Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 50 of 185
Found at i:15134547 original size:24 final size:25
Alignment explanation
Indices: 15134513--15134560 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
15134503 AATTAGAATG
*
15134513 TAAAAATTAAACTAAAACAAAAATA
1 TAAAAATTAAAATAAAACAAAAATA
*
15134538 TAAAAA-TAAAATAAAATAAAAAT
1 TAAAAATTAAAATAAAACAAAAAT
15134561 GGATAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (25 bp):
TAAAAATTAAAATAAAACAAAAATA
Found at i:15136873 original size:28 final size:28
Alignment explanation
Indices: 15136815--15136924 Score: 125
Period size: 28 Copynumber: 3.9 Consensus size: 28
15136805 CCACACAGGC
* * *
15136815 TTCCATAGATCACCATAACTG-CTTCCCT
1 TTCCATAGATCGCCATAA-AGCCTTCCAT
*
15136843 TTCCATAGATCGCCACAAAGACCTT-CAT
1 TTCCATAGATCGCCATAAAG-CCTTCCAT
*
15136871 TTCCATAGATCGCCATAAAGGCTTCCAT
1 TTCCATAGATCGCCATAAAGCCTTCCAT
* *
15136899 TTCCATAGATCACCATAAAGGCTTCC
1 TTCCATAGATCGCCATAAAGCCTTCC
15136925 CTATTCCGGG
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
27 4 0.06
28 65 0.90
29 3 0.04
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.28
Consensus pattern (28 bp):
TTCCATAGATCGCCATAAAGCCTTCCAT
Found at i:15153416 original size:27 final size:27
Alignment explanation
Indices: 15153386--15153536 Score: 142
Period size: 27 Copynumber: 5.6 Consensus size: 27
15153376 ATATTGAGTC
* *
15153386 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
15153413 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
15153440 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* ** ** *
15153468 CTCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
15153495 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
15153522 CGCACACTTGGTGCT
1 CGCACACTTAGTGCT
15153537 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
27 81 0.79
28 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:15153479 original size:55 final size:54
Alignment explanation
Indices: 15153386--15153535 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
15153376 ATATTGAGTC
* * * *
15153386 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
* * * ** *
15153440 CGCACACTTAGTGCTACATAGTCAAACTCTCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCCACATAATCAAAT
* ** *
15153495 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTGGTGC
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGC
15153536 TGTACAATTT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 35 0.44
55 44 0.56
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
Found at i:15161173 original size:27 final size:27
Alignment explanation
Indices: 15161143--15161293 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
15161133 ATATTGAGTC
* *
15161143 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
15161170 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
15161197 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
15161225 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
15161252 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
15161279 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15161294 GTACAATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
27 83 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:15161235 original size:55 final size:54
Alignment explanation
Indices: 15161143--15161293 Score: 169
Period size: 55 Copynumber: 2.8 Consensus size: 54
15161133 ATATTGAGTC
* * *
15161143 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAAT
* ** ** *
15161197 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAAT
* **
15161252 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCT
15161294 GTACAATTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 37 0.45
55 45 0.55
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAAT
Found at i:15162850 original size:256 final size:256
Alignment explanation
Indices: 15162395--15162907 Score: 1008
Period size: 256 Copynumber: 2.0 Consensus size: 256
15162385 TTCACCTTAA
15162395 TAGCTAGCTTACCAAGCCTTAATTTAACATATTAATCTTTAACATATCTTTCACTTTTCATCAAC
1 TAGCTAGCTTACCAAGCCTTAATTTAACATATTAATCTTTAACATATCTTTCACTTTTCATCAAC
15162460 AACTATCAAAAAGCTCAAGCACTCATCAATGGCAAAACACAAAATCATCATCAATCCACAAAATT
66 AACTATCAAAAAGCTCAAGCACTCATCAATGGCAAAACACAAAATCATCATCAATCCACAAAATT
15162525 GAACCATGGGTTTTTAGAACTCAAGTCAACTACTAAAACATGCATGCATCTCAAGAACAACATCA
131 GAACCATGGGTTTTTAGAACTCAAGTCAACTACTAAAACATGCATGCATCTCAAGAACAACATCA
*
15162590 AACATACCTTAGTCTAGCAAACCACCATAGCCGATTTTCTCAAGCTCTTCCCCTTCCTTTC
196 AACATACCTTAGTCTAGCAAACCACCATAGCCAATTTTCTCAAGCTCTTCCCCTTCCTTTC
15162651 TAGCTAGCTTACCAAGCCTTAATTTAACATATTAATCTTTAACATATCTTTCACTTTTCATCAAC
1 TAGCTAGCTTACCAAGCCTTAATTTAACATATTAATCTTTAACATATCTTTCACTTTTCATCAAC
*
15162716 AACTATCAAAAAGCTCAAGCACTCATCAATGGCAAAACACAAAATCATCCTCAATCCACAAAATT
66 AACTATCAAAAAGCTCAAGCACTCATCAATGGCAAAACACAAAATCATCATCAATCCACAAAATT
15162781 GAACCATGGGTTTTTAGAACTCAAGTCAACTACTAAAACATGCATGCATCTCAAGAACAACATCA
131 GAACCATGGGTTTTTAGAACTCAAGTCAACTACTAAAACATGCATGCATCTCAAGAACAACATCA
15162846 AACATACCTTAGTCTAGCAAACCACCATAGCCAATTTTCTCAAGCTCTTCCCCTTCCTTTC
196 AACATACCTTAGTCTAGCAAACCACCATAGCCAATTTTCTCAAGCTCTTCCCCTTCCTTTC
15162907 T
1 T
15162908 TTCCTCTATT
Statistics
Matches: 255, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
256 255 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.28
Consensus pattern (256 bp):
TAGCTAGCTTACCAAGCCTTAATTTAACATATTAATCTTTAACATATCTTTCACTTTTCATCAAC
AACTATCAAAAAGCTCAAGCACTCATCAATGGCAAAACACAAAATCATCATCAATCCACAAAATT
GAACCATGGGTTTTTAGAACTCAAGTCAACTACTAAAACATGCATGCATCTCAAGAACAACATCA
AACATACCTTAGTCTAGCAAACCACCATAGCCAATTTTCTCAAGCTCTTCCCCTTCCTTTC
Found at i:15183501 original size:21 final size:17
Alignment explanation
Indices: 15183462--15183495 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15183452 GCATTCTCGA
15183462 CCAGTACAACAAACTCT
1 CCAGTACAACAAACTCT
15183479 CCAGTACAACAAACTCT
1 CCAGTACAACAAACTCT
15183496 TACTCCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.35, G:0.06, T:0.18
Consensus pattern (17 bp):
CCAGTACAACAAACTCT
Found at i:15184559 original size:13 final size:14
Alignment explanation
Indices: 15184525--15184558 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15184515 TTCAAATCAG
**
15184525 TTAAAAACCAATTT
1 TTAAAAACCAAAAT
15184539 TTAAAAACCAAAAT
1 TTAAAAACCAAAAT
15184553 TTAAAA
1 TTAAAA
15184559 CTCATAATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (14 bp):
TTAAAAACCAAAAT
Found at i:15196895 original size:22 final size:21
Alignment explanation
Indices: 15196868--15196908 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
15196858 GTTGAAATGT
*
15196868 CACACGGGCATGTTACCCCTCC
1 CACACGAGCATG-TACCCCTCC
*
15196890 CACACGAGCGTGTACCCCT
1 CACACGAGCATGTACCCCT
15196909 ATGTTAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.20, C:0.44, G:0.20, T:0.17
Consensus pattern (21 bp):
CACACGAGCATGTACCCCTCC
Found at i:15209572 original size:12 final size:12
Alignment explanation
Indices: 15209557--15209590 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
15209547 TTCTTTTACC
15209557 ATATTTATTATT
1 ATATTTATTATT
15209569 ATATTTATTATT
1 ATATTTATTATT
15209581 ACTATTTATT
1 A-TATTTATT
15209591 TATGTATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTTATTATT
Found at i:15211124 original size:24 final size:24
Alignment explanation
Indices: 15211049--15211129 Score: 68
Period size: 24 Copynumber: 3.6 Consensus size: 24
15211039 TGTTCAACCA
*
15211049 TTCACCTTTCATTTTCCTTAACAT-
1 TTCACCTTTCATCTTCCTTAAC-TC
*
15211073 TCCACCTTTCA---T-CTT-AC-C
1 TTCACCTTTCATCTTCCTTAACTC
*
15211091 TTCTATCTTTCATCTTCCTTAACTC
1 TTC-ACCTTTCATCTTCCTTAACTC
15211116 TTCACCTTTCATCT
1 TTCACCTTTCATCT
15211130 CTTGGTAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
18 2 0.04
19 9 0.20
20 3 0.07
21 1 0.02
22 1 0.02
23 3 0.07
24 22 0.49
25 4 0.09
ACGTcount: A:0.17, C:0.35, G:0.00, T:0.48
Consensus pattern (24 bp):
TTCACCTTTCATCTTCCTTAACTC
Found at i:15211705 original size:25 final size:26
Alignment explanation
Indices: 15211653--15211699 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
15211643 CTTTTTGTAC
15211653 TTTAAAAGAAGTTATTTACAGTTTAA
1 TTTAAAAGAAGTTATTTACAGTTTAA
15211679 TTTAAAA-AA-TTATTTA-AGTTT
1 TTTAAAAGAAGTTATTTACAGTTT
15211700 TTAATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 7 0.33
25 2 0.10
26 7 0.33
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.47
Consensus pattern (26 bp):
TTTAAAAGAAGTTATTTACAGTTTAA
Found at i:15212965 original size:20 final size:20
Alignment explanation
Indices: 15212942--15212987 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
15212932 CAAAAAAAAA
*
15212942 TCAAATAATTT-TCAAAATTT
1 TCAAAT-ATTTATAAAAATTT
15212962 TCAAATATTTATAAAAATTT
1 TCAAATATTTATAAAAATTT
*
15212982 TAAAAT
1 TCAAAT
15212988 TGATATCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
TCAAATATTTATAAAAATTT
Found at i:15216618 original size:45 final size:45
Alignment explanation
Indices: 15216449--15216694 Score: 185
Period size: 45 Copynumber: 5.5 Consensus size: 45
15216439 CCTGCATTAG
* * * * *
15216449 GGAAACATCTTGTTTCCTCTGTCCATATCCTGTTGCTA--GCATCAA
1 GGAAACTTCTTGTTTCCTGTATCCATAGCCTGTT--TACGGCACCAA
* ** * * *
15216494 GGAAACTTCTTATTTCCCATATCTATATCCTGTTGCTA--GCATCAA
1 GGAAACTTCTTGTTTCCTGTATCCATAGCCTGTT--TACGGCACCAA
* * * * *
15216539 CGAAACTTCTTGTTTCCTATATCTATATCCTGTTTATGGCACCAA
1 GGAAACTTCTTGTTTCCTGTATCCATAGCCTGTTTACGGCACCAA
* * * * * *
15216584 GGAAACTCCTTGATTCCTGTATCCATAGCATGTTTCCGGCTCCAT
1 GGAAACTTCTTGTTTCCTGTATCCATAGCCTGTTTACGGCACCAA
* * ** *
15216629 GGAGACTTCTTGTTTCCTGTATCCATAGCCTGTTTCCGGCTTCAT
1 GGAAACTTCTTGTTTCCTGTATCCATAGCCTGTTTACGGCACCAA
15216674 GGAAACTTCTTGTTTCCTGTA
1 GGAAACTTCTTGTTTCCTGTA
15216695 CCTGTAGTTT
Statistics
Matches: 172, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
43 2 0.01
45 170 0.99
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (45 bp):
GGAAACTTCTTGTTTCCTGTATCCATAGCCTGTTTACGGCACCAA
Found at i:15219125 original size:6 final size:6
Alignment explanation
Indices: 15219114--15219150 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
15219104 TTTCATGATT
*
15219114 CTCAAA CTCAAA CTCAAA CTCAAA CTTAAA CTCAAA C
1 CTCAAA CTCAAA CTCAAA CTCAAA CTCAAA CTCAAA C
15219151 ATCAGCTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (6 bp):
CTCAAA
Found at i:15219507 original size:9 final size:9
Alignment explanation
Indices: 15219451--15219514 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
15219441 CTCCCATCCT
15219451 ATTCTCTCA
1 ATTCTCTCA
* *
15219460 AATCTCTCT
1 ATTCTCTCA
15219469 ATTCTCTCA
1 ATTCTCTCA
* *
15219478 ACTCTCTTA
1 ATTCTCTCA
* *
15219487 ACTCTCTAA
1 ATTCTCTCA
15219496 ATTCTCTCA
1 ATTCTCTCA
*
15219505 ATTTTCTCA
1 ATTCTCTCA
15219514 A
1 A
15219515 GCTCTTGTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTCTCTCA
Found at i:15225602 original size:20 final size:20
Alignment explanation
Indices: 15225573--15225612 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15225563 CCAATTCAAC
*
15225573 AAATACAAATAAAATAAAAG
1 AAATAAAAATAAAATAAAAG
*
15225593 AAATAAAAATAAATTAAAAG
1 AAATAAAAATAAAATAAAAG
15225613 TTCAATAAAG
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:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAATAAAAG
Found at i:15227597 original size:51 final size:49
Alignment explanation
Indices: 15227464--15227753 Score: 300
Period size: 51 Copynumber: 5.7 Consensus size: 49
15227454 AGTGAAAGTG
* * * * * * *
15227464 ATGGTCACGTGTGTAATACTATATGCAGGCTACTACGTGTACCGGAATG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAGTA
15227513 ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGA-TA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAGTA
* * * *
15227562 AT-TTCGATCATGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 ATGGTC-A-CATGTG--TAGTACTATGTGCAGGCTACTATGCGTACCGGA--GTA
15227616 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGA-TA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAGTA
* * * *
15227664 AT-TTCGATCATGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 ATGGTC-A-CATGTG--TAGTACTATGTGCAGGCTACTATGCGTACCGGA--GTA
15227718 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTAT
15227754 ATGAACCGAA
Statistics
Matches: 204, Mismatches: 20, Indels: 32
0.80 0.08 0.12
Matches are distributed among these distances:
47 4 0.02
48 6 0.03
49 17 0.08
50 39 0.19
51 112 0.55
53 12 0.06
54 10 0.05
55 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAGTA
Found at i:15227647 original size:102 final size:102
Alignment explanation
Indices: 15227473--15227753 Score: 498
Period size: 102 Copynumber: 2.8 Consensus size: 102
15227463 GATGGTCACG
* * *
15227473 TGTGTA-A-TACTATATGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCACATGTGTAGTACT
1 TGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGGTAATGGTCACATGTGTAGTACT
15227534 ATGTGCAGGCTACTATGCGTACCGGATAATTTCGATCA
65 ATGTGCAGGCTACTATGCGTACCGGATAATTTCGATCA
15227572 TGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTACTA
1 TGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTACTA
15227637 TGTGCAGGCTACTATGCGTACCGGATAATTTCGATCA
66 TGTGCAGGCTACTATGCGTACCGGATAATTTCGATCA
15227674 TGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTACTA
1 TGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTACTA
15227739 TGTGCAGGCTACTAT
66 TGTGCAGGCTACTAT
15227754 ATGAACCGAA
Statistics
Matches: 175, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
99 6 0.03
100 5 0.03
101 28 0.16
102 136 0.78
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (102 bp):
TGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTACTA
TGTGCAGGCTACTATGCGTACCGGATAATTTCGATCA
Found at i:15227743 original size:153 final size:151
Alignment explanation
Indices: 15227464--15227752 Score: 356
Period size: 153 Copynumber: 1.9 Consensus size: 151
15227454 AGTGAAAGTG
* *
15227464 ATGGTCACGTGTGTAATACTATATGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTA
1 ATGGTCACATGTGTAATACTATATGCAGGCTACTACGCGTACCGGAATGATAGGTCACATGTGTA
* *
15227529 GTACTATGTGCAGGCTACTATGCGTACCGGATAATTTCGATCATGTGTATAGTACTATGTGCAGG
66 GTACTATGTGCAGGCTACTACGCGTACCGGATAATGTCGATCATGTG-ATAGTACTATGTGCAGG
15227594 CTACTACGTGTATCGGATGGTA
130 CTACTACGTGTATCGGATGGTA
* * * **
15227616 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGG-AT-A-ATTTCGATCATGTG
1 ATGGTCACATGTGTAATACTATATGCAGGCTACTACGCGTACCGGAATGATAGGTC-A-CATGTG
* *
15227678 TATAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTC-A-CATGTG-TAGTACTAT
64 --TAGTACTATGTGCAGGCTACTACGCGTACCGGA---TAAT-GTCGATCATGTGATAGTACTAT
15227740 GTGCAGGCTACTA
123 GTGCAGGCTACTA
15227753 TATGAACCGA
Statistics
Matches: 118, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
149 3 0.03
150 2 0.02
151 8 0.07
152 40 0.34
153 52 0.44
155 6 0.05
156 5 0.04
157 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (151 bp):
ATGGTCACATGTGTAATACTATATGCAGGCTACTACGCGTACCGGAATGATAGGTCACATGTGTA
GTACTATGTGCAGGCTACTACGCGTACCGGATAATGTCGATCATGTGATAGTACTATGTGCAGGC
TACTACGTGTATCGGATGGTA
Found at i:15227814 original size:45 final size:45
Alignment explanation
Indices: 15227758--15227850 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
15227748 TACTATATGA
* *
15227758 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
15227803 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
15227848 ACC
1 ACC
15227851 AAGTATCTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:15227922 original size:23 final size:22
Alignment explanation
Indices: 15227896--15227939 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
15227886 AATTGACTAA
15227896 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
15227919 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
15227940 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:15230310 original size:15 final size:15
Alignment explanation
Indices: 15230265--15230311 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
15230255 TTTTTATATA
15230265 TTATTTTAAAATTTGT
1 TTATTTTAAAATTT-T
*
15230281 TTATCTTT-AATTTTT
1 TTAT-TTTAAAATTTT
15230296 TTATTTTAAAATTTT
1 TTATTTTAAAATTTT
15230311 T
1 T
15230312 CTTATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 3 0.11
15 12 0.44
16 9 0.33
17 3 0.11
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (15 bp):
TTATTTTAAAATTTT
Found at i:15230372 original size:26 final size:27
Alignment explanation
Indices: 15230343--15230404 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
15230333 TTTTATATGA
15230343 TTATTTTAACTTGCTTTGTAAATTA-T
1 TTATTTTAACTTGCTTTGTAAATTATT
* * **
15230369 TTATGTTAAGTTGCTTTGTGTATTATT
1 TTATTTTAACTTGCTTTGTAAATTATT
15230396 TTATTTTAA
1 TTATTTTAA
15230405 ATTATTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.60
Consensus pattern (27 bp):
TTATTTTAACTTGCTTTGTAAATTATT
Found at i:15230601 original size:27 final size:25
Alignment explanation
Indices: 15230554--15230613 Score: 59
Period size: 27 Copynumber: 2.4 Consensus size: 25
15230544 AAACTTGTTA
15230554 TATTTT-AAATTAACTTATATATTACT
1 TATTTTAAAATTAACTTATATA--ACT
** * *
15230580 TATTTTAAAATTATTTTTTATACCT
1 TATTTTAAAATTAACTTATATAACT
15230605 TATTTTAAA
1 TATTTTAAA
15230614 CCCATTTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 11 0.38
26 6 0.21
27 12 0.41
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (25 bp):
TATTTTAAAATTAACTTATATAACT
Found at i:15237532 original size:51 final size:51
Alignment explanation
Indices: 15237471--15238226 Score: 657
Period size: 51 Copynumber: 15.6 Consensus size: 51
15237461 CATTATGGTA
**
15237471 AATCTTTTTTCCCTGGTATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * *
15237522 AATCTTTTTTCCCTGGCATTACAGT-----AGATTAAAGCTGAAGGCAACA
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * * * * *
15237568 AATCTTATTTCCCTAGCGTTGTAGAGGAATAGGTTAAAGCTGAAGGCAGCA
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * ** *
15237619 AATCCTTTTTCCCTGGCATTATAGTGGAAC-------A---GAAGGCAGTG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * *
15237660 AATCTTATTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGGCAGTG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * *
15237711 AATCTTATTTCCCTGGCGTTGTAGT-----AGATTAAAGCTGAAGGGAGCG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* *
15237757 GATCTTTTTTCCCTGGCGTTGGAGTGGAACAGATTAAAGCTGAAGGCAGCG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * *
15237808 AATCTTATTTCCCTAGCATT--AGTGGAACAGATTAAAGCTGAAGGCAGTG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* *
15237857 AATCTTATTTCCCTGGCGTTGCAGTGGGACAGATTAAAGCTGAAGGCAGCG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * *
15237908 AATCTTTTTTTTCCTTGGCGTTGCAGT-----AGATTAAAACTAAAGGCAGCG
1 AATC--TTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
*
15237956 AATCTTTTTTCCCTGGCGTTGCAGTAGAACAGATTAAAGCTGAAGGCAGCG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * *
15238007 AATC-TTTTTCTCTTGGCATTGTAGTGGAACAG----AAG--GTA-G-A--G
1 AATCTTTTTTC-CCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * *
15238048 AAT-TTTTTTCCCTGGCGTTGTAGTGGAACAAATTAAAGCTGAAGGCAACG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* *
15238098 AATC-TTTTTCCCTAGCGTTGCAGT-----AGATTAAAGCTGAAGGTAGCG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* *** ** ** * * *
15238143 AATCTTATTTCCCTAATGTTATAAAGGAACATATTAAAGCTGAATGCAGGG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
15238194 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGA
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGA
15238227 AGGCCACAAA
Statistics
Matches: 571, Mismatches: 86, Indels: 96
0.76 0.11 0.13
Matches are distributed among these distances:
40 18 0.03
41 41 0.07
43 1 0.00
44 5 0.01
45 24 0.04
46 114 0.20
47 4 0.01
48 25 0.04
49 46 0.08
50 28 0.05
51 246 0.43
53 19 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (51 bp):
AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
Found at i:15237636 original size:97 final size:96
Alignment explanation
Indices: 15237471--15238218 Score: 762
Period size: 97 Copynumber: 7.8 Consensus size: 96
15237461 CATTATGGTA
* **
15237471 AATCTTTTTTCCCTGGTATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCT
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC-TTTTTCCCT
* * *
15237536 GGCATTACAGTAGATTAAAGCTGAAGGCAACA
65 GGCATTGCAGTAGATTAAAGCTGAAGGCAGCG
* * * * * *
15237568 AATCTTATTTCCCTAGCGTTGTAGAGGAATAGGTTAAAGCTGAAGGCAGCAAATCCTTTTTCCCT
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAAT-CTTTTTCCCT
** * *
15237633 GGCATT--A-TAG-TGGAA-CAGAAGGCAGTG
65 GGCATTGCAGTAGATTAAAGCTGAAGGCAGCG
* * *
15237660 AATCTTATTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCCT
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTT-TTTCCCT
* * *
15237725 GGCGTTGTAGTAGATTAAAGCTGAAGGGAGCG
65 GGCATTGCAGTAGATTAAAGCTGAAGGCAGCG
* * *
15237757 GATCTTTTTTCCCTGGCGTTGGAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTT-TTTCCCT
* * ** *
15237822 AGCATTAGTGGAACAGATTAAAGCTGAAGGCAGTG
65 GGCA-T--TGCAGTAGATTAAAGCTGAAGGCAGCG
*
15237857 AATCTTATTTCCCTGGCGTTGCAGTGGGACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTTTCC
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC---TTTTTCC
* * * *
15237922 TTGGCGTTGCAGTAGATTAAAACTAAAGGCAGCG
63 CTGGCATTGCAGTAGATTAAAGCTGAAGGCAGCG
* * *
15237956 AATCTTTTTTCCCTGGCGTTGCAGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTCTCTT
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTC-CCT
** * * *
15238021 GGCATT---GTAG-TGGAA-CAGAAGGTAGAG
65 GGCATTGCAGTAGATTAAAGCTGAAGGCAGCG
* * * * *
15238048 AAT-TTTTTTCCCTGGCGTTGTAGTGGAACAAATTAAAGCTGAAGGCAACGAATCTTTTTCCCTA
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTCCCTG
* *
15238112 GCGTTGCAGTAGATTAAAGCTGAAGGTAGCG
66 GCATTGCAGTAGATTAAAGCTGAAGGCAGCG
*** ** ** * * *
15238143 AATCTTATTTCCCTAATGTTATAAAGGAACATATTAAAGCTGAATGCAGGGAATCTTTTTTCCCT
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC-TTTTTCCCT
*
15238208 GGCGTTGCAGT
65 GGCATTGCAGT
15238219 GGAACAGAAG
Statistics
Matches: 543, Mismatches: 87, Indels: 42
0.81 0.13 0.06
Matches are distributed among these distances:
90 6 0.01
91 56 0.10
92 78 0.14
93 10 0.02
94 11 0.02
95 17 0.03
96 49 0.09
97 157 0.29
98 2 0.00
99 73 0.13
100 73 0.13
101 1 0.00
102 8 0.01
103 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (96 bp):
AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTCCCTG
GCATTGCAGTAGATTAAAGCTGAAGGCAGCG
Found at i:15238056 original size:41 final size:40
Alignment explanation
Indices: 15237997--15238077 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
15237987 GATTAAAGCT
* *
15237997 GAAGGCAGCGAATCTTTTTCTCTTGGCATTGTAGTGGAACA
1 GAAGGCAGAGAATCTTTTTC-CCTGGCATTGTAGTGGAACA
* * *
15238038 GAAGGTAGAGAATTTTTTTCCCTGGCGTTGTAGTGGAACA
1 GAAGGCAGAGAATCTTTTTCCCTGGCATTGTAGTGGAACA
15238078 AATTAAAGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 18 0.51
41 17 0.49
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (40 bp):
GAAGGCAGAGAATCTTTTTCCCTGGCATTGTAGTGGAACA
Found at i:15238199 original size:386 final size:387
Alignment explanation
Indices: 15237471--15238226 Score: 1018
Period size: 386 Copynumber: 2.0 Consensus size: 387
15237461 CATTATGGTA
* *
15237471 AATCTTTTTTCCCTGGTATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCT
1 AATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCT
* * * * *
15237536 GGCATTACAGTAGATTAAAGCTGAAGGCAACAAATCTTATTTCCCTAGCGTTGTAGAGGAATAGG
66 GGCATTACAGTAGATTAAAACTAAAGGCAACAAATCTTATTTCCCTAGCGTTGCAGAGGAACAGA
*
15237601 TTAAAGCTGAAGGCAGCAAATCCTTTTTCCCTGGCATTATAGTGGAACAGAAGGCAGTGAATCTT
131 TTAAAGCTGAAGGCAGCAAATCCTTTTTCCCTGGCATTATAGTGGAACAGAAGGCAGAGAATCTT
* * * ** *
15237666 ATTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCCTGGCGTT
196 ATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTGAAGGCAACGAATCTTATTTCCCTAGCGTT
* * * ** * **
15237731 GTAGTAGATTAAAGCTGAAGGGAGCGGATCTTTTTTCCCTGGCGTTGGAGTGGAACAGATTAAAG
261 GCAGTAGATTAAAGCTGAAGGGAGCGAATCTTATTTCCCTAACGTTAGAAAGGAACAGATTAAAG
15237796 CTGAAGGCAGCGAATCTTATTTCCCTAGCATT-AGTGGAACAGATTAAAGCTGAAGGCAGTG
326 CTGAAGGCAGCGAATCTTATTTCCCTAGCATTCAGTGGAACAGATTAAAGCTGAAGGCAGTG
* *
15237857 AATCTTATTTCCCTGGCGTTGCAGTGGGACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTTTCC
1 AATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC--TTTTTTCC
* * * * * * *
15237922 TTGGCGTTGCAGTAGATTAAAACTAAAGGCAGCGAATCTTTTTTCCCTGGCGTTGCAGTA-GAAC
64 CTGGCATTACAGTAGATTAAAACTAAAGGCAACAAATCTTATTTCCCTAGCGTTGCAG-AGGAAC
* * * *
15237986 AGATTAAAGCTGAAGGCAGCGAAT-CTTTTTCTCTTGGCATTGTAGTGGAACAGAAGGTAGAGAA
128 AGATTAAAGCTGAAGGCAGCAAATCCTTTTTC-CCTGGCATTATAGTGGAACAGAAGGCAGAGAA
* *
15238050 T-TTTTTTCCCTGGCGTTGTAGTGGAACAAATTAAAGCTGAAGGCAACGAATCTT-TTTCCCTAG
192 TCTTATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTGAAGGCAACGAATCTTATTTCCCTAG
* * * *
15238113 CGTTGCAGTAGATTAAAGCTGAAGGTAGCGAATCTTATTTCCCTAATGTTATAAAGGAACATATT
257 CGTTGCAGTAGATTAAAGCTGAAGGGAGCGAATCTTATTTCCCTAACGTTAGAAAGGAACAGATT
* * * * *
15238178 AAAGCTGAATGCAGGGAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGA
322 AAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCATT-CAGTGGAACAGA
15238227 AGGCCACAAA
Statistics
Matches: 318, Mismatches: 46, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
386 143 0.45
387 53 0.17
388 121 0.38
389 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (387 bp):
AATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCT
GGCATTACAGTAGATTAAAACTAAAGGCAACAAATCTTATTTCCCTAGCGTTGCAGAGGAACAGA
TTAAAGCTGAAGGCAGCAAATCCTTTTTCCCTGGCATTATAGTGGAACAGAAGGCAGAGAATCTT
ATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTGAAGGCAACGAATCTTATTTCCCTAGCGTT
GCAGTAGATTAAAGCTGAAGGGAGCGAATCTTATTTCCCTAACGTTAGAAAGGAACAGATTAAAG
CTGAAGGCAGCGAATCTTATTTCCCTAGCATTCAGTGGAACAGATTAAAGCTGAAGGCAGTG
Found at i:15238464 original size:142 final size:142
Alignment explanation
Indices: 15238269--15238591 Score: 439
Period size: 142 Copynumber: 2.3 Consensus size: 142
15238259 TGGAGTGGAC
* * ** * *
15238269 TGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGAAATAGATTAAAGCTACAAATTATGACG
1 TGAAGATAGCAAATCTTA-TTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTATGACG
* * *
15238334 GATCTTATTTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTTCTTAAAGTTG
65 GATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACCAGCCTTATCTCCTTAAAGTTG
*
15238399 CAGCGGAGCAGAG
130 CAGCGGAGCAGAA
* * * *
15238412 TGAATATAGCAAATCTTATTCCCTGATGTTGCAGTGGAACAGATTAAAGCTACAAGTTATGGCGG
1 TGAAGATAGCAAATCTTATTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTATGACGG
* **
15238477 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACTAGCCTTATCTCCTTGGAGTTGC
66 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACCAGCCTTATCTCCTTAAAGTTGC
*
15238542 AGTGGAGCAGAA
131 AGCGGAGCAGAA
* * *
15238554 TGAAGATAGCGAATCCTATTCCTCTGAAGATGCAGTGG
1 TGAAGATAGCAAATCTTATTCC-CTGAAGTTGCAGTGG
15238592 GTTAGAACGA
Statistics
Matches: 157, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
142 129 0.82
143 28 0.18
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (142 bp):
TGAAGATAGCAAATCTTATTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTATGACGG
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACCAGCCTTATCTCCTTAAAGTTGC
AGCGGAGCAGAA
Found at i:15238771 original size:15 final size:16
Alignment explanation
Indices: 15238751--15238787 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
15238741 GGCCCAATTC
15238751 AATAAATACAAAT-AA
1 AATAAATACAAATAAA
*
15238766 AATAAA-AGAAATAAA
1 AATAAATACAAATAAA
15238781 AATAAAT
1 AATAAAT
15238788 TAAAAGTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (16 bp):
AATAAATACAAATAAA
Found at i:15238783 original size:20 final size:20
Alignment explanation
Indices: 15238754--15238793 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15238744 CCAATTCAAT
*
15238754 AAATACAAATAAAATAAAAG
1 AAATAAAAATAAAATAAAAG
*
15238774 AAATAAAAATAAATTAAAAG
1 AAATAAAAATAAAATAAAAG
15238794 TCCAAGAAAG
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:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAATAAAAG
Found at i:15240155 original size:26 final size:28
Alignment explanation
Indices: 15240126--15240187 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
15240116 TTTTATATGA
15240126 TTATTTTAAC-TTGCTTTGTAAATTA-T
1 TTATTTTAACGTTGCTTTGTAAATTATT
* * *
15240152 TTATGTT-ACGTTTCTTTGTATATTATT
1 TTATTTTAACGTTGCTTTGTAAATTATT
15240179 TTATTTTAA
1 TTATTTTAA
15240188 ATTATTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 19 0.66
27 7 0.24
28 1 0.03
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.61
Consensus pattern (28 bp):
TTATTTTAACGTTGCTTTGTAAATTATT
Found at i:15240208 original size:16 final size:15
Alignment explanation
Indices: 15240173--15240212 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
15240163 TTCTTTGTAT
15240173 ATTATTTTATTTTAA
1 ATTATTTTATTTTAA
15240188 ATTATTTTATATATT-A
1 ATTATTTTAT-T-TTAA
15240204 ATTATTTTA
1 ATTATTTTA
15240213 AAATGATCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.43
16 11 0.48
17 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTATTTTATTTTAA
Found at i:15243150 original size:36 final size:36
Alignment explanation
Indices: 15243094--15243177 Score: 132
Period size: 36 Copynumber: 2.3 Consensus size: 36
15243084 TATTCTAACT
*
15243094 AAAACACACCAAATGCTCATAAGAGCTAATCCATCC
1 AAAACACACTAAATGCTCATAAGAGCTAATCCATCC
* * *
15243130 GAAACACACTAGATGTTCATAAGAGCTAATCCATCC
1 AAAACACACTAAATGCTCATAAGAGCTAATCCATCC
15243166 AAAACACACTAA
1 AAAACACACTAA
15243178 TGGCTTCGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.45, C:0.27, G:0.10, T:0.18
Consensus pattern (36 bp):
AAAACACACTAAATGCTCATAAGAGCTAATCCATCC
Found at i:15253994 original size:14 final size:16
Alignment explanation
Indices: 15253975--15254007 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
15253965 ATAATATGCA
15253975 TGATATGT-GATAT-G
1 TGATATGTGGATATAG
15253989 TGATATGTGGATATAG
1 TGATATGTGGATATAG
15254005 TGA
1 TGA
15254008 CTATTGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 5 0.29
16 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.39
Consensus pattern (16 bp):
TGATATGTGGATATAG
Found at i:15258036 original size:22 final size:21
Alignment explanation
Indices: 15258011--15258051 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
15258001 TGTATGGTAT
* *
15258011 GATTTGGTTTTGGTATTATATA
1 GATTCGGTTATGGT-TTATATA
15258033 GATTCGGTTATGGTTTATA
1 GATTCGGTTATGGTTTATA
15258052 AGTATAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.51
Consensus pattern (21 bp):
GATTCGGTTATGGTTTATATA
Found at i:15260680 original size:18 final size:18
Alignment explanation
Indices: 15260657--15260691 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15260647 TACTTTCATA
15260657 AATTTATAAAATTTTTAG
1 AATTTATAAAATTTTTAG
* *
15260675 AATTTATTATATTTTTA
1 AATTTATAAAATTTTTA
15260692 ATATTTACTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
AATTTATAAAATTTTTAG
Found at i:15273820 original size:131 final size:131
Alignment explanation
Indices: 15273661--15273910 Score: 342
Period size: 131 Copynumber: 1.9 Consensus size: 131
15273651 ATAAACTTAA
* * * * *
15273661 GTTGTGATCATAAATCAATGAGCCTTAATAATATCAGCTATTATCTTAAATCAA-CGAGCTATTT
1 GTTGTAATCATAAATCAACGAGCCTTAATAATATCAGCTATGATATTAAAT-AAGCGACCTATTT
* *
15273725 GGAGTAG-CAATAGTAAATCAACTAACTTAAAGAACATTGTTCATGATAGTAAATCAAATGAATT
65 GGAGT-GCCAATAGTAAATCAACTAACTTAAAGAAAATGGTTCATGATAGTAAATCAAATGAATT
15273789 TAG
129 TAG
* * * * *
15273792 GTTGTAATCGTAAATCAGCGAGCCTTAATAATATTAGTTGTGATATTAAATAAGCGACCTATTTG
1 GTTGTAATCATAAATCAACGAGCCTTAATAATATCAGCTATGATATTAAATAAGCGACCTATTTG
* *
15273857 GAGTGCCGATAGTAAATCAACTAACTTAGAGAAAATGGTTCATGATAGTAAATC
66 GAGTGCCAATAGTAAATCAACTAACTTAAAGAAAATGGTTCATGATAGTAAATC
15273911 GAAAATCATT
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
130 3 0.03
131 100 0.97
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.32
Consensus pattern (131 bp):
GTTGTAATCATAAATCAACGAGCCTTAATAATATCAGCTATGATATTAAATAAGCGACCTATTTG
GAGTGCCAATAGTAAATCAACTAACTTAAAGAAAATGGTTCATGATAGTAAATCAAATGAATTTA
G
Found at i:15276544 original size:39 final size:40
Alignment explanation
Indices: 15276440--15276624 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
15276430 TTGAATGATG
* * * *
15276440 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
15276480 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
15276520 TCCGGGCTAAG-CCCGAAGTTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15276559 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15276600 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15276625 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 33 0.27
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15276646 original size:79 final size:79
Alignment explanation
Indices: 15276493--15276657 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
15276483 GGACTAAGAT
* * ** **
15276493 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGTTATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
15276558 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
15276572 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
15276635 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
15276651 CCGAAGG
1 CCGAAGG
15276658 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:15279409 original size:38 final size:38
Alignment explanation
Indices: 15279367--15279442 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
15279357 TCTATGTATG
* **
15279367 TATATACATATAGT-TTTTTTTACATATTTATATATATA
1 TATATACATAT-GTATTTTTTTAAATATAAATATATATA
* *
15279405 TATATGCATATTTATTTTTTTAAATATAAATATATATA
1 TATATACATATGTATTTTTTTAAATATAAATATATATA
15279443 CGCATATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (38 bp):
TATATACATATGTATTTTTTTAAATATAAATATATATA
Found at i:15279438 original size:34 final size:35
Alignment explanation
Indices: 15279395--15279468 Score: 123
Period size: 34 Copynumber: 2.1 Consensus size: 35
15279385 TTTACATATT
* *
15279395 TATATATATATATATGCATATTTAT-TTTTTTAAA
1 TATAAATATATATACGCATATTTATGTTTTTTAAA
15279429 TATAAATATATATACGCATATTTATGTTTTTTAAA
1 TATAAATATATATACGCATATTTATGTTTTTTAAA
15279464 TATAA
1 TATAA
15279469 TGTAATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
34 23 0.62
35 14 0.38
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (35 bp):
TATAAATATATATACGCATATTTATGTTTTTTAAA
Found at i:15279481 original size:22 final size:21
Alignment explanation
Indices: 15279455--15279502 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
15279445 CATATTTATG
*
15279455 TTTTTTAAATATAATGTAATTA
1 TTTTTTAAATAT-ACGTAATTA
**
15279477 TTTTTTTTATATACGTAATTA
1 TTTTTTAAATATACGTAATTA
15279498 TTTTT
1 TTTTT
15279503 ATAATCTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTTTAAATATACGTAATTA
Found at i:15292003 original size:132 final size:132
Alignment explanation
Indices: 15291766--15292494 Score: 1152
Period size: 132 Copynumber: 5.6 Consensus size: 132
15291756 CCGACAGCGA
*
15291766 AGCAGATCGAAGACGGCCAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* *
15291831 CTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
15291896 GG
131 GG
* * * * *
15291898 AGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGTCACCAAGC
1 AGCAGATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* * * *
15291963 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTTCCTAAGCAGTAGC
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
15292028 GG
131 GG
* *
15292030 AGCAAATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAACCCACCAAGC
1 AGCAGATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* * * *
15292095 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTTCCTAAGCAGTAGC
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
15292160 GG
131 GG
* *
15292162 AGCAAATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAACCCACCAAGC
1 AGCAGATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
15292227 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
15292292 GG
131 GG
* *
15292294 AGCAGATCAAAGACGG-----C----CTTTCCAAGATAGTGAGAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* *
15292350 CTGGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTTGATCTTATCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
15292415 GG
131 GG
* * *
15292417 AGCAGATCAAAGACGGCAAATCTTATCTTTCCAATATAGTGGGAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
15292482 CTTGTCTCCCTGA
66 CTTGTCTCCCTGA
15292495 AGTTGCAGAG
Statistics
Matches: 556, Mismatches: 32, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
123 118 0.21
127 1 0.00
128 1 0.00
132 436 0.78
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (132 bp):
AGCAGATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:15292053 original size:44 final size:44
Alignment explanation
Indices: 15292005--15292190 Score: 123
Period size: 44 Copynumber: 4.2 Consensus size: 44
15291995 AAGATTGTAG
15292005 ATCTTATCTTCCTAAGCAGTAGCGGAGCAAATCGAAGACGGCCA
1 ATCTTATCTTCCTAAGCAGTAGCGGAGCAAATCGAAGACGGCCA
* * ** * **
15292049 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAA-CCCACCA
1 ATCTTATC-TTCCTAAGCAGTAG-CGG-AGCAAATCGAAGACGGCCA
* * * * * * * ** *
15292092 AGCCTTGTCTCCCTGAGCAGCAGCGGAG-AAGGTTGAAGATTG-TA
1 A-TCTTATCTTCCTAAGCAGTAGCGGAGCAA-ATCGAAGACGGCCA
15292136 GATCTTATCTTCCTAAGCAGTAGCGGAGCAAATCGAAGACGGCCA
1 -ATCTTATCTTCCTAAGCAGTAGCGGAGCAAATCGAAGACGGCCA
15292181 ATCTTATCTT
1 ATCTTATCTT
15292191 TCCAAGATAG
Statistics
Matches: 99, Mismatches: 31, Indels: 24
0.64 0.20 0.16
Matches are distributed among these distances:
42 3 0.03
43 12 0.12
44 71 0.72
45 11 0.11
46 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (44 bp):
ATCTTATCTTCCTAAGCAGTAGCGGAGCAAATCGAAGACGGCCA
Found at i:15293882 original size:21 final size:21
Alignment explanation
Indices: 15293853--15293901 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
15293843 TTCTGTTTTC
15293853 TTTTTTTTT-ATTAATTAATT-
1 TTTTTTTTTCA-TAATTAATTA
*
15293873 TTTTTATTTTCATATTTAATTA
1 TTTTT-TTTTCATAATTAATTA
15293895 TTTTTTT
1 TTTTTTT
15293902 AAAAATCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.20
21 14 0.56
22 6 0.24
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTTTTCATAATTAATTA
Found at i:15293994 original size:22 final size:21
Alignment explanation
Indices: 15293968--15294015 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
15293958 CATATTTATG
*
15293968 TTTTTTAAATATAATGTAATTA
1 TTTTTTAAATAT-ACGTAATTA
**
15293990 TTTTTTTTATATACGTAATTA
1 TTTTTTAAATATACGTAATTA
15294011 TTTTT
1 TTTTT
15294016 ATAATCTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTTTAAATATACGTAATTA
Found at i:15294348 original size:14 final size:14
Alignment explanation
Indices: 15294325--15294364 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
15294315 ATGGATTATT
15294325 GTTT-TTTATTTTC
1 GTTTATTTATTTTC
15294338 GTTTATTTA-TTT-
1 GTTTATTTATTTTC
15294350 GTTTATATTATTTTC
1 GTTTAT-TTATTTTC
15294365 ATGCCATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
14 7 0.30
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.72
Consensus pattern (14 bp):
GTTTATTTATTTTC
Found at i:15294393 original size:15 final size:15
Alignment explanation
Indices: 15294370--15294402 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15294360 TTTTCATGCC
15294370 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
15294385 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
15294400 ATT
1 ATT
15294403 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:15298390 original size:13 final size:13
Alignment explanation
Indices: 15298353--15298412 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
15298343 TTTAATATAA
*
15298353 AAATAAATTTTAT
1 AAATAAATTTTAC
*
15298366 ATATTCAAATTTTAC
1 A-AAT-AAATTTTAC
15298381 AAATAAATTTTGA-
1 AAATAAATTTT-AC
*
15298394 TAATAAATTTTAC
1 AAATAAATTTTAC
15298407 AAATAA
1 AAATAA
15298413 TTAATAGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 1 0.03
13 23 0.61
14 5 0.13
15 9 0.24
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (13 bp):
AAATAAATTTTAC
Found at i:15298408 original size:26 final size:28
Alignment explanation
Indices: 15298353--15298412 Score: 90
Period size: 26 Copynumber: 2.2 Consensus size: 28
15298343 TTTAATATAA
15298353 AAATAAATTTTATATATTCAAATTTTAC
1 AAATAAATTTTATATATTCAAATTTTAC
15298381 AAATAAATTTTGATA-A-T-AAATTTTAC
1 AAATAAATTTT-ATATATTCAAATTTTAC
15298407 AAATAA
1 AAATAA
15298413 TTAATAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 15 0.48
27 1 0.03
28 12 0.39
29 3 0.10
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (28 bp):
AAATAAATTTTATATATTCAAATTTTAC
Found at i:15300328 original size:21 final size:21
Alignment explanation
Indices: 15300304--15300385 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
15300294 TCCACACGGG
* *
15300304 CGTGTGCCTTTGACACACAAC
1 CGTGTCCCTTAGACACACAAC
* **
15300325 CGTGTCCCTTAGTCACACAGG
1 CGTGTCCCTTAGACACACAAC
* *
15300346 CGTATGCCTT-GAACACACAAC
1 CGTGTCCCTTAG-ACACACAAC
*
15300367 CGTGTCCCTTAGCCACACA
1 CGTGTCCCTTAGACACACA
15300386 GGCATGTGAG
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.96
22 1 0.02
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.22
Consensus pattern (21 bp):
CGTGTCCCTTAGACACACAAC
Found at i:15300355 original size:42 final size:42
Alignment explanation
Indices: 15300295--15300388 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 42
15300285 TTATCGATTT
* *
15300295 CCACACGGGCGTGTGCCTTTG-ACACACAACCGTGTCCCTTAG
1 CCACACAGGCGTATGCC-TTGAACACACAACCGTGTCCCTTAG
*
15300337 TCACACAGGCGTATGCCTTGAACACACAACCGTGTCCCTTAG
1 CCACACAGGCGTATGCCTTGAACACACAACCGTGTCCCTTAG
15300379 CCACACAGGC
1 CCACACAGGC
15300389 ATGTGAGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
41 3 0.06
42 44 0.94
ACGTcount: A:0.23, C:0.36, G:0.21, T:0.19
Consensus pattern (42 bp):
CCACACAGGCGTATGCCTTGAACACACAACCGTGTCCCTTAG
Found at i:15304790 original size:743 final size:743
Alignment explanation
Indices: 15303365--15304856 Score: 2450
Period size: 743 Copynumber: 2.0 Consensus size: 743
15303355 AATGGCTTAA
* * *
15303365 ATGATTATAGATACTAGTGGTTGAATGGAATTATTAGTATCATTTGGTATATTTTGGCAAGTAAA
1 ATGATTATAGATACTAGTGGTTGAATGGAATGATTAGTACCATTTGATATATTTTGGCAAGTAAA
15303430 TGACATGATATGTATTGATGCAAATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATAC
66 TGACATGATATGTATTGATGCAAATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATAC
*
15303495 ATGGTTAGACATATTTATATATTGTCATTTGAGGTGCCTAAGGGCATATTGGTTGTATGATGTTA
131 ATGGTTAGACATATTTAGATATTGTCATTTGAGGTGCCTAAGGGCATATTGGTTGTATGATGTTA
* *
15303560 TACCATATGTATAGAACTTTCTTATGCTTGATTTGGATGCCTTGTTATGGCTTATATATATGTGC
196 TACCATATGTATAGAACTTGCTTATGCTTGATTTGGATGCCTTGTTATGACTTATATATATGTGC
*
15303625 ATTTTTGGTTATAGTTATATGCCTTGATGGGTGAGAAAAATGACTTGTAAAATGACCTATTTTCA
261 ATTTTTGGTTATAGGTATATGCCTTGATGGGTGAGAAAAATGACTTGTAAAATGACCTATTTTCA
* * * *
15303690 TCCACACAGGCAGAGACACAGACGTGTGTCTCAGCCGTGTATGACACACGGCCAGGCGACACGGC
326 CCCACACAGGCAGAGACACAGACATGTGTCTCAGCCGTGTATGACACACGGCCAGGCGAAACGAC
* *
15303755 CCTGAGTCCCCTTTAGCTTTCAAAGGGTTGCAAATCAGACTATTACACCGCCGAGCACACGGCTT
391 CCTGAGTCCCCTGTAGCTTTCAAAGGGTTGCAAATCAGACTATTACACAGCCGAGCACACGGCTT
* * *
15303820 GGTACACAGGCGTGTGAGGTTACTTCGAAGGGTGCAGATCCTAGCACACGGGCGTGTGGCTTGGC
456 GGTACACAGGCGTGTGAGGTTACTTCGAAGGGTACACAGCCTAGCACACGGGCGTGTGGCTTGGC
* * *
15303885 CGTGGGAGCCAAGTTAGTGAGTTATACGGGCATGGACACGGGCTGGGACACGGCCCTGTGTCCCT
521 CGTGGGACCCAAGTCAGTGAGTTACACGGGCATGGACACGGGCTGGGACACGGCCCTGTGTCCCT
* * *
15303950 GCTTTGAATGCCCACACGGCCTGGTCACATGTCTGTGTGACCCCTGCAGTTGAAAATTTTCAATG
586 ACTTTGAATGCCCACACGGCCTGGTCACACGCCTGTGTGACCCCTGCAGTTGAAAATTTTCAATG
*
15304015 TTTTCTGAAAAATTCTCTGAGTTTCTGATTTGATCTTGACTTGTTTCTATTGCATATTTAGGGCC
651 TTTTCTGAAAAATTCTCTGAGTTTCTGATTTGATCCTGACTTGTTTCTATTGCATATTTAGGGCC
15304080 TTGAGGGCTCGTATAAGAGACATTATGT
716 TTGAGGGCTCGTATAAGAGACATTATGT
* *
15304108 ATGATTATAGATACTAGTGGTTGAATGGTATGATTAGTACCATTTGATATATTTTGGTAAGTAAA
1 ATGATTATAGATACTAGTGGTTGAATGGAATGATTAGTACCATTTGATATATTTTGGCAAGTAAA
*
15304173 TTACATGATATGTATTGATGCAAATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATAC
66 TGACATGATATGTATTGATGCAAATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATAC
* * * *
15304238 ATGGTTAGACATGTTTAGGTATTGTTATTTGAGGTGCCTAAGGGCATGTTGGTTGTATGATGTTA
131 ATGGTTAGACATATTTAGATATTGTCATTTGAGGTGCCTAAGGGCATATTGGTTGTATGATGTTA
*
15304303 TACCATATGTATAGGACTTGCTTATGCTTGATTTGGATGCCTTGTTATGACTTATATATATGTGC
196 TACCATATGTATAGAACTTGCTTATGCTTGATTTGGATGCCTTGTTATGACTTATATATATGTGC
* * *
15304368 ATTTTTGGTTATAGGTATATGCCTTGATGGGTGAGAAAAATGGCTTGTAAAATGGCCTATTTTCG
261 ATTTTTGGTTATAGGTATATGCCTTGATGGGTGAGAAAAATGACTTGTAAAATGACCTATTTTCA
* * *
15304433 CCCACACGGGCAGAGACAC-GAGCATGTGTCTTCA-CCGTGTGTGACACACGGCGAGGCGAAACG
326 CCCACACAGGCAGAGACACAGA-CATGTGTC-TCAGCCGTGTATGACACACGGCCAGGCGAAACG
* * * * * * * *
15304496 ACCGTGAGTTCTCTGTAGCTTTCAAAGGGTTGCAAGTTAGGCTGTTACACAGCCTAGCACACGGA
389 ACCCTGAGTCCCCTGTAGCTTTCAAAGGGTTGCAAATCAGACTATTACACAGCCGAGCACACGG-
* * *
15304561 C-TGGTACACGGGCGTGTGAGGTTACTTCGAAGGGTACACAGCCTGGCACACGGGTGTGTGGCTT
453 CTTGGTACACAGGCGTGTGAGGTTACTTCGAAGGGTACACAGCCTAGCACACGGGCGTGTGGCTT
* * * *
15304625 GGTCGTGTGACCCAAGTCAGTGAGTTACATGGGCATGGACACGGGCTGGGACACGGCTCTGTGTC
518 GGCCGTGGGACCCAAGTCAGTGAGTTACACGGGCATGGACACGGGCTGGGACACGGCCCTGTGTC
*
15304690 CCTACTTTGAATGCCCACACGGCCTGGTCACACGCCTGTGTGATCCCTGCAGTTGAAAATTTTCA
583 CCTACTTTGAATGCCCACACGGCCTGGTCACACGCCTGTGTGACCCCTGCAGTTGAAAATTTTCA
15304755 ATGTTTTCTGAAAAATTCTCTGAGTTTCTGATTTGATCCTGACTTGTTTCTATTGCATATTTAGG
648 ATGTTTTCTGAAAAATTCTCTGAGTTTCTGATTTGATCCTGACTTGTTTCTATTGCATATTTAGG
*
15304820 GCCTTGAGGGCTCGTATAAGATACATTATGT
713 GCCTTGAGGGCTCGTATAAGAGACATTATGT
15304851 ATGATT
1 ATGATT
15304857 TTGATTGGTT
Statistics
Matches: 692, Mismatches: 54, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
742 2 0.00
743 686 0.99
744 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (743 bp):
ATGATTATAGATACTAGTGGTTGAATGGAATGATTAGTACCATTTGATATATTTTGGCAAGTAAA
TGACATGATATGTATTGATGCAAATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATAC
ATGGTTAGACATATTTAGATATTGTCATTTGAGGTGCCTAAGGGCATATTGGTTGTATGATGTTA
TACCATATGTATAGAACTTGCTTATGCTTGATTTGGATGCCTTGTTATGACTTATATATATGTGC
ATTTTTGGTTATAGGTATATGCCTTGATGGGTGAGAAAAATGACTTGTAAAATGACCTATTTTCA
CCCACACAGGCAGAGACACAGACATGTGTCTCAGCCGTGTATGACACACGGCCAGGCGAAACGAC
CCTGAGTCCCCTGTAGCTTTCAAAGGGTTGCAAATCAGACTATTACACAGCCGAGCACACGGCTT
GGTACACAGGCGTGTGAGGTTACTTCGAAGGGTACACAGCCTAGCACACGGGCGTGTGGCTTGGC
CGTGGGACCCAAGTCAGTGAGTTACACGGGCATGGACACGGGCTGGGACACGGCCCTGTGTCCCT
ACTTTGAATGCCCACACGGCCTGGTCACACGCCTGTGTGACCCCTGCAGTTGAAAATTTTCAATG
TTTTCTGAAAAATTCTCTGAGTTTCTGATTTGATCCTGACTTGTTTCTATTGCATATTTAGGGCC
TTGAGGGCTCGTATAAGAGACATTATGT
Found at i:15307721 original size:37 final size:37
Alignment explanation
Indices: 15307663--15307812 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
15307653 TTACGAAGTT
* * * *
15307663 TTACCCGGACATAATCTCCACACGAAGTTATCGGGTC
1 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
15307700 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
1 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
* *
15307737 TTAACCGGACGAAATCCCCACACGTAGTCATCGGGTC
1 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
15307774 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
1 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
15307811 TT
1 TT
15307813 TAGAGCTCGG
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (37 bp):
TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
Found at i:15308048 original size:49 final size:49
Alignment explanation
Indices: 15307931--15308352 Score: 671
Period size: 49 Copynumber: 8.8 Consensus size: 49
15307921 CCCTTCGGGA
* * * * * *
15307931 CTTATCACAT-T-TATACACTTTCACATCCATCA-GTTGGCCACTCGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
15307977 CCTGTCACA--TATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
15308024 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
15308073 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
15308122 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
15308171 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
15308220 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
15308269 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
15308318 CTTATCTCA--TATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATGTATATACACT-TTCACATTCATCACAT
15308353 AGAATCCTAA
Statistics
Matches: 357, Mismatches: 14, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
45 1 0.00
46 28 0.08
47 38 0.11
49 290 0.81
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (49 bp):
CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:15312141 original size:12 final size:12
Alignment explanation
Indices: 15312124--15312154 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15312114 AGTTGCCATG
15312124 GAATGTTTTTCC
1 GAATGTTTTTCC
15312136 GAATGTTTTTCC
1 GAATGTTTTTCC
15312148 GAATGTT
1 GAATGTT
15312155 ATTAAGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (12 bp):
GAATGTTTTTCC
Found at i:15313772 original size:25 final size:25
Alignment explanation
Indices: 15313744--15313826 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
15313734 TCTTGAGAGT
15313744 ATACCGATTTACAGCTCAAGTGAGC
1 ATACCGATTTACAGCTCAAGTGAGC
* ** *
15313769 ATACCAATTTACAGCTCGTGAGAGC
1 ATACCGATTTACAGCTCAAGTGAGC
* * * *
15313794 ATACTGATTTACAACTTAAGTAAGC
1 ATACCGATTTACAGCTCAAGTGAGC
15313819 ATACCGAT
1 ATACCGAT
15313827 CACATCTTGT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (25 bp):
ATACCGATTTACAGCTCAAGTGAGC
Found at i:15324908 original size:55 final size:55
Alignment explanation
Indices: 15324848--15324960 Score: 208
Period size: 55 Copynumber: 2.1 Consensus size: 55
15324838 CCATTACTTA
* *
15324848 CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGGTTTAGTTCCATATTTTGTT
1 CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGATTTAATTCCATATTTTGTT
15324903 CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGATTTAATTCCATATTTTGTT
1 CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGATTTAATTCCATATTTTGTT
15324958 CAT
1 CAT
15324961 CCTCTAATTC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (55 bp):
CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGATTTAATTCCATATTTTGTT
Found at i:15326697 original size:23 final size:23
Alignment explanation
Indices: 15326674--15326719 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15326664 TTTTTCTATT
15326674 ATCAAAATATAATTTAATTAATTA
1 ATCAAAATA-AATTTAATTAATTA
* * *
15326698 ATTAATATAAATTTAGTTAATT
1 ATCAAAATAAATTTAATTAATT
15326720 TACTCAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
ATCAAAATAAATTTAATTAATTA
Found at i:15331591 original size:39 final size:39
Alignment explanation
Indices: 15331537--15331611 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
15331527 CACCAGAAAC
*
15331537 TAAAACTCAAAATGGGTAGTTTTTTTTTAGGTCTTTCTT
1 TAAAACTCAAAATGGGTAGTTGTTTTTTAGGTCTTTCTT
15331576 TAAAACTCAAAATGGGTAGTTGTTTTTTAGGTCTTT
1 TAAAACTCAAAATGGGTAGTTGTTTTTTAGGTCTTT
15331612 TAAAAAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.27, C:0.09, G:0.17, T:0.47
Consensus pattern (39 bp):
TAAAACTCAAAATGGGTAGTTGTTTTTTAGGTCTTTCTT
Found at i:15331624 original size:36 final size:38
Alignment explanation
Indices: 15331545--15331624 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
15331535 ACTAAAACTC
* ***
15331545 AAAATGGGTAGTTTTTTTTTAGGTCTTTCTTTAAAACTC
1 AAAATGGGTAGTTGTTTTTTAGGTC-TTCTTTAAAAAGA
15331584 AAAATGGGTAGTTGTTTTTTAGGTC-T-TTTAAAAAGA
1 AAAATGGGTAGTTGTTTTTTAGGTCTTCTTTAAAAAGA
15331620 AAAAT
1 AAAAT
15331625 CATTTTTCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 12 0.32
37 1 0.03
39 24 0.65
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (38 bp):
AAAATGGGTAGTTGTTTTTTAGGTCTTCTTTAAAAAGA
Found at i:15335257 original size:27 final size:27
Alignment explanation
Indices: 15335227--15335278 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
15335217 TCGCTTACCT
** *
15335227 TACTAGAGTACTTCAGCTCGCCAAACC
1 TACTAGAGTACACCAACTCGCCAAACC
*
15335254 TACTAGCGTACACCAACTCGCCAAA
1 TACTAGAGTACACCAACTCGCCAAA
15335279 TCTATTGGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.35, G:0.13, T:0.19
Consensus pattern (27 bp):
TACTAGAGTACACCAACTCGCCAAACC
Found at i:15336744 original size:39 final size:39
Alignment explanation
Indices: 15336696--15336891 Score: 194
Period size: 39 Copynumber: 5.0 Consensus size: 39
15336686 ATTCACTTTT
* * * *
15336696 AAGCGTATATCATATTACACATATAATCACCTAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* * * * * *
15336735 AAGTATATATCACAATATACATATAATCTCTTGACATTT
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* * *
15336774 AAGCATATATCACAATACTCGTATAATCACATAACATCC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* * * *
15336813 AAGCATATAACACAATACTCATATAATCGCATAACATTT
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* * * * *
15336852 GAGCATATGTTACAATACTCGTATAATCACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
15336891 A
1 A
15336892 CAATTTTAAG
Statistics
Matches: 126, Mismatches: 31, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 126 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACATAACATTC
Found at i:15336784 original size:78 final size:78
Alignment explanation
Indices: 15336693--15336891 Score: 247
Period size: 78 Copynumber: 2.6 Consensus size: 78
15336683 CATATTCACT
* * * * * * * *
15336693 TTTAAGCGTATATCATATTACACATATAATCACCTAACATTCAAGTATATATCACAATA-TACAT
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACATTCAAGCATATAACACAATACT-CAT
* * *
15336757 ATAATCTCTTGACA
65 ATAATCGCATAACA
*
15336771 TTTAAGCATATATCACAATACTCGTATAATCACATAACATCCAAGCATATAACACAATACTCATA
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACATTCAAGCATATAACACAATACTCATA
15336836 TAATCGCATAACA
66 TAATCGCATAACA
* * *
15336849 TTTGAGCATATGTTACAATACTCGTATAATCACATAACATTCA
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACATTCA
15336892 CAATTTTAAG
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 103 0.99
79 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.32
Consensus pattern (78 bp):
TTTAAGCATATATCACAATACTCGTATAATCACATAACATTCAAGCATATAACACAATACTCATA
TAATCGCATAACA
Found at i:15338747 original size:2 final size:2
Alignment explanation
Indices: 15338742--15338777 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15338732 ATTTTTTTGA
15338742 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
15338778 CGTTATACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15343007 original size:23 final size:24
Alignment explanation
Indices: 15342965--15343009 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
15342955 GTTACGATTT
15342965 TATTTTCTTCTTTGCTTTTACTAA
1 TATTTTCTTCTTTGCTTTTACTAA
15342989 TATTTTC-TCTTTG-TGTTTACT
1 TATTTTCTTCTTTGCT-TTTACT
15343010 GTATGACTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.05
23 12 0.60
24 7 0.35
ACGTcount: A:0.13, C:0.16, G:0.07, T:0.64
Consensus pattern (24 bp):
TATTTTCTTCTTTGCTTTTACTAA
Found at i:15347263 original size:30 final size:30
Alignment explanation
Indices: 15347227--15347445 Score: 241
Period size: 30 Copynumber: 7.4 Consensus size: 30
15347217 TGGTTGACAC
* *
15347227 ATCCCTTTTCATAATTCGATAACCGAAGTT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
* * * *
15347257 ATCCCTTTTCATAGTTCGACAACCAAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
*
15347287 ATCCCTTTTCATAATTTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
* *
15347317 ATCCTTTTTCATAGA-TCGATAGCCGAAGCC
1 ATCCCTTTTCATA-ATTCGATAGCCGAAGCT
* * * *
15347347 ATCCCTTTTCATATTTCGAT-GTCGTCA-CC
1 ATCCCTTTTCATAATTCGATAGCCG-AAGCT
*
15347376 ATCCCTTTTCATAA-TCGATAGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
*
15347405 ATCCCTTTTCGT-ATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
*
15347434 ATCCATTTTCAT
1 ATCCCTTTTCAT
15347446 TCATCGATGA
Statistics
Matches: 160, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
28 7 0.04
29 58 0.36
30 94 0.59
31 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAGCCGAAGCT
Found at i:15352522 original size:10 final size:10
Alignment explanation
Indices: 15352507--15352534 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
15352497 AGCACTTACC
15352507 ATTTCAATGT
1 ATTTCAATGT
15352517 ATTTCAATGT
1 ATTTCAATGT
15352527 ATTTCAAT
1 ATTTCAAT
15352535 CATAAACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (10 bp):
ATTTCAATGT
Found at i:15353059 original size:29 final size:29
Alignment explanation
Indices: 15352968--15353076 Score: 101
Period size: 29 Copynumber: 3.7 Consensus size: 29
15352958 CTTATCAGGT
* * * *
15352968 CATCCCTTTTCATATTCAATTGTCATCAC
1 CATCCCTTTTCATAATCGATGGTCGTCAC
* * * **
15352997 CATGCCTTTTCATAATCTATGATCGAAAC
1 CATCCCTTTTCATAATCGATGGTCGTCAC
* * *
15353026 AATCCCCTTTCATATTCGATGGTCGTCAC
1 CATCCCTTTTCATAATCGATGGTCGTCAC
15353055 CATCCCTTTTCATTAATCGATG
1 CATCCCTTTTCA-TAATCGATG
15353077 CCCGTCGATA
Statistics
Matches: 60, Mismatches: 19, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
29 52 0.87
30 8 0.13
ACGTcount: A:0.25, C:0.28, G:0.09, T:0.38
Consensus pattern (29 bp):
CATCCCTTTTCATAATCGATGGTCGTCAC
Found at i:15362529 original size:18 final size:16
Alignment explanation
Indices: 15362496--15362534 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
15362486 AATAACTAAG
*
15362496 ATAAATAAATTGAACA
1 ATAAATAAAATGAACA
15362512 ATAAATAAAAATGAAACA
1 ATAAAT-AAAATG-AACA
15362530 ATAAA
1 ATAAA
15362535 GAAGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 5 0.25
18 9 0.45
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (16 bp):
ATAAATAAAATGAACA
Found at i:15362555 original size:20 final size:21
Alignment explanation
Indices: 15362518--15362557 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
15362508 AACAATAAAT
*
15362518 AAAAATGAAACAATAAAGAAG
1 AAAAATGAAACAAGAAAGAAG
*
15362539 AAAAAT-AAATAAGAAAGAA
1 AAAAATGAAACAAGAAAGAA
15362558 CGTGATATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAATGAAACAAGAAAGAAG
Found at i:15368134 original size:25 final size:25
Alignment explanation
Indices: 15368095--15368159 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
15368085 TGACCCGTAG
* * *
15368095 CTCGTGAGAGCATACCGATTTACAT
1 CTCGTGTGAGCATACCAATTTACAA
*
15368120 CTTGTGTGAGCATACCAATTTACAA
1 CTCGTGTGAGCATACCAATTTACAA
*
15368145 CTCGTGTTAGCATAC
1 CTCGTGTGAGCATAC
15368160 ATTACAAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (25 bp):
CTCGTGTGAGCATACCAATTTACAA
Found at i:15375545 original size:40 final size:40
Alignment explanation
Indices: 15375501--15375724 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
15375491 AAGTGAATAT
* * * * **
15375501 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
15375541 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
15375581 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
15375621 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
15375661 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
15375700 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
15375725 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:15375599 original size:80 final size:80
Alignment explanation
Indices: 15375462--15375724 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
15375452 TTGAATGCTG
* * * * *
15375462 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
15375524 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
15375542 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
15375607 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
15375622 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
15375686 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
15375701 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
15375725 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:15375676 original size:120 final size:120
Alignment explanation
Indices: 15375462--15375724 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
15375452 TTGAATGCTG
* * *
15375462 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
15375526 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
15375582 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
15375644 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
15375701 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
15375725 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:15383528 original size:40 final size:39
Alignment explanation
Indices: 15383497--15383634 Score: 195
Period size: 40 Copynumber: 3.5 Consensus size: 39
15383487 GGACTAAGAT
* *
15383497 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
15383537 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
15383577 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
15383617 CCGAAGGCATTCGTGCGA
1 CCGAAGGCATTCGTGCGA
15383635 TTAAGTTTGG
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
40 87 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:15383824 original size:30 final size:29
Alignment explanation
Indices: 15383788--15383861 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
15383778 TGATAATTAT
* *
15383788 TTTAAAATTCGTTATCTCCTAATCTAGCAG
1 TTTAAAATTCATCATCTCCTAAT-TAGCAG
15383818 TTTAAAATATTCATCATCTCCTAATTAGCAG
1 TTT-AAA-ATTCATCATCTCCTAATTAGCAG
15383849 TTTTAAATATTCA
1 -TTTAAA-ATTCA
15383862 AGGAAAAACC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 3 0.08
31 18 0.46
32 18 0.46
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.42
Consensus pattern (29 bp):
TTTAAAATTCATCATCTCCTAATTAGCAG
Found at i:15383850 original size:31 final size:32
Alignment explanation
Indices: 15383801--15383861 Score: 106
Period size: 31 Copynumber: 1.9 Consensus size: 32
15383791 AAAATTCGTT
15383801 ATCTCCTAATCTAGCAGTTTAAAATATTCATC
1 ATCTCCTAATCTAGCAGTTTAAAATATTCATC
*
15383833 ATCTCCTAAT-TAGCAGTTTTAAATATTCA
1 ATCTCCTAATCTAGCAGTTTAAAATATTCA
15383862 AGGAAAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (32 bp):
ATCTCCTAATCTAGCAGTTTAAAATATTCATC
Found at i:15385340 original size:50 final size:51
Alignment explanation
Indices: 15385216--15385407 Score: 185
Period size: 50 Copynumber: 3.8 Consensus size: 51
15385206 GGTAAAAACA
* * * ** ** **
15385216 TGCCAAAGCCATGTCTCAGACATGGTCTTACATG-GGATGTTCTCATGTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGAGGA-CCTCTCAACTCAG
* * *
15385267 TGCCCATGCCATGTCCCAAACATGGTCTTAC-GGAGGACCTCTCAACTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGAGGACCTCTCAACTCAG
* * * *
15385317 TGCCAACGCCATGTTCCAGACATGGTCTTACATG-GGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGAGGACCTCTCAACTCAG
* *
15385367 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGA-GACCTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGAGGACCTC
15385408 CTTACCCAAA
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
50 85 0.73
51 31 0.27
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (51 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGAGGACCTCTCAACTCAG
Found at i:15385393 original size:100 final size:101
Alignment explanation
Indices: 15385216--15385407 Score: 291
Period size: 100 Copynumber: 1.9 Consensus size: 101
15385206 GGTAAAAACA
** * *
15385216 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATGT
15385281 CCCAAACATGGTCTTAC-GGAGGACCTCTCAACTCAG
66 CCCAAACATGGTCTTACAGGA-GACCTCTCAACTCAG
*
15385317 TGCCAACGCCATGT-TCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
1 TGCCAAAGCCATGTCT-CAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATG
*
15385380 TCCCAGACATGGTCTTACAGGAGACCTC
65 TCCCAAACATGGTCTTACAGGAGACCTC
15385408 CTTACCCAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
100 46 0.55
101 37 0.45
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (101 bp):
TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATGT
CCCAAACATGGTCTTACAGGAGACCTCTCAACTCAG
Found at i:15386672 original size:28 final size:28
Alignment explanation
Indices: 15386627--15386694 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
15386617 TGACAATTAC
15386627 AGTAACACTGTGTAGGCCTTAGCCCAATAT
1 AGTAACA--GTGTAGGCCTTAGCCCAATAT
*
15386657 AGTAACAGTGTGGGCCTTAGCCCAATAT
1 AGTAACAGTGTAGGCCTTAGCCCAATAT
15386685 AGTAACAGTG
1 AGTAACAGTG
15386695 CAATGCAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
28 30 0.81
30 7 0.19
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (28 bp):
AGTAACAGTGTAGGCCTTAGCCCAATAT
Found at i:15387090 original size:27 final size:27
Alignment explanation
Indices: 15387060--15387483 Score: 300
Period size: 27 Copynumber: 15.8 Consensus size: 27
15387050 GATATAAAAT
*
15387060 TCATTTTACACTAT-GAGGGTATTTTAG
1 TCATTTTACCCT-TCGAGGGTATTTTAG
15387087 TCATTTTACCCTTCGAGGGTATTTT-G
1 TCATTTTACCCTTCGAGGGTATTTTAG
** * *
15387113 ATCATTTTACCCTTTAAGCGTA-TTTCG
1 -TCATTTTACCCTTCGAGGGTATTTTAG
* *
15387140 ATCATTTTACCTTTCGAGGGTA-TTTCG
1 -TCATTTTACCCTTCGAGGGTATTTTAG
*
15387167 ATCATTTTACCCTTCGAGGGTA-TTTCG
1 -TCATTTTACCCTTCGAGGGTATTTTAG
*
15387194 ATCATTTTACCCTTC-AGGGGTATTTCAG
1 -TCATTTTACCCTTCGA-GGGTATTTTAG
* * *
15387222 TCCTTTTACCCTATGGA-GGTA-TTTCG
1 TCATTTTACCCT-TCGAGGGTATTTTAG
* *
15387248 ATCATTTTACCCTTTGAGGGTA-TTTCG
1 -TCATTTTACCCTTCGAGGGTATTTTAG
* * * *
15387275 ATCATTTTACCCTT-TAGGAGTAATTCAA
1 -TCATTTTACCCTTCGAGG-GTATTTTAG
* * **
15387303 TCATTTTACCCATCAAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTTAG
* * * *
15387330 TTATTTTACACTTCAAGGGTATTTTAA
1 TCATTTTACCCTTCGAGGGTATTTTAG
* **
15387357 TCATTTTACCTTTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTTAG
* * *
15387384 TCATTTTACCCTTCAAGGGTATTTCAT
1 TCATTTTACCCTTCGAGGGTATTTTAG
* **
15387411 TCA-TTTACCCTAT-GAAGGTATTTCGG
1 TCATTTTACCCT-TCGAGGGTATTTTAG
* * *
15387437 TCATTTTACCCATCAAGGGTGA-TTCAG
1 TCATTTTACCCTTCGAGGGT-ATTTTAG
15387464 TCATTTTACCCTTCG-GGGTA
1 TCATTTTACCCTTCGAGGGTA
15387484 AGACGGTTTT
Statistics
Matches: 328, Mismatches: 53, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.00
26 40 0.12
27 276 0.84
28 10 0.03
29 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTTAG
Found at i:15387121 original size:54 final size:53
Alignment explanation
Indices: 15387075--15387483 Score: 400
Period size: 54 Copynumber: 7.6 Consensus size: 53
15387065 TTACACTATG
* *
15387075 AGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCTTTA
1 AGGGTA-TTTAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCA
* * * *
15387129 AGCGTATTTCGATCATTTTACCTTTCGAGGGTATTTCGATCATTTTACCCTTCG
1 AGGGTATTTAG-TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCA
* * **
15387183 AGGGTATTTCGATCATTTTACCCTTC-AGGGGTATTTC-AGTCCTTTTACCCTATGG
1 AGGGTATTTAG-TCATTTTACCCTTCGA-GGGTATTTCGA-TCATTTTACCCT-TCA
* * *
15387238 A-GGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGATCATTTTACCCTT-T
1 AGGGTATTTAG-TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCA
* * * * * * *
15387290 AGGAGTAATTCAATCATTTTACCCATCAAGGGTATTTCGGTTATTTTACACTTCA
1 AGG-GT-ATTTAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCA
* * *
15387345 AGGGTATTTTAATCATTTTACCTTTCGAGGGTATTTCGGTCATTTTACCCTTCA
1 AGGGTA-TTTAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCA
* * * *
15387399 AGGGTATTTCATTCA-TTTACCCTAT-GAAGGTATTTCGGTCATTTTACCCATCA
1 AGGGTATTT-AGTCATTTTACCCT-TCGAGGGTATTTCGATCATTTTACCCTTCA
*
15387452 AGGGTGATTCAGTCATTTTACCCTTCG-GGGTA
1 AGGGT-ATTTAGTCATTTTACCCTTCGAGGGTA
15387484 AGACGGTTTT
Statistics
Matches: 303, Mismatches: 36, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
52 1 0.00
53 59 0.19
54 232 0.77
55 11 0.04
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (53 bp):
AGGGTATTTAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCA
Found at i:15387172 original size:81 final size:81
Alignment explanation
Indices: 15387060--15387473 Score: 411
Period size: 81 Copynumber: 5.1 Consensus size: 81
15387050 GATATAAAAT
* *
15387060 TCATTTTACACTAT-GAGGGTATTT-TAGTCATTTTACCCTTCGAGGGTATTTTGATCATTTTAC
1 TCATTTTAC-CTATCGAGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
*
15387123 CCTTTAAGCGTATTTCGA
64 CCTTTAAGGGTATTTCGA
*
15387141 TCATTTTACCTTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
1 TCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
* *
15387206 TTCAGGGGTATTTC-A
66 TTTAAGGGTATTTCGA
* * *
15387221 GTCCTTTTACCCTATGGA-GGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGATCATTTTAC
1 -TCATTTTA-CCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
* *
15387285 CCTTT-AGGAGTAATTCAA
64 CCTTTAAGG-GTATTTCGA
* * * * * * **
15387303 TCATTTTACCCATCAAGGGTATTTCGGTTATTTTACACTTCAAGGGTATTTTAATCATTTTA-CC
1 TCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
* *
15387367 TTTCGAGGGTATTTCGG
66 TTT-AAGGGTATTTCGA
* * *
15387384 TCATTTTACCCT-TCAAGGGTATTTC-ATTCA-TTTACCCTAT-GAAGGTATTTCGGTCATTTTA
1 TCATTTTA-CCTATCGAGGGTATTTCGA-TCATTTTACCCT-TCGAGGGTATTTCGATCATTTTA
* *
15387445 CCCATCAAGGGTGA-TTC-A
63 CCCTTTAAGGGT-ATTTCGA
15387463 GTCATTTTACC
1 -TCATTTTACC
15387474 CTTCGGGGTA
Statistics
Matches: 278, Mismatches: 40, Indels: 32
0.79 0.11 0.09
Matches are distributed among these distances:
79 2 0.01
80 55 0.20
81 208 0.75
82 13 0.05
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (81 bp):
TCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
TTTAAGGGTATTTCGA
Found at i:15390646 original size:25 final size:25
Alignment explanation
Indices: 15390613--15390670 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
15390603 GTTCTGACCC
*
15390613 ACAATTCGTGAGAGCATACCAATTT
1 ACAACTCGTGAGAGCATACCAATTT
* *
15390638 ACAACTCGTGTGAGCATACCGATTT
1 ACAACTCGTGAGAGCATACCAATTT
15390663 ACAACTCG
1 ACAACTCG
15390671 AATGAGCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (25 bp):
ACAACTCGTGAGAGCATACCAATTT
Found at i:15390676 original size:25 final size:25
Alignment explanation
Indices: 15390624--15390681 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
15390614 CAATTCGTGA
**
15390624 GAGCATACCAATTTACAACTCGTGT
1 GAGCATACCAATTTACAACTCGAAT
*
15390649 GAGCATACCGATTTACAACTCGAAT
1 GAGCATACCAATTTACAACTCGAAT
15390674 GAGCATAC
1 GAGCATAC
15390682 ATCTATAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (25 bp):
GAGCATACCAATTTACAACTCGAAT
Found at i:15396675 original size:32 final size:32
Alignment explanation
Indices: 15396614--15396678 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
15396604 CAGACGAGTA
* **
15396614 GTCTAAGCCTTTTCTTTATCTGACCTTTCAGG
1 GTCTAAGCCTTTTCTTTATCTAAAATTTCAGG
*
15396646 GTCTGAGCCTTTTCTTTATCTAAAATTTCAGG
1 GTCTAAGCCTTTTCTTTATCTAAAATTTCAGG
15396678 G
1 G
15396679 CAATCTCTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (32 bp):
GTCTAAGCCTTTTCTTTATCTAAAATTTCAGG
Found at i:15407896 original size:6 final size:6
Alignment explanation
Indices: 15407882--15407920 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
15407872 TAGGTTTCCA
*
15407882 AAATGG AAATTG AAATGG AAATGG AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAA
15407921 GGATTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.28, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:15408105 original size:25 final size:26
Alignment explanation
Indices: 15408070--15408124 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
15408060 TATTTTCTCG
*
15408070 AAATTTGACTAGGGGTAAAATTGTC-
1 AAATTTGACTAGGGGTAAAATCGTCT
*
15408095 AAATTTTACTAGGGGTAAAATCGTCT
1 AAATTTGACTAGGGGTAAAATCGTCT
15408121 AAAT
1 AAAT
15408125 ATAGAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (26 bp):
AAATTTGACTAGGGGTAAAATCGTCT
Found at i:15409715 original size:30 final size:29
Alignment explanation
Indices: 15409671--15409730 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
15409661 ATAACATAGA
*
15409671 GTAAGAACAAATTCTTAGTAAGTTCATGT
1 GTAAGAAAAAATTCTTAGTAAGTTCATGT
15409700 GTAAGAATAAAATTCTTAGTAAGTTCATGT
1 GTAAGAA-AAAATTCTTAGTAAGTTCATGT
15409730 G
1 G
15409731 ATGTAAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.35
Consensus pattern (29 bp):
GTAAGAAAAAATTCTTAGTAAGTTCATGT
Found at i:15411268 original size:24 final size:25
Alignment explanation
Indices: 15411233--15411310 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 25
15411223 CATCTTGTGA
*
15411233 GAGCTTACCGATTT-TAGCTCATAT
1 GAGCTTACCGATTTACAGCTCATAT
* *
15411257 GAGCTTATCGATTTACAGCTCATAA
1 GAGCTTACCGATTTACAGCTCATAT
* * * * *
15411282 GACCATACCGATTCATAGCTCGTAT
1 GAGCTTACCGATTTACAGCTCATAT
15411307 GAGC
1 GAGC
15411311 ATACATGTAC
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 13 0.31
25 29 0.69
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGATTTACAGCTCATAT
Found at i:15415691 original size:24 final size:24
Alignment explanation
Indices: 15415658--15415713 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
15415648 TAAAATTGCC
15415658 AAAGCATGTCATGCACATATGAGA
1 AAAGCATGTCATGCACATATGAGA
* *
15415682 TAAGCATGTCTTGCACATATGAGA
1 AAAGCATGTCATGCACATATGAGA
15415706 AAAGCATG
1 AAAGCATG
15415714 CCATATAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (24 bp):
AAAGCATGTCATGCACATATGAGA
Found at i:15426083 original size:29 final size:29
Alignment explanation
Indices: 15426040--15426098 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
15426030 ACGAGCTTAT
*
15426040 TTTCCCTGCAAATTTTTATGTGATCAAAA
1 TTTCCCTACAAATTTTTATGTGATCAAAA
*
15426069 TTTCCCTACAGATTTTTATGTGATCAAAA
1 TTTCCCTACAAATTTTTATGTGATCAAAA
15426098 T
1 T
15426099 GGAGGAGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (29 bp):
TTTCCCTACAAATTTTTATGTGATCAAAA
Found at i:15429388 original size:17 final size:17
Alignment explanation
Indices: 15429362--15429425 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 17
15429352 GGCAACCCAA
15429362 TTTTTA-TTTTTATTAT
1 TTTTTATTTTTTATTAT
*
15429378 TTTTTATTTTTTCTTTACT
1 TTTTTATTTTTT-ATTA-T
*
15429397 TTATTTATTACTTTATT-T
1 TT-TTTATT-TTTTATTAT
15429415 TATTTTATTTT
1 T-TTTTATTTT
15429426 ACTTATTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
16 6 0.16
17 6 0.16
18 11 0.29
19 4 0.11
20 8 0.21
21 3 0.08
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTTATTAT
Found at i:15429404 original size:27 final size:25
Alignment explanation
Indices: 15429370--15429433 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
15429360 AATTTTTATT
*
15429370 TTTATTATTTTTTATTTTTTCTTTAC
1 TTTATTATTTTTTATTTTAT-TTTAC
* *
15429396 TTTATTTATTACTTTATTTTATTTTAT
1 TTTA-TTATT-TTTTATTTTATTTTAC
15429423 TTTACTTATTT
1 TTTA-TTATTT
15429434 GGATATTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 4 0.13
27 18 0.58
28 9 0.29
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTATTATTTTTTATTTTATTTTAC
Found at i:15429747 original size:22 final size:21
Alignment explanation
Indices: 15429694--15429753 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
15429684 TATTACTATC
*
15429694 ATTTTCTGCT-GTGATTTTGATT
1 ATTTT-TGCTGGTG-TTGTGATT
*
15429716 ATTTTTGCTGTTGTTGTGATT
1 ATTTTTGCTGGTGTTGTGATT
15429737 ATTTTTGGCTGGTGTTG
1 ATTTTT-GCTGGTGTTG
15429754 CTTCTTGAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.10, C:0.07, G:0.25, T:0.58
Consensus pattern (21 bp):
ATTTTTGCTGGTGTTGTGATT
Found at i:15433219 original size:13 final size:13
Alignment explanation
Indices: 15433201--15433232 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15433191 GTCGTATAAT
*
15433201 AATTTTGTTGAGA
1 AATTTTGTTAAGA
15433214 AATTTTGTTAAGA
1 AATTTTGTTAAGA
15433227 AATTTT
1 AATTTT
15433233 CACGTTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (13 bp):
AATTTTGTTAAGA
Found at i:15441855 original size:38 final size:38
Alignment explanation
Indices: 15441791--15441878 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
15441781 AAAACCATCA
*
15441791 AAAATTAAAAATGTCCAATGTCCAAGTCCAATTACAACC
1 AAAATT-AAATTGTCCAATGTCCAAGTCCAATTACAACC
* *
15441830 AAAATTAAATTGTCCGATGTTCAAGTCCAATTACAACC
1 AAAATTAAATTGTCCAATGTCCAAGTCCAATTACAACC
15441868 AAAATTAAATT
1 AAAATTAAATT
15441879 AAGTCTCGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 40 0.87
39 6 0.13
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.27
Consensus pattern (38 bp):
AAAATTAAATTGTCCAATGTCCAAGTCCAATTACAACC
Found at i:15443857 original size:15 final size:15
Alignment explanation
Indices: 15443834--15443863 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15443824 TTATCATTAT
*
15443834 TCATTAAAATTAAGA
1 TCATAAAAATTAAGA
15443849 TCATAAAAATTAAGA
1 TCATAAAAATTAAGA
15443864 GTTTATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (15 bp):
TCATAAAAATTAAGA
Found at i:15444965 original size:25 final size:26
Alignment explanation
Indices: 15444931--15444979 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
15444921 GGTCCCCACT
* *
15444931 TGGAGATGAATGG-AGTGGTACAAAA
1 TGGAAATGAATGGCAATGGTACAAAA
15444956 TGGAAATGAATGGCAATGGTACAA
1 TGGAAATGAATGGCAATGGTACAA
15444980 GATCTCATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (26 bp):
TGGAAATGAATGGCAATGGTACAAAA
Found at i:15456647 original size:17 final size:17
Alignment explanation
Indices: 15456622--15456674 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
15456612 AAATCTCAGA
15456622 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
* *
15456639 TTTTTATACCTATATCT
1 TTTTGATACCCATATCT
*
15456656 TTCTGATACCCATATCT
1 TTTTGATACCCATATCT
15456673 TT
1 TT
15456675 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.51
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:15457763 original size:11 final size:11
Alignment explanation
Indices: 15457747--15457778 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
15457737 CTTAGATGCT
15457747 ATCAACATATC
1 ATCAACATATC
15457758 ATCAACATATC
1 ATCAACATATC
15457769 ATCAACATAT
1 ATCAACATAT
15457779 AAGAGCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (11 bp):
ATCAACATATC
Found at i:15461280 original size:17 final size:17
Alignment explanation
Indices: 15461258--15461307 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
15461248 TCTCAAATTT
15461258 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
**
15461275 TGATACTTATATCTTTC
1 TGATACCCATATCTTTC
15461292 TGATACCCATATCTTT
1 TGATACCCATATCTTT
15461308 GACTTTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.46
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:15462806 original size:19 final size:21
Alignment explanation
Indices: 15462762--15462806 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 21
15462752 TTACCCAAAA
* *
15462762 CTCCCAAACTTCTTTACTTTC
1 CTCCCAAAATTCTTTACTTCC
15462783 C-CCCAAAATT-TTTAC-TCC
1 CTCCCAAAATTCTTTACTTCC
15462801 CTCCCA
1 CTCCCA
15462807 CTTTTCCCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 3 0.14
19 9 0.43
20 8 0.38
21 1 0.05
ACGTcount: A:0.22, C:0.42, G:0.00, T:0.36
Consensus pattern (21 bp):
CTCCCAAAATTCTTTACTTCC
Found at i:15462820 original size:30 final size:31
Alignment explanation
Indices: 15462779--15462837 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
15462769 ACTTCTTTAC
*
15462779 TTTCCCCCAAAATTTTTACTCC-CTCCCACT
1 TTTCCCCCAAAACTTTTACTCCACTCCCACT
* *
15462809 TTTCCCGCAAAACTTTTATTCCACTCCCA
1 TTTCCCCCAAAACTTTTACTCCACTCCCA
15462838 TCCCACCCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.22, C:0.41, G:0.02, T:0.36
Consensus pattern (31 bp):
TTTCCCCCAAAACTTTTACTCCACTCCCACT
Found at i:15476045 original size:27 final size:28
Alignment explanation
Indices: 15476003--15476057 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
15475993 AGATGTAGGA
*
15476003 AAAAGTGATTTGACCATGGACATTGAGG
1 AAAAGTGAGTTGACCATGGACATTGAGG
15476031 AAAAG-GAGTTGACCATGGACATTGAGG
1 AAAAGTGAGTTGACCATGGACATTGAGG
15476058 GGAAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (28 bp):
AAAAGTGAGTTGACCATGGACATTGAGG
Found at i:15487806 original size:33 final size:33
Alignment explanation
Indices: 15487763--15487828 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
15487753 ACATGCAAAA
* *
15487763 ACAGTCTGGGCCTGAGCCCTA-TTCAGTAATAGT
1 ACAGTCTGGGCCTAAGCCC-AGTACAGTAATAGT
*
15487796 ACAGTGTGGGCCTAAGCCCAGTACAGTAATAGT
1 ACAGTCTGGGCCTAAGCCCAGTACAGTAATAGT
15487829 GAGTGGGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (33 bp):
ACAGTCTGGGCCTAAGCCCAGTACAGTAATAGT
Found at i:15488235 original size:27 final size:27
Alignment explanation
Indices: 15488215--15488519 Score: 371
Period size: 27 Copynumber: 11.3 Consensus size: 27
15488205 GGTATAACAA
* **
15488215 TCATTTTACCCTTCGAAGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
15488242 TCATTTTACCCTTCGAAGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAG
* *
15488269 TCATTTTAACCTTCGAGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCAG
* * *
15488296 TCATTTTACCCTTCAAGGATATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCAG
**
15488323 TCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCAG
* *
15488350 TTATTTTACCCTTCGGGGGTATTTC-G
1 TCATTTTACCCTTCGAGGGTATTTCAG
* *
15488376 ATCATTTTACCCTTCGAGGGCATTTTAG
1 -TCATTTTACCCTTCGAGGGTATTTCAG
* * *
15488404 TTATTTTACCCTTCAAGGGTATTT-TG
1 TCATTTTACCCTTCGAGGGTATTTCAG
15488430 ATCATTTTACCCTTCGAGGGTATTTCAG
1 -TCATTTTACCCTTCGAGGGTATTTCAG
*
15488458 TCATTTTACCCTTTGAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAG
** *
15488485 TCATTTTACCCTTTAAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
15488512 TTATTTTA
1 TCATTTTA
15488520 GGCCCAGTAC
Statistics
Matches: 243, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 239 0.98
28 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCAG
Found at i:15491181 original size:39 final size:39
Alignment explanation
Indices: 15491138--15491236 Score: 144
Period size: 39 Copynumber: 2.5 Consensus size: 39
15491128 CACGTTCACT
*
15491138 TTTAAGCATATATCACATTACACATATAATCACATAAAA
1 TTTAAGCATATATCACAATACACATATAATCACATAAAA
* * * *
15491177 TTTAAGCATATATAACAATACTCATATATTCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAAAA
*
15491216 TTCAAGCATATATCACAATAC
1 TTTAAGCATATATCACAATAC
15491237 TTAAAAACAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACACATATAATCACATAAAA
Found at i:15495162 original size:24 final size:24
Alignment explanation
Indices: 15495135--15495182 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
15495125 CATTTAGAGA
15495135 ATTATGTGTTTACGTTTAAAGGGT
1 ATTATGTGTTTACGTTTAAAGGGT
15495159 ATTATGTGTTTACGTTTAAAGGGT
1 ATTATGTGTTTACGTTTAAAGGGT
15495183 TCTTTGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (24 bp):
ATTATGTGTTTACGTTTAAAGGGT
Found at i:15497686 original size:42 final size:42
Alignment explanation
Indices: 15497571--15497686 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
15497561 ATATACCAAC
* * *
15497571 ACACAT-AGTGCACCATC-GAACAAACCAAATCAAATATAATG
1 ACACATAAGTGCATCATCGGAA-GAACCAAAGCAAATATAATG
* *
15497612 ACACATAAGTGCATCATCGGAAGAACCTAAGCAAATATATTAG
1 ACACATAAGTGCATCATCGGAAGAACCAAAGCAAATATAAT-G
* *
15497655 A-ACATAAGTGCATCATCGGATGAATCAAAGCA
1 ACACATAAGTGCATCATCGGAAGAACCAAAGCA
15497687 TAAACCCACG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
41 6 0.09
42 53 0.83
43 5 0.08
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.19
Consensus pattern (42 bp):
ACACATAAGTGCATCATCGGAAGAACCAAAGCAAATATAATG
Found at i:15513926 original size:105 final size:105
Alignment explanation
Indices: 15513804--15514013 Score: 420
Period size: 105 Copynumber: 2.0 Consensus size: 105
15513794 TTGTCAAATC
15513804 ACCTTAAAATAGATGAATAAATTAACATTTGTTAACTTTGTTGACTTAACATATACGTAGCAATT
1 ACCTTAAAATAGATGAATAAATTAACATTTGTTAACTTTGTTGACTTAACATATACGTAGCAATT
15513869 AATTAATTTTTACAACATTTAAATTTATAAAAAATATTTT
66 AATTAATTTTTACAACATTTAAATTTATAAAAAATATTTT
15513909 ACCTTAAAATAGATGAATAAATTAACATTTGTTAACTTTGTTGACTTAACATATACGTAGCAATT
1 ACCTTAAAATAGATGAATAAATTAACATTTGTTAACTTTGTTGACTTAACATATACGTAGCAATT
15513974 AATTAATTTTTACAACATTTAAATTTATAAAAAATATTTT
66 AATTAATTTTTACAACATTTAAATTTATAAAAAATATTTT
15514014 TATAATTTTA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.41
Consensus pattern (105 bp):
ACCTTAAAATAGATGAATAAATTAACATTTGTTAACTTTGTTGACTTAACATATACGTAGCAATT
AATTAATTTTTACAACATTTAAATTTATAAAAAATATTTT
Found at i:15514027 original size:15 final size:15
Alignment explanation
Indices: 15514009--15514037 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15513999 TATAAAAAAT
15514009 ATTTTTATAATTTTA
1 ATTTTTATAATTTTA
15514024 ATTTTTATAATTTT
1 ATTTTTATAATTTT
15514038 CTTAAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTATAATTTTA
Found at i:15523193 original size:11 final size:11
Alignment explanation
Indices: 15523162--15523245 Score: 72
Period size: 12 Copynumber: 7.9 Consensus size: 11
15523152 GGCCCATTTT
15523162 TATTTTAAAAA
1 TATTTTAAAAA
15523173 T-TTTTAAAAA
1 TATTTTAAAAA
15523183 GTATTTTAAAAA
1 -TATTTTAAAAA
15523195 TATTTT--AAA
1 TATTTTAAAAA
15523204 -A--TTAAAAA
1 TATTTTAAAAA
* **
15523212 AATTAAAAAAAA
1 TATT-TTAAAAA
15523224 GTATTTTAAAAA
1 -TATTTTAAAAA
15523236 TATTTTAAAA
1 TATTTTAAAA
15523246 TTAAAAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
6 2 0.03
8 4 0.07
9 4 0.07
10 9 0.15
11 18 0.31
12 19 0.32
13 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:15523225 original size:41 final size:39
Alignment explanation
Indices: 15523178--15523296 Score: 175
Period size: 40 Copynumber: 2.9 Consensus size: 39
15523168 AAAAATTTTT
15523178 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATT--A
15523219 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATTA
1 AAAAAGTATTTTAAAAATATTTTAAAATT-AAAAAAATTA
* * *
15523259 AAAAAGTATGTAAAAAATATTTTAAAATTTTAAAAAAT
1 AAAAAGTATTTTAAAAATATTTTAAAA-TTAAAAAAAT
15523297 AAATATATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
40 33 0.45
41 31 0.42
42 9 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (39 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTA
Found at i:15529018 original size:18 final size:17
Alignment explanation
Indices: 15528997--15529035 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
15528987 TGTAATCCAT
15528997 TTTTGGGCTTGGTTTTGG
1 TTTTGGGCTTGGTTTT-G
**
15529015 TTTTGGTTTTGGTTTTG
1 TTTTGGGCTTGGTTTTG
15529032 TTTT
1 TTTT
15529036 CGGTTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.00, C:0.03, G:0.31, T:0.67
Consensus pattern (17 bp):
TTTTGGGCTTGGTTTTG
Found at i:15529048 original size:6 final size:6
Alignment explanation
Indices: 15529005--15529047 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
15528995 ATTTTTGGGC
15529005 TTGGTT TTGGTT TTGGTT TTGGTT TT-GTT TTCGGTT TT-GTT TT
1 TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT TT-GGTT TTGGTT TT
15529048 TCATTGCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 10 0.29
6 20 0.57
7 5 0.14
ACGTcount: A:0.00, C:0.02, G:0.28, T:0.70
Consensus pattern (6 bp):
TTGGTT
Done.