Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 27 of 79
Found at i:9275192 original size:40 final size:40
Alignment explanation
Indices: 9274882--9275191 Score: 440
Period size: 40 Copynumber: 7.8 Consensus size: 40
9274872 GAGTTACTGG
* ** * *
9274882 AGTATAAACAGGGGCACGGAAGTGCATTCAGGGGTACCAA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
* * * *
9274922 AGTATAAACAGGGGCACGTATGTGCATTTAGGGGTACTGA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
*
9274962 AGTACAAACAGGGGCACATATGTGCATTAAGGGGTACCGA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
9275002 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
* * * *
9275042 AGTGCAAACAGGGGCACGTATGTGCATTTAGGGGTACTGA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
* * *
9275082 AGTACGAACAGGGGCACATATGTGCATTAAGGGTTACCGA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
* *
9275122 AGTACAAACAGGGGCACATATGTGCATTCATGGGTACCAA
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
*
9275162 AGTACAAACAGGGGCACGTATGTGCATTCA
1 AGTACAAACAGGGGCACATATGTGCATTCA
9275192 TTAAATAATT
Statistics
Matches: 244, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 244 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (40 bp):
AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGA
Found at i:9281533 original size:21 final size:22
Alignment explanation
Indices: 9281507--9281557 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
9281497 ACTTAATGAC
*
9281507 TTGTTTTATAGTGTTT-TTATT
1 TTGTTTTATAGTGTTTATTACT
*
9281528 TTGTTTT-TAGTTTTTATTACT
1 TTGTTTTATAGTGTTTATTACT
9281549 TTGTGTTTA
1 TTGT-TTTA
9281558 ATTTATGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 7 0.28
21 15 0.60
22 3 0.12
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.71
Consensus pattern (22 bp):
TTGTTTTATAGTGTTTATTACT
Found at i:9286311 original size:46 final size:46
Alignment explanation
Indices: 9286212--9286462 Score: 312
Period size: 45 Copynumber: 5.5 Consensus size: 46
9286202 TGCTATGACT
* * * * *
9286212 TCTTTCAACCATGGTCTTATTCACTTTCCG-TGTGATGTCATAATG
1 TCTTTCAACCATGGTCTTATTCATTTTTCGATATGATGCCATAGTG
*
9286257 TCTTTCAACCATGGTCTTACTCATTTTTCGATATGATGCCATAGTG
1 TCTTTCAACCATGGTCTTATTCATTTTTCGATATGATGCCATAGTG
* *
9286303 TCTTTCAACCATAGTCTTATTCATTTTTTCAATATGATG-C-TAGTG
1 TCTTTCAACCATGGTCTTATTCA-TTTTTCGATATGATGCCATAGTG
* * *
9286348 TCTTTTAACCATGGTCTTATTCATTTTCCGATATGATGTCATAGTG
1 TCTTTCAACCATGGTCTTATTCATTTTTCGATATGATGCCATAGTG
* * *
9286394 TCTTTCAACCATGGTCTTATTCA-TTTTCAATAAGATGCCATAATG
1 TCTTTCAACCATGGTCTTATTCATTTTTCGATATGATGCCATAGTG
* * *
9286439 TCCTTCAACTATGGTCTTACTCAT
1 TCTTTCAACCATGGTCTTATTCAT
9286463 CTAAATCATG
Statistics
Matches: 179, Mismatches: 22, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
44 13 0.07
45 91 0.51
46 61 0.34
47 14 0.08
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTTTCGATATGATGCCATAGTG
Found at i:9286358 original size:91 final size:91
Alignment explanation
Indices: 9286212--9286462 Score: 344
Period size: 91 Copynumber: 2.8 Consensus size: 91
9286202 TGCTATGACT
* ** * *
9286212 TCTTTCAACCATGGTCTTATTCACTTTCCGTGTGATGTCATAATGTCTTTCAACCATGGTCTTAC
1 TCTTTCAACCATGGTCTTATTCATTTTCAATATGATGCCATAATGTCTTTCAACCATGGTCTTAC
*
9286277 TCATTTTTCGATATGATGCCATAGTG
66 TCATTTTCCGATATGATGCCATAGTG
* * *
9286303 TCTTTCAACCATAGTCTTATTCATTTTTTCAATATGATG-C-TAGTGTCTTTTAACCATGGTCTT
1 TCTTTCAACCATGGTCTTATTCA--TTTTCAATATGATGCCATAATGTCTTTCAACCATGGTCTT
* *
9286366 ATTCATTTTCCGATATGATGTCATAGTG
64 ACTCATTTTCCGATATGATGCCATAGTG
* * *
9286394 TCTTTCAACCATGGTCTTATTCATTTTCAATAAGATGCCATAATGTCCTTCAACTATGGTCTTAC
1 TCTTTCAACCATGGTCTTATTCATTTTCAATATGATGCCATAATGTCTTTCAACCATGGTCTTAC
9286459 TCAT
66 TCAT
9286463 CTAAATCATG
Statistics
Matches: 139, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
89 13 0.09
90 1 0.01
91 114 0.82
92 1 0.01
93 10 0.07
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (91 bp):
TCTTTCAACCATGGTCTTATTCATTTTCAATATGATGCCATAATGTCTTTCAACCATGGTCTTAC
TCATTTTCCGATATGATGCCATAGTG
Found at i:9286782 original size:15 final size:17
Alignment explanation
Indices: 9286751--9286783 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
9286741 CATAATGTTT
9286751 AACTTAACTCTCATTTC
1 AACTTAACTCTCATTTC
9286768 AACTTAA-TC-CATTTC
1 AACTTAACTCTCATTTC
9286783 A
1 A
9286784 TTGCTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (17 bp):
AACTTAACTCTCATTTC
Found at i:9289320 original size:51 final size:51
Alignment explanation
Indices: 9289247--9289678 Score: 187
Period size: 49 Copynumber: 8.7 Consensus size: 51
9289237 GATGAACATG
* *
9289247 TGTGTAGTACTGTGTGGAGGCTACGACGTGTATCGATAAA-TAATG-GTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAACT-ATGAG-CACA
** * * * *
9289298 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGAGCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-CTATGAGCACA
* * *
9289349 TGTGTAGTACTGTGTGAATGCTACTACGTGTATCGATAAACTACG-GTTACA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAACTATGAG-CACA
* * * * * * *
9289400 TGTGT--TA---AGTGAAGGCTACAATGGGTACCGA-AAAGCTTTG-GTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-CTATGAG-CACA
* * * * * *
9289446 TATGTAGTACTATGTGAAGGCTGCTACGTG-AGCCG-TAAAACT-TGATCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TCGAT-AAACTATGAGCACA
* * * * *
9289496 TGTATAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA--ACTGATCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATC-GATAAACTA-TGAGCACA
* * * * *
9289545 CGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA--ACTGATCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATC-GATAAACTA-TGAGCACA
* * * * *
9289594 CGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAAACTA--ATCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATC-GAT-AAACTATGAGCACA
* *
9289643 TATGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGA
9289679 ATGATAAAAA
Statistics
Matches: 315, Mismatches: 43, Indels: 47
0.78 0.11 0.12
Matches are distributed among these distances:
45 3 0.01
46 29 0.09
48 2 0.01
49 132 0.42
50 46 0.15
51 94 0.30
52 9 0.03
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAACTATGAGCACA
Found at i:9289462 original size:97 final size:100
Alignment explanation
Indices: 9289249--9289475 Score: 293
Period size: 97 Copynumber: 2.3 Consensus size: 100
9289239 TGAACATGTG
* * *
9289249 TGTAGTACTGTGTGGAGGCTACGACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTG
1 TGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAACGGTCACA-GTGTAGTA-TAAGTG
* * *
9289314 AAGGCTACTATGTGTACCGAAAAGCTTTGAGCACGTG
64 AAGGCTACAATGGGTACCGAAAAGCTTTGAGCACGTA
* *
9289351 TGTAGTACTGTGTGAATGCTACTACGTGTATCGATAAACT-ACGGTTACA-TGT-GT-TAAGTGA
1 TGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAACGGTCACAGTGTAGTATAAGTGA
9289412 AGGCTACAATGGGTACCGAAAAGCTTTG-GTCACGTA
65 AGGCTACAATGGGTACCGAAAAGCTTTGAG-CACGTA
* *
9289448 TGTAGTACTATGTGAAGGCTGCTACGTG
1 TGTAGTACTGTGTGAAGGCTACTACGTG
9289476 AGCCGTAAAA
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
96 1 0.01
97 63 0.56
99 2 0.02
100 3 0.03
102 42 0.38
103 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (100 bp):
TGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAACGGTCACAGTGTAGTATAAGTGAA
GGCTACAATGGGTACCGAAAAGCTTTGAGCACGTA
Found at i:9289560 original size:49 final size:49
Alignment explanation
Indices: 9289448--9289672 Score: 369
Period size: 49 Copynumber: 4.6 Consensus size: 49
9289438 TGGTCACGTA
* * * *
9289448 TGTAGTACTATGTGAAGGCTGCTACGTGAGCCGTAAAACTTGATCACGTG
1 TGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAAC-TGATCACGCG
*
9289498 TATAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGATCACGCG
1 TGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGATCACGCG
9289547 TGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGATCACGCG
1 TGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGATCACGCG
* **
9289596 TGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTAATCACGTA
1 TGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGATCACGCG
9289645 TGTAGTACTATGTGAAGGCTACTACGTG
1 TGTAGTACTATGTGAAGGCTACTACGTG
9289673 TATCGAATGA
Statistics
Matches: 166, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 131 0.79
50 35 0.21
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (49 bp):
TGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGATCACGCG
Found at i:9305079 original size:14 final size:14
Alignment explanation
Indices: 9305056--9305101 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
9305046 CAAAAGTTAG
9305056 AAATTAATTAAGAT
1 AAATTAATTAAGAT
* *
9305070 AAATTCATTAATAT
1 AAATTAATTAAGAT
9305084 AAA--AA-TAAGAT
1 AAATTAATTAAGAT
9305095 AAATTAA
1 AAATTAA
9305102 AACATAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
11 8 0.31
12 1 0.04
13 2 0.08
14 15 0.58
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (14 bp):
AAATTAATTAAGAT
Found at i:9307971 original size:20 final size:19
Alignment explanation
Indices: 9307935--9307973 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9307925 CAGAAAAACA
9307935 TGATATTGGAAATAAAAAG
1 TGATATTGGAAATAAAAAG
* *
9307954 TGATATTGGGAGTAAAAAG
1 TGATATTGGAAATAAAAAG
9307973 T
1 T
9307974 ATCTTAGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (19 bp):
TGATATTGGAAATAAAAAG
Found at i:9311936 original size:47 final size:47
Alignment explanation
Indices: 9311867--9311960 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
9311857 ACAAAATGAA
9311867 TACATAAATTTATACCTACCACAGAATTAATACACAGGGATTCAGTT
1 TACATAAATTTATACCTACCACAGAATTAATACACAGGGATTCAGTT
**
9311914 TACATAAATTTATACCTACCACAGAATTAATACATGGGGATTCAGTT
1 TACATAAATTTATACCTACCACAGAATTAATACACAGGGATTCAGTT
9311961 CACTATAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (47 bp):
TACATAAATTTATACCTACCACAGAATTAATACACAGGGATTCAGTT
Found at i:9313397 original size:132 final size:133
Alignment explanation
Indices: 9313156--9313408 Score: 375
Period size: 132 Copynumber: 1.9 Consensus size: 133
9313146 AGGAGTAAAG
* * *
9313156 TACAATTTGATCAAAATGTGAAAATGTAAGTTATTATTGATTAATTGATATAAGAATAAGATGAA
1 TACAATTTGACCAAAATGTGAAAATATAAGTTATTATTGATTAATTGACATAAGAATAAGATGAA
* * ** *
9313221 ATATGCATTGGTATGATGGAAATCAAATTTGGGACTAAAATGGAAAATTTA-AAAAGTACATGGA
66 ATATGCATTAGTATGATGGAAAGCAAATTTGAAACTAAAATGGAAAAATTAGAAAAGTACATGGA
9313285 CAA
131 CAA
* * *
9313288 TACAATTTGACCAAAATGTGAAAATATGAGTTATTATTGATTTAA-TGACATAAGAATTAGTTGA
1 TACAATTTGACCAAAATGTGAAAATATAAGTTATTATTGA-TTAATTGACATAAGAATAAGATGA
*
9313352 AATATGCATTAGTATGATGGAAAGCAAATTTGAAACTAAATTGGAAAAATTAGAAAA
65 AATATGCATTAGTATGATGGAAAGCAAATTTGAAACTAAAATGGAAAAATTAGAAAA
9313409 TATAAGGACT
Statistics
Matches: 107, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
132 99 0.93
133 8 0.07
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (133 bp):
TACAATTTGACCAAAATGTGAAAATATAAGTTATTATTGATTAATTGACATAAGAATAAGATGAA
ATATGCATTAGTATGATGGAAAGCAAATTTGAAACTAAAATGGAAAAATTAGAAAAGTACATGGA
CAA
Found at i:9316714 original size:68 final size:68
Alignment explanation
Indices: 9316599--9316820 Score: 282
Period size: 68 Copynumber: 3.3 Consensus size: 68
9316589 CTCGGAATTG
* * * * * * *
9316599 GAAGTCCACCAGGAAAGTAAACATGAGAACATATTGTGTAGGGCCATAGTTGGGTTATGGCAACA
1 GAAGTTCACCAGGACAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTATGACAACA
9316664 TAT
66 TAT
* *
9316667 GAAGTTCACCAGGACAGTAAACATGGGAACATATTGTGTAAGACCATAGCTGGGCTACGACAACA
1 GAAGTTCACCAGGACAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTATGACAACA
9316732 TAT
66 TAT
** * * * * * *
9316735 GAAGTTTGCCAAGACAATAAACATGGGAACATATTGTGTAATACAATAGTTGCGCTATGATAACA
1 GAAGTTCACCAGGACAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTATGACAACA
9316800 TAT
66 TAT
*
9316803 GAAGTTCGCCAGGACAGT
1 GAAGTTCACCAGGACAGT
9316821 GAACCAGAAG
Statistics
Matches: 132, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 132 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (68 bp):
GAAGTTCACCAGGACAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTATGACAACA
TAT
Found at i:9323634 original size:23 final size:23
Alignment explanation
Indices: 9323603--9323653 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
9323593 ACTTACTTTC
* * *
9323603 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
9323626 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
9323649 TTACA
1 TTACA
9323654 ATTATAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:9340686 original size:25 final size:26
Alignment explanation
Indices: 9340658--9340715 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
9340648 AACTCGTGAG
9340658 AGCATACT-GA-TCTACAGCTCAAATA
1 AGCATACTCGATTC-ACAGCTCAAATA
**
9340683 AGCATA-TCGATTCACAGCTCGTATA
1 AGCATACTCGATTCACAGCTCAAATA
9340708 AGCATACT
1 AGCATACT
9340716 TGTACATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.04
25 24 0.86
26 3 0.11
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (26 bp):
AGCATACTCGATTCACAGCTCAAATA
Found at i:9348389 original size:20 final size:20
Alignment explanation
Indices: 9348364--9348403 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9348354 TAGTACAAGA
* *
9348364 TTTGCACTTTGGTGCCTCTG
1 TTTGCACCTCGGTGCCTCTG
9348384 TTTGCACCTCGGTGCCTCTG
1 TTTGCACCTCGGTGCCTCTG
9348404 ATCGCACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.30, G:0.25, T:0.40
Consensus pattern (20 bp):
TTTGCACCTCGGTGCCTCTG
Found at i:9351716 original size:26 final size:26
Alignment explanation
Indices: 9351687--9351738 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9351677 CACAAGTATT
9351687 TACATGAGATATATGA-AAATGATTTG
1 TACATGAGATATA-GATAAATGATTTG
* *
9351713 TACATGATATATAGATATATGATTTG
1 TACATGAGATATAGATAAATGATTTG
9351739 AAAATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (26 bp):
TACATGAGATATAGATAAATGATTTG
Found at i:9352540 original size:28 final size:28
Alignment explanation
Indices: 9352508--9352563 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
9352498 TTGGTCACTT
9352508 AGCTAAATTTGGATACATGGTTGACATG
1 AGCTAAATTTGGATACATGGTTGACATG
9352536 AGCTAAATTTGGATACATGGTTGACATG
1 AGCTAAATTTGGATACATGGTTGACATG
9352564 TTTGCATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (28 bp):
AGCTAAATTTGGATACATGGTTGACATG
Found at i:9355746 original size:200 final size:200
Alignment explanation
Indices: 9355398--9355791 Score: 662
Period size: 200 Copynumber: 2.0 Consensus size: 200
9355388 ACGAGTGAAA
*
9355398 GATTTGGATGTGCCGAAAACTACATTTAGAAACAGGTACGGACACTATGAATTTCTTGCGATCCT
1 GATTTGGATGTGCCGAAAACTACATTTAGAAACAGGTACGGACACTATGAATTTCTAGCGATCCT
*
9355463 GTTTGGTTTAACTAATGCACATCCAGTATTTACGGATTTGCTGAACAGAATCTTCAGACCGTATT
66 GTTTGGTTTAACTAATGCACATCCAGTATTTACGGATTTGATGAACAGAATCTTCAGACCGTATT
*
9355528 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTGATATATTCTTGAGATGAGACTGAACAA
131 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTGATATATTCTTGAGATGAGACTAAACAA
9355593 TGCTC
196 TGCTC
** * * *
9355598 GATTTGGATGTGCTTAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTAGTGATGCT
1 GATTTGGATGTGCCGAAAACTACATTTAGAAACAGGTACGGACACTATGAATTTCTAGCGATCCT
* *
9355663 GTTTGGTTTAACTAATGCACCTCCAGTATTTATGGATTTGATGAACAGAATCTTCAGACCGTATT
66 GTTTGGTTTAACTAATGCACATCCAGTATTTACGGATTTGATGAACAGAATCTTCAGACCGTATT
* * * *
9355728 TAGATAGATTTTTTGTGGTATTTATTGATGATATTTTTATATATTCTTGAGATTAGACTAAACA
131 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTGATATATTCTTGAGATGAGACTAAACA
9355792 TGCCGAGCAT
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
200 180 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (200 bp):
GATTTGGATGTGCCGAAAACTACATTTAGAAACAGGTACGGACACTATGAATTTCTAGCGATCCT
GTTTGGTTTAACTAATGCACATCCAGTATTTACGGATTTGATGAACAGAATCTTCAGACCGTATT
TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTGATATATTCTTGAGATGAGACTAAACAA
TGCTC
Found at i:9360591 original size:199 final size:199
Alignment explanation
Indices: 9360244--9360622 Score: 663
Period size: 199 Copynumber: 1.9 Consensus size: 199
9360234 ACGAGTGAAA
*
9360244 GATTTGGATGTGCCGAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATGCT
1 GATTTGGATGTGCCGAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTAGTGATGCT
* * *
9360309 GTTTGGTTTAACTAATGCACCTCCAGTATTTATGGATTTGCTGATCAAAGTCTTCAGATCGTATT
66 GTTTGGTTTAACTAATGCACCTCCAGTATTTATGGATTTGATGAACAAAGTCTTCAGACCGTATT
9360374 TAGACAGATTTGTTGTGGTATTTATTGATGATATTT-TGATATATTCTTGAGATGAGACTGAAAA
131 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTAT-ATATATTCTTGAGATGAGACTGAAAA
9360438 TGCTC
195 TGCTC
**
9360443 GATTTGGATGTGCTTAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTAGTGATGCT
1 GATTTGGATGTGCCGAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTAGTGATGCT
9360508 GTTTGGTTTAACTAATGCACCTCCAGTATTTATGGATTTGATGAACAGAA-TCTTCAGACCGTAT
66 GTTTGGTTTAACTAATGCACCTCCAGTATTTATGGATTTGATGAACA-AAGTCTTCAGACCGTAT
*
9360572 TTAGACAGATTTTTTGTGGTATTTATTGATGATATTTATATATATTCTTGA
130 TTAGACAGATTTGTTGTGGTATTTATTGATGATATTTATATATATTCTTGA
9360623 TTTGAGAATT
Statistics
Matches: 171, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
199 168 0.98
200 3 0.02
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (199 bp):
GATTTGGATGTGCCGAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTAGTGATGCT
GTTTGGTTTAACTAATGCACCTCCAGTATTTATGGATTTGATGAACAAAGTCTTCAGACCGTATT
TAGACAGATTTGTTGTGGTATTTATTGATGATATTTATATATATTCTTGAGATGAGACTGAAAAT
GCTC
Found at i:9362919 original size:200 final size:200
Alignment explanation
Indices: 9362571--9362964 Score: 646
Period size: 200 Copynumber: 2.0 Consensus size: 200
9362561 ACGAGTGAAA
* *
9362571 GATTTGGATCTGCCGAAAACTACATTTAGAAACCGGTACGGACACTATGAGTTTCTTGTGATCCA
1 GATTTGGATCTGCCGAAAACTACATTTAGAAACCAGTACGGACACTATGAATTTCTTGTGATCCA
* * *
9362636 GTTTGGTTTAACTAATGCACCTCCAGTATTTATGGATTTGATGAGCAGAATCTTCAGACCGTATT
66 GTTTGGTTTAACTAATGCACCTCCAGGATTTATGGATTTGATGAACAGAATCTTCAGACCGTACT
*
9362701 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTCATATATTCTTGAGATGAGACTGAACAA
131 TAGACAGATTTGTTGTGGTATTTATTGATAATATTTTCATATATTCTTGAGATGAGACTGAACAA
9362766 TGCTC
196 TGCTC
* * *
9362771 GATTTGGATGTGCTGAAAACTACATTTAG-AACCAAGTACGGACACTATGAATTTCTTGTGATGC
1 GATTTGGATCTGCCGAAAACTACATTTAGAAACC-AGTACGGACACTATGAATTTCTTGTGATCC
* * *
9362835 TGTTTGGTTTAACTAATGCACCTCCAGGATTTATGGATTTGATGAACTGAATCTTCAGTCCGTAC
65 AGTTTGGTTTAACTAATGCACCTCCAGGATTTATGGATTTGATGAACAGAATCTTCAGACCGTAC
* *
9362900 TTAGACAGATTTTTTGTGGTATTTATTGATAATATTTTTATATATTCTTGAGATGAGACTGAACA
130 TTAGACAGATTTGTTGTGGTATTTATTGATAATATTTTCATATATTCTTGAGATGAGACTGAACA
9362965 TGCCGAGCAT
Statistics
Matches: 179, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
199 4 0.02
200 175 0.98
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.37
Consensus pattern (200 bp):
GATTTGGATCTGCCGAAAACTACATTTAGAAACCAGTACGGACACTATGAATTTCTTGTGATCCA
GTTTGGTTTAACTAATGCACCTCCAGGATTTATGGATTTGATGAACAGAATCTTCAGACCGTACT
TAGACAGATTTGTTGTGGTATTTATTGATAATATTTTCATATATTCTTGAGATGAGACTGAACAA
TGCTC
Found at i:9369905 original size:113 final size:113
Alignment explanation
Indices: 9369707--9369934 Score: 456
Period size: 113 Copynumber: 2.0 Consensus size: 113
9369697 AAACTCTGTC
9369707 CAGGAGATTGGGACTTAAGCGGGACCATCTGTGACCCCTCTAGTCTTTCCTGGGAGTTTAATTTA
1 CAGGAGATTGGGACTTAAGCGGGACCATCTGTGACCCCTCTAGTCTTTCCTGGGAGTTTAATTTA
9369772 ATGTAATTTTTTGAAAAATATTCTTCTTAGTAGGCCAAAGTATTTAAG
66 ATGTAATTTTTTGAAAAATATTCTTCTTAGTAGGCCAAAGTATTTAAG
9369820 CAGGAGATTGGGACTTAAGCGGGACCATCTGTGACCCCTCTAGTCTTTCCTGGGAGTTTAATTTA
1 CAGGAGATTGGGACTTAAGCGGGACCATCTGTGACCCCTCTAGTCTTTCCTGGGAGTTTAATTTA
9369885 ATGTAATTTTTTGAAAAATATTCTTCTTAGTAGGCCAAAGTATTTAAG
66 ATGTAATTTTTTGAAAAATATTCTTCTTAGTAGGCCAAAGTATTTAAG
9369933 CA
1 CA
9369935 TTTTTTTTGT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 115 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (113 bp):
CAGGAGATTGGGACTTAAGCGGGACCATCTGTGACCCCTCTAGTCTTTCCTGGGAGTTTAATTTA
ATGTAATTTTTTGAAAAATATTCTTCTTAGTAGGCCAAAGTATTTAAG
Found at i:9372078 original size:40 final size:40
Alignment explanation
Indices: 9372029--9372114 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
9372019 TTTTCAAATT
*
9372029 TGTGCATTACTCAGGACGACTAATGAAATAAGTTTGAGGG
1 TGTGGATTACTCAGGACGACTAATGAAATAAGTTTGAGGG
* * *
9372069 TGTGGATTACTCAGGACGAGTAATGAAATAATTTTGGGGG
1 TGTGGATTACTCAGGACGACTAATGAAATAAGTTTGAGGG
9372109 TGTGGA
1 TGTGGA
9372115 AACACGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.29
Consensus pattern (40 bp):
TGTGGATTACTCAGGACGACTAATGAAATAAGTTTGAGGG
Found at i:9372257 original size:10 final size:10
Alignment explanation
Indices: 9372242--9372286 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
9372232 ATGAAAATTT
9372242 TTAATTTTAA
1 TTAATTTTAA
9372252 TTAATTTTATA
1 TTAATTTTA-A
* *
9372263 TCAAATTTTTA
1 T-TAATTTTAA
9372274 TTAATTTTAA
1 TTAATTTTAA
9372284 TTA
1 TTA
9372287 TTCTTGACAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 19 0.66
11 4 0.14
12 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:9376856 original size:25 final size:25
Alignment explanation
Indices: 9376804--9376943 Score: 76
Period size: 25 Copynumber: 5.6 Consensus size: 25
9376794 GGTTACTGAT
* *
9376804 TTCAGCTCTTATGAGCTTACCTTTA
1 TTCAGCTCGTATGAGCTTACCTTAA
9376829 TTCAGCTCGTATGAGCTTA-CTATAA
1 TTCAGCTCGTATGAGCTTACCT-TAA
* * * * *
9376854 TTCATCTTGGAGGAGCTTACCGCT-A
1 TTCAGCTCGTATGAGCTTACC-TTAA
* * *
9376879 TTCAGCTTGTACGAGCTTATCGTT-A
1 TTCAGCTCGTATGAGCTTA-CCTTAA
* *
9376904 TTCAGCTTAG-AGGAGCTTACCGTT--
1 TTCAGC-TCGTATGAGCTTACC-TTAA
*
9376928 TACAGCTCGTATGAGC
1 TTCAGCTCGTATGAGC
9376944 ACACATATAC
Statistics
Matches: 90, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
23 2 0.02
24 13 0.14
25 70 0.78
26 5 0.06
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (25 bp):
TTCAGCTCGTATGAGCTTACCTTAA
Found at i:9376881 original size:50 final size:49
Alignment explanation
Indices: 9376816--9376943 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 49
9376806 CAGCTCTTAT
* * *
9376816 GAGCTTACCTTTATTCAGCTCGTATGAGCTTA-C-TATAATTCATCTTGGAG
1 GAGCTTACC-GTATTCAGCTCGTATGAGCTTATCGT-T-ATTCAGCTTAGAG
* *
9376866 GAGCTTACCGCTATTCAGCTTGTACGAGCTTATCGTTATTCAGCTTAGAG
1 GAGCTTACCG-TATTCAGCTCGTATGAGCTTATCGTTATTCAGCTTAGAG
9376916 GAGCTTACCGT-TTACAGCTCGTATGAGC
1 GAGCTTACCGTATT-CAGCTCGTATGAGC
9376944 ACACATATAC
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
48 2 0.03
49 13 0.19
50 49 0.73
51 2 0.03
52 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (49 bp):
GAGCTTACCGTATTCAGCTCGTATGAGCTTATCGTTATTCAGCTTAGAG
Found at i:9377114 original size:26 final size:26
Alignment explanation
Indices: 9377085--9377136 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9377075 CATAGGTATT
9377085 TACATGAGATATATGA-AAATGATTTG
1 TACATGAGATATA-GATAAATGATTTG
* *
9377111 TACATGATATATAGATACATGATTTG
1 TACATGAGATATAGATAAATGATTTG
9377137 GAAATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (26 bp):
TACATGAGATATAGATAAATGATTTG
Found at i:9389223 original size:28 final size:23
Alignment explanation
Indices: 9389164--9389210 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
9389154 TTGTCAGGAC
9389164 TTAGCAAAAATTTAATATTTTAT
1 TTAGCAAAAATTTAATATTTTAT
9389187 TTAGCAAAAATTTAATATTTTAT
1 TTAGCAAAAATTTAATATTTTAT
9389210 T
1 T
9389211 CTATTTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TTAGCAAAAATTTAATATTTTAT
Found at i:9398008 original size:52 final size:52
Alignment explanation
Indices: 9397929--9398032 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
9397919 GCTAATTCCC
* *
9397929 TTTATATCAGCCAGGGTCCATCTCAATGCCCTTTTAAA-TCCCTGAAGAACTT
1 TTTATATCAGCCAGGGTCCATCCCAATGCCCTCTTAAATTCCC-GAAGAACTT
* * *
9397981 TTTATATTAGCTAGGGTCCATCCCAATGCCCTCTTAAATTGCCGAAGAACTT
1 TTTATATCAGCCAGGGTCCATCCCAATGCCCTCTTAAATTCCCGAAGAACTT
9398033 CTAACAACCT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 43 0.93
53 3 0.07
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (52 bp):
TTTATATCAGCCAGGGTCCATCCCAATGCCCTCTTAAATTCCCGAAGAACTT
Found at i:9399270 original size:18 final size:18
Alignment explanation
Indices: 9399236--9399271 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9399226 TGTATTATAT
* *
9399236 TATAATAATAAATTAAAG
1 TATAATAAAAAAATAAAG
9399254 TATAATAAAAAAATAAAG
1 TATAATAAAAAAATAAAG
9399272 AAAGAGAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (18 bp):
TATAATAAAAAAATAAAG
Found at i:9400226 original size:6 final size:6
Alignment explanation
Indices: 9400215--9400249 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
9400205 TTTTAGTGAA
9400215 AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
9400250 AACTAGATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:9401036 original size:20 final size:21
Alignment explanation
Indices: 9401004--9401057 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
9400994 AGTAATTATG
9401004 TTTTAAAATACTATT-AATTA
1 TTTTAAAATACTATTCAATTA
9401024 TTTTACAAA-ACTATTCAA-T-
1 TTTTA-AAATACTATTCAATTA
*
9401043 TTTTAAATTACTATT
1 TTTTAAAATACTATT
9401058 ATTTTTTACC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.07
19 11 0.37
20 12 0.40
21 5 0.17
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTAAAATACTATTCAATTA
Found at i:9401072 original size:18 final size:19
Alignment explanation
Indices: 9401004--9401075 Score: 69
Period size: 18 Copynumber: 3.8 Consensus size: 19
9400994 AGTAATTATG
*
9401004 TTTTAAAATACTATTAATT
1 TTTTACAATACTATTAATT
*
9401023 ATTTTACAAAACTATTCAA-T
1 -TTTTACAATACTATT-AATT
9401043 TTTTA-AATTACTATT-ATT
1 TTTTACAA-TACTATTAATT
*
9401061 TTTTACCATACTATT
1 TTTTACAATACTATT
9401076 TTTAAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
17 1 0.02
18 15 0.34
19 12 0.27
20 14 0.32
21 2 0.05
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTACAATACTATTAATT
Found at i:9401936 original size:28 final size:29
Alignment explanation
Indices: 9401868--9401934 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
9401858 ATTAGGATCG
* * *
9401868 AAATAA-TATATCAGTTTAAATATTATTT
1 AAATAATTAAATCAGTTTAAATATAATTA
*
9401896 AAATAATTAAATCATTTTAAATATAATTA
1 AAATAATTAAATCAGTTTAAATATAATTA
*
9401925 AAATCATTAA
1 AAATAATTAA
9401935 TCTGAATTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 6 0.18
29 27 0.82
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (29 bp):
AAATAATTAAATCAGTTTAAATATAATTA
Found at i:9405748 original size:65 final size:65
Alignment explanation
Indices: 9405674--9405851 Score: 356
Period size: 65 Copynumber: 2.7 Consensus size: 65
9405664 AGTAAAAGAA
9405674 GAAATATGTTTTGGTTTTAGAAAATAATAAAATAAAATAACATAAAAAAGAATTACAATTGCAAG
1 GAAATATGTTTTGGTTTTAGAAAATAATAAAATAAAATAACATAAAAAAGAATTACAATTGCAAG
9405739 GAAATATGTTTTGGTTTTAGAAAATAATAAAATAAAATAACATAAAAAAGAATTACAATTGCAAG
1 GAAATATGTTTTGGTTTTAGAAAATAATAAAATAAAATAACATAAAAAAGAATTACAATTGCAAG
9405804 GAAATATGTTTTGGTTTTAGAAAATAATAAAATAAAATAACATAAAAA
1 GAAATATGTTTTGGTTTTAGAAAATAATAAAATAAAATAACATAAAAA
9405852 TATTACAATT
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 113 1.00
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (65 bp):
GAAATATGTTTTGGTTTTAGAAAATAATAAAATAAAATAACATAAAAAAGAATTACAATTGCAAG
Found at i:9419498 original size:16 final size:18
Alignment explanation
Indices: 9419463--9419499 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9419453 AGTGATCCTT
*
9419463 ATGCAATTTCTAATCTAA
1 ATGCAATTTCTAACCTAA
9419481 ATGCAATTT-T-ACCTAA
1 ATGCAATTTCTAACCTAA
9419497 ATG
1 ATG
9419500 TATGAATGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (18 bp):
ATGCAATTTCTAACCTAA
Found at i:9425366 original size:20 final size:20
Alignment explanation
Indices: 9425343--9425382 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9425333 AGTAATGCAA
*
9425343 ATAAACCGCCAGTATTGTGG
1 ATAAACCGCCAGTAATGTGG
**
9425363 ATAAACTTCCAGTAATGTGG
1 ATAAACCGCCAGTAATGTGG
9425383 TCAAGCCACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (20 bp):
ATAAACCGCCAGTAATGTGG
Found at i:9430527 original size:28 final size:28
Alignment explanation
Indices: 9430484--9430539 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
9430474 ATTTATCCAA
9430484 ACAACCCAGAACCTCAAAATTAAAACTT
1 ACAACCCAGAACCTCAAAATTAAAACTT
* * * *
9430512 ACAACCTAGAATCTCAGAGTTAAAACTT
1 ACAACCCAGAACCTCAAAATTAAAACTT
9430540 TTTTAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (28 bp):
ACAACCCAGAACCTCAAAATTAAAACTT
Found at i:9430935 original size:28 final size:28
Alignment explanation
Indices: 9430882--9430936 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
9430872 AGAGAGAAAG
* *
9430882 ATGGGAAAGAGAAGAAGGGAAGAAAAAA
1 ATGGGAAAAAGAAGAAGGGAAAAAAAAA
*
9430910 ATGGGAAAAAG-AGAACGTGAAAAAAAA
1 ATGGGAAAAAGAAGAA-GGGAAAAAAAA
9430937 TGAAAGGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.62, C:0.02, G:0.31, T:0.05
Consensus pattern (28 bp):
ATGGGAAAAAGAAGAAGGGAAAAAAAAA
Found at i:9437381 original size:16 final size:16
Alignment explanation
Indices: 9437360--9437400 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
9437350 ATTTGGTTGA
*
9437360 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
9437376 GAAAATTAATTAATT-
1 GAAAATTAATTAATTG
9437391 -AAAATTAATT
1 GAAAATTAATT
9437401 TGAGATGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
16 14 0.58
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:9443148 original size:13 final size:13
Alignment explanation
Indices: 9443130--9443154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9443120 ATCAAATTTG
9443130 TATGTACTCTTTA
1 TATGTACTCTTTA
9443143 TATGTACTCTTT
1 TATGTACTCTTT
9443155 CACTAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:9443174 original size:51 final size:51
Alignment explanation
Indices: 9443119--9443225 Score: 135
Period size: 53 Copynumber: 2.1 Consensus size: 51
9443109 TATATATTAG
* * *
9443119 TATCAAATTTGTATGT-ACTCTTTATATGTACTCTTTCACTAATAAATTATA
1 TATCAAATTTGTATCTAAAT-TTTATATGTACGCTTTCACTAATAAATTATA
* *
9443170 TATCAAATTTGTATCTAAAAATTTTTTTTGTACGCTTTCACTAATAAATTATA
1 TATCAAATTTGTATCT--AAATTTTATATGTACGCTTTCACTAATAAATTATA
9443223 TAT
1 TAT
9443226 TAGTAAAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 15 0.31
53 31 0.65
54 2 0.04
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.48
Consensus pattern (51 bp):
TATCAAATTTGTATCTAAATTTTATATGTACGCTTTCACTAATAAATTATA
Found at i:9443864 original size:23 final size:24
Alignment explanation
Indices: 9443804--9443866 Score: 87
Period size: 23 Copynumber: 2.7 Consensus size: 24
9443794 TCTACTCACT
9443804 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAAGAACAATTTCCAGC
*
9443828 AGAC-TATCAA-AACAATTTCCAG-
1 A-ACAAATCAAGAACAATTTCCAGC
9443850 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
9443867 AACAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 18 0.53
24 6 0.18
25 2 0.06
ACGTcount: A:0.52, C:0.22, G:0.08, T:0.17
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTCCAGC
Found at i:9452840 original size:59 final size:59
Alignment explanation
Indices: 9452758--9453051 Score: 484
Period size: 59 Copynumber: 5.0 Consensus size: 59
9452748 ACATCGAAAT
* *
9452758 AACTCCTAATTTATTAAATGAAACAATATAAAAATAAATTGTACAAACATATTCAAAAG
1 AACTTCTATTTTATTAAATGAAACAATATAAAAATAAATTGTACAAACATATTCAAAAG
*
9452817 AACTAT-TATTTTATTAAACGAAACAATATAAAAATAAATTGTACAAACATATTCAAAAG
1 AACT-TCTATTTTATTAAATGAAACAATATAAAAATAAATTGTACAAACATATTCAAAAG
*
9452876 AACTAT-TATTTTATTAAACGAAACAATATAAAAATAAATTGTACAAACATATTCAAAAG
1 AACT-TCTATTTTATTAAATGAAACAATATAAAAATAAATTGTACAAACATATTCAAAAG
* *
9452935 AACTTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAG
1 AACTTCTATTTTATTAAATGAAACAATATAAAAATAAATTGTACAAACATATTCAAAAG
* *
9452994 AACTTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAA
1 AACTTCTATTTTATTAAATGAAACAATATAAAAATAAATTGTACAAACATATTCAAAA
9453052 ATAAATCAAT
Statistics
Matches: 227, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
58 1 0.00
59 226 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (59 bp):
AACTTCTATTTTATTAAATGAAACAATATAAAAATAAATTGTACAAACATATTCAAAAG
Found at i:9456161 original size:10 final size:10
Alignment explanation
Indices: 9456119--9456175 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
9456109 GAAATTATAA
9456119 AAAAAATATT
1 AAAAAATATT
**
9456129 AATTAA-ATT
1 AAAAAATATT
9456138 ACAAAAATGA--
1 A-AAAAAT-ATT
9456148 AAAAAATATT
1 AAAAAATATT
9456158 AAAAAATATT
1 AAAAAATATT
9456168 AAAAAATA
1 AAAAAATA
9456176 AAATTAACCG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
8 1 0.03
9 10 0.26
10 26 0.68
12 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (10 bp):
AAAAAATATT
Found at i:9456172 original size:29 final size:28
Alignment explanation
Indices: 9456118--9456178 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
9456108 AGAAATTATA
**
9456118 AAAAAAATATTAATTAAATTACAAAAAT
1 AAAAAAATATTAAAAAAATTACAAAAAT
9456146 GAAAAAAATATTAAAAAATATTA-AAAAAT
1 -AAAAAAATATTAAAAAA-ATTACAAAAAT
9456175 AAAA
1 AAAA
9456179 TTAACCGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 21 0.72
30 4 0.14
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (28 bp):
AAAAAAATATTAAAAAAATTACAAAAAT
Found at i:9456960 original size:26 final size:26
Alignment explanation
Indices: 9456895--9456966 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
9456885 TGAAAAATAC
* * *
9456895 ATTAAAATATTA-AATAATTATAGAT
1 ATTAAAATCTTATTATATTTATAGAT
**
9456920 ATT-ATTTCTTAATTATATTTATAGAT
1 ATTAAAATCTT-ATTATATTTATAGAT
9456946 ATTAAAATCTTATTAT-TTTAT
1 ATTAAAATCTTATTATATTTAT
9456967 TTTGAAATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
24 4 0.11
25 9 0.24
26 19 0.51
27 5 0.14
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (26 bp):
ATTAAAATCTTATTATATTTATAGAT
Found at i:9459293 original size:31 final size:31
Alignment explanation
Indices: 9459255--9459318 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
9459245 GTAAGGGTTA
*
9459255 ATTTCA-TTTTTTAATATTATTTAATATTTTT
1 ATTTCATTTTTTTAAT-TTAATTAATATTTTT
9459286 ATTTCATTTTTTTAATTTAATTAATATTTTT
1 ATTTCATTTTTTTAATTTAATTAATATTTTT
9459317 AT
1 AT
9459319 AAATTTCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 22 0.71
32 9 0.29
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (31 bp):
ATTTCATTTTTTTAATTTAATTAATATTTTT
Found at i:9459315 original size:18 final size:18
Alignment explanation
Indices: 9459262--9459317 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
9459252 TTAATTTCAT
*
9459262 TTTTTAATATTATTTAATA
1 TTTTTAAT-TTAATTAATA
*
9459281 TTTTT-ATTTCA-T--T-
1 TTTTTAATTTAATTAATA
9459294 TTTTTAATTTAATTAATA
1 TTTTTAATTTAATTAATA
9459312 TTTTTA
1 TTTTTA
9459318 TAAATTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 11
0.67 0.07 0.26
Matches are distributed among these distances:
13 5 0.17
14 6 0.21
15 1 0.03
16 1 0.03
17 3 0.10
18 8 0.28
19 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTAATTTAATTAATA
Found at i:9461323 original size:59 final size:59
Alignment explanation
Indices: 9461231--9461351 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 59
9461221 ATTGATTTAT
*
9461231 TTTTGAATATTTTTGTAAAAATTATTTTTATATTGTTTCATTTAATAAAATAGAATTTC
1 TTTTGAATATTTTTGTAAAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
* *
9461290 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATTAAATAGAAGTTC
1 TTTTGAATATTTTTGTAAAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
9461349 TTT
1 TTT
9461352 ATAACTCGTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.55
Consensus pattern (59 bp):
TTTTGAATATTTTTGTAAAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
Found at i:9469443 original size:20 final size:21
Alignment explanation
Indices: 9469418--9469457 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9469408 AAGGAATAGG
9469418 GGAAGAAAATGAAGA-ACAAT
1 GGAAGAAAATGAAGAGACAAT
* *
9469438 GGAAGAGAATTAAGAGACAA
1 GGAAGAAAATGAAGAGACAA
9469458 AAGTGAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.57, C:0.05, G:0.28, T:0.10
Consensus pattern (21 bp):
GGAAGAAAATGAAGAGACAAT
Found at i:9469877 original size:21 final size:22
Alignment explanation
Indices: 9469852--9469896 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
9469842 TATTTAACCC
9469852 AAAATAAATTGA-ATTA-AAATT
1 AAAATAAATT-ATATTATAAATT
*
9469873 AAAATTAATTATATTATAAATT
1 AAAATAAATTATATTATAAATT
9469895 AA
1 AA
9469897 TATTCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 13 0.62
22 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATAAATTATATTATAAATT
Found at i:9469882 original size:16 final size:16
Alignment explanation
Indices: 9469855--9469897 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
9469845 TTAACCCAAA
9469855 ATAAATTGAATTAAAATT
1 ATAAATT-AATT-AAATT
*
9469873 A-AAATTAATTATATT
1 ATAAATTAATTAAATT
9469888 ATAAATTAAT
1 ATAAATTAAT
9469898 ATTCATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 5 0.22
16 12 0.52
17 5 0.22
18 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
ATAAATTAATTAAATT
Found at i:9473016 original size:25 final size:24
Alignment explanation
Indices: 9472988--9473132 Score: 134
Period size: 25 Copynumber: 5.9 Consensus size: 24
9472978 ATGAGCTATG
* *
9472988 AATCGGTATGCTC-TCATGAGCTAGA
1 AATCGGTAAGCTCAT-ACGAGCT-GA
* *
9473013 AATCAGTAAGCGCATACGAGCTGA
1 AATCGGTAAGCTCATACGAGCTGA
9473037 GAATCGGTAAGCTC-TCACGAGCTGA
1 -AATCGGTAAGCTCAT-ACGAGCTGA
*
9473062 AATCGGTAAGCTCATACGAGCTTA
1 AATCGGTAAGCTCATACGAGCTGA
* *
9473086 GAATCGATAAGCT-TTCACGAGCTGA
1 -AATCGGTAAGCTCAT-ACGAGCTGA
* *
9473111 AATCGATAAGGTCATACGAGCT
1 AATCGGTAAGCTCATACGAGCT
9473133 ATGGTGTGCC
Statistics
Matches: 101, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
24 43 0.43
25 57 0.56
26 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (24 bp):
AATCGGTAAGCTCATACGAGCTGA
Found at i:9473083 original size:49 final size:48
Alignment explanation
Indices: 9472972--9473133 Score: 207
Period size: 49 Copynumber: 3.3 Consensus size: 48
9472962 GTACATGTAT
* * * *
9472972 GCTCATATGAGCTATGAATCGGTATGCTCTCATGAGCTAGAAATCAGTAA
1 GCTCATACGAGCTA-GAATCGGTAAGCTCTCACGAGCT-GAAATCGGTAA
*
9473022 GCGCATACGAGCTGAGAATCGGTAAGCTCTCACGAGCTGAAATCGGTAA
1 GCTCATACGAGCT-AGAATCGGTAAGCTCTCACGAGCTGAAATCGGTAA
* * *
9473071 GCTCATACGAGCTTAGAATCGATAAGCTTTCACGAGCTGAAATCGATAA
1 GCTCATACGAGC-TAGAATCGGTAAGCTCTCACGAGCTGAAATCGGTAA
*
9473120 GGTCATACGAGCTA
1 GCTCATACGAGCTA
9473134 TGGTGTGCCC
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
48 2 0.02
49 64 0.64
50 33 0.33
51 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (48 bp):
GCTCATACGAGCTAGAATCGGTAAGCTCTCACGAGCTGAAATCGGTAA
Found at i:9473129 original size:24 final size:25
Alignment explanation
Indices: 9473019--9473132 Score: 128
Period size: 24 Copynumber: 4.6 Consensus size: 25
9473009 TAGAAATCAG
* *
9473019 TAAGCGCATACGAGCTGAGAATCGG
1 TAAGCTCATACGAGCTGAGAATCGA
*
9473044 TAAGCTC-TCACGAGCTGA-AATCGG
1 TAAGCTCAT-ACGAGCTGAGAATCGA
*
9473068 TAAGCTCATACGAGCTTAGAATCGA
1 TAAGCTCATACGAGCTGAGAATCGA
*
9473093 TAAGCT-TTCACGAGCTGA-AATCGA
1 TAAGCTCAT-ACGAGCTGAGAATCGA
*
9473117 TAAGGTCATACGAGCT
1 TAAGCTCATACGAGCT
9473133 ATGGTGTGCC
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
24 41 0.53
25 36 0.47
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAGAATCGA
Found at i:9474794 original size:20 final size:21
Alignment explanation
Indices: 9474771--9474809 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9474761 CGATGTTAAA
9474771 GCCT-AGGTATTGACACCTAG
1 GCCTAAGGTATTGACACCTAG
*
9474791 GCCTAAGGTATTGATACCT
1 GCCTAAGGTATTGACACCT
9474810 TCATCAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (21 bp):
GCCTAAGGTATTGACACCTAG
Found at i:9478449 original size:28 final size:28
Alignment explanation
Indices: 9478401--9478457 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
9478391 TGTAATTTAA
* *
9478401 ATTAAGTTTTAATTAAGCATTGTTTATT
1 ATTAAGTTTTAAATAAGCATTGATTATT
*
9478429 ATTAAGTTTTTAAATGA-CATTGATTATT
1 ATTAAG-TTTTAAATAAGCATTGATTATT
9478457 A
1 A
9478458 CAAAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (28 bp):
ATTAAGTTTTAAATAAGCATTGATTATT
Found at i:9479872 original size:42 final size:42
Alignment explanation
Indices: 9479825--9479906 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
9479815 TATTATATGC
*
9479825 CACACGGCCT-GGACACACGCCCATGTCCTTGCTCGTGTGGCT
1 CACACGGCCTAGG-CACACGCCCATGTCCTTGCCCGTGTGGCT
*
9479867 CACACGGCCTAGGCACATGCCCATGTCCTTGCCCGTGTGG
1 CACACGGCCTAGGCACACGCCCATGTCCTTGCCCGTGTGG
9479907 TCCTAAGTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 35 0.95
43 2 0.05
ACGTcount: A:0.15, C:0.38, G:0.27, T:0.21
Consensus pattern (42 bp):
CACACGGCCTAGGCACACGCCCATGTCCTTGCCCGTGTGGCT
Found at i:9483351 original size:3 final size:3
Alignment explanation
Indices: 9483343--9483380 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9483333 AATATGTTTT
9483343 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
9483381 TAGCTTAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9483923 original size:18 final size:18
Alignment explanation
Indices: 9483900--9483936 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9483890 CAGTTTGTGT
9483900 TAACTGACTTCTAACTGC
1 TAACTGACTTCTAACTGC
9483918 TAACTGACTTCTAACTGC
1 TAACTGACTTCTAACTGC
9483936 T
1 T
9483937 CTTATTACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (18 bp):
TAACTGACTTCTAACTGC
Found at i:9489703 original size:21 final size:21
Alignment explanation
Indices: 9489679--9489728 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
9489669 TTATTAAGTT
9489679 CAAGTGGTAAAACCTTAAGAA
1 CAAGTGGTAAAACCTTAAGAA
* *
9489700 CAAGTGGTAAGACCTTAAGAG
1 CAAGTGGTAAAACCTTAAGAA
9489721 CAAGTGGT
1 CAAGTGGT
9489729 TTTAGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.20
Consensus pattern (21 bp):
CAAGTGGTAAAACCTTAAGAA
Found at i:9491107 original size:25 final size:25
Alignment explanation
Indices: 9491073--9491121 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9491063 CAAGCCCATT
* *
9491073 TTCATAGCTCGTGTGAGCATACTTA
1 TTCACAGCTCGTGTGAGCACACTTA
9491098 TTCACAGCTCGTGTGAGCACACTT
1 TTCACAGCTCGTGTGAGCACACTT
9491122 GGTGTGAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCACACTTA
Found at i:9492421 original size:30 final size:27
Alignment explanation
Indices: 9492381--9492460 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 27
9492371 TTTTAATAGT
9492381 TGGACTTAAATTTTGAAATTTGAAAA-ATAA
1 TGGAC-TAAATTTT-AAATTT-AAAACAT-A
*
9492411 TGGGACTAAATTCTTAAAATTAAAAGCATA
1 T-GGACTAAATT-TTAAATTTAAAA-CATA
9492441 TGGACTAAATTTTAAATTTA
1 TGGACTAAATTTTAAATTTA
9492461 TGAAGAGTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
28 8 0.18
29 14 0.32
30 14 0.32
31 8 0.18
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (27 bp):
TGGACTAAATTTTAAATTTAAAACATA
Found at i:9498026 original size:47 final size:47
Alignment explanation
Indices: 9497947--9498269 Score: 461
Period size: 47 Copynumber: 7.0 Consensus size: 47
9497937 CAACCCTGTT
* * * * *
9497947 TTGGATAGCAATTATTCATCAAATTGGACAGCAAT-AATATGCTCT-AAA
1 TTGGACAGC-ATTATACATTAAAATGGACAGC-ATCAATATACT-TAAAA
* *
9497995 TTTGACAACATTATACATTAAAATGGACAGCATCAATATACTTAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
9498042 TTGGACAGCATTATACATTAAAATGGACAGCATC---A-A--T---A
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
9498080 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
9498127 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
9498174 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
* *
9498221 TTGGACAACATTATACATTAAAATGGACAGCATCAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
9498268 TT
1 TT
9498270 TATAACACAA
Statistics
Matches: 253, Mismatches: 11, Indels: 23
0.88 0.04 0.08
Matches are distributed among these distances:
38 35 0.14
41 2 0.01
42 1 0.00
43 1 0.00
44 2 0.01
46 3 0.01
47 203 0.80
48 6 0.02
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.28
Consensus pattern (47 bp):
TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
Found at i:9498046 original size:25 final size:25
Alignment explanation
Indices: 9498006--9498080 Score: 113
Period size: 25 Copynumber: 3.1 Consensus size: 25
9497996 TTGACAACAT
9498006 TATACATTAAAATGGACAGCATCAA
1 TATACATTAAAATGGACAGCATCAA
9498031 TATAC-TTAAAATTGGACAGCAT---
1 TATACATTAAAA-TGGACAGCATCAA
9498053 TATACATTAAAATGGACAGCATCAA
1 TATACATTAAAATGGACAGCATCAA
9498078 TAT
1 TAT
9498081 TGGACAGCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
22 15 0.33
23 6 0.13
24 6 0.13
25 18 0.40
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (25 bp):
TATACATTAAAATGGACAGCATCAA
Found at i:9498194 original size:132 final size:136
Alignment explanation
Indices: 9497947--9498269 Score: 451
Period size: 132 Copynumber: 2.4 Consensus size: 136
9497937 CAACCCTGTT
* * * * * *
9497947 TTGGATAGCAATTATTCATCAAATTGGACAGCAAT-AATATGCTCT-AAATTTGACAACATTATA
1 TTGGACAGC-ATTATACATTAAAATGGACAGC-ATCAATATACT-TAAAATTGGACAACATTATA
9498010 CATTAAAATGGACAGCATCAATATACTTAAAATTGGACAGCATTATACATTAAAATGGACAGCAT
63 CATTAAAATGGACAGCATCAATATACTTAAAATTGGACAGCATTATACATTAAAATGGACAGCAT
9498075 C-A-A-T-A
128 CAATACTAA
*
9498080 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAATTGGACAGCATTATACAT
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAATTGGACAACATTATACAT
9498145 TAAAATGGACAGCATCAATATACTTAAAATTGGACAGCATTATACATTAAAATGGACAGCATCAA
66 TAAAATGGACAGCATCAATATACTTAAAATTGGACAGCATTATACATTAAAATGGACAGCATC-A
9498210 TATACTTAAAA
130 -ATAC-T--AA
* *
9498221 TTGGACAACATTATACATTAAAATGGACAGCATCAATATACTCAAAATT
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAATT
9498270 TATAACACAA
Statistics
Matches: 170, Mismatches: 9, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
131 3 0.02
132 108 0.64
133 8 0.05
135 1 0.01
136 1 0.01
138 1 0.01
141 48 0.28
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.28
Consensus pattern (136 bp):
TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAATTGGACAACATTATACAT
TAAAATGGACAGCATCAATATACTTAAAATTGGACAGCATTATACATTAAAATGGACAGCATCAA
TACTAA
Found at i:9502244 original size:21 final size:22
Alignment explanation
Indices: 9502219--9502272 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
9502209 TTTACGTATA
9502219 TTTTATAGTTTTTTTTTAAAT-
1 TTTTATAGTTTTTTTTTAAATC
** *
9502240 TTTTAT-GAATTTTTTTATATC
1 TTTTATAGTTTTTTTTTAAATC
9502261 TTTTATAGTTTT
1 TTTTATAGTTTT
9502273 GACGAATCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 11 0.42
21 12 0.46
22 3 0.12
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (22 bp):
TTTTATAGTTTTTTTTTAAATC
Found at i:9505680 original size:21 final size:21
Alignment explanation
Indices: 9505656--9505701 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
9505646 GCCTAGTTCC
9505656 AAAGGAGACTTAGGTGAAGTT
1 AAAGGAGACTTAGGTGAAGTT
* *
9505677 AAAGGATACTTAGGTTAAGTT
1 AAAGGAGACTTAGGTGAAGTT
9505698 AAAG
1 AAAG
9505702 AAGGGTTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.28, T:0.26
Consensus pattern (21 bp):
AAAGGAGACTTAGGTGAAGTT
Found at i:9507799 original size:31 final size:30
Alignment explanation
Indices: 9507732--9507929 Score: 138
Period size: 30 Copynumber: 6.6 Consensus size: 30
9507722 TCGGCAATCG
* * * *
9507732 ATTATGAAAAAGGATGGTGATGACCATCGA
1 ATTATGAAAAGGGATAGTGACGACCATCAA
*
9507762 ATTATGAAAAGGGATAGTGACGACTATCAAA
1 ATTATGAAAAGGGATAGTGACGACCATC-AA
* *
9507793 ATTATGAAAAGGGAT-GCCT-TC-AGCTATCAA
1 ATTATGAAAAGGGATAG--TGACGA-CCATCAA
* * * * *
9507823 ATCATGCAAAGGGATAGCT-TCGGCTATCAA
1 ATTATGAAAAGGGATAG-TGACGACCATCAA
* * *
9507853 ATTATGTAGAGGGATGGTGACGACCATCAA
1 ATTATGAAAAGGGATAGTGACGACCATCAA
* *
9507883 CA--ATGAAAAGGGATGGTGATGACCATCAAA
1 -ATTATGAAAAGGGATAGTGACGACCATC-AA
9507913 ATTATGAAAAGGGATAG
1 ATTATGAAAAGGGATAG
9507930 CTTCAACTAT
Statistics
Matches: 137, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
29 24 0.18
30 75 0.55
31 37 0.27
32 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (30 bp):
ATTATGAAAAGGGATAGTGACGACCATCAA
Found at i:9507897 original size:29 final size:30
Alignment explanation
Indices: 9507848--9507927 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
9507838 AGCTTCGGCT
* * *
9507848 ATCAAATTATGTAGAGGGATGGTGACGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
* *
9507878 ATCAACA-ATGAAAAGGGATGGTGATGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
9507907 ATCAAAATTATGAAAAGGGAT
1 ATCAAAA-TATGAAAAGGGAT
9507928 AGCTTCAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 25 0.60
30 5 0.12
31 12 0.29
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.21
Consensus pattern (30 bp):
ATCAAAATATGAAAAGGGATGGTGACGACC
Found at i:9507911 original size:120 final size:121
Alignment explanation
Indices: 9507709--9507984 Score: 342
Period size: 120 Copynumber: 2.3 Consensus size: 121
9507699 TCAACGAATG
* * * **
9507709 AAAAGGGATAGCTTCGGCAATC-GATTATGAAAAAGGATGGTGATGACCATCGAATTATGAAAAG
1 AAAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGATGGTGACGACCATCGAACAATGAAAAG
* * **
9507773 GGATAGTGACGACTATCAAAATTATGAAAAGGGAT-GCCTTCAGCTATCAAATCATG
66 GGATAGTGACGACCATCAAAATTATGAAAAGGGATAG-CTTCAACTATCAAATCACA
* * * *
9507829 CAAAGGGATAGCTTCGGCTATCAAATTATGTAGAGGGATGGTGACGACCATC-AACAATGAAAAG
1 AAAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGATGGTGACGACCATCGAACAATGAAAAG
* * *
9507893 GGATGGTGATGACCATCAAAATTATGAAAAGGGATAGCTTCAACTATCGAATCACA
66 GGATAGTGACGACCATCAAAATTATGAAAAGGGATAGCTTCAACTATCAAATCACA
* * * *
9507949 AAAAGGAATAGCTTTGGCTATCAAATCATGGAAAAG
1 AAAAGGGATAGCTTCGGCTATCAAATTATGAAAAAG
9507985 AATGTGTCAA
Statistics
Matches: 131, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
120 106 0.81
121 25 0.19
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (121 bp):
AAAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGATGGTGACGACCATCGAACAATGAAAAG
GGATAGTGACGACCATCAAAATTATGAAAAGGGATAGCTTCAACTATCAAATCACA
Found at i:9509074 original size:12 final size:12
Alignment explanation
Indices: 9509057--9509086 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9509047 TCAGGCAGTT
9509057 ACACGGCCTAGC
1 ACACGGCCTAGC
*
9509069 ACACGGCCTCGC
1 ACACGGCCTAGC
9509081 ACACGG
1 ACACGG
9509087 GCATGTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.43, G:0.27, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:9509335 original size:86 final size:86
Alignment explanation
Indices: 9509190--9509374 Score: 289
Period size: 86 Copynumber: 2.2 Consensus size: 86
9509180 GTGGGCTGGG
*
9509190 ACACGGTCATGTGTCCCTACTTCAAATGCCCACAAGGCCTGTGACACGGACGTATATCTTGGTCG
1 ACACGGTCGTGTGTCCCTACTTCAAATGCCCACAAGGCCTGTGACACGGACGTATATCTTGGTCG
*
9509255 AGTGAGTCACACGGCTTGGCC
66 ACTGAGTCACACGGCTTGGCC
** * * *
9509276 ACACGGTCGTGTGTCCCTACTTTGAATGCCCATACGGCCTGTGACACGGACGTGTATCTTGGTCG
1 ACACGGTCGTGTGTCCCTACTTCAAATGCCCACAAGGCCTGTGACACGGACGTATATCTTGGTCG
*
9509341 ACTGAGTCACATGGCTTGGCC
66 ACTGAGTCACACGGCTTGGCC
*
9509362 ACACGATCGTGTG
1 ACACGGTCGTGTG
9509375 ACCCCTGCAG
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 90 1.00
ACGTcount: A:0.20, C:0.28, G:0.27, T:0.25
Consensus pattern (86 bp):
ACACGGTCGTGTGTCCCTACTTCAAATGCCCACAAGGCCTGTGACACGGACGTATATCTTGGTCG
ACTGAGTCACACGGCTTGGCC
Found at i:9515319 original size:29 final size:29
Alignment explanation
Indices: 9515256--9515321 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
9515246 TCATCAACGA
*
9515256 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGAGATAGCTTCGGCTATCGAAT
* *
9515285 ACGAAAAGAGATTGCTTCGGCTATC-AATT
1 ATGAAAAGAGATAGCTTCGGCTATCGAA-T
9515314 ATGAAAAG
1 ATGAAAAG
9515322 GGATGGTGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
ATGAAAAGAGATAGCTTCGGCTATCGAAT
Found at i:9515477 original size:29 final size:30
Alignment explanation
Indices: 9515313--9515506 Score: 157
Period size: 30 Copynumber: 6.4 Consensus size: 30
9515303 GGCTATCAAT
* *
9515313 TATGAAAAGGGATGGTGACGACCAAT-GAAT
1 TATGAAAAGGGATGGTGACGACC-ATCAAAA
*
9515343 TATGAAAAGGGATGGTGACAACCATCAAAA
1 TATGAAAAGGGATGGTGACGACCATCAAAA
* * *
9515373 TTATGAAAAGGGATGGCT-TC-AGCTAT-TAAA
1 -TATGAAAAGGGATGG-TGACGA-CCATCAAAA
* * *** * *
9515403 TCATGCAAAGGGATAGTTTTGACTATCAAAT
1 T-ATGAAAAGGGATGGTGACGACCATCAAAA
*
9515434 TATGTAAAA-GGATGGTGACGACCATCAAGA
1 TATG-AAAAGGGATGGTGACGACCATCAAAA
9515464 -ATGAAAAGGGATGGTGACGACCATCAAAA
1 TATGAAAAGGGATGGTGACGACCATCAAAA
9515493 TTATGAAAAGGGAT
1 -TATGAAAAGGGAT
9515507 AGCTTCAGCT
Statistics
Matches: 132, Mismatches: 20, Indels: 23
0.75 0.11 0.13
Matches are distributed among these distances:
28 4 0.03
29 27 0.20
30 62 0.47
31 38 0.29
32 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCAAAA
Found at i:9515478 original size:120 final size:119
Alignment explanation
Indices: 9515256--9515536 Score: 370
Period size: 120 Copynumber: 2.4 Consensus size: 119
9515246 TCATCAACGA
* * * * * * *
9515256 ATGAAAAGGGATAGCTTCGGCTATCGAAT-ACGAAAAGAGATTGCTTCGGCTATCAATTATGAAA
1 ATGAAAAGGGATAGCTTCAGCTATCAAATCACG-AAAGGGATAGTTTTGACTATCAATTATGAAA
* **
9515320 AGGGATGGTGACGACCAATGAATTATGAAAAGGGATGGTGACAACCATCAAAATT
65 AGGGATGGTGACGACCAATCAAGAATGAAAAGGGATGGTGACAACCATCAAAATT
* * *
9515375 ATGAAAAGGGATGGCTTCAGCTATTAAATCATGCAAAGGGATAGTTTTGACTATCAAATTATGTA
1 ATGAAAAGGGATAGCTTCAGCTATCAAATCACG-AAAGGGATAGTTTTGACTATC-AATTATG-A
*
9515440 AAA-GGATGGTGACGACC-ATCAAGAATGAAAAGGGATGGTGACGACCATCAAAATT
63 AAAGGGATGGTGACGACCAATCAAGAATGAAAAGGGATGGTGACAACCATCAAAATT
*
9515495 ATGAAAAGGGATAGCTTCAGCTATCGAATCACGAAAGGGATA
1 ATGAAAAGGGATAGCTTCAGCTATCAAATCACGAAAGGGATA
9515537 ACTTTGGCTA
Statistics
Matches: 140, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
119 34 0.24
120 81 0.58
121 21 0.15
122 4 0.03
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (119 bp):
ATGAAAAGGGATAGCTTCAGCTATCAAATCACGAAAGGGATAGTTTTGACTATCAATTATGAAAA
GGGATGGTGACGACCAATCAAGAATGAAAAGGGATGGTGACAACCATCAAAATT
Found at i:9515534 original size:60 final size:58
Alignment explanation
Indices: 9515348--9515535 Score: 150
Period size: 60 Copynumber: 3.1 Consensus size: 58
9515338 TGAATTATGA
* **
9515348 AAAGGGATGGTGACAACCATCAAAATTATGAAAAGGGATGGCTTCAGCTATTAAATCATG
1 AAAGGGATGGTGACGACCATCAAAATTATGAAAAGGGAT-GCTTCAGCTATCGAATCA-G
* *** * * * * *
9515408 CAAAGGGATAGTTTTGACTATC-AAATTATGTAAAA-GGATG-GTGACGACCATCAAGAATGA-
1 -AAAGGGATGGTGACGACCATCAAAATTATG-AAAAGGGATGCTTCA-G-CTATC--GAATCAG
9515468 AAAGGGATGGTGACGACCATCAAAATTATGAAAAGGGATAGCTTCAGCTATCGAATCACG
1 AAAGGGATGGTGACGACCATCAAAATTATGAAAAGGGAT-GCTTCAGCTATCGAATCA-G
9515528 AAAGGGAT
1 AAAGGGAT
9515536 AACTTTGGCT
Statistics
Matches: 95, Mismatches: 21, Indels: 23
0.68 0.15 0.17
Matches are distributed among these distances:
58 7 0.07
59 22 0.23
60 39 0.41
61 21 0.22
62 6 0.06
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (58 bp):
AAAGGGATGGTGACGACCATCAAAATTATGAAAAGGGATGCTTCAGCTATCGAATCAG
Found at i:9515546 original size:29 final size:29
Alignment explanation
Indices: 9515499--9515554 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
9515489 AAAATTATGA
*
9515499 AAAGGGATAGCTTCAGCTATCGAATCACG
1 AAAGGGATAACTTCAGCTATCGAATCACG
** *
9515528 AAAGGGATAACTTTGGCTATTGAATCA
1 AAAGGGATAACTTCAGCTATCGAATCA
9515555 TGGAAAGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (29 bp):
AAAGGGATAACTTCAGCTATCGAATCACG
Found at i:9530136 original size:8 final size:8
Alignment explanation
Indices: 9530123--9530171 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
9530113 TTTGTTACTA
*
9530123 GTACTTTG
1 GTACTTTT
9530131 GTACTTTT
1 GTACTTTT
** *
9530139 GTA-AATA
1 GTACTTTT
9530146 GTACTTTT
1 GTACTTTT
9530154 GTACTTTT
1 GTACTTTT
9530162 GTACTTTT
1 GTACTTTT
9530170 GT
1 GT
9530172 TTCTAGCACT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
7 4 0.12
8 29 0.88
ACGTcount: A:0.18, C:0.10, G:0.16, T:0.55
Consensus pattern (8 bp):
GTACTTTT
Found at i:9530140 original size:23 final size:23
Alignment explanation
Indices: 9530110--9530164 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
9530100 CCAATTGATG
* *
9530110 ACTTTTGTTACTAGTACTTTGGT
1 ACTTTTGTAAATAGTACTTTGGT
*
9530133 ACTTTTGTAAATAGTACTTTTGT
1 ACTTTTGTAAATAGTACTTTGGT
9530156 ACTTTTGTA
1 ACTTTTGTA
9530165 CTTTTGTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.53
Consensus pattern (23 bp):
ACTTTTGTAAATAGTACTTTGGT
Found at i:9530222 original size:25 final size:23
Alignment explanation
Indices: 9530177--9530222 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
9530167 TTTGTTTCTA
*
9530177 GCACTTTGGTGCTTCTATTATTG
1 GCACTTTGGTGATTCTATTATTG
*
9530200 GCACTTTAGTGTGATTCTGTTAT
1 GCACTTT-G-GTGATTCTATTAT
9530223 GGTTTTCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 1 0.05
25 11 0.58
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (23 bp):
GCACTTTGGTGATTCTATTATTG
Found at i:9538039 original size:22 final size:22
Alignment explanation
Indices: 9538014--9538055 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9538004 TTATAGTTTT
9538014 TTTTGATAATTTTTTAAAATAG
1 TTTTGATAATTTTTTAAAATAG
* *
9538036 TTTTTATAATTTTTTGAAAT
1 TTTTGATAATTTTTTAAAAT
9538056 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (22 bp):
TTTTGATAATTTTTTAAAATAG
Found at i:9539629 original size:43 final size:43
Alignment explanation
Indices: 9539568--9539652 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
9539558 TCCCCACAAG
*
9539568 ATGACGCGGGAGCTGATCAAGTGGTATGGAGGTTAAGGGTGAT
1 ATGACGCGGGAGCTGATCAAGTGGTATGGAGGTCAAGGGTGAT
9539611 ATGACGCGGGAGCTGATCAAGTGGTATGGAGGTCAAGGGTGA
1 ATGACGCGGGAGCTGATCAAGTGGTATGGAGGTCAAGGGTGA
9539653 AGCCAGAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.11, G:0.42, T:0.21
Consensus pattern (43 bp):
ATGACGCGGGAGCTGATCAAGTGGTATGGAGGTCAAGGGTGAT
Found at i:9545822 original size:406 final size:406
Alignment explanation
Indices: 9545028--9546247 Score: 2066
Period size: 406 Copynumber: 3.0 Consensus size: 406
9545018 AACTTATTCA
* *
9545028 TTCCATAGAGTATTTGGCTGCTTATGCTTTCCAAACCTTCGA-CATACAATACTTGAAAACTACA
1 TTCCTTAGAGTATTTGGCTGCTTATGCTTTCCAAACCTTCGACCATACAATACTTAAAAACTACA
9545092 GTATAGGTCAACTCCATGCACATTTTTGGGGTATTCACCATGTCATAAAGGGTATCGTTGTCAGG
66 GTATAGGTCAACTCCATGCACATTTTTGGGGTATTCACCATGTCATAAAGGGTATCGTTGTCAGG
* *
9545157 CTGCTGATGGAAGGGTTTATATTTCCTGTCATGTTACATTTCATGAAAATGAATTTCCATTTAAA
131 CTGCTGATGGAAGGGTCTATATTTCCCGTCATGTTACATTTCATGAAAATGAATTTCCATTTAAA
* * * * *
9545222 ACTCTCCACCCTAAGTCTGCAGCTTCCATACCTTCTATTTCGTAGTCTAGTTATAAACTTCTTGT
196 ACTCTCCGCCCCAAGTCTGCAGCTTCCATACCTTCTACTTCGCAGTCTAGTTCTAAACTTCTTGT
* * * *
9545287 TATGACATCAGTTCATACAACTCAGGGTACTCCAATAGTTAATGC-TCCAATAGTTACTAGTGTT
261 TATGACACCAGTTCATACAGCTCAGGGTACTCCAGTAGTTAAT-CTTCCAATGGTTACTAGTGTT
* *
9545351 AATTCATTGAATGAGGTTTTTGTGCTCAGTGTTGATACTCCACACAGTCCCCTTGTGTAAGTTCT
325 AATTCATTGAATGAGGTTCTTGTGCTCAGTGTTGATACTCCACACAGTCCCCTTATGTAAGTTCT
*
9545416 AATTCTAGAAGTTTTAG
390 AGTTCTAGAAGTTTTAG
9545433 TTCCTTAGAGTATTTGGCTGCTTATGCTTTCCAAACCTTCGACCATACAATACTTAAAAACTACA
1 TTCCTTAGAGTATTTGGCTGCTTATGCTTTCCAAACCTTCGACCATACAATACTTAAAAACTACA
*
9545498 GTATAGGTCAACTCCATGCACATTTTTGGGGTATTCACCATGTTATAAAGGGTATCGTTGTCAGG
66 GTATAGGTCAACTCCATGCACATTTTTGGGGTATTCACCATGTCATAAAGGGTATCGTTGTCAGG
*
9545563 CTGCTGATGGAAGGGTCTATATTTCCCGTCATGTTACATTTCATGAAAATGAATTTCCATTTAAC
131 CTGCTGATGGAAGGGTCTATATTTCCCGTCATGTTACATTTCATGAAAATGAATTTCCATTTAAA
*
9545628 ACTCTCCGCCCCAAGTCTGCAGCTTTCATACCTTCTACTTCGCAGTCTAGTTCTAAACTTCTTGT
196 ACTCTCCGCCCCAAGTCTGCAGCTTCCATACCTTCTACTTCGCAGTCTAGTTCTAAACTTCTTGT
*
9545693 TATGACACCAGTTCATACAGCTCAGGGTACTCCAGTAGTTAATCTTCCAATGGTTACTAGTATTA
261 TATGACACCAGTTCATACAGCTCAGGGTACTCCAGTAGTTAATCTTCCAATGGTTACTAGTGTTA
* *
9545758 ATTCATTGAATGAGGTTCTTGTACTCAGTGTTGATACACCACACAGTCCCCTTATGTAAGTTCTA
326 ATTCATTGAATGAGGTTCTTGTGCTCAGTGTTGATACTCCACACAGTCCCCTTATGTAAGTTCTA
*
9545823 GTTCTAGAAGTTCTAG
391 GTTCTAGAAGTTTTAG
* * *
9545839 TTCCTTAGAGTATTTGGCTGCTTATGCTTTCCGAACCTTCGACTATACAATACTTTAAAACTACA
1 TTCCTTAGAGTATTTGGCTGCTTATGCTTTCCAAACCTTCGACCATACAATACTTAAAAACTACA
* *
9545904 GTATAGGTCAACTCCATGCACATTTTTAGGGTATTCACCATGTCATAAAGGGTATCGTTGTCAAG
66 GTATAGGTCAACTCCATGCACATTTTTGGGGTATTCACCATGTCATAAAGGGTATCGTTGTCAGG
* **
9545969 CTGCTAATGGAAGGGTCTATATTTTTCGTCATGTTACATTTCATGAAAATGAATTTCCATTTAAA
131 CTGCTGATGGAAGGGTCTATATTTCCCGTCATGTTACATTTCATGAAAATGAATTTCCATTTAAA
* * *
9546034 ACTCTCCGCCCCAAGTCTGCAACTTCCATACTTTCAACTTCGCAGTCTAGTTCTAAACTTCTTGT
196 ACTCTCCGCCCCAAGTCTGCAGCTTCCATACCTTCTACTTCGCAGTCTAGTTCTAAACTTCTTGT
* *
9546099 TATGACACCAGTTCATACAGCTCAGGGTACTCCAGTAGTTAATGTTCTAATGGTTACTAGTGTTA
261 TATGACACCAGTTCATACAGCTCAGGGTACTCCAGTAGTTAATCTTCCAATGGTTACTAGTGTTA
* *
9546164 ATTCATTGAATGAGGTTCATGTGCTCAGTGTTGATACTCCACACAGTCCCCTTATGTAAGTTATA
326 ATTCATTGAATGAGGTTCTTGTGCTCAGTGTTGATACTCCACACAGTCCCCTTATGTAAGTTCTA
*
9546229 GTTCTAGAAGGTTTAG
391 GTTCTAGAAGTTTTAG
9546245 TTC
1 TTC
9546248 TGATAGGCCA
Statistics
Matches: 767, Mismatches: 46, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
405 42 0.05
406 725 0.95
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (406 bp):
TTCCTTAGAGTATTTGGCTGCTTATGCTTTCCAAACCTTCGACCATACAATACTTAAAAACTACA
GTATAGGTCAACTCCATGCACATTTTTGGGGTATTCACCATGTCATAAAGGGTATCGTTGTCAGG
CTGCTGATGGAAGGGTCTATATTTCCCGTCATGTTACATTTCATGAAAATGAATTTCCATTTAAA
ACTCTCCGCCCCAAGTCTGCAGCTTCCATACCTTCTACTTCGCAGTCTAGTTCTAAACTTCTTGT
TATGACACCAGTTCATACAGCTCAGGGTACTCCAGTAGTTAATCTTCCAATGGTTACTAGTGTTA
ATTCATTGAATGAGGTTCTTGTGCTCAGTGTTGATACTCCACACAGTCCCCTTATGTAAGTTCTA
GTTCTAGAAGTTTTAG
Found at i:9549209 original size:18 final size:18
Alignment explanation
Indices: 9549186--9549229 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9549176 ATTTTTTTCA
*
9549186 TTGTTGTTTACTGTTGTT
1 TTGTTGTTTACTATTGTT
*
9549204 TTGTTGTTTGCTATTGTT
1 TTGTTGTTTACTATTGTT
*
9549222 TTGATGTT
1 TTGTTGTT
9549230 GTTTGCTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.05, G:0.23, T:0.66
Consensus pattern (18 bp):
TTGTTGTTTACTATTGTT
Found at i:9549244 original size:21 final size:21
Alignment explanation
Indices: 9549205--9549266 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
9549195 ACTGTTGTTT
* *
9549205 TGTTGTTTGCTATTGTTTTGA
1 TGTTGTTTGCTACTATTTTGA
*
9549226 TGTTGTTTGCTACTATTTTGC
1 TGTTGTTTGCTACTATTTTGA
* *
9549247 TATTATATTGCTACTATTTT
1 TGTTGT-TTGCTACTATTTT
9549267 ATTGTTATTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 22 0.63
22 13 0.37
ACGTcount: A:0.15, C:0.10, G:0.16, T:0.60
Consensus pattern (21 bp):
TGTTGTTTGCTACTATTTTGA
Found at i:9550129 original size:9 final size:9
Alignment explanation
Indices: 9550108--9550183 Score: 50
Period size: 9 Copynumber: 8.2 Consensus size: 9
9550098 TAATTGATGT
*
9550108 AAAATTATT
1 AAAATTATA
9550117 AAAATTATAAA
1 AAAATTAT--A
9550128 AAAACTTATA
1 AAAA-TTATA
*
9550138 AATATTAT-
1 AAAATTATA
9550146 AAAA-TATA
1 AAAATTATA
**
9550154 ATAAATTCCA
1 A-AAATTATA
9550164 ATAAATTATA
1 A-AAATTATA
9550174 AAAA-TATA
1 AAAATTATA
9550182 AA
1 AA
9550184 TTAATAAAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
7 3 0.06
8 10 0.19
9 18 0.33
10 15 0.28
11 4 0.07
12 4 0.07
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:9550144 original size:21 final size:20
Alignment explanation
Indices: 9550108--9550149 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
9550098 TAATTGATGT
9550108 AAAATTATTAAAATTATAAA
1 AAAATTATTAAAATTATAAA
9550128 AAAACTTA-TAAATATTATAAA
1 AAAA-TTATTAAA-ATTATAAA
9550149 A
1 A
9550150 TATAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTATTAAAATTATAAA
Found at i:9550197 original size:25 final size:26
Alignment explanation
Indices: 9550141--9550191 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
9550131 ACTTATAAAT
9550141 ATTATAAAATATAATAAATTCCAATAA
1 ATTATAAAATATAATAAATT-CAATAA
9550168 ATTATAAAA-AT-ATAAATT-AATAA
1 ATTATAAAATATAATAAATTCAATAA
9550191 A
1 A
9550192 ACTTATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.25
25 7 0.29
26 2 0.08
27 9 0.38
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
ATTATAAAATATAATAAATTCAATAA
Found at i:9550229 original size:32 final size:33
Alignment explanation
Indices: 9550189--9550261 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
9550179 ATAAATTAAT
9550189 AAAACTTATTTAAAA-TCTTTAAAAT-TTAAAAA
1 AAAACTTATTTAAAATTC-TTAAAATATTAAAAA
* *
9550221 AAAACTTA-TTAGAATTCTTAAAATATTATAAA
1 AAAACTTATTTAAAATTCTTAAAATATTAAAAA
*
9550253 AAAATTTAT
1 AAAACTTAT
9550262 AAAAAAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 12 0.34
32 23 0.66
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.38
Consensus pattern (33 bp):
AAAACTTATTTAAAATTCTTAAAATATTAAAAA
Found at i:9550265 original size:11 final size:13
Alignment explanation
Indices: 9550240--9550278 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
9550230 TAGAATTCTT
9550240 AAAATATTATAAA
1 AAAATATTATAAA
9550253 AAAAT-TTATAAA
1 AAAATATTATAAA
9550265 AAAAGTATTA-AAA
1 AAAA-TATTATAAA
9550278 A
1 A
9550279 TATTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.46
13 10 0.42
14 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (13 bp):
AAAATATTATAAA
Found at i:9550296 original size:20 final size:19
Alignment explanation
Indices: 9550264--9550317 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
9550254 AAATTTATAA
*
9550264 AAAAAGTAT-TAAAAATAT
1 AAAAATTATATAAAAATAT
* **
9550282 TAAAATTGATATAAACTTAT
1 AAAAATT-ATATAAAAATAT
9550302 AAAAATTATATAAAAA
1 AAAAATTATATAAAAA
9550318 AATCATAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
18 5 0.19
19 9 0.33
20 13 0.48
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAATTATATAAAAATAT
Found at i:9550775 original size:21 final size:22
Alignment explanation
Indices: 9550738--9550778 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9550728 TATAACTTTA
*
9550738 TATCAATTTTAATACTTTTTTT
1 TATCAAATTTAATACTTTTTTT
9550760 TATCAAATTT-ATACTTTTT
1 TATCAAATTTAATACTTTTT
9550779 AAAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (22 bp):
TATCAAATTTAATACTTTTTTT
Found at i:9550845 original size:21 final size:21
Alignment explanation
Indices: 9550806--9550845 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9550796 GATTTGTATG
* * *
9550806 GTTTTTATAGAGTTTTAATAC
1 GTTTTTATAAAATTATAATAC
9550827 GTTTTTATAAAATTATAAT
1 GTTTTTATAAAATTATAAT
9550846 TATGTTTTAT
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:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (21 bp):
GTTTTTATAAAATTATAATAC
Found at i:9550891 original size:16 final size:17
Alignment explanation
Indices: 9550867--9550899 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9550857 ATATATTTTT
9550867 ATAATTTTTAATATTTA
1 ATAATTTTTAATATTTA
9550884 ATAATTTTT-ATATTTA
1 ATAATTTTTAATATTTA
9550900 TGATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAATTTTTAATATTTA
Found at i:9552207 original size:26 final size:26
Alignment explanation
Indices: 9552174--9552226 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
9552164 TTAATTTTTT
9552174 AAAATGAAAAATATTAAAAAATTATA
1 AAAATGAAAAATATTAAAAAATTATA
*
9552200 AAAATGAAAAATATTAAAATATTATA
1 AAAATGAAAAATATTAAAAAATTATA
9552226 A
1 A
9552227 TTGATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (26 bp):
AAAATGAAAAATATTAAAAAATTATA
Found at i:9552236 original size:26 final size:23
Alignment explanation
Indices: 9552175--9552253 Score: 77
Period size: 26 Copynumber: 3.1 Consensus size: 23
9552165 TAATTTTTTA
9552175 AAATGAAAAATATTAAAAAATTAT
1 AAATGAAAAATATT-AAAAATTAT
9552199 AAAAATGAAAAATATTAAAATATTAT
1 --AAATGAAAAATATTAAAA-ATTAT
* *
9552225 AATTGATTAAAATAATATAAAATTAT
1 AAATGA--AAAATATTA-AAAATTAT
9552251 AAA
1 AAA
9552254 ATCGATTACC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 5 0.11
25 4 0.09
26 34 0.74
27 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
AAATGAAAAATATTAAAAATTAT
Found at i:9557833 original size:44 final size:43
Alignment explanation
Indices: 9557736--9558025 Score: 170
Period size: 44 Copynumber: 6.7 Consensus size: 43
9557726 TTCAATCTAT
* *
9557736 TCCACTGCAACTTCAAGGA-GATAAGATTTGCCATCTTCAGTCTGGC
1 TCCACTGCAACTTC-AGGAGGATAAGACTTGCCAT-TT-AGTC-CGC
9557782 T-CACTGCAACTTCAGGAGGATAAGACTTGCCTATTTAGTCCGC
1 TCCACTGCAACTTCAGGAGGATAAGACTTGCC-ATTTAGTCCGC
* * * *
9557825 TCCACTGCAACTGCAGG-GAGATAAGACTAG--ATGT-GATCTG-
1 TCCACTGCAACTTCAGGAG-GATAAGACTTGCCATTTAG-TCCGC
*** * ** *
9557865 TTTTCTGCAACTTCA-GAGAGATAAGATCTAAG-GTTTTAATCCGC
1 TCCACTGCAACTTCAGGAG-GATAAGA-CT-TGCCATTTAGTCCGC
* * * * * *
9557909 TCCACTGCAACTTCAGGAAGATAGGATTATCGGC-TTTAATCTGC
1 TCCACTGCAACTTCAGGAGGATAAGACT-T-GCCATTTAGTCCGC
* *
9557953 TCCACTGCAACTTCAGGAAGATAAGACTTACCATCTTCAGTCCGC
1 TCCACTGCAACTTCAGGAGGATAAGACTTGCCAT-TT-AGTCCGC
*
9557998 CCCACTGCAACTTCAGG-GAGATAAGACT
1 TCCACTGCAACTTCAGGAG-GATAAGACT
9558026 AGATGCGATT
Statistics
Matches: 195, Mismatches: 31, Indels: 37
0.74 0.12 0.14
Matches are distributed among these distances:
39 1 0.01
40 21 0.11
41 8 0.04
42 3 0.02
43 13 0.07
44 88 0.45
45 58 0.30
46 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (43 bp):
TCCACTGCAACTTCAGGAGGATAAGACTTGCCATTTAGTCCGC
Found at i:9557908 original size:84 final size:84
Alignment explanation
Indices: 9557815--9558110 Score: 299
Period size: 84 Copynumber: 3.5 Consensus size: 84
9557805 GACTTGCCTA
* * *
9557815 TTTAGTCCGCTCCACTGCAACTGCAGGGAGATAAGACTAGATGTGATCTGTTTTCTGCAACTTCA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGTTCTCTGCAACTTCA
9557880 GAGAGATAAGATCTAAGGT
66 GAGAGATAAGATCTAAGGT
* * * * * * * *
9557899 TTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAAC
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTA---GATGTGATCTG-TTCTCTGCAAC
***
9557964 TTCAG-GAAGATAAGA-CTTACCAT
62 TTCAGAG-AGATAAGATC-TAAGGT
* * * * * *
9557987 CTTCAGTCCGCCCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTCTGCAACTTC
1 -TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGTTCTCTGCAACTTC
* *
9558052 AGAGAGATAAAATCTGAGGT
65 AGAGAGATAAGATCTAAGGT
* *
9558072 TTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGACTA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTA
9558111 TCGGCTTTAA
Statistics
Matches: 165, Mismatches: 38, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
84 68 0.41
85 22 0.13
86 8 0.05
87 10 0.06
88 24 0.15
89 33 0.20
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (84 bp):
TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGTTCTCTGCAACTTCA
GAGAGATAAGATCTAAGGT
Found at i:9557997 original size:173 final size:173
Alignment explanation
Indices: 9557783--9558176 Score: 589
Period size: 173 Copynumber: 2.3 Consensus size: 173
9557773 CAGTCTGGCT
*
9557783 CACTGCAACTTCAGGAGGATAAGACTTGCCTAT-TT-AGTCCGCTCCACTGCAACTGCAGGGAGA
1 CACTGCAACTTCAGGAAGATAAGACTTGCC-ATCTTCAGTCCGCTCCACTGCAACTGCAGGGAGA
* * * *
9557846 TAAGACTAGATGTGATCTGTTTTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTC
65 TAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAAATCTAAGGTTTTAATCCGCTC
* *
9557911 CACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAATCTGCTC
130 CACTGCAACTTCAGGAAGATAGGACTATCGGCTTTAATCTACTC
* * *
9557955 CACTGCAACTTCAGGAAGATAAGACTTACCATCTTCAGTCCGCCCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGAAGATAAGACTTGCCATCTTCAGTCCGCTCCACTGCAACTGCAGGGAGAT
* *
9558020 AAGACTAGATGCGATTTGCTCTCTGCAACTTCAGAGAGATAAAATCTGAGGTTTTAATCCGCTCC
66 AAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAAATCTAAGGTTTTAATCCGCTCC
* *
9558085 ACTGTAACTTCAGGGAGATAGGACTATCGGCTTTAATCTACTC
131 ACTGCAACTTCAGGAAGATAGGACTATCGGCTTTAATCTACTC
* *
9558128 CACTACAACTTCAAGG-AGATAAGACTTGCCATCTTC-GATCTGCTCCACT
1 CACTGCAACTTC-AGGAAGATAAGACTTGCCATCTTCAG-TCCGCTCCACT
9558177 ACTGCTTAGG
Statistics
Matches: 200, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
171 2 0.01
172 31 0.16
173 164 0.82
174 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (173 bp):
CACTGCAACTTCAGGAAGATAAGACTTGCCATCTTCAGTCCGCTCCACTGCAACTGCAGGGAGAT
AAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAAATCTAAGGTTTTAATCCGCTCC
ACTGCAACTTCAGGAAGATAGGACTATCGGCTTTAATCTACTC
Found at i:9558120 original size:44 final size:43
Alignment explanation
Indices: 9557783--9558153 Score: 229
Period size: 44 Copynumber: 8.6 Consensus size: 43
9557773 CAGTCTGGCT
* * *
9557783 CACTGCAACTTCA-GGAGGATAAGACT-TGCCTATTTAGTCCGCTC
1 CACTGCAACTTCAGGGA-GATAAGACTACGGC--TTTAATCCGCTC
* * * * * *
9557827 CACTGCAACTGCAGGGAGATAAGACTA--GATGTGATCTG-TT
1 CACTGCAACTTCAGGGAGATAAGACTACGGCTTTAATCCGCTC
** * * *
9557867 TTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGA-CTACGGCTTTAATCCGCTC
* * * *
9557911 CACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTA-CGGCTTTAATCCGCTC
* ** * * *
9557955 CACTGCAACTTCAGGAAGATAAGACTTACCATCTTCAGTCCGCCC
1 CACTGCAACTTCAGGGAGATAAGAC-TA-CGGCTTTAATCCGCTC
* *** **
9558000 CACTGCAACTTCAGGGAGATAAGACTA--GATGCGATTTGCT-
1 CACTGCAACTTCAGGGAGATAAGACTACGGCTTTAATCCGCTC
* * * *
9558040 CTCTGCAACTTCAGAGAGATAAAATCTGA-GGTTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGA-CT-ACGGCTTTAATCCGCTC
* * **
9558084 CACTGTAACTTCAGGGAGATAGGACTATCGGCTTTAATCTACTC
1 CACTGCAACTTCAGGGAGATAAGACTA-CGGCTTTAATCCGCTC
* *
9558128 CACTACAACTTCAAGGAGATAAGACT
1 CACTGCAACTTCAGGGAGATAAGACT
9558154 TGCCATCTTC
Statistics
Matches: 248, Mismatches: 65, Indels: 28
0.73 0.19 0.08
Matches are distributed among these distances:
40 42 0.17
41 15 0.06
42 2 0.01
43 18 0.07
44 132 0.53
45 39 0.16
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (43 bp):
CACTGCAACTTCAGGGAGATAAGACTACGGCTTTAATCCGCTC
Found at i:9558190 original size:44 final size:44
Alignment explanation
Indices: 9558119--9558308 Score: 109
Period size: 44 Copynumber: 4.3 Consensus size: 44
9558109 TATCGGCTTT
* ** *
9558119 AATCTACTCCACTACAACTTCAAGGAGATAAGACTTGCCATCTTC
1 AATCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGCCATCTTC
* ** *
9558164 GATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCTGTAATTTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGACT-TGCCATCTTC
* * * * * **** *
9558208 AACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGCCATCTTC
* * *
9558252 AATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTGCCGTCTTC
1 AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGACTTGCCATCTTC
*
9558296 GATCTGCTCCACT
1 AATCTGCTCCACT
9558309 GTCGATGCAG
Statistics
Matches: 108, Mismatches: 32, Indels: 13
0.71 0.21 0.08
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 75 0.69
45 19 0.18
46 5 0.05
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGCCATCTTC
Found at i:9572748 original size:10 final size:10
Alignment explanation
Indices: 9572723--9572772 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
9572713 TTTAATTTTT
9572723 TAAAAAATTA
1 TAAAAAATTA
* *
9572733 TTAAAAACTA
1 TAAAAAATTA
9572743 TAAAAAATTA
1 TAAAAAATTA
* *
9572753 TTAAAAATTG
1 TAAAAAATTA
*
9572763 TAAATAATTA
1 TAAAAAATTA
9572773 ACAGATCGAG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:9572927 original size:10 final size:10
Alignment explanation
Indices: 9572902--9572951 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
9572892 TTTAATTTTT
9572902 TAAAAAATTA
1 TAAAAAATTA
* *
9572912 TTAAAAACTA
1 TAAAAAATTA
9572922 TAAAAAATTA
1 TAAAAAATTA
* *
9572932 TTAAAAATTG
1 TAAAAAATTA
*
9572942 TAAATAATTA
1 TAAAAAATTA
9572952 ACAAGATCGA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:9572998 original size:179 final size:179
Alignment explanation
Indices: 9572698--9573056 Score: 693
Period size: 179 Copynumber: 2.0 Consensus size: 179
9572688 TTGTTACAAA
9572698 AATAATAAAATATTATTTAATTTTTTAAAAAATTATTAAAAACTATAAAAAATTATTAAAAATTG
1 AATAATAAAATATTATTTAATTTTTTAAAAAATTATTAAAAACTATAAAAAATTATTAAAAATTG
9572763 TAAATAATTAACAGATCGAGTTCTTCTTCTTCAATTTTCTCTACAAATTCCAAAAGAATACAAGG
66 TAAATAATTAACAGATCGAGTTCTTCTTCTTCAATTTTCTCTACAAATTCCAAAAGAATACAAGG
9572828 AGATTTCTATGTTGTCTTCTACTTTCTTGTCTTGATTTGATTGGGCATT
131 AGATTTCTATGTTGTCTTCTACTTTCTTGTCTTGATTTGATTGGGCATT
9572877 AATAATAAAATATTATTTAATTTTTTAAAAAATTATTAAAAACTATAAAAAATTATTAAAAATTG
1 AATAATAAAATATTATTTAATTTTTTAAAAAATTATTAAAAACTATAAAAAATTATTAAAAATTG
9572942 TAAATAATTAACAAGATCGAGTT-TTCTTCTTCAATTTTCTCTACAAATTCCAAAAGAATACAAG
66 TAAATAATTAAC-AGATCGAGTTCTTCTTCTTCAATTTTCTCTACAAATTCCAAAAGAATACAAG
*
9573006 GAGATTTCTATGTTGTCTTCTACTTTCTTGTCTTGATTTGTTTGGGCATT
130 GAGATTTCTATGTTGTCTTCTACTTTCTTGTCTTGATTTGATTGGGCATT
9573056 A
1 A
9573057 TTGTTTTCTA
Statistics
Matches: 178, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
179 168 0.94
180 10 0.06
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.42
Consensus pattern (179 bp):
AATAATAAAATATTATTTAATTTTTTAAAAAATTATTAAAAACTATAAAAAATTATTAAAAATTG
TAAATAATTAACAGATCGAGTTCTTCTTCTTCAATTTTCTCTACAAATTCCAAAAGAATACAAGG
AGATTTCTATGTTGTCTTCTACTTTCTTGTCTTGATTTGATTGGGCATT
Found at i:9573190 original size:20 final size:19
Alignment explanation
Indices: 9573165--9573284 Score: 100
Period size: 20 Copynumber: 6.0 Consensus size: 19
9573155 ACTAGTTCAT
9573165 AATTTTTAAATAATTTTTAC
1 AATTTTT-AATAATTTTTAC
*
9573185 AATTTTTAATAATTATTTGC
1 AATTTTTAATAATT-TTTAC
* * *
9573205 AGTTTTTAAATAATGGTTTAT
1 AATTTTT-AATAAT-TTTTAC
9573226 AATTTTTAATAAATTTTTAC
1 AATTTTTAAT-AATTTTTAC
9573246 AA-TTTTAA-AATATTTTAAAC
1 AATTTTTAATAAT-TTTT--AC
* *
9573266 AATATTTAATATTTTTTAC
1 AATTTTTAATAATTTTTAC
9573285 TTTTCACCAT
Statistics
Matches: 81, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.04
18 4 0.05
19 15 0.19
20 30 0.37
21 27 0.33
22 2 0.02
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.53
Consensus pattern (19 bp):
AATTTTTAATAATTTTTAC
Found at i:9573212 original size:40 final size:39
Alignment explanation
Indices: 9573165--9573284 Score: 125
Period size: 41 Copynumber: 3.0 Consensus size: 39
9573155 ACTAGTTCAT
*
9573165 AATTTTTAAATAATTTTTACAATTTTTAATAATTATTTGC
1 AATTTTTAAATAATTTTTACAATTTTTAATAATT-TTTAC
* * *
9573205 AGTTTTTAAATAATGGTTTATAATTTTTAATAAATTTTTAC
1 AATTTTTAAATAAT-TTTTACAATTTTTAAT-AATTTTTAC
* * * *
9573246 AATTTTAAAAT-ATTTTAAACAATATTTAATATTTTTTAC
1 AATTTTTAAATAATTTT-TACAATTTTTAATAATTTTTAC
9573285 TTTTCACCAT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
39 10 0.15
40 25 0.38
41 27 0.41
42 4 0.06
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.53
Consensus pattern (39 bp):
AATTTTTAAATAATTTTTACAATTTTTAATAATTTTTAC
Found at i:9574504 original size:272 final size:273
Alignment explanation
Indices: 9574007--9574548 Score: 811
Period size: 272 Copynumber: 2.0 Consensus size: 273
9573997 AATATAGGCA
* *
9574007 TGAAAATGGGTTTGGACAAAAAAATAGGACACGTTTAAAAAACGGGCCAAGCCTTAGGTAAGATA
1 TGAAAATGGGTTTGGACAAAAAAATAAGACACGTTTAAAAAACGGGCCAAGCCTTAGGTAAGACA
* * *
9574072 TTTTTTACCCAAGCCCAGCCCGAATTCACAAAAGGACTAAAAATTGCTATTTTTGTTGTTTTAAT
66 TTTTTTACCCAAGCCCAGCCCGAATTCACAAAAGGACAAAAAACTGCTATTTTTGTTATTTTAAT
* **
9574137 ACTATTTTATTGTTGTTTTCTCCCTATTTTACTATTATATCACTATTATATTATTACTATTTTGT
131 ACTA--TTATTCTTGTTTTCTCCCTATTTTACTACCATATCACTATTATATTATTACTATTTTGT
* *
9574202 TGTTATTATTTGAATATTGTATAACACTTGTTTTATTGTTAGTTTTGTTATTATTTTAGAGGCAT
194 TGTTATTATTTGAATATTGTATAACACTTGTTTTATTGTTAATTTTATTATTATTTTAGAGGCAT
*
9574267 TTGCTTGTTATTATT
259 TTACTTGTTATTATT
* * *
9574282 TGAAAATGGGTTTTGG-C-AAAAAATAAGACCCTTTTAAAAAATGGGCCAAGCCTTAGGTAAGAC
1 TGAAAATGGG-TTTGGACAAAAAAATAAGACACGTTTAAAAAACGGGCCAAGCCTTAGGTAAGAC
** ** * *
9574345 ATTTTTTACCCGGGCCTGGCCCGAATTCATAAAAGGACAAAAAACTGGTATTTTTTGTTATTTTA
65 ATTTTTTACCCAAGCCCAGCCCGAATTCACAAAAGGACAAAAAACTGCTA-TTTTTGTTATTTTA
* * * *
9574410 ATACTA-TCTTCTTGTTTTCTCCCTATTTTGCTACCATTTCACTATTATGTTATTACTATTTTGT
129 ATACTATTATTCTTGTTTTCTCCCTATTTTACTACCATATCACTATTATATTATTACTATTTTGT
9574474 TGTTATTATTTGAATATTGTATAACACTTGTTTTATTGTTAATTTTATTATTATTTTAGAGGCAT
194 TGTTATTATTTGAATATTGTATAACACTTGTTTTATTGTTAATTTTATTATTATTTTAGAGGCAT
9574539 TTACTTGTTA
259 TTACTTGTTA
9574549 AGTTGCATCT
Statistics
Matches: 241, Mismatches: 24, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
272 123 0.51
274 83 0.34
275 30 0.12
276 5 0.02
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (273 bp):
TGAAAATGGGTTTGGACAAAAAAATAAGACACGTTTAAAAAACGGGCCAAGCCTTAGGTAAGACA
TTTTTTACCCAAGCCCAGCCCGAATTCACAAAAGGACAAAAAACTGCTATTTTTGTTATTTTAAT
ACTATTATTCTTGTTTTCTCCCTATTTTACTACCATATCACTATTATATTATTACTATTTTGTTG
TTATTATTTGAATATTGTATAACACTTGTTTTATTGTTAATTTTATTATTATTTTAGAGGCATTT
ACTTGTTATTATT
Found at i:9574678 original size:11 final size:11
Alignment explanation
Indices: 9574664--9574694 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9574654 TATATATATT
9574664 TAAAAATTATA
1 TAAAAATTATA
*
9574675 TAAAAATAATA
1 TAAAAATTATA
9574686 TAAAAATTA
1 TAAAAATTA
9574695 ATACAAGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:9575921 original size:94 final size:94
Alignment explanation
Indices: 9575815--9576133 Score: 620
Period size: 94 Copynumber: 3.4 Consensus size: 94
9575805 ATATTAGAAA
9575815 TTTATTTATATAAATAAAGAAATTATTAATTAAAAATATTTTTAAATAATCGTATGTAATATATA
1 TTTATTTATATAAATAAAGAAATTATTAATTAAAAATATTTTTAAATAATCGTATGTAATATATA
9575880 TTTTTATTATATAATTACATTTTTATTAT
66 TTTTTATTATATAATTACATTTTTATTAT
9575909 TTTATTTATATAAATAAAGAAATTATTAATTAAAAATATTTTTAAATAATCGTATGTAATATATA
1 TTTATTTATATAAATAAAGAAATTATTAATTAAAAATATTTTTAAATAATCGTATGTAATATATA
9575974 TTTTTATTATATAATTACATTTTTATTAT
66 TTTTTATTATATAATTACATTTTTATTAT
9576003 TTTATTTATATAAATAAAGAAATTATTAATTAAAAATATTTTTAAATAATCGTATGTAATATATA
1 TTTATTTATATAAATAAAGAAATTATTAATTAAAAATATTTTTAAATAATCGTATGTAATATATA
9576068 TTTTTATTATATAATTACATTTTTATTAT
66 TTTTTATTATATAATTACATTTTTATTAT
* *
9576097 TTTATTTATATAAATAAAGTAATTAATAATTAAAAAT
1 TTTATTTATATAAATAAAGAAATTATTAATTAAAAAT
9576134 GAAAACAATA
Statistics
Matches: 223, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 223 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (94 bp):
TTTATTTATATAAATAAAGAAATTATTAATTAAAAATATTTTTAAATAATCGTATGTAATATATA
TTTTTATTATATAATTACATTTTTATTAT
Found at i:9576377 original size:36 final size:36
Alignment explanation
Indices: 9576314--9576385 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
9576304 AACGCGTTTT
* *
9576314 GTAGAAAGTGTTTTCTAACATTGCAGCTGAAAACGC
1 GTAGAAAGTGTTTTCCAACATTGCAGCTAAAAACGC
*
9576350 GTAGAAAGTGTTTTCCAATA-TGTCAGCTAAAAACGC
1 GTAGAAAGTGTTTTCCAACATTG-CAGCTAAAAACGC
9576386 TTCCTGCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (36 bp):
GTAGAAAGTGTTTTCCAACATTGCAGCTAAAAACGC
Found at i:9576474 original size:23 final size:23
Alignment explanation
Indices: 9576405--9576477 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
9576395 AAAGCGTTTT
* *
9576405 CTATTTCTCTCTTCAACATCGAC
1 CTATTTCTCTCTTCAAAATTGAC
* *
9576428 CTA-TT-TCTC-T-AAATCTGTGGC
1 CTATTTCTCTCTTCAAA-AT-TGAC
9576449 CTATTTCTCTCTTCAAAATTGAC
1 CTATTTCTCTCTTCAAAATTGAC
9576472 CTATTT
1 CTATTT
9576478 TCTTCAAGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 9 0.24
22 4 0.11
23 16 0.42
24 2 0.05
25 3 0.08
ACGTcount: A:0.22, C:0.27, G:0.07, T:0.44
Consensus pattern (23 bp):
CTATTTCTCTCTTCAAAATTGAC
Found at i:9577321 original size:44 final size:44
Alignment explanation
Indices: 9577271--9577358 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
9577261 AATTTTAAAA
* *
9577271 AATAGAAGTTGTGATAATTATACATCTAAAAATAATTATAATTT
1 AATAGAAGTTGTGATAATTACACATCTAAAAATAATTAGAATTT
* *
9577315 AATAGAAGTTGTGATAATTGCACATTTAAAAATAATTAGAATTT
1 AATAGAAGTTGTGATAATTACACATCTAAAAATAATTAGAATTT
9577359 CCTTTCAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.38
Consensus pattern (44 bp):
AATAGAAGTTGTGATAATTACACATCTAAAAATAATTAGAATTT
Found at i:9584495 original size:38 final size:38
Alignment explanation
Indices: 9584444--9584518 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
9584434 GATAACTCCA
* * *
9584444 CAATCCCATATTTTCCTCCTAAAGTCACTCCAACACTT
1 CAATCCCACATTTTCCTCCCAAAATCACTCCAACACTT
*
9584482 CAATCCCACATTTTCCTCCCAAAATCACTCTAACACT
1 CAATCCCACATTTTCCTCCCAAAATCACTCCAACACT
9584519 CCCCCACCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.31, C:0.39, G:0.01, T:0.29
Consensus pattern (38 bp):
CAATCCCACATTTTCCTCCCAAAATCACTCCAACACTT
Found at i:9590837 original size:82 final size:82
Alignment explanation
Indices: 9590739--9591043 Score: 432
Period size: 82 Copynumber: 3.7 Consensus size: 82
9590729 CCGGCTTTTG
* * * * * *
9590739 GCCTGCTAGACTTAAAGTCCGAAATATTTCACCGGCATCAAGCCTACTAGACGTAAAG-TCTGAA
1 GCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCAAGCCTGCTAGACATAAAGTTC-GAA
*
9590803 ACATTTCACTGGCATCAA
65 ATATTTCACTGGCATCAA
*
9590821 GCCTGCTAGACGTAAAGTCTGAAACATTTCTCCAGCATCAAGCCTGCTAGACATAAAGTTCGAAA
1 GCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCAAGCCTGCTAGACATAAAGTTCGAAA
* *
9590886 TATTTCACCGACATCAA
66 TATTTCACTGGCATCAA
*
9590903 GCCTGCTAAACGTAAAGTCTGAAACATTTCACCAGCATCAAGCCTGCTAGACATAAAGTTCGAAA
1 GCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCAAGCCTGCTAGACATAAAGTTCGAAA
*
9590968 TATTTCATTGGCATCAA
66 TATTTCACTGGCATCAA
* * * ** *
9590985 GCTTGCTAGATGTAAAGTCTAAAACATTTCACTTGCATCAAGCCTGCTAGACGTAAAGT
1 GCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCAAGCCTGCTAGACATAAAGT
9591044 CTGAGTCATC
Statistics
Matches: 200, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
82 198 0.99
83 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (82 bp):
GCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCAAGCCTGCTAGACATAAAGTTCGAAA
TATTTCACTGGCATCAA
Found at i:9591045 original size:41 final size:41
Alignment explanation
Indices: 9590739--9591047 Score: 381
Period size: 41 Copynumber: 7.5 Consensus size: 41
9590729 CCGGCTTTTG
* * * *
9590739 GCCTGCTAGACTTAAAGTCCGAAATATTTCACCGGCATCAA
1 GCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCAA
* **
9590780 GCCTACTAGACGTAAAGTCTGAAACATTTCACTGGCATCAA
1 GCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCAA
*
9590821 GCCTGCTAGACGTAAAGTCTGAAACATTTCTCCAGCATCAA
1 GCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCAA
* *
9590862 GCCTGCTAGACATAAAGT-TCGAAATATTTCACC-GACATCAA
1 GCCTGCTAGACGTAAAGTCT-GAAACATTTCACCAG-CATCAA
*
9590903 GCCTGCTAAACGTAAAGTCTGAAACATTTCACCAGCATCAA
1 GCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCAA
* * ***
9590944 GCCTGCTAGACATAAAGT-TCGAAATATTTCATTGGCATCAA
1 GCCTGCTAGACGTAAAGTCT-GAAACATTTCACCAGCATCAA
* * * **
9590985 GCTTGCTAGATGTAAAGTCTAAAACATTTCACTTGCATCAA
1 GCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCAA
9591026 GCCTGCTAGACGTAAAGTCTGA
1 GCCTGCTAGACGTAAAGTCTGA
9591048 GTCATCTTAC
Statistics
Matches: 231, Mismatches: 31, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
40 3 0.01
41 225 0.97
42 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (41 bp):
GCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCAA
Found at i:9593739 original size:57 final size:58
Alignment explanation
Indices: 9593664--9593783 Score: 190
Period size: 57 Copynumber: 2.1 Consensus size: 58
9593654 TTCAGGTCAT
9593664 TTTCATTTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTTC-ATTTCTCCA
1 TTTCATTTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTTCTATTTCTCCA
** *
9593721 TGTTCA-TTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATGTTTTCTATTTCTCCA
1 T-TTCATTTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTTCTATTTCTCCA
9593779 TTTCA
1 TTTCA
9593784 CCATTTTTGT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
57 44 0.76
58 14 0.24
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (58 bp):
TTTCATTTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTTCTATTTCTCCA
Found at i:9600162 original size:29 final size:29
Alignment explanation
Indices: 9600076--9600210 Score: 135
Period size: 29 Copynumber: 4.6 Consensus size: 29
9600066 ACCCTTTTAA
* * * **
9600076 AAATTTTATAGTTTTTCCACTGGTTTTTTT
1 AAATTTTACAATTTTGCCACT-GTTTTTCC
* *
9600106 AGATTTTACAATTTTGCCACTGGTTTTCC
1 AAATTTTACAATTTTGCCACTGTTTTTCC
* *
9600135 AAATTTTATAGTTTTGCCACTGTTTTTCC
1 AAATTTTACAATTTTGCCACTGTTTTTCC
** * * *
9600164 GGATTTTACAATTCTGCCACTATTTTTCA
1 AAATTTTACAATTTTGCCACTGTTTTTCC
9600193 AAATTTTACAATTTTGCC
1 AAATTTTACAATTTTGCC
9600211 CAAAATTTTC
Statistics
Matches: 84, Mismatches: 21, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
29 67 0.80
30 17 0.20
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (29 bp):
AAATTTTACAATTTTGCCACTGTTTTTCC
Found at i:9600182 original size:58 final size:59
Alignment explanation
Indices: 9600070--9600210 Score: 176
Period size: 58 Copynumber: 2.4 Consensus size: 59
9600060 TGCACCACCC
* * ** * *
9600070 TTTTAAAAATTTTATAGTTTTTCCACTGGTTTTTTTAGATTTTACAATTTTGCCACTGG
1 TTTTCAAAATTTTATAGTTTTGCCACTGGTTTTTCCAGATTTTACAATTCTGCCACTAG
* * *
9600129 TTTTCCAAATTTTATAGTTTTGCCACT-GTTTTTCCGGATTTTACAATTCTGCCACTAT
1 TTTTCAAAATTTTATAGTTTTGCCACTGGTTTTTCCAGATTTTACAATTCTGCCACTAG
* *
9600187 TTTTCAAAATTTTACAATTTTGCC
1 TTTTCAAAATTTTATAGTTTTGCC
9600211 CAAAATTTTC
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
58 46 0.66
59 24 0.34
ACGTcount: A:0.23, C:0.16, G:0.10, T:0.50
Consensus pattern (59 bp):
TTTTCAAAATTTTATAGTTTTGCCACTGGTTTTTCCAGATTTTACAATTCTGCCACTAG
Done.