Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 253 of 322
Found at i:84015659 original size:39 final size:40
Alignment explanation
Indices: 84015597--84015704 Score: 148
Period size: 39 Copynumber: 2.7 Consensus size: 40
84015587 AGCTACTGCT
*
84015597 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTAGCA
* * *
84015637 CAAATGCCTTCGGGACTT-GCCCAG-AACTAGTCACTAGCG
1 CAAATGCCTTCGGGACTTAGCCCAGTTA-TAGTAACTAGCA
*
84015676 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCAGTTAT
84015705 CATCCAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
38 1 0.02
39 33 0.56
40 24 0.41
41 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTAGCA
Found at i:84027862 original size:13 final size:13
Alignment explanation
Indices: 84027844--84027873 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
84027834 TTTAAGCTAA
84027844 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
*
84027857 ACTTCTCAAAGGC
1 ACTTCTCAAAAGC
84027870 ACTT
1 ACTT
84027874 TTTCACAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.27
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:84034087 original size:14 final size:14
Alignment explanation
Indices: 84034064--84034096 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
84034054 TAGGGTATAA
*
84034064 GTTAATGTAAGTAT
1 GTTAACGTAAGTAT
84034078 GTTAACGTAAGTAT
1 GTTAACGTAAGTAT
84034092 GTTAA
1 GTTAA
84034097 GTCTATGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (14 bp):
GTTAACGTAAGTAT
Found at i:84042337 original size:69 final size:69
Alignment explanation
Indices: 84042224--84042723 Score: 396
Period size: 69 Copynumber: 7.3 Consensus size: 69
84042214 ATTCTTCACT
* * * * * * * *
84042224 TGCAAACATTGTTTTTATAGCTGGGAGGTTT-ATGCTCGCTAACTGTTTCGGAAGTTGTGGCTTT
1 TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCT-CTCGCTAACTGTTTCGGAGGTTGCGGCTCT
*
84042288 TTGCC
65 TCGCC
* * * * * ***
84042293 TACAAACCTTGATTTTATAGCTGGGAGATTTGCTATCACTAACTGTTT-GGAGGTTGCAATTCTT
1 TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGCGGCTCTT
84042357 CGCC
66 CGCC
** * * * * ** *
84042361 TGTGAACCTTGATTTTATAACTGGGAGTTTTGCTCTCGCTAACTATTTTAGAGGTTGCAGCTCTT
1 TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGCGGCTCTT
84042426 CGCC
66 CGCC
* * * * *
84042430 TGCGAACCTTAATTTTACCGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCGGCTCTT
1 TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGCGGCTCTT
84042495 CGCC
66 CGCC
* ** * * *
84042499 TGCGAACCTT-ATTTTTACAGCTGGGAGCTTTGCTCTTTCTAACTGTTTCGAAGGTTGCGACCCT
1 TGCAAACCTTGA-TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGCGGCTCT
*
84042563 TCACC
65 TCGCC
* * * * * * **
84042568 TACAAAGCTTGATTTTACAGCTGGGTGCTTTGCTCTCGCTAACTATTTTGGAGGTTACAACTCTT
1 TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGCGGCTCTT
*
84042633 CACC
66 CGCC
* * * ** * * * ** *
84042637 TGCGAACCTTTATTTTACAGTTGGGAATTTTGCTCTTGTTAACTATTTTAGAGG-TACGGGCTCT
1 TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGC-GGCTCT
84042701 TCGCC
65 TCGCC
** *
84042706 TGTGAACCTAGATTTTAC
1 TGCAAACCTTGATTTTAC
84042724 CAAAGATAGT
Statistics
Matches: 354, Mismatches: 72, Indels: 10
0.81 0.17 0.02
Matches are distributed among these distances:
68 57 0.16
69 295 0.83
70 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (69 bp):
TGCAAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTCGGAGGTTGCGGCTCTT
CGCC
Found at i:84042554 original size:138 final size:137
Alignment explanation
Indices: 84042235--84042680 Score: 467
Period size: 138 Copynumber: 3.2 Consensus size: 137
84042225 GCAAACATTG
* * * *
84042235 TTTTTATAGCTGGGAGGTTTATGCTC--GCTAACTGTTTCGGAA-GTTGTGGCTTTTTGCCTACA
1 TTTTTACAGCTGGGA-GTTT-TGCTCTTGCTAACTGTTTC-GAAGGTTG-CGCTCTTCGCCTACA
* * * *
84042297 AACCTTGATTTTATAGCTGGGAGATTTGCTATCACTAACTG-TTTGGAGGTTGCAATTCTTCGCC
62 AACCTTGATTTTACAGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCAACTCTTCGCC
*
84042361 TGTGAACCTTGA
127 TGCGAACCTT-A
* * * * *
84042373 TTTTATA-A-CTGGGAGTTTTGCTCTCGCTAACTATTT-TAGAGGTTGCAGCTCTTCGCCTGCGA
1 TTTT-TACAGCTGGGAGTTTTGCTCTTGCTAACTGTTTCGA-AGGTTGC-GCTCTTCGCCTACAA
* * **
84042435 ACCTTAATTTTACCGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCGGCTCTTCGCCT
63 ACCTTGATTTTACAGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCAACTCTTCGCCT
84042500 GCGAACCTTA
128 GCGAACCTTA
* * * * *
84042510 TTTTTACAGCTGGGAGCTTTGCTCTTTCTAACTGTTTCGAAGGTTGCGACCCTTCACCTACAAAG
1 TTTTTACAGCTGGGAGTTTTGCTCTTGCTAACTGTTTCGAAGGTTGCG-CTCTTCGCCTACAAAC
* * * * *
84042575 CTTGATTTTACAGCTGGGTGCTTTGCTCTCGCTAACTATTTTGGAGGTTACAACTCTTCACCTGC
65 CTTGATTTTACAGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCAACTCTTCGCCTGC
84042640 GAACCTT-
130 GAACCTTA
* * *
84042647 TATTTTACAGTTGGGAATTTTGCTCTTGTTAACT
1 T-TTTTACAGCTGGGAGTTTTGCTCTTGCTAACT
84042681 ATTTTAGAGG
Statistics
Matches: 256, Mismatches: 40, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
135 6 0.02
136 7 0.03
137 74 0.29
138 166 0.65
139 3 0.01
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (137 bp):
TTTTTACAGCTGGGAGTTTTGCTCTTGCTAACTGTTTCGAAGGTTGCGCTCTTCGCCTACAAACC
TTGATTTTACAGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCAACTCTTCGCCTGCG
AACCTTA
Found at i:84042615 original size:207 final size:206
Alignment explanation
Indices: 84042262--84042723 Score: 505
Period size: 207 Copynumber: 2.2 Consensus size: 206
84042252 TTTATGCTCG
* * * * * * * *
84042262 CTAACTGTTTCGGAAGTTGTGGCTTTTTGCCTACAAACCTTGATTTTATAGCTGGGAGATTTGCT
1 CTAACTGTTTTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTGATTTTACAGCTGGGAGATTTGCT
* ** * *** * *
84042327 ATCACTAACTGTTTGGAGGTTGCAATTCTTCGCCTGTGAACCTTGATTTTATAACTGGGAGTTTT
66 ATCACTAACTGTTTGAAGGTTGCAACCCTTCACCTACAAACCTTGATTTTACAACTGGGAGCTTT
* * * * *
84042392 GCTCTCGCTAACTATTTTAGAGGTTGCAGCTCTTCGCCTGCGAACCTTAATTTTACCGCTGGGAG
131 GCTCTCGCTAACTATTTTAGAGGTTACAACTCTTCACCTGCGAACCTTAATTTTACAGCTGGGAA
84042457 CTTTGCTCTCA
196 CTTTGCTCTCA
*
84042468 CTAACTGTTTTGGAGGTTGCGGCTCTTCGCCTGCGAACCTT-ATTTTTACAGCTGGGAGCTTTGC
1 CTAACTGTTTTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTGA-TTTTACAGCTGGGAGATTTGC
* ** * * * *
84042532 TCTTTCTAACTGTTTCGAAGGTTGCGACCCTTCACCTACAAAGCTTGATTTTACAGCTGGGTGCT
65 TATCACTAACTGTTT-GAAGGTTGCAACCCTTCACCTACAAACCTTGATTTTACAACTGGGAGCT
* * *
84042597 TTGCTCTCGCTAACTATTTTGGAGGTTACAACTCTTCACCTGCGAACCTTTATTTTACAGTTGGG
129 TTGCTCTCGCTAACTATTTTAGAGGTTACAACTCTTCACCTGCGAACCTTAATTTTACAGCTGGG
* **
84042662 AATTTTGCTCTTG
194 AACTTTGCTCTCA
* * * * * *
84042675 TTAACTATTTTAGAGG-TACGGGCTCTTCGCCTGTGAACCTAGATTTTAC
1 CTAACTGTTTTGGAGGTTGC-GGCTCTTCGCCTGCGAACCTTGATTTTAC
84042724 CAAAGATAGT
Statistics
Matches: 210, Mismatches: 42, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
205 1 0.00
206 67 0.32
207 141 0.67
208 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (206 bp):
CTAACTGTTTTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTGATTTTACAGCTGGGAGATTTGCT
ATCACTAACTGTTTGAAGGTTGCAACCCTTCACCTACAAACCTTGATTTTACAACTGGGAGCTTT
GCTCTCGCTAACTATTTTAGAGGTTACAACTCTTCACCTGCGAACCTTAATTTTACAGCTGGGAA
CTTTGCTCTCA
Found at i:84042720 original size:138 final size:137
Alignment explanation
Indices: 84042297--84042723 Score: 450
Period size: 138 Copynumber: 3.1 Consensus size: 137
84042287 TTTGCCTACA
* * * * * *
84042297 AACCTTGATTTTATAGCTGGGAGATTTGCTATCACTAACTGTTTGGAGGTTGCAATTCTTCGCCT
1 AACCTAGATTTTACAGCTGGGAGCTTTGCTCTCACTAACTTTTTGGAGGTTGCAACTCTTCGCCT
* * * * * * *
84042362 GTGAACCTTGATTTTATAACTGGGAGTTTTGCTCTCGCTAACTATTTTAGAGGTTGCAGCTCTTC
66 GCGAACCTTTATTTTACAGCTGGGAGTTTTGCTCTTGTTAACTATTTTAGAGGTTGCGGCTCTTC
84042427 GCCTGCG
131 GCCTGCG
* **
84042434 AACCTTA-ATTTTACCGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCGGCTCTTCGC
1 AACC-TAGATTTTACAGCTGGGAGCTTTGCTCTCACTAACT-TTTTGGAGGTTGCAACTCTTCGC
* * * *
84042498 CTGCGAACC-TTATTTTTACAGCTGGGAGCTTTGCTCTT-TCTAACT-GTTTCGAAGGTTGCGAC
64 CTGCGAACCTTTA-TTTTACAGCTGGGAGTTTTGCTCTTGT-TAACTATTTTAG-AGGTTGCGGC
* * * *
84042560 CCTTCACCTACA
126 TCTTCGCCTGCG
* * * * * *
84042572 AAGCTTGATTTTACAGCTGGGTGCTTTGCTCTCGCTAACTATTTTGGAGGTTACAACTCTTCACC
1 AACCTAGATTTTACAGCTGGGAGCTTTGCTCTCACTAACT-TTTTGGAGGTTGCAACTCTTCGCC
* * *
84042637 TGCGAACCTTTATTTTACAGTTGGGAATTTTGCTCTTGTTAACTATTTTAGAGG-TACGGGCTCT
65 TGCGAACCTTTATTTTACAGCTGGGAGTTTTGCTCTTGTTAACTATTTTAGAGGTTGC-GGCTCT
*
84042701 TCGCCTGTG
129 TCGCCTGCG
84042710 AACCTAGATTTTAC
1 AACCTAGATTTTAC
84042724 CAAAGATAGT
Statistics
Matches: 232, Mismatches: 48, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
137 42 0.18
138 182 0.78
139 8 0.03
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (137 bp):
AACCTAGATTTTACAGCTGGGAGCTTTGCTCTCACTAACTTTTTGGAGGTTGCAACTCTTCGCCT
GCGAACCTTTATTTTACAGCTGGGAGTTTTGCTCTTGTTAACTATTTTAGAGGTTGCGGCTCTTC
GCCTGCG
Found at i:84049940 original size:30 final size:30
Alignment explanation
Indices: 84049906--84049965 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
84049896 CATGTCGACT
84049906 AAATTGTAGTACACATCTATTATATTGATA
1 AAATTGTAGTACACATCTATTATATTGATA
84049936 AAATTGTAGTACACATCTATTATATTGATA
1 AAATTGTAGTACACATCTATTATATTGATA
84049966 GCTTAGGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (30 bp):
AAATTGTAGTACACATCTATTATATTGATA
Found at i:84053268 original size:10 final size:10
Alignment explanation
Indices: 84053253--84053298 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
84053243 CTCAGCCACC
84053253 ATCTTTATTT
1 ATCTTTATTT
*
84053263 ATCTTTAATT
1 ATCTTTATTT
84053273 ATCTTTATTT
1 ATCTTTATTT
84053283 AT-TTGTATTT
1 ATCTT-TATTT
84053293 ATCTTT
1 ATCTTT
84053299 TAGAGTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (10 bp):
ATCTTTATTT
Found at i:84061635 original size:41 final size:41
Alignment explanation
Indices: 84061436--84061646 Score: 246
Period size: 41 Copynumber: 5.2 Consensus size: 41
84061426 GTTTGCAACA
* **
84061436 AAACGCCA-TAAAAAACTGAGCAATAGC-GTGTTTTTATTCC
1 AAACGCCACT-AAAAACTGAGCAATAGCGGCGTTTTTGGTCC
*
84061476 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * **
84061517 AAACGCCACTAAAAACTGAGCTATAGGGGCACTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * * *
84061558 AAACGCCGCTAAAAATTGAGCTATAACGGCGCTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * *
84061599 AAACGCCACTAAAAACTAAGCAATAGCAGCGTTTTTGTTAC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
84061640 AAACGCC
1 AAACGCC
84061647 GTAAAAAGTT
Statistics
Matches: 146, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 25 0.17
41 121 0.83
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
Found at i:84061635 original size:82 final size:81
Alignment explanation
Indices: 84061436--84061669 Score: 276
Period size: 82 Copynumber: 2.9 Consensus size: 81
84061426 GTTTGCAACA
* * * * *
84061436 AAACGCCA-TAAAAAACTGAGCAATAGCGTGTTTTTATTCCAAACGCCACTAAAAACTGAGCAAT
1 AAACGCCACT-AAAAACTGAGCAATAGCGCGTTTTTGTTCCAAACGCCGCTAAAAATTGAGCTAT
84061500 AGCGGCGTTTCTGGTCC
65 AGCGGCGTTTCTGGTCC
* * ** *
84061517 AAACGCCACTAAAAACTGAGCTATAGGGGCACTTTTGGTCCAAACGCCGCTAAAAATTGAGCTAT
1 AAACGCCACTAAAAACTGAGCAATA-GCGCGTTTTTGTTCCAAACGCCGCTAAAAATTGAGCTAT
*
84061582 AACGGCGCTTT-TGGTCC
65 AGCGGCG-TTTCTGGTCC
* * *
84061599 AAACGCCACTAAAAACTAAGCAATAGCAGCGTTTTTGTTACAAACGCCG-TAAAAAGTTGATCTA
1 AAACGCCACTAAAAACTGAGCAATAGC-GCGTTTTTGTTCCAAACGCCGCTAAAAA-TTGAGCTA
84061663 TAGCGGC
64 TAGCGGC
84061670 ATTTTTTTAT
Statistics
Matches: 128, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
81 29 0.23
82 96 0.75
83 3 0.02
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (81 bp):
AAACGCCACTAAAAACTGAGCAATAGCGCGTTTTTGTTCCAAACGCCGCTAAAAATTGAGCTATA
GCGGCGTTTCTGGTCC
Found at i:84061664 original size:123 final size:124
Alignment explanation
Indices: 84061473--84061702 Score: 313
Period size: 123 Copynumber: 1.9 Consensus size: 124
84061463 GTGTTTTTAT
* * *
84061473 TCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCACTAAAAACTGAGC
1 TCCAAACGCCACTAAAAACTAAGCAATAGCAGCGTTTCTGGTACAAACGCCACTAAAAACTGAGC
* *
84061538 TATAGGGGCA-CTTTTGGTCCAAACGCCGCTAAAAA-TTGAGCTATAACGGCGCTTTTGG
66 TATAGCGGCATCTTTTGATCCAAACGCCGC-AAAAAGTTGAGCTATAACGGCGCTTTTGG
* * * * *
84061596 TCCAAACGCCACTAAAAACTAAGCAATAGCAGCGTTTTTGTTACAAACGCC-GTAAAAAGTTGAT
1 TCCAAACGCCACTAAAAACTAAGCAATAGCAGCGTTTCTGGTACAAACGCCACTAAAAA-CTGAG
* *
84061660 CTATAGCGGCATTTTTTTATCCAAACGCCGCAAAAAGTTGAGC
65 CTATAGCGGCATCTTTTGATCCAAACGCCGCAAAAAGTTGAGC
84061703 AGGCATTTTC
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
122 6 0.07
123 64 0.70
124 22 0.24
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (124 bp):
TCCAAACGCCACTAAAAACTAAGCAATAGCAGCGTTTCTGGTACAAACGCCACTAAAAACTGAGC
TATAGCGGCATCTTTTGATCCAAACGCCGCAAAAAGTTGAGCTATAACGGCGCTTTTGG
Found at i:84061666 original size:41 final size:41
Alignment explanation
Indices: 84061621--84061700 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
84061611 AAACTAAGCA
* *
84061621 ATAGCAGCGTTTTTGTTA-CAAACGCCGTAAAAAGTTGATCT
1 ATAGCAGCATTTTT-TTACCAAACGCCGCAAAAAGTTGATCT
*
84061662 ATAGCGGCATTTTTTTATCCAAACGCCGCAAAAAGTTGA
1 ATAGCAGCATTTTTTTA-CCAAACGCCGCAAAAAGTTGA
84061701 GCAGGCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 3 0.09
41 12 0.35
42 19 0.56
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (41 bp):
ATAGCAGCATTTTTTTACCAAACGCCGCAAAAAGTTGATCT
Found at i:84062270 original size:21 final size:21
Alignment explanation
Indices: 84062245--84062285 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
84062235 TTAAGTGTAT
84062245 GGTTTAGGGTTT-GTTATTTTG
1 GGTTTAGGGTTTAGTT-TTTTG
*
84062266 GGTTTGGGGTTTAGTTTTTT
1 GGTTTAGGGTTTAGTTTTTT
84062286 AAATTCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.07, C:0.00, G:0.34, T:0.59
Consensus pattern (21 bp):
GGTTTAGGGTTTAGTTTTTTG
Found at i:84062479 original size:20 final size:20
Alignment explanation
Indices: 84062454--84062537 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 20
84062444 AGGGTGCGTG
*
84062454 GAATTTGGGTTTATGGTTTA
1 GAATTTGGGTTTAAGGTTTA
* *
84062474 GAATTTAGGTTTAAAGTTTA
1 GAATTTGGGTTTAAGGTTTA
* *
84062494 GAGTATTGGATTTAAGGTTTA
1 GAAT-TTGGGTTTAAGGTTTA
*
84062515 G-TTTATAGGGTTTAAGGGTTTA
1 GAATT-T-GGGTTTAA-GGTTTA
84062537 G
1 G
84062538 TCTATAAGGT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.02
20 22 0.43
21 21 0.41
22 7 0.14
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (20 bp):
GAATTTGGGTTTAAGGTTTA
Found at i:84062528 original size:21 final size:21
Alignment explanation
Indices: 84062460--84062550 Score: 71
Period size: 21 Copynumber: 4.3 Consensus size: 21
84062450 CGTGGAATTT
*
84062460 GGGTTTATGGTTTAGAATT-TA
1 GGGTTTAAGGTTTAG-ATTATA
* * *
84062481 -GGTTTAAAGTTTAGAGTATT
1 GGGTTTAAGGTTTAGATTATA
* *
84062501 GGATTTAAGGTTTAGTTTATA
1 GGGTTTAAGGTTTAGATTATA
84062522 GGGTTTAAGGGTTTAG-TCTATA
1 GGGTTTAA-GGTTTAGAT-TATA
*
84062544 AGGTTTA
1 GGGTTTA
84062551 GGGTATTTGG
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
19 2 0.04
20 13 0.24
21 23 0.42
22 17 0.31
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.45
Consensus pattern (21 bp):
GGGTTTAAGGTTTAGATTATA
Found at i:84062546 original size:36 final size:35
Alignment explanation
Indices: 84062506--84062585 Score: 106
Period size: 36 Copynumber: 2.3 Consensus size: 35
84062496 GTATTGGATT
**
84062506 TAAGGTTTAGTTTATAGGGTTTAAGGGTTTAGTCTA
1 TAAGGTTTAGGGTATAGGGTTTAA-GGTTTAGTCTA
**
84062542 TAAGGTTTAGGGTATTTGGTTTAAGGTTTAGTCTA
1 TAAGGTTTAGGGTATAGGGTTTAAGGTTTAGTCTA
*
84062577 TATGGTTTA
1 TAAGGTTTA
84062586 AGATTTAGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 19 0.49
36 20 0.51
ACGTcount: A:0.24, C:0.03, G:0.28, T:0.46
Consensus pattern (35 bp):
TAAGGTTTAGGGTATAGGGTTTAAGGTTTAGTCTA
Found at i:84062566 original size:21 final size:21
Alignment explanation
Indices: 84062542--84062632 Score: 92
Period size: 21 Copynumber: 4.3 Consensus size: 21
84062532 GTTTAGTCTA
84062542 TAAGGTTTAGGGTATTTGGTT
1 TAAGGTTTAGGGTATTTGGTT
** *
84062563 TAAGGTTTAGTCTATATGGTT
1 TAAGGTTTAGGGTATTTGGTT
* *
84062584 TAAGATTTAGGGTATTGGGTT
1 TAAGGTTTAGGGTATTTGGTT
* * **
84062605 TAGGGATTAGTTTATTTGGTT
1 TAAGGTTTAGGGTATTTGGTT
*
84062626 TAGGGTT
1 TAAGGTT
84062633 AAGTCTATAA
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (21 bp):
TAAGGTTTAGGGTATTTGGTT
Found at i:84062594 original size:42 final size:42
Alignment explanation
Indices: 84062542--84062627 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
84062532 GTTTAGTCTA
* * *
84062542 TAAGGTTTAGGGTATTTGGTTTAAGGTTTAGTCTATATGGTT
1 TAAGATTTAGGGTATTGGGTTTAAGGATTAGTCTATATGGTT
* * *
84062584 TAAGATTTAGGGTATTGGGTTTAGGGATTAGTTTATTTGGTT
1 TAAGATTTAGGGTATTGGGTTTAAGGATTAGTCTATATGGTT
84062626 TA
1 TA
84062628 GGGTTAAGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (42 bp):
TAAGATTTAGGGTATTGGGTTTAAGGATTAGTCTATATGGTT
Found at i:84063115 original size:94 final size:94
Alignment explanation
Indices: 84062953--84063136 Score: 262
Period size: 94 Copynumber: 2.0 Consensus size: 94
84062943 GCGCTTATTA
* * *
84062953 AAAAATGCCTCTAAAAATATGAGAAATTGAATGAAAATGGCGTCGTTTTAAGTGGCGGGGTAGTG
1 AAAAATGACGCTAAAAATATGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGGCGGGGTAGTG
* *
84063018 GAATTAGCGGCGTTAGGTTATAAACGCCG
66 GAATTAGCGACGCTAGGTTATAAACGCCG
* * * * *
84063047 AAAAATGACGCTAAAAATATGAGACATTGAATTAAAATTACGTTGTTTTAAGTGGCGGGGT-TTA
1 AAAAATGACGCTAAAAATATGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGGCGGGGTAGT-
84063111 GGAATTAGCGACGCTAGGTTATAAAC
65 GGAATTAGCGACGCTAGGTTATAAAC
84063137 ACCGCAATAG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 1 0.01
94 78 0.99
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (94 bp):
AAAAATGACGCTAAAAATATGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGGCGGGGTAGTG
GAATTAGCGACGCTAGGTTATAAACGCCG
Found at i:84063640 original size:16 final size:16
Alignment explanation
Indices: 84063619--84063653 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
84063609 GAAATGCAAA
*
84063619 TTTCTGTTGTTAAGGC
1 TTTCTGTTGTTAAGCC
84063635 TTTCTGTTGTTAAGCC
1 TTTCTGTTGTTAAGCC
84063651 TTT
1 TTT
84063654 GATTTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.54
Consensus pattern (16 bp):
TTTCTGTTGTTAAGCC
Found at i:84064889 original size:23 final size:24
Alignment explanation
Indices: 84064862--84064914 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
84064852 CTATGTTATA
84064862 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
***
84064886 -TATTTTGTTTTTAAAATTAATATT
1 ATA-TTTGTAACTAAAATTAATATT
84064910 ATATT
1 ATATT
84064915 ATAAAACACT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
23 2 0.08
24 20 0.83
25 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:84065855 original size:19 final size:19
Alignment explanation
Indices: 84065827--84065865 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
84065817 AAATAAATTT
84065827 AATTCATAAAAATATATATA
1 AATTCATAAAAATAT-TATA
*
84065847 AATTC-TAAACATATTATA
1 AATTCATAAAAATATTATA
84065865 A
1 A
84065866 CCAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTCATAAAAATATTATA
Found at i:84065990 original size:9 final size:9
Alignment explanation
Indices: 84065972--84066145 Score: 183
Period size: 9 Copynumber: 19.6 Consensus size: 9
84065962 GTTTAAATTT
84065972 CATAACTTA
1 CATAACTTA
*
84065981 CATAATTTA
1 CATAACTTA
84065990 CATAACTTA
1 CATAACTTA
84065999 CATAA--TA
1 CATAACTTA
* *
84066006 TATAA-ATA
1 CATAACTTA
* * *
84066014 TATATCATA
1 CATAACTTA
84066023 TCATAACTTA
1 -CATAACTTA
*
84066033 CATAACTCA
1 CATAACTTA
* *
84066042 CACAACATA
1 CATAACTTA
84066051 CATAACTTA
1 CATAACTTA
*
84066060 CATAACTCA
1 CATAACTTA
* *
84066069 CATACCTCA
1 CATAACTTA
84066078 CATAACTTA
1 CATAACTTA
*
84066087 CATAACTCA
1 CATAACTTA
84066096 CATAACTTA
1 CATAACTTA
*
84066105 CATAATTTA
1 CATAACTTA
*
84066114 CATAACTCA
1 CATAACTTA
84066123 CATAACTTA
1 CATAACTTA
84066132 CATAACTTA
1 CATAACTTA
84066141 CATAA
1 CATAA
84066146 TACATAAATA
Statistics
Matches: 139, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
7 6 0.04
8 6 0.04
9 121 0.87
10 6 0.04
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (9 bp):
CATAACTTA
Found at i:84066002 original size:27 final size:27
Alignment explanation
Indices: 84065972--84066152 Score: 210
Period size: 27 Copynumber: 6.9 Consensus size: 27
84065962 GTTTAAATTT
* *
84065972 CATAACTTACATAATTTACATAACTTA
1 CATAACTTACATAACTCACATAACTTA
* * * * *
84065999 CATAA--TATATAAAT-ATATATCATA
1 CATAACTTACATAACTCACATAACTTA
* *
84066023 TCATAACTTACATAACTCACACAACATA
1 -CATAACTTACATAACTCACATAACTTA
* *
84066051 CATAACTTACATAACTCACATACCTCA
1 CATAACTTACATAACTCACATAACTTA
84066078 CATAACTTACATAACTCACATAACTTA
1 CATAACTTACATAACTCACATAACTTA
*
84066105 CATAATTTACATAACTCACATAACTTA
1 CATAACTTACATAACTCACATAACTTA
84066132 CATAACTTACATAA-T-ACATAA
1 CATAACTTACATAACTCACATAA
84066153 ATAGATATCA
Statistics
Matches: 132, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
24 7 0.05
25 18 0.14
26 1 0.01
27 99 0.75
28 7 0.05
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (27 bp):
CATAACTTACATAACTCACATAACTTA
Found at i:84066171 original size:31 final size:31
Alignment explanation
Indices: 84066133--84066196 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
84066123 CATAACTTAC
84066133 ATAACTTACATAATACATAAATAGATATCAT
1 ATAACTTACATAATACATAAATAGATATCAT
84066164 ATAACTTACATAATACATAAATAGATATCAT
1 ATAACTTACATAATACATAAATAGATATCAT
84066195 AT
1 AT
84066197 CATATCATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (31 bp):
ATAACTTACATAATACATAAATAGATATCAT
Found at i:84066198 original size:5 final size:5
Alignment explanation
Indices: 84066188--84066225 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
84066178 ACATAAATAG
84066188 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATA
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATA
84066226 ATTTACATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATC
Found at i:84069332 original size:212 final size:213
Alignment explanation
Indices: 84068958--84069388 Score: 837
Period size: 212 Copynumber: 2.0 Consensus size: 213
84068948 CATTCTCTTA
84068958 ATACAACATCCTAGTCCAGCCCTATACATGCCACTTTCAAAAATATAAATCAAACTATACCAAGT
1 ATACAACATCCTAGTCCAGCCCTATACATGCCACTTTCAAAAATATAAATCAAACTATACCAAGT
*
84069023 ATTGCGGCTGATAGTGTGATTGATATCTCTGACTTTAAGGGATCCTTAAGTTAGCTTGATAACAC
66 ATTGCGGCTGATAGTGTGATCGATATCTCTGACTTTAAGGGATCCTTAAGTTAGCTTGATAACAC
84069088 TGAAAGAAGAGGGAAAGGAAAGAGGGTAAGCATAAAGCTTAGTAAGTTGCATATAAATAAATATA
131 TGAAAGAAGAGGGAAAGGAAAGAGGGTAAGCATAAAGCTTAGTAAGTTGCATATAAATAAATATA
84069153 CAACAACATCTCACCATT
196 CAACAACATCTCACCATT
*
84069171 ATACAA-ATCCTAGTCCAGCCCTATACATGCCACTTTCAAAAATATAAATCAAACTATACCATGT
1 ATACAACATCCTAGTCCAGCCCTATACATGCCACTTTCAAAAATATAAATCAAACTATACCAAGT
84069235 ATTGCGGCTGATAGTGTGATCGATATCTCTGACTTTAAGGGATCCTTAAGTTAGCTTGATAACAC
66 ATTGCGGCTGATAGTGTGATCGATATCTCTGACTTTAAGGGATCCTTAAGTTAGCTTGATAACAC
84069300 TGAAAGAAGAGGGAAAGGAAAGAGGGTAAGCATAAAGCTTAGTAAGTTGCATATAAATAAATATA
131 TGAAAGAAGAGGGAAAGGAAAGAGGGTAAGCATAAAGCTTAGTAAGTTGCATATAAATAAATATA
84069365 CAACAACATCTCACCATT
196 CAACAACATCTCACCATT
84069383 ATACAA
1 ATACAA
84069389 TATACTTATA
Statistics
Matches: 216, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
212 210 0.97
213 6 0.03
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (213 bp):
ATACAACATCCTAGTCCAGCCCTATACATGCCACTTTCAAAAATATAAATCAAACTATACCAAGT
ATTGCGGCTGATAGTGTGATCGATATCTCTGACTTTAAGGGATCCTTAAGTTAGCTTGATAACAC
TGAAAGAAGAGGGAAAGGAAAGAGGGTAAGCATAAAGCTTAGTAAGTTGCATATAAATAAATATA
CAACAACATCTCACCATT
Found at i:84069715 original size:44 final size:46
Alignment explanation
Indices: 84069662--84069881 Score: 179
Period size: 47 Copynumber: 4.8 Consensus size: 46
84069652 TACGCGTGCT
* *
84069662 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTCTAGGCC
* * * *
84069706 GATGCATGTCCCAGACAAGTCTTACTCTGGCTATC-TCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-A-CATCTCTCTAGGCC
* * *
84069753 GATGCATGGCCCAAACATGTCTTACACTGGCAC-TCATCTCTATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACATC-TCTCTAGGCC
* *
84069799 GATGCCATGTCCCAGACGTGGTCTTACACT-G-AC-TCTAATACCGT-GGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACATCT-CT--C-TAGGCC
*
84069847 GAAGCATGTCCCAGACACT-TCTTACACTGGCACAT
1 GATGCATGTCCCAGACA-TGTCTTACACTGGCACAT
84069882 AAATCACCCA
Statistics
Matches: 141, Mismatches: 20, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
44 28 0.20
45 8 0.06
46 28 0.20
47 55 0.39
48 20 0.14
49 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTCTAGGCC
Found at i:84069854 original size:94 final size:92
Alignment explanation
Indices: 84069612--84069879 Score: 269
Period size: 94 Copynumber: 2.9 Consensus size: 92
84069602 TTATATTGCT
* *
84069612 GATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATATACGCGT-GCTGATGCATGTCCCAG
1 GATGCCATGTCCCAGAC-TGGTCTTACACTGGCTCT-A-ATAC-CGTGGCCGATGCATGTCCCAG
*
84069676 ACATGTCTTACACTAGCA-CAACTCTTAGCC
62 ACATGTCTTACACTGGCACCAACTCTTAGCC
** * * ** * * *
84069706 GATG-CATGTCCCAGACAAGTCTTACTCTGGCTATCT-CTGTCGAGGCCGATGCATGGCCCAAAC
1 GATGCCATGTCCCAGACTGGTCTTACACTGGC--TCTAATACCGTGGCCGATGCATGTCCCAGAC
*
84069769 ATGTCTTACACTGGCACTCATCTC-TATGCC
64 ATGTCTTACACTGGCAC-CAACTCTTA-GCC
* *
84069799 GATGCCATGTCCCAGACGTGGTCTTACACTGACTCTAATACCGTGGCCGAAGCATGTCCCAGACA
1 GATGCCATGTCCCAGAC-TGGTCTTACACTGGCTCTAATACCGTGGCCGATGCATGTCCCAGACA
84069864 CT-TCTTACACTGGCAC
65 -TGTCTTACACTGGCAC
84069880 ATAAATCACC
Statistics
Matches: 140, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
90 2 0.01
91 32 0.23
92 13 0.09
93 27 0.19
94 54 0.39
95 12 0.09
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (92 bp):
GATGCCATGTCCCAGACTGGTCTTACACTGGCTCTAATACCGTGGCCGATGCATGTCCCAGACAT
GTCTTACACTGGCACCAACTCTTAGCC
Found at i:84084801 original size:13 final size:14
Alignment explanation
Indices: 84084785--84084813 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
84084775 TTTTAAATAT
84084785 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
84084798 TTATAATGGTTTAA
1 TTATAATGGTTTAA
84084812 TT
1 TT
84084814 CATCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:84085232 original size:21 final size:21
Alignment explanation
Indices: 84085188--84085232 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
84085178 ACTTAGAGCG
* * *
84085188 GAGGTAGCAGCGAGGGAAGCA
1 GAGGTAACAACGAGGGAAACA
*
84085209 GAGGTAACAACGAGGGAAATA
1 GAGGTAACAACGAGGGAAACA
84085230 GAG
1 GAG
84085233 CAGAGCAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.42, T:0.07
Consensus pattern (21 bp):
GAGGTAACAACGAGGGAAACA
Found at i:84085615 original size:43 final size:43
Alignment explanation
Indices: 84085541--84085769 Score: 296
Period size: 43 Copynumber: 5.3 Consensus size: 43
84085531 CAACGGTACT
* * *
84085541 TTTAGCTGCGTTTGTGACAAAAAGCGCCGCTAAAGGACATGTTC
1 TTTAGCGGCGTTTGTGGC-AAAAGCGCCGCTAAAGGTCATGTTC
* * ** * *
84085585 TTCAGCGGTGTTTGTGGTGAAAGCGTCGCTAAAGGTCATGTTT
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
* * *
84085628 TTTAGCAGCGTTTGTGGAAAAAGCGCCACTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
*
84085671 TTTAGCGGCGTTTGTGGCAAAAGCGCCTCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
* *
84085714 TTTAGCGTCGTTTGTGGCAAAAGTGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
* *
84085757 TTTGGTGGCGTTT
1 TTTAGCGGCGTTT
84085770 ATTTGAACGC
Statistics
Matches: 159, Mismatches: 26, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 146 0.92
44 13 0.08
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:84086781 original size:99 final size:99
Alignment explanation
Indices: 84086611--84086790 Score: 265
Period size: 99 Copynumber: 1.8 Consensus size: 99
84086601 TTTAGGAATG
* * * **
84086611 TGTTGGGCTGAGTAACCGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTTGATA
1 TGTTGGGCTGAGTAACCGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCAATA
*
84086676 TGTTCTTAAG-AAAAATATAATATATTAAGTGTA
66 TATTCTTAAGCAAAAATATAATATATTAAGTGTA
*
84086709 TGTTGGGCTGAAG-AACCGGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCATTAAAAGGTTCAA
1 TGTTGGGCTG-AGTAACC-GGGTAAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCAA
84086773 TATATTCTTAAGCAAAAA
64 TATATTCTTAAGCAAAAA
84086791 GAAAAAGAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
98 14 0.19
99 53 0.74
100 5 0.07
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (99 bp):
TGTTGGGCTGAGTAACCGGGTAAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCAATA
TATTCTTAAGCAAAAATATAATATATTAAGTGTA
Found at i:84086797 original size:6 final size:6
Alignment explanation
Indices: 84086786--84086818 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
84086776 ATTCTTAAGC
84086786 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
84086819 TGTATTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:84087456 original size:10 final size:10
Alignment explanation
Indices: 84087441--84087489 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
84087431 AATTTTAACT
84087441 TTTATCTTTA
1 TTTATCTTTA
84087451 TTTATCTTTA
1 TTTATCTTTA
*
84087461 ATTATCTTTA
1 TTTATCTTTA
84087471 TTTAT-TTGTA
1 TTTATCTT-TA
84087481 TTTATCTTT
1 TTTATCTTT
84087490 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:84091894 original size:3 final size:3
Alignment explanation
Indices: 84091886--84091915 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
84091876 GAGGTAATAG
*
84091886 CTT CTT CTT CTT CTT CTT CTT CTT TTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
84091916 TACATTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
CTT
Found at i:84093732 original size:30 final size:30
Alignment explanation
Indices: 84093698--84093759 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
84093688 TCTTATTTTA
84093698 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
84093728 TTGTTAATTTTGTTATTATTTTAGAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
84093758 TT
1 TT
84093760 TCTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:84093864 original size:18 final size:17
Alignment explanation
Indices: 84093839--84093872 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
84093829 TTGGGAAATA
*
84093839 TTTATTTTGATTTATTT
1 TTTATTTTGATATATTT
84093856 TTTATTTTTGATATATT
1 TTTA-TTTTGATATATT
84093873 ATATATATTT
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:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTATTTTGATATATTT
Found at i:84093896 original size:11 final size:11
Alignment explanation
Indices: 84093882--84093912 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
84093872 TATATATATT
84093882 TAAAAATTATA
1 TAAAAATTATA
*
84093893 TAAAAATAATA
1 TAAAAATTATA
84093904 TAAAAATTA
1 TAAAAATTA
84093913 ATACGAGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:84105584 original size:49 final size:47
Alignment explanation
Indices: 84105526--84105878 Score: 553
Period size: 47 Copynumber: 7.4 Consensus size: 47
84105516 ATTGATGTAC
* * * * *
84105526 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
84105573 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
84105622 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
84105671 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
84105718 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
84105765 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * * * * *
84105812 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
84105859 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
84105879 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 197 0.68
49 92 0.32
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:84109074 original size:21 final size:21
Alignment explanation
Indices: 84109057--84109117 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
84109047 GACACACACT
84109057 CGTGTAGAAGGGCAACACGTC
1 CGTGTAGAAGGGCAACACGTC
*
84109078 CGTGTAAAAGGGCAACACGTC
1 CGTGTAGAAGGGCAACACGTC
84109099 CGTGTAGAAGGGCAACACG
1 CGTGTAGAAGGGCAACACG
84109118 CCCTTGTGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.31, C:0.23, G:0.33, T:0.13
Consensus pattern (21 bp):
CGTGTAGAAGGGCAACACGTC
Found at i:84113162 original size:17 final size:18
Alignment explanation
Indices: 84113142--84113186 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
84113132 TTACTTTAGC
84113142 CATTTTTATTTTT-ATTT
1 CATTTTTATTTTTGATTT
*
84113159 CA-TTTTATTTTTGTTTT
1 CATTTTTATTTTTGATTT
*
84113176 AATTTTTATTT
1 CATTTTTATTT
84113187 ACTAACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 10 0.42
17 6 0.25
18 8 0.33
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (18 bp):
CATTTTTATTTTTGATTT
Found at i:84121659 original size:6 final size:6
Alignment explanation
Indices: 84121648--84121719 Score: 81
Period size: 6 Copynumber: 11.5 Consensus size: 6
84121638 CCATTTATCA
* * *
84121648 TTTATT TTTATT TTTAAT TTTACTT TCTTATT TTTCTT TTTATT TCTATT
1 TTTATT TTTATT TTTATT TTTA-TT T-TTATT TTTATT TTTATT TTTATT
*
84121698 TTTATG TTTATT TTTATGT TTT
1 TTTATT TTTATT TTTAT-T TTT
84121720 TAGACTTCTT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
6 43 0.78
7 9 0.16
8 3 0.05
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:84137978 original size:123 final size:128
Alignment explanation
Indices: 84137846--84138089 Score: 338
Period size: 134 Copynumber: 1.9 Consensus size: 128
84137836 TAAAACTTAA
84137846 AAACCCTCTC-TT-TTTTT-TTCA-A-GTTCACTTAGCGCAAAATAAACAAGAAAATCTCAAGGA
1 AAACCCTCTCTTTATTTTTATTCATACGTTCACTTAGCGCAAAATAAACAAGAAAATCTCAAGGA
*
84137906 TCGCCACATGTATGTGTGAACCATAGTGTTAATCAGGAGCTT-AGGATTTTTAAAAAATAATAG
66 TCGCCACATGTATGTGTGAACCATAGCGTTAATCAGGAGCTTGA-GATTTTTAAAAAATAATAG
* *
84137969 AAACCCTCTCTTTATTTTTCAAGTTCACTTATCTTTCACTTAGCGCAAAATAAACGAGAAAATCT
1 AAACCCTCTCTTTATTTTT--A-TTCA--TA-CGTTCACTTAGCGCAAAATAAACAAGAAAATCT
* *
84138034 CAGGGATCGCCACATGTATGTGTGAACCATTGCGTTAATCAGGAGCTTGAGATTTT
60 CAAGGATCGCCACATGTATGTGTGAACCATAGCGTTAATCAGGAGCTTGAGATTTT
84138090 ATCTTAAGTT
Statistics
Matches: 104, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
123 10 0.10
124 2 0.02
125 5 0.05
129 4 0.04
132 1 0.01
134 81 0.78
135 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (128 bp):
AAACCCTCTCTTTATTTTTATTCATACGTTCACTTAGCGCAAAATAAACAAGAAAATCTCAAGGA
TCGCCACATGTATGTGTGAACCATAGCGTTAATCAGGAGCTTGAGATTTTTAAAAAATAATAG
Found at i:84144442 original size:24 final size:24
Alignment explanation
Indices: 84144381--84144442 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
84144371 ACCGATTTGT
*
84144381 AGCTCGTATGAGCTTACCGTTACTC
1 AGCTCGTATGAGCTTACCATTAC-C
*
84144406 ATCTCGTATGAGCTTACCAATTA-C
1 AGCTCGTATGAGCTTACC-ATTACC
*
84144430 AGCTCGTAAGAGC
1 AGCTCGTATGAGC
84144443 ATCCCGATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 12 0.38
25 17 0.53
26 3 0.09
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (24 bp):
AGCTCGTATGAGCTTACCATTACC
Found at i:84146574 original size:24 final size:24
Alignment explanation
Indices: 84146542--84146590 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
84146532 AAGATATGAA
84146542 ATGTTCAAAATTCTATTTGTTTGT
1 ATGTTCAAAATTCTATTTGTTTGT
84146566 ATGTTCAAAATTCTATTTGTTTGT
1 ATGTTCAAAATTCTATTTGTTTGT
84146590 A
1 A
84146591 CTGTAAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (24 bp):
ATGTTCAAAATTCTATTTGTTTGT
Found at i:84148200 original size:20 final size:21
Alignment explanation
Indices: 84148145--84148201 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
84148135 ACACCACACT
* *
84148145 AGAGGCATCATAAATGCATAAC
1 AGAGGCACCA-AAGTGCATAAC
**
84148167 AGAGGCACGGAAGTGCA-AAC
1 AGAGGCACCAAAGTGCATAAC
84148187 AGAGGCACCAAAGTG
1 AGAGGCACCAAAGTG
84148202 AAATCCCATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 16 0.55
21 6 0.21
22 7 0.24
ACGTcount: A:0.42, C:0.19, G:0.28, T:0.11
Consensus pattern (21 bp):
AGAGGCACCAAAGTGCATAAC
Found at i:84151798 original size:46 final size:46
Alignment explanation
Indices: 84151715--84151841 Score: 184
Period size: 46 Copynumber: 2.8 Consensus size: 46
84151705 CATTCCTAAG
* * * *
84151715 TGAACTCGGACTCAACTCAAAGAGCTCAGG-CGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTC-GGATGCTCGCATCCATAAA
* *
84151761 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCATTCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCATCCATAAA
84151807 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
84151842 AACCATCCTA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 2 0.03
46 72 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCATCCATAAA
Found at i:84155365 original size:48 final size:48
Alignment explanation
Indices: 84155285--84155401 Score: 171
Period size: 48 Copynumber: 2.4 Consensus size: 48
84155275 TATCTCGGAT
* * *
84155285 ATGGTCTTACATGGGATCACATATCGAGGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATCACAGATCAACGCCAATGCCATGTCCCAGAC
** *
84155333 ATGGTCTTACATGGGATCGTAGGTCAACGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATCACAGATCAACGCCAATGCCATGTCCCAGAC
*
84155381 ATTGTCTTACATGGGATCACA
1 ATGGTCTTACATGGGATCACA
84155402 TATCGATACC
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCACAGATCAACGCCAATGCCATGTCCCAGAC
Found at i:84162637 original size:46 final size:46
Alignment explanation
Indices: 84162536--84162623 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
84162526 TGTAACCCGC
* * *
84162536 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
84162582 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTC
84162624 AATCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:84171278 original size:13 final size:14
Alignment explanation
Indices: 84171260--84171290 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
84171250 CTCTGGATTT
84171260 AAAAAAT-AAAATA
1 AAAAAATAAAAATA
84171273 AAAAAATAAAAATA
1 AAAAAATAAAAATA
84171287 AAAA
1 AAAA
84171291 GAGAGAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:84173291 original size:29 final size:29
Alignment explanation
Indices: 84173249--84173308 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
84173239 AAAGCTATAC
84173249 TTAGTTTACAATTTCTTTAAATTTCTTAT
1 TTAGTTTACAATTTCTTTAAATTTCTTAT
84173278 TTAGTTTACAATTTCTTTAAATTTCTTAT
1 TTAGTTTACAATTTCTTTAAATTTCTTAT
84173307 TT
1 TT
84173309 CATATTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (29 bp):
TTAGTTTACAATTTCTTTAAATTTCTTAT
Found at i:84173380 original size:20 final size:21
Alignment explanation
Indices: 84173345--84173396 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
84173335 ACACACTTAT
84173345 ATTAT-TTATATTTTTT-AAA
1 ATTATATTATATTTTTTAAAA
84173364 ATTATATTAT-TTATTTTACAAA
1 ATTATATTATATT-TTTTA-AAA
84173386 ATTATTATTAT
1 ATTA-TATTAT
84173397 GATAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 7 0.25
20 8 0.29
22 7 0.25
23 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATATTATATTTTTTAAAA
Found at i:84173386 original size:22 final size:23
Alignment explanation
Indices: 84173341--84173396 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
84173331 CATTACACAC
**
84173341 TTATATTATTTATATTTTTTAAAA
1 TTATATTA-TTATATTTTACAAAA
84173365 TTATATTATT-TATTTTACAAAA
1 TTATATTATTATATTTTACAAAA
84173387 TTATTATTAT
1 TTA-TATTAT
84173397 GATAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 13 0.45
23 8 0.28
24 8 0.28
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATATTATTATATTTTACAAAA
Found at i:84174300 original size:14 final size:15
Alignment explanation
Indices: 84174283--84174311 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84174273 CTTTTTTGCC
84174283 ATAAAT-TTTTATAA
1 ATAAATATTTTATAA
84174297 ATAAATATTTTATAA
1 ATAAATATTTTATAA
84174312 TACTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAAATATTTTATAA
Found at i:84185178 original size:17 final size:17
Alignment explanation
Indices: 84185143--84185181 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
84185133 TCAAGACAAG
**
84185143 TATTAAATTAATTTTAA
1 TATTAAATTAATTAAAA
*
84185160 TATTAAATTTATTAAAA
1 TATTAAATTAATTAAAA
84185177 TATTA
1 TATTA
84185182 TTATTTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTAAATTAATTAAAA
Found at i:84188431 original size:43 final size:43
Alignment explanation
Indices: 84188372--84188514 Score: 148
Period size: 43 Copynumber: 3.3 Consensus size: 43
84188362 GCGCCGCAAA
*
84188372 AAACGCCGCTAAAGACCATGACCTTTAGTAG-CACTTTTCTTGC
1 AAACGCCGCTAAAGACCATGACCTTTAG-AGACACTTTTCTCGC
* * *
84188415 AAACGCTGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGAGACACTTTTCTCGC
* * * * * *
84188458 AAACGCCGCTATATAACA-AACCTTTAGTGACACCTTTT-TCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGAGACA-CTTTTCTCGC
*
84188500 AAACTCCGCTAAAGA
1 AAACGCCGCTAAAGA
84188515 ATATAAACTT
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
42 27 0.33
43 56 0.67
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGAGACACTTTTCTCGC
Found at i:84188547 original size:20 final size:20
Alignment explanation
Indices: 84188524--84188561 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
84188514 AATATAAACT
84188524 TTAAAAAATATATATTTTAA
1 TTAAAAAATATATATTTTAA
* *
84188544 TTAAATAATATTTATTTT
1 TTAAAAAATATATATTTT
84188562 CTATGATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAAAAATATATATTTTAA
Found at i:84191002 original size:76 final size:76
Alignment explanation
Indices: 84190901--84191053 Score: 270
Period size: 76 Copynumber: 2.0 Consensus size: 76
84190891 TTCTTACAGT
*
84190901 TCATTTGTCAACTTAAGAACACTTGATTATAATATGGTGGGAGAGGTTTGAATAAAAAAAAGAAG
1 TCATTTGTCAACTTAAGAACACTTGATTATAATATGGTAGGAGAGGTTTGAATAAAAAAAAGAAG
84190966 CAATCAGAGAA
66 CAATCAGAGAA
* *
84190977 TCATTTGTCAACTTAAGAACACTTGATTATAATGTGGTAGGAGAGGTTTGAATATAAAAAAGAAG
1 TCATTTGTCAACTTAAGAACACTTGATTATAATATGGTAGGAGAGGTTTGAATAAAAAAAAGAAG
*
84191042 CATTCAGAGAA
66 CAATCAGAGAA
84191053 T
1 T
84191054 GACTAGACCT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (76 bp):
TCATTTGTCAACTTAAGAACACTTGATTATAATATGGTAGGAGAGGTTTGAATAAAAAAAAGAAG
CAATCAGAGAA
Found at i:84191307 original size:27 final size:22
Alignment explanation
Indices: 84191268--84191334 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
84191258 AATCAAGGAG
84191268 TAAACATAAACTCAACTCAAAA
1 TAAACATAAACTCAACTCAAAA
84191290 TAAACATAAACTCAACTCAAAA
1 TAAACATAAACTCAACTCAAAA
84191312 TAAACATAAACTCAACTCAAAA
1 TAAACATAAACTCAACTCAAAA
84191334 T
1 T
84191335 CACAATTCTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.19
Consensus pattern (22 bp):
TAAACATAAACTCAACTCAAAA
Found at i:84192896 original size:8 final size:8
Alignment explanation
Indices: 84192885--84192967 Score: 66
Period size: 7 Copynumber: 10.4 Consensus size: 8
84192875 TAAGTTTTTT
84192885 ATTTTTAA
1 ATTTTTAA
84192893 ATTTTTAA
1 ATTTTTAA
*
84192901 ATTTTT-T
1 ATTTTTAA
*
84192908 ATTTTT-T
1 ATTTTTAA
*
84192915 ATTTTT-T
1 ATTTTTAA
84192922 ATTTTTAA
1 ATTTTTAA
84192930 A-TTTTAA
1 ATTTTTAA
*
84192937 TTTTTTTGAA
1 -ATTTTT-AA
84192947 GATTTTTATA
1 -ATTTTTA-A
84192957 ATTTTTAA
1 ATTTTTAA
84192965 ATT
1 ATT
84192968 AACATATAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
7 26 0.40
8 19 0.29
9 12 0.18
10 8 0.12
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
ATTTTTAA
Found at i:84192920 original size:23 final size:23
Alignment explanation
Indices: 84192868--84192967 Score: 78
Period size: 23 Copynumber: 4.2 Consensus size: 23
84192858 ATTAAATATC
* *
84192868 AAATTTCTAAGTTTTTTATTTTT
1 AAATTTTTAAATTTTTTATTTTT
84192891 AAATTTTTAAATTTTTTATTTTT
1 AAATTTTTAAATTTTTTATTTTT
* * * *
84192914 -TATTTTT-TATTTTTAAATTTT
1 AAATTTTTAAATTTTTTATTTTT
*
84192935 AATTTTTTTGAAGATTTTTATAATTTTT
1 AA-ATTTTT-AA-ATTTTT-T-ATTTTT
84192963 AAATT
1 AAATT
84192968 AACATATAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
21 11 0.19
22 6 0.10
23 26 0.45
26 6 0.10
27 2 0.03
28 7 0.12
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (23 bp):
AAATTTTTAAATTTTTTATTTTT
Found at i:84193817 original size:289 final size:282
Alignment explanation
Indices: 84193304--84193875 Score: 1029
Period size: 289 Copynumber: 2.0 Consensus size: 282
84193294 AAAAAATCCA
*
84193304 ATATACACAAGTTAAGTAGTTCACCATATTTACCCCTAAACACTAAAAATTAAAGCCCAAATCCT
1 ATATACACAAGTTAAGTAGTTCACCATATTTACCCCTAAACACTAAAAATTAAACCCCAAATCCT
84193369 AAACCATAAACTAGACCATGAACATATATATATACTTAATATCCATATGAAATTTATTTTTTAGA
66 AAACCATAAACTAGACCATGAACA-ATATATATACTTAATATCCATATGAAATTTATTTTTTAGA
84193434 TTTTAGGGTTTACAGTTTAAGAGTTTATGATTTATGGTTTATAGTTTAGGGTTTGGGATTTACGA
130 TTTTAGGGTTTACAGTTTAAGAGTTTATGATTTATGGTTTATAGTTTAGGGTTTGGGATTTACGA
84193499 TCTATAGTTTATGGGTTTAGAGGTTAGTTTTAAGGTTTAGGGTTTAGGGGTTATAGTTTTAAGGG
195 TCTATAGTTTATGGGTTTAGAGGTTAGTTTTAAGGTTTAGGGTTTAGGGGTTATAGTTTTAAGGG
84193564 TTTATGATTTGAGATTTAGGGTC
260 TTTATGATTTGAGATTTAGGGTC
*
84193587 ATATACACAAGTTAAGTAGTTCACCATATTTACCCCTAAACACTAAAAATTAAACCCCAAATCTT
1 ATATACACAAGTTAAGTAGTTCACCATATTTACCCCTAAACACTAAAAATTAAACCCCAAATCCT
*
84193652 AAACCATAAACCCTAAATCCTAGCCATGAAC-ATATATATACTTAATATCCATATGAAATTTATT
66 AAACCATAAA--CT--A---GA-CCATGAACAATATATATACTTAATATCCATATGAAATTTATT
84193716 TTTTAGATTTTAGGGTTTACAGTTTAAGAGTTTATGATTTATGGTTTATAGTTTAGGGTTTGGGA
123 TTTTAGATTTTAGGGTTTACAGTTTAAGAGTTTATGATTTATGGTTTATAGTTTAGGGTTTGGGA
84193781 TTTACGATCTATAGTTTATGGGTTTAGAGGTTAGTTTTAAGGTTTAGGGTTTAGGGGTTATAGTT
188 TTTACGATCTATAGTTTATGGGTTTAGAGGTTAGTTTTAAGGTTTAGGGTTTAGGGGTTATAGTT
84193846 TTAAGGGTTTATGATTTGAGATTTAGGGTC
253 TTAAGGGTTTATGATTTGAGATTTAGGGTC
84193876 TGGTGTTTAA
Statistics
Matches: 278, Mismatches: 3, Indels: 10
0.96 0.01 0.03
Matches are distributed among these distances:
283 73 0.26
285 2 0.01
287 1 0.00
289 193 0.69
290 1 0.00
291 8 0.03
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (282 bp):
ATATACACAAGTTAAGTAGTTCACCATATTTACCCCTAAACACTAAAAATTAAACCCCAAATCCT
AAACCATAAACTAGACCATGAACAATATATATACTTAATATCCATATGAAATTTATTTTTTAGAT
TTTAGGGTTTACAGTTTAAGAGTTTATGATTTATGGTTTATAGTTTAGGGTTTGGGATTTACGAT
CTATAGTTTATGGGTTTAGAGGTTAGTTTTAAGGTTTAGGGTTTAGGGGTTATAGTTTTAAGGGT
TTATGATTTGAGATTTAGGGTC
Found at i:84194446 original size:7 final size:7
Alignment explanation
Indices: 84194425--84194498 Score: 58
Period size: 7 Copynumber: 10.4 Consensus size: 7
84194415 TATAGTCTCC
*
84194425 AAACCTT
1 AAACCAT
*
84194432 AAATCAT
1 AAACCAT
*
84194439 AAAACAT
1 AAACCAT
84194446 AAACCAT
1 AAACCAT
84194453 AAACCAT
1 AAACCAT
**
84194460 AAACCCC
1 AAACCAT
* *
84194467 AACCCTT
1 AAACCAT
84194474 AAACCCAT
1 AAA-CCAT
*
84194482 AATCCAT
1 AAACCAT
*
84194489 AAACCTT
1 AAACCAT
84194496 AAA
1 AAA
84194499 ATAGTTTAGA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 47 0.90
8 5 0.10
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCAT
Found at i:84194449 original size:21 final size:21
Alignment explanation
Indices: 84194425--84194498 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
84194415 TATAGTCTCC
* *
84194425 AAACCTTAAATCATAAAACAT
1 AAACCTTAAACCATAAACCAT
* **
84194446 AAACCATAAACCATAAACCCC
1 AAACCTTAAACCATAAACCAT
* *
84194467 AACCCTTAAACCCATAATCCAT
1 AAACCTTAAA-CCATAAACCAT
84194489 AAACCTTAAA
1 AAACCTTAAA
84194499 ATAGTTTAGA
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
21 24 0.59
22 17 0.41
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (21 bp):
AAACCTTAAACCATAAACCAT
Found at i:84194677 original size:95 final size:95
Alignment explanation
Indices: 84194513--84194690 Score: 241
Period size: 95 Copynumber: 1.9 Consensus size: 95
84194503 TTTAGATCTA
* *
84194513 TAGCGGCGTTTTCAAAAAAGCGCCGCTAAAACTCAACCTATTGCGGCGTTTTCCACAAAGCGCCG
1 TAGCGGCGTTTTCAAAAAAGCGCCGCTAAAACTCAACATATAGCGGCGTTTTCCACAAAGCGCCG
84194578 CTAATGCCACTGAAGCTCTGCTTAATCTTT
66 CTAATGCCACTGAAGCTCTGCTTAATCTTT
*** ** * *
84194608 TAGCGGCGTTTTCAAAAAAGCGCCGCTAATGGTTGACATATAGCGGCGTTTT-TATGAAAGCGCC
1 TAGCGGCGTTTTCAAAAAAGCGCCGCTAAAACTCAACATATAGCGGCGTTTTCCA-CAAAGCGCC
* *
84194672 TCTAATGCCATTGAAGCTC
65 GCTAATGCCACTGAAGCTC
84194691 AAAATAAACG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 1 0.01
95 70 0.99
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (95 bp):
TAGCGGCGTTTTCAAAAAAGCGCCGCTAAAACTCAACATATAGCGGCGTTTTCCACAAAGCGCCG
CTAATGCCACTGAAGCTCTGCTTAATCTTT
Found at i:84203427 original size:21 final size:22
Alignment explanation
Indices: 84203409--84203450 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
84203399 TTTTATTTTC
84203409 AATAAAAAT-ATTAAAATTTAT
1 AATAAAAATAATTAAAATTTAT
*
84203430 AATAAAACTAATTAAAATTTA
1 AATAAAAATAATTAAAATTTA
84203451 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAAAATAATTAAAATTTAT
Found at i:84210680 original size:20 final size:20
Alignment explanation
Indices: 84210637--84210685 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
84210627 AGGACCCAAT
* *
84210637 AAATCAATTTGATTAAAATT
1 AAATCAAATTGATTAAAATA
**
84210657 AAATCAAATTGATTGGAATA
1 AAATCAAATTGATTAAAATA
*
84210677 AAATAAAAT
1 AAATCAAAT
84210686 AAGATAAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:84212553 original size:15 final size:15
Alignment explanation
Indices: 84212531--84212562 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
84212521 AAAGCTGTAG
84212531 AATTAAAAAT-ACTA
1 AATTAAAAATGACTA
84212545 AATTAAAAATGACTA
1 AATTAAAAATGACTA
84212560 AAT
1 AAT
84212563 GGCTTCAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.28
Consensus pattern (15 bp):
AATTAAAAATGACTA
Found at i:84216506 original size:12 final size:12
Alignment explanation
Indices: 84216491--84216518 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
84216481 TAGTTATTAT
84216491 TATAATATAATA
1 TATAATATAATA
84216503 TATAATATAATA
1 TATAATATAATA
84216515 TATA
1 TATA
84216519 TTTTATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATAATATAATA
Found at i:84241051 original size:31 final size:31
Alignment explanation
Indices: 84240976--84241052 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
84240966 CCCAGAATTT
* *
84240976 CACACACTCATATGGTTCACCCGTGTAGGCC
1 CACACACTCGTGTGGTTCACCCGTGTAGGCC
* *
84241007 CACACACTCGTGTGGTTCACCTGTGTGGGCC
1 CACACACTCGTGTGGTTCACCCGTGTAGGCC
* *
84241038 TACACACTTGTGTGG
1 CACACACTCGTGTGG
84241053 CCCATACGGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.26
Consensus pattern (31 bp):
CACACACTCGTGTGGTTCACCCGTGTAGGCC
Found at i:84242771 original size:31 final size:31
Alignment explanation
Indices: 84242733--84242795 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
84242723 TTCATCCAGG
* *
84242733 TAAGCCTTGTTTTTCTTCCATTCTTCAACTT
1 TAAGCCTTATTTTTCTTCCATCCTTCAACTT
84242764 TAAGCCTTATTTTTCTTCCATCCTTCAACTT
1 TAAGCCTTATTTTTCTTCCATCCTTCAACTT
84242795 T
1 T
84242796 TTCCATCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.17, C:0.27, G:0.05, T:0.51
Consensus pattern (31 bp):
TAAGCCTTATTTTTCTTCCATCCTTCAACTT
Found at i:84246887 original size:18 final size:18
Alignment explanation
Indices: 84246864--84246924 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
84246854 CCTCTTTTAA
84246864 ATGTAAATTTATTAATAT
1 ATGTAAATTTATTAATAT
***
84246882 ATGTAAAAACAATTTAA-A-
1 ATGT-AAATTTA-TTAATAT
*
84246900 ATATAAATTTATTAATAT
1 ATGTAAATTTATTAATAT
84246918 ATGTAAA
1 ATGTAAA
84246925 AATAACTTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
16 4 0.13
17 5 0.16
18 13 0.42
19 5 0.16
20 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (18 bp):
ATGTAAATTTATTAATAT
Found at i:84247045 original size:19 final size:19
Alignment explanation
Indices: 84247000--84247037 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
84246990 CATCCAAACA
84247000 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
84247019 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
84247038 TCTAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:84253345 original size:21 final size:21
Alignment explanation
Indices: 84253297--84253345 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
84253287 AATTGCGTTT
84253297 TGAAAAAGTTATGGAAAGTTA
1 TGAAAAAGTTATGGAAAGTTA
* * *
84253318 TGGAAAAGTTGT-GAAATTTGA
1 TGAAAAAGTTATGGAAAGTT-A
84253339 TGAAAAA
1 TGAAAAA
84253346 TTTTGATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (21 bp):
TGAAAAAGTTATGGAAAGTTA
Found at i:84262725 original size:11 final size:11
Alignment explanation
Indices: 84262711--84262751 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
84262701 TATTTTCTCC
84262711 CTATTTTGCTA
1 CTATTTTGCTA
*
84262722 CTATTTTACTA
1 CTATTTTGCTA
* *
84262733 TTATTTTTCTA
1 CTATTTTGCTA
84262744 CTATTTTG
1 CTATTTTG
84262752 TTGTTATTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.61
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:84262792 original size:36 final size:36
Alignment explanation
Indices: 84262745--84262829 Score: 152
Period size: 36 Copynumber: 2.4 Consensus size: 36
84262735 ATTTTTCTAC
*
84262745 TATTTTGTTGTTATTGTTTGGATATTGCATAAAACT
1 TATTTTATTGTTATTGTTTGGATATTGCATAAAACT
*
84262781 TATTTTATTGTTATTGTTTGGATATTGTATAAAACT
1 TATTTTATTGTTATTGTTTGGATATTGCATAAAACT
84262817 TATTTTATTGTTA
1 TATTTTATTGTTA
84262830 ATTTTGTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (36 bp):
TATTTTATTGTTATTGTTTGGATATTGCATAAAACT
Found at i:84264839 original size:17 final size:16
Alignment explanation
Indices: 84264794--84264844 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
84264784 TAAAATTTGA
84264794 ATTTAA-TTTCTAATTT
1 ATTTAATTTTC-AATTT
*
84264810 AATTTTATTTTCAATTT
1 -ATTTAATTTTCAATTT
84264827 ATTTAATTGTTC-ATTT
1 ATTTAATT-TTCAATTT
84264843 AT
1 AT
84264845 GCTATCTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 13 0.43
17 13 0.43
18 4 0.13
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTTAATTTTCAATTT
Found at i:84271239 original size:49 final size:49
Alignment explanation
Indices: 84271178--84271273 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
84271168 CTCCAAATGC
*
84271178 CGAGCCTAGTCTTAATTTTGAGGTTTACCTAAAAAGTTAGACACTATGT
1 CGAGCCTAGTCTTAATTTTGAGGTTTACCTAAAAAGTTAAACACTATGT
* *
84271227 CGAGCCTGGTCTTAATTTTGAGGTTTACCTGAAAAGTTAAACACTAT
1 CGAGCCTAGTCTTAATTTTGAGGTTTACCTAAAAAGTTAAACACTAT
84271274 TGGGGGATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (49 bp):
CGAGCCTAGTCTTAATTTTGAGGTTTACCTAAAAAGTTAAACACTATGT
Found at i:84274459 original size:18 final size:18
Alignment explanation
Indices: 84274428--84274476 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
84274418 GAAATATTGT
* *
84274428 AATTAGATTATTTCATGAA
1 AATT-GATTGTTTCATAAA
84274447 AATTGATTGTTTCATAAA
1 AATTGATTGTTTCATAAA
84274465 AATTGATTGTTT
1 AATTGATTGTTT
84274477 ACTTTGCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (18 bp):
AATTGATTGTTTCATAAA
Found at i:84276207 original size:17 final size:17
Alignment explanation
Indices: 84276179--84276219 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
84276169 CTATTTACAA
84276179 AATTTGAATTTGATTTCT
1 AATTT-AATTTGATTTCT
84276197 AATTTAATTTGATTTCT
1 AATTTAATTTGATTTCT
*
84276214 GATTTA
1 AATTTA
84276220 TTTAATTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (17 bp):
AATTTAATTTGATTTCT
Found at i:84287820 original size:6 final size:6
Alignment explanation
Indices: 84287809--84287847 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
84287799 TGTGTGTGCA
*
84287809 TGTATG TGTATG TGTGTG TGTATG TGTATG TGTATG TGT
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGT
84287848 CTTTATTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (6 bp):
TGTATG
Found at i:84287822 original size:18 final size:18
Alignment explanation
Indices: 84287801--84287841 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
84287791 CACGCGTATG
84287801 TGTGTGCATGTATGTGTA
1 TGTGTGCATGTATGTGTA
**
84287819 TGTGTGTGTGTATGTGTA
1 TGTGTGCATGTATGTGTA
84287837 TGTGT
1 TGTGT
84287842 ATGTGTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.02, G:0.37, T:0.49
Consensus pattern (18 bp):
TGTGTGCATGTATGTGTA
Found at i:84301727 original size:27 final size:27
Alignment explanation
Indices: 84301697--84301749 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
84301687 TTGGTTAAAG
84301697 AATTCCAAGTTTAAACTTGGACAATCA
1 AATTCCAAGTTTAAACTTGGACAATCA
**
84301724 AATTCTGAGTTTAAACTTGGACAATC
1 AATTCCAAGTTTAAACTTGGACAATC
84301750 CCTTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (27 bp):
AATTCCAAGTTTAAACTTGGACAATCA
Found at i:84306675 original size:39 final size:40
Alignment explanation
Indices: 84306558--84306689 Score: 189
Period size: 40 Copynumber: 3.3 Consensus size: 40
84306548 GCTCCTCGTT
*
84306558 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
84306598 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
84306638 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
84306677 CAAATGCCTTCGG
1 CAAATGCCTTCGG
84306690 ATCTTAGTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
39 36 0.43
40 46 0.55
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:84309144 original size:30 final size:30
Alignment explanation
Indices: 84309108--84309166 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
84309098 CAAATTCGAA
*
84309108 TGTTGGTAAGGTACTGATGAAAGCTAGTAT
1 TGTTGGTAAGGTACTAATGAAAGCTAGTAT
84309138 TGTTGGTAAGGTACTAATGAAAGCTAGTA
1 TGTTGGTAAGGTACTAATGAAAGCTAGTA
84309167 AATGTATGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (30 bp):
TGTTGGTAAGGTACTAATGAAAGCTAGTAT
Found at i:84309575 original size:5 final size:5
Alignment explanation
Indices: 84309565--84309593 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
84309555 TGACTTGTTA
84309565 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
84309594 AATGCTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:84316771 original size:26 final size:26
Alignment explanation
Indices: 84316741--84316822 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
84316731 TGAAATTCCC
84316741 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
84316767 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
84316793 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
84316819 ATCA
1 ATCA
84316823 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:84325115 original size:20 final size:21
Alignment explanation
Indices: 84325092--84325137 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
84325082 TAAAATATTA
*
84325092 ATTTTTAAAAT-TTTAAATAT
1 ATTTATAAAATGTTTAAATAT
*
84325112 ATTTATAAAATGTTTGAATAT
1 ATTTATAAAATGTTTAAATAT
*
84325133 CTTTA
1 ATTTA
84325138 GAATTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTTATAAAATGTTTAAATAT
Found at i:84325198 original size:29 final size:30
Alignment explanation
Indices: 84325128--84325215 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 30
84325118 AAAATGTTTG
* *
84325128 AATATCTTTAGAATTAATTTAAAAATTAAT
1 AATATATTTAAAATTAATTTAAAAATTAAT
* *
84325158 AATTTA-TAAAAATTATATTT-AAAATTAA-
1 AATATATTTAAAATTA-ATTTAAAAATTAAT
84325186 AATATATTTAAAA-T-ATTATAAAAA-TAAT
1 AATATATTTAAAATTAATT-TAAAAATTAAT
84325214 AA
1 AA
84325216 ATTTGAAAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
26 3 0.06
27 4 0.09
28 12 0.26
29 20 0.43
30 8 0.17
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
AATATATTTAAAATTAATTTAAAAATTAAT
Found at i:84325203 original size:19 final size:18
Alignment explanation
Indices: 84325166--84325199 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
84325156 ATAATTTATA
84325166 AAAATTATATTTAAAATT
1 AAAATTATATTTAAAATT
84325184 AAAA-TATATTTAAAAT
1 AAAATTATATTTAAAAT
84325200 ATTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTATATTTAAAATT
Found at i:84325317 original size:19 final size:18
Alignment explanation
Indices: 84325287--84325344 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
84325277 ATTTTATATT
84325287 ATTAAAAA-ATATTTAAA
1 ATTAAAAATATATTTAAA
84325304 ATTAAAAATCATATTTAAA
1 ATTAAAAAT-ATATTTAAA
84325323 ATTTAAAAATAATAATTTAAA
1 A-TTAAAAAT-AT-ATTTAAA
84325344 A
1 A
84325345 AATATATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 8 0.22
19 10 0.28
20 10 0.28
21 8 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTAAAAATATATTTAAA
Found at i:84325381 original size:23 final size:23
Alignment explanation
Indices: 84325338--84325382 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
84325328 AAAATAATAA
*
84325338 TTTAAAAAATATATGTTTAAAAT
1 TTTAAAAAATATATGTATAAAAT
84325361 TTTAAAAAATAATAT-TATAAAA
1 TTTAAAAAAT-ATATGTATAAAA
84325383 CATTTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
TTTAAAAAATATATGTATAAAAT
Found at i:84325438 original size:24 final size:24
Alignment explanation
Indices: 84325409--84325506 Score: 68
Period size: 23 Copynumber: 4.2 Consensus size: 24
84325399 TTCAAATTTT
*
84325409 ATAAAACT-AATAATAATCAAATAA
1 ATAAAACTAAATAAGAA-CAAATAA
*
84325433 ATAAAA-TAAATAAGGACAAATAA
1 ATAAAACTAAATAAGAACAAATAA
*
84325456 A-AAAACTTAA-AA-AACTAAATAA
1 ATAAAACTAAATAAGAAC-AAATAA
*
84325478 GTAAAACTTAAA-AAGAA-AAA-AA
1 ATAAAAC-TAAATAAGAACAAATAA
84325500 ATGAAAA
1 AT-AAAA
84325507 AGGGCAAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
21 2 0.03
22 15 0.25
23 24 0.40
24 17 0.28
25 2 0.03
ACGTcount: A:0.70, C:0.06, G:0.05, T:0.18
Consensus pattern (24 bp):
ATAAAACTAAATAAGAACAAATAA
Found at i:84325679 original size:18 final size:19
Alignment explanation
Indices: 84325658--84325693 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
84325648 AAACTCCTCA
84325658 AATATTT-TTAAAATTTAC
1 AATATTTCTTAAAATTTAC
*
84325676 AATATTTCTTAATATTTA
1 AATATTTCTTAAAATTTA
84325694 TACAAGTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTTCTTAAAATTTAC
Found at i:84337949 original size:48 final size:46
Alignment explanation
Indices: 84337873--84338143 Score: 209
Period size: 48 Copynumber: 5.7 Consensus size: 46
84337863 TATGAGAGCC
*
84337873 AGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATTAAGCACGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCACATTAAGCA-GCT
* *
84337921 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAG-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCACATTA--AGCAGCT
* * *
84337969 AGTGTAAGACCATGTCTGGGACATGGTATCG--GCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCACATT-A-A-G-CAGCT
84338017 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGT--G-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-C-C-ACAT-TAAGCAGCT
* * *
84338065 AGTGTAAGACCGTGTCTGGGACATGGCGTCGGCCTCGACATGT--G-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-C-C-ACAT-TAAGCAGCT
* *
84338113 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
84338144 ACAATTCACC
Statistics
Matches: 193, Mismatches: 17, Indels: 27
0.81 0.07 0.11
Matches are distributed among these distances:
45 6 0.03
46 2 0.01
47 2 0.01
48 174 0.90
49 2 0.01
50 3 0.02
54 3 0.02
55 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCCACATTAAGCAGCT
Found at i:84338027 original size:96 final size:96
Alignment explanation
Indices: 84337860--84338143 Score: 317
Period size: 96 Copynumber: 3.0 Consensus size: 96
84337850 GCCATTTGGG
* * * *
84337860 CGATATGAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATTAAG-C-A-CGCTA
1 CGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G--GCATTGAGACGAGAGCTA
84337922 GTGTAAGACCATGTCTAGGACATGGCATCGGCCA
63 GTGTAAGACCATGTCTAGGACATGGCATCGGCCA
*
84337956 C-ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGTATCGGCATTGAGACGAGAGCTAGT
1 CGA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGT
* *
84338020 GTAAGACCATGTCTGGGACATGGCATCGGCCT
65 GTAAGACCATGTCTAGGACATGGCATCGGCCA
* * * * * * * * * * *
84338052 CGACATGTGAGCTAGTGTAAGACCGTGTCTGGGACATGGCGTCGGCCTCGACATGTGAGCCAGTG
1 CGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTG
*
84338117 TAAGACCATGT-TTGGAACATGGCATCG
66 TAAGACCATGTCTAGG-ACATGGCATCG
84338144 ACAATTCACC
Statistics
Matches: 162, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
93 6 0.04
94 1 0.01
95 6 0.04
96 148 0.91
97 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.21
Consensus pattern (96 bp):
CGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTG
TAAGACCATGTCTAGGACATGGCATCGGCCA
Found at i:84338126 original size:144 final size:143
Alignment explanation
Indices: 84337866--84338143 Score: 366
Period size: 144 Copynumber: 1.9 Consensus size: 143
84337856 TGGGCGATAT
84337866 GAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATTAAGCACGCTAGTGTAAGAC
1 GAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATT-AGCACGCTAGTGTAAGAC
* * *
84337931 CATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGT
65 CATGTCTAGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGC
84337996 ATCGGCATTGAGAC
130 ATCGGCATTGAGAC
* * *
84338010 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGT-G-A-GCTAGTGTAA
1 GAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAG-C-C-ACAT-TAGCACGCTAGTGTAA
* * * * * *
84338072 GACCGTGTCTGGGACATGGCGTCGGCCTCGA-CATGTGAGCCAGTGTAAGACCATGTTTGGAACA
62 GACCATGTCTAGGACATGGCATCGGCCAC-ATCATGAGAGCCAGTGTAAGACCATGTCTGGAACA
84338136 TGGCATCG
126 TGGCATCG
84338144 ACAATTCACC
Statistics
Matches: 117, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
144 107 0.91
145 3 0.03
146 2 0.02
147 4 0.03
148 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (143 bp):
GAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATTAGCACGCTAGTGTAAGACC
ATGTCTAGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCA
TCGGCATTGAGAC
Found at i:84354192 original size:95 final size:94
Alignment explanation
Indices: 84354025--84354237 Score: 258
Period size: 95 Copynumber: 2.3 Consensus size: 94
84354015 TTAAGGGTGC
* * * * *
84354025 AAAAAGCCCTCAAA-CTTTTC--AAAAAAAGCAATTAAGCTCATGCTTCTTTTTTTGCACTTATT
1 AAAAAGCCCTCAAACCTTTTCAAAAAAAAAGCAATTAAGCCCATACCTCTTTTTTTGCACTCAAT
*
84354087 TGGATACTTGAACTTTCAAAGATGCATAAA
66 TGGATACTTGAACTTTCAAA-ATGAATAAA
*
84354117 AAAAAGCCCTCAAACCTTTTCAAAAAAAAAAGCAATTAAGCCCCTACCT-TTTTTTTGCACTCAA
1 AAAAAGCCCTCAAACCTTTTC-AAAAAAAAAGCAATTAAGCCCATACCTCTTTTTTTGCACTCAA
*
84354181 TTGTG-TACTTGAGCTTTCAAAATGAATAAA
65 TTG-GATACTTGAACTTTCAAAATGAATAAA
* * *
84354211 AAAGA-CCCTCAAACTTTTTCACAAAAA
1 AAAAAGCCCTCAAACCTTTTCAAAAAAA
84354238 GCAATGAAGT
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
92 20 0.19
93 20 0.19
94 12 0.11
95 31 0.30
96 22 0.21
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (94 bp):
AAAAAGCCCTCAAACCTTTTCAAAAAAAAAGCAATTAAGCCCATACCTCTTTTTTTGCACTCAAT
TGGATACTTGAACTTTCAAAATGAATAAA
Found at i:84354384 original size:19 final size:18
Alignment explanation
Indices: 84354362--84354432 Score: 56
Period size: 20 Copynumber: 3.8 Consensus size: 18
84354352 TAATAATTAG
84354362 AAAAAAATATAAAAATCAT
1 AAAAAAATATAAAAAT-AT
84354381 AAAAAAGAATATAAAAA-ATT
1 -AAAAA-AATATAAAAATA-T
*
84354401 GTAAAAAATAT-AAAATAT
1 -AAAAAAATATAAAAATAT
* *
84354419 ATAGAAATATAAAA
1 AAAAAAATATAAAA
84354433 TTTTATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
17 7 0.17
18 8 0.19
19 7 0.17
20 10 0.24
21 10 0.24
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAAAATATAAAAATAT
Found at i:84354396 original size:10 final size:9
Alignment explanation
Indices: 84354363--84354432 Score: 61
Period size: 9 Copynumber: 7.4 Consensus size: 9
84354353 AATAATTAGA
84354363 AAAAAATAT
1 AAAAAATAT
*
84354372 AAAAATCATAA
1 AAAAA--ATAT
84354383 AAAAGAATAT
1 AAAA-AATAT
*
84354393 AAAAAATTGT
1 AAAAAA-TAT
84354403 AAAAAATAT
1 AAAAAATAT
*
84354412 AAAATATAT
1 AAAAAATAT
*
84354421 -AGAAATAT
1 AAAAAATAT
84354429 AAAA
1 AAAA
84354433 TTTTATAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
8 6 0.12
9 19 0.40
10 15 0.31
11 7 0.15
12 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (9 bp):
AAAAAATAT
Found at i:84354706 original size:11 final size:11
Alignment explanation
Indices: 84354690--84354784 Score: 58
Period size: 10 Copynumber: 9.1 Consensus size: 11
84354680 TAAAAAATCT
84354690 AATTTTTAATA
1 AATTTTTAATA
84354701 AA-TTTTAA-A
1 AATTTTTAATA
** *
84354710 TTTTTTTATTA
1 AATTTTTAATA
*
84354721 AA-ATTTAATA
1 AATTTTTAATA
*
84354731 ATTTTTCTAA-A
1 AATTTT-TAATA
84354742 AATTTTT-ATA
1 AATTTTTAATA
* *
84354752 ATTTTTTTATA
1 AATTTTTAATA
* *
84354763 ATTTTTTTAT-
1 AATTTTTAATA
84354773 AATTTTTAATA
1 AATTTTTAATA
84354784 A
1 A
84354785 TAGCATGGTC
Statistics
Matches: 64, Mismatches: 13, Indels: 14
0.70 0.14 0.15
Matches are distributed among these distances:
9 2 0.03
10 34 0.53
11 25 0.39
12 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (11 bp):
AATTTTTAATA
Found at i:84354717 original size:20 final size:21
Alignment explanation
Indices: 84354692--84354779 Score: 83
Period size: 21 Copynumber: 4.1 Consensus size: 21
84354682 AAAAATCTAA
84354692 TTTTTAATAAATTTTA-AATT
1 TTTTTAATAAATTTTATAATT
* *
84354712 TTTTTATTAAAATTTAATAATT
1 TTTTTAAT-AAATTTTATAATT
*
84354734 TTTCTAA-AAATTTTTATAATT
1 TTTTTAATAAA-TTTTATAATT
*
84354755 TTTTT-ATAATTTTTTTATAATT
1 TTTTTAATAA--ATTTTATAATT
84354777 TTT
1 TTT
84354780 AATAATAGCA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
20 11 0.20
21 22 0.40
22 22 0.40
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTAATAAATTTTATAATT
Found at i:84354724 original size:21 final size:22
Alignment explanation
Indices: 84354692--84354779 Score: 78
Period size: 22 Copynumber: 4.1 Consensus size: 22
84354682 AAAAATCTAA
*
84354692 TTTTTAAT-AAATTTTA-AATT
1 TTTTTATTAAAATTTTATAATT
*
84354712 TTTTTATTAAAATTTAATAATT
1 TTTTTATTAAAATTTTATAATT
*
84354734 TTTCTA--AAAATTTTTATAATT
1 TTTTTATTAAAA-TTTTATAATT
**
84354755 TTTTTA-TAATTTTTTTATAATT
1 TTTTTATTAA-AATTTTATAATT
84354777 TTT
1 TTT
84354780 AATAATAGCA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
20 11 0.20
21 21 0.38
22 24 0.43
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTTATTAAAATTTTATAATT
Found at i:84354767 original size:10 final size:10
Alignment explanation
Indices: 84354689--84354785 Score: 63
Period size: 11 Copynumber: 9.4 Consensus size: 10
84354679 ATAAAAAATC
*
84354689 TAATTTTTAA
1 TAATTTTTTA
*
84354699 TAA-ATTTTA
1 TAATTTTTTA
84354708 -AATTTTTTTA
1 TAA-TTTTTTA
** *
84354718 TTAAAATTTAA
1 -TAATTTTTTA
84354729 TAATTTTTCTA
1 TAATTTTT-TA
* *
84354740 AAAATTTTTA
1 TAATTTTTTA
84354750 TAATTTTTTTA
1 TAA-TTTTTTA
84354761 TAATTTTTTTA
1 TAA-TTTTTTA
*
84354772 TAATTTTTAA
1 TAATTTTTTA
84354782 TAAT
1 TAAT
84354786 AGCATGGTCT
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
8 2 0.03
9 4 0.06
10 28 0.42
11 31 0.46
12 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:84354937 original size:89 final size:91
Alignment explanation
Indices: 84354799--84354977 Score: 249
Period size: 89 Copynumber: 2.0 Consensus size: 91
84354789 ATGGTCTTAA
84354799 TTGCTTTTTTTGATAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGA
1 TTGCTTTTTTTGATAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGA
* * *
84354864 GTAAAA-AAAATAGGGGCTTAATTGC
66 GTAAAAGAAAAAAAGAGCTTAATTGC
* * * *
84354889 TTGCTTTTTTTGA-AGAAATTTGA-GG-CATTTTTTATGTATTTTGAAAGTTCAAGTGCTCAATT
1 TTGCTTTTTTTGATA-AAATTTGAGGGTC-TTTTTGATGCATTTTGAAAGTTCAAGTACCCAATT
84354951 GAGTAAAAGAAAAAAAGAGCTTAATTG
64 GAGTAAAAGAAAAAAAGAGCTTAATTG
84354978 TTTTTTTTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
88 1 0.01
89 42 0.53
90 36 0.46
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (91 bp):
TTGCTTTTTTTGATAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGA
GTAAAAGAAAAAAAGAGCTTAATTGC
Found at i:84355493 original size:30 final size:31
Alignment explanation
Indices: 84355458--84355533 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 31
84355448 CATACATGTA
84355458 ATAATGTTTTAC-TCTATTTATTCTTTTTAG
1 ATAATGTTTTACATCTATTTATTCTTTTTAG
*
84355488 ATAATGTCTTAAAACATCTATTTATTCTTTTTAG
1 ATAATGT-TT--TACATCTATTTATTCTTTTTAG
*
84355522 ATAATGTCTTAC
1 ATAATGTTTTAC
84355534 CTTATTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 7 0.18
31 4 0.10
33 3 0.08
34 25 0.64
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.53
Consensus pattern (31 bp):
ATAATGTTTTACATCTATTTATTCTTTTTAG
Found at i:84357643 original size:18 final size:19
Alignment explanation
Indices: 84357590--84357640 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
84357580 TTACAAAAAA
*
84357590 AAAATTCAAAATAATTTTC
1 AAAATTCAAAATAATTTTT
*
84357609 AAATTTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
*
84357628 AAAATTAAAAATA
1 AAAATTCAAAATA
84357641 TTTATAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:84362130 original size:37 final size:38
Alignment explanation
Indices: 84362050--84362138 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 38
84362040 TAGATAGATA
** *
84362050 GCTAGGATTATTAGTTACCTTTAGGATTTAAATCTAGG
1 GCTAGGATTAAAAGATACCTTTAGGATTTAAATCTAGG
* *
84362088 ACTAGGATTAAAAGATATCTTTAGG-TTTAAATCTAGG
1 GCTAGGATTAAAAGATACCTTTAGGATTTAAATCTAGG
84362125 GCTAGGATTAAAAG
1 GCTAGGATTAAAAG
84362139 TTTATTTGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
37 25 0.56
38 20 0.44
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (38 bp):
GCTAGGATTAAAAGATACCTTTAGGATTTAAATCTAGG
Found at i:84365141 original size:7 final size:7
Alignment explanation
Indices: 84365129--84365156 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
84365119 ATGTTCTTCT
84365129 TTTATTA
1 TTTATTA
84365136 TTTATTA
1 TTTATTA
84365143 TTTATTA
1 TTTATTA
84365150 TTTATTA
1 TTTATTA
84365157 AAATATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:84376029 original size:36 final size:35
Alignment explanation
Indices: 84375988--84376072 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
84375978 ATCTTGACTC
*
84375988 GGAGTTAGCCAAGAA-AGAAAGATTATTTCAACTTTA
1 GGAGTT-G-CAAGAATACAAAGATTATTTCAACTTTA
* * *
84376024 GGAGTTGGAAGAATTCCAAGATTATTTCAACTTTA
1 GGAGTTGCAAGAATACAAAGATTATTTCAACTTTA
* *
84376059 GGAATTGGAAGAAT
1 GGAGTTGCAAGAAT
84376073 TCCATTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 5 0.12
35 32 0.74
36 6 0.14
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.29
Consensus pattern (35 bp):
GGAGTTGCAAGAATACAAAGATTATTTCAACTTTA
Found at i:84376046 original size:35 final size:35
Alignment explanation
Indices: 84376006--84376076 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
84375996 CCAAGAAAGA
*
84376006 AAGATTATTTCAACTTTAGGAGTTGGAAGAATTCC
1 AAGATTATTTCAACTTTAGGAATTGGAAGAATTCC
84376041 AAGATTATTTCAACTTTAGGAATTGGAAGAATTCC
1 AAGATTATTTCAACTTTAGGAATTGGAAGAATTCC
84376076 A
1 A
84376077 TTTTATGGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (35 bp):
AAGATTATTTCAACTTTAGGAATTGGAAGAATTCC
Found at i:84376775 original size:11 final size:12
Alignment explanation
Indices: 84376759--84376787 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
84376749 TTTTGTCACC
84376759 AAAAAAG-AAAG
1 AAAAAAGAAAAG
84376770 AAAAAAGAAAAG
1 AAAAAAGAAAAG
84376782 AAAAAA
1 AAAAAA
84376788 ATGAAATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:84418912 original size:14 final size:15
Alignment explanation
Indices: 84418888--84418917 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
84418878 GGATATCAAA
84418888 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
84418903 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
84418917 A
1 A
84418918 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:84419785 original size:425 final size:412
Alignment explanation
Indices: 84419007--84419873 Score: 1493
Period size: 425 Copynumber: 2.1 Consensus size: 412
84418997 TTTAGTTCAT
*
84419007 AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCCT
1 AACTAAATAAGAAAACGTCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCCT
* * *
84419072 GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCTGACTTTTTAGATGGATCAATC
66 GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
* * * *
84419137 GGCTTTCTTGGAGTAATTCCTTACTCCCTATTATGTGTCTCCTTTTTCCTCCTCCTAGAGGCTTT
131 AGCTTCCTTGGAGGAATTCCTTAATCCCTATTATGTGTCTCCTTTTTCCTCCTCCTAGAGGCTTT
84419202 GAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTGGGCTCGGCAGGGA
196 GAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTGGGCTCGGCAGGGA
*
84419267 CACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACACGGCCGTGTGGTCT
261 CACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACACGGCCATGTGGTCT
84419332 ACCCATGTGAAGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTCTTCTTTTTGGCCC
326 ACCCATGTGAAGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTCTTCTTTTTGGCCC
84419397 GTTTCTCGTTCCTTTAGTATAA
391 GTTTCTCGTTCCTTTAGTATAA
*
84419419 AACTAAATAAGAAAACGTCTCAGAATAATAAAGAATACAAAACATAAAGAAAATCCAAAACTCCT
1 AACTAAATAAGAAAACGTCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCCT
84419484 GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
66 GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
*
84419549 AGCTTCCTTGGAGGAATTCCTTAATCCTTATTATGTGTCTCCTCTTTCTTCCTCCT-CTAGGGTG
131 AGCTTCCTTGGAGGAATTCCTTAATCCCTATTATGTGTCT-C-CTTT-TTCCTCCTCCTA----G
84419613 TATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTT
189 -------AGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTT
*
84419678 GGGCTCGGCAGGGACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTGTCAAATTGACA
247 GGGCTCGGCAGGGACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACA
84419743 CGGCCATGTGGTCTACCCATGTGAAGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTT
312 CGGCCATGTGGTCTACCCATGTGAAGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTT
84419808 CTTCTTTTTGGCCCGTTTCTCGTTCCTTTAGTATAA
377 CTTCTTTTTGGCCCGTTTCTCGTTCCTTTAGTATAA
84419844 AACTAAATAAGAAAACGTCTCAGAATAATA
1 AACTAAATAAGAAAACGTCTCAGAATAATA
84419874 CTCCTAAGTA
Statistics
Matches: 429, Mismatches: 12, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
412 160 0.37
413 1 0.00
414 7 0.02
415 8 0.02
418 1 0.00
425 252 0.59
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (412 bp):
AACTAAATAAGAAAACGTCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCCT
GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
AGCTTCCTTGGAGGAATTCCTTAATCCCTATTATGTGTCTCCTTTTTCCTCCTCCTAGAGGCTTT
GAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTGGGCTCGGCAGGGA
CACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACACGGCCATGTGGTCT
ACCCATGTGAAGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTCTTCTTTTTGGCCC
GTTTCTCGTTCCTTTAGTATAA
Found at i:84425587 original size:479 final size:479
Alignment explanation
Indices: 84424690--84425651 Score: 1924
Period size: 479 Copynumber: 2.0 Consensus size: 479
84424680 TAGATAGTTA
84424690 ATTTAAGAAAAAGGACTAAGTTGAAAAAGTGAAAAACTTAGTGATTATTGCATTTAAGTGATGAC
1 ATTTAAGAAAAAGGACTAAGTTGAAAAAGTGAAAAACTTAGTGATTATTGCATTTAAGTGATGAC
84424755 ATAGCTTAATTTCTAAATGAGGAAGGACTTATGTGGCAATTAGCCCTAGTTATTATGGTTGGATG
66 ATAGCTTAATTTCTAAATGAGGAAGGACTTATGTGGCAATTAGCCCTAGTTATTATGGTTGGATG
84424820 ACAAATGGTATGAAAATGATAAAATAATAGGTGTTTAATGGCAAATTTGCAAATAAATCAAAATT
131 ACAAATGGTATGAAAATGATAAAATAATAGGTGTTTAATGGCAAATTTGCAAATAAATCAAAATT
84424885 AAACTAAACAAATTAAACCAAATTAGACATTTTATTTTATTCATTCTCTTCAACCTCTTGCCTAA
196 AAACTAAACAAATTAAACCAAATTAGACATTTTATTTTATTCATTCTCTTCAACCTCTTGCCTAA
84424950 ACCACCATTGTAGATTAAGGAGCTTCGGTCACCTTCTTAGCCTTGCATGGTATGAAAATTGGTCT
261 ACCACCATTGTAGATTAAGGAGCTTCGGTCACCTTCTTAGCCTTGCATGGTATGAAAATTGGTCT
84425015 ATTTTTTTATAATTTTTATATTTTTGAGATTGTTGCAACTAGGTCCAGCTAGCCCTACCTTCTTT
326 ATTTTTTTATAATTTTTATATTTTTGAGATTGTTGCAACTAGGTCCAGCTAGCCCTACCTTCTTT
84425080 TCTGAATCTGTTACAAATTTTGGAAGTTACCATTGATGAATCTTGGTTGTTTGTGATGATAGTTA
391 TCTGAATCTGTTACAAATTTTGGAAGTTACCATTGATGAATCTTGGTTGTTTGTGATGATAGTTA
84425145 TATGTTTGAAGCTTTGATTGTGGT
456 TATGTTTGAAGCTTTGATTGTGGT
84425169 ATTTAAGAAAAAGGACTAAGTTGAAAAAGTGAAAAACTTAGTGATTATTGCATTTAAGTGATGAC
1 ATTTAAGAAAAAGGACTAAGTTGAAAAAGTGAAAAACTTAGTGATTATTGCATTTAAGTGATGAC
84425234 ATAGCTTAATTTCTAAATGAGGAAGGACTTATGTGGCAATTAGCCCTAGTTATTATGGTTGGATG
66 ATAGCTTAATTTCTAAATGAGGAAGGACTTATGTGGCAATTAGCCCTAGTTATTATGGTTGGATG
84425299 ACAAATGGTATGAAAATGATAAAATAATAGGTGTTTAATGGCAAATTTGCAAATAAATCAAAATT
131 ACAAATGGTATGAAAATGATAAAATAATAGGTGTTTAATGGCAAATTTGCAAATAAATCAAAATT
84425364 AAACTAAACAAATTAAACCAAATTAGACATTTTATTTTATTCATTCTCTTCAACCTCTTGCCTAA
196 AAACTAAACAAATTAAACCAAATTAGACATTTTATTTTATTCATTCTCTTCAACCTCTTGCCTAA
84425429 ACCACCATTGTAGATTAAGGAGCTTCGGTCACCTTCTTAGCCTTGCATGGTATGAAAATTGGTCT
261 ACCACCATTGTAGATTAAGGAGCTTCGGTCACCTTCTTAGCCTTGCATGGTATGAAAATTGGTCT
84425494 ATTTTTTTATAATTTTTATATTTTTGAGATTGTTGCAACTAGGTCCAGCTAGCCCTACCTTCTTT
326 ATTTTTTTATAATTTTTATATTTTTGAGATTGTTGCAACTAGGTCCAGCTAGCCCTACCTTCTTT
84425559 TCTGAATCTGTTACAAATTTTGGAAGTTACCATTGATGAATCTTGGTTGTTTGTGATGATAGTTA
391 TCTGAATCTGTTACAAATTTTGGAAGTTACCATTGATGAATCTTGGTTGTTTGTGATGATAGTTA
84425624 TATGTTTGAAGCTTTGATTGTGGT
456 TATGTTTGAAGCTTTGATTGTGGT
84425648 ATTT
1 ATTT
84425652 GATTGTTTTG
Statistics
Matches: 483, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
479 483 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (479 bp):
ATTTAAGAAAAAGGACTAAGTTGAAAAAGTGAAAAACTTAGTGATTATTGCATTTAAGTGATGAC
ATAGCTTAATTTCTAAATGAGGAAGGACTTATGTGGCAATTAGCCCTAGTTATTATGGTTGGATG
ACAAATGGTATGAAAATGATAAAATAATAGGTGTTTAATGGCAAATTTGCAAATAAATCAAAATT
AAACTAAACAAATTAAACCAAATTAGACATTTTATTTTATTCATTCTCTTCAACCTCTTGCCTAA
ACCACCATTGTAGATTAAGGAGCTTCGGTCACCTTCTTAGCCTTGCATGGTATGAAAATTGGTCT
ATTTTTTTATAATTTTTATATTTTTGAGATTGTTGCAACTAGGTCCAGCTAGCCCTACCTTCTTT
TCTGAATCTGTTACAAATTTTGGAAGTTACCATTGATGAATCTTGGTTGTTTGTGATGATAGTTA
TATGTTTGAAGCTTTGATTGTGGT
Found at i:84426289 original size:19 final size:19
Alignment explanation
Indices: 84426262--84426299 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
84426252 ATATTAAATG
*
84426262 TTATGCTATGTCCTTACTA
1 TTATACTATGTCCTTACTA
84426281 TTATACTATGTCCTTACTA
1 TTATACTATGTCCTTACTA
84426300 AGTTGTGTAA
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:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (19 bp):
TTATACTATGTCCTTACTA
Found at i:84428995 original size:40 final size:39
Alignment explanation
Indices: 84428964--84429173 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
84428954 GGACTAAGAT
* *
84428964 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
84429004 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
84429044 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
84429084 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
84429124 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
84429163 CCGAAGGCATT
1 CCGAAGGCATT
84429174 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:84429127 original size:120 final size:120
Alignment explanation
Indices: 84428911--84429173 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
84428901 TTGAATGCTG
* *
84428911 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
84428975 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
84429031 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
84429094 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
84429150 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
84429174 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Done.