTTAG-CGTAAGCGCCGCAAAAG-ATCTTAACCAAAACGCAGAGTT
* * * * *
33300623 TGGTCTTGAGGTATATTAGAATTAGTGGCGCTTAT-TGAAAAACGCCGCTAATGGT-TACTATTT
1 TGGTCTTGATGTATATTAGAATTAGTGGCGCTTATAAG-AAAACGCCGCTAA-AGTATAGTATTA
* * * *
33300686 GCGGCGCTTTTG-GTAAGCGCCGCAAAAAGATATTAACGAAAACACA-ACGTT
64 GCGGCGC-TTAGCGTAAGCGCCGC-AAAAGATCTTAACCAAAACGCAGA-GTT
* * ** ** *
33300737 TGGTTCTTGATGTATACTGGAATTAGTGGCGCACATGGGAAAACGCCGCTAAAGCATAGTATTAG
1 TGG-TCTTGATGTATATTAGAATTAGTGGCGCTTATAAGAAAACGCCGCTAAAGTATAGTATTAG
*
33300802 CGTCGCTT
65 CGGCGCTT
33300810 TTCCCAAAAT
Statistics
Matches: 443, Mismatches: 65, Indels: 41
0.81 0.12 0.07
Matches are distributed among these distances:
112 5 0.01
113 168 0.38
114 145 0.33
115 93 0.21
116 32 0.07
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (113 bp):
TGGTCTTGATGTATATTAGAATTAGTGGCGCTTATAAGAAAACGCCGCTAAAGTATAGTATTAGC
GGCGCTTAGCGTAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAGTT
Found at i:33302144 original size:73 final size:72
Alignment explanation
Indices: 33302067--33302439 Score: 221
Period size: 73 Copynumber: 5.1 Consensus size: 72
33302057 GAAACTGCGC
* *
33302067 CGTTTTACGTTGCTATTAGTGGCGCTTTCCGTGAAACGCCGCAAAATTGTAATTATATTTATTGA
1 CGTTTTACGTTGATATTAGTGGCGCTTTAC-TGAAACGCCGCAAAATTGTAATTATATTTATTGA
33302132 AATGTTGT
65 AATGTTGT
* * * * * * * * *
33302140 CGTTTT-TGTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAA-TCTA-TTG
1 CGTTTTACG--T-TGATATTAGTGGCGCTTTACTGAAACGCCGCAAAATT--GTAATTATATTTA
** * *
33302202 GGGAAACGGCT-T
61 TTGAAA-TGTTGT
*
33302214 CGTTTTGAC-TT-ATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTAATTATATTTATT
1 CGTTTT-ACGTTGATA-TTAGTGGCGCTTTAC-TGAAACGCCGCAAAATTGTAATTATATTTATT
33302277 GAAATGTTGT
63 GAAATGTTGT
* * * * * * * * *
33302287 CGTTTT-TGTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAA-TCTA-TTG
1 CGTTTTACG--T-TGATATTAGTGGCGCTTTACTGAAACGCCGCAAAATT--GTAATTATATTTA
** * *
33302349 GGGAAACGGCT-T
61 TTGAAA-TGTTGT
*
33302361 CGTTTTGAC-TT-ATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTAATTATATTTATT
1 CGTTTT-ACGTTGATA-TTAGTGGCGCTTTAC-TGAAACGCCGCAAAATTGTAATTATATTTATT
33302424 GAAATGTTGT
63 GAAATGTTGT
33302434 CGTTTT
1 CGTTTT
33302440 TGTCTATGGT
Statistics
Matches: 217, Mismatches: 55, Indels: 56
0.66 0.17 0.17
Matches are distributed among these distances:
71 12 0.06
72 39 0.18
73 60 0.28
74 55 0.25
75 41 0.19
76 10 0.05
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (72 bp):
CGTTTTACGTTGATATTAGTGGCGCTTTACTGAAACGCCGCAAAATTGTAATTATATTTATTGAA
ATGTTGT
Found at i:33302217 original size:74 final size:74
Alignment explanation
Indices: 33302139--33302513 Score: 332
Period size: 74 Copynumber: 5.1 Consensus size: 74
33302129 TGAAATGTTG
33302139 TCGTTTTTGTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGG
1 TCGTTTTTGTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGG
33302204 GAAACGGCT
66 GAAACGGCT
* * * * *
33302213 TCG-TTTTGACT-T-ATAGTTAGTGGCGCTTTACTT-A-AAACGCCGCAAAATT--GTAATTATA
1 TCGTTTTTGTCTATGGTA-TTAGTGGCG-TTT--TTCAGAAACGCCACAACATTGGGTAA-TCTA
*** * *
33302271 TTTATTGAAA-TGTT
61 -TTGGGGAAACGGCT
33302285 GTCGTTTTTGTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGG
1 -TCGTTTTTGTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGG
33302350 GGAAACGGCT
65 GGAAACGGCT
* * * * *
33302360 TCG-TTTTGACT-T-ATAGTTAGTGGCGCTTTACTT-A-AAACGCCGCAAAATT--GTAATTATA
1 TCGTTTTTGTCTATGGTA-TTAGTGGCG-TTT--TTCAGAAACGCCACAACATTGGGTAA-TCTA
*** * *
33302418 TTTATTGAAA-TGTT
61 -TTGGGGAAACGGCT
33302432 GTCGTTTTTGTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGG
1 -TCGTTTTTGTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGG
33302497 GGAAACGGCT
65 GGAAACGGCT
33302507 TCGTTTT
1 TCGTTTT
33302514 GACTTATAGT
Statistics
Matches: 231, Mismatches: 40, Indels: 60
0.70 0.12 0.18
Matches are distributed among these distances:
71 12 0.05
72 34 0.15
73 66 0.29
74 73 0.32
75 34 0.15
76 12 0.05
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (74 bp):
TCGTTTTTGTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGG
GAAACGGCT
Found at i:33302584 original size:294 final size:293
Alignment explanation
Indices: 33302082--33302623 Score: 892
Period size: 294 Copynumber: 1.8 Consensus size: 293
33302072 TACGTTGCTA
* *
33302082 TTAGTGGCGCTTTCCGTGAAACGCCGCAAAATTGTAATTATATTTATTGAAATGTTGTCGTTTTT
1 TTAGTGGCGCTTTACGTAAAACGCCGCAAAATTGTAATTATATTTATTGAAATGTTGTCGTTTTT
33302147 GTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGGGAAACGGC
66 GTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGGGAAACGGC
* *
33302212 TTCGTTTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTAATTATATTTATT
131 TTCGTTTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATGTAATTATATGTATT
* * * *
33302277 GAAATGTTGTCGTTTTTGTCTATGGTATTAGTGGCGTTT-TTCAGAAACGCCACAACATTGGGTA
196 GAAACGATGTCG--TTTATCTATAGTATTAGTGGCGTTTATTCAGAAACGCCACAACATTGGGTA
33302341 ATCTATTGGGGAAACGGCTTCGTTTTGACTTATAG
259 ATCTATTGGGGAAACGGCTTCGTTTTGACTTATAG
*
33302376 TTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTAATTATATTTATTGAAATGTTGTCGTTTTT
1 TTAGTGGCGCTTTACGTAAAACGCCGCAAAATTGTAATTATATTTATTGAAATGTTGTCGTTTTT
33302441 GTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGGGAAACGGC
66 GTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGGGAAACGGC
* *
33302506 TTCGTTTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATGT-TTTTTCAATGT-
131 TTCGTTTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATGTAATTAT--ATGTA
* * **
33302569 TTGATACGATGTCGTTTATCTATATTATTAGTGGCGTTTATTGGGAAACGCCACA
194 TTGAAACGATGTCGTTTATCTATAGTATTAGTGGCGTTTATTCAGAAACGCCACA
33302624 TGTTTCAGCT
Statistics
Matches: 230, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
292 22 0.10
293 16 0.07
294 189 0.82
295 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.38
Consensus pattern (293 bp):
TTAGTGGCGCTTTACGTAAAACGCCGCAAAATTGTAATTATATTTATTGAAATGTTGTCGTTTTT
GTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGGGAAACGGC
TTCGTTTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATGTAATTATATGTATT
GAAACGATGTCGTTTATCTATAGTATTAGTGGCGTTTATTCAGAAACGCCACAACATTGGGTAAT
CTATTGGGGAAACGGCTTCGTTTTGACTTATAG
Found at i:33302585 original size:147 final size:147
Alignment explanation
Indices: 33302082--33302553 Score: 917
Period size: 147 Copynumber: 3.2 Consensus size: 147
33302072 TACGTTGCTA
* * *
33302082 TTAGTGGCGCTTTCCGTGAAACGCCGCAAAATTGTAATTATATTTATTGAAATGTTGTCGTTTTT
1 TTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTAATTATATTTATTGAAATGTTGTCGTTTTT
33302147 GTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGGGAAACGGC
66 GTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGGGAAACGGC
33302212 TTCGTTTTGACTTATAG
131 TTCGTTTTGACTTATAG
33302229 TTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTAATTATATTTATTGAAATGTTGTCGTTTTT
1 TTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTAATTATATTTATTGAAATGTTGTCGTTTTT
33302294 GTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGGGAAACGGC
66 GTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGGGAAACGGC
33302359 TTCGTTTTGACTTATAG
131 TTCGTTTTGACTTATAG
33302376 TTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTAATTATATTTATTGAAATGTTGTCGTTTTT
1 TTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTAATTATATTTATTGAAATGTTGTCGTTTTT
33302441 GTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGGGAAACGGC
66 GTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGGGAAACGGC
33302506 TTCGTTTTGACTTATAG
131 TTCGTTTTGACTTATAG
33302523 TTAGTGGCGCTTTACTTAAAACGCCGCAAAA
1 TTAGTGGCGCTTTACTTAAAACGCCGCAAAA
33302554 ATGTTTTTTC
Statistics
Matches: 322, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 322 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (147 bp):
TTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTAATTATATTTATTGAAATGTTGTCGTTTTT
GTCTATGGTATTAGTGGCGTTTTTCAGAAACGCCACAACATTGGGTAATCTATTGGGGAAACGGC
TTCGTTTTGACTTATAG
Found at i:33303916 original size:10 final size:10
Alignment explanation
Indices: 33303901--33303939 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
33303891 GTTTCGGGTA
33303901 AATTTTATAT
1 AATTTTATAT
33303911 AATTTTATAT
1 AATTTTATAT
* *
33303921 AATTGTATTT
1 AATTTTATAT
33303931 AATTTTATA
1 AATTTTATA
33303940 ATTATTCGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (10 bp):
AATTTTATAT
Found at i:33311414 original size:21 final size:21
Alignment explanation
Indices: 33311388--33311433 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
33311378 GTACAACTTA
33311388 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
* *
33311409 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
33311430 AAGC
1 AAGC
33311434 GAAGGCCGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.22, G:0.48, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGGG
Found at i:33311842 original size:41 final size:41
Alignment explanation
Indices: 33311786--33311987 Score: 287
Period size: 42 Copynumber: 4.9 Consensus size: 41
33311776 GTTTTTGTAT
* *
33311786 AAAAATGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA
* *
33311827 AAAAACGCCGCTAAAGACCATGTTCTTTAGCAGCGCTTAGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA
* *
33311868 AGAAAACGCCGCTAAAGATCATCTTCTTTAGCGGCGCTTAAGA
1 A-AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT-AGA
* *
33311911 ATAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA
* *
33311952 AATAAACGCCGCTAAAGAACATGATCTTTCGCGGCG
1 AA-AAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
33311988 TTTTTTTCTA
Statistics
Matches: 145, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
41 44 0.30
42 97 0.67
43 4 0.03
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA
Found at i:33312889 original size:29 final size:26
Alignment explanation
Indices: 33312835--33312900 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
33312825 CCTTTAGTTT
* *
33312835 AAGTAAATATTATTTTATGTTTAAAA
1 AAGTAAATAATATTTTATATTTAAAA
*
33312861 AAGTAAATAATATTTTAATAATTTCAAA
1 AAGTAAATAATATTTT-AT-ATTTAAAA
*
33312889 AATTATAATAAT
1 AAGTA-AATAAT
33312901 TAATAACATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 15 0.45
27 2 0.06
28 10 0.30
29 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (26 bp):
AAGTAAATAATATTTTATATTTAAAA
Found at i:33314126 original size:19 final size:18
Alignment explanation
Indices: 33314102--33314137 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
33314092 AAAAAAGAAG
*
33314102 AAAAAGAAGGAGAGAAAGA
1 AAAAAGAAAGA-AGAAAGA
33314121 AAAAAGAAAGAAGAAAG
1 AAAAAGAAAGAAGAAAG
33314138 GGAAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAGAAGAAAGA
Found at i:33314147 original size:24 final size:24
Alignment explanation
Indices: 33314084--33314149 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
33314074 GGCTCGGCCC
33314084 GAAGA-AGAAA-AAAAGAAGAAAAA
1 GAAGAGAGAAAGAAAA-AAGAAAAA
33314107 GAAGGAGAGAAAGAAAAAAGAAAGAA
1 GAA-GAGAGAAAGAAAAAAGAAA-AA
*
33314133 GAA-AGGGAAAGAAAAAA
1 GAAGAGAGAAAGAAAAAA
33314150 TAGAAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 3 0.08
24 15 0.39
25 11 0.29
26 9 0.24
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (24 bp):
GAAGAGAGAAAGAAAAAAGAAAAA
Found at i:33314170 original size:28 final size:27
Alignment explanation
Indices: 33314088--33314170 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 27
33314078 CGGCCCGAAG
*
33314088 AAGAAAAAAAGAAGAAAAAGAAGGAGAGA
1 AAGAAAAAAAGAAAAAAAAGAA--AGAGA
* *
33314117 AAG-AAAAAAG--AAAGAAGAAAGGGA
1 AAGAAAAAAAGAAAAAAAAGAAAGAGA
*
33314141 AAGAAAAAATAGAAAAAAAAGAAATAGA
1 AAGAAAAAA-AGAAAAAAAAGAAAGAGA
33314169 AA
1 AA
33314171 AGTCAGTTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 7 0.16
25 5 0.11
26 9 0.20
28 20 0.45
29 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (27 bp):
AAGAAAAAAAGAAAAAAAAGAAAGAGA
Found at i:33314508 original size:16 final size:15
Alignment explanation
Indices: 33314483--33314574 Score: 70
Period size: 15 Copynumber: 6.3 Consensus size: 15
33314473 GCAGCAGGCC
33314483 AAAAAA-AAGAAGAGA
1 AAAAAAGAAGAA-AGA
33314498 AAAAAAGAAG-AA-A
1 AAAAAAGAAGAAAGA
* * *
33314511 AGAATAGCAACCAAA-A
1 AAAAAAG-AA-GAAAGA
33314527 AGAAAAAGAAG--AGA
1 A-AAAAAGAAGAAAGA
*
33314541 AAAAAAGAAAAAAGA
1 AAAAAAGAAGAAAGA
33314556 AAAAAAGAAGAAAGA
1 AAAAAAGAAGAAAGA
33314571 AAAA
1 AAAA
33314575 GGGGCCCAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
13 15 0.25
14 5 0.08
15 28 0.46
16 9 0.15
17 4 0.07
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.01
Consensus pattern (15 bp):
AAAAAAGAAGAAAGA
Found at i:33314552 original size:26 final size:27
Alignment explanation
Indices: 33314495--33314573 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 27
33314485 AAAAAAGAAG
*
33314495 AGAAAAAAAGAAGAAAAGAATAGCAACCAAAA
1 AGAAAAAAAGAAG-AAAGAAAAG--A--AAAA
33314527 AGAAAAAGAAG-AGAAA-AAAAGAAAAA
1 AGAAAAA-AAGAAGAAAGAAAAGAAAAA
33314553 AGAAAAAAAGAAGAAAGAAAA
1 AGAAAAAAAGAAGAAAGAAAA
33314574 AGGGGCCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
25 3 0.07
26 16 0.37
27 4 0.09
28 1 0.02
30 4 0.09
31 3 0.07
32 9 0.21
33 3 0.07
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.01
Consensus pattern (27 bp):
AGAAAAAAAGAAGAAAGAAAAGAAAAA
Found at i:33314923 original size:21 final size:21
Alignment explanation
Indices: 33314898--33314937 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
33314888 GAAAATATTC
*
33314898 AAAAATTTTCGTGTTTTAAAA
1 AAAAATTCTCGTGTTTTAAAA
33314919 AAAAATTCTCGTGTTTTAA
1 AAAAATTCTCGTGTTTTAA
33314938 TAGAATCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (21 bp):
AAAAATTCTCGTGTTTTAAAA
Found at i:33315090 original size:18 final size:18
Alignment explanation
Indices: 33315067--33315324 Score: 95
Period size: 18 Copynumber: 14.7 Consensus size: 18
33315057 TCAACAAATT
33315067 CGTGTTTCAAAAAATTTC
1 CGTGTTTCAAAAAATTTC
33315085 CGTGTTTTC-AAAAATTT-
1 CGTG-TTTCAAAAAATTTC
* *
33315102 CATG--TCCAAAAA-TTC
1 CGTGTTTCAAAAAATTTC
* * * *
33315117 TCGTATTTC-ATAAGTTTT
1 -CGTGTTTCAAAAAATTTC
*
33315135 AGTG-TT-AAAAAATTTTC
1 CGTGTTTCAAAAAA-TTTC
33315152 CGTGTTTTCAACAAAATTT-
1 CGTG-TTTCAA-AAAATTTC
*
33315171 -GTGTTTC-TAAAA-TTC
1 CGTGTTTCAAAAAATTTC
*
33315186 TCGTATTTC-AAAAATTTC
1 -CGTGTTTCAAAAAATTTC
33315204 TCGTGTTTCAAAAAATTT-
1 -CGTGTTTCAAAAAATTTC
*
33315222 CGTGTTTTCAAAAAAAATGTTT
1 CGTG-TTTC--AAAAAAT-TTC
* *
33315244 CGTGTTT-TAAAAATTTT
1 CGTGTTTCAAAAAATTTC
* *
33315261 CGTGTTTC--TAAAGTTC
1 CGTGTTTCAAAAAATTTC
* *
33315277 TCGTATTTC-AAAATTTTC
1 -CGTGTTTCAAAAAATTTC
* *
33315295 CGTATTTAAAAAAATTAT-
1 CGTGTTTCAAAAAATT-TC
*
33315313 TGTGTTTCAAAA
1 CGTGTTTCAAAA
33315325 TTCTCGTGTT
Statistics
Matches: 183, Mismatches: 29, Indels: 56
0.68 0.11 0.21
Matches are distributed among these distances:
14 6 0.03
15 9 0.05
16 12 0.07
17 56 0.31
18 60 0.33
19 15 0.08
20 12 0.07
21 9 0.05
22 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.44
Consensus pattern (18 bp):
CGTGTTTCAAAAAATTTC
Found at i:33315095 original size:19 final size:17
Alignment explanation
Indices: 33315067--33315306 Score: 104
Period size: 17 Copynumber: 13.8 Consensus size: 17
33315057 TCAACAAATT
33315067 CGTGTTTCAAAAAATTTC
1 CGTGTTTC-AAAAATTTC
33315085 CGTGTTTTCAAAAATTT-
1 CGTG-TTTCAAAAATTTC
* *
33315102 CATG-TCCAAAAA-TTC
1 CGTGTTTCAAAAATTTC
* * * *
33315117 TCGTATTTCATAAGTTTT
1 -CGTGTTTCAAAAATTTC
* *
33315135 AGTG-TTAAAAAATTTTC
1 CGTGTTTCAAAAA-TTTC
33315152 CGTGTTTTCAACAAAATTT-
1 CGTG-TTTC-A-AAAATTTC
*
33315171 -GTGTTTCTAAAA-TTC
1 CGTGTTTCAAAAATTTC
*
33315186 TCGTATTTCAAAAATTTC
1 -CGTGTTTCAAAAATTTC
33315204 TCGTGTTTCAAAAAATTT-
1 -CGTGTTTC-AAAAATTTC
*
33315222 CGTGTTTTCAAAAAAAATGTTT
1 CGTG-TTTC---AAAAAT-TTC
* *
33315244 CGTGTTTTAAAAATTTT
1 CGTGTTTCAAAAATTTC
* *
33315261 CGTGTTTC-TAAAGTTC
1 CGTGTTTCAAAAATTTC
* *
33315277 TCGTATTTCAAAATTTTC
1 -CGTGTTTCAAAAATTTC
*
33315295 CGTATTT-AAAAA
1 CGTGTTTCAAAAA
33315307 AATTATTGTG
Statistics
Matches: 170, Mismatches: 30, Indels: 46
0.69 0.12 0.19
Matches are distributed among these distances:
14 4 0.02
15 11 0.06
16 16 0.09
17 58 0.34
18 43 0.25
19 14 0.08
20 11 0.06
21 9 0.05
22 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (17 bp):
CGTGTTTCAAAAATTTC
Found at i:33315194 original size:17 final size:17
Alignment explanation
Indices: 33315174--33315331 Score: 79
Period size: 17 Copynumber: 8.9 Consensus size: 17
33315164 AAAATTTGTG
*
33315174 TTTCTAAAATTCTCGTA
1 TTTCAAAAATTCTCGTA
*
33315191 TTTCAAAAATTTCTCGTG
1 TTTCAAAAA-TTCTCGTA
*
33315209 TTTCAAAAAATT-TCGTGT
1 TTTC-AAAAATTCTCGT-A
* *
33315227 TTTCAAAAAAAATGTTTCGTG
1 TTTC---AAAAAT-TCTCGTA
* * *
33315248 TTTTAAAAATTTTCGTG
1 TTTCAAAAATTCTCGTA
* *
33315265 TTTCTAAAGTTCTCGTA
1 TTTCAAAAATTCTCGTA
*
33315282 TTTC-AAAATTTTCCGTA
1 TTTCAAAAATTCT-CGTA
* * * *
33315299 TTTAAAAAAATTATTGTG
1 TTT-CAAAAATTCTCGTA
33315317 TTTC-AAAATTCTCGT
1 TTTCAAAAATTCTCGT
33315332 GTTTTTTTAA
Statistics
Matches: 112, Mismatches: 19, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
16 15 0.13
17 42 0.38
18 28 0.25
19 12 0.11
20 7 0.06
21 4 0.04
22 4 0.04
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (17 bp):
TTTCAAAAATTCTCGTA
Found at i:33315236 original size:20 final size:20
Alignment explanation
Indices: 33315213--33315256 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
33315203 CTCGTGTTTC
33315213 AAAAAA-TTTCGTGTTTTCAA
1 AAAAAAGTTTCGTGTTTT-AA
33315233 AAAAAATGTTTCGTGTTTTAA
1 AAAAAA-GTTTCGTGTTTTAA
33315254 AAA
1 AAA
33315257 TTTTCGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 5 0.23
22 11 0.50
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (20 bp):
AAAAAAGTTTCGTGTTTTAA
Found at i:33315278 original size:91 final size:91
Alignment explanation
Indices: 33315141--33315324 Score: 250
Period size: 91 Copynumber: 2.0 Consensus size: 91
33315131 TTTTAGTGTT
33315141 AAAAAATTTTCCGTGTTTTCAACAAAATTTGTGTTTCTAAAATTCTCGTATTTCAAAAATTTCTC
1 AAAAAATTTTCCGTGTTTTCAACAAAATTTGTGTTTCTAAAATTCTCGTATTTCAAAAATTTC-C
* *
33315206 GTGTTTCAAAAAATT-TCGTGTTTTCAA
65 GTATTTAAAAAAATTATCGTG-TTTCAA
* * *
33315233 AAAAAATGTTT-CGTGTTTT-AA-AAATTTTCGTGTTTCTAAAGTTCTCGTATTTCAAAATTTTC
1 AAAAAAT-TTTCCGTGTTTTCAACAAAATTT-GTGTTTCTAAAATTCTCGTATTTCAAAAATTTC
*
33315295 CGTATTTAAAAAAATTATTGTGTTTCAA
64 CGTATTTAAAAAAATTATCGTGTTTCAA
33315323 AA
1 AA
33315325 TTCTCGTGTT
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
90 28 0.34
91 37 0.45
92 15 0.18
93 3 0.04
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (91 bp):
AAAAAATTTTCCGTGTTTTCAACAAAATTTGTGTTTCTAAAATTCTCGTATTTCAAAAATTTCCG
TATTTAAAAAAATTATCGTGTTTCAA
Found at i:33315307 original size:51 final size:51
Alignment explanation
Indices: 33315235--33315331 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
33315225 GTTTTCAAAA
* * *
33315235 AAAATGTTTCGTGTTT-TAAAAATT-TTCGTGTTTCTAAAGTTCTCGTATTTC
1 AAAATGTTTCGTATTTAAAAAAATTATT-GTGTTTC-AAAATTCTCGTATTTC
33315286 AAAAT-TTTCCGTATTTAAAAAAATTATTGTGTTTCAAAATTCTCGT
1 AAAATGTTT-CGTATTTAAAAAAATTATTGTGTTTCAAAATTCTCGT
33315332 GTTTTTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
50 3 0.08
51 21 0.52
52 14 0.35
53 2 0.05
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (51 bp):
AAAATGTTTCGTATTTAAAAAAATTATTGTGTTTCAAAATTCTCGTATTTC
Found at i:33327635 original size:74 final size:74
Alignment explanation
Indices: 33327212--33327848 Score: 632
Period size: 75 Copynumber: 8.5 Consensus size: 74
33327202 CAAGAAATAT
*** * * *
33327212 TTTTCAATTTCTGTTTTT-TTTAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCT-TGGGCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCAC
33327275 A-TGCCAAGGTA
66 ACTG---AGGTA
* * *
33327286 TTTCTCAATTTCTGTTTTTCAAAAAAATTAACTCATAATGCGAGAGGTGGGTTGAGCCTCGGGTC
1 TTT-TCAATTTCTGTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTC
* *
33327351 ATATCCTAAGGTA
64 ACA--CTGAGGTA
* * * *
33327364 TTTTCAATTTCTATTTTTC-AAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGCCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCAC
33327428 ACTGAGGTA
66 ACTGAGGTA
* * * *
33327437 TTTTCAATTTCTGCTTTTCAAAAATATCAACTAATATTGCGAGAGGTAAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAA-ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCA
33327502 CACTGAGGTA
65 CACTGAGGTA
* *
33327512 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCA
33327577 CATGCTGAGGTA
65 CA--CTGAGGTA
* *
33327589 TATTTTAA-TT-T-TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTG
1 T-TTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGG-T-
*
33327651 CACACCGAGGTA
63 CACACTGAGGTA
* ** * *
33327663 TTTTTAATTTC--TTTTAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGCTAT
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-AGGT-C
* * *
33327726 ACGCCGAGGAA
64 ACACTGAGGTA
* * * * *
33327737 TTTTTAATTTCTGTTTTTC-AAAAATCAACTTATATTGCAAGAGGTGAGTTGAGCCTTAGGTC-C
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCAC
* *
33327800 TATGTCGAGGTGT
66 -A-CT-GAGGT-A
* **
33327813 TTTTCAATTTCTATTTTTC-AAATGTCAACTCATAAT
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAAT
33327849 CTGATAAGTG
Statistics
Matches: 480, Mismatches: 59, Indels: 46
0.82 0.10 0.08
Matches are distributed among these distances:
72 1 0.00
73 30 0.06
74 124 0.26
75 204 0.43
76 44 0.09
77 58 0.12
78 18 0.04
81 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCAC
ACTGAGGTA
Found at i:33327927 original size:15 final size:15
Alignment explanation
Indices: 33327907--33327936 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
33327897 TCAAGCTTTC
33327907 AAAAAATATAGACAAA
1 AAAAAAT-TAGACAAA
33327923 AAAAAATTAGACAA
1 AAAAAATTAGACAA
33327937 TCGAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAAAATTAGACAAA
Found at i:33328232 original size:30 final size:29
Alignment explanation
Indices: 33328183--33328314 Score: 88
Period size: 30 Copynumber: 4.4 Consensus size: 29
33328173 CAAAAAATAT
*
33328183 AAATTACATTTT-AGTCCCTAAACTTTTCAA
1 AAATTACATTTTGA-CCCCTAAA-TTTTCAA
* *
33328213 AAATTACATTTTGACCCCTAATTTTTTCTA
1 AAATTACATTTTGACCCCTAA-ATTTTCAA
* * * * **
33328243 AATTTACATCTTAACCCCTAATAATTT-GT
1 AAATTACATTTTGACCCCTAA-ATTTTCAA
* * * *
33328272 AAATTACATTTAGACCCTTAAAATTTCTAG
1 AAATTACATTTTGACCCCTAAATTTTC-AA
33328302 AAATTACATTTTG
1 AAATTACATTTTG
33328315 GCCACATATT
Statistics
Matches: 80, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
28 5 0.06
29 16 0.20
30 58 0.73
31 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.42
Consensus pattern (29 bp):
AAATTACATTTTGACCCCTAAATTTTCAA
Found at i:33328288 original size:29 final size:29
Alignment explanation
Indices: 33328213--33328312 Score: 105
Period size: 30 Copynumber: 3.4 Consensus size: 29
33328203 AACTTTTCAA
* **
33328213 AAATTACATTTTGACCCCTAATTTTTTCT
1 AAATTACATTTAGACCCCTAATAATTTCT
*
33328242 AAATTTACATCTTA-ACCCCTAATAATTTGT
1 AAA-TTACAT-TTAGACCCCTAATAATTTCT
*
33328272 AAATTACATTTAGACCCTTAA-AATTTCT
1 AAATTACATTTAGACCCCTAATAATTTCT
33328300 AGAAATTACATTT
1 --AAATTACATTT
33328313 TGGCCACATA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
28 9 0.15
29 16 0.27
30 33 0.55
31 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (29 bp):
AAATTACATTTAGACCCCTAATAATTTCT
Found at i:33329437 original size:13 final size:13
Alignment explanation
Indices: 33329419--33329443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33329409 AGCAGGCCAA
33329419 AAAAAAAGAAGAG
1 AAAAAAAGAAGAG
33329432 AAAAAAAGAAGA
1 AAAAAAAGAAGA
33329444 AAAGAATAGC
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAGAG
Found at i:33329438 original size:16 final size:16
Alignment explanation
Indices: 33329417--33329508 Score: 62
Period size: 16 Copynumber: 5.2 Consensus size: 16
33329407 GCAGCAGGCC
*
33329417 AAAAAAAAAGAAGAGA
1 AAAAAAAAAGAAAAGA
*
33329433 AAAAAAGAAGAAAAGA
1 AAAAAAAAAGAAAAGA
33329449 ATAGCAACCAAAAAGAAAAAGA
1 A-A--AA--AAAAAG-AAAAGA
33329471 AGAGGAAAAAAAGAAAA-A
1 A-A--AAAAAAAGAAAAGA
33329489 ATAAAAAAAAG-AAAGA
1 A-AAAAAAAAGAAAAGA
33329505 AAAA
1 AAAA
33329509 GGGGCCCAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
15 6 0.10
16 25 0.40
17 1 0.02
18 3 0.05
19 6 0.10
20 6 0.10
21 5 0.08
22 11 0.17
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAGAAAAGA
Found at i:33329446 original size:21 final size:20
Alignment explanation
Indices: 33329420--33329508 Score: 83
Period size: 20 Copynumber: 4.2 Consensus size: 20
33329410 GCAGGCCAAA
33329420 AAAAAAGAAGAGAAAAAAAG
1 AAAAAAGAAGAGAAAAAAAG
*
33329440 AAGAAAAGAATAGCAACCAAAAAG
1 AA-AAAAGAAGAG-AA--AAAAAG
33329464 -AAAAAGAAGAGGAAAAAAAG
1 AAAAAAGAAGA-GAAAAAAAG
* *
33329484 AAAAAATAA-AAAAAAGAAAG
1 AAAAAAGAAGAGAAAA-AAAG
33329504 AAAAA
1 AAAAA
33329509 GGGGCCCAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
19 4 0.07
20 18 0.31
21 16 0.28
22 12 0.21
23 2 0.03
24 6 0.10
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.02
Consensus pattern (20 bp):
AAAAAAGAAGAGAAAAAAAG
Found at i:33329866 original size:20 final size:19
Alignment explanation
Indices: 33329833--33329871 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
33329823 GAAAATATTC
*
33329833 AAAAAATTTTGTGTTTTAA
1 AAAAAATTTCGTGTTTTAA
33329852 AAAAAATTCTCGTGTTTTAA
1 AAAAAATT-TCGTGTTTTAA
33329872 TAGAATCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (19 bp):
AAAAAATTTCGTGTTTTAA
Found at i:33330108 original size:17 final size:17
Alignment explanation
Indices: 33330088--33330130 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
33330078 AAAATTTGTG
33330088 TTTCTAAAA-TTCTCGTA
1 TTTC-AAAATTTCTCGTA
*
33330105 TTTCAAAAATTTCTCGTG
1 TTTC-AAAATTTCTCGTA
33330123 TTTCAAAA
1 TTTCAAAA
33330131 AATTTCGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (17 bp):
TTTCAAAATTTCTCGTA
Found at i:33330138 original size:17 final size:17
Alignment explanation
Indices: 33329991--33330148 Score: 105
Period size: 18 Copynumber: 9.2 Consensus size: 17
33329981 CTAAAAAAAT
*
33329991 AAAAAAATTCGTGTTTC
1 AAAAAATTTCGTGTTTC
*
33330008 -AAAAATTTCATG--TC
1 AAAAAATTTCGTGTTTC
* *
33330022 CAAAAATTCTCGTATTTC
1 AAAAAATT-TCGTGTTTC
* * *
33330040 ATAAATTTTTGTG-TT-
1 AAAAAATTTCGTGTTTC
33330055 AAAAAATTTTCCGTGTTTTC
1 AAAAAA-TTT-CGTG-TTTC
33330075 AACAAAATTT-GTGTTTC
1 AA-AAAATTTCGTGTTTC
* *
33330092 -TAAAATTCTCGTATTTC
1 AAAAAATT-TCGTGTTTC
*
33330109 AAAAATTTCTCGTGTTTC
1 AAAAAATT-TCGTGTTTC
33330127 AAAAAATTTCGTGTTTTC
1 AAAAAATTTCGTG-TTTC
33330145 AAAA
1 AAAA
33330149 TAAAAAAAGT
Statistics
Matches: 109, Mismatches: 18, Indels: 27
0.71 0.12 0.18
Matches are distributed among these distances:
14 2 0.02
15 17 0.16
16 19 0.17
17 21 0.19
18 39 0.36
19 2 0.02
20 5 0.05
21 4 0.04
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.42
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTC
Found at i:33330149 original size:35 final size:33
Alignment explanation
Indices: 33329991--33330149 Score: 89
Period size: 35 Copynumber: 4.7 Consensus size: 33
33329981 CTAAAAAAAT
* * *
33329991 AAAAAAATTCGTG-TTTCAAAAATTTCATG-TC
1 AAAAAATTTCGTGATTTCAAAATTTTCGTGTTC
* *
33330022 CAAAAATTCTCGT-ATTTCATAAATTTTTGTGTT-
1 AAAAAATT-TCGTGATTTCA-AAATTTTCGTGTTC
* *
33330055 AAAAAATTTTCCGTGTTTTCAACAAAATTT-GTGTTTC
1 AAAAAA-TTT-CGTGATTTC-A-AAATTTTCGTG-TTC
*
33330092 -TAAAATTCTCGT-ATTTCAAAAATTTCTCGTGTTTC
1 AAAAAATT-TCGTGATTTC-AAAATTT-TCGTG-TTC
*
33330127 AAAAAATTTCGTGTTTTCAAAAT
1 AAAAAATTTCGTGATTTCAAAAT
33330150 AAAAAAAGTT
Statistics
Matches: 99, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
31 6 0.06
32 9 0.09
33 19 0.19
34 13 0.13
35 28 0.28
36 24 0.24
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (33 bp):
AAAAAATTTCGTGATTTCAAAATTTTCGTGTTC
Found at i:33330156 original size:24 final size:25
Alignment explanation
Indices: 33330127--33330174 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
33330117 CTCGTGTTTC
33330127 AAAAAA-TTTCGTGTTTTCAAAATA
1 AAAAAAGTTTCGTGTTTTCAAAATA
33330151 AAAAAAGTTTCGTGTTTTCAAAAT
1 AAAAAAGTTTCGTGTTTTCAAAAT
33330175 TTCCGTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (25 bp):
AAAAAAGTTTCGTGTTTTCAAAATA
Found at i:33330173 original size:17 final size:16
Alignment explanation
Indices: 33330153--33330211 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
33330143 TCAAAATAAA
33330153 AAAAGTTTCGTGTTTTC
1 AAAAGTTTCGTG-TTTC
33330170 AAAA-TTTCCGTGTTTC
1 AAAAGTTT-CGTGTTTC
* *
33330186 TAAAGTTCTCGTATTTC
1 AAAAGTT-TCGTGTTTC
*
33330203 AAAATTTTC
1 AAAAGTTTC
33330212 CGTATTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 12 0.34
17 22 0.63
18 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (16 bp):
AAAAGTTTCGTGTTTC
Found at i:33330215 original size:17 final size:16
Alignment explanation
Indices: 33330166--33330222 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
33330156 AGTTTCGTGT
*
33330166 TTTCAAAATTTCCGTG
1 TTTCAAAATTTCCGTA
* *
33330182 TTTCTAAAGTTCTCGTA
1 TTTCAAAATTTC-CGTA
33330199 TTTCAAAATTTTCCGTA
1 TTTCAAAA-TTTCCGTA
33330216 TTT-AAAA
1 TTTCAAAA
33330223 AAAAATTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 14 0.41
17 17 0.50
18 3 0.09
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.46
Consensus pattern (16 bp):
TTTCAAAATTTCCGTA
Found at i:33337272 original size:23 final size:23
Alignment explanation
Indices: 33337246--33337291 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
33337236 AATAAAGGAG
*
33337246 ATAAACACAAAATTAGGATTTTC
1 ATAAACACAAAATCAGGATTTTC
*
33337269 ATAAACATAAAATCAGGATTTTC
1 ATAAACACAAAATCAGGATTTTC
33337292 GATGATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (23 bp):
ATAAACACAAAATCAGGATTTTC
Found at i:33337448 original size:13 final size:13
Alignment explanation
Indices: 33337409--33337450 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
33337399 TTGGATAAAA
*
33337409 AATTATTATACTT
1 AATTATTATATTT
33337422 AATT-TTAT-TATT
1 AATTATTATAT-TT
33337434 AATTATTATATTT
1 AATTATTATATTT
33337447 AATT
1 AATT
33337451 TTTGAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 10 0.40
13 14 0.56
14 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
AATTATTATATTT
Found at i:33338698 original size:17 final size:16
Alignment explanation
Indices: 33338655--33338699 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
33338645 TTAAATTTTT
33338655 ATATAATTTTTAAAAA
1 ATATAATTTTTAAAAA
33338671 A-ATTATATTTTTAAAAA
1 ATA-TA-ATTTTTAAAAA
*
33338688 ATATAAGTTTTA
1 ATATAATTTTTA
33338700 GAATTTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
17 14 0.56
18 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATAATTTTTAAAAA
Found at i:33338724 original size:19 final size:20
Alignment explanation
Indices: 33338695--33338750 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
33338685 AAAATATAAG
*
33338695 TTTTAGAATTTCTATAAA-TA
1 TTTTAGAATTT-TAAAAATTA
33338715 TTTT-GAATTTTAAAAATTA
1 TTTTAGAATTTTAAAAATTA
*
33338734 TTTTCAAAATTTTAAAA
1 TTTT-AGAATTTTAAAA
33338751 TTACTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 5 0.16
19 12 0.39
20 4 0.13
21 10 0.32
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTTAGAATTTTAAAAATTA
Found at i:33338766 original size:20 final size:20
Alignment explanation
Indices: 33338720--33338766 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
33338710 AAATATTTTG
* *
33338720 AATTTTAAAAATTATTTTCA
1 AATTTTTAAAATTACTTTCA
*
33338740 AAATTTTAAAATTACTTT-A
1 AATTTTTAAAATTACTTTCA
33338759 ATATTTTT
1 A-ATTTTT
33338767 GTAATTTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTTTTAAAATTACTTTCA
Found at i:33348894 original size:12 final size:12
Alignment explanation
Indices: 33348877--33348905 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
33348867 TCCAAAAATT
33348877 ACAAACTCTCAA
1 ACAAACTCTCAA
33348889 ACAAACTCTCAA
1 ACAAACTCTCAA
33348901 ACAAA
1 ACAAA
33348906 TCTGAAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.14
Consensus pattern (12 bp):
ACAAACTCTCAA
Found at i:33353301 original size:29 final size:29
Alignment explanation
Indices: 33353259--33353315 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
33353249 TGTGTCAGGC
33353259 TGTGTGGCAAACCGTGTGAGCCACACGGT
1 TGTGTGGCAAACCGTGTGAGCCACACGGT
*
33353288 TGTGTGGCAAACCGTGTGGGCCACACGG
1 TGTGTGGCAAACCGTGTGAGCCACACGG
33353316 CCTAGATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.19, C:0.25, G:0.37, T:0.19
Consensus pattern (29 bp):
TGTGTGGCAAACCGTGTGAGCCACACGGT
Found at i:33379956 original size:409 final size:409
Alignment explanation
Indices: 33379197--33380016 Score: 1631
Period size: 409 Copynumber: 2.0 Consensus size: 409
33379187 ACCCTAAACA
33379197 CAGATACAAAATACAGATGCAAAAATAACAGATTAAACATGCTTAACATGCTCGTATACAGATAA
1 CAGATACAAAATACAGATGCAAAAATAACAGATTAAACATGCTTAACATGCTCGTATACAGATAA
33379262 ATACATATTTAACAGTACAGTCAGGCATACATATCAGTTTCCTACTCAGGTTAGACTATCAGAGT
66 ATACATATTTAACAGTACAGTCAGGCATACATATCAGTTTCCTACTCAGGTTAGACTATCAGAGT
33379327 ATTAAATCACATCAAATAGGGTTTGGTTAGCCCTTACCAACCCTACTGTAGGTCCACAGTCGATA
131 ATTAAATCACATCAAATAGGGTTTGGTTAGCCCTTACCAACCCTACTGTAGGTCCACAGTCGATA
33379392 GGAACAACCCGTGCGACCCTAGGAAAGATTTTAGAATTTTGTGCCCCTATGCCCGTATGGGCTTA
196 GGAACAACCCGTGCGACCCTAGGAAAGATTTTAGAATTTTGTGCCCCTATGCCCGTATGGGCTTA
33379457 CACGTCCGGAATGGCCTTGCCTATGTGGCCCAGACGGCCTGGCCCAAAACCCACACGTCAGTGTG
261 CACGTCCGGAATGGCCTTGCCTATGTGGCCCAGACGGCCTGGCCCAAAACCCACACGTCAGTGTG
33379522 GCATGCCCGTGTGGGCCTACAGGTCTAACTTGGCCTAGCCTGTGTGGCCCATACGGCCACACTTA
326 GCATGCCCGTGTGGGCCTACAGGTCTAACTTGGCCTAGCCTGTGTGGCCCATACGGCCACACTTA
33379587 CACCGCCACACGGCCGCGT
391 CACCGCCACACGGCCGCGT
33379606 CAGATACAAAATACAGATGCAAAAATAACAGATTAAACATGCTTAACATGCTCGTATACAGATAA
1 CAGATACAAAATACAGATGCAAAAATAACAGATTAAACATGCTTAACATGCTCGTATACAGATAA
33379671 ATACATATTTAACAGTACAGTCAGGCATACATATCAGTTTCCTACTCAGGTTAGACTATCAGAGT
66 ATACATATTTAACAGTACAGTCAGGCATACATATCAGTTTCCTACTCAGGTTAGACTATCAGAGT
33379736 ATTAAATCACATCAAATAGGGTTTGGTTAGCCCTTACCAACCCTACTGTAGGTCCACAGTCGATA
131 ATTAAATCACATCAAATAGGGTTTGGTTAGCCCTTACCAACCCTACTGTAGGTCCACAGTCGATA
33379801 GGAACAACCCGTGCGACCCTAGGAAAGATTTTAGAATTTTGTGCCCCTATGCCCGTATGGGCTTA
196 GGAACAACCCGTGCGACCCTAGGAAAGATTTTAGAATTTTGTGCCCCTATGCCCGTATGGGCTTA
33379866 CACGTCCGGAATGGCCTTGCCTATGTGGCCCAGACGGCCTGGCCCAAAACCCACACGTCAGTGTG
261 CACGTCCGGAATGGCCTTGCCTATGTGGCCCAGACGGCCTGGCCCAAAACCCACACGTCAGTGTG
33379931 GCATGCCCGTGTGGGCCTACAGGTCTAACTTGGCCTAGCCTGTGTGGCCCATACGGCCACACTTA
326 GCATGCCCGTGTGGGCCTACAGGTCTAACTTGGCCTAGCCTGTGTGGCCCATACGGCCACACTTA
*
33379996 CACCGCCACACGGCCGTGT
391 CACCGCCACACGGCCGCGT
33380015 CA
1 CA
33380017 AGCGCACAAC
Statistics
Matches: 410, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
409 410 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (409 bp):
CAGATACAAAATACAGATGCAAAAATAACAGATTAAACATGCTTAACATGCTCGTATACAGATAA
ATACATATTTAACAGTACAGTCAGGCATACATATCAGTTTCCTACTCAGGTTAGACTATCAGAGT
ATTAAATCACATCAAATAGGGTTTGGTTAGCCCTTACCAACCCTACTGTAGGTCCACAGTCGATA
GGAACAACCCGTGCGACCCTAGGAAAGATTTTAGAATTTTGTGCCCCTATGCCCGTATGGGCTTA
CACGTCCGGAATGGCCTTGCCTATGTGGCCCAGACGGCCTGGCCCAAAACCCACACGTCAGTGTG
GCATGCCCGTGTGGGCCTACAGGTCTAACTTGGCCTAGCCTGTGTGGCCCATACGGCCACACTTA
CACCGCCACACGGCCGCGT
Found at i:33381370 original size:10 final size:10
Alignment explanation
Indices: 33381355--33381440 Score: 54
Period size: 9 Copynumber: 9.8 Consensus size: 10
33381345 CAAAATAACT
33381355 TTAAAAATTA
1 TTAAAAATTA
*
33381365 TT-AAAAGTA
1 TTAAAAATTA
33381374 ---AAAA-TA
1 TTAAAAATTA
*
33381380 TAAAAAATTA
1 TTAAAAATTA
33381390 -T-AAAATTA
1 TTAAAAATTA
33381398 TTAAAAATTA
1 TTAAAAATTA
33381408 -TAAAAACTTA
1 TTAAAAA-TTA
33381418 -T--AAATT-
1 TTAAAAATTA
33381424 TTAAAAA-TA
1 TTAAAAATTA
33381433 TTAAAAAT
1 TTAAAAAT
33381441 GCTTATAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 24
0.70 0.02 0.27
Matches are distributed among these distances:
6 2 0.03
7 7 0.11
8 11 0.18
9 27 0.44
10 15 0.24
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:33381403 original size:18 final size:17
Alignment explanation
Indices: 33381374--33381440 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 17
33381364 ATTAAAAGTA
*
33381374 AAAATATAAAAAATTAT
1 AAAATATTAAAAATTAT
33381391 AAAATTATTAAAAATTAT
1 AAAA-TATTAAAAATTAT
* *
33381409 AAAA-ACTTATAAATTTT
1 AAAATA-TTAAAAATTAT
33381426 AAAAATATTAAAAAT
1 -AAAATATTAAAAAT
33381441 GCTTATAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
16 1 0.02
17 13 0.31
18 27 0.64
19 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATATTAAAAATTAT
Found at i:33381445 original size:28 final size:27
Alignment explanation
Indices: 33381372--33381449 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 27
33381362 TTATTAAAAG
*
33381372 TAAAAATA-TAAAAAATTATAAAATTAT
1 TAAAAATATTAAAAACTTAT-AAATTAT
33381399 TAAAAAT-TATAAAAACTTATAAATT-T
1 TAAAAATAT-TAAAAACTTATAAATTAT
33381425 TAAAAATATTAAAAATGCTTATAAA
1 TAAAAATATTAAAAA--CTTATAAA
33381450 ANNNNNNNNN
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
26 14 0.31
27 13 0.29
28 18 0.40
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.35
Consensus pattern (27 bp):
TAAAAATATTAAAAACTTATAAATTAT
Found at i:33382386 original size:24 final size:24
Alignment explanation
Indices: 33382359--33382417 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
33382349 TAAATGATTT
* *
33382359 TTTTATAATTTCTAATTTTTTTAG-
1 TTTTATAATTTATAA-TTTATTAGA
33382383 TTTTATAATATTATAATTTATTAGA
1 TTTTATAAT-TTATAATTTATTAGA
33382408 TTTTA-AATTT
1 TTTTATAATTT
33382418 TTTTATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 2 0.06
24 19 0.61
25 10 0.32
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (24 bp):
TTTTATAATTTATAATTTATTAGA
Found at i:33382843 original size:17 final size:17
Alignment explanation
Indices: 33382821--33382855 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
33382811 TCTTTGGTTG
33382821 ATTGACCTTATCAAATC
1 ATTGACCTTATCAAATC
33382838 ATTGACCTTATCAAATC
1 ATTGACCTTATCAAATC
33382855 A
1 A
33382856 ATAATAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (17 bp):
ATTGACCTTATCAAATC
Found at i:33389401 original size:22 final size:22
Alignment explanation
Indices: 33389376--33389419 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33389366 AAAATATAAT
*
33389376 AGATATTAGTTGAATAGTTATG
1 AGATATTAGTTGAATAATTATG
33389398 AGATATTAGTTGAATAATTATG
1 AGATATTAGTTGAATAATTATG
33389420 TCTCTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (22 bp):
AGATATTAGTTGAATAATTATG
Found at i:33392846 original size:22 final size:24
Alignment explanation
Indices: 33392794--33392846 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
33392784 AATGGCAAGC
*
33392794 TTCATTTTTCCTTTTAATTTTGTT
1 TTCATTTTTCCTTTTAATTTTATT
*
33392818 TTC-TTTTT-CTTTTTA-TTTATT
1 TTCATTTTTCCTTTTAATTTTATT
33392839 TTCATTTT
1 TTCATTTT
33392847 CGATTAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 8 0.31
22 10 0.38
23 5 0.19
24 3 0.12
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (24 bp):
TTCATTTTTCCTTTTAATTTTATT
Found at i:33393079 original size:21 final size:21
Alignment explanation
Indices: 33393048--33393100 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
33393038 TCGTGTATCA
* *
33393048 TTTTAAGTTTTCATA-TATTG
1 TTTTAAATTTTAATACTATTG
33393068 TTATTAAATTTTAATACTTATTG
1 TT-TTAAATTTTAATAC-TATTG
33393091 TTTT-AATTTT
1 TTTTAAATTTT
33393101 GTGATAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 2 0.07
21 17 0.61
22 2 0.07
23 7 0.25
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (21 bp):
TTTTAAATTTTAATACTATTG
Done.