Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 38 of 202
Found at i:11177682 original size:184 final size:183
Alignment explanation
Indices: 11177369--11177720 Score: 515
Period size: 184 Copynumber: 1.9 Consensus size: 183
11177359 GTTGTGGAAT
** * * * *
11177369 GATGCTACATTATGCAGAATCATATACGTGATTTACCAACTTTTAGTTTCTTATCTATTTAAACT
1 GATGCTACATTATGCAGAATCATATACCCGATGTACCAACTTTCAGTTCCTTATATATTTAAACT
* * * *
11177434 CAGACTTTCATTTACATCAAAGTATATGAGTCACGCATGCATAGTTTATCATCCACTTAGGATTA
66 CAGACTTTCATTTACATCAAAGTATATGAGTCACACATACATAGTCTATCATCCACTCAGGATTA
*
11177499 AGGTATACCATATTATGAACATCACAAGTGAATAAATCCATAAACAAATATAG
131 AGGTATACCACATTATGAACATCACAAGTGAATAAATCCATAAACAAATATAG
* * *
11177552 GATGCTACATTATGCAGAACTCGTATACCCGATGTATCAACTTTCAGTTCCTTATATATTTGAAC
1 GATGCTACATTATGCAGAA-TCATATACCCGATGTACCAACTTTCAGTTCCTTATATATTTAAAC
** * *
11177617 TTGGGCTTTCATTTACATCAAAGTATATGAGTCACACATACATAGTCTGTCATCCACTCAGGATT
65 TCAGACTTTCATTTACATCAAAGTATATGAGTCACACATACATAGTCTATCATCCACTCAGGATT
**
11177682 AAGGTATGTCACATTATGAACATCACAAGTGAATAAATC
130 AAGGTATACCACATTATGAACATCACAAGTGAATAAATC
11177721 TTAAATCCAT
Statistics
Matches: 148, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
183 19 0.13
184 129 0.87
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (183 bp):
GATGCTACATTATGCAGAATCATATACCCGATGTACCAACTTTCAGTTCCTTATATATTTAAACT
CAGACTTTCATTTACATCAAAGTATATGAGTCACACATACATAGTCTATCATCCACTCAGGATTA
AGGTATACCACATTATGAACATCACAAGTGAATAAATCCATAAACAAATATAG
Found at i:11181153 original size:24 final size:24
Alignment explanation
Indices: 11181100--11181153 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
11181090 ATAATGCATT
11181100 TGAAGATGAACACGACGGTAAAGA
1 TGAAGATGAACACGACGGTAAAGA
* * *
11181124 TAAAGATGAACACGATGGTAAAGG
1 TGAAGATGAACACGACGGTAAAGA
11181148 TGAAGA
1 TGAAGA
11181154 CAAAAAAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.09, G:0.30, T:0.15
Consensus pattern (24 bp):
TGAAGATGAACACGACGGTAAAGA
Found at i:11182482 original size:16 final size:15
Alignment explanation
Indices: 11182461--11182490 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11182451 CTAAAACTTT
11182461 AAAAAATTATAATTAA
1 AAAAAATTA-AATTAA
11182477 AAAAAATTAAATTA
1 AAAAAATTAAATTA
11182491 TATATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAAATTAAATTAA
Found at i:11190177 original size:31 final size:31
Alignment explanation
Indices: 11190139--11190211 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
11190129 TGTTTGGTTT
* *
11190139 AGGTACCAAATTGAATATTGAAACC-AAATTC
1 AGGTACCAAATTGAACATTG-AACCTAAACTC
*
11190170 AGGTACCAATTTGAACATTGAACCTAAACTC
1 AGGTACCAAATTGAACATTGAACCTAAACTC
*
11190201 AAGTACCAAAT
1 AGGTACCAAAT
11190212 AGTATATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (31 bp):
AGGTACCAAATTGAACATTGAACCTAAACTC
Found at i:11192398 original size:15 final size:17
Alignment explanation
Indices: 11192370--11192401 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
11192360 CGCCGCTGCT
11192370 GCACACACAGCCGCCGC
1 GCACACACAGCCGCCGC
11192387 GCACAC-CA-CCGCCGC
1 GCACACACAGCCGCCGC
11192402 CCCTACTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.22, C:0.56, G:0.22, T:0.00
Consensus pattern (17 bp):
GCACACACAGCCGCCGC
Found at i:11192400 original size:18 final size:18
Alignment explanation
Indices: 11192349--11192402 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
11192339 CATCCTGTGA
* *
11192349 CGCACCACCAGCGCCGCTG
1 CGCA-CACCACCGCCGCCG
*
11192368 CTGCACA-CACAGCCGCCG
1 C-GCACACCACCGCCGCCG
11192386 CGCACACCACCGCCGCC
1 CGCACACCACCGCCGCC
11192403 CCTACTGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 5 0.17
18 18 0.62
19 3 0.10
20 3 0.10
ACGTcount: A:0.19, C:0.56, G:0.22, T:0.04
Consensus pattern (18 bp):
CGCACACCACCGCCGCCG
Found at i:11199094 original size:138 final size:138
Alignment explanation
Indices: 11198918--11199177 Score: 475
Period size: 138 Copynumber: 1.9 Consensus size: 138
11198908 GAAAAAGGAA
* *
11198918 AATTGCTGATTAGACTTTGAACTTTTACTATCTATGCAATCTAACCCTAGTAAGTTTGTACAGTT
1 AATTGCTGATTAGACCTTGAACTTTTACTATCTATGCAATCTAACCCTAGTAAGTTCGTACAGTT
11198983 TAAATTAGAATAATTTGTAATGTTATATTTGACTTGTGGATTATGATTTGTTGAATAATCAGCAA
66 TAAATTAGAATAATTTGTAATGTTATATTTGACTTGTGGATTATGATTTGTTGAATAATCAGCAA
11199048 TTACAAAT
131 TTACAAAT
* * *
11199056 AATTGCTGATTAGACCTTGAACTTTTACTATCTCTGCAATCTAACCCTTGTAAGTTCGTACGGTT
1 AATTGCTGATTAGACCTTGAACTTTTACTATCTATGCAATCTAACCCTAGTAAGTTCGTACAGTT
11199121 TAAATTAGAATAATTTGTAATGTTATATTTGACTTGTGGATTATGATTTGTTGAATA
66 TAAATTAGAATAATTTGTAATGTTATATTTGACTTGTGGATTATGATTTGTTGAATA
11199178 TTCGTATTTT
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 117 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (138 bp):
AATTGCTGATTAGACCTTGAACTTTTACTATCTATGCAATCTAACCCTAGTAAGTTCGTACAGTT
TAAATTAGAATAATTTGTAATGTTATATTTGACTTGTGGATTATGATTTGTTGAATAATCAGCAA
TTACAAAT
Found at i:11201689 original size:25 final size:25
Alignment explanation
Indices: 11201660--11201719 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
11201650 AGAAAAATAT
11201660 GTATTGGGTTGGATTGAATCATAAA
1 GTATTGGGTTGGATTGAATCATAAA
*
11201685 GTATTGGGTTGGATTGAATTATAAA
1 GTATTGGGTTGGATTGAATCATAAA
11201710 GTATTGGGTT
1 GTATTGGGTT
11201720 AAAAGTACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.28, C:0.02, G:0.30, T:0.40
Consensus pattern (25 bp):
GTATTGGGTTGGATTGAATCATAAA
Found at i:11202624 original size:70 final size:70
Alignment explanation
Indices: 11202430--11202627 Score: 254
Period size: 70 Copynumber: 2.8 Consensus size: 70
11202420 ATATATCGAT
* * * *
11202430 AATCTCTACTAAT-TTAAAGCCCTGATTGAGTTTCGTGTCACTAGTCAAGTGAGACCAACTCAAT
1 AATCTCTACTAATATTAAAGCCCTGATTGAGTTTGGTATCACAAGTCAAGTGACACCAACTCAAT
11202494 TAATA
66 TAATA
* * * *
11202499 AATCTCTACTAATATTAAAGCCCTGATTAAGTTTGATATCACAAGTCAAGAGACACCAACTTAAT
1 AATCTCTACTAATATTAAAGCCCTGATTGAGTTTGGTATCACAAGTCAAGTGACACCAACTCAAT
11202564 TAATA
66 TAATA
* * * * ** *
11202569 AATCTCTACTAATATTAAGGCCTTGACTGAGTTTGGTATTAGGAGTTAAGTGACACCAA
1 AATCTCTACTAATATTAAAGCCCTGATTGAGTTTGGTATCACAAGTCAAGTGACACCAA
11202628 TTCAGTTGAT
Statistics
Matches: 110, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
69 13 0.12
70 97 0.88
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (70 bp):
AATCTCTACTAATATTAAAGCCCTGATTGAGTTTGGTATCACAAGTCAAGTGACACCAACTCAAT
TAATA
Found at i:11212610 original size:19 final size:19
Alignment explanation
Indices: 11212583--11212643 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
11212573 GTTAACCTAA
11212583 CTCTCGAAAAGTGAAAATT
1 CTCTCGAAAAGTGAAAATT
*
11212602 CTCTTGAAAA-T---AA--
1 CTCTCGAAAAGTGAAAATT
11212615 CTCTCGAAAAGTGAAAATT
1 CTCTCGAAAAGTGAAAATT
*
11212634 CTCTTGAAAA
1 CTCTCGAAAA
11212644 TACTTTATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
13 9 0.27
14 1 0.03
15 2 0.06
17 2 0.06
18 1 0.03
19 18 0.55
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (19 bp):
CTCTCGAAAAGTGAAAATT
Found at i:11212621 original size:32 final size:32
Alignment explanation
Indices: 11212580--11212645 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
11212570 TAAGTTAACC
11212580 TAACTCTCGAAAAGTGAAAATTCTCTTGAAAA
1 TAACTCTCGAAAAGTGAAAATTCTCTTGAAAA
11212612 TAACTCTCGAAAAGTGAAAATTCTCTTGAAAA
1 TAACTCTCGAAAAGTGAAAATTCTCTTGAAAA
11212644 TA
1 TA
11212646 CTTTATGGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (32 bp):
TAACTCTCGAAAAGTGAAAATTCTCTTGAAAA
Found at i:11218057 original size:24 final size:24
Alignment explanation
Indices: 11218014--11218060 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
11218004 TAACCACATC
*
11218014 TTTAATTCTTTACATCAAATTTAG
1 TTTAATTCTTTAAATCAAATTTAG
11218038 TTTAATTCATTTAAAT-AAATTTA
1 TTTAATTC-TTTAAATCAAATTTA
11218061 TCGGTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTAATTCTTTAAATCAAATTTAG
Found at i:11224768 original size:91 final size:91
Alignment explanation
Indices: 11224607--11224814 Score: 294
Period size: 91 Copynumber: 2.3 Consensus size: 91
11224597 CGGACACTCC
* * * *
11224607 AATTTGTGGATGAACCACCAGTG-TTGCAAGTTAATATGTTGCCAGTAGGTTGTGAATGCACAAT
1 AATTTGTGGATAAACCACCAGTGTTTGCAAGTTAATACGCTGCCAGTAGGTTGTGAATACACAAT
*
11224671 AGGTTTGCAAATAAAAGCTGCCAGTA
66 AGGTTTGCAAATAAAAGCTGCCAATA
* *
11224697 AATTTGTGGATAAACCACCAGTGTTTGCAGGTTAATACGCTGCCAGTAGGTTGTGAATACATAA-
1 AATTTGTGGATAAACCACCAGTGTTTGCAAGTTAATACGCTGCCAGTAGGTTGTGAATACACAAT
* * *
11224761 CGTGTTTGTAGATAAAAGCTGCCAATA
66 AG-GTTTGCAAATAAAAGCTGCCAATA
*
11224788 AATTTGTGGGTAAACCACCAGTGTTTG
1 AATTTGTGGATAAACCACCAGTGTTTG
11224815 TAGATAAACT
Statistics
Matches: 105, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
90 23 0.22
91 82 0.78
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (91 bp):
AATTTGTGGATAAACCACCAGTGTTTGCAAGTTAATACGCTGCCAGTAGGTTGTGAATACACAAT
AGGTTTGCAAATAAAAGCTGCCAATA
Found at i:11224814 original size:46 final size:46
Alignment explanation
Indices: 11224681--11224822 Score: 146
Period size: 46 Copynumber: 3.1 Consensus size: 46
11224671 AGGTTTGCAA
*
11224681 ATAAAAGCTGCCAGTAAATTTGTGGATAAACCACCAGTGTTTGCAGG
1 ATAAAAGCTGCCAGTAAATTTGTGGATAAACCACCAGTGTTTGTA-G
* * ** * * * *
11224728 TTAATACGCTGCCAGT-AGGTTGTGAATACA-TAAC-GTGTTTGTAG
1 ATAA-AAGCTGCCAGTAAATTTGTGGATAAACCACCAGTGTTTGTAG
* *
11224772 ATAAAAGCTGCCAATAAATTTGTGGGTAAACCACCAGTGTTTGTAG
1 ATAAAAGCTGCCAGTAAATTTGTGGATAAACCACCAGTGTTTGTAG
11224818 ATAAA
1 ATAAA
11224823 CTACATTACT
Statistics
Matches: 72, Mismatches: 19, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
43 9 0.12
44 13 0.18
45 10 0.14
46 17 0.24
47 13 0.18
48 10 0.14
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (46 bp):
ATAAAAGCTGCCAGTAAATTTGTGGATAAACCACCAGTGTTTGTAG
Found at i:11227274 original size:21 final size:21
Alignment explanation
Indices: 11227218--11227280 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
11227208 TAAAAGTTAA
11227218 ATATAATAATTTTAATATTTT
1 ATATAATAATTTTAATATTTT
* * * **
11227239 TTACAAAAAAATTAAT-TTTAT
1 ATATAATAATTTTAATATTT-T
11227260 ATATAATAATTTTAATATTTT
1 ATATAATAATTTTAATATTTT
11227281 GAGGGTGTAA
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
20 3 0.10
21 24 0.80
22 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATAATAATTTTAATATTTT
Found at i:11228625 original size:15 final size:15
Alignment explanation
Indices: 11228587--11228618 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11228577 CAAGTTACAG
*
11228587 AAACCCAACTAGCCT
1 AAACCCAATTAGCCT
11228602 AAACCCAATTAGCCT
1 AAACCCAATTAGCCT
11228617 AA
1 AA
11228619 GCTCAATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.34, G:0.06, T:0.16
Consensus pattern (15 bp):
AAACCCAATTAGCCT
Found at i:11234631 original size:20 final size:20
Alignment explanation
Indices: 11234608--11234655 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
11234598 AGAAAAAATC
11234608 AAAATCAAAACAAAAAGAAGA
1 AAAATCAAAACAAAAAGAA-A
* * *
11234629 AAAA-GAAAAGAAAAATAAA
1 AAAATCAAAACAAAAAGAAA
11234648 AAAATCAA
1 AAAATCAA
11234656 GGTCAAAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.79, C:0.06, G:0.08, T:0.06
Consensus pattern (20 bp):
AAAATCAAAACAAAAAGAAA
Found at i:11234662 original size:46 final size:47
Alignment explanation
Indices: 11234600--11234690 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 47
11234590 GGAGCAAAAG
11234600 AAAAAATCAAAATCAAAACAAAAAGAAGAAAAAGA-A-AAGAAAAATA
1 AAAAAATCAAAATCAAAACAAAAAGAA-AAAAAGAGAGAAGAAAAATA
** ** *
11234646 AAAAAATCAAGGTCAAAATGAAAATAAAAAAAGAGAGAAGAAAAA
1 AAAAAATCAAAATCAAAACAAAAAGAAAAAAAGAGAGAAGAAAAA
11234691 AAGAAAAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
45 7 0.18
46 23 0.61
47 8 0.21
ACGTcount: A:0.75, C:0.05, G:0.12, T:0.08
Consensus pattern (47 bp):
AAAAAATCAAAATCAAAACAAAAAGAAAAAAAGAGAGAAGAAAAATA
Found at i:11234691 original size:15 final size:13
Alignment explanation
Indices: 11234660--11234703 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
11234650 AATCAAGGTC
* *
11234660 AAAATGAAAATAA
1 AAAAAGAAAAGAA
11234673 AAAAAGAGAGAAGAA
1 AAAAAGA-A-AAGAA
11234688 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
11234701 AAA
1 AAA
11234704 GAAAATGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 14 0.52
14 2 0.07
15 11 0.41
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:11235546 original size:13 final size:13
Alignment explanation
Indices: 11235530--11235554 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11235520 AAAAAGGGGG
11235530 GAAAAATGAAAAT
1 GAAAAATGAAAAT
11235543 GAAAAATGAAAA
1 GAAAAATGAAAA
11235555 AATGAAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GAAAAATGAAAAT
Found at i:11235548 original size:7 final size:7
Alignment explanation
Indices: 11235530--11235572 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
11235520 AAAAAGGGGG
11235530 GAAAAAT
1 GAAAAAT
11235537 G-AAAAT
1 GAAAAAT
11235543 GAAAAAT
1 GAAAAAT
11235550 GAAAAAAT
1 G-AAAAAT
11235558 GAAAAA-
1 GAAAAAT
11235564 GTAAAAAT
1 G-AAAAAT
11235572 G
1 G
11235573 GAGAGGCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.22
7 17 0.53
8 8 0.25
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
GAAAAAT
Found at i:11235558 original size:15 final size:14
Alignment explanation
Indices: 11235530--11235572 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
11235520 AAAAAGGGGG
11235530 GAAAAATG-AAAAT
1 GAAAAATGAAAAAT
11235543 GAAAAATGAAAAAAT
1 GAAAAATG-AAAAAT
11235558 GAAAAA-GTAAAAAT
1 GAAAAATG-AAAAAT
11235572 G
1 G
11235573 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.30
14 8 0.30
15 11 0.41
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (14 bp):
GAAAAATGAAAAAT
Found at i:11236976 original size:131 final size:131
Alignment explanation
Indices: 11236812--11237177 Score: 669
Period size: 131 Copynumber: 2.8 Consensus size: 131
11236802 TCGGTGAAAT
*
11236812 CACAAGTCCTATGTCCCTGACCAGCAGTAGAATAGGTTGGAAATTGCAGATCTTATCTCCCTAAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTATCTCCCTAAG
11236877 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
66 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
*
11236942 G
131 C
*
11236943 TACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTATCTCCCTAAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTATCTCCCTAAG
*
11237008 CAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
66 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
11237073 C
131 C
* * *
11237074 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAAATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTATCTCCCTAAG
11237139 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
66 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
11237178 AAGTGTAAGG
Statistics
Matches: 226, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 226 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (131 bp):
CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTATCTCCCTAAG
CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
C
Found at i:11237405 original size:44 final size:43
Alignment explanation
Indices: 11237293--11237673 Score: 137
Period size: 44 Copynumber: 8.7 Consensus size: 43
11237283 TCGCATCAGG
*
11237293 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGAAAACAAG
1 TCTTATCTCCCTGAAGTTG-AGTGGAGCAGACTGAGAAAACAAA
* * *
11237337 TCTTATC-CCCTTGAAGTCAGAGTGGGGTAGACT-A-AAGAAGCAAA
1 TCTTATCTCCC-TGAAGT-TGAGTGGAGCAGACTGAGAA-AA-CAAA
* * **
11237381 TCTTATCTCCCTGAGGTTGTAGTGGAGCAGA-T-TGAAGTCGATAA
1 TCTTATCTCCCTGAAGTTG-AGTGGAGCAGACTGAGAAAAC-A-AA
* * * * * *
11237425 TCCTCTCTCCCTGAAGTTGTAGTGGAGCGGA-TTA-AAGTAATAGA
1 TCTTATCTCCCTGAAGTTG-AGTGGAGCAGACTGAGAA--AACAAA
* * * *** *
11237469 TCTTATCTCTCTGAGGTT--GT--AGCAGAGTG-GATTGCATAGGG
1 TCTTATCTCCCTGAAGTTGAGTGGAGCAGACTGAGAAAACA-A--A
* * * *
11237510 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGAAAACGAG
1 TCTTATCTCCCTGAAGTT-GAGTGGAGCAGACTGAGAAAACAAA
* ** * *
11237554 TCTTATCCCCCCTGAAGTCACAGTGGGGCAGACTGA-AGAAGCAAA
1 TCTTAT-CTCCCTGAAGT-TGAGTGGAGCAGACTGAGA-AAACAAA
* * *
11237599 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-T-TGAAATCGATAA
1 TCTTATCTCCCTGAAGTTG-AGTGGAGCAGACTGAGAAAAC-A-AA
*
11237643 TCCTATCTCCCT-AAGGTTGTAGTGGAGCAGA
1 TCTTATCTCCCTGAA-GTTG-AGTGGAGCAGA
11237674 TTAAAGTAAT
Statistics
Matches: 249, Mismatches: 57, Indels: 62
0.68 0.15 0.17
Matches are distributed among these distances:
38 1 0.00
39 5 0.02
40 2 0.01
41 18 0.07
42 6 0.02
43 13 0.05
44 154 0.62
45 39 0.16
46 8 0.03
47 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGAGTGGAGCAGACTGAGAAAACAAA
Found at i:11237570 original size:45 final size:44
Alignment explanation
Indices: 11237509--11237634 Score: 146
Period size: 45 Copynumber: 2.8 Consensus size: 44
11237499 ATTGCATAGG
*
11237509 GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-AAGAAAACGA
1 GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAG-AAACAA
* * * *
11237553 GTCTTATCCCCCCTGAAGTCACAGTGGGGCAGACTGAAGAAGCAA
1 GTCTTAT-CTCCCTGAAGTTACAGTGGAGCAGACTGAAGAAACAA
* * * *
11237598 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAA
1 GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAA
11237635 ATCGATAATC
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 31 0.46
45 34 0.50
46 3 0.04
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (44 bp):
GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGAAACAA
Found at i:11237670 original size:218 final size:217
Alignment explanation
Indices: 11237189--11237967 Score: 925
Period size: 218 Copynumber: 3.6 Consensus size: 217
11237179 AGTGTAAGGA
* * *
11237189 AGCAGATTGAAGCCGATAATCCTATCTCTCTGAAGTTGTAGTGGAGTGGATTAAAGTAATAGATC
1 AGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* *
11237254 TTATCTCTTTGAAGTTGCAGCAGAGTGGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGTGGA
66 TTATCTCTCTGAAGTTGCAGCAGAGTGGATCGCATCAGGTCTTATCTCCCTGAAGTTACAGTGGA
* * * *
11237319 GCAGACTGAGAAAACAAGTCTTATCCCCTTGAAGTCAGAGTGGGGTAGACTAAAGAAGCAAATCT
131 GCAGACTAAGAAAACAAGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACTAAAGAAGCAAATCT
*
11237384 TATCTCCCTGAGGTTGTAGTGG
196 TATCTCCCTGAGGTTGCAGTGG
*
11237406 AGCAGATTGAAGTCGATAATCCTCTCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
1 AGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* * *
11237471 TTATCTCTCTGAGGTTGTAGCAGAGTGGATTGCAT-AGGGTCTTATCTCCCTGAAGTTACAGTGG
66 TTATCTCTCTGAAGTTGCAGCAGAGTGGATCGCATCA-GGTCTTATCTCCCTGAAGTTACAGTGG
* *
11237535 AGCAGACTAAGAAAACGAGTCTTATCCCCCCTGAAGTCACAGTGGGGCAGACTGAAGAAGCAAAT
130 AGCAGACTAAGAAAACAAGTCTTAT-CCCCCTGAAGTCACAGTGGGGCAGACTAAAGAAGCAAAT
11237600 CTTATCTCCCTGAGGTTGCAGTGG
194 CTTATCTCCCTGAGGTTGCAGTGG
* *
11237624 AGCAGATTGAAATCGATAATCCTATCTCCCT-AAGGTTGTAGTGGAGCAGATTAAAGTAATAGAT
1 AGCAGATTGAAGTCGATAATCCTATCTCCCTGAA-GTTGTAGTGGAGCGGATTAAAGTAATAGAT
* * * *
11237688 CTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGTTCTTATCTCCCTG-AGATTACAGTG
65 CTTATCTCTCTGAAGTTGCAGCAGAGTGGATCGCATCAGGTCTTATCTCCCTGAAG-TTACAGTG
** * ** * * * * * * * *
11237752 GAATAGACCGAAGATATTCAAATCTTATCTCACTG-AGATTACAGCGGAGCAGATTAAAGCCAG-
129 GAGCAGA-CTAAGA-AAACAAGTCTTATCCCCCTGAAG-TCACAGTGGGGCAGACTAAAG-AAGC
* * ** *
11237815 TAATCTTATCTCCCTGAGATTATAGTGA
190 AAATCTTATCTCCCTGAGGTTGCAGTGG
* * ** *
11237843 AGCAGATTGAAGCCAATAATCCTATC-CCCTG-AGATTACAGTGGAGAGGATT-AA--AAT-GAT
1 AGCAGATTGAAGTCGATAATCCTATCTCCCTGAAG-TTGTAGTGGAGCGGATTAAAGTAATAGAT
* * * * * *
11237902 CTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGACTTACCTCCCTG-AGATTACAGTG
65 CTTATCTCTCTGAAGTTGCAGCAGAGTGGATCGCATCAGGTCTTATCTCCCTGAAG-TTACAGTG
11237966 GA
129 GA
11237968 ATAGACCGAA
Statistics
Matches: 494, Mismatches: 57, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
214 65 0.13
215 3 0.01
216 1 0.00
217 148 0.30
218 193 0.39
219 73 0.15
220 11 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (217 bp):
AGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
TTATCTCTCTGAAGTTGCAGCAGAGTGGATCGCATCAGGTCTTATCTCCCTGAAGTTACAGTGGA
GCAGACTAAGAAAACAAGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACTAAAGAAGCAAATCT
TATCTCCCTGAGGTTGCAGTGG
Found at i:11237694 original size:44 final size:44
Alignment explanation
Indices: 11237380--11237695 Score: 163
Period size: 44 Copynumber: 7.2 Consensus size: 44
11237370 AAAGAAGCAA
* * *
11237380 ATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAGTCGATA-
1 ATCTTATCTCCCTAAGGTTGTAGTGGAGCAGATTAAAGT-AATAG
* * *
11237424 ATCCTCTCTCCCTGAA-GTTGTAGTGGAGCGGATTAAAGTAATAG
1 ATCTTATCTCCCT-AAGGTTGTAGTGGAGCAGATTAAAGTAATAG
* * ** ** *
11237468 ATCTTATCTCTCTGAGGTTGTAGCAGAGTGGATT---G-CATAGG
1 ATCTTATCTCCCTAAGGTTGTAGTGGAGCAGATTAAAGTAATA-G
* ** * *
11237509 GTCTTATCTCCCTGAA-GTTACAGTGGAGCAGACT-AAG-AAAACG
1 ATCTTATCTCCCT-AAGGTTGTAGTGGAGCAGATTAAAGTAATA-G
* *** * * * * *
11237552 AGTCTTATCCCCCCTGAA-GTCACAGTGGGGCAGACTGAAG-AAGCAA
1 A-TCTTAT-CTCCCT-AAGGTTGTAGTGGAGCAGATTAAAGTAA-TAG
* * *
11237598 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAA-TCGATA-
1 ATCTTATCTCCCTAAGGTTGTAGTGGAGCAGATT-AAAGT-AATAG
*
11237642 ATCCTATCTCCCTAAGGTTGTAGTGGAGCAGATTAAAGTAATAG
1 ATCTTATCTCCCTAAGGTTGTAGTGGAGCAGATTAAAGTAATAG
11237686 ATCTTATCTC
1 ATCTTATCTC
11237696 TCTGAAGTTA
Statistics
Matches: 208, Mismatches: 47, Indels: 34
0.72 0.16 0.12
Matches are distributed among these distances:
40 3 0.01
41 24 0.12
42 1 0.00
43 15 0.07
44 123 0.59
45 34 0.16
46 7 0.03
47 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGGTTGTAGTGGAGCAGATTAAAGTAATAG
Found at i:11237832 original size:44 final size:44
Alignment explanation
Indices: 11237597--11237896 Score: 193
Period size: 44 Copynumber: 6.9 Consensus size: 44
11237587 TGAAGAAGCA
* * * *
11237597 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAA-TCGAT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAGCCAAT
* * * ** *
11237641 AATCCTATCTCCCTAAGGTTGTAGTGGAGCAGATTAAAG-TAAT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCAAT
* * * *** * *
11237684 AGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TCAGT
1 A-ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAGCCAAT
** *** ** *
11237728 --TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGATATT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCAAT
* * *
11237770 CAAATCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCCAGT
1 --AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCAAT
* * *
11237816 AATCTTATCTCCCTGAGATTATAGTGAAGCAGATTGAAGCCAAT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCAAT
*
11237860 AATCCTATC-CCCTGAGATTACAGTGGAG-AGGATTAAA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCA-GATTAAA
11237897 ATGATCTTAT
Statistics
Matches: 199, Mismatches: 46, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
41 29 0.15
42 4 0.02
43 29 0.15
44 105 0.53
46 32 0.16
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCAAT
Found at i:11238414 original size:15 final size:15
Alignment explanation
Indices: 11238376--11238414 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
11238366 CAAGTTACAG
*
11238376 AAACCCAACTAGCCT
1 AAACCCAATTAGCCT
11238391 AAACCCAATTAGCCT
1 AAACCCAATTAGCCT
*
11238406 AAGCCCAAT
1 AAACCCAAT
11238415 ACCCTGGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.36, G:0.08, T:0.15
Consensus pattern (15 bp):
AAACCCAATTAGCCT
Found at i:11239850 original size:12 final size:12
Alignment explanation
Indices: 11239824--11239857 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11239814 CTATTGTCGT
11239824 TTTATTCA-ATA
1 TTTATTCATATA
*
11239835 TTTATTCATTTA
1 TTTATTCATATA
11239847 TTTATTCATAT
1 TTTATTCATAT
11239858 GTTCGTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATTCATATA
Found at i:11250415 original size:17 final size:17
Alignment explanation
Indices: 11250395--11250430 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
11250385 ATACATATAC
11250395 TTCCTAATGACATGTCA
1 TTCCTAATGACATGTCA
11250412 TTCCTAATGACATGTCA
1 TTCCTAATGACATGTCA
11250429 TT
1 TT
11250431 TGTATTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (17 bp):
TTCCTAATGACATGTCA
Found at i:11252238 original size:19 final size:19
Alignment explanation
Indices: 11252211--11252251 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
11252201 TGGCAAAAAG
*
11252211 AATGAGAAATGAAATTTGA
1 AATGAGAAATGAAATGTGA
*
11252230 AATGGGAAATGAAATGTGA
1 AATGAGAAATGAAATGTGA
11252249 AAT
1 AAT
11252252 TGTGGATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (19 bp):
AATGAGAAATGAAATGTGA
Found at i:11258645 original size:50 final size:50
Alignment explanation
Indices: 11258599--11258870 Score: 346
Period size: 50 Copynumber: 5.3 Consensus size: 50
11258589 TATCCCAAAT
* ** * * *
11258599 ATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
** *
11258649 ATGGTCTTACGGGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
11258699 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
11258749 ATTGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * * * *
11258799 ATGATCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGTCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTC---ATCTC---GGTGCCAACGCCATGTCCCAGAC
11258855 ATGGTCTTACATGGGA
1 ATGGTCTTACATGGGA
11258871 TCTCATTCCC
Statistics
Matches: 194, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 155 0.80
53 5 0.03
56 34 0.18
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:11272615 original size:33 final size:33
Alignment explanation
Indices: 11272571--11272643 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
11272561 CTTTGTTTGG
*
11272571 TGTGTTAGTTGGATTAGCTCGTATGAGCATTGA
1 TGTGTTGGTTGGATTAGCTCGTATGAGCATTGA
* *
11272604 TGTGTTGGTTGGATTAGCTCTTATGAGCATTGG
1 TGTGTTGGTTGGATTAGCTCGTATGAGCATTGA
11272637 TGTGTTG
1 TGTGTTG
11272644 AAGGGTTTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.16, C:0.08, G:0.33, T:0.42
Consensus pattern (33 bp):
TGTGTTGGTTGGATTAGCTCGTATGAGCATTGA
Found at i:11274298 original size:11 final size:11
Alignment explanation
Indices: 11274282--11274310 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
11274272 TGGGTGAAAG
11274282 AAATGGCTTGA
1 AAATGGCTTGA
11274293 AAATGGCTTGA
1 AAATGGCTTGA
11274304 AAATGGC
1 AAATGGC
11274311 CTATTTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.28, T:0.24
Consensus pattern (11 bp):
AAATGGCTTGA
Found at i:11276442 original size:10 final size:10
Alignment explanation
Indices: 11276415--11276447 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
11276405 ATTTTCCCAA
11276415 AAATCTTGAT
1 AAATCTTGAT
11276425 AAAT-TTGAT
1 AAATCTTGAT
11276434 AAATCTTGA-
1 AAATCTTGAT
11276443 AAATC
1 AAATC
11276448 GATAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (10 bp):
AAATCTTGAT
Found at i:11286475 original size:17 final size:19
Alignment explanation
Indices: 11286436--11286476 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
11286426 TCAAAACGAT
*
11286436 TAAAATCATAAAAATCATA
1 TAAAATCATAAAAATAATA
11286455 -AAAAT-ATAAAAA-AATA
1 TAAAATCATAAAAATAATA
11286471 TAAAAT
1 TAAAAT
11286477 TTATCAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 12 0.60
18 5 0.25
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAAATCATAAAAATAATA
Found at i:11286590 original size:9 final size:9
Alignment explanation
Indices: 11286437--11286675 Score: 90
Period size: 9 Copynumber: 24.7 Consensus size: 9
11286427 CAAAACGATT
*
11286437 AAAATCATA
1 AAAATTATA
*
11286446 AAAATCATA
1 AAAATTATA
11286455 AAAA-TATAA
1 AAAATTAT-A
*
11286464 AAAAATATA
1 AAAATTATA
*
11286473 AAATTTATCA
1 AAAATTAT-A
11286483 AGAAA-TATA
1 A-AAATTATA
*
11286492 AAAATCATTA
1 AAAATTA-TA
*
11286502 AATATTA-A
1 AAAATTATA
*
11286510 AAAATATATG
1 AAAAT-TATA
*
11286520 AACATTGATA
1 AAAATT-ATA
**
11286530 TAACCTTATA
1 -AAAATTATA
*
11286540 AATATTATA
1 AAAATTATA
*
11286549 AATATTATA
1 AAAATTATA
*
11286558 AATA-TATA
1 AAAATTATA
11286566 ATAAATTATTTAA
1 A-AAATTA--T-A
11286579 AAAATTATA
1 AAAATTATA
*
11286588 AAAATAATA
1 AAAATTATA
*
11286597 AAATATATGTA
1 AAA-AT-TATA
*
11286608 AAATTTTATA
1 AAA-ATTATA
11286618 AAAATTTATTA
1 AAAA-TTA-TA
*
11286629 AAATTCTATA
1 AAAAT-TATA
*
11286639 AAAATCATA
1 AAAATTATA
*
11286648 AAATTTATTAA
1 AAAATTA-T-A
11286659 AAAATTCATA
1 AAAATT-ATA
11286669 AAGAATT
1 AA-AATT
11286676 GGACCAAATC
Statistics
Matches: 179, Mismatches: 27, Indels: 46
0.71 0.11 0.18
Matches are distributed among these distances:
8 15 0.08
9 73 0.41
10 49 0.27
11 32 0.18
12 8 0.04
13 2 0.01
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:11286610 original size:30 final size:28
Alignment explanation
Indices: 11286552--11286622 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 28
11286542 TATTATAAAT
*
11286552 ATTATAAATATATAATAAATTATTTAAAAA
1 ATTATAAA-A-ATAATAAATTATGTAAAAA
*
11286582 ATTATAAAAATAATAAAATATATGTAAAAT
1 ATTATAAAAATAAT-AAAT-TATGTAAAAA
*
11286612 TTTATAAAAAT
1 ATTATAAAAAT
11286623 TTATTAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 5 0.14
29 5 0.14
30 26 0.72
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (28 bp):
ATTATAAAAATAATAAATTATGTAAAAA
Found at i:11286612 original size:40 final size:39
Alignment explanation
Indices: 11286535--11286632 Score: 94
Period size: 39 Copynumber: 2.5 Consensus size: 39
11286525 TGATATAACC
* * *
11286535 TTAT-AAATATTATAAATATTATAAATATATAATAAATT
1 TTATAAAAAATTATAAAAATAATAAATATATAATAAATT
*
11286573 ATT-TAAAAAATTATAAAAATAATAAA-ATATATGTAAAATT
1 -TTATAAAAAATTATAAAAATAATAAATATATA-AT-AAATT
* *
11286613 TTATAAAAATTTATTAAAAT
1 TTATAAAAAATTATAAAAAT
11286633 TCTATAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
38 6 0.12
39 23 0.47
40 20 0.41
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (39 bp):
TTATAAAAAATTATAAAAATAATAAATATATAATAAATT
Found at i:11286661 original size:11 final size:10
Alignment explanation
Indices: 11286557--11286675 Score: 64
Period size: 10 Copynumber: 11.5 Consensus size: 10
11286547 TAAATATTAT
*
11286557 AAATATATAA
1 AAATTTATAA
*
11286567 TAAATTATTTAA
1 -AAATT-TATAA
*
11286579 AAAATTATAA
1 AAATTTATAA
*
11286589 AAA-TAATAA
1 AAATTTATAA
* *
11286598 AATATATGTAA
1 AA-ATTTATAA
*
11286609 AATTTTATAA
1 AAATTTATAA
*
11286619 AAATTTATTA
1 AAATTTATAA
11286629 AAATTCTATAA
1 AAATT-TATAA
*
11286640 AAA-TCAT-A
1 AAATTTATAA
11286648 AAATTTATTAAA
1 AAATTTA-T-AA
*
11286660 AAATTCATAA
1 AAATTTATAA
11286670 AGAATT
1 A-AATT
11286676 GGACCAAATC
Statistics
Matches: 82, Mismatches: 17, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
8 4 0.05
9 11 0.13
10 31 0.38
11 25 0.30
12 11 0.13
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (10 bp):
AAATTTATAA
Found at i:11286821 original size:18 final size:17
Alignment explanation
Indices: 11286778--11286823 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
11286768 TGGTTGAACC
11286778 AATTTTT-TTTATTTTT
1 AATTTTTATTTATTTTT
* *
11286794 AATATATATTTATTTTTT
1 AATTTTTATTTA-TTTTT
11286812 AATTTTTATTTA
1 AATTTTTATTTA
11286824 ATTTAACTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 5 0.21
17 4 0.17
18 15 0.62
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
AATTTTTATTTATTTTT
Found at i:11287317 original size:31 final size:31
Alignment explanation
Indices: 11287259--11287319 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
11287249 TAAGTATTGT
* * **
11287259 TTATTTTTTGTAATTTTTTTCTCATTTTTTC
1 TTATTCTTTATAATTTTTTTAACATTTTTTC
*
11287290 TTATTCTTTATAATTTTTTTAAGATTTTTT
1 TTATTCTTTATAATTTTTTTAACATTTTTT
11287320 AATAATTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.72
Consensus pattern (31 bp):
TTATTCTTTATAATTTTTTTAACATTTTTTC
Found at i:11289431 original size:21 final size:21
Alignment explanation
Indices: 11289407--11289449 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11289397 TTAGGTTTAA
*
11289407 TTTG-ATTGATATTTATATATG
1 TTTGTATT-ATATATATATATG
*
11289428 TTTGTATTATGTATATATATG
1 TTTGTATTATATATATATATG
11289449 T
1 T
11289450 GTGCATTGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (21 bp):
TTTGTATTATATATATATATG
Found at i:11289801 original size:28 final size:29
Alignment explanation
Indices: 11289749--11289813 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
11289739 TTGTATCAGA
* *
11289749 CACTATGTGTTGGTGTTATATTTATCAAG
1 CACTATGTGTTCGTGTTATAATTATCAAG
*
11289778 CACTATGTG-TCGTGTTATAATTATCAGG
1 CACTATGTGTTCGTGTTATAATTATCAAG
*
11289806 TACTATGT
1 CACTATGT
11289814 ACCGATGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 23 0.72
29 9 0.28
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (29 bp):
CACTATGTGTTCGTGTTATAATTATCAAG
Found at i:11296640 original size:2 final size:2
Alignment explanation
Indices: 11296633--11296673 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
11296623 CATATAATTA
11296633 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11296674 GGATTACAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11298191 original size:42 final size:41
Alignment explanation
Indices: 11298085--11298218 Score: 151
Period size: 42 Copynumber: 3.1 Consensus size: 41
11298075 GTATCGTAAA
* *
11298085 AATGCTATATCCCAGATATGGTCTTACATGGAAATCTCATATC
1 AATGCCATATCCCAGATATGGTCTTACA--CAAATCTCATATC
* * *
11298128 GATGTCAATATCCCAGCTATGGTCTTACACAAAGTCTCATATC
1 AATG-CCATATCCCAGATATGGTCTTACACAAA-TCTCATATC
* * *
11298171 AATGCCATATCCCAGATATGGTCTTATACGAAATCTAAAATC
1 AATGCCATATCCCAGATATGGTCTTACAC-AAATCTCATATC
11298213 AATGCC
1 AATGCC
11298219 GATGCCATAT
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 38 0.49
43 18 0.23
44 22 0.28
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (41 bp):
AATGCCATATCCCAGATATGGTCTTACACAAATCTCATATC
Found at i:11298243 original size:48 final size:48
Alignment explanation
Indices: 11298172--11298359 Score: 236
Period size: 48 Copynumber: 3.9 Consensus size: 48
11298162 TCTCATATCA
* ** *
11298172 ATGCCATATCCCAGATATGGTCTTATACGAAATCTAAAATCAATGCCG
1 ATGCCATATCTCAGATATGGTCTTATACGGGATCTCAAATCAATGCCG
* * * *
11298220 ATGCCATATCTCAAATATGGTCTTATATGGGATCTCAAACCGATGCCG
1 ATGCCATATCTCAGATATGGTCTTATACGGGATCTCAAATCAATGCCG
* *
11298268 ATTCCATATC-CTAGATATGGTCTTATACGGGATCTCAAATCGA-GACCG
1 ATGCCATATCTC-AGATATGGTCTTATACGGGATCTCAAATCAATG-CCG
**
11298316 ATGTTATATCTCAGATATGGTCTTATACGGGATCTCAAATCAAT
1 ATGCCATATCTCAGATATGGTCTTATACGGGATCTCAAATCAAT
11298360 TCGACAATAT
Statistics
Matches: 120, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
47 2 0.02
48 117 0.98
49 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (48 bp):
ATGCCATATCTCAGATATGGTCTTATACGGGATCTCAAATCAATGCCG
Found at i:11298296 original size:96 final size:96
Alignment explanation
Indices: 11298175--11298354 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
11298165 CATATCAATG
11298175 CCATATCCCAGATATGGTCTTATACGAAATCTAAAATCAATG-CCGATGCCATATCTCAAATATG
1 CCATATCCCAGATATGGTCTTATACGAAATCTAAAATCAA-GACCGATGCCATATCTCAAATATG
*
11298239 GTCTTATATGGGATCTCAAACCGATGCCGATT
65 GTCTTATACGGGATCTCAAACCGATGCCGATT
* ** * * ** *
11298271 CCATATCCTAGATATGGTCTTATACGGGATCTCAAATCGAGACCGATGTTATATCTCAGATATGG
1 CCATATCCCAGATATGGTCTTATACGAAATCTAAAATCAAGACCGATGCCATATCTCAAATATGG
11298336 TCTTATACGGGATCTCAAA
66 TCTTATACGGGATCTCAAA
11298355 TCAATTCGAC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 73 0.99
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (96 bp):
CCATATCCCAGATATGGTCTTATACGAAATCTAAAATCAAGACCGATGCCATATCTCAAATATGG
TCTTATACGGGATCTCAAACCGATGCCGATT
Found at i:11298391 original size:36 final size:35
Alignment explanation
Indices: 11298350--11298452 Score: 106
Period size: 36 Copynumber: 3.0 Consensus size: 35
11298340 ATACGGGATC
11298350 TCAAATCAATTCGACAATATATATACATATACATA
1 TCAAATCAATTCGACAATATATATACATATACATA
* * * *
11298385 TACAAATCAAGTCGGCAATGTATAT--ATCTACATA
1 T-CAAATCAATTCGACAATATATATACATATACATA
*
11298419 T-AAATCAATTCAGA-AATATATAAAACATATACAT
1 TCAAATCAATTC-GACAATATAT-ATACATATACAT
11298453 TTGAATTCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
32 15 0.28
33 2 0.04
34 9 0.17
35 8 0.15
36 20 0.37
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.30
Consensus pattern (35 bp):
TCAAATCAATTCGACAATATATATACATATACATA
Found at i:11307012 original size:30 final size:31
Alignment explanation
Indices: 11306973--11307032 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
11306963 GGAGGTGAGA
*
11306973 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
11307004 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
11307033 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:11307260 original size:9 final size:9
Alignment explanation
Indices: 11307246--11307282 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
11307236 TATAGTTTGA
11307246 TATTCGAAT
1 TATTCGAAT
11307255 TATTCGAAT
1 TATTCGAAT
11307264 TATTC-AAGT
1 TATTCGAA-T
11307273 TATTCGAAT
1 TATTCGAAT
11307282 T
1 T
11307283 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11307354 original size:9 final size:9
Alignment explanation
Indices: 11307337--11307385 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
11307327 TCGAGTTGAT
11307337 TCGAATAAC
1 TCGAATAAC
*
11307346 TCGATTAAC
1 TCGAATAAC
11307355 TCGAATAAC
1 TCGAATAAC
*
11307364 TCGATTAAC
1 TCGAATAAC
11307373 TCGAATAAC
1 TCGAATAAC
11307382 TCGA
1 TCGA
11307386 TTCGTTTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (9 bp):
TCGAATAAC
Found at i:11307400 original size:23 final size:18
Alignment explanation
Indices: 11307337--11307387 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
11307327 TCGAGTTGAT
11307337 TCGAATAACTCGATTAAC
1 TCGAATAACTCGATTAAC
11307355 TCGAATAACTCGATTAAC
1 TCGAATAACTCGATTAAC
11307373 TCGAATAACTCGATT
1 TCGAATAACTCGATT
11307388 CGTTTAACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (18 bp):
TCGAATAACTCGATTAAC
Found at i:11312001 original size:13 final size:13
Alignment explanation
Indices: 11311983--11312010 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11311973 CTCCCCCTCA
11311983 GTCGGCCTAAGGG
1 GTCGGCCTAAGGG
11311996 GTCGGCCTAAGGG
1 GTCGGCCTAAGGG
11312009 GT
1 GT
11312011 GCTATAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.46, T:0.18
Consensus pattern (13 bp):
GTCGGCCTAAGGG
Found at i:11314062 original size:26 final size:26
Alignment explanation
Indices: 11314033--11314096 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
11314023 ACAGCTCCTA
* *
11314033 TGAGCGT-CCTACTATATGGCTCTTTG
1 TGAGCGTCCCGACTA-AAGGCTCTTTG
* *
11314059 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCGTCCCGACTAAAGGCTCTTTG
*
11314085 TGAGCTTCCCGA
1 TGAGCGTCCCGA
11314097 TATGCCTCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 28 0.85
27 5 0.15
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.34
Consensus pattern (26 bp):
TGAGCGTCCCGACTAAAGGCTCTTTG
Found at i:11314161 original size:24 final size:25
Alignment explanation
Indices: 11314047--11314171 Score: 98
Period size: 24 Copynumber: 5.1 Consensus size: 25
11314037 CGTCCTACTA
*
11314047 TATGGCTCTTTGTGAGCTTCCCGAT
1 TATGGCTCTTTATGAGCTTCCCGAT
* *
11314072 TAAAGGCTCTTTGTGAGCTTCCCGA-
1 T-ATGGCTCTTTATGAGCTTCCCGAT
* ** * *
11314097 TATGCCTCGCT-TGAACTTCCCAAT
1 TATGGCTCTTTATGAGCTTCCCGAT
* **
11314121 ATATGGCTATCCA-GAGCTTCCCGAT
1 -TATGGCTCTTTATGAGCTTCCCGAT
11314146 TATGGCTC-TTATGAGCTTCCC-AT
1 TATGGCTCTTTATGAGCTTCCCGAT
11314169 TAT
1 TAT
11314172 ACAGCCCGGA
Statistics
Matches: 79, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
23 16 0.20
24 22 0.28
25 19 0.24
26 22 0.28
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
TATGGCTCTTTATGAGCTTCCCGAT
Found at i:11318867 original size:42 final size:43
Alignment explanation
Indices: 11318766--11318920 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 43
11318756 TGATTTTGTA
*
11318766 TAAGA-CCACATCTGGGACATTGGCATCG-ATTTGGGATTTACATG
1 TAAGACCCACGTCTGGGACATTGGCATCGTATTT--GA-TTACATG
* * * *
11318810 TAA-AACCATGTCTGGGACATTGGCATCGTATATGATTACGTG
1 TAAGACCCACGTCTGGGACATTGGCATCGTATTTGATTACATG
* * *
11318852 TAAGACCCA-GTCTGGGACAGTGGCATCATTATTTTATTACATG
1 TAAGACCCACGTCTGGGACATTGGCATC-GTATTTGATTACATG
*
11318895 TAAGA-CCACGTCTGGGACGTTGGCAT
1 TAAGACCCACGTCTGGGACATTGGCAT
11318921 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
42 29 0.31
43 38 0.40
44 24 0.26
45 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
TAAGACCCACGTCTGGGACATTGGCATCGTATTTGATTACATG
Found at i:11320011 original size:2 final size:2
Alignment explanation
Indices: 11320004--11320054 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
11319994 ACTATGCGTG
*
11320004 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11320046 TA TA TA TA T
1 TA TA TA TA T
11320055 GGTACTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11327283 original size:58 final size:58
Alignment explanation
Indices: 11327193--11327451 Score: 378
Period size: 58 Copynumber: 4.5 Consensus size: 58
11327183 TCCACAAATA
* * *
11327193 GTTTTATACTTGTGAAAAATT-TGAAAGATAATCAATTAGGGATGTGAATCTACGAACT
1 GTTTTATACTTGTG-AAAATTCTGAAAGATAATCAACTAGGGATGTGAATCCACGAGCT
*
11327251 GTTTTATACTTGTGAAAATTCTGAAAGATAATCAACTGGGGATGTGAATCCACGAGCT
1 GTTTTATACTTGTGAAAATTCTGAAAGATAATCAACTAGGGATGTGAATCCACGAGCT
* * *
11327309 GTTTTATGCTTGTGAAAATTCTGAAAGATAATCAACTGGGGATGTGAATCCGCGAGCT
1 GTTTTATACTTGTGAAAATTCTGAAAGATAATCAACTAGGGATGTGAATCCACGAGCT
* * * *
11327367 ATTTTATACTTGT-ACAAATTTTGAAAGATAACCAACTAGGGATGTGAATCCCCGAGCT
1 GTTTTATACTTGTGA-AAATTCTGAAAGATAATCAACTAGGGATGTGAATCCACGAGCT
*
11327425 GTTTTATACTTGTGAAAATTTTGAAAG
1 GTTTTATACTTGTGAAAATTCTGAAAG
11327452 GTAACATAGT
Statistics
Matches: 185, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
57 7 0.04
58 177 0.96
59 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (58 bp):
GTTTTATACTTGTGAAAATTCTGAAAGATAATCAACTAGGGATGTGAATCCACGAGCT
Found at i:11327665 original size:69 final size:68
Alignment explanation
Indices: 11327544--11327822 Score: 297
Period size: 69 Copynumber: 4.1 Consensus size: 68
11327534 TGAGCTTCAG
* * * * * * * **
11327544 TATGACAGCTAGAGCTTTGCTCTCACTAATTGTGTTAGAGGCTGCGGCTCTTCACCTACGAGTTT
1 TATGATAGGTAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGGCTCTTCACCTACGAGCCT
*
11327609 TAG
66 TAA
* ** *
11327612 TACGATAGGTGAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGGCTCTTCGGCTATGAGCC
1 TATGATAGGT-AGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGGCTCTTCACCTACGAGCC
11327677 TTAA
65 TTAA
* * * * * *
11327681 TATGATAGCTAGGAGCTTTGTTCTCGTTAACTATGTTGGAGGTTGTGGCTTTTCACCGACGAGCC
1 TATGATAGGTA-GAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGGCTCTTCACCTACGAGCC
11327746 TTAA
65 TTAA
* * * * ** *
11327750 TATGATAGGTAGAGCTTTGCTCTCGCTAATTGTGTTGGAGGCTGCGACTCTTTGCTTACGAGCCT
1 TATGATAGGTAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGGCTCTTCACCTACGAGCCT
11327815 TAA
66 TAA
11327818 TATGA
1 TATGA
11327823 CTCGAATGTC
Statistics
Matches: 172, Mismatches: 37, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
68 58 0.34
69 114 0.66
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.34
Consensus pattern (68 bp):
TATGATAGGTAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGGCTCTTCACCTACGAGCCT
TAA
Found at i:11327786 original size:137 final size:137
Alignment explanation
Indices: 11327544--11327823 Score: 339
Period size: 137 Copynumber: 2.0 Consensus size: 137
11327534 TGAGCTTCAG
* * * **
11327544 TATGACAGCTAGAGCTTTGCTCTCACTAATTGTGTTAGAGGCTGCGGCTCTTCACCTACGAGTTT
1 TATGACAGCTAGAGCTTTGCTCTCACTAACTATGTTAGAGGCTGCGGCTCTTCACCGACGAGCCT
* * * *
11327609 TAGTACGATAGGTGAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGGCTCTTCGGC-TATG
66 TAATACGATAGGTGAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGACTCTT-GGCTTACG
11327673 AGCCTTAA
130 AGCCTTAA
* * ** * * * *
11327681 TATGATAGCTAGGAGCTTTGTTCTCGTTAACTATGTTGGAGGTTGTGGCTTTTCACCGACGAGCC
1 TATGACAGCTA-GAGCTTTGCTCTCACTAACTATGTTAGAGGCTGCGGCTCTTCACCGACGAGCC
* * * *
11327746 TTAATATGATAGGT-AGAGCTTTGCTCTCGCTAATTGTGTTGGAGGCTGCGACTCTTTGCTTACG
65 TTAATACGATAGGTGAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGACTCTTGGCTTACG
11327810 AGCCTTAA
130 AGCCTTAA
11327818 TATGAC
1 TATGAC
11327824 TCGAATGTCA
Statistics
Matches: 119, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
136 2 0.02
137 64 0.54
138 53 0.45
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (137 bp):
TATGACAGCTAGAGCTTTGCTCTCACTAACTATGTTAGAGGCTGCGGCTCTTCACCGACGAGCCT
TAATACGATAGGTGAGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGACTCTTGGCTTACGA
GCCTTAA
Found at i:11337348 original size:54 final size:54
Alignment explanation
Indices: 11337265--11337374 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
11337255 TCTCGTCAGT
*
11337265 TGAAATCACACAAAAGAAATTATCCGACACATGACCTTGAGTTAGTTGCAATCG
1 TGAAATCACACAAAAGAAATTATCCGACACAAGACCTTGAGTTAGTTGCAATCG
*
11337319 TGAAATCACACAAAAGAAATTATCTGACACAAGACCTTGAGTTAGTTGCAATCG
1 TGAAATCACACAAAAGAAATTATCCGACACAAGACCTTGAGTTAGTTGCAATCG
11337373 TG
1 TG
11337375 TTTGCTTTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (54 bp):
TGAAATCACACAAAAGAAATTATCCGACACAAGACCTTGAGTTAGTTGCAATCG
Found at i:11342211 original size:39 final size:39
Alignment explanation
Indices: 11342168--11342311 Score: 164
Period size: 39 Copynumber: 3.7 Consensus size: 39
11342158 TAGTCTGTTG
* * *
11342168 ATTTATGATCATGACCTTTGGCTTTCTTACAGTCCACTA
1 ATTTACGATCACGACCTTTGACTTTCTTACAGTCCACTA
* * *
11342207 ATTTACGATCATGATCTTTGACTTTCTTA-TGTTCCACTA
1 ATTTACGATCACGACCTTTGACTTTCTTACAG-TCCACTA
* * * * *
11342246 ATTTACGGTCACGATCTTCGACTTTCTTACAGTCTACTG
1 ATTTACGATCACGACCTTTGACTTTCTTACAGTCCACTA
*
11342285 ATTTACGATCACGACCTTTGAGTTTCT
1 ATTTACGATCACGACCTTTGACTTTCT
11342312 AACAATTTAC
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
38 1 0.01
39 87 0.98
40 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (39 bp):
ATTTACGATCACGACCTTTGACTTTCTTACAGTCCACTA
Found at i:11342323 original size:39 final size:39
Alignment explanation
Indices: 11342166--11342333 Score: 120
Period size: 39 Copynumber: 4.3 Consensus size: 39
11342156 TATAGTCTGT
* * * * * * *
11342166 TGATTTATGATCATGACCTTTGGCTTTCTTACAGTCCAC
1 TGATTTACGATCACGACCTTCGACTTTCTAACAATCTAC
* * * * * *** *
11342205 TAATTTACGATCATGATCTTTGACTTTCTTATGTTCCAC
1 TGATTTACGATCACGACCTTCGACTTTCTAACAATCTAC
* * * * *
11342244 TAATTTACGGTCACGATCTTCGACTTTCTTACAGTCTAC
1 TGATTTACGATCACGACCTTCGACTTTCTAACAATCTAC
* * *
11342283 TGATTTACGATCACGACCTTTGAGTTTCTAACAATTTAC
1 TGATTTACGATCACGACCTTCGACTTTCTAACAATCTAC
11342322 TGATTTACGATC
1 TGATTTACGATC
11342334 GCGGCTTCAA
Statistics
Matches: 107, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (39 bp):
TGATTTACGATCACGACCTTCGACTTTCTAACAATCTAC
Found at i:11342504 original size:134 final size:133
Alignment explanation
Indices: 11342322--11342677 Score: 462
Period size: 133 Copynumber: 2.7 Consensus size: 133
11342312 AACAATTTAC
* * * *
11342322 TGATTTACGATCGCGGCTTCAATTCATTAATTTACAATTATGAACACTTCTTAAAGAGTTCATCG
1 TGATTTACGATCACGGCTTCAGTTCATTGATTTATAATTATGAACACTTCTTAAAGAGTTCATCG
* * * * *
11342387 ATTTACGATCGCGACTCCACTTAA-ATAGTTCGCTAATTTACAATCACAATTTTCATTTTTAAAG
66 ATTTACAATCGCGACTCCACTTAACAT--TTCGCTAAGTTACAATCACAACTATCATGTTTAAAG
*
11342451 CTTGT
129 CCTGT
* * * *
11342456 TGATTTACGATCACGGCTTCAGTTCATTGATTTATGATCATGAACACTTCTTGAAGAGTTCACCG
1 TGATTTACGATCACGGCTTCAGTTCATTGATTTATAATTATGAACACTTCTTAAAGAGTTCATCG
* * * * ** *
11342521 ATTTACAATCGTGACTACAATTAACATTTCGCTGAGTTAGTATCACGACTATCATGTTTAAAGCC
66 ATTTACAATCGCGACTCCACTTAACATTTCGCTAAGTTACAATCACAACTATCATGTTTAAAGCC
11342586 TGT
131 TGT
* *
11342589 TGATTTACGATCACGACTTTAGTTCATTGATTTATAATTATGAACACTTCTTAAAGAGTTCATCG
1 TGATTTACGATCACGGCTTCAGTTCATTGATTTATAATTATGAACACTTCTTAAAGAGTTCATCG
* *
11342654 ATTTACAATCACGATTCCACTTAA
66 ATTTACAATCGCGACTCCACTTAA
11342678 GCAATTTGAT
Statistics
Matches: 189, Mismatches: 32, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
133 110 0.58
134 77 0.41
135 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (133 bp):
TGATTTACGATCACGGCTTCAGTTCATTGATTTATAATTATGAACACTTCTTAAAGAGTTCATCG
ATTTACAATCGCGACTCCACTTAACATTTCGCTAAGTTACAATCACAACTATCATGTTTAAAGCC
TGT
Found at i:11345083 original size:41 final size:41
Alignment explanation
Indices: 11345026--11345175 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
11345016 TTTAACATAT
* * *
11345026 TCACCGGCA-TTCAGCCTGCTAAGCTTATAGCCTAATTCAGA
1 TCACCGGCACTT-AGCCTGCTAGGCTTATAACCTGATTCAGA
* *
11345067 TCACCGACACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
11345108 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
11345149 TCACCGGCACTTAGCTTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
11345176 AAGTCCGAAA
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 97 0.98
42 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:11345607 original size:6 final size:6
Alignment explanation
Indices: 11345581--11345625 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
11345571 AGCTCATCAA
* * *
11345581 ATATAC A-ATAG ATATAC ATATAT ATATAC ATATAT ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
11345626 TCAAAACACA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (6 bp):
ATATAC
Found at i:11345609 original size:12 final size:12
Alignment explanation
Indices: 11345581--11345625 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
11345571 AGCTCATCAA
*
11345581 ATATACA-ATAG
1 ATATACATATAT
11345592 ATATACATATAT
1 ATATACATATAT
11345604 ATATACATATAT
1 ATATACATATAT
11345616 ATATACATAT
1 ATATACATAT
11345626 TCAAAACACA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 7 0.22
12 25 0.78
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (12 bp):
ATATACATATAT
Found at i:11347078 original size:22 final size:22
Alignment explanation
Indices: 11347026--11347078 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
11347016 ATGCAATATA
*
11347026 AAAATATATGTAAGTATGTATAT
1 AAAATATATGT-AGTATGTAAAT
*
11347049 ATACATATATGT-GTATGTAAATT
1 A-AAATATATGTAGTATGTAAA-T
11347072 AAAATAT
1 AAAATAT
11347079 GTATATATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 13 0.52
23 3 0.12
24 9 0.36
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (22 bp):
AAAATATATGTAGTATGTAAAT
Found at i:11348878 original size:44 final size:44
Alignment explanation
Indices: 11348776--11348941 Score: 149
Period size: 44 Copynumber: 3.7 Consensus size: 44
11348766 TATCAACGGT
*
11348776 CTGCTCCACTACAACTTTAGAGAGATAAGACTT-GTAGTCGGTCTTCAAC
1 CTGCTCCACTACAACTTCAGAGAGATAAGA-TTGGTA-TC--T-TT-AAC
* * *
11348825 CTACTCCACTACATCTTCAGAGAGATAAGATTGGTATCTTTAAT
1 CTGCTCCACTACAACTTCAGAGAGATAAGATTGGTATCTTTAAC
* * *
11348869 CTGCTCCACTGA-AACTTCAGAGAGATAAGGTTTGTTAT-TTCAAC
1 CTGCTCCACT-ACAACTTCAGAGAGATAA-GATTGGTATCTTTAAC
** *
11348913 CTGCTATACTGCAACTTCAGAGAGATAAG
1 CTGCTCCACTACAACTTCAGAGAGATAAG
11348942 GTTTGTGGCT
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 54 0.54
45 10 0.10
46 1 0.01
48 4 0.04
49 30 0.30
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (44 bp):
CTGCTCCACTACAACTTCAGAGAGATAAGATTGGTATCTTTAAC
Found at i:11348973 original size:44 final size:43
Alignment explanation
Indices: 11348839--11348981 Score: 151
Period size: 44 Copynumber: 3.3 Consensus size: 43
11348829 TCCACTACAT
* * *
11348839 CTTCAGAGAGATAAGATTGGTATCTTTAATCTGCTCCACTGAAA
1 CTTCAGAGAGATAAGGTTTGT-TCTTTCATCTGCTCCACTGAAA
* * ** *
11348883 CTTCAGAGAGATAAGGTTTGTTATTTCAACCTGCTATACTGCAA
1 CTTCAGAGAGATAAGGTTTGTTCTTTC-ATCTGCTCCACTGAAA
* * *
11348927 CTTCAGAGAGATAAGGTTTGTGGCTTTCATTTGCTCCACTGTAA
1 CTTCAGAGAGATAAGGTTTGT-TCTTTCATCTGCTCCACTGAAA
*
11348971 CTTCAGGGAGA
1 CTTCAGAGAGA
11348982 CAAGATTTAT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
43 4 0.05
44 73 0.90
45 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (43 bp):
CTTCAGAGAGATAAGGTTTGTTCTTTCATCTGCTCCACTGAAA
Found at i:11349295 original size:89 final size:87
Alignment explanation
Indices: 11349185--11349952 Score: 563
Period size: 89 Copynumber: 8.7 Consensus size: 87
11349175 CTGCATAGGG
* * * * * *
11349185 AGACAGGATCTGCAATCTTCAACCTACTCCACTGTAACTTCAAGGAGATAAGGTTTGT-TATTTC
1 AGACAAGATCTACAAT-TTTAACCTACTCCACTGTAAC-TCAAGGAGATAAGGCTGGTGT-CTTC
* *
11349249 GATCTGCTTCACTGCCA-TCACAAGA
63 GATCTACTTCACTGCCAGT-ACAGGA
* * * * * ** **
11349274 AGACAAGATCTGCTATTTTCAATCTGCTCCACTGAAACTCGGGGAGGCAAGGCTGGTGTCTTCGA
1 AGACAAGATCTACAATTTT-AACCTACTCCACTGTAACTCAAGGAGATAAGGCTGGTGTCTTCGA
* **
11349339 TCTGCTTCACTGCCAGTACAAAA
65 TCTACTTCACTGCCAGTACAGGA
* * ** ** * * ** *
11349362 AGACAAGACCTGCTGCTTTTAGTCTGCTCCGCTGTAAACTCAAGGAGGCAAGGTTGGTGTCTTCG
1 AGACAAGATCTAC-AATTTTAACCTACTCCACTGT-AACTCAAGGAGATAAGGCTGGTGTCTTCG
* * * *
11349427 ATCTACTTCGCTGTCAATAGAGGA
64 ATCTACTTCACTGCCAGTACAGGA
* * * ** ** * ** **
11349451 AGATAAGATCTACTACTTTCAGTCTGTTTCGTTGTAAACTCAAGGAGGCAAGGCTGGTGTCTTCG
1 AGACAAGATCTAC-AATTTTAACCTACTCCACTGT-AACTCAAGGAGATAAGGCTGGTGTCTTCG
* * *
11349516 ATCTACTTCGCTGCCAATATAGGA
64 ATCTACTTCACTGCCAGTACAGGA
* ** * ** * ** * * **
11349540 AGATAAGATCTGTTACTTTTAGTCTGCTTAACTGAAAACTCAGGGAGGCAAGGCTGGTGTCTTCG
1 AGACAAGATCT-ACAATTTTAACCTACTCCACTG-TAACTCAAGGAGATAAGGCTGGTGTCTTCG
* *
11349605 ATCTACTTCGCTGCCAATACAGGA
64 ATCTACTTCACTGCCAGTACAGGA
* * * *
11349629 AGACAAGATCTACAATCTTTAACCTACTCCACTGCT-GCTCAGGGAGATAAGGCTAGTGTTTTCG
1 AGACAAGATCTACAAT-TTTAACCTACTCCACTG-TAACTCAAGGAGATAAGGCTGGTGTCTTCG
* *
11349693 ATCTGCTTCACTGCCAGTACATGA
64 ATCTACTTCACTGCCAGTACAGGA
* * ** * *
11349717 AGACAAGATCTACAATCTTTAACCTACTCCACTGCAAATTTAGAGAGATAAGGCTAGTGTTTTCG
1 AGACAAGATCTACAAT-TTTAACCTACTCCACTGTAACTCAAG-GAGATAAGGCTGGTGTCTTCG
*
11349782 ATCTGCTTCACTGCCAGTACAGGA
64 ATCTACTTCACTGCCAGTACAGGA
* ** * * **
11349806 AGACAAGATCTACAATCTTTAACCTACTCCATTGTTGCTCAGGGAGATAAGGCTGGTGTTTTTTT
1 AGACAAGATCTACAAT-TTTAACCTACTCCACTGTAACTCAAGGAGATAAGGCTGGTG-TCTTCG
11349871 ATCTACTTCACTGCCAGTACAGGA
64 ATCTACTTCACTGCCAGTACAGGA
*
11349895 AGACAAGATCTACAATCTTTAACCTACTCCACTGCT-GCTCAAGGAGATAAGGCTGGTG
1 AGACAAGATCTACAAT-TTTAACCTACTCCACTG-TAACTCAAGGAGATAAGGCTGGTG
11349953 GCTTAAATTT
Statistics
Matches: 575, Mismatches: 92, Indels: 24
0.83 0.13 0.03
Matches are distributed among these distances:
88 159 0.28
89 415 0.72
90 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (87 bp):
AGACAAGATCTACAATTTTAACCTACTCCACTGTAACTCAAGGAGATAAGGCTGGTGTCTTCGAT
CTACTTCACTGCCAGTACAGGA
Found at i:11349728 original size:266 final size:264
Alignment explanation
Indices: 11349185--11349948 Score: 673
Period size: 266 Copynumber: 2.9 Consensus size: 264
11349175 CTGCATAGGG
* * * * * * * * *
11349185 AGACAGGATCTGCAATCTTCAACCTACTCCACTGTAACTTCAAG-GAGATAAGGTTTGT-TATTT
1 AGACAAGATCTACAATCTTTAACCTACTCCACTGCAA-ATCAAGAGAGACAAGGCTAGTGT-CTT
* *
11349248 CGATCTGCTTCACTGCC-ATCACAAGAAGACAAGATCTGCTATTTTCAATCTGCTCCACTGAAAC
64 CGATCTGCTTCACTGCCAAT-ACAGGAAGACAAGATCTGATATTTT-AATCTGCTCCACTGAAAC
* * ** * *
11349312 TCGGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAAAAAGACAAGACCTGC--
127 TCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACAA
** * * * ** * * *
11349375 TGCTTTTAGTCTGCTCCGCTG-TAAACTCAAGGAGGCAAGGTTGGTGTCTTCGATCTACTTCGCT
192 T-C-TTTAACCTACTCCACTGCT--GCTCAAGGAGATAAGGCTAGTGTCTTCGATCTACTTCACT
* *
11349439 GTCAATAGAGGA
253 GCCAATACAGGA
* * ** ** * ** * * *
11349451 AGATAAGATCTACTA-CTTTCAGTCTGTTTCGTTGTAAACTCAAG-GAGGCAAGGCTGGTGTCTT
1 AGACAAGATCTACAATCTTT-AACCTACTCCACTGCAAA-TCAAGAGAGACAAGGCTAGTGTCTT
* * * * * * **
11349514 CGATCTACTTCGCTGCCAATATAGGAAGATAAGATCTGTTACTTTTAGTCTGCTTAACTGAAAAC
64 CGATCTGCTTCACTGCCAATACAGGAAGACAAGATCTGATA-TTTTAATCTGCTCCACTG-AAAC
* *
11349579 TCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAA
127 TCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACAA
* * *
11349644 TCTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGTTTTCGATCTGCTTCACTGCCA
192 TCTTTAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGTCTTCGATCTACTTCACTGCCA
* *
11349709 GTACATGA
257 ATACAGGA
** * *
11349717 AGACAAGATCTACAATCTTTAACCTACTCCACTGCAAATTTAGAGAGATAAGGCTAGTGTTTTCG
1 AGACAAGATCTACAATCTTTAACCTACTCCACTGCAAATCAAGAGAGACAAGGCTAGTGTCTTCG
* * * * * ***
11349782 ATCTGCTTCACTGCCAGTACAGGAAGACAAGATCT-ACAATCTTTAACCTACTCCATTGTTGCTC
66 ATCTGCTTCACTGCCAATACAGGAAGACAAGATCTGA-TAT-TTTAATCTGCTCCACTGAAACTC
** * **
11349846 AGGGAGATAAGGCTGGTGTTTTTTTATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACAAT
129 AGGGAGGCAAGGCTGGTG-TCTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACAAT
11349911 CTTTAACCTACTCCACTGCTGCTCAAGGAGATAAGGCT
193 CTTTAACCTACTCCACTGCTGCTCAAGGAGATAAGGCT
11349949 GGTGGCTTAA
Statistics
Matches: 392, Mismatches: 92, Indels: 28
0.77 0.18 0.05
Matches are distributed among these distances:
265 26 0.07
266 280 0.71
267 83 0.21
268 2 0.01
269 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (264 bp):
AGACAAGATCTACAATCTTTAACCTACTCCACTGCAAATCAAGAGAGACAAGGCTAGTGTCTTCG
ATCTGCTTCACTGCCAATACAGGAAGACAAGATCTGATATTTTAATCTGCTCCACTGAAACTCAG
GGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTT
TAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGTCTTCGATCTACTTCACTGCCAATAC
AGGA
Found at i:11349808 original size:177 final size:178
Alignment explanation
Indices: 11349589--11349929 Score: 567
Period size: 177 Copynumber: 1.9 Consensus size: 178
11349579 TCAGGGAGGC
* *
11349589 AAGGCTGGTGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTTAACCT
1 AAGGCTAGTGTCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACAATCTTTAACCT
* *
11349654 ACTCCACTGCTGCTCAGGGAGATAAGGCTAGTG-TTTTCGATCTGCTTCACTGCCAGTACATGAA
66 ACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGTTTTTCGATCTACTTCACTGCCAGTACAGGAA
11349718 GACAAGATCTACAATCTTTAACCTACTCCACTGCAAATTTAGAGAGAT
131 GACAAGATCTACAATCTTTAACCTACTCCACTGCAAATTTAGAGAGAT
* * *
11349766 AAGGCTAGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTTAACCT
1 AAGGCTAGTGTCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACAATCTTTAACCT
* * * **
11349831 ACTCCATTGTTGCTCAGGGAGATAAGGCTGGTGTTTTTTTATCTACTTCACTGCCAGTACAGGAA
66 ACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGTTTTTCGATCTACTTCACTGCCAGTACAGGAA
11349896 GACAAGATCTACAATCTTTAACCTACTCCACTGC
131 GACAAGATCTACAATCTTTAACCTACTCCACTGC
11349930 TGCTCAAGGA
Statistics
Matches: 151, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
177 90 0.60
178 61 0.40
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (178 bp):
AAGGCTAGTGTCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACAATCTTTAACCT
ACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGTTTTTCGATCTACTTCACTGCCAGTACAGGAA
GACAAGATCTACAATCTTTAACCTACTCCACTGCAAATTTAGAGAGAT
Found at i:11354143 original size:24 final size:24
Alignment explanation
Indices: 11354116--11354164 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11354106 TGATGAGGTG
11354116 TGATCGGGCCACCTTGATAAATGC
1 TGATCGGGCCACCTTGATAAATGC
11354140 TGATCGGGCCACCTTGATAAATGC
1 TGATCGGGCCACCTTGATAAATGC
11354164 T
1 T
11354165 TGTTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (24 bp):
TGATCGGGCCACCTTGATAAATGC
Found at i:11354999 original size:2 final size:2
Alignment explanation
Indices: 11354987--11355015 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11354977 AATTATAAAA
11354987 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11355016 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11372837 original size:24 final size:24
Alignment explanation
Indices: 11372787--11372838 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
11372777 TTTCTAGAAG
* * *
11372787 ATTTAGTATCTATTAGTATTATAT
1 ATTTAGCATCTATTAGCATAATAT
* *
11372811 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATCTATTAGCATAATAT
11372835 ATTT
1 ATTT
11372839 TACCTACGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATCTATTAGCATAATAT
Found at i:11374809 original size:24 final size:24
Alignment explanation
Indices: 11374759--11374810 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11374749 TTTCTAGAAG
* *
11374759 ATTTAGTATCTATTAGTATAGTAT
1 ATTTAGCATCTATTAGTATAATAT
* *
11374783 ATTTAGCATTTATTAGTATAATTT
1 ATTTAGCATCTATTAGTATAATAT
11374807 ATTT
1 ATTT
11374811 TACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.54
Consensus pattern (24 bp):
ATTTAGCATCTATTAGTATAATAT
Found at i:11376464 original size:20 final size:20
Alignment explanation
Indices: 11376439--11376478 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11376429 AATATTTTTC
*
11376439 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
11376459 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
11376479 TCATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:11376480 original size:34 final size:35
Alignment explanation
Indices: 11376427--11376493 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
11376417 CAAACACTAG
* *
11376427 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
11376462 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
11376494 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:11387714 original size:3 final size:3
Alignment explanation
Indices: 11387706--11387759 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
11387696 AATTTGATAC
11387706 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11387754 TAT TAT
1 TAT TAT
11387760 CTTTTTAATC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11387903 original size:40 final size:41
Alignment explanation
Indices: 11387840--11387918 Score: 99
Period size: 40 Copynumber: 1.9 Consensus size: 41
11387830 TTCATAATTT
* *
11387840 ACTTATATATATACATACTTATA-TATATTTACATTTTATA
1 ACTTATATACATACATACATATACTATATTTACATTTTATA
*
11387880 ACTTATATACATATC-TACATATATCTATATTTATATTTT
1 ACTTATATACATA-CATACATATA-CTATATTTACATTTT
11387919 TTATTTTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 19 0.58
41 1 0.03
42 13 0.39
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (41 bp):
ACTTATATACATACATACATATACTATATTTACATTTTATA
Found at i:11388889 original size:71 final size:71
Alignment explanation
Indices: 11388810--11388951 Score: 257
Period size: 71 Copynumber: 2.0 Consensus size: 71
11388800 TCTTTTCAAA
*
11388810 CTCAAGTTTTAAACGATATCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCT
11388875 TTTTTT
66 TTTTTT
* *
11388881 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCT
11388946 TTTTTT
66 TTTTTT
11388952 AAATCCAAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCT
TTTTTT
Found at i:11392213 original size:20 final size:22
Alignment explanation
Indices: 11392182--11392228 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
11392172 ACTTCACTTG
*
11392182 AAAAAAAAGAAACGAA-AA-GA
1 AAAAAAAAGAAAAGAAGAACGA
11392202 AAAAAAAAGAAAAGAAGAACGA
1 AAAAAAAAGAAAAGAAGAACGA
11392224 AAAAA
1 AAAAA
11392229 GAAAAAGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 15 0.62
21 2 0.08
22 7 0.29
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAAAAGAAAAGAAGAACGA
Found at i:11393909 original size:300 final size:300
Alignment explanation
Indices: 11393106--11393948 Score: 1283
Period size: 300 Copynumber: 2.8 Consensus size: 300
11393096 ACCCCTAAGG
* *
11393106 TTGCAATTAAAAAGATTGAAGCCACAACAGCGAATTTTACTTCCCTGGCGGTGCAGTAGAACAGA
1 TTGCAATTAAAAATATTGAAGCCACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTAGAACAGA
11393171 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGTAATTAAAAA-ATTTGAAGCCACAACG
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGTAATTAAAAAGA-TTGAAGCCACAACG
* * * * *
11393235 GTGAATCTTACTTCCCTGGCAGTGTAATGGAATAGATTGAAGCTACAACGGTGAATCTTGCTTCC
130 GCGAATCTTACTTCCCTGGCGGTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCC
* * *
11393300 CCGATATTACAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTAGCGGTGCAGTGG
195 CCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGG
* * *
11393365 AATAGATTGAAGCTACAACGATGAATCTTGCTACCCCGAAA
260 AACAAATTGAAGCTACAACGACGAATCTTGCTACCCCGAAA
* * * *
11393406 TTGCAATTAAAAATATTTAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTACAGTGGAACAGA
1 TTGCAATTAAAAATATTGAAGCCACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTAGAACAGA
*
11393471 TTGAAGCTACAACGGCGAATCTTGCTTCCCCAACATTGTAATTAAAAAGATTGAAGCCACAACGG
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGTAATTAAAAAGATTGAAGCCACAACGG
* ** * *
11393536 CGAATCTTACTTCCCTGGCGGTGTAATGGAACATATTGAAGCTACGACAATGAATCTTATTTCCT
131 CGAATCTTACTTCCCTGGCGGTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCC
11393601 CGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGA
196 CGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGA
* * * *
11393666 ACAAATTGAAGCTACAACGGCGGATCTTGCTTCCCCGACA
261 ACAAATTGAAGCTACAACGACGAATCTTGCTACCCCGAAA
* *
11393706 TTGCAATTAAAAATATTGAAGCCACAGCAGTGAATCTTACTTCCCTGGCGGTGCAGTAGAACAGA
1 TTGCAATTAAAAATATTGAAGCCACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTAGAACAGA
*
11393771 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGG
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGTAATTAAAAAGATTGAAGCCACAACGG
* * * **
11393836 CGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCACGTTTCCC
131 CGAATCTTACTTCCCTGGCGGTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCC
* * * * * * **
11393901 CAACATTGCAGTTAAATAGATTGAAACTACGACAACGAATCTTACTTC
196 CGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTC
11393949 TTTGGCATTA
Statistics
Matches: 489, Mismatches: 53, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
300 488 1.00
301 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (300 bp):
TTGCAATTAAAAATATTGAAGCCACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTAGAACAGA
TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGTAATTAAAAAGATTGAAGCCACAACGG
CGAATCTTACTTCCCTGGCGGTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCC
CGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGA
ACAAATTGAAGCTACAACGACGAATCTTGCTACCCCGAAA
Found at i:11393922 original size:50 final size:49
Alignment explanation
Indices: 11393168--11393930 Score: 182
Period size: 50 Copynumber: 15.3 Consensus size: 49
11393158 GCAGTAGAAC
** * * *
11393168 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGTAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCACG-TTCCCCAACATTGCAGTTAAAA
* * *** * * * ** *
11393218 A-ATTTGAAGCCACAACGGTGAATCTTAC-TTCCCTGGCAGTGTAATGGAAT
1 AGA-TTGAAGCTACAACGGCGAATC--ACGTTCCCCAACATTGCAGTTAAAA
* ** * * * *
11393268 AGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGATATTACAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCACG-TTCCCCAACATTGCAGTTAAAA
* * * * ** ** *
11393318 AGATTGAAGCCACAACGGTGAATCTTAC-TTCCCTAGCGGTGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATC--ACGTTCCCCAACATTGCAGTTAAAA
** ** * *
11393368 AGATTGAAGCTACAACGATGAATCTTGCTACCCCGAA-ATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCACG-TTCCCC-AACATTGCAGTTAAAA
* * * *** ** * ** *
11393418 ATATTTAAGCCACAACGGCGAATCTTAC-TTCCCTGGCGGTACAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATC--ACGTTCCCCAACATTGCAGTTAAAA
** * *
11393468 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCAACATTGTAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCACG-TTCCCCAACATTGCAGTTAAAA
* *** ** * * ** *
11393518 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCCTGGCGGTGTAATGGAAC
1 AGATTGAAGCTACAACGGCGAATC--ACGTTCCCCAACATTGCAGTTAAAA
* * *** * * * *
11393568 ATATTGAAGCTACGACAATGAATCTTA-TTTCCTCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATC--ACGTTCCCCAACATTGCAGTTAAAA
* * * ** * *
11393618 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCCTAGCGGTGCAGTGGAACA
1 AGATTGAAGCTACAACGGCGAATC--ACGTTCCCCAACATTGCAGT-TAAAA
* ** * *
11393669 A-ATTGAAGCTACAACGGCGGATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCACG-TTCCCCAACATTGCAGTTAAAA
* * * * * *** ** *
11393718 ATATTGAAGCCACAGCAGTGAATCTTAC-TTCCCTGGCGGTGCAG-TAGAAC
1 AGATTGAAGCTACAACGGCGAATC--ACGTTCCCCAACATTGCAGTTA-AAA
** * *
11393768 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCACG-TTCCCCAACATTGCAGTTAAAA
* * * ** * ** *
11393818 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCCTAGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATC--ACGTTCCCCAACATTGCAGTTAAAA
* *
11393868 AGATTGAAGCTACGACGGCGAATCACGTTTCCCCAACATTGCAGTTAAAT
1 AGATTGAAGCTACAACGGCGAATCACG-TTCCCCAACATTGCAGTTAAAA
*
11393918 AGATTGAAACTAC
1 AGATTGAAGCTAC
11393931 GACAACGAAT
Statistics
Matches: 493, Mismatches: 186, Indels: 68
0.66 0.25 0.09
Matches are distributed among these distances:
48 2 0.00
49 7 0.01
50 476 0.97
51 8 0.02
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (49 bp):
AGATTGAAGCTACAACGGCGAATCACGTTCCCCAACATTGCAGTTAAAA
Found at i:11393972 original size:100 final size:100
Alignment explanation
Indices: 11393106--11393948 Score: 1166
Period size: 100 Copynumber: 8.4 Consensus size: 100
11393096 ACCCCTAAGG
* * *
11393106 TTGCAATTAAAAAGATTGAAGCCACAACAGCGAATTTTACTTCCCTGGCGGTGCAGTAGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
11393171 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * * * *
11393206 TTGTAATTAAAAA-ATTTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAATGGAATAG
1 TTGCAATTAAAAAGA-TTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAG
* *
11393270 ATTGAAGCTACAACGGTGAATCTTGCTTCCCCGATA
65 ATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * *
11393306 TTACAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTAGCGGTGCAGTGGAATAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
** * *
11393371 TTGAAGCTACAACGATGAATCTTGCTACCCCGAAA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * *
11393406 TTGCAATTAAAAATATTTAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTACAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
*
11393471 TTGAAGCTACAACGGCGAATCTTGCTTCCCCAACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * *
11393506 TTGTAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAATGGAACATA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
* *** ** *
11393571 TTGAAGCTACGACAATGAATCTTATTTCCTCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* *
11393606 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAAA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
*
11393671 TTGAAGCTACAACGGCGGATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * * *
11393706 TTGCAATTAAAAATATTGAAGCCACAGCAGTGAATCTTACTTCCCTGGCGGTGCAGTAGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
11393771 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* *
11393806 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
* ** * *
11393871 TTGAAGCTACGACGGCGAATCACGTTTCCCCAACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * * * **
11393906 TTGCAGTTAAATAGATTGAAACTACGACAACGAATCTTACTTC
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTC
11393949 TTTGGCATTA
Statistics
Matches: 654, Mismatches: 87, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
99 1 0.00
100 652 1.00
101 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
Found at i:11394099 original size:35 final size:36
Alignment explanation
Indices: 11394060--11394139 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
11394050 CAGATTAAAG
*
11394060 CTGAAGGCAACGAATCTTATCTCCCT-GCATTAAGA
1 CTGAAGACAACGAATCTTATCTCCCTGGCATTAAGA
** * *
11394095 CTGAAGACGGCGAATCTTATCTTCCTGGCGTTAAGA
1 CTGAAGACAACGAATCTTATCTCCCTGGCATTAAGA
*
11394131 TTGAAGACA
1 CTGAAGACA
11394140 GCTAGTCTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 22 0.59
36 15 0.41
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (36 bp):
CTGAAGACAACGAATCTTATCTCCCTGGCATTAAGA
Found at i:11394136 original size:36 final size:35
Alignment explanation
Indices: 11394070--11394138 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
11394060 CTGAAGGCAA
11394070 CGAATCTTATCTCCCTGCATTAAGACTGAAGACGG
1 CGAATCTTATCTCCCTGCATTAAGACTGAAGACGG
* * *
11394105 CGAATCTTATCTTCCTGGCGTTAAGATTGAAGAC
1 CGAATCTTATCTCCCT-GCATTAAGACTGAAGAC
11394139 AGCTAGTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 15 0.50
36 15 0.50
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (35 bp):
CGAATCTTATCTCCCTGCATTAAGACTGAAGACGG
Found at i:11394183 original size:118 final size:118
Alignment explanation
Indices: 11393989--11394237 Score: 453
Period size: 118 Copynumber: 2.1 Consensus size: 118
11393979 GAAGGTAGCA
*
11393989 AATCTTATCTTCCTGGCGTTAAGATTGAAGACAACTAGTCTTCTTTGGCATTGTAGCAGAGCAGA
1 AATCTTATCTTCCTGGCGTTAAGATTGAAGACAACTAGTCTTCTTTGGCATTGTAGCAGAGCAAA
11394054 TTAAAGCTGAAGGCAACGAATCTTATCTCCCTGCATTAAGACTGAAGACGGCG
66 TTAAAGCTGAAGGCAACGAATCTTATCTCCCTGCATTAAGACTGAAGACGGCG
*
11394107 AATCTTATCTTCCTGGCGTTAAGATTGAAGACAGCTAGTCTTCTTTGGCATTGTAGCAGAGCAAA
1 AATCTTATCTTCCTGGCGTTAAGATTGAAGACAACTAGTCTTCTTTGGCATTGTAGCAGAGCAAA
* * *
11394172 TTAAAGTTGAAGGCAGCGAATCTTATCTCCCTGCATTAAGATTGAAGACGGCG
66 TTAAAGCTGAAGGCAACGAATCTTATCTCCCTGCATTAAGACTGAAGACGGCG
11394225 AATCTTATCTTCC
1 AATCTTATCTTCC
11394238 CAAGGTAGTA
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 126 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (118 bp):
AATCTTATCTTCCTGGCGTTAAGATTGAAGACAACTAGTCTTCTTTGGCATTGTAGCAGAGCAAA
TTAAAGCTGAAGGCAACGAATCTTATCTCCCTGCATTAAGACTGAAGACGGCG
Found at i:11394469 original size:44 final size:44
Alignment explanation
Indices: 11394354--11394517 Score: 213
Period size: 44 Copynumber: 3.7 Consensus size: 44
11394344 GTTCGAAAAT
11394354 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-C
** **
11394399 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC
* * * * *
11394443 AAGTTTTATCTCCCTAAAGTTACAGTGGAGTAGACTGAAGCTAC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC
*
11394487 TAA-TCCTATCTCCCTGAAGTTGCAGTGGAGC
1 -AAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
11394518 GGATTAAAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
44 59 0.59
45 41 0.41
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC
Found at i:11394470 original size:89 final size:88
Alignment explanation
Indices: 11394354--11394517 Score: 249
Period size: 89 Copynumber: 1.9 Consensus size: 88
11394344 GTTCGAAAAT
* *
11394354 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC-AAACCTTATCTCCCTGAAG
1 AAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATA-CTAAACC-TATCTCCCTGAAG
11394418 TTGCAGTGGAGCAGGTTGAAGATAC
64 TTGCAGTGGAGCAGGTTGAAGATAC
* * * *
11394443 AAGTTTTATCTCCCTAAAGTTACAGTGGAGTAGACTGAAGCTACTAATCCTATCTCCCTGAAGTT
1 AAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATACTAAACCTATCTCCCTGAAGTT
11394508 GCAGTGGAGC
66 GCAGTGGAGC
11394518 GGATTAAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
88 26 0.38
89 42 0.62
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (88 bp):
AAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATACTAAACCTATCTCCCTGAAGTT
GCAGTGGAGCAGGTTGAAGATAC
Found at i:11394536 original size:44 final size:43
Alignment explanation
Indices: 11394360--11394538 Score: 153
Period size: 44 Copynumber: 4.0 Consensus size: 43
11394350 AAATAAGTCT
* * *
11394360 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAACC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAG-AATCC
* * * **
11394404 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTTT
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGAA-TCC
* * * * * * *
11394449 TATCTCCCTAAAGTTACAGTGGAGTAGACTGAAGCTACTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-GAATCC
*
11394493 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA-ATGATGAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT-A-GAATCC
11394537 TA
1 TA
11394539 CACCTTTGAA
Statistics
Matches: 107, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
43 1 0.01
44 69 0.64
45 37 0.35
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGAATCC
Found at i:11396356 original size:3 final size:3
Alignment explanation
Indices: 11396313--11396343 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11396303 AATTTGATAC
11396313 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11396344 TACTCATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11397043 original size:71 final size:71
Alignment explanation
Indices: 11396964--11397105 Score: 248
Period size: 71 Copynumber: 2.0 Consensus size: 71
11396954 TCTTTTCAAA
* *
11396964 CTCAAGTTTTAAACGATATCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
11397029 TTTTTT
66 TTTTTT
* *
11397035 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
11397100 TTTTTT
66 TTTTTT
11397106 AAATCCAAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
TTTTTT
Found at i:11400105 original size:23 final size:24
Alignment explanation
Indices: 11400050--11400105 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
11400040 AAAAAAAAAA
*
11400050 TGTTGTTTTTATTATTATTATTTT
1 TGTTGTTTTTATTATTATTATTCT
** *
11400074 TACTG-TTTTGTTATTATT-TTCT
1 TGTTGTTTTTATTATTATTATTCT
11400096 TGTTGTTTTT
1 TGTTGTTTTT
11400106 TTCACTATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.12, C:0.04, G:0.11, T:0.73
Consensus pattern (24 bp):
TGTTGTTTTTATTATTATTATTCT
Found at i:11410295 original size:20 final size:19
Alignment explanation
Indices: 11410241--11410295 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
11410231 AAATTACAAA
*
11410241 AAAATAATTTTTAAAATTC
1 AAAATATTTTTTAAAATTC
* *
11410260 AAAATATTTATGAAAATTCC
1 AAAATATTTTTTAAAATT-C
*
11410280 AAATTATTTTTTAAAA
1 AAAATATTTTTTAAAA
11410296 GTTTCAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (19 bp):
AAAATATTTTTTAAAATTC
Found at i:11410475 original size:16 final size:17
Alignment explanation
Indices: 11410444--11410476 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11410434 GCTTTGAAAA
11410444 GATTTACAAATATATAT
1 GATTTACAAATATATAT
*
11410461 GATTT-CAAATTTATAT
1 GATTTACAAATATATAT
11410477 ACTCTAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (17 bp):
GATTTACAAATATATAT
Found at i:11419699 original size:3 final size:3
Alignment explanation
Indices: 11419691--11419750 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
11419681 TTTATAATGT
* * * * * *
11419691 TGC TGC TGC TGT TGT TGT TGC TGC TGT TGT TGA TGC TGC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
11419739 TGC TGC TGC TGC
1 TGC TGC TGC TGC
11419751 ATATTATTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.02, C:0.23, G:0.33, T:0.42
Consensus pattern (3 bp):
TGC
Found at i:11419711 original size:18 final size:18
Alignment explanation
Indices: 11419687--11419737 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
11419677 CCAGTTTATA
11419687 ATGTTGCTGCTGCTGTTG
1 ATGTTGCTGCTGCTGTTG
* *
11419705 TTGTTGCTGCTGTTGTTG
1 ATGTTGCTGCTGCTGTTG
*
11419723 ATGCTGCTGCTGCTG
1 ATGTTGCTGCTGCTG
11419738 CTGCTGCTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.04, C:0.18, G:0.33, T:0.45
Consensus pattern (18 bp):
ATGTTGCTGCTGCTGTTG
Found at i:11419712 original size:15 final size:15
Alignment explanation
Indices: 11419688--11419746 Score: 82
Period size: 15 Copynumber: 3.9 Consensus size: 15
11419678 CAGTTTATAA
11419688 TGTTGCTGCTGCTGT
1 TGTTGCTGCTGCTGT
*
11419703 TGTTGTTGCTGCTGT
1 TGTTGCTGCTGCTGT
* *
11419718 TGTTGATGCTGCTGC
1 TGTTGCTGCTGCTGT
*
11419733 TGCTGCTGCTGCTG
1 TGTTGCTGCTGCTG
11419747 CTGCATATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.02, C:0.20, G:0.34, T:0.44
Consensus pattern (15 bp):
TGTTGCTGCTGCTGT
Found at i:11420482 original size:12 final size:12
Alignment explanation
Indices: 11420467--11420531 Score: 64
Period size: 12 Copynumber: 5.7 Consensus size: 12
11420457 ATGTGCGTGA
*
11420467 TGCTGATGATGT
1 TGCTGATGCTGT
*
11420479 TGCTGTTGCTGT
1 TGCTGATGCTGT
11420491 TGCTG-T--TGT
1 TGCTGATGCTGT
* *
11420500 TGCTGCTGCTGG
1 TGCTGATGCTGT
*
11420512 TGCTGCTGCTGT
1 TGCTGATGCTGT
11420524 TGCTGATG
1 TGCTGATG
11420532 ATGATCATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 8 0.18
10 1 0.02
11 1 0.02
12 35 0.78
ACGTcount: A:0.05, C:0.17, G:0.35, T:0.43
Consensus pattern (12 bp):
TGCTGATGCTGT
Found at i:11420485 original size:6 final size:6
Alignment explanation
Indices: 11420476--11420528 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
11420466 ATGCTGATGA
* * *
11420476 TGTTGC TGTTGC TGTTGC TG-T-- TGTTGC TGCTGC TGGTGC TGCTGC
1 TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC
11420521 TGTTGC TG
1 TGTTGC TG
11420529 ATGATGATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 2 0.05
4 1 0.03
5 1 0.03
6 36 0.90
ACGTcount: A:0.00, C:0.19, G:0.36, T:0.45
Consensus pattern (6 bp):
TGTTGC
Found at i:11420502 original size:15 final size:15
Alignment explanation
Indices: 11420482--11420525 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
11420472 ATGATGTTGC
*
11420482 TGTTGCTGTTGCTGT
1 TGTTGCTGCTGCTGT
11420497 TGTTGCTGCTGCTG-
1 TGTTGCTGCTGCTGT
11420511 -G-TGCTGCTGCTGT
1 TGTTGCTGCTGCTGT
11420524 TG
1 TG
11420526 CTGATGATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 11 0.42
13 1 0.04
14 1 0.04
15 13 0.50
ACGTcount: A:0.00, C:0.18, G:0.36, T:0.45
Consensus pattern (15 bp):
TGTTGCTGCTGCTGT
Found at i:11424169 original size:29 final size:26
Alignment explanation
Indices: 11424136--11424209 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 26
11424126 TTAATTAAGT
*
11424136 TTTTAAAATTAAAAATGATTTTTTTATAA
1 TTTTAAAATTAAAAAT-A-TTGTTT-TAA
* *
11424165 TTTTAATATTTTAAAATATTGTTTTAA
1 TTTTAA-AATTAAAAATATTGTTTTAA
11424192 TTTTAAAAATTAATAAAT
1 TTTT-AAAATTAA-AAAT
11424210 TGCTAATGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 11 0.30
28 11 0.30
29 7 0.19
30 8 0.22
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
TTTTAAAATTAAAAATATTGTTTTAA
Found at i:11427263 original size:9 final size:9
Alignment explanation
Indices: 11427246--11427287 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
11427236 TCGAGTTGAT
*
11427246 TCGAATAAC
1 TCGATTAAC
11427255 TCGATTAAC
1 TCGATTAAC
* *
11427264 TCAAATAAC
1 TCGATTAAC
11427273 TCGATTAAC
1 TCGATTAAC
11427282 TCGATT
1 TCGATT
11427288 CATTAACTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (9 bp):
TCGATTAAC
Found at i:11427272 original size:18 final size:18
Alignment explanation
Indices: 11427249--11427283 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11427239 AGTTGATTCG
11427249 AATAACTCGATTAACTCA
1 AATAACTCGATTAACTCA
11427267 AATAACTCGATTAACTC
1 AATAACTCGATTAACTC
11427284 GATTCATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.29
Consensus pattern (18 bp):
AATAACTCGATTAACTCA
Found at i:11427294 original size:13 final size:14
Alignment explanation
Indices: 11427273--11427312 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
11427263 CTCAAATAAC
11427273 TCGATTAACTCGAT
1 TCGATTAACTCGAT
11427287 TC-ATTAACTCGAT
1 TCGATTAACTCGAT
*
11427300 TCGTTTAACTCGA
1 TCGATTAACTCGA
11427313 AATTCGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (14 bp):
TCGATTAACTCGAT
Found at i:11436455 original size:16 final size:16
Alignment explanation
Indices: 11436425--11436462 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11436415 AATTAATTGG
*
11436425 TTTATT-GTTATTATT
1 TTTATTAGTCATTATT
11436440 TTTATTAGTCATTATT
1 TTTATTAGTCATTATT
*
11436456 ATTATTA
1 TTTATTA
11436463 TTATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTATTAGTCATTATT
Found at i:11436456 original size:3 final size:3
Alignment explanation
Indices: 11436426--11436495 Score: 63
Period size: 3 Copynumber: 23.7 Consensus size: 3
11436416 ATTAATTGGT
* * *
11436426 TTA TTG TTA TTA TTT TTA TTA GTCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * *
11436472 TTA GTC TTT TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
11436496 TTTTCTTAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
2 4 0.08
3 47 0.89
4 2 0.04
ACGTcount: A:0.24, C:0.03, G:0.04, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11436850 original size:2 final size:2
Alignment explanation
Indices: 11436843--11436889 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
11436833 TATTTTGACT
11436843 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11436885 TA TA T
1 TA TA T
11436890 TACTACTATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11438967 original size:17 final size:17
Alignment explanation
Indices: 11438933--11438975 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
11438923 AATATATAAT
11438933 ATTATAATGAAAATTTA
1 ATTATAATGAAAATTTA
*
11438950 ATTATGATGCAAAA-TTA
1 ATTATAATG-AAAATTTA
11438967 ATATATAAT
1 AT-TATAAT
11438976 ATTATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (17 bp):
ATTATAATGAAAATTTA
Found at i:11441962 original size:43 final size:43
Alignment explanation
Indices: 11441902--11442027 Score: 157
Period size: 43 Copynumber: 2.9 Consensus size: 43
11441892 TTTTGAATGT
11441902 ATGTT-TTTAGCGGCGTTT-TTGCAAGAAGCGCCGCTAAAGGTC
1 ATGTTCTTTAGCGGCGTTTGTTGCAA-AAGCGCCGCTAAAGGTC
* * *
11441944 ATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTC
1 ATGTTCTTTAGCGGCGTTTGTTGCAAAAGCGCCGCTAAAGGTC
* * * *
11441987 TTATTCTTTAGCGGCGTTTGTTTCTAAAAACGCCGCTAAAG
1 ATGTTCTTTAGCGGCGTTTGTTGC-AAAAGCGCCGCTAAAG
11442028 TTAGCGACGC
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
42 5 0.07
43 48 0.68
44 18 0.25
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
ATGTTCTTTAGCGGCGTTTGTTGCAAAAGCGCCGCTAAAGGTC
Found at i:11443729 original size:14 final size:15
Alignment explanation
Indices: 11443704--11443733 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11443694 GTATAGGGAC
11443704 TAAAATTGACTAAAT
1 TAAAATTGACTAAAT
11443719 TAAAA-TGACTAAAT
1 TAAAATTGACTAAAT
11443733 T
1 T
11443734 CGCAAGTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (15 bp):
TAAAATTGACTAAAT
Found at i:11443929 original size:45 final size:44
Alignment explanation
Indices: 11443880--11443965 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 44
11443870 CGCTGTAATG
*
11443880 GAATAGAGCTGTAATAGTAATTCAAT-TGTTTGGTTGAATGGACTA
1 GAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGGACTA
* *
11443925 GAATAGAATTGTAATAGTATTCTTGTGTTTGGTTGAATGGA
1 GAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGGA
11443966 ATGATATTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 1 0.03
44 20 0.54
45 16 0.43
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (44 bp):
GAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGGACTA
Found at i:11444154 original size:39 final size:37
Alignment explanation
Indices: 11444081--11444156 Score: 91
Period size: 36 Copynumber: 2.0 Consensus size: 37
11444071 GATTATTAAT
*
11444081 ATAAATAATAAATAATTTAATTTTTTTAACATAATTA
1 ATAAATAATAAATAATTTAATTTTCTTAACATAATTA
* *
11444118 ATAAA-AATATATAATTTAATATAATTCTTAATATAATTA
1 ATAAATAATAAATAATTTAAT-T--TTCTTAACATAATTA
11444157 TTCTTATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 14 0.42
37 6 0.18
39 13 0.39
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (37 bp):
ATAAATAATAAATAATTTAATTTTCTTAACATAATTA
Found at i:11451106 original size:22 final size:24
Alignment explanation
Indices: 11451065--11451108 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
11451055 TTTCACTATT
*
11451065 ATATTACTATGTATTATTGTTTGG
1 ATATTACTATGTAGTATTGTTTGG
11451089 ATATTA-TAT-TAGTATTGTTT
1 ATATTACTATGTAGTATTGTTT
11451109 TATTGTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (24 bp):
ATATTACTATGTAGTATTGTTTGG
Found at i:11451234 original size:22 final size:25
Alignment explanation
Indices: 11451208--11451264 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
11451198 TTGTTGATAA
11451208 ATATTTATT-TTA-ATTTTTT-AAT
1 ATATTTATTATTATATTTTTTAAAT
11451230 ATATTTAATTTATTATATTTTTTAAAT
1 ATATTT-A-TTATTATATTTTTTAAAT
*
11451257 CTATTTAT
1 ATATTTAT
11451265 ATATATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 6 0.21
23 1 0.03
24 2 0.07
25 4 0.14
26 8 0.28
27 8 0.28
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
ATATTTATTATTATATTTTTTAAAT
Found at i:11451241 original size:27 final size:27
Alignment explanation
Indices: 11451210--11451263 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
11451200 GTTGATAAAT
*
11451210 ATTTATTTTAATTTTTT-AATATATTTA
1 ATTTATTAT-ATTTTTTAAATATATTTA
*
11451237 ATTTATTATATTTTTTAAATCTATTTA
1 ATTTATTATATTTTTTAAATATATTTA
11451264 TATATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTATTATATTTTTTAAATATATTTA
Done.