Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 225 of 345
Found at i:65386403 original size:18 final size:17
Alignment explanation
Indices: 65386371--65386404 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
65386361 GGCCTTAGCC
*
65386371 CATTACAGAATAAGAAA
1 CATTACAGAAGAAGAAA
65386388 CATTATCAGAAGAAGAA
1 CATTA-CAGAAGAAGAA
65386405 TCAAAATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
CATTACAGAAGAAGAAA
Found at i:65386422 original size:6 final size:6
Alignment explanation
Indices: 65386401--65386584 Score: 137
Period size: 6 Copynumber: 29.8 Consensus size: 6
65386391 TATCAGAAGA
* * * *
65386401 AGAATC AAAATG AGAATT AGAATC AGAATC AGAATC AAGTAA-C AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC -AG-AATC AGAATC
* * *
65386450 AAAATC AGAATC AGAATC AGAATT AGGTAA-C AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
* * *
65386499 AGGTAA-C AAAATC AGAATC AGAACC AGAATC AGAATG AGGTAA-C AGAATC
1 A-G-AATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
65386549 AGAATC A-ATATC AGGTAA-C AGAATC AGAATC AGAAT
1 AGAATC AGA-ATC A-G-AATC AGAATC AGAATC AGAAT
65386585 GTCAATGCAA
Statistics
Matches: 144, Mismatches: 17, Indels: 34
0.74 0.09 0.17
Matches are distributed among these distances:
5 11 0.08
6 112 0.78
7 12 0.08
8 8 0.06
9 1 0.01
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:65386459 original size:31 final size:31
Alignment explanation
Indices: 65386419--65386584 Score: 140
Period size: 31 Copynumber: 5.4 Consensus size: 31
65386409 AATGAGAATT
65386419 AGAATCAGAATCAGAATCAAGTAACAAAATC
1 AGAATCAGAATCAGAATCAAGTAACAAAATC
* * * ***
65386450 AAAATCAGAATCAGAATCAGAATTAGGTAA-C
1 AGAATCAGAATCAGAATCA-AGTAACAAAATC
* *
65386481 AGAATCAGAATCAGTATCAGGTAACAAAATC
1 AGAATCAGAATCAGAATCAAGTAACAAAATC
* * * ***
65386512 AGAATCAGAACCAGAATCAGAATGAGGTAA-C
1 AGAATCAGAATCAGAATCA-AGTAACAAAATC
* *
65386543 AGAATCAGAATCA-ATATCAGGTAACAGAATC
1 AGAATCAGAATCAGA-ATCAAGTAACAAAATC
65386574 AGAATCAGAAT
1 AGAATCAGAAT
65386585 GTCAATGCAA
Statistics
Matches: 101, Mismatches: 29, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
30 9 0.09
31 83 0.82
32 9 0.09
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAGTAACAAAATC
Found at i:65386460 original size:37 final size:37
Alignment explanation
Indices: 65386419--65386500 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
65386409 AATGAGAATT
65386419 AGAATCAGAATCAGAATCAAGTAACAAAATCAAAATC
1 AGAATCAGAATCAGAATCAAGTAACAAAATCAAAATC
* * * *
65386456 AGAATCAGAATCAGAATTAGGTAACAGAATCAGAATC
1 AGAATCAGAATCAGAATCAAGTAACAAAATCAAAATC
*
65386493 AGTATCAG
1 AGAATCAG
65386501 GTAACAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAAGTAACAAAATCAAAATC
Found at i:65386483 original size:25 final size:25
Alignment explanation
Indices: 65386455--65386521 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
65386445 AAATCAAAAT
*
65386455 CAGAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
65386480 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
65386505 CAAAATCAGAATCAGAA
1 CAGAATCAGAATCAGAA
65386522 CCAGAATCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:65386494 original size:62 final size:62
Alignment explanation
Indices: 65386419--65386584 Score: 262
Period size: 62 Copynumber: 2.7 Consensus size: 62
65386409 AATGAGAATT
* * *
65386419 AGAATCAGAATCAGAATCAAGTAACAAAATCAAAATCAGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAACAAAATCAGAATCAGAATCAGAATCAGAATGAGGTAAC
* *
65386481 AGAATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAACCAGAATCAGAATGAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAACAAAATCAGAATCAGAATCAGAATCAGAATGAGGTAAC
*
65386543 AGAATCAGAATCA-ATATCAGGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGA-ATCAGGTAACAAAATCAGAATCAGAAT
65386585 GTCAATGCAA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
62 95 1.00
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (62 bp):
AGAATCAGAATCAGAATCAGGTAACAAAATCAGAATCAGAATCAGAATCAGAATGAGGTAAC
Found at i:65386521 original size:37 final size:37
Alignment explanation
Indices: 65386480--65386555 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
65386470 AATTAGGTAA
* *
65386480 CAGAATCAGAATCAGTATCAGGTAACAAAATCAGAAT
1 CAGAACCAGAATCAGAATCAGGTAACAAAATCAGAAT
* *
65386517 CAGAACCAGAATCAGAATGAGGTAACAGAATCAGAAT
1 CAGAACCAGAATCAGAATCAGGTAACAAAATCAGAAT
65386554 CA
1 CA
65386556 ATATCAGGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.16
Consensus pattern (37 bp):
CAGAACCAGAATCAGAATCAGGTAACAAAATCAGAAT
Found at i:65386551 original size:25 final size:25
Alignment explanation
Indices: 65386517--65386585 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
65386507 AAATCAGAAT
*
65386517 CAGAACCAGAATCAGAATGAGGTAA
1 CAGAATCAGAATCAGAATGAGGTAA
*
65386542 CAGAATCAGAATCA-ATATCAGGTAA
1 CAGAATCAGAATCAGA-ATGAGGTAA
65386567 CAGAATCAGAATCAGAATG
1 CAGAATCAGAATCAGAATG
65386586 TCAATGCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 1 0.03
25 37 0.95
26 1 0.03
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATGAGGTAA
Found at i:65387088 original size:27 final size:26
Alignment explanation
Indices: 65387030--65387250 Score: 244
Period size: 27 Copynumber: 8.3 Consensus size: 26
65387020 GGGGTAAAAT
* * * *
65387030 GGTAATTTTACCCCACAAGGTATCTC
1 GGTAATTCTACCCTACAGGGTATTTC
*
65387056 GGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGG-GTATTTC
**
65387083 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
* * *
65387110 GGTATTTCTACCATAAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGTATTTC
* *
65387136 GGTAATTATACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACA-GGGTATTTC
* *
65387163 AGTAATTATACCCTACACGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
*
65387190 GGTATTTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
*
65387217 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTAC-AGGGTATTTC
65387244 GGTAATT
1 GGTAATT
65387251 TTATAAATTG
Statistics
Matches: 165, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
26 37 0.22
27 125 0.76
28 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (26 bp):
GGTAATTCTACCCTACAGGGTATTTC
Found at i:65387153 original size:80 final size:80
Alignment explanation
Indices: 65387044--65387243 Score: 269
Period size: 80 Copynumber: 2.5 Consensus size: 80
65387034 ATTTTACCCC
* * * *
65387044 ACAA-GGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAATAATTCTACCCTACAGGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGG-GTATTTCAATAATTATACCCTACACGGGTATT
65387108 TCGGTATTTCTACCAT
65 TCGGTATTTCTACCAT
* * *
65387124 A-AAGGGTATTTCGGTAATTATACCCTACAGGGGTATTTTAGTAATTATACCCTACACGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTCAATAATTATACCCTACACGGGTATT
*
65387188 TCGGTATTTCTACCCT
65 TCGGTATTTCTACCAT
* *
65387204 ACATGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 ACAAGGGTATTTCGGTAATTCTACCCTAC-AGGGTATTTC
65387244 GGTAATTTTA
Statistics
Matches: 104, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
79 2 0.02
80 67 0.64
81 34 0.33
82 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (80 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGGTATTTCAATAATTATACCCTACACGGGTATTT
CGGTATTTCTACCAT
Found at i:65387330 original size:27 final size:27
Alignment explanation
Indices: 65387300--65387377 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
65387290 GGTACTTTGG
65387300 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * *
65387327 TAATTTTACAGGTTGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
65387354 TAATTTCACAAATC-AGGGGTATTT
1 TAATTTTACAAGTCGA-GGGTATTT
65387378 TGGTAATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.02
27 42 0.98
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:65387383 original size:27 final size:27
Alignment explanation
Indices: 65387343--65387737 Score: 520
Period size: 27 Copynumber: 14.6 Consensus size: 27
65387333 TACAGGTTGA
** * *
65387343 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
65387370 GGGTATTTTGGTAATTTTAGAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65387397 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65387424 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
65387451 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
65387478 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*** *
65387505 GGGTATTTTGGTAATTTGGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65387532 GGGTATTTTGGTAATTGTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
65387559 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65387586 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
65387613 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65387640 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
65387667 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65387694 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
65387721 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
65387738 GGTAAACTAA
Statistics
Matches: 312, Mismatches: 56, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 312 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:65387529 original size:108 final size:108
Alignment explanation
Indices: 65387370--65387744 Score: 642
Period size: 108 Copynumber: 3.5 Consensus size: 108
65387360 CACAAATCAG
* * * * *** *
65387370 GGGTATTTTGGTAATTTTAGAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACCAAGGGTATTTTGG
65387435 TAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
*
65387478 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTGGTAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACCAAGGGTATTTTGG
* *
65387543 TAATTGTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
*
65387586 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACCAAGGGTATTTTGG
65387651 TAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
65387694 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
65387745 TAAAGTATTC
Statistics
Matches: 253, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 253 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.39
Consensus pattern (108 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACCAAGGGTATTTTGG
TAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
Found at i:65387744 original size:54 final size:54
Alignment explanation
Indices: 65387343--65387737 Score: 583
Period size: 54 Copynumber: 7.3 Consensus size: 54
65387333 TACAGGTTGA
** * * * * *
65387343 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTAGAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* * *
65387397 GGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* *
65387451 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
** * *
65387505 GGGTATTTTGGTAATTTGGTAAACCAAGGGTATTTTGGTAATTGTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* * *
65387559 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
*
65387613 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* * *
65387667 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
65387721 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
65387738 GGTAAACTAA
Statistics
Matches: 310, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 310 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
Found at i:65388996 original size:10 final size:10
Alignment explanation
Indices: 65388958--65388998 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
65388948 TATTAACATA
*
65388958 ATTAATTTTA
1 ATTAATTTTG
65388968 ATTAATTTTG
1 ATTAATTTTG
65388978 ATTAATTTTG
1 ATTAATTTTG
*
65388988 ATTATTTTTG
1 ATTAATTTTG
65388998 A
1 A
65388999 CAGATTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (10 bp):
ATTAATTTTG
Found at i:65393480 original size:19 final size:19
Alignment explanation
Indices: 65393458--65393494 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
65393448 CATTTCTATT
65393458 CATCCCTCATCACTCATCC
1 CATCCCTCATCACTCATCC
*
65393477 CATCCCTCATCATTCATC
1 CATCCCTCATCACTCATC
65393495 ATTCTCTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.49, G:0.00, T:0.30
Consensus pattern (19 bp):
CATCCCTCATCACTCATCC
Found at i:65395190 original size:50 final size:50
Alignment explanation
Indices: 65395066--65395252 Score: 254
Period size: 50 Copynumber: 3.8 Consensus size: 50
65395056 GGTTATGTGT
* * * *
65395066 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCAATATA-CA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATGTATGA
65395115 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
* * *
65395164 GAGCCAATGTAAGACCATGTTTGGGACATAGCATCGGCACCGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
** *
65395214 GAGCCAGTGTAAGACCATGTCCAGGACATGGGATCGGCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
65395253 TTTTACCCTT
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
48 41 0.34
49 2 0.02
50 79 0.65
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.20
Consensus pattern (50 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
Found at i:65397437 original size:361 final size:360
Alignment explanation
Indices: 65396768--65397490 Score: 1347
Period size: 361 Copynumber: 2.0 Consensus size: 360
65396758 TTAATTAGAG
* * *
65396768 GTCCTTAAATAGTAATTTTCCCAATTTTTATTTTTATGGACAAAAATGGGCATGAATAGGAAAAA
1 GTCCTTAAATAGCAATTTGCCCAATTTTTATTTTTATGGACAAAAATGGGCATAAATAGGAAAAA
*
65396833 TTTGAAAGAAATGCCTTAAGGGTATTTTTGTCATTTAGTGAATAAAAGAATAAAAAGGGAAAAAT
66 TTTGAAAGAAATGCCTTAAGGGTATTTTTGTCATTTAGTGAATAAAAGAAAAAAAAGGGAAAAAT
65396898 AAGTCAAAAATTGTGTCCATCTTCCTCCTCCTTAGCTGAAATTCTCAAGGAGCCATAGCTAGTGT
131 AAGTCAAAAATTGTGTCCATCTTCCTCCTCCTTAGCTGAAATTCTCAAGGAGCCATAGCTAGTGT
* *
65396963 TTTGTTCATCCTTTCACGCTCGGGTTCTAAGTACACCCTAGGCCTGTTTTTAATGTTCGTTATGT
196 TTTGTTCATCCTTTCAAGCTCGGGTTCTAAGTACACCCTAGCCCTGTTTTTAATGTTCGTTATGT
65397028 TTTTGAGATCCTTGAAGCATGATCTAGCTATTTCTACCATTATTTTGAGCTAGGGTTCATGTTCA
261 TTTTGAGATCCTTGAAGCATGATCTAGCTATTTCTACCATTATTTTGAGCTA-GGTTCATGTTCA
65397093 AAAACTTACCCATGTGTGACATGCATGTACTTTGGT
325 AAAACTTACCCATGTGTGACATGCATGTACTTTGGT
65397129 GTCCTTAAATAGCAATTTGCCCAATTTTTATTTTTATGGACAAAAATGGGCATAAATAGGAAAAA
1 GTCCTTAAATAGCAATTTGCCCAATTTTTATTTTTATGGACAAAAATGGGCATAAATAGGAAAAA
* *
65397194 TTTGAAAGAAATGCCTTAAGGGTATTTTTGTCATTTGGTTAATAAAAGAAAAAAAAGGGAAAAAT
66 TTTGAAAGAAATGCCTTAAGGGTATTTTTGTCATTTAGTGAATAAAAGAAAAAAAAGGGAAAAAT
65397259 AAGTCAAAAATTGTGTCCATCTTCCTCCTCCTTAGCTGAAATTCTCAAGGAGCCATAGCTAGTGT
131 AAGTCAAAAATTGTGTCCATCTTCCTCCTCCTTAGCTGAAATTCTCAAGGAGCCATAGCTAGTGT
*
65397324 TTTGTTCATCCTTTCAAGCTCGGGTTCTAAGTACACCCTAGCCCTGTTTTTAATGTTCTTTATGT
196 TTTGTTCATCCTTTCAAGCTCGGGTTCTAAGTACACCCTAGCCCTGTTTTTAATGTTCGTTATGT
*
65397389 TTTTGAGATCCTTGAAGCATGATCTAGCTATTTCTACCATTGTTTTGAGCTAGGTTCATGTTCAA
261 TTTTGAGATCCTTGAAGCATGATCTAGCTATTTCTACCATTATTTTGAGCTAGGTTCATGTTCAA
65397454 AAACTTACCCATGTGTGACATGCATGTACTTTGGT
326 AAACTTACCCATGTGTGACATGCATGTACTTTGGT
65397489 GT
1 GT
65397491 TTAATGGAGG
Statistics
Matches: 352, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
360 50 0.14
361 302 0.86
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (360 bp):
GTCCTTAAATAGCAATTTGCCCAATTTTTATTTTTATGGACAAAAATGGGCATAAATAGGAAAAA
TTTGAAAGAAATGCCTTAAGGGTATTTTTGTCATTTAGTGAATAAAAGAAAAAAAAGGGAAAAAT
AAGTCAAAAATTGTGTCCATCTTCCTCCTCCTTAGCTGAAATTCTCAAGGAGCCATAGCTAGTGT
TTTGTTCATCCTTTCAAGCTCGGGTTCTAAGTACACCCTAGCCCTGTTTTTAATGTTCGTTATGT
TTTTGAGATCCTTGAAGCATGATCTAGCTATTTCTACCATTATTTTGAGCTAGGTTCATGTTCAA
AAACTTACCCATGTGTGACATGCATGTACTTTGGT
Found at i:65397760 original size:30 final size:30
Alignment explanation
Indices: 65397702--65397760 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
65397692 TTTACAAGCC
* * *
65397702 TAGGGGCTAATTTGTAATTATGTGAAAGTT
1 TAGGGGCAAAATTGTAATTATGTCAAAGTT
* *
65397732 TAGGGGCAAAATTGTAATTTTTTCAAAGT
1 TAGGGGCAAAATTGTAATTATGTCAAAGT
65397761 ATGATTTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (30 bp):
TAGGGGCAAAATTGTAATTATGTCAAAGTT
Found at i:65398259 original size:48 final size:48
Alignment explanation
Indices: 65398104--65398331 Score: 191
Period size: 48 Copynumber: 4.9 Consensus size: 48
65398094 GGTTATGTGT
* * * * *
65398104 GATCCCATGTAAGACCATGTCTGGGACATGGCATTCGCGTCGTTATGA
1 GATCCTATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGA
* * * *
65398152 GATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACACGT
1 GATCCTATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGA
* * *
65398200 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATAGATATGA
1 GATCCTATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGA
* * * * * * * *
65398248 GA-CATTGTGTAAGACCATAGCTGGG-C-T---ATCGGCTTTGATCTGT
1 GATC-CTATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGA
* *
65398291 GATCCCATGTAAGACCATATCTAGG-CTATGGCATTGGCATC
1 GATCCTATGTAAGACCATATCTGGGAC-ATGGCATTGGCATC
65398332 TTACTATGTT
Statistics
Matches: 141, Mismatches: 32, Indels: 14
0.75 0.17 0.07
Matches are distributed among these distances:
43 30 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 107 0.76
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (48 bp):
GATCCTATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGA
Found at i:65398272 original size:96 final size:91
Alignment explanation
Indices: 65398102--65398330 Score: 241
Period size: 96 Copynumber: 2.5 Consensus size: 91
65398092 AGGGTTATGT
* * * * * *
65398102 GTGATCCCATGTAAGACCATGTCTGGGACATGGCATTCGCGTCGTTATGAGATCCTATGTAAGAC
1 GTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATAGATATGAGATCCTATGTAAGAC
65398167 CATGTCTGGGAC-AT-GGCATTGGCATCGACAC
66 CATGTCTGGG-CTATCGGC-TTGG-AT---C-C
* *
65398198 GTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATAGATATGAGA-CATTGTGTAAGA
1 GTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATAGATATGAGATC-CTATGTAAGA
* *
65398262 CCATAG-CTGGGCTATCGGCTTTGATCT
65 CCAT-GTCTGGGCTATCGGCTTGGATCC
* *
65398289 GTGATCCCATGTAAGACCATATCTAGGCTATGGCATTGGCAT
1 GTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCAT
65398331 CTTACTATGT
Statistics
Matches: 117, Mismatches: 12, Indels: 13
0.82 0.08 0.09
Matches are distributed among these distances:
91 40 0.34
92 1 0.01
95 4 0.03
96 68 0.58
97 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (91 bp):
GTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATAGATATGAGATCCTATGTAAGAC
CATGTCTGGGCTATCGGCTTGGATCC
Found at i:65405729 original size:53 final size:53
Alignment explanation
Indices: 65405548--65405754 Score: 207
Period size: 53 Copynumber: 3.8 Consensus size: 53
65405538 ATTAGGGTTT
* * * * * *
65405548 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
65405602 AAGGAAATCATGTAAGACTATGTCAAGACATGGCATTGATAAACTACAATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
65405657 AAAGATCCCATGTAAGACCATGGCAAGACATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
65405710 AAGGGTACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
65405755 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 45 0.37
54 37 0.30
55 40 0.33
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:65409616 original size:23 final size:23
Alignment explanation
Indices: 65409586--65409632 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
65409576 TGACCCTTCC
65409586 AACCTTTCCTGGGAATTAATTTA
1 AACCTTTCCTGGGAATTAATTTA
65409609 AACCTTTCCTGGGAATTAATTTA
1 AACCTTTCCTGGGAATTAATTTA
65409632 A
1 A
65409633 TGTAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (23 bp):
AACCTTTCCTGGGAATTAATTTA
Found at i:65415575 original size:40 final size:40
Alignment explanation
Indices: 65415531--65415736 Score: 166
Period size: 40 Copynumber: 5.2 Consensus size: 40
65415521 ATTGAATGAG
* * *
65415531 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTAT
* * * * ** *
65415571 ATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACCAC
1 ATCCGGGCTAAGTCCCGAAGG-CATTTGTGCAAGTAATTAT
* ** *
65415611 ATCCGGGCTAA-TACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGT-CCCGAAGGCATTTGTGCAAGTAATTAT
** *
65415651 ATCCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGT-CCCGAAGGCATTTGTGCAAGTAATTAT
* * * **
65415691 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTAT
65415731 ATCCGG
1 ATCCGG
65415737 TTGTATTCCA
Statistics
Matches: 136, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.01
40 132 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTAT
Found at i:65415667 original size:80 final size:80
Alignment explanation
Indices: 65415531--65415736 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
65415521 ATTGAATGAG
* ** * * *
65415531 ATCCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 ATCCGGGCTAA-TACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CA
*
65415595 -TTGTGCTAGT-GACCAC
64 TTTGTGCAAGTCGACC-C
* * *
65415611 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
65415676 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* * *
65415691 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
65415737 TTGTATTCCA
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:65426394 original size:38 final size:39
Alignment explanation
Indices: 65426282--65426423 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
65426272 CCGCACAAAG
*
65426282 GCCTTCGGGACTTAACCCGGAT-TCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
65426321 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
65426360 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
65426398 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
65426424 TCGAACATTC
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
38 46 0.49
39 48 0.51
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:65426399 original size:77 final size:78
Alignment explanation
Indices: 65426242--65426422 Score: 258
Period size: 77 Copynumber: 2.3 Consensus size: 78
65426232 TCGTTCAAAC
* * **
65426242 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATTCA
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATTCA
65426307 CAATTTGCACAATT
65 CAATTTGCACAATT
* ** *
65426321 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGAT-TCA
65426384 CAATTTGCACAATT
65 CAATTTGCACAATT
65426398 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
65426423 CTCGAACATT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
76 1 0.01
77 51 0.55
78 32 0.34
79 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATTCAC
AATTTGCACAATT
Found at i:65428956 original size:40 final size:40
Alignment explanation
Indices: 65428912--65429117 Score: 166
Period size: 40 Copynumber: 5.2 Consensus size: 40
65428902 ATTGAATGAG
* * *
65428912 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTAT
* * * * ** *
65428952 ATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACCAC
1 ATCCGGGCTAAGTCCCGAAGG-CATTTGTGCAAGTAATTAT
* ** *
65428992 ATCCGGGCTAA-TACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGT-CCCGAAGGCATTTGTGCAAGTAATTAT
** *
65429032 ATCCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGT-CCCGAAGGCATTTGTGCAAGTAATTAT
* * * **
65429072 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTAT
65429112 ATCCGG
1 ATCCGG
65429118 TTGTATTCCG
Statistics
Matches: 136, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.01
40 132 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTAT
Found at i:65429048 original size:80 final size:80
Alignment explanation
Indices: 65428912--65429117 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
65428902 ATTGAATGAG
* ** * * *
65428912 ATCCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 ATCCGGGCTAA-TACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CA
*
65428976 -TTGTGCTAGT-GACCAC
64 TTTGTGCAAGTCGACC-C
* * *
65428992 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
65429057 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* * *
65429072 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
65429118 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:65435000 original size:43 final size:43
Alignment explanation
Indices: 65434947--65435028 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
65434937 GATATATGTG
*
65434947 GCATCCGAGCTTGCTGAGTGGTCCGAATTCATTATGGATGCGA
1 GCATCCGAGCTCGCTGAGTGGTCCGAATTCATTATGGATGCGA
* * * *
65434990 GCATCTGAGCTCGTTGAGTGGTCTGAGTTCATTATGGAT
1 GCATCCGAGCTCGCTGAGTGGTCCGAATTCATTATGGAT
65435029 ACGATGCCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (43 bp):
GCATCCGAGCTCGCTGAGTGGTCCGAATTCATTATGGATGCGA
Found at i:65438671 original size:22 final size:23
Alignment explanation
Indices: 65438628--65438673 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
65438618 TTTTAGGTCT
*
65438628 TTAGGAATTTATTTCTTTCATAA
1 TTAGGAATTTATTTCTTGCATAA
65438651 TTAGG-ATTTAATTTC-TGCATAA
1 TTAGGAATTT-ATTTCTTGCATAA
65438673 T
1 T
65438674 AAAACATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (23 bp):
TTAGGAATTTATTTCTTGCATAA
Found at i:65442275 original size:101 final size:102
Alignment explanation
Indices: 65442147--65442385 Score: 286
Period size: 101 Copynumber: 2.4 Consensus size: 102
65442137 AGACAAGGTT
* * * * * * *
65442147 TTACTCGCACA-CATATATCCG-AATCACATTTCGATTCCAATGTATAAAACGTGGACTTACTTG
1 TTACTCACACATCACATATCAGAAATCACATATCGATGCCAATGTATAAAACATGGACTTACTCG
* * * * *
65442210 TACATATATATCGAAATCACATATTGATGCCATGGTC
66 CACACATATATAGAAATCACACATTAATGCCATGGTC
* *
65442247 TTACTCACACATCACATATCA-AAATCACATATCGATGCCAATGTATTAAACATGGTCTTACTCG
1 TTACTCACACATCACATATCAGAAATCACATATCGATGCCAATGTATAAAACATGGACTTACTCG
* *
65442311 CGCACATATATAGGAATCACACATTAATGCCATGGTC
66 CACACATATATAGAAATCACACATTAATGCCATGGTC
* * *
65442348 TTACTCGCACATCACATATCAGAATTCACATGTCGATG
1 TTACTCACACATCACATATCAGAAATCACATATCGATG
65442386 TCTCATATAC
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
100 10 0.09
101 93 0.79
102 14 0.12
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (102 bp):
TTACTCACACATCACATATCAGAAATCACATATCGATGCCAATGTATAAAACATGGACTTACTCG
CACACATATATAGAAATCACACATTAATGCCATGGTC
Found at i:65444335 original size:14 final size:14
Alignment explanation
Indices: 65444301--65444336 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
65444291 CTCACATTTC
65444301 TATTCATCCCTCAT
1 TATTCATCCCTCAT
* *
65444315 CACTCATCCCTCAT
1 TATTCATCCCTCAT
65444329 TATTCATC
1 TATTCATC
65444337 ATTCTCTCCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.39, G:0.00, T:0.39
Consensus pattern (14 bp):
TATTCATCCCTCAT
Found at i:65446087 original size:48 final size:46
Alignment explanation
Indices: 65445929--65446159 Score: 191
Period size: 48 Copynumber: 5.0 Consensus size: 46
65445919 TAGGGTTATG
* * * * * * *
65445929 TGTGATCCTATGTAAGACCATGTCTGTGACAAGGCATTGACATCGTTA
1 TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG--A
* * * *
65445977 TGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACA
1 TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG--A
** *
65446025 CATGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGA
1 TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGA
* * * * * *
65446071 TGTGAGACATCGTGTAAGACCATAGCTGGGCTATTAGC-TTTG-ATC--
1 TGTGA-AC-CCATGTAAGACCATATCTGGGATA-TGGCATTGGCATCGA
65446116 TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
65446160 TTACTATGTT
Statistics
Matches: 151, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
42 3 0.02
43 23 0.15
44 5 0.03
45 5 0.03
46 4 0.03
47 4 0.03
48 104 0.69
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (46 bp):
TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGA
Found at i:65446100 original size:96 final size:91
Alignment explanation
Indices: 65445931--65446159 Score: 221
Period size: 96 Copynumber: 2.5 Consensus size: 91
65445921 GGGTTATGTG
* * * * * * *
65445931 TGATCCTATGTAAGACCATGTCTGTGACAAGGCATTGACATCGTTATGAGATCCCATGTAAGACC
1 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCATGTAAGACC
*
65445996 ATGTCTGGGACATGGCATTGGCATCGA-CACA
66 ATGTCTGGG-C-T---ATTAGCATCGATC-CA
* * *
65446027 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATGTGAGA-CATCGTGTAAGAC
1 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATC-CCATGTAAGAC
* * **
65446091 CATAG-CTGGGCTATTAGCTTTGATCTG
65 CAT-GTCTGGGCTATTAGCATCGATCCA
*
65446118 TGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
65446160 TTACTATGTT
Statistics
Matches: 114, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
91 49 0.43
92 1 0.01
94 1 0.01
95 2 0.02
96 60 0.53
97 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (91 bp):
TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCATGTAAGACC
ATGTCTGGGCTATTAGCATCGATCCA
Found at i:65448558 original size:42 final size:41
Alignment explanation
Indices: 65448448--65448560 Score: 111
Period size: 44 Copynumber: 2.7 Consensus size: 41
65448438 TTCCGATATG
* * * *
65448448 TGATTTCGTGTAAGACCAC-ATCTGGGACGTTGGCATTGATT
1 TGATTTCGTGTAAGACC-CTGTCTGGGACATTGGCATCGATA
* **
65448489 TGAGATTTACATGTAAGACAATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCCTGTCTGGGACATTGGCATCG-ATA
65448534 TGATTTCGTGTAAGACCCTGTCTGGGA
1 TGATTTCGTGTAAGACCCTGTCTGGGA
65448561 TAGTGACATC
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.02
42 18 0.32
43 10 0.18
44 25 0.44
45 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGATA
Found at i:65453399 original size:32 final size:32
Alignment explanation
Indices: 65453358--65453418 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
65453348 AGTCTGAGAT
65453358 TCAGAGGTCGAATTTGTGTTCCGAGAAACGTC
1 TCAGAGGTCGAATTTGTGTTCCGAGAAACGTC
65453390 TCAGAGGTCGAATTTGTGTTCCGAGAAAC
1 TCAGAGGTCGAATTTGTGTTCCGAGAAAC
65453419 TCAGAATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (32 bp):
TCAGAGGTCGAATTTGTGTTCCGAGAAACGTC
Found at i:65454535 original size:27 final size:27
Alignment explanation
Indices: 65454503--65454976 Score: 544
Period size: 27 Copynumber: 17.6 Consensus size: 27
65454493 AAGTACTCCT
65454503 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* *
65454530 -AGTTTATAGAATTACTGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
** *
65454557 GATTTGTAAAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
65454584 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
**
65454611 -AGTTTACAGAATTACTATTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
65454638 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** *
65454665 -AGTTTACAGAATTATTGTTTTACCCTT
1 GA-TTTACAGAATTACCGTTTTACCCTC
***
65454692 GATTTACAGAATTATTATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
65454719 GATTTATAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** * *
65454746 GATTTGTAAAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
65454773 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* **
65454800 -AGTTTACAGAATCACTATTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
65454827 GATTTATAGAATTACCGTTTTACCC-C
1 GATTTACAGAATTACCGTTTTACCCTC
* * * * *
65454853 TAATTTATATAATTACCATTTTACCCCC
1 -GATTTACAGAATTACCGTTTTACCCTC
* * *
65454881 GATTTACATAATTATCGTTTTCCCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* *
65454908 GATTTACAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTC
* *
65454935 GATTTACAGAATTACTGTTTTACCTTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
65454962 GATTTACAAAATTAC
1 GATTTACAGAATTAC
65454977 TAAAATACCC
Statistics
Matches: 387, Mismatches: 50, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 377 0.97
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
GATTTACAGAATTACCGTTTTACCCTC
Found at i:65456244 original size:25 final size:25
Alignment explanation
Indices: 65456216--65456263 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65456206 TTATACCATG
* * *
65456216 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
65456241 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
65456264 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:65456332 original size:20 final size:20
Alignment explanation
Indices: 65456307--65456345 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
65456297 TAAATATGGT
65456307 ATGTATGAGATGCACATGAC
1 ATGTATGAGATGCACATGAC
*
65456327 ATGTATGATATGCACATGA
1 ATGTATGAGATGCACATGA
65456346 TGTAATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (20 bp):
ATGTATGAGATGCACATGAC
Found at i:65456423 original size:24 final size:24
Alignment explanation
Indices: 65456396--65456586 Score: 296
Period size: 24 Copynumber: 8.0 Consensus size: 24
65456386 GAGGAAGTGA
65456396 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
65456420 AAAAGGGCTTATGCCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATC
65456444 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
65456468 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
65456492 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
65456515 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
65456539 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
65456563 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
65456587 ATGATAAAGC
Statistics
Matches: 157, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
23 23 0.15
24 123 0.78
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:65462695 original size:99 final size:99
Alignment explanation
Indices: 65462493--65462723 Score: 295
Period size: 99 Copynumber: 2.3 Consensus size: 99
65462483 CTGGTACGCA
* * * *
65462493 TAGTAGCTTGTACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
1 TAGTAGCCTGAACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
65462558 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACAATCTGATACACG
* * * * *
65462592 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCTCT
1 TAGTAGCCTGAACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* * * *
65462657 TAGTACTATACATGCGACC-AATAATC-GGTACACG
64 TAGTACTACACACGCGACCTAACAATCTGATACACG
65462691 TAGTAGCCTGAACTTAGTACTACACACGTGACC
1 TAGTAGCCTGAACTTAGTACTACACACGTGACC
65462724 TCACAATAGA
Statistics
Matches: 114, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
98 1 0.01
99 64 0.56
100 8 0.07
101 41 0.36
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGAACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACAATCTGATACACG
Found at i:65479239 original size:47 final size:47
Alignment explanation
Indices: 65479178--65479307 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
65479168 GTACGAATAA
* * *
65479178 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCA-GAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT-ATGAGAGAAGT
* *
65479225 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTATGGGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTATGAGAGAAGT
*
65479272 TACCTTGATTTAGCTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
65479308 TATCAATTGA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
46 1 0.01
47 75 0.99
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTATGAGAGAAGT
Found at i:65486333 original size:29 final size:29
Alignment explanation
Indices: 65486291--65486380 Score: 171
Period size: 29 Copynumber: 3.1 Consensus size: 29
65486281 GTGAAGAAGT
*
65486291 TAGCTTCGATGAATCGATCTATTCAGAGA
1 TAGCTTCGGTGAATCGATCTATTCAGAGA
65486320 TAGCTTCGGTGAATCGATCTATTCAGAGA
1 TAGCTTCGGTGAATCGATCTATTCAGAGA
65486349 TAGCTTCGGTGAATCGATCTATTCAGAGA
1 TAGCTTCGGTGAATCGATCTATTCAGAGA
65486378 TAG
1 TAG
65486381 TTAAAGGAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (29 bp):
TAGCTTCGGTGAATCGATCTATTCAGAGA
Found at i:65493353 original size:41 final size:42
Alignment explanation
Indices: 65493262--65493353 Score: 105
Period size: 44 Copynumber: 2.2 Consensus size: 42
65493252 TATTCAGCCA
**
65493262 AAGCTATATCGATATCGCACACTTAGTGCTATCACATTGAACCG
1 AAGCTATATCGATATCGCACACTTAGTGC--TCACATAAAACCG
* * *
65493306 AAGCTATCTCGGTATCGCACACTTAGTGC-CACATAAAATCG
1 AAGCTATATCGATATCGCACACTTAGTGCTCACATAAAACCG
*
65493347 ACGCTAT
1 AAGCTAT
65493354 TTAAATTCGC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 15 0.36
44 27 0.64
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
AAGCTATATCGATATCGCACACTTAGTGCTCACATAAAACCG
Found at i:65494185 original size:15 final size:15
Alignment explanation
Indices: 65494165--65494195 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
65494155 GCCATTAAGA
65494165 TGAATGAATCAAATT
1 TGAATGAATCAAATT
65494180 TGAATGAATCAAATT
1 TGAATGAATCAAATT
65494195 T
1 T
65494196 TGTCTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (15 bp):
TGAATGAATCAAATT
Found at i:65501285 original size:2 final size:2
Alignment explanation
Indices: 65501278--65501305 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
65501268 TATCATGTTA
65501278 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65501306 GAGTATGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65501886 original size:21 final size:21
Alignment explanation
Indices: 65501844--65501887 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
65501834 GGCCTACAAC
*
65501844 ACGGGTGTGTCCTATGATCAT
1 ACGGGTGTGTCCTATGACCAT
65501865 ACGGGTGTGTCCCT-TGACCAT
1 ACGGGTGTGT-CCTATGACCAT
65501886 AC
1 AC
65501888 AGGCATGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (21 bp):
ACGGGTGTGTCCTATGACCAT
Found at i:65503204 original size:22 final size:23
Alignment explanation
Indices: 65503157--65503208 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
65503147 TTTAATTGAT
* * *
65503157 TAAAATATTAAAATATATTATAA
1 TAAAATAATAAAATAGATAATAA
65503180 TAAAATAATAAAA-AGATAATAA
1 TAAAATAATAAAATAGATAATAA
65503202 TAAAATA
1 TAAAATA
65503209 TTTCACCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
TAAAATAATAAAATAGATAATAA
Found at i:65505435 original size:44 final size:40
Alignment explanation
Indices: 65505318--65505487 Score: 261
Period size: 40 Copynumber: 4.2 Consensus size: 40
65505308 GGACTAAGAT
* *
65505318 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
65505358 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
65505398 CCGAAGGCATTTGTGCGAGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGT----GCGAGTTACTATATCCGGGCTAAGTC
* *
65505442 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
65505481 CCGAAGG
1 CCGAAGG
65505488 TACTTGGGTT
Statistics
Matches: 122, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
39 15 0.12
40 67 0.55
44 40 0.33
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:65507687 original size:15 final size:15
Alignment explanation
Indices: 65507667--65507696 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
65507657 CACCTTGAGT
65507667 ACATTTCATCATATA
1 ACATTTCATCATATA
65507682 ACATTTCATCATATA
1 ACATTTCATCATATA
65507697 CATATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (15 bp):
ACATTTCATCATATA
Found at i:65509191 original size:7 final size:7
Alignment explanation
Indices: 65509179--65509211 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
65509169 TATACGTGCG
65509179 TAATTAA
1 TAATTAA
65509186 TAATTAA
1 TAATTAA
65509193 TAATTAA
1 TAATTAA
*
65509200 TAA-AAA
1 TAATTAA
65509206 TAATTA
1 TAATTA
65509212 TGTTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
TAATTAA
Found at i:65510472 original size:55 final size:54
Alignment explanation
Indices: 65510372--65510571 Score: 183
Period size: 55 Copynumber: 3.7 Consensus size: 54
65510362 TTAAGGATAC
* * * *
65510372 CATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTT-TCTAAGGCAAGAAAAT
1 CATGTAAGACCATGCCAAGACATGG-CATTGATAA-GTTCTATAAGGCAAGAAAAT
* **
65510427 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC-A-AAGGT
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGCAAGAAAAT
* * * * * *
65510480 CCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 --CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGAAAAT
* * *
65510535 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTT
65510572 TCAAAAGGAT
Statistics
Matches: 120, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
53 46 0.38
54 10 0.08
55 64 0.53
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGAAAAT
Found at i:65510570 original size:108 final size:110
Alignment explanation
Indices: 65510371--65510571 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
65510361 TTTAAGGATA
*
65510371 CCATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTCTAAGGCAAGAAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTCTAAGGCAAGAAAACCATGTAAGA
*
65510436 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * * * *
65510481 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTC-TAAGGCAAGAAAACCATGTAAG
*
65510543 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
65510572 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 5 0.06
110 26 0.32
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTCTAAGGCAAGAAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:65510836 original size:16 final size:16
Alignment explanation
Indices: 65510815--65510845 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65510805 ATAAATTTGA
65510815 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
65510831 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
65510846 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:65514379 original size:93 final size:93
Alignment explanation
Indices: 65514267--65514438 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
65514257 CGCCCATAAG
* *
65514267 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65514332 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
65514360 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65514425 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
65514439 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65514435 original size:46 final size:46
Alignment explanation
Indices: 65514260--65514435 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
65514250 TGTAACCCGC
* * *
65514260 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
65514306 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
65514356 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
65514399 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65514436 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65521962 original size:46 final size:45
Alignment explanation
Indices: 65521869--65521954 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
65521859 TACATCTCAC
* * *
65521869 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACACAACGAGTTCGGA-ATGCGCAACCATAAGT
*
65521915 GAACTCGGACTCAACACAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACACAACGAGTTCGGAATGCGCAACCAT
65521955 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (45 bp):
GAACTCGGACTCAACACAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:65524654 original size:358 final size:358
Alignment explanation
Indices: 65523997--65524704 Score: 1328
Period size: 358 Copynumber: 2.0 Consensus size: 358
65523987 TAAAACTTGA
*
65523997 GCTAACAACGAATCTGGATAAGTAATTAAACACCAACCCTGCTTAGCTAGTAACGCAATATTAAA
1 GCTAACAACGAATCTAGATAAGTAATTAAACACCAACCCTGCTTAGCTAGTAACGCAATATTAAA
65524062 TTTGTCAAATTCTCGGAATCCAATACCTCCTTCTTCCTTGAAAGAACATAAATCCTTCCATGCAA
66 TTTGTCAAATTCTCGGAATCCAATACCTCCTTCTTCCTTGAAAGAACATAAATCCTTCCATGCAA
*
65524127 ACTAATGAATTCCTTTCTTATCCCTGGCTTTTTACCATTAGAAATTTAATATTAATCTCTCCAAA
131 ACTAATGAATTCCTTTCTTATCCCTGACTTTTTACCATTAGAAATTTAATATTAATCTCTCCAAA
** *
65524192 TTTGTACAAAAGGACTTAGGAAGTAGAAAGCATGACGTAGAATGAGTTGGAATGGATTGAAAAAC
196 TCCGTACAAAAGGACTTAGGAAGTAGAAAGCATGACGTAGAATAAGTTGGAATGGATTGAAAAAC
65524257 TGCCTTAATAAAAACATCCTTTCCTCCTTAGGAAAGATGTTTAACACTCCAATTATCTATTCTCT
261 TGCCTTAATAAAAACATCCTTTCCTCCTTAGGAAAGATGTTTAACACTCCAATTATCTATTCTCT
*
65524322 ATTGCAATCTATGTTTCAAGTTTTGGAAAGACG
326 ATTGCAATCTATCTTTCAAGTTTTGGAAAGACG
*
65524355 GCTAACAACGAATCTAGATAAGTAATTAAACACCAACCCTGCTTAGCTAGTAACGCGATATTAAA
1 GCTAACAACGAATCTAGATAAGTAATTAAACACCAACCCTGCTTAGCTAGTAACGCAATATTAAA
65524420 TTTGTCAAATTCTCGGAATCCAATACCTCCTTCTTCCTTGAAAGAACATAAATCCTTCCATGCAA
66 TTTGTCAAATTCTCGGAATCCAATACCTCCTTCTTCCTTGAAAGAACATAAATCCTTCCATGCAA
65524485 ACTAATGAATTCCTTTCTTATCCCT-ACTTTTTTACCATTAGAAATTTAATATTAATCTCTCCAA
131 ACTAATGAATTCCTTTCTTATCCCTGAC-TTTTTACCATTAGAAATTTAATATTAATCTCTCCAA
65524549 ATCCGTACAAAAGGACTTAGGAAGTAGAAAGCATGACGTAGAATAAGTTGGAATGGATTGAAAAA
195 ATCCGTACAAAAGGACTTAGGAAGTAGAAAGCATGACGTAGAATAAGTTGGAATGGATTGAAAAA
65524614 CTGCCTTAATAAAAACATCCTTTCCTCCTTAGGAAAGATGTTTAACACTCCAATTATCTATTCTC
260 CTGCCTTAATAAAAACATCCTTTCCTCCTTAGGAAAGATGTTTAACACTCCAATTATCTATTCTC
*
65524679 TGTTGCAATCTATCTTTCAAGTTTTG
325 TATTGCAATCTATCTTTCAAGTTTTG
65524705 AATAATTAAC
Statistics
Matches: 341, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
357 1 0.00
358 340 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (358 bp):
GCTAACAACGAATCTAGATAAGTAATTAAACACCAACCCTGCTTAGCTAGTAACGCAATATTAAA
TTTGTCAAATTCTCGGAATCCAATACCTCCTTCTTCCTTGAAAGAACATAAATCCTTCCATGCAA
ACTAATGAATTCCTTTCTTATCCCTGACTTTTTACCATTAGAAATTTAATATTAATCTCTCCAAA
TCCGTACAAAAGGACTTAGGAAGTAGAAAGCATGACGTAGAATAAGTTGGAATGGATTGAAAAAC
TGCCTTAATAAAAACATCCTTTCCTCCTTAGGAAAGATGTTTAACACTCCAATTATCTATTCTCT
ATTGCAATCTATCTTTCAAGTTTTGGAAAGACG
Found at i:65527783 original size:29 final size:29
Alignment explanation
Indices: 65527689--65527761 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
65527679 GTGACGAGAT
65527689 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
65527718 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
65527747 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
65527762 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:65529524 original size:20 final size:18
Alignment explanation
Indices: 65529499--65529535 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
65529489 ATTGCTAAGT
65529499 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
65529519 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
65529536 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:65534915 original size:18 final size:18
Alignment explanation
Indices: 65534864--65534916 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
65534854 TAAGTTTTTT
*
65534864 ATAATTTTATAAAAATTAAA
1 ATAATTTT-T-AAATTTAAA
*
65534884 ATAA-TTTTATAATTTATA
1 ATAATTTTTA-AATTTAAA
65534902 ATAATTTTTAAATTT
1 ATAATTTTTAAATTT
65534917 TTTAGTAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 1 0.03
18 16 0.55
19 8 0.28
20 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAATTTTTAAATTTAAA
Found at i:65534919 original size:28 final size:29
Alignment explanation
Indices: 65534842--65534920 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 29
65534832 TATTAATTAT
*
65534842 TAATAATTTATATAAGTTTTTTATAATTTTA
1 TAATAATTT-T-TAAATTTTTTATAATTTTA
* * *
65534873 TAA-AA-ATTAAAATAATTTTATAA-TTTA
1 TAATAATTTTTAAAT-TTTTTATAATTTTA
65534900 TAATAATTTTTAAATTTTTTA
1 TAATAATTTTTAAATTTTTTA
65534921 GTAAGAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
27 10 0.26
28 16 0.42
29 7 0.18
30 2 0.05
31 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (29 bp):
TAATAATTTTTAAATTTTTTATAATTTTA
Found at i:65548359 original size:93 final size:94
Alignment explanation
Indices: 65548116--65548364 Score: 256
Period size: 93 Copynumber: 2.6 Consensus size: 94
65548106 TTCCAAACAT
** *
65548116 GGTCTTACACTAGCTCTCAC-ATCTAAGTCGATGCCATGTCCTAGACAAGTCTTACACTAACTTC
1 GGTCTTACACTAGCTCTCACTATCTGGGCCGATGCCATGTCCTAGACAAGTCTTACACTAA---C
* * *
65548180 CATACATCGAGGCTGATGCCATGTCCCAGACA
63 CACACATCGAAGCTGATGCCAAGTCCCAGACA
* * * * * * *
65548212 GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAAATAGGTCTTACACTAA-CA
1 GGTCTTACACTAGCTCTCAC-TATCTGGGCCGATGCCATGTCCTAGACAAGTCTTACACTAACCA
* *
65548276 CACCTC-AAGCTGATGCCAAGTCCTAGACA
65 CACATCGAAGCTGATGCCAAGTCCCAGACA
*
65548305 GGTCTTCCACTAGCT-TGCA-TATCTTGAGGCCGATGCCATGTCCTAGACAAGTCTTACACT
1 GGTCTTACACTAGCTCT-CACTATC-TG-GGCCGATGCCATGTCCTAGACAAGTCTTACACT
65548365 GGCTCTCATC
Statistics
Matches: 128, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
91 4 0.03
92 3 0.02
93 62 0.48
94 6 0.05
96 19 0.15
98 34 0.27
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
GGTCTTACACTAGCTCTCACTATCTGGGCCGATGCCATGTCCTAGACAAGTCTTACACTAACCAC
ACATCGAAGCTGATGCCAAGTCCCAGACA
Found at i:65548387 original size:49 final size:49
Alignment explanation
Indices: 65548094--65548422 Score: 198
Period size: 49 Copynumber: 6.8 Consensus size: 49
65548084 AAGGTACGAT
* * * *
65548094 GCCGACGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCA-C-ATCTAA
1 GCCGATGCCATG-TCCTAGACA-GGTCTTACACTAGCTCTCATCTATCGAG
* * *
65548142 GTCGATGCCATGTCCTAGACAAGTCTTACACTAACT-TCCATAC-ATCGAG
1 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCT-CAT-CTATCGAG
* * * *
65548191 GCTGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCA-CTTATCTG-T
1 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCATC-TATC-GAG
* * * * * * * *
65548240 GTCGATGCCATGTCCCAAATAGGTCTTACACTA--ACACA-C-CTC-AA
1 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCATCTATCGAG
* * * * * *
65548284 GCTGATGCCAAGTCCTAGACAGGTCTTCCACTAGCT-TGCATATCTTGAG
1 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCT-CATCTATCGAG
* * *
65548333 GCCGATGCCATGTCCTAGACAAGTCTTACACTGGCTCTCATCTATCGAT
1 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCATCTATCGAG
* * * * * *
65548382 CCCGATTCCATGTCCCAGGCAGGTCCTACACTAGCACTCAT
1 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCAT
65548423 ATCACCCAAA
Statistics
Matches: 213, Mismatches: 52, Indels: 31
0.72 0.18 0.10
Matches are distributed among these distances:
44 26 0.12
45 2 0.01
46 3 0.01
47 23 0.11
48 16 0.08
49 140 0.66
50 3 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (49 bp):
GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCATCTATCGAG
Found at i:65548406 original size:142 final size:142
Alignment explanation
Indices: 65548145--65548414 Score: 348
Period size: 142 Copynumber: 1.9 Consensus size: 142
65548135 CATCTAAGTC
* *
65548145 GATGCCATGTCCTAGACAAGTCTTACACTAACTTCCATACATCGAGGCTGATGCCATGTCCCAGA
1 GATGCCAAGTCCTAGACAAGTCTTACACTAACTTCCATACATCGAGGCCGATGCCATGTCCCAGA
* ** * *
65548210 CAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAAATAGGTCTTACACTAAC
66 CAAGTCTTACACTGGCTCTCACTTATCTGTCCCGATGCCATGTCCCAAACAGGTCCTACACTAAC
65548275 ACACCTCAAGCT
131 ACACCTCAAGCT
* * * * * *
65548287 GATGCCAAGTCCTAGACAGGTCTTCCACTAGCTTGCATATC-TTGAGGCCGATGCCATGTCCTAG
1 GATGCCAAGTCCTAGACAAGTCTTACACTAACTTCCATA-CATCGAGGCCGATGCCATGTCCCAG
* **
65548351 ACAAGTCTTACACTGGCTCTCA-TCTATC-GATCCCGATTCCATGTCCCAGGCAGGTCCTACACT
65 ACAAGTCTTACACTGGCTCTCACT-TATCTG-TCCCGATGCCATGTCCCAAACAGGTCCTACACT
65548414 A
128 A
65548415 GCACTCATAT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
141 2 0.02
142 106 0.97
143 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (142 bp):
GATGCCAAGTCCTAGACAAGTCTTACACTAACTTCCATACATCGAGGCCGATGCCATGTCCCAGA
CAAGTCTTACACTGGCTCTCACTTATCTGTCCCGATGCCATGTCCCAAACAGGTCCTACACTAAC
ACACCTCAAGCT
Found at i:65551130 original size:40 final size:40
Alignment explanation
Indices: 65551085--65551252 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
65551075 CGGAATACAA
65551085 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
65551125 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
65551165 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
65551205 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
65551245 CCGGATAT
1 CCGGATAT
65551253 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:65559179 original size:40 final size:40
Alignment explanation
Indices: 65559134--65559301 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
65559124 CGGAATACAA
65559134 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
65559174 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
65559214 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
65559254 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
65559294 CCGGATAT
1 CCGGATAT
65559302 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:65563024 original size:15 final size:15
Alignment explanation
Indices: 65563004--65563035 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
65562994 CGCCTCTGTC
65563004 GAGTGATCTGGAGAT
1 GAGTGATCTGGAGAT
*
65563019 GAGTGATTTGGAGAT
1 GAGTGATCTGGAGAT
65563034 GA
1 GA
65563036 CTTCTCTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.41, T:0.28
Consensus pattern (15 bp):
GAGTGATCTGGAGAT
Found at i:65563845 original size:19 final size:19
Alignment explanation
Indices: 65563821--65563876 Score: 112
Period size: 19 Copynumber: 2.9 Consensus size: 19
65563811 GTGTTCATAT
65563821 TGTGCGTTTGGGTCATAGA
1 TGTGCGTTTGGGTCATAGA
65563840 TGTGCGTTTGGGTCATAGA
1 TGTGCGTTTGGGTCATAGA
65563859 TGTGCGTTTGGGTCATAG
1 TGTGCGTTTGGGTCATAG
65563877 CGCTATTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.14, C:0.11, G:0.38, T:0.38
Consensus pattern (19 bp):
TGTGCGTTTGGGTCATAGA
Found at i:65566297 original size:37 final size:37
Alignment explanation
Indices: 65566238--65566346 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
65566228 AGCTCAGACG
* *
65566238 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65566275 AAATCTCCACACGTAGTCATCGGGTCTTGCCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
65566312 TAATCTCCACACGTAGTCATCGAGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
65566347 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:65566547 original size:48 final size:48
Alignment explanation
Indices: 65566493--65566628 Score: 236
Period size: 48 Copynumber: 2.8 Consensus size: 48
65566483 GCACATCGCC
65566493 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
65566541 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
65566589 TACATATTTCACATTAGCCATTCGGCCTTATCACACATAT
1 TACATATTTCACACTAGCCATTCGGCTTTA-C-CACATAT
65566629 GCATGTTCAC
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
48 76 0.90
49 1 0.01
50 7 0.08
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:65566656 original size:47 final size:47
Alignment explanation
Indices: 65566597--65566816 Score: 386
Period size: 47 Copynumber: 4.7 Consensus size: 47
65566587 CATACATATT
* *
65566597 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
65566644 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTAACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
65566691 TCATATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
65566738 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
65566785 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
65566817 ACACATAAAA
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 164 1.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:65566741 original size:25 final size:25
Alignment explanation
Indices: 65566712--65566790 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
65566702 ATTCGGCCTT
65566712 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
* * *
65566737 ATCACAT-T-GGCCA--TTCGGCCTT-
1 ATCACATATATG-CATGTTC-ACATTC
65566759 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
65566784 ATCACAT
1 ATCACAT
65566791 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 10 0.24
23 7 0.17
24 7 0.17
25 17 0.41
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:65566765 original size:22 final size:22
Alignment explanation
Indices: 65566737--65566808 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
65566727 GTTCACATTC
65566737 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
65566759 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
65566783 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
65566806 ATC
1 ATC
65566809 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:65570824 original size:71 final size:71
Alignment explanation
Indices: 65570706--65570848 Score: 223
Period size: 71 Copynumber: 2.0 Consensus size: 71
65570696 TCACTAAACC
* * *
65570706 ATTATCCTCATCGCCTTTTTGCCAGTTCAGGGAGAAACTTCATGTCACAATGCAGTAGTAGATGG
1 ATTATCCTCATCGCCTTTTTGCCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
*
65570771 GTGAAT
66 GTAAAT
* * *
65570777 ATTATCCTCATCTCCTTTTTGTCGGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
1 ATTATCCTCATCGCCTTTTTGCCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
65570842 GTAAAT
66 GTAAAT
65570848 A
1 A
65570849 GTTGAGTTAG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (71 bp):
ATTATCCTCATCGCCTTTTTGCCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
GTAAAT
Found at i:65572203 original size:2 final size:2
Alignment explanation
Indices: 65572196--65572237 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
65572186 TAAATTGAGA
65572196 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65572238 GTTCTCATAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65575862 original size:12 final size:12
Alignment explanation
Indices: 65575845--65575882 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
65575835 TATTTTGATA
65575845 TTTTTAATTATT
1 TTTTTAATTATT
*
65575857 TTTTTAATAATT
1 TTTTTAATTATT
*
65575869 ATTTTAATTATT
1 TTTTTAATTATT
65575881 TT
1 TT
65575883 AAAATTATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTAATTATT
Found at i:65580725 original size:31 final size:31
Alignment explanation
Indices: 65580687--65580760 Score: 139
Period size: 31 Copynumber: 2.4 Consensus size: 31
65580677 TTAATTATGA
*
65580687 CATGCATTATGTGTTTTTCATTAAATAAAGT
1 CATGCATTATGTGTTTTTCATTAAATAAAGC
65580718 CATGCATTATGTGTTTTTCATTAAATAAAGC
1 CATGCATTATGTGTTTTTCATTAAATAAAGC
65580749 CATGCATTATGT
1 CATGCATTATGT
65580761 AACTCTCATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (31 bp):
CATGCATTATGTGTTTTTCATTAAATAAAGC
Found at i:65580804 original size:25 final size:25
Alignment explanation
Indices: 65580770--65580818 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
65580760 TAACTCTCAT
65580770 GTTAGTTAAGTTTGCTTCATAAATA
1 GTTAGTTAAGTTTGCTTCATAAATA
65580795 GTTAGTTAAGTTTGCTTCATAAAT
1 GTTAGTTAAGTTTGCTTCATAAAT
65580819 TATGACATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (25 bp):
GTTAGTTAAGTTTGCTTCATAAATA
Found at i:65580836 original size:75 final size:80
Alignment explanation
Indices: 65580755--65580900 Score: 230
Period size: 75 Copynumber: 1.9 Consensus size: 80
65580745 AAGCCATGCA
* * *
65580755 TTATGTAACTCTCATGTTAGTT-AAGTTTGCTTCA-TAAATA-GTTAGTT-AAGTTTGCTTCA-T
1 TTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTAAACATGTTAGTTAAAGTTTGCATCATT
65580815 AAATTATGACATGTT
66 AAATTATGACATGTT
65580830 TTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTAAACATGTTAGTTAAAGTTTGCATCATT
1 TTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTAAACATGTTAGTTAAAGTTTGCATCATT
65580895 AAATTA
66 AAATTA
65580901 AGTCATGCAT
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
75 22 0.35
76 11 0.17
77 5 0.08
78 7 0.11
79 11 0.17
80 7 0.11
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.44
Consensus pattern (80 bp):
TTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTAAACATGTTAGTTAAAGTTTGCATCATT
AAATTATGACATGTT
Found at i:65580874 original size:28 final size:28
Alignment explanation
Indices: 65580842--65580897 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
65580832 ATGTAACTCT
65580842 CATGTTAGTTAAAGTTTGCATCATTAAA
1 CATGTTAGTTAAAGTTTGCATCATTAAA
65580870 CATGTTAGTTAAAGTTTGCATCATTAAA
1 CATGTTAGTTAAAGTTTGCATCATTAAA
65580898 TTAAGTCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (28 bp):
CATGTTAGTTAAAGTTTGCATCATTAAA
Found at i:65583214 original size:44 final size:44
Alignment explanation
Indices: 65583130--65583250 Score: 152
Period size: 44 Copynumber: 2.7 Consensus size: 44
65583120 GATACTGATG
* **
65583130 TCCCAGACATGGTCTTGCACGTAACTACATATATCAATGCCAACA
1 TCCCAGACATGGTCTTACACAAAAC-ACATATATCAATGCCAACA
* * *
65583175 TCCCAGACATGGCCTTACACAAAACACATATATCGATGCCAACG
1 TCCCAGACATGGTCTTACACAAAACACATATATCAATGCCAACA
**
65583219 TCCCAGATGTGGTCTTACACGAAAACACATAT
1 TCCCAGACATGGTCTTACAC-AAAACACATAT
65583251 CGGAATCCTA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
44 34 0.52
45 32 0.48
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACAAAACACATATATCAATGCCAACA
Found at i:65586985 original size:12 final size:12
Alignment explanation
Indices: 65586968--65587002 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
65586958 TCACGAAAAA
65586968 GCTCGTTTATTG
1 GCTCGTTTATTG
65586980 GCTCGTTTATTG
1 GCTCGTTTATTG
* *
65586992 ACTTGTTTATT
1 GCTCGTTTATT
65587003 TATTAATGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.54
Consensus pattern (12 bp):
GCTCGTTTATTG
Found at i:65587257 original size:23 final size:23
Alignment explanation
Indices: 65587224--65587288 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
65587214 ATCATGTTCA
*
65587224 ATTATATGTTCATGAATATATTTG
1 ATTA-ATGTTCATGAACATATTTG
* *
65587248 TTTAATGTTCGTGAACATATTTG
1 ATTAATGTTCATGAACATATTTG
*
65587271 ATTAA-GTTAAATGAACAT
1 ATTAATGTT-CATGAACAT
65587289 GTTCTTGAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 3 0.09
23 28 0.82
24 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (23 bp):
ATTAATGTTCATGAACATATTTG
Found at i:65588190 original size:13 final size:13
Alignment explanation
Indices: 65588172--65588237 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
65588162 AGTTTAGTAT
65588172 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
65588185 TGCTTTTAAAAAT
1 TGCTTTTGAAAAG
*
65588198 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
* *
65588211 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
*
65588224 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
65588237 T
1 T
65588238 TCGGTTTAAG
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 2 0.05
13 37 0.90
14 2 0.05
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:65603682 original size:18 final size:18
Alignment explanation
Indices: 65603659--65603697 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
65603649 AGTTTATCTA
65603659 CTATCTAAATCATGTTTT
1 CTATCTAAATCATGTTTT
65603677 CTATCTAAATCATGTTTT
1 CTATCTAAATCATGTTTT
65603695 CTA
1 CTA
65603698 ACCTTGTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (18 bp):
CTATCTAAATCATGTTTT
Found at i:65606503 original size:77 final size:77
Alignment explanation
Indices: 65606376--65606520 Score: 202
Period size: 77 Copynumber: 1.9 Consensus size: 77
65606366 GTACATATAC
* * * * *
65606376 CATGGCTCGAAGCCAAATCAAGGTAACTTATATTCGAAATACTGATATCATGGCCCGAAGCCAAA
1 CATGGCTCAAAGCCAAATCAAGATAACTCACATTCGAAATACTAATATCATGGCCCGAAGCCAAA
65606441 TCAGCCGATATT
66 TCAGCCGATATT
* * *
65606453 CATGGCTTAAAGCCAAATCAATATAACTCACACTT-GAAATGCTAATATCATGGCCCGAAGCCAA
1 CATGGCTCAAAGCCAAATCAAGATAACTCACA-TTCGAAATACTAATATCATGGCCCGAAGCCAA
65606517 ATCA
65 ATCA
65606521 ATGTTCCTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
77 57 0.97
78 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (77 bp):
CATGGCTCAAAGCCAAATCAAGATAACTCACATTCGAAATACTAATATCATGGCCCGAAGCCAAA
TCAGCCGATATT
Found at i:65607794 original size:20 final size:20
Alignment explanation
Indices: 65607769--65607839 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
65607759 AAACACAGTA
65607769 AATATATTTATGTTTAATAT
1 AATATATTTATGTTTAATAT
* * *
65607789 AATATATTAGTTCCAT-CTTCATAA
1 AATATA-T--TT--ATGTTTAATAT
65607813 AATATATTTATGTTTAATAT
1 AATATATTTATGTTTAATAT
65607833 AATATAT
1 AATATAT
65607840 CAGTTCCATC
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
19 2 0.05
20 18 0.46
21 3 0.08
23 3 0.08
24 11 0.28
25 2 0.05
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (20 bp):
AATATATTTATGTTTAATAT
Found at i:65607795 original size:22 final size:22
Alignment explanation
Indices: 65607770--65607839 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
65607760 AACACAGTAA
65607770 ATATATTTATGTTTAATATAAT
1 ATATATTTATGTTTAATATAAT
* * *
65607792 ATATTAGTTCCAT-CTTCATA-AA-
1 ATA-TA-TT-TATGTTTAATATAAT
65607814 ATATATTTATGTTTAATATAAT
1 ATATATTTATGTTTAATATAAT
65607836 ATAT
1 ATAT
65607840 CAGTTCCATC
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 2 0.06
20 7 0.19
21 4 0.11
22 10 0.28
23 4 0.11
24 7 0.19
25 2 0.06
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (22 bp):
ATATATTTATGTTTAATATAAT
Found at i:65607818 original size:44 final size:44
Alignment explanation
Indices: 65607768--65607857 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
65607758 TAAACACAGT
*
65607768 AAATATATTTATGTTTAATATAATATATTAGTTCCATCTTCATA
1 AAATATATTTATGTTTAATATAATATATCAGTTCCATCTTCATA
65607812 AAATATATTTATGTTTAATATAATATATCAGTTCCATCTTCATA
1 AAATATATTTATGTTTAATATAATATATCAGTTCCATCTTCATA
65607856 AA
1 AA
65607858 GCAAAATCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (44 bp):
AAATATATTTATGTTTAATATAATATATCAGTTCCATCTTCATA
Found at i:65607962 original size:28 final size:30
Alignment explanation
Indices: 65607916--65607983 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 30
65607906 AACTTTGGTC
* *
65607916 CTTCAACTTTTCATGTTTT-TAA-TTAACT
1 CTTCAACTTTTAATGTTTTACAATTTAACT
65607944 CTTCAACTTTTGAAT-TTTTACAATTTAACT
1 CTTCAACTTTT-AATGTTTTACAATTTAACT
65607974 CTTC-ACTTTT
1 CTTCAACTTTT
65607984 CACAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 15 0.43
29 10 0.29
30 10 0.29
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (30 bp):
CTTCAACTTTTAATGTTTTACAATTTAACT
Found at i:65607994 original size:30 final size:30
Alignment explanation
Indices: 65607938--65608000 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
65607928 ATGTTTTTAA
* **
65607938 TTAACTCTTCAACTTTTGAATTTTTACAAT
1 TTAACTCTTCAACTTTTCAAAATTTACAAT
65607968 TTAACTCTTC-ACTTTTCACAAATTTACAAT
1 TTAACTCTTCAACTTTTCA-AAATTTACAAT
65607998 TTA
1 TTA
65608001 GTCCATACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.32, C:0.19, G:0.02, T:0.48
Consensus pattern (30 bp):
TTAACTCTTCAACTTTTCAAAATTTACAAT
Found at i:65609178 original size:24 final size:24
Alignment explanation
Indices: 65609151--65609197 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
65609141 CTTTAGTTTT
65609151 TTTTTTTTATAGAAATTACTTTAG
1 TTTTTTTTATAGAAATTACTTTAG
65609175 TTTTTTTTATAGAAATTACTTTA
1 TTTTTTTTATAGAAATTACTTTA
65609198 TTTAATTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTTTTTTATAGAAATTACTTTAG
Found at i:65609201 original size:28 final size:28
Alignment explanation
Indices: 65609135--65609201 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 28
65609125 TTAAGCTTTT
*
65609135 AAATTACTTTAGTTT-TTTTTTTTTATAG
1 AAATTACTTTA-TTTAGTTTTTTTTATAG
65609163 AAATTAC----TTTAGTTTTTTTTATAG
1 AAATTACTTTATTTAGTTTTTTTTATAG
65609187 AAATTACTTTATTTA
1 AAATTACTTTATTTA
65609202 ATTGACAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
23 3 0.09
24 19 0.58
28 11 0.33
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (28 bp):
AAATTACTTTATTTAGTTTTTTTTATAG
Found at i:65612673 original size:2 final size:2
Alignment explanation
Indices: 65612666--65612691 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65612656 CGGCTCTTGC
65612666 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
65612692 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65613457 original size:40 final size:39
Alignment explanation
Indices: 65613400--65613578 Score: 172
Period size: 40 Copynumber: 4.5 Consensus size: 39
65613390 TCGAATGATG
*
65613400 TCCGGGCTAAGTCCCGAAGGC-TCTGTGCTAAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCAT-TGTGC-AAGTTACTAAA
*
65613440 TCCGGACTAAGAT-CCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGC-ATTGTGCAAGTTACTAAA
65613480 TCCGGACTAAGAT-CCGAAGGCATTTGTG-AGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCA-TTGTGCA-AGTTACTAAA
* * *
65613520 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTATA
1 TCC-GGACTAAGTCCCGAAGGCA-TTGTGCAAGTTACTAAA
* *
65613560 -CCGGGCTATGTCCCGAAGG
1 TCCGGACTAAGTCCCGAAGG
65613579 TATTTGAACG
Statistics
Matches: 122, Mismatches: 8, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
38 2 0.02
39 16 0.13
40 94 0.77
41 9 0.07
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (39 bp):
TCCGGACTAAGTCCCGAAGGCATTGTGCAAGTTACTAAA
Found at i:65613598 original size:39 final size:40
Alignment explanation
Indices: 65613453--65613603 Score: 114
Period size: 40 Copynumber: 3.8 Consensus size: 40
65613443 GGACTAAGAT
* ** * *
65613453 CCGAAGGCAATTGTGCGAGTTACTAAATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATATCCGGGA-TAAG-TC
* * *
65613493 CCGAAGGCATTTGTGA-GAGTTACTAAATCCGGGATAAGTC
1 CCGAAGGCATTTG-AACGAGCTACTATATCCGGGATAAGTC
** * *
65613533 CCGAAGGCATTTGTGCGAGCTACTATA-CCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATATCCGGGATAAGTC
*
65613572 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATATCCGG
65613604 TTAAACTCCG
Statistics
Matches: 93, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
38 2 0.02
39 32 0.34
40 56 0.60
41 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATATCCGGGATAAGTC
Found at i:65627249 original size:39 final size:39
Alignment explanation
Indices: 65627165--65627355 Score: 310
Period size: 39 Copynumber: 4.9 Consensus size: 39
65627155 TATGGTAACC
* * * * *
65627165 CGCACAAATGCCTTCGGGACTTAACCTGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
65627205 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
65627244 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
65627283 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
65627322 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
65627356 CTCGAACATT
Statistics
Matches: 142, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 125 0.88
40 17 0.12
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:65630780 original size:30 final size:30
Alignment explanation
Indices: 65630746--65630805 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
65630736 CTTTAATACG
*
65630746 AACTTTAGAAAAATTACATTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* *
65630776 AACTTTTGCAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
65630806 GGCTCTGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:65634363 original size:28 final size:29
Alignment explanation
Indices: 65634319--65634384 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
65634309 GTGTGGACAA
*
65634319 TAAGTGTTCACGGTTGAGA-GAATGGCAC
1 TAAGTGTGCACGGTTGAGATGAATGGCAC
*
65634347 TAAGTGTGCA-GGCTTGAGATGCATGGCAC
1 TAAGTGTGCACGG-TTGAGATGAATGGCAC
65634376 TAAGTGTGC
1 TAAGTGTGC
65634385 GAGTTTAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.06
28 15 0.44
29 17 0.50
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TAAGTGTGCACGGTTGAGATGAATGGCAC
Found at i:65638286 original size:31 final size:31
Alignment explanation
Indices: 65638248--65638309 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
65638238 TCGAGTCTGC
65638248 ACCACTAACTTTTACACTCTAAAATTTTTCT
1 ACCACTAACTTTTACACTCTAAAATTTTTCT
*
65638279 ACCACTAACTTTTACACTCTGAAATTTTTCT
1 ACCACTAACTTTTACACTCTAAAATTTTTCT
65638310 TTCTCAACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.02, T:0.42
Consensus pattern (31 bp):
ACCACTAACTTTTACACTCTAAAATTTTTCT
Found at i:65639197 original size:21 final size:21
Alignment explanation
Indices: 65639173--65639213 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
65639163 TCATCAGATC
*
65639173 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
65639194 TACAGGTTGAGGAATCGGGG
1 TACACCTTGAGGAATCGGGG
65639214 AGGTTGGGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:65646341 original size:18 final size:18
Alignment explanation
Indices: 65646318--65646361 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
65646308 GTGGGTGGAG
65646318 CCGTGTGGTCACACACGC
1 CCGTGTGGTCACACACGC
65646336 CCGTGTGGTCACACACGC
1 CCGTGTGGTCACACACGC
65646354 CCGTGTGG
1 CCGTGTGG
65646362 CTTGGGACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.14, C:0.36, G:0.32, T:0.18
Consensus pattern (18 bp):
CCGTGTGGTCACACACGC
Found at i:65650269 original size:45 final size:45
Alignment explanation
Indices: 65650205--65650311 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
65650195 GTATGTTACG
* *
65650205 GACTCAAGAATACATGAATAGGTTCTGAGCTCCTG-A-AATGTTGC
1 GACTCGAGAATACAAGAATAGGTTCTGAGCTCCTGTATAA-GTTGC
* * *
65650249 AGACTCGAGAATGCAAGAATAGGTTTTGAGCTCTTGTATAAGTTGC
1 -GACTCGAGAATACAAGAATAGGTTCTGAGCTCCTGTATAAGTTGC
65650295 GAACTCGAGAATACAAG
1 G-ACTCGAGAATACAAG
65650312 TTTAAGTTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
45 31 0.58
46 20 0.38
47 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (45 bp):
GACTCGAGAATACAAGAATAGGTTCTGAGCTCCTGTATAAGTTGC
Found at i:65661823 original size:57 final size:57
Alignment explanation
Indices: 65661698--65661825 Score: 136
Period size: 57 Copynumber: 2.2 Consensus size: 57
65661688 TTCACTATGG
* *
65661698 AAAGGATTTAGCCCGGATGGGTAATCCTAATATAATCCCTCACGAGCATATGTTACA
1 AAAGGATTTAGCCCGGATGGGTAATCCTAATATAAGCCCTCACGAGCATACGTTACA
* ** * *
65661755 ATTAGGATTTAGCTTGGAAT-GGTAATCCTAAT-TAAGCTCTTC-TGAGCATACGTTACA
1 A-AAGGATTTAGCCCGG-ATGGGTAATCCTAATATAAGC-CCTCACGAGCATACGTTACA
65661812 TAAAGGATTTAGCC
1 -AAAGGATTTAGCC
65661826 TAGACTGATA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
57 28 0.48
58 28 0.48
59 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (57 bp):
AAAGGATTTAGCCCGGATGGGTAATCCTAATATAAGCCCTCACGAGCATACGTTACA
Found at i:65669684 original size:13 final size:13
Alignment explanation
Indices: 65669666--65669719 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
65669656 TTTCGGGTGG
65669666 AAAATGATTATAT
1 AAAATGATTATAT
*
65669679 AAAATGATTATAG
1 AAAATGATTATAT
* * *
65669692 GAATTGGTTATAT
1 AAAATGATTATAT
65669705 GGAAAATGATTATAT
1 --AAAATGATTATAT
65669720 GAATCAGTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
13 21 0.68
15 10 0.32
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (13 bp):
AAAATGATTATAT
Found at i:65669712 original size:28 final size:28
Alignment explanation
Indices: 65669679--65669737 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
65669669 ATGATTATAT
**
65669679 AAAATGATTATAGGAATTGGTTATATGG
1 AAAATGATTATAGGAATCAGTTATATGG
*
65669707 AAAATGATTATATGAATCAGTTATATGG
1 AAAATGATTATAGGAATCAGTTATATGG
65669735 AAA
1 AAA
65669738 TATTTATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.34
Consensus pattern (28 bp):
AAAATGATTATAGGAATCAGTTATATGG
Found at i:65669746 original size:27 final size:27
Alignment explanation
Indices: 65669679--65669750 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
65669669 ATGATTATAT
* **
65669679 AAAATGATTATAGGAATTGGTTATATGG
1 AAAAT-ATTATATGAATCAGTTATATGG
65669707 AAAATGATTATATGAATCAGTTATATGG
1 AAAAT-ATTATATGAATCAGTTATATGG
65669735 -AAATATTTATATGAAT
1 AAAATA-TTATATGAAT
65669751 TGTGTATACG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 14 0.35
28 25 0.62
ACGTcount: A:0.43, C:0.01, G:0.18, T:0.38
Consensus pattern (27 bp):
AAAATATTATATGAATCAGTTATATGG
Found at i:65672753 original size:18 final size:18
Alignment explanation
Indices: 65672732--65672773 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
65672722 TAAAAGTAGA
65672732 TAAAAATTTATAATTTTT
1 TAAAAATTTATAATTTTT
*
65672750 T-AAAA-TTATATTTTTT
1 TAAAAATTTATAATTTTT
65672766 TATAAAAT
1 TA-AAAAT
65672774 CCAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAAAAATTTATAATTTTT
Found at i:65678713 original size:23 final size:22
Alignment explanation
Indices: 65678670--65678715 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
65678660 AATTTAAGAG
* *
65678670 TAAAAAAAAAAGTCAAAAATTT
1 TAAAAAAAAAACTAAAAAATTT
*
65678692 TAAATAAAAAACTAAAATAATTT
1 TAAAAAAAAAACTAAAA-AATTT
65678715 T
1 T
65678716 TTTATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAAAAAAAAACTAAAAAATTT
Found at i:65684124 original size:24 final size:23
Alignment explanation
Indices: 65684080--65684138 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
65684070 AAATTATGAT
*
65684080 ACAAGTATTTTTAAATTAAAAGGA
1 ACAAATATTTTTAAATTAAAA-GA
*
65684104 ACAAATATTTTT-TATTGAAAAGA
1 ACAAATATTTTTAAATT-AAAAGA
*
65684127 ACATGATATTTT
1 ACA-AATATTTT
65684139 CAAAATAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 8 0.27
24 22 0.73
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (23 bp):
ACAAATATTTTTAAATTAAAAGA
Found at i:65688978 original size:13 final size:14
Alignment explanation
Indices: 65688962--65688997 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
65688952 CAATCTCATA
65688962 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
65688975 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
65688988 TCTC-ATTTCA
1 TCTCAATTTCA
65688998 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:65688987 original size:18 final size:19
Alignment explanation
Indices: 65688949--65688989 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
65688939 TGGTTCATGT
65688949 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
65688968 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
65688986 TTTC
1 TTTC
65688990 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:65689179 original size:39 final size:38
Alignment explanation
Indices: 65689112--65689245 Score: 92
Period size: 38 Copynumber: 3.4 Consensus size: 38
65689102 ACCAATATGG
* * *
65689112 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
65689151 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
65689189 TACCCAGTACCTCAT-GAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
65689229 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
65689246 ACTCGAGGTC
Statistics
Matches: 71, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
37 1 0.01
38 27 0.38
39 25 0.35
40 17 0.24
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:65689508 original size:18 final size:19
Alignment explanation
Indices: 65689482--65689520 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
65689472 TTTCAATTCA
65689482 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
65689501 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
65689519 AT
1 AT
65689521 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:65690846 original size:5 final size:5
Alignment explanation
Indices: 65690836--65690887 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
65690826 TTACTTATTT
*
65690836 ATATA ATATAA TATATA ATATA ATAT- ATATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
65690883 ATATA
1 ATATA
65690888 TATTTTAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 4 0.10
5 26 0.63
6 7 0.17
7 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:65690851 original size:7 final size:7
Alignment explanation
Indices: 65690841--65690889 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
65690831 TATTTATATA
65690841 ATATAAT
1 ATATAAT
65690848 ATATAAT
1 ATATAAT
65690855 ATA-ATAT
1 ATATA-AT
65690862 ATATAAT
1 ATATAAT
65690869 ATAATAAT
1 AT-ATAAT
*
65690877 AATTTAAT
1 -ATATAAT
65690885 ATATA
1 ATATA
65690890 TTTTAACACA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 1 0.03
7 23 0.64
8 10 0.28
9 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATAAT
Found at i:65690852 original size:14 final size:12
Alignment explanation
Indices: 65690835--65690889 Score: 76
Period size: 12 Copynumber: 4.5 Consensus size: 12
65690825 TTTACTTATT
65690835 TATATAATATAA
1 TATATAATATAA
65690847 TATATAATATAATA
1 TATATAATAT-A-A
65690861 TATATAATATAA
1 TATATAATATAA
*
65690873 TA-ATAATTTAA
1 TATATAATATAA
65690884 TATATA
1 TATATA
65690890 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
11 10 0.26
12 16 0.41
13 2 0.05
14 11 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATAATATAA
Found at i:65695416 original size:13 final size:14
Alignment explanation
Indices: 65695400--65695435 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
65695390 CAATCTCATA
65695400 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
65695413 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
65695426 TCTC-ATTTCA
1 TCTCAATTTCA
65695436 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Done.