Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 85 of 120
Found at i:25373921 original size:40 final size:40
Alignment explanation
Indices: 25373810--25373960 Score: 187
Period size: 40 Copynumber: 3.7 Consensus size: 40
25373800 ATAGGTAAAG
*
25373810 TAGCGGCGTTTATGAGAAAAACGCCACAAAAGGTCAAGCAT
1 TAGCGGCG-CTATGAGAAAAACGCCACAAAAGGTCAAGCAT
** * * *
25373851 TAGCGGCATTTATGAGAAAAATGCCGCAAAAAGTCAAGCAT
1 TAGCGGC-GCTATGAGAAAAACGCCACAAAAGGTCAAGCAT
25373892 TAGCGGCGCTATGAGAAAAACGCCACAAAAGGTCAAGCAT
1 TAGCGGCGCTATGAGAAAAACGCCACAAAAGGTCAAGCAT
* * *
25373932 TAACAGG-GCTATGAGAAAAATGCCGCAAA
1 TAGC-GGCGCTATGAGAAAAACGCCACAAA
25373961 GTATCATTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
40 51 0.53
41 45 0.47
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (40 bp):
TAGCGGCGCTATGAGAAAAACGCCACAAAAGGTCAAGCAT
Found at i:25374069 original size:21 final size:21
Alignment explanation
Indices: 25374045--25374088 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
25374035 CCTTATTTTT
25374045 TCCCTAAAAATT-TTCCCCAAA
1 TCCCT-AAAATTATTCCCCAAA
*
25374066 TCCCTAAATTTATTCCCCAAA
1 TCCCTAAAATTATTCCCCAAA
25374087 TC
1 TC
25374089 AAAATCTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (21 bp):
TCCCTAAAATTATTCCCCAAA
Found at i:25382559 original size:13 final size:13
Alignment explanation
Indices: 25382540--25382579 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
25382530 ATTTACAAAT
25382540 ACAGATA-ACAGA
1 ACAGATATACAGA
25382552 ATCAGATATACAGA
1 A-CAGATATACAGA
*
25382566 ACAGATATATAGA
1 ACAGATATACAGA
25382579 A
1 A
25382580 TCCTACCCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.72
14 6 0.24
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.17
Consensus pattern (13 bp):
ACAGATATACAGA
Found at i:25384619 original size:22 final size:22
Alignment explanation
Indices: 25384594--25384637 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
25384584 TGTGCTGCTG
*
25384594 TTTGCAATTTTTGGATT-ATTTA
1 TTTGCAAATTTT-GATTAATTTA
*
25384616 TTTGTAAATTTTGATTAATTTA
1 TTTGCAAATTTTGATTAATTTA
25384638 ATTATATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.59
Consensus pattern (22 bp):
TTTGCAAATTTTGATTAATTTA
Found at i:25390608 original size:9 final size:9
Alignment explanation
Indices: 25390596--25390665 Score: 65
Period size: 9 Copynumber: 8.0 Consensus size: 9
25390586 TATATCATAT
25390596 CATAACTTA
1 CATAACTTA
25390605 CATAACTTA
1 CATAACTTA
*
25390614 CATAACATA
1 CATAACTTA
25390623 CATAA--TA
1 CATAACTTA
*
25390630 CATAA-ATA
1 CATAACTTA
* * *
25390638 TATATCATA
1 CATAACTTA
25390647 TCATAACTTA
1 -CATAACTTA
25390657 CATAACTTA
1 CATAACTTA
25390666 ATCATACTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
7 7 0.13
8 5 0.10
9 34 0.65
10 6 0.12
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:25392267 original size:43 final size:43
Alignment explanation
Indices: 25392219--25392416 Score: 209
Period size: 43 Copynumber: 4.6 Consensus size: 43
25392209 TCCCCACAAA
* * **
25392219 TGCTGCCAAAGAACATGACCTTTAGCGGCTTTTGTGGGGAAAG
1 TGCTGCTAAAGATCATGTTCTTTAGCGGCTTTTGTGGGGAAAG
*
25392262 TGCTGCTAAAGGTCATGTTCTTTAGCGG-TGTTTGTGGGGAAAG
1 TGCTGCTAAAGATCATGTTCTTTAGCGGCT-TTTGTGGGGAAAG
* * * *
25392305 TGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAGGAAAAG
1 TGCTGCTAAAGATCATGTTCTTTAGCGGCTTTTGTGGGGAAAG
* * * * * *
25392348 CGCCGCTAAAGGTCATATTCTGTAGCGGCGTTTGTGGGGAAAG
1 TGCTGCTAAAGATCATGTTCTTTAGCGGCTTTTGTGGGGAAAG
* * * *
25392391 CGCTGTTAAAGGTCATGTTCTATAGC
1 TGCTGCTAAAGATCATGTTCTTTAGC
25392417 AGCATTTTTC
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 132 0.99
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.30
Consensus pattern (43 bp):
TGCTGCTAAAGATCATGTTCTTTAGCGGCTTTTGTGGGGAAAG
Found at i:25392356 original size:86 final size:86
Alignment explanation
Indices: 25392238--25392416 Score: 241
Period size: 86 Copynumber: 2.1 Consensus size: 86
25392228 AGAACATGAC
* * * * * * * *
25392238 CTTTAGCGGCTTTTGTGGGGAAAGTGCTGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGGAA
1 CTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATATTCTGTAGCGGCGTTTGTGGGGAA
*
25392303 AGTGCCGCTAAAGATCATGTT
66 AGCGCCGCTAAAGATCATGTT
25392324 CTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATATTCTGTAGCGGCGTTTGTGGGGAA
1 CTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATATTCTGTAGCGGCGTTTGTGGGGAA
* * *
25392389 AGCGCTGTTAAAGGTCATGTT
66 AGCGCCGCTAAAGATCATGTT
*
25392410 CTATAGC
1 CTTTAGC
25392417 AGCATTTTTC
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (86 bp):
CTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATATTCTGTAGCGGCGTTTGTGGGGAA
AGCGCCGCTAAAGATCATGTT
Found at i:25394093 original size:11 final size:11
Alignment explanation
Indices: 25394079--25394103 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25394069 ATAAATAAAT
25394079 AAATAAAATTA
1 AAATAAAATTA
25394090 AAATAAAATTA
1 AAATAAAATTA
25394101 AAA
1 AAA
25394104 CAAAGAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAAAATTA
Found at i:25394698 original size:20 final size:20
Alignment explanation
Indices: 25394669--25394739 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
25394659 CTTTGTTTCT
25394669 CTCACGCCCGTGTGAACTCC
1 CTCACGCCCGTGTGAACTCC
*
25394689 CTCACTCCCGTGTGAACTCC
1 CTCACGCCCGTGTGAACTCC
25394709 CTCACGCCCGTGTGAACTCC
1 CTCACGCCCGTGTGAACTCC
*
25394729 CACACGCCCGT
1 CTCACGCCCGT
25394740 ATGGCTCGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.15, C:0.46, G:0.18, T:0.20
Consensus pattern (20 bp):
CTCACGCCCGTGTGAACTCC
Found at i:25405572 original size:22 final size:21
Alignment explanation
Indices: 25405538--25405603 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
25405528 ATTTGAAAAA
* *
25405538 TATACTTTAATATGAATATTTT
1 TATATTTTTATATGAAT-TTTT
*
25405560 TATATTTTTATATTAATTTTT
1 TATATTTTTATATGAATTTTT
*
25405581 TATCTATTTTTATAATAAATTTT
1 TA--TATTTTTAT-ATGAATTTT
25405604 AAATAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.16
22 14 0.38
23 9 0.24
24 8 0.22
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (21 bp):
TATATTTTTATATGAATTTTT
Found at i:25407149 original size:27 final size:28
Alignment explanation
Indices: 25407119--25407180 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
25407109 AGCGTATCTA
*
25407119 AAATGGAAGTCCTTATGGAAATTTGT-G
1 AAATGGAAGCCCTTATGGAAATTTGTAG
**
25407146 AAATGGAAGCCCTTATGGTGATTTGTAG
1 AAATGGAAGCCCTTATGGAAATTTGTAG
25407174 AAA-GGAA
1 AAATGGAA
25407181 CGCCTTCGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.29
Consensus pattern (28 bp):
AAATGGAAGCCCTTATGGAAATTTGTAG
Found at i:25407342 original size:54 final size:54
Alignment explanation
Indices: 25407266--25407426 Score: 173
Period size: 54 Copynumber: 3.0 Consensus size: 54
25407256 AAGAGAAGAA
* * * *
25407266 TGGTAAATATGGAAAACCCTGAAAGAATGATATGTATGGCTAACT-TAGAAGGGC
1 TGGTAGATATGGTAAACTCTGAAAGAATGATATGTATGGCTAACTCT-GAAGGAC
* * *
25407320 TGGTAGATATGGTAAACTCTGAAAGAATAAAATGTGTGGCTAACTCTGAAGGAC
1 TGGTAGATATGGTAAACTCTGAAAGAATGATATGTATGGCTAACTCTGAAGGAC
* * * * * *
25407374 TGGTTGATATGGTAAACTTTGAGAGAACGATATGTGTGG-TGAACTCCGAAGGA
1 TGGTAGATATGGTAAACTCTGAAAGAATGATATGTATGGCT-AACTCTGAAGGA
25407427 ATAGTTTTAT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 89 0.98
55 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (54 bp):
TGGTAGATATGGTAAACTCTGAAAGAATGATATGTATGGCTAACTCTGAAGGAC
Found at i:25421750 original size:21 final size:21
Alignment explanation
Indices: 25421712--25421751 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25421702 ATAGATACAA
*
25421712 TATTTAATTTCTTATATTTCT
1 TATTTAATTTATTATATTTCT
* *
25421733 TATTTATTTTATTTTATTT
1 TATTTAATTTATTATATTT
25421752 TACTAACACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (21 bp):
TATTTAATTTATTATATTTCT
Found at i:25426403 original size:18 final size:18
Alignment explanation
Indices: 25426380--25426414 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25426370 ATGATGTGCC
25426380 AAACTACTTTCATGCTTG
1 AAACTACTTTCATGCTTG
* *
25426398 AAACTATTTTGATGCTT
1 AAACTACTTTCATGCTT
25426415 CATGTTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACTACTTTCATGCTTG
Found at i:25426564 original size:10 final size:10
Alignment explanation
Indices: 25426549--25426587 Score: 78
Period size: 10 Copynumber: 3.9 Consensus size: 10
25426539 TAATTTTCAT
25426549 CAAATATCAC
1 CAAATATCAC
25426559 CAAATATCAC
1 CAAATATCAC
25426569 CAAATATCAC
1 CAAATATCAC
25426579 CAAATATCA
1 CAAATATCA
25426588 AATATCACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (10 bp):
CAAATATCAC
Found at i:25432431 original size:73 final size:73
Alignment explanation
Indices: 25432311--25432472 Score: 247
Period size: 73 Copynumber: 2.2 Consensus size: 73
25432301 TTCACACAAC
*
25432311 GCCTCATTCAATTTCTGACTGACCATCGAATTATGGATGAAAAGTCGTATTGGAGTTTAACCGTG
1 GCCTCTTTCAATTTCTGACTGACCATCGAATTATGGATGAAAAGTCGTATTGGAGTTTAACCGTG
25432376 TAACCAAA
66 TAACCAAA
* * * *
25432384 GCCTCTTTCAATTTTTGACTGACTATC-AGATTATGGATGAAAGGTCGTATTGGAGTTTAACTGT
1 GCCTCTTTCAATTTCTGACTGACCATCGA-ATTATGGATGAAAAGTCGTATTGGAGTTTAACCGT
25432448 GTAACCAAA
65 GTAACCAAA
25432457 GCCT-TGTTCAATTTCT
1 GCCTCT-TTCAATTTCT
25432473 TCTAGAATGA
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
72 2 0.02
73 79 0.98
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (73 bp):
GCCTCTTTCAATTTCTGACTGACCATCGAATTATGGATGAAAAGTCGTATTGGAGTTTAACCGTG
TAACCAAA
Found at i:25443936 original size:18 final size:19
Alignment explanation
Indices: 25443913--25443960 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
25443903 GTCCAATCAA
25443913 GATATAAAGGA-AAAAAAT
1 GATATAAAGGAGAAAAAAT
*
25443931 GATATAATA-CATGAAAAAAT
1 GATATAA-AGGA-GAAAAAAT
25443951 GATATAAAGG
1 GATATAAAGG
25443961 TTATGTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
18 8 0.33
19 2 0.08
20 14 0.58
ACGTcount: A:0.60, C:0.02, G:0.17, T:0.21
Consensus pattern (19 bp):
GATATAAAGGAGAAAAAAT
Found at i:25448492 original size:20 final size:20
Alignment explanation
Indices: 25448467--25448528 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
25448457 TGAGTGGATT
25448467 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * *
25448487 CAGGGG-CCCGTATA-TGCAAT
1 CAGGGGTACCG-A-AGTACAAA
*
25448507 CAAGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
25448527 CA
1 CA
25448529 TGAGCACATA
Statistics
Matches: 31, Mismatches: 7, Indels: 8
0.67 0.15 0.17
Matches are distributed among these distances:
19 4 0.13
20 23 0.74
21 4 0.13
ACGTcount: A:0.37, C:0.23, G:0.27, T:0.13
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:25448545 original size:40 final size:40
Alignment explanation
Indices: 25448470--25448556 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
25448460 GTGGATTCAG
* * * *
25448470 GGGTACCGAAGTACAAACAGGGGCCCGTATATGCAATCAA
1 GGGTACCGAAGTACAAACAGGAGCACATATATGCAACCAA
* * *
25448510 GGGTACCGAAGTACAAACATGAGCACATATGTGCAACCAG
1 GGGTACCGAAGTACAAACAGGAGCACATATATGCAACCAA
25448550 GGGTACC
1 GGGTACC
25448557 AATGCATGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.34, C:0.23, G:0.28, T:0.15
Consensus pattern (40 bp):
GGGTACCGAAGTACAAACAGGAGCACATATATGCAACCAA
Found at i:25448613 original size:68 final size:68
Alignment explanation
Indices: 25448496--25448622 Score: 155
Period size: 68 Copynumber: 1.9 Consensus size: 68
25448486 ACAGGGGCCC
* * *
25448496 GTATATGCAATCAAGGGTACCGAAGTACAAACATGAGCACATATGTGCAACCAGGGGTACCAATG
1 GTATATGCAATCAAGGGTACCGAAGTAAAAACAGGAGCACATATCTGCAACCAGGGGTACCAATG
25448561 CAT
66 CAT
* * * * * * **
25448564 GTATGTGCAATTAGGGGTACCGAAGTAAAAATAGGGGCACGTATCTGCAATTAGGGGTA
1 GTATATGCAATCAAGGGTACCGAAGTAAAAACAGGAGCACATATCTGCAACCAGGGGTA
25448623 TCAAAGTATA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
68 48 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.21
Consensus pattern (68 bp):
GTATATGCAATCAAGGGTACCGAAGTAAAAACAGGAGCACATATCTGCAACCAGGGGTACCAATG
CAT
Found at i:25448630 original size:40 final size:40
Alignment explanation
Indices: 25448564--25448694 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
25448554 ACCAATGCAT
*
25448564 GTATGTGCAATTAGGGGTACCGAAGTAAAAATAGGGGCAC
1 GTATCTGCAATTAGGGGTACCGAAGTAAAAATAGGGGCAC
* * * *
25448604 GTATCTGCAATTAGGGGTATCAAAGTATAAGTAGGGGCAC
1 GTATCTGCAATTAGGGGTACCGAAGTAAAAATAGGGGCAC
* * *
25448644 GTATCTGCAATTAAGGGTACCGAAGTACAAACAGGGGCAC
1 GTATCTGCAATTAGGGGTACCGAAGTAAAAATAGGGGCAC
25448684 GTA-CGTGCAAT
1 GTATC-TGCAAT
25448695 CAGCAACAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 78 0.99
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (40 bp):
GTATCTGCAATTAGGGGTACCGAAGTAAAAATAGGGGCAC
Found at i:25448662 original size:108 final size:108
Alignment explanation
Indices: 25448468--25448664 Score: 232
Period size: 108 Copynumber: 1.8 Consensus size: 108
25448458 GAGTGGATTC
* * * *
25448468 AGGGGTACCGAAGTACAAACAGGGGCCCGTATATGCAATCAAGGGTACCGAAGTACAAACATGAG
1 AGGGGTACCGAAGTAAAAACAGGGGCACGTATATGCAATCAAGGGTACCAAAGTACAAACAGGAG
* *
25448533 CACATATGTGCAACCAGGGGTACCAATGCATGTATGTGCAATT
66 CACATATCTGCAACCAAGGGTACCAATGCATGTATGTGCAATT
* * * * * * ** *
25448576 AGGGGTACCGAAGTAAAAATAGGGGCACGTATCTGCAATTAGGGGTATCAAAGTATAAGTAGGGG
1 AGGGGTACCGAAGTAAAAACAGGGGCACGTATATGCAATCAAGGGTACCAAAGTACAAACAGGAG
* **
25448641 CACGTATCTGCAATTAAGGGTACC
66 CACATATCTGCAACCAAGGGTACC
25448665 GAAGTACAAA
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
108 71 1.00
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (108 bp):
AGGGGTACCGAAGTAAAAACAGGGGCACGTATATGCAATCAAGGGTACCAAAGTACAAACAGGAG
CACATATCTGCAACCAAGGGTACCAATGCATGTATGTGCAATT
Found at i:25451662 original size:21 final size:21
Alignment explanation
Indices: 25451623--25451665 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
25451613 ACTTGATCTA
25451623 AATAATCAAATTCATTCCATTC
1 AATAATC-AATTCATTCCATTC
25451645 AATAATC-ATTCTATTCCATTC
1 AATAATCAATTC-ATTCCATTC
25451666 TATCCAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 9 0.45
22 7 0.35
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAATCAATTCATTCCATTC
Found at i:25487183 original size:28 final size:27
Alignment explanation
Indices: 25487128--25487187 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
25487118 CCATCTGATA
*
25487128 CTGATTCTGTAATGGGCTTAGGTCCAC
1 CTGATTCTGTAATGGGCTAAGGTCCAC
25487155 CTGATTCTGTTAATGGGCTAAGG-CTCAC
1 CTGATTCTG-TAATGGGCTAAGGTC-CAC
25487183 CTGAT
1 CTGAT
25487188 ACTATGCTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 10 0.33
28 20 0.67
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (27 bp):
CTGATTCTGTAATGGGCTAAGGTCCAC
Found at i:25489902 original size:22 final size:20
Alignment explanation
Indices: 25489877--25489918 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
25489867 ATTTTTTAAA
*
25489877 AATATTCATATTATTCTAATTT
1 AATATTCA-ATAATT-TAATTT
25489899 AATATTCAATAATTTAATTT
1 AATATTCAATAATTTAATTT
25489919 TTTATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 5 0.26
22 8 0.42
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
AATATTCAATAATTTAATTT
Found at i:25490352 original size:67 final size:67
Alignment explanation
Indices: 25490279--25490407 Score: 188
Period size: 67 Copynumber: 1.9 Consensus size: 67
25490269 ATTTAACAAA
* *
25490279 ATTTTTTTCTTTCATTTTCTCTCTTGCCAAACAACACTTTTT-TTCTTCAAAACACATGGTTGCT
1 ATTTTTTCCTCTCATTTTCTCTCTTGCCAAACAACA-TTTTTCTTCTTCAAAACACATGGTTGCT
25490343 GCC
65 GCC
* * * *
25490346 ATTTTTTCCTCTCATTTTTTCTCTTGCCAAACACCATTTTTCTTCTTCAGAACATATGGTTG
1 ATTTTTTCCTCTCATTTTCTCTCTTGCCAAACAACATTTTTCTTCTTCAAAACACATGGTTG
25490408 GCTCATTTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 5 0.09
67 50 0.91
ACGTcount: A:0.20, C:0.25, G:0.08, T:0.47
Consensus pattern (67 bp):
ATTTTTTCCTCTCATTTTCTCTCTTGCCAAACAACATTTTTCTTCTTCAAAACACATGGTTGCTG
CC
Found at i:25495140 original size:61 final size:61
Alignment explanation
Indices: 25495045--25495168 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
25495035 ATAAGGAGAA
25495045 AACTAAAATCTTAAACACAAGAGGGCAAAATTTCTTCCTTTGAAATGAGAAAGGCAGAAAT
1 AACTAAAATCTTAAACACAAGAGGGCAAAATTTCTTCCTTTGAAATGAGAAAGGCAGAAAT
25495106 AACTAAAATCTTAAACACAAGAGGGCAAAATTTCTTCCTTTGAAATGAGAAAGGCAGAAAT
1 AACTAAAATCTTAAACACAAGAGGGCAAAATTTCTTCCTTTGAAATGAGAAAGGCAGAAAT
25495167 AA
1 AA
25495169 TGCATTAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.23
Consensus pattern (61 bp):
AACTAAAATCTTAAACACAAGAGGGCAAAATTTCTTCCTTTGAAATGAGAAAGGCAGAAAT
Found at i:25499486 original size:36 final size:36
Alignment explanation
Indices: 25499398--25499476 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
25499388 GGAGCCATTG
* *
25499398 GTGTGTTATCCGA-TGGACTGGCTCGTATGAGCATCTT
1 GTGTG-TAT-CGATTGGACTAGCTCGTATGAGCATCTA
*
25499435 GTGTGTATCGATTGGACTAGCTCTTATGAGCATCTA
1 GTGTGTATCGATTGGACTAGCTCGTATGAGCATCTA
25499471 GTGTGT
1 GTGTGT
25499477 TTCAGTTGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 3 0.08
36 30 0.79
37 5 0.13
ACGTcount: A:0.18, C:0.16, G:0.29, T:0.37
Consensus pattern (36 bp):
GTGTGTATCGATTGGACTAGCTCGTATGAGCATCTA
Found at i:25500966 original size:66 final size:66
Alignment explanation
Indices: 25500860--25500988 Score: 195
Period size: 66 Copynumber: 2.0 Consensus size: 66
25500850 AGACCATGTC
* * * ** *
25500860 TGGGACACGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGCCCATGTTTGGGCCATGGCGTAC
1 TGGGACACGGCGTTGGCACCAAGATAAGAGGTCCCATGTAAGACCATGTCCGGGACATGGCGTAC
25500925 A
66 A
*
25500926 TGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCATGTAAGACCATGTCCGGGACATGGCGT
1 TGGGACACGGCGTTGGCACCAAGATAAGAGGTCCCATGTAAGACCATGTCCGGGACATGGCGT
25500989 TGGCACTGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.19
Consensus pattern (66 bp):
TGGGACACGGCGTTGGCACCAAGATAAGAGGTCCCATGTAAGACCATGTCCGGGACATGGCGTAC
A
Found at i:25500986 original size:50 final size:50
Alignment explanation
Indices: 25500926--25501137 Score: 253
Period size: 50 Copynumber: 4.2 Consensus size: 50
25500916 ATGGCGTACA
* *
25500926 TGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCATGTAAGACCATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* * *
25500976 CGGGACATGGCGTTGGCACTGAGATGAGAGGTCCTATGTAAGACCATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* * ** *
25501026 TGGGACATGGCGTTGGTACCGAGATTAGAGGTCCCCCGTAAGACAATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* * * * ** **
25501076 TAGGACATGGCATGGGCACCGATATGAGAACATCGTATGTAAGACCATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAG-AGGTCCCATGTAAGACCATGTC
25501127 TGGGACATGGC
1 TGGGACATGGC
25501138 TCTGGCATGT
Statistics
Matches: 134, Mismatches: 27, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
50 109 0.81
51 25 0.19
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (50 bp):
TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
Found at i:25501037 original size:100 final size:101
Alignment explanation
Indices: 25500926--25501137 Score: 282
Period size: 100 Copynumber: 2.1 Consensus size: 101
25500916 ATGGCGTACA
* * * * *
25500926 TGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCATGTAAGACCATGTCCGGGACATGGCGTTG
1 TGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCACGTAAGACAATGTCCAGGACATGGCATGG
* **
25500991 GCACTGAGATGAG-AGGTCCTATGTAAGACCATGTC
66 GCACCGAGATGAGAACATCCTATGTAAGACCATGTC
* * * * *
25501026 TGGGACATGGCGTTGGTACCGAGATTAGAGGTCCCCCGTAAGACAATGTCTAGGACATGGCATGG
1 TGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCACGTAAGACAATGTCCAGGACATGGCATGG
* *
25501091 GCACCGATATGAGAACATCGTATGTAAGACCATGTC
66 GCACCGAGATGAGAACATCCTATGTAAGACCATGTC
25501127 TGGGACATGGC
1 TGGGACATGGC
25501138 TCTGGCATGT
Statistics
Matches: 96, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 66 0.69
101 30 0.31
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (101 bp):
TGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCACGTAAGACAATGTCCAGGACATGGCATGG
GCACCGAGATGAGAACATCCTATGTAAGACCATGTC
Found at i:25508551 original size:50 final size:50
Alignment explanation
Indices: 25508480--25508821 Score: 425
Period size: 50 Copynumber: 6.8 Consensus size: 50
25508470 ATTTGGGTAA
* *
25508480 AGAGGTCCCATGTAAGACCATGTCTAGGACACGGCGTTGGCACCGAGAGG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
* *
25508530 AGAGGTCCCATGTAAGCCCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
* *
25508580 AGAGGTCCTATATAAGACCATGTCTAGGAC-TGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
** * *
25508629 AGAGGTCCCATGTAAGACCATGTCCGGGACATGACGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
* * * *
25508679 AGAGGTCCTATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATT
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
** * * * * *
25508729 AGAGGTCCCCCGTAAGACAATGTCTAAGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
** * * * *
25508779 AGAACATCCCGTGTAAAACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCA
25508822 TGTTATTATC
Statistics
Matches: 249, Mismatches: 41, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
49 45 0.18
50 174 0.70
51 30 0.12
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
Found at i:25508652 original size:99 final size:100
Alignment explanation
Indices: 25508480--25508821 Score: 434
Period size: 99 Copynumber: 3.4 Consensus size: 100
25508470 ATTTGGGTAA
* * *
25508480 AGAGGTCCCATGTAAGACCATGTCTAGGACACGGCGTTGGCACCGAGAGGAGAGGTCCCATGTAA
1 AGAGGTCCTATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAA
*
25508545 GCCCATGTCTGGGACATGGCGTTGGCACCGAGATG
66 GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
25508580 AGAGGTCCTATATAAGACCATGTCTAGGAC-TGGCGTTGGCACCGAGATGAGAGGTCCCATGTAA
1 AGAGGTCCTATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAA
* * *
25508644 GACCATGTCCGGGACATGACGTTGGCACTGAGATG
66 GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * **
25508679 AGAGGTCCTATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATTAGAGGTCCCCCGTAA
1 AGAGGTCCTATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAA
* ** * * *
25508744 GACAATGTCTAAGACATGGCATGGGCACCGATATG
66 GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** ** * * *
25508779 AGAACATCCCGTGTAAAACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCTATGTAAGACCATGTCTAGGACATGGCGTTGGCA
25508822 TGTTATTATC
Statistics
Matches: 210, Mismatches: 30, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
99 90 0.43
100 87 0.41
101 33 0.16
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (100 bp):
AGAGGTCCTATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAA
GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:25508752 original size:149 final size:150
Alignment explanation
Indices: 25508480--25508821 Score: 452
Period size: 149 Copynumber: 2.3 Consensus size: 150
25508470 ATTTGGGTAA
* *
25508480 AGAGGTCCCATGTAAGACCATGTCTAGGACACGGCGTTGGCACCGAGAGGAGAGGTCCCATGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAGGAGAGGTCCCATGTAA
* * * * *
25508545 GCCCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCTATATAAGACCATGTCTAGGAC
66 GACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCACATAAGACAATGTCTAAGAC
* *
25508610 -TGGCGTTGGCACCGAGATG
131 ATGGCATGGGCACCGAGATG
* * * * *
25508629 AGAGGTCCCATGTAAGACCATGTCCGGGACATGACGTTGGCACTGAGATGAGAGGTCCTATGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAGGAGAGGTCCCATGTAA
* * * *
25508694 GACCATGTTTGGGACATGGCGTTGGCACCGAGATTAGAGGTCCCCCGTAAGACAATGTCTAAGAC
66 GACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCACATAAGACAATGTCTAAGAC
*
25508759 ATGGCATGGGCACCGATATG
131 ATGGCATGGGCACCGAGATG
** * * *
25508779 AGAACATCCCGTGTAAAACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
25508822 TGTTATTATC
Statistics
Matches: 165, Mismatches: 26, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
149 114 0.69
150 18 0.11
151 33 0.20
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (150 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAGGAGAGGTCCCATGTAA
GACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCACATAAGACAATGTCTAAGAC
ATGGCATGGGCACCGAGATG
Found at i:25512877 original size:35 final size:34
Alignment explanation
Indices: 25512784--25512877 Score: 82
Period size: 35 Copynumber: 2.6 Consensus size: 34
25512774 CCCAGTTTTT
* *
25512784 AATAAATACAAAAAAGAATATTTTAAAAATAAAAA
1 AATAAA-AAAAAAAATAATATTTTAAAAATAAAAA
*** *
25512819 AATAAAAAAAATTTTAAAGTATTTT-AAAATTAAAA
1 AATAAAAAAAAAAAT-AA-TATTTTAAAAATAAAAA
25512854 AATAAAAATAAAAAATATATATTT
1 AATAAAAA-AAAAAATA-ATATTT
25512878 ATTATATTCG
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
34 4 0.09
35 31 0.67
36 11 0.24
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (34 bp):
AATAAAAAAAAAAATAATATTTTAAAAATAAAAA
Found at i:25513402 original size:5 final size:6
Alignment explanation
Indices: 25513386--25513411 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25513376 CAAAGATCTG
25513386 CTTTTT CTTTTT CTTTTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT CTTTTT CT
25513412 ACCAGCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:25516825 original size:21 final size:22
Alignment explanation
Indices: 25516796--25516836 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
25516786 AGGACAAAAA
25516796 AATGCTATTTT-TTGTTGTTTT
1 AATGCTATTTTCTTGTTGTTTT
*
25516817 AATGTTATTTTCTTGTTGTT
1 AATGCTATTTTCTTGTTGTT
25516837 GTCTCCTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.15, C:0.05, G:0.15, T:0.66
Consensus pattern (22 bp):
AATGCTATTTTCTTGTTGTTTT
Found at i:25517707 original size:19 final size:20
Alignment explanation
Indices: 25517684--25517747 Score: 94
Period size: 19 Copynumber: 3.1 Consensus size: 20
25517674 AAGAAAATAG
*
25517684 CAACAAAACAGTAAAAAAAAAA
1 CAACAAAACA-T-TAAAAAAAA
25517706 CAACAAAACATT-AAAAAAA
1 CAACAAAACATTAAAAAAAA
25517725 CAACAAAACATTAAAAAAAA
1 CAACAAAACATTAAAAAAAA
25517745 CAA
1 CAA
25517748 TTTTTTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 19 0.47
20 10 0.25
21 1 0.03
22 10 0.25
ACGTcount: A:0.75, C:0.16, G:0.02, T:0.08
Consensus pattern (20 bp):
CAACAAAACATTAAAAAAAA
Found at i:25521140 original size:24 final size:24
Alignment explanation
Indices: 25521102--25521235 Score: 67
Period size: 24 Copynumber: 5.4 Consensus size: 24
25521092 TTAAAGGAGG
* *
25521102 AGGAGAAAAAGAAGAAGATAAGAAA
1 AGGA-AAAAAAAAGAAGAAAAGAAA
* *
25521127 AGGAAAAAAAAAGAGGGAGAAG-AA
1 AGGAAAAAAAAAGA-AGAAAAGAAA
* * *
25521151 ATGAAAAAGAAAGAACAAAAGAAAA
1 AGGAAAAAAAAAGAAGAAAAG-AAA
***
25521176 AGG-AAAAATGGGAAAGAAAA-AAA
1 AGGAAAAAAAAAG-AAGAAAAGAAA
**
25521199 AGAGAAAAATGGAAGAAAGAAAAGAAA
1 AG-GAAAAA-AAAAG-AAGAAAAGAAA
*
25521226 ATGAAAAAAA
1 AGGAAAAAAA
25521236 TGTGAAAAGA
Statistics
Matches: 80, Mismatches: 21, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
23 9 0.11
24 29 0.36
25 23 0.29
26 15 0.19
27 4 0.05
ACGTcount: A:0.71, C:0.01, G:0.25, T:0.04
Consensus pattern (24 bp):
AGGAAAAAAAAAGAAGAAAAGAAA
Found at i:25521157 original size:30 final size:32
Alignment explanation
Indices: 25521114--25521172 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
25521104 GAGAAAAAGA
*
25521114 AGAAGATAAGAAAAGGAAA-AA-AAAAGAGGG
1 AGAAGATAAGAAAAAGAAAGAACAAAAGAGGG
25521144 AGAAGA-AATGAAAAAGAAAGAACAAAAGA
1 AGAAGATAA-GAAAAAGAAAGAACAAAAGA
25521173 AAAAGGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 15 0.60
31 2 0.08
32 6 0.24
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.03
Consensus pattern (32 bp):
AGAAGATAAGAAAAAGAAAGAACAAAAGAGGG
Found at i:25521185 original size:32 final size:32
Alignment explanation
Indices: 25521145--25521226 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 32
25521135 AAAAGAGGGA
25521145 GAAGAAATGAAAAAGAAAGAACAAA-AGAAAAA-G
1 GAAGAAATG-AAAAGAAA-AA-AAAGAGAAAAATG
*
25521178 GAA-AAATGGGAAAGAAAAAAAAGAGAAAAATG
1 GAAGAAAT-GAAAAGAAAAAAAAGAGAAAAATG
25521210 GAAGAAA-GAAAAGAAAA
1 GAAGAAATGAAAAGAAAA
25521227 TGAAAAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
30 3 0.07
31 18 0.42
32 15 0.35
33 7 0.16
ACGTcount: A:0.72, C:0.01, G:0.23, T:0.04
Consensus pattern (32 bp):
GAAGAAATGAAAAGAAAAAAAAGAGAAAAATG
Found at i:25521214 original size:22 final size:24
Alignment explanation
Indices: 25521172--25521242 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 24
25521162 AGAACAAAAG
25521172 AAAAAG-GAAAAATGGGAAAGAAA
1 AAAAAGAGAAAAATGGGAAAGAAA
25521195 AAAAAGAGAAAAATGGAAGAAAGAAA
1 AAAAAGAGAAAAATGG--GAAAGAAA
* *
25521221 AGAAAATGAAAAAAATGTGAAA
1 A-AAAA-GAGAAAAATGGGAAA
25521243 AGACCAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 6 0.15
24 9 0.22
26 13 0.32
27 4 0.10
28 9 0.22
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (24 bp):
AAAAAGAGAAAAATGGGAAAGAAA
Found at i:25521232 original size:25 final size:26
Alignment explanation
Indices: 25521149--25521233 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 26
25521139 GAGGGAGAAG
* *
25521149 AAATGAAAAA-GAAAG-AACAAAAGAA
1 AAATGAAAAATGGAAGAAAGAAAAG-A
*
25521174 AAAGGAAAAATGG--GAAAGAAAA-A
1 AAATGAAAAATGGAAGAAAGAAAAGA
*
25521197 AAAGAGAAAAATGGAAGAAAGAAAAGA
1 AAA-TGAAAAATGGAAGAAAGAAAAGA
25521224 AAATGAAAAA
1 AAATGAAAAA
25521234 AATGTGAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 15 0.31
26 16 0.33
27 4 0.08
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.05
Consensus pattern (26 bp):
AAATGAAAAATGGAAGAAAGAAAAGA
Found at i:25538824 original size:12 final size:12
Alignment explanation
Indices: 25538804--25538839 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
25538794 CAACAAGGTA
25538804 AACAAAGAAAAC
1 AACAAAGAAAAC
*
25538816 AATAAAGAAAAC
1 AACAAAGAAAAC
25538828 AACAAA-AAAAC
1 AACAAAGAAAAC
25538839 A
1 A
25538840 TGAAAAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.78, C:0.14, G:0.06, T:0.03
Consensus pattern (12 bp):
AACAAAGAAAAC
Found at i:25545753 original size:19 final size:19
Alignment explanation
Indices: 25545729--25545769 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
25545719 AGTGCACATA
25545729 ACAAAAGAGACTCTAGATT
1 ACAAAAGAGACTCTAGATT
25545748 ACAAAAGAGACTCTAGATT
1 ACAAAAGAGACTCTAGATT
25545767 ACA
1 ACA
25545770 TTTCCTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.20
Consensus pattern (19 bp):
ACAAAAGAGACTCTAGATT
Found at i:25550901 original size:20 final size:20
Alignment explanation
Indices: 25550876--25550916 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25550866 CGGGACTAAT
*
25550876 CCAAAAACTCAGAATTTTTC
1 CCAAAAACTCAAAATTTTTC
**
25550896 CCAAAATTTCAAAATTTTTC
1 CCAAAAACTCAAAATTTTTC
25550916 C
1 C
25550917 TAGATGTAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.34
Consensus pattern (20 bp):
CCAAAAACTCAAAATTTTTC
Found at i:25552023 original size:21 final size:21
Alignment explanation
Indices: 25551971--25552062 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 21
25551961 AAGACTGAAT
* *
25551971 AGAAGCACATAAGTGCTAAAC
1 AGAAGCCCATAAGGGCTAAAC
* * *
25551992 ATAAACCCATAAGGGTTAAAC
1 AGAAGCCCATAAGGGCTAAAC
* * *
25552013 AGAAGCTCATAAAAGAGCTGAAC
1 AGAAGCCCAT--AAGGGCTAAAC
* * *
25552036 GGAAACCCATAAGGGTTAAAC
1 AGAAGCCCATAAGGGCTAAAC
25552057 AGAAGC
1 AGAAGC
25552063 TCAAAAGAAC
Statistics
Matches: 50, Mismatches: 19, Indels: 4
0.68 0.26 0.05
Matches are distributed among these distances:
21 35 0.70
23 15 0.30
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (21 bp):
AGAAGCCCATAAGGGCTAAAC
Found at i:25552048 original size:44 final size:42
Alignment explanation
Indices: 25551994--25552102 Score: 155
Period size: 42 Copynumber: 2.5 Consensus size: 42
25551984 TGCTAAACAT
* *
25551994 AAACCCATAAGGGTTAAACAGAAGCTCATAAAAGAGCTGAACGG
1 AAACCCATAAGGGTTAAACAGAAGCTC--AAAAGAACTGAACGA
25552038 AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAACTGAACGA
1 AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAACTGAACGA
* * *
25552080 AAACTCATATGAGTTAAACAGAA
1 AAACCCATAAGGGTTAAACAGAA
25552103 ACTTGTGAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 33 0.55
44 27 0.45
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (42 bp):
AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAACTGAACGA
Found at i:25554001 original size:2 final size:2
Alignment explanation
Indices: 25553994--25554083 Score: 180
Period size: 2 Copynumber: 45.0 Consensus size: 2
25553984 ATATGAACAT
25553994 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
25554036 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
25554078 CA CA CA
1 CA CA CA
25554084 TCTATATAAT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 88 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:25559118 original size:30 final size:30
Alignment explanation
Indices: 25559084--25559202 Score: 87
Period size: 32 Copynumber: 3.8 Consensus size: 30
25559074 TTTTAAAGGT
25559084 CAAAAAAAATTTTACCAACTTTTAAGGACC
1 CAAAAAAAATTTTACCAACTTTTAAGGACC
* *** *
25559114 C-AAAAAATTTTTTTGAAGCTTTTAAGGGCC
1 CAAAAAAAATTTTACCAA-CTTTTAAGGACC
** * *
25559144 CAAAATATATTTTTTACCAACTGTGAAGGGACC
1 CAAAA-A-AAATTTTACCAACTTTTAA-GGACC
* *
25559177 TAAAAAAAATTTTCTCCAACTTTTAA
1 CAAAAAAAATTTT-ACCAACTTTTAA
25559203 ATAACCTAAA
Statistics
Matches: 65, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
29 12 0.18
30 13 0.20
31 8 0.12
32 16 0.25
33 16 0.25
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (30 bp):
CAAAAAAAATTTTACCAACTTTTAAGGACC
Found at i:25564652 original size:38 final size:38
Alignment explanation
Indices: 25564578--25564692 Score: 176
Period size: 38 Copynumber: 3.0 Consensus size: 38
25564568 TTTCTTTTCT
* *
25564578 TCCCTCTGTTTATTTTCTTTTCTTTTTCTGTCGATTTGC
1 TCCCTCTGTTTCTTTTCTTTTC-TTTTCTGCCGATTTGC
*
25564617 TCCCTCCGTTTCTTTTCTTTTCTTTTCTGCCGATTTGC
1 TCCCTCTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGC
* *
25564655 TCCCTTTGTTTCTTTTCTTTTCTTTTCTGCTGATTTGC
1 TCCCTCTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGC
25564693 CAGTTTCTGC
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 50 0.71
39 20 0.29
ACGTcount: A:0.03, C:0.26, G:0.10, T:0.60
Consensus pattern (38 bp):
TCCCTCTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGC
Found at i:25570661 original size:44 final size:46
Alignment explanation
Indices: 25570613--25570736 Score: 107
Period size: 44 Copynumber: 2.7 Consensus size: 46
25570603 TTGATTTGAG
* *
25570613 TAATTTTATGAAATTATATATCATTATTAAATTAAATTTA-AT-AT
1 TAATTTTATGAAATTATATATAATTATTAAATTAAATTTATATCAA
* * *
25570657 TAATTATT-TTAAATTGTATA-AATTCA-TATAATAAAATTTATTATCAA
1 TAATT-TTATGAAATTATATATAATT-ATTA-AATTAAATTTA-TATCAA
* *
25570704 GAATTTTATG-AATTATATATTATTATTAAATTA
1 TAATTTTATGAAATTATATATAATTATTAAATTA
25570737 TACAAATTCA
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
43 5 0.08
44 26 0.43
45 2 0.03
46 17 0.28
47 11 0.18
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (46 bp):
TAATTTTATGAAATTATATATAATTATTAAATTAAATTTATATCAA
Found at i:25570948 original size:15 final size:15
Alignment explanation
Indices: 25570928--25570969 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
25570918 TTATTAAATT
25570928 ATATATTTAATTATA
1 ATATATTTAATTATA
*
25570943 ATATATTTAATAATA
1 ATATATTTAATTATA
25570958 AT-TATGTTAATT
1 ATATAT-TTAATT
25570970 TATATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:25571068 original size:16 final size:16
Alignment explanation
Indices: 25571047--25571088 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25571037 TTATTAAATT
*
25571047 ATATATTTTAATTATA
1 ATATATTTTAATAATA
25571063 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
25571078 AT-TATGTTTAA
1 ATATAT-TTTAA
25571089 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:25571073 original size:15 final size:15
Alignment explanation
Indices: 25571038--25571079 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25571028 TTAAGAATTT
*
25571038 TATTAAATTAT-ATA
1 TATTTAATTATAATA
25571052 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
25571066 TATTTAATAATAAT
1 TATTTAATTATAAT
25571080 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:25571259 original size:39 final size:40
Alignment explanation
Indices: 25571216--25571320 Score: 115
Period size: 44 Copynumber: 2.5 Consensus size: 40
25571206 TTCCATTATG
25571216 CTATTACACCTCTATTCCATTCAACCAAACACA-AGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACA-ATAGATTTA
* * *
25571255 CTATTACGCCTCTATTCCATTACATTCAACCAAACAATTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACAATAGATTTA
25571300 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
25571321 ACACCTCTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
39 15 0.27
40 5 0.09
43 1 0.02
44 17 0.31
45 17 0.31
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACAATAGATTTA
Found at i:25571314 original size:45 final size:44
Alignment explanation
Indices: 25571214--25571323 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 44
25571204 TTTTCCATTA
25571214 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * *
25571253 TACTATTACGCCTCTATTCCATTACATTCAACCAAACA-ATTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACA-AGA-T
25571298 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
25571324 CCTCTATTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 16 0.27
40 1 0.02
43 1 0.02
44 16 0.27
45 25 0.42
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:25571323 original size:16 final size:16
Alignment explanation
Indices: 25571302--25571355 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
25571292 TTGATTTGCT
25571302 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
25571318 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
25571334 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
25571350 AATACA
1 ATTACA
25571356 GTGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.28, C:0.35, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:25572269 original size:17 final size:18
Alignment explanation
Indices: 25572242--25572277 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
25572232 ATACTCTAAC
*
25572242 AAATGACAAATAATCAAT
1 AAATGACAAATAAACAAT
25572260 AAAT-ACAAATAAACAAT
1 AAATGACAAATAAACAAT
25572277 A
1 A
25572278 CCATACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATGACAAATAAACAAT
Found at i:25573040 original size:12 final size:12
Alignment explanation
Indices: 25573025--25573058 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25573015 TTGATAAAAA
*
25573025 AATACTAATACT
1 AATAATAATACT
*
25573037 AATAATAATAGT
1 AATAATAATACT
25573049 AATAATAATA
1 AATAATAATA
25573059 ATAACAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (12 bp):
AATAATAATACT
Found at i:25574498 original size:51 final size:51
Alignment explanation
Indices: 25574400--25574500 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
25574390 ACTCCACTTC
* * *
25574400 AGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAATATTCACTACCTTT
1 AGCTTTAATCTATTCCACTACAACGCAAGGGAAACAAGATTCACTACCTTT
* * * **
25574451 AGCTTTAATCTGTTTCACTACAACGCAAGGGAAATAAGATTTGCTACCTT
1 AGCTTTAATCTATTCCACTACAACGCAAGGGAAACAAGATTCACTACCTT
25574501 CAGTCTTAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (51 bp):
AGCTTTAATCTATTCCACTACAACGCAAGGGAAACAAGATTCACTACCTTT
Found at i:25574737 original size:51 final size:51
Alignment explanation
Indices: 25574661--25574758 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
25574651 GCTCCAGTTC
*
25574661 AGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTTGCTGCTTTT
1 AGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCGCTGCTTTT
* * * * *
25574712 AGCTTTAATTTGTTCTACTGCAACACCAGGTAAATAAGATTCGCTGC
1 AGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCGCTGC
25574759 CTTCAGTCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (51 bp):
AGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCGCTGCTTTT
Found at i:25574754 original size:123 final size:123
Alignment explanation
Indices: 25574535--25574761 Score: 294
Period size: 123 Copynumber: 1.8 Consensus size: 123
25574525 ATTTGCTACC
* * *
25574535 TTCAGCTTTAATCTGCTCCGCTGCAACATCAGGGAAACAAAATTCGCTACCTTTAGCTTTAATTT
1 TTCAGCTTTAATCTACTCCACTGCAACACCAGGGAAACAAAATTCGCTACCTTTAGCTTTAATTT
* ** * *
25574600 GTTCCAATGTAATGCCAAGGAGATAGGATTCGCTACCTTTAGCTTTAATCCGCTCCAG
66 GTTCCAATGCAACACCAAGGAAATAAGATTCGCTACCTTTAGCTTTAATCCGCTCCAG
* * * * *
25574658 TTCAGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTTGCTGCTTTTAGCTTTAATTT
1 TTCAGCTTTAATCTACTCCACTGCAACACCAGGGAAACAAAATTCGCTACCTTTAGCTTTAATTT
* * *
25574723 GTTCTACTGCAACACC-AGGTAAATAAGATTCGCTGCCTT
66 GTTCCAATGCAACACCAAGG-AAATAAGATTCGCTACCTT
25574762 CAGTCTTAAC
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
122 3 0.03
123 84 0.97
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (123 bp):
TTCAGCTTTAATCTACTCCACTGCAACACCAGGGAAACAAAATTCGCTACCTTTAGCTTTAATTT
GTTCCAATGCAACACCAAGGAAATAAGATTCGCTACCTTTAGCTTTAATCCGCTCCAG
Found at i:25574944 original size:51 final size:51
Alignment explanation
Indices: 25574787--25575336 Score: 486
Period size: 51 Copynumber: 11.3 Consensus size: 51
25574777 GATTCACTAA
* * * * *
25574787 CTTCAGCTTTAGTCTGCTCCACTACAACGCCAAGGAAATAAGATTTGCTAC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
* * * * * *
25574838 CTTCACCTTTAATC--TACTA-TG--AC-ACTAGGAAATAAGATTTGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
* * *
25574883 CTTTAACTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
* * * * * *
25574934 CTTTAGCTTTAATCTATT---GTG--GCGCCAGGGAAATAAGATTCGTTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
25574980 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
* * * * *
25575031 CTTCTGCTTTAATCTATT---GTG--ACGCCAGGGAAATAAGATTTGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
* * * * *
25575077 CTTCAACTTTAATTTGCTCCACTGCAATGCCAAGGAAATAAGATTCGCTAC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
* * * *
25575128 CTTCTGCTTTAATCTATT---GTG--ACGCCAGGGAAATAAGATTCGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
* **
25575174 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCGCCAC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
* * * * * * *
25575225 CTTCAGCTTTAATCTATT---GTG--ACACTAGGGAAATAGGATTCGCTGT
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
* * *
25575271 CTTTAGCTTTAATCTGTTCCACTGCAACACCAAAGAAATAAGATTCGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
*
25575322 CTTTAGCTTTAATCT
1 CTTCAGCTTTAATCT
25575337 ATTGCGACGC
Statistics
Matches: 396, Mismatches: 77, Indels: 52
0.75 0.15 0.10
Matches are distributed among these distances:
45 31 0.08
46 148 0.37
47 3 0.01
48 11 0.03
49 10 0.03
50 2 0.01
51 191 0.48
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (51 bp):
CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGC
Found at i:25575001 original size:97 final size:97
Alignment explanation
Indices: 25574787--25575365 Score: 804
Period size: 97 Copynumber: 6.0 Consensus size: 97
25574777 GATTCACTAA
* * * * * *
25574787 CTTCAGCTTTAGTCTGCTCCACTACAACGCCAAGGAAATAAGATTTGCTACCTTCACCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTTAGCTTTAATC
* * * * *
25574852 TACTATGACACTA-GGAAATAAGATTTGCTGC
66 TATTGTGACGCCAGGGAAATAAGATTCGCTGC
* * * *
25574883 CTTTAACTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTTAGCTTTAATC
* *
25574948 TATTGTGGCGCCAGGGAAATAAGATTCGTTGC
66 TATTGTGACGCCAGGGAAATAAGATTCGCTGC
*
25574980 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCT-GCTTTAAT
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTT-TAGCTTTAAT
*
25575044 CTATTGTGACGCCAGGGAAATAAGATTTGCTGC
65 CTATTGTGACGCCAGGGAAATAAGATTCGCTGC
* * * *
25575077 CTTCAACTTTAATTTGCTCCACTGCAATGCCAAGGAAATAAGATTCGCTACCTTCT-GCTTTAAT
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTT-TAGCTTTAAT
25575141 CTATTGTGACGCCAGGGAAATAAGATTCGCTGC
65 CTATTGTGACGCCAGGGAAATAAGATTCGCTGC
* * *
25575174 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCGCCACCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTTAGCTTTAATC
* * * *
25575239 TATTGTGACACTAGGGAAATAGGATTCGCTGT
66 TATTGTGACGCCAGGGAAATAAGATTCGCTGC
* * * *
25575271 CTTTAGCTTTAATCTGTTCCACTGCAACACCAAAGAAATAAGATTCGCTGCCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTTAGCTTTAATC
*
25575336 TATTGCGACGCCAGGGAAATAAGATTCGCT
66 TATTGTGACGCCAGGGAAATAAGATTCGCT
25575366 ATGATAACTT
Statistics
Matches: 429, Mismatches: 51, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
96 63 0.15
97 365 0.85
98 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (97 bp):
CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTTAGCTTTAATC
TATTGTGACGCCAGGGAAATAAGATTCGCTGC
Found at i:25575710 original size:24 final size:24
Alignment explanation
Indices: 25575676--25575733 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
25575666 CGGATTGCCC
*
25575676 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
* *
25575700 CTACTGTAATCTTCAAAGTTTAAT
1 CCACTGTAATCTTCAAAGTTCAAT
25575724 CCACTGTAAT
1 CCACTGTAAT
25575734 TTTGGGACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.36
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:25585353 original size:8 final size:7
Alignment explanation
Indices: 25585325--25585351 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25585315 CAAAATAACA
25585325 GAAAAAT
1 GAAAAAT
25585332 GAAAAAT
1 GAAAAAT
25585339 GAAAAAT
1 GAAAAAT
25585346 GAAAAA
1 GAAAAA
25585352 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (7 bp):
GAAAAAT
Found at i:25591854 original size:17 final size:17
Alignment explanation
Indices: 25591832--25591867 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
25591822 AGTAAAGACC
25591832 TTCTGATCAATATAGTG
1 TTCTGATCAATATAGTG
25591849 TTCTGATCAATATAGTG
1 TTCTGATCAATATAGTG
25591866 TT
1 TT
25591868 TTGTGCGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (17 bp):
TTCTGATCAATATAGTG
Found at i:25592294 original size:87 final size:92
Alignment explanation
Indices: 25592191--25592368 Score: 285
Period size: 87 Copynumber: 2.0 Consensus size: 92
25592181 TATAGAAATA
* *
25592191 TACTTCTTTTATTTTACATTGATTAGAATAAGG-TTTTCAACCTTACTTC-TTTTA-T-TTT-AC
1 TACTTCTTTTATTTTACATTGATTAAAATAAGGTTTTTCAACCTTACTACATTTTACTATTTGAC
*
25592251 ATTGATTAGAATAAGGTTTTTCAACCT
66 ATTAATTAGAATAAGGTTTTTCAACCT
25592278 TACTTCTTTTATTTTACATTGATTAAAATAAGGTTTTTCAACCTTACTACATTTTATCTATTTGA
1 TACTTCTTTTATTTTACATTGATTAAAATAAGGTTTTTCAACCTTACTACATTTTA-CTATTTGA
25592343 CATTAATTAGAATAAGGTTTTTCAAC
65 CATTAATTAGAATAAGGTTTTTCAAC
25592369 TTATAAATAG
Statistics
Matches: 82, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
87 32 0.39
88 15 0.18
89 5 0.06
91 1 0.01
92 3 0.04
93 26 0.32
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.48
Consensus pattern (92 bp):
TACTTCTTTTATTTTACATTGATTAAAATAAGGTTTTTCAACCTTACTACATTTTACTATTTGAC
ATTAATTAGAATAAGGTTTTTCAACCT
Found at i:25592359 original size:49 final size:44
Alignment explanation
Indices: 25592191--25592368 Score: 277
Period size: 44 Copynumber: 4.0 Consensus size: 44
25592181 TATAGAAATA
25592191 TACTTCTTTTATTTTACATTGATTAGAATAAGG-TTTTCAACCT
1 TACTTCTTTTATTTTACATTGATTAGAATAAGGTTTTTCAACCT
25592234 TACTTCTTTTATTTTACATTGATTAGAATAAGGTTTTTCAACCT
1 TACTTCTTTTATTTTACATTGATTAGAATAAGGTTTTTCAACCT
*
25592278 TACTTCTTTTATTTTACATTGATTAAAATAAGGTTTTTCAACCT
1 TACTTCTTTTATTTTACATTGATTAGAATAAGGTTTTTCAACCT
* *
25592322 TACTACATTTTATCTATTTGACATTAATTAGAATAAGGTTTTTCAAC
1 TACTTC-TTTTA--T-TTT-ACATTGATTAGAATAAGGTTTTTCAAC
25592369 TTATAAATAG
Statistics
Matches: 125, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
43 33 0.26
44 58 0.46
45 5 0.04
47 1 0.01
48 3 0.02
49 25 0.20
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.48
Consensus pattern (44 bp):
TACTTCTTTTATTTTACATTGATTAGAATAAGGTTTTTCAACCT
Found at i:25593961 original size:9 final size:9
Alignment explanation
Indices: 25593947--25593971 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25593937 GCTTTATAAA
25593947 TTCTATTAG
1 TTCTATTAG
25593956 TTCTATTAG
1 TTCTATTAG
25593965 TTCTATT
1 TTCTATT
25593972 TATAAATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (9 bp):
TTCTATTAG
Found at i:25601924 original size:40 final size:40
Alignment explanation
Indices: 25601843--25601924 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
25601833 TCAAGTTCTC
* **
25601843 TAATTTGATTTCTTTGGAAAATCTTTAAAAACCCCCCAAA
1 TAATTTGATTTCTTAGGAAAATCTTTAAAAACCCCAAAAA
25601883 TAATTTGATTTCTTAGGAAAATCTTTAAAAACCCCAAAAA
1 TAATTTGATTTCTTAGGAAAATCTTTAAAAACCCCAAAAA
25601923 TA
1 TA
25601925 CATCCTTGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (40 bp):
TAATTTGATTTCTTAGGAAAATCTTTAAAAACCCCAAAAA
Found at i:25604074 original size:29 final size:29
Alignment explanation
Indices: 25604028--25604104 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 29
25604018 TTTTGAAGAT
25604028 AAGAAGAGAAGAGTAAAAAAAATTGGTTGTAG
1 AAGAAGAGAA-A--AAAAAAAATTGGTTGTAG
25604060 AAGAAGAG---AAAAAAAATTGGTTGTAG
1 AAGAAGAGAAAAAAAAAAATTGGTTGTAG
*
25604086 AAGAAGAGAAAACAAAAAA
1 AAGAAGAGAAAAAAAAAAA
25604105 GAATCCGTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
26 26 0.63
29 7 0.17
32 8 0.20
ACGTcount: A:0.60, C:0.01, G:0.25, T:0.14
Consensus pattern (29 bp):
AAGAAGAGAAAAAAAAAAATTGGTTGTAG
Found at i:25604078 original size:26 final size:26
Alignment explanation
Indices: 25604034--25604102 Score: 120
Period size: 26 Copynumber: 2.6 Consensus size: 26
25604024 AGATAAGAAG
25604034 AGAAGAGTAAAAAAAATTGGTTGTAGA
1 AGAAGAG-AAAAAAAATTGGTTGTAGA
25604061 AGAAGAGAAAAAAAATTGGTTGTAGA
1 AGAAGAGAAAAAAAATTGGTTGTAGA
25604087 AGAAGAGAAAACAAAA
1 AGAAGAGAAAA-AAAA
25604103 AAGAATCCGT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 30 0.73
27 11 0.27
ACGTcount: A:0.58, C:0.01, G:0.25, T:0.16
Consensus pattern (26 bp):
AGAAGAGAAAAAAAATTGGTTGTAGA
Found at i:25607043 original size:45 final size:45
Alignment explanation
Indices: 25606979--25607074 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 45
25606969 TTTGTGGTGG
* * * *
25606979 ATACAAGCTTGAAAATTAAGTCAAACATTT-ACTATAATTAAATTA
1 ATACAAACTTCAAAATTAAGTAAAAAATTTGA-TATAATTAAATTA
25607024 ATACAAACTTCAAAATTAAGTAAAAAATTTGATATAATTAAATTA
1 ATACAAACTTCAAAATTAAGTAAAAAATTTGATATAATTAAATTA
25607069 ATACAA
1 ATACAA
25607075 TGCAGTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 45 0.98
46 1 0.02
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.32
Consensus pattern (45 bp):
ATACAAACTTCAAAATTAAGTAAAAAATTTGATATAATTAAATTA
Found at i:25615492 original size:82 final size:82
Alignment explanation
Indices: 25615355--25615517 Score: 290
Period size: 82 Copynumber: 2.0 Consensus size: 82
25615345 ATCAAAATTA
*
25615355 TAATCACAAATCATGTCATAATTGAATCTTCAATACATTCAAAACATCTAATAATACAAAGAGAC
1 TAATCACAAATCATGTCATAATAGAATCTTCAATACATTCAAAACATCTAATAATACAAAGAGAC
25615420 TTATAATTAATATATAT
66 TTATAATTAATATATAT
* *
25615437 TAATCACAAATCATGTCATAATAGAATCTTCAATACATTCAAAACATCTAATAATATAAGGAGAC
1 TAATCACAAATCATGTCATAATAGAATCTTCAATACATTCAAAACATCTAATAATACAAAGAGAC
*
25615502 TTGTAATTAATATATA
66 TTATAATTAATATATA
25615518 CTATCAACTT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (82 bp):
TAATCACAAATCATGTCATAATAGAATCTTCAATACATTCAAAACATCTAATAATACAAAGAGAC
TTATAATTAATATATAT
Found at i:25618039 original size:14 final size:14
Alignment explanation
Indices: 25618007--25618048 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
25617997 AGTCTCCAAT
*
25618007 TATAGTAAATATGA
1 TATAGTAAATATAA
25618021 TATAGTAAATA-AA
1 TATAGTAAATATAA
25618034 TCATAGTAAAATATA
1 T-ATAGT-AAATATA
25618049 CCTGAAGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 2 0.08
14 16 0.67
15 5 0.21
16 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (14 bp):
TATAGTAAATATAA
Found at i:25634720 original size:14 final size:14
Alignment explanation
Indices: 25634703--25634730 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25634693 GTTTAAAATT
25634703 TTTAATTAATTAAA
1 TTTAATTAATTAAA
25634717 TTTAATTAATTAAA
1 TTTAATTAATTAAA
25634731 AATATATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:25639047 original size:6 final size:6
Alignment explanation
Indices: 25639038--25639107 Score: 76
Period size: 6 Copynumber: 12.0 Consensus size: 6
25639028 TTTAAATTTC
* *
25639038 ATATTA ATATTA ATATTA ATATTA A-ATAA ATATAATT ATATTA A-A-TA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATAT--TA ATATTA ATATTA
25639085 A-ATTA ATATTA ATATTA ATATTA
1 ATATTA ATATTA ATATTA ATATTA
25639108 TTAATTTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
4 4 0.07
5 8 0.15
6 39 0.71
8 4 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATATTA
Found at i:25639078 original size:19 final size:18
Alignment explanation
Indices: 25639056--25639091 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
25639046 ATTAATATTA
25639056 ATATTAAATAAATATAATT
1 ATATTAAATAAAT-TAATT
25639075 ATATTAAATAAATTAAT
1 ATATTAAATAAATTAAT
25639092 ATTAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTAAATAAATTAATT
Found at i:25639176 original size:10 final size:10
Alignment explanation
Indices: 25639161--25639185 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25639151 AATAATTATG
25639161 TATTTTAATA
1 TATTTTAATA
25639171 TATTTTAATA
1 TATTTTAATA
25639181 TATTT
1 TATTT
25639186 CTTTCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TATTTTAATA
Found at i:25640100 original size:21 final size:20
Alignment explanation
Indices: 25640059--25640120 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
25640049 TTCTAAAAAA
25640059 TTATATAAAAATTTA--TATT
1 TTATA-AAAAATTTATGTATT
25640078 TTA-AAATAAATTTCATGTATT
1 TTATAAA-AAATTT-ATGTATT
*
25640099 TTATAAAAAATTTATTTATT
1 TTATAAAAAATTTATGTATT
25640119 TT
1 TT
25640121 GTATTTTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 2 0.05
18 7 0.19
19 4 0.11
20 8 0.22
21 13 0.35
22 3 0.08
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TTATAAAAAATTTATGTATT
Found at i:25655394 original size:19 final size:20
Alignment explanation
Indices: 25655369--25655417 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
25655359 TTCTCTTACA
*
25655369 ATTTTTGATATTTCCTCATT
1 ATTTTTGATATTCCCTCATT
*
25655389 -TTTTTGGTATTCCCTCATT
1 ATTTTTGATATTCCCTCATT
25655408 ATTTTTGATA
1 ATTTTTGATA
25655418 CACCCTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.18, C:0.14, G:0.08, T:0.59
Consensus pattern (20 bp):
ATTTTTGATATTCCCTCATT
Found at i:25668715 original size:44 final size:44
Alignment explanation
Indices: 25668649--25669704 Score: 942
Period size: 44 Copynumber: 23.9 Consensus size: 44
25668639 TACTGGTGGC
* * * * * *
25668649 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
** * * *
25668693 GAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTAGTGGC--
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTT--CAT-GTATTGACAT
** * *
25668738 GAAGTAGATCGGAGAAAGCAGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * * *
25668782 GAAGTAGATCAGAGATAGCAGATCTTATCTTCATATATTGATAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * *
25668826 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
25668870 GAAGTAGAT-AAGAGATAGTAGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCAA-AGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * *
25668914 GAAGTAGATCGAGGATAATGGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
* *** ***
25668958 GAAGTAGATCAGAA-ATAGTGGATCTTGTCTTCCCATATTGGTGGT
1 GAAGTAGATCA-AAGATAGTAGATCTTGTCTTCATGTATT-GACAT
* * * *
25669003 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTAACAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * * * ***
25669047 GAAGTAGATCAGAGATAGTGGATCTTGTCTTCCTATACTGGTGGT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTA-TTGACAT
* * * *
25669092 GAAGTAGATCGAAGATAATGGATCTTGTCTTTAT-TATTGACAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * * *
25669135 GAAGTAGATCAGAGATAGCAGATCTTATCTTCATATATTGATAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * *
25669179 GAAGTAGATCGAAGATA-AAGGATCTTGTCTTCGTGTATTGACAG
1 GAAGTAGATCAAAGATAGTA-GATCTTGTCTTCATGTATTGACAT
* * *
25669223 GAAGTAGATCAGAGATAGCAGATCTTATCTTCATGTATTGACAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * *
25669267 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
* *
25669311 GAAGTAGATCAGAGATAGTAGATCTTGTCTTCATATATTGACAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * * *
25669355 GAAGTAGATCGAGGATAATGGATCTTGCCTTCATGTATTGACAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
* *** ***
25669399 GAAGTAGATCAGAA-ATAGTGGATCTTGTCTTCCCATATTGGTGGT
1 GAAGTAGATCA-AAGATAGTAGATCTTGTCTTCATGTATT-GACAT
* * * * *
25669444 AAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTAACAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * * * ***
25669488 GAAGTAGATCAGAGATAGTGGATCTTGTCTTCCTATACTGGTGGT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTA-TTGACAT
* * * *
25669533 GAAGTAGATCGAAGATAAT-GAATCTTATCTTTATGTATTGACAT
1 GAAGTAGATCAAAGATAGTAG-ATCTTGTCTTCATGTATTGACAT
* * * * * *
25669577 GAAGTAGATCAGAGATAGCAGATCTTATCTTTATATATTGATAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
* * * *
25669621 GAAGTAGATCGAAGATA-AAGGATCTTGTCTTCGTGTATTGACAG
1 GAAGTAGATCAAAGATAGTA-GATCTTGTCTTCATGTATTGACAT
* * * *
25669665 GAAGTAGATCAAAGACAGCAGACCTTGTCTTCCTGTATTG
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTG
25669705 GCAGCGAAGA
Statistics
Matches: 819, Mismatches: 171, Indels: 44
0.79 0.17 0.04
Matches are distributed among these distances:
42 5 0.01
43 36 0.04
44 610 0.74
45 159 0.19
46 3 0.00
47 6 0.01
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.33
Consensus pattern (44 bp):
GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGACAT
Found at i:25668769 original size:45 final size:45
Alignment explanation
Indices: 25668620--25668769 Score: 189
Period size: 45 Copynumber: 3.4 Consensus size: 45
25668610 GATTAAATAT
* *
25668620 AGCAGATCTTGTCTTTCCATACTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAA
* * * *
25668665 AGCAGATCTTGTCTT--CAT-GTACTGGCGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCCATACTAGTGGC--GAAGTAGATCGAAGAA
* *
25668709 ACCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGGAGAA
1 AGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAA
25668754 AGCAGATCTTGTCTTC
1 AGCAGATCTTGTCTTC
25668770 ATGTATTGAC
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
42 5 0.06
43 3 0.03
44 28 0.32
45 43 0.49
46 3 0.03
47 6 0.07
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAA
Found at i:25669566 original size:441 final size:442
Alignment explanation
Indices: 25668624--25669704 Score: 1782
Period size: 441 Copynumber: 2.4 Consensus size: 442
25668614 AAATATAGCA
* *
25668624 GATCTTGTCTTTCC-ATACTGGTGGCGAAGTAGATCGAAGA-AA-GCAGATCTTGTCTTCATGTA
1 GATCTTGTC-TTCCTATACTGGTGGTGAAGTAGATCGAAGATAATG-A-ATCTTGTCTTTATGTA
* * * * * * * **
25668686 CTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTAGTG--GCGAAGTAGATCG
63 TTGACATGAAGTAGATCAGAGATAGCAGATCTTATCTT--CATA-TATTGATATGAAGTAGATCG
* * *
25668749 --GAGAAAGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTATCT
125 AAGATAAAG--GATCTTGTCTTCGTGTATTGACAGGAAGTAGATCAGAGATAGCAGATCTTATCT
* *
25668812 TCATATATTGATATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAG
188 TCATGTATTGACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAG
* *
25668877 ATAAGAGATAGTAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAGGATAATGGATCTTGT
253 ATAAGAGATAGTAGATCTTGTCTTCATATATTGACATGAAGTAGATCGAGGATAATGGATCTTGC
*
25668942 CTTCATGTATTGACATGAAGTAGATCAGAAATAGTGGATCTTGTCTTCCCATATTGGTGGTGAAG
318 CTTCATGTATTGACATGAAGTAGATCAGAAATAGTGGATCTTGTCTTCCCATATTGGTGGTAAAG
25669007 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTAACATGAAGTAGATCAGAGATAGTG
383 TAGATCGAAGATAATGGATCTTGTCTTCATGTATTAACATGAAGTAGATCAGAGATAGTG
*
25669067 GATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTGTCTTTAT-TATTG
1 GATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAGATAATGAATCTTGTCTTTATGTATTG
25669131 ACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCATATATTGATATGAAGTAGATCGAAGATA
66 ACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCATATATTGATATGAAGTAGATCGAAGATA
25669196 AAGGATCTTGTCTTCGTGTATTGACAGGAAGTAGATCAGAGATAGCAGATCTTATCTTCATGTAT
131 AAGGATCTTGTCTTCGTGTATTGACAGGAAGTAGATCAGAGATAGCAGATCTTATCTTCATGTAT
*
25669261 TGACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGA
196 TGACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATAAGAGA
25669326 TAGTAGATCTTGTCTTCATATATTGACATGAAGTAGATCGAGGATAATGGATCTTGCCTTCATGT
261 TAGTAGATCTTGTCTTCATATATTGACATGAAGTAGATCGAGGATAATGGATCTTGCCTTCATGT
25669391 ATTGACATGAAGTAGATCAGAAATAGTGGATCTTGTCTTCCCATATTGGTGGTAAAGTAGATCGA
326 ATTGACATGAAGTAGATCAGAAATAGTGGATCTTGTCTTCCCATATTGGTGGTAAAGTAGATCGA
25669456 AGATAATGGATCTTGTCTTCATGTATTAACATGAAGTAGATCAGAGATAGTG
391 AGATAATGGATCTTGTCTTCATGTATTAACATGAAGTAGATCAGAGATAGTG
*
25669508 GATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAGATAATGAATCTTATCTTTATGTATTG
1 GATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAGATAATGAATCTTGTCTTTATGTATTG
*
25669573 ACATGAAGTAGATCAGAGATAGCAGATCTTATCTTTATATATTGATATGAAGTAGATCGAAGATA
66 ACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCATATATTGATATGAAGTAGATCGAAGATA
* * * * *
25669638 AAGGATCTTGTCTTCGTGTATTGACAGGAAGTAGATCAAAGACAGCAGACCTTGTCTTCCTGTAT
131 AAGGATCTTGTCTTCGTGTATTGACAGGAAGTAGATCAGAGATAGCAGATCTTATCTTCATGTAT
25669703 TG
196 TG
25669705 GCAGCGAAGA
Statistics
Matches: 601, Mismatches: 29, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
439 4 0.01
440 4 0.01
441 369 0.61
442 169 0.28
443 52 0.09
444 2 0.00
445 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (442 bp):
GATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAGATAATGAATCTTGTCTTTATGTATTG
ACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCATATATTGATATGAAGTAGATCGAAGATA
AAGGATCTTGTCTTCGTGTATTGACAGGAAGTAGATCAGAGATAGCAGATCTTATCTTCATGTAT
TGACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATAAGAGA
TAGTAGATCTTGTCTTCATATATTGACATGAAGTAGATCGAGGATAATGGATCTTGCCTTCATGT
ATTGACATGAAGTAGATCAGAAATAGTGGATCTTGTCTTCCCATATTGGTGGTAAAGTAGATCGA
AGATAATGGATCTTGTCTTCATGTATTAACATGAAGTAGATCAGAGATAGTG
Found at i:25669704 original size:88 final size:88
Alignment explanation
Indices: 25668649--25669696 Score: 1345
Period size: 88 Copynumber: 11.9 Consensus size: 88
25668639 TACTGGTGGC
* * * * *
25668649 GAAGTAGATCGAAGA-AA-GCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACC
1 GAAGTAGATCGAAGATAATG--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGC
* **
25668712 AGATCTTGTCTTCCCATACTAGTG--GC
64 AGATCTTGTCTT--CATA-TATTGATAT
*
25668738 GAAGTAGATCGGAGA-AA-GCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGC
1 GAAGTAGATCGAAGATAATG--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGC
*
25668801 AGATCTTATCTTCATATATTGATAT
64 AGATCTTGTCTTCATATATTGATAT
* *
25668826 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATAAGAGATAGTAG
1 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAG
* *
25668891 ATCTTGTCTTCATGTATTGACAT
66 ATCTTGTCTTCATATATTGATAT
* * **
25668914 GAAGTAGATCGAGGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAAATAGTGG
1 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAG
** * *
25668979 ATCTTGTCTTCCCATATTGGTGGT
66 ATCTTGTCTTCATATATTGAT-AT
* **
25669003 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTAACATGAAGTAGATCAGAGATAGTGG
1 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAG
* * * *
25669068 ATCTTGTCTTCCTATACTGGTGGT
66 ATCTTGTCTTCATATATTGAT-AT
*
25669092 GAAGTAGATCGAAGATAATGGATCTTGTCTTTAT-TATTGACATGAAGTAGATCAGAGATAGCAG
1 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAG
*
25669156 ATCTTATCTTCATATATTGATAT
66 ATCTTGTCTTCATATATTGATAT
* * *
25669179 GAAGTAGATCGAAGATAAAGGATCTTGTCTTCGTGTATTGACAGGAAGTAGATCAGAGATAGCAG
1 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAG
* * *
25669244 ATCTTATCTTCATGTATTGACAT
66 ATCTTGTCTTCATATATTGATAT
*
25669267 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAG
1 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAG
*
25669332 ATCTTGTCTTCATATATTGACAT
66 ATCTTGTCTTCATATATTGATAT
* * * **
25669355 GAAGTAGATCGAGGATAATGGATCTTGCCTTCATGTATTGACATGAAGTAGATCAGAAATAGTGG
1 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAG
** * *
25669420 ATCTTGTCTTCCCATATTGGTGGT
66 ATCTTGTCTTCATATATTGAT-AT
* * **
25669444 AAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTAACATGAAGTAGATCAGAGATAGTGG
1 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAG
* * * *
25669509 ATCTTGTCTTCCTATACTGGTGGT
66 ATCTTGTCTTCATATATTGAT-AT
* * *
25669533 GAAGTAGATCGAAGATAATGAATCTTATCTTTATGTATTGACATGAAGTAGATCAGAGATAGCAG
1 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAG
* *
25669598 ATCTTATCTTTATATATTGATAT
66 ATCTTGTCTTCATATATTGATAT
* * * * *
25669621 GAAGTAGATCGAAGATAAAGGATCTTGTCTTCGTGTATTGACAGGAAGTAGATCAAAGACAGCAG
1 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAG
*
25669686 ACCTTGTCTTC
66 ATCTTGTCTTC
25669697 CTGTATTGGC
Statistics
Matches: 860, Mismatches: 92, Indels: 15
0.89 0.10 0.02
Matches are distributed among these distances:
86 4 0.00
87 36 0.04
88 474 0.55
89 345 0.40
90 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.33
Consensus pattern (88 bp):
GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAG
ATCTTGTCTTCATATATTGATAT
Found at i:25670603 original size:18 final size:17
Alignment explanation
Indices: 25670580--25670613 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25670570 TCTGTTTTTT
25670580 TATTTTCGGTGTTTTATC
1 TATTTTCGGT-TTTTATC
*
25670598 TATTTTCTGTTTTTAT
1 TATTTTCGGTTTTTAT
25670614 ATTGAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.68
Consensus pattern (17 bp):
TATTTTCGGTTTTTATC
Found at i:25671586 original size:16 final size:15
Alignment explanation
Indices: 25671559--25671613 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
25671549 TTTTTCATAA
25671559 ATATATATTATT-TT
1 ATATATATTATTATT
25671573 ATATATATCCTATTATT
1 ATATATAT--TATTATT
*
25671590 -TATATACTTATTATAC
1 ATATATA-TTATTAT-T
25671606 ATATATAT
1 ATATATAT
25671614 ATAAGTGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 8 0.24
15 6 0.18
16 11 0.32
17 9 0.26
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATATTATTATT
Found at i:25673331 original size:20 final size:19
Alignment explanation
Indices: 25673294--25673384 Score: 67
Period size: 20 Copynumber: 4.6 Consensus size: 19
25673284 ATACCAACCC
25673294 ATTTTTGGTAGAC-CCTCATA
1 ATTTTTGGT--ACTCCTCATA
*
25673314 ATTTTTGGTACTCACTCATG
1 ATTTTTGGTACTC-CTCATA
* *
25673334 TTTTTTGGTACTTCCTTATA
1 ATTTTTGGTAC-TCCTCATA
* * * *
25673354 AGTTTTGGTATTTCTTCAAA
1 ATTTTTGGTA-CTCCTCATA
25673374 ATTTTTGGTAC
1 ATTTTTGGTAC
25673385 CTTTTAATAT
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 50 0.91
21 2 0.04
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.49
Consensus pattern (19 bp):
ATTTTTGGTACTCCTCATA
Found at i:25673455 original size:40 final size:39
Alignment explanation
Indices: 25673349--25673458 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 39
25673339 TGGTACTTCC
* * *
25673349 TTATAA-GTTTTGGTATTTCTTCAAAATTTTTGGTACCTT
1 TTATAATGTTTTGGTATTTC-TCATAATTTTTGGCACCTA
* *
25673388 TTA-ATATTTTTTGGTATTCTCTTATAATTTGTTGGCACACTA
1 TTATA-ATGTTTTGGTATT-TCTCATAATTT-TTGGCAC-CTA
25673430 TTATAATGTTTT-GTATTTCTCATAATTTT
1 TTATAATGTTTTGGTATTTCTCATAATTTT
25673459 GGTATCCCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
38 1 0.02
39 5 0.09
40 27 0.47
41 13 0.22
42 11 0.19
43 1 0.02
ACGTcount: A:0.24, C:0.10, G:0.11, T:0.55
Consensus pattern (39 bp):
TTATAATGTTTTGGTATTTCTCATAATTTTTGGCACCTA
Found at i:25674571 original size:20 final size:20
Alignment explanation
Indices: 25674519--25674592 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
25674509 TTGGTACAAG
25674519 CCTCATAATTTTTTATACTT
1 CCTCATAATTTTTTATACTT
* ** *
25674539 CCCCATTTTTTTTTTATATTT
1 CCTCA-TAATTTTTTATACTT
** *
25674560 CCTCATAATTTTTTAGGCTC
1 CCTCATAATTTTTTATACTT
25674580 CCTCAT-ATTTTTT
1 CCTCATAATTTTTT
25674593 GGTATGCTCT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
19 7 0.17
20 19 0.45
21 16 0.38
ACGTcount: A:0.19, C:0.22, G:0.03, T:0.57
Consensus pattern (20 bp):
CCTCATAATTTTTTATACTT
Found at i:25674571 original size:21 final size:21
Alignment explanation
Indices: 25674519--25674573 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
25674509 TTGGTACAAG
25674519 CCTCATAA-TTTTTTATACTT
1 CCTCATAATTTTTTTATACTT
* ** *
25674539 CCCCATTTTTTTTTTATATTT
1 CCTCATAATTTTTTTATACTT
25674560 CCTCATAATTTTTT
1 CCTCATAATTTTTT
25674574 AGGCTCCCTC
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (21 bp):
CCTCATAATTTTTTTATACTT
Found at i:25674571 original size:81 final size:80
Alignment explanation
Indices: 25674412--25674571 Score: 173
Period size: 81 Copynumber: 2.0 Consensus size: 80
25674402 GTTGTTTTTT
* *
25674412 TATTCCCTCATAAATTTTGATACACACCTTATAATTTTGTATATTCCCCATGTTTTTTTGCACTT
1 TATTCCCTCATAAATTTTGATACACACCTCATAATTTTGTATATTCCCCATGTTTTTTTACACTT
*
25674477 CCTCGGATTATTTTGG
66 CCTC-GATAATTTTGG
* * * * *
25674493 TATT-CCTCTTAAATTTTTGGTACA-AGCCTCATAATTTTTTATACTTCCCCATTTTTTTTTTAT
1 TATTCCCTCATAAA-TTTTGATACACA-CCTCATAATTTTGTATA-TTCCCCA-TGTTTTTTTAC
*
25674556 ATTTCCTC-ATAATTTT
62 ACTTCCTCGATAATTTT
25674572 TTAGGCTCCC
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
80 9 0.14
81 35 0.53
82 7 0.11
83 15 0.23
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.51
Consensus pattern (80 bp):
TATTCCCTCATAAATTTTGATACACACCTCATAATTTTGTATATTCCCCATGTTTTTTTACACTT
CCTCGATAATTTTGG
Found at i:25674628 original size:20 final size:20
Alignment explanation
Indices: 25674581--25674630 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
25674571 TTTAGGCTCC
*
25674581 CTCATATTTTTTGGTATGCT
1 CTCATAATTTTTGGTATGCT
* *
25674601 CTCCTAATTTTTGGTATTCT
1 CTCATAATTTTTGGTATGCT
*
25674621 TTCATAATTT
1 CTCATAATTT
25674631 GTTTTGCATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.16, G:0.10, T:0.56
Consensus pattern (20 bp):
CTCATAATTTTTGGTATGCT
Found at i:25675063 original size:20 final size:20
Alignment explanation
Indices: 25675040--25675122 Score: 53
Period size: 20 Copynumber: 4.1 Consensus size: 20
25675030 GAGATTACTT
*
25675040 AAAAATATGAGGGATTACC-
1 AAAAATACGAGGGATTACCA
** *
25675059 AAAAATAACGAGGGCGT-GCA
1 AAAAAT-ACGAGGGATTACCA
* *
25675079 AAAAATTACGTGAGATTACCAA
1 AAAAA-TACGAGGGATTACC-A
* *
25675101 AAAAATATGAGGGACTACCA
1 AAAAATACGAGGGATTACCA
25675121 AA
1 AA
25675123 TATTGGTTCG
Statistics
Matches: 46, Mismatches: 13, Indels: 9
0.68 0.19 0.13
Matches are distributed among these distances:
19 7 0.15
20 21 0.46
21 12 0.26
22 6 0.13
ACGTcount: A:0.49, C:0.13, G:0.20, T:0.17
Consensus pattern (20 bp):
AAAAATACGAGGGATTACCA
Found at i:25676121 original size:48 final size:48
Alignment explanation
Indices: 25676047--25676144 Score: 153
Period size: 48 Copynumber: 2.0 Consensus size: 48
25676037 TGTTGCATGA
* * *
25676047 TTTTTTTTTATCTTGAGGCGTGAATCATTTTCCTTATCGCTTTATCTT
1 TTTTTTTTTATCTTGAGGCGTAAATCACTTTCCATATCGCTTTATCTT
25676095 TTTTCTTTTTAT-TTGAGGCGTAAATCACTTTCCATATCGCTTTATCTT
1 TTTT-TTTTTATCTTGAGGCGTAAATCACTTTCCATATCGCTTTATCTT
25676143 TT
1 TT
25676145 GACCGATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 39 0.85
49 7 0.15
ACGTcount: A:0.16, C:0.17, G:0.11, T:0.55
Consensus pattern (48 bp):
TTTTTTTTTATCTTGAGGCGTAAATCACTTTCCATATCGCTTTATCTT
Found at i:25681089 original size:3 final size:3
Alignment explanation
Indices: 25681081--25681133 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
25681071 CTGAAAATTG
25681081 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25681129 AAT AA
1 AAT AA
25681134 ACTCAACAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:25681777 original size:30 final size:30
Alignment explanation
Indices: 25681742--25681827 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 30
25681732 AAATTATTAT
***
25681742 TAAATTATTTAAAATTTTTATTTAAGTCAC
1 TAAATTATTTAAAAAAATTATTTAAGTCAC
*
25681772 TAAATTATCTAAAAAAATTATTTAAGTCAC
1 TAAATTATTTAAAAAAATTATTTAAGTCAC
*
25681802 TAAACTA-TTAAAAAAATTATTTAAGT
1 TAAATTATTTAAAAAAATTATTTAAGT
25681828 TATTGGATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
29 18 0.36
30 32 0.64
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (30 bp):
TAAATTATTTAAAAAAATTATTTAAGTCAC
Found at i:25681823 original size:29 final size:30
Alignment explanation
Indices: 25681759--25681827 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
25681749 TTTAAAATTT
*
25681759 TTATTTAAGTCACTAAATTATCTAAAAAAA
1 TTATTTAAGTCACTAAACTATCTAAAAAAA
25681789 TTATTTAAGTCACTAAACTAT-TAAAAAAA
1 TTATTTAAGTCACTAAACTATCTAAAAAAA
25681818 TTATTTAAGT
1 TTATTTAAGT
25681828 TATTGGATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 18 0.47
30 20 0.53
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (30 bp):
TTATTTAAGTCACTAAACTATCTAAAAAAA
Found at i:25682381 original size:2 final size:2
Alignment explanation
Indices: 25682374--25682402 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25682364 AAGAAAAGCA
25682374 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25682403 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25682407 original size:2 final size:2
Alignment explanation
Indices: 25682402--25682496 Score: 190
Period size: 2 Copynumber: 47.5 Consensus size: 2
25682392 ATATATATAT
25682402 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
25682444 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
25682486 AG AG AG AG AG A
1 AG AG AG AG AG A
25682497 CCAAATTATA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 93 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25683974 original size:22 final size:23
Alignment explanation
Indices: 25683947--25683991 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
25683937 AGGTATCTAC
25683947 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
25683969 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
25683992 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:25683995 original size:17 final size:17
Alignment explanation
Indices: 25683973--25684025 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
25683963 ATTACAAAAT
25683973 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
25683990 CATATCATATCTATGATTG
1 CATATC-T-TCTAAGATTA
* *
25684009 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
25684026 TGTTTCCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:25683996 original size:22 final size:22
Alignment explanation
Indices: 25683944--25684001 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
25683934 GAAAGGTATC
*
25683944 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
25683965 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
25683988 TACATATCATATCT
1 TACAAATCATATCT
25684002 ATGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:25688972 original size:345 final size:344
Alignment explanation
Indices: 25688335--25689018 Score: 1172
Period size: 345 Copynumber: 2.0 Consensus size: 344
25688325 TGCCCGCGAT
* *
25688335 GATGATATCCACAAACATCAGCCCATTACTTGCCTTATCTTCGACACTGCCCAGTATCGTACTAA
1 GATGATATCCACAAACATCAGCCCATTACTTGCCTAATCTTCGACACTGCCCAATATCGTACTAA
* *
25688400 GACTTTTGGTGTCATCATCAGCCTCTTTGCGCGCTTCGATAGCATTGAAAGCGGATTTCTTTGGA
66 GACTTTTGGTGTCATCATCAGCCCCTTCGCGCGCTTCGATAGCATTGAAAGCGGATTTCTTTGGA
25688465 CAAACCCTCATTTTGTGTGGGCCTTGACAAAGATAGCATTTCAATGGCCCTTTCTTATCCCATGG
131 CAAACCCTCATTTTGTGTGGGCCTTGACAAAGATAGCATTTCAATGGCCCTTTCTTATCCCATGG
*
25688530 TCTACCTTCATTAGTCCTTGGGGCTTCGCCATTCTTTTCTGTTTGATATTTGTCTCCCCCACCAT
196 TCTACCTTCAGTAGTCCTTGGGGCTTCGCCATTCTTTTCTGTTTGATATTTGTCTCCCCCACCAT
* * *
25688595 TGCCTTTGGGTCTCGGTTTAGGCTTGGAAGCATCACTATT-TTCAAACTTTCTCCCCCCACATCG
261 TGCCTTTGGGTCTCGGCTTAGGCTTAGAAGCATCACTATTGTT-AAACTTTCT-CCCCCACATCA
25688659 TAGAACTTTTCTGCCTGCCAC
324 TAGAACTTTTCTGCCTGCCAC
*
25688680 GATGATATCCACAAACATCAGCCCATTACTTGCCTAATCTTCGACACTGCCCAATATTGTACTAA
1 GATGATATCCACAAACATCAGCCCATTACTTGCCTAATCTTCGACACTGCCCAATATCGTACTAA
* * * *
25688745 GACTTTTGGTGTCATCATCGGCCCCTTCGCGCGCTTTGATGGCATTGAAAGCGGCTTTCTTTGGA
66 GACTTTTGGTGTCATCATCAGCCCCTTCGCGCGCTTCGATAGCATTGAAAGCGGATTTCTTTGGA
25688810 CAAACCCTCATTTTGTGTGGGCCTTGACAAAGATAGCATTTCAATGGCCCTTTCTTATCCCATGG
131 CAAACCCTCATTTTGTGTGGGCCTTGACAAAGATAGCATTTCAATGGCCCTTTCTTATCCCATGG
* *
25688875 TCTATCTTCAGTAGTCCTTGGGGCTTCGCCATTCTTTTCTGTTTGATCTTTGTCTCCCCCACCAT
196 TCTACCTTCAGTAGTCCTTGGGGCTTCGCCATTCTTTTCTGTTTGATATTTGTCTCCCCCACCAT
* *
25688940 TGCCTTTGGGTCTCGGCTTGGGCTTAGAAGCATCACTATTGTTAAACTTTCTCCCCCACATTATA
261 TGCCTTTGGGTCTCGGCTTAGGCTTAGAAGCATCACTATTGTTAAACTTTCTCCCCCACATCATA
* *
25689005 GAAGTTTTTTGCCT
326 GAACTTTTCTGCCT
25689019 CGGCCATGGC
Statistics
Matches: 319, Mismatches: 19, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
344 23 0.07
345 294 0.92
346 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (344 bp):
GATGATATCCACAAACATCAGCCCATTACTTGCCTAATCTTCGACACTGCCCAATATCGTACTAA
GACTTTTGGTGTCATCATCAGCCCCTTCGCGCGCTTCGATAGCATTGAAAGCGGATTTCTTTGGA
CAAACCCTCATTTTGTGTGGGCCTTGACAAAGATAGCATTTCAATGGCCCTTTCTTATCCCATGG
TCTACCTTCAGTAGTCCTTGGGGCTTCGCCATTCTTTTCTGTTTGATATTTGTCTCCCCCACCAT
TGCCTTTGGGTCTCGGCTTAGGCTTAGAAGCATCACTATTGTTAAACTTTCTCCCCCACATCATA
GAACTTTTCTGCCTGCCAC
Found at i:25690289 original size:22 final size:23
Alignment explanation
Indices: 25690262--25690306 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
25690252 AGGTATCTAC
25690262 AAATCAAAT-TTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
25690284 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
25690307 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:25690299 original size:23 final size:22
Alignment explanation
Indices: 25690259--25690316 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
25690249 GAAAGGTATC
*
25690259 TACAAATCAAAT-TTCTAAGAT
1 TACAAATCATATCTTCTAAGAT
25690280 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
25690303 TACATATCATATCT
1 TACAAATCATATCT
25690317 ACGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.55
23 12 0.36
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:25690310 original size:17 final size:17
Alignment explanation
Indices: 25690288--25690340 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
25690278 ATTACAAAAT
25690288 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
25690305 CATATCATATCTACGATTG
1 CATATC-T-TCTAAGATTA
* *
25690324 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
25690341 TGTTTCCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:25691011 original size:22 final size:22
Alignment explanation
Indices: 25690985--25691037 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
25690975 ATCCACAACT
25690985 CCCTTCAAGTGGCTCTAATTTC
1 CCCTTCAAGTGGCTCTAATTTC
25691007 CCCTTCAAGTGGCTCTAATTTC
1 CCCTTCAAGTGGCTCTAATTTC
25691029 CCCTTCAAG
1 CCCTTCAAG
25691038 AAACAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (22 bp):
CCCTTCAAGTGGCTCTAATTTC
Found at i:25693892 original size:119 final size:121
Alignment explanation
Indices: 25693763--25693993 Score: 348
Period size: 123 Copynumber: 1.9 Consensus size: 121
25693753 TTTAAATTAT
** **
25693763 ATCTTAATATTACTTTTTACACAAATCTAGTCATTC-AA-AAAAA-A-AATGTTCAATGTTATAT
1 ATCTTAATATTACTTTCAACACAAATCTAACCATTCAAACAAAAATATAATGTTCAATGTTATAT
25693824 CTT-AAAATATACAAATTATTATTACAATATATAAAA-AAACCATACACTAGTCAAACCA
66 -TTAAAAATATACAAATTATTATTACAA-A-ATAAAATAAA-CATACACTAGTCAAACCA
25693882 ATCTTAATATTACTTTCAACACAAATCTAACCATTCAAACAAAAATATAATGTTCAATGTTATAT
1 ATCTTAATATTACTTTCAACACAAATCTAACCATTCAAACAAAAATATAATGTTCAATGTTATAT
25693947 TTAAAAATATACAAATTATTATTACAAAATAAAATAAACATACACTA
66 TTAAAAATATACAAATTATTATTACAAAATAAAATAAACATACACTA
25693994 CCAAAATTAT
Statistics
Matches: 102, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
119 32 0.31
120 2 0.02
121 20 0.20
122 7 0.07
123 41 0.40
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (121 bp):
ATCTTAATATTACTTTCAACACAAATCTAACCATTCAAACAAAAATATAATGTTCAATGTTATAT
TTAAAAATATACAAATTATTATTACAAAATAAAATAAACATACACTAGTCAAACCA
Found at i:25694038 original size:28 final size:28
Alignment explanation
Indices: 25693977--25694034 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
25693967 ATTACAAAAT
*
25693977 AAAATAAACATACACTACCAAAATTATC
1 AAAATAAACATACACTACCAAAATTAAC
**
25694005 TTAATAAACATACACTA-CAAAA-TAAC
1 AAAATAAACATACACTACCAAAATTAAC
25694031 AAAA
1 AAAA
25694035 AATATAATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
26 5 0.20
27 5 0.20
28 15 0.60
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (28 bp):
AAAATAAACATACACTACCAAAATTAAC
Found at i:25707351 original size:41 final size:41
Alignment explanation
Indices: 25707302--25707410 Score: 173
Period size: 41 Copynumber: 2.6 Consensus size: 41
25707292 GACTTTAAGT
* *
25707302 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGTTGATCTGAATCAGGCTATAAAC
*
25707343 CTAGCAGGCTACGTGCCGTTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGTTGATCTGAATCAGGCTATAAAC
*
25707384 CTAGCAGGCTAAGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGTTG-ATCTG
25707411 TTTAAATTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 58 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGTTGATCTGAATCAGGCTATAAAC
Found at i:25716846 original size:13 final size:13
Alignment explanation
Indices: 25716828--25716853 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25716818 ATAATAATCA
25716828 ATATTTTTTTATT
1 ATATTTTTTTATT
25716841 ATATTTTTTTATT
1 ATATTTTTTTATT
25716854 TTTTTCTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATATTTTTTTATT
Found at i:25718010 original size:16 final size:16
Alignment explanation
Indices: 25717956--25718020 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
25717946 AAAATTTAAG
25717956 TATAAAAATAAAA-AA
1 TATAAAAATAAAATAA
* *
25717971 TA-AAAAAT-TAGTAA
1 TATAAAAATAAAATAA
*
25717985 -A-ATAAA-AAAATAA
1 TATAAAAATAAAATAA
25717998 TATAAAAATAAAATAA
1 TATAAAAATAAAATAA
*
25718014 AATAAAA
1 TATAAAA
25718021 GGGGTGGCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
13 10 0.26
14 9 0.24
15 6 0.16
16 13 0.34
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
TATAAAAATAAAATAA
Found at i:25720481 original size:17 final size:17
Alignment explanation
Indices: 25720459--25720492 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25720449 ATAGACTCGC
*
25720459 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
25720476 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
25720493 AATATACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:25724844 original size:38 final size:39
Alignment explanation
Indices: 25724787--25724868 Score: 130
Period size: 38 Copynumber: 2.1 Consensus size: 39
25724777 AAATTAAAAC
* * *
25724787 AAAAATTAAAAAATTTATTTTAAAAATATTTTAAAATTA
1 AAAAATTAAAAAATGTATTTTAAAAAAATTTAAAAATTA
25724826 AAAAATTAAAAAA-GTATTTTAAAAAAATTTAAAAATTA
1 AAAAATTAAAAAATGTATTTTAAAAAAATTTAAAAATTA
25724864 AAAAA
1 AAAAA
25724869 CTATTTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 27 0.68
39 13 0.32
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (39 bp):
AAAAATTAAAAAATGTATTTTAAAAAAATTTAAAAATTA
Found at i:25724858 original size:31 final size:30
Alignment explanation
Indices: 25724819--25724898 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 30
25724809 AAAATATTTT
* *
25724819 AAAATTAAAAAATTAAAAAAGTATTTTAAA
1 AAAATTTAAAAATTAAAAAACTATTTTAAA
25724849 AAAATTTAAAAATTAAAAAACTATTTTAAA
1 AAAATTTAAAAATTAAAAAACTATTTTAAA
** *
25724879 AGTATTTTAAAATTAAAAAA
1 AAAATTTAAAAATTAAAAAA
25724899 AATAAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAATTTAAAAATTAAAAAACTATTTTAAA
Found at i:25728062 original size:25 final size:25
Alignment explanation
Indices: 25728028--25728080 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
25728018 TTAAGTATTT
25728028 ACTCTTGGGCCACAAAACTTTTCTC
1 ACTCTTGGGCCACAAAACTTTTCTC
25728053 ACTCTTGGGCCACAAAACTTTTCTC
1 ACTCTTGGGCCACAAAACTTTTCTC
25728078 ACT
1 ACT
25728081 TTTGCGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.32
Consensus pattern (25 bp):
ACTCTTGGGCCACAAAACTTTTCTC
Found at i:25736656 original size:24 final size:23
Alignment explanation
Indices: 25736629--25736675 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
25736619 ACCCAAAAAA
25736629 GTGCATATCGTGTCAGTCAAAGAT
1 GTGCATATCG-GTCAGTCAAAGAT
* * *
25736653 GTGCATGTCGGTCGGTCGAAGAT
1 GTGCATATCGGTCAGTCAAAGAT
25736676 AAGGCAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (23 bp):
GTGCATATCGGTCAGTCAAAGAT
Done.