Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 26 of 210
Found at i:9379654 original size:9 final size:9
Alignment explanation
Indices: 9379640--9379664 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9379630 TCTCCTAATC
9379640 CTCTCAATT
1 CTCTCAATT
9379649 CTCTCAATT
1 CTCTCAATT
9379658 CTCTCAA
1 CTCTCAA
9379665 CTTATTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (9 bp):
CTCTCAATT
Found at i:9388688 original size:14 final size:14
Alignment explanation
Indices: 9388643--9388689 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
9388633 GAAATAAAAT
*
9388643 ATTAA-AAATTAAT
1 ATTAAGAAATTAAG
* *
9388656 ATTAAAAAATTTAG
1 ATTAAGAAATTAAG
*
9388670 GTTAAGAAATTAAG
1 ATTAAGAAATTAAG
9388684 ATTAAG
1 ATTAAG
9388690 TGCTCAAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 5 0.19
14 22 0.81
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (14 bp):
ATTAAGAAATTAAG
Found at i:9389947 original size:18 final size:18
Alignment explanation
Indices: 9389924--9389959 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
9389914 AGGGTCCATT
9389924 ATATGAA-AGTGATAAGTG
1 ATATGAATA-TGATAAGTG
9389942 ATATGAATATGATAAGTG
1 ATATGAATATGATAAGTG
9389960 TAAGGGTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (18 bp):
ATATGAATATGATAAGTG
Found at i:9393751 original size:26 final size:26
Alignment explanation
Indices: 9393687--9393782 Score: 83
Period size: 26 Copynumber: 3.8 Consensus size: 26
9393677 AAGCACCGAT
* **
9393687 AGCCATATAATGGGAAGTTCA-AGCG
1 AGCCATATAATGGGAAGCTCACAAAG
* *
9393712 AG-CA-CTAATAGGAAGCTCACAAAG
1 AGCCATATAATGGGAAGCTCACAAAG
* *
9393736 AGCC-TTTAATTGGGAAGCTCATAAAG
1 AGCCATATAA-TGGGAAGCTCACAAAG
*
9393762 AGCCATATAATGGGACGCTCA
1 AGCCATATAATGGGAAGCTCA
9393783 TAAGAGCTGC
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
23 12 0.21
24 6 0.11
25 6 0.11
26 28 0.50
27 4 0.07
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.20
Consensus pattern (26 bp):
AGCCATATAATGGGAAGCTCACAAAG
Found at i:9393783 original size:26 final size:25
Alignment explanation
Indices: 9393717--9393789 Score: 85
Period size: 26 Copynumber: 2.9 Consensus size: 25
9393707 AAGCGAGCAC
* * *
9393717 TAATAGGAAGCTCACAAAGAGCCTT
1 TAATGGGAAGCTCATAAAGAGCCTA
9393742 TAATTGGGAAGCTCATAAAGAGCCATA
1 TAA-TGGGAAGCTCATAAAGAGCC-TA
*
9393769 TAATGGGACGCTCAT-AAGAGC
1 TAATGGGAAGCTCATAAAGAGC
9393790 TGCGGTGTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.21
26 29 0.69
27 4 0.10
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (25 bp):
TAATGGGAAGCTCATAAAGAGCCTA
Found at i:9403493 original size:49 final size:49
Alignment explanation
Indices: 9403363--9403481 Score: 148
Period size: 49 Copynumber: 2.4 Consensus size: 49
9403353 AAACTTAAAT
* ** ** *
9403363 CCGTGACCGCATAACCATTGTCAACTAAGCTCCCGAGTTATACTCCAAC
1 CCGTGACCGTATAACCACCGTCAACTAAGAGCCCTAGTTATACTCCAAC
*
9403412 CCGTGACCGTATAACCACCGTCAACTAAGAGCCCTAGTTATACTTCAAC
1 CCGTGACCGTATAACCACCGTCAACTAAGAGCCCTAGTTATACTCCAAC
* * *
9403461 CTGTGACCTTATAAGCACCGT
1 CCGTGACCGTATAACCACCGT
9403482 GTATTGGGAG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.24
Consensus pattern (49 bp):
CCGTGACCGTATAACCACCGTCAACTAAGAGCCCTAGTTATACTCCAAC
Found at i:9404369 original size:13 final size:13
Alignment explanation
Indices: 9404351--9404461 Score: 60
Period size: 13 Copynumber: 7.6 Consensus size: 13
9404341 GTATGTGTAT
9404351 TTGAAATAATTAA
1 TTGAAATAATTAA
*
9404364 TTGAAATATTTCACA
1 TTGAAATAATT-A-A
* *
9404379 TATAAACATAATGATAT
1 T-TGAA-ATAAT--TAA
9404396 TTGAAATAATTAA
1 TTGAAATAATTAA
*
9404409 TTGAAATATTTCACA
1 TTGAAATAATT-A-A
* *
9404424 TATAAACATAATGATAT
1 T-TGAA-ATAAT--TAA
9404441 TTGAAATAATTAA
1 TTGAAATAATTAA
9404454 TTGAAATA
1 TTGAAATA
9404462 TTTCACATAT
Statistics
Matches: 74, Mismatches: 12, Indels: 24
0.67 0.11 0.22
Matches are distributed among these distances:
13 32 0.43
14 2 0.03
15 14 0.19
16 12 0.16
17 10 0.14
18 2 0.03
19 2 0.03
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (13 bp):
TTGAAATAATTAA
Found at i:9404396 original size:23 final size:23
Alignment explanation
Indices: 9404369--9404442 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
9404359 ATTAATTGAA
9404369 ATATTTCACATATAAACATAATG
1 ATATTTCACATATAAACATAATG
* *
9404392 ATATTTGA-A-AT-AA-TTAATTG
1 ATATTTCACATATAAACATAA-TG
9404412 AAATATTTCACATATAAACATAATG
1 --ATATTTCACATATAAACATAATG
9404437 ATATTT
1 ATATTT
9404443 GAAATAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
19 3 0.08
20 4 0.10
21 2 0.05
22 8 0.20
23 14 0.35
24 2 0.05
25 4 0.10
26 3 0.08
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (23 bp):
ATATTTCACATATAAACATAATG
Found at i:9404399 original size:45 final size:45
Alignment explanation
Indices: 9404348--9404474 Score: 254
Period size: 45 Copynumber: 2.8 Consensus size: 45
9404338 TTTGTATGTG
9404348 TATTTGAAATAATTAATTGAAATATTTCACATATAAACATAATGA
1 TATTTGAAATAATTAATTGAAATATTTCACATATAAACATAATGA
9404393 TATTTGAAATAATTAATTGAAATATTTCACATATAAACATAATGA
1 TATTTGAAATAATTAATTGAAATATTTCACATATAAACATAATGA
9404438 TATTTGAAATAATTAATTGAAATATTTCACATATAAA
1 TATTTGAAATAATTAATTGAAATATTTCACATATAAA
9404475 TATATTTGAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 82 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (45 bp):
TATTTGAAATAATTAATTGAAATATTTCACATATAAACATAATGA
Found at i:9411585 original size:48 final size:48
Alignment explanation
Indices: 9411512--9411655 Score: 252
Period size: 48 Copynumber: 3.0 Consensus size: 48
9411502 TTAGTATGAA
9411512 ATTGGGTTATTCCTCTGTGACTAATCTTGGGAAGTATTTAAGTGTACT
1 ATTGGGTTATTCCTCTGTGACTAATCTTGGGAAGTATTTAAGTGTACT
* *
9411560 ATTGGGTTATTCCTCTGTGAGTAATCTTAGGAAGTATTTAAGTGTACT
1 ATTGGGTTATTCCTCTGTGACTAATCTTGGGAAGTATTTAAGTGTACT
* *
9411608 ACTGGGTTATTCCTTTGTGACTAATCTTGGGAAGTATTTAAGTGTACT
1 ATTGGGTTATTCCTCTGTGACTAATCTTGGGAAGTATTTAAGTGTACT
9411656 GCTATTCTAT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.42
Consensus pattern (48 bp):
ATTGGGTTATTCCTCTGTGACTAATCTTGGGAAGTATTTAAGTGTACT
Found at i:9417430 original size:55 final size:55
Alignment explanation
Indices: 9417346--9417510 Score: 267
Period size: 55 Copynumber: 3.0 Consensus size: 55
9417336 ACGTGTTATG
*
9417346 TAACAATCGATTTAAACATATAAATAATCGATTCAAAAGAAGCAGCATTCCAACA
1 TAACAATCGATTTAAACATATAAATAATCGATTCAAAAGAAGCAGTATTCCAACA
* *
9417401 TAACAATCGAATTAAACATATAAATAATCGATTCAAAAGAATCAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAATAATCGATTCAAAAGAAGCAGTATTCCAACA
* * * *
9417456 TGACAATCGATTTAAACATATAAAAAATCAATTCAAAATAAGCAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAATAATCGATTCAAAAGAAGCAGTATTCCAACA
9417511 ACTAAGAAGA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 101 1.00
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATAAATAATCGATTCAAAAGAAGCAGTATTCCAACA
Found at i:9418411 original size:37 final size:37
Alignment explanation
Indices: 9418361--9418436 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
9418351 TCACTAGATG
9418361 TAAGATAAAAACAAAATCAAAAGATGTAATCTTTTTA
1 TAAGATAAAAACAAAATCAAAAGATGTAATCTTTTTA
9418398 TAAGATAAAAACAAAATCAAAAGATGTAATCTTTTTA
1 TAAGATAAAAACAAAATCAAAAGATGTAATCTTTTTA
9418435 TA
1 TA
9418437 TGTTGCAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (37 bp):
TAAGATAAAAACAAAATCAAAAGATGTAATCTTTTTA
Found at i:9420084 original size:17 final size:18
Alignment explanation
Indices: 9420062--9420131 Score: 60
Period size: 17 Copynumber: 4.0 Consensus size: 18
9420052 GATTGTAACA
9420062 TCCA-TTTCATTTCTATT
1 TCCATTTTCATTTCTATT
*
9420079 TCCATTTTCATATC-A-T
1 TCCATTTTCATTTCTATT
9420095 TCTCATTTTCA-TTCTGATT
1 TC-CATTTTCATTTCT-ATT
*
9420114 T-CAATTTCATTTCATATT
1 TCCATTTTCATTTC-TATT
9420132 CAAGTCGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
16 5 0.12
17 20 0.47
18 15 0.35
19 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.01, T:0.56
Consensus pattern (18 bp):
TCCATTTTCATTTCTATT
Found at i:9420133 original size:6 final size:5
Alignment explanation
Indices: 9420064--9420133 Score: 50
Period size: 6 Copynumber: 12.4 Consensus size: 5
9420054 TTGTAACATC
* *
9420064 CATTT CATTT CTATTT CCATTTT CATAT CATTCT CATTTT CATTCT GATTT
1 CATTT CATTT C-ATTT -CA-TTT CATTT CATT-T CA-TTT CATT-T CATTT
9420115 CAATTT CATTT CATATT CA
1 C-ATTT CATTT CAT-TT CA
9420134 AGTCGTAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
5 21 0.40
6 26 0.49
7 6 0.11
ACGTcount: A:0.23, C:0.21, G:0.01, T:0.54
Consensus pattern (5 bp):
CATTT
Found at i:9420133 original size:11 final size:10
Alignment explanation
Indices: 9420064--9420133 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 10
9420054 TTGTAACATC
9420064 CATTTCATTT
1 CATTTCATTT
9420074 CTATTTCCATTTT
1 C-ATTT-CA-TTT
*
9420087 CATATCATTCT
1 CATTTCATT-T
9420098 CATTTTCATTCT
1 CA-TTTCATT-T
*
9420110 GATTTCAATTT
1 CATTTC-ATTT
9420121 CATTTCATATT
1 CATTTCAT-TT
9420132 CA
1 CA
9420134 AGTCGTAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
10 5 0.10
11 23 0.47
12 17 0.35
13 4 0.08
ACGTcount: A:0.23, C:0.21, G:0.01, T:0.54
Consensus pattern (10 bp):
CATTTCATTT
Found at i:9421475 original size:18 final size:18
Alignment explanation
Indices: 9421420--9421475 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
9421410 AGTTGCCTAT
*
9421420 ATATATAATTTTAATAACTAA
1 ATATAT-ATTTAAATAA--AA
*
9421441 AAATATA-TTAAATTAAAA
1 ATATATATTTAAA-TAAAA
9421459 ATATATATTTAAATAAA
1 ATATATATTTAAATAAA
9421476 TGATAATACT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 12 0.40
19 9 0.30
20 4 0.13
21 5 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATATATTTAAATAAAA
Found at i:9423130 original size:2 final size:2
Alignment explanation
Indices: 9423123--9423150 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9423113 GGTATTCTGA
9423123 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9423151 CAGATAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9430391 original size:113 final size:113
Alignment explanation
Indices: 9430250--9430954 Score: 512
Period size: 113 Copynumber: 6.2 Consensus size: 113
9430240 GAATCTCAAG
* * * * **
9430250 ACCAAAACGCATCGTTTTTGTATTGATGTATACAATAATTAGTGGCGATTATGATAAAACGCCGC
1 ACCAAAACGCAGCGTTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
* * ** * *
9430315 TAAAGTA-AGTAATAGCGGCGCATTGTGGGAAGCGCTGCAAAAATCTTA
66 TAAAGTACAGTATTAGCGGCGC-TTCTGTAAAGCGCCGCAAATATCTTA
*
9430363 ACCAAAACGCAGCGTTTTGGTATCGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
1 ACCAAAACGCAGCGTTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
* * *
9430428 TCAA-TAACAGTATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGC--A
66 TAAAGT-ACAGTATTAGCGGCGC-TTCTGTAAAGCGCCGCAA-ATAT-CTTA
* * * * * **
9430477 CACCAAAACGCAGAG-TTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTA-TAGGAAACGCCG
1 -ACCAAAACGCAGCGTTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCG
* * * * *
9430540 CTAAAGTATACTATTAGCGGTGCTTCTGATAAAGCGCCGCTATATTTCTTA
65 CTAAAGTACAGTATTAGCGGCGCTTCTG-TAAAGCGCCGC-AAATATCTTA
* * * *
9430591 ACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGACGTTTACAATAAAACGCCGC
1 ACCAAAACGCAGCGTTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
* * *
9430656 TACA-TAACAGTATTAGCGGTGCTTAAC-GTTAAGCGCCGCAAGATATGC--A
66 TAAAGT-ACAGTATTAGCGGCGCTT--CTGTAAAGCGCCGCAA-ATAT-CTTA
* **
9430705 CACCAAAACGCAGAG-TTTGGTATTGATGTATA-T-TAGATTAGTGGCGCTTATTGA-AAAACGC
1 -ACCAAAACGCAGCGTTTTGGTATTGATGTATACTATA-ATTAGTGGCGCTTA-CAATAAAACGC
* * * *
9430766 CGCTAAAGTATACTATTAGCGGCGCTT-TCCTAGAAGCGCCGCAAGATATATTA
63 CGCTAAAGTACAGTATTAGCGGCGCTTCT-GTA-AAGCGCCGCAA-ATATCTTA
* * *** * * ** * * *
9430819 ACCGAAACGCTGCGTTTAAATCTTGATGTATATTGGAATTAGTGGCG-TTCACGAGAAATCGCCG
1 ACCAAAACGCAGCGTTTTGGTATTGATGTATACTATAATTAGTGGCGCTT-ACAATAAAACGCCG
* * * * *
9430883 CTAAA-TCATATTATTAGCGGCGCTT-TTTGATAAGCGCCGCAAAAGATCTTT
65 CTAAAGT-ACAGTATTAGCGGCGCTTCTGT-A-AAGCGCCGC-AAATATCTTA
*
9430934 ACCTAAACGCA-CAGTTTTGGT
1 ACCAAAACGCAGC-GTTTTGGT
9430955 CTTAACCATG
Statistics
Matches: 473, Mismatches: 84, Indels: 68
0.76 0.13 0.11
Matches are distributed among these distances:
112 9 0.02
113 181 0.38
114 134 0.28
115 142 0.30
116 6 0.01
117 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (113 bp):
ACCAAAACGCAGCGTTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
TAAAGTACAGTATTAGCGGCGCTTCTGTAAAGCGCCGCAAATATCTTA
Found at i:9430944 original size:228 final size:225
Alignment explanation
Indices: 9430250--9430924 Score: 768
Period size: 228 Copynumber: 3.0 Consensus size: 225
9430240 GAATCTCAAG
** * * *
9430250 ACCAAAACGCATCGTTTTTGTATTGATGTATACAATA-ATTAGTGGCGATTA-TGATAAAACGCC
1 ACCAAAACGCAGAG-TTTGGTATTGATGTAT--ATTAGATTAGTGGCGCTTATTGA-AAAACGCC
* * * * * * *
9430313 GCTAAAGTA-AGTAATAGCGGCGCATTGTGGGAAGCGCTGCAAAAATCTTAACCAAAACGCAGCG
62 GCTAAAGTATACTATTAGCGGCGCTTTAT-AGAAGCGCCGCAAATATCTTAACCAAAACGCAGCG
* * *
9430377 TTTTGGTATCGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGCTCAATAACAGTATT
126 TTTTGGTCTTGATGTATACTATAATTAGTGGCG-TTACAATAAAACGCCGCTAAATAACAGTATT
*
9430442 AGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCAC
190 AGCGGCGCTTTAAGTTAAGCGCCGCAAGATATGCAC
* * *
9430478 ACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAG-GAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTATTGATGTATATTAG-ATTAGTGGCGCTTATTGAAAAACGCCGCT
* * * *
9430542 AAAGTATACTATTAGCGGTGCTTCTGATA-AAGCGCCGCTATATTTCTTAACCAAAACTCAGCGT
65 AAAGTATACTATTAGCGGCGCTT-T-ATAGAAGCGCCGC-AAATATCTTAACCAAAACGCAGCGT
* *
9430606 TTTGGTCTTGATGTATACTATAATTAGTGACGTTTACAATAAAACGCCGCTACATAACAGTATTA
127 TTTGGTCTTGATGTATACTATAATTAGTGGCG-TTACAATAAAACGCCGCTAAATAACAGTATTA
*
9430671 GCGGTGC-TTAACGTTAAGCGCCGCAAGATATGCAC
191 GCGGCGCTTTAA-GTTAAGCGCCGCAAGATATGCAC
9430706 ACCAAAACGCAGAGTTTGGTATTGATGTATATTAGATTAGTGGCGCTTATTGAAAAACGCCGCTA
1 ACCAAAACGCAGAGTTTGGTATTGATGTATATTAGATTAGTGGCGCTTATTGAAAAACGCCGCTA
* * * *
9430771 AAGTATACTATTAGCGGCGCTTTCCTAGAAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTT
66 AAGTATACTATTAGCGGCGCTTT-ATAGAAGCGCCGCAA-ATATCTTAACCAAAACGCAGCGTTT
*** * ** * * * * * *
9430836 AAATCTTGATGTATATTGGAATTAGTGGCGTTCACGAGAAATCGCCGCTAAATCATATTATTAGC
129 TGGTCTTGATGTATACTATAATTAGTGGCGTT-ACAATAAAACGCCGCTAAATAACAGTATTAGC
** *
9430901 GGCGCTTTTTGATAAGCGCCGCAA
193 GGCGCTTTAAGTTAAGCGCCGCAA
9430925 AAGATCTTTA
Statistics
Matches: 377, Mismatches: 57, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
225 3 0.01
226 16 0.04
227 72 0.19
228 283 0.75
229 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (225 bp):
ACCAAAACGCAGAGTTTGGTATTGATGTATATTAGATTAGTGGCGCTTATTGAAAAACGCCGCTA
AAGTATACTATTAGCGGCGCTTTATAGAAGCGCCGCAAATATCTTAACCAAAACGCAGCGTTTTG
GTCTTGATGTATACTATAATTAGTGGCGTTACAATAAAACGCCGCTAAATAACAGTATTAGCGGC
GCTTTAAGTTAAGCGCCGCAAGATATGCAC
Found at i:9431319 original size:14 final size:15
Alignment explanation
Indices: 9431279--9431320 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
9431269 ATGGTGTTTT
* *
9431279 GAGTTTAGGGTTTAG
1 GAGTTTGGGGTTTAA
*
9431294 GAGTTTGAGGTTTAA
1 GAGTTTGGGGTTTAA
9431309 GA-TTTGGGGTTT
1 GAGTTTGGGGTTT
9431321 GGGGTTTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.43
Consensus pattern (15 bp):
GAGTTTGGGGTTTAA
Found at i:9434058 original size:17 final size:17
Alignment explanation
Indices: 9434033--9434125 Score: 58
Period size: 17 Copynumber: 5.9 Consensus size: 17
9434023 TTATTTTCTA
9434033 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
9434050 TATAGGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
*
9434064 -ATAATTTTTCTAAATT
1 TATAAGTTTTCTAAATT
* * **
9434080 TATTAG-TATAAAAATT
1 TATAAGTTTTCTAAATT
*
9434096 TAGT-AG-TAT-TAAATT
1 TA-TAAGTTTTCTAAATT
9434111 TATAAGTTTTCTAAA
1 TATAAGTTTTCTAAA
9434126 AAGTTGTTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
13 9 0.16
14 3 0.05
15 9 0.16
16 18 0.31
17 19 0.33
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:9434060 original size:30 final size:30
Alignment explanation
Indices: 9434026--9434082 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
9434016 TAGTGTTTTA
*
9434026 TTTTCTATATAAGTTTTCTAAATTTATAGG
1 TTTTCTAAATAAGTTTTCTAAATTTATAGG
*
9434056 TTTTCTAAATAATTTTTCTAAATTTAT
1 TTTTCTAAATAAGTTTTCTAAATTTAT
9434083 TAGTATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (30 bp):
TTTTCTAAATAAGTTTTCTAAATTTATAGG
Found at i:9434111 original size:15 final size:16
Alignment explanation
Indices: 9434074--9434112 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
9434064 ATAATTTTTC
*
9434074 TAAATTTATTAGTATA
1 TAAATTTAGTAGTATA
*
9434090 AAAATTTAGTAGTAT-
1 TAAATTTAGTAGTATA
9434105 TAAATTTA
1 TAAATTTA
9434113 TAAGTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (16 bp):
TAAATTTAGTAGTATA
Found at i:9434111 original size:61 final size:61
Alignment explanation
Indices: 9434044--9434181 Score: 165
Period size: 61 Copynumber: 2.3 Consensus size: 61
9434034 ATAAGTTTTC
* *
9434044 TAAATTTATAGGTTTTCTAAATAA-TTTTTCTAAATTTATTAGT-ATAAAAATTTAGTAGTAT
1 TAAATTTATAAGTTTTCTAAA-AAGTTGTTCTAAATTTATTAGTAAT-AAAATTTAGTAGTAT
* *
9434105 TAAATTTATAAGTTTTCTAAAAAGTTGTTCTAGATTTATTATTAATAAAATTTA-TAAGTAT
1 TAAATTTATAAGTTTTCTAAAAAGTTGTTCTAAATTTATTAGTAATAAAATTTAGT-AGTAT
* * *
9434166 CAATTTTACAAGTTTT
1 TAAATTTATAAGTTTT
9434182 GCAAATAATT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
60 3 0.04
61 62 0.93
62 2 0.03
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAAAAGTTGTTCTAAATTTATTAGTAATAAAATTTAGTAGTAT
Found at i:9438190 original size:21 final size:21
Alignment explanation
Indices: 9438164--9438256 Score: 87
Period size: 21 Copynumber: 4.3 Consensus size: 21
9438154 CAACAACTTA
* *
9438164 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
** *
9438185 AAGCAGAGGCTACAGCGAGAC
1 AAGCAGAGGCCGCAGCGAGAG
*
9438206 AAGCAGAGGCCGCAGAGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
**
9438227 AAGCAGCGAGAGAAGCAGCGAGAG
1 AAGCA--GAG-GCCGCAGCGAGAG
9438251 AAGCAG
1 AAGCAG
9438257 TGATAGAAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
21 39 0.67
22 1 0.02
23 3 0.05
24 15 0.26
ACGTcount: A:0.38, C:0.19, G:0.42, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:9438249 original size:24 final size:24
Alignment explanation
Indices: 9438217--9438270 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
9438207 AGCAGAGGCC
9438217 GCAGAGAGAGAAGCAGCGAGAGAA
1 GCAGAGAGAGAAGCAGCGAGAGAA
* * *
9438241 GCAGCGAGAGAAGCAGTGATAGAA
1 GCAGAGAGAGAAGCAGCGAGAGAA
*
9438265 GTAGAG
1 GCAGAG
9438271 GTTCAAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.11, G:0.41, T:0.06
Consensus pattern (24 bp):
GCAGAGAGAGAAGCAGCGAGAGAA
Found at i:9438265 original size:12 final size:12
Alignment explanation
Indices: 9438217--9438256 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
9438207 AGCAGAGGCC
*
9438217 GCAGAGAGAGAA
1 GCAGCGAGAGAA
9438229 GCAGCGAGAGAA
1 GCAGCGAGAGAA
9438241 GCAGCGAGAGAA
1 GCAGCGAGAGAA
9438253 GCAG
1 GCAG
9438257 TGATAGAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.42, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:9442697 original size:22 final size:22
Alignment explanation
Indices: 9442658--9442699 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9442648 AATCCCTATA
**
9442658 TTTTTATTTATTGGAATTTAGT
1 TTTTTATTTATTAAAATTTAGT
*
9442680 TTTTTATTTTTTAAAATTTA
1 TTTTTATTTATTAAAATTTA
9442700 AAATTAAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTTTATTTATTAAAATTTAGT
Found at i:9456052 original size:6 final size:6
Alignment explanation
Indices: 9456043--9456081 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
9456033 ATCAAAATAT
* *
9456043 ATTTAG ATTTAG ATTT-A ATTTAA ATTTAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT
9456082 TTTTTGTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (6 bp):
ATTTAA
Found at i:9456069 original size:17 final size:17
Alignment explanation
Indices: 9456043--9456077 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9456033 ATCAAAATAT
* *
9456043 ATTTAGATTTAGATTTA
1 ATTTAAATTTAAATTTA
9456060 ATTTAAATTTAAATTTA
1 ATTTAAATTTAAATTTA
9456077 A
1 A
9456078 ATTTTTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
ATTTAAATTTAAATTTA
Found at i:9457326 original size:34 final size:35
Alignment explanation
Indices: 9457271--9457337 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
9457261 CAAACACTAG
*
9457271 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
9457306 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
9457338 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:9457652 original size:9 final size:9
Alignment explanation
Indices: 9457638--9457677 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
9457628 TTTGGTTAAA
9457638 AATTAACCG
1 AATTAACCG
9457647 AATTAACCG
1 AATTAACCG
* *
9457656 AATTACCCA
1 AATTAACCG
9457665 AATTAACCG
1 AATTAACCG
9457674 AATT
1 AATT
9457678 GAATCACTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.45, C:0.23, G:0.07, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:9457820 original size:18 final size:18
Alignment explanation
Indices: 9457780--9457823 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9457770 AATTTTTATG
**
9457780 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
9457798 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
9457816 CTTGGGTT
1 ATTGGGTT
9457824 TGGATTGGGT
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:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:9461568 original size:53 final size:54
Alignment explanation
Indices: 9461505--9461621 Score: 184
Period size: 53 Copynumber: 2.2 Consensus size: 54
9461495 TACTGCAAAA
* * *
9461505 TAATATTAATTGAAAGACGAATGATCTAGATAATGTTCAAACTTTTATTT-ATT
1 TAATATTAATTGAAAGACGAACGACCTAGATAATATTCAAACTTTTATTTAATT
*
9461558 TAATATTAATTGAAAGACGAACGACCTAGATAATATTCTAACTTTTATTTAATT
1 TAATATTAATTGAAAGACGAACGACCTAGATAATATTCAAACTTTTATTTAATT
9461612 TAAT-TTAATT
1 TAATATTAATT
9461622 TATTTTAGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
53 52 0.88
54 7 0.12
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (54 bp):
TAATATTAATTGAAAGACGAACGACCTAGATAATATTCAAACTTTTATTTAATT
Found at i:9462857 original size:16 final size:17
Alignment explanation
Indices: 9462830--9462867 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
9462820 AAAGAATTTC
*
9462830 AATTTCAAATTTGTGTT
1 AATTTCAAATTTGTATT
*
9462847 AATTT-AAATTTTTATT
1 AATTTCAAATTTGTATT
9462863 AATTT
1 AATTT
9462868 TATTTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (17 bp):
AATTTCAAATTTGTATT
Found at i:9469316 original size:20 final size:21
Alignment explanation
Indices: 9469285--9469339 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
9469275 GGAGAGAATT
*
9469285 TTTTAGAATATTTTCTTGTAA
1 TTTTATAATATTTTCTTGTAA
* *
9469306 TTTT-TAATATTTTTTTGTGA
1 TTTTATAATATTTTCTTGTAA
*
9469326 TTTTATACTATTTT
1 TTTTATAATATTTT
9469340 AAATAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (21 bp):
TTTTATAATATTTTCTTGTAA
Found at i:9469418 original size:20 final size:20
Alignment explanation
Indices: 9469376--9469428 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
9469366 TTTACCCTTA
*
9469376 TTATAATTTTTAAAATAATTT
1 TTAT-ATTTTTTAAATAATTT
*
9469397 TTCTATTATTTTAAAT-ATTT
1 TTATATT-TTTTAAATAATTT
9469417 TTATATTTTTTA
1 TTATATTTTTTA
9469429 TAATCTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 5 0.18
20 13 0.46
21 10 0.36
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATATTTTTTAAATAATTT
Found at i:9472701 original size:19 final size:20
Alignment explanation
Indices: 9472652--9472701 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
9472642 TATATAAAAA
*
9472652 ATTAAATATCTTTAATTATTT
1 ATTAAA-ATATTTAATTATTT
* *
9472673 -TTATATTATTTAATT-TTT
1 ATTAAAATATTTAATTATTT
9472691 ATTAAAATATT
1 ATTAAAATATT
9472702 ATTATAAGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
18 3 0.13
19 16 0.70
20 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTAAAATATTTAATTATTT
Found at i:9477926 original size:17 final size:18
Alignment explanation
Indices: 9477891--9477927 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9477881 TGTTTGGACT
*
9477891 TTTATCCAACACTTATAA
1 TTTATCCAACACCTATAA
9477909 TTTATCCAAC-CCTATAA
1 TTTATCCAACACCTATAA
9477926 TT
1 TT
9477928 ATTTTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTATCCAACACCTATAA
Found at i:9477970 original size:5 final size:5
Alignment explanation
Indices: 9477956--9477989 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
9477946 TATTAATTAG
9477956 TTAA- TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
9477990 AATTAAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTAAT
Found at i:9482511 original size:41 final size:41
Alignment explanation
Indices: 9482453--9482556 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 41
9482443 TTACAAAAAA
* * * **
9482453 GGCAGTTTATCTACAAATTTGCTATGCATTCACAACCTAGT
1 GGCAGTTTATCTGCAAATATGCTATCCACCCACAACCTAGT
* * *
9482494 GGCAGTTTATCTGCAAATATGTTGTCCACCCACAGCCTAGT
1 GGCAGTTTATCTGCAAATATGCTATCCACCCACAACCTAGT
* *
9482535 GGTAGTTTATCTGCAAACATGC
1 GGCAGTTTATCTGCAAATATGC
9482557 CCACAGCCCA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (41 bp):
GGCAGTTTATCTGCAAATATGCTATCCACCCACAACCTAGT
Found at i:9482785 original size:22 final size:23
Alignment explanation
Indices: 9482755--9482798 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
9482745 TGTCATATGT
*
9482755 AAACATGTGCATGTGGGGATACA
1 AAACATGTGAATGTGGGGATACA
9482778 AAAC-TGTGAATGTGGGGATAC
1 AAACATGTGAATGTGGGGATAC
9482799 TATTGTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.23
Consensus pattern (23 bp):
AAACATGTGAATGTGGGGATACA
Found at i:9487750 original size:49 final size:50
Alignment explanation
Indices: 9487660--9487755 Score: 131
Period size: 49 Copynumber: 1.9 Consensus size: 50
9487650 CTATTTATAA
* * * * *
9487660 GTTGAAAAAACCTTATTCTAATCAATGCCAAATAGATGAAGTGTAGTAAG
1 GTTGAAAAAACCTTATTATAATCAATGCAAAATAAAAGAAGTATAGTAAG
*
9487710 GTTG-AAAAACCTTATTATAATCAATGTAAAATAAAAGAAGTATAGT
1 GTTGAAAAAACCTTATTATAATCAATGCAAAATAAAAGAAGTATAGT
9487756 TTTATATGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 36 0.90
50 4 0.10
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (50 bp):
GTTGAAAAAACCTTATTATAATCAATGCAAAATAAAAGAAGTATAGTAAG
Found at i:9490010 original size:13 final size:13
Alignment explanation
Indices: 9489994--9490018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9489984 TTCATTTTGG
9489994 TATTTTATTTACT
1 TATTTTATTTACT
9490007 TATTTTATTTAC
1 TATTTTATTTAC
9490019 ATTTATAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATTTACT
Found at i:9505810 original size:50 final size:50
Alignment explanation
Indices: 9505626--9505817 Score: 269
Period size: 50 Copynumber: 3.9 Consensus size: 50
9505616 AATTTGGGTA
* *
9505626 AAGAGGTCTCATGTAAGA-CATGTCTGGGACATGGCATTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
9505675 AAGAGGTCTCATGTAAGACCATGTTTGGGACATAGAGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
9505725 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGCTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** *
9505775 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
9505818 TGTTATTATC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
49 18 0.14
50 110 0.86
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:9507728 original size:3 final size:3
Alignment explanation
Indices: 9507713--9507762 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
9507703 AAGAAAAAAG
* * * *
9507713 AGA AGA GGA AGA AGA AGA AAA AGA AGA AAA AGA A-A AGG AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
9507760 AGA
1 AGA
9507763 GAAAAATTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:9519105 original size:18 final size:18
Alignment explanation
Indices: 9519082--9519144 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
9519072 GGATTTGTTC
9519082 TGATCTGATATGACATTT
1 TGATCTGATATGACATTT
9519100 TGATCTGACATATG-C-TTT
1 TGATCTG--ATATGACATTT
** *
9519118 TGA--AAATATGACATTC
1 TGATCTGATATGACATTT
9519134 TGATCTGATAT
1 TGATCTGATAT
9519145 ATGTTTCTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
14 5 0.15
15 1 0.03
16 5 0.15
18 17 0.50
19 1 0.03
20 5 0.15
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (18 bp):
TGATCTGATATGACATTT
Found at i:9519132 original size:34 final size:34
Alignment explanation
Indices: 9519089--9519178 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
9519079 TTCTGATCTG
9519089 ATATGACATTTTGATCTGACATATGCTTT-TGAAA
1 ATATGACATTTTGATCTGACATATG-TTTCTGAAA
* * **
9519123 ATATGACATTCTGATCTGATATATGTTTCTGGTA
1 ATATGACATTTTGATCTGACATATGTTTCTGAAA
* *
9519157 ATATGACATTTTAATATGACAT
1 ATATGACATTTTGATCTGACAT
9519179 TTGTATATCT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 3 0.06
34 44 0.94
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (34 bp):
ATATGACATTTTGATCTGACATATGTTTCTGAAA
Found at i:9519186 original size:13 final size:13
Alignment explanation
Indices: 9519155--9519180 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9519145 ATGTTTCTGG
9519155 TAATATGACATTT
1 TAATATGACATTT
9519168 TAATATGACATTT
1 TAATATGACATTT
9519181 GTATATCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TAATATGACATTT
Found at i:9521855 original size:23 final size:23
Alignment explanation
Indices: 9521829--9521876 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
9521819 TGTTTAAGAA
9521829 TAAAAAAAACAAAAAACAAATAT
1 TAAAAAAAACAAAAAACAAATAT
* * * *
9521852 TAAAAATAATAAAACATAAATAT
1 TAAAAAAAACAAAAAACAAATAT
9521875 TA
1 TA
9521877 TTAATTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (23 bp):
TAAAAAAAACAAAAAACAAATAT
Found at i:9523242 original size:5 final size:5
Alignment explanation
Indices: 9523234--9523291 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
9523224 AACTTATAAA
* * *
9523234 ATATC ATATC ATATC AGATTTC ATATC ATATT ATGTC ATATCTC ATATC
1 ATATC ATATC ATATC --ATATC ATATC ATATC ATATC ATA--TC ATATC
9523283 ATATC ATAT
1 ATATC ATAT
9523292 TTTAGTATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 34 0.79
7 9 0.21
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.43
Consensus pattern (5 bp):
ATATC
Found at i:9523262 original size:22 final size:22
Alignment explanation
Indices: 9523234--9523291 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
9523224 AACTTATAAA
*
9523234 ATATCATATCATATCAGATTTC
1 ATATCATATCATATCAGATCTC
* * *
9523256 ATATCATATTATGTCATATCTC
1 ATATCATATCATATCAGATCTC
9523278 ATATCATATCATAT
1 ATATCATATCATAT
9523292 TTTAGTATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.43
Consensus pattern (22 bp):
ATATCATATCATATCAGATCTC
Found at i:9523272 original size:27 final size:27
Alignment explanation
Indices: 9523234--9523312 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
9523224 AACTTATAAA
*
9523234 ATATCATA-TCATATCAGATTTCATATC
1 ATATTATAGTCATATC-GATTTCATATC
* *
9523261 ATATTAT-GTCATATCTCATATCATATC
1 ATATTATAGTCATATC-GATTTCATATC
*
9523288 ATATTTTAGT-ATATCG-TTTCATATC
1 ATATTATAGTCATATCGATTTCATATC
9523313 CTACCCCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
25 8 0.19
27 33 0.77
28 2 0.05
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.46
Consensus pattern (27 bp):
ATATTATAGTCATATCGATTTCATATC
Found at i:9524592 original size:5 final size:5
Alignment explanation
Indices: 9524582--9524620 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
9524572 GGATTTGGTA
9524582 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
9524621 AGATTTAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:9526153 original size:111 final size:111
Alignment explanation
Indices: 9525998--9526214 Score: 371
Period size: 111 Copynumber: 2.0 Consensus size: 111
9525988 CTAAGGAGGG
* *
9525998 CCCATATCTCGAGATTAGGTTTCCTAAGAGTGTTCATAGGTTGATTGACAAGAGTATGGAGAATG
1 CCCATATCTCGAGATTAGGTTTCCTAAGAGAGTTCACAGGTTGATTGACAAGAGTATGGAGAATG
9526063 TAGTAGTATTTAGACTGTTAGGGAGAAGTATTGGTTATAAACCTGT
66 TAGTAGTATTTAGACTGTTAGGGAGAAGTATTGGTTATAAACCTGT
* * * *
9526109 CCCATATCTCGAGATTAGGTTTCTTGATAGAGTTCACAGTTTGATTGACAAGAGTATGGAGAATG
1 CCCATATCTCGAGATTAGGTTTCCTAAGAGAGTTCACAGGTTGATTGACAAGAGTATGGAGAATG
*
9526174 TAGTGGTATTTAGACTGTTAGGGAGAAGTATTGGTTATAAA
66 TAGTAGTATTTAGACTGTTAGGGAGAAGTATTGGTTATAAA
9526215 GCTTTCGGGA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 99 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (111 bp):
CCCATATCTCGAGATTAGGTTTCCTAAGAGAGTTCACAGGTTGATTGACAAGAGTATGGAGAATG
TAGTAGTATTTAGACTGTTAGGGAGAAGTATTGGTTATAAACCTGT
Found at i:9528055 original size:101 final size:101
Alignment explanation
Indices: 9527879--9528138 Score: 344
Period size: 101 Copynumber: 2.6 Consensus size: 101
9527869 CAATTATTCA
* *
9527879 AACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGAGCTATGGCATT
1 AACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATT
* * *
9527944 CTGATGATAAGATCATAAGTGGGTTATGACACTATG
66 CTGATGATAAGACCATAACTGGGTTATGACACAATG
* * *
9527980 GACGTAGGACTATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATT
1 AACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATT
* *
9528045 TTGATGATAAGACCATAACTGGGTTATGGCACAATG
66 CTGATGATAAGACCATAACTGGGTTATGACACAATG
* ** * * * * *
9528081 AATGTAAGACCATGGCAGGGCCATGGCAATG--CATATGTAAGACCATAGTTGGACTATG
1 AACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATG
9528139 GCACAAAAGA
Statistics
Matches: 138, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
99 24 0.17
101 114 0.83
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (101 bp):
AACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATT
CTGATGATAAGACCATAACTGGGTTATGACACAATG
Found at i:9528089 original size:33 final size:32
Alignment explanation
Indices: 9528016--9528093 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
9528006 CAGTGTTTAT
* ***
9528016 ATGTAAGACCATAGCTGGGCTATGACATTTTG
1 ATGTAAGACCATAACTGGGCTATGACACAATG
* *
9528048 ATGATAAGACCATAACTGGGTTATGGCACAATG
1 ATG-TAAGACCATAACTGGGCTATGACACAATG
9528081 AATGTAAGACCAT
1 -ATGTAAGACCAT
9528094 GGCAGGGCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 3 0.08
33 32 0.84
34 3 0.08
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGCTATGACACAATG
Found at i:9529318 original size:18 final size:18
Alignment explanation
Indices: 9529295--9529336 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
9529285 ATGGAAACAT
9529295 AATCTTCA-AGGATAATGC
1 AATCTTCATAGGAT-ATGC
* *
9529313 AATCTTGATATGATATGC
1 AATCTTCATAGGATATGC
9529331 AATCTT
1 AATCTT
9529337 AAAAGATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (18 bp):
AATCTTCATAGGATATGC
Found at i:9529383 original size:23 final size:22
Alignment explanation
Indices: 9529319--9529384 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
9529309 ATGCAATCTT
* *
9529319 GATATGATATGCAATCTTAAAA
1 GATATGATCTGCAATCTTAGAA
9529341 GATATGATCTGCAATCTTAGAA
1 GATATGATCTGCAATCTTAGAA
* *
9529363 GATATGATTTTGTAATCTTAGA
1 GATATGA-TCTGCAATCTTAGA
9529385 GATTTAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 27 0.69
23 12 0.31
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (22 bp):
GATATGATCTGCAATCTTAGAA
Found at i:9535261 original size:50 final size:49
Alignment explanation
Indices: 9535207--9535446 Score: 185
Period size: 50 Copynumber: 4.8 Consensus size: 49
9535197 TTGGCATTAG
* *
9535207 AGTGGAATAGATTAAAGCCACAACAGTGAATCTTATTTCCCTGGCGGTGT
1 AGTGGAATAGATTGAAGCCACAACAGTGAATCTTATTTCCCT-GCAGTGT
* * * * * * *
9535257 AGTGGAACAGATTGAAGCTACGACGGTGAATCTTATTTCTCCTACATTGC
1 AGTGGAATAGATTGAAGCCACAACAGTGAATCTTATTTC-CCTGCAGTGT
** * *
9535307 AGTTAAATAGATTGAAGCCACAACAGCGAATCTTACTTCCCTAGCAGTGT
1 AGTGGAATAGATTGAAGCCACAACAGTGAATCTTATTTCCCT-GCAGTGT
* * * * * * * *
9535357 AGTTGAATAGATTGAAGCTACGA-TGACGAATCTTAGTTCCCTGACATTGC
1 AGTGGAATAGATTGAAGCCACAACAG-TGAATCTTATTTCCCTG-CAGTGT
** * * * *
9535407 AGTCAAATAGATTGAAGCCAAAACGGCGAATCTTACTTCC
1 AGTGGAATAGATTGAAGCCACAACAGTGAATCTTATTTCC
9535447 TTGACGTTAT
Statistics
Matches: 151, Mismatches: 34, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
49 5 0.03
50 142 0.94
51 4 0.03
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (49 bp):
AGTGGAATAGATTGAAGCCACAACAGTGAATCTTATTTCCCTGCAGTGT
Found at i:9535357 original size:100 final size:100
Alignment explanation
Indices: 9535212--9535446 Score: 328
Period size: 100 Copynumber: 2.4 Consensus size: 100
9535202 ATTAGAGTGG
* * * * *
9535212 AATAGATTAAAGCCACAACAGTGAATCTTATTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACAGCGAATCTTACTTCCCTAGCAGTGTAGTGGAACAGATTGAAGCTA
** * *
9535277 CGACGGTGAATCTTATTTCTCCT-ACATTGCAGTTA
66 CGACGACGAATCTTAGTTC-CCTGACATTGCAGTCA
* *
9535312 AATAGATTGAAGCCACAACAGCGAATCTTACTTCCCTAGCAGTGTAGTTGAATAGATTGAAGCTA
1 AATAGATTGAAGCCACAACAGCGAATCTTACTTCCCTAGCAGTGTAGTGGAACAGATTGAAGCTA
*
9535377 CGATGACGAATCTTAGTTCCCTGACATTGCAGTCA
66 CGACGACGAATCTTAGTTCCCTGACATTGCAGTCA
* *
9535412 AATAGATTGAAGCCAAAACGGCGAATCTTACTTCC
1 AATAGATTGAAGCCACAACAGCGAATCTTACTTCC
9535447 TTGACGTTAT
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
99 3 0.03
100 117 0.98
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (100 bp):
AATAGATTGAAGCCACAACAGCGAATCTTACTTCCCTAGCAGTGTAGTGGAACAGATTGAAGCTA
CGACGACGAATCTTAGTTCCCTGACATTGCAGTCA
Found at i:9535691 original size:168 final size:168
Alignment explanation
Indices: 9535401--9535785 Score: 594
Period size: 168 Copynumber: 2.3 Consensus size: 168
9535391 AGTTCCCTGA
9535401 CATTGCAGTCAAATAGATTGAAGCCAAAACGGCGAATCTTAC-TTCCTTGACGTTATAGCGGAGC
1 CATTGCAGTCAAATAGATTGAAGCCAAAACGGCGAATCTTACTTTCC-TGACGTTATAGCGGAGC
9535465 AGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGAAATAGCTGAAGTGAA
65 AGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGAAATAGCTGAAGTGAA
* **
9535530 GTGGATTGAAGCTGTAGGCAGTGAATCCTATCTCTTTGG
130 GTGGATTAAAGCTGTAGGCAACGAATCCTATCTCTTTGG
* * * * *
9535569 CATTGTAGTTAAATAGATTGAAGCCAAAACGGTGAATCTTACTTTCCTGACTTTATAGCGGAGTA
1 CATTGCAGTCAAATAGATTGAAGCCAAAACGGCGAATCTTACTTTCCTGACGTTATAGCGGAGCA
* * *
9535634 GATTAAAGCTGAGGGCAGCGAATCTTATCTCCTTGGCGTTAAGACTT-AGATTAGCTGAAGTGGA
66 GATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGA-AATAGCTGAAGTGAA
*
9535698 GTGGATTAAAGCTGTGGGCAACGAATCCTATCTCTTTGG
130 GTGGATTAAAGCTGTAGGCAACGAATCCTATCTCTTTGG
* ** *
9535737 CATTACAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTTCCTG
1 CATTGCAGTCAAATAGATTGAAGCCAAAACGGCGAATCTTACTTTCCTG
9535786 GCGGTGTAGT
Statistics
Matches: 197, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
167 1 0.01
168 192 0.97
169 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (168 bp):
CATTGCAGTCAAATAGATTGAAGCCAAAACGGCGAATCTTACTTTCCTGACGTTATAGCGGAGCA
GATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGAAATAGCTGAAGTGAAG
TGGATTAAAGCTGTAGGCAACGAATCCTATCTCTTTGG
Found at i:9535797 original size:50 final size:51
Alignment explanation
Indices: 9535743--9535880 Score: 154
Period size: 50 Copynumber: 2.7 Consensus size: 51
9535733 TTGGCATTAC
* * *
9535743 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTTCC-TGGCGGTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTTCCACGACAGTGT
* * * * *
9535793 AGTGGAACAGATTGAAGCTACGACGGCGAATCTT-GTTTCCACGACATTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTTCCACGACAGTGT
** * *
9535843 AGTTAAATAAATTGAAGCCACAACGGCGAGTCTTACTT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTT
9535881 CTCTAGCGGT
Statistics
Matches: 70, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
49 5 0.07
50 63 0.90
51 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (51 bp):
AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTTCCACGACAGTGT
Found at i:9542035 original size:18 final size:19
Alignment explanation
Indices: 9542012--9542048 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
9542002 TGGGTGAAGA
9542012 TAAAATTAA-AAAAAAAAC
1 TAAAATTAAGAAAAAAAAC
9542030 TAAAATTAAGTAAAAAAAA
1 TAAAATTAAG-AAAAAAAA
9542049 TGGGTGTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (19 bp):
TAAAATTAAGAAAAAAAAC
Found at i:9549748 original size:19 final size:18
Alignment explanation
Indices: 9549716--9549776 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
9549706 AAAAAAAAGC
9549716 ATAAAAACCA-ATAAATATT
1 ATAAAAA-CATAT-AATATT
9549735 ATAAAAACATATAA-ATT
1 ATAAAAACATATAATATT
*
9549752 AT-AAAACTTATCAATAATT
1 ATAAAAACATAT-AAT-ATT
9549771 ATAAAA
1 ATAAAA
9549777 CTTTAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 8 0.22
17 7 0.19
18 4 0.11
19 14 0.39
20 3 0.08
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAAAACATATAATATT
Found at i:9549793 original size:19 final size:19
Alignment explanation
Indices: 9549747--9549793 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
9549737 AAAAACATAT
*
9549747 AAATTATAAAACTTATCAA
1 AAATTATAAAACTTATAAA
*
9549766 TAATTATAAAACTT-TAAA
1 AAATTATAAAACTTATAAA
9549784 AAATTCATAA
1 AAATT-ATAA
9549794 TAAGTTGCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATTATAAAACTTATAAA
Found at i:9551654 original size:10 final size:10
Alignment explanation
Indices: 9551636--9551688 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
9551626 TTTATATTAG
*
9551636 TTATAAATTT
1 TTATGAATTT
9551646 TTATGAATTT
1 TTATGAATTT
9551656 TTAT-AAGTTT
1 TTATGAA-TTT
9551666 TTATG-ATTT
1 TTATGAATTT
* *
9551675 TTACGATTTT
1 TTATGAATTT
9551685 TTAT
1 TTAT
9551689 ATTTTTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 9 0.25
10 27 0.75
ACGTcount: A:0.28, C:0.02, G:0.08, T:0.62
Consensus pattern (10 bp):
TTATGAATTT
Found at i:9551675 original size:9 final size:9
Alignment explanation
Indices: 9551642--9551695 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 9
9551632 TTAGTTATAA
9551642 ATTTTTATG
1 ATTTTTATG
*
9551651 AATTTTTATA
1 -ATTTTTATG
9551661 AGTTTTTATG
1 A-TTTTTATG
*
9551671 ATTTTTACG
1 ATTTTTATG
9551680 ATTTTTTAT-
1 A-TTTTTATG
9551689 ATTTTTA
1 ATTTTTA
9551696 ATTAATTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
8 6 0.16
9 10 0.26
10 22 0.58
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (9 bp):
ATTTTTATG
Found at i:9551750 original size:19 final size:19
Alignment explanation
Indices: 9551615--9551757 Score: 82
Period size: 19 Copynumber: 7.4 Consensus size: 19
9551605 TTCTATAAAA
*
9551615 TTTTAGTAATTTTTAT-AT
1 TTTTAATAATTTTTATGAT
*
9551633 TAGTT-ATAAATTTTTATGAAT
1 T-TTTAAT-AATTTTTATG-AT
9551654 TTTT-ATAAGTTTTTATGAT
1 TTTTAATAA-TTTTTATGAT
** *
9551673 TTTTACGATTTTTTAT-AT
1 TTTTAATAATTTTTATGAT
* *
9551691 TTTTAATTAATTATAAT-AT
1 TTTTAA-TAATTTTTATGAT
*
9551710 ATCTTAA-ATATATTTTATTGAT
1 -TTTTAATA-AT-TTTTA-TGAT
*
9551732 TTTTAATAATTTTCATGAT
1 TTTTAATAATTTTTATGAT
9551751 TTTTAAT
1 TTTTAAT
9551758 GAGAATATTA
Statistics
Matches: 96, Mismatches: 16, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
18 10 0.10
19 47 0.49
20 25 0.26
21 11 0.11
22 3 0.03
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTTAATAATTTTTATGAT
Found at i:9552404 original size:17 final size:17
Alignment explanation
Indices: 9552384--9552431 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
9552374 AAAAAATGTG
9552384 AAAAAATAAAATAATT-T
1 AAAAAATAAAA-AATTAT
*
9552401 AAAAATTAAAGAAATTAT
1 AAAAAATAAA-AAATTAT
9552419 AAAAATATAAAAA
1 AAAAA-ATAAAAA
9552432 GTTCCAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 13 0.50
18 9 0.35
19 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAAAATAAAAAATTAT
Found at i:9552871 original size:21 final size:20
Alignment explanation
Indices: 9552830--9552870 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
9552820 TTTTATCGTA
9552830 ATTTTTAAAATTTTAAAAAAT
1 ATTTTTAAAATTTT-AAAAAT
9552851 ATTTTTAAAAATTGTTAAAA
1 ATTTTT-AAAATT-TTAAAA
9552871 TTGAACGCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 10 0.56
23 2 0.11
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTTTTAAAATTTTAAAAAT
Found at i:9554374 original size:12 final size:13
Alignment explanation
Indices: 9554343--9554392 Score: 59
Period size: 12 Copynumber: 4.0 Consensus size: 13
9554333 CTAAAAAAAG
9554343 ATATATAAA-AAA
1 ATATATAAATAAA
*
9554355 ATAAATAAATAAA
1 ATATATAAATAAA
*
9554368 A-ATATAAGTAAA
1 ATATATAAATAAA
*
9554380 ATATATTAATAAA
1 ATATATAAATAAA
9554393 TTATGAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 18 0.58
13 13 0.42
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
ATATATAAATAAA
Found at i:9554540 original size:3 final size:3
Alignment explanation
Indices: 9554532--9554569 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
9554522 GCATATGAAT
9554532 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9554570 CAATAATGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9555624 original size:17 final size:18
Alignment explanation
Indices: 9555602--9555635 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9555592 CCTTTTTTTT
9555602 AATTTG-GTTTTGGTTTA
1 AATTTGTGTTTTGGTTTA
*
9555619 AATTTGTTTTTTGGTTT
1 AATTTGTGTTTTGGTTT
9555636 TATTATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.65
Consensus pattern (18 bp):
AATTTGTGTTTTGGTTTA
Found at i:9556010 original size:44 final size:44
Alignment explanation
Indices: 9555903--9556324 Score: 306
Period size: 44 Copynumber: 9.8 Consensus size: 44
9555893 ATTTACTATC
* *
9555903 TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGA-C--TGGA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGT
*** * *
9555944 TGCGATCCGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGT
*
9555988 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TGAT--T
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTG-TGGT
** * *
9556030 TATTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGA
1 T-TT-AATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGT
*** * *
9556073 TGCGATCCGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGT
* * * *
9556117 TTTAATCTGCTCCACTGCAATTTTAGGGAGATAGGAT-TGAT--T
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTG-TGGT
** * * * * *
9556159 TCTTCTGTCTGCTCCACTGTAACTTTAGAGAGATAAGA-C--TGGA
1 T-TT-AATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGT
*** * *
9556202 TGCGATCCGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGT
*
9556246 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TGAT--T
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTG-TGGT
* *
9556288 TCTTCAATCTGC-CCACTGCAACTTCAGGGGGATAAGA
1 T-TT-AATCCGCTCCACTGCAACTTCAGGGAGATAAGA
9556325 CTTGTTATCT
Statistics
Matches: 297, Mismatches: 60, Indels: 46
0.74 0.15 0.11
Matches are distributed among these distances:
41 87 0.29
42 9 0.03
43 37 0.12
44 164 0.55
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (44 bp):
TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGT
Found at i:9556081 original size:85 final size:84
Alignment explanation
Indices: 9555907--9556326 Score: 282
Period size: 85 Copynumber: 4.9 Consensus size: 84
9555897 ACTATCTTTA
* * * * * * * *
9555907 ATCCACTCCACTGCAACTTCAGGGAGATAAGACTG--GATGCGATCCGCTCTACTGCAACTTCAG
1 ATCCGCTCCACTGCAACTTCAGAGAGATAAGATTGTTTATTCAATCTGCTCCACTGCAACTTCAG
* * **
9555970 AGAGATAAGATCTGTGGTTTTA
66 GGAGATAAGA-C--TGGATTCG
* * **
9555992 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTATTCTGTCTGCTCCACTGCAACTTCA
1 ATCCGCTCCACTGCAACTTCAGAGAGATAAGATTG-TTTATTCAATCTGCTCCACTGCAACTTCA
*
9556057 GGGAGATAAGACTGGATGCG
65 GGGAGATAAGACTGGATTCG
* *
9556077 ATCCGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATCTGCTCCACTGCAATTT
1 ATCCGCTCCACTGCAACTTCAGAGAGATAAGAT-TGT--TTATTCAATCTGCTCCACTGCAACTT
* * *
9556140 TAGGGAGATAGGA-TTGATTTCTTCTG
63 CAGGGAGATAAGACTGGA----TTC-G
* * * * * * * * *
9556166 -TCTGCTCCACTGTAACTTTAGAGAGATAAGACTG--GATGCGATCCGCTCTACTGCAACTTCAG
1 ATCCGCTCCACTGCAACTTCAGAGAGATAAGATTGTTTATTCAATCTGCTCCACTGCAACTTCAG
* * **
9556228 AGAGATAAGATCTGTGGTTTTA
66 GGAGATAAGA-C--TGGATTCG
* * *
9556250 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCAATCTGC-CCACTGCAACTTCA
1 ATCCGCTCCACTGCAACTTCAGAGAGATAAGATTG-TTTATTCAATCTGCTCCACTGCAACTTCA
*
9556314 GGGGGATAAGACT
65 GGGAGATAAGACT
9556327 TGTTATCTTC
Statistics
Matches: 258, Mismatches: 56, Indels: 43
0.72 0.16 0.12
Matches are distributed among these distances:
84 5 0.02
85 151 0.59
86 5 0.02
87 27 0.10
88 67 0.26
89 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (84 bp):
ATCCGCTCCACTGCAACTTCAGAGAGATAAGATTGTTTATTCAATCTGCTCCACTGCAACTTCAG
GGAGATAAGACTGGATTCG
Found at i:9556145 original size:129 final size:129
Alignment explanation
Indices: 9555912--9556326 Score: 733
Period size: 129 Copynumber: 3.2 Consensus size: 129
9555902 CTTTAATCCA
9555912 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
*
9555977 AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTATTCTGTCTG
66 AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTG
9556041 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
* * *
9556106 AGATCTGTGGTTTTAATCTGCTCCACTGCAATTTTAGGGAGATAGGATTGATTTCTTCTGTCTG
66 AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTG
* * *
9556170 CTCCACTGTAACTTTAGAGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
**
9556235 AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCAATCTG
66 AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTG
*
9556299 C-CCACTGCAACTTCAGGGGGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
9556327 TGTTATCTTC
Statistics
Matches: 270, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
128 23 0.09
129 247 0.91
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (129 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTG
Found at i:9556422 original size:44 final size:44
Alignment explanation
Indices: 9556330--9556923 Score: 554
Period size: 44 Copynumber: 13.4 Consensus size: 44
9556320 TAAGACTTGT
* * **
9556330 TATCTTCGATCTACTTC--GCTACTAATACAGGAAGACATGATCTGC
1 TATCTTCGATCTACTTCATG-T-C-AATACATGAAGACAAGATCCAC
*
9556375 TATCTTTGATCTACTTCATGTCAATACATGAAGACAAGATCCAC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCAC
* *
9556419 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTAT
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCAC
*** * *** * **
9556463 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAAATCTGC
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCCAC
* *
9556508 TATTTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCAC
*** * *** **
9556552 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCCAC
* * * *
9556597 TATCTTCGATCTAATTAATGTTAATACATGAAGATAAGATCCAC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCAC
*
9556641 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCAC
*** * *** **
9556685 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCCAC
*
9556730 TATCTTCGATCTACTTCATGTCAATACATAAAGACAAGATCCAC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCAC
* *
9556774 TATCTAT-AATCTACTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCT-TCGATCTACTTCATGTCAATACATGAAGACAAGATCCAC
** ** * ***
9556818 TATCTTCGATCTACTT--TACCACCAGTATGGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCATGTCAATA-CAT-GAAGACAAGATCCAC
*
9556862 TATCTTCGATCTACTTCATGTCAATACATGAAGACAATATCCAC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCAC
9556906 TATCTTCGATCTACTTCA
1 TATCTTCGATCTACTTCA
9556924 CCACCAGTAT
Statistics
Matches: 435, Mismatches: 99, Indels: 31
0.77 0.18 0.05
Matches are distributed among these distances:
42 4 0.01
43 6 0.01
44 296 0.68
45 123 0.28
46 5 0.01
47 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (44 bp):
TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCAC
Found at i:9556535 original size:89 final size:89
Alignment explanation
Indices: 9556404--9556956 Score: 614
Period size: 89 Copynumber: 6.2 Consensus size: 89
9556394 GTCAATACAT
** * *
9556404 GAAGACAAGATCCACTATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTATTATCT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCT
9556468 TCGATCTACTTCACCACCAGTATGG
65 TCGATCTACTTCACCACCAGTATGG
* * *
9556493 GAAGACAAAATCTGCTATTTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTT
9556558 CGATCTACTTCACCACCAGTATGG
66 CGATCTACTTCACCACCAGTATGG
* * * *
9556582 GAAGACAAGATCTGCTATCTTCGATCTAATTAATGTTAATACATGAAGATAAGATCCACTATC-T
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTT
*** * ***
9556646 CTGATCTACTTCA-TGTCAATACAT
66 C-GATCTACTTCACCACCAGTATGG
*** *** * *** **
9556670 GAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCCACTATCT
*** * ***
9556735 TCGATCTACTTCA-TGTCAATACAT
65 TCGATCTACTTCACCACCAGTATGG
* ** * *
9556759 AAAGACAAGATCCACTATCTAT-AATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCT
1 GAAGACAAGATCTGCTATCT-TCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCT
*
9556823 TCGATCTACTTTACCACCAGTAT-G
65 TCGATCTACTTCACCACCAGTATGG
* *
9556847 GAAGACAAGATCTGTTATCTTCGATCTACTTCATGTCAATACATGAAGACAATATCCACTATCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTT
9556912 CGATCTACTTCACCACCAGTATGG
66 CGATCTACTTCACCACCAGTATGG
*
9556936 GAAGACAATATCTGCTATCTT
1 GAAGACAAGATCTGCTATCTT
9556957 TTCAACCTGC
Statistics
Matches: 391, Mismatches: 65, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
87 1 0.00
88 144 0.37
89 241 0.62
90 5 0.01
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (89 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTT
CGATCTACTTCACCACCAGTATGG
Found at i:9556956 original size:133 final size:133
Alignment explanation
Indices: 9556330--9556923 Score: 761
Period size: 133 Copynumber: 4.5 Consensus size: 133
9556320 TAAGACTTGT
* * ** *
9556330 TATCTTCGATCTACTTC--GCTACTAATACAGGAAGACATGATCTGCTATCTTTGATCTACTTCA
1 TATCTTCGATCTACTTCATG-T-C-AATACATGAAGACAAGATCCACTATCTTCGATCTACTTCA
* *** * ***
9556393 TGTCAATACATGAAGACAAGATCCACTATC-TCTGATCTACTTCA-TGTCAATACATGAAGACAA
63 TGTCAATACATGAAGACAAGATCCATTATCTTC-GATCTACTTCACCACCAGTATGGGAAGACAA
**
9556456 GATCTAT
127 GATCTGC
*** * *** * ** *
9556463 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAAATCTGCTATTTTCGATCTACTTCATG
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCCACTATCTTCGATCTACTTCATG
9556528 TCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGAT
65 TCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGAT
9556593 CTGC
130 CTGC
* * * *
9556597 TATCTTCGATCTAATTAATGTTAATACATGAAGATAAGATCCACTATC-TCTGATCTACTTCATG
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTTC-GATCTACTTCATG
9556661 TCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGAT
65 TCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGAT
9556726 CTGC
130 CTGC
* *
9556730 TATCTTCGATCTACTTCATGTCAATACATAAAGACAAGATCCACTATCTAT-AATCTACTTCATG
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCT-TCGATCTACTTCATG
*
9556794 TCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTTACCACCAGTAT-GGAAGACAAGAT
65 TCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGAT
*
9556858 CTGT
130 CTGC
*
9556862 TATCTTCGATCTACTTCATGTCAATACATGAAGACAATATCCACTATCTTCGATCTACTTCA
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTTCGATCTACTTCA
9556924 CCACCAGTAT
Statistics
Matches: 407, Mismatches: 45, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
131 1 0.00
132 74 0.18
133 295 0.72
134 36 0.09
135 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (133 bp):
TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTTCGATCTACTTCATGT
CAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATC
TGC
Found at i:9557878 original size:7 final size:7
Alignment explanation
Indices: 9557861--9557911 Score: 74
Period size: 6 Copynumber: 7.9 Consensus size: 7
9557851 TAGCCTCTCT
9557861 ATTTTT-
1 ATTTTTC
9557867 ATTTTT-
1 ATTTTTC
9557873 ATTTTT-
1 ATTTTTC
9557879 ATTTTTC
1 ATTTTTC
9557886 ATTTTTC
1 ATTTTTC
9557893 A-TTTTC
1 ATTTTTC
9557899 ATTTTTC
1 ATTTTTC
9557906 ATTTTT
1 ATTTTT
9557912 TTACGACTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
6 24 0.56
7 19 0.44
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (7 bp):
ATTTTTC
Found at i:9557884 original size:13 final size:13
Alignment explanation
Indices: 9557860--9557911 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
9557850 TTAGCCTCTC
9557860 TATTTTT-ATTTT
1 TATTTTTCATTTT
9557872 TATTTTT-ATTTT
1 TATTTTTCATTTT
9557884 TCATTTTTCATTTT
1 T-ATTTTTCATTTT
*
9557898 CATTTTTCATTTT
1 TATTTTTCATTTT
9557911 T
1 T
9557912 TTACGACTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
12 13 0.36
13 18 0.50
14 5 0.14
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTTTCATTTT
Found at i:9562783 original size:12 final size:13
Alignment explanation
Indices: 9562752--9562801 Score: 59
Period size: 12 Copynumber: 4.0 Consensus size: 13
9562742 CTAAAAAAAG
9562752 ATATATAAA-AAA
1 ATATATAAATAAA
*
9562764 ATAAATAAATAAA
1 ATATATAAATAAA
*
9562777 A-ATATAAGTAAA
1 ATATATAAATAAA
*
9562789 ATATATTAATAAA
1 ATATATAAATAAA
9562802 TTATGAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 18 0.58
13 13 0.42
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
ATATATAAATAAA
Found at i:9562950 original size:3 final size:3
Alignment explanation
Indices: 9562942--9562985 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
9562932 GCATATGAAT
*
9562942 ATA ATA ATA ATA ATA ATA ATA GTAA ATA ATA AT- ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
9562986 CAATAATGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 4 0.11
3 30 0.83
4 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9562992 original size:13 final size:13
Alignment explanation
Indices: 9562934--9562985 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
9562924 CGATGCATGC
9562934 ATATGAATATAAT-
1 ATAT-AATATAATA
9562947 A-ATAATAATAATA
1 ATATAAT-ATAATA
9562960 ATAGTAA-ATAATA
1 ATA-TAATATAATA
9562973 ATATAATATAATA
1 ATATAATATAATA
9562986 CAATAATGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.09
12 10 0.29
13 17 0.50
14 1 0.03
15 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:9567590 original size:24 final size:23
Alignment explanation
Indices: 9567532--9567593 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
9567522 GTTAAAGTAG
*
9567532 ATATTT-TTTTAATAAAAAATATT
1 ATATTTATTTTTAT-AAAAATATT
*
9567555 ATATTTAATTTTATAAAAATATT
1 ATATTTATTTTTATAAAAATATT
* *
9567578 TTATTATGTTTTTATA
1 ATATT-TATTTTTATA
9567594 TGTTACTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 19 0.59
24 13 0.41
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTTATTTTTATAAAAATATT
Found at i:9568861 original size:17 final size:17
Alignment explanation
Indices: 9568839--9568873 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9568829 GAAGAGAATG
9568839 AGTGTTTTTGGAATGGC
1 AGTGTTTTTGGAATGGC
9568856 AGTGTTTTTGGAATGGC
1 AGTGTTTTTGGAATGGC
9568873 A
1 A
9568874 TTAACTGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.06, G:0.34, T:0.40
Consensus pattern (17 bp):
AGTGTTTTTGGAATGGC
Found at i:9569504 original size:12 final size:12
Alignment explanation
Indices: 9569487--9569511 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9569477 CAGCAGAAAG
9569487 GAGTGAAGAGAA
1 GAGTGAAGAGAA
9569499 GAGTGAAGAGAA
1 GAGTGAAGAGAA
9569511 G
1 G
9569512 GCATTTCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.44, T:0.08
Consensus pattern (12 bp):
GAGTGAAGAGAA
Found at i:9573268 original size:9 final size:9
Alignment explanation
Indices: 9573254--9573279 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9573244 CCTTTTTTTA
9573254 AAAATATTT
1 AAAATATTT
9573263 AAAATATTT
1 AAAATATTT
9573272 AAAATATT
1 AAAATATT
9573280 AATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:9573506 original size:29 final size:29
Alignment explanation
Indices: 9573471--9573554 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 29
9573461 TCACAAATTT
*
9573471 AGAATTTAGTCCCTATACTTTTATTTTTA
1 AGAATTTAGTCCCTATACTTTTATTTTCA
* *
9573500 AGAATTTAGTTAGTCCTTGTACTTTTATTTTCA
1 AGAA--T--TTAGTCCCTATACTTTTATTTTCA
*
9573533 AGAATTTAGTCCCTCTACTTTT
1 AGAATTTAGTCCCTATACTTTT
9573555 CAAATTTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
29 19 0.41
31 2 0.04
33 25 0.54
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (29 bp):
AGAATTTAGTCCCTATACTTTTATTTTCA
Found at i:9573523 original size:33 final size:33
Alignment explanation
Indices: 9573476--9573542 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
9573466 AATTTAGAAT
*
9573476 TTAGTCCCTATACTTTTATTTTTAAGAATTTAG
1 TTAGTCCCTATACTTTTATTTTCAAGAATTTAG
* *
9573509 TTAGTCCTTGTACTTTTATTTTCAAGAATTTAG
1 TTAGTCCCTATACTTTTATTTTCAAGAATTTAG
9573542 T
1 T
9573543 CCCTCTACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.52
Consensus pattern (33 bp):
TTAGTCCCTATACTTTTATTTTCAAGAATTTAG
Found at i:9575557 original size:28 final size:27
Alignment explanation
Indices: 9575494--9575557 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
9575484 TAACAGTAAT
*
9575494 AGTACAATGTGGGCCTTAGCCCAATAC
1 AGTACAATGTGGGCCTAAGCCCAATAC
*
9575521 A-TAAACAATGTGGGCCTAAGCCCGATAC
1 AGT--ACAATGTGGGCCTAAGCCCAATAC
9575549 AGTATCAAT
1 AGTA-CAAT
9575558 ATGGTGCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
26 1 0.03
27 2 0.06
28 27 0.87
29 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (27 bp):
AGTACAATGTGGGCCTAAGCCCAATAC
Found at i:9575862 original size:64 final size:64
Alignment explanation
Indices: 9575788--9575933 Score: 186
Period size: 64 Copynumber: 2.3 Consensus size: 64
9575778 TATAATAATG
* * * **
9575788 TGATTGGCACAAAGCTATCAGTAGCAGTGATATGA-CTGACACACAGCCATCAGTAATGGTAACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATC-GACACACAACCATCAGTAACAGTAACA
* * *
9575852 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACTATCAGTAACAGTGACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGACACACAACCATCAGTAACAGTAACA
* *
9575916 TGATCAGCACACAGCCAT
1 TGATCGGCACAAAGCCAT
9575934 AGGTAACGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
64 70 0.99
65 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (64 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGACACACAACCATCAGTAACAGTAACA
Found at i:9575958 original size:96 final size:96
Alignment explanation
Indices: 9575788--9575967 Score: 249
Period size: 96 Copynumber: 1.9 Consensus size: 96
9575778 TATAATAATG
* * * * *
9575788 TGATTGGCACAAAGCTATCAGTAGCAGTGATATGACTGACACACAGCCATCAGTAATGGTAACAT
1 TGATCGGCACAAAGCTATCAGTAACAGTGACATGACAGACACACAGCCATCAGTAACGGTAACAT
9575853 GATCGGCACAAAGCCATCAGTAGCAGTGATA
66 GATCGGCACAAAGCCATCAGTAGCAGTGATA
9575884 TGATCGGCACACAA-CTATCAGTAACAGTGACATGATCAG-CACACAGCCAT-AGGTAACGGTAA
1 TGATCGGCACA-AAGCTATCAGTAACAGTGACATGA-CAGACACACAGCCATCA-GTAACGGTAA
* *
9575946 TATGATCTGCACAAAGCCATCA
63 CATGATCGGCACAAAGCCATCA
9575968 ATAACGGTAC
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
95 1 0.01
96 69 0.93
97 4 0.05
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (96 bp):
TGATCGGCACAAAGCTATCAGTAACAGTGACATGACAGACACACAGCCATCAGTAACGGTAACAT
GATCGGCACAAAGCCATCAGTAGCAGTGATA
Found at i:9575982 original size:32 final size:33
Alignment explanation
Indices: 9575788--9575988 Score: 150
Period size: 32 Copynumber: 6.3 Consensus size: 33
9575778 TATAATAATG
* * * *
9575788 TGATTGGCACAAAGCTATCAGTAGCAGTGA-TA
1 TGATCGGCACAAAGCCATCAGTAACGGTGACTA
* * * *
9575820 TGA-CTGACACACAGCCATCAGTAATGGTAAC-A
1 TGATC-GGCACAAAGCCATCAGTAACGGTGACTA
* *
9575852 TGATCGGCACAAAGCCATCAGTAGCAGTGA-TA
1 TGATCGGCACAAAGCCATCAGTAACGGTGACTA
* *
9575884 TGATCGGCACACAA-CTATCAGTAACAGTGAC-A
1 TGATCGGCACA-AAGCCATCAGTAACGGTGACTA
* * *
9575916 TGATCAGCACACAGCCAT-AGGTAACGGT-AATA
1 TGATCGGCACAAAGCCATCA-GTAACGGTGACTA
* *
9575948 TGATCTGCACAAAGCCATCAATAACGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTGACTA
*
9575980 TGATTGGCA
1 TGATCGGCA
9575989 GCCATCAGTA
Statistics
Matches: 132, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
31 3 0.02
32 125 0.95
33 4 0.03
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (33 bp):
TGATCGGCACAAAGCCATCAGTAACGGTGACTA
Found at i:9575982 original size:96 final size:96
Alignment explanation
Indices: 9575788--9575988 Score: 248
Period size: 96 Copynumber: 2.1 Consensus size: 96
9575778 TATAATAATG
* * * *
9575788 TGATTGGCACAAAGCTATCAGTAGCAGTGATATGACTGACACACAGCCATCAGTAATGGTAACAT
1 TGATTGGCACAAAGCTATCAGTAACAGTGACATGACAGACACACAGCCATCAGTAACGGTAACAT
* *
9575853 GATCGGCACAAAGCCATCAGTAGCAGTGATA
66 GATCGGCACAAAGCCATCAATAACAGTGATA
*
9575884 TGATCGGCACACAA-CTATCAGTAACAGTGACATGATCAG-CACACAGCCAT-AGGTAACGGTAA
1 TGATTGGCACA-AAGCTATCAGTAACAGTGACATGA-CAGACACACAGCCATCA-GTAACGGTAA
* * *
9575946 TATGATCTGCACAAAGCCATCAATAACGGT-ACTA
63 CATGATCGGCACAAAGCCATCAATAACAGTGA-TA
9575980 TGATTGGCA
1 TGATTGGCA
9575989 GCCATCAGTA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
95 2 0.02
96 84 0.93
97 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (96 bp):
TGATTGGCACAAAGCTATCAGTAACAGTGACATGACAGACACACAGCCATCAGTAACGGTAACAT
GATCGGCACAAAGCCATCAATAACAGTGATA
Found at i:9575983 original size:64 final size:64
Alignment explanation
Indices: 9575794--9575976 Score: 183
Period size: 64 Copynumber: 2.9 Consensus size: 64
9575784 AATGTGATTG
* * * * * *
9575794 GCACAAAGCTATCAGTAGCAGTGATATGA-CTGACACACAGCCATCAGTAATGGTAACATGATCG
1 GCACAAAGCCATCAGTAACAGTAATATGATCTG-CACAAAGCCATCAGTAACGGTAACATGATCA
* * * * * *
9575858 GCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAA-CTATCAGTAACAGTGACATGATCA
1 GCACAAAGCCATCAGTAACAGTAATATGATCTGCACA-AAGCCATCAGTAACGGTAACATGATCA
* * *
9575922 GCACACAGCCAT-AGGTAACGGTAATATGATCTGCACAAAGCCATCAATAACGGTA
1 GCACAAAGCCATCA-GTAACAGTAATATGATCTGCACAAAGCCATCAGTAACGGTA
9575977 CTATGATTGG
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
63 3 0.03
64 92 0.94
65 3 0.03
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (64 bp):
GCACAAAGCCATCAGTAACAGTAATATGATCTGCACAAAGCCATCAGTAACGGTAACATGATCA
Found at i:9576203 original size:24 final size:23
Alignment explanation
Indices: 9576176--9576228 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
9576166 TCAGAATCAG
9576176 TCATTCAAATCACAGACAAATTAA
1 TCATTCAAA-CACAGACAAATTAA
* * *
9576200 TCATACCAAACATAGACAAATTAG
1 TCAT-TCAAACACAGACAAATTAA
9576224 TCATT
1 TCATT
9576229 TAACCATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (23 bp):
TCATTCAAACACAGACAAATTAA
Found at i:9576325 original size:27 final size:27
Alignment explanation
Indices: 9576295--9576432 Score: 161
Period size: 27 Copynumber: 5.1 Consensus size: 27
9576285 GGGCATTACT
* *
9576295 GTCATTTTACCCTACAG-GGGTATTACG
1 GTCATTTTACCCTA-TGTGGGTATTTCG
**
9576322 GTCATTTTACCCTATGTGGGTATTTTT
1 GTCATTTTACCCTATGTGGGTATTTCG
* * *
9576349 GTCATTTTACCCTATGGGGGCATTTCA
1 GTCATTTTACCCTATGTGGGTATTTCG
9576376 GTCATTTTACCCTATGTGGGTATTTCG
1 GTCATTTTACCCTATGTGGGTATTTCG
* * * *
9576403 GTCATTTTATCCTTTGAGGGTATTTTG
1 GTCATTTTACCCTATGTGGGTATTTCG
9576430 GTC
1 GTC
9576433 CAGATATCGA
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 94 0.99
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGTGGGTATTTCG
Found at i:9579212 original size:37 final size:38
Alignment explanation
Indices: 9579150--9579239 Score: 114
Period size: 37 Copynumber: 2.4 Consensus size: 38
9579140 GACTCCAAAT
* * *
9579150 TCACATTTCAATTC-AAATTCACTTTTTCACTTTCAA-
1 TCACAATTCGATTCAAAATTCACTTTTCCACTTTCAAG
*
9579186 TCACAATTCGATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACAATTCGATTCAAAATTCACTTTTCCACTTTCAAG
9579224 TCA-ATATTCGATTCAA
1 TCACA-ATTCGATTCAA
9579240 TTCCACACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
36 12 0.26
37 21 0.45
38 14 0.30
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.41
Consensus pattern (38 bp):
TCACAATTCGATTCAAAATTCACTTTTCCACTTTCAAG
Found at i:9579956 original size:12 final size:12
Alignment explanation
Indices: 9579941--9579971 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9579931 TTCTCTTTTA
9579941 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
9579953 TTTTTCTTTCGC
1 TTTTTCTTTCCC
9579965 TTTTTCT
1 TTTTTCT
9579972 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:9586465 original size:21 final size:21
Alignment explanation
Indices: 9586439--9586490 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
9586429 CACCGCTATT
*
9586439 TCTAATCTCATTGATATAATA
1 TCTAATCTCATTGATACAATA
* *
9586460 TCTAATCTCATTGTTACAGTA
1 TCTAATCTCATTGATACAATA
*
9586481 ACTAATCTCA
1 TCTAATCTCA
9586491 CCACCACCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.40
Consensus pattern (21 bp):
TCTAATCTCATTGATACAATA
Found at i:9588784 original size:11 final size:12
Alignment explanation
Indices: 9588762--9588800 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
9588752 ATGAAAAATA
9588762 TTATATTTAATT
1 TTATATTTAATT
*
9588774 TTTTA-TTAATT
1 TTATATTTAATT
9588785 ATTATATTTAATT
1 -TTATATTTAATT
9588798 TTA
1 TTA
9588801 GAAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.26
12 11 0.48
13 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATATTTAATT
Found at i:9590382 original size:21 final size:18
Alignment explanation
Indices: 9590341--9590384 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 18
9590331 CAAGAATAGG
*
9590341 TATTTTATTAAGTTTAAA
1 TATTTTATTAACTTTAAA
9590359 TATTTTATTTAACTATTCAAA
1 TATTTTA-TTAACT-TT-AAA
9590380 TATTT
1 TATTT
9590385 AAAATTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 5 0.23
20 2 0.09
21 8 0.36
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTTATTAACTTTAAA
Found at i:9600087 original size:5 final size:5
Alignment explanation
Indices: 9600077--9600121 Score: 72
Period size: 5 Copynumber: 9.0 Consensus size: 5
9600067 TATTAGCATA
* *
9600077 ATATC ATATC ATGTC ATGTC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
9600122 TTTCCTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (5 bp):
ATATC
Found at i:9612798 original size:218 final size:219
Alignment explanation
Indices: 9612412--9612857 Score: 720
Period size: 218 Copynumber: 2.0 Consensus size: 219
9612402 TGACAAGGTC
*
9612412 ATTGGACGAGCATTAAGTAGTTGCTTTCATAATGGTATGTCGTTAAGGAGAACTCAATCACGATA
1 ATTGAACGAGCATTAAGTAGTTGCTTTCATAATGGTATGTCGTTAAGGAGAACTCAATCACGATA
*
9612477 CTATAGTGGACTGACTTCGTGACTAAATGAGTTTATAATTAATAAACGAAAAGCCAAAACTTAAA
66 CTATAGTGGAATGACTTCGTGACTAAATGAGTTTATAATTAATAAACGAAAAGCCAAAACTTAAA
*
9612542 TATAAATCATTTGAGCCTCAACTACATATGTCCAATCGGTCCCTCCGCTAACTCGTTGAAACCAG
131 TATAAATCATTTGAGCCTCAACTACATATGTCCAATCGGTCCATCCGCTAACTCGTTGAAACCAG
9612607 AAATGAATTG-CGTGTTTGAAT-AA
196 AAATGAATTGTC-TGTTTGAATAAA
* * *
9612630 ATTGAACGAGCATTGAGTAGTTGCTTT-AGTAATGGTATGTTGTTGAGGAGAACTCAATCACGAT
1 ATTGAACGAGCATTAAGTAGTTGCTTTCA-TAATGGTATGTCGTTAAGGAGAACTCAATCACGAT
* * *
9612694 ACTATAGTGGAATGACTTCGTGACTAAATGCA-TTTATAATTAATAAGCGAAAAGCCAGAATTTA
65 ACTATAGTGGAATGACTTCGTGACTAAATG-AGTTTATAATTAATAAACGAAAAGCCAAAACTTA
* * *
9612758 ATTATAAATCATTTGAGCCTCAACTACATATGTTCAATCGGTCCATCCGCTAACTCGTTGAAACT
129 AATATAAATCATTTGAGCCTCAACTACATATGTCCAATCGGTCCATCCGCTAACTCGTTGAAACC
9612823 AGAAATGAATTGTCTGTTTGAATAAA
194 AGAAATGAATTGTCTGTTTGAATAAA
*
9612849 AATGAACGA
1 ATTGAACGA
9612858 AATGAATAGG
Statistics
Matches: 211, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
217 1 0.00
218 198 0.94
219 12 0.06
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.30
Consensus pattern (219 bp):
ATTGAACGAGCATTAAGTAGTTGCTTTCATAATGGTATGTCGTTAAGGAGAACTCAATCACGATA
CTATAGTGGAATGACTTCGTGACTAAATGAGTTTATAATTAATAAACGAAAAGCCAAAACTTAAA
TATAAATCATTTGAGCCTCAACTACATATGTCCAATCGGTCCATCCGCTAACTCGTTGAAACCAG
AAATGAATTGTCTGTTTGAATAAA
Found at i:9625801 original size:3 final size:3
Alignment explanation
Indices: 9625788--9625827 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
9625778 AAAAATACAA
*
9625788 TTC TCC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
9625828 ACTACTACTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:9629493 original size:91 final size:92
Alignment explanation
Indices: 9629386--9629572 Score: 367
Period size: 91 Copynumber: 2.0 Consensus size: 92
9629376 TAATTATGAG
9629386 AATAAAAATTTGAAAGATAAAATTGATATAATATGTATATATACATATATAGTATACTTGTGGAG
1 AATAAAAATTTGAAAGATAAAATTGATATAATATGTATATATACATATATAGTATACTTGTGGAG
9629451 TCTAAAATCTCTACTAACTATGTACCA
66 TCTAAAATCTCTACTAACTATGTACCA
9629478 AATAAAAATTT-AAAGATAAAATTGATATAATATGTATATATACATATATAGTATACTTGTGGAG
1 AATAAAAATTTGAAAGATAAAATTGATATAATATGTATATATACATATATAGTATACTTGTGGAG
9629542 TCTAAAATCTCTACTAACTATGTACCA
66 TCTAAAATCTCTACTAACTATGTACCA
9629569 AATA
1 AATA
9629573 TTTTTCCACT
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 84 0.88
92 11 0.12
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (92 bp):
AATAAAAATTTGAAAGATAAAATTGATATAATATGTATATATACATATATAGTATACTTGTGGAG
TCTAAAATCTCTACTAACTATGTACCA
Found at i:9629733 original size:31 final size:32
Alignment explanation
Indices: 9629637--9629736 Score: 80
Period size: 31 Copynumber: 3.1 Consensus size: 32
9629627 TTAGTTAAGC
* *
9629637 TTAGAAATAAAG-GTTTAAATAGT-TTTTAGTT
1 TTAGAAATAAAGTG-TTAAATATTATTTTAATT
* * * *
9629668 TTAAAAATAAAGTATAAAATAATTTTAATCTTAATT
1 TTAGAAATAAAGTGTTAAAT-A--TT-ATTTTAATT
9629704 TTAGAAATAAAGTGTTAAATA-TATTTTAATT
1 TTAGAAATAAAGTGTTAAATATTATTTTAATT
9629735 TT
1 TT
9629737 TAATTTTAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
31 26 0.49
32 2 0.04
34 1 0.02
35 1 0.02
36 23 0.43
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (32 bp):
TTAGAAATAAAGTGTTAAATATTATTTTAATT
Found at i:9629749 original size:38 final size:37
Alignment explanation
Indices: 9629659--9629751 Score: 125
Period size: 36 Copynumber: 2.5 Consensus size: 37
9629649 GTTTAAATAG
* *
9629659 TTTTTAGTTTTAAAAATAAAGTATAAAATAATTTTAA
1 TTTTTAATTTTAGAAATAAAGTATAAAATAATTTTAA
* * *
9629696 -TCTTAATTTTAGAAATAAAGTGTTAAATATATTTTAA
1 TTTTTAATTTTAGAAATAAAGTATAAAATA-ATTTTAA
9629733 TTTTTAATTTTAGAAATAA
1 TTTTTAATTTTAGAAATAA
9629752 TATATATTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
36 24 0.50
37 7 0.15
38 17 0.35
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.47
Consensus pattern (37 bp):
TTTTTAATTTTAGAAATAAAGTATAAAATAATTTTAA
Found at i:9629801 original size:31 final size:33
Alignment explanation
Indices: 9629733--9629801 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
9629723 TATATTTTAA
* *
9629733 TTTTTAATTTTAGAAATAATATATATTTACTAC
1 TTTTTAATTTCAGAAATAATATATATTTAATAC
9629766 TTTTTAATTTCAGAAATAA-A-AT-TTTAAATAC
1 TTTTTAATTTCAGAAATAATATATATTT-AATAC
9629797 TTTTT
1 TTTTT
9629802 TCATTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 3 0.09
31 11 0.33
32 1 0.03
33 18 0.55
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (33 bp):
TTTTTAATTTCAGAAATAATATATATTTAATAC
Found at i:9631287 original size:30 final size:29
Alignment explanation
Indices: 9631219--9631287 Score: 68
Period size: 30 Copynumber: 2.3 Consensus size: 29
9631209 AGTGAAATAT
* *
9631219 TAAAAATTTATTAAATAAGATAAGTTAAT
1 TAAAAATTTATTAAATAAGAAAAGTTAAA
* *
9631248 TACATAATTTTTTAAAGTAA-AAAAGTTGAAA
1 TA-AAAATTTATTAAA-TAAGAAAAGTT-AAA
9631279 TAAAAATTT
1 TAAAAATTT
9631288 GAAATTTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 2 0.06
30 23 0.72
31 7 0.22
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (29 bp):
TAAAAATTTATTAAATAAGAAAAGTTAAA
Found at i:9631664 original size:23 final size:22
Alignment explanation
Indices: 9631616--9631664 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
9631606 ACTAAGTTTT
** *
9631616 AAAATTAACAAATTTTTCACCA
1 AAAATTAACAAATTAATAACCA
*
9631638 AAAATTTAACAAATTAATAACCG
1 AAAA-TTAACAAATTAATAACCA
9631661 AAAA
1 AAAA
9631665 GGTAGAATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAATTAACAAATTAATAACCA
Found at i:9632506 original size:127 final size:127
Alignment explanation
Indices: 9632313--9632559 Score: 449
Period size: 127 Copynumber: 1.9 Consensus size: 127
9632303 GATAAAATCA
* *
9632313 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
9632378 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAAACGCTTC
* *
9632440 AAGCAGGATGCTTTATTAGAAGAATTTCTGAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
*
9632505 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAAAAA
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAA
9632560 TGCTTCCGGT
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 115 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (127 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAAACGCTTC
Found at i:9632631 original size:14 final size:14
Alignment explanation
Indices: 9632603--9632645 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
9632593 TTGTCAATTA
9632603 AATTATAAA--TTT
1 AATTATAAATTTTT
9632615 AATTATAAATTTTT
1 AATTATAAATTTTT
* *
9632629 AATTTTTAATTTTT
1 AATTATAAATTTTT
9632643 AAT
1 AAT
9632646 AAATTAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 9 0.33
14 18 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTATAAATTTTT
Found at i:9632642 original size:8 final size:7
Alignment explanation
Indices: 9632612--9632645 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
9632602 AAATTATAAA
9632612 TTTAATT
1 TTTAATT
* *
9632619 ATAAATT
1 TTTAATT
9632626 TTTAATT
1 TTTAATT
9632633 TTTAATT
1 TTTAATT
9632640 TTTAAT
1 TTTAAT
9632646 AAATTAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (7 bp):
TTTAATT
Found at i:9633139 original size:18 final size:18
Alignment explanation
Indices: 9633113--9633155 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
9633103 GACTCGAAAA
* *
9633113 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGTT
9633131 AGGATACATAAAAGGGTT
1 AGGATACATAAAAGGGTT
9633149 AGGATAC
1 AGGATAC
9633156 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATAAAAGGGTT
Found at i:9633813 original size:7 final size:7
Alignment explanation
Indices: 9633803--9633828 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9633793 TTATATACAT
9633803 AATACTA
1 AATACTA
9633810 AATACTA
1 AATACTA
9633817 AATACTA
1 AATACTA
9633824 AATAC
1 AATAC
9633829 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:9634962 original size:16 final size:15
Alignment explanation
Indices: 9634941--9634971 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
9634931 TTTAAAAAAA
9634941 TTTTTAAAAATTAATT
1 TTTTTAAAAA-TAATT
9634957 TTTTTAAAAATAATT
1 TTTTTAAAAATAATT
9634972 AAAAATAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTTAAAAATAATT
Found at i:9647457 original size:50 final size:50
Alignment explanation
Indices: 9647346--9647592 Score: 230
Period size: 50 Copynumber: 4.8 Consensus size: 50
9647336 ATTTGGGTAA
*
9647346 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
9647402 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * *
9647452 AGAGGTCCCCTGTAAGATCATGTCTGGGACATGGCATGGGCACCGATATA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * *
9647502 AGA-ACTCCCATGCAAGACCATATCTGGGATATGGCATTGGTA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * *
9647551 AAACATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
9647593 TGTTATTATC
Statistics
Matches: 161, Mismatches: 27, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.22
50 81 0.50
53 3 0.02
55 1 0.01
56 40 0.25
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Done.