Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 22 of 204
Found at i:8162885 original size:14 final size:14
Alignment explanation
Indices: 8162868--8162914 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
8162858 TATTTTTTCG
8162868 ATTTTGATTTTTTT
1 ATTTTGATTTTTTT
*
8162882 ATTTTGATTTTGATT
1 ATTTTGATTTT-TTT
*
8162897 -TTTTGATTTTTTA
1 ATTTTGATTTTTTT
8162910 ATTTT
1 ATTTT
8162915 TTTTAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 1 0.04
14 25 0.89
15 2 0.07
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (14 bp):
ATTTTGATTTTTTT
Found at i:8162924 original size:8 final size:8
Alignment explanation
Indices: 8162869--8162916 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
8162859 ATTTTTTCGA
8162869 TTTTGATT
1 TTTTGATT
*
8162877 TTTT--TA
1 TTTTGATT
8162883 TTTTGA--
1 TTTTGATT
8162889 TTTTGATT
1 TTTTGATT
8162897 TTTTGATT
1 TTTTGATT
*
8162905 TTTTAATT
1 TTTTGATT
8162913 TTTT
1 TTTT
8162917 TTAATTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
6 11 0.32
8 23 0.68
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (8 bp):
TTTTGATT
Found at i:8162932 original size:28 final size:27
Alignment explanation
Indices: 8162869--8162924 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
8162859 ATTTTTTCGA
* *
8162869 TTTTGATTTTTTTATTTTGATTTTGATT
1 TTTTGATTTTTTAATTTT-ATTTTAATT
8162897 TTTTGATTTTTTAATTTT-TTTTAATT
1 TTTTGATTTTTTAATTTTATTTTAATT
8162923 TT
1 TT
8162925 CTTTGATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 9 0.35
28 17 0.65
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (27 bp):
TTTTGATTTTTTAATTTTATTTTAATT
Found at i:8163738 original size:25 final size:25
Alignment explanation
Indices: 8163685--8163750 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
8163675 AAGAGAATCC
* *
8163685 AAAAGAATAAAAGAATAATTATTCG
1 AAAAGAATAAAAGAATAATTACTCA
*
8163710 AAAAGAATGAAAGAAT-ATTAGCTCA
1 AAAAGAATAAAAGAATAATTA-CTCA
8163735 AAAATGAATACAAAGA
1 AAAA-GAATA-AAAGA
8163751 TTTATTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 4 0.12
25 21 0.62
26 4 0.12
27 5 0.15
ACGTcount: A:0.61, C:0.06, G:0.14, T:0.20
Consensus pattern (25 bp):
AAAAGAATAAAAGAATAATTACTCA
Found at i:8169509 original size:17 final size:17
Alignment explanation
Indices: 8169489--8169522 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8169479 TTGAATAGTG
8169489 TATAAATAA-ATATATAT
1 TATAAA-AATATATATAT
8169506 TATAAAAATATATATAT
1 TATAAAAATATATATAT
8169523 GGATTATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAAAAATATATATAT
Found at i:8169724 original size:12 final size:11
Alignment explanation
Indices: 8169709--8169756 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 11
8169699 TATAGGCATA
8169709 ATAATAAATAAT
1 ATAAT-AATAAT
8169721 ATAATAATAAT
1 ATAATAATAAT
*
8169732 -TAAT-ATAAC
1 ATAATAATAAT
8169741 ATAATTAATAAT
1 ATAA-TAATAAT
8169753 ATAA
1 ATAA
8169757 AAAATTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 4 0.13
10 7 0.23
11 7 0.23
12 13 0.42
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:8169726 original size:15 final size:15
Alignment explanation
Indices: 8169706--8169756 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
8169696 ACGTATAGGC
8169706 ATAATAATAAATAAT
1 ATAATAATAAATAAT
*
8169721 ATAATAATAATTAAT
1 ATAATAATAAATAAT
*
8169736 ATAACATAATTAATAAT
1 AT-A-ATAATAAATAAT
8169753 ATAA
1 ATAA
8169757 AAAATTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 17 0.55
16 2 0.06
17 12 0.39
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:8195351 original size:2 final size:2
Alignment explanation
Indices: 8195344--8195377 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8195334 GTTGTTAAGC
8195344 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8195378 TATGATTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8199426 original size:23 final size:23
Alignment explanation
Indices: 8199399--8199474 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
8199389 AGTGTTATTG
*
8199399 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
8199422 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
8199445 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8199468 ATCAGTG
1 ATCAGTG
8199475 TTGCACTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:8201041 original size:110 final size:107
Alignment explanation
Indices: 8200693--8201055 Score: 436
Period size: 108 Copynumber: 3.4 Consensus size: 107
8200683 GGGTGTTACA
* *
8200693 GTGCCGGCCATTGGCATGCCACCACC-AATTTTTTTTTACTTTTTTCATATACTCATACCTGCTA
1 GTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTACTTTTTTCATATACTGATACCTGCTA
**
8200757 TTGACACGAAAAAAGTAAAAAAAAATTTCGACAAAAAAGGTG
66 TTGACACGAAAAAAGTAAAAAAAAATTTCCCCAAAAAAGGTG
* ***** * * *
8200799 GTGCCGGCCATTGGTAGGCCACCA-CAAA--AAAAATTACTTTTTTCGTATACTGATACATGATA
1 GTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTACTTTTTTCATATACTGATACCTGCTA
* *
8200861 TTGACACGAAAAAAAT-AAAAAAAA-TTCCCACAAAAAAGTTG
66 TTGACACGAAAAAAGTAAAAAAAAATTTCCC-CAAAAAAGGTG
* *
8200902 GTGCCAGCCATTGGCAGGCCACCATCAAATTTTTTTTTTCACTTTTTTCATATACTGATACCTGC
1 GTGCCGGCCATTGGCAGGCCACCACCAAA-TTTTTTTTT-ACTTTTTTCATATACTGATACCTGC
**
8200967 TATAAACACGAAAAAAGTGAAAAAAAAATTTCCCCAAAAAAGGTG
64 TATTGACACGAAAAAAGT-AAAAAAAAATTTCCCCAAAAAAGGTG
* * *
8201012 GTGCCGGTCATTGACAGGTCACCACCAAA-TTTTTTTT-CTTTTTT
1 GTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTACTTTTTT
8201056 TCGTATTCTG
Statistics
Matches: 213, Mismatches: 34, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
102 3 0.01
103 40 0.19
104 44 0.21
105 1 0.00
106 31 0.15
107 2 0.01
108 45 0.21
110 42 0.20
111 5 0.02
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (107 bp):
GTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTACTTTTTTCATATACTGATACCTGCTA
TTGACACGAAAAAAGTAAAAAAAAATTTCCCCAAAAAAGGTG
Found at i:8202455 original size:142 final size:138
Alignment explanation
Indices: 8202203--8202468 Score: 360
Period size: 140 Copynumber: 1.9 Consensus size: 138
8202193 AAAAAAATTT
** * **
8202203 ATTTTTTTTGGTGGTGGCCTGCCAATGGTTGGCACAACCTTTTTTGTAGGAATTTTTTTTTACTT
1 ATTTTTTTTGGTGGTGGCCTGCCAATGGCCGGCACAACCTTTTTTATAAAAATTTTTTTTTACTT
* *
8202268 TTTTAGTGGTCAATAGCAAGTATTAGTATACGAAAAAAAGTAAAAAAAAAATTTTGGTGGTAGCC
66 TTTTAGTGGTCAAAAGCAAGTATCAGTATACGAAAAAAAGTAAAAAAAAAATTTTGGTGGTAGCC
8202333 TACCAAAA
131 TACCAAAA
* *
8202341 ATTTTATTTTGGTGGGTGGCCTGCCAATGGCCGGCAACATCTTTTTTTATGAAAAATTTTTTTTT
1 ATTTT-TTTTGGT-GGTGGCCTGCCAATGGCCGGC-ACAACCTTTTTTAT-AAAAA-TTTTTTTT
8202406 TACTTTTTTAGT-GTCAAAAG-AAGGTATCAGTATACG-AAAAAAGT-AAAAAAAAATTGTTGGT
61 TACTTTTTTAGTGGTCAAAAGCAA-GTATCAGTATACGAAAAAAAGTAAAAAAAAAATT-TTGGT
8202467 GG
124 GG
8202469 CCTGGCAATG
Statistics
Matches: 112, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
138 5 0.04
139 7 0.06
140 30 0.27
141 28 0.25
142 22 0.20
143 20 0.18
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (138 bp):
ATTTTTTTTGGTGGTGGCCTGCCAATGGCCGGCACAACCTTTTTTATAAAAATTTTTTTTTACTT
TTTTAGTGGTCAAAAGCAAGTATCAGTATACGAAAAAAAGTAAAAAAAAAATTTTGGTGGTAGCC
TACCAAAA
Found at i:8202715 original size:110 final size:109
Alignment explanation
Indices: 8202348--8202849 Score: 654
Period size: 109 Copynumber: 4.6 Consensus size: 109
8202338 AAAATTTTAT
* * * *
8202348 TTTGGTGGGTGGCCTGCCAATGGCCGGCAACATCTTTTTTTATGAAAAATTTTTTTTTTACTTTT
1 TTTGGT-GGTGGCCTGCCAATGGCCGGCACCA-CCTTTTTTGTG-AGAATTTTTTTTTTACTTTT
* * *
8202413 TTAGTGTCAAAAGAAGGTATCAGTATACGAAAAAAGT-AAAAAAAAA
63 TTCGTGTCAATAGCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAA
* * * * * *
8202459 -TTGTTGGTGGCCTGGCAATGGCCGGTACCACCTTTTTTGTGGGATTTTTTTTTTTACTTTTTTT
1 TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTTACTTTTTTC
* * *
8202523 GTGTCAATAACAGTTATTAGTATACGAAAAAAGTAAAAAAAAAATTA
66 GTGTCAATAGCAGGTATCAGTATACGAAAAAAGT-AAAAAAAAA--A
* *
8202570 TTTTGGTGGTGGCTTGCCAATTGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTTTACTTTTT
1 -TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAA-TTTTTTTTTTACTTTTT
*
8202635 TCGTGTCAATAGCAGGTATTAGTA-ACTGAAAAAAGTAAAAAAAAAA
64 TCGTGTCAATAGCAGGTATCAGTATAC-GAAAAAAGTAAAAAAAAAA
* * *
8202681 TTTGGTGGTGGCCTACCAATGGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTTACATTTTTC
1 TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTTACTTTTTTC
*
8202746 GTGTCAATAGCAAGTATCAGTATACGAAAAAAGTAAAAAAAAAA
66 GTGTCAATAGCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAA
* *
8202790 TTT-GTGGTGGCCTGCCAATAGCCGGCACAACCTTTTTTGT-AGGAATTTTTTTTTTACTTT
1 TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGA-GAATTTTTTTTTTACTTT
8202850 GACATGAAAA
Statistics
Matches: 344, Mismatches: 37, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
107 48 0.14
108 60 0.17
109 90 0.26
110 48 0.14
111 2 0.01
113 49 0.14
114 47 0.14
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (109 bp):
TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTTACTTTTTTC
GTGTCAATAGCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAA
Found at i:8202733 original size:223 final size:219
Alignment explanation
Indices: 8202344--8202849 Score: 684
Period size: 223 Copynumber: 2.3 Consensus size: 219
8202334 ACCAAAAATT
* * * * *
8202344 TTATTTTGGTGGGTGGCCTGCCAATGGCCGGCAACATCTTTTTTTATGAAAAATTTTTTTTTTAC
1 TTATTTTGGT-GGTGGCCTGCCAATAGCCGGCACCA-CCTTTTTTGTG-AGAATTTTTTTTTTAC
* **
8202409 TTTTTTAGTGTCAAAAGAAGGTATCAGTATACGAAAAAAGTAAAAAAAAATTGTTGGTGGCCTGG
63 TTTTTTAGTGTCAAAAGAAGGTATCAGTATACGAAAAAAGTAAAAAAAAATTGGTGGTGGCCTAC
* * * *
8202474 CAATGGCCGGTACCACCTTTTTTGTGGGATTTTTTTTTTTACTTTTTTTGTGTCAATAAC-AGTT
128 CAATGGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTTACATTTTTCGTGTCAATAACAAG-T
*
8202538 ATTAGTATACGAAAAAAGTAAAAAAAAAA
192 ATCAGTATACGAAAAAAGT-AAAAAAAAA
* *
8202567 TTATTTTGGTGGTGGCTTGCCAATTGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTTTACTT
1 TTATTTTGGTGGTGGCCTGCCAATAGCCGGCACCACCTTTTTTGTGAGAA-TTTTTTTTTTACTT
* * * *
8202632 TTTTCGTGTCAATAGCAGGTATTAGTA-ACTGAAAAAAGTAAAAAAAAAATTTGGTGGTGGCCTA
65 TTTTAGTGTCAAAAGAAGGTATCAGTATAC-GAAAAAAGT-AAAAAAAAA-TTGGTGGTGGCCTA
*
8202696 CCAATGGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTTACATTTTTCGTGTCAATAGCAAGT
127 CCAATGGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTTACATTTTTCGTGTCAATAACAAGT
8202761 ATCAGTATACGAAAAAAGTAAAAAAAAA
192 ATCAGTATACGAAAAAAGTAAAAAAAAA
*
8202789 --A-TTT-GTGGTGGCCTGCCAATAGCCGGCACAACCTTTTTTGT-AGGAATTTTTTTTTTACTT
1 TTATTTTGGTGGTGGCCTGCCAATAGCCGGCACCACCTTTTTTGTGA-GAATTTTTTTTTTACTT
8202849 T
65 T
8202850 GACATGAAAA
Statistics
Matches: 255, Mismatches: 22, Indels: 18
0.86 0.07 0.06
Matches are distributed among these distances:
217 16 0.06
218 37 0.15
219 3 0.01
220 6 0.02
221 55 0.22
222 40 0.16
223 96 0.38
224 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (219 bp):
TTATTTTGGTGGTGGCCTGCCAATAGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTTACTTT
TTTAGTGTCAAAAGAAGGTATCAGTATACGAAAAAAGTAAAAAAAAATTGGTGGTGGCCTACCAA
TGGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTTACATTTTTCGTGTCAATAACAAGTATCA
GTATACGAAAAAAGTAAAAAAAAA
Found at i:8202884 original size:108 final size:109
Alignment explanation
Indices: 8202663--8202884 Score: 252
Period size: 108 Copynumber: 2.0 Consensus size: 109
8202653 TTAGTAACTG
* * *
8202663 AAAAAAGTAAAAAAAAAATTTGGTGGTGGCCTACCAATGGCCGGCACCACCTTTTTTGTGGGAAT
1 AAAAAAGTAAAAAAAAAATTTGGTGGTGGCCTACCAATAGCCGGCACAACCTTTTTTGTAGGAAT
** * ** * * ** ** * *
8202728 TTTTTTTTTACATTTTTCGTGTCAATAGCAAGTATCAGTATACG
66 TTTTTTTTTACATTTGACATGAAAAAAGAAAAAAAAAATATACA
*
8202772 AAAAAAGTAAAAAAAAAATTT-GTGGTGGCCTGCCAATAGCCGGCACAACCTTTTTTGTAGGAAT
1 AAAAAAGTAAAAAAAAAATTTGGTGGTGGCCTACCAATAGCCGGCACAACCTTTTTTGTAGGAAT
8202836 TTTTTTTTTAC-TTTGACATGAAAAAAGTAAAAAAAAAAT-TCACA
66 TTTTTTTTTACATTTGACATGAAAAAAG-AAAAAAAAAATAT-ACA
8202880 AAAAA
1 AAAAA
8202885 GGTGGTGTCG
Statistics
Matches: 94, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
107 11 0.12
108 62 0.66
109 21 0.22
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (109 bp):
AAAAAAGTAAAAAAAAAATTTGGTGGTGGCCTACCAATAGCCGGCACAACCTTTTTTGTAGGAAT
TTTTTTTTTACATTTGACATGAAAAAAGAAAAAAAAAATATACA
Found at i:8205137 original size:47 final size:46
Alignment explanation
Indices: 8205081--8205171 Score: 146
Period size: 47 Copynumber: 2.0 Consensus size: 46
8205071 GGGTGCAGGC
* * *
8205081 CTGTGAATGGCCGGCACCCAGTACATTAAAAAATTTCGAGTTTTATT
1 CTGTCAATGGCCGGCACCCAATACAGT-AAAAATTTCGAGTTTTATT
8205128 CTGTCAATGGCCGGCACCCAATACAGTAAAAATTTCGAGTTTTA
1 CTGTCAATGGCCGGCACCCAATACAGTAAAAATTTCGAGTTTTA
8205172 CTGTACTGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 17 0.41
47 24 0.59
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (46 bp):
CTGTCAATGGCCGGCACCCAATACAGTAAAAATTTCGAGTTTTATT
Found at i:8206015 original size:2 final size:2
Alignment explanation
Indices: 8206008--8206035 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8205998 AAACCCAGAG
8206008 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8206036 CTCGTATGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8208271 original size:24 final size:24
Alignment explanation
Indices: 8208235--8208283 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
8208225 ACCGTCATGG
8208235 ACACCGGCAACAACTCCTGGTGTA
1 ACACCGGCAACAACTCCTGGTGTA
*
8208259 ACACCGGCTACAACTCCTGGTGTA
1 ACACCGGCAACAACTCCTGGTGTA
8208283 A
1 A
8208284 GAAGCTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.18
Consensus pattern (24 bp):
ACACCGGCAACAACTCCTGGTGTA
Found at i:8209607 original size:3 final size:3
Alignment explanation
Indices: 8209599--8209629 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8209589 ATTAATTTGC
8209599 ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8209630 GATACCTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:8214533 original size:6 final size:6
Alignment explanation
Indices: 8214522--8214548 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8214512 CCATCGATTC
8214522 GAGTGA GAGTGA GAGTGA GAGTGA GAG
1 GAGTGA GAGTGA GAGTGA GAGTGA GAG
8214549 AATCGAGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (6 bp):
GAGTGA
Found at i:8215366 original size:56 final size:60
Alignment explanation
Indices: 8215289--8215401 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 60
8215279 AAAGAAGAAA
* *
8215289 AAATTATTTTTTTAGGTGCTGG-CTGTCAATGGCCGGCACCCAGTAC-G-AAAAAAAGGG
1 AAATTATTTTTTTAGGTGCTGGCCTGTAAATGGCCGGCACCCAATACAGTAAAAAAAGGG
*
8215346 AAATT-TTTTTTT-GTGTGCTGGCCTGTAAATGGTCGGCACCCAATACAGTAAAAAAA
1 AAATTATTTTTTTAG-GTGCTGGCCTGTAAATGGCCGGCACCCAATACAGTAAAAAAA
8215402 ATTCGAGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
55 1 0.02
56 14 0.29
57 26 0.53
58 1 0.02
59 7 0.14
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (60 bp):
AAATTATTTTTTTAGGTGCTGGCCTGTAAATGGCCGGCACCCAATACAGTAAAAAAAGGG
Found at i:8215755 original size:111 final size:112
Alignment explanation
Indices: 8215619--8215830 Score: 300
Period size: 111 Copynumber: 1.9 Consensus size: 112
8215609 CCACCACCAA
* ** * *
8215619 ATTTTTTTTGTACTTTTTTTGTATACTGATACTTGATACTGACACAAAAAAAAGT-AAAATTTTT
1 ATTTTTTTTGTACCTTTTTCATATACTGATACCTGATACTGACACAAAAAAAAGTAAAAATTTGT
*
8215683 TTACTGTATTAGGTGCCGACCATTGACAGGCCAGAACCCAAAAAAAG
66 TTACTGTACTAGGTGCCGACCATTGACAGGCCAGAACCCAAAAAAAG
* *
8215730 ATTTTTTTTTTACCTTTTTCATATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAATT
1 ATTTTTTTTGTACCTTTTTCATATACTGATACCTGATACTGACACAAAAAAAAGT---AAAAATT
* *
8215795 TGTTTACTGTACTGGGTGCCGGCCATTGACAGGCCA
63 TGTTTACTGTACTAGGTGCCGACCATTGACAGGCCA
8215831 ACACTCAAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
111 49 0.56
115 38 0.44
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (112 bp):
ATTTTTTTTGTACCTTTTTCATATACTGATACCTGATACTGACACAAAAAAAAGTAAAAATTTGT
TTACTGTACTAGGTGCCGACCATTGACAGGCCAGAACCCAAAAAAAG
Found at i:8216954 original size:109 final size:109
Alignment explanation
Indices: 8216664--8216957 Score: 400
Period size: 109 Copynumber: 2.7 Consensus size: 109
8216654 NNNAAAGTAA
* * *
8216664 AAAAAAAAATTTTTTGGGTGCTGACCTGTCAATGGCCGGCTCCCAGTACAGTGT-A-TTTTTTTT
1 AAAAAAAAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGT-TAATTTTTTTTT
* *
8216727 ACTTTTTTT-ATTGTCAGTATCAGGTATCAATGTACGAAAAAAGT
65 ACTTTTTTTCGTTGTCAGTATCAGGTATCAATATACGAAAAAAGT
* * * *
8216771 AAAAAAAATATTTTTTTGGATGCTTGCCTGTCAATGGCCAGCACACAGTACAGTAAATTTTTTTT
1 AAAAAAAA-ATTTTTTTGG-TGCTGGCCTGTCAATGGCCGGCACCCAGTACAGTTAA-TTTTTTT
*
8216836 TTAC-TTTTTTCGTT-TCAGTATCAGGTATCAGTATACGAAAAAAGT
63 TTACTTTTTTTCGTTGTCAGTATCAGGTATCAATATACGAAAAAAGT
*
8216881 AAAAAAAAATTTTTTTGAGTGCTGGCTTGTCAATGGCCGGCACCCAGTACAGTTAATTTTTTTTT
1 AAAAAAAAATTTTTTTG-GTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGTTAATTTTTTTTT
*
8216946 CCTTTTTTTCGT
65 ACTTTTTTTCGT
8216958 ACTGGGTGCC
Statistics
Matches: 163, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
107 8 0.05
108 19 0.12
109 80 0.49
110 44 0.27
111 12 0.07
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (109 bp):
AAAAAAAAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGTTAATTTTTTTTTA
CTTTTTTTCGTTGTCAGTATCAGGTATCAATATACGAAAAAAGT
Found at i:8219584 original size:29 final size:29
Alignment explanation
Indices: 8219542--8219597 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
8219532 TTTCCTTTCG
8219542 CTGTTAAATTTAAATGCACTTACATATCA
1 CTGTTAAATTTAAATGCACTTACATATCA
8219571 CTGTTAAATTTAAATGCACTTACATAT
1 CTGTTAAATTTAAATGCACTTACATAT
8219598 TGCAGGCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (29 bp):
CTGTTAAATTTAAATGCACTTACATATCA
Found at i:8222102 original size:34 final size:33
Alignment explanation
Indices: 8222046--8222111 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
8222036 ATCACCTTTA
* * *
8222046 AACCCAACTCCTCACAGCTCACCATCAACCAGC
1 AACCCAAATCCTAACAACTCACCATCAACCAGC
8222079 AACCCATAATCCTAACAACTCACCATCAACCAG
1 AACCCA-AATCCTAACAACTCACCATCAACCAG
8222112 TAATCCCCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.38, C:0.44, G:0.05, T:0.14
Consensus pattern (33 bp):
AACCCAAATCCTAACAACTCACCATCAACCAGC
Found at i:8226304 original size:42 final size:42
Alignment explanation
Indices: 8226149--8226304 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
8226139 TCTCACGAGC
* * * * *
8226149 TTCTGTT-AACTCATATGAGTTTCTGTTTAACCCTAATGGGT
1 TTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGT
* * * * *
8226190 TTCCGTTCAGCTCTTTTGAGCTTCAGTTTAACCCTTACGGGT
1 TTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGT
* ** *
8226232 TTTTGTTCAGCTCTTATGAGCTTCCATTCAACTCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGT
* * *
8226274 TTCTGTTTAGCACTTATGTGCTTCTGTTCAA
1 TTCTGTTCAGCTCTTATGAGCTTCTGTTCAA
8226305 ACTTCAGGCT
Statistics
Matches: 92, Mismatches: 22, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
41 6 0.07
42 86 0.93
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (42 bp):
TTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGT
Found at i:8241469 original size:19 final size:19
Alignment explanation
Indices: 8241445--8241486 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
8241435 TTCATGAATA
8241445 CACAAT-TCATATTTCAATT
1 CACAATCTCAT-TTTCAATT
*
8241464 CACAATCTCATTTTCATTT
1 CACAATCTCATTTTCAATT
8241483 CACA
1 CACA
8241487 TATAATATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (19 bp):
CACAATCTCATTTTCAATT
Found at i:8241649 original size:40 final size:39
Alignment explanation
Indices: 8241590--8241729 Score: 133
Period size: 40 Copynumber: 3.6 Consensus size: 39
8241580 AACACATCAG
* *
8241590 TTTGGCACCTAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAA-TCGAAGTAATAA
* * * *
8241630 TTTGACACCCAGTGTCTCATCGGCTAAACCAAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGAT-AATCGAAGTAATAA
* *
8241668 -TTGGCACCCAGTGCCTCATCGAATTAATCTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGA-TAATC-GAAGTAATAA
* *
8241708 TTTGACACCCAATGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
8241730 ACTCGAAGTC
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
37 22 0.28
38 7 0.09
39 2 0.03
40 28 0.35
41 20 0.25
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (39 bp):
TTTGACACCCAGTGCCTCATCGGATAATCGAAGTAATAA
Found at i:8241727 original size:41 final size:41
Alignment explanation
Indices: 8241619--8241730 Score: 124
Period size: 37 Copynumber: 2.8 Consensus size: 41
8241609 TCGGATAATT
*
8241619 CGAAGTAATAATTTGACACCCAGTGTCTCATCG-GCTAAAC
1 CGAAGTAATAATTTGACACCCAGTGTCTCATCGAACTAAAC
* * * * *
8241659 CAAAGT-A-AA-TTGGCACCCAGTGCCTCATCGAATTAATC
1 CGAAGTAATAATTTGACACCCAGTGTCTCATCGAACTAAAC
* *
8241697 TGAAGTAATAATTTGACACCCAATGTCTCATCGA
1 CGAAGTAATAATTTGACACCCAGTGTCTCATCGA
8241731 CTCGAAGTCA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
37 19 0.33
38 10 0.18
39 2 0.04
40 7 0.12
41 19 0.33
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (41 bp):
CGAAGTAATAATTTGACACCCAGTGTCTCATCGAACTAAAC
Found at i:8242635 original size:20 final size:20
Alignment explanation
Indices: 8242610--8242649 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8242600 AAGGCCGTGG
8242610 CTTTCTCCTTCCTTTCTTTC
1 CTTTCTCCTTCCTTTCTTTC
* *
8242630 CTTTCTCTTTTCTTTCTTTC
1 CTTTCTCCTTCCTTTCTTTC
8242650 TTTTTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
CTTTCTCCTTCCTTTCTTTC
Found at i:8242639 original size:15 final size:15
Alignment explanation
Indices: 8242622--8242654 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
8242612 TTCTCCTTCC
8242622 TTTCTTTCCTTTCTCT
1 TTTCTTT-CTTTCTCT
8242638 TTTCTTTCTTTCT-T
1 TTTCTTTCTTTCTCT
8242652 TTT
1 TTT
8242655 ATTTATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 6 0.35
16 7 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTTTCTTTCTCT
Found at i:8242669 original size:5 final size:5
Alignment explanation
Indices: 8242659--8242692 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
8242649 CTTTTTATTT
8242659 ATATA ATATA ATATA ATATA ATATA ATAT- ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
8242693 CTTAATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:8243301 original size:16 final size:16
Alignment explanation
Indices: 8243280--8243310 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8243270 AGTAAAAATA
*
8243280 ATATAATATTTATAAT
1 ATATAACATTTATAAT
8243296 ATATAACATTTATAA
1 ATATAACATTTATAA
8243311 ATAAGACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATAACATTTATAAT
Found at i:8257367 original size:84 final size:80
Alignment explanation
Indices: 8257279--8257454 Score: 206
Period size: 72 Copynumber: 2.2 Consensus size: 80
8257269 TAGGATTATG
* *
8257279 TTATAAATTGTTGTGTTTAGTTTAGTATTTGGTGAGTTTTTAGTAATGTAAAATTATTTTGTTAG
1 TTATAAATTGTTGTGTTT-G--T-GT-TTT-GTGAGTTTTTAGTAATATAAAATTATTTTGTTAA
* *
8257344 ATA-TTTT-GTTAGTAATTTA
60 ATATTTTTAGTAAATAATTTA
8257363 TTATAAA----T-TG-TTGTGTTTTGTGAGTTTTTAGTAATATAAAATTATTTTGTTAAATATTT
1 TTATAAATTGTTGTGTTTGTGTTTTGTGAGTTTTTAGTAATATAAAATTATTTTGTTAAATATTT
8257422 TTAGTAAATAATTTA
66 TTAGTAAATAATTTA
8257437 TTATAAATTGTTGTGTTT
1 TTATAAATTGTTGTGTTT
8257455 TGTGAGTTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
72 35 0.44
73 7 0.09
74 19 0.24
75 1 0.01
77 1 0.01
78 3 0.04
79 4 0.05
80 3 0.04
84 7 0.09
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (80 bp):
TTATAAATTGTTGTGTTTGTGTTTTGTGAGTTTTTAGTAATATAAAATTATTTTGTTAAATATTT
TTAGTAAATAATTTA
Found at i:8257391 original size:72 final size:74
Alignment explanation
Indices: 8257310--8257487 Score: 285
Period size: 74 Copynumber: 2.5 Consensus size: 74
8257300 TTAGTATTTG
* * *
8257310 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAGATA-TTTT-GTTAGTAATTTATTATAAATTG
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTTAGTAAATAATTTATTATAAATTG
8257373 TTGTGTTTT
66 TTGTGTTTT
*
8257382 GTGAGTTTTTAGTAATATAAAATTATTTTGTTAAATATTTTTAGTAAATAATTTATTATAAATTG
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTTAGTAAATAATTTATTATAAATTG
8257447 TTGTGTTTT
66 TTGTGTTTT
8257456 GTGAGTTTTTAGTAATGT-AAATT-TTTT-TTAAA
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAA
8257488 AAAAATTTAT
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
71 5 0.05
72 39 0.39
73 9 0.09
74 46 0.46
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (74 bp):
GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTTAGTAAATAATTTATTATAAATTG
TTGTGTTTT
Found at i:8257550 original size:27 final size:27
Alignment explanation
Indices: 8257512--8257595 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
8257502 ATTTTGGTCA
* *
8257512 ACCAGTCGCGCCTGTCAGATAGGCTTC
1 ACCAGTCGCGCCTATCAGATAGGCTCC
*
8257539 ACCAGTTGCGCCTATCAGATAGGCTCC
1 ACCAGTCGCGCCTATCAGATAGGCTCC
* *
8257566 ACCAGTCGCGCCTACCAGATAGGCGCC
1 ACCAGTCGCGCCTATCAGATAGGCTCC
8257593 ACC
1 ACC
8257596 TACCTCATAC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.21, C:0.37, G:0.24, T:0.18
Consensus pattern (27 bp):
ACCAGTCGCGCCTATCAGATAGGCTCC
Found at i:8259628 original size:40 final size:40
Alignment explanation
Indices: 8259573--8259653 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
8259563 TATACAAGAA
8259573 GTTTCCAGTAATGCCTATAACTATGGGTAAATGTAGAGTT
1 GTTTCCAGTAATGCCTATAACTATGGGTAAATGTAGAGTT
8259613 GTTTCCAGTAATGCCTATAACTATGGGTAAATGTAGAGTT
1 GTTTCCAGTAATGCCTATAACTATGGGTAAATGTAGAGTT
8259653 G
1 G
8259654 CCTAAGTCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (40 bp):
GTTTCCAGTAATGCCTATAACTATGGGTAAATGTAGAGTT
Found at i:8261706 original size:22 final size:24
Alignment explanation
Indices: 8261654--8261708 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
8261644 TTATAAAAAA
*
8261654 TTATAAAATTTTTTTATAAAGTGTC
1 TTAT-AAATTTTTTTATAAACTGTC
* *
8261679 TAATAAATTTTTTTA-ACACT-TC
1 TTATAAATTTTTTTATAAACTGTC
8261701 TTATAAAT
1 TTATAAAT
8261709 AATTTACCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 9 0.35
23 3 0.12
24 11 0.42
25 3 0.12
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (24 bp):
TTATAAATTTTTTTATAAACTGTC
Found at i:8264031 original size:57 final size:57
Alignment explanation
Indices: 8263946--8264055 Score: 220
Period size: 57 Copynumber: 1.9 Consensus size: 57
8263936 TTCTCCCAAA
8263946 AAAATAATAAAATAATAAATACATGTATCATTCAAAATGGAAGTAGGTAATTGGAAT
1 AAAATAATAAAATAATAAATACATGTATCATTCAAAATGGAAGTAGGTAATTGGAAT
8264003 AAAATAATAAAATAATAAATACATGTATCATTCAAAATGGAAGTAGGTAATTG
1 AAAATAATAAAATAATAAATACATGTATCATTCAAAATGGAAGTAGGTAATTG
8264056 AGTGGAACAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (57 bp):
AAAATAATAAAATAATAAATACATGTATCATTCAAAATGGAAGTAGGTAATTGGAAT
Found at i:8264455 original size:19 final size:17
Alignment explanation
Indices: 8264418--8264451 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8264408 CAAAAAGGTA
*
8264418 AAAGTAAAGAAAATTTC
1 AAAGTAAAAAAAATTTC
8264435 AAAGTAAAAAATAATTT
1 AAAGTAAAAAA-AATTT
8264452 TCAAGAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAGTAAAAAAAATTTC
Found at i:8268447 original size:15 final size:15
Alignment explanation
Indices: 8268414--8268447 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8268404 AGACACTGTC
*
8268414 AAAACACAAAAAAAG
1 AAAACACAAAAAAAA
8268429 AAAACACAAAAAAAA
1 AAAACACAAAAAAAA
8268444 AAAA
1 AAAA
8268448 AATCCCCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAACACAAAAAAAA
Found at i:8268779 original size:22 final size:22
Alignment explanation
Indices: 8268735--8268779 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8268725 TCGGCAAGGA
* *
8268735 TTTTTTTCTCTCTTTTTTTTTT
1 TTTTTTTCTCTCTTTTCTATTT
*
8268757 TTTTTTTTTCTCTTTTCTATTT
1 TTTTTTTCTCTCTTTTCTATTT
8268779 T
1 T
8268780 CTGTTGGGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTTTCTCTCTTTTCTATTT
Found at i:8271692 original size:24 final size:23
Alignment explanation
Indices: 8271661--8271705 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
8271651 TACATGTGAA
8271661 AATAATGAAA-TAAATAAATAAAC
1 AATAATGAAATTAAA-AAATAAAC
8271684 AATACATGAAATTAAAAAATAA
1 AATA-ATGAAATTAAAAAATAA
8271706 CTCTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (23 bp):
AATAATGAAATTAAAAAATAAAC
Found at i:8280006 original size:16 final size:16
Alignment explanation
Indices: 8279985--8280021 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
8279975 TAACTAGCAT
8279985 AATAAAATATTTAAAA
1 AATAAAATATTTAAAA
*
8280001 AAT-AAATATTTTAAA
1 AATAAAATATTTAAAA
8280016 AATAAA
1 AATAAA
8280022 TACATAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAAAATATTTAAAA
Found at i:8280009 original size:15 final size:15
Alignment explanation
Indices: 8279989--8280023 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
8279979 TAGCATAATA
8279989 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
*
8280004 AAATATTTTAAAAAT
1 AAATATTTAAAAAAT
8280019 AAATA
1 AAATA
8280024 CATAGCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:8282063 original size:12 final size:12
Alignment explanation
Indices: 8282048--8282101 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
8282038 ATATATAAGG
8282048 ATGTATATATAT
1 ATGTATATATAT
*
8282060 ATGTATATGTAT
1 ATGTATATATAT
* *
8282072 ATGAAT-TAAAAT
1 ATGTATAT-ATAT
*
8282084 ACGTATATATAT
1 ATGTATATATAT
8282096 ATGTAT
1 ATGTAT
8282102 GTGTATATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:8282166 original size:3 final size:3
Alignment explanation
Indices: 8282158--8282206 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
8282148 GTATACATGT
8282158 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8282206 A
1 A
8282207 AAGTGCGTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8282377 original size:2 final size:2
Alignment explanation
Indices: 8282372--8282437 Score: 82
Period size: 2 Copynumber: 33.5 Consensus size: 2
8282362 AAGTGTACAC
* *
8282372 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AA AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
8282413 AT A- AGT AT GT AT AT AT AT AT AT AT A
1 AT AT A-T AT AT AT AT AT AT AT AT AT A
8282438 GAAATAAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
1 2 0.04
2 52 0.95
3 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8284094 original size:20 final size:20
Alignment explanation
Indices: 8284069--8284110 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
8284059 GGCTCTATAT
8284069 AAATAACTTA-AAGTTAATTA
1 AAATAACTTAGAA-TTAATTA
8284089 AAATAACTTAGAATTAATTA
1 AAATAACTTAGAATTAATTA
8284109 AA
1 AA
8284111 TTTTTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATAACTTAGAATTAATTA
Found at i:8284575 original size:7 final size:7
Alignment explanation
Indices: 8284529--8284631 Score: 52
Period size: 7 Copynumber: 14.9 Consensus size: 7
8284519 CTTGAACCCC
8284529 AAGGTTT
1 AAGGTTT
8284536 -AGGTCTT
1 AAGGT-TT
* *
8284543 GAGATTT
1 AAGGTTT
*
8284550 AAGATTT
1 AAGGTTT
* *
8284557 AGGGTTC
1 AAGGTTT
*
8284564 GAGGTTT
1 AAGGTTT
8284571 AAGGTTT
1 AAGGTTT
*
8284578 -ATGTTT
1 AAGGTTT
8284584 AAGGTTT
1 AAGGTTT
8284591 AAGGATTT
1 AAGG-TTT
*
8284599 -AGAGTTC
1 AAG-GTTT
*
8284606 AGGGTTT
1 AAGGTTT
*
8284613 -ACGTTT
1 AAGGTTT
*
8284619 AAGGTTC
1 AAGGTTT
8284626 AAGGTT
1 AAGGTT
8284632 CGGGGTTACG
Statistics
Matches: 71, Mismatches: 18, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
6 13 0.18
7 50 0.70
8 8 0.11
ACGTcount: A:0.25, C:0.05, G:0.29, T:0.41
Consensus pattern (7 bp):
AAGGTTT
Found at i:8284585 original size:13 final size:13
Alignment explanation
Indices: 8284567--8284591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8284557 AGGGTTCGAG
8284567 GTTTAAGGTTTAT
1 GTTTAAGGTTTAT
8284580 GTTTAAGGTTTA
1 GTTTAAGGTTTA
8284592 AGGATTTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (13 bp):
GTTTAAGGTTTAT
Found at i:8284598 original size:42 final size:42
Alignment explanation
Indices: 8284529--8284613 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
8284519 CTTGAACCCC
* *
8284529 AAGGTTTAGGTCTTGAGATTTAAGATTTAGGGTTC-GAGGTTT
1 AAGGTTTAGGTCTTAAGATTTAAGATTTAGAGTTCAG-GGTTT
* *
8284571 AAGGTTTATGT-TTAAGGTTTAAGGATTTAGAGTTCAGGGTTT
1 AAGGTTTAGGTCTTAAGATTTAA-GATTTAGAGTTCAGGGTTT
8284613 A
1 A
8284614 CGTTTAAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 9 0.24
42 27 0.73
43 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.29, T:0.41
Consensus pattern (42 bp):
AAGGTTTAGGTCTTAAGATTTAAGATTTAGAGTTCAGGGTTT
Found at i:8289723 original size:46 final size:45
Alignment explanation
Indices: 8289655--8290052 Score: 379
Period size: 36 Copynumber: 9.6 Consensus size: 45
8289645 TTTGAGTACT
*
8289655 TCTGATCAAGAGATAAAA-TGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGA-AAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
8289701 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
8289737 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
8289773 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
8289819 TCTGATCAAGTGAAAAAGTGATAA---GT-G-TTA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
8289855 TCTAATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
8289891 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
8289937 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
8289983 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
8290028 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
8290053 ATCATACGTA
Statistics
Matches: 314, Mismatches: 16, Indels: 47
0.83 0.04 0.12
Matches are distributed among these distances:
36 125 0.40
38 2 0.01
39 2 0.01
40 7 0.02
41 2 0.01
42 7 0.02
43 16 0.05
44 4 0.01
45 24 0.08
46 125 0.40
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:8289747 original size:21 final size:20
Alignment explanation
Indices: 8289719--8289784 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
8289709 AGTGAAAAAG
8289719 TGATAAGTGCTATACTTATC
1 TGATAAGTGCTATACTTATC
* **
8289739 TGATCAAGTG--A-A--AAAG
1 TGAT-AAGTGCTATACTTATC
8289755 TGATAAGTGCTATACTTATC
1 TGATAAGTGCTATACTTATC
8289775 TGATCAAGTG
1 TGAT-AAGTG
8289785 ACAAAGTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 13
0.63 0.12 0.25
Matches are distributed among these distances:
15 5 0.15
16 5 0.15
17 1 0.03
18 2 0.06
19 1 0.03
20 9 0.27
21 10 0.30
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
TGATAAGTGCTATACTTATC
Found at i:8289812 original size:118 final size:118
Alignment explanation
Indices: 8289655--8289963 Score: 546
Period size: 118 Copynumber: 2.6 Consensus size: 118
8289645 TTTGAGTACT
* * * * *
8289655 TCTGATCAAGAGATAAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
8289720 GATAAGTGCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTA
66 GATAAGTGCTATACTTATCTAATCAAGTGAAAAAGTGATAAGTGCTATACTTA
8289773 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
8289838 GATAAGTGTTATACTTATCTAATCAAGTGAAAAAGTGATAAGTGCTATACTTA
66 GATAAGTGCTATACTTATCTAATCAAGTGAAAAAGTGATAAGTGCTATACTTA
*
8289891 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
8289956 GATAAGTG
66 GATAAGTG
8289964 GTAGCCTTAG
Statistics
Matches: 183, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 183 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (118 bp):
TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTATACTTATCTAATCAAGTGAAAAAGTGATAAGTGCTATACTTA
Found at i:8305160 original size:35 final size:37
Alignment explanation
Indices: 8305112--8305181 Score: 99
Period size: 35 Copynumber: 1.9 Consensus size: 37
8305102 TCCCCACTAT
* * *
8305112 TTTAAATTCAAAGCTATTATTATAA-ATTT-TTTTGC
1 TTTAAAATAAAAGCTATTACTATAATATTTATTTTGC
8305147 TTTAAAATAAAAGCTATTACTATAATATTTATTTT
1 TTTAAAATAAAAGCTATTACTATAATATTTATTTT
8305182 TAGTAATCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 22 0.73
36 4 0.13
37 4 0.13
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (37 bp):
TTTAAAATAAAAGCTATTACTATAATATTTATTTTGC
Found at i:8306461 original size:38 final size:38
Alignment explanation
Indices: 8306379--8306462 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 38
8306369 TAAAAAGATT
* * * *
8306379 AATAAAAATAAAATAACTTGAAAATAATATATTTATTA
1 AATAAAAATAAAAAAACTTGAAAATAACATATTCATAA
*
8306417 ATTAAAAATAAAAAAAAGCTTG-AAATAACAT-TTCATAA
1 AATAAAAAT-AAAAAAA-CTTGAAAATAACATATTCATAA
8306455 AATAAAAA
1 AATAAAAA
8306463 ATACAAATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
38 20 0.53
39 14 0.37
40 4 0.11
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.29
Consensus pattern (38 bp):
AATAAAAATAAAAAAACTTGAAAATAACATATTCATAA
Found at i:8309507 original size:42 final size:42
Alignment explanation
Indices: 8309413--8309509 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
8309403 GGCAAAAAAA
* * * *
8309413 CTAGGCAAGCTTTCCGCACAGTTGTCAGGAAAGCTCGTCTAG
1 CTAGGCGAGCTTTCCGCACAATTGTCAAGAAAGCTCGTCCAG
* * *
8309455 CTAGGTGAGCTTTCTGCACAATTGTCAAGAAAGCTTGTCCAG
1 CTAGGCGAGCTTTCCGCACAATTGTCAAGAAAGCTCGTCCAG
*
8309497 -TTGGACGAGCTTT
1 CTAGG-CGAGCTTT
8309510 TACTGATATG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 3 0.07
42 42 0.93
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (42 bp):
CTAGGCGAGCTTTCCGCACAATTGTCAAGAAAGCTCGTCCAG
Found at i:8319585 original size:17 final size:17
Alignment explanation
Indices: 8319565--8319601 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8319555 AATTTTTGAA
*
8319565 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTATGAT
*
8319582 TTAGTGAATTTTATGAT
1 TTAGTGAATTCTATGAT
8319599 TTA
1 TTA
8319602 AAAAGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.03, G:0.19, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTATGAT
Found at i:8320877 original size:46 final size:46
Alignment explanation
Indices: 8320824--8320917 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
8320814 CCATGGAAAA
* *
8320824 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAATCATACTGAG
1 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
*
8320870 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
8320916 TT
1 TT
8320918 ATAGCATTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
Found at i:8322871 original size:15 final size:16
Alignment explanation
Indices: 8322851--8322889 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
8322841 ATGTTAGAAA
8322851 TGTAAAATTAT-ATTT
1 TGTAAAATTATAATTT
8322866 TGTAAAA-TATAATTT
1 TGTAAAATTATAATTT
8322881 T-T-AAATTAT
1 TGTAAAATTAT
8322890 GCAAATTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.14
14 7 0.32
15 12 0.55
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TGTAAAATTATAATTT
Found at i:8329202 original size:16 final size:17
Alignment explanation
Indices: 8329181--8329213 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8329171 AATTTTAAAA
*
8329181 AATTCTATTAT-ATATC
1 AATTCTAATATGATATC
8329197 AATTCTAATATGATATC
1 AATTCTAATATGATATC
8329214 CTTAATAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (17 bp):
AATTCTAATATGATATC
Found at i:8329312 original size:21 final size:21
Alignment explanation
Indices: 8329288--8329343 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
8329278 CACCATTGTT
*
8329288 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAATA
*
8329309 TCTAATCTCACCGCTATAATA
1 TCTAATCTCACCGCTACAATA
*
8329330 ACTAATCTCACCGC
1 TCTAATCTCACCGC
8329344 CACCGCTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.34, G:0.07, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAATA
Found at i:8347407 original size:36 final size:35
Alignment explanation
Indices: 8347341--8347411 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
8347331 GCATCCCACA
* *
8347341 AAGACTCAATTACTGGATTCTTTAACTTCCCAAGT
1 AAGACTCAATTACCGGATTCTTTAAATTCCCAAGT
8347376 AAGACTCAACTTACC-GAGTTCTTTAAATTCCCAAGT
1 AAGACTCAA-TTACCGGA-TTCTTTAAATTCCCAAGT
8347412 TTTTTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AAGACTCAATTACCGGATTCTTTAAATTCCCAAGT
Found at i:8353810 original size:18 final size:18
Alignment explanation
Indices: 8353787--8353824 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
8353777 CTTTTCTTCA
8353787 CTTAGATTTTTACATCAT
1 CTTAGATTTTTACATCAT
8353805 CTTAGATTTTTACATCAT
1 CTTAGATTTTTACATCAT
8353823 CT
1 CT
8353825 CATACTACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.50
Consensus pattern (18 bp):
CTTAGATTTTTACATCAT
Found at i:8359705 original size:25 final size:25
Alignment explanation
Indices: 8359668--8359722 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
8359658 GAACCTTAGC
* * *
8359668 GTGCTTTTTGATTATTAGCACGTTA
1 GTGCTATTCGATTATTAGCACATTA
8359693 GTGCTATTCGATTATTAGCACATTA
1 GTGCTATTCGATTATTAGCACATTA
8359718 GTGCT
1 GTGCT
8359723 CTCCGTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.44
Consensus pattern (25 bp):
GTGCTATTCGATTATTAGCACATTA
Found at i:8359735 original size:22 final size:22
Alignment explanation
Indices: 8359707--8359769 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
8359697 TATTCGATTA
8359707 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCCGT
* * *
8359729 TTAGCACATTTGTTCTCTCTGT
1 TTAGCACATTAGTGCTCTCCGT
* *
8359751 ATAGCACTTTAGTGCTCTC
1 TTAGCACATTAGTGCTCTC
8359770 TGATTATTAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.41
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCCGT
Found at i:8361138 original size:20 final size:21
Alignment explanation
Indices: 8361101--8361140 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8361091 CATGGTGTGA
*
8361101 TTTTAAAAAATAGTTTAATTT
1 TTTTAAAAAATAGATTAATTT
*
8361122 TTTTTAAAAATA-ATTAATT
1 TTTTAAAAAATAGATTAATT
8361141 GTTAACGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TTTTAAAAAATAGATTAATTT
Found at i:8362516 original size:18 final size:18
Alignment explanation
Indices: 8362466--8362524 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
8362456 ATATACGAAC
*
8362466 TATATATAT-TTAAAACA
1 TATATATATATTAACACA
*
8362483 TTTATA-ATA-T-ACACA
1 TATATATATATTAACACA
8362498 TATATATATATTAACACA
1 TATATATATATTAACACA
8362516 TATATATAT
1 TATATATAT
8362525 GCGTACCTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 9 0.26
16 6 0.17
17 6 0.17
18 14 0.40
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
TATATATATATTAACACA
Found at i:8362518 original size:16 final size:16
Alignment explanation
Indices: 8362466--8362524 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
8362456 ATATACGAAC
*
8362466 TATATATATTTAAAACA
1 TATATATA-TTAACACA
* *
8362483 TTTATA-ATATACACATA
1 TATATATAT-TA-ACACA
8362500 TATATATATTAACACA
1 TATATATATTAACACA
8362516 TATATATAT
1 TATATATAT
8362525 GCGTACCTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 1 0.03
16 16 0.47
17 15 0.44
18 2 0.06
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.42
Consensus pattern (16 bp):
TATATATATTAACACA
Found at i:8364210 original size:27 final size:26
Alignment explanation
Indices: 8364173--8364255 Score: 82
Period size: 26 Copynumber: 3.1 Consensus size: 26
8364163 TAAAATATTT
8364173 TTTTATA-ATTTTTATTTTCTAAATAA
1 TTTTATATATTTTTATTTT-TAAATAA
8364199 TTTTA-ATGA-TTTTATTTTTAAAAATAA
1 TTTTATAT-ATTTTTATTTTT--AAATAA
*
8364226 TTTTTATATATTTTTATTTTTTAAAAAA
1 -TTTTATATATTTTTA-TTTTTAAATAA
8364254 TT
1 TT
8364256 AAAAAATAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
25 2 0.04
26 14 0.29
27 9 0.19
28 11 0.23
29 7 0.15
30 5 0.10
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (26 bp):
TTTTATATATTTTTATTTTTAAATAA
Found at i:8380751 original size:25 final size:24
Alignment explanation
Indices: 8380721--8380826 Score: 106
Period size: 25 Copynumber: 4.3 Consensus size: 24
8380711 ATGTAATCAA
8380721 GAAGCTCTTTCGAGCCATGTAACGG
1 GAAGCTCTTTCGAGCCAT-TAACGG
*
8380746 GAAGCTCATGT-GAGCCATATAACGG
1 GAAGCTC-TTTCGAGCCAT-TAACGG
* *
8380771 GAAGCTCTTGCGAGCCAATTATCGG
1 GAAGCTCTTTCGAGCC-ATTAACGG
* * * *
8380796 GAAGCTCATACGAGCCATAAATGG
1 GAAGCTCTTTCGAGCCATTAACGG
8380820 GAAGCTC
1 GAAGCTC
8380827 AAGAAAGCCA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
24 13 0.19
25 51 0.75
26 4 0.06
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (24 bp):
GAAGCTCTTTCGAGCCATTAACGG
Found at i:8380797 original size:50 final size:49
Alignment explanation
Indices: 8380721--8380875 Score: 150
Period size: 49 Copynumber: 3.1 Consensus size: 49
8380711 ATGTAATCAA
* * **
8380721 GAAGCTCTTTCGAGCC-ATGTAACGGGAAGCTCATGTGAGCCATATAACGG
1 GAAGCTCTTGCGAGCCAAT-TATCGGGAAGCTCATACGAGCCATA-AACGG
*
8380771 GAAGCTCTTGCGAGCCAATTATCGGGAAGCTCATACGAGCCATAAATGG
1 GAAGCTCTTGCGAGCCAATTATCGGGAAGCTCATACGAGCCATAAACGG
** ** * * * ** *
8380820 GAAGCTCAAGAAAGCCAAATATCGGGAAGCTCAAAAGAGCTGTAATCGG
1 GAAGCTCTTGCGAGCCAATTATCGGGAAGCTCATACGAGCCATAAACGG
8380869 GAAGCTC
1 GAAGCTC
8380876 ATGTAAGCCA
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 49 0.56
50 37 0.42
51 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (49 bp):
GAAGCTCTTGCGAGCCAATTATCGGGAAGCTCATACGAGCCATAAACGG
Found at i:8380851 original size:25 final size:24
Alignment explanation
Indices: 8380743--8380853 Score: 84
Period size: 25 Copynumber: 4.5 Consensus size: 24
8380733 AGCCATGTAA
** * *
8380743 CGGGAAGCTCATGTGAGCCATATAA
1 CGGGAAGCTCA-ACGAGCCAAATAT
** *
8380768 CGGGAAGCTCTTGCGAGCCAATTAT
1 CGGGAAGCTC-AACGAGCCAAATAT
8380793 CGGGAAGCTCATACGAGCCATAA-AT
1 CGGGAAGCTCA-ACGAGCCA-AATAT
8380818 -GGGAAGCTCAA-GAAAGCCAAATAT
1 CGGGAAGCTCAACG--AGCCAAATAT
8380842 CGGGAAGCTCAA
1 CGGGAAGCTCAA
8380854 AAGAGCTGTA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.01
23 3 0.04
24 17 0.24
25 49 0.69
26 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.17
Consensus pattern (24 bp):
CGGGAAGCTCAACGAGCCAAATAT
Found at i:8385410 original size:13 final size:13
Alignment explanation
Indices: 8385392--8385416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8385382 GGCATAATTT
8385392 TTAAAAATTAAAA
1 TTAAAAATTAAAA
8385405 TTAAAAATTAAA
1 TTAAAAATTAAA
8385417 TAAAAAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAAAATTAAAA
Found at i:8394211 original size:19 final size:19
Alignment explanation
Indices: 8394187--8394224 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
8394177 GTCCATTTAT
8394187 ATACCTGAA-TGTACCAAAC
1 ATACCT-AAGTGTACCAAAC
8394206 ATACCTAAGTGTACCAAAC
1 ATACCTAAGTGTACCAAAC
8394225 GTTATACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.21
Consensus pattern (19 bp):
ATACCTAAGTGTACCAAAC
Found at i:8426473 original size:22 final size:23
Alignment explanation
Indices: 8426429--8426473 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
8426419 GTATTCAAAT
* *
8426429 CTTATTCTATCAATTCTCTCAAC
1 CTTATTCTATCAATTCACGCAAC
*
8426452 CTTATTC-ATCTATTCACGCAAC
1 CTTATTCTATCAATTCACGCAAC
8426474 TATTTTATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.40
Consensus pattern (23 bp):
CTTATTCTATCAATTCACGCAAC
Found at i:8426541 original size:15 final size:16
Alignment explanation
Indices: 8426523--8426561 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
8426513 CTTCTTATCT
*
8426523 TAATTTTA-TATTTCG
1 TAATTTTATTATTTCA
*
8426538 TAATTTTATTATTTTA
1 TAATTTTATTATTTCA
8426554 TAATTTTA
1 TAATTTTA
8426562 AAAATGTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
TAATTTTATTATTTCA
Found at i:8431340 original size:27 final size:25
Alignment explanation
Indices: 8431310--8431360 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
8431300 CTTTTAATGT
8431310 TTATTATAACATATTAATATAATATAC
1 TTATTATAACAT-TT-ATATAATATAC
*
8431337 TTATTATAACATTTATATATTATA
1 TTATTATAACATTTATATAATATA
8431361 ATAATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.39
26 2 0.09
27 12 0.52
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (25 bp):
TTATTATAACATTTATATAATATAC
Found at i:8432609 original size:154 final size:152
Alignment explanation
Indices: 8432355--8432661 Score: 569
Period size: 154 Copynumber: 2.0 Consensus size: 152
8432345 ATTTACAATT
8432355 TACCAAAAAATGAATAAATTGTTTTTTTTTGTATGCTTATAAAAAATGAATAAAAGTTTTAATTA
1 TACCAAAAAATGAATAAATTGTTTTTTTTTGTATGCTTATAAAAAATGAATAAAAGTTTTAATTA
*
8432420 AGTCTTCTCCTCAATGTTGCCTCCAAGTGTGGACATGTTGGCTTATTATGTTTTGGGTTCCTACA
66 AGTCTTCTCCTCAATGTTGCCTCCAAGTGTGGACATGTTGGCTTATTATGTCTTGGGTTCCTACA
8432485 ATAACTGCATAACCTCGATTGG
131 ATAACTGCATAACCTCGATTGG
*
8432507 TACCAAAAAATGAATAAATTGTTTTATTTTTGTATGCTTATAAAAAATTGAATAAAATTTTTAAT
1 TACCAAAAAATGAATAAATTGTTTT-TTTTTGTATGCTTATAAAAAA-TGAATAAAAGTTTTAAT
8432572 TAAGTCTTCTCCTCAATGTTGCCTCCAAGTGTGGACATGTTGGCTTATTATGTCTTGGGTTCCTA
64 TAAGTCTTCTCCTCAATGTTGCCTCCAAGTGTGGACATGTTGGCTTATTATGTCTTGGGTTCCTA
*
8432637 CAATAATTGCATAACCTCGATTGG
129 CAATAACTGCATAACCTCGATTGG
8432661 T
1 T
8432662 CTATCTTCTT
Statistics
Matches: 150, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
152 25 0.17
153 21 0.14
154 104 0.69
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (152 bp):
TACCAAAAAATGAATAAATTGTTTTTTTTTGTATGCTTATAAAAAATGAATAAAAGTTTTAATTA
AGTCTTCTCCTCAATGTTGCCTCCAAGTGTGGACATGTTGGCTTATTATGTCTTGGGTTCCTACA
ATAACTGCATAACCTCGATTGG
Found at i:8436248 original size:34 final size:38
Alignment explanation
Indices: 8436180--8436248 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 38
8436170 TATAGGTAAG
* *
8436180 TTTTATTATTATTATTATTATTATTTGTTATTTTGCAC
1 TTTTATTATTAATATTATTATTATTGGTTATTTTGCAC
8436218 TTTT-TTATTAATATT-TTATT-TTGGTT-TTTTG
1 TTTTATTATTAATATTATTATTATTGGTTATTTTG
8436249 TGATATGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 5 0.17
35 5 0.17
36 5 0.17
37 10 0.34
38 4 0.14
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (38 bp):
TTTTATTATTAATATTATTATTATTGGTTATTTTGCAC
Found at i:8461406 original size:32 final size:33
Alignment explanation
Indices: 8461339--8461414 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
8461329 ATAAAAAATT
** *
8461339 AATATTTTATAGTGTTTAGATGAATTTATGTAA
1 AATATTTTATAGTGTTTAGACAAATTTATCTAA
*
8461372 AATATTTTATATTGTTT-GACAAATTT-TCTAAA
1 AATATTTTATAGTGTTTAGACAAATTTATCT-AA
8461404 AATATTTTATA
1 AATATTTTATA
8461415 AAAGTTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 2 0.05
32 20 0.53
33 16 0.42
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (33 bp):
AATATTTTATAGTGTTTAGACAAATTTATCTAA
Found at i:8468907 original size:42 final size:44
Alignment explanation
Indices: 8468834--8468926 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 44
8468824 CCTTCTTCTT
*
8468834 CAGCCAAGCCAGTGGCAACTACTGCCGCCTCTGTTCCATCTTCCC
1 CAGCCAAGCCAGTGGCAACTACTG-CGCCTCTGTTCCAACTTCCC
*
8468879 CAGCCAAGTCC-GTGGCAACTAC-G-GCCTCTGTTCCAACTTCTC
1 CAGCCAAG-CCAGTGGCAACTACTGCGCCTCTGTTCCAACTTCCC
8468921 CAGCCA
1 CAGCCA
8468927 GGACAGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
42 23 0.51
44 1 0.02
45 19 0.42
46 2 0.04
ACGTcount: A:0.19, C:0.41, G:0.18, T:0.22
Consensus pattern (44 bp):
CAGCCAAGCCAGTGGCAACTACTGCGCCTCTGTTCCAACTTCCC
Found at i:8474284 original size:20 final size:19
Alignment explanation
Indices: 8474263--8474299 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8474253 TAAAAATATA
*
8474263 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
8474281 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
8474300 AAAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:8474306 original size:19 final size:21
Alignment explanation
Indices: 8474268--8474312 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
8474258 ATATATATAA
* *
8474268 ATTTTAGAATTTTTATAAA-T
1 ATTTTAGAATTTTAAAAAATT
8474288 ATTTT-GAATTTTAAAAAATT
1 ATTTTAGAATTTTAAAAAATT
8474308 ATTTT
1 ATTTT
8474313 TGAAATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
ATTTTAGAATTTTAAAAAATT
Found at i:8474441 original size:9 final size:9
Alignment explanation
Indices: 8474425--8474455 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8474415 ATTCGATTTG
8474425 ACTCGAATA
1 ACTCGAATA
*
8474434 ATTCGAATA
1 ACTCGAATA
8474443 ACTCGAATA
1 ACTCGAATA
8474452 ACTC
1 ACTC
8474456 TATTTGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (9 bp):
ACTCGAATA
Found at i:8477574 original size:7 final size:7
Alignment explanation
Indices: 8477562--8477587 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8477552 GTTTTTATGG
8477562 GTTGCTT
1 GTTGCTT
8477569 GTTGCTT
1 GTTGCTT
8477576 GTTGCTT
1 GTTGCTT
8477583 GTTGC
1 GTTGC
8477588 AGTAAACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.31, T:0.54
Consensus pattern (7 bp):
GTTGCTT
Found at i:8480119 original size:2 final size:2
Alignment explanation
Indices: 8480112--8480165 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
8480102 ATAATAATTA
8480112 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8480154 AT AT AT AT AT AT
1 AT AT AT AT AT AT
8480166 GAGTGTGTGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8485256 original size:9 final size:9
Alignment explanation
Indices: 8485242--8485287 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
8485232 TATAGTTTGA
8485242 TATTCGAAT
1 TATTCGAAT
8485251 TATTCGAAT
1 TATTCGAAT
8485260 TATTCGAAT
1 TATTCGAAT
*
8485269 TATTCGAGT
1 TATTCGAAT
8485278 TATTCGAAT
1 TATTCGAAT
8485287 T
1 T
8485288 CGAAAACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:8485845 original size:42 final size:41
Alignment explanation
Indices: 8485799--8485926 Score: 104
Period size: 42 Copynumber: 3.1 Consensus size: 41
8485789 TTTGCTATTC
8485799 TTTTACTTTTTAAAAATTTAAATTCGATATTATTTATATTTG
1 TTTTACTTTTTAAAAATTTAAATT-GATATTATTTATATTTG
* *** * * *
8485841 TTTTATCTATTTATTTATTT--ATTTAT-TTATTTGT-TATTC
1 TTTTA-CTTTTTAAAAATTTAAATTGATATTATTTATAT-TTG
*
8485880 TTTTAC-TTTTAAAATATTTAAATTTGATATTATTTAAATTTG
1 TTTTACTTTTTAAAA-ATTTAAA-TTGATATTATTTATATTTG
8485922 TTTTA
1 TTTTA
8485927 TCTATTTATT
Statistics
Matches: 63, Mismatches: 15, Indels: 16
0.67 0.16 0.17
Matches are distributed among these distances:
37 4 0.06
38 6 0.10
39 14 0.22
40 3 0.05
41 7 0.11
42 18 0.29
43 11 0.17
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (41 bp):
TTTTACTTTTTAAAAATTTAAATTGATATTATTTATATTTG
Found at i:8485857 original size:4 final size:4
Alignment explanation
Indices: 8485842--8485872 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
8485832 TTATATTTGT
*
8485842 TTTA TCTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
8485873 GTTATTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:8485864 original size:81 final size:81
Alignment explanation
Indices: 8485773--8485941 Score: 286
Period size: 81 Copynumber: 2.1 Consensus size: 81
8485763 TATGAGTTGT
* *
8485773 TTTATCTATTTATTTATTTGCTATTCTTTTACTTTTTAAAA-ATTTAAATTCGATATTATTTATA
1 TTTATTTATTTATTTATTTGCTATTCTTTTAC-TTTTAAAATATTTAAATTCGATATTATTTAAA
8485837 TTTGTTTTATCTATTTA
65 TTTGTTTTATCTATTTA
* *
8485854 TTTATTTATTTATTTATTTGTTATTCTTTTACTTTTAAAATATTTAAATTTGATATTATTTAAAT
1 TTTATTTATTTATTTATTTGCTATTCTTTTACTTTTAAAATATTTAAATTCGATATTATTTAAAT
8485919 TTGTTTTATCTATTTA
66 TTGTTTTATCTATTTA
8485935 TTTATTT
1 TTTATTT
8485942 GTTATTCTTT
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
80 8 0.10
81 75 0.90
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (81 bp):
TTTATTTATTTATTTATTTGCTATTCTTTTACTTTTAAAATATTTAAATTCGATATTATTTAAAT
TTGTTTTATCTATTTA
Found at i:8485927 original size:69 final size:69
Alignment explanation
Indices: 8485854--8485984 Score: 226
Period size: 69 Copynumber: 1.9 Consensus size: 69
8485844 TATCTATTTA
* *
8485854 TTTATTTATTTATTTATTTGTTATTCTTTTACTTTTAAAATATTTAAATTTGATATTATTTAAAT
1 TTTATCTATTTATTTATTTGTTATTCTTTTACTTTTAAAACATTTAAATTTGATATTATTTAAAT
8485919 TTGT
66 TTGT
* *
8485923 TTTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAGTTTGATATTATTTA
1 TTTATCTATTTATTTATTTGTTATTCTTTTACTTTTAAAACATTTAAATTTGATATTATTTA
8485985 TACTTCCTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (69 bp):
TTTATCTATTTATTTATTTGTTATTCTTTTACTTTTAAAACATTTAAATTTGATATTATTTAAAT
TTGT
Found at i:8486021 original size:69 final size:69
Alignment explanation
Indices: 8485865--8486011 Score: 197
Period size: 69 Copynumber: 2.1 Consensus size: 69
8485855 TTATTTATTT
* **
8485865 ATTTATTTGTTATTCTTTTACTTTTAAAATATTTAAATTTGATATTATTTAAATTTGTTTTATCT
1 ATTTATTTGTTATTCTTTTACTTTTAAAACATTTAAATTTGATATTATTTAAATTCCTTTTATCT
**
8485930 ATTT
66 ATGC
* * *
8485934 ATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAGTTTGATATTATTTATACTTCCTTTTCAT
1 ATTTATTTGTTATTCTTTTACTTTTAAAACATTTAAATTTGATATTATTTA-AATTCCTTTT-AT
8485999 -TATGC
64 CTATGC
8486004 ATTTATTT
1 ATTTATTT
8486012 TCTTTCTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
69 48 0.71
70 18 0.26
71 2 0.03
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (69 bp):
ATTTATTTGTTATTCTTTTACTTTTAAAACATTTAAATTTGATATTATTTAAATTCCTTTTATCT
ATGC
Found at i:8487143 original size:47 final size:45
Alignment explanation
Indices: 8487091--8487203 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 45
8487081 ATTTTCACAC
8487091 CAAAATTTGGAAAGCATATATACAAAATTTGGACTGCATTTATACAT
1 CAAAATTT-GAAAGCATATATACAAAA-TTGGACTGCATTTATACAT
* * * *
8487138 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
1 CAAAATTTGAAAGCATAT--ATACAAAATTGGACTGCATTTATACAT
*
8487185 CAAAATTTGAGAGCATATA
1 CAAAATTTGAAAGCATATA
8487204 CATTCATTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
45 1 0.02
46 9 0.15
47 43 0.73
48 6 0.10
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (45 bp):
CAAAATTTGAAAGCATATATACAAAATTGGACTGCATTTATACAT
Found at i:8487153 original size:24 final size:24
Alignment explanation
Indices: 8487113--8487200 Score: 83
Period size: 24 Copynumber: 3.7 Consensus size: 24
8487103 AGCATATATA
*
8487113 CAAAATTTGGACTGCATTTATACAT
1 CAAAATTT-GACAGCATTTATACAT
8487138 CAAAATTTGACAGCA--TATACAT
1 CAAAATTTGACAGCATTTATACAT
* * *
8487160 -ATATAATTGGACTGCATTTGTACAT
1 CA-A-AATTTGACAGCATTTATACAT
*
8487185 CAAAATTTGAGAGCAT
1 CAAAATTTGACAGCAT
8487201 ATACATTCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
21 1 0.02
22 8 0.16
23 10 0.20
24 16 0.31
25 15 0.29
26 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.33
Consensus pattern (24 bp):
CAAAATTTGACAGCATTTATACAT
Found at i:8487156 original size:22 final size:22
Alignment explanation
Indices: 8487091--8487206 Score: 83
Period size: 22 Copynumber: 5.0 Consensus size: 22
8487081 ATTTTCACAC
* *
8487091 CAAAATTTGGAAAGCATATATA-
1 CAAAATTT-GACAGCATATACAT
*
8487113 CAAAATTTGGACTGCATTTATACAT
1 CAAAATTT-GACAGCA--TATACAT
8487138 CAAAATTTGACAGCATATACAT
1 CAAAATTTGACAGCATATACAT
* * *
8487160 -ATATAATTGGACTGCATTTGTACAT
1 CA-A-AATTTGACAGCA--TATACAT
*
8487185 CAAAATTTGAGAGCATATACAT
1 CAAAATTTGACAGCATATACAT
8487207 TCATTTACTC
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
21 1 0.01
22 28 0.37
23 10 0.13
24 20 0.27
25 15 0.20
26 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (22 bp):
CAAAATTTGACAGCATATACAT
Found at i:8487176 original size:23 final size:22
Alignment explanation
Indices: 8487104--8487206 Score: 66
Period size: 24 Copynumber: 4.5 Consensus size: 22
8487094 AATTTGGAAA
*
8487104 GCATATATA-CAAAATTTGGACT
1 GCATATACATCAAAA-TTGGACT
* *
8487126 GCATTTATACATCAAAATTTGACA
1 GCA--TATACATCAAAATTGGACT
8487150 GCATATACAT-ATATAATTGGACT
1 GCATATACATCA-A-AATTGGACT
* * **
8487173 GCATTTGTACATCAAAATTTGAGA
1 GCA--TATACATCAAAATTGGACT
8487197 GCATATACAT
1 GCATATACAT
8487207 TCATTTACTC
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
21 1 0.02
22 17 0.27
23 10 0.16
24 22 0.35
25 12 0.19
26 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (22 bp):
GCATATACATCAAAATTGGACT
Found at i:8487444 original size:2 final size:2
Alignment explanation
Indices: 8487437--8487464 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8487427 CCTGCACATA
8487437 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8487465 GCATTACCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8487494 original size:14 final size:15
Alignment explanation
Indices: 8487470--8487504 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
8487460 TATATGCATT
8487470 ACCATATAAATACTA
1 ACCATATAAATACTA
8487485 ACCATA-AAATACTA
1 ACCATATAAATACTA
8487499 ATCCAT
1 A-CCAT
8487505 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:8488202 original size:43 final size:43
Alignment explanation
Indices: 8488155--8488237 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
8488145 AATCACATAC
*
8488155 CGATGCC-ACTATCCCAGACAAGGTCTTACACGAAAACACAAGT
1 CGATGCCGAC-ATCCCAAACAAGGTCTTACACGAAAACACAAGT
* **
8488198 CGATGCCGACGTCCCAAACGTGGTCTTACACGAAAACACA
1 CGATGCCGACATCCCAAACAAGGTCTTACACGAAAACACA
8488238 TACCGGAGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 33 0.94
44 2 0.06
ACGTcount: A:0.35, C:0.31, G:0.18, T:0.16
Consensus pattern (43 bp):
CGATGCCGACATCCCAAACAAGGTCTTACACGAAAACACAAGT
Found at i:8490447 original size:22 final size:22
Alignment explanation
Indices: 8490395--8490436 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8490385 ACAAAAAAAA
*
8490395 TGCTATTTTCTTGTTGTTTTGC
1 TGCTATTTTCTTATTGTTTTGC
*
8490417 AGCTATTTTCTTATTGTTTT
1 TGCTATTTTCTTATTGTTTT
8490437 CTTGCTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.10, C:0.12, G:0.14, T:0.64
Consensus pattern (22 bp):
TGCTATTTTCTTATTGTTTTGC
Found at i:8496120 original size:24 final size:24
Alignment explanation
Indices: 8496083--8496130 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
8496073 GACTGTGGAC
*
8496083 ATTTTAAAATTTGGTTTTATTTTT
1 ATTTTAAAATTTGGGTTTATTTTT
8496107 ATTTATAAAA-TTGGGTTTATTTTT
1 ATTT-TAAAATTTGGGTTTATTTTT
8496131 GGTTTGCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.62
Consensus pattern (24 bp):
ATTTTAAAATTTGGGTTTATTTTT
Found at i:8496564 original size:3 final size:3
Alignment explanation
Indices: 8496556--8496580 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8496546 ATTTTTAATT
8496556 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
8496581 AAAACAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8506563 original size:17 final size:17
Alignment explanation
Indices: 8506527--8506569 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
8506517 AACAAGATCT
*
8506527 AAATATAAAAATCTCAA
1 AAATATAAAAATCACAA
*
8506544 AAATGTAAAAATCACTAA
1 AAATATAAAAATCAC-AA
*
8506562 AAACATAA
1 AAATATAA
8506570 GTAGAAAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.21
Consensus pattern (17 bp):
AAATATAAAAATCACAA
Found at i:8516083 original size:23 final size:24
Alignment explanation
Indices: 8516039--8516083 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
8516029 AAAATTTTAT
* *
8516039 ATTGATTTTACAAAATATTTGAAA
1 ATTGATTTTACAAAAAAGTTGAAA
*
8516063 ATTG-TTTTATAAAAAAGTTGA
1 ATTGATTTTACAAAAAAGTTGA
8516084 TTTCGCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.42
Consensus pattern (24 bp):
ATTGATTTTACAAAAAAGTTGAAA
Found at i:8518943 original size:24 final size:23
Alignment explanation
Indices: 8518899--8518944 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8518889 AACAAGATAA
* * *
8518899 TATAATATAAAAATTCGCTCCAT
1 TATAATAAAAAAACTCACTCCAT
8518922 TATAATAAAAAAACTCAACTCCA
1 TATAATAAAAAAACTC-ACTCCA
8518945 CCAAATTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (23 bp):
TATAATAAAAAAACTCACTCCAT
Found at i:8522972 original size:19 final size:17
Alignment explanation
Indices: 8522925--8522972 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
8522915 AATTTTTTTT
8522925 ATATTTTTTAA-TTTAA
1 ATATTTTTTAACTTTAA
*
8522941 ATAGTTTTATAACTTTTAA
1 ATA-TTTTTTAAC-TTTAA
8522960 ATTATTTTTTAAC
1 A-TATTTTTTAAC
8522973 ATGACATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 3 0.12
17 7 0.27
19 14 0.54
20 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (17 bp):
ATATTTTTTAACTTTAA
Found at i:8531898 original size:20 final size:20
Alignment explanation
Indices: 8531873--8531911 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8531863 TTTGAAGATT
8531873 ATTGATAAATACTTTATATA
1 ATTGATAAATACTTTATATA
*
8531893 ATTGATAAATATTTTATAT
1 ATTGATAAATACTTTATAT
8531912 TTAAGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (20 bp):
ATTGATAAATACTTTATATA
Found at i:8533669 original size:11 final size:11
Alignment explanation
Indices: 8533653--8533677 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8533643 CGGTGGCTGG
8533653 TGACCGTCCGA
1 TGACCGTCCGA
8533664 TGACCGTCCGA
1 TGACCGTCCGA
8533675 TGA
1 TGA
8533678 TCGGCCAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.32, G:0.28, T:0.20
Consensus pattern (11 bp):
TGACCGTCCGA
Found at i:8534773 original size:98 final size:98
Alignment explanation
Indices: 8534658--8534850 Score: 309
Period size: 98 Copynumber: 2.0 Consensus size: 98
8534648 AAAAATCATG
* *
8534658 AAGGAAATATTCCGAGTTT-GAGATTCTAAA-GGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 AAGGAAATATTCCGAGTTTCG-GATTCTAAATGG-ATCGTGCCATAACGTATTGGGTGTGATTTC
*
8534721 TTAAATCTTGGATAAGTGGATGTTCTTTTAAATTA
64 TTAAATCTTGGATAAGTGGATGCTCTTTTAAATTA
*
8534756 AAGGAAATATTCCGAGTTTCGGATTCTAAATGGATCGTGCCATAACGTATTGGGTGTGGTTTCTT
1 AAGGAAATATTCCGAGTTTCGGATTCTAAATGGATCGTGCCATAACGTATTGGGTGTGATTTCTT
*
8534821 AAATCTTGGATGAGTGGATGCTCTTTTAAA
66 AAATCTTGGATAAGTGGATGCTCTTTTAAA
8534851 ATTTTTATAT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
98 85 0.97
99 3 0.03
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTCGGATTCTAAATGGATCGTGCCATAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGCTCTTTTAAATTA
Found at i:8546500 original size:132 final size:132
Alignment explanation
Indices: 8546263--8547027 Score: 1305
Period size: 132 Copynumber: 5.8 Consensus size: 132
8546253 GTGAAACACC
*
8546263 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
*
8546328 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAAGTTGAAGATT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATT
8546393 AT
131 AT
* * * **
8546395 AGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATTGAAAACGATGAATCTTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
* * **
8546460 GTGGGAAGCAGATTTGAGCCACCAAACCTTGTCTCCCTGAGCAGCAGTAGAGAAGGTTGAAGATT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATT
*
8546525 GT
131 AT
** *
8546527 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAATCTTATCTTTCCAAGAGA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
* *
8546592 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCACTGAGCAGCAGCGGAGAAAGTTGAAGATT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATT
8546657 AT
131 AT
* *
8546659 ATATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
8546724 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATT
8546789 AT
131 AT
8546791 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
*
8546856 GTGGGAAGCAGATTTAAGCCACCAAGCATTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATT
8546921 AT
131 AT
8546923 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
* * * * *
8546988 GTGGGAAGCAGATTTGAGCCCCCAAGTCTTATCTTCCTGA
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGA
8547028 AGTTGCAGAG
Statistics
Matches: 594, Mismatches: 39, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 594 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATT
AT
Found at i:8547151 original size:46 final size:46
Alignment explanation
Indices: 8547084--8547177 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
8547074 ATGCAGTAGG
8547084 AAGGAATACTAAAACCCAGCACGACCGAGCAAAACTTGGCATTTTT
1 AAGGAATACTAAAACCCAGCACGACCGAGCAAAACTTGGCATTTTT
8547130 AAGGAATACTAAAACCCAGCACGACCGAGCAAAACTTGGCATTTTT
1 AAGGAATACTAAAACCCAGCACGACCGAGCAAAACTTGGCATTTTT
8547176 AA
1 AA
8547178 AGTCTTTGCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (46 bp):
AAGGAATACTAAAACCCAGCACGACCGAGCAAAACTTGGCATTTTT
Found at i:8549044 original size:98 final size:98
Alignment explanation
Indices: 8548934--8549126 Score: 325
Period size: 98 Copynumber: 2.0 Consensus size: 98
8548924 AAAAATCATG
*
8548934 AAGGAAATATTCCGAGTTT-GAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCT
1 AAGGAAATATTCCGAGTTTCG-GATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
*
8548998 TAAATCTTGGATAAGTGGATGTTCTTTTAAATTA
65 TAAATCTTGGATAAGTGGATGCTCTTTTAAATTA
* *
8549032 AAGGAAATATTCCGAGTTTCGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGGTTTCTT
1 AAGGAAATATTCCGAGTTTCGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
8549097 AAATCTTGGATGAGTGGATGCTCTTTTAAA
66 AAATCTTGGATAAGTGGATGCTCTTTTAAA
8549127 ATTTTTATAT
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 88 0.99
99 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTCGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGCTCTTTTAAATTA
Found at i:8552670 original size:44 final size:44
Alignment explanation
Indices: 8552607--8552700 Score: 179
Period size: 44 Copynumber: 2.1 Consensus size: 44
8552597 GTCTCGACTT
8552607 TCATTTTCATACGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATACGCTTATCAAATATAAGTATTGTATTAACCAAA
*
8552651 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATACGCTTATCAAATATAAGTATTGTATTAACCAAA
8552695 TCATTT
1 TCATTT
8552701 ATTGAATATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.41
Consensus pattern (44 bp):
TCATTTTCATACGCTTATCAAATATAAGTATTGTATTAACCAAA
Found at i:8552694 original size:22 final size:22
Alignment explanation
Indices: 8552625--8552695 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
8552615 ATACGCTTAT
8552625 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
** * *
8552647 CAAATCAT-TTTCATATG-CTT-AT
1 CAAAT-ATAAGT-AT-TGTATTAAC
8552669 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
8552691 CAAAT
1 CAAAT
8552696 CATTTATTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 6 0.17
22 19 0.54
23 6 0.17
24 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (22 bp):
CAAATATAAGTATTGTATTAAC
Found at i:8552712 original size:22 final size:21
Alignment explanation
Indices: 8552679--8552722 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
8552669 CAAATATAAG
*
8552679 TATTGTATTAACCAAA-TCATT
1 TATTGAATTAA-CAAATTCATT
8552700 TATTGAATATAACAAATTCATT
1 TATTGAAT-TAACAAATTCATT
8552722 T
1 T
8552723 TCATATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (21 bp):
TATTGAATTAACAAATTCATT
Found at i:8555391 original size:61 final size:60
Alignment explanation
Indices: 8555326--8555497 Score: 192
Period size: 61 Copynumber: 2.9 Consensus size: 60
8555316 TTGTTATTAA
* * *
8555326 ATTTTAATAAAATTATTATTAAATATAATTTAATAAAAATAATAATAAATAACTTAATCAT
1 ATTTTAATAAAATTATTATTAAATATAATTTAATAAAAAT-ATAATATATAACTTAATAAC
* * *
8555387 ATTTTAA-AACAATTATTATTAAATACAATTAAAT-AAAAT-T-ATATATAATTTAATAAC
1 ATTTTAATAA-AATTATTATTAAATATAATTTAATAAAAATATAATATATAACTTAATAAC
*
8555444 ATTCTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATCATAATATATAA
1 ATT-TTAATAAAATTATTATT-AAATAT-AATTTAATAAAAAT-ATAATATATAA
8555498 TGTTATAAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 16
0.79 0.08 0.14
Matches are distributed among these distances:
57 16 0.17
58 15 0.16
59 10 0.11
60 14 0.15
61 29 0.31
62 1 0.01
63 8 0.09
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (60 bp):
ATTTTAATAAAATTATTATTAAATATAATTTAATAAAAATATAATATATAACTTAATAAC
Found at i:8559042 original size:66 final size:66
Alignment explanation
Indices: 8558902--8559062 Score: 171
Period size: 66 Copynumber: 2.4 Consensus size: 66
8558892 GGAAATTTTT
* * * *
8558902 AAATGTAAGACCATAGCTGGGCTGTGGCATTTTAATGAAAAGACCATAACTGAGTTATGACACTT
1 AAATGTAAGACCATGGCTGGGCTATGGCATTCTAATGAAAAGACCATAACTGAGTTATGACACTA
*
8558967 T
66 C
* * * * * * * *
8558968 GAACGTAAGACCATGGCTGGGCTATGGCATTCTGATGATAATACCATAATTGGGTTATGGCACTA
1 AAATGTAAGACCATGGCTGGGCTATGGCATTCTAATGAAAAGACCATAACTGAGTTATGACACTA
8559033 C
66 C
* *
8559034 AAATGTAAGATCATGG-TAGGGCCATGGCA
1 AAATGTAAGACCATGGCT-GGGCTATGGCA
8559063 ATACATGTGT
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
65 1 0.01
66 76 0.99
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (66 bp):
AAATGTAAGACCATGGCTGGGCTATGGCATTCTAATGAAAAGACCATAACTGAGTTATGACACTA
C
Found at i:8568271 original size:21 final size:21
Alignment explanation
Indices: 8568245--8568288 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
8568235 GTTGCAGGTC
8568245 AACAAGTCCCAAATAAGGAGG
1 AACAAGTCCCAAATAAGGAGG
8568266 AACAAGTCCCAAATAAGGAGG
1 AACAAGTCCCAAATAAGGAGG
8568287 AA
1 AA
8568289 TGTGTAGCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.18, G:0.23, T:0.09
Consensus pattern (21 bp):
AACAAGTCCCAAATAAGGAGG
Found at i:8570355 original size:43 final size:43
Alignment explanation
Indices: 8570299--8570564 Score: 254
Period size: 43 Copynumber: 6.2 Consensus size: 43
8570289 TCACAAAAAC
* *
8570299 GCCGCTATAGAACATGACCTTTAACGACGCTTTTCCCACAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCCCACAAAT
* * *
8570342 GCTGCTAAAGAACATGACCTATATCGACGCTTTTCCCACAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCCCACAAAT
* * *
8570385 GCCGCTAAAGAACATGACCTTTAGCTG-TGCTTTTCTCC-TAAAC
1 GCCGCTAAAGAACATGACCTTTAGC-GACGCTTTTC-CCACAAAT
* * *
8570428 GCCGCTAAAGAACATGACCTTTAGTTG-CGCTTTT-CCTCAAAC
1 GCCGCTAAAGAACATGACCTTTAG-CGACGCTTTTCCCACAAAT
* * * * *
8570470 ACCGTTAAAGAATATTGACCTTTAGCTACGCTTTT-CCAAAAAT
1 GCCGCTAAAGAACA-TGACCTTTAGCGACGCTTTTCCCACAAAT
* * ** * * *
8570513 GCCTCTAAAGAACATGACATTTAGCGGTGTTTTTCCCAAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCCCACAAAT
8570556 GCCGCTAAA
1 GCCGCTAAA
8570565 AGTCATGTTC
Statistics
Matches: 184, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.01
42 30 0.16
43 149 0.81
44 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCCCACAAAT
Done.