Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chrUn_random
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: 10571689
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 1662808 characters in sequence are not A, C, G, or T
File 21 of 30
Found at i:7407887 original size:20 final size:20
Alignment explanation
Indices: 7407862--7407900 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7407852 TGTGGCTTAT
7407862 TATATATATATAAATATTTA
1 TATATATATATAAATATTTA
7407882 TATATATATATAAATATTT
1 TATATATATATAAATATTT
7407901 TTATGTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATATATATAAATATTTA
Found at i:7410188 original size:19 final size:19
Alignment explanation
Indices: 7410161--7410198 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7410151 CCATTTGACT
7410161 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
7410180 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
7410199 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:7416448 original size:13 final size:13
Alignment explanation
Indices: 7416430--7416454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7416420 TTTCAGAAAA
7416430 TTTATAAAATCAT
1 TTTATAAAATCAT
7416443 TTTATAAAATCA
1 TTTATAAAATCA
7416455 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:7429461 original size:19 final size:19
Alignment explanation
Indices: 7429433--7429470 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7429423 CCATTTGACT
*
7429433 TATTGAAGTATGATTTGAG
1 TATTGAAGTATGAATTGAG
*
7429452 TATTGGAGTATGAATTGAG
1 TATTGAAGTATGAATTGAG
7429471 GTTAAGAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (19 bp):
TATTGAAGTATGAATTGAG
Found at i:7434995 original size:19 final size:19
Alignment explanation
Indices: 7434971--7435008 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7434961 ACTTATCAAC
*
7434971 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
7434990 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
7435009 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:7439001 original size:21 final size:20
Alignment explanation
Indices: 7438962--7439001 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7438952 AAGTGAGTTA
* *
7438962 TTTTAATTTTATGTTATTTC
1 TTTTAATTTGATATTATTTC
7438982 TTTTAATTTGATTATTATTT
1 TTTTAATTTGA-TATTATTT
7439002 ATTAGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTAATTTGATATTATTTC
Found at i:7440409 original size:23 final size:23
Alignment explanation
Indices: 7440366--7440410 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7440356 ACATTCAAAT
*
7440366 GTAATTAGAATTAGGATAAATTA
1 GTAATTAGAATTAGGAAAAATTA
*
7440389 GTAATT-GAATTTGGGAAAAATT
1 GTAATTAGAA-TTAGGAAAAATT
7440411 GACAATGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (23 bp):
GTAATTAGAATTAGGAAAAATTA
Found at i:7440645 original size:58 final size:58
Alignment explanation
Indices: 7440555--7440732 Score: 322
Period size: 58 Copynumber: 3.1 Consensus size: 58
7440545 CATAATCATC
* *
7440555 CAAAGTAGTTTGCATGTGATAGATTTATTTTATACAATTTAATAAATGCTATGCAATG
1 CAAAGTAGTATGCATGTGATAGATTTATTTTATACGATTTAATAAATGCTATGCAATG
*
7440613 CAAAGTAGTATGCATGTGATAGATTTATTTTATACGATTTAACAAATGCTATGCAATG
1 CAAAGTAGTATGCATGTGATAGATTTATTTTATACGATTTAATAAATGCTATGCAATG
7440671 CAAAGTAGTATGCATGTGATAGATTTATTTTATACGATTTAATAAATGCTATGC-ATG
1 CAAAGTAGTATGCATGTGATAGATTTATTTTATACGATTTAATAAATGCTATGCAATG
7440728 CAAAG
1 CAAAG
7440733 ATGAGACCTT
Statistics
Matches: 116, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
57 8 0.07
58 108 0.93
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (58 bp):
CAAAGTAGTATGCATGTGATAGATTTATTTTATACGATTTAATAAATGCTATGCAATG
Found at i:7445295 original size:73 final size:72
Alignment explanation
Indices: 7445210--7445354 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 72
7445200 AAATGAAGAT
7445210 TTTAGACTTTTAAACTCATTTTGAATATGAATTATGTGTTTTGTACTTGTATATTACGTTTTAGC
1 TTTAGACTTTTAAACTCATTTTGAATATGAATTATGTGTTTTGTACTTGTATATTACGTTTTAGC
7445275 CAGTTTC
66 CAGTTTC
7445282 NTTTAGACTTTTAAACTCATTTTGAATATGAATTATGTGTTTTGTACTTGTATATTACGTTTTAG
1 -TTTAGACTTTTAAACTCATTTTGAATATGAATTATGTGTTTTGTACTTGTATATTACGTTTTAG
7445347 CCAGTTTC
65 CCAGTTTC
7445355 GAAATTTTTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (72 bp):
TTTAGACTTTTAAACTCATTTTGAATATGAATTATGTGTTTTGTACTTGTATATTACGTTTTAGC
CAGTTTC
Found at i:7445637 original size:22 final size:22
Alignment explanation
Indices: 7445611--7445654 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7445601 TTCGATTGGT
*
7445611 ATCAAAGCTTTTGGTTTTAAAG
1 ATCAAAGCTTTTAGTTTTAAAG
*
7445633 ATCAAAGTTTTTAGTTTTAAAG
1 ATCAAAGCTTTTAGTTTTAAAG
7445655 TGGTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (22 bp):
ATCAAAGCTTTTAGTTTTAAAG
Found at i:7462573 original size:37 final size:38
Alignment explanation
Indices: 7462525--7462599 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
7462515 AGTAGATGCC
7462525 GATGATATATGCCATGTGCAGTGTGGGA-GCACATGAT
1 GATGATATATGCCATGTGCAGTGTGGGAGGCACATGAT
* * *
7462562 GATGATGTATGCCATGTTCGGTGTGGGAGTGCACATGA
1 GATGATATATGCCATGTGCAGTGTGGGAG-GCACATGA
7462600 GCTAAGTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 25 0.76
39 8 0.24
ACGTcount: A:0.24, C:0.13, G:0.35, T:0.28
Consensus pattern (38 bp):
GATGATATATGCCATGTGCAGTGTGGGAGGCACATGAT
Found at i:7467862 original size:20 final size:20
Alignment explanation
Indices: 7467837--7467882 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
7467827 TTTTGACCCC
7467837 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
7467857 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
7467877 ATTTGA
1 ATTTGA
7467883 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:7475285 original size:11 final size:12
Alignment explanation
Indices: 7475269--7475298 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
7475259 CTTTTCTTCC
7475269 TTTTCTCTC-TA
1 TTTTCTCTCGTA
7475280 TTTTCTCTCGTA
1 TTTTCTCTCGTA
7475292 TTTTCTC
1 TTTTCTC
7475299 CTTATGGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.07, C:0.27, G:0.03, T:0.63
Consensus pattern (12 bp):
TTTTCTCTCGTA
Found at i:7481144 original size:76 final size:76
Alignment explanation
Indices: 7481064--7481213 Score: 192
Period size: 76 Copynumber: 2.0 Consensus size: 76
7481054 AATAAAATGT
* * * * * * *
7481064 AAAACTCTATATATGACAAAAAAAAAAGAGTGAAAGGAGTATAAATTGAATAAATAACTAACTAG
1 AAAACTATATACATGACAAAAAAAAAAGAATAAAAGAAATATAAATTCAATAAATAACTAACTAG
7481129 ATTTAAATTGC
66 ATTTAAATTGC
* * * *
7481140 AAAACTATTTACATGACAGAAAAATAAGAATAAAAGAAATATAAATTCAATAAATAAGTAACTAG
1 AAAACTATATACATGACAAAAAAAAAAGAATAAAAGAAATATAAATTCAATAAATAACTAACTAG
*
7481205 GTTTAAATT
66 ATTTAAATT
7481214 TTTAGAATAC
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.26
Consensus pattern (76 bp):
AAAACTATATACATGACAAAAAAAAAAGAATAAAAGAAATATAAATTCAATAAATAACTAACTAG
ATTTAAATTGC
Found at i:7485317 original size:21 final size:21
Alignment explanation
Indices: 7485278--7485316 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
7485268 GAAGAGCCAA
*
7485278 TTTCCTTTTTTTCTGTTTTCT
1 TTTCCTTTTTTGCTGTTTTCT
7485299 TTTCC-TTTTTGCTGTTTT
1 TTTCCTTTTTTGCTGTTTT
7485317 TGTGGGCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.74
Consensus pattern (21 bp):
TTTCCTTTTTTGCTGTTTTCT
Found at i:7502956 original size:13 final size:14
Alignment explanation
Indices: 7502921--7502958 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
7502911 ATTTAGTTTA
*
7502921 AATTTTGGTTAATT
1 AATTTTAGTTAATT
7502935 AATTTTAGTTAATT
1 AATTTTAGTTAATT
7502949 AA-TTTAGTTA
1 AATTTTAGTTA
7502959 TTTGATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (14 bp):
AATTTTAGTTAATT
Found at i:7518739 original size:19 final size:19
Alignment explanation
Indices: 7518715--7518765 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
7518705 AGAATTCATT
7518715 TTCGCTGCAGCGAAATTTC
1 TTCGCTGCAGCGAAATTTC
7518734 TTCGCTGCAGCGAAATTTC
1 TTCGCTGCAGCGAAATTTC
*
7518753 CTCGCTGCAGCGA
1 TTCGCTGCAGCGA
7518766 GAAACAGTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (19 bp):
TTCGCTGCAGCGAAATTTC
Found at i:7519082 original size:43 final size:43
Alignment explanation
Indices: 7519032--7519114 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 43
7519022 CATCATTAGC
*
7519032 TCATGTGCACTTCC-TACTCGCACATAG-TCGGGTCATCATCGGT
1 TCATGTGCAC-TCCTTACTCACACATAGCT-GGGTCATCATCGGT
7519075 TCATGTGCACTCCTTACTCACACATAGCTGGGTCATCATC
1 TCATGTGCACTCCTTACTCACACATAGCTGGGTCATCATC
7519115 ATCACATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 3 0.08
43 33 0.89
44 1 0.03
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.30
Consensus pattern (43 bp):
TCATGTGCACTCCTTACTCACACATAGCTGGGTCATCATCGGT
Found at i:7526519 original size:22 final size:22
Alignment explanation
Indices: 7526485--7526527 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7526475 TTAAAAAAAC
* *
7526485 TTTAAACCCAAAAGCTTTGATT
1 TTTAAAACCAAAAGCTCTGATT
*
7526507 TTTAAAACTAAAAGCTCTGAT
1 TTTAAAACCAAAAGCTCTGAT
7526528 ACCACCTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (22 bp):
TTTAAAACCAAAAGCTCTGATT
Found at i:7531392 original size:38 final size:40
Alignment explanation
Indices: 7531303--7531408 Score: 135
Period size: 38 Copynumber: 2.7 Consensus size: 40
7531293 CACACTCGGC
* *
7531303 TCATGTACATCCCTCCACATCGTGCACATAGCCGGCGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCCAGCGCCA
** * * *
7531343 TTGTGTGCATCCCCCCACATCGTGCACA-A-TCAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCCAGCGCCA
7531381 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
7531409 CGGGCACTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 31 0.55
39 1 0.02
40 24 0.43
ACGTcount: A:0.23, C:0.40, G:0.16, T:0.22
Consensus pattern (40 bp):
TCATGTACATCCCCCCACATCGTGCACATAGCCAGCGCCA
Found at i:7535121 original size:13 final size:13
Alignment explanation
Indices: 7535103--7535127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7535093 AAGAGAAATG
7535103 TGATTTTATAAAA
1 TGATTTTATAAAA
7535116 TGATTTTATAAA
1 TGATTTTATAAA
7535128 TTTTCTAGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:7536959 original size:2 final size:2
Alignment explanation
Indices: 7536954--7536979 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7536944 ATATAAAATG
7536954 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7536980 AGAAAAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7537157 original size:2 final size:2
Alignment explanation
Indices: 7537141--7537177 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
7537131 TAAGTATAAT
*
7537141 TA TA TA AA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
7537178 AGAAAAGGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7537278 original size:198 final size:198
Alignment explanation
Indices: 7536927--7537322 Score: 760
Period size: 198 Copynumber: 2.0 Consensus size: 198
7536917 ATAAAGGGAT
7536927 ACATATAAGTATAAATTATATAAAATGTATATATATATATATATATATATATAAGAAAAGGGAAA
1 ACATATAAGTATAAATTATATAAAATGTATATATATATATATATATATATATAAGAAAAGGGAAA
7536992 ATTTAAATGTAGGAGAATGTTTATTAAAGGTGAGTGAAGCAAATATGCAAAAAAACAAAAATAGA
66 ATTTAAATGTAGGAGAATGTTTATTAAAGGTGAGTGAAGCAAATATGCAAAAAAACAAAAATAGA
7537057 ATGCTAAATGGAATATGTTTATAGTGATGGAGTTAAGAGATAATGATAACTATATAAAAATATAT
131 ATGCTAAATGGAATATGTTTATAGTGATGGAGTTAAGAGATAATGATAACTATATAAAAATATAT
7537122 AAA
196 AAA
7537125 NACATATAAGTAT-AATTATAT-AAATAGTATATATATATATATATATATATATAAGAAAAGGGA
1 -ACATATAAGTATAAATTATATAAAAT-GTATATATATATATATATATATATATAAGAAAAGGGA
7537188 AAATTTAAATGTAGGAGAATGTTTATTAAAGGTGAGTGAAGCAAATATGCAAAAAAACAAAAATA
64 AAATTTAAATGTAGGAGAATGTTTATTAAAGGTGAGTGAAGCAAATATGCAAAAAAACAAAAATA
7537253 GAATGCTAAATGGAATATGTTTATAGTGATGGAGTTAAGAGATAATGATAACTATATAAAAATAT
129 GAATGCTAAATGGAATATGTTTATAGTGATGGAGTTAAGAGATAATGATAACTATATAAAAATAT
7537318 ATAAA
194 ATAAA
7537323 TGAATGAAAT
Statistics
Matches: 196, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
197 4 0.02
198 180 0.92
199 12 0.06
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.30
Consensus pattern (198 bp):
ACATATAAGTATAAATTATATAAAATGTATATATATATATATATATATATATAAGAAAAGGGAAA
ATTTAAATGTAGGAGAATGTTTATTAAAGGTGAGTGAAGCAAATATGCAAAAAAACAAAAATAGA
ATGCTAAATGGAATATGTTTATAGTGATGGAGTTAAGAGATAATGATAACTATATAAAAATATAT
AAA
Found at i:7540833 original size:28 final size:29
Alignment explanation
Indices: 7540794--7540849 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
7540784 GACAAGTGTT
*
7540794 GGGTGTGTAAAATTACCATTTTGCCCCTG
1 GGGTGTGTAAAATGACCATTTTGCCCCTG
*
7540823 GGGTG-GTAAAATGACTATTTTGCCCCT
1 GGGTGTGTAAAATGACCATTTTGCCCCT
7540850 ATCCTCAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (29 bp):
GGGTGTGTAAAATGACCATTTTGCCCCTG
Found at i:7556617 original size:20 final size:20
Alignment explanation
Indices: 7556592--7556637 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
7556582 CCTCTAAACC
*
7556592 TCAAATCGTACTCCAATAAG
1 TCAAATCATACTCCAATAAG
* *
7556612 TCAAATTATACTGCAATAAG
1 TCAAATCATACTCCAATAAG
7556632 TCAAAT
1 TCAAAT
7556638 GGGGTCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:7559016 original size:280 final size:280
Alignment explanation
Indices: 7558484--7559044 Score: 1052
Period size: 280 Copynumber: 2.0 Consensus size: 280
7558474 TGTATTTTTT
* *
7558484 ATGTAACTTTCAAATTAATTATAAAAACTCATAATTTTAAGAGTTACATACCTTGCTTTGGATAT
1 ATGTAACTTTCAAATTAATTATAAAAACTCATAAGTTTAAGAGTTACATACCTTGCTTTAGATAT
*
7558549 CGTAATTAAGAGCCAATTAAATCCAAAATATTTGCTTATTCACCTTTAAGATTTGTCAAATCTTC
66 CGTAATCAAGAGCCAATTAAATCCAAAATATTTGCTTATTCACCTTTAAGATTTGTCAAATCTTC
7558614 CAGTCAGCCAAGTCTTTGGCCTCTAATAGTAATCCACATAGTGATCGAATAAAACCTTATCAAAG
131 CAGTCAGCCAAGTCTTTGGCCTCTAATAGTAATCCACATAGTGATCGAATAAAACCTTATCAAAG
*
7558679 GTAGGATTTTACTTGTGCTGGCAAGTTTTGTTTCTAAAACAAAAGACCAAAAGTTCTTGTCAAAT
196 GTAGGATTTTACTTGTGCTAGCAAGTTTTGTTTCTAAAACAAAAGACCAAAAGTTCTTGTCAAAT
7558744 CTTATTTTTGTCAAAGAAAG
261 CTTATTTTTGTCAAAGAAAG
* *
7558764 ANTGTAACTTTCAAATTAATTATGAACACTCATAAGTTTAAGAGTTACATACCTTGCTTTAGATA
1 A-TGTAACTTTCAAATTAATTATAAAAACTCATAAGTTTAAGAGTTACATACCTTGCTTTAGATA
7558829 TCGTAATCAAGAGCCAATTAAATCCAAAATATTTGCTTATTCACCTTTAAGATTTGTCAAATCTT
65 TCGTAATCAAGAGCCAATTAAATCCAAAATATTTGCTTATTCACCTTTAAGATTTGTCAAATCTT
7558894 -CAGTCAGCCAAGTCTTTGGCCTCTAATAGTAATCCACATAGTGATCGAATAAAACCTTATCAAA
130 CCAGTCAGCCAAGTCTTTGGCCTCTAATAGTAATCCACATAGTGATCGAATAAAACCTTATCAAA
7558958 GGTAGGATTTTACTTGTGCTAGCAAGTTTTGTTTCTAAAACAAAAGACCAAAAGTTCTTGTCAAA
195 GGTAGGATTTTACTTGTGCTAGCAAGTTTTGTTTCTAAAACAAAAGACCAAAAGTTCTTGTCAAA
7559023 TCTTATTTTTGTCAAAGAAAG
260 TCTTATTTTTGTCAAAGAAAG
7559044 A
1 A
7559045 AAATTATTTT
Statistics
Matches: 274, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
280 151 0.55
281 123 0.45
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (280 bp):
ATGTAACTTTCAAATTAATTATAAAAACTCATAAGTTTAAGAGTTACATACCTTGCTTTAGATAT
CGTAATCAAGAGCCAATTAAATCCAAAATATTTGCTTATTCACCTTTAAGATTTGTCAAATCTTC
CAGTCAGCCAAGTCTTTGGCCTCTAATAGTAATCCACATAGTGATCGAATAAAACCTTATCAAAG
GTAGGATTTTACTTGTGCTAGCAAGTTTTGTTTCTAAAACAAAAGACCAAAAGTTCTTGTCAAAT
CTTATTTTTGTCAAAGAAAG
Found at i:7561939 original size:123 final size:123
Alignment explanation
Indices: 7561782--7562028 Score: 478
Period size: 123 Copynumber: 2.0 Consensus size: 123
7561772 GGATTTCAAA
7561782 ATTTTCGAAAAAGAAAAAAAAAATGACTAAAATACCCCTGTGAGACAGAAATAAATTTTCATTGT
1 ATTTTCGAAAAAGAAAAAAAAAATGACTAAAATACCCCTGTGAGACAGAAATAAATTTTCATTGT
7561847 TTTTGGATGGGAAAATGGACCATATCGCTTCAAAACACGATTTTAGTTACTGTCGATC
66 TTTTGGATGGGAAAATGGACCATATCGCTTCAAAACACGATTTTAGTTACTGTCGATC
7561905 ANTTTTCGAAAAAG-AAAAAAAAATGACTAAAATACCCCTGTGAGACAGAAATAAATTTTCATTG
1 A-TTTTCGAAAAAGAAAAAAAAAATGACTAAAATACCCCTGTGAGACAGAAATAAATTTTCATTG
7561969 TTTTTGGATGGGAAAATGGACCATATCGCTTCAAAACACGATTTTAGTTACTGTCGATC
65 TTTTTGGATGGGAAAATGGACCATATCGCTTCAAAACACGATTTTAGTTACTGTCGATC
7562028 A
1 A
7562029 CAGGGGAGGT
Statistics
Matches: 123, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
123 111 0.90
124 12 0.10
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (123 bp):
ATTTTCGAAAAAGAAAAAAAAAATGACTAAAATACCCCTGTGAGACAGAAATAAATTTTCATTGT
TTTTGGATGGGAAAATGGACCATATCGCTTCAAAACACGATTTTAGTTACTGTCGATC
Found at i:7565385 original size:29 final size:29
Alignment explanation
Indices: 7565353--7565418 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
7565343 TAGGCCGAAC
*
7565353 CTTCTTTTCTCTTTTCTTCTTCCTCCTTT
1 CTTCTTTTCTCTTTTCTCCTTCCTCCTTT
* * *
7565382 CTTCCTTTCTCTTTTCTCCTTTCTTCTTT
1 CTTCTTTTCTCTTTTCTCCTTCCTCCTTT
*
7565411 CTCCTTTT
1 CTTCTTTT
7565419 TCCCTTTCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (29 bp):
CTTCTTTTCTCTTTTCTCCTTCCTCCTTT
Found at i:7565390 original size:22 final size:22
Alignment explanation
Indices: 7565365--7565417 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
7565355 TCTTTTCTCT
7565365 TTTCTTC-TTCCTCCTTTCTTCC
1 TTTCTTCTTTCCTCCTTTCTT-C
*
7565387 TTTC-TCTTTTCTCCTTTCTTC
1 TTTCTTCTTTCCTCCTTTCTTC
*
7565408 TTTCTCCTTT
1 TTTCTTCTTT
7565418 TTCCCTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTCTTCTTTCCTCCTTTCTTC
Found at i:7565395 original size:14 final size:14
Alignment explanation
Indices: 7565353--7565417 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
7565343 TAGGCCGAAC
*
7565353 CTTCTTTTCTCTTTT
1 CTTCCTTTCTC-TTT
*
7565368 CTT-CTTCCTCCTTT
1 CTTCCTTTCT-CTTT
7565382 CTTCCTTTCTCTTT
1 CTTCCTTTCTCTTT
7565396 -TCTCCTTTCTTCTTT
1 CT-TCCTTTC-TCTTT
7565411 C-TCCTTT
1 CTTCCTTT
7565418 TTCCCTTTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 1 0.02
14 27 0.64
15 14 0.33
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (14 bp):
CTTCCTTTCTCTTT
Found at i:7565405 original size:36 final size:36
Alignment explanation
Indices: 7565355--7565429 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
7565345 GGCCGAACCT
*
7565355 TCTTTTCTCTTTTCTTCTTCCTCCTTTCTT-CCTTTC
1 TCTTTTCTCCTTTCTTCTTCCTCCTTT-TTCCCTTTC
*
7565391 TCTTTTCTCCTTTCTTCTTTCTCCTTTTTCCCTTTC
1 TCTTTTCTCCTTTCTTCTTCCTCCTTTTTCCCTTTC
7565427 TCT
1 TCT
7565430 CTTTGCTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 2 0.06
36 34 0.94
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (36 bp):
TCTTTTCTCCTTTCTTCTTCCTCCTTTTTCCCTTTC
Found at i:7565933 original size:15 final size:15
Alignment explanation
Indices: 7565913--7565944 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7565903 TGGGGGTCCC
7565913 ACATGTCCCCCACTA
1 ACATGTCCCCCACTA
*
7565928 ACATGTCTCCCACTA
1 ACATGTCCCCCACTA
7565943 AC
1 AC
7565945 TTCTCTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.44, G:0.06, T:0.22
Consensus pattern (15 bp):
ACATGTCCCCCACTA
Found at i:7571470 original size:11 final size:11
Alignment explanation
Indices: 7571454--7571490 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
7571444 TAAGTTAATA
7571454 ATGTTATTTTT
1 ATGTTATTTTT
*
7571465 ATGTTATTTAT
1 ATGTTATTTTT
7571476 AT-TTATTTTT
1 ATGTTATTTTT
7571486 ATGTT
1 ATGTT
7571491 TTTGTAAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (11 bp):
ATGTTATTTTT
Found at i:7575257 original size:10 final size:11
Alignment explanation
Indices: 7575230--7575266 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
7575220 TAAGTTAATA
*
7575230 ATGTTAGTTTT
1 ATGTTATTTTT
7575241 ATGTTATTTTT
1 ATGTTATTTTT
7575252 AT-TTATTTTT
1 ATGTTATTTTT
7575262 ATGTT
1 ATGTT
7575267 TTTGTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (11 bp):
ATGTTATTTTT
Found at i:7590978 original size:21 final size:21
Alignment explanation
Indices: 7590954--7591005 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7590944 CATCTGTATG
*
7590954 AGGG-TTCTTCTCAACTGTACA
1 AGGGTTTC-TCTCAACTGCACA
*
7590975 AGGGTTTCTCTCAACTGCACG
1 AGGGTTTCTCTCAACTGCACA
7590996 AGGGTTTCTC
1 AGGGTTTCTC
7591006 GTTAAAACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (21 bp):
AGGGTTTCTCTCAACTGCACA
Found at i:7601415 original size:30 final size:30
Alignment explanation
Indices: 7601324--7601418 Score: 127
Period size: 30 Copynumber: 3.2 Consensus size: 30
7601314 TATTAAATTT
* ***
7601324 TTATATTTTTATATTGAGTCAAATAAATTT
1 TTATATTTTTATTTTGAGTCAAATAAACCC
**
7601354 TTATATTTTTATTTTGAGTCAAATAGTCCC
1 TTATATTTTTATTTTGAGTCAAATAAACCC
*
7601384 TTATATTTTTATTTTGAATCAAATAAACCC
1 TTATATTTTTATTTTGAGTCAAATAAACCC
7601414 TTATA
1 TTATA
7601419 ATTAATGATT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (30 bp):
TTATATTTTTATTTTGAGTCAAATAAACCC
Found at i:7608805 original size:14 final size:14
Alignment explanation
Indices: 7608786--7608822 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7608776 TAATGGCAAC
7608786 TTCTTACATCGGTA
1 TTCTTACATCGGTA
*
7608800 TTCTTACATTGGTA
1 TTCTTACATCGGTA
7608814 TTCTTACAT
1 TTCTTACAT
7608823 AAATGAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.49
Consensus pattern (14 bp):
TTCTTACATCGGTA
Found at i:7609842 original size:55 final size:54
Alignment explanation
Indices: 7609662--7609839 Score: 176
Period size: 55 Copynumber: 3.2 Consensus size: 54
7609652 TGAAGAGTTA
* * * * *
7609662 TTTTAGCATGTCACGGCTGTTACTGGCGTGTTGTGGGTTAACTAGTTATTTGGGT
1 TTTTAGCGTGTCACGGCTGTTCCTGG-GTGTCGTGGGTTAACTGGTTTTTTGGGT
* * * * * ** *
7609717 TGTTAGTGTGTCACGGTTGTTCTTAGGGTGTGGTGGGTTAACTGAATTTATGGGT
1 TTTTAGCGTGTCACGGCTGTTCCT-GGGTGTCGTGGGTTAACTGGTTTTTTGGGT
* * * *
7609772 TTTTGGCGTGTCATGGCTATTCCTGGTGTGTCGTGGGTTAACTGGTTTTTTAGGT
1 TTTTAGCGTGTCACGGCTGTTCCTGG-GTGTCGTGGGTTAACTGGTTTTTTGGGT
7609827 TTTTAGCGTGTCA
1 TTTTAGCGTGTCA
7609840 TGGATGTTGG
Statistics
Matches: 96, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
54 2 0.02
55 92 0.96
56 2 0.02
ACGTcount: A:0.13, C:0.11, G:0.33, T:0.43
Consensus pattern (54 bp):
TTTTAGCGTGTCACGGCTGTTCCTGGGTGTCGTGGGTTAACTGGTTTTTTGGGT
Found at i:7609905 original size:23 final size:23
Alignment explanation
Indices: 7609879--7609936 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
7609869 CAATGATTGA
*
7609879 CGTGTCACGACAGTGATGCATGG
1 CGTGTCACGACACTGATGCATGG
* *
7609902 CGTGTAACGATACTGATGCATGG
1 CGTGTCACGACACTGATGCATGG
7609925 CGTGTCACGACA
1 CGTGTCACGACA
7609937 TTTGACTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (23 bp):
CGTGTCACGACACTGATGCATGG
Found at i:7609952 original size:31 final size:31
Alignment explanation
Indices: 7609917--7609998 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
7609907 AACGATACTG
*
7609917 ATGCATGGCGTGTCACGACATTTGAC-TTGAT
1 ATGCATGGCGTGTCACAACATTTGACGTT-AT
* *
7609948 ATGCATGGCGTGTTACAACATTTTACGTTAT
1 ATGCATGGCGTGTCACAACATTTGACGTTAT
* *
7609979 TTGCATGGCGTGTAACAACA
1 ATGCATGGCGTGTCACAACA
7609999 CGACTGACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
31 43 0.96
32 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (31 bp):
ATGCATGGCGTGTCACAACATTTGACGTTAT
Found at i:7613516 original size:31 final size:31
Alignment explanation
Indices: 7613478--7613777 Score: 307
Period size: 31 Copynumber: 9.7 Consensus size: 31
7613468 ATAAATGTGA
7613478 GACACGCCATGCATAACAAGTAAAATATTGT
1 GACACGCCATGCATAACAAGTAAAATATTGT
* * *
7613509 GACACGCCGTGCATATCAAATAAAATATTGT
1 GACACGCCATGCATAACAAGTAAAATATTGT
* * * * **
7613540 AACACACCATTCATAACAAGAAAAATGA-AAT
1 GACACGCCATGCATAACAAGTAAAAT-ATTGT
* *
7613571 GACACGCCATGCATAACAAGTAAAATGTTAT
1 GACACGCCATGCATAACAAGTAAAATATTGT
* * *
7613602 GACACGCCATGCATAATAAGATAAACT-TGGT
1 GACACGCCATGCATAACAAG-TAAAATATTGT
* * * * *
7613633 GACACGCCAAGGATAACAAGCAAAATGTTTT
1 GACACGCCATGCATAACAAGTAAAATATTGT
* **
7613664 GACACGCCATGCGTAACAAGTAAAAGCTTGT
1 GACACGCCATGCATAACAAGTAAAATATTGT
* **
7613695 GACACGCCATGCATAACAAGTTAAACGTTGT
1 GACACGCCATGCATAACAAGTAAAATATTGT
* * *
7613726 GACACGCCATGCATAACAATTAAATTATTCT
1 GACACGCCATGCATAACAAGTAAAATATTGT
*
7613757 GACCCGCCATGCATAACAAGT
1 GACACGCCATGCATAACAAGT
7613778 TCTGGTGTGT
Statistics
Matches: 217, Mismatches: 48, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
30 4 0.02
31 207 0.95
32 6 0.03
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (31 bp):
GACACGCCATGCATAACAAGTAAAATATTGT
Found at i:7614399 original size:19 final size:21
Alignment explanation
Indices: 7614353--7614394 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
7614343 TCTTGGTATC
7614353 AAATTAATTGTGTATAGGCAAAA
1 AAATTAATTGTGTAT--GCAAAA
7614376 AAATTAATTGTGTAT-CAAA
1 AAATTAATTGTGTATGCAAA
7614395 TAATTGTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
23 15 0.79
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (21 bp):
AAATTAATTGTGTATGCAAAA
Found at i:7614460 original size:14 final size:15
Alignment explanation
Indices: 7614441--7614501 Score: 63
Period size: 14 Copynumber: 4.1 Consensus size: 15
7614431 TATATCTGTT
*
7614441 TACAATGAAT-TGTA
1 TACAATAAATGTGTA
7614455 TACAATAAATCGTGTA
1 TACAATAAAT-GTGTA
*
7614471 TACAAAAAATGTGTA
1 TACAATAAATGTGTA
* *
7614486 TAAAATGAAT-TGTA
1 TACAATAAATGTGTA
7614500 TA
1 TA
7614502 AAAAAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 15 0.38
15 12 0.30
16 13 0.32
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.33
Consensus pattern (15 bp):
TACAATAAATGTGTA
Found at i:7614472 original size:16 final size:15
Alignment explanation
Indices: 7614451--7614508 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
7614441 TACAATGAAT
*
7614451 TGTATACAATAAATCG
1 TGTATACAAAAAAT-G
7614467 TGTATACAAAAAATG
1 TGTATACAAAAAATG
*
7614482 TGTATA-AAATGAAT-
1 TGTATACAAA-AAATG
7614496 TGTATA-AAAAAAT
1 TGTATACAAAAAAT
7614509 TTATGTGTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
13 3 0.08
14 12 0.32
15 10 0.26
16 13 0.34
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (15 bp):
TGTATACAAAAAATG
Found at i:7614486 original size:31 final size:28
Alignment explanation
Indices: 7614451--7614508 Score: 71
Period size: 31 Copynumber: 2.0 Consensus size: 28
7614441 TACAATGAAT
*
7614451 TGTATACAATAAATCGTGTATACAAAAAATG
1 TGTATAAAATAAAT--TGTATA-AAAAAATG
*
7614482 TGTATAAAATGAATTGTATAAAAAAAT
1 TGTATAAAATAAATTGTATAAAAAAAT
7614509 TTATGTGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.28
29 6 0.24
31 12 0.48
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (28 bp):
TGTATAAAATAAATTGTATAAAAAAATG
Found at i:7614502 original size:14 final size:15
Alignment explanation
Indices: 7614451--7614508 Score: 59
Period size: 14 Copynumber: 3.9 Consensus size: 15
7614441 TACAATGAAT
*
7614451 TGTATACAATAAATCG
1 TGTATAAAATAAAT-G
7614467 TGTATACAAA-AAATG
1 TGTATA-AAATAAATG
*
7614482 TGTATAAAATGAAT-
1 TGTATAAAATAAATG
7614496 TGTATAAAA-AAAT
1 TGTATAAAATAAAT
7614509 TTATGTGTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 3 0.08
14 12 0.32
15 10 0.27
16 10 0.27
17 2 0.05
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (15 bp):
TGTATAAAATAAATG
Found at i:7616021 original size:31 final size:30
Alignment explanation
Indices: 7615979--7616344 Score: 186
Period size: 31 Copynumber: 11.8 Consensus size: 30
7615969 CACAACCCAT
*
7615979 AAAC-AGTAAAATGTTGTGACACGCAGTTCA
1 AAACAAGTAAAATGTTGTGACACGCA-TGCA
* * *
7616009 TACCAAGTAAAATGTTGTCACACGCCATGCA
1 AAACAAGTAAAATGTTGTGACACG-CATGCA
*
7616040 AAACAAGTAAAATGTCGTGACACGCCATGCA
1 AAACAAGTAAAATGTTGTGACACG-CATGCA
* * * *
7616071 TAACAAG-ACAAACT-TGGTGACACGCCAAGGA
1 AAACAAGTA-AAA-TGTTGTGACACG-CATGCA
* ** * *
7616102 TAATGAGGAAAATGTTGTGACACACCATGCA
1 AAACAAGTAAAATGTTGTGACAC-GCATGCA
* * * * *
7616133 TAACAAGATAAACT-TGGTGACACGCCAAGGA
1 AAACAAG-TAAAATGTTGTGACACG-CATGCA
* * * *
7616164 TAACTAGGAAAATGTTGTAACACGCCATGCA
1 AAACAAGTAAAATGTTGTGACACG-CATGCA
* *
7616195 AAATAATTAAAATGTTGTGACACGCCATGCA
1 AAACAAGTAAAATGTTGTGACACG-CATGCA
* * * * *
7616226 TAACAAGATAAACT-TGGTGACACGCCAAGGA
1 AAACAAG-TAAAATGTTGTGACACG-CATGCA
* * *
7616257 TAACAAGCAAAATGTTCTGACACGCCATGCA
1 AAACAAGTAAAATGTTGTGACACG-CATGCA
* * * * *
7616288 TATCAAAATCAAACGTTGTGACACGCCATG-A
1 AAAC-AAGTAAAATGTTGTGACACG-CATGCA
*
7616319 ATAACAAGTAAAATGTTGTGGCACGC
1 A-AACAAGTAAAATGTTGTGACACGC
7616345 TAAAGCTGAC
Statistics
Matches: 258, Mismatches: 64, Indels: 28
0.74 0.18 0.08
Matches are distributed among these distances:
30 13 0.05
31 210 0.81
32 35 0.14
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (30 bp):
AAACAAGTAAAATGTTGTGACACGCATGCA
Found at i:7616094 original size:62 final size:63
Alignment explanation
Indices: 7615983--7616326 Score: 274
Period size: 62 Copynumber: 5.5 Consensus size: 63
7615973 ACCCATAAAC
* * * * *
7615983 AGTAAAATGTTGTGACACG-CAGTTCATACCAAGTA-AAA-TGTTGTCACACGCCATGCAAAACA
1 AGTAAAATGTTGTGACACGCCA-TGCATAACAAG-ACAAACTGTGGTGACACGCCATGCATAACA
* * * **
7616045 AGTAAAATGTCGTGACACGCCATGCATAACAAGACAAACT-TGGTGACACGCCAAGGATAATG
1 AGTAAAATGTTGTGACACGCCATGCATAACAAGACAAACTGTGGTGACACGCCATGCATAACA
* * * * * *
7616107 AGGAAAATGTTGTGACACACCATGCATAACAAGATAAACT-TGGTGACACGCCAAGGATAACT
1 AGTAAAATGTTGTGACACGCCATGCATAACAAGACAAACTGTGGTGACACGCCATGCATAACA
* * * * * *
7616169 AGGAAAATGTTGTAACACGCCATGCAAAATAATTA-AAA-TGTTGTGACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACAA-GACAAACTGTGGTGACACGCCATGCATAACA
* * * * * ** *
7616231 AGATAAACT-TGGTGACACGCCAAGGATAACAAG-CAAAATGTTCTGACACGCCATGCATATCAA
1 AG-TAAAATGTTGTGACACGCCATGCATAACAAGACAAACTGTGGTGACACGCCATGCATAAC-A
* * * *
7616294 AATCAAACGTTGTGACACGCCATGAATAACAAG
1 AGTAAAATGTTGTGACACGCCATGCATAACAAG
7616327 TAAAATGTTG
Statistics
Matches: 229, Mismatches: 43, Indels: 19
0.79 0.15 0.07
Matches are distributed among these distances:
61 5 0.02
62 193 0.84
63 31 0.14
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.20
Consensus pattern (63 bp):
AGTAAAATGTTGTGACACGCCATGCATAACAAGACAAACTGTGGTGACACGCCATGCATAACA
Found at i:7616138 original size:93 final size:93
Alignment explanation
Indices: 7616017--7616332 Score: 329
Period size: 93 Copynumber: 3.4 Consensus size: 93
7616007 CATACCAAGT
* * * * *
7616017 AAAATGTTGTCACACGCCATGCAAAACAAG-TAAAATGTCGTGACACGCCATGCATAACAAGACA
1 AAAATGTTGTGACACGCCATGCATAACAAGATAAAAT-TGGTGACACGCCAAGGATAACAAGACA
* * * * **
7616081 AACT-TGGTGACACGCCAAGGATAATGAGG
65 AA-TGTTGTGACACGCCATGCATAATAAAA
* * *
7616110 AAAATGTTGTGACACACCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACTAGGA-A
1 AAAATGTTGTGACACGCCATGCATAACAAGATAAAATTGGTGACACGCCAAGGATAAC-AAGACA
* * **
7616174 AATGTTGTAACACGCCATGCAAAATAATT
65 AATGTTGTGACACGCCATGCATAATAAAA
*
7616203 AAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAG-CAA
1 AAAATGTTGTGACACGCCATGCATAACAAGATAAAATTGGTGACACGCCAAGGATAACAAGAC-A
*
7616267 AATGTTCTGACACGCCATGCAT-ATCAAAA
65 AATGTTGTGACACGCCATGCATAAT-AAAA
* * *
7616296 TCAAACGTTGTGACACGCCATGAATAACAAG-TAAAAT
1 -AAAATGTTGTGACACGCCATGCATAACAAGATAAAAT
7616333 GTTGTGGCAC
Statistics
Matches: 189, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
92 5 0.03
93 149 0.79
94 35 0.19
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (93 bp):
AAAATGTTGTGACACGCCATGCATAACAAGATAAAATTGGTGACACGCCAAGGATAACAAGACAA
ATGTTGTGACACGCCATGCATAATAAAA
Found at i:7616932 original size:156 final size:155
Alignment explanation
Indices: 7616699--7617181 Score: 598
Period size: 156 Copynumber: 3.1 Consensus size: 155
7616689 CGATTGGGTC
* * * *
7616699 AACTACAATAACATATATAATTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCG
1 AACTGCAATTACATATATAATTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACCG
* * *
7616764 TTACAACTTTAATATCTTAACCGACGACTCGTTAGCAGT-T-TGCAGTGGAGT-TGGACCGATCG
66 TTACAACTTTAATATCTT-ACCGTCGACTCGTTAGCAATCTATG--GTGGAGTCT-GACCAATCG
*
7616826 GTGCTTCAGGACCTGTCGTCACTTTCGCA
127 GTGCTTCAGGACCTGTCGTCACTTCCGCA
* * *
7616855 TACTGCAATTACATATTTAATTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACTG
1 AACTGCAATTACATATATAATTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACCG
*
7616920 TTACAACTTTAATATCCTTACCGTCGGCTCGTTAGCAATCTATGGTGGAGTCTGACCAATCGGTG
66 TTACAACTTTAATAT-CTTACCGTCGACTCGTTAGCAATCTATGGTGGAGTCTGACCAATCGGTG
* *
7616985 CTTCAGGACCTGTTGTCGCTTCCGCA
130 CTTCAGGACCTGTCGTCACTTCCGCA
* * *
7617011 AACTGCAATTACATATATAACTGTGTTATTCAATAATCATGTTTGAAATTGGTGAACATTAACCG
1 AACTGCAATTACATATATAATTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACCG
* * * * **
7617076 TTACAACTTTAATATCTTTATCGTCGACTTGTTAGCTATCTACGGTTGG-G-CTAGACTGATCGG
66 TTACAACTTTAATATC-TTACCGTCGACTCGTTAGCAATCTATGG-TGGAGTCT-GACCAATCGG
* * * * *
7617139 TGCTTGAGAACCTATCGTCGCTTCCGTA
128 TGCTTCAGGACCTGTCGTCACTTCCGCA
*
7617167 AACTGTAATTACATA
1 AACTGCAATTACATA
7617182 AATTACTATG
Statistics
Matches: 287, Mismatches: 33, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
155 3 0.01
156 274 0.95
157 8 0.03
158 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (155 bp):
AACTGCAATTACATATATAATTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACCG
TTACAACTTTAATATCTTACCGTCGACTCGTTAGCAATCTATGGTGGAGTCTGACCAATCGGTGC
TTCAGGACCTGTCGTCACTTCCGCA
Found at i:7617224 original size:156 final size:155
Alignment explanation
Indices: 7616699--7617239 Score: 453
Period size: 156 Copynumber: 3.5 Consensus size: 155
7616689 CGATTGGGTC
* * * * * * * * * *
7616699 AACTACAATAACATATATAATTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCG
1 AACTGCAATTACATAAATAACTATGTTACTCAATAAACATATGTGAAATTG-AGAACATTAACCG
* * * * * *
7616764 TTACAACTTTAATAT-CTTAACCGACGACTCGTTAGCAGTTTGCAGTGGAGT-TGGACCGATCGG
65 TTACAACTTTAATATCCTT-ACCGTCGACTCGTTAGCAATCTACGGTGGAGTCT-GACCAATCGG
* * * *
7616827 TGCTTCAGGACCTGTCGTCACTTTCGCA
128 TGCTTCAGAACCTATCGTCGCTTCCGCA
* ** * * * * * * * *
7616855 TACTGCAATTACATATTTAATTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACTG
1 AACTGCAATTACATAAATAACTATGTTACTCAATAAACATATGTGAAATTG-AGAACATTAACCG
* *
7616920 TTACAACTTTAATATCCTTACCGTCGGCTCGTTAGCAATCTATGGTGGAGTCTGACCAATCGGTG
65 TTACAACTTTAATATCCTTACCGTCGACTCGTTAGCAATCTACGGTGGAGTCTGACCAATCGGTG
* * *
7616985 CTTCAGGACCTGTTGTCGCTTCCGCA
130 CTTCAGAACCTATCGTCGCTTCCGCA
* * * * * * *
7617011 AACTGCAATTACATATATAACTGTGTTATTCAATAATCATGTTTGAAATTGGTGAACATTAACCG
1 AACTGCAATTACATAAATAACTATGTTACTCAATAAACATATGTGAAATT-GAGAACATTAACCG
* * * * **
7617076 TTACAACTTTAATATCTTTATCGTCGACTTGTTAGCTATCTACGGTTGG-G-CTAGACTGATCGG
65 TTACAACTTTAATATCCTTACCGTCGACTCGTTAGCAATCTACGG-TGGAGTCT-GACCAATCGG
* *
7617139 TGCTTGAGAACCTATCGTCGCTTCCGTA
128 TGCTTCAGAACCTATCGTCGCTTCCGCA
* * * **
7617167 AACTGTAATTACATAAATTACTATGTTACTCGATAAACATATGTGAGAATAT-AGAACACAAACC
1 AACTGCAATTACATAAATAACTATGTTACTCAATAAACATATGTGA-AAT-TGAGAACATTAACC
*
7617231 GTTATAACT
64 GTTACAACT
7617240 GATCTTACCG
Statistics
Matches: 329, Mismatches: 49, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
155 2 0.01
156 315 0.96
157 11 0.03
158 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (155 bp):
AACTGCAATTACATAAATAACTATGTTACTCAATAAACATATGTGAAATTGAGAACATTAACCGT
TACAACTTTAATATCCTTACCGTCGACTCGTTAGCAATCTACGGTGGAGTCTGACCAATCGGTGC
TTCAGAACCTATCGTCGCTTCCGCA
Found at i:7618865 original size:31 final size:30
Alignment explanation
Indices: 7618827--7619048 Score: 252
Period size: 31 Copynumber: 7.2 Consensus size: 30
7618817 AATAAGGAAT
7618827 AAATGTTGTGACACGCCATGCATTGCAA-TCA
1 AAATGTTGTGACACGCCATGCATT-CAAGT-A
7618858 AAATGTTGTGACACGCCATGCATTGCAA-TCA
1 AAATGTTGTGACACGCCATGCATT-CAAGT-A
*
7618889 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCAT-TCAAGTA
*
7618920 AAATGTTGTGACACGCCATGCATATCAAGTT
1 AAATGTTGTGACACGCCATGCAT-TCAAGTA
* *
7618951 AAACGTTATGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCAT-TCAAGTA
* * * *
7618982 AAATGCTGTCAAACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCAT-TCAAGTA
*
7619013 AAAT-TCTGTGACACGACATGCATATCAAGTA
1 AAATGT-TGTGACACGCCATGCAT-TCAAGTA
7619044 AAATG
1 AAATG
7619049 NNNNNNNNNN
Statistics
Matches: 170, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
31 169 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (30 bp):
AAATGTTGTGACACGCCATGCATTCAAGTA
Found at i:7618963 original size:93 final size:94
Alignment explanation
Indices: 7618827--7619046 Score: 292
Period size: 93 Copynumber: 2.4 Consensus size: 94
7618817 AATAAGGAAT
* *
7618827 AAATGTTGTGACACGCCATGCAT-TGCAA-TCAAAATGTTGTGACACGCCATGCAT-TGCAA-TC
1 AAATGTTGTGACACGCCATGCATAT-CAAGTCAAAACGTTATGACACGCCATGCATAT-CAAGT-
* * *
7618888 AAAATGTTGTGACACGCCATGCATAACAAGTA
63 AAAATGCTGTCAAACGCCATGCATAACAAGTA
*
7618920 AAATGTTGTGACACGCCATGCATATCAAGT-TAAACGTTATGACACGCCATGCATATCAAGTAAA
1 AAATGTTGTGACACGCCATGCATATCAAGTCAAAACGTTATGACACGCCATGCATATCAAGTAAA
7618984 ATGCTGTCAAACGCCATGCATAACAAGTA
66 ATGCTGTCAAACGCCATGCATAACAAGTA
*
7619013 AAAT-TCTGTGACACGACATGCATATCAAGT-AAAA
1 AAATGT-TGTGACACGCCATGCATATCAAGTCAAAA
7619047 TGNNNNNNNN
Statistics
Matches: 114, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
92 1 0.01
93 109 0.96
94 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (94 bp):
AAATGTTGTGACACGCCATGCATATCAAGTCAAAACGTTATGACACGCCATGCATATCAAGTAAA
ATGCTGTCAAACGCCATGCATAACAAGTA
Found at i:7629044 original size:64 final size:64
Alignment explanation
Indices: 7628966--7629106 Score: 174
Period size: 64 Copynumber: 2.2 Consensus size: 64
7628956 AATTCTCTTG
* * * *** * *
7628966 TCCAACAGAATTTCTGTCTGCAGTGTTTTCCAACAGAATTTTTGTTGGAAATCCATTGGAAATT
1 TCCAACGGATTTTCTGTCTGCAGTGTATTCCAACAGAATTTCCATTGGAAATCCATCGAAAATT
* * * *
7629030 TCCAACGGATTTTCTTTCTGCATTGTATTCCAACGGAATTTCCATTGGAAATCCGTCGAAAATT
1 TCCAACGGATTTTCTGTCTGCAGTGTATTCCAACAGAATTTCCATTGGAAATCCATCGAAAATT
7629094 TCCAACGGATTTT
1 TCCAACGGATTTT
7629107 TAATGTGAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (64 bp):
TCCAACGGATTTTCTGTCTGCAGTGTATTCCAACAGAATTTCCATTGGAAATCCATCGAAAATT
Found at i:7629292 original size:20 final size:20
Alignment explanation
Indices: 7629269--7629306 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7629259 AGGCTTTTTT
7629269 TTTGTATTGATT-GCTTTCGA
1 TTTG-ATTGATTAGCTTTCGA
*
7629289 TTTGATTGTTTAGCTTTC
1 TTTGATTGATTAGCTTTC
7629307 ATATGGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.13, C:0.11, G:0.18, T:0.58
Consensus pattern (20 bp):
TTTGATTGATTAGCTTTCGA
Found at i:7637571 original size:28 final size:28
Alignment explanation
Indices: 7637528--7637599 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
7637518 CTCTCACATA
* *
7637528 AAAATTCCATTGGAAAACAATCCAGGAAG
1 AAAATT-CGTTGGAAAACAATCCAAGAAG
* **
7637557 AAAATTCGTTGGAAATCAATGTAAGAAG
1 AAAATTCGTTGGAAAACAATCCAAGAAG
7637585 AAAA-TCTGTTGGAAA
1 AAAATTC-GTTGGAAA
7637600 GTTCCAACGG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.05
28 29 0.78
29 6 0.16
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.22
Consensus pattern (28 bp):
AAAATTCGTTGGAAAACAATCCAAGAAG
Found at i:7639592 original size:9 final size:9
Alignment explanation
Indices: 7639578--7639624 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
7639568 TATTAAAATT
7639578 TATAACAAA
1 TATAACAAA
*
7639587 TATAACAATT
1 TATAACAA-A
7639597 TCATTAACAAA
1 T-A-TAACAAA
7639608 TATAACAAA
1 TATAACAAA
7639617 TATAACAA
1 TATAACAA
7639625 GATAACATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 23 0.70
10 2 0.06
11 2 0.06
12 6 0.18
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.28
Consensus pattern (9 bp):
TATAACAAA
Found at i:7640401 original size:15 final size:15
Alignment explanation
Indices: 7640383--7640438 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
7640373 ATCTTCATCT
7640383 TCATCTCCTTCCATG
1 TCATCTCCTTCCATG
* *
7640398 TCATCTTCTT-CATCT
1 TCATCTCCTTCCAT-G
* *
7640413 TCATCTCTTTGCATG
1 TCATCTCCTTCCATG
*
7640428 TCATCTTCTTC
1 TCATCTCCTTC
7640439 ATCCATAATC
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
14 3 0.10
15 25 0.81
16 3 0.10
ACGTcount: A:0.12, C:0.34, G:0.05, T:0.48
Consensus pattern (15 bp):
TCATCTCCTTCCATG
Found at i:7640408 original size:30 final size:30
Alignment explanation
Indices: 7640374--7640441 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
7640364 TTCATCTCCA
7640374 TCTTCATCTTCATCTCCTTCCATGTCATCT
1 TCTTCATCTTCATCTCCTTCCATGTCATCT
* *
7640404 TCTTCATCTTCATCTCTTTGCATGTCATCT
1 TCTTCATCTTCATCTCCTTCCATGTCATCT
7640434 TCTTCATC
1 TCTTCATC
7640442 CATAATCAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.13, C:0.34, G:0.04, T:0.49
Consensus pattern (30 bp):
TCTTCATCTTCATCTCCTTCCATGTCATCT
Found at i:7651915 original size:25 final size:25
Alignment explanation
Indices: 7651887--7651936 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
7651877 AAAGAAAATG
* *
7651887 CAAGAGAAAAAAACTGAACCAAAAA
1 CAAGAGAAAAAAACCGAAACAAAAA
7651912 CAAGAGAAAAAAACCGAAACAAAAA
1 CAAGAGAAAAAAACCGAAACAAAAA
7651937 AATTAATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.70, C:0.16, G:0.12, T:0.02
Consensus pattern (25 bp):
CAAGAGAAAAAAACCGAAACAAAAA
Found at i:7660971 original size:20 final size:20
Alignment explanation
Indices: 7660946--7660991 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
7660936 TTTTGGCCTC
7660946 ATTTGACTTATTAGAGTATA
1 ATTTGACTTATTAGAGTATA
* *
7660966 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTAGAGTATA
7660986 ATTTGA
1 ATTTGA
7660992 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTAGAGTATA
Found at i:7666370 original size:32 final size:32
Alignment explanation
Indices: 7666334--7666395 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
7666324 CATTTGGATG
* * * *
7666334 ACGTGGCATTAAGATGATGACTTGGCAATGCC
1 ACGTGGCACTAACATGATGACGTGACAATGCC
*
7666366 ACGTGGTACTAACATGATGACGTGACAATG
1 ACGTGGCACTAACATGATGACGTGACAATG
7666396 TTGACATGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (32 bp):
ACGTGGCACTAACATGATGACGTGACAATGCC
Found at i:7673519 original size:36 final size:36
Alignment explanation
Indices: 7673479--7673549 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
7673469 AAAAGCAAAT
*
7673479 TACATGGAAATTAATCCAAACAAGAAAGAGATGAGA
1 TACATGGAAATTAAACCAAACAAGAAAGAGATGAGA
7673515 TACATGGAAATTAAACCAAACAAGAAAGAGATGAG
1 TACATGGAAATTAAACCAAACAAGAAAGAGATGAG
7673550 CATGAAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.54, C:0.11, G:0.20, T:0.15
Consensus pattern (36 bp):
TACATGGAAATTAAACCAAACAAGAAAGAGATGAGA
Found at i:7676386 original size:144 final size:144
Alignment explanation
Indices: 7676149--7678048 Score: 2452
Period size: 144 Copynumber: 13.2 Consensus size: 144
7676139 TGAAGAACAA
* * * * *
7676149 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTGGACCTGTGAAATTGTTTTGAAACAATTCA
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGACAATGCA
* * *
7676214 AG-GTCAGAAAGAGATCTTAACAATCCAATTGT-TTGGGGAATGGAACCAGAGAGTTTGTTGTTG
66 AGCAT-AGAAAGAGATCTTAACAACCCAATT-TCTTGAGGAATGGAACCAGAGAGTTTGTTGTTG
7676277 TAAAGGTAAAGAAATG
129 TAAAGGTAAAGAAATG
* *
7676293 ATAAATTTGTCAAATTTCCTATTGAAGCAGGGATT-GAACCTGTGAAATTGTTGTCAGACAATGC
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAG-ACCTGTGAAATTGTTGTCAGACAATGC
* *
7676357 AAGCCTAGAAAGAGATTTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGT
65 AAGCATAGAAAGAGATCTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGT
* **
7676422 AAAGGTAAACAAACC
130 AAAGGTAAAGAAATG
* * * *
7676437 ATAAATTTGTCAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTTAGACAA-GCT
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGACAATGC-
* * * * *
7676501 AAGCATAGAAAGAGATCTCAGCAATCCAATTTCTTGGGGAATGGAACTAGAGAGTTTGTTGTTGT
65 AAGCATAGAAAGAGATCTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGT
*
7676566 AAAGATAAAGAAAAT-
130 AAAGGTAAAG-AAATG
* *
7676581 ATAAGTTTGTCAAATTTCCTATTGAAGTTGGGATTGGACCTGTGAAATTGTTGTCAGACAAAT-C
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGAC-AATGC
* ** * *
7676645 AAG-ATTAGAAAGAGATTTTAACAACCCAATTTCTTGAGGAATAAAACCATAGAGCTTGTTGTTG
65 AAGCA-TAGAAAGAGATCTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTG
* * *
7676709 TCAAGATAAAGAAAAG
129 TAAAGGTAAAGAAATG
* * * *
7676725 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGAATTAGACCTATGAAATTGTTGTCAAACAATTCA
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGACAATGCA
* *
7676790 AG-ATCAGAAAGAGATCTTAACAACCCAATTTCTTGGGGGAATGGAACCAGAGAGTTTATTGTTG
66 AGCAT-AGAAAGAGATCTTAACAACCCAATTTCTT-GAGGAATGGAACCAGAGAGTTTGTTGTTG
*
7676854 GAAAGGTAAAG-AATGG
129 TAAAGGTAAAGAAAT-G
* * ** * * *
7676870 ATAAGTTTGTCAAATTTCCTATGGAGGCTGGGATTAGATTTGTGAAATTATTGTTATACAA-GCT
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGACAATGC-
*
7676934 AAGCATAGAAAGAGATCTTAGCAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGT
65 AAGCATAGAAAGAGATCTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGT
7676999 AAAGGTAAAGAAATG
130 AAAGGTAAAGAAATG
* * * *
7677014 ATAAATTTGTCAAATTTCCTATTGAAGTTGGAATTAGACCTATGAAATTGTTGTCAGACAATGCA
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGACAATGCA
* * * * *
7677079 AGCCTAGAAAGAGATTTTAACAATCCAATTTCTTGAGGAATGGAACCAGAGAGTTTATTGTTGGA
66 AGCATAGAAAGAGATCTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGTA
7677144 AAGGTAAAG-AATGG
131 AAGGTAAAGAAAT-G
* * ** * * *
7677158 ATAAGTTTGTCAAATTTCCTATGGAGGCTGGGATTAGATTTGTGAAATTATTGTTATACAA-GCT
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGACAATGC-
** *
7677222 AAGCATAGAAAGAGATCTTAGTAACCCAATTTCTTGGGGAATGGAACCAGAGAGTTTGTTGTTGT
65 AAGCATAGAAAGAGATCTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGT
7677287 AAAGGTAAAGAAATG
130 AAAGGTAAAGAAATG
* * * *
7677302 ATAAATTTGTCAAATTTCCTATTGAAGTTGGAATTAGACCTATGAAATTGTTGTCAGACAATGCA
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGACAATGCA
* * * *
7677367 AGCCTAGAAAGAGATTTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTATTGTTGGA
66 AGCATAGAAAGAGATCTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGTA
7677432 AAGGTAAAG-AATGG
131 AAGGTAAAGAAAT-G
* * ** * * *
7677446 ATAAGTTTGTCAAATTTCCTATGGAGGCTGGGATTAGATTTGTGAAATTATTGTTATACAA-GCT
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGACAATGC-
** *
7677510 AAGCATAGAAAGAGATCTTAGTAACCCAATTTCTTGGGGAATGGAACCAGAGAGTTTGTTGTTGT
65 AAGCATAGAAAGAGATCTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGT
7677575 AAAGGTAAAGAAATG
130 AAAGGTAAAGAAATG
* * * *
7677590 ATAAATTTGTCAAATTTCCTATTGAAGTTGGAATTAGACCTATGAAATTGTTGTCAGACAATGCA
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGACAATGCA
* *
7677655 AGCCTAGAAAGAGATTTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGTA
66 AGCATAGAAAGAGATCTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGTA
7677720 AAGGTAAAG-AATGG
131 AAGGTAAAGAAAT-G
* * * ** *
7677734 ATAAGTTTGTCAAATTTCCTATGGAGGCTGGGATTGGATTTGTGAAATTGTTGTTAGACAA-GCT
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGACAATGC-
* ** *
7677798 AAGCATAGAAAGAGATCTTAGCAACCCAATTTCTTGAGGAATAAAACCAGAGAGCTTGTTGTTGT
65 AAGCATAGAAAGAGATCTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGT
*
7677863 AAAGATAAAGAAAAT-
130 AAAGGTAAAG-AAATG
* * *
7677878 ATAAGTTTGTCAAATTTCCTATTGAAGTTGGGATTGGACCTGTGAAATTGTTGTTAGACAA-GTC
1 ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGACAATG-C
* * * * * *
7677942 AAACTTAGAAAGAGATTTTAGCAACCCAATTTCTTGAGGAATGAAACCAGAAAGTTTGTTGTTGT
65 AAGCATAGAAAGAGATCTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGT
7678007 AAAGGTAAAGAACA-G
130 AAAGGTAAAGAA-ATG
* *
7678022 ATAACTTTGTTAAATTTCCTATTGAAG
1 ATAAGTTTGTCAAATTTCCTATTGAAG
7678049 GAATACTTCC
Statistics
Matches: 1534, Mismatches: 189, Indels: 66
0.86 0.11 0.04
Matches are distributed among these distances:
143 29 0.02
144 1361 0.89
145 139 0.09
146 5 0.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (144 bp):
ATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTAGACCTGTGAAATTGTTGTCAGACAATGCA
AGCATAGAAAGAGATCTTAACAACCCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGTTGTA
AAGGTAAAGAAATG
Found at i:7682350 original size:15 final size:15
Alignment explanation
Indices: 7682317--7682364 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 15
7682307 TCCATTTTCG
7682317 TTTTCTTTTATCTACTTT
1 TTTTCTTTT-TCT--TTT
7682335 TTTTCTTTTTCTTTT
1 TTTTCTTTTTCTTTT
*
7682350 TTTTTTTTTTCTTTT
1 TTTTCTTTTTCTTTT
7682365 CTTCCTCTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 17 0.59
17 3 0.10
18 9 0.31
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTTCTTTT
Found at i:7682666 original size:19 final size:20
Alignment explanation
Indices: 7682642--7682680 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
7682632 AAGTGAGTTA
*
7682642 TTTTAATTTTA-TGTTATTT
1 TTTTAATTTGATTGTTATTT
7682661 TTTTAATTTGATTGTTATTT
1 TTTTAATTTGATTGTTATTT
7682681 ATTAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTTAATTTGATTGTTATTT
Found at i:7684776 original size:92 final size:92
Alignment explanation
Indices: 7684650--7684838 Score: 235
Period size: 92 Copynumber: 2.1 Consensus size: 92
7684640 TCATCCTTAA
*
7684650 TTAA-TGATTTTTTTATTAAATTAAAGAATCAACTAATTTTTA-T-TTTATTTCCTTATTAACAA
1 TTAATTGATTTTATTATTAAATTAAAGAATCAACTAATTTTTACTATTTATTTCCTTATTAAC-A
* *
7684712 TTGAACT-TCTTATTAAAGTAAATTTTTC
65 TTGAAGTCT-TTATTAAAGTAAATTGTTC
* *
7684740 TTAATTGATATTTATTATTAAATTAAA-ATATTAACTAATTTTTATCTATTTATTTCTTTATTAA
1 TTAATTGAT-TTTATTATTAAATTAAAGA-ATCAACTAATTTTTA-CTATTTATTTCCTTATTAA
*
7684804 CATTGAAGTCTTTATTGAAGTAAATTGTTC
63 CATTGAAGTCTTTATTAAAGTAAATTGTTC
*
7684834 CTAAT
1 TTAAT
7684839 AAAATTTAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
90 4 0.05
91 5 0.06
92 30 0.35
94 29 0.34
95 17 0.20
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (92 bp):
TTAATTGATTTTATTATTAAATTAAAGAATCAACTAATTTTTACTATTTATTTCCTTATTAACAT
TGAAGTCTTTATTAAAGTAAATTGTTC
Found at i:7684952 original size:33 final size:33
Alignment explanation
Indices: 7684910--7684977 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
7684900 ATTATAATCA
*
7684910 TCATGATTTATTTTCAATCACTTATACAAGAAT
1 TCATAATTTATTTTCAATCACTTATACAAGAAT
7684943 TCATAATTTATTTTCAATCACTTATACAAGAAT
1 TCATAATTTATTTTCAATCACTTATACAAGAAT
7684976 TC
1 TC
7684978 TTTGAACGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.43
Consensus pattern (33 bp):
TCATAATTTATTTTCAATCACTTATACAAGAAT
Found at i:7685128 original size:13 final size:13
Alignment explanation
Indices: 7685106--7685146 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
7685096 GATGAAAATA
7685106 TTACTAGTTTCTT
1 TTACTAGTTTCTT
*
7685119 TTATTAGTTTCTT
1 TTACTAGTTTCTT
7685132 TTACTAGTTTCTT
1 TTACTAGTTTCTT
7685145 TT
1 TT
7685147 TATGATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.12, G:0.07, T:0.66
Consensus pattern (13 bp):
TTACTAGTTTCTT
Found at i:7686776 original size:144 final size:144
Alignment explanation
Indices: 7686516--7687893 Score: 1984
Period size: 144 Copynumber: 9.6 Consensus size: 144
7686506 ACTAATATNT
* *
7686516 CCAATTTCTTG-GGAAATGGAACCAGAGAGTTTGTTGCTGTAAAAGTTAAGAACAGATAAGTTTG
1 CCAATTTCTTGAGG-AATGGAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAACAGATAAGTTTG
* * * * **
7686580 TCAAATTTCCCATTGAAGCTGGGATTAGACTTGTGAAATTGTTGTTGGACAATTCAAGGTCAGAA
65 TCAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTCAGACAATTCAAGGTCAGAA
*
7686645 AGAGATCTTAACAAA
130 AGAGATCTTAACAAC
* * * *
7686660 CCAATTTCTTGAGGAATGGAACTAGAGAGTTTGTTG-TAATAAAGGTTAAGAACGGATAAGTTTG
1 CCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGCT-GTAAAGGTAAAGAACAGATAAGTTTG
* * * *
7686724 TCAAATTTCCTATTGAAACTGGGATTGGACCTGTGAAATTGTTGTCAAACAATTCAAGATCAGAA
65 TCAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTCAGACAATTCAAGGTCAGAA
7686789 AGAGATCTTAACAAC
130 AGAGATCTTAACAAC
* * *
7686804 CCAATTTCTTGGGGAATGGAACCAGAGAGTTTGTTGCTGTAAAAGTTAAGAACAGATAAGTTTGT
1 CCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAACAGATAAGTTTGT
*
7686869 CAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGCTGTCAGACAATGT-AAGG-CTAGA
66 CAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTCAGACAAT-TCAAGGTC-AGA
7686932 AAGAGATCTTAACAAC
129 AAGAGATCTTAACAAC
* *
7686948 CCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGCTGTAAAAGTTAAGAACAGATAAGTTTGT
1 CCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAACAGATAAGTTTGT
* * * *
7687013 CAAATTTCCTATTGAAACTGGGATTGGACCTGTGAAATTGTTGTCAGACAATGCAAGGTTAGAAA
66 CAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTCAGACAATTCAAGGTCAGAAA
*
7687078 GAGATCTTAACAAT
131 GAGATCTTAACAAC
* * *
7687092 CCAATTTCTTGGGGAATGAAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAAAAGATAAGTTTGT
1 CCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAACAGATAAGTTTGT
7687157 CAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTCAGACAATGT-AAGG-CTAGA
66 CAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTCAGACAAT-TCAAGGTC-AGA
7687220 AAGAGATCTTAACAAC
129 AAGAGATCTTAACAAC
* *
7687236 CCAATTTCTTGGGGAATGGAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAAAAGATAAGTTTGT
1 CCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAACAGATAAGTTTGT
* *
7687301 CAAATTTCCTATTGAAGCTGGGATTGGACCTGTGAAATTGTTGTCAGACAATGCAAGG-CTAGAA
66 CAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTCAGACAATTCAAGGTC-AGAA
*
7687365 AGAGATCTTAACAAT
130 AGAGATCTTAACAAC
**
7687380 CCAATTTCTTG-GGAAATGGAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAATGGATAAGTTTG
1 CCAATTTCTTGAGG-AATGGAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAACAGATAAGTTTG
* * *
7687444 TCAAATTTCCTATTGAAGCAGGGATTGGACCTGTTAAATTGTTGTCAGACAATCCAAGATCAGAA
65 TCAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTCAGACAATTCAAGGTCAGAA
7687509 AGAGATCTTAACAAC
130 AGAGATCTTAACAAC
* ** * * * * * *
7687524 CCAATTTCTTGAGGAATGAAATTAGAGAGTTTGTTGTTATTAAGGTAAAGAACGGATAAGTGTAT
1 CCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAACAGATAAGTTTGT
* * * * * *
7687589 CATATTTCCTATTGAAGCCGGGATTGGACCTGTGAAATTATTGTAAGACAATTGAAGATCAGAAA
66 CAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTCAGACAATTCAAGGTCAGAAA
* *
7687654 GTGATCTTAACAAT
131 GAGATCTTAACAAC
* *
7687668 CCAATTTCTTGAGGAATGGAACTAGAGAGTTTGTTGTTGTAAAGGTAAAGAA-AGGATAAGTTTG
1 CCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAACA-GATAAGTTTG
* *
7687732 TCAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTTAGACAATGCAAGG-CTAGA
65 TCAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTCAGACAATTCAAGGTC-AGA
*
7687796 AAGAGATCTTAATAAC
129 AAGAGATCTTAACAAC
* * *
7687812 CCAATTTCTTGGGGAATGGAACCAGAGAGTTTGTTGTTGTAAAGGTAAAGAACAGATAAGTTTAT
1 CCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAACAGATAAGTTTGT
* *
7687877 TAAATTTCCTATCGAAG
66 CAAATTTCCTATTGAAG
7687894 GAATACTTCC
Statistics
Matches: 1127, Mismatches: 91, Indels: 32
0.90 0.07 0.03
Matches are distributed among these distances:
143 5 0.00
144 1114 0.99
145 8 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (144 bp):
CCAATTTCTTGAGGAATGGAACCAGAGAGTTTGTTGCTGTAAAGGTAAAGAACAGATAAGTTTGT
CAAATTTCCTATTGAAGCAGGGATTGGACCTGTGAAATTGTTGTCAGACAATTCAAGGTCAGAAA
GAGATCTTAACAAC
Found at i:7687198 original size:72 final size:71
Alignment explanation
Indices: 7687122--7687343 Score: 161
Period size: 72 Copynumber: 3.1 Consensus size: 71
7687112 ACCAGAGAGT
7687122 TTGTTGCTGTAAAGGTAAAGAAAAGATAAGTTTGTCAAATTTCCTATTGAAGCAGGGATTGGACC
1 TTGTTGCTGTAAAGGTAAAGAAAAGATAAGTTTGTCAAATTTCCTATTGAAGC-GGGATTGGACC
7687187 TGTGAAA
65 TGTGAAA
* * * * * ** * *** *
7687194 TTGTTGTCAG-ACAATGTAAGGCTAGAAAGA-GA-TCT-T-AACA-ACCCAATTTCTTG-GGGAA
1 TTGTTG-CTGTA-AAGGTAAAG--A-AAAGATAAGTTTGTCAA-ATTTCCTA-TTGAAGCGGGAT
* * **
7687252 TGGAACCAGAGAGT
59 TGG-ACCTGTGAAA
7687266 TTGTTGCTGTAAAGGTAAAGAAAAGATAAGTTTGTCAAATTTCCTATTGAAGCTGGGATTGGACC
1 TTGTTGCTGTAAAGGTAAAGAAAAGATAAGTTTGTCAAATTTCCTATTGAAGC-GGGATTGGACC
7687331 TGTGAAA
65 TGTGAAA
7687338 TTGTTG
1 TTGTTG
7687344 TCAGACAATG
Statistics
Matches: 102, Mismatches: 32, Indels: 32
0.61 0.19 0.19
Matches are distributed among these distances:
68 5 0.05
69 2 0.02
70 2 0.02
71 21 0.21
72 42 0.41
73 21 0.21
74 2 0.02
75 2 0.02
76 5 0.05
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (71 bp):
TTGTTGCTGTAAAGGTAAAGAAAAGATAAGTTTGTCAAATTTCCTATTGAAGCGGGATTGGACCT
GTGAAA
Found at i:7693180 original size:17 final size:17
Alignment explanation
Indices: 7693154--7693203 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
7693144 ATTGCTTATA
7693154 AAAAAT-ATAATAAAAT
1 AAAAATAATAATAAAAT
* *
7693170 AAAAATAATAATTAATT
1 AAAAATAATAATAAAAT
* *
7693187 AATAATAACAA-AAAAT
1 AAAAATAATAATAAAAT
7693203 A
1 A
7693204 TAGATAATTG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATAATAATAAAAT
Found at i:7698875 original size:16 final size:15
Alignment explanation
Indices: 7698853--7698905 Score: 70
Period size: 16 Copynumber: 3.4 Consensus size: 15
7698843 ATTAAAAATA
7698853 TTAATAATATATATT
1 TTAATAATATATATT
*
7698868 TTATATAAAATATATT
1 TTA-ATAATATATATT
*
7698884 TTGAATAATATATTTT
1 TT-AATAATATATATT
7698900 TTAATA
1 TTAATA
7698906 GGTTAGTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 7 0.21
16 25 0.76
17 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
TTAATAATATATATT
Found at i:7704646 original size:185 final size:186
Alignment explanation
Indices: 7704333--7704704 Score: 570
Period size: 185 Copynumber: 2.0 Consensus size: 186
7704323 GAACTAAGAG
**
7704333 TAAGAAATTCGATTGCACAATGCCAAATATAACTCTAATGTCCCAATACTTGGAAGATTAGGGAA
1 TAAGAAATTCGATTGCACAATGCCAAATATAACTCTAATGTCCCAATACTTGGAAGATTAGCAAA
* * * *
7704398 ACAATAAACTGTAATAGTTTTTGTGGCATTCATGGTATGGGTGGATGGCCAAAAGTAGGAAGTAA
66 ACAATAAACAGTAATAGGTTTTGTGGCATTCATGATATGGGTGGATGACCAAAAGTAGGAAGTAA
*
7704463 CTGTTCTT-TGAGTACACAGAAGCAAGTAAAGCC-AAAAAAAAAAAGAGAGTAGTAT
131 CAGTT-TTCTGAGTACACAGAAGCAAGTAAAGCCAAAAAAAAAAAAGAGAGTAGTAT
*
7704518 TAAGAAATTCGATTGCACAATGCCAAATATAACTCTAATGTCCCAGTACTTGGAAGATTAGCAAA
1 TAAGAAATTCGATTGCACAATGCCAAATATAACTCTAATGTCCCAATACTTGGAAGATTAGCAAA
* * * *
7704583 ACAATAAACAGTACTAGGTTTTGTGGCATTCA-GAATATGGGTGGATGACTAAATGTGGGAAGTA
66 ACAATAAACAGTAATAGGTTTTGTGGCATTCATG-ATATGGGTGGATGACCAAAAGTAGGAAGTA
* * *
7704647 ACAGTTTTCTGTGTACATAGAAGCAAGTAAAGCCAAAAAAAAAAAATAGAGTAGTAT
130 ACAGTTTTCTGAGTACACAGAAGCAAGTAAAGCCAAAAAAAAAAAAGAGAGTAGTAT
7704704 T
1 T
7704705 TAAAAGTTTG
Statistics
Matches: 169, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
184 3 0.02
185 144 0.85
186 22 0.13
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (186 bp):
TAAGAAATTCGATTGCACAATGCCAAATATAACTCTAATGTCCCAATACTTGGAAGATTAGCAAA
ACAATAAACAGTAATAGGTTTTGTGGCATTCATGATATGGGTGGATGACCAAAAGTAGGAAGTAA
CAGTTTTCTGAGTACACAGAAGCAAGTAAAGCCAAAAAAAAAAAAGAGAGTAGTAT
Found at i:7720934 original size:13 final size:13
Alignment explanation
Indices: 7720916--7720940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7720906 TACAAGATAA
7720916 TTAGAGAGAGAAT
1 TTAGAGAGAGAAT
7720929 TTAGAGAGAGAA
1 TTAGAGAGAGAA
7720941 GCTCTCAAGT
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:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (13 bp):
TTAGAGAGAGAAT
Found at i:7721179 original size:29 final size:29
Alignment explanation
Indices: 7721141--7721210 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
7721131 AGAAAAGAGG
7721141 TGTACAAGAATAGGTACAAGAGAAGAAGC
1 TGTACAAGAATAGGTACAAGAGAAGAAGC
* *
7721170 TGTACGAGAATAGGTACAAGAGAATAAGC
1 TGTACAAGAATAGGTACAAGAGAAGAAGC
* *
7721199 TATACATGAATA
1 TGTACAAGAATA
7721211 AGTATACTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.47, C:0.10, G:0.24, T:0.19
Consensus pattern (29 bp):
TGTACAAGAATAGGTACAAGAGAAGAAGC
Found at i:7721543 original size:35 final size:35
Alignment explanation
Indices: 7721495--7721571 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
7721485 GTACTTCACC
* * * *
7721495 TATTCTGCGTGAAGTAGCGCTTCACTTGTTCTAGT
1 TATTCTGCATGAAGTAACACTTCACTTATTCTAGT
*
7721530 TATTCTGCATGAAGTAACACTTCACTTATTCTGGT
1 TATTCTGCATGAAGTAACACTTCACTTATTCTAGT
*
7721565 CATTCTG
1 TATTCTG
7721572 TGTACAACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (35 bp):
TATTCTGCATGAAGTAACACTTCACTTATTCTAGT
Found at i:7723550 original size:43 final size:43
Alignment explanation
Indices: 7723487--7723579 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
7723477 TGCAATATCA
** *
7723487 TCATCATCGGCTCATATGCACT-CTCACACTTCACATAGCTGGG
1 TCATCATCGGCTCATATGCACTACT-ACACCGCACATAGCTAGG
*
7723530 TCATCATCAGG-TCATGTGCACTACTACACCGCACATAGCTAGG
1 TCATCATC-GGCTCATATGCACTACTACACCGCACATAGCTAGG
*
7723573 TCCTCAT
1 TCATCAT
7723580 TATCACACAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
43 39 0.91
44 4 0.09
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (43 bp):
TCATCATCGGCTCATATGCACTACTACACCGCACATAGCTAGG
Found at i:7725175 original size:25 final size:25
Alignment explanation
Indices: 7725141--7725200 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
7725131 AAATAGCTGT
7725141 GAGCAAAAAGTTACCACCTTGGAGC
1 GAGCAAAAAGTTACCACCTTGGAGC
7725166 GAGCAAAAAGTTACCACCTTGGAGC
1 GAGCAAAAAGTTACCACCTTGGAGC
*
7725191 AAGCAAAAAG
1 GAGCAAAAAG
7725201 CCAAAAGATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (25 bp):
GAGCAAAAAGTTACCACCTTGGAGC
Found at i:7728575 original size:25 final size:25
Alignment explanation
Indices: 7728538--7728586 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
7728528 CAACCTCCTG
*
7728538 CTGCAAAATGACACCCCTCACTATC
1 CTGCAAAAGGACACCCCTCACTATC
7728563 CTGCAAAAGGACACCCCTCACTAT
1 CTGCAAAAGGACACCCCTCACTAT
7728587 TGCCCTGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.39, G:0.10, T:0.18
Consensus pattern (25 bp):
CTGCAAAAGGACACCCCTCACTATC
Found at i:7730560 original size:2 final size:2
Alignment explanation
Indices: 7730553--7730585 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7730543 NNNNNNNNNN
7730553 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7730586 TCTATAGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7739695 original size:19 final size:19
Alignment explanation
Indices: 7739671--7739752 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
7739661 TTGCTTTAAA
7739671 AGATGCTTTTGCTTTGCAG
1 AGATGCTTTTGCTTTGCAG
* *
7739690 AGATGC-CTTGCAAATCT-CAG
1 AGATGCTTTTGC---TTTGCAG
* * *
7739710 GGATACTTTTGCTTTTCAG
1 AGATGCTTTTGCTTTGCAG
*
7739729 AGATGCTTTTGCTTTGTAG
1 AGATGCTTTTGCTTTGCAG
7739748 AGATG
1 AGATG
7739753 TCTTGAAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
18 6 0.12
19 29 0.60
20 7 0.15
21 6 0.12
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (19 bp):
AGATGCTTTTGCTTTGCAG
Found at i:7744408 original size:3 final size:3
Alignment explanation
Indices: 7744400--7744444 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
7744390 CCTTTCTTTC
7744400 CTT CTT CTT -TT -TT CTT -TT CTT CTT CTT CCTT -TT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT
7744442 CTT
1 CTT
7744445 TGGCTGGCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 8 0.21
3 27 0.71
4 3 0.08
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
CTT
Found at i:7744415 original size:18 final size:17
Alignment explanation
Indices: 7744392--7744445 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 17
7744382 ATCGGTCACC
7744392 TTTCTTTCCTTCTTCTTT
1 TTTCTTT-CTTCTTCTTT
7744410 TTTCTTTTCTTCTTCTTCCT
1 TTTC-TTTCTTCTTCTT--T
7744430 TTTC-TTCTTCTTCTTT
1 TTTCTTTCTTCTTCTTT
7744446 GGCTGGCCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.03
18 24 0.73
19 3 0.09
20 5 0.15
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTCTTTCTTCTTCTTT
Found at i:7744419 original size:15 final size:15
Alignment explanation
Indices: 7744401--7744442 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
7744391 CTTTCTTTCC
* *
7744401 TTCTTCTTTTTTCTT
1 TTCTTCTTCTTCCTT
7744416 TTCTTCTTCTTCCTT
1 TTCTTCTTCTTCCTT
7744431 TTCTTCTTCTTC
1 TTCTTCTTCTTC
7744443 TTTGGCTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTCTTCTTCTTCCTT
Found at i:7744818 original size:18 final size:17
Alignment explanation
Indices: 7744783--7744829 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
7744773 TACCCTTTCA
*
7744783 TTATTCA-TC-TTTTCT
1 TTATTCATTCATTTTAT
7744798 TTATTCATTTCATTTTAT
1 TTATTCA-TTCATTTTAT
*
7744816 TTATTTATTCATTT
1 TTATTCATTCATTT
7744830 ATTGTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 7 0.26
17 9 0.33
18 11 0.41
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTCATTCATTTTAT
Found at i:7744822 original size:22 final size:22
Alignment explanation
Indices: 7744797--7744838 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
7744787 TCATCTTTTC
7744797 TTTATTCATTTCATT-TTATTTA
1 TTTATTCATTT-ATTGTTATTTA
7744819 TTTATTCATTTATTGTTATT
1 TTTATTCATTTATTGTTATT
7744839 ATTATTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTATTCATTTATTGTTATTTA
Found at i:7748489 original size:19 final size:20
Alignment explanation
Indices: 7748467--7748517 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 20
7748457 TTCTATATTT
7748467 TATAGTTGTTTTGTGA-TGG
1 TATAGTTGTTTTGTGAGTGG
** *
7748486 TATA-AAGATTT-TGAGTGG
1 TATAGTTGTTTTGTGAGTGG
7748504 TATAGTTGTTTTGT
1 TATAGTTGTTTTGT
7748518 TTAACTATCA
Statistics
Matches: 23, Mismatches: 6, Indels: 5
0.68 0.18 0.15
Matches are distributed among these distances:
17 3 0.13
18 11 0.48
19 8 0.35
20 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (20 bp):
TATAGTTGTTTTGTGAGTGG
Found at i:7759775 original size:21 final size:22
Alignment explanation
Indices: 7759750--7759790 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7759740 CCTAGGTGGA
*
7759750 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
7759771 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
7759791 AAAAAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:7759791 original size:20 final size:21
Alignment explanation
Indices: 7759750--7759794 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
7759740 CCTAGGTGGA
*
7759750 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
7759771 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
7759791 AAAA
1 AAAA
7759795 AAAGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:7759795 original size:21 final size:20
Alignment explanation
Indices: 7759748--7759795 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
7759738 ACCCTAGGTG
*
7759748 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
7759768 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
7759790 GAAAAA
1 GAAAAA
7759796 AAGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:7764328 original size:28 final size:30
Alignment explanation
Indices: 7764287--7764351 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
7764277 GTCTATGGGC
* *
7764287 AATTTTTCAGTTTT-T-TGGGCAAAAATGT
1 AATTTTTCACTTTTATAGGGGCAAAAATGT
*
7764315 AATTTTTCACTTTTATAGGGGCAAAAGTGT
1 AATTTTTCACTTTTATAGGGGCAAAAATGT
*
7764345 AAATTTT
1 AATTTTT
7764352 AAAAATTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 13 0.42
29 1 0.03
30 17 0.55
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.45
Consensus pattern (30 bp):
AATTTTTCACTTTTATAGGGGCAAAAATGT
Found at i:7781428 original size:32 final size:33
Alignment explanation
Indices: 7781391--7781457 Score: 109
Period size: 32 Copynumber: 2.0 Consensus size: 33
7781381 ATACAATTTT
*
7781391 ATGTATATGAGTTAAT-ATATATGTTTACATAC
1 ATGTATATGAGTTAATAATATAAGTTTACATAC
7781423 ATGTATATGAGTTAATACATATAAGTTTACATAC
1 ATGTATATGAGTTAATA-ATATAAGTTTACATAC
7781457 A
1 A
7781458 ACTTTATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 16 0.50
34 16 0.50
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (33 bp):
ATGTATATGAGTTAATAATATAAGTTTACATAC
Found at i:7781431 original size:18 final size:16
Alignment explanation
Indices: 7781407--7781457 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
7781397 ATGAGTTAAT
7781407 ATATATGTTTACATAC
1 ATATATGTTTACATAC
*
7781423 ATGTATATGAGTTA-ATAC
1 A--TATATG-TTTACATAC
*
7781441 ATATAAGTTTACATAC
1 ATATATGTTTACATAC
7781457 A
1 A
7781458 ACTTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
15 3 0.11
16 11 0.39
18 11 0.39
19 3 0.11
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATATGTTTACATAC
Found at i:7788425 original size:15 final size:15
Alignment explanation
Indices: 7788405--7788455 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
7788395 TTCTTAAAAC
7788405 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
7788420 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
*
7788435 AGCTTTAAAACCAAA
1 AACTTTAAAACCAAA
*
7788450 ATCTTT
1 AACTTT
7788456 GATCTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 2 0.06
15 28 0.88
16 2 0.06
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:7790841 original size:28 final size:29
Alignment explanation
Indices: 7790783--7790846 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
7790773 GCAAATTTTT
** *
7790783 AAAAATTACACTTTTACCCCCGTAAAGTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
* *
7790812 AAAAATTACATTTTTA-TCCCAAAAACTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
7790840 AAAAATT
1 AAAAATT
7790847 GCCCATAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCCAAAAACTG
Found at i:7792324 original size:28 final size:28
Alignment explanation
Indices: 7792289--7792360 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
7792279 CTTATTTCTC
*
7792289 TTTCCAACGGAATTTCTGTATGCTTTGT
1 TTTCCAACGGAATTTCAGTATGCTTTGT
*
7792317 TTTCCAACGGATTTTCAGTATGCTTTGT
1 TTTCCAACGGAATTTCAGTATGCTTTGT
*
7792345 TTTCCAATGGAATTTC
1 TTTCCAACGGAATTTC
7792361 CACTGGAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (28 bp):
TTTCCAACGGAATTTCAGTATGCTTTGT
Found at i:7796700 original size:24 final size:22
Alignment explanation
Indices: 7796669--7796722 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
7796659 TGGTGAGTCC
*
7796669 AAGAGAGAGTGATGCAGAGAGGAG
1 AAGAGAGAGAG-TGCAG-GAGGAG
* *
7796693 GAGAGAGAGAGTGGAGGAGGAG
1 AAGAGAGAGAGTGCAGGAGGAG
7796715 AAGAGAGA
1 AAGAGAGA
7796723 AAATAGTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 13 0.50
23 4 0.15
24 9 0.35
ACGTcount: A:0.43, C:0.02, G:0.50, T:0.06
Consensus pattern (22 bp):
AAGAGAGAGAGTGCAGGAGGAG
Found at i:7796703 original size:16 final size:16
Alignment explanation
Indices: 7796684--7796721 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7796674 AGAGTGATGC
7796684 AGAGAGGAGGA-GAGA
1 AGAGAGGAGGAGGAGA
*
7796699 GAGAGTGGAGGAGGAGA
1 -AGAGAGGAGGAGGAGA
7796716 AGAGAG
1 AGAGAG
7796722 AAAATAGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.55, T:0.03
Consensus pattern (16 bp):
AGAGAGGAGGAGGAGA
Found at i:7799819 original size:36 final size:35
Alignment explanation
Indices: 7799716--7799971 Score: 212
Period size: 35 Copynumber: 7.3 Consensus size: 35
7799706 TTAATTGTTT
* * * *
7799716 AATTTAATTAATTAGACCCAATAATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATGACTTAATTAAAC
* * * ** *
7799751 AATTTAATTAATTAAGCTCAACAATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATGACTTAATTAAAC
* *
7799786 AATTTTAATCAACTAGGCCCAATGACTTGATTAAAC
1 AA-TTTAATCAATTAGGCCCAATGACTTAATTAAAC
* * ***
7799822 AAATTTAATCAATTAGGCCTAATAACTTAATTGTTC
1 -AATTTAATCAATTAGGCCCAATGACTTAATTAAAC
* *
7799858 AATTTAATTAATTAAGCCCAATGACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATGACTTAATTAAAC
* * * * *
7799893 AATTTAATTAATTAGGCTCAATGATTTAGTTAAAT
1 AATTTAATCAATTAGGCCCAATGACTTAATTAAAC
* * * *
7799928 AATTTAGTTAATTAGACAC-A--ACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATGACTTAATTAAAC
7799960 AATTTTAATCAA
1 AA-TTTAATCAA
7799972 GTGCTTGAGA
Statistics
Matches: 179, Mismatches: 39, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
32 11 0.06
33 7 0.04
34 1 0.01
35 107 0.60
36 51 0.28
37 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATGACTTAATTAAAC
Found at i:7799836 original size:107 final size:106
Alignment explanation
Indices: 7799716--7799964 Score: 274
Period size: 107 Copynumber: 2.4 Consensus size: 106
7799706 TTAATTGTTT
* * * *
7799716 AATTTAATTAATTAGACCCAATAATTTAATTAAACAATTTAATTAATTAAGCTCAACAATTTAAT
1 AATTTAATCAATTAGACCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAACTTAAT
7799781 TAAACAATTTTAATCAACTAGGCCCAATGACTTGATTAAACA
66 TAAACAA-TTTAATCAACTAGGCCCAATGACTTGATTAAACA
* * *** **
7799823 AATTTAATCAATTAGGCCTAATAACTTAATTGTTCAATTTAATTAATTAAGCCCAATGACTTAAT
1 AATTTAATCAATTAGACCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAACTTAAT
* * * * *
7799888 TAAACAATTTAATTAATTAGGCTCAATGA-TTTAGTTAAA-T
66 TAAACAATTTAATCAACTAGGCCCAATGACTTGA-TTAAACA
* * *
7799928 AATTTAGTTAATTAGA--C-ACAACTTAATTAAACAATTT
1 AATTTAATCAATTAGACCCAATAACTTAATTAAACAATTT
7799965 TAATCAAGTG
Statistics
Matches: 117, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
102 16 0.14
105 16 0.14
106 24 0.21
107 61 0.52
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (106 bp):
AATTTAATCAATTAGACCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAACTTAAT
TAAACAATTTAATCAACTAGGCCCAATGACTTGATTAAACA
Found at i:7807288 original size:17 final size:16
Alignment explanation
Indices: 7807266--7807300 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7807256 AGAAGAGAGG
*
7807266 GAGAGAGTA-TTTTTT
1 GAGAGAGAATTTTTTT
7807281 GAGAGAGAATTTTTTT
1 GAGAGAGAATTTTTTT
7807297 GAGA
1 GAGA
7807301 AAAAATAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (16 bp):
GAGAGAGAATTTTTTT
Found at i:7807388 original size:16 final size:15
Alignment explanation
Indices: 7807367--7807432 Score: 53
Period size: 16 Copynumber: 4.3 Consensus size: 15
7807357 CTAATTGGGG
7807367 TTTTTTTTTAAAA-T
1 TTTTTTTTTAAAATT
* *
7807381 TATTTTTTTAAGATT
1 TTTTTTTTTAAAATT
**
7807396 TTATTTTTTTAAAAAAG
1 TT-TTTTTTT-AAAATT
*
7807413 TTATTTTTTAAGAATT
1 TTTTTTTTTAA-AATT
7807429 TTTT
1 TTTT
7807433 ACAAAATCTT
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
14 11 0.29
15 4 0.11
16 18 0.47
17 5 0.13
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (15 bp):
TTTTTTTTTAAAATT
Found at i:7807403 original size:32 final size:33
Alignment explanation
Indices: 7807367--7807430 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
7807357 CTAATTGGGG
**
7807367 TTTTTTTTTAAAA-TTATTTTTTTAAG-ATTTTA
1 TTTTTTTAAAAAAGTTA-TTTTTTAAGAATTTTA
7807399 TTTTTTTAAAAAAGTTATTTTTTAAGAATTTT
1 TTTTTTTAAAAAAGTTATTTTTTAAGAATTTT
7807431 TTACAAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 20 0.71
33 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (33 bp):
TTTTTTTAAAAAAGTTATTTTTTAAGAATTTTA
Found at i:7812857 original size:13 final size:13
Alignment explanation
Indices: 7812839--7812863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7812829 TTCTAGAAAA
7812839 TTTATAAAATCAT
1 TTTATAAAATCAT
7812852 TTTATAAAATCA
1 TTTATAAAATCA
7812864 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:7814757 original size:28 final size:27
Alignment explanation
Indices: 7814720--7814883 Score: 166
Period size: 28 Copynumber: 5.8 Consensus size: 27
7814710 CTTTAACATG
* *
7814720 TTTGTTTTAATTTAGACAAGAAAAAAA
1 TTTGTCTTAATTTAGACAAGAAAAATA
* *
7814747 TTTGGTCTTAATTTAGACAAGAAATATG
1 TTT-GTCTTAATTTAGACAAGAAAAATA
*
7814775 TTTGTCTTAATTTAAAACAAGAAAAATA
1 TTTGTCTTAATTT-AGACAAGAAAAATA
* *
7814803 TTTTTTGCCTTAATCTAGACAAGAAAATATA
1 ---TTTGTCTTAATTTAGACAAGAAAA-ATA
* *
7814834 TTTATCTAAATTTAGACAAGATAAAATA
1 TTTGTCTTAATTTAGACAAGA-AAAATA
*
7814862 TTTGTCTTAATTAAAGACAAGA
1 TTTGTCTTAATT-TAGACAAGA
7814884 GTTGTCTTAA
Statistics
Matches: 112, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
27 13 0.12
28 64 0.57
29 11 0.10
30 10 0.09
31 14 0.12
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (27 bp):
TTTGTCTTAATTTAGACAAGAAAAATA
Found at i:7814853 original size:58 final size:57
Alignment explanation
Indices: 7814728--7814864 Score: 161
Period size: 59 Copynumber: 2.4 Consensus size: 57
7814718 TGTTTGTTTT
* * * * * *
7814728 AATTTAGACAAGAAAAA-A-ATTTGGTCTTAATTTAGACAAGAAATATGTTTGTCTT
1 AATTTAGACAAGAAAAATATTTTTGGCCTTAATCTAGACAAGAAATATATTTATCTA
* *
7814783 AATTTAAAACAAGAAAAATATTTTTTGCCTTAATCTAGACAAGAAAATATATTTATCTA
1 AATTT-AGACAAGAAAAATATTTTTGGCCTTAATCTAGACAAG-AAATATATTTATCTA
7814842 AATTTAGACAAGATAAAATATTT
1 AATTTAGACAAGA-AAAATATTT
7814865 GTCTTAATTA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
55 5 0.07
56 11 0.16
57 1 0.01
58 25 0.37
59 26 0.38
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (57 bp):
AATTTAGACAAGAAAAATATTTTTGGCCTTAATCTAGACAAGAAATATATTTATCTA
Found at i:7816108 original size:32 final size:33
Alignment explanation
Indices: 7816039--7816109 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
7816029 TTTTTATGAT
* ** *
7816039 TATTAATTTTTTAGGAAAAATGAGTTTTTGTTT
1 TATTAATTTTTTAAGAAAAATGAGTTTTCCTTA
7816072 TATTAATTTTTTAAGAAAAA-GAGTTTTCCTTA
1 TATTAATTTTTTAAGAAAAATGAGTTTTCCTTA
7816104 TATTAA
1 TATTAA
7816110 AATTTTGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.44
33 19 0.56
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (33 bp):
TATTAATTTTTTAAGAAAAATGAGTTTTCCTTA
Found at i:7816155 original size:17 final size:17
Alignment explanation
Indices: 7816104--7816156 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 17
7816094 GTTTTCCTTA
*
7816104 TATTAAAAT-TTTGTTAT
1 TATTAAAATATTT-TTTT
*
7816121 TATAAAAATATATATTTTT
1 TATTAAAATAT-T-TTTTT
7816140 TATTAAAATATTTTTTT
1 TATTAAAATATTTTTTT
7816157 AATATAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 14 0.47
20 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TATTAAAATATTTTTTT
Found at i:7816334 original size:17 final size:18
Alignment explanation
Indices: 7816306--7816341 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7816296 GGTCATTTTC
*
7816306 AATTTGTTTTAATAAATT
1 AATTTGTTTTAAAAAATT
7816324 AATTT-TTTTAAAAAATT
1 AATTTGTTTTAAAAAATT
7816341 A
1 A
7816342 TTATTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
AATTTGTTTTAAAAAATT
Found at i:7824025 original size:19 final size:20
Alignment explanation
Indices: 7823998--7824043 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
7823988 AGGAGACAAG
*
7823998 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
7824017 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
7824036 ATAATATT
1 ATAATATT
7824044 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:7824456 original size:20 final size:20
Alignment explanation
Indices: 7824431--7824476 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
7824421 TTTTGACCCC
7824431 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
7824451 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
7824471 ATTTGA
1 ATTTGA
7824477 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:7824552 original size:28 final size:27
Alignment explanation
Indices: 7824521--7824573 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
7824511 TTTGGAGTAT
*
7824521 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
7824549 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
7824574 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:7824579 original size:28 final size:28
Alignment explanation
Indices: 7824521--7824579 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
7824511 TTTGGAGTAT
* *
7824521 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
7824549 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
7824577 AGG
1 AGG
7824580 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:7825712 original size:13 final size:13
Alignment explanation
Indices: 7825694--7825718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7825684 AGAGAAATTG
7825694 TGATTTTATAAAA
1 TGATTTTATAAAA
7825707 TGATTTTATAAA
1 TGATTTTATAAA
7825719 TTTTTTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:7837000 original size:18 final size:17
Alignment explanation
Indices: 7836972--7837005 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7836962 TTTACAAGAA
*
7836972 AATAATTTATTTTATTG
1 AATAATTTATTATATTG
7836989 AATAATTTTATTATATT
1 AATAA-TTTATTATATT
7837006 CAATGGTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
AATAATTTATTATATTG
Found at i:7838976 original size:28 final size:29
Alignment explanation
Indices: 7838895--7839063 Score: 152
Period size: 28 Copynumber: 5.8 Consensus size: 29
7838885 TATCTTTAAC
*
7838895 ATGTTTGTCTTAATTTAA-ACAAGAAAAC
1 ATGTTTGTCTTAATTTAAGACAAGAAAAT
7838923 ATGTTTGGTCTTAATTTAA-ACAA-AGAAAT
1 ATGTTT-GTCTTAATTTAAGACAAGA-AAAT
7838952 ATGTTTGTCTTAATTTAAGACAAGAAAAAT
1 ATGTTTGTCTTAATTTAAGACAAG-AAAAT
* * * *
7838982 ATTTTTTATCTTAATCT-AGACAAGAAAAC
1 A-TGTTTGTCTTAATTTAAGACAAGAAAAT
* *
7839011 ATATTT-TTTTCAATTT-AGACAAGATAAAAT
1 ATGTTTGTCTT-AATTTAAGACAAG--AAAAT
* *
7839041 ATTTTTGTCTTAATTAAAGACAA
1 ATGTTTGTCTTAATTTAAGACAA
7839064 AAGTTATCTT
Statistics
Matches: 118, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.03
28 34 0.29
29 34 0.29
30 25 0.21
31 22 0.19
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (29 bp):
ATGTTTGTCTTAATTTAAGACAAGAAAAT
Found at i:7839229 original size:17 final size:17
Alignment explanation
Indices: 7839207--7839239 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7839197 ATAATAATAA
7839207 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
7839224 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
7839240 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:7842487 original size:28 final size:26
Alignment explanation
Indices: 7842433--7842517 Score: 84
Period size: 25 Copynumber: 3.3 Consensus size: 26
7842423 CCGGCTGGCT
* *
7842433 ATTAGACGTGGCAAGGCCACGATCTGTG
1 ATTATACGTGGCAAGGCCACGAGC--TG
*
7842461 ATTATACGTGGCAAGGCCACGGGCTG
1 ATTATACGTGGCAAGGCCACGAGCTG
* * *
7842487 -TTATAAGTGGCAAGGCCATGAGTTG
1 ATTATACGTGGCAAGGCCACGAGCTG
7842512 A-TATAC
1 ATTATAC
7842518 ATGGTTGCGA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
25 25 0.52
26 2 0.04
28 21 0.44
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (26 bp):
ATTATACGTGGCAAGGCCACGAGCTG
Done.