Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 231 of 410
Found at i:71409316 original size:27 final size:27
Alignment explanation
Indices: 71409286--71409438 Score: 166
Period size: 27 Copynumber: 5.7 Consensus size: 27
71409276 ACAAATCAAA
*
71409286 GGTACTTTGGTAATTTTA-AAAGCCAGG
1 GGTATTTTGGTAATTTTACAAA-CCAGG
71409313 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
71409340 GGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* ** **
71409367 GGTATTCTGGTAATTTTACTGA-TTGAG
1 GGTATTTTGGTAATTTTACAAACCAG-G
** **
71409394 GGTATTTTGGTAATTTTGTAAACCAAT
1 GGTATTTTGGTAATTTTACAAACCAGG
*
71409421 GGTATTTTAGTAATTTTA
1 GGTATTTTGGTAATTTTA
71409439 TAAATCGAGG
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 100 0.96
28 3 0.03
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:71409354 original size:81 final size:81
Alignment explanation
Indices: 71409269--71409436 Score: 187
Period size: 81 Copynumber: 2.1 Consensus size: 81
71409259 AGTATTTCGA
* *
71409269 TAATTTCACAAATCAAAGGTACTT-TGGTAATTTTAAAAGCCAG-GGGTATTTTGGTAATTTTAC
1 TAATTTCACAAACCAAAGGTA-TTCTGGTAATTTT-AAAGACAGAGGGTATTTTGGTAATTTTAC
*
71409332 AAACCAGGGGTATTTTAG
64 AAACCAAGGGTATTTTAG
* ** ** ** **
71409350 TAATTTTACAAACCAGGGGTATTCTGGTAATTTTACTGATTGAGGGTATTTTGGTAATTTTGTAA
1 TAATTTCACAAACCAAAGGTATTCTGGTAATTTTAAAGACAGAGGGTATTTTGGTAATTTTACAA
*
71409415 ACCAATGGTATTTTAG
66 ACCAAGGGTATTTTAG
71409431 TAATTT
1 TAATTT
71409437 TATAAATCGA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 5 0.07
81 67 0.93
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
TAATTTCACAAACCAAAGGTATTCTGGTAATTTTAAAGACAGAGGGTATTTTGGTAATTTTACAA
ACCAAGGGTATTTTAG
Found at i:71409451 original size:27 final size:27
Alignment explanation
Indices: 71409244--71409451 Score: 163
Period size: 27 Copynumber: 7.7 Consensus size: 27
71409234 GTATTTCGAT
* * * *
71409244 ATTTTACAAATCGAGAGTATTTCGATA
1 ATTTTACAAATCCAGGGTATTTTGGTA
* * * *
71409271 ATTTCACAAATCAAAGGTACTTTGGTA
1 ATTTTACAAATCCAGGGTATTTTGGTA
*
71409298 ATTTTA-AAAGCCAGGGGTATTTTGGTA
1 ATTTTACAAATCCA-GGGTATTTTGGTA
*
71409325 ATTTTACAAA-CCAGGGGTATTTTAGTA
1 ATTTTACAAATCCA-GGGTATTTTGGTA
*
71409352 ATTTTACAAA-CCAGGGGTATTCTGGTA
1 ATTTTACAAATCCA-GGGTATTTTGGTA
** **
71409379 ATTTTACTGATTGAGGGTATTTTGGTA
1 ATTTTACAAATCCAGGGTATTTTGGTA
** * *
71409406 ATTTTGTAAA-CCAATGGTATTTTAGTA
1 ATTTTACAAATCC-AGGGTATTTTGGTA
* *
71409433 ATTTTATAAATCGAGGGTA
1 ATTTTACAAATCCAGGGTA
71409452 AAACGGTAAT
Statistics
Matches: 145, Mismatches: 31, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
26 5 0.03
27 135 0.93
28 5 0.03
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
ATTTTACAAATCCAGGGTATTTTGGTA
Found at i:71409460 original size:27 final size:27
Alignment explanation
Indices: 71409430--71409820 Score: 474
Period size: 27 Copynumber: 14.7 Consensus size: 27
71409420 TGGTATTTTA
* *
71409430 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
71409457 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
71409484 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
71409511 GTTACTCTATAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
71409538 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * * *
71409565 ATAATTCTGTAAATCAAAGATAAAACT-
1 GTAATTCTATAAATCGAGGGTAAAA-TG
*
71409592 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
71409619 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
71409646 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
**
71409673 GTAATTCTATAAATTAAGGGT-AAA--
1 GTAATTCTATAAATCGAGGGTAAAATG
*
71409697 -T--TT-TATAAATCGAGGGTAAAAAG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
71409720 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* **
71409747 GTAATTCTATAAATTGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
71409774 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
71409801 GTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
71409821 CATTTCAGTA
Statistics
Matches: 316, Mismatches: 39, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.04
21 5 0.02
23 1 0.00
24 1 0.00
26 6 0.02
27 290 0.92
28 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:71409703 original size:20 final size:20
Alignment explanation
Indices: 71409675--71409716 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
71409665 GTAAAATGGT
*
71409675 AATTCTATAAATTAAGGGTA
1 AATTCTATAAATCAAGGGTA
* *
71409695 AATTTTATAAATCGAGGGTA
1 AATTCTATAAATCAAGGGTA
71409715 AA
1 AA
71409717 AAGGTAATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (20 bp):
AATTCTATAAATCAAGGGTA
Found at i:71409709 original size:47 final size:47
Alignment explanation
Indices: 71409648--71409743 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
71409638 GTAAAACGGT
*
71409648 AATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATTAAGGGTA
1 AATTCTATAAATCGAGGGTAAAAAGGTAATTCTATAAATTAAGGGTA
* *
71409695 AATTTTATAAATCGAGGGTAAAAAGGTAATTCTATAAATTGAGGGTA
1 AATTCTATAAATCGAGGGTAAAAAGGTAATTCTATAAATTAAGGGTA
71409742 AA
1 AA
71409744 ATGGTAATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (47 bp):
AATTCTATAAATCGAGGGTAAAAAGGTAATTCTATAAATTAAGGGTA
Found at i:71409830 original size:54 final size:54
Alignment explanation
Indices: 71409703--71409840 Score: 143
Period size: 54 Copynumber: 2.6 Consensus size: 54
71409693 TAAATTTTAT
* * * * * * *
71409703 AAATCGAGGGTAAAA-AGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTAT
1 AAATTGAGGGCAAAACA-GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAC
* *
71409757 AAATTGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTAC
1 AAATTGAGGGCAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAC
*** *
71409811 AAATTGAGGGCATTTCAGTAATTTGGTAAA
1 AAATTGAGGGCAAAACAGTAATTTTGTAAA
71409841 CTAAAGTATT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 70 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (54 bp):
AAATTGAGGGCAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAC
Found at i:71412242 original size:81 final size:81
Alignment explanation
Indices: 71412117--71412335 Score: 296
Period size: 81 Copynumber: 2.7 Consensus size: 81
71412107 CAAGGGTATC
* * * *
71412117 TCAGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGCAATTCT
1 TCAGTAATTCTATCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGCAATTCT
71412182 ACCCTACAGGGGCATT
66 ACCCTACAGGGGCATT
* * * * * *
71412198 TTAGTAATTCTATCCTATAGGGGTATTTCGGTAATTCAATCCTAC-AGGGTTATTTCAGTAATTT
1 TCAGTAATTCTATCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGG-TATTTCGGCAATTC
*
71412262 TACCCTACAGGGGTATT
65 TACCCTACAGGGGCATT
* * *
71412279 TCGGTAATTCTATCCTATAGGGATATTTTGGTAATTCTACCCTACAAGGGTATTTCG
1 TCAGTAATTCTATCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCG
71412336 ATACTTACAA
Statistics
Matches: 118, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 4 0.03
81 110 0.93
82 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (81 bp):
TCAGTAATTCTATCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGCAATTCT
ACCCTACAGGGGCATT
Found at i:71412332 original size:27 final size:27
Alignment explanation
Indices: 71412092--71412335 Score: 267
Period size: 27 Copynumber: 9.0 Consensus size: 27
71412082 GGGGCAAAAT
* * *
71412092 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
71412119 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
71412146 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
71412173 GGCAATTCTACCCTACAGGGGCATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
71412200 AGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
71412227 GGTAATTCAATCCTAC-AGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* * *
71412254 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
71412281 GGTAATTCTATCCTA-TAGGGATATTTT
1 GGTAATTCTACCCTACAAGGG-TATTTC
71412308 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
71412335 G
1 G
71412336 ATACTTACAA
Statistics
Matches: 178, Mismatches: 35, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
26 6 0.03
27 165 0.93
28 7 0.04
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:71412378 original size:27 final size:27
Alignment explanation
Indices: 71412340--71412477 Score: 197
Period size: 27 Copynumber: 5.1 Consensus size: 27
71412330 ATTTCGATAC
*
71412340 TTACAAATCAGGGGTATTTTGGTAATT
1 TTACAAACCAGGGGTATTTTGGTAATT
*
71412367 TTACAAGCCAGGGGTATTTTGGTAATT
1 TTACAAACCAGGGGTATTTTGGTAATT
71412394 TTACAAACCAGGGGTA-TTTGAGTAATT
1 TTACAAACCAGGGGTATTTTG-GTAATT
71412421 TTACAAACCAGGGGTATTTTGGTAATT
1 TTACAAACCAGGGGTATTTTGGTAATT
** * * *
71412448 TTACTGATCAAGGGTATTTTAGTAATT
1 TTACAAACCAGGGGTATTTTGGTAATT
71412475 TTA
1 TTA
71412478 TAAATCGAGG
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.04
27 93 0.92
28 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
TTACAAACCAGGGGTATTTTGGTAATT
Found at i:71412488 original size:27 final size:27
Alignment explanation
Indices: 71412469--71412863 Score: 436
Period size: 27 Copynumber: 14.7 Consensus size: 27
71412459 GGGTATTTTA
**
71412469 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTTTATAAATCGAGGGTAAAATG
* * * *
71412496 GTAATCTTGTAAATTGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* * *
71412523 ATAATTTTGTAAATCAAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
*
71412550 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
*
71412577 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
71412604 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* * *
71412631 ATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
71412658 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
71412685 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* * *
71412712 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
71412739 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* * **
71412766 ATAA---TATAAATCGAGGGTTAAACA
1 GTAATTTTATAAATCGAGGGTAAAATG
* * **
71412790 ATAATTCTATAAATCGAGGGTAAAACC
1 GTAATTTTATAAATCGAGGGTAAAATG
* * * *
71412817 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
71412844 GTAATTTTACAAATTGAGGG
1 GTAATTTTATAAATCGAGGG
71412864 CATTTCAGTA
Statistics
Matches: 325, Mismatches: 40, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
24 21 0.06
27 304 0.94
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAATG
Found at i:71412499 original size:81 final size:81
Alignment explanation
Indices: 71412340--71412500 Score: 191
Period size: 81 Copynumber: 2.0 Consensus size: 81
71412330 ATTTCGATAC
* * *
71412340 TTACAAATCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACCAG
1 TTACAAACCAGGGGTATTTTGGTAATTTTACAAGCCAAGGGTATTTTAGTAATTTTACAAACCAG
****
71412405 GGGTATTTGAGTAATT
66 GGGTAAAACAGTAATT
* * * *
71412421 TTACAAACCAGGGGTATTTTGGTAATTTTAC-TGATCAAGGGTATTTTAGTAATTTTATAAATC-
1 TTACAAACCAGGGGTATTTTGGTAATTTTACAAG-CCAAGGGTATTTTAGTAATTTTACAAACCA
71412484 GAGGGTAAAACAGTAAT
65 G-GGGTAAAACAGTAAT
71412501 CTTGTAAATT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.03
81 65 0.97
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (81 bp):
TTACAAACCAGGGGTATTTTGGTAATTTTACAAGCCAAGGGTATTTTAGTAATTTTACAAACCAG
GGGTAAAACAGTAATT
Found at i:71412863 original size:54 final size:54
Alignment explanation
Indices: 71412470--71412863 Score: 481
Period size: 54 Copynumber: 7.4 Consensus size: 54
71412460 GGTATTTTAG
* * * *
71412470 TAATTTTATAAATCGAGGGTAAAACAGTAA-TCTTGTAAATTGAGGGTAAAACGA
1 TAATTCTATAAATCGAGGGTAAAACGGTAATTC-TATAAATCGAGGGTAAAACGA
* * * * * *
71412524 TAATTTTGTAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA
* * *
71412578 TAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGA
1 TAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA
* * *
71412632 TAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGG
1 TAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA
* * *
71412686 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA
* * * *
71412740 TAATTCTATAAATCGAGGGTAAAATGATAA---TATAAATCGAGGGTTAAACAA
1 TAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA
* * * *
71412791 TAATTCTATAAATCGAGGGTAAAACCGTAATTCTGTAAATCAAGGGTAAAACGG
1 TAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA
* * *
71412845 TAATTTTACAAATTGAGGG
1 TAATTCTATAAATCGAGGG
71412864 CATTTCAGTA
Statistics
Matches: 297, Mismatches: 39, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
51 45 0.15
54 250 0.84
55 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (54 bp):
TAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA
Found at i:71424392 original size:68 final size:68
Alignment explanation
Indices: 71424247--71424400 Score: 169
Period size: 68 Copynumber: 2.3 Consensus size: 68
71424237 TCACCTGGAG
* *
71424247 CCACGCATGCGA-CTAGCTACAT-AT-A--TCTTGTAGCTCTCTTGTCTACATGGTGTACACATA
1 CCACACATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTCTACATGATGTACACATA
*
71424307 GTA
66 GCA
* * *
71424310 TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACATGATGTGCAC-T
1 CCACACATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGT-CTACATGATGTACACAT
71424373 CAGCA
65 -AGCA
* *
71424378 CCATACATGTGACCTAGCTACAT
1 CCACACATGCGACCTAGCTACAT
71424401 ACTATCTGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
63 10 0.13
64 10 0.13
65 2 0.03
66 1 0.01
67 1 0.01
68 50 0.67
69 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (68 bp):
CCACACATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTCTACATGATGTACACATA
GCA
Found at i:71428091 original size:27 final size:28
Alignment explanation
Indices: 71428035--71428104 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
71428025 AAACTTGTAC
*
71428035 AGCACTAAGTGTGCAAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
71428063 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
71428090 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
71428105 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:71428115 original size:27 final size:27
Alignment explanation
Indices: 71428059--71428116 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
71428049 AAGTTTGATC
* * *
71428059 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
71428086 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
71428113 ATAT
1 ATAT
71428117 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:71432946 original size:43 final size:43
Alignment explanation
Indices: 71432826--71432984 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
71432816 AGCTCGTACA
* * *
71432826 ATGCTAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATA-CG
* * * *
71432869 ATGCCACTGTTCCAGACAGGGTCTTACATG-AAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATACG
71432911 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAGAAGT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA-AA-TACG
* ** **
71432955 ATGCCGACATCCCAGATGTGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
71432985 AAAACACATA
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 28 0.29
43 40 0.41
44 29 0.30
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATACG
Found at i:71448454 original size:28 final size:29
Alignment explanation
Indices: 71448422--71448520 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
71448412 ATAATAAGCC
*
71448422 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
71448450 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
71448478 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
71448507 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71448521 CAATTCATGA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:71450553 original size:12 final size:14
Alignment explanation
Indices: 71450538--71450570 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
71450528 AGTGATAGGT
71450538 GGAGGATATCA-A-
1 GGAGGATATCATAG
71450550 GGAGGATATCATAG
1 GGAGGATATCATAG
71450564 GGAGGAT
1 GGAGGAT
71450571 TGGAGAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.36, C:0.06, G:0.39, T:0.18
Consensus pattern (14 bp):
GGAGGATATCATAG
Found at i:71454165 original size:80 final size:80
Alignment explanation
Indices: 71454081--71454267 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
71454071 CGATTTGCAC
* * * *
71454081 AAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCGTACGAA-TGCCTTCGGGTCTTAGCCCG
1 AAATGCCTTCGGGACTTAGCCCGGATAGAA-GCACTAGCAC-AATTGCCTTCGGGTCTTAACCCG
*
71454144 GATATAATTACTAGCAT
64 GATATAATTACCAGCAT
*
71454161 AAATGTCC-TCGGGACTTAGCCCGGAT-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 AAATG-CCTTCGGGACTTAGCCCGGATAGAAG-CACTAGCACAATTGCCTTCGGGTCTTAACCCG
*
71454224 GATATAATTTCCAGCAT
64 GATATAATTACCAGCAT
* * *
71454241 TAACGTCTTCGGGACTTAGCCCGGATA
1 AAATGCCTTCGGGACTTAGCCCGGATA
71454268 TCATTCAAGT
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 83 0.91
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (80 bp):
AAATGCCTTCGGGACTTAGCCCGGATAGAAGCACTAGCACAATTGCCTTCGGGTCTTAACCCGGA
TATAATTACCAGCAT
Found at i:71454173 original size:40 final size:40
Alignment explanation
Indices: 71454077--71454268 Score: 188
Period size: 40 Copynumber: 4.8 Consensus size: 40
71454067 ATCACGATTT
* * *
71454077 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
* *
71454117 GTACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
* * * ***
71454157 GCATAAATGTCC-TCGGGACTTAGCCCGGATGTAGCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATATAATTACTA
* * * *
71454197 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
** * * *
71454237 GCATTAACGTCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
71454269 CATTCAAGTT
Statistics
Matches: 120, Mismatches: 30, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 2 0.02
40 116 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
Found at i:71464463 original size:47 final size:47
Alignment explanation
Indices: 71464404--71464525 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
71464394 GAATTAGCAC
71464404 TAAGACAAGGATACCATGTAAGACCATGTTTAGAACATGCCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTAGAACATGCCATTTGG
* *
71464451 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTAGAACATGCCATTTGG
* *
71464498 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
71464526 CTAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTAGAACATGCCATTTGG
Found at i:71464568 original size:54 final size:56
Alignment explanation
Indices: 71464504--71464700 Score: 178
Period size: 55 Copynumber: 3.6 Consensus size: 56
71464494 TTGGTAAGAT
*
71464504 AAGGATATCATGTAAGACCATGCTAAGGCATGGCATTGA-GAAG-TCCTATAAGGC-
1 AAGGATATCATGTAAGACCATGCTAAGGCATGGCATTGATG-AGTTACTATAAGGCA
* * *
71464558 AAGGAAATCATGTAAGACCATG-TCAAGGGACGGCATTGATGAGTTACTATAAGGCA
1 AAGGATATCATGTAAGACCATGCT-AAGGCATGGCATTGATGAGTTACTATAAGGCA
** * * * *
71464614 AAGG-TCCCATGTAAGACCATGCCAAGGTATGGCATTGGTGAGTT-C-ATAAGAC-
1 AAGGATATCATGTAAGACCATGCTAAGGCATGGCATTGATGAGTTACTATAAGGCA
* ** *
71464666 AAGGATACCACATAAGACCATG-TCAAGACATGGCA
1 AAGGATATCATGTAAGACCATGCT-AAGGCATGGCA
71464701 ATAGTAAGTT
Statistics
Matches: 118, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
52 4 0.03
53 30 0.25
54 37 0.31
55 43 0.36
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (56 bp):
AAGGATATCATGTAAGACCATGCTAAGGCATGGCATTGATGAGTTACTATAAGGCA
Found at i:71464699 original size:53 final size:55
Alignment explanation
Indices: 71464570--71464700 Score: 142
Period size: 53 Copynumber: 2.4 Consensus size: 55
71464560 GGAAATCATG
* * * * **
71464570 TAAGACCATGTCAAGGGACGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATG
1 TAAGACCATGTCAAGGCATGGCATTGATGAGTTACTATAAGACAAAGGTACCACA
* * *
71464625 TAAGACCATGCCAAGGTATGGCATTGGTGAGTT-C-ATAAGAC-AAGGATACCACA
1 TAAGACCATGTCAAGGCATGGCATTGATGAGTTACTATAAGACAAAGG-TACCACA
*
71464678 TAAGACCATGTCAAGACATGGCA
1 TAAGACCATGTCAAGGCATGGCA
71464701 ATAGTAAGTT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.06
53 30 0.47
54 1 0.02
55 29 0.45
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (55 bp):
TAAGACCATGTCAAGGCATGGCATTGATGAGTTACTATAAGACAAAGGTACCACA
Found at i:71470695 original size:47 final size:47
Alignment explanation
Indices: 71470638--71470759 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
71470628 GCATTAGCAC
71470638 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
71470685 TAAGACAAGGATACGATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *
71470732 TAAGATAAGGGTATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
71470760 CCAAGGCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:71470879 original size:55 final size:53
Alignment explanation
Indices: 71470744--71470934 Score: 190
Period size: 55 Copynumber: 3.5 Consensus size: 53
71470734 AGATAAGGGT
* *
71470744 ATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAA
1 ATCATGTAAGACCATGACAAGGCATGGCATTGATGAGTTCTATAAGGCAA-GAA
* * *
71470798 ATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAA-AT
1 ATCATGTAAGACCATGACAAGGCATGGCATTGATGAGTT-CTATAAGGCAAGAA
* * * * *
71470851 GTCCCATGTAAGACCAAGACAAGGCATGGCATTGGTGAGTTC-ATAAAGCAAG-G
1 AT--CATGTAAGACCATGACAAGGCATGGCATTGATGAGTTCTATAAGGCAAGAA
* * *
71470904 ATACTACGTAAGACCATGTCAAGACATGGCA
1 AT-C-ATGTAAGACCATGACAAGGCATGGCA
71470935 ATGTTAAGTT
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
52 1 0.01
53 33 0.29
54 37 0.32
55 44 0.38
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
ATCATGTAAGACCATGACAAGGCATGGCATTGATGAGTTCTATAAGGCAAGAA
Found at i:71472703 original size:7 final size:7
Alignment explanation
Indices: 71472688--71472731 Score: 79
Period size: 7 Copynumber: 6.3 Consensus size: 7
71472678 AAAATGACTG
71472688 TAAACCC
1 TAAACCC
*
71472695 TAAATCC
1 TAAACCC
71472702 TAAACCC
1 TAAACCC
71472709 TAAACCC
1 TAAACCC
71472716 TAAACCC
1 TAAACCC
71472723 TAAACCC
1 TAAACCC
71472730 TA
1 TA
71472732 GGCCCCTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:71472768 original size:27 final size:27
Alignment explanation
Indices: 71472733--71473050 Score: 339
Period size: 27 Copynumber: 11.8 Consensus size: 27
71472723 TAAACCCTAG
* * * *
71472733 GCCCCTATACGGTAAAATAACCTTAGT
1 GCCCCTATAAGGTAAAATGACCGTAAT
*
71472760 GCCCCTATAGGGTAAAATGACCGTAAT
1 GCCCCTATAAGGTAAAATGACCGTAAT
* *
71472787 GCCTCTATAGGGTAAAATGACCGTAAT
1 GCCCCTATAAGGTAAAATGACCGTAAT
** *
71472814 GCTTCTATAGGGTAAAATGACCGTAAT
1 GCCCCTATAAGGTAAAATGACCGTAAT
*
71472841 GCCCTTATAAGGTAAAATGACCGTAAT
1 GCCCCTATAAGGTAAAATGACCGTAAT
* * * *
71472868 GTCCTTGTAAGGTAAAATGACCATAAT
1 GCCCCTATAAGGTAAAATGACCGTAAT
*
71472895 GCCCCTGTAAGGTAAAATGACCGTAAT
1 GCCCCTATAAGGTAAAATGACCGTAAT
* * * *
71472922 GCTCCTAGAGGGTAAAATGACCATAAT
1 GCCCCTATAAGGTAAAATGACCGTAAT
* * **
71472949 GCCCTTGTAAGGTAAAATGATTGTAAT
1 GCCCCTATAAGGTAAAATGACCGTAAT
* * *
71472976 GCCCTTGTAGGGTAAAATGACCGTAAT
1 GCCCCTATAAGGTAAAATGACCGTAAT
* * *
71473003 GCCCCTGTAGGGTAAAATGATCGTAAT
1 GCCCCTATAAGGTAAAATGACCGTAAT
* * *
71473030 ACCCCTGTATGGTAAAATGAC
1 GCCCCTATAAGGTAAAATGAC
71473051 GATTATGCCT
Statistics
Matches: 254, Mismatches: 37, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 254 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
GCCCCTATAAGGTAAAATGACCGTAAT
Found at i:71473059 original size:81 final size:81
Alignment explanation
Indices: 71472743--71473050 Score: 375
Period size: 81 Copynumber: 3.8 Consensus size: 81
71472733 GCCCCTATAC
* * * * * *
71472743 GGTAAAATAACCTTAGTGCCCCTATAGGGTAAAATGACCGTAATGCCTCTATAGGGTAAAATGAC
1 GGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGAC
* *
71472808 CGTAATG-CTTCTATAG
66 CGTAATGCCCT-TGTAG
* * * *
71472824 GGTAAAATGACCGTAATGCCCTTATAAGGTAAAATGACCGTAATGTCCTTGTAAGGTAAAATGAC
1 GGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGAC
* * *
71472889 CATAATGCCCCTGTAA
66 CGTAATGCCCTTGTAG
* * * * *
71472905 GGTAAAATGACCGTAATGCTCCTAGAGGGTAAAATGACCATAATGCCCTTGTAAGGTAAAATGAT
1 GGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGAC
*
71472970 TGTAATGCCCTTGTAG
66 CGTAATGCCCTTGTAG
* * * *
71472986 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATACCCCTGTATGGTAAAATGAC
1 GGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGAC
71473051 GATTATGCCT
Statistics
Matches: 191, Mismatches: 35, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
81 190 0.99
82 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (81 bp):
GGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGAC
CGTAATGCCCTTGTAG
Found at i:71473235 original size:27 final size:25
Alignment explanation
Indices: 71473186--71473268 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 25
71473176 TAGAGGAAGA
* * *
71473186 ACTGTACTGGTGACTGTGTCACATT
1 ACTGTACTGGTGGCTATGCCACATT
71473211 CACTGTTACTGGTGGCTATGCCACAATT
1 -ACTG-TACTGGTGGCTATGCCAC-ATT
* *
71473239 ACTAATACTGGTGGCTTTGCCACACTT
1 ACT-GTACTGGTGGCTATGCCACA-TT
71473266 ACT
1 ACT
71473269 ATTCTGGCAG
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
26 5 0.10
27 40 0.83
28 3 0.06
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (25 bp):
ACTGTACTGGTGGCTATGCCACATT
Found at i:71473269 original size:27 final size:27
Alignment explanation
Indices: 71473217--71473269 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
71473207 CATTCACTGT
71473217 TACTGGTGGCTATGCCACAATTACTAA
1 TACTGGTGGCTATGCCACAATTACTAA
* *
71473244 TACTGGTGGCTTTGCCACACTTACTA
1 TACTGGTGGCTATGCCACAATTACTA
71473270 TTCTGGCAGC
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:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACAATTACTAA
Found at i:71481125 original size:21 final size:21
Alignment explanation
Indices: 71481084--71481125 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
71481074 TATTTAATCC
*
71481084 AAATTAAATTAAATTGGATTA
1 AAATTAAATTAAATTAGATTA
*
71481105 AAATTAAAATT-AATTATATTA
1 AAATT-AAATTAAATTAGATTA
71481126 TGAATTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
AAATTAAATTAAATTAGATTA
Found at i:71481302 original size:22 final size:21
Alignment explanation
Indices: 71481260--71481302 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
71481250 ATATTTGTCG
**
71481260 AAAATAATAAAAATTTGATAT
1 AAAATAATAAAAATTCAATAT
*
71481281 AAAATTAATTAAAATTCAATAT
1 AAAA-TAATAAAAATTCAATAT
71481303 GTTCATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAATAATAAAAATTCAATAT
Found at i:71482872 original size:18 final size:18
Alignment explanation
Indices: 71482851--71482887 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
71482841 CTAAGGGATA
71482851 AAATAAAATAAAGTAGAG
1 AAATAAAATAAAGTAGAG
71482869 AAATAAAATAAAGTAGAG
1 AAATAAAATAAAGTAGAG
71482887 A
1 A
71482888 CAAGATCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (18 bp):
AAATAAAATAAAGTAGAG
Found at i:71489797 original size:27 final size:28
Alignment explanation
Indices: 71489741--71489810 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
71489731 AAAATTGTAC
*
71489741 AGCACTAAGTGTGTGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
71489769 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
71489796 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
71489811 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:71489821 original size:27 final size:27
Alignment explanation
Indices: 71489765--71489822 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
71489755 GAGTTTGATC
* * *
71489765 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
71489792 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
71489819 ATAT
1 ATAT
71489823 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:71501922 original size:40 final size:40
Alignment explanation
Indices: 71501851--71501941 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
71501841 TATGTTTGGT
* * *
71501851 ACTAAGTGTGCGATTTAAAATTGCTTTGGCTATAAGTA-GC
1 ACTAAGTGTGCGAATTAAAATAGCTTCGGCTATAAG-AGGC
** *
71501891 ACTAAGTGTGCGAATTGGAATAGCTTCGGCTATATGAGGC
1 ACTAAGTGTGCGAATTAAAATAGCTTCGGCTATAAGAGGC
71501931 ACTAAGTGTGC
1 ACTAAGTGTGC
71501942 ACTACCGAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (40 bp):
ACTAAGTGTGCGAATTAAAATAGCTTCGGCTATAAGAGGC
Found at i:71519588 original size:40 final size:41
Alignment explanation
Indices: 71519503--71519590 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 41
71519493 GACTATGTTC
* * **
71519503 GGCACTAAGTGTGCGATTTAAAATAGCTTTGGCTATAAGTA
1 GGCACTAAGTGTACGAATTAAAATAGCTTCAGCTATAAGTA
** *
71519544 -GCACTAAGTGTACGAATTGGAATAGCTTCAGCTATATG-A
1 GGCACTAAGTGTACGAATTAAAATAGCTTCAGCTATAAGTA
71519583 GGCACTAA
1 GGCACTAA
71519591 CTGTGCGATA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.03
40 38 0.97
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (41 bp):
GGCACTAAGTGTACGAATTAAAATAGCTTCAGCTATAAGTA
Found at i:71528329 original size:20 final size:21
Alignment explanation
Indices: 71528304--71528355 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
71528294 AATATTTCAT
*
71528304 AATAATTATTATATCATTT-A
1 AATAATTATTATAACATTTGA
*
71528324 AATAA-TATTAAAACATTTGA
1 AATAATTATTATAACATTTGA
*
71528344 AATAATAATTAT
1 AATAATTATTAT
71528356 GTTACCAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 11 0.42
20 11 0.42
21 4 0.15
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (21 bp):
AATAATTATTATAACATTTGA
Found at i:71530571 original size:13 final size:13
Alignment explanation
Indices: 71530553--71530577 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71530543 AAGGGGCACA
71530553 TGGCCATGTGTCC
1 TGGCCATGTGTCC
71530566 TGGCCATGTGTC
1 TGGCCATGTGTC
71530578 ACACAGGGAG
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:0.08, C:0.28, G:0.32, T:0.32
Consensus pattern (13 bp):
TGGCCATGTGTCC
Found at i:71536054 original size:39 final size:39
Alignment explanation
Indices: 71536000--71536113 Score: 156
Period size: 39 Copynumber: 2.9 Consensus size: 39
71535990 ATTTGATGTG
71536000 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
71536039 TATCCGGACTTAGGGTCCCCAGGCTATATACTAGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
71536078 TATCCGGAATTAAGGTCCGCAAGCTACGTGCTGGAA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
71536114 ATATTTTTGG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:71538433 original size:21 final size:20
Alignment explanation
Indices: 71538409--71538447 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
71538399 CTGTGTCGAT
71538409 TTCGTACTTTGGCCCATTTTC
1 TTCGT-CTTTGGCCCATTTTC
*
71538430 TTCGTTTTTGGCCCATTT
1 TTCGTCTTTGGCCCATTT
71538448 CTCGTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.08, C:0.26, G:0.15, T:0.51
Consensus pattern (20 bp):
TTCGTCTTTGGCCCATTTTC
Found at i:71541846 original size:27 final size:28
Alignment explanation
Indices: 71541816--71541915 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
71541806 TTTAGTTTAC
71541816 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
71541843 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
71541870 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
71541897 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
71541916 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:71541915 original size:54 final size:54
Alignment explanation
Indices: 71541816--71541922 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
71541806 TTTAGTTTAC
* * *
71541816 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
71541870 TAAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
71541923 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:71541933 original size:54 final size:53
Alignment explanation
Indices: 71541818--71541934 Score: 121
Period size: 54 Copynumber: 2.2 Consensus size: 53
71541808 TAGTTTACTA
* * * **
71541818 AAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTGT
1 AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTAC
* *
71541871 AAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTTAC
1 AAA-TTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTTAC
71541925 AGAATTACCG
1 A-AATTACCG
71541935 TTTTACCCCT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
53 11 0.21
54 40 0.75
55 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (53 bp):
AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTAC
Found at i:71541941 original size:27 final size:27
Alignment explanation
Indices: 71541911--71542121 Score: 228
Period size: 27 Copynumber: 7.8 Consensus size: 27
71541901 ATTACCAAAG
*
71541911 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
71541938 TACCC-CTAATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
71541965 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
71541992 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
71542019 TACCCTCGATTTACTGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
71542046 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
71542073 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
71542100 TACCCTCGATTTGCAAAATTAC
1 TACCCTCGATTTACAGAATTAC
71542122 TAAAATACCC
Statistics
Matches: 163, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 161 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:71542121 original size:81 final size:81
Alignment explanation
Indices: 71541911--71542123 Score: 252
Period size: 81 Copynumber: 2.6 Consensus size: 81
71541901 ATTACCAAAG
* * * *
71541911 TACCCCCGATTTACAGAATTACCGTTTTACCC-CTAATTTACATAATTA-TCGTTTTACCCCTGA
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTC-GATTTACAAAATTACT-ATTTTACCCCTGA
* *
71541974 TTTACATAATTATCGTTT
64 TTTACAGAATTATCATTT
* ** *
71541992 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACTGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCCTGATT
*
71542057 TATAGAATTA-CTATTT
66 TACAGAATTATC-ATTT
* * *
71542073 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTGCAAAATTACTA
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTA
71542124 AAATACCCCT
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 110 0.97
82 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCCTGATT
TACAGAATTATCATTT
Found at i:71542147 original size:81 final size:81
Alignment explanation
Indices: 71541989--71542148 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
71541979 ATAATTATCG
** *** *
71541989 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACTGAATTACTATTTTACCCTTG
1 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTAG
*
71542054 ATTTATAGAATTACTA
66 ATTTATAAAATTACTA
* * * *
71542070 TTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTGCAAAATTACTAAAATACCCCTA
1 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATA-CCCTA
*
71542135 G-TTTGTAAAATTAC
65 GATTTATAAAATTAC
71542149 CAAAATACCC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 61 0.92
82 5 0.08
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (81 bp):
TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTAG
ATTTATAAAATTACTA
Found at i:71542275 original size:81 final size:81
Alignment explanation
Indices: 71542100--71542293 Score: 207
Period size: 81 Copynumber: 2.4 Consensus size: 81
71542090 ATTACTGTTT
* * * *
71542100 TACCCTCGATTTGCAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTT
1 TACCCTCGATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACCATTGGTT
***
71542165 TGTGAAATTACCTAAA
66 TACAAAATTACCTAAA
*
71542181 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CAGAAATACCATTG
1 TACCCTCGATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACCA-AAATACCATTG
71542243 GTTTACAAAATTA-CTAAAA
63 GTTTACAAAATTACCT-AAA
* * * * *
71542262 TACCCTTGGTTTGTAGATTTACCAAAACACCC
1 TACCCTCGATTTGTAAAATTACCAAAATACCC
71542294 TTGTAGGATG
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
79 2 0.02
80 10 0.11
81 83 0.87
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (81 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACCATTGGTT
TACAAAATTACCTAAA
Found at i:71542283 original size:27 final size:27
Alignment explanation
Indices: 71542100--71542296 Score: 171
Period size: 27 Copynumber: 7.3 Consensus size: 27
71542090 ATTACTGTTT
* * * *
71542100 TACCCTCGATTTGCAAAATTACTAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* *
71542127 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* *
71542154 TACCCTTGGTTTGTGAAATTACCTAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
***
71542181 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * ** *
71542208 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGGTTTGTAAAATTACCA-AAA
* ** *
71542235 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* *
71542262 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
*
71542289 CACCCTTG
1 TACCCTTG
71542297 TAGGATGAAA
Statistics
Matches: 135, Mismatches: 33, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
26 2 0.01
27 132 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTGTAAAATTACCAAAA
Found at i:71542357 original size:27 final size:27
Alignment explanation
Indices: 71542327--71542418 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
71542317 ACCCCTATTA
*
71542327 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
71542354 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
71542381 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
71542408 GGTAAAATGAC
1 GGTAAAATGAC
71542419 GAATATGCCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:71543673 original size:9 final size:9
Alignment explanation
Indices: 71543661--71543737 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
71543651 TTTGATAAAC
71543661 ATGATATGT
1 ATGATATGT
*
71543670 ATGATATGCAC
1 ATGATATG--T
71543681 ATGATATGT
1 ATGATATGT
*
71543690 ATGATATGCAC
1 ATGATATG--T
*
71543701 ATGACATGT
1 ATGATATGT
*
71543710 ATGATATGCAC
1 ATGATATG--T
71543721 ATGATATGT
1 ATGATATGT
71543730 ATGATATG
1 ATGATATG
71543738 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:71543686 original size:11 final size:11
Alignment explanation
Indices: 71543670--71543741 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
71543660 CATGATATGT
71543670 ATGATATGCAC
1 ATGATATGCAC
*
71543681 ATGATATG--T
1 ATGATATGCAC
71543690 ATGATATGCAC
1 ATGATATGCAC
* *
71543701 ATGACATG--T
1 ATGATATGCAC
71543710 ATGATATGCAC
1 ATGATATGCAC
*
71543721 ATGATATG--T
1 ATGATATGCAC
71543730 ATGATATGCAC
1 ATGATATGCAC
71543741 A
1 A
71543742 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:71543749 original size:20 final size:20
Alignment explanation
Indices: 71543659--71543741 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
71543649 ATTTTGATAA
71543659 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71543679 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
71543699 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
71543719 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71543739 ACA
1 ACA
71543742 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:71543852 original size:24 final size:24
Alignment explanation
Indices: 71543796--71543985 Score: 260
Period size: 24 Copynumber: 8.0 Consensus size: 24
71543786 GAGGAAGTGA
*
71543796 AAAAGGGCTTATGCCCTAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
71543819 TAAAGGGCTTATGCCACAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
71543843 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
71543867 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
71543891 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
71543914 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
71543938 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
71543962 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
71543986 ATGATAAAGC
Statistics
Matches: 150, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
23 41 0.27
24 98 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:71543865 original size:47 final size:47
Alignment explanation
Indices: 71543796--71543964 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
71543786 GAGGAAGTGA
* *
71543796 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCACAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
71543843 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* *
71543891 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
71543938 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
71543965 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
47 69 0.61
48 44 0.39
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:71543919 original size:71 final size:71
Alignment explanation
Indices: 71543795--71543985 Score: 260
Period size: 71 Copynumber: 2.7 Consensus size: 71
71543785 GGAGGAAGTG
* * * *
71543795 AAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCACAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
71543860 AGTTAT
66 AGTTAT
* *
71543866 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
71543930 CAGTTAT
65 CAGTTAT
* *
71543937 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
71543986 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
71 75 0.70
72 32 0.30
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:71544212 original size:31 final size:31
Alignment explanation
Indices: 71544177--71544240 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
71544167 CGTTTACAGT
71544177 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
71544208 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
71544239 AA
1 AA
71544241 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:71545937 original size:19 final size:20
Alignment explanation
Indices: 71545903--71545945 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
71545893 TGTGATTATC
71545903 AATATAGAAATAATATGAAA
1 AATATAGAAATAATATGAAA
* *
71545923 AATATAG-ATTAATATGATA
1 AATATAGAAATAATATGAAA
71545942 AATA
1 AATA
71545946 GCATTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (20 bp):
AATATAGAAATAATATGAAA
Found at i:71550623 original size:20 final size:20
Alignment explanation
Indices: 71550581--71550623 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
71550571 GATTTCGTAC
* *
71550581 TTTGGCCCATTTTCTCCTTT
1 TTTGGCCCAGTTTCTCATTT
71550601 TTTGGCCC-GTTTCTCATTCT
1 TTTGGCCCAGTTTCTCATT-T
71550621 TTT
1 TTT
71550624 CACTCACGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.05, C:0.28, G:0.12, T:0.56
Consensus pattern (20 bp):
TTTGGCCCAGTTTCTCATTT
Found at i:71551389 original size:42 final size:41
Alignment explanation
Indices: 71551262--71551389 Score: 116
Period size: 42 Copynumber: 3.0 Consensus size: 41
71551252 CTCATAGCCC
*
71551262 CATAC-AATGCCATATCCCAGATATGGTCTTACATTGGATCT
1 CATACTAATGCCATATCCCAGATATGGTCTTACACT-GATCT
* ** **
71551303 CATACTAATGCCAATAGCCCAGCCATGGTCTTACACAAAGTCT
1 CATACTAATGCC-ATATCCCAGATATGGTCTTACACTGA-TCT
** *
71551346 CATA-TCGGTGCCATTTCCCAGATATGGTCTTACACGTGATCT
1 CATACT-AATGCCATATCCCAGATATGGTCTTACAC-TGATCT
71551388 CA
1 CA
71551390 AATAACCCGA
Statistics
Matches: 68, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
41 5 0.07
42 32 0.47
43 31 0.46
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (41 bp):
CATACTAATGCCATATCCCAGATATGGTCTTACACTGATCT
Found at i:71557197 original size:5 final size:5
Alignment explanation
Indices: 71557187--71557211 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
71557177 TATGGTATAT
71557187 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
71557212 TACAAGTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:71559360 original size:24 final size:24
Alignment explanation
Indices: 71559314--71559392 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
71559304 GTATTCTCAT
* * *
71559314 ACGAGCTCTAAATTGGTATGCTCTC
1 ACGAGCTGT-AATTAGTAAGCTCTC
71559339 ACGAGCTGTAATTAGTAAGCTCAT-
1 ACGAGCTGTAATTAGTAAGCTC-TC
* *
71559363 ACGAGCTGAGAATTAGTAAGATCTC
1 ACGAGCTG-TAATTAGTAAGCTCTC
71559388 ACGAG
1 ACGAG
71559393 ATGAAATCGG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
24 20 0.43
25 26 0.57
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (24 bp):
ACGAGCTGTAATTAGTAAGCTCTC
Found at i:71559382 original size:25 final size:24
Alignment explanation
Indices: 71559309--71559399 Score: 78
Period size: 25 Copynumber: 3.7 Consensus size: 24
71559299 TACATGTATT
* * *
71559309 CTCATACGAGCTCTAAATTGGTATG
1 CTCATACGAGCT-GAAATTAGTAAG
*
71559334 CTC-TCACGAGCTGTAATTAGTAAG
1 CTCAT-ACGAGCTGAAATTAGTAAG
71559358 CTCATACGAGCTGAGAATTAGTAAG
1 CTCATACGAGCTGA-AATTAGTAAG
* *
71559383 ATC-TCACGAGATGAAAT
1 CTCAT-ACGAGCTGAAAT
71559400 CGGTAACCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
24 24 0.44
25 31 0.56
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (24 bp):
CTCATACGAGCTGAAATTAGTAAG
Found at i:71564279 original size:29 final size:29
Alignment explanation
Indices: 71564246--71564328 Score: 148
Period size: 29 Copynumber: 2.9 Consensus size: 29
71564236 GTGACGAGAT
*
71564246 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
71564275 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
71564304 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
71564329 AAATACGGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:71564348 original size:30 final size:29
Alignment explanation
Indices: 71564247--71564340 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
71564237 TGACGAGATT
** * *
71564247 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCAAGCTGGAAAAATAC
* * *
71564276 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCAAGCTGGAAAAATAC
71564305 GGCACTAAGTGTGCAAGCTGGAAAAAATAC
1 GGCACTAAGTGTGCAAGCTGG-AAAAATAC
71564335 GGCACT
1 GGCACT
71564341 GGGTGTGCGA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 48 0.80
30 12 0.20
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCAAGCTGGAAAAATAC
Found at i:71566105 original size:40 final size:40
Alignment explanation
Indices: 71566050--71566267 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
71566040 CGGATGATAA
* * *
71566050 CCGGGCTAAGTCCCGAAGACATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
71566090 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71566130 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
71566170 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
71566210 CCGGGCTAAGTCCCGAAAGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
71566250 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
71566268 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 144 0.89
41 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:71573980 original size:17 final size:18
Alignment explanation
Indices: 71573938--71573986 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
71573928 AGTTGAAAAG
71573938 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
71573957 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
71573974 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
71573987 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:71574874 original size:40 final size:40
Alignment explanation
Indices: 71574808--71574974 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
71574798 AAATTGAATG
* * *
71574808 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
71574847 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
71574887 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
71574927 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
71574967 ATATCCGG
1 ATATCCGG
71574975 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:71581986 original size:17 final size:18
Alignment explanation
Indices: 71581944--71581992 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
71581934 AGTTGAAAAG
71581944 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
71581963 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
71581980 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
71581993 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:71582877 original size:40 final size:39
Alignment explanation
Indices: 71582811--71582914 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 39
71582801 AAATTGAATG
* * *
71582811 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGCCCGAAGGCAATTATGCTAGAAACT
* * ***
71582850 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAG-CCCGAAGGCAATTATGCTAGAAACT
71582890 ATATCCGGGCTAAGGCCCGAAGGCA
1 ATATCCGGGCTAA-GCCCGAAGGCA
71582915 TTCGTGCGAG
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
39 13 0.24
40 40 0.74
41 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTATGCTAGAAACT
Found at i:71585389 original size:40 final size:40
Alignment explanation
Indices: 71585284--71585500 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
71585274 CGGATGATAA
* *
71585284 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
71585324 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71585363 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71585403 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71585443 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
71585483 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
71585501 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 52 0.31
40 114 0.69
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:71585457 original size:80 final size:80
Alignment explanation
Indices: 71585280--71585500 Score: 351
Period size: 79 Copynumber: 2.8 Consensus size: 80
71585270 TATTCGGATG
*
71585280 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
71585343 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
*
71585359 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
71585424 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* * *
71585439 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
71585501 TACTTGGTTT
Statistics
Matches: 133, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
79 67 0.50
80 66 0.50
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:71591763 original size:29 final size:28
Alignment explanation
Indices: 71591693--71591767 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
71591683 ATACTCGATT
* *
71591693 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
71591721 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
71591750 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
71591768 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:71591784 original size:29 final size:29
Alignment explanation
Indices: 71591751--71591824 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
71591741 CCTTCGAGCT
71591751 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
71591780 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
71591809 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
71591825 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:71599636 original size:29 final size:28
Alignment explanation
Indices: 71599566--71599640 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
71599556 ATACTCGATT
* *
71599566 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
71599594 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
71599623 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
71599641 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:71599657 original size:29 final size:29
Alignment explanation
Indices: 71599624--71599697 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
71599614 CCTTCGAGCT
71599624 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
71599653 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
71599682 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
71599698 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:71605768 original size:27 final size:28
Alignment explanation
Indices: 71605712--71605781 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
71605702 AAATTTGTAC
71605712 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
71605740 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
71605767 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
71605782 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:71605792 original size:27 final size:27
Alignment explanation
Indices: 71605712--71605793 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
71605702 AAATTTGTAC
* *
71605712 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
71605740 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
71605767 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
71605794 GCTTCTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:71607819 original size:46 final size:46
Alignment explanation
Indices: 71607599--71607920 Score: 151
Period size: 46 Copynumber: 6.8 Consensus size: 46
71607589 GTAAAGTGCC
* **
71607599 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTA-CATCACCGAGGCT
* * * * *
71607648 GATGCTATGTCCTAGACATGGTCTTACACTAGCTCTCATACAACTGTGTC-
1 GATGC-ATGTCCCAGACAT-GTCTTACACTAGCT-ACAT-C-ACCGAGGCT
* ** *
71607698 GATGCCATGTCCCAGACATGCTCTTACACT-GAC-ACATCTCATA-GCC
1 GATG-CATGTCCCAGACATG-TCTTACACTAG-CTACATCACCGAGGCT
* * * * *
71607744 GATGTATGT-CCTGAACATGTGTTATACTAGCTTACGTC-CCGAGGCT
1 GATGCATGTCCCAG-ACATGTCTTACACTAGC-TACATCACCGAGGCT
** * *
71607790 GATGCATGTCCCAGACATGTCTTACACTAGC-AC-TCATCTTAATGTT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTACATCA-C-CGAGGCT
* * *** *
71607836 GATGCCATGTCCCAGACATGGTCTTATACTGGCT-C-TCATAATATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTACATCA-CCGA-GGCT
71607884 GATGCATGTCCCAGACATGTCTTACACTAGCTCACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-ACAT
71607921 AAATGACCCA
Statistics
Matches: 208, Mismatches: 41, Indels: 48
0.70 0.14 0.16
Matches are distributed among these distances:
43 2 0.01
44 13 0.06
45 14 0.07
46 53 0.25
47 33 0.16
48 26 0.12
49 36 0.17
50 27 0.13
51 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTACATCACCGAGGCT
Found at i:71607887 original size:140 final size:142
Alignment explanation
Indices: 71607641--71607894 Score: 342
Period size: 138 Copynumber: 1.8 Consensus size: 142
71607631 CTATCATCTT
* *
71607641 CGAGGCTGATGCTATGTCCTAGACATGGTCTTACACTAGCTCTCATACAACTGTGTCGATGCCAT
1 CGAGGCTGATGCTATGTCCCAGACATGGTCTTACACTAGCACTCATACAACTGTGTCGATGCCAT
* *
71607706 GTCCCAGACATGCTCTTACACTGACACATCTCATAGCCGATGTATGTCCTGAACATGTGTTATAC
66 GTCCCAGACATGCTCTTACACTGACACATCTAATAGCCGATGCATGTCCTGAACATGTGTTATAC
71607771 TAGCTTACGTCC
131 TAGCTTACGTCC
71607783 CGAGGCTGATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCAT-CTTAA-TGT-T-GATGCC
1 CGAGGCTGATGCTATGTCCCAGACATGGTCTTACACTAGCACTCATAC--AACTGTGTCGATGCC
* * * *
71607842 ATGTCCCAGACATGGTCTTATACTGGCTC-TCATAATATGGCCGATGCATGTCC
64 ATGTCCCAGACATGCTCTTACACTGACACATC-TAATA--GCCGATGCATGTCC
71607895 CAGACATGTC
Statistics
Matches: 99, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
137 2 0.02
138 35 0.35
139 2 0.02
140 34 0.34
141 14 0.14
142 12 0.12
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (142 bp):
CGAGGCTGATGCTATGTCCCAGACATGGTCTTACACTAGCACTCATACAACTGTGTCGATGCCAT
GTCCCAGACATGCTCTTACACTGACACATCTAATAGCCGATGCATGTCCTGAACATGTGTTATAC
TAGCTTACGTCC
Found at i:71607891 original size:94 final size:94
Alignment explanation
Indices: 71607596--71607914 Score: 282
Period size: 94 Copynumber: 3.4 Consensus size: 94
71607586 TGGGTAAAGT
* * *
71607596 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCTTCGAGGCTGATGCTATGTCC
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGC-ACTCATCTT-AATGCTGATGCTATGTCC
* *
71607660 TAGACATGGTCTTACACTAGCTCTCATACAACTG
63 CAGACATGGTCTTATACTAGCTCTCATA-AA-TG
* * * *
71607694 TGTCGATGCCATGTCCCAGACATGCTCTTACACT-G-ACACATC-TCATAGCCGATG-TATGT-C
1 -GCCGATGCCATGTCCCAGACATG-TCTTACACTAGCACTCATCTTAAT-GCTGATGCTATGTCC
* * ***
71607754 CTGAACAT-GTGTTATACTAGCTTACGTC-CCGA-G
63 CAG-ACATGGTCTTATACTAGC-T-C-TCATAAATG
* * *
71607787 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCACTCATCTTAATGTTGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCACTCATCTTAATGCTGATGCTATGTCCCAG
*
71607851 ACATGGTCTTATACTGGCTCTCATAATATG
66 ACATGGTCTTATACTAGCTCTCATAA-ATG
71607881 GCCGATG-CATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGC
71607915 TCACATAAAT
Statistics
Matches: 178, Mismatches: 26, Indels: 37
0.74 0.11 0.15
Matches are distributed among these distances:
90 9 0.05
91 18 0.10
92 17 0.10
93 14 0.08
94 61 0.34
95 12 0.07
96 9 0.05
97 6 0.03
98 2 0.01
99 30 0.17
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCACTCATCTTAATGCTGATGCTATGTCCCAG
ACATGGTCTTATACTAGCTCTCATAAATG
Found at i:71607902 original size:140 final size:144
Alignment explanation
Indices: 71607596--71607915 Score: 365
Period size: 140 Copynumber: 2.2 Consensus size: 144
71607586 TGGGTAAAGT
* *
71607596 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TATCATCTTCGAGGCTGATGCTATGTCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTATCATCTCCGAGGCTGATGCTATGTCC
* *
71607660 TAGACATGGTCTTACACTAGCTCTCATACAACTGTGTCGATGCCATGTCCCAGACATGCTCTTAC
64 CAGACATGGTCTTACACTAGCACTCATACAACTGTGTCGATGCCATGTCCCAGACATGCTCTTAC
*
71607725 ACTGACACATCTCATA
129 ACTGACACATCTAATA
* * * * *
71607741 GCCGATGTATGT-CCTGAACATGTGTTATACTAGCTTA-CGTC-CCGAGGCTGATGC-ATGTCCC
1 GCCGATGCATGTCCCAG-ACATGTCTTACACTAGCTTATCATCTCCGAGGCTGATGCTATGTCCC
*
71607802 AGACAT-GTCTTACACTAGCACTCAT-CTTAA-TGT-T-GATGCCATGTCCCAGACATGGTCTTA
65 AGACATGGTCTTACACTAGCACTCATAC--AACTGTGTCGATGCCATGTCCCAGACATGCTCTTA
* * *
71607862 TACTGGCTC-TCATAATA
128 CACTGACACATC-TAATA
71607879 TGGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
1 --GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
71607916 CACATAAATG
Statistics
Matches: 149, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
137 2 0.01
138 35 0.23
139 2 0.01
140 48 0.32
141 17 0.11
142 12 0.08
143 16 0.11
144 10 0.07
145 7 0.05
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (144 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATCATCTCCGAGGCTGATGCTATGTCCCA
GACATGGTCTTACACTAGCACTCATACAACTGTGTCGATGCCATGTCCCAGACATGCTCTTACAC
TGACACATCTAATA
Found at i:71610834 original size:17 final size:16
Alignment explanation
Indices: 71610800--71610837 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
71610790 AATGGGTGAT
71610800 GTTATTCTGAATTAAA
1 GTTATTCTGAATTAAA
71610816 GTTATTCTGTTAA-TAAA
1 GTTATTCTG--AATTAAA
71610833 GTTAT
1 GTTAT
71610838 CCCAATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 9 0.45
18 2 0.10
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (16 bp):
GTTATTCTGAATTAAA
Found at i:71617665 original size:15 final size:15
Alignment explanation
Indices: 71617645--71617675 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
71617635 GGCACCAAAG
*
71617645 GCCGAGAAGAAGCCT
1 GCCGAGAAAAAGCCT
71617660 GCCGAGAAAAAGCCT
1 GCCGAGAAAAAGCCT
71617675 G
1 G
71617676 TAGCAGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.26, G:0.32, T:0.06
Consensus pattern (15 bp):
GCCGAGAAAAAGCCT
Found at i:71622000 original size:48 final size:46
Alignment explanation
Indices: 71621943--71622063 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 46
71621933 AAGCCGACGC
* * * *
71621943 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
1 CATGTCCCAGGCATGTCTTACACTAGC-TCT-CATCTCAAGGCCGATG
* * * *
71621991 CATGTCCCAGGCATGTCTTACGCTAGCTCTCGTCTCAATGCTGATG
1 CATGTCCCAGGCATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
71622037 CATGTCCCAGGCATGTCTTACACTAGC
1 CATGTCCCAGGCATGTCTTACACTAGC
71622064 ACACATATCA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 38 0.59
47 2 0.03
48 24 0.38
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGGCATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
Found at i:71624136 original size:29 final size:29
Alignment explanation
Indices: 71624092--71624190 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 29
71624082 ACCTCAGATA
*
71624092 ATGAAAAGGGATAGCTTCGTCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
71624121 ACGAAAAGGGATAGCTTCGGATATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * * *
71624150 GTGAATAGGGATAGCTTTGGCTATTGACT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
71624179 ATGAAAAGGGAT
1 ATGAAAAGGGAT
71624191 GGTGACGACC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:71625790 original size:49 final size:47
Alignment explanation
Indices: 71625718--71625940 Score: 179
Period size: 49 Copynumber: 4.7 Consensus size: 47
71625708 GGTTAAGTTA
*
71625718 CCGATGCCATGTCCCAGAAATGGTCTTACACTGGCTATCTTCATCGAGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCTTCATCGAGG
* * * *
71625767 CCGATGCAATGTCCCAGACATGGTCTTTCACTAGCTCTCGTGT-AT-AAGTG
1 CCGATGC-ATGTCCCAGACAT-GTCTTACACTGGCTATC-T-TCATCGAG-G
* * ** * *
71625817 CTGATGCATGTCCCAGACATGTCTTACACTAGC-A-C-GAAGCTTA-G
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTTCATC-GAGG
* * * *
71625861 CCAATGCATGTCCCAGACATGTCTTACACTGGCTACCATCATTGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGG
* *
71625908 CCAATGCATGTCCCAGACACGTCTTACACTGGC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC
71625941 ACTCATCTCT
Statistics
Matches: 143, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
44 32 0.22
45 1 0.01
46 4 0.03
47 34 0.24
48 13 0.09
49 48 0.34
50 10 0.07
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGG
Found at i:71625875 original size:44 final size:46
Alignment explanation
Indices: 71625820--71625942 Score: 171
Period size: 47 Copynumber: 2.7 Consensus size: 46
71625810 ATAAGTGCTG
*
71625820 ATGCATGTCCCAGACATGTCTTACACTAGCACGAAGC-TT-A-GCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCAC-AAGCATTGAGGCCA
* *
71625864 ATGCATGTCCCAGACATGTCTTACACTGGCTACCATCATTGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGC-ACAAGCATTGAGGCCA
*
71625911 ATGCATGTCCCAGACACGTCTTACACTGGCAC
1 ATGCATGTCCCAGACATGTCTTACACTGGCAC
71625943 TCATCTCTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
44 31 0.44
45 4 0.06
46 3 0.04
47 33 0.46
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCACAAGCATTGAGGCCA
Found at i:71634412 original size:39 final size:39
Alignment explanation
Indices: 71634276--71634427 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
71634266 TATGGTAACC
** * *
71634276 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
71634316 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
71634355 CGC-CAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
71634393 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
71634428 TCGAACATTC
Statistics
Matches: 103, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 37 0.36
39 51 0.50
40 15 0.15
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:71643863 original size:49 final size:47
Alignment explanation
Indices: 71643795--71644010 Score: 174
Period size: 49 Copynumber: 4.6 Consensus size: 47
71643785 TTGCTAATGC
71643795 CATGTCCCAGACATGATCTTACACTGGCTATCTTCATCGAGGCCGATG
1 CATGTCCCAGACATG-TCTTACACTGGCTATCTTCATCGAGGCCGATG
* * * *
71643843 CCATGTCCCAGACATGATCTTACACTAGCTCTCGTGT-AT-AAGTGCTGATG
1 -CATGTCCCAGACATG-TCTTACACTGGCTATC-T-TCATCGAG-GCCGATG
* ** * *
71643893 CATGTCCCAGACATGTCTTACACTAGC-A-C-GAAGCTTA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTTCATC-GAGGCCGATG
* * * * *
71643937 CATGTCCCAGACACGTCTTACACTGGCTACCATCATTGAGGCAGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
* * *
71643984 CATGTCTCACACACGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
71644011 AGTCATCTCT
Statistics
Matches: 138, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
44 32 0.23
45 1 0.01
46 4 0.03
47 32 0.23
48 12 0.09
49 47 0.34
50 9 0.07
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
Found at i:71644455 original size:16 final size:16
Alignment explanation
Indices: 71644434--71644465 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
71644424 TAATATCAAA
*
71644434 AATGTATTCATTTAGT
1 AATGTACTCATTTAGT
71644450 AATGTACTCATTTAGT
1 AATGTACTCATTTAGT
71644466 CATTAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (16 bp):
AATGTACTCATTTAGT
Found at i:71645882 original size:106 final size:106
Alignment explanation
Indices: 71645697--71646014 Score: 627
Period size: 106 Copynumber: 3.0 Consensus size: 106
71645687 ATGATTATGT
*
71645697 AATTCTACGTGTGAGACATTATTATGTTAAAAATAGAAAGTGTTCAAGTTGTTAATGAACCTATT
1 AATTCTACGTGTGAGACATTATTATGTTATAAATAGAAAGTGTTCAAGTTGTTAATGAACCTATT
71645762 CATTTGTGATATGATATTTATATATATTGGTAAATCTTGGA
66 CATTTGTGATATGATATTTATATATATTGGTAAATCTTGGA
71645803 AATTCTACGTGTGAGACATTATTATGTTATAAATAGAAAGTGTTCAAGTTGTTAATGAACCTATT
1 AATTCTACGTGTGAGACATTATTATGTTATAAATAGAAAGTGTTCAAGTTGTTAATGAACCTATT
71645868 CATTTGTGATATGATATTTATATATATTGGTAAATCTTGGA
66 CATTTGTGATATGATATTTATATATATTGGTAAATCTTGGA
71645909 AATTCTACGTGTGAGACATTATTATGTTATAAATAGAAAGTGTTCAAGTTGTTAATGAACCTATT
1 AATTCTACGTGTGAGACATTATTATGTTATAAATAGAAAGTGTTCAAGTTGTTAATGAACCTATT
71645974 CATTTGTGATATGATATTTATATATATTGGTAAATCTTGGA
66 CATTTGTGATATGATATTTATATATATTGGTAAATCTTGGA
71646015 GCATTAATAT
Statistics
Matches: 211, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 211 1.00
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (106 bp):
AATTCTACGTGTGAGACATTATTATGTTATAAATAGAAAGTGTTCAAGTTGTTAATGAACCTATT
CATTTGTGATATGATATTTATATATATTGGTAAATCTTGGA
Found at i:71647681 original size:42 final size:42
Alignment explanation
Indices: 71647617--71647713 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
71647607 TCGGGACTAT
71647617 GTGTAAGACCATATCTAGGATATAGCATC-ATTATGAGATTTC
1 GTGTAAGACCATATCTAGGATATAGCATCGA-TATGAGATTTC
* * *
71647659 GTGTAAGACCATATCT-GAGATATGGCATCGATATGATATTTT
1 GTGTAAGACCATATCTAG-GATATAGCATCGATATGAGATTTC
71647701 GTGTAAGACCATA
1 GTGTAAGACCATA
71647714 GATGGGCTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
41 1 0.02
42 48 0.96
43 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATAGCATCGATATGAGATTTC
Found at i:71655756 original size:46 final size:47
Alignment explanation
Indices: 71655626--71655884 Score: 211
Period size: 46 Copynumber: 5.5 Consensus size: 47
71655616 AGGCCAACGC
* * *
71655626 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GTCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCT-CATAGCCGATG
71655675 CCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCATAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAG-CTTACATCTCATAGCCGATG
*
71655721 CATGTCCCACACAT-GTCTTACACTAGCTTACATCTCA-AGCCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCATAG-CCGATG
* *
71655767 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCA-ATGTCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCT-TACATCTCATA-GCCGATG
* * * * *
71655813 CCATGTCCTAGGCATGGTCTTACACTGGC--AC-TCATAATGTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTTACATC-TCA--TAGCCGATG
*
71655861 CATGTCCCAGACAT-ATCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
71655885 GGCACACAAA
Statistics
Matches: 178, Mismatches: 16, Indels: 34
0.78 0.07 0.15
Matches are distributed among these distances:
44 11 0.06
45 20 0.11
46 76 0.43
47 26 0.15
48 18 0.10
49 1 0.01
50 26 0.15
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCATAGCCGATG
Found at i:71655757 original size:99 final size:98
Alignment explanation
Indices: 71655568--71655790 Score: 250
Period size: 99 Copynumber: 2.3 Consensus size: 98
71655558 TAGGGTATAA
* *
71655568 TGTCGATGCCATGTCCCATACATGGTCTTACACTGACTATTGAAATCAAGGCCAACGCCATGTCC
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTA-TCAAATCAAGGCCAACGCCATGTCC
*
71655633 CAGACATGGTCTTACACTAGCTCTCACATATCCG
65 CACACATGGTCTTACACTAGCTCTCACATATCCG
** * *
71655667 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-CATCTCATA-GCCGATG-CATGTCC
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCA-AGGCCAACGCCATGTCC
* *
71655728 CACACAT-GTCTTACACTAGCT-T-ACATCTCAAG
65 CACACATGGTCTTACACTAGCTCTCACATATC-CG
**
71655760 -CCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACT
71655791 AGCTCTCGTC
Statistics
Matches: 111, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
90 10 0.09
91 14 0.13
92 11 0.10
93 2 0.02
94 14 0.13
95 13 0.12
96 9 0.08
97 1 0.01
98 1 0.01
99 36 0.32
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (98 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCAAGGCCAACGCCATGTCCC
ACACATGGTCTTACACTAGCTCTCACATATCCG
Found at i:71655833 original size:94 final size:92
Alignment explanation
Indices: 71655624--71655890 Score: 244
Period size: 94 Copynumber: 2.9 Consensus size: 92
71655614 CAAGGCCAAC
* * *
71655624 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-CGTGTCGATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCTCAAG-GCCGATG-CATGTCCCAGAC
71655688 ATGGTCTTACACTGACACATCTCATAGCCGAT
62 AT-GTCTTACACTGACACATCTCATAGCCGAT
* *
71655720 G-CATGTCCCACACAT-GTCTTACACTAGCTTACATCTCAAGCCCGATGCATGTCCCAGACATGT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAAGGCCGATGCATGTCCCAGACATGT
* * * *
71655783 CTTACACTAGCTCTCGTCTCA-ATGTCGAT
66 CTTACACT-G-ACACATCTCATA-GCCGAT
* * *
71655812 GCCATGTCCTAGGCATGGTCTTACACTGGC--AC-TCAT-AATGTGGCCGATGCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTACATC-TCAA---GGCCGATGCATGTCCCAGAC
* *
71655873 ATATCTTACACTGGCACA
62 ATGTCTTACACTGACACA
71655891 CAAATAACCC
Statistics
Matches: 143, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
90 10 0.07
91 20 0.14
92 29 0.20
93 14 0.10
94 56 0.39
95 13 0.09
96 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (92 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAAGGCCGATGCATGTCCCAGACATGT
CTTACACTGACACATCTCATAGCCGAT
Found at i:71655867 original size:140 final size:140
Alignment explanation
Indices: 71655626--71655884 Score: 362
Period size: 140 Copynumber: 1.8 Consensus size: 140
71655616 AGGCCAACGC
**
71655626 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGTCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-ACATATCAATGTCGATGCCATGTCCCAGACATG
* *
71655691 GTCTTACACTGACACATCTCATAGCCGATGCATGTCCCACACATGTCTTACACTAGCTTACATCT
65 GTCTTACACTGACACATCTAATAGCCGATGCATGTCCCACACATATCTTACACTAGCTTACATCT
71655756 CAAGCCCGATG
130 CAAGCCCGATG
* * * *
71655767 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATGTCGATGCCATGTCCTAGGCATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGTCGATGCCATGTCCCAGACATGG
* * *
71655830 TCTTACACTGGCAC-TCATAATGTGGCCGATGCATGTCCCAGACATATCTTACACT
66 TCTTACACTGACACATC-TAA--TAGCCGATGCATGTCCCACACATATCTTACACT
71655885 GGCACACAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
137 2 0.02
138 42 0.40
140 46 0.44
141 14 0.13
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGTCGATGCCATGTCCCAGACATGG
TCTTACACTGACACATCTAATAGCCGATGCATGTCCCACACATATCTTACACTAGCTTACATCTC
AAGCCCGATG
Found at i:71658394 original size:49 final size:49
Alignment explanation
Indices: 71658262--71658380 Score: 168
Period size: 49 Copynumber: 2.4 Consensus size: 49
71658252 CTTGTAGCGT
* * *
71658262 GTCAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAAATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATTGACACCGATAAATGAAA
* * *
71658311 GCCAGTATAAGACCTGTCTGGGACATGGCATTGAC-CTCGATATATGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATTGACAC-CGATAAATGAAA
71658360 GTCAGTGTAAGACCTGTCTGG
1 GTCAGTGTAAGACCTGTCTGG
71658381 TACACGTTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 1 0.02
49 60 0.98
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATTGACACCGATAAATGAAA
Found at i:71661044 original size:15 final size:15
Alignment explanation
Indices: 71661024--71661054 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
71661014 AAATATGAAA
71661024 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
71661039 GATATGTTTTGTATT
1 GATATGTTTTGGATT
71661054 G
1 G
71661055 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:71661640 original size:14 final size:14
Alignment explanation
Indices: 71661621--71661661 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
71661611 GCTTTCGTGT
71661621 AAGACCACGTCTGG
1 AAGACCACGTCTGG
71661635 AAGACCACGTCTGG
1 AAGACCACGTCTGG
71661649 AAGACCACGTCTG
1 AAGACCACGTCTG
71661662 AGACGTTGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (14 bp):
AAGACCACGTCTGG
Found at i:71661713 original size:45 final size:45
Alignment explanation
Indices: 71661649--71661812 Score: 195
Period size: 45 Copynumber: 3.6 Consensus size: 45
71661639 CCACGTCTGG
* * * * *
71661649 AAGACCACGTCTGAGACGTTGGCATCAATATTTGTGTTTTCGTAT
1 AAGACCATGTCTGGGACGTTGGCATCGATATATGTGTTTTCGTGT
* * *
71661694 AAGACCATATTTGGGACGTTGACATCGATATATGTGTTTTCGTGT
1 AAGACCATGTCTGGGACGTTGGCATCGATATATGTGTTTTCGTGT
* * * *
71661739 AAGACCATGTCTGGGATGTTGGTATCGATATATGTGGTTACGTGT
1 AAGACCATGTCTGGGACGTTGGCATCGATATATGTGTTTTCGTGT
*
71661784 AACACCATGTCTGGGACAG-TGGCATCGAT
1 AAGACCATGTCTGGGAC-GTTGGCATCGAT
71661813 GTGAGATAGC
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 99 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (45 bp):
AAGACCATGTCTGGGACGTTGGCATCGATATATGTGTTTTCGTGT
Found at i:71664922 original size:43 final size:42
Alignment explanation
Indices: 71664829--71664949 Score: 118
Period size: 43 Copynumber: 2.9 Consensus size: 42
71664819 GTCTTTAATC
* * *
71664829 CATGTAAGACCACGTCTAGGACGTTGGCATTGTATTTGATTT
1 CATGTAAGACCACGTCCAGGACGTTGGCATCGTATTTGATTA
* **
71664871 CATATAAGACCTTGTCCAGGACAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCACGTCCAGGAC-GTTGGCATCG-TATTTGATTA
* * ** *
71664914 CATGTAAGACGACTTCTGGGACGTTGGCATTGTATT
1 CATGTAAGACCACGTCCAGGACGTTGGCATCGTATT
71664950 AGCTTTCTAA
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 30 0.48
43 32 0.52
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
CATGTAAGACCACGTCCAGGACGTTGGCATCGTATTTGATTA
Found at i:71669078 original size:40 final size:40
Alignment explanation
Indices: 71668993--71669143 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
71668983 AATTGAATGA
* * * **
71668993 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
71669033 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
71669074 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
71669113 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
71669144 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:71669157 original size:40 final size:40
Alignment explanation
Indices: 71669030--71669159 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
71669020 ATGCTGGAAA
* * *
71669030 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
71669070 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
71669110 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
71669150 TTATATCCGG
1 TTATATCCGG
71669160 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:71676371 original size:40 final size:40
Alignment explanation
Indices: 71676149--71676393 Score: 237
Period size: 40 Copynumber: 6.2 Consensus size: 40
71676139 ATTGAATGAT
* * ** * ** *
71676149 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
* * * *
71676189 ATCC-GGTTAAGACCCGAAGGCAATT-GTGCTAG-TGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TTAA
71676228 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
71676268 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
* * * **
71676308 ATCCGGGCTAATACCCGATGGCATTTC-TGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCA-TTCGTGCAAGTTGTTAA
* * * * *
71676348 ATCCGGGCTAAGACTCGAAGGCATTCATGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
71676388 ATCCGG
1 ATCCGG
71676394 TTGTATTCCG
Statistics
Matches: 175, Mismatches: 23, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
39 32 0.18
40 138 0.79
41 5 0.03
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
Found at i:71680573 original size:40 final size:39
Alignment explanation
Indices: 71680528--71680657 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
71680518 CGGAATATAA
71680528 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
71680568 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
71680608 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
71680648 CCGGATATAA
1 CCGGATATAA
71680658 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:71680672 original size:40 final size:40
Alignment explanation
Indices: 71680544--71680695 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
71680534 ATAACCATGT
* * *
71680544 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
71680584 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
71680624 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
71680664 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
71680696 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:71680678 original size:80 final size:80
Alignment explanation
Indices: 71680544--71680693 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
71680534 ATAACCATGT
*
71680544 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
71680608 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
71680624 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
71680687 CCCGGAT
64 CCCGGAT
71680694 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:71684766 original size:27 final size:27
Alignment explanation
Indices: 71684735--71684924 Score: 213
Period size: 27 Copynumber: 7.0 Consensus size: 27
71684725 TCTAAACATA
* *
71684735 TACCACATAGGGGCAAAATAGTCAATT
1 TACCACATAAGGGCAAAATAGTCATTT
** * **
71684762 TACCATGTAAGGG-TATTTCAGTCATTT
1 TACCACATAAGGGCAAAAT-AGTCATTT
*
71684789 TACCACATAAGGGTAAAATAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
*
71684816 TACCACATAGGGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
* *
71684843 TACCTCATAAAGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
* * *
71684870 TACCTCATAAGGGCAAAACAATCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
*
71684897 TA-CATCAAAAGGGCAAAATAGTCATTT
1 TACCA-CATAAGGGCAAAATAGTCATTT
71684924 T
1 T
71684925 GTCAAATTGG
Statistics
Matches: 136, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.02
27 131 0.96
28 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (27 bp):
TACCACATAAGGGCAAAATAGTCATTT
Found at i:71685155 original size:17 final size:17
Alignment explanation
Indices: 71685130--71685176 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
71685120 GGTTTACCCA
*
71685130 TGTGAGGCCCACAAGTC
1 TGTGGGGCCCACAAGTC
71685147 TGTGGGGCCCACAAGTC
1 TGTGGGGCCCACAAGTC
71685164 TGTGGGGCCCACA
1 TGTGGGGCCCACA
71685177 CGACCCATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.19, C:0.30, G:0.34, T:0.17
Consensus pattern (17 bp):
TGTGGGGCCCACAAGTC
Found at i:71695287 original size:29 final size:29
Alignment explanation
Indices: 71695254--71695327 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
71695244 CCTTCGAGCT
71695254 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
71695283 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
71695312 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
71695328 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:71695288 original size:58 final size:58
Alignment explanation
Indices: 71695195--71695327 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
71695185 ATACTCGATT
* * * * *
71695195 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
71695253 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
71695311 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
71695328 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:71698458 original size:27 final size:27
Alignment explanation
Indices: 71698421--71698633 Score: 150
Period size: 27 Copynumber: 7.9 Consensus size: 27
71698411 AAACCCAAAA
* *
71698421 ATAG-GTAAAATGACCGTAATGCCTCT
1 ATAGAGTAAAATGACCATAATGCCCCT
* *
71698447 ATAGAGTAAAATGACCGTAATACCCCT
1 ATAGAGTAAAATGACCATAATGCCCCT
*
71698474 ATA-AGGTAAAATGACCATAGTGCCCCT
1 ATAGA-GTAAAATGACCATAATGCCCCT
* *
71698501 GTA-AGGTAAAATTACCATAATGCCCCT
1 ATAGA-GTAAAATGACCATAATGCCCCT
* * * *
71698528 GTAGGGTAAAATGACCATAATACCCTT
1 ATAGAGTAAAATGACCATAATGCCCCT
* * *
71698555 ATATG-GTAAAATAACCGTAATGCCCTT
1 ATA-GAGTAAAATGACCATAATGCCCCT
* * **
71698582 GTAG-GATAAAATGACTATAATATCCCT
1 ATAGAG-TAAAATGACCATAATGCCCCT
* * *
71698609 GTATG-GTAAAATGACGATTATGCCC
1 ATA-GAGTAAAATGACCATAATGCCC
71698634 TTATGTTCCA
Statistics
Matches: 154, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.05
27 144 0.94
28 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
ATAGAGTAAAATGACCATAATGCCCCT
Found at i:71698510 original size:54 final size:54
Alignment explanation
Indices: 71698423--71698623 Score: 199
Period size: 54 Copynumber: 3.7 Consensus size: 54
71698413 ACCCAAAAAT
* * * * *
71698423 AGGTAAAATGACCGTAATGCCTCTAT-AGAGTAAAATGACCGTAATACCCCTATA
1 AGGTAAAATGACCATAATACCCCTATAAG-GTAAAATGACCGTAATGCCCCTGTA
* * * * *
71698477 AGGTAAAATGACCATAGTGCCCCTGTAAGGTAAAATTACCATAATGCCCCTGTA
1 AGGTAAAATGACCATAATACCCCTATAAGGTAAAATGACCGTAATGCCCCTGTA
* * * * *
71698531 GGGTAAAATGACCATAATACCCTTATATGGTAAAATAACCGTAATGCCCTTGT-
1 AGGTAAAATGACCATAATACCCCTATAAGGTAAAATGACCGTAATGCCCCTGTA
* * * *
71698584 AGGATAAAATGACTATAATATCCCTGTATGGTAAAATGAC
1 AGG-TAAAATGACCATAATACCCCTATAAGGTAAAATGAC
71698624 GATTATGCCC
Statistics
Matches: 122, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.02
54 118 0.97
55 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (54 bp):
AGGTAAAATGACCATAATACCCCTATAAGGTAAAATGACCGTAATGCCCCTGTA
Found at i:71698563 original size:81 final size:80
Alignment explanation
Indices: 71698422--71698637 Score: 243
Period size: 81 Copynumber: 2.7 Consensus size: 80
71698412 AACCCAAAAA
* * * * * * *
71698422 TAGGTAAAATGACCGTAATGCCTCTATAGAGTAAAATGACCGTAATACCCCTATAAGGTAAAATG
1 TAGGTAAAATGACCATAATGCCCCTGTAGGGTAAAATGACCATAATACCCTTATAAGGTAAAATA
*
71698487 ACCATAGTGCCCCTG
66 ACCATAATGCCCCTG
* *
71698502 TAAGGTAAAATTACCATAATGCCCCTGTAGGGTAAAATGACCATAATACCCTTATATGGTAAAAT
1 T-AGGTAAAATGACCATAATGCCCCTGTAGGGTAAAATGACCATAATACCCTTATAAGGTAAAAT
* *
71698567 AACCGTAATGCCCTTG
65 AACCATAATGCCCCTG
* ** * * * *
71698583 TAGGATAAAATGACTATAATATCCCTGTATGGTAAAATGACGATTATGCCCTTAT
1 TAGG-TAAAATGACCATAATGCCCCTGTAGGGTAAAATGACCATAATACCCTTAT
71698638 GTTCCAAATG
Statistics
Matches: 114, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
80 4 0.04
81 110 0.96
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (80 bp):
TAGGTAAAATGACCATAATGCCCCTGTAGGGTAAAATGACCATAATACCCTTATAAGGTAAAATA
ACCATAATGCCCCTG
Found at i:71702723 original size:27 final size:27
Alignment explanation
Indices: 71702692--71702843 Score: 207
Period size: 27 Copynumber: 5.6 Consensus size: 27
71702682 CCCCAAAATA
*
71702692 GGTAAAATGA-CTGTAATGCCCCTATAG
1 GGTAAAATGATC-GTAATGCCCCTGTAG
* *
71702719 GGTAAAATGACCATAATGCCCCTGTAG
1 GGTAAAATGATCGTAATGCCCCTGTAG
*
71702746 AGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGATCGTAATGCCCCTGTAG
* * *
71702773 GGTAAAATGATCGTAATACCCTTATAG
1 GGTAAAATGATCGTAATGCCCCTGTAG
71702800 GGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGATCGTAATGCCCCTGTAG
* *
71702827 GATAAAATGATTGTAAT
1 GGTAAAATGATCGTAAT
71702844 ATTCATGTAT
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 109 0.99
28 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (27 bp):
GGTAAAATGATCGTAATGCCCCTGTAG
Found at i:71702852 original size:27 final size:27
Alignment explanation
Indices: 71702692--71702863 Score: 157
Period size: 27 Copynumber: 6.4 Consensus size: 27
71702682 CCCCAAAATA
* * *
71702692 GGTAAAATGA-CTGTAATGCCCCTATAG
1 GGTAAAATGATC-GTAATACCCATGTAG
* * * *
71702719 GGTAAAATGACCATAATGCCCCTGTAG
1 GGTAAAATGATCGTAATACCCATGTAG
* * *
71702746 AGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGATCGTAATACCCATGTAG
* *
71702773 GGTAAAATGATCGTAATACCCTTATAG
1 GGTAAAATGATCGTAATACCCATGTAG
* *
71702800 GGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGATCGTAATACCCATGTAG
* * ** *
71702827 GATAAAATGATTGTAATATTCATGTAT
1 GGTAAAATGATCGTAATACCCATGTAG
71702854 GGTAAAATGA
1 GGTAAAATGA
71702864 CGATTACGCC
Statistics
Matches: 124, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 123 0.99
28 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (27 bp):
GGTAAAATGATCGTAATACCCATGTAG
Found at i:71702858 original size:54 final size:54
Alignment explanation
Indices: 71702692--71702863 Score: 193
Period size: 54 Copynumber: 3.2 Consensus size: 54
71702682 CCCCAAAATA
* * * * * * *
71702692 GGTAAAATGA-CTGTAATGCCCCTATAGGGTAAAATGACCATAATGCCCCTGTAG
1 GGTAAAATGATC-GTAATGCCCCTGTAGGATAAAATGATCGTAATACCCATATAG
* * *
71702746 AGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATGATCGTAATACCCTTATAG
1 GGTAAAATGATCGTAATGCCCCTGTAGGATAAAATGATCGTAATACCCATATAG
* ** * *
71702800 GGTAAAATGATCGTAATGCCCCTGTAGGATAAAATGATTGTAATATTCATGTAT
1 GGTAAAATGATCGTAATGCCCCTGTAGGATAAAATGATCGTAATACCCATATAG
71702854 GGTAAAATGA
1 GGTAAAATGA
71702864 CGATTACGCC
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
54 101 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (54 bp):
GGTAAAATGATCGTAATGCCCCTGTAGGATAAAATGATCGTAATACCCATATAG
Found at i:71702858 original size:81 final size:81
Alignment explanation
Indices: 71702692--71702864 Score: 224
Period size: 81 Copynumber: 2.1 Consensus size: 81
71702682 CCCCAAAATA
*
71702692 GGTAAAATGACTGTAATGCCCCTATAGGGTAAAATGACCATAATGCCCCTGTAGAGTAAAATGAT
1 GGTAAAATGACTGTAATACCCCTATAGGGTAAAATGACCATAATGCCCCTGTAGAGTAAAATGAT
* *
71702757 CGTAATGCCCCTGTAG
66 CGTAATACCCATGTAG
* * *
71702773 GGTAAAATGA-TCGTAATACCCTTATAGGGTAAAATGATCGTAATGCCCCTGTAG-GATAAAATG
1 GGTAAAATGACT-GTAATACCCCTATAGGGTAAAATGACCATAATGCCCCTGTAGAG-TAAAATG
* ** *
71702836 ATTGTAATATTCATGTAT
64 ATCGTAATACCCATGTAG
71702854 GGTAAAATGAC
1 GGTAAAATGAC
71702865 GATTACGCCT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.03
81 77 0.97
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (81 bp):
GGTAAAATGACTGTAATACCCCTATAGGGTAAAATGACCATAATGCCCCTGTAGAGTAAAATGAT
CGTAATACCCATGTAG
Done.