Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 22 of 259
Found at i:6018881 original size:22 final size:21
Alignment explanation
Indices: 6018833--6018881 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
6018823 ATAATATATA
*
6018833 AATAAAAATAAACAAATATTT
1 AATAAAAATAAACAAAAATTT
6018854 ATATAAAAATAAA-ATATAAATTT
1 A-ATAAAAATAAACA-A-AAATTT
6018877 AATAA
1 AATAA
6018882 TTTATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 2 0.08
22 16 0.67
23 6 0.25
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AATAAAAATAAACAAAAATTT
Found at i:6020262 original size:14 final size:14
Alignment explanation
Indices: 6020243--6020270 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6020233 TTCATTTTTA
6020243 ATTAATTAATTATT
1 ATTAATTAATTATT
6020257 ATTAATTAATTATT
1 ATTAATTAATTATT
6020271 TATATTACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTAATTAATTATT
Found at i:6020263 original size:18 final size:17
Alignment explanation
Indices: 6020240--6020277 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
6020230 ATATTCATTT
6020240 TTAATTAATTAATTATTA
1 TTAATTAATTAATTA-TA
*
6020258 TTAATTAATTATTTATA
1 TTAATTAATTAATTATA
6020275 TTA
1 TTA
6020278 CTAATAGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAATTAATTAATTATA
Found at i:6021637 original size:20 final size:20
Alignment explanation
Indices: 6021608--6021646 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6021598 TCAAACAAAT
*
6021608 AAAATTTATATAAAA-TAAAC
1 AAAATGTATA-AAAACTAAAC
6021628 AAAATGTATAAAAACTAAA
1 AAAATGTATAAAAACTAAA
6021647 TTTTAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAATGTATAAAAACTAAAC
Found at i:6034388 original size:18 final size:18
Alignment explanation
Indices: 6034361--6034453 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
6034351 CCCAACTACT
*
6034361 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
6034379 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
6034397 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
* *
6034415 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
6034433 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
6034451 GTA
1 GTA
6034454 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:6036839 original size:77 final size:77
Alignment explanation
Indices: 6036752--6036903 Score: 304
Period size: 77 Copynumber: 2.0 Consensus size: 77
6036742 ATGTAACTAT
6036752 TACTACATAGATATATATGTCCTTGAGATGTATTAATAAAATTCAAGTGATTACCCTATTCTTAT
1 TACTACATAGATATATATGTCCTTGAGATGTATTAATAAAATTCAAGTGATTACCCTATTCTTAT
6036817 CATGACGTCTAC
66 CATGACGTCTAC
6036829 TACTACATAGATATATATGTCCTTGAGATGTATTAATAAAATTCAAGTGATTACCCTATTCTTAT
1 TACTACATAGATATATATGTCCTTGAGATGTATTAATAAAATTCAAGTGATTACCCTATTCTTAT
6036894 CATGACGTCT
66 CATGACGTCT
6036904 GAGCAAGGTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (77 bp):
TACTACATAGATATATATGTCCTTGAGATGTATTAATAAAATTCAAGTGATTACCCTATTCTTAT
CATGACGTCTAC
Found at i:6039580 original size:32 final size:32
Alignment explanation
Indices: 6039544--6039608 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
6039534 CCTAAATTAT
*
6039544 ATTAATATCCCTTTTGAGAGTAAAAATAACTG
1 ATTAATATCCCTTTCGAGAGTAAAAATAACTG
6039576 ATTAATATCCCTTTCGAGAGTAAAAATAACTG
1 ATTAATATCCCTTTCGAGAGTAAAAATAACTG
6039608 A
1 A
6039609 CTCTAGATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (32 bp):
ATTAATATCCCTTTCGAGAGTAAAAATAACTG
Found at i:6039884 original size:20 final size:20
Alignment explanation
Indices: 6039859--6039900 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
6039849 CTCTCGGCCC
6039859 TTAGTTTCATTAGCGGCGTT
1 TTAGTTTCATTAGCGGCGTT
6039879 TTAGTTTCATTAGCGGCGTT
1 TTAGTTTCATTAGCGGCGTT
6039899 TT
1 TT
6039901 GCGGAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.48
Consensus pattern (20 bp):
TTAGTTTCATTAGCGGCGTT
Found at i:6040066 original size:28 final size:29
Alignment explanation
Indices: 6040021--6040075 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
6040011 CGCAAAATTT
*
6040021 TTTATCTATATATTTATT-ATTTAAATGG
1 TTTATCTATATATTTATTGATTAAAATGG
*
6040049 TTTATTTATAT-TTATATTGATTAAAAT
1 TTTATCTATATATT-TATTGATTAAAAT
6040076 ACAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (29 bp):
TTTATCTATATATTTATTGATTAAAATGG
Found at i:6040455 original size:22 final size:22
Alignment explanation
Indices: 6040430--6040486 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
6040420 TGGGTAAAGG
*
6040430 TTAAGGGTTATGGATTATGGGT
1 TTAAGGGTTAAGGATTATGGGT
* *
6040452 TTAAGGATTAAGGGTTATGGGT
1 TTAAGGGTTAAGGATTATGGGT
*
6040474 TTAATGGTTAAGG
1 TTAAGGGTTAAGG
6040487 GGATATGTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (22 bp):
TTAAGGGTTAAGGATTATGGGT
Found at i:6040468 original size:29 final size:28
Alignment explanation
Indices: 6040413--6040471 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
6040403 TAAAGTTTAG
6040413 GGATTAGTGGGTAAAGGTTAAGGGTTAT
1 GGATTAGTGGGTAAAGGTTAAGGGTTAT
*
6040441 GGATTA-TGGGTTTAAGGATTAAGGGTTAT
1 GGATTAGTGGG-TAAAGG-TTAAGGGTTAT
6040470 GG
1 GG
6040472 GTTTAATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 4 0.14
28 11 0.39
29 13 0.46
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.34
Consensus pattern (28 bp):
GGATTAGTGGGTAAAGGTTAAGGGTTAT
Found at i:6042022 original size:49 final size:49
Alignment explanation
Indices: 6041960--6042099 Score: 189
Period size: 47 Copynumber: 2.9 Consensus size: 49
6041950 TAGTATGGCG
6041960 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
6042009 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
6042056 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
6042100 TCCCGAATGG
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
47 48 0.60
48 1 0.01
49 31 0.39
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:6043692 original size:120 final size:120
Alignment explanation
Indices: 6043479--6043695 Score: 317
Period size: 120 Copynumber: 1.8 Consensus size: 120
6043469 AATGTCCGGG
* * **
6043479 CTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 CTAAGTTCCGAAGAGCATTCATGCTAGTGATATATCCAGGCTAAACCCCGAAGAGCATTCGTGCT
* * *
6043544 AGTGATGTATCTGGGCTAAGTCTCGAAGAGCATTCGCGCTAATGATGTATCCAGA
66 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGCGCTAATGATGTATCCAGA
* * *
6043599 CTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCATGCTAAACCCCGAAGAGCATTTGTGCT
1 CTAAGTTCCGAAGAGCATTCATGCTAGTGATATATCCAGGCTAAACCCCGAAGAGCATTCGTGCT
* * *
6043664 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
66 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
6043696 ATCATGCTGG
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 84 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (120 bp):
CTAAGTTCCGAAGAGCATTCATGCTAGTGATATATCCAGGCTAAACCCCGAAGAGCATTCGTGCT
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGCGCTAATGATGTATCCAGA
Found at i:6043707 original size:40 final size:40
Alignment explanation
Indices: 6043473--6043695 Score: 275
Period size: 40 Copynumber: 5.6 Consensus size: 40
6043463 GGGTGAAATG
* *
6043473 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
6043513 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * * *
6043553 TCTGGGCTAAGTCTCGAAGAGCATTCGCGCTAATGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * * *
6043593 TCCAGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
** ** * * * *
6043633 TCCATGCTAAACCCCGAAGAGCATTTGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
6043673 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
6043696 ATCATGCTGG
Statistics
Matches: 156, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 156 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:6046553 original size:27 final size:27
Alignment explanation
Indices: 6046523--6046605 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
6046513 GTAATGGCCG
6046523 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
* *** * **
6046550 ATGTGAT-AAGGCCTAA-TG-GTCGA-
1 ATGTGATGAATGTGAAAGTGTATATAT
6046573 -TGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
6046599 ATGTGAT
1 ATGTGAT
6046606 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.35
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATATAT
Found at i:6046576 original size:49 final size:49
Alignment explanation
Indices: 6046514--6047088 Score: 981
Period size: 49 Copynumber: 11.9 Consensus size: 49
6046504 TAGTATGGCG
6046514 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
6046563 TAATGGTCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
6046612 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
6046661 TAATGGCCGATGTGATGGATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
6046708 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
6046757 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
6046804 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
6046851 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
6046900 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
6046949 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * *
6046998 TAATGACCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
6047045 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
6047089 TCCCGAATGG
Statistics
Matches: 504, Mismatches: 16, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
47 186 0.37
48 1 0.00
49 317 0.63
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:6046719 original size:96 final size:97
Alignment explanation
Indices: 6046514--6047088 Score: 966
Period size: 96 Copynumber: 6.0 Consensus size: 97
6046504 TAGTATGGCG
*
6046514 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
6046579 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
6046612 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
6046677 GGATGTGAAAGTG-TATATATGTGATAAGGCC
66 GAATGTGAAAGTGATATATATGTGATAAGGCC
6046708 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
6046773 GAATGTGAAAGTG-TATATATGTGATAAGGCC
66 GAATGTGAAAGTGATATATATGTGATAAGGCC
6046804 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
6046867 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
6046900 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
6046965 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
* * * * * * * *
6046998 TAATGACCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGTCGAGTGGCCAACGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
6047061 GGATGTGAAAGTG-TATAAATGTGATAAG
66 GAATGTGAAAGTGATATATATGTGATAAG
6047089 TCCCGAATGG
Statistics
Matches: 460, Mismatches: 13, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
94 61 0.13
96 228 0.50
98 171 0.37
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (97 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGATATATATGTGATAAGGCC
Found at i:6048038 original size:16 final size:16
Alignment explanation
Indices: 6048014--6048044 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6048004 ACAATATGGG
6048014 TTAAGGGTTAAGGGGT
1 TTAAGGGTTAAGGGGT
*
6048030 TTAATGGTTAAGGGG
1 TTAAGGGTTAAGGGG
6048045 ACATGGGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.32
Consensus pattern (16 bp):
TTAAGGGTTAAGGGGT
Found at i:6048126 original size:7 final size:7
Alignment explanation
Indices: 6048057--6048189 Score: 52
Period size: 7 Copynumber: 17.9 Consensus size: 7
6048047 ATGGGTAAAG
6048057 GGTTTAT
1 GGTTTAT
*
6048064 GGCTTAT
1 GGTTTAT
*
6048071 GAGTTAAT
1 G-GTTTAT
* *
6048079 GTTTTAA
1 GGTTTAT
6048086 GGTTTAT
1 GGTTTAT
* *
6048093 TGATTAT
1 GGTTTAT
**
6048100 GGGTTTCG
1 -GGTTTAT
6048108 GGATTT-T
1 GG-TTTAT
6048115 GGTTTAT
1 GGTTTAT
*
6048122 GGTTTAA
1 GGTTTAT
*
6048129 GGTTTAG
1 GGTTTAT
*
6048136 GGGTTAGT
1 GGTTTA-T
6048144 GGTTAATTAT
1 GG-T--TTAT
*
6048154 GGTTTAA
1 GGTTTAT
6048161 GGTTTTAT
1 GG-TTTAT
*
6048169 GGTTTAGG
1 GGTTTA-T
*
6048177 GGTTTAA
1 GGTTTAT
6048184 GGTTTA
1 GGTTTA
6048190 AGATTTTGAG
Statistics
Matches: 92, Mismatches: 24, Indels: 20
0.68 0.18 0.15
Matches are distributed among these distances:
6 3 0.03
7 57 0.62
8 25 0.27
9 1 0.01
10 3 0.03
11 3 0.03
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.48
Consensus pattern (7 bp):
GGTTTAT
Found at i:6048170 original size:15 final size:15
Alignment explanation
Indices: 6048117--6048196 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
6048107 GGGATTTTGG
6048117 TTTATGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
6048131 TTTAGGGGTTAGTGGT
1 TTTATGGTTTA-AGGT
6048147 TAATTATGGTTTAAGGT
1 T--TTATGGTTTAAGGT
* *
6048164 TTTATGGTTTAGGGG
1 TTTATGGTTTAAGGT
* *
6048179 TTTAAGGTTTAAGAT
1 TTTATGGTTTAAGGT
6048194 TTT
1 TTT
6048197 GAGGGTATGG
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
14 9 0.18
15 28 0.56
16 1 0.02
17 4 0.08
18 8 0.16
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:6049683 original size:32 final size:32
Alignment explanation
Indices: 6049642--6049706 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
6049632 ATATGCACAG
6049642 TAGTGCATTGGTCTCTATTCTAAATTCTTTCA
1 TAGTGCATTGGTCTCTATTCTAAATTCTTTCA
6049674 TAGTGCATTGGTCTCTATTCTAAATTCTTTCA
1 TAGTGCATTGGTCTCTATTCTAAATTCTTTCA
6049706 T
1 T
6049707 CTGTTTAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (32 bp):
TAGTGCATTGGTCTCTATTCTAAATTCTTTCA
Found at i:6051250 original size:9 final size:9
Alignment explanation
Indices: 6051238--6051381 Score: 77
Period size: 9 Copynumber: 16.6 Consensus size: 9
6051228 TATATCATAT
6051238 CATAACTTA
1 CATAACTTA
6051247 CATAACTTA
1 CATAACTTA
*
6051256 CAAAACTTA
1 CATAACTTA
6051265 CATAA--TA
1 CATAACTTA
*
6051272 CATAA-ATA
1 CATAACTTA
*
6051280 TATAACTTA
1 CATAACTTA
6051289 CATAACTTA
1 CATAACTTA
*
6051298 CGTAA--TA
1 CATAACTTA
* *
6051305 AATAA-ATA
1 CATAACTTA
* ** *
6051313 TATTTCATA
1 CATAACTTA
*
6051322 TCATAATTTA
1 -CATAACTTA
6051332 CATAACTTA
1 CATAACTTA
*
6051341 CATACCTTA
1 CATAACTTA
*
6051350 CATAAATT-
1 CATAACTTA
* * *
6051358 TATATCATA
1 CATAACTTA
6051367 TCATAACTTA
1 -CATAACTTA
6051377 CATAA
1 CATAA
6051382 TACATAAATA
Statistics
Matches: 101, Mismatches: 27, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
7 12 0.12
8 14 0.14
9 65 0.64
10 10 0.10
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:6051285 original size:33 final size:33
Alignment explanation
Indices: 6051248--6051315 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
6051238 CATAACTTAC
*
6051248 ATAACTTACAAAACTTACATAATACATAAATAT
1 ATAACTTACAAAACTTACATAATAAATAAATAT
* *
6051281 ATAACTTACATAACTTACGTAATAAATAAATAT
1 ATAACTTACAAAACTTACATAATAAATAAATAT
6051314 AT
1 AT
6051316 TTCATATCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (33 bp):
ATAACTTACAAAACTTACATAATAAATAAATAT
Found at i:6051324 original size:85 final size:88
Alignment explanation
Indices: 6051222--6051381 Score: 236
Period size: 85 Copynumber: 1.9 Consensus size: 88
6051212 ATCTTAATGT
6051222 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACAT-AATACATA-AATAT-ATA
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAAATACATATAATATCATA
6051284 ACTTACATAACTTACGTAATAAA
66 ACTTACATAACTTACGTAATAAA
* * * * ** *
6051307 TAAATATATTTCATATCATAATTTACATAACTTACATACCTTACATAAATTTATATCATATCATA
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAAATACATATAATATCATA
6051372 ACTTACATAA
66 ACTTACATAA
6051382 TACATAAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
85 42 0.65
86 6 0.09
87 4 0.06
88 13 0.20
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (88 bp):
TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAAATACATATAATATCATA
ACTTACATAACTTACGTAATAAA
Found at i:6053056 original size:26 final size:26
Alignment explanation
Indices: 6053027--6053134 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
6053017 TGGTACAAAT
6053027 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6053053 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6053079 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6053105 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6053131 TGAT
1 TGAT
6053135 GGCCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6063617 original size:14 final size:15
Alignment explanation
Indices: 6063593--6063621 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6063583 TTTTAAGCTA
6063593 AGAATAAAGAACAAT
1 AGAATAAAGAACAAT
6063608 AGAA-AAAGAACAAT
1 AGAATAAAGAACAAT
6063622 GGACACATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.14, T:0.10
Consensus pattern (15 bp):
AGAATAAAGAACAAT
Found at i:6064509 original size:20 final size:20
Alignment explanation
Indices: 6064480--6064530 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
6064470 TCACTTCTCC
* **
6064480 CACGCTCGTGTAACCTTCCA
1 CACGCCCGTGTAACCTAACA
*
6064500 CACGCCCGTGTGACCTAACA
1 CACGCCCGTGTAACCTAACA
*
6064520 CACGGCCGTGT
1 CACGCCCGTGT
6064531 GCCTTGCTCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.39, G:0.22, T:0.20
Consensus pattern (20 bp):
CACGCCCGTGTAACCTAACA
Found at i:6070088 original size:23 final size:23
Alignment explanation
Indices: 6070057--6070105 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
6070047 CGTAAGAAAT
*
6070057 GTTGTTTGAATTGGATCTGAT-CG
1 GTTGGTTGAATTGGAT-TGATACG
*
6070080 GTTGGTTGAATTGTATTGATACG
1 GTTGGTTGAATTGGATTGATACG
6070103 GTT
1 GTT
6070106 AAAATGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.18, C:0.06, G:0.31, T:0.45
Consensus pattern (23 bp):
GTTGGTTGAATTGGATTGATACG
Found at i:6074431 original size:21 final size:22
Alignment explanation
Indices: 6074405--6074445 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6074395 TCTCCGGAAC
6074405 AACTGACCTATATCT-TGAAAA
1 AACTGACCTATATCTCTGAAAA
*
6074426 AACTGATCTATATCTCTGAA
1 AACTGACCTATATCTCTGAA
6074446 TCTTTAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (22 bp):
AACTGACCTATATCTCTGAAAA
Found at i:6079834 original size:10 final size:10
Alignment explanation
Indices: 6079815--6079874 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
6079805 TGAAATTCTA
6079815 AAAGATAAAT
1 AAAGATAAAT
6079825 ACAA-ATAAAT
1 A-AAGATAAAT
*
6079835 AAAGATAATT
1 AAAGATAAAT
6079845 AAAGATAAAT
1 AAAGATAAAT
6079855 AAAGATAAAT
1 AAAGATAAAT
6079865 GAAA-ATAAAT
1 -AAAGATAAAT
6079875 TCTTAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:6086869 original size:76 final size:75
Alignment explanation
Indices: 6086781--6087010 Score: 282
Period size: 76 Copynumber: 3.0 Consensus size: 75
6086771 GTAATTGCCA
* * * *
6086781 ATATTAATTGTGTGGCCAGCACCAGTCAAATAAATAGATAAAGATTTACACCCAGTGCTAGTTGG
1 ATATTAATTGTGTGACCAGCACTAGTCGAATAAATCGATAAAGATTTACACCCAGTGCTAGTTGG
6086846 ATAAATCGACG
66 ATAAA-CGACG
* * * **
6086857 ATATTAATTGTGTGCCCAGCACTAGTCGAATAAATCGATAAAGATTTGCCCCCAGTGCTAGTCAG
1 ATATTAATTGTGTGACCAGCACTAGTCGAATAAATCGATAAAGATTTACACCCAGTGCTAGTTGG
6086922 ATAAACTGACG
66 ATAAAC-GACG
* * * * * *
6086933 ATATTAAGTGTGTGACCATCACTAGTCGAATAAATCGACAAAGATTTGA-GCTCAGCGCTAGTTG
1 ATATTAATTGTGTGACCAGCACTAGTCGAATAAATCGATAAAGATTT-ACACCCAGTGCTAGTTG
6086997 GATAAACCGACG
65 GATAAA-CGACG
6087009 AT
1 AT
6087011 CGCATATGTA
Statistics
Matches: 133, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
75 1 0.01
76 131 0.98
77 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (75 bp):
ATATTAATTGTGTGACCAGCACTAGTCGAATAAATCGATAAAGATTTACACCCAGTGCTAGTTGG
ATAAACGACG
Found at i:6086920 original size:152 final size:152
Alignment explanation
Indices: 6086728--6087010 Score: 354
Period size: 152 Copynumber: 1.9 Consensus size: 152
6086718 TGCCTTGCAA
** * * *
6086728 AGTCGAATAAATCAACAAAAATTTGTGCCCAATGCTAGTCAGAGT-AATTGCCAATATTAATTGT
1 AGTCGAATAAATCAACAAAAATTTGCCCCCAATGCTAGTCAGA-TAAACTGACAATATTAAGTGT
* * * *
6086792 GTGGCCAGCACCAGTCAAATAAATAGATAAAGATTT-ACACCCAGTGCTAGTTGGATAAATCGAC
65 GTGACCAGCACCAGTCAAATAAATAGACAAAGATTTGA-ACCCAGCGCTAGTTGGATAAACCGAC
6086856 GATATTAATTGTGTGCCCAGCACT
129 GATATTAATTGTGTGCCCAGCACT
* * * * *
6086880 AGTCGAATAAATCGATAAAGATTTGCCCCCAGTGCTAGTCAGATAAACTGACGATATTAAGTGTG
1 AGTCGAATAAATCAACAAAAATTTGCCCCCAATGCTAGTCAGATAAACTGACAATATTAAGTGTG
* * * * * *
6086945 TGACCATCACTAGTCGAATAAATCGACAAAGATTTGAGCTCAGCGCTAGTTGGATAAACCGACGA
66 TGACCAGCACCAGTCAAATAAATAGACAAAGATTTGAACCCAGCGCTAGTTGGATAAACCGACGA
6087010 T
131 T
6087011 CGCATATGTA
Statistics
Matches: 109, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
151 1 0.01
152 107 0.98
153 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (152 bp):
AGTCGAATAAATCAACAAAAATTTGCCCCCAATGCTAGTCAGATAAACTGACAATATTAAGTGTG
TGACCAGCACCAGTCAAATAAATAGACAAAGATTTGAACCCAGCGCTAGTTGGATAAACCGACGA
TATTAATTGTGTGCCCAGCACT
Found at i:6091051 original size:144 final size:144
Alignment explanation
Indices: 6090814--6091238 Score: 629
Period size: 144 Copynumber: 3.0 Consensus size: 144
6090804 CTTATTGGAG
* * * * * *
6090814 GATAGATCCAGTGTAACCAAA-TTCGTTAGCCTACCAATGTCTTGTGGAATGGATCCATTAAGTT
1 GATAGAGCCAATGTAATCAAATTTC-TTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTT
* ** * ** *
6090878 GGTTGTGC-TGAAGGAGCAACGACCCTAGATTGGTTACATTGCTGATAGAAGATGGGATTGGACC
65 GGTTG-CCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACC
6090942 AACAAGCATATTAAAC
129 AACAAGCATATTAAAC
*
6090958 GATAGAGCCAATGTAATCAAATTTCTTAGTCTCCCAATTTCTTGTGGAATGGGTCCATTAAGTTG
1 GATAGAGCCAATGTAATCAAATTTCTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTG
* *
6091023 GTTGCCTTGAAGGAGCAACGATTGTAGATTAGTTAGGTTGGTAATAGAAGATGGGATTGGACCAA
66 GTTGCCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACCAA
*
6091088 CAAGCATATTAGAC
131 CAAGCATATTAAAC
* * * *
6091102 GATAGAGCCAATGTAATCAAATTTGTCAATCTCCCAATTTCTCGTGGAATGGATCCATTAAGTTG
1 GATAGAGCCAATGTAATCAAATTTCTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTG
6091167 GTTGCCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACCAA
66 GTTGCCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACCAA
6091232 CAAGCAT
131 CAAGCAT
6091239 GTTGCTTGAG
Statistics
Matches: 255, Mismatches: 24, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
143 1 0.00
144 251 0.98
145 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (144 bp):
GATAGAGCCAATGTAATCAAATTTCTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTG
GTTGCCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACCAA
CAAGCATATTAAAC
Found at i:6094395 original size:40 final size:41
Alignment explanation
Indices: 6094277--6094389 Score: 149
Period size: 40 Copynumber: 2.8 Consensus size: 41
6094267 CGTTTTCAAT
* **
6094277 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTTATCC
1 AAAACGCCGCTAAAAACTGAGCAATAGCGGCG-TTTTTGGCC
*
6094319 -AAACGCTGCT-AAAACTGAGCAATAGCGGCGTTTTTGGCC
1 AAAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGCC
* *
6094358 AAAACGCCGCTAAAAACTGAACAACAGCGGCG
1 AAAACGCCGCTAAAAACTGAGCAATAGCGGCG
6094390 CTTTGGGAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 7 0.11
40 28 0.45
41 27 0.44
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGCC
Found at i:6094407 original size:40 final size:41
Alignment explanation
Indices: 6094277--6094409 Score: 110
Period size: 40 Copynumber: 3.3 Consensus size: 41
6094267 CGTTTTCAAT
* * * * **
6094277 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTTATC-
1 AAAACGCCGCTAAAAACTGAACAACAGCGGCG-TCTTTGGCA
* * * * * *
6094318 CAAACGCTGCT-AAAACTGAGCAATAGCGGCGTTTTTGGCC
1 AAAACGCCGCTAAAAACTGAACAACAGCGGCGTCTTTGGCA
*
6094358 AAAACGCCGCTAAAAACTGAACAACAGCGGCG-CTTTGGGA
1 AAAACGCCGCTAAAAACTGAACAACAGCGGCGTCTTTGGCA
*
6094398 AAAATGCCGCTA
1 AAAACGCCGCTA
6094410 TAGGTCGAGG
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 6 0.08
40 44 0.57
41 27 0.35
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACTGAACAACAGCGGCGTCTTTGGCA
Found at i:6094779 original size:18 final size:18
Alignment explanation
Indices: 6094751--6094800 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
6094741 TCCATTGTTA
6094751 TATATATATATATTAA-ACT
1 TATA-ATATATATTAAGA-T
*
6094770 TCTAATATATATTAAGAT
1 TATAATATATATTAAGAT
6094788 TATAATATATATT
1 TATAATATATATT
6094801 TAGGGTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (18 bp):
TATAATATATATTAAGAT
Found at i:6095239 original size:15 final size:15
Alignment explanation
Indices: 6095219--6095250 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6095209 TTTAATGTAG
*
6095219 AAGATAAATGTATAT
1 AAGATAAATATATAT
6095234 AAGATAAATATATAT
1 AAGATAAATATATAT
6095249 AA
1 AA
6095251 ATTATTATTT
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:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:6095289 original size:24 final size:23
Alignment explanation
Indices: 6095222--6095289 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
6095212 AATGTAGAAG
* *
6095222 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAAAATAT
* *
6095247 ATAAATTATTATTTTAAAAAATAT
1 ATAAATTA-TATATGAAAAAATAT
6095271 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
6095290 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAATTATATATGAAAAAATAT
Found at i:6101686 original size:18 final size:18
Alignment explanation
Indices: 6101663--6101719 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
6101653 CCCAACTACT
*
6101663 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
6101681 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
6101699 GTATACATGAATAGTACC
1 GTATACGTGAATAGTACC
6101717 GTA
1 GTA
6101720 AACGGTCGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:6102340 original size:20 final size:20
Alignment explanation
Indices: 6102315--6102354 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6102305 ACATGGCTGA
*
6102315 TTTGATGCTTATGTGATCCC
1 TTTGATGCTTATATGATCCC
6102335 TTTGATGCTTATATGATCCC
1 TTTGATGCTTATATGATCCC
6102355 CTGCAAGATC
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:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (20 bp):
TTTGATGCTTATATGATCCC
Found at i:6105620 original size:9 final size:9
Alignment explanation
Indices: 6105597--6105724 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
6105587 ATTGATCATT
*
6105597 ACTTAAATA
1 ACTTACATA
*
6105606 AATTACATA
1 ACTTACATA
6105615 ACTTACATA
1 ACTTACATA
* *
6105624 ACTCATATA
1 ACTTACATA
6105633 ACTTACATA
1 ACTTACATA
*
6105642 ATTTACATAA
1 ACTTACAT-A
6105652 CCACTTACATA
1 --ACTTACATA
*
6105663 ACTCACATA
1 ACTTACATA
6105672 ACTTACATA
1 ACTTACATA
*
6105681 ATTTACATA
1 ACTTACATA
*
6105690 ACTCACATA
1 ACTTACATA
* *
6105699 ACGTCCATAACA
1 ACTTACAT---A
6105711 ACTTACATA
1 ACTTACATA
6105720 ACTTA
1 ACTTA
6105725 ACTAATACAT
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
9 78 0.83
10 1 0.01
11 1 0.01
12 14 0.15
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:6105667 original size:39 final size:39
Alignment explanation
Indices: 6105615--6105691 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
6105605 AAATTACATA
*
6105615 ACTTACATAACTCATATAACTTACATAATTTACATAACC
1 ACTTACATAACTCACATAACTTACATAATTTACATAACC
6105654 ACTTACATAACTCACATAACTTACATAATTTACATAAC
1 ACTTACATAACTCACATAACTTACATAATTTACATAAC
6105692 TCACATAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.32
Consensus pattern (39 bp):
ACTTACATAACTCACATAACTTACATAATTTACATAACC
Found at i:6105691 original size:57 final size:57
Alignment explanation
Indices: 6105610--6105722 Score: 154
Period size: 57 Copynumber: 2.0 Consensus size: 57
6105600 TAAATAAATT
* * ** *
6105610 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACCACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* * *
6105667 ACATAACTTACATAATTTACATAACTCACATAACGTCCATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
6105723 TAACTAATAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:6109652 original size:14 final size:14
Alignment explanation
Indices: 6109615--6109652 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6109605 CAATTTTTTA
6109615 ATTATATGTACTAT
1 ATTATATGTACTAT
*
6109629 TTTATATGTACTACT
1 ATTATATGTACTA-T
6109644 ATTAT-TGTA
1 ATTATATGTA
6109653 ATTTGTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (14 bp):
ATTATATGTACTAT
Found at i:6111597 original size:33 final size:33
Alignment explanation
Indices: 6111555--6111636 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
6111545 TTAGAATTAA
* *
6111555 TGTTTTTGGTTGTATTTTTTATGTTAAATTTGC
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGC
* *
6111588 TGTTTTTGGTTGCA--TTTTATATTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGC
* *
6111619 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
6111637 AATGCAGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 26 0.63
33 15 0.37
ACGTcount: A:0.15, C:0.02, G:0.20, T:0.63
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATATTAAATTTGC
Found at i:6111765 original size:43 final size:43
Alignment explanation
Indices: 6111713--6111876 Score: 276
Period size: 43 Copynumber: 3.8 Consensus size: 43
6111703 TAAAAAAAAG
6111713 CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTTCCCACAAA
6111756 CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
6111799 TGCCGCTAAAAGGCTTGACCTTTAGCGGCGC-TTTCACCACAAA
1 CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTTC-CCACAAA
** *
6111842 CGCCGCTAAAAACCTTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTT
6111877 TTCCAATAAA
Statistics
Matches: 114, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
42 4 0.04
43 107 0.94
44 3 0.03
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAAGGCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:6112614 original size:55 final size:56
Alignment explanation
Indices: 6112523--6112644 Score: 167
Period size: 55 Copynumber: 2.2 Consensus size: 56
6112513 TTGCTAAAAT
* * *
6112523 ATAATATCCTATAATATCCCTTCAGGAATCAAATTGCTAAGAGATAGTAT-CCACA
1 ATAATATCCTATAATATCCATTCAGGAATCAAATTGCTAAAAGATAATATCCCACA
* * *
6112578 ATAGTATCCTATAATATCTCATT-AGGAATCAGATTGCTAAAAGATAATATCCCATA
1 ATAATATCCTATAATATC-CATTCAGGAATCAAATTGCTAAAAGATAATATCCCACA
6112634 ATAATATCCTA
1 ATAATATCCTA
6112645 ACAGACTTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
55 41 0.71
56 17 0.29
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (56 bp):
ATAATATCCTATAATATCCATTCAGGAATCAAATTGCTAAAAGATAATATCCCACA
Found at i:6120100 original size:9 final size:9
Alignment explanation
Indices: 6120086--6120122 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
6120076 TGCATTGACA
6120086 TTCTTTTCT
1 TTCTTTTCT
6120095 TTC-TTTCT
1 TTCTTTTCT
*
6120103 TTATTTTCT
1 TTCTTTTCT
6120112 TTCTTTTCT
1 TTCTTTTCT
6120121 TT
1 TT
6120123 TGATTAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (9 bp):
TTCTTTTCT
Found at i:6120104 original size:13 final size:13
Alignment explanation
Indices: 6120086--6120122 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
6120076 TGCATTGACA
6120086 TTCTTTTCTTTCT
1 TTCTTTTCTTTCT
6120099 TTCTTTAT-TTTCT
1 TTCTTT-TCTTTCT
6120112 TTCTTTTCTTT
1 TTCTTTTCTTT
6120123 TGATTAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (13 bp):
TTCTTTTCTTTCT
Found at i:6120760 original size:16 final size:16
Alignment explanation
Indices: 6120725--6120765 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
6120715 GACGTTCCTC
*
6120725 TTCTTCTTTCTTTTTA
1 TTCTTCTTTATTTTTA
6120741 TTCTTCTTTATTATTT-
1 TTCTTCTTTATT-TTTA
6120757 TTC-TCTTTA
1 TTCTTCTTTA
6120766 AAAAAAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 14 0.61
17 3 0.13
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCTTCTTTATTTTTA
Found at i:6121450 original size:21 final size:21
Alignment explanation
Indices: 6121426--6121495 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
6121416 CACACGGGCG
6121426 TGTGCCTCAGTCACACAACCA
1 TGTGCCTCAGTCACACAACCA
* *
6121447 TGTGTCTCTC-TTCACACCAA-CG
1 TGTG-C-CTCAGTCACA-CAACCA
* *
6121469 TGTGCCTCAGTCACACAGCTA
1 TGTGCCTCAGTCACACAACCA
6121490 TGTGCC
1 TGTGCC
6121496 CCTCTTCACT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 5 0.13
21 16 0.42
22 11 0.29
23 6 0.16
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.26
Consensus pattern (21 bp):
TGTGCCTCAGTCACACAACCA
Found at i:6121820 original size:48 final size:48
Alignment explanation
Indices: 6121766--6121862 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
6121756 GCGTGTCTAC
* * **
6121766 TTCCATTTGATTGTCCGTTGATGTGTACAATATTTCTGTGGATTTGTA
1 TTCCATTTGATTATCCATTGACATGTACAATATTTCTGTGGATTTGTA
6121814 TTCCATTTGATTATCCATTGACATGTACAATATTTCTGTGGATTTGTA
1 TTCCATTTGATTATCCATTGACATGTACAATATTTCTGTGGATTTGTA
6121862 T
1 T
6121863 GCATACATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (48 bp):
TTCCATTTGATTATCCATTGACATGTACAATATTTCTGTGGATTTGTA
Found at i:6128911 original size:42 final size:42
Alignment explanation
Indices: 6128843--6128924 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
6128833 ACAGTGAGTT
* * *
6128843 ACACGGCCTAGATACACGCTCATGT-CCTTGCCTGTGTGGTTC
1 ACACGGCCTAGATACAAGCCCATGTCCCTGGCC-GTGTGGTTC
* *
6128885 ACACGGCCTAGGTACAAGCCCGTGTCCCTGGCCGTGTGGT
1 ACACGGCCTAGATACAAGCCCATGTCCCTGGCCGTGTGGT
6128925 CCTAGATCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 28 0.82
43 6 0.18
ACGTcount: A:0.16, C:0.32, G:0.28, T:0.24
Consensus pattern (42 bp):
ACACGGCCTAGATACAAGCCCATGTCCCTGGCCGTGTGGTTC
Found at i:6130132 original size:19 final size:18
Alignment explanation
Indices: 6130095--6130137 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
6130085 ATTGCTGAAG
*
6130095 AAAAAG-AGGAAAATGCA
1 AAAAAGTAGAAAAATGCA
6130112 AAAAAGTAGAAAAAGTGCA
1 AAAAAGTAGAAAAA-TGCA
6130131 AAAAAGT
1 AAAAAGT
6130138 GGGATTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 11 0.48
ACGTcount: A:0.65, C:0.05, G:0.21, T:0.09
Consensus pattern (18 bp):
AAAAAGTAGAAAAATGCA
Found at i:6131576 original size:24 final size:24
Alignment explanation
Indices: 6131547--6131594 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
6131537 ATCAAATATA
6131547 TATTTA-AAAATTATAAAAATAAAT
1 TATTTAGAAAATTA-AAAAATAAAT
*
6131571 TATTTAGTAAACTTAAAAAATAAA
1 TATTTAG-AAAATTAAAAAATAAA
6131595 CAAGTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 9 0.43
26 6 0.29
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
TATTTAGAAAATTAAAAAATAAAT
Found at i:6142254 original size:44 final size:44
Alignment explanation
Indices: 6142191--6142281 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
6142181 GAGATAACCT
6142191 TCTGTGATAATATTATTATGTAGTACATCCCTTTCTCCTTGATA
1 TCTGTGATAATATTATTATGTAGTACATCCCTTTCTCCTTGATA
6142235 TCTGTGATAATATTATTATGTAGTACATCCCTTTCTCCTTGATA
1 TCTGTGATAATATTATTATGTAGTACATCCCTTTCTCCTTGATA
6142279 TCT
1 TCT
6142282 ACATTTAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (44 bp):
TCTGTGATAATATTATTATGTAGTACATCCCTTTCTCCTTGATA
Found at i:6150551 original size:13 final size:13
Alignment explanation
Indices: 6150533--6150561 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6150523 AATCAATATT
6150533 TTAAAATTATAAA
1 TTAAAATTATAAA
6150546 TTAAAATTATAAA
1 TTAAAATTATAAA
6150559 TTA
1 TTA
6150562 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAAATTATAAA
Found at i:6150554 original size:6 final size:7
Alignment explanation
Indices: 6150536--6150565 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
6150526 CAATATTTTA
6150536 AAATTAT
1 AAATTAT
6150543 AAATTA-
1 AAATTAT
6150549 AAATTAT
1 AAATTAT
6150556 AAATTAT
1 AAATTAT
6150563 AAA
1 AAA
6150566 AATTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
AAATTAT
Found at i:6154704 original size:13 final size:13
Alignment explanation
Indices: 6154683--6154725 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
6154673 TGACGAGATA
*
6154683 CAAATGTGCAAAC
1 CAAAAGTGCAAAC
6154696 CAAAAGTGCAAAC
1 CAAAAGTGCAAAC
* *
6154709 CAAAAATGTAAAC
1 CAAAAGTGCAAAC
6154722 CAAA
1 CAAA
6154726 GTGACGGACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.56, C:0.21, G:0.12, T:0.12
Consensus pattern (13 bp):
CAAAAGTGCAAAC
Found at i:6154779 original size:29 final size:29
Alignment explanation
Indices: 6154721--6154785 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
6154711 AAAATGTAAA
* * *
6154721 CCAAAGTGACGGACAAGCCAAAGAATAAG
1 CCAAAGTGACGAACAAACCAAAGAACAAG
*
6154750 CCAAAGTGGCGAACAAACCAAA-AGACAAG
1 CCAAAGTGACGAACAAACCAAAGA-ACAAG
*
6154779 CTAAAGT
1 CCAAAGT
6154786 ACTACAAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.49, C:0.22, G:0.22, T:0.08
Consensus pattern (29 bp):
CCAAAGTGACGAACAAACCAAAGAACAAG
Found at i:6154916 original size:28 final size:28
Alignment explanation
Indices: 6154884--6154939 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
6154874 GCAAGTTGTC
*
6154884 AACTTGTTAGAAAAAGTTGTCAAATTAT
1 AACTTGCTAGAAAAAGTTGTCAAATTAT
6154912 AACTTGCTAGAAAAAGTTGTCAAATTAT
1 AACTTGCTAGAAAAAGTTGTCAAATTAT
6154940 TTATCTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (28 bp):
AACTTGCTAGAAAAAGTTGTCAAATTAT
Found at i:6156593 original size:3 final size:3
Alignment explanation
Indices: 6156585--6156649 Score: 62
Period size: 3 Copynumber: 21.7 Consensus size: 3
6156575 CTTTATTAAA
* * * *
6156585 TAT TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT AAA TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
6156630 TAT TAT TAT T-T TAT ATAT TA
1 TAT TAT TAT TAT TAT -TAT TA
6156650 GTGTATGTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
2 3 0.06
3 44 0.88
4 3 0.06
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:6156607 original size:21 final size:20
Alignment explanation
Indices: 6156583--6156649 Score: 84
Period size: 21 Copynumber: 3.4 Consensus size: 20
6156573 TTCTTTATTA
6156583 AATATTATTATTATTATTTCT
1 AATATTATTATTATTATTT-T
* *
6156604 AATATTATTAATATTA--TA
1 AATATTATTATTATTATTTT
6156622 AATATTATTATTATTATTTT
1 AATATTATTATTATTATTTT
6156642 ATATATTA
1 A-ATATTA
6156650 GTGTATGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 15 0.38
19 1 0.03
20 2 0.05
21 21 0.54
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (20 bp):
AATATTATTATTATTATTTT
Found at i:6156611 original size:18 final size:18
Alignment explanation
Indices: 6156581--6156638 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
6156571 GCTTCTTTAT
6156581 TAAATATTATTATTATTA
1 TAAATATTATTATTATTA
* *
6156599 TTTCTAATATTATTAATATTA
1 --T-AAATATTATTATTATTA
6156620 TAAATATTATTATTATTA
1 TAAATATTATTATTATTA
6156638 T
1 T
6156639 TTTATATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 16 0.48
19 1 0.03
20 1 0.03
21 15 0.45
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TAAATATTATTATTATTA
Found at i:6156750 original size:19 final size:18
Alignment explanation
Indices: 6156728--6156766 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6156718 TTTCATATTG
*
6156728 TTATTTTTAGTATTAAATA
1 TTATATTTAGTATT-AATA
*
6156747 TTATATTTATTATTAATA
1 TTATATTTAGTATTAATA
6156765 TT
1 TT
6156767 GGTATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTATATTTAGTATTAATA
Found at i:6156760 original size:12 final size:12
Alignment explanation
Indices: 6156745--6156853 Score: 56
Period size: 12 Copynumber: 9.3 Consensus size: 12
6156735 TAGTATTAAA
6156745 TATTATATTTAT
1 TATTATATTTAT
6156757 TATTAATATTGGTA-
1 TATT-ATATT--TAT
6156771 TA-TAT-TTTAT
1 TATTATATTTAT
*
6156781 TA-TATATGTA-
1 TATTATATTTAT
*
6156791 TATATACACTTT-T
1 TAT-TATA-TTTAT
*
6156804 TA-TATA-GTAT
1 TATTATATTTAT
*
6156814 TATCAT-TTCTAT
1 TATTATATT-TAT
6156826 TATTATATTTAT
1 TATTATATTTAT
*
6156838 TATTATGTTTAT
1 TATTATATTTAT
6156850 TATT
1 TATT
6156854 TTCACTATTA
Statistics
Matches: 74, Mismatches: 9, Indels: 28
0.67 0.08 0.25
Matches are distributed among these distances:
9 3 0.04
10 10 0.14
11 10 0.14
12 35 0.47
13 12 0.16
14 2 0.03
15 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.60
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:6156862 original size:21 final size:21
Alignment explanation
Indices: 6156825--6156864 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6156815 ATCATTTCTA
*
6156825 TTATTATATTTATTATTATGT
1 TTATTATATTTACTATTATGT
6156846 TTATTAT-TTTCACTATTAT
1 TTATTATATTT-ACTATTAT
6156865 TATTTTTTAT
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:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (21 bp):
TTATTATATTTACTATTATGT
Found at i:6157056 original size:26 final size:26
Alignment explanation
Indices: 6157027--6157098 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
6157017 CATATATTTT
6157027 ATTATGTATATATTTTTAATAACTAC
1 ATTATGTATATATTTTTAATAACTAC
* * * * *
6157053 ATTATGTCTGTATTTGTAA-CACTAT
1 ATTATGTATATATTTTTAATAACTAC
* *
6157078 ATTATGTACATACTTTTAATA
1 ATTATGTATATATTTTTAATA
6157099 TTATTATGTA
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
25 18 0.53
26 16 0.47
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.49
Consensus pattern (26 bp):
ATTATGTATATATTTTTAATAACTAC
Found at i:6157134 original size:20 final size:21
Alignment explanation
Indices: 6157075--6157135 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
6157065 TTTGTAACAC
6157075 TATATTATGTACATACTTTTAA
1 TATATTATGTACATA-TTTTAA
**
6157097 TATTATTATGTATTTATTTTAA
1 TA-TATTATGTACATATTTTAA
6157119 TATA-TATGTACATATTT
1 TATATTATGTACATATTT
6157136 ATGTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.32
21 2 0.06
22 10 0.29
23 11 0.32
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TATATTATGTACATATTTTAA
Found at i:6157134 original size:24 final size:24
Alignment explanation
Indices: 6157091--6157212 Score: 99
Period size: 26 Copynumber: 5.0 Consensus size: 24
6157081 ATGTACATAC
*
6157091 TTTTAATAT-TAT-TATGTATTTA
1 TTTTAATATATATGTATATATTTA
*
6157113 TTTTAATATATATGTACATATTTA
1 TTTTAATATATATGTATATATTTA
* * *
6157137 -TGTAGTAT-TATATATATATTAGTA
1 TTTTAATATATATGTATATATT--TA
* *
6157161 TTTCTAATATATATTGTATATGTTCA
1 TTT-TAATATATA-TGTATATATTTA
6157187 TTTTATATATATTATGTATATATTTA
1 TTTTA-ATATA-TATGTATATATTTA
6157213 ATATTATTAT
Statistics
Matches: 77, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
22 19 0.25
23 9 0.12
24 10 0.13
25 3 0.04
26 24 0.31
27 4 0.05
28 8 0.10
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
TTTTAATATATATGTATATATTTA
Found at i:6157220 original size:21 final size:22
Alignment explanation
Indices: 6157148--6157227 Score: 69
Period size: 24 Copynumber: 3.7 Consensus size: 22
6157138 GTAGTATTAT
*
6157148 ATATATATTA-GTAT-T-TCTA
1 ATATATATTATGTATATATTTA
* * * *
6157167 ATATATATTGTATATGTTCATTTT
1 ATATATATTATGTAT-AT-ATTTA
6157191 ATATATATTATGTATATATTTA
1 ATATATATTATGTATATATTTA
6157213 ATAT-TATTATGTATA
1 ATATATATTATGTATA
6157228 CACTTTTCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
19 9 0.19
20 3 0.06
21 11 0.23
22 9 0.19
23 1 0.02
24 15 0.31
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (22 bp):
ATATATATTATGTATATATTTA
Found at i:6160441 original size:45 final size:44
Alignment explanation
Indices: 6160375--6160469 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
6160365 GGATTAGAGG
* * *
6160375 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAGC-ACTGTTTGGTTGAA
* * **
6160420 TGTAATGGAATATAGGCGTAATAGTAAAGCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAGCACTGTTTGGTTGAA
6160464 TGTAAT
1 TGTAAT
6160470 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAGCACTGTTTGGTTGAA
Found at i:6160652 original size:18 final size:17
Alignment explanation
Indices: 6160631--6160665 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6160621 TTATTATTTA
*
6160631 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6160649 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6160666 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6160659 original size:28 final size:27
Alignment explanation
Indices: 6160589--6160661 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
6160579 TTTATTATCA
*
6160589 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
6160617 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
6160644 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
6160662 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:6160799 original size:18 final size:17
Alignment explanation
Indices: 6160778--6160812 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6160768 TTATTATTAA
*
6160778 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6160796 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6160813 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6160824 original size:147 final size:149
Alignment explanation
Indices: 6160550--6160824 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
6160540 ATGATTATTG
*
6160550 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
6160615 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
6160680 AGAAATTTATTTTGGTAAA
131 AGAAATTTATTTTGGTAAA
* *
6160699 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
6160762 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
6160825 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTATTTTGGTAAA
Found at i:6160920 original size:18 final size:17
Alignment explanation
Indices: 6160880--6160932 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
6160870 AAATATAAAT
6160880 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
6160894 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
6160909 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
6160927 TAAAAT
1 TAAAAT
6160933 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:6160990 original size:60 final size:59
Alignment explanation
Indices: 6160806--6160992 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
6160796 ATATAATTTA
*
6160806 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
6160867 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
6160925 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
6160986 ATAAAAT
1 ATAAAAT
6160993 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:6160991 original size:119 final size:120
Alignment explanation
Indices: 6160758--6161052 Score: 495
Period size: 119 Copynumber: 2.5 Consensus size: 120
6160748 TTACTCATAT
*
6160758 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
6160823 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
6160879 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATC
1 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
6160943 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
6160998 TTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
6161053 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 108 0.65
120 53 0.32
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:6165458 original size:72 final size:72
Alignment explanation
Indices: 6165379--6165535 Score: 190
Period size: 72 Copynumber: 2.2 Consensus size: 72
6165369 TTTGATTAAA
* *
6165379 GGATAAGTCCAACAAATCCAAATTGGTTAAGTT-GCCTAATGTAGAAGGGACAGGACCAATAATT
1 GGATAAGTCCAACAAATCCAAATTGGTTAAGTTGGCC-AAGGTAGAAGGGACAGGACCAAGAATT
*
6165443 TGGTTTTT
65 TGGTTATT
* ** ** * * *
6165451 GGATAAGTTCAACATTTTTAAATTGGTTAAGTTGGCCAAGGTAGGAGGGATAGGACCACGAATTT
1 GGATAAGTCCAACAAATCCAAATTGGTTAAGTTGGCCAAGGTAGAAGGGACAGGACCAAGAATTT
6165516 GGTTATT
66 GGTTATT
*
6165523 GGATAGGTCCAAC
1 GGATAAGTCCAAC
6165536 TGTTTCAACC
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
72 68 0.96
73 3 0.04
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (72 bp):
GGATAAGTCCAACAAATCCAAATTGGTTAAGTTGGCCAAGGTAGAAGGGACAGGACCAAGAATTT
GGTTATT
Found at i:6176916 original size:94 final size:98
Alignment explanation
Indices: 6176712--6176946 Score: 275
Period size: 94 Copynumber: 2.4 Consensus size: 98
6176702 AAAAGATGTG
* * *
6176712 ATATGTG-TTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATGTGATAAGGTGCTTC
1 ATATGTGCTT-CCGTATAAGACCATATCTGGGATATGGCATC-GTGTGA-GTGATAAGGAGCTTC
*
6176776 CGTATAAGACCATGTCTGGGACATGACATCGGTATC
63 CGTATAAGACCATATCTGGGACATGACATCGGTATC
* * *
6176812 ATATGAGCTTCCGTATAAGACCATATCTGGGATATGGCATC-TGTGA-T-AT-ATGAGCTTTCGT
1 ATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGTGTGAGTGATAAGGAGCTTCCGT
* * *
6176873 ATAAGACCATATCTGGGATAT-AGCATCGGTGTT
66 ATAAGACCATATCTGGGACATGA-CATCGGTATC
* * *
6176906 ATATGTGCTTCTGTGTAAGAACATATCTGGGATATGGCATC
1 ATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATC
6176947 AATATGATAT
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
93 1 0.01
94 73 0.61
95 2 0.02
96 1 0.01
98 5 0.04
100 35 0.29
101 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (98 bp):
ATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGTGTGAGTGATAAGGAGCTTCCGT
ATAAGACCATATCTGGGACATGACATCGGTATC
Found at i:6176957 original size:47 final size:46
Alignment explanation
Indices: 6176769--6176975 Score: 227
Period size: 47 Copynumber: 4.4 Consensus size: 46
6176759 ATGTGATAAG
* * *
6176769 GTGCTTCCGTATAAGACCATGTCTGGGACATGACATCGGTATCATAT
1 GTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT-ATAT
* *
6176816 GAGCTTCCGTATAAGACCATATCTGGGATATGGCATCTGTGATATAT
1 GTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGT-ATATAT
* * * *
6176863 GAGCTTTCGTATAAGACCATATCTGGGATATAGCATCGGTGTTATAT
1 GTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGT-ATATAT
* * * **
6176910 GTGCTTCTGTGTAAGAACATATCTGGGATATGGCATCAATATGATAT
1 GTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT-ATAT
* *
6176957 GTG-ATCCGTGTAAGACCAT
1 GTGCTTCCGTATAAGACCAT
6176976 GGCTAGGCTA
Statistics
Matches: 137, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
46 14 0.10
47 121 0.88
48 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (46 bp):
GTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGTATATAT
Found at i:6177144 original size:42 final size:42
Alignment explanation
Indices: 6177097--6177182 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
6177087 ATGAAAGTAA
6177097 ATGAAAAATAGGCCCAAGAGTTCTAAAATTTGGTGAATAATG
1 ATGAAAAATAGGCCCAAGAGTTCTAAAATTTGGTGAATAATG
* *
6177139 ATGAAAAATGGGCCCAAGAGTTCTAAAATTTGGTGAATAGTG
1 ATGAAAAATAGGCCCAAGAGTTCTAAAATTTGGTGAATAATG
6177181 AT
1 AT
6177183 ATCGAAATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (42 bp):
ATGAAAAATAGGCCCAAGAGTTCTAAAATTTGGTGAATAATG
Found at i:6184511 original size:41 final size:43
Alignment explanation
Indices: 6184407--6184574 Score: 123
Period size: 41 Copynumber: 3.9 Consensus size: 43
6184397 TTGCACAATA
* * *
6184407 CCAATGTCCCAGATGTGGTCTTACA-TATGATCAAATATCTATG
1 CCAATGTCCCAGATATGGTCTTACACGA-GATCAAATATCGATG
* * * * *
6184450 CCACTGTCCCTGACAGGGTCTTACACGA-ATCATATA-CGATG
1 CCAATGTCCCAGATATGGTCTTACACGAGATCAAATATCGATG
* *
6184491 CCAATGTCCCAGATATGGTCTTACACATACATCTCAAATA--GATG
1 CCAATGTCCCAGATATGGTCTTACAC-GAGA--TCAAATATCGATG
* * * *
6184535 CCAACGTCCCAG-TCGTGGTCTTACACGAAATCACATATCG
1 CCAATGTCCCAGAT-ATGGTCTTACACGAGATCAAATATCG
6184575 GAATCCTATG
Statistics
Matches: 98, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
41 32 0.33
42 8 0.08
43 25 0.26
44 27 0.28
45 6 0.06
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
CCAATGTCCCAGATATGGTCTTACACGAGATCAAATATCGATG
Found at i:6187627 original size:18 final size:18
Alignment explanation
Indices: 6187604--6187665 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
6187594 TCAAAATATT
6187604 AAAATTATAAAAATACAA
1 AAAATTATAAAAATACAA
*
6187622 AAAATTATAAAATATA-GA
1 AAAATTATAAAA-ATACAA
* *
6187640 AAATTTATAAAGAAT-CAT
1 AAAATTATAAA-AATACAA
6187658 AAAATTAT
1 AAAATTAT
6187666 TAGACATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 32 0.89
19 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAATTATAAAAATACAA
Found at i:6187650 original size:36 final size:34
Alignment explanation
Indices: 6187596--6187665 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 34
6187586 TTGAATATTC
*
6187596 AAAATATTAAAATTATAAA-AATACAAAAAATTAT
1 AAAATATGAAAATTATAAAGAAT-CAAAAAATTAT
*
6187630 AAAATATAGAAAATTTATAAAGAATCATAAAATTAT
1 AAAATAT-GAAAA-TTATAAAGAATCAAAAAATTAT
6187666 TAGACATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 7 0.23
35 4 0.13
36 17 0.55
37 3 0.10
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (34 bp):
AAAATATGAAAATTATAAAGAATCAAAAAATTAT
Found at i:6191629 original size:72 final size:71
Alignment explanation
Indices: 6191469--6191637 Score: 180
Period size: 72 Copynumber: 2.3 Consensus size: 71
6191459 TACCCCAGTG
* * * * *
6191469 ATTTGATTAAAGGATAAGTCCAAC-TGTTTTAAATTGGTTAATTTGCCTAAGGTAGAAGGGAAAG
1 ATTTGATT-ATGGATAGGTCCAACAT-TTTTAAAGTGGTTAAGTTGCCCAAGGTAGAAGGGAAAG
6191533 GACCACTA
64 GACCACTA
* * * *
6191541 ATTTGGTTTTTGGATAGGTTCAACATTTTTAAAGTGGTTAAGTTGCCCAAGGTAGAAGGGATAGG
1 ATTT-GATTATGGATAGGTCCAACATTTTTAAAGTGGTTAAGTTGCCCAAGGTAGAAGGGAAAGG
* *
6191606 GCCAGTA
65 ACCACTA
6191613 ATTCT-ATTATGCGATAGGTCCAACA
1 ATT-TGATTATG-GATAGGTCCAACA
6191638 GCTTCAAACT
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
71 4 0.05
72 70 0.89
73 5 0.06
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (71 bp):
ATTTGATTATGGATAGGTCCAACATTTTTAAAGTGGTTAAGTTGCCCAAGGTAGAAGGGAAAGGA
CCACTA
Found at i:6192473 original size:16 final size:15
Alignment explanation
Indices: 6192442--6192472 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6192432 TTTGATTTGT
*
6192442 ATTTTTTTATTGAAA
1 ATTTTTCTATTGAAA
6192457 ATTTTTCTATTGAAA
1 ATTTTTCTATTGAAA
6192472 A
1 A
6192473 AATATATAAA
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:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTTCTATTGAAA
Found at i:6193176 original size:17 final size:19
Alignment explanation
Indices: 6193144--6193183 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
6193134 AAATGTGAAA
6193144 AATAACAACAAAATTA-AC
1 AATAACAACAAAATTATAC
*
6193162 AATAA-AACAAGATTATAC
1 AATAACAACAAAATTATAC
6193180 AATA
1 AATA
6193184 TTCAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.20
Consensus pattern (19 bp):
AATAACAACAAAATTATAC
Found at i:6193991 original size:29 final size:30
Alignment explanation
Indices: 6193959--6194017 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
6193949 TCACGTGTAT
*
6193959 AATT-ATATCAAATTAAAATTCATATATAC
1 AATTAATATCAAATCAAAATTCATATATAC
* *
6193988 AATTACATATTAGATCAAAATTCATATATA
1 AATTA-ATATCAAATCAAAATTCATATATA
6194018 ATTTTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
31 21 0.84
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (30 bp):
AATTAATATCAAATCAAAATTCATATATAC
Found at i:6201273 original size:18 final size:17
Alignment explanation
Indices: 6201252--6201285 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6201242 TTAAAAAATC
*
6201252 ATATTTTTTTTATATTTA
1 ATATATTTTTTA-ATTTA
6201270 ATATATTTTTTAATTT
1 ATATATTTTTTAATTT
6201286 CAAAATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATATATTTTTTAATTTA
Found at i:6201293 original size:18 final size:18
Alignment explanation
Indices: 6201257--6201298 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
6201247 AAATCATATT
*
6201257 TTTTTTATATTTAATATA
1 TTTTTTATATTTAAAATA
6201275 TTTTTTA-ATTTCAAAATA
1 TTTTTTATATTT-AAAATA
6201293 TATTTT
1 T-TTTT
6201299 GACAAGAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTTATATTTAAAATA
Found at i:6209650 original size:52 final size:53
Alignment explanation
Indices: 6209583--6209687 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
6209573 GTCCTCAATA
* *
6209583 AATTTCATTCCTATTGCA-TTGCTATCTTTGATTAACTTATTCATTTTGAGTT
1 AATTTCATTCCTATTGCATTTGCAATCTTTGATTAACTTATTCATTTCGAGTT
* * * * * *
6209635 AATTTCCTTCTTATTGTATTTTCAATCTTTGATTGATTTATTCATTTCGAGTT
1 AATTTCATTCCTATTGCATTTGCAATCTTTGATTAACTTATTCATTTCGAGTT
6209688 TTGCTCTCAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
52 15 0.34
53 29 0.66
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.54
Consensus pattern (53 bp):
AATTTCATTCCTATTGCATTTGCAATCTTTGATTAACTTATTCATTTCGAGTT
Found at i:6210136 original size:64 final size:64
Alignment explanation
Indices: 6210060--6210251 Score: 339
Period size: 64 Copynumber: 3.0 Consensus size: 64
6210050 TCATTCATAA
6210060 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * *
6210124 CATATCTAGTTAGGGGAATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGTAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
*
6210188 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
6210252 AGATACATGA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 119 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:6210653 original size:131 final size:131
Alignment explanation
Indices: 6210315--6210657 Score: 463
Period size: 131 Copynumber: 2.6 Consensus size: 131
6210305 ATCGGTAATT
* * *
6210315 TTGCAGATCTTGCCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCTCTG
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTATCTC-CCG
* * *
6210380 AAGTTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
65 AAGTTGCAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTAAA
6210445 GA
130 GA
* * * * *
6210447 TTGCAGATCTTGTCTCTCTGAAGTTGCAGTGGAAAAAATCGAAGACGGCGAATCTTATCTCCCTA
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTATCTCCCGA
*** * *
6210512 ACCAGTAGTGGAGCAAATTTAAGCCACCATCCTATCTTCCTAAGAAGTAGTGGAGTAGGCTAAAG
66 AGTTGCAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTAAAG
6210577 A
131 A
* * * * * *
6210578 TTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACTAACCTTATCTTCCCG
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTATC-TCCCG
6210642 AAGTTGCAGTGGAGCA
65 AAGTTGCAGTGGAGCA
6210658 GGTTGAAGTT
Statistics
Matches: 179, Mismatches: 31, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
130 10 0.06
131 114 0.64
132 55 0.31
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (131 bp):
TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTATCTCCCGA
AGTTGCAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTAAAG
A
Found at i:6210689 original size:44 final size:43
Alignment explanation
Indices: 6210584--6210699 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 43
6210574 AAGATTGTAG
*
6210584 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTA
1 ATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTA
* * * **
6210628 ACCTTATCTTCCCGAAGTTGCAGTGGAGCAGGTTGAAGTTAC-A
1 ATCTTATC-TCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTA
*
6210671 AGTCTTATCTCCTTGAAGTTGTAGTGGAG
1 A-TCTTATCTCC-TGAAGTTGCAGTGGAG
6210700 TAGACTCATG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
43 5 0.08
44 54 0.90
45 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
ATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTA
Found at i:6211828 original size:25 final size:24
Alignment explanation
Indices: 6211783--6211838 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 24
6211773 AACGAACAAG
6211783 AAGACAAAAACAATAGCAAACA-AC
1 AAGA-AAAAACAATAGCAAACAGAC
6211807 AAAGAAAAAACAATGAAG-AAACAGAC
1 -AAGAAAAAACAAT--AGCAAACAGAC
6211833 AAGAAA
1 AAGAAA
6211839 TAGAAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 9 0.32
25 15 0.54
26 4 0.14
ACGTcount: A:0.70, C:0.14, G:0.12, T:0.04
Consensus pattern (24 bp):
AAGAAAAAACAATAGCAAACAGAC
Found at i:6211922 original size:19 final size:18
Alignment explanation
Indices: 6211893--6211942 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
6211883 GTATATATTT
6211893 TAAATTTATTTAGGTAAA
1 TAAATTTATTTAGGTAAA
* *
6211911 TAAATCTTATTTGGGTAGA
1 TAAAT-TTATTTAGGTAAA
*
6211930 TAAGTTTTATTTA
1 TAA-ATTTATTTA
6211943 TATTCTAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.19
19 20 0.77
20 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (18 bp):
TAAATTTATTTAGGTAAA
Found at i:6212009 original size:43 final size:43
Alignment explanation
Indices: 6211962--6212046 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
6211952 AATTTTTTTA
6211962 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
1 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
* * *
6212005 TTTTATGTTTTAGTAGTTTATTAGAATAATGGAACTATTTTC
1 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTC
6212047 CTAATTAGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (43 bp):
TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
Found at i:6215656 original size:46 final size:45
Alignment explanation
Indices: 6215603--6215778 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
6215593 TATTTGGGCA
6215603 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAA-G
*** * *
6215649 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAAAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GAC--GCGAAG
* * *
6215696 TCCGAGCTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAA-G
* *
6215742 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6215779 GCAGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 3 0.03
46 65 0.61
47 31 0.29
48 2 0.02
49 2 0.02
50 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAAG
Found at i:6215758 original size:93 final size:93
Alignment explanation
Indices: 6215599--6215771 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
6215589 GGGATATTTG
* *
6215599 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGACGCGAACGTCCGAACTCGTTGAG
6215664 TTGAGTCCGAGTTCGAAAGATGTAACTA
66 TTGAGTCCGAGTTCGAAAGATGTAACTA
* * *
6215692 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGACGCGAACGTCC-GAACTCGTTGA
6215756 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
6215772 CTTATGGGCA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGACGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAAAGATGTAACTA
Found at i:6219456 original size:19 final size:19
Alignment explanation
Indices: 6219410--6219457 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
6219400 GTATATATTT
6219410 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
6219428 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
6219447 TAAGTTTTATT
1 TAAATTTTATT
6219458 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:6222625 original size:15 final size:17
Alignment explanation
Indices: 6222580--6222633 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 17
6222570 TATATTATAC
6222580 ATTATAA-GATTA-TTTT
1 ATTATAATG-TTATTTTT
6222596 ATTATAAATGTTATTTTT
1 ATTAT-AATGTTATTTTT
*
6222614 ATTAT-ATG-TATTATT
1 ATTATAATGTTATTTTT
6222629 ATTAT
1 ATTAT
6222634 CTAATATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
15 11 0.32
16 8 0.24
17 5 0.15
18 10 0.29
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTATAATGTTATTTTT
Found at i:6222861 original size:25 final size:25
Alignment explanation
Indices: 6222788--6222861 Score: 66
Period size: 27 Copynumber: 3.0 Consensus size: 25
6222778 ATTTCCCATA
*
6222788 TATTTTAT-TATATA-ACAT-TTAT
1 TATTTTATATATATATATATATTAT
* *
6222810 TATGTTT-TATCTTTATATATTACTTAT
1 TAT-TTTATATATATATATA-TA-TTAT
6222837 TATTTTATATATATATATATATTAT
1 TATTTTATATATATATATATATTAT
6222862 CACATATTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
22 4 0.10
23 7 0.17
24 2 0.05
25 5 0.12
26 5 0.12
27 17 0.43
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (25 bp):
TATTTTATATATATATATATATTAT
Found at i:6222976 original size:4 final size:4
Alignment explanation
Indices: 6222969--6223009 Score: 55
Period size: 4 Copynumber: 9.5 Consensus size: 4
6222959 ATACATTTCA
6222969 TTAT TTAT TTAT TTAT TTAT TTAT TATAT ATTAT TTCAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT T-TAT -TTAT TT-AT TT
6223010 TAAATTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 23 0.68
5 10 0.29
6 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:6226622 original size:25 final size:25
Alignment explanation
Indices: 6226594--6226643 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6226584 CTACTATTTA
6226594 AGAAAAGAGTATGACAAGTGAAGAC
1 AGAAAAGAGTATGACAAGTGAAGAC
6226619 AGAAAAGAGTATGACAAGTGAAGAC
1 AGAAAAGAGTATGACAAGTGAAGAC
6226644 TAAGTCTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.08, G:0.28, T:0.12
Consensus pattern (25 bp):
AGAAAAGAGTATGACAAGTGAAGAC
Found at i:6232301 original size:9 final size:9
Alignment explanation
Indices: 6232287--6232316 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
6232277 ATAGTTCAAT
6232287 AATAATTTA
1 AATAATTTA
6232296 AATAATTTA
1 AATAATTTA
6232305 AATAATTTA
1 AATAATTTA
6232314 AAT
1 AAT
6232317 CTTATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AATAATTTA
Found at i:6232979 original size:6 final size:6
Alignment explanation
Indices: 6232968--6232995 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6232958 AATTGAAAGC
6232968 TCTCTT TCTCTT TCTCTT TCTCTT TCTC
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTC
6232996 ATCTACAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (6 bp):
TCTCTT
Found at i:6233253 original size:31 final size:30
Alignment explanation
Indices: 6233218--6233314 Score: 140
Period size: 31 Copynumber: 3.1 Consensus size: 30
6233208 AACAACCCAA
6233218 TGACTTAAATAAAAACTTTTTAATAGTTTAG
1 TGACTTAAAT-AAAACTTTTTAATAGTTTAG
**
6233249 TGACTTAAATAAATTTTTTTGAATAGTTTAG
1 TGACTTAAATAAAACTTTTT-AATAGTTTAG
*
6233280 TGACTTAAATGAAAACTTTTGAATAGTTTAG
1 TGACTTAAAT-AAAACTTTTTAATAGTTTAG
6233311 TGAC
1 TGAC
6233315 CAAATTGTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
30 8 0.14
31 44 0.75
32 7 0.12
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.42
Consensus pattern (30 bp):
TGACTTAAATAAAACTTTTTAATAGTTTAG
Found at i:6233375 original size:34 final size:34
Alignment explanation
Indices: 6233337--6233401 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
6233327 TTTTCTAGTT
6233337 AAATGACCAAAACAAAAACTTACTCATAATTAAG
1 AAATGACCAAAACAAAAACTTACTCATAATTAAG
*
6233371 AAATGACCAAAATAAAAACTTACTCATAATT
1 AAATGACCAAAACAAAAACTTACTCATAATT
6233402 TAGTGACTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.23
Consensus pattern (34 bp):
AAATGACCAAAACAAAAACTTACTCATAATTAAG
Found at i:6236825 original size:2 final size:2
Alignment explanation
Indices: 6236820--6236872 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
6236810 CTCTTTCTCT
6236820 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
6236862 AC AC AG AC AC A
1 AC AC AC AC AC A
6236873 TATAGACCAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.47, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:6244088 original size:10 final size:10
Alignment explanation
Indices: 6244049--6244098 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
6244039 TGAAATTCTA
6244049 AAAGATAAAT
1 AAAGATAAAT
*
6244059 ACAA-ATAAAA
1 A-AAGATAAAT
6244069 AAAGATAAAT
1 AAAGATAAAT
6244079 AAAGATAAAT
1 AAAGATAAAT
6244089 GAAA-ATAAAT
1 -AAAGATAAAT
6244099 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:6244966 original size:41 final size:40
Alignment explanation
Indices: 6244858--6244967 Score: 93
Period size: 41 Copynumber: 2.8 Consensus size: 40
6244848 TCTGATAATT
* *
6244858 CGAAGTAACAGTTTGACACCCAGTGTCTCATCGGCCATGC
1 CGAAGTAACAATTTGACACCCAGTGTCTCATCAGCCATGC
** ** ***
6244898 CGAAGT---AATTTGGTACCCAGTACCTCATCAAATTTAT-C
1 CGAAGTAACAATTTGACACCCAGTGTCTCATC--AGCCATGC
6244936 CGAAGTAACAATTTGACACCCAGTGTCTCATC
1 CGAAGTAACAATTTGACACCCAGTGTCTCATC
6244968 GACTCGAGGT
Statistics
Matches: 52, Mismatches: 13, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
37 18 0.35
38 7 0.13
39 2 0.04
40 6 0.12
41 19 0.37
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (40 bp):
CGAAGTAACAATTTGACACCCAGTGTCTCATCAGCCATGC
Found at i:6245318 original size:14 final size:14
Alignment explanation
Indices: 6245299--6245329 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6245289 ATGAGCACAT
6245299 CATTCTCTTTATGC
1 CATTCTCTTTATGC
6245313 CATTCTCTTTATGC
1 CATTCTCTTTATGC
6245327 CAT
1 CAT
6245330 AACCCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.29, G:0.06, T:0.48
Consensus pattern (14 bp):
CATTCTCTTTATGC
Found at i:6247132 original size:27 final size:27
Alignment explanation
Indices: 6247094--6247148 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
6247084 TTTGGGGTGC
*
6247094 TTTCATTGCATTTTTGGGCTTAAGTTG
1 TTTCATTGCATTTTTGAGCTTAAGTTG
*
6247121 TTTCATTGCATTTTTGAGCTTGAGTTG
1 TTTCATTGCATTTTTGAGCTTAAGTTG
6247148 T
1 T
6247149 GAACTTTAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.15, C:0.11, G:0.22, T:0.53
Consensus pattern (27 bp):
TTTCATTGCATTTTTGAGCTTAAGTTG
Found at i:6247516 original size:15 final size:15
Alignment explanation
Indices: 6247496--6247545 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
6247486 ATGTGAGTAA
6247496 AAATACAACCTAAAG
1 AAATACAACCTAAAG
**
6247511 AAATAC-A--TAACTC
1 AAATACAACCTAA-AG
6247524 AAATACAACCTAAAG
1 AAATACAACCTAAAG
6247539 AAATACA
1 AAATACA
6247546 TAACTCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
12 3 0.11
13 6 0.22
14 2 0.07
15 13 0.48
16 3 0.11
ACGTcount: A:0.60, C:0.20, G:0.04, T:0.16
Consensus pattern (15 bp):
AAATACAACCTAAAG
Found at i:6247528 original size:28 final size:28
Alignment explanation
Indices: 6247496--6247555 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
6247486 ATGTGAGTAA
6247496 AAATACAACCTAAAGAAATACATAACTC
1 AAATACAACCTAAAGAAATACATAACTC
6247524 AAATACAACCTAAAGAAATACATAACTC
1 AAATACAACCTAAAGAAATACATAACTC
6247552 AAAT
1 AAAT
6247556 TGACATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.58, C:0.20, G:0.03, T:0.18
Consensus pattern (28 bp):
AAATACAACCTAAAGAAATACATAACTC
Found at i:6249196 original size:18 final size:20
Alignment explanation
Indices: 6249159--6249207 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
6249149 ATTACAAAAT
*
6249159 AATTCAAAATAATTT-TTAA
1 AATTCAAAATAATTTATAAA
6249178 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTTATAAA
6249197 AATTTCAAAAT
1 AA-TTCAAAAT
6249208 TTATATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 15 0.56
20 8 0.30
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTCAAAATAATTTATAAA
Found at i:6249242 original size:19 final size:19
Alignment explanation
Indices: 6249218--6249272 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
6249208 TTATATTTTT
6249218 TAAAAAATTATAAAAATTC
1 TAAAAAATTATAAAAATTC
* **
6249237 TAAAAAAATATAAAAAAGC
1 TAAAAAATTATAAAAATTC
*
6249256 T-AAAAATTTTAAAAATT
1 TAAAAAATTATAAAAATT
6249273 TTCTAAAATA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAAATTATAAAAATTC
Found at i:6262736 original size:47 final size:48
Alignment explanation
Indices: 6262653--6262746 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 48
6262643 GCTTAAAAAG
6262653 GTCACCCATCTATGCATAAATGTTCAAAAGAATGAATTCACTTTTAAT
1 GTCACCCATCTATGCATAAATGTTCAAAAGAATGAATTCACTTTTAAT
*
6262701 GTCACCCATCTATGCA-AAATGTTCAAAAGATTGAATTCACTTTTAA
1 GTCACCCATCTATGCATAAATGTTCAAAAGAATGAATTCACTTTTAA
6262747 GTATGATTGG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 29 0.64
48 16 0.36
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (48 bp):
GTCACCCATCTATGCATAAATGTTCAAAAGAATGAATTCACTTTTAAT
Done.