Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 96 of 352
Found at i:30400452 original size:11 final size:11
Alignment explanation
Indices: 30400436--30400486 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
30400426 ACACAACAAT
*
30400436 TTATAACTTAA
1 TTATAAATTAA
*
30400447 TTATAAATTAC
1 TTATAAATTAA
*
30400458 TAATAAATTAA
1 TTATAAATTAA
* *
30400469 TTTTAAAATAA
1 TTATAAATTAA
30400480 TTATAAA
1 TTATAAA
30400487 AAACAAAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (11 bp):
TTATAAATTAA
Found at i:30400668 original size:16 final size:16
Alignment explanation
Indices: 30400643--30400673 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30400633 AATACATTAC
*
30400643 CTTTTTTTTTCTTCTT
1 CTTTTCTTTTCTTCTT
30400659 CTTTTCTTTTCTTCT
1 CTTTTCTTTTCTTCT
30400674 CCTCTTCTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTTCTTTTCTTCTT
Found at i:30400681 original size:16 final size:16
Alignment explanation
Indices: 30400649--30400682 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30400639 TTACCTTTTT
* *
30400649 TTTTCTTCTTCTTTTC
1 TTTTCTTCTCCTCTTC
30400665 TTTTCTTCTCCTCTTC
1 TTTTCTTCTCCTCTTC
30400681 TT
1 TT
30400683 CTCCTTTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCTTCTCCTCTTC
Found at i:30401069 original size:201 final size:201
Alignment explanation
Indices: 30400724--30401126 Score: 806
Period size: 201 Copynumber: 2.0 Consensus size: 201
30400714 GTTTGGGGGA
30400724 CCATACTTATAAGGTCCCCCATTTGCAACTTTTTCCCATTGCAGGGACTAGACACAACAAAATGA
1 CCATACTTATAAGGTCCCCCATTTGCAACTTTTTCCCATTGCAGGGACTAGACACAACAAAATGA
30400789 TGCAGCAAGCAGCAGATGGAGCAGGGGAGGGGGCATGCATGCAGCAACTGCAGGAGGGAGATTGT
66 TGCAGCAAGCAGCAGATGGAGCAGGGGAGGGGGCATGCATGCAGCAACTGCAGGAGGGAGATTGT
30400854 GCGGGCAGAGGGGGCAGTAGGGTGGGCAGATCATTTGCGCCTAGCTATCAAGCTCGATTAATCGC
131 GCGGGCAGAGGGGGCAGTAGGGTGGGCAGATCATTTGCGCCTAGCTATCAAGCTCGATTAATCGC
30400919 GCCTAT
196 GCCTAT
30400925 CCATACTTATAAGGTCCCCCATTTGCAACTTTTTCCCATTGCAGGGACTAGACACAACAAAATGA
1 CCATACTTATAAGGTCCCCCATTTGCAACTTTTTCCCATTGCAGGGACTAGACACAACAAAATGA
30400990 TGCAGCAAGCAGCAGATGGAGCAGGGGAGGGGGCATGCATGCAGCAACTGCAGGAGGGAGATTGT
66 TGCAGCAAGCAGCAGATGGAGCAGGGGAGGGGGCATGCATGCAGCAACTGCAGGAGGGAGATTGT
30401055 GCGGGCAGAGGGGGCAGTAGGGTGGGCAGATCATTTGCGCCTAGCTATCAAGCTCGATTAATCGC
131 GCGGGCAGAGGGGGCAGTAGGGTGGGCAGATCATTTGCGCCTAGCTATCAAGCTCGATTAATCGC
30401120 GCCTAT
196 GCCTAT
30401126 C
1 C
30401127 TGACAGGCGC
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 202 1.00
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.20
Consensus pattern (201 bp):
CCATACTTATAAGGTCCCCCATTTGCAACTTTTTCCCATTGCAGGGACTAGACACAACAAAATGA
TGCAGCAAGCAGCAGATGGAGCAGGGGAGGGGGCATGCATGCAGCAACTGCAGGAGGGAGATTGT
GCGGGCAGAGGGGGCAGTAGGGTGGGCAGATCATTTGCGCCTAGCTATCAAGCTCGATTAATCGC
GCCTAT
Found at i:30402657 original size:48 final size:47
Alignment explanation
Indices: 30402585--30402720 Score: 157
Period size: 48 Copynumber: 2.8 Consensus size: 47
30402575 AGTGATAATT
* *
30402585 TTAAATTTTCAATACTATTCGATATTTTTTTAATTTATGTAAATT-TAA
1 TTAAA-TTTCAATACTATTTGATATTTTTTTCATTTATG-AAATTATAA
* * *
30402633 TTAAATTTGCAATATTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTTGATATTTTTTTCATTTATGAAATTATAA
** *
30402681 TTAAAATTTCAATACTGCTTGATTTTTTTTTCATTTATGA
1 TT-AAATTTCAATACTATTTGATATTTTTTTCATTTATGA
30402721 TGTTTGCATT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
47 7 0.09
48 61 0.82
49 6 0.08
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (47 bp):
TTAAATTTCAATACTATTTGATATTTTTTTCATTTATGAAATTATAA
Found at i:30403687 original size:7 final size:7
Alignment explanation
Indices: 30403675--30403700 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30403665 TAGTCGTTTC
30403675 GTATTTA
1 GTATTTA
30403682 GTATTTA
1 GTATTTA
30403689 GTATTTA
1 GTATTTA
30403696 GTATT
1 GTATT
30403701 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:30403706 original size:7 final size:7
Alignment explanation
Indices: 30403696--30403727 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
30403686 TTAGTATTTA
30403696 GTATTAT
1 GTATTAT
30403703 GTATTAT
1 GTATTAT
30403710 GTATTAT
1 GTATTAT
30403717 GTATATAT
1 GTAT-TAT
30403725 GTA
1 GTA
30403728 ATATTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (7 bp):
GTATTAT
Found at i:30403706 original size:14 final size:14
Alignment explanation
Indices: 30403675--30403720 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
30403665 TAGTCGTTTC
30403675 GTATTTAGTATT-T
1 GTATTTAGTATTAT
30403688 AGTATTTAGTATTAT
1 -GTATTTAGTATTAT
30403703 GTA-TTATGTATTAT
1 GTATTTA-GTATTAT
30403717 GTAT
1 GTAT
30403721 ATATGTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.10
14 25 0.86
15 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (14 bp):
GTATTTAGTATTAT
Found at i:30404325 original size:18 final size:18
Alignment explanation
Indices: 30404302--30404339 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
30404292 TGCTAGGTGC
*
30404302 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
30404320 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
30404338 GT
1 GT
30404340 TTTCTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:30408004 original size:126 final size:126
Alignment explanation
Indices: 30407779--30408159 Score: 609
Period size: 126 Copynumber: 3.0 Consensus size: 126
30407769 TTATAGCCTC
*
30407779 ATTTTTCTACGTACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * *
30407844 ACAGCGCATCCTACTTAAAGCATTTTCAACACTATTTGTTCAGAAACATCTACTCAGAATT
66 ACAGTGCATCCTACTTAAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
30407905 ATTTTTCTACGAACTACTGTAGCAAAAGAACGTCCACTTGAGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * *
30407970 ATAGTGCTTCCTACTTGAAGCTTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTACTTAAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
*
30408031 ATATTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * * *
30408096 ACAGTGCATCCTGCTTAAAGCGTTTTCGACTCTATTTGTTTAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTACTTAAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
30408157 ATT
1 ATT
30408160 CTTACAGAAA
Statistics
Matches: 231, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 231 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTACTTAAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:30408784 original size:35 final size:38
Alignment explanation
Indices: 30408703--30408792 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 38
30408693 AGGATTATGT
*
30408703 ATCAATTAACCCTAAATTAATCAATTAAACCTAAATTTA
1 ATCAATTAACCCTAATTTAATCAATT-AACCTAAATTTA
*
30408742 ATCAATTAACCCTAATTTAATCAA-T-CCCT-AATTTA
1 ATCAATTAACCCTAATTTAATCAATTAACCTAAATTTA
*
30408777 ATTAATTAACCCTAAT
1 ATCAATTAACCCTAAT
30408793 ACCTTAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
35 21 0.44
36 3 0.06
38 1 0.02
39 23 0.48
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (38 bp):
ATCAATTAACCCTAATTTAATCAATTAACCTAAATTTA
Found at i:30408792 original size:19 final size:19
Alignment explanation
Indices: 30408703--30408792 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
30408693 AGGATTATGT
*
30408703 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAATTTA
*
30408722 ATCAATTAAACCTAAATTTA
1 ATCAATTAACCCT-AATTTA
30408742 ATCAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTA
30408761 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAATTTA
*
30408777 ATTAATTAACCCTAAT
1 ATCAATTAACCCTAAT
30408793 ACCTTAAACT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
16 14 0.22
17 1 0.02
18 1 0.02
19 30 0.48
20 17 0.27
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:30408908 original size:17 final size:17
Alignment explanation
Indices: 30408886--30408918 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30408876 CCTTAAATTC
30408886 TAAACCTTAAAAAACCA
1 TAAACCTTAAAAAACCA
30408903 TAAACCTTAAAAAACC
1 TAAACCTTAAAAAACC
30408919 CTACCCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAACCTTAAAAAACCA
Found at i:30410671 original size:29 final size:26
Alignment explanation
Indices: 30410639--30410691 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 26
30410629 TCACTTTACA
30410639 TTTTAGTTATCTATATTTAAAATTTTATG
1 TTTTAGTTA-CT-TA-TTAAAATTTTATG
*
30410668 TTTTAGTTACTTATTAATATTTTA
1 TTTTAGTTACTTATTAAAATTTTA
30410692 GTCCTTGAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 2 0.09
28 2 0.09
29 9 0.39
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (26 bp):
TTTTAGTTACTTATTAAAATTTTATG
Found at i:30412809 original size:16 final size:17
Alignment explanation
Indices: 30412788--30412820 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
30412778 TTTTTGATGA
30412788 ATTTGGCAC-CAAATAT
1 ATTTGGCACTCAAATAT
*
30412804 ATTTGGGACTCAAATAT
1 ATTTGGCACTCAAATAT
30412821 TAAAACATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (17 bp):
ATTTGGCACTCAAATAT
Found at i:30414687 original size:48 final size:49
Alignment explanation
Indices: 30414603--30414713 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 49
30414593 CTGCTGGTAG
* *
30414603 ATGTTAGTTGCTAAAAAGATTGGTGGATAAAATGGGCTACAAGTAGGGC
1 ATGTTAGTTGCTAAAAAGATTAGTGGATAAAATGGGCCACAAGTAGGGC
** * * *
30414652 ATGTTAGTTGCTAATTAGA-TAGTGGATAAATTGGGCCACTAGTAGGTC
1 ATGTTAGTTGCTAAAAAGATTAGTGGATAAAATGGGCCACAAGTAGGGC
*
30414700 ATGTTAATTGCTAA
1 ATGTTAGTTGCTAA
30414714 CCATAATGAC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
48 37 0.69
49 17 0.31
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (49 bp):
ATGTTAGTTGCTAAAAAGATTAGTGGATAAAATGGGCCACAAGTAGGGC
Found at i:30418250 original size:24 final size:24
Alignment explanation
Indices: 30418223--30418270 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
30418213 TGAGTATGTG
30418223 TTAGAGAACAACATATTGAACTGA
1 TTAGAGAACAACATATTGAACTGA
30418247 TTAGAGAACAACATATTGAACTGA
1 TTAGAGAACAACATATTGAACTGA
30418271 CTTATTGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (24 bp):
TTAGAGAACAACATATTGAACTGA
Found at i:30422092 original size:12 final size:12
Alignment explanation
Indices: 30422075--30422099 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30422065 GGTGTTCATT
30422075 CGGTTAACCGAC
1 CGGTTAACCGAC
30422087 CGGTTAACCGAC
1 CGGTTAACCGAC
30422099 C
1 C
30422100 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:30422273 original size:9 final size:9
Alignment explanation
Indices: 30422259--30422328 Score: 113
Period size: 9 Copynumber: 7.8 Consensus size: 9
30422249 TTTGGTTAAA
30422259 AATTACCCG
1 AATTACCCG
30422268 AATTACCCG
1 AATTACCCG
30422277 AATTACCCG
1 AATTACCCG
30422286 AATTACCCG
1 AATTACCCG
*
30422295 AATTAACCG
1 AATTACCCG
*
30422304 AATTAACCG
1 AATTACCCG
*
30422313 AATTAACCG
1 AATTACCCG
30422322 AATTACC
1 AATTACC
30422329 GAAAAATACC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:30424300 original size:22 final size:22
Alignment explanation
Indices: 30424272--30424321 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
30424262 AGGATAAATG
*
30424272 TTGAATCAGCTCATGGTAAGTC
1 TTGAATCAGCTCATGATAAGTC
30424294 TTGAATCAGCTCATGATAAGTC
1 TTGAATCAGCTCATGATAAGTC
30424316 TTGAAT
1 TTGAAT
30424322 ATATACTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (22 bp):
TTGAATCAGCTCATGATAAGTC
Found at i:30425520 original size:31 final size:31
Alignment explanation
Indices: 30425478--30425537 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
30425468 ATATATAATT
*
30425478 ACATCAAATT-AAAATTTATGTATTAAATTAA
1 ACATCAAATTAAAAAATTATGTA-TAAATTAA
*
30425509 ACATTAAATTAAAAAATTATGTATAAATT
1 ACATCAAATTAAAAAATTATGTATAAATT
30425538 TAATATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (31 bp):
ACATCAAATTAAAAAATTATGTATAAATTAA
Found at i:30436906 original size:18 final size:18
Alignment explanation
Indices: 30436883--30436925 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
30436873 TGCCAAGTAC
*
30436883 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
30436901 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
30436919 GTTTCCT
1 GTATCCT
30436926 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:30440620 original size:126 final size:126
Alignment explanation
Indices: 30440395--30440902 Score: 784
Period size: 126 Copynumber: 4.0 Consensus size: 126
30440385 TTATAGCCTC
* *
30440395 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTACTG
30440460 ACAGTGCATCCTGCTTGAAACGTTTTCGGCACTATTTGTTCAGAAATGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAACGTTTTCGGCACTATTTGTTCAGAAATGTCTACTCAGAATT
* * *
30440521 ATTTTTCCACGAACTACTATAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTG
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTACTG
* * * *
30440586 ACAGTGCATCCTGCTTGAAGCGTTTTCGGTACTATTTGTTTAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAACGTTTTCGGCACTATTTGTTCAGAAATGTCTACTCAGAATT
* *
30440647 ATTTTTCCACGAACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTTTTCCAAAAATTTTACTG
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTACTG
* ** * * *
30440712 ACAGTGCATCCAGCTTGAAGTGTTTTAGGCACTATTTATTCAGAAATGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAACGTTTTCGGCACTATTTGTTCAGAAATGTCTACTCAGAATT
* * *
30440773 ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTAGGAGTTTTTTCCAGAAATTTTGCTG
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTACTG
* * *
30440838 ACAGTGTATCCTGCTTGAAACGTTTTCCGACACTATTT-TTCCAGAAATGTCTGCTCAGAATT
66 ACAGTGCATCCTGCTTGAAACGTTTT-CGGCACTATTTGTT-CAGAAATGTCTACTCAGAATT
30440900 ATT
1 ATT
30440903 CTTGCAGAAA
Statistics
Matches: 345, Mismatches: 35, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
126 314 0.91
127 31 0.09
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (126 bp):
ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTACTG
ACAGTGCATCCTGCTTGAAACGTTTTCGGCACTATTTGTTCAGAAATGTCTACTCAGAATT
Found at i:30441378 original size:16 final size:17
Alignment explanation
Indices: 30441357--30441395 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
30441347 TAATTTTTTT
*
30441357 CCTAAAACCTT-AAAAC
1 CCTAAAACATTAAAAAC
30441373 CCTAAAACATTACAAAAC
1 CCTAAAACATTA-AAAAC
30441391 CCTAA
1 CCTAA
30441396 CCTAACCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
18 10 0.50
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (17 bp):
CCTAAAACATTAAAAAC
Found at i:30445715 original size:21 final size:23
Alignment explanation
Indices: 30445675--30445727 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
30445665 ATACATAAAA
* *
30445675 TTAAAAAAATAACTCTTAATT-T
1 TTAAAAAAATAACACGTAATTAT
30445697 TTAAAAAAATAA-ACGTAATTAT
1 TTAAAAAAATAACACGTAATTAT
*
30445719 CTAAAAAAA
1 TTAAAAAAA
30445728 GATTTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (23 bp):
TTAAAAAAATAACACGTAATTAT
Found at i:30454781 original size:33 final size:33
Alignment explanation
Indices: 30454717--30454788 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
30454707 TCATTTCAAG
*
30454717 TTTCACATCTCATTTCATCATTTCAT-TTTTTCA
1 TTTCACATCTCATTTCAT-ATTTCATATTTTCCA
*
30454750 TTTCCCATCTCATATTCAT-TTGTCATATTTTCCA
1 TTTCACATCTCAT-TTCATATT-TCATATTTTCCA
30454784 TTTCA
1 TTTCA
30454789 ATATTTTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
32 2 0.06
33 16 0.48
34 15 0.45
ACGTcount: A:0.21, C:0.25, G:0.01, T:0.53
Consensus pattern (33 bp):
TTTCACATCTCATTTCATATTTCATATTTTCCA
Found at i:30454808 original size:43 final size:43
Alignment explanation
Indices: 30454750--30454835 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
30454740 CATTTTTTCA
*
30454750 TTTCCCATCTCATATTCATTTGTCATATTT-TCCATTTCAATAT
1 TTTCCCATCTCATATTCATTTCTCATATTTGT-CATTTCAATAT
* *
30454793 TTTCTCATCTCATATTCATTTCTTATATTTGTCATTTCAATAT
1 TTTCCCATCTCATATTCATTTCTCATATTTGTCATTTCAATAT
30454836 CAATTGCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.02, T:0.53
Consensus pattern (43 bp):
TTTCCCATCTCATATTCATTTCTCATATTTGTCATTTCAATAT
Found at i:30459748 original size:24 final size:25
Alignment explanation
Indices: 30459707--30459754 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
30459697 ATATTATGAT
30459707 ATTTTAGTAAAAATTTAAATAATAA
1 ATTTTAGTAAAAATTTAAATAATAA
* *
30459732 ATTTTTGT-AAAATTTAATTAATA
1 ATTTTAGTAAAAATTTAAATAATA
30459755 TATAACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
ATTTTAGTAAAAATTTAAATAATAA
Found at i:30462561 original size:20 final size:20
Alignment explanation
Indices: 30462505--30462566 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
30462495 TTTAGTCATA
**
30462505 TAATAAATTA-TTAATATAA
1 TAATAAATTATTTAATATTT
* * *
30462524 T-ATATATAATTTATTATTT
1 TAATAAATTATTTAATATTT
30462543 TAATAAATTATTTAATATTT
1 TAATAAATTATTTAATATTT
30462563 TAAT
1 TAAT
30462567 TTCATTTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 19 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATAAATTATTTAATATTT
Found at i:30463177 original size:14 final size:14
Alignment explanation
Indices: 30463158--30463196 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
30463148 CTAGAAAAGT
30463158 AAATCATTTTCCAG
1 AAATCATTTTCCAG
**
30463172 AAATCATTTTCTGG
1 AAATCATTTTCCAG
*
30463186 AAGTCATTTTC
1 AAATCATTTTC
30463197 AGTGAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:30463305 original size:15 final size:15
Alignment explanation
Indices: 30463285--30463316 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30463275 CATTTCACTA
*
30463285 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
30463300 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
30463315 TT
1 TT
30463317 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:30465254 original size:3 final size:3
Alignment explanation
Indices: 30465248--30465359 Score: 86
Period size: 3 Copynumber: 36.3 Consensus size: 3
30465238 TGAATTTCTA
* * * *
30465248 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T
* *
30465296 TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
30465341 TA- TATT TAC TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT T
30465360 TATAAATATT
Statistics
Matches: 87, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
2 5 0.06
3 71 0.82
4 11 0.13
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:30466035 original size:24 final size:25
Alignment explanation
Indices: 30466007--30466071 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
30465997 TATTTATATA
30466007 TATTATTATGTATATATACT-TTAGC
1 TATTATTATGTATATATACTCTTA-C
* *
30466032 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
30466056 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
30466072 TTCAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:30467711 original size:14 final size:14
Alignment explanation
Indices: 30467694--30467723 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30467684 AGCATCCTGA
30467694 TGGTCGACGGTGGT
1 TGGTCGACGGTGGT
*
30467708 TGGTCGTCGGTGGT
1 TGGTCGACGGTGGT
30467722 TG
1 TG
30467724 AGCAATGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.13, G:0.50, T:0.33
Consensus pattern (14 bp):
TGGTCGACGGTGGT
Found at i:30471205 original size:20 final size:20
Alignment explanation
Indices: 30471180--30471221 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
30471170 TAATTAAACT
*
30471180 TACTAAATTAAAATGTAACC
1 TACTAAATGAAAATGTAACC
*
30471200 TACTAAATGAAAATTTAACC
1 TACTAAATGAAAATGTAACC
30471220 TA
1 TA
30471222 TGTATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (20 bp):
TACTAAATGAAAATGTAACC
Found at i:30471961 original size:2 final size:2
Alignment explanation
Indices: 30471954--30472013 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
30471944 ATTGTACATA
*
30471954 TG TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
30471996 TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG
30472014 AATTTATGTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:30473512 original size:6 final size:6
Alignment explanation
Indices: 30473480--30473529 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
30473470 ACAGTACCTA
* *
30473480 AACAGT AATCAGT AACGGT AGCAGT AACAGT AACAGT AACAGT AACAGT
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
30473529 A
1 A
30473530 TTCAACACAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 33 0.85
7 6 0.15
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:30473560 original size:45 final size:45
Alignment explanation
Indices: 30473509--30473616 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
30473499 AGCAGTAACA
* * *
30473509 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTC-AAATCG
* *
30473554 GTAACAGTAACGGTAAAAGTATTCGACACACAAAGTGTCAAATCG
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCAAATCG
30473599 GTAACAGTAACGGTAACA
1 GTAACAGTAACGGTAACA
30473617 ATAACAGTAG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 55 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCAAATCG
Found at i:30474259 original size:14 final size:14
Alignment explanation
Indices: 30474240--30474293 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
30474230 TTTAGCTTTG
*
30474240 TTTCTTTTATTTTT
1 TTTCTTTTATTTTC
*
30474254 TTTCTTTTCTTTTC
1 TTTCTTTTATTTTC
*
30474268 TTTCTATTTCATTTAC
1 TTTCT-TTT-ATTTTC
*
30474284 TTTATTTTAT
1 TTTCTTTTAT
30474294 ATTTAAGTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 19 0.58
15 6 0.18
16 8 0.24
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTCTTTTATTTTC
Found at i:30474596 original size:25 final size:23
Alignment explanation
Indices: 30474552--30474612 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
30474542 ATTTTGATTT
*
30474552 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
30474576 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
30474600 ATATAAATTATAT
1 AT-TTAATTATAT
30474613 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:30474615 original size:35 final size:35
Alignment explanation
Indices: 30474560--30474639 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
30474550 TTATTTAATA
* *
30474560 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
30474594 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
30474629 ATATAAT-TAAA
1 ATATAATATAAA
30474640 ACAAATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:30476121 original size:26 final size:26
Alignment explanation
Indices: 30476092--30476199 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
30476082 TGATACAAAT
30476092 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
30476118 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
30476144 TGATAATGGGTTGGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
30476170 TGATAATAGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30476196 TGAT
1 TGAT
30476200 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:30480031 original size:7 final size:7
Alignment explanation
Indices: 30480019--30480045 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
30480009 AATTCAAATT
30480019 CACTTTC
1 CACTTTC
30480026 CACTTTC
1 CACTTTC
30480033 CACTTTC
1 CACTTTC
30480040 CACTTT
1 CACTTT
30480046 TGAATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (7 bp):
CACTTTC
Found at i:30483473 original size:20 final size:20
Alignment explanation
Indices: 30483435--30483473 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30483425 TAAATTATGT
30483435 ATATTGATATGTTTGAATTAA
1 ATATTGATATG-TTGAATTAA
30483456 ATATTGTATATG-TGAATT
1 ATATTG-ATATGTTGAATT
30483474 GTGTAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATTGATATGTTGAATTAA
Found at i:30483481 original size:28 final size:26
Alignment explanation
Indices: 30483416--30483481 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 26
30483406 CAAGGTAAGT
*
30483416 TTGTGTAACTAAATTATGTATATTGA
1 TTGTGTAATTAAATTATGTATATTGA
*
30483442 TATGTTTGAATTAAA-TATTGTATATGTGAA
1 T-TGTGT-AATTAAATTA-TGTATAT-TG-A
30483472 TTGTGTAATT
1 TTGTGTAATT
30483482 GTTATTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
26 1 0.03
27 6 0.19
28 17 0.53
29 6 0.19
30 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (26 bp):
TTGTGTAATTAAATTATGTATATTGA
Found at i:30483661 original size:24 final size:25
Alignment explanation
Indices: 30483634--30483684 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
30483624 AGCATCCCGA
*
30483634 TATATGG-CCTTTTGAGCTTCCTGT
1 TATATGGTCCTTGTGAGCTTCCTGT
*
30483658 TATATGGTTCTTGTGAGCTTCCTGT
1 TATATGGTCCTTGTGAGCTTCCTGT
30483683 TA
1 TA
30483685 ATAGCTCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.47
Consensus pattern (25 bp):
TATATGGTCCTTGTGAGCTTCCTGT
Found at i:30504907 original size:23 final size:23
Alignment explanation
Indices: 30504804--30504911 Score: 102
Period size: 21 Copynumber: 5.0 Consensus size: 23
30504794 CCTGATCAGT
30504804 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
*
30504826 A-ATGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** * *
30504847 A-ACGACACACGAGGTACCTG--
1 ATACGACACATAAAGTGCCTGAA
** *
30504867 ATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
30504890 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
30504912 TCAATAAAGC
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
20 1 0.01
21 51 0.71
22 1 0.01
23 19 0.26
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:30505307 original size:15 final size:15
Alignment explanation
Indices: 30505282--30505339 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
30505272 TCATATATAT
*
30505282 TATATAATTCAATCAG
1 TATA-AATTCAATCAA
30505298 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
30505313 AATAATTTCAATCAA
1 TATAAATTCAATCAA
30505328 TATAAATTCAAT
1 TATAAATTCAAT
30505340 AAATTCATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:30506622 original size:5 final size:5
Alignment explanation
Indices: 30506609--30506650 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
30506599 TTCTTTAGTT
30506609 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
30506651 TAAAACATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 32 0.89
6 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:30506686 original size:8 final size:8
Alignment explanation
Indices: 30506673--30506701 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
30506663 TATCTTTATT
30506673 ATATAATA
1 ATATAATA
30506681 ATATAATA
1 ATATAATA
30506689 ATATAATA
1 ATATAATA
30506697 ATATA
1 ATATA
30506702 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:30526250 original size:263 final size:263
Alignment explanation
Indices: 30525783--30526307 Score: 978
Period size: 263 Copynumber: 2.0 Consensus size: 263
30525773 CGCATCATCC
* *
30525783 GCCGATGCAAACGTTACATAACCAAAACCACGGGATCGACCCGTAGTTCGCTCCTGGACAATAGA
1 GCCGATGCAAACGTTACATAACCAAAACCACGGGATCGACCCATAGTTCGCTCCTAGACAATAGA
* *
30525848 AAAACATAATCAATGAACAACATTAAATAAAAAAAGAATCGAATAAAGAAAAGAAATGAAAGAAA
66 AAAACATAATCAATGAACAACATAAAATAAAAAAAGAATCGAATAAAGAAAAGAAAGGAAAGAAA
*
30525913 GTTAGGTTATTTAGCAGTTGGTCAAGCTCGCAAACTAGCAATAACACTAGTAGACAAACTTGTAT
131 GATAGGTTATTTAGCAGTTGGTCAAGCTCGCAAACTAGCAATAACACTAGTAGACAAACTTGTAT
30525978 AGAAGAAAGCTTAAAAGAGTTCATGCCCCAGCTTGGGCTATTTAAACATAGAGTGAAGGTTCTAA
196 AGAAGAAAGCTTAAAAGAGTTCATGCCCCAGCTTGGGCTATTTAAACATAGAGTGAAGGTTCTAA
30526043 AAA
261 AAA
*
30526046 GCCGATGCAAACGTTACATAACCAAAACCACGGGATTGACCCATAGTTCGCTCCTAGACAATAGA
1 GCCGATGCAAACGTTACATAACCAAAACCACGGGATCGACCCATAGTTCGCTCCTAGACAATAGA
*
30526111 AAAACATAATCAATGAACAACATAAAATAAAAAAGGAATCGAATAAAGAAAAGAAAGGAAAGAAA
66 AAAACATAATCAATGAACAACATAAAATAAAAAAAGAATCGAATAAAGAAAAGAAAGGAAAGAAA
30526176 GATAGGTTATTTAGCAGTTGGTCAAGCTCGCAAACTAGCAATAACACTAGTAGACAAACTTGTAT
131 GATAGGTTATTTAGCAGTTGGTCAAGCTCGCAAACTAGCAATAACACTAGTAGACAAACTTGTAT
*
30526241 AGAAGAAAGCTTAAAAGAGTTCATGCCCCAGCTTGGGCTATTTAAACATAGAGTGAAGGTTGTAA
196 AGAAGAAAGCTTAAAAGAGTTCATGCCCCAGCTTGGGCTATTTAAACATAGAGTGAAGGTTCTAA
30526306 AA
261 AA
30526308 GTCCTAGTAT
Statistics
Matches: 254, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
263 254 1.00
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.21
Consensus pattern (263 bp):
GCCGATGCAAACGTTACATAACCAAAACCACGGGATCGACCCATAGTTCGCTCCTAGACAATAGA
AAAACATAATCAATGAACAACATAAAATAAAAAAAGAATCGAATAAAGAAAAGAAAGGAAAGAAA
GATAGGTTATTTAGCAGTTGGTCAAGCTCGCAAACTAGCAATAACACTAGTAGACAAACTTGTAT
AGAAGAAAGCTTAAAAGAGTTCATGCCCCAGCTTGGGCTATTTAAACATAGAGTGAAGGTTCTAA
AAA
Found at i:30530460 original size:52 final size:53
Alignment explanation
Indices: 30530382--30530519 Score: 156
Period size: 53 Copynumber: 2.6 Consensus size: 53
30530372 CCATGGCAAT
* * * *
30530382 TATAAGACCATAGCTAGACTATGGCATCGGTGTGATGAGA-TA-TGTGTTTCCG
1 TATAAGACTATAGCTAGGCTATGGCATCGGTGAGATGAGATTATTG-GCTTCCG
* **
30530434 TATAAGACTATAGCTAGGCTATGGCATCGATGAGATTTGATTATTGGCTTCCG
1 TATAAGACTATAGCTAGGCTATGGCATCGGTGAGATGAGATTATTGGCTTCCG
* *
30530487 TATAAGACTATATCT-GAGATATGGCATCGGTGA
1 TATAAGACTATAGCTAG-GCTATGGCATCGGTGA
30530520 TATATGTGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
52 35 0.48
53 36 0.49
54 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (53 bp):
TATAAGACTATAGCTAGGCTATGGCATCGGTGAGATGAGATTATTGGCTTCCG
Found at i:30531617 original size:22 final size:20
Alignment explanation
Indices: 30531573--30531611 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30531563 GACTACACGG
*
30531573 CCTACCCACATGGGTGTGTC
1 CCTACCCACACGGGTGTGTC
*
30531593 CCTATCCACACGGGTGTGT
1 CCTACCCACACGGGTGTGT
30531612 GACCCTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.33, G:0.26, T:0.26
Consensus pattern (20 bp):
CCTACCCACACGGGTGTGTC
Found at i:30537771 original size:20 final size:20
Alignment explanation
Indices: 30537733--30537789 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
30537723 ATCTTTTGCG
*
30537733 TTTTTTATCTGCTTCTTTCAT
1 TTTTTTATCTGCAT-TTTCAT
* *
30537754 TTTTTTATGTGCATTTTCTT
1 TTTTTTATCTGCATTTTCAT
*
30537774 TTTTTTATTTGCATTT
1 TTTTTTATCTGCATTT
30537790 AAAAACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.11, C:0.12, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTTTTATCTGCATTTTCAT
Found at i:30539817 original size:127 final size:128
Alignment explanation
Indices: 30539552--30539837 Score: 330
Period size: 127 Copynumber: 2.2 Consensus size: 128
30539542 GTTTGGGAAC
* * * * * * *
30539552 TCGAGGAATCGTGCCCAACCGTGCTGGGTTTCGATTTTCTGTTTGCCTAAATAATTAAATATTCC
1 TCGAGGAATCGTGCCCTA-CGTGCTGGGTTGCAATTTACCGTTTGCCGAAATAATCAAATATTCC
* * *
30539617 TTTGAAATTTCATCCGTACTTTGAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTAGAAAT
65 TTTGAAATTTCATCCATACTTTCAAAATTCCTTAAAACGAAGGCAATGTTCAATGTTTAGAAAT
* * *
30539681 TCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTACCGTTTGTTCGAAATAATCGAATATTC
1 TCGAGGAATCGTGCCCTA-CGTGCTGGGTTGCAATTTACCGTTTG-CCGAAATAATCAAATATTC
* *
30539746 CTTT-AGAATTTCA-CTCATATTTTCTAAATT-C-TAAAAC-AAGGCAATGTTCAATGTTTAGAA
64 CTTTGA-AATTTCATC-CATACTTTCAAAATTCCTTAAAACGAAGGCAATGTTCAATGTTTAGAA
30539806 AT
127 AT
* *
30539808 TTGAGGAATCGTGCCTTACTGTGCTGGGTT
1 TCGAGGAATCGTGCCCTAC-GTGCTGGGTT
30539838 TCAGTTTTTC
Statistics
Matches: 134, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
126 1 0.01
127 49 0.37
128 6 0.04
129 41 0.31
130 37 0.28
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (128 bp):
TCGAGGAATCGTGCCCTACGTGCTGGGTTGCAATTTACCGTTTGCCGAAATAATCAAATATTCCT
TTGAAATTTCATCCATACTTTCAAAATTCCTTAAAACGAAGGCAATGTTCAATGTTTAGAAAT
Found at i:30542512 original size:32 final size:32
Alignment explanation
Indices: 30542474--30542551 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
30542464 CATGCATGTG
* * **
30542474 TGTAACTTTTCATCTTCAAGTCTCTTTGCATT
1 TGTAACTTTTCATATTCAAGCCTCTTCACATT
*
30542506 AT-TAACTCTTCATATTCAAGCCTCTTCACATT
1 -TGTAACTTTTCATATTCAAGCCTCTTCACATT
30542538 TGTAACTTTTCATA
1 TGTAACTTTTCATA
30542552 ATTTATTTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 1 0.03
32 36 0.95
33 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.06, T:0.46
Consensus pattern (32 bp):
TGTAACTTTTCATATTCAAGCCTCTTCACATT
Found at i:30547007 original size:32 final size:32
Alignment explanation
Indices: 30546970--30547046 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
30546960 ATGCATGTGT
* * **
30546970 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
30547002 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
30547034 GTAACTTTTCATA
1 GTAACTTTTCATA
30547047 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:30550240 original size:20 final size:21
Alignment explanation
Indices: 30550212--30550255 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
30550202 AATAATATTC
* *
30550212 TTAATATAA-TTATTTTTATA
1 TTAAAATAATTTATTTTTAAA
30550232 TTAAAATAATTTATTTTTAAA
1 TTAAAATAATTTATTTTTAAA
30550253 TTA
1 TTA
30550256 TATTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAAAATAATTTATTTTTAAA
Found at i:30550803 original size:19 final size:18
Alignment explanation
Indices: 30550781--30550825 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
30550771 AAAATTAAAA
30550781 ATATTTTTTCATAATTTTT
1 ATATTTTTTCAT-ATTTTT
30550800 ATATTTTTTCATATTTTT
1 ATATTTTTTCATATTTTT
*
30550818 AAATTTTT
1 ATATTTTT
30550826 ATATTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (18 bp):
ATATTTTTTCATATTTTT
Found at i:30550808 original size:10 final size:10
Alignment explanation
Indices: 30550781--30550817 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
30550771 AAAATTAAAA
30550781 ATATTTTTTC
1 ATATTTTTTC
*
30550791 ATAATTTTT-
1 ATATTTTTTC
30550800 ATATTTTTTC
1 ATATTTTTTC
30550810 ATATTTTT
1 ATATTTTT
30550818 AAATTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (10 bp):
ATATTTTTTC
Found at i:30551763 original size:17 final size:18
Alignment explanation
Indices: 30551743--30551786 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
30551733 TGTTAAAAAA
30551743 TTATAAATTTTAGAA-TT
1 TTATAAATTTTAGAACTT
*
30551760 TTATAAATATTTTGAACTT
1 TTATAAAT-TTTAGAACTT
30551779 TTA-AAATT
1 TTATAAATT
30551787 ACCCGTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 10 0.42
19 5 0.21
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (18 bp):
TTATAAATTTTAGAACTT
Found at i:30554319 original size:21 final size:19
Alignment explanation
Indices: 30554295--30554338 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
30554285 ATTTTATCTA
30554295 ATAAATAATTTAAATTATTAT
1 ATAAATAA-TTAAATTATT-T
*
30554316 ATAATTAATTAAATTATTT
1 ATAAATAATTAAATTATTT
30554335 ATAA
1 ATAA
30554339 TAAAATATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 10 0.45
21 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAAATAATTAAATTATTT
Found at i:30554320 original size:24 final size:23
Alignment explanation
Indices: 30554274--30554342 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
30554264 ATAAAATTAA
* *
30554274 AAATAATTATCATT-TTATCTAAT
1 AAATAATTA-AATTATTATATAAT
30554297 AAATAATTTAAATTATTATATAAT
1 AAATAA-TTAAATTATTATATAAT
30554321 ---TAATTAAATTATT-TATAAT
1 AAATAATTAAATTATTATATAAT
30554340 AAA
1 AAA
30554343 ATATCGGAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 6 0.15
20 10 0.26
21 3 0.08
23 9 0.23
24 11 0.28
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATAATTAAATTATTATATAAT
Found at i:30556453 original size:2 final size:2
Alignment explanation
Indices: 30556446--30556472 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30556436 GATCAAATTA
30556446 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
30556473 AACACTGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30573363 original size:58 final size:58
Alignment explanation
Indices: 30573293--30573407 Score: 160
Period size: 58 Copynumber: 2.0 Consensus size: 58
30573283 AACTTTACTT
* * *
30573293 GTTAAATTTAAAAATT-TCATTAACAGTATATTAAATAATCAAAGAAAAATATTTATTC
1 GTTAAATCTAAAAATTCT-ACTAACAATATATTAAATAATCAAAGAAAAATATTTATTC
* * *
30573351 GTTAAATCTAAAAATTCTACTAACAATATATTAAATAATCTAATAAAAATCTTTATT
1 GTTAAATCTAAAAATTCTACTAACAATATATTAAATAATCAAAGAAAAATATTTATT
30573408 AGAAAAAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 49 0.98
59 1 0.02
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (58 bp):
GTTAAATCTAAAAATTCTACTAACAATATATTAAATAATCAAAGAAAAATATTTATTC
Found at i:30574864 original size:21 final size:21
Alignment explanation
Indices: 30574840--30574919 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 21
30574830 TAATAACGAA
30574840 AAAAATAAAAATAAGATAAAT
1 AAAAATAAAAATAAGATAAAT
30574861 AAAAA-ATAAAATAAGCCAATTAAAT
1 AAAAATA-AAAATAAG---A-TAAAT
* *
30574886 AAAAAGCAATAATAA-ATAAAT
1 AAAAA-TAAAAATAAGATAAAT
30574907 AAACAAATAAAAA
1 -AA-AAATAAAAA
30574920 CTAAAAGAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 17
0.70 0.04 0.25
Matches are distributed among these distances:
20 1 0.02
21 18 0.38
22 7 0.15
23 3 0.06
24 1 0.02
25 10 0.21
26 6 0.13
27 1 0.02
ACGTcount: A:0.74, C:0.05, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAAATAAAAATAAGATAAAT
Found at i:30574871 original size:27 final size:27
Alignment explanation
Indices: 30574816--30574874 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
30574806 TGAATGCGAT
* *
30574816 AATATAAATAACGATAATAACGAAAAA
1 AATAAAAATAACGATAATAACAAAAAA
30574843 AATAAAAATAA-GATAAATAA-AAAATAA
1 AATAAAAATAACGAT-AATAACAAAA-AA
30574870 AATAA
1 AATAA
30574875 GCCAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (27 bp):
AATAAAAATAACGATAATAACAAAAAA
Found at i:30575024 original size:15 final size:15
Alignment explanation
Indices: 30574978--30575017 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
30574968 TAAAACAGTT
30574978 TAAAAA-AATAATGA
1 TAAAAATAATAATGA
30574992 TAAAAATAATAATGA
1 TAAAAATAATAATGA
30575007 TAAAAATAATA
1 TAAAAATAATA
30575018 GTAATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
TAAAAATAATAATGA
Found at i:30575049 original size:23 final size:23
Alignment explanation
Indices: 30574991--30575046 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
30574981 AAAAATAATG
* *
30574991 ATAAAAATAATAATGATAAAAATA
1 ATAATAATAAT-ATTATAAAAATA
*
30575015 ATAGTAATAATATTATAAAAAT-
1 ATAATAATAATATTATAAAAATA
30575037 ATAATAATAA
1 ATAATAATAA
30575047 ATAAGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.32
23 10 0.36
24 9 0.32
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (23 bp):
ATAATAATAATATTATAAAAATA
Found at i:30575055 original size:22 final size:23
Alignment explanation
Indices: 30574991--30575055 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
30574981 AAAAATAATG
* *
30574991 ATAAAAATAATAATGATAAAAATA
1 ATAATAATAAT-ATAATAAAAATA
* *
30575015 ATAGTAATAATATTATAAAAAT-
1 ATAATAATAATATAATAAAAATA
30575037 ATAATAATAA-ATAAGTAAA
1 ATAATAATAATATAA-TAAA
30575056 TAAAACACAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.09
22 13 0.37
23 10 0.29
24 9 0.26
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (23 bp):
ATAATAATAATATAATAAAAATA
Found at i:30578116 original size:17 final size:17
Alignment explanation
Indices: 30578091--30578141 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
30578081 TTGTTGAAGA
30578091 ATCTGTTTGGATTTTGC
1 ATCTGTTTGGATTTTGC
* *
30578108 ATCTATTT-G--TTT-A
1 ATCTGTTTGGATTTTGC
30578121 ATCTGTTTGGATTTTGC
1 ATCTGTTTGGATTTTGC
30578138 ATCT
1 ATCT
30578142 TTCAACTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 7 0.27
14 4 0.15
16 4 0.15
17 11 0.42
ACGTcount: A:0.16, C:0.12, G:0.18, T:0.55
Consensus pattern (17 bp):
ATCTGTTTGGATTTTGC
Found at i:30579547 original size:13 final size:13
Alignment explanation
Indices: 30579529--30579555 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30579519 TAATCAAAAC
30579529 TCAATTAATATAG
1 TCAATTAATATAG
30579542 TCAATTAATATAG
1 TCAATTAATATAG
30579555 T
1 T
30579556 TTTTGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TCAATTAATATAG
Found at i:30582980 original size:40 final size:40
Alignment explanation
Indices: 30582890--30583074 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
30582880 TCGAATGATG
* * *
30582890 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AT
*
30582931 T-CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
30582970 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
30583009 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
30583048 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30583075 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
39 39 0.31
40 77 0.62
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:30583096 original size:79 final size:79
Alignment explanation
Indices: 30582943--30583107 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
30582933 GGACTAAGAT
* **
30582943 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
30583008 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
30583022 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
30583085 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
30583101 CCGAAGG
1 CCGAAGG
30583108 TACGCGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:30587619 original size:46 final size:47
Alignment explanation
Indices: 30587516--30587694 Score: 239
Period size: 46 Copynumber: 3.9 Consensus size: 47
30587506 GATAATGTTG
30587516 ATGTGAA-AGTGCATATATGTGATAA-GCCGAA--GCCAATG-GATGA
1 ATGTGAACA-TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
30587559 AT-TGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
30587605 ATGTG-ACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
30587651 ATATGAACATGCATATATTGTG-TAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATA-TGTGATAAGGCCGAATGGCCAATGTGA
30587695 AATATATGTA
Statistics
Matches: 121, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
42 20 0.17
43 8 0.07
45 7 0.06
46 50 0.41
47 32 0.26
48 4 0.03
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:30587685 original size:93 final size:89
Alignment explanation
Indices: 30587516--30587694 Score: 245
Period size: 93 Copynumber: 2.0 Consensus size: 89
30587506 GATAATGTTG
30587516 ATGTGAAAGTGCATATATGTGATAAGCCGAAGCCAATGGATGAATTGAACATGCATATATGTGAT
1 ATGTGAAAGTGCATATATGTGATAAGCCGAAGCCAATGGATGAATTGAACATGCATATATGTGAT
*
30587581 AAGGCCAAATGGCCAATGTGATGA
66 AAAGCCAAATGGCCAATGTGATGA
* *
30587605 ATGTGACA-TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATAT
1 ATGTGAAAGTGCATATATGTGATAA-GCCGAA--GCCAATG-GATGAAT-TGAACATGCATATA-
* *
30587669 TGTG-TAAAGCCGAATGGCTAATGTGA
60 TGTGATAAAGCCAAATGGCCAATGTGA
30587695 AATATATGTA
Statistics
Matches: 79, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
88 15 0.19
89 13 0.16
91 7 0.09
92 7 0.09
93 33 0.42
94 4 0.05
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (89 bp):
ATGTGAAAGTGCATATATGTGATAAGCCGAAGCCAATGGATGAATTGAACATGCATATATGTGAT
AAAGCCAAATGGCCAATGTGATGA
Found at i:30587950 original size:37 final size:37
Alignment explanation
Indices: 30587900--30588049 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
30587890 GGAAATATAT
30587900 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
30587937 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
30587974 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
30588011 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
30588048 TC
1 TC
30588050 TGAGCTAAAG
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:30595001 original size:40 final size:40
Alignment explanation
Indices: 30594907--30595051 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
30594897 TACTCGAATG
*
30594907 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
30594948 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
30594988 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
30595028 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
30595052 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:30597920 original size:39 final size:41
Alignment explanation
Indices: 30597820--30598003 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
30597810 TCAAATGATG
* * *
30597820 TCCGGGCTAAG-CCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
*
30597859 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
30597899 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
30597938 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* * *
30597978 ACCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30598004 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
39 46 0.37
40 70 0.56
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:30597955 original size:79 final size:80
Alignment explanation
Indices: 30597820--30598001 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 80
30597810 TCAAATGATG
* *
30597820 TCCGGGCTAAGCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
30597884 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * **
30597898 TTCCGGGCTAAGCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
30597961 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* * *
30597978 ACCGGGCTATGTCCCAAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATT
30598002 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 70 0.79
80 18 0.20
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:30598034 original size:79 final size:79
Alignment explanation
Indices: 30597858--30598036 Score: 195
Period size: 79 Copynumber: 2.3 Consensus size: 79
30597848 AAGTGACCAT
* * *
30597858 ATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATT
1 ATCCGGATTAA-ATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATT
**
30597922 GGTGCGAGTTACTAA
65 GGAACGAGTTACTAA
* * * *
30597937 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCAT
1 ATCCGGATTAAATTCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCAAAGGCAT
* *
30598001 TTGAACGAG-TAGCTAT
64 TGGAACGAGTTA-CTAA
30598017 ATCC-GATTAAATTCCGAAGG
1 ATCCGGATTAAATTCCGAAGG
30598037 TACGTGATTC
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
78 2 0.02
79 57 0.70
80 23 0.28
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
ATCCGGATTAAATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTG
GAACGAGTTACTAA
Found at i:30599555 original size:32 final size:32
Alignment explanation
Indices: 30599506--30599589 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
30599496 TTGAAATTTT
*
30599506 AGTTTGTTGGATTTTGAAATTATCATGTCTTGA
1 AGTTTGTTGGATATTGAAATTATCATGT-TTGA
* * * *
30599539 A-TTTGTTAGATATTGAATTTATTATGTTTTA
1 AGTTTGTTGGATATTGAAATTATCATGTTTGA
*
30599570 AGCTTGTTGGATATTGAAAT
1 AGTTTGTTGGATATTGAAAT
30599590 CATTGACAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
31 4 0.10
32 37 0.88
33 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.19, T:0.50
Consensus pattern (32 bp):
AGTTTGTTGGATATTGAAATTATCATGTTTGA
Found at i:30601048 original size:20 final size:19
Alignment explanation
Indices: 30601004--30601048 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
30600994 TCCAAACACC
*
30601004 AGAAAACTAAATCATTTCT
1 AGAAAACTAAATCATTTCG
* *
30601023 AAAAAAGTAAATCATTTTCG
1 AGAAAACTAAATCA-TTTCG
30601043 AGAAAA
1 AGAAAA
30601049 TATTTTACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.53, C:0.11, G:0.09, T:0.27
Consensus pattern (19 bp):
AGAAAACTAAATCATTTCG
Found at i:30614745 original size:30 final size:30
Alignment explanation
Indices: 30614678--30614732 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
30614668 ATAATAGAAG
*
30614678 TTAGATATGATATGATATTGTGCTAATTAA
1 TTAGATATAATATGATATTGTGCTAATTAA
30614708 TTAGATATAATATGATA-TGT-CTAAT
1 TTAGATATAATATGATATTGTGCTAAT
30614733 AATGCTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.21
29 3 0.12
30 16 0.67
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.44
Consensus pattern (30 bp):
TTAGATATAATATGATATTGTGCTAATTAA
Found at i:30619042 original size:31 final size:31
Alignment explanation
Indices: 30618999--30619061 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
30618989 ATAAAATGAC
*
30618999 CACTGAATTATTTGAAAGTTTTCATTTAAGT
1 CACTAAATTATTTGAAAGTTTTCATTTAAGT
* *
30619030 CACTAAATTATTTGAAATTTTTTATTTAAGT
1 CACTAAATTATTTGAAAGTTTTCATTTAAGT
30619061 C
1 C
30619062 GCTGGACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (31 bp):
CACTAAATTATTTGAAAGTTTTCATTTAAGT
Found at i:30619824 original size:22 final size:23
Alignment explanation
Indices: 30619790--30619834 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
30619780 TAATATAATT
* *
30619790 ATTAAATATAAAA-AAACTAAAA
1 ATTAAATACAAAATAAAATAAAA
*
30619812 ATTAAATGCAAAATAAAATAAAA
1 ATTAAATACAAAATAAAATAAAA
30619835 TAAAATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (23 bp):
ATTAAATACAAAATAAAATAAAA
Found at i:30625278 original size:21 final size:21
Alignment explanation
Indices: 30625254--30625309 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
30625244 AACAGCGGTG
*
30625254 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
30625275 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
30625296 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
30625310 AACAGCGGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:30625318 original size:18 final size:19
Alignment explanation
Indices: 30625254--30625319 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 19
30625244 AACAGCGGTG
**
30625254 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGAAAC--TA
*
30625275 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGAAAC--TA
30625296 GCGGTGAGATTAGAAAC-A
1 GCGGTGAGATTAGAAACTA
30625314 GCGGTG
1 GCGGTG
30625320 GAGTGTGTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
18 7 0.16
21 36 0.84
ACGTcount: A:0.27, C:0.11, G:0.36, T:0.26
Consensus pattern (19 bp):
GCGGTGAGATTAGAAACTA
Found at i:30627353 original size:32 final size:32
Alignment explanation
Indices: 30627314--30627473 Score: 266
Period size: 32 Copynumber: 5.0 Consensus size: 32
30627304 CATAAAAAAT
*
30627314 ATCATACATTAGGTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
30627346 ATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
30627378 ATCATACATTAGGTTCACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
30627410 ATCATACATTAGTTTTGCATATGAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
30627442 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
30627474 CATAGTTATA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 117 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:30627387 original size:64 final size:64
Alignment explanation
Indices: 30627314--30627473 Score: 293
Period size: 64 Copynumber: 2.5 Consensus size: 64
30627304 CATAAAAAAT
30627314 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
* *
30627378 ATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATGAAAAAGTAG
1 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
*
30627442 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGGTTTACATATAAAAAAGTAG
30627474 CATAGTTATA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 92 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (64 bp):
ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
Found at i:30632931 original size:18 final size:19
Alignment explanation
Indices: 30632894--30632931 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
30632884 TCATTTACAT
30632894 ACATTTGGGTGCCTACCAA
1 ACATTTGGGTGCCTACCAA
*
30632913 ACATTTGGGT-CCTATCAA
1 ACATTTGGGTGCCTACCAA
30632931 A
1 A
30632932 GGTTGAACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (19 bp):
ACATTTGGGTGCCTACCAA
Found at i:30634803 original size:89 final size:88
Alignment explanation
Indices: 30634698--30634998 Score: 385
Period size: 89 Copynumber: 3.4 Consensus size: 88
30634688 TTAATGGTGT
* * * * *
30634698 AAAAAG-CCCTCAAACTTTTTCAAAAAAAGTAATTAAACCCTCTCTTTTTTTCACACTCAATTGA
1 AAAAAGACCCTCAAACTTTTTCGAAAAAAGCAATTAAACCCTCTCTTTTTTT-TCACTAAATTGG
*
30634762 GCACTTGAACTTTCAAAATGCATC
65 GTACTTGAACTTTCAAAATGCATC
* *
30634786 AAAAAGACCCTCAAACTTCTTT-GAAAAAAGCAATTAAGCCCCTCCCTTTTTTTTCACTAAATTG
1 AAAAAGACCCTCAAACTT-TTTCGAAAAAAGCAATTAA-ACCCTCTCTTTTTTTTCACTAAATTG
* *
30634850 GGTACTTGAAATTTTAAAATGCATC
64 GGTACTTGAACTTTCAAAATGCATC
* * * * *
30634875 AAAAAGATCCTCAAACTTCTTCGACAAAAGCAATTAAGCCC-CTGCTTTTTTTTCACTTAATTGG
1 AAAAAGACCCTCAAACTTTTTCGAAAAAAGCAATTAAACCCTCT-CTTTTTTTTCACTAAATTGG
*
30634939 GTACTTGAACTTTCAAAATGCATA
65 GTACTTGAACTTTCAAAATGCATC
*
30634963 AAAAAGACCCTCAAAATTTTTC-AAAAAAGCAATTAA
1 AAAAAGACCCTCAAACTTTTTCGAAAAAAGCAATTAA
30634999 GCCCCTACTG
Statistics
Matches: 185, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
87 14 0.08
88 70 0.38
89 85 0.46
90 16 0.09
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (88 bp):
AAAAAGACCCTCAAACTTTTTCGAAAAAAGCAATTAAACCCTCTCTTTTTTTTCACTAAATTGGG
TACTTGAACTTTCAAAATGCATC
Found at i:30635390 original size:28 final size:27
Alignment explanation
Indices: 30635359--30635437 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 27
30635349 TTCTTACGAC
*
30635359 TTTATAAAATTATATATTTTTTATGATT
1 TTTATAAAATTTTATATTTTTTAT-ATT
* *
30635387 TTTATAAAATTTTACAATCTTTTATATT
1 TTTATAAAATTTTA-TATTTTTTATATT
* *
30635415 TTTTTACAATTTTTATATTTTTT
1 TTTATA-AAATTTTATATTTTTT
30635438 TTCTAATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
28 27 0.64
29 15 0.36
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (27 bp):
TTTATAAAATTTTATATTTTTTATATT
Found at i:30635436 original size:20 final size:19
Alignment explanation
Indices: 30635368--30635449 Score: 83
Period size: 20 Copynumber: 4.2 Consensus size: 19
30635358 CTTTATAAAA
**
30635368 TTATATATTTTTTATGATTT
1 TTATAT-TTTTTTACAATTT
***
30635388 TTATAAAATTTTACAATCTT
1 TTATATTTTTTTACAAT-TT
30635408 TTATATTTTTTTACAATTT
1 TTATATTTTTTTACAATTT
*
30635427 TTATATTTTTTTTCTAATTT
1 TTATATTTTTTTAC-AATTT
30635447 TTA
1 TTA
30635450 ATACATTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 22 0.43
20 29 0.57
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (19 bp):
TTATATTTTTTTACAATTT
Found at i:30636848 original size:40 final size:40
Alignment explanation
Indices: 30636804--30636902 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
30636794 TACTTTTGTA
* *
30636804 CTCCTTATAGCACATTCATGCT-TCTGTTAGCATTACAGTG
1 CTCCTTATAGCACATTCATGCTCT-TGTTAACACTACAGTG
* * * *
30636844 CTCCTGATCGCACATCCGTGCTCTTGTTAACACTACAGTG
1 CTCCTTATAGCACATTCATGCTCTTGTTAACACTACAGTG
*
30636884 CT-CTTGATAGCATATTCAT
1 CTCCTT-ATAGCACATTCAT
30636903 TTTCCTATTT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
39 2 0.04
40 43 0.93
41 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.35
Consensus pattern (40 bp):
CTCCTTATAGCACATTCATGCTCTTGTTAACACTACAGTG
Found at i:30649625 original size:39 final size:38
Alignment explanation
Indices: 30649558--30649741 Score: 233
Period size: 39 Copynumber: 4.7 Consensus size: 38
30649548 ACAAAGCATG
* ** *
30649558 CGGGACTTTAAGCCCGGATATAATACCAGCACAAACCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAATGCCTT
30649598 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCAC-AATGCCTT
* * *
30649638 TGGGGCTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCA-CAATGCCTT
* *
30649677 CAGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
30649716 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
30649742 TTATAAAGTC
Statistics
Matches: 128, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 110 0.86
40 18 0.14
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (38 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAATGCCTT
Found at i:30649847 original size:28 final size:28
Alignment explanation
Indices: 30649814--30649878 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
30649804 ATTTAATCAT
30649814 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTTGCACACTAAGTGTCATTC
* *
30649842 TCAATATCTTGCACATTAAGTGTCATTC
1 TCAATATTTTGCACACTAAGTGTCATTC
30649870 TCAATATTT
1 TCAATATTT
30649879 CGTACACTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (28 bp):
TCAATATTTTGCACACTAAGTGTCATTC
Found at i:30656076 original size:39 final size:38
Alignment explanation
Indices: 30656008--30656269 Score: 335
Period size: 39 Copynumber: 6.7 Consensus size: 38
30655998 ACAAAGCATG
* ** *
30656008 CGGGACTTTAAGCCCGGATATAATACCAGCACAAACCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAATGCCTT
*
30656048 CGGGACTTTAGCTCGGATATAACACCAGCACAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCAC-AATGCCTT
*
30656088 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
* * *
30656127 CGGTACTTGGCCTGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
*
30656166 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCA-CAATGCCTT
* *
30656205 CAGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
*
30656244 CGAGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
30656270 TTATAAAGTC
Statistics
Matches: 198, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 179 0.90
40 19 0.10
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (38 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAATGCCTT
Found at i:30656375 original size:28 final size:28
Alignment explanation
Indices: 30656342--30656423 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
30656332 ATTTAATCAT
*
30656342 TCAATATTTTGCACACTAAGTGT-CATTC
1 TCAATATTTCGCACACTAAGT-TCCATTC
* *
30656370 TCAATATCTCGCACATTAAGTTCCATTC
1 TCAATATTTCGCACACTAAGTTCCATTC
* * *
30656398 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTTCCAT
30656424 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.98
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTTCCATTC
Found at i:30661075 original size:89 final size:89
Alignment explanation
Indices: 30660964--30661194 Score: 329
Period size: 89 Copynumber: 2.6 Consensus size: 89
30660954 ATTGAGCACT
* * *
30660964 AATGCATCAAAAAGGCCCTCAAACTTATTCGATAAAAGTAATTAAGCCATTGCTTTTTTTTTCAC
1 AATGCATCAAAAAGGCCATCAAACTTATTCGAAAAAAGTAATTAAGCCACTGCTTTTTTTTTCAC
30661029 TCAATTGGGTACTTGAACTTTCAA
66 TCAATTGGGTACTTGAACTTTCAA
* * * * *
30661053 AATGCATCAAAAAGGCCATCAAACTTCTTTGAAAAAAGCAATTAAGCCCCTGCTTTTTTTTTCAT
1 AATGCATCAAAAAGGCCATCAAACTTATTCGAAAAAAGTAATTAAGCCACTGCTTTTTTTTTCAC
30661118 TCAATTGGGTACTTGAACTTTCAA
66 TCAATTGGGTACTTGAACTTTCAA
* * * * * *
30661142 AATGCATCAAAAAGACCGTCAAATTTTTTC-AAAAAAGTAATGAAGCCCCTGCT
1 AATGCATCAAAAAGGCCATCAAACTTATTCGAAAAAAGTAATTAAGCCACTGCT
30661195 CTTATTAAAA
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
88 21 0.17
89 106 0.83
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (89 bp):
AATGCATCAAAAAGGCCATCAAACTTATTCGAAAAAAGTAATTAAGCCACTGCTTTTTTTTTCAC
TCAATTGGGTACTTGAACTTTCAA
Found at i:30661331 original size:32 final size:35
Alignment explanation
Indices: 30661288--30661359 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 35
30661278 AATTTTTAAT
* *
30661288 AAAAATTAAAAAAATAGAA-TTT-T-AAAATCATA
1 AAAAATAAAAAAAATAAAATTTTATAAAAATCATA
**
30661320 AAAAATAAAAAATGTAAAATTTTATAAAAATCATA
1 AAAAATAAAAAAAATAAAATTTTATAAAAATCATA
30661355 AAAAA
1 AAAAA
30661360 ATTAATGGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 15 0.45
33 3 0.09
34 1 0.03
35 14 0.42
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (35 bp):
AAAAATAAAAAAAATAAAATTTTATAAAAATCATA
Found at i:30661521 original size:20 final size:20
Alignment explanation
Indices: 30661496--30661552 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
30661486 TATGATAATT
30661496 TTTATAATTTTTTTACGAAA
1 TTTATAATTTTTTTACGAAA
* **
30661516 TTTAT-ATTTCTTTAC-ATT
1 TTTATAATTTTTTTACGAAA
*
30661534 TTGTATAATTTTCTTACGA
1 TT-TATAATTTTTTTACGA
30661553 CTTTGTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 13 0.45
21 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTATAATTTTTTTACGAAA
Found at i:30661594 original size:10 final size:9
Alignment explanation
Indices: 30661562--30661664 Score: 79
Period size: 9 Copynumber: 11.2 Consensus size: 9
30661552 ACTTTGTAAA
30661562 ATTTTATAT
1 ATTTTATAT
30661571 ATTTTATAT
1 ATTTTATAT
30661580 ATTTTATAGT
1 ATTTTATA-T
*
30661590 ATTTTA-AG
1 ATTTTATAT
*
30661598 ATTTTTATAAA
1 A-TTTTAT-AT
30661609 ATTTTATAT
1 ATTTTATAT
*
30661618 -TTTTTTAT
1 ATTTTATAT
*
30661626 ATTTTTTACT
1 ATTTTATA-T
30661636 ATTATTATAT
1 ATT-TTATAT
30661646 -TTTTACTAT
1 ATTTTA-TAT
*
30661655 TTTTTA-AT
1 ATTTTATAT
30661663 AT
1 AT
30661665 CTAAATTTCT
Statistics
Matches: 79, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
8 14 0.18
9 36 0.46
10 23 0.29
11 6 0.08
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
ATTTTATAT
Found at i:30661594 original size:19 final size:18
Alignment explanation
Indices: 30661562--30661664 Score: 79
Period size: 19 Copynumber: 5.6 Consensus size: 18
30661552 ACTTTGTAAA
30661562 ATTTTATATATTTTATAT
1 ATTTTATATATTTTATAT
*
30661580 ATTTTATAGTATTTTA-AG
1 ATTTTATA-TATTTTATAT
*
30661598 ATTTTTATAAAATTTTATAT
1 A-TTTTAT-ATATTTTATAT
* *
30661618 -TTTTTTATATTTTTTACT
1 ATTTTATATATTTTATA-T
30661636 ATTATTATAT-TTTTACTAT
1 ATT-TTATATATTTTA-TAT
*
30661655 TTTTTA-ATAT
1 ATTTTATATAT
30661665 CTAAATTTCT
Statistics
Matches: 67, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
17 10 0.15
18 20 0.30
19 28 0.42
20 9 0.13
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTATATATTTTATAT
Found at i:30663836 original size:46 final size:46
Alignment explanation
Indices: 30663784--30663959 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30663774 TGGTTGAGCA
30663784 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
30663830 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30663875 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
30663923 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30663960 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 64 0.58
47 27 0.24
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30663940 original size:93 final size:93
Alignment explanation
Indices: 30663781--30663951 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
30663771 GGATGGTTGA
**
30663781 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
30663846 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
30663874 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
30663939 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30663952 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30666184 original size:38 final size:39
Alignment explanation
Indices: 30666129--30666282 Score: 238
Period size: 40 Copynumber: 3.9 Consensus size: 39
30666119 TTGATTCCAC
* * *
30666129 TCCCCCATGCTACTTTGTTTTATTATTAATTAAAACTAC
1 TCCCCCATACTATTTTGTTTTATTATTAATTAAAACTAT
*
30666168 T-CCCCATGCTATTTTGTTTTATTATTAATTAAAACTAT
1 TCCCCCATACTATTTTGTTTTATTATTAATTAAAACTAT
*
30666206 TCCCCCATACTATTTTGTTTTCATTATTAATTAAAACCAT
1 TCCCCCATACTATTTTGTTTT-ATTATTAATTAAAACTAT
30666246 TCCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 TCCCCCATACTATTTTG-TTTTATTATTAATTAAAAC
30666283 CATACTTTAT
Statistics
Matches: 108, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
38 36 0.33
39 19 0.18
40 49 0.45
41 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (39 bp):
TCCCCCATACTATTTTGTTTTATTATTAATTAAAACTAT
Found at i:30667402 original size:13 final size:13
Alignment explanation
Indices: 30667384--30667408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30667374 GAGTTTTGAG
30667384 TTCTTCGATCTGC
1 TTCTTCGATCTGC
30667397 TTCTTCGATCTG
1 TTCTTCGATCTG
30667409 TTCCCTATAA
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:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTCTTCGATCTGC
Found at i:30667455 original size:44 final size:43
Alignment explanation
Indices: 30667391--30667476 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 43
30667381 GAGTTCTTCG
*
30667391 ATCTGCTTCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTTCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
30667434 ATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATGCCA
1 ATCTGCT-TCTTCAATC-TGTTCCCTATAAACACAGGGATGCCA
30667477 TGCTGAAATC
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
43 8 0.20
44 32 0.80
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (43 bp):
ATCTGCTTCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:30667926 original size:205 final size:205
Alignment explanation
Indices: 30667574--30668155 Score: 965
Period size: 205 Copynumber: 2.8 Consensus size: 205
30667564 AAATCTATTT
* *
30667574 CTTCGATTTGTTC-CTTGACGATAAAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCA
1 CTTCGATTCGTTCTC-TGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCA
*
30667638 CGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
30667703 TGGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
130 TGGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
30667768 AAGATGCCAAA
195 AAGATGCCAAA
*
30667779 CTTCGATTCGTTCTCTGATGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
30667844 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
30667909 GGATCTACTTCAGTGAAATCATATGAAGGCGAGACCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
*
30667974 AGATGGCAAA
196 AGATGCCAAA
* *
30667984 CTTCGATTCGTTCTCTAACGATACAGAGACGACAAATCATCTTAGATTTGC-TCCATCGTAATCA
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTC-TCGTAATCA
* *
30668048 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACTATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
* * * *
30668113 TGGGTCTGCTTCAGT-ATAA-CATCTAAAGGCCAGATCTGTTATG
130 TGGATCTGCTTCAGTGA-AATCATCTGAAGGCGAGATCTGCTATG
30668156 CTGCGGCCTA
Statistics
Matches: 354, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
204 22 0.06
205 331 0.94
206 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (205 bp):
CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAA
Found at i:30680645 original size:39 final size:39
Alignment explanation
Indices: 30680587--30680743 Score: 233
Period size: 39 Copynumber: 4.0 Consensus size: 39
30680577 AGTTGATTCC
** *
30680587 ACTCCCCCATGTTACTTTGTTTTATTATTAATTAAAACT
1 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
30680626 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
1 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
* * *
30680665 ATTCCCCCATATTATTTTGTTTTCATTATTAATTAAAACC
1 ACTCCCCCATACTATTTTGTTTT-ATTATTAATTAAAACT
*
30680705 ATTCCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 ACTCCCCCATACTATTTTG-TTTTATTATTAATTAAAAC
30680744 CATACTTTAT
Statistics
Matches: 109, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
39 57 0.52
40 48 0.44
41 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (39 bp):
ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
Found at i:30680709 original size:40 final size:39
Alignment explanation
Indices: 30680602--30680746 Score: 236
Period size: 40 Copynumber: 3.7 Consensus size: 39
30680592 CCCATGTTAC
* *
30680602 TTTGTTTTATTATTAATTAAAACTACTCCCCCATACTAT
1 TTTGTTTTATTATTAATTAAAACCATTCCCCCATACTAT
* *
30680641 TTTGTTTTATTATTAATTAAAACTATTCCCCCATATTAT
1 TTTGTTTTATTATTAATTAAAACCATTCCCCCATACTAT
30680680 TTTGTTTTCATTATTAATTAAAACCATTCCCCCATACTAT
1 TTTGTTTT-ATTATTAATTAAAACCATTCCCCCATACTAT
30680720 TTTGTTTTTATTATTAATTAAAACCAT
1 TTTG-TTTTATTATTAATTAAAACCAT
30680747 ACTTTATTTT
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 45 0.45
40 51 0.51
41 4 0.04
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (39 bp):
TTTGTTTTATTATTAATTAAAACCATTCCCCCATACTAT
Found at i:30680717 original size:79 final size:79
Alignment explanation
Indices: 30680589--30680743 Score: 258
Period size: 79 Copynumber: 2.0 Consensus size: 79
30680579 TTGATTCCAC
* *
30680589 TCCCCCATGTTACTTTGTTTTATTATTAATTAAAACTACTCCCCCATACTATTTTG-TTTTATTA
1 TCCCCCATATTACTTTGTTTTATTATTAATTAAAACCACTCCCCCATACTATTTTGTTTTTATTA
30680653 TTAATTAAAACTAT
66 TTAATTAAAACTAT
* *
30680667 TCCCCCATATTATTTTGTTTTCATTATTAATTAAAACCATTCCCCCATACTATTTTGTTTTTATT
1 TCCCCCATATTACTTTGTTTT-ATTATTAATTAAAACCACTCCCCCATACTATTTTGTTTTTATT
30680732 ATTAATTAAAAC
65 ATTAATTAAAAC
30680744 CATACTTTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 19 0.27
79 33 0.46
80 19 0.27
ACGTcount: A:0.30, C:0.19, G:0.03, T:0.48
Consensus pattern (79 bp):
TCCCCCATATTACTTTGTTTTATTATTAATTAAAACCACTCCCCCATACTATTTTGTTTTTATTA
TTAATTAAAACTAT
Found at i:30683308 original size:18 final size:18
Alignment explanation
Indices: 30683243--30683357 Score: 106
Period size: 18 Copynumber: 6.3 Consensus size: 18
30683233 AGCAATTAAT
*
30683243 CAATCAGTAATATTCATTAA
1 CAATCAGT--TATTCAGTAA
* *
30683263 CAATCAGTCAATCAG-AA
1 CAATCAGTTATTCAGTAA
* *
30683280 CAATTATTTATTCAGTAA
1 CAATCAGTTATTCAGTAA
* *
30683298 CAGTCAGTTATTCGGTAA
1 CAATCAGTTATTCAGTAA
* *
30683316 CAATCAATTATTCAATAA
1 CAATCAGTTATTCAGTAA
* *
30683334 TAATCAGTTATTCAGTAT
1 CAATCAGTTATTCAGTAA
30683352 CAATCA
1 CAATCA
30683358 ATTGATCGAT
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
17 13 0.18
18 53 0.72
20 8 0.11
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
CAATCAGTTATTCAGTAA
Found at i:30683327 original size:36 final size:36
Alignment explanation
Indices: 30683253--30683360 Score: 119
Period size: 36 Copynumber: 3.0 Consensus size: 36
30683243 CAATCAGTAA
* * * * *
30683253 TATTCATTAACAATCAGTCAATCAG-AACAATTATT
1 TATTCAATAACAATCAGTTATTCAGTAACAATCAAT
* * *
30683288 TATTCAGTAACAGTCAGTTATTCGGTAACAATCAAT
1 TATTCAATAACAATCAGTTATTCAGTAACAATCAAT
* *
30683324 TATTCAATAATAATCAGTTATTCAGTATCAATCAAT
1 TATTCAATAACAATCAGTTATTCAGTAACAATCAAT
30683360 T
1 T
30683361 GATCGATTAT
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
35 20 0.33
36 40 0.67
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (36 bp):
TATTCAATAACAATCAGTTATTCAGTAACAATCAAT
Found at i:30683393 original size:18 final size:18
Alignment explanation
Indices: 30683366--30683437 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
30683356 CAATTGATCG
*
30683366 ATTATCCAGTAACAGTCA
1 ATTATTCAGTAACAGTCA
* *
30683384 ATTATTCAGTAAAAATCA
1 ATTATTCAGTAACAGTCA
* * *
30683402 GA-TATACAGTAACAATTAA
1 -ATTATTCAGTAAC-AGTCA
*
30683421 ATTATTCAGTAATAGTC
1 ATTATTCAGTAACAGTC
30683438 GATCTTTCCA
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
18 27 0.68
19 13 0.32
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (18 bp):
ATTATTCAGTAACAGTCA
Found at i:30683432 original size:19 final size:19
Alignment explanation
Indices: 30683383--30683432 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
30683373 AGTAACAGTC
30683383 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAAAAATCA
* * * *
30683402 GA-TATACAGTAACAATTA
1 AATTATTCAGTAAAAATCA
30683420 AATTATTCAGTAA
1 AATTATTCAGTAA
30683433 TAGTCGATCT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (19 bp):
AATTATTCAGTAAAAATCA
Found at i:30688267 original size:24 final size:24
Alignment explanation
Indices: 30688240--30688293 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
30688230 ATGAGATATT
* *
30688240 GACCTTTACGTTGATATCCTTTTC
1 GACCTTTACATTGATATCATTTTC
* *
30688264 GACCTTTTCATTTATATCATTTTC
1 GACCTTTACATTGATATCATTTTC
*
30688288 AACCTT
1 GACCTT
30688294 CTTTGATGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.07, T:0.48
Consensus pattern (24 bp):
GACCTTTACATTGATATCATTTTC
Found at i:30688510 original size:40 final size:40
Alignment explanation
Indices: 30688462--30688631 Score: 154
Period size: 40 Copynumber: 4.3 Consensus size: 40
30688452 GCGTCCAGTG
*
30688462 CTAGTCGGATAAATTGACAATATCAAATGTGTGCCCAACA
1 CTAGTCGGATAAACTGACAATATCAAATGTGTGCCCAACA
* *
30688502 CTAGTCGGATAAACTGACGATATCAAATGTGTGCCCAGCA
1 CTAGTCGGATAAACTGACAATATCAAATGTGTGCCCAACA
* ** ** * * *
30688542 CTAGTTGGATAAACCAACAATGAT----T-TGAACCTAGCG
1 CTAGTCGGATAAACTGACAAT-ATCAAATGTGTGCCCAACA
* *
30688578 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGA-A
1 CTAGTCGGATAAACTGACAATATCAAATGTGTGCCCA-ACA
*
30688618 CTAGTCAGATAAAC
1 CTAGTCGGATAAAC
30688632 CGAAAATGAT
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
35 2 0.02
36 25 0.24
37 1 0.01
39 1 0.01
40 72 0.70
41 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (40 bp):
CTAGTCGGATAAACTGACAATATCAAATGTGTGCCCAACA
Found at i:30688553 original size:116 final size:116
Alignment explanation
Indices: 30688414--30688631 Score: 298
Period size: 116 Copynumber: 1.9 Consensus size: 116
30688404 CCGACGATAG
* * ** * **
30688414 GTGTGCCCTGCACTAGTTAGATAAACCGACAAT-ATTTTGCGTCC-AGTGCTAGTCGGATAAATT
1 GTGTGCCCAGCACTAGTTAGATAAACCAACAATGA-TTTG-AACCTAGCGCTAGTCGGATAAACC
*
30688477 GACAATATCAAATGTGTGCCCA-ACACTAGTCGGATAAACTGACGATATCAAAT
64 GACAATATCAAATGTGTGCCCAGA-ACTAGTCAGATAAACTGACGATATCAAAT
*
30688530 GTGTGCCCAGCACTAGTTGGATAAACCAACAATGATTTGAACCTAGCGCTAGTCGGATAAACCGA
1 GTGTGCCCAGCACTAGTTAGATAAACCAACAATGATTTGAACCTAGCGCTAGTCGGATAAACCGA
*
30688595 CGATATCAAATGTGTGCCCAGAACTAGTCAGATAAAC
66 CAATATCAAATGTGTGCCCAGAACTAGTCAGATAAAC
30688632 CGAAAATGAT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
115 2 0.02
116 85 0.96
117 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (116 bp):
GTGTGCCCAGCACTAGTTAGATAAACCAACAATGATTTGAACCTAGCGCTAGTCGGATAAACCGA
CAATATCAAATGTGTGCCCAGAACTAGTCAGATAAACTGACGATATCAAAT
Done.