Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 54 of 290
Found at i:18003131 original size:48 final size:48
Alignment explanation
Indices: 18003066--18003291 Score: 230
Period size: 48 Copynumber: 4.8 Consensus size: 48
18003056 CATGGTAGGG
* * *
18003066 TGCCAATGCCATATCCCAAATATGATCTTACATGGGATCACATACCGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATACCGA
*
18003114 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATACCGA
* * * *
18003162 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCACACATCGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATACCGA
* * * * * ** * *
18003210 TGTCGAT---A-G-CCC-AGCTATGGTCTAACACGATATTACATATCGA
1 TGCCAATGCCATGTCCCAAAC-ATGGTCTTACATGGGATCACATACCGA
* *
18003253 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATC
18003292 GTACATAACC
Statistics
Matches: 144, Mismatches: 27, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
42 1 0.01
43 28 0.19
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 110 0.76
49 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATACCGA
Found at i:18005427 original size:5 final size:5
Alignment explanation
Indices: 18005417--18005486 Score: 76
Period size: 5 Copynumber: 14.4 Consensus size: 5
18005407 GTATTTTTTA
* *
18005417 TTCTT TTCTT TTCTT TTCTT TGT-TT TT-TT TTGTT TT-TT TGTTTT TTCTT
1 TTCTT TTCTT TTCTT TTCTT T-TCTT TTCTT TTCTT TTCTT T-TCTT TTCTT
18005466 TTCTT TTCTT TTCTT TT-TT TT
1 TTCTT TTCTT TTCTT TTCTT TT
18005487 AGAACAATAA
Statistics
Matches: 60, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
4 12 0.20
5 44 0.73
6 4 0.07
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.84
Consensus pattern (5 bp):
TTCTT
Found at i:18005452 original size:29 final size:29
Alignment explanation
Indices: 18005410--18005485 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
18005400 TCTATATGTA
18005410 TTTTTTATTCTTTTCTTT-TCTTTTCTTTG
1 TTTTTTATTCTTTT-TTTGTCTTTTCTTTG
* * *
18005439 TTTTTTTTTGTTTTTTTGTTTTTTCTTT-
1 TTTTTTATTCTTTTTTTGTCTTTTCTTTG
*
18005467 TCTTTTCTTTTCTTTTTTT
1 T-TTTT-TATTCTTTTTTT
18005486 TAGAACAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 4 0.10
29 25 0.62
30 11 0.28
ACGTcount: A:0.01, C:0.11, G:0.04, T:0.84
Consensus pattern (29 bp):
TTTTTTATTCTTTTTTTGTCTTTTCTTTG
Found at i:18005464 original size:39 final size:40
Alignment explanation
Indices: 18005410--18005486 Score: 122
Period size: 39 Copynumber: 1.9 Consensus size: 40
18005400 TCTATATGTA
18005410 TTTTTTATTCTTTTCTTTTCTTTTCTTTGT-TTTTTTTTGT
1 TTTTTTATTCTTTTCTTTTCTTTTCTTT-TCTTTTTTTTGT
*
18005450 TTTTTTGTT-TTTTCTTTTCTTTTCTTTTCTTTTTTTT
1 TTTTTTATTCTTTTCTTTTCTTTTCTTTTCTTTTTTTT
18005487 AGAACAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 1 0.03
39 26 0.74
40 8 0.23
ACGTcount: A:0.01, C:0.10, G:0.04, T:0.84
Consensus pattern (40 bp):
TTTTTTATTCTTTTCTTTTCTTTTCTTTTCTTTTTTTTGT
Found at i:18006468 original size:25 final size:23
Alignment explanation
Indices: 18006436--18006494 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 23
18006426 TAATTTTAAG
18006436 AAAATAAAAGT-GAACATAAAAACT
1 AAAATAAAAGTAGAA-ATAAAAA-T
18006460 AAAATTAAAA-TAAGAAATAAAAAT
1 AAAA-TAAAAGT-AGAAATAAAAAT
18006484 AAAAATAAAAG
1 -AAAATAAAAG
18006495 AAAACAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
24 11 0.37
25 16 0.53
26 3 0.10
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (23 bp):
AAAATAAAAGTAGAAATAAAAAT
Found at i:18006477 original size:7 final size:6
Alignment explanation
Indices: 18006436--18006493 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
18006426 TAATTTTAAG
* * * *
18006436 AAAATA AAAGTG AACATA AAAACT- AAAATT AAAATA AGAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAA-TA AAAATA AAAATA A-AAATA AAAATA
18006485 AAAATA AAA
1 AAAATA AAA
18006494 GAAAACAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
5 1 0.02
6 34 0.81
7 7 0.17
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:18007532 original size:15 final size:15
Alignment explanation
Indices: 18007514--18007544 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18007504 AATAAACAAT
18007514 AAATAAATAATAATA
1 AAATAAATAATAATA
*
18007529 AAATAACTAATAATA
1 AAATAAATAATAATA
18007544 A
1 A
18007545 TAAACAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAATAATAATA
Found at i:18007562 original size:21 final size:20
Alignment explanation
Indices: 18007493--18007558 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 20
18007483 AAGAGTAGAA
18007493 AAATAATAGATAATAAACAAT
1 AAATAATA-ATAATAAACAAT
18007514 AAATAAATAATAAT-AA-AAT
1 AAAT-AATAATAATAAACAAT
* *
18007533 AACTAATAATAATAAACAAG
1 AAATAATAATAATAAACAAT
18007553 AAATAA
1 AAATAA
18007559 ATAAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 9 0.23
19 8 0.21
20 9 0.23
21 9 0.23
22 4 0.10
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (20 bp):
AAATAATAATAATAAACAAT
Found at i:18008474 original size:4 final size:4
Alignment explanation
Indices: 18008465--18008490 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
18008455 TTAAAAACAC
18008465 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
18008491 TGAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:18013408 original size:27 final size:27
Alignment explanation
Indices: 18013370--18013500 Score: 133
Period size: 27 Copynumber: 4.9 Consensus size: 27
18013360 TAAGACCTCG
*
18013370 GTTTGTAAAATTACCAAAATACCCCTA
1 GTTTGTAAAATTATCAAAATACCCCTA
* *
18013397 GTTTGTAAAATTATCGAAATA-CCCTC
1 GTTTGTAAAATTATCAAAATACCCCTA
* *
18013423 GATTTGTAAAATTATCGAAATACCCCCA
1 G-TTTGTAAAATTATCAAAATACCCCTA
* * *
18013451 GTTTATAAAATTA-CAAAATA-CCTTT
1 GTTTGTAAAATTATCAAAATACCCCTA
* *
18013476 GTAGTGTAAAATTATCGAAATACCC
1 GT-TTGTAAAATTATCAAAATACCC
18013501 AGGTAGGGTA
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
25 4 0.05
26 20 0.23
27 56 0.65
28 6 0.07
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
GTTTGTAAAATTATCAAAATACCCCTA
Found at i:18013447 original size:54 final size:52
Alignment explanation
Indices: 18013365--18013500 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 52
18013355 GTCGTTAAGA
* * * * *
18013365 CCTCGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAATAC
1 CCTC-GTTTGTAAAATTATCGAAATACCCCCAGTTTATAAAATTA-CAAAATAC
18013419 CCTCGATTTGTAAAATTATCGAAATACCCCCAGTTTATAAAATTACAAAATAC
1 CCTCG-TTTGTAAAATTATCGAAATACCCCCAGTTTATAAAATTACAAAATAC
* * *
18013472 CTTTGTAGTGTAAAATTATCGAAATACCC
1 CCTCGT-TTGTAAAATTATCGAAATACCC
18013501 AGGTAGGGTA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
52 1 0.01
53 32 0.44
54 39 0.54
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (52 bp):
CCTCGTTTGTAAAATTATCGAAATACCCCCAGTTTATAAAATTACAAAATAC
Found at i:18017313 original size:27 final size:27
Alignment explanation
Indices: 18017269--18017467 Score: 158
Period size: 27 Copynumber: 7.3 Consensus size: 27
18017259 TTGGGTCGTT
*
18017269 AATA-CCCTAGTTTTTAAAATTATCGA
1 AATACCCCTAGTTTGTAAAATTATCGA
*
18017295 AATACCCCCAGTTTGTAAAATTA-CTGA
1 AATACCCCTAGTTTGTAAAATTATC-GA
* *
18017322 AATACCCATAATTTGTAAAATTA-CTGA
1 AATACCCCTAGTTTGTAAAATTATC-GA
* *
18017349 AATACCCCTAATTTGTAAAAATTATTGA
1 AATACCCCTAGTTTGT-AAAATTATCGA
* *
18017377 AATACCCTTAGTTTGTAAAAAAATTATCAA
1 AATACCCCTAGTTTGT---AAAATTATCGA
* * *
18017407 AATA-CCCTAATTTTTTAAAATTACCGA
1 AATACCCCT-AGTTTGTAAAATTATCGA
* *
18017434 AATA-CCCTTGTAGTGTAAAATTA-CTGA
1 AATACCCCTAGT-TTGTAAAATTATC-GA
18017461 AATACCC
1 AATACCC
18017468 TGTAGGGTAA
Statistics
Matches: 143, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
26 7 0.05
27 89 0.62
28 25 0.17
29 3 0.02
30 19 0.13
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (27 bp):
AATACCCCTAGTTTGTAAAATTATCGA
Found at i:18017426 original size:30 final size:30
Alignment explanation
Indices: 18017348--18017426 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
18017338 AAAATTACTG
**
18017348 AAATACCCCTAA-TTTGT--AAAAATTATTG
1 AAATA-CCCTAAGTTTGTAAAAAAATTATCA
*
18017376 AAATACCCTTAGTTTGTAAAAAAATTATCA
1 AAATACCCTAAGTTTGTAAAAAAATTATCA
* *
18017406 AAATACCCTAATTTTTTAAAA
1 AAATACCCTAAGTTTGTAAAA
18017427 TTACCGAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
27 5 0.12
28 10 0.24
30 27 0.64
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (30 bp):
AAATACCCTAAGTTTGTAAAAAAATTATCA
Found at i:18017478 original size:26 final size:27
Alignment explanation
Indices: 18017422--18017480 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
18017412 CCTAATTTTT
*
18017422 TAAAATTACCGAAATACCCTTGTAGTG
1 TAAAATTACCGAAATACCCTTGTAGGG
*
18017449 TAAAATTACTGAAATACCC-TGTAGGG
1 TAAAATTACCGAAATACCCTTGTAGGG
18017475 TAAAAT
1 TAAAAT
18017481 GACAATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTGTAGGG
Found at i:18018247 original size:27 final size:27
Alignment explanation
Indices: 18018180--18018247 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
18018170 TGTTAATGAG
* * ** *
18018180 ATGGGC-TAGGCCCAATTGATTTTGTT
1 ATGGGCTTTGGCCCAAATGATAATGTA
* *
18018206 ATGGGCTGTGACCCAAATGATAATGTA
1 ATGGGCTTTGGCCCAAATGATAATGTA
18018233 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
18018248 CTTATGCTAT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATAATGTA
Found at i:18021577 original size:15 final size:15
Alignment explanation
Indices: 18021566--18021602 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
18021556 TTAAGAAGTT
*
18021566 CAAGATAGAGAAATC
1 CAAGATAAAGAAATC
18021581 CAAGATAAAGAAATC
1 CAAGATAAAGAAATC
18021596 CAAGATA
1 CAAGATA
18021603 CAATATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (15 bp):
CAAGATAAAGAAATC
Found at i:18025393 original size:49 final size:50
Alignment explanation
Indices: 18025326--18025574 Score: 234
Period size: 50 Copynumber: 5.0 Consensus size: 50
18025316 GTAACCGAAG
* * * *
18025326 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
** * *
18025375 AAATCCGGTACACGTAGTAGCCTACACTTAGT-CTACACACGTGACCTAA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * * *
18025424 CGA-CCTGCTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCC-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * * * * *
18025474 GTTGTCGGGTACGCATAGTAGCCTGCACTTAGTACTACAAATGCGACCTAA
1 -CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * * *
18025525 CTATCTGGTACACGTATTAGCCTACACTTAGTACTACATACGTGACCTAA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
18025575 AACCATCTTA
Statistics
Matches: 159, Mismatches: 36, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
48 14 0.09
49 53 0.33
50 55 0.35
51 36 0.23
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
Found at i:18025546 original size:101 final size:98
Alignment explanation
Indices: 18025326--18025576 Score: 277
Period size: 101 Copynumber: 2.5 Consensus size: 98
18025316 GTAACCGAAG
* * * * *
18025326 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCCGGTACACGTA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAAATCCGGTACACATA
* *
18025391 GTAGCCTACACTTAGTCTACACACGTGACCTAA
66 GTAGCCTACACTTAGTCTACAAACGCGACCTAA
* * * * *** * *
18025424 CGACCTGCTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-AAATCCGGTACACA
* *
18025489 TAGTAGCCTGCACTTAGTACTACAAATGCGACCTAA
64 TAGTAGCCTACACTTAGT-CTACAAACGCGACCTAA
* * * *
18025525 CTATCTGGTACACGTATTAGCCTACACTTAGTACTACATACGTGACCTAAAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAAA
18025577 CCATCTTAAA
Statistics
Matches: 121, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
98 38 0.31
99 3 0.02
100 27 0.22
101 53 0.44
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAAATCCGGTACACATA
GTAGCCTACACTTAGTCTACAAACGCGACCTAA
Found at i:18027483 original size:13 final size:14
Alignment explanation
Indices: 18027465--18027495 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
18027455 GGTTGTTTAT
18027465 TAAACTAATT-AAC
1 TAAACTAATTAAAC
18027478 TAAACTAATTAAAC
1 TAAACTAATTAAAC
18027492 TAAA
1 TAAA
18027496 GCAAAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACTAATTAAAC
Found at i:18035001 original size:56 final size:56
Alignment explanation
Indices: 18034910--18035077 Score: 205
Period size: 56 Copynumber: 3.0 Consensus size: 56
18034900 TCTTACATGT
* * * * *
18034910 AATCACATATCGATGCC-AC-TGTTCTAGACAGGGTCTTACTTGCACACATATATTGA
1 AATCACATATCGATGCCAACAT-AT-TAAACATGGTCTTACTCGCACACATATATCGA
* * *
18034966 AATCACATATTGATGCCAACATATTAAACGTGGTCTTACTCGCACACATATATCGG
1 AATCACATATCGATGCCAACATATTAAACATGGTCTTACTCGCACACATATATCGA
** *
18035022 AATCACATATCGATGCCAATGTATTAAACATGGTCTTACTCGCACACATAGATCGA
1 AATCACATATCGATGCCAACATATTAAACATGGTCTTACTCGCACACATATATCGA
18035078 TGTCATGGTC
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
56 92 0.96
57 3 0.03
58 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (56 bp):
AATCACATATCGATGCCAACATATTAAACATGGTCTTACTCGCACACATATATCGA
Found at i:18035712 original size:15 final size:15
Alignment explanation
Indices: 18035688--18035718 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18035678 AATAAAAATT
18035688 TTAATACAAAACATA
1 TTAATACAAAACATA
*
18035703 TTAATCCAAAACATA
1 TTAATACAAAACATA
18035718 T
1 T
18035719 CTTTCATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (15 bp):
TTAATACAAAACATA
Found at i:18037981 original size:125 final size:125
Alignment explanation
Indices: 18037759--18038009 Score: 477
Period size: 125 Copynumber: 2.0 Consensus size: 125
18037749 GAAGTTTTAC
*
18037759 TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGAGTCTTGTATGATGAGTTAAGTACTTAC
1 TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGACTCTTGTATGATGAGTTAAGTACTTAC
18037824 ATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
66 ATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
18037884 TAGTAATGGCATGTACCTAAGACTAAACAACTAGGA-ATCTCTTGTATGATGAGTTAAGTACTTA
1 TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGA-CTCTTGTATGATGAGTTAAGTACTTA
18037948 CATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
65 CATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
18038009 T
1 T
18038010 GAATATGTTA
Statistics
Matches: 124, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
124 1 0.01
125 123 0.99
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.33
Consensus pattern (125 bp):
TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGACTCTTGTATGATGAGTTAAGTACTTAC
ATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
Found at i:18047808 original size:46 final size:45
Alignment explanation
Indices: 18047741--18047904 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 45
18047731 GCCCATAAGC
*
18047741 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCATT-GCATCCATGAGT
* *
18047787 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGA--
1 GAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTGCATC-CATGAGT
* *
18047836 G--CTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCA-TTGCATCCATGAGT
18047880 GAACTCGGACTCAACTCAACGAGTT
1 GAACTCGGACTCAACTCAACGAGTT
18047905 TGGATGCTCA
Statistics
Matches: 100, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
44 2 0.02
46 49 0.49
47 25 0.25
48 1 0.01
49 2 0.02
50 5 0.05
51 6 0.06
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGGCATTGCATCCATGAGT
Found at i:18051371 original size:23 final size:21
Alignment explanation
Indices: 18051345--18051386 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
18051335 TTTGTAAGAA
*
18051345 AAATTACATTAGACAATTTTTCT
1 AAATTA-ATTAG-CAAATTTTCT
18051368 AAATTAATTAGCAAATTTT
1 AAATTAATTAGCAAATTTT
18051387 GGGCATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 5 0.28
23 6 0.33
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (21 bp):
AAATTAATTAGCAAATTTTCT
Found at i:18052749 original size:21 final size:22
Alignment explanation
Indices: 18052718--18052758 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
18052708 ATATTTCTCC
*
18052718 TCTTGAATTATGTTATTTATGT
1 TCTTGAATTATATTATTTATGT
18052740 TCTT-AATTATATTATTTAT
1 TCTTGAATTATATTATTTAT
18052759 ACTTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (22 bp):
TCTTGAATTATATTATTTATGT
Found at i:18054828 original size:37 final size:37
Alignment explanation
Indices: 18054778--18054856 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18054768 TTATTACGAA
* * *
18054778 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
18054815 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
18054852 GTCTT
1 GTCTT
18054857 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:18055172 original size:96 final size:94
Alignment explanation
Indices: 18054975--18055212 Score: 386
Period size: 96 Copynumber: 2.5 Consensus size: 94
18054965 CCCTTCGGGA
* * * * * * *
18054975 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
18055040 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
18055069 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
18055134 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
18055165 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
18055213 TTACTATCAT
Statistics
Matches: 134, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
94 48 0.36
96 86 0.64
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.31
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:18055213 original size:47 final size:47
Alignment explanation
Indices: 18054975--18055215 Score: 374
Period size: 47 Copynumber: 5.1 Consensus size: 47
18054965 CCCTTCGGGA
* * * * * *
18054975 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18055022 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18055069 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18055116 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18055165 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18055212 CTTA
1 CTTA
18055216 CTATCATTTC
Statistics
Matches: 179, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 133 0.74
49 46 0.26
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18064991 original size:11 final size:12
Alignment explanation
Indices: 18064969--18064997 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
18064959 TTTTATATAC
18064969 TTTTATAATTAA
1 TTTTATAATTAA
18064981 TTTTA-AATTAA
1 TTTTATAATTAA
18064992 TTTTAT
1 TTTTAT
18064998 TATTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTATAATTAA
Found at i:18069336 original size:30 final size:30
Alignment explanation
Indices: 18069301--18069415 Score: 151
Period size: 30 Copynumber: 3.8 Consensus size: 30
18069291 CTGGGCATTT
18069301 CCACACAGGTAGGACACACGCCCATGTGTG
1 CCACACAGGTAGGACACACGCCCATGTGTG
* * *
18069331 CCACACAAGCAGGACACACGCCCATGTGTA
1 CCACACAGGTAGGACACACGCCCATGTGTG
* * *
18069361 CCATA-TGGATTGGACACACGCCCATGTGTG
1 CCACACAGG-TAGGACACACGCCCATGTGTG
*
18069391 CCACACAGGTAGGACACATGCCCAT
1 CCACACAGGTAGGACACACGCCCAT
18069416 ATGCCAGCTC
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
29 1 0.01
30 67 0.96
31 2 0.03
ACGTcount: A:0.29, C:0.33, G:0.23, T:0.15
Consensus pattern (30 bp):
CCACACAGGTAGGACACACGCCCATGTGTG
Found at i:18071451 original size:23 final size:23
Alignment explanation
Indices: 18071418--18071540 Score: 87
Period size: 22 Copynumber: 5.4 Consensus size: 23
18071408 GCTGATGAAT
*
18071418 AGTAAGATCTAATGAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
18071441 AGTAAGCTCT-ATCGAGCTG-AAC
1 AGTAAGCTCTAAT-GAGCTGAAAC
* *
18071463 AGTAAGCTCT-ATCAAACTG-AAC
1 AGTAAGCTCTAAT-GAGCTGAAAC
* * *
18071485 AGT-AGGT-TATAGGAGCTGAAAT
1 AGTAAGCTCTA-ATGAGCTGAAAC
* * *
18071507 GGTAAGCTCCAATGAGCTAAAAAC
1 AGTAAGCTCTAATGAGCT-GAAAC
18071531 AGTAAGCTCT
1 AGTAAGCTCT
18071541 TACAAGTTGA
Statistics
Matches: 77, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
20 1 0.01
21 7 0.09
22 33 0.43
23 24 0.31
24 12 0.16
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (23 bp):
AGTAAGCTCTAATGAGCTGAAAC
Found at i:18071466 original size:22 final size:22
Alignment explanation
Indices: 18071413--18071488 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 22
18071403 CCTGAGCTGA
* *
18071413 TGAATAGTAAGATCTAAT-GAGC
1 TGAACAGTAAGCTCT-ATCGAGC
18071435 TGAAACAGTAAGCTCTATCGAGC
1 TG-AACAGTAAGCTCTATCGAGC
* *
18071458 TGAACAGTAAGCTCTATCAAAC
1 TGAACAGTAAGCTCTATCGAGC
18071480 TGAACAGTA
1 TGAACAGTA
18071489 GGTTATAGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 31 0.65
23 17 0.35
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:18073358 original size:12 final size:12
Alignment explanation
Indices: 18073343--18073385 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
18073333 AATTTAGCTA
18073343 TTTTTATTTTAT
1 TTTTTATTTTAT
18073355 TTTTATATTTT-T
1 TTTT-TATTTTAT
*
18073367 GTTTTTATTTTAA
1 -TTTTTATTTTAT
18073380 TTTTTA
1 TTTTTA
18073386 CATTCTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:18073363 original size:19 final size:19
Alignment explanation
Indices: 18073341--18073385 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
18073331 TTAATTTAGC
18073341 TATTTTTA-TTTTATTTTTA
1 TATTTTTATTTTTA-TTTTA
*
18073360 TATTTTTGTTTTTATTTTA
1 TATTTTTATTTTTATTTTA
18073379 -ATTTTTA
1 TATTTTTA
18073386 CATTCTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 12 0.52
20 5 0.22
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (19 bp):
TATTTTTATTTTTATTTTA
Found at i:18076240 original size:14 final size:13
Alignment explanation
Indices: 18076215--18076239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18076205 CAAATTAATT
18076215 AAATAAAATTTTA
1 AAATAAAATTTTA
18076228 AAATAAAATTTT
1 AAATAAAATTTT
18076240 TTTGACCCAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATAAAATTTTA
Found at i:18078493 original size:6 final size:6
Alignment explanation
Indices: 18078482--18078506 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18078472 TGATATGTTC
18078482 ATACAT ATACAT ATACAT ATACAT A
1 ATACAT ATACAT ATACAT ATACAT A
18078507 AACTTTCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATACAT
Found at i:18081949 original size:20 final size:20
Alignment explanation
Indices: 18081911--18081949 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18081901 TCATATATCA
* * *
18081911 TAATTTTCTTGCATTTCATG
1 TAATATTCTTCCATGTCATG
18081931 TAATATTCTTCCATGTCAT
1 TAATATTCTTCCATGTCAT
18081950 ATTTCCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (20 bp):
TAATATTCTTCCATGTCATG
Found at i:18088184 original size:25 final size:26
Alignment explanation
Indices: 18088122--18088184 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
18088112 TATTTTCTCA
*
18088122 AAAATTTAAAAATTATTAATGATTCAAT
1 AAAA-TTAAAAATTA-TAATGATTAAAT
18088150 -AAATTGAAAAATTA-AATGATTAAAT
1 AAAATT-AAAAATTATAATGATTAAAT
18088175 AAAATTAAAA
1 AAAATTAAAA
18088185 TTTAGGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 14 0.44
26 7 0.22
27 11 0.34
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATTAAAAATTATAATGATTAAAT
Found at i:18088760 original size:17 final size:18
Alignment explanation
Indices: 18088733--18088766 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18088723 AATTAAATAT
18088733 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
18088751 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
18088767 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:18088836 original size:22 final size:24
Alignment explanation
Indices: 18088811--18088858 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
18088801 AATTCTATGC
18088811 TAAATTGATAA-AAAT-TAA-TATA
1 TAAATT-ATAATAAATATAATTATA
18088833 TAAATTATAATAAATATAATTATA
1 TAAATTATAATAAATATAATTATA
18088857 TA
1 TA
18088859 TTAAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 3 0.13
24 6 0.26
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
TAAATTATAATAAATATAATTATA
Found at i:18096785 original size:27 final size:27
Alignment explanation
Indices: 18096755--18096854 Score: 132
Period size: 27 Copynumber: 3.7 Consensus size: 27
18096745 TACCCTACAT
*
18096755 GGGTATTTTTATAATTTTACAAATTGG
1 GGGTATTTTGATAATTTTACAAATTGG
*
18096782 GGGTATTTTGATAATTTTAC-AATTCGA
1 GGGTATTTTGATAATTTTACAAATT-GG
*
18096809 GGGTATTTT-AGTAATTTTACAAACTGG
1 GGGTATTTTGA-TAATTTTACAAATTGG
*
18096836 GGGTATTTCGATAATTTTA
1 GGGTATTTTGATAATTTTA
18096855 AACAGTTTGG
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
26 5 0.08
27 55 0.86
28 4 0.06
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (27 bp):
GGGTATTTTGATAATTTTACAAATTGG
Found at i:18099820 original size:23 final size:24
Alignment explanation
Indices: 18099782--18099826 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
18099772 TTTGCTCTTC
*
18099782 TAGTATGAACTTGTCTTACCTTTT
1 TAGTATGAACTCGTCTTACCTTTT
18099806 TAGTAT-AACTCGTCTTACCTT
1 TAGTATGAACTCGTCTTACCTT
18099827 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (24 bp):
TAGTATGAACTCGTCTTACCTTTT
Found at i:18100083 original size:55 final size:53
Alignment explanation
Indices: 18099942--18100149 Score: 206
Period size: 55 Copynumber: 3.8 Consensus size: 53
18099932 ATCCTTTTGA
* * *
18099942 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
18099995 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* * * *
18100049 TAACTTATCAATGCCATGTCTTGTCATGGTCTTACATGGTATCCGTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
18100102 AAACCTTACCAATTGCCATG-CATTGGCATGGTCTTACATTGTATCCTT
1 -AA-CTTACCAA-TGCCATGTC-TTGACATGGTCTTACATGGGATCCTT
18100150 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 9 0.07
55 71 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:18102955 original size:18 final size:17
Alignment explanation
Indices: 18102929--18102962 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18102919 CCGTAATACG
18102929 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
18102947 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
18102963 AAACCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:18107187 original size:36 final size:36
Alignment explanation
Indices: 18107140--18107210 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
18107130 TATTCTTAAT
*
18107140 AGTCAATTTATTCAATTGTC-GTCCGTCGATGCACAG
1 AGTCAATTTATTCAATTGTCGGT-AGTCGATGCACAG
18107176 AGTCAATTTATTCAATTGTCGGTAGTCGATGCACA
1 AGTCAATTTATTCAATTGTCGGTAGTCGATGCACA
18107211 TACACATGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 31 0.94
37 2 0.06
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (36 bp):
AGTCAATTTATTCAATTGTCGGTAGTCGATGCACAG
Found at i:18118522 original size:74 final size:74
Alignment explanation
Indices: 18118395--18118545 Score: 212
Period size: 74 Copynumber: 2.0 Consensus size: 74
18118385 TAATAGGTTA
* * * *
18118395 GTTAGTACCTAATCCACCCTAAAACCTTAATCCGAAGTTAACTACAGCCTAAAACAAGTTAATCT
1 GTTAGTACCGAATCAACCCTAAAACCCTAATCCGAAGTTAACTACAGCCTAAAACAACTTAATCT
18118460 TCCTGACTG
66 TCCTGACTG
* * * **
18118469 GTTAGTACCGAATCAACCCTAAAACCCTAATCTGAAGTTAACTATAGCTTAAAATGACTTAATCT
1 GTTAGTACCGAATCAACCCTAAAACCCTAATCCGAAGTTAACTACAGCCTAAAACAACTTAATCT
*
18118534 TCCTGATTG
66 TCCTGACTG
18118543 GTT
1 GTT
18118546 TCATCAGTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (74 bp):
GTTAGTACCGAATCAACCCTAAAACCCTAATCCGAAGTTAACTACAGCCTAAAACAACTTAATCT
TCCTGACTG
Found at i:18124442 original size:45 final size:44
Alignment explanation
Indices: 18124370--18124524 Score: 166
Period size: 45 Copynumber: 3.4 Consensus size: 44
18124360 GAAGGATCGA
* * *
18124370 ACACTTATATATTATATTTTTTGGTTTCACCGACCAGTGCTGGGC
1 ACACATATATATTATA-TTTGTCGTTTCACCGACCAGTGCTGGGC
* *
18124415 ACACATATATATTATATTTGTCAGTTTCACCGACCAATGCTAGGC
1 ACACATATATATTATATTTGTC-GTTTCACCGACCAGTGCTGGGC
* * *
18124460 ACACCTATATATATTATAGTTGTCGACTTCACCGACCAGTGCAGGGC
1 ACA-C-ATATATATTATATTTGTCG-TTTCACCGACCAGTGCTGGGC
* * *
18124507 ACATATATAAATAATATT
1 ACACATATATATTATATT
18124525 ATTGTCGGTA
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
44 4 0.04
45 49 0.53
46 2 0.02
47 37 0.40
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (44 bp):
ACACATATATATTATATTTGTCGTTTCACCGACCAGTGCTGGGC
Found at i:18124530 original size:47 final size:47
Alignment explanation
Indices: 18124395--18124531 Score: 147
Period size: 47 Copynumber: 2.9 Consensus size: 47
18124385 ATTTTTTGGT
* * *
18124395 TTCACCGACCAGTGCTGGGCACACATATATATTATAT-TTGTC-AGT
1 TTCACCGACCAGTGCAGGGCACACATATATATAATATATTGTCGAGC
* * *
18124440 TTCACCGACCAATGCTA-GGCACACCTATATATATTATAGTTGTCGA-C
1 TTCACCGACCAGTGC-AGGGCACACATATATATAATATA-TTGTCGAGC
* *
18124487 TTCACCGACCAGTGCAGGGCACATATATAAATAATATTATTGTCG
1 TTCACCGACCAGTGCAGGGCACACATATATATAATA-TATTGTCG
18124532 GTACCACCGA
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
45 31 0.41
46 1 0.01
47 40 0.53
48 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (47 bp):
TTCACCGACCAGTGCAGGGCACACATATATATAATATATTGTCGAGC
Found at i:18125893 original size:26 final size:27
Alignment explanation
Indices: 18125853--18125907 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
18125843 ACAATCATAC
* *
18125853 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACATAGGAGCATAAAAGTCATTTT
18125880 ATCACATA-GAGCATAAAAGTCATTTT
1 ATCACATAGGAGCATAAAAGTCATTTT
18125906 AT
1 AT
18125908 AAATTAGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (27 bp):
ATCACATAGGAGCATAAAAGTCATTTT
Found at i:18131364 original size:93 final size:93
Alignment explanation
Indices: 18131251--18131608 Score: 662
Period size: 93 Copynumber: 3.8 Consensus size: 93
18131241 GCCCATAAGT
* * * *
18131251 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18131316 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
18131344 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18131409 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
18131437 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18131502 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
18131530 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAATTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
18131595 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
18131609 CAAATATCCT
Statistics
Matches: 259, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 259 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:18131365 original size:47 final size:47
Alignment explanation
Indices: 18131297--18131558 Score: 297
Period size: 47 Copynumber: 5.6 Consensus size: 47
18131287 ATCCATAAGT
18131297 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * ***
18131344 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCTC
18131390 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * ***
18131437 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCTC
18131483 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
*
18131530 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
18131559 CATTCGCATC
Statistics
Matches: 176, Mismatches: 25, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
43 2 0.01
44 8 0.05
46 64 0.36
47 92 0.52
49 8 0.05
50 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:18131604 original size:46 final size:46
Alignment explanation
Indices: 18131243--18131604 Score: 346
Period size: 46 Copynumber: 7.8 Consensus size: 46
18131233 TGTAACCCGC
* * *
18131243 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
18131289 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
18131335 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
18131382 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
18131428 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
18131475 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
18131521 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
18131568 CCATAAGTGAACTCGGACTCAATTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
18131605 TGCCCAAATA
Statistics
Matches: 257, Mismatches: 38, Indels: 42
0.76 0.11 0.12
Matches are distributed among these distances:
43 3 0.01
44 11 0.04
46 132 0.51
47 96 0.37
49 12 0.05
50 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:18146300 original size:18 final size:18
Alignment explanation
Indices: 18146279--18146324 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
18146269 AAATTACTTA
*
18146279 AATAAGATAAATAAAGAT
1 AATAAGATAAATAAAAAT
*
18146297 AATAGTGA-AAATAAAAAT
1 AATA-AGATAAATAAAAAT
18146315 AATAA-ATAAA
1 AATAAGATAAA
18146325 AAGTTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
16 1 0.04
17 3 0.13
18 17 0.74
19 2 0.09
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.22
Consensus pattern (18 bp):
AATAAGATAAATAAAAAT
Found at i:18155221 original size:19 final size:19
Alignment explanation
Indices: 18155184--18155222 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
18155174 ACTTGTTAGA
* * *
18155184 AGAAAATAAATGAAGAATT
1 AGAAAAAAAATAAAAAATT
18155203 AGAAAAAAAATAAAAAATT
1 AGAAAAAAAATAAAAAATT
18155222 A
1 A
18155223 AAATGCAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (19 bp):
AGAAAAAAAATAAAAAATT
Found at i:18163191 original size:38 final size:38
Alignment explanation
Indices: 18163121--18163359 Score: 291
Period size: 38 Copynumber: 6.3 Consensus size: 38
18163111 ATATTTGATG
*
18163121 TATATCAGGGTTAAATCCC-TAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAT
* * *
18163158 TATATTCGAGTTAAATCCCGTAGGCTTTGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAT
* * *
18163196 TATATCCGGGCTTAAAGACCCATAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGTAGGCTTCGTGCTGGTAT
* *
18163236 AATATCCGGGTTAAATCCCGAAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAT
** *
18163274 TATATCCAAGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAT
* * * * *
18163312 TATATCTGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAT
*
18163350 TATATTCGGG
1 TATATCCGGG
18163360 CCTTCGTGCC
Statistics
Matches: 172, Mismatches: 27, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
37 16 0.09
38 118 0.69
39 10 0.06
40 28 0.16
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAT
Found at i:18163400 original size:43 final size:43
Alignment explanation
Indices: 18163352--18163462 Score: 195
Period size: 43 Copynumber: 2.6 Consensus size: 43
18163342 GCTGGTATTA
18163352 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
18163395 TATTCGGGCCTTCGTGCCTAGTAGGTTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
18163438 TATTCGGGCCTTCGTGCCTAGCAGG
1 TATTCGGGCCTTCGTGCCTAGCAGG
18163463 TGTAATGCCG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.10, C:0.23, G:0.34, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:18163867 original size:45 final size:45
Alignment explanation
Indices: 18163789--18163906 Score: 125
Period size: 45 Copynumber: 2.6 Consensus size: 45
18163779 CTTGTTGACT
* * ** * *
18163789 TGATTATTCGGGCCTTTGAGCTTAGGAAACTATAATGCTGGTGAAA
1 TGATTATTCGGGCC-TTGAGCCTAGCAGGCTATAATACCGGTGAAA
*
18163835 T-ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAC
1 TGATTATTCGGGCCTT-GAGCCTAGCAGGCTATAATACCGGTGAAA
*
18163880 TGA-TA-TCGGGCCTTGAGCCTAACAGGC
1 TGATTATTCGGGCCTTGAGCCTAGCAGGC
18163907 GAAATGCCAG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
43 12 0.19
44 11 0.18
45 37 0.60
46 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (45 bp):
TGATTATTCGGGCCTTGAGCCTAGCAGGCTATAATACCGGTGAAA
Found at i:18173849 original size:26 final size:24
Alignment explanation
Indices: 18173767--18173873 Score: 128
Period size: 26 Copynumber: 4.4 Consensus size: 24
18173757 CTGGAGGCCT
18173767 AGCCTCTTTTAAT-AACT-GGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
* *
18173790 AGCCCATTTGATAAACTGGGGCAA
1 AGCCCTTTTAATAAACTGGGGCAA
*
18173814 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCA-A
*
18173840 AGCCCTTTTCAATAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
18173865 AGCCCTTTT
1 AGCCCTTTT
18173874 GCACTTCCTC
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
22 6 0.08
23 8 0.11
24 14 0.19
25 21 0.29
26 24 0.33
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:18173856 original size:51 final size:46
Alignment explanation
Indices: 18173767--18173873 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 46
18173757 CTGGAGGCCT
*
18173767 AGCCTCTTTTAATAACTGGGCAAAGCCCATTTGATAAACTGGGGCAA
1 AGCC-CTTTTAATAACTGGGCAAAGCCCATTTAATAAACTGGGGCAA
* *
18173814 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCAATAAACTGGGGCAT
1 AGCCCTTTT-AAT-AACT-GGGCA-AAGCCCATTT-AATAAACTGGGGCAA
18173865 AGCCCTTTT
1 AGCCCTTTT
18173874 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
46 5 0.10
47 7 0.13
48 4 0.08
49 5 0.10
50 9 0.17
51 22 0.42
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (46 bp):
AGCCCTTTTAATAACTGGGCAAAGCCCATTTAATAAACTGGGGCAA
Found at i:18173948 original size:20 final size:20
Alignment explanation
Indices: 18173923--18173997 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
18173913 TTATGAATTC
* *
18173923 ATCATGTGTATTTCATACAT
1 ATCATGTGCATATCATACAT
18173943 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
18173963 GTCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
18173983 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
18173998 TCCCACGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.16
20 40 0.80
21 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:18177705 original size:15 final size:15
Alignment explanation
Indices: 18177685--18177714 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18177675 TTACCAGACT
*
18177685 CTGGCTGAATCAACA
1 CTGGCTGAATAAACA
18177700 CTGGCTGAATAAACA
1 CTGGCTGAATAAACA
18177715 GTGAAATGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (15 bp):
CTGGCTGAATAAACA
Found at i:18180235 original size:27 final size:27
Alignment explanation
Indices: 18180197--18180769 Score: 628
Period size: 27 Copynumber: 21.2 Consensus size: 27
18180187 CAAAGTACTT
*
18180197 TCGATTTTCAGAATTACTGTTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
**
18180224 TCGATTTACAGAATTACCATTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
*
18180251 TCGATTTACAGAATTACCGTTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
*
18180278 TC-AGTTTATAGAATTACTGTTTTACCC
1 TCGA-TTTACAGAATTACTGTTTTACCC
* *
18180305 TCGATTTATAGAGTTACTGTTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
** * **
18180332 TCGATTTGTAAAATTACCATTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
*
18180359 TCGATTTACAGAATTACCGTTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
*
18180386 TC-AGTTTATAGAATTACTGTTTTACCC
1 TCGA-TTTACAGAATTACTGTTTTACCC
* *
18180413 TCGATTTATAGAGTTACTGTTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
** * **
18180440 TCGATTTGTAAAATTACCATTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
*
18180467 TCGATTTACAGAATTACCGTTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
18180494 TC-AGTTTACAGAATTACTGTTTTACCC
1 TCGA-TTTACAGAATTACTGTTTTACCC
*
18180521 TCGATTTATAGAATTA-TCGTTTTACCC
1 TCGATTTACAGAATTACT-GTTTTACCC
*
18180548 TC-AGTTTACAGAATTACTATTTTACCC
1 TCGA-TTTACAGAATTACTGTTTTACCC
* *
18180575 TCGATTTATAGAATTA-TCGTTTTACCT
1 TCGATTTACAGAATTACT-GTTTTACCC
* *
18180602 TC-AGTTTACATAATTACTGTATTACCC
1 TCGA-TTTACAGAATTACTGTTTTACCC
18180629 TCGATTTACAGAATTA-TCGTTTTACCC
1 TCGATTTACAGAATTACT-GTTTTACCC
** * *
18180656 TCGATTTGTAAAATTACCGTTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
*
18180683 TTGATTTACAGAATTACTAG-TTTACCC
1 TCGATTTACAGAATTACT-GTTTTACCC
*
18180710 TC-AGTTTACAAAATTA-TCGTTTTACCC
1 TCGA-TTTACAGAATTACT-GTTTTACCC
* **
18180737 TCGATTTATAGAATTACCATTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
*
18180764 TTGATT
1 TCGATT
18180770 GTGAAATTAC
Statistics
Matches: 467, Mismatches: 58, Indels: 42
0.82 0.10 0.07
Matches are distributed among these distances:
26 11 0.02
27 447 0.96
28 9 0.02
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
TCGATTTACAGAATTACTGTTTTACCC
Found at i:18180347 original size:108 final size:108
Alignment explanation
Indices: 18180197--18180779 Score: 840
Period size: 108 Copynumber: 5.4 Consensus size: 108
18180187 CAAAGTACTT
** *
18180197 TCGATTT-TCAGAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACA
1 TCGATTTAT-AGAATTACTGTTTTACCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTACA
*
18180261 GAATTACCGTTTTACCCTCAGTTTATAGAATTACTGTTTTACCC
65 GAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCC
*
18180305 TCGATTTATAGAGTTACTGTTTTACCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTACAG
1 TCGATTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTACAG
*
18180370 AATTACCGTTTTACCCTCAGTTTATAGAATTACTGTTTTACCC
66 AATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCC
*
18180413 TCGATTTATAGAGTTACTGTTTTACCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTACAG
1 TCGATTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTACAG
18180478 AATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCC
66 AATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCC
* *
18180521 TCGATTTATAGAATTA-TCGTTTTACCCTC-AGTT-TACAGAATTACTATTTTACCCTCGATTTA
1 TCGATTTATAGAATTACT-GTTTTACCCTCGATTTGTA-A-AATTACCATTTTACCCTCGATTTA
* * * * *
18180583 TAGAATTATCGTTTTACCTTCAGTTTACATAATTACTGTATTACCC
63 CAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCC
* * *
18180629 TCGATTTACAGAATTA-TCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACA
1 TCGATTTATAGAATTACT-GTTTTACCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTACA
* *
18180693 GAATTACTAG-TTTACCCTCAGTTTACAAAATTA-TCGTTTTACCC
65 GAATTAC-CGTTTTACCCTCAGTTTACAGAATTACT-GTTTTACCC
** * *
18180737 TCGATTTATAGAATTACCATTTTACCCTTGA-TTGTGAAATTAC
1 TCGATTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATTAC
18180780 TGAAATACCC
Statistics
Matches: 437, Mismatches: 29, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
106 2 0.00
107 17 0.04
108 410 0.94
109 6 0.01
110 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (108 bp):
TCGATTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTACAG
AATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCC
Found at i:18180804 original size:27 final size:27
Alignment explanation
Indices: 18180774--18180969 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
18180764 TTGATTGTGA
* *
18180774 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
18180801 AATTACCGAAATGCCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
18180828 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
18180855 AATTACCGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
18180882 AATTATCGAAATACCTTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
18180909 AAATACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** *
18180936 AATTACCGAGATACCTTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
18180963 AATTACC
1 AATTACC
18180970 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:18181198 original size:27 final size:26
Alignment explanation
Indices: 18181168--18181250 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
18181158 CGGAGGAAGC
*
18181168 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
18181195 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
18181221 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
18181248 GTT
1 GTT
18181251 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:18181583 original size:27 final size:27
Alignment explanation
Indices: 18181561--18181634 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
18181551 TAGGTGGTTT
*
18181561 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
18181588 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
*
18181615 TGTCACAATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
18181635 CAGCCATGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.12
27 37 0.86
28 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:18181761 original size:6 final size:6
Alignment explanation
Indices: 18181752--18181841 Score: 71
Period size: 6 Copynumber: 14.8 Consensus size: 6
18181742 GTGCATTCAC
* *
18181752 ATTCTG ATTCTG ATTCTG -TCACGTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATT-CTG AT-TCTG
* *
18181801 ATTCTG ATTCTG ATTCTG -TTACCG ATTCTG ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
18181842 CATTTTGGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
5 6 0.09
6 53 0.79
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:18181827 original size:24 final size:24
Alignment explanation
Indices: 18181752--18181841 Score: 101
Period size: 24 Copynumber: 3.7 Consensus size: 24
18181742 GTGCATTCAC
*
18181752 ATTCTGATTCTGATTCTGTCACGTG
1 ATTCTGATTCTGATTCTGTTAC-TG
** *
18181777 ATTCTGATTCTG-TTACTAATATTG
1 ATTCTGATTCTGATT-CTGTTACTG
*
18181801 ATTCTGATTCTGATTCTGTTACCG
1 ATTCTGATTCTGATTCTGTTACTG
*
18181825 ATTCTGATTTTGATTCT
1 ATTCTGATTCTGATTCT
18181842 CATTTTGGTT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
24 37 0.69
25 17 0.31
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.49
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGTTACTG
Found at i:18181833 original size:30 final size:30
Alignment explanation
Indices: 18181775--18181841 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
18181765 TTCTGTCACG
*
18181775 TGATTCTGATTCTGTTACTAATATTGATTC
1 TGATTCTGATTCTGTTACCAATATTGATTC
* *
18181805 TGATTCTGATTCTGTTACCGAT-TCTGATTT
1 TGATTCTGATTCTGTTACCAATAT-TGATTC
18181835 TGATTCT
1 TGATTCT
18181842 CATTTTGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 1 0.03
30 32 0.97
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (30 bp):
TGATTCTGATTCTGTTACCAATATTGATTC
Found at i:18183353 original size:52 final size:52
Alignment explanation
Indices: 18183275--18183379 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
18183265 AAGGGGAGGC
18183275 TGTGACACCCCTAATTTGACCCTAGTCGAAAAGTGGTTTCGGGACCACAAAA
1 TGTGACACCCCTAATTTGACCCTAGTCGAAAAGTGGTTTCGGGACCACAAAA
18183327 TGTGACACCCCTAATTTGACCCTAGTCGAAAAGTGGTTTCGGGACCACAAAA
1 TGTGACACCCCTAATTTGACCCTAGTCGAAAAGTGGTTTCGGGACCACAAAA
18183379 T
1 T
18183380 CGAGTCATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (52 bp):
TGTGACACCCCTAATTTGACCCTAGTCGAAAAGTGGTTTCGGGACCACAAAA
Found at i:18186120 original size:47 final size:47
Alignment explanation
Indices: 18186066--18186353 Score: 389
Period size: 47 Copynumber: 6.1 Consensus size: 47
18186056 TTAGGATTTT
** *
18186066 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
18186113 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
18186160 ATGTGGTGAGTATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
18186207 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATAGG-CA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAAT-GGCCA
* *
18186254 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
18186301 ATGTGGTGAATATGAAGATGCATATATGTGGTAAAGCCGAATAGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
18186348 ATGTGA
1 ATGTGA
18186354 AATANNNNNN
Statistics
Matches: 210, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
46 2 0.01
47 206 0.98
48 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:18186288 original size:141 final size:141
Alignment explanation
Indices: 18186065--18186342 Score: 468
Period size: 141 Copynumber: 2.0 Consensus size: 141
18186055 TTTAGGATTT
** *
18186065 TATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
* *
18186130 ATGCATATGTGTGATAAGGCCGAATAGCCAATGTGGTGAGTATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATAGCCAATGTGGTGAATATGAACATGCATATATGTGATAAA
18186195 GCCGAATGGCC
131 GCCGAATGGCC
18186206 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATAGG-CAATGTGATGAATGTGAG
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAAT-GGCCAATGTGATGAATGTGAG
* * *
18186270 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAGATGCATATATGTGGTAA
65 CATGCATATGTGTGATAAGGCCGAATAGCCAATGTGGTGAATATGAACATGCATATATGTGATAA
18186335 AGCCGAAT
130 AGCCGAAT
18186343 AGTCAATGTG
Statistics
Matches: 128, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 126 0.98
142 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.27
Consensus pattern (141 bp):
TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
ATGCATATGTGTGATAAGGCCGAATAGCCAATGTGGTGAATATGAACATGCATATATGTGATAAA
GCCGAATGGCC
Found at i:18192476 original size:29 final size:29
Alignment explanation
Indices: 18192417--18192533 Score: 200
Period size: 29 Copynumber: 4.1 Consensus size: 29
18192407 ATACATGCAA
* *
18192417 ATGGCCCACTAGGCCC-AATCTCATTCAT
1 ATGGCCCATTAGGCCCAAATCACATTCAT
*
18192445 ATGGCCCATTAGGCCCAAATCACATTCGT
1 ATGGCCCATTAGGCCCAAATCACATTCAT
18192474 ATGGCCCATTAGGCCCAAATCACATTCAT
1 ATGGCCCATTAGGCCCAAATCACATTCAT
18192503 ATGGCCCATTAGGCCCAAATCACATTCAT
1 ATGGCCCATTAGGCCCAAATCACATTCAT
18192532 AT
1 AT
18192534 ACATGCTTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
28 15 0.18
29 69 0.82
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATTCAT
Found at i:18198640 original size:46 final size:46
Alignment explanation
Indices: 18198590--18198765 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18198580 TGGTTGAGCA
18198590 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18198636 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18198681 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18198729 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18198766 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18198746 original size:93 final size:93
Alignment explanation
Indices: 18198587--18198758 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18198577 GGATGGTTGA
* *
18198587 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18198652 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18198680 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18198745 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18198759 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18202452 original size:43 final size:43
Alignment explanation
Indices: 18202361--18202475 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
18202351 ACTAAGATAA
* *
18202361 CATGTAAGACCATATTTGGGATATGGCATTGATATGAGACTTT
1 CATGTAAGACCATATCTGGGATATGGCATTGATACGAGACTTT
* * *
18202404 -GTGTAAGACCATAGCTGGAATATTGGCATTGATACGAGA-TTT
1 CATGTAAGACCATATCTGGGATA-TGGCATTGATACGAGACTTT
18202446 CATGTAAGACCATATCTGGGATATGGCATT
1 CATGTAAGACCATATCTGGGATATGGCATT
18202476 CGTATGGTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
42 28 0.45
43 34 0.55
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.32
Consensus pattern (43 bp):
CATGTAAGACCATATCTGGGATATGGCATTGATACGAGACTTT
Found at i:18204100 original size:47 final size:46
Alignment explanation
Indices: 18204046--18204176 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
18204036 GAAATTTGAG
*
18204046 ATCCGAACTCATTGAGTTGCGTTCCGAGTTCACTTATGGATG-CAAGC
1 ATCCGAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGTCAA-C
* * *
18204093 ATCCGAACTTGTTGAGTTGTGTTCCGAGTTCATTATGGATGTGAAC
1 ATCCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGTCAAC
* * * *
18204139 ACCCGAGCTCGTGGAGTTGCGTTCTGAGTTCATTATGG
1 ATCCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
18204177 GTGAAATTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
46 42 0.58
47 31 0.42
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.33
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGTCAAC
Found at i:18208808 original size:27 final size:26
Alignment explanation
Indices: 18208777--18208954 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
18208767 TAAATTGTAC
18208777 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
18208804 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
18208830 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
18208858 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
18208886 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
18208913 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
18208940 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18208955 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:18208893 original size:82 final size:81
Alignment explanation
Indices: 18208778--18208933 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
18208768 AAATTGTACA
* *
18208778 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18208842 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
18208859 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18208924 TGCGAGTTGA
65 TGCGAATTGA
18208934 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18208945 original size:82 final size:81
Alignment explanation
Indices: 18208774--18208954 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
18208764 GATTAAATTG
* *
18208774 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18208839 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
18208855 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18208919 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18208937 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18208955 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18208965 original size:27 final size:27
Alignment explanation
Indices: 18208859--18208965 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
18208849 TGACCATGCG
* * * *
18208859 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
18208887 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
18208914 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
18208941 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
18208966 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:18210485 original size:29 final size:29
Alignment explanation
Indices: 18210453--18210514 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
18210443 TTTCTTTTAT
* * *
18210453 TATACATTCATTTTAAT-TATTATTACATA
1 TATACATTAAATTTAATATA-TATAACATA
18210482 TATACATTAAATTTAATATATATAACATA
1 TATACATTAAATTTAATATATATAACATA
18210511 TATA
1 TATA
18210515 TTTATTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 27 0.93
30 2 0.07
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (29 bp):
TATACATTAAATTTAATATATATAACATA
Found at i:18217325 original size:35 final size:35
Alignment explanation
Indices: 18217279--18217349 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
18217269 ATCACTAGAG
* **
18217279 TAGAACTCTTGTTCCACTTCATTATCTGATTCATT
1 TAGAACGCTTGTTCCACTTCATTATCAAATTCATT
*
18217314 TAGAACGCTTGTTCCACTTCCTTATCAAATTCATT
1 TAGAACGCTTGTTCCACTTCATTATCAAATTCATT
18217349 T
1 T
18217350 GCCATCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (35 bp):
TAGAACGCTTGTTCCACTTCATTATCAAATTCATT
Found at i:18217809 original size:49 final size:49
Alignment explanation
Indices: 18217737--18217830 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
18217727 TGCTATGCAA
18217737 TACTAAACTTGCTCTTCCACTATCTACACTCTTAACATTATTTATACAT
1 TACTAAACTTGCTCTTCCACTATCTACACTCTTAACATTATTTATACAT
*
18217786 TACTAAACTTAG-TCTTCCACTATCTACACTCTTATCATTATTTAT
1 TACTAAACTT-GCTCTTCCACTATCTACACTCTTAACATTATTTAT
18217831 CCCTTCTAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
49 42 0.98
50 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.43
Consensus pattern (49 bp):
TACTAAACTTGCTCTTCCACTATCTACACTCTTAACATTATTTATACAT
Found at i:18231988 original size:27 final size:27
Alignment explanation
Indices: 18231958--18232298 Score: 297
Period size: 27 Copynumber: 12.7 Consensus size: 27
18231948 TAATAAAGAG
18231958 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
18231985 AAATTA-TCGATATACCCCCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
18232012 AAATTA-TCAAAATACCCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
*
18232038 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
18232065 AAATTACCGAAATACCC-CTGATTTGTG
1 AAATTACTGAAATACCCTC-GATTTGTA
**
18232092 AAATTACAAAAACT-CCCTCGATTTGTA
1 AAATTACTGAAA-TACCCTCGATTTGTA
*
18232119 AAATTA-TCGAAACACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * **
18232146 AAATTACCGAAACACCCTTAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
18232173 AAATTACTGAAATACCTTCAATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
18232200 AAATTATTGAAATTCCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* ** *
18232227 AAACTACCAAAACACGCC-CGATTTGTA
1 AAATTACTGAAATAC-CCTCGATTTGTA
* *
18232254 AAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
18232281 AAATTA-TCGAAATACCCT
1 AAATTACT-GAAATACCCT
18232299 TGTAATGTAA
Statistics
Matches: 258, Mismatches: 43, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
26 26 0.10
27 228 0.88
28 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:18232155 original size:81 final size:81
Alignment explanation
Indices: 18231958--18232327 Score: 362
Period size: 81 Copynumber: 4.6 Consensus size: 81
18231948 TAATAAAGAG
* * *
18231958 AAATTA-CTGAAATACCCTCGATTTGTAAAATTATCGATATACCCCCGATTTGTAAAATTATCAA
1 AAATTATC-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCCTGATTTGTAAAATTATCAA
*
18232022 AATACCCTCGA-TTGTG
65 AATACCCTCGATTTGTA
* *
18232038 AAATTA-CTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCTGATTTGTGAAATTA-CAA
1 AAATTATC-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCCTGATTTGTAAAATTATCAA
18232101 AA-ACTCCCTCGATTTGTA
65 AATA--CCCTCGATTTGTA
* * * * *
18232119 AAATTATCGAAACACCCTCGATTTGTAAAATTACCGAAACACCCTTAATTTGTAAAATTA-CTGA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCTGATTTGTAAAATTATC-AA
* * *
18232183 AATACCTTCAATTTATA
65 AATACCCTCGATTTGTA
* * * * * * *
18232200 AAATTATTGAAATTCCCTCAATTTGTAAAACTACCAAAACACGCCC-GATTTGTAAAATTATCGA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATAC-CCCTGATTTGTAAAATTATCAA
* *
18232264 AATACCCTTG-TAGTGTA
65 AATACCCTCGAT-TTGTA
* * * *
18232281 AAATTATCGAAATACCCTTG-TAATGTAAAATGACCGACATACCCCTG
1 AAATTATCGAAATACCCTCGAT-TTGTAAAATTACCGAAATACCCCTG
18232328 TAGAGTAAAA
Statistics
Matches: 240, Mismatches: 39, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.00
79 5 0.02
80 67 0.28
81 159 0.66
82 7 0.03
83 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCTGATTTGTAAAATTATCAAA
ATACCCTCGATTTGTA
Found at i:18232299 original size:27 final size:27
Alignment explanation
Indices: 18232250--18232338 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
18232240 ACGCCCGATT
18232250 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
18232277 TGTAAAATTATCGAAATACCCTTGTAA
1 TGTAAAATTATCGAAATACCCTTGTAG
* * * *
18232304 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
18232331 AGTAAAAT
1 TGTAAAAT
18232339 GACTCTTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:18235219 original size:28 final size:28
Alignment explanation
Indices: 18235160--18235236 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
18235150 GAAGTAGTTG
* * *
18235160 GGCCTGATGGGCCATATGAATGTAATTG
1 GGCCTAATGGGCCATATGAACGTAATTA
*
18235188 GGCCTAATGGGCCATGTGAACG-ATATTA
1 GGCCTAATGGGCCATATGAACGTA-ATTA
* *
18235216 GGCCTAAAGGGGCCAAATGAA
1 GGCCT-AATGGGCCATATGAA
18235237 TAAGTGTGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 1 0.03
28 27 0.68
29 12 0.30
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (28 bp):
GGCCTAATGGGCCATATGAACGTAATTA
Found at i:18235644 original size:27 final size:27
Alignment explanation
Indices: 18235535--18235819 Score: 305
Period size: 27 Copynumber: 10.7 Consensus size: 27
18235525 CATAATAAAG
*
18235535 AAAATTTATTGAAATACCCTCGATTTGT
1 AAAA-TTATCGAAATACCCTCGATTTGT
* * *
18235563 ---ATTACCGAAATACCCCCGATTCGT
1 AAAATTATCGAAATACCCTCGATTTGT
**
18235587 -AAATTATCGAAATACCCTTTA-TTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* *
18235612 GAAATTA-CTAAAATACCCTCGATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
*
18235639 AAAATTATCGAAATACCCCCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* * *
18235666 GAAATTATCGAAACACCCTCAATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* *
18235693 AAAATTA-CTGAAACACCCTTGATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
* *
18235720 AAAATTATCAAAACACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
18235747 AAAATTATCGAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* * * * *
18235774 AGAACTACCGAAACACCCCCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
18235801 AAAATTATCGAAATACCCT
1 AAAATTATCGAAATACCCT
18235820 TATAGTGTAA
Statistics
Matches: 213, Mismatches: 36, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
24 19 0.09
25 5 0.02
26 32 0.15
27 155 0.73
28 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTGT
Found at i:18235717 original size:81 final size:80
Alignment explanation
Indices: 18235535--18235818 Score: 342
Period size: 81 Copynumber: 3.6 Consensus size: 80
18235525 CATAATAAAG
* * * *
18235535 AAAATTTATTGAAATACCCTCGATTTGT---ATTACCGAAATACCCCCGATTCGTAAATTATCGA
1 AAAA-TTACTGAAACACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTAAATTATCGA
**
18235597 AATACCCTTTA-TTGT
65 AATACCCTCAATTTGT
* * *
18235612 GAAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTGAAATTATCGA
1 AAAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGT-AAATTATCGA
*
18235677 AACACCCTCAATTTGT
65 AATACCCTCAATTTGT
* * * *
18235693 AAAATTACTGAAACACCCTTGATTTGTAAAATTATCAAAACACCCTCGATTTGTAAAATTATCGA
1 AAAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGT-AAATTATCGA
*
18235758 AATACCCTCGATTTGT
65 AATACCCTCAATTTGT
* * * *
18235774 AGAACTACCGAAACACCCCCGATTTGTAAAATTATCGAAATACCC
1 AAAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAATACCC
18235819 TTATAGTGTA
Statistics
Matches: 177, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
76 21 0.12
77 3 0.02
79 22 0.12
80 18 0.10
81 113 0.64
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (80 bp):
AAAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTAAATTATCGAA
ATACCCTCAATTTGT
Found at i:18235843 original size:27 final size:27
Alignment explanation
Indices: 18235798--18235860 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
18235788 ACCCCCGATT
* * *
18235798 TGTAAAATTATCGAAATACCCTTATAG
1 TGTAAAATGACCGAAATACCCCTATAG
* *
18235825 TGTAAAATGACCGATATACCCCTGTAG
1 TGTAAAATGACCGAAATACCCCTATAG
*
18235852 GGTAAAATG
1 TGTAAAATG
18235861 CCTCTTTTGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCCTATAG
Found at i:18236433 original size:27 final size:27
Alignment explanation
Indices: 18236387--18236474 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
18236377 TAAGGCTAAG
* *
18236387 ATGGGCTAGG-CCCAATTGAT-TCTGTT
1 ATGGGCTTGGACCCAAATGATAT-TGTT
18236413 ATGGGCTTGGACCCAAATGATATTGTT
1 ATGGGCTTGGACCCAAATGATATTGTT
*
18236440 ATGGGCTTGGACCCAAATGATATTGTA
1 ATGGGCTTGGACCCAAATGATATTGTT
*
18236467 ACGGGCTT
1 ATGGGCTT
18236475 TGGCCCATGT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 9 0.16
27 46 0.82
28 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (27 bp):
ATGGGCTTGGACCCAAATGATATTGTT
Found at i:18239129 original size:27 final size:27
Alignment explanation
Indices: 18239091--18239404 Score: 357
Period size: 27 Copynumber: 11.7 Consensus size: 27
18239081 TAATAAAGAG
* * *
18239091 AAATTACTGAAATACCTTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
18239118 AAATTACCGAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
**
18239145 AAATTATTGAAATACCCTCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
18239171 AAATTACTGAAATACCCTCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
18239198 AAATTACTGAAACACCCTCGGTTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
18239225 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
18239252 AAATTACCGAAACACCTTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
18239279 AAATTATCGAAATACCCTC-AGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGTA
* *
18239306 AAATTACCAAAATACCCTCGTTTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
18239333 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
18239360 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
*
18239387 AAATTACCGAAATTCCCT
1 AAATTACCGAAATACCCT
18239405 TGTAGTGTAA
Statistics
Matches: 250, Mismatches: 31, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 28 0.11
27 221 0.88
28 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:18241077 original size:42 final size:42
Alignment explanation
Indices: 18241026--18241284 Score: 210
Period size: 42 Copynumber: 6.2 Consensus size: 42
18241016 CGGTTTAGTC
18241026 GATG-ACTTATGTGCCAGTATATTCGCTTCAGTTTAGCTCAT
1 GATGCACTTATGTGCCAGTATATTCGCTTCAGTTTAGCTCAT
* *
18241067 GATGCACTTATGTGCCAGTATATTCGCTTCATTTTAGCTAAT
1 GATGCACTTATGTGCCAGTATATTCGCTTCAGTTTAGCTCAT
* * * * * **
18241109 GATGCACTTATGTGCTAGTATATAT-GATTCAATTCATCTGGT
1 GATGCACTTATGTGCCAGTATAT-TCGCTTCAGTTTAGCTCAT
* * * * ** * *
18241151 GATACACTTATGTGCTAGTATAATCGTTTTGGTTCATC-CAAT
1 GATGCACTTATGTGCCAGTATATTCGCTTCAGTTTAGCTC-AT
* *
18241193 GATGCACTTATGTGCCAGTATAATT-G-TCTCAGCTT-GTCTAAT
1 GATGCACTTATGTGCCAGTAT-ATTCGCT-TCAGTTTAG-CTCAT
* *
18241235 GATGCACTTATGTGCTAGTATATTTC-CTTCAGTTTATC-CAAT
1 GATGCACTTATGTGCCAGTATA-TTCGCTTCAGTTTAGCTC-AT
18241277 GATGCACT
1 GATGCACT
18241285 GTGGTGCTAG
Statistics
Matches: 175, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
41 7 0.04
42 164 0.94
43 4 0.02
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (42 bp):
GATGCACTTATGTGCCAGTATATTCGCTTCAGTTTAGCTCAT
Found at i:18241129 original size:84 final size:82
Alignment explanation
Indices: 18241026--18241284 Score: 263
Period size: 84 Copynumber: 3.1 Consensus size: 82
18241016 CGGTTTAGTC
* *
18241026 GATG-ACTTATGTGCCAGTATATTCGCTTCAGTTTAGCTCATGATGCACTTATGTGCCAGTATAT
1 GATGCACTTATGTGCCAGTATATT-G-TTCAGTTTAGCTAATGATGCACTTATGTGCTAGTATAT
* * *
18241090 TCGCTTCATTTTAGCTAAT
64 TCGCTTCAGTTTATCCAAT
* * * * ** * *
18241109 GATGCACTTATGTGCTAGTATATATGATTCAATTCATCTGGTGATACACTTATGTGCTAGTATAA
1 GATGCACTTATGTGCCAGTATAT-TG-TTCAGTTTAGCTAATGATGCACTTATGTGCTAGTATAT
* ** *
18241174 TCGTTTTGGTTCATCCAAT
64 TCGCTTCAGTTTATCCAAT
*
18241193 GATGCACTTATGTGCCAGTATAATTGTCTCAGCTT-GTCTAATGATGCACTTATGTGCTAGTATA
1 GATGCACTTATGTGCCAGTAT-ATTGT-TCAGTTTAG-CTAATGATGCACTTATGTGCTAGTATA
18241257 TTTC-CTTCAGTTTATCCAAT
63 -TTCGCTTCAGTTTATCCAAT
18241277 GATGCACT
1 GATGCACT
18241285 GTGGTGCTAG
Statistics
Matches: 140, Mismatches: 30, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
83 5 0.04
84 130 0.93
85 5 0.04
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (82 bp):
GATGCACTTATGTGCCAGTATATTGTTCAGTTTAGCTAATGATGCACTTATGTGCTAGTATATTC
GCTTCAGTTTATCCAAT
Found at i:18241292 original size:126 final size:126
Alignment explanation
Indices: 18241065--18241294 Score: 288
Period size: 126 Copynumber: 1.8 Consensus size: 126
18241055 AGTTTAGCTC
**
18241065 ATGATGCACTTATGTGCCAGTATATTCGCTTCATTTTAGCTAATGATGCACTTATGTGCTAGTAT
1 ATGATGCACTTATGTGCCAGTATATTCGCTTCAGCTTAGCTAATGATGCACTTATGTGCTAGTAT
* *** *
18241130 ATATGATTCAATTCATCTGGTGATACACTTATGTGCTAGTATAATCGTTTTGGTTCATCCA
66 ATATCATTCAATTCATCCAATGATACACTTAGGTGCTAGTATAATCGTTTTGGTTCATCCA
18241191 ATGATGCACTTATGTGCCAGTATAATT-G-TCTCAGCTT-GTCTAATGATGCACTTATGTGCTAG
1 ATGATGCACTTATGTGCCAGTAT-ATTCGCT-TCAGCTTAG-CTAATGATGCACTTATGTGCTAG
* * * * *
18241253 TATATTTCCTTCAGTTTATCCAATGATGCACTGT-GGTGCTAG
63 TATATATCATTCAATTCATCCAATGATACACT-TAGGTGCTAG
18241295 ATTGGGGTGC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
125 2 0.02
126 82 0.93
127 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (126 bp):
ATGATGCACTTATGTGCCAGTATATTCGCTTCAGCTTAGCTAATGATGCACTTATGTGCTAGTAT
ATATCATTCAATTCATCCAATGATACACTTAGGTGCTAGTATAATCGTTTTGGTTCATCCA
Found at i:18243146 original size:27 final size:25
Alignment explanation
Indices: 18243097--18243147 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
18243087 AAGTTTTCTA
*
18243097 AAAGAAAACTCAAGATAAATTATTG
1 AAAGAAAACTCAAGAGAAATTATTG
*
18243122 AAAGAAAAACTCAAAGAGAATTTATT
1 AAAG-AAAACTC-AAGAGAAATTATT
18243148 AACTCAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 7 0.32
27 11 0.50
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.24
Consensus pattern (25 bp):
AAAGAAAACTCAAGAGAAATTATTG
Found at i:18245468 original size:29 final size:29
Alignment explanation
Indices: 18245404--18245469 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
18245394 CTTTCATTTA
* *
18245404 TTTCACAATTTAACCCCTAAATTTACACT
1 TTTCTCAATTTAACCCCTAAATATACACT
* * *
18245433 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTAAATATACACT
18245461 TTTACTCAA
1 TTT-CTCAA
18245470 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTAAATATACACT
Found at i:18247115 original size:17 final size:17
Alignment explanation
Indices: 18247082--18247117 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18247072 TGATGATGAA
* *
18247082 AAAAAGAAAAGAGAAAG
1 AAAAAGAAAAAAAAAAG
18247099 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
18247116 AA
1 AA
18247118 NNNNNNNNNN
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:18249331 original size:37 final size:37
Alignment explanation
Indices: 18249281--18249366 Score: 172
Period size: 37 Copynumber: 2.3 Consensus size: 37
18249271 GGAAATATAT
18249281 TCCGGGTAAGACCCGATGACTACGTGTGGGGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGGGATTTTG
18249318 TCCGGGTAAGACCCGATGACTACGTGTGGGGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGGGATTTTG
18249355 TCCGGGTAAGAC
1 TCCGGGTAAGAC
18249367 TTCGTAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGGGATTTTG
Found at i:18254948 original size:37 final size:37
Alignment explanation
Indices: 18254895--18255014 Score: 145
Period size: 37 Copynumber: 3.2 Consensus size: 37
18254885 GAGTACGAAT
* * *
18254895 TAAGACTATAGCTGGGCTATGGCATCGTAATACCGTG
1 TAAGACCATAGATGGGCTATGGCATCGTAATACCATG
*
18254932 TAAGACCATAGATGGGCTATGGCATCATAATGA-CATG
1 TAAGACCATAGATGGGCTATGGCATCGTAAT-ACCATG
* * *
18254969 TAAGACCATA-ACTGGGCTATGGCATTGTGATCCCATG
1 TAAGACCATAGA-TGGGCTATGGCATCGTAATACCATG
18255006 TAAGACCAT
1 TAAGACCAT
18255015 GTCAGGGACA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
36 1 0.01
37 70 0.97
38 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (37 bp):
TAAGACCATAGATGGGCTATGGCATCGTAATACCATG
Found at i:18255047 original size:48 final size:48
Alignment explanation
Indices: 18254994--18255126 Score: 203
Period size: 48 Copynumber: 2.8 Consensus size: 48
18254984 GCTATGGCAT
*
18254994 TGTGATCCCATGTAAGACCATGTCAGGGACATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
* *
18255042 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
* ** *
18255090 TTTGATTTCGTGTAAGACCATGTCTGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
18255127 CAATATGAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
Found at i:18257084 original size:27 final size:27
Alignment explanation
Indices: 18257054--18257144 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 27
18257044 CCCAATATTA
* * *
18257054 GTAAAATTATCGAAATACCCTTGTAGT
1 GTAAAATGATCGAAATACCCCTGTAGG
* *
18257081 GTAAAATGATCGTAATGCCCCTGTAGG
1 GTAAAATGATCGAAATACCCCTGTAGG
* * *
18257108 GTAAAATGA-CCATAATACCCCTATATG
1 GTAAAATGATCGA-AATACCCCTGTAGG
*
18257135 GTAGAATGAT
1 GTAAAATGAT
18257145 GGTTATGCCC
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
26 1 0.02
27 50 0.98
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (27 bp):
GTAAAATGATCGAAATACCCCTGTAGG
Found at i:18278411 original size:48 final size:48
Alignment explanation
Indices: 18278340--18278721 Score: 442
Period size: 48 Copynumber: 7.9 Consensus size: 48
18278330 GATACTAGGT
* *
18278340 TATGAGAGCTAGTGTAAGACCATGTTTGGAACACGGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCTA
* * * *
18278388 TATGAGAGCTAGTGTAAAACCATGTTTGGGACATGGCATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCTA
* * * *
18278436 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGAATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCTA
* * * * *
18278484 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCTA
* * * * *
18278532 CATGTGGGCTAGTGTAAGATCATGTTTGGAACATGGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCTA
* * * *
18278580 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCTA
* * * *
18278628 CATGTA-TGCTAGTGTAAGACCATGTTTGGAACATGGAATTGGCATCAATA
1 TATG-AGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATC--TA
* ** *
18278678 TATGAGAGCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
18278722 ACTTACCCTT
Statistics
Matches: 272, Mismatches: 58, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
48 235 0.86
49 2 0.01
50 35 0.13
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCTA
Found at i:18278514 original size:96 final size:96
Alignment explanation
Indices: 18278345--18278720 Score: 583
Period size: 96 Copynumber: 3.9 Consensus size: 96
18278335 TAGGTTATGA
* * *
18278345 GAGCTAGTGTAAGACCATGTTTGGAACACGGCATCGGCATTTATATGAGAGCTAGTGTAAAACCA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGAATCGGCATTTATATGAGAGCTAGTGTAAGACCA
* *
18278410 TGTTTGGGACATGGCATCGGCCTCGATATGT
66 TGTCTGGGACATGGCATCGGCCTCGACATGT
*
18278441 GAGCCAGTGTAAGACCATGTTTGGAACATGGAATCGGCATTTATATGAGAGCTAGTGTAAGACCA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGAATCGGCATTTATATGAGAGCTAGTGTAAGACCA
*
18278506 TGTCTGGGACATAGCATCGGCCTCGACATGT
66 TGTCTGGGACATGGCATCGGCCTCGACATGT
* * *
18278537 GGGCTAGTGTAAGATCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACCA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGAATCGGCATTTATATGAGAGCTAGTGTAAGACCA
*
18278602 TGTCTGGGACATGGCATCGGCCTCAACATGT
66 TGTCTGGGACATGGCATCGGCCTCGACATGT
* * *
18278633 -ATGCTAGTGTAAGACCATGTTTGGAACATGGAATTGGCATCAATATATGAGAGCCAGTGTAAGA
1 GA-GCTAGTGTAAGACCATGTTTGGAACATGGAATCGGCAT--TTATATGAGAGCTAGTGTAAGA
*
18278697 CCATGTCGGGGACATGGCATCGGC
63 CCATGTCTGGGACATGGCATCGGC
18278721 AACTTACCCT
Statistics
Matches: 257, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
96 214 0.83
98 43 0.17
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (96 bp):
GAGCTAGTGTAAGACCATGTTTGGAACATGGAATCGGCATTTATATGAGAGCTAGTGTAAGACCA
TGTCTGGGACATGGCATCGGCCTCGACATGT
Found at i:18286065 original size:17 final size:18
Alignment explanation
Indices: 18286043--18286078 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18286033 AAATAAATTT
*
18286043 AGAAAA-TAACAAAAATA
1 AGAAAATTAAAAAAAATA
18286060 AGAAAATTAAAAAAAATA
1 AGAAAATTAAAAAAAATA
18286078 A
1 A
18286079 AGGATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.14
Consensus pattern (18 bp):
AGAAAATTAAAAAAAATA
Found at i:18286690 original size:19 final size:20
Alignment explanation
Indices: 18286666--18286708 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
18286656 GTTTCGGATT
18286666 CAGATTCAGA-TTCAAATA-A
1 CAGATTCA-ATTTCAAATATA
18286685 CAGATTCAATTTCAAATATA
1 CAGATTCAATTTCAAATATA
18286705 CAGA
1 CAGA
18286709 ATCCTACCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.05
19 16 0.73
20 5 0.23
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (20 bp):
CAGATTCAATTTCAAATATA
Found at i:18293598 original size:18 final size:19
Alignment explanation
Indices: 18293575--18293615 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
18293565 ATATGCATAG
18293575 TCAAATACAGAT-ACAGAT
1 TCAAATACAGATAACAGAT
*
18293593 TCAAATTCAGATAACAGAT
1 TCAAATACAGATAACAGAT
18293612 TCAA
1 TCAA
18293616 TTTTAGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (19 bp):
TCAAATACAGATAACAGAT
Found at i:18293611 original size:19 final size:19
Alignment explanation
Indices: 18293575--18293630 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
18293565 ATATGCATAG
*
18293575 TCAAATACAGAT-ACAGAT
1 TCAAATTCAGATAACAGAT
18293593 TCAAATTCAGATAACAGAT
1 TCAAATTCAGATAACAGAT
* *
18293612 TCAATTTTAGATATACAGA
1 TCAAATTCAGATA-ACAGA
18293631 CTCCTACCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 11 0.33
19 17 0.52
20 5 0.15
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (19 bp):
TCAAATTCAGATAACAGAT
Found at i:18297343 original size:43 final size:42
Alignment explanation
Indices: 18297295--18297453 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 42
18297285 AGCTCGTACA
*
18297295 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATAAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATAAAATA-CG
** * * *
18297338 ATGCCATTGTCCCAGACAG-GGTCTTACACGAAATCATATACG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGTAATAAAATACG
* * * * * *
18297380 ATACCAACGTCCCAAATGTAGTCTTACACGTAAATCATAAGT-CA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AAT-A-AAATACG
* * *
18297424 ATGCCAGCATCCCAGACATGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
18297454 ATAACACACA
Statistics
Matches: 87, Mismatches: 24, Indels: 9
0.73 0.20 0.08
Matches are distributed among these distances:
41 1 0.01
42 24 0.28
43 35 0.40
44 25 0.29
45 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATAAAATACG
Found at i:18297550 original size:11 final size:11
Alignment explanation
Indices: 18297534--18297567 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
18297524 CGGACATCGA
18297534 AACTTTGTCAG
1 AACTTTGTCAG
*
18297545 AACTTTGTCGG
1 AACTTTGTCAG
*
18297556 AACTTTCTCAG
1 AACTTTGTCAG
18297567 A
1 A
18297568 TTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (11 bp):
AACTTTGTCAG
Found at i:18316655 original size:27 final size:27
Alignment explanation
Indices: 18316625--18316802 Score: 142
Period size: 27 Copynumber: 6.6 Consensus size: 27
18316615 ATATTAAGTC
* *
18316625 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
18316652 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
18316679 CGCACAATTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
18316707 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
18316734 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
18316761 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
18316788 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
18316803 GTACAATTTA
Statistics
Matches: 120, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
27 98 0.82
28 22 0.18
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:18316737 original size:55 final size:54
Alignment explanation
Indices: 18316625--18316802 Score: 178
Period size: 54 Copynumber: 3.3 Consensus size: 54
18316615 ATATTAAGTC
* * *
18316625 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
* * * * ** *
18316679 CGCACAATTAGTGCTACATAGTCAGACTCGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACATAATCAAAT
* ** * * *
18316734 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
*
18316788 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
18316803 GTACAATTTA
Statistics
Matches: 100, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
54 56 0.56
55 44 0.44
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
Found at i:18316764 original size:82 final size:81
Alignment explanation
Indices: 18316646--18316801 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
18316636 TGCTATATAA
* * * *
18316646 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACAATTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACAATGAGTGCAACATAGTCA-AATCGCA
*
18316711 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * ** *
18316728 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACAATGAGTGCAACATAGTCAAATCGCA
18316792 CCCTTAGTGC
65 CCCTTAGTGC
18316802 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 17 0.27
82 46 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACAATGAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:18318980 original size:26 final size:26
Alignment explanation
Indices: 18318951--18319058 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
18318941 TGATACAAAT
18318951 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18318977 TGATAATGGGTTAGGTCAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18319003 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18319029 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18319055 TGAT
1 TGAT
18319059 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18322062 original size:24 final size:24
Alignment explanation
Indices: 18322008--18322056 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
18321998 GATTTAAACA
*
18322008 TTCATA-TTTATATTATTAAAATT
1 TTCATATTTTATAATATTAAAATT
18322031 TTCATATTTTATAATA-TAAAACTT
1 TTCATATTTTATAATATTAAAA-TT
18322055 TT
1 TT
18322057 ATTATTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (24 bp):
TTCATATTTTATAATATTAAAATT
Found at i:18322187 original size:17 final size:17
Alignment explanation
Indices: 18322155--18322257 Score: 54
Period size: 17 Copynumber: 6.0 Consensus size: 17
18322145 AACTTTAACA
*
18322155 TTATTATTAATGTAAAT
1 TTATTATTAATATAAAT
*
18322172 TTATTATTCATATAAAAT
1 TTATTATTAATAT-AAAT
* *
18322190 CGTAATATT-ATAT-AAT
1 -TTATTATTAATATAAAT
*
18322206 TTATTA-AAATAATAAAT
1 TTATTATTAAT-ATAAAT
* *
18322223 TGTATTAATAAT-T-TAT
1 T-TATTATTAATATAAAT
18322239 TATATTATTAAATATAAAT
1 T-TATTATT-AATATAAAT
18322258 AATTAAATAT
Statistics
Matches: 64, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
15 6 0.09
16 14 0.22
17 19 0.30
18 14 0.22
19 11 0.17
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (17 bp):
TTATTATTAATATAAAT
Found at i:18322194 original size:25 final size:25
Alignment explanation
Indices: 18322166--18322229 Score: 58
Period size: 26 Copynumber: 2.5 Consensus size: 25
18322156 TATTATTAAT
*
18322166 GTAAATT-TATTATTCATATAAAATC
1 GTAAATTATATTATTCAT-TAAAATA
* *
18322191 GTAATATTATATAATTTATTAAAATA
1 GTAA-ATTATATTATTCATTAAAATA
* *
18322217 ATAAATTGTATTA
1 GTAAATTATATTA
18322230 ATAATTTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
25 11 0.35
26 12 0.39
27 8 0.26
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (25 bp):
GTAAATTATATTATTCATTAAAATA
Found at i:18324978 original size:2 final size:2
Alignment explanation
Indices: 18324971--18325004 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18324961 TAAAAGAACG
18324971 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
18325005 AGACCTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18328485 original size:42 final size:42
Alignment explanation
Indices: 18328408--18328762 Score: 378
Period size: 42 Copynumber: 8.4 Consensus size: 42
18328398 ACGTCGCAAA
* *
18328408 CTTTTGCGGCGCTTACAGAAAAAAA-GCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCACTAAAGATCATGTT
* *
18328451 CTTTAGCGGCGCTTAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTT
* * *
18328493 CTTTAGCGGCGCTAAAAAAATAAACGCCACTAAAGACCATGTT
1 CTTTAGCGGCGCTTAGAAAA-AAACGCCACTAAAGATCATGTT
* *
18328536 CTTTAGCGGCGCTTAGAAATAAACGCCACTAAAGACCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTT
* * *
18328578 CTTTAGCGGCGGTTAGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTT
* * * *
18328620 CTTTAGCGGTGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GAAAAAAACGCCACTAAAGATCATGTT
* * * * *
18328663 CTTTAGCGGCGCTTTGGAAGAAAATGCCTCTAAA-AGTGATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCACTAAAGA-TCATGTT
* **
18328706 CTATAGCGGCGCTT-GTTCAAAAACGCCACTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCACTAAAGA-TCA-TGTT
18328748 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
18328763 TTTCACAAAC
Statistics
Matches: 273, Mismatches: 31, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
41 11 0.04
42 143 0.52
43 118 0.43
44 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTT
Done.