Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 78 of 211
Found at i:21008681 original size:125 final size:125
Alignment explanation
Indices: 21008438--21008809 Score: 442
Period size: 125 Copynumber: 3.0 Consensus size: 125
21008428 TTTTGTATAA
* * * * ** * *
21008438 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCG-TTTGTAAAAAATGCCACTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAAAGAACATGATC
**** *
21008502 TTTAGCGGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCAT-T
66 TTTAGCGGC-ATT-TTTTACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-CATCT
* *
21008564 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGGTC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAAAGAACATGATC
* * **
21008629 TTTAGTGGCATTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
66 TTTAGCGGCATTTTTTACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCATCT
* * *
21008689 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAAAGAACATGATC
* * * * * *
21008754 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAACGGCTTTTT
66 TTTAGCGGCATTTTTTAC-AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
21008810 TGTTTGTAAA
Statistics
Matches: 214, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
124 1 0.00
125 114 0.53
126 67 0.31
127 32 0.15
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (125 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAAAGAACATGATC
TTTAGCGGCATTTTTTACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCATCT
Found at i:21011081 original size:52 final size:52
Alignment explanation
Indices: 21011011--21011109 Score: 198
Period size: 52 Copynumber: 1.9 Consensus size: 52
21011001 GTTATAACGG
21011011 TAGCGGCACCGTCGGACTGCTATTGTCGAAACTGCTATTATATTTTATAATT
1 TAGCGGCACCGTCGGACTGCTATTGTCGAAACTGCTATTATATTTTATAATT
21011063 TAGCGGCACCGTCGGACTGCTATTGTCGAAACTGCTATTATATTTTA
1 TAGCGGCACCGTCGGACTGCTATTGTCGAAACTGCTATTATATTTTA
21011110 CAATAAATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (52 bp):
TAGCGGCACCGTCGGACTGCTATTGTCGAAACTGCTATTATATTTTATAATT
Found at i:21013621 original size:26 final size:26
Alignment explanation
Indices: 21013592--21013706 Score: 104
Period size: 26 Copynumber: 4.3 Consensus size: 26
21013582 TTAATCATAT
21013592 TTTAACATAATTATTATTAAATATAA
1 TTTAACATAATTATTATTAAATATAA
* * * * * *
21013618 TTTAATAAAATATATGAATTTACTAAAA
1 TTTAACATAAT-TAT-TATTAAATATAA
* * *
21013646 TTATAATATATAATATTATAAAATATAA
1 TT-TAACATA-ATTATTATTAAATATAA
*
21013674 TTTAAAATAATTATTATTAAATATAA
1 TTTAACATAATTATTATTAAATATAA
21013700 TTTAACA
1 TTTAACA
21013707 AAAATATGTG
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
26 30 0.44
27 9 0.13
28 19 0.28
29 9 0.13
30 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
TTTAACATAATTATTATTAAATATAA
Found at i:21013639 original size:18 final size:17
Alignment explanation
Indices: 21013612--21013652 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
21013602 TTATTATTAA
21013612 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
21013629 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
21013647 -TATAAT
1 ATATAAT
21013653 ATATAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21013665 original size:15 final size:15
Alignment explanation
Indices: 21013645--21013700 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
21013635 ATTTACTAAA
*
21013645 ATTATAATATATAAT
1 ATTATAAAATATAAT
21013660 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
21013673 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
21013686 ATTATTAAATATAAT
1 ATTATAAAATATAAT
21013701 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:21024207 original size:27 final size:27
Alignment explanation
Indices: 21024169--21024223 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
21024159 ACTTTCAGCA
*
21024169 TCATGCTTAAAGTATAT-ATCTATGTTT
1 TCATACTTAAAGTA-ATGATCTATGTTT
*
21024196 TCATACTTAAAGTAATGATTTATGTTT
1 TCATACTTAAAGTAATGATCTATGTTT
21024223 T
1 T
21024224 TTACTAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (27 bp):
TCATACTTAAAGTAATGATCTATGTTT
Found at i:21026010 original size:20 final size:20
Alignment explanation
Indices: 21025982--21026020 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21025972 TCTTTCACAG
21025982 GGGCATGTTAACCCCTACAT
1 GGGCATGTTAACCCCTACAT
* * *
21026002 GGGCGTGTTGAGCCCTACA
1 GGGCATGTTAACCCCTACA
21026021 CGGCCAGAGC
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:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (20 bp):
GGGCATGTTAACCCCTACAT
Found at i:21038800 original size:22 final size:22
Alignment explanation
Indices: 21038758--21038802 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
21038748 TTATTAACCC
*
21038758 AAATTAAATTGTATATAAATTA
1 AAATTAAATTATATATAAATTA
*
21038780 AAATT-AATTATACTATGAATTA
1 AAATTAAATTATA-TATAAATTA
21038802 A
1 A
21038803 CACATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
AAATTAAATTATATATAAATTA
Found at i:21040143 original size:51 final size:51
Alignment explanation
Indices: 21040034--21040143 Score: 114
Period size: 51 Copynumber: 2.2 Consensus size: 51
21040024 GTTCATTTTT
* *
21040034 CATTTTCATTTTAGAGAAAACCACATTCATTTCCAAATGATTCCATTTCTC
1 CATTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGATTCCAGTTCTC
* * ** * * *
21040085 CAATTTCATTTTGGAGAAAATTATAATCATTTCTC-AATGCTTTCAGTTCTC
1 CATTTTCATTTTAGAGAAAACCACAATCATTTC-CAAATGATTCCAGTTCTC
*
21040136 TATTTTCA
1 CATTTTCA
21040144 CTATTTCTAT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
51 46 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (51 bp):
CATTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGATTCCAGTTCTC
Found at i:21044574 original size:32 final size:32
Alignment explanation
Indices: 21044504--21044577 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
21044494 AGTGTGTGGC
* * * * **
21044504 CGTGTGAGTCACACGGGCTAGGCTAATTTGGG
1 CGTGTGGGCCACACAGGCAAGGCTAATTTCAG
21044536 CGTGTGGGCCACACAGGCAAGGCTAATTTCAG
1 CGTGTGGGCCACACAGGCAAGGCTAATTTCAG
21044568 CGTGTGGGCC
1 CGTGTGGGCC
21044578 CATACGAGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.19, C:0.23, G:0.36, T:0.22
Consensus pattern (32 bp):
CGTGTGGGCCACACAGGCAAGGCTAATTTCAG
Found at i:21060455 original size:19 final size:20
Alignment explanation
Indices: 21060431--21060469 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
21060421 TTAGTGACCC
*
21060431 TTTCTCGTTCAC-CACCTTA
1 TTTCTCCTTCACTCACCTTA
*
21060450 TTTCTCCTTCTCTCACCTTA
1 TTTCTCCTTCACTCACCTTA
21060470 CTTATTTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.13, C:0.38, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTCTCCTTCACTCACCTTA
Found at i:21060683 original size:19 final size:18
Alignment explanation
Indices: 21060648--21060683 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21060638 ACTTGTTGGA
*
21060648 CTTTCTTTTTGGATTTTT
1 CTTTCATTTTGGATTTTT
*
21060666 CTTTCATTTTGTATTTTT
1 CTTTCATTTTGGATTTTT
21060684 AAGCTAGCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.11, G:0.08, T:0.72
Consensus pattern (18 bp):
CTTTCATTTTGGATTTTT
Found at i:21062716 original size:10 final size:10
Alignment explanation
Indices: 21062701--21062728 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
21062691 TATAAAAGTT
21062701 TTTCATTTAC
1 TTTCATTTAC
21062711 TTTCATTTAC
1 TTTCATTTAC
21062721 TTTCATTT
1 TTTCATTT
21062729 CCTTACACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTCATTTAC
Found at i:21064721 original size:23 final size:23
Alignment explanation
Indices: 21064695--21064856 Score: 91
Period size: 23 Copynumber: 7.0 Consensus size: 23
21064685 AGTTACTTGC
* *
21064695 AATGACTTTGTGGCATCTTTTGT
1 AATGACTTTGTGGCATATTCTGT
*
21064718 AATGTA-TGTGTGGCATATTCTGT
1 AATG-ACTTTGTGGCATATTCTGT
* * * ** *
21064741 AATGTCTTTGTGACGTACACTGC
1 AATGACTTTGTGGCATATTCTGT
* *
21064764 AATGCCTTTATGGCATATTCTGT
1 AATGACTTTGTGGCATATTCTGT
**
21064787 AAT-ACGTTTGTGG-AGTATTCTAC
1 AATGAC-TTTGTGGCA-TATTCTGT
**
21064810 AATG-CTTTTGTGGCATATTCTAC
1 AATGAC-TTTGTGGCATATTCTGT
* *
21064833 AATG-CATTTGTGGTAAATTCTGT
1 AATGAC-TTTGTGGCATATTCTGT
21064856 A
1 A
21064857 TAGCCTAAGT
Statistics
Matches: 106, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
22 2 0.02
23 102 0.96
24 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (23 bp):
AATGACTTTGTGGCATATTCTGT
Found at i:21064797 original size:46 final size:46
Alignment explanation
Indices: 21064728--21064830 Score: 120
Period size: 46 Copynumber: 2.2 Consensus size: 46
21064718 AATGTATGTG
* *
21064728 TGGCATATTCTGTAATGTCTTTGT-GACGTACACTGCAATGCCTTTA
1 TGGCATATTCTGTAATGACTTTGTGGA-GTACACTACAATGCCTTTA
** * *
21064774 TGGCATATTCTGTAAT-ACGTTTGTGGAGTATTCTACAATGCTTTTG
1 TGGCATATTCTGTAATGAC-TTTGTGGAGTACACTACAATGCCTTTA
21064820 TGGCATATTCT
1 TGGCATATTCT
21064831 ACAATGCATT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 1 0.02
46 46 0.94
47 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (46 bp):
TGGCATATTCTGTAATGACTTTGTGGAGTACACTACAATGCCTTTA
Found at i:21064853 original size:46 final size:46
Alignment explanation
Indices: 21064763--21064853 Score: 103
Period size: 46 Copynumber: 2.0 Consensus size: 46
21064753 ACGTACACTG
** * *
21064763 CAATGCCTTTATGGCATATTCTGTAATACGTTTGTGGAGTATTCTA
1 CAATGCCTTTATGGCATATTCTACAATACATTTGTGGAGAATTCTA
* * *
21064809 CAATGCTTTTGTGGCATATTCTACAATGCATTTGTGGTA-AATTCT
1 CAATGCCTTTATGGCATATTCTACAATACATTTGTGG-AGAATTCT
21064854 GTATAGCCTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
46 36 0.97
47 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (46 bp):
CAATGCCTTTATGGCATATTCTACAATACATTTGTGGAGAATTCTA
Found at i:21068209 original size:13 final size:13
Alignment explanation
Indices: 21068191--21068220 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
21068181 CGTAAAATGA
21068191 AAATTTAGGGGTC
1 AAATTTAGGGGTC
21068204 AAATTTAGGGGTC
1 AAATTTAGGGGTC
21068217 AAAT
1 AAAT
21068221 CTAAAAGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (13 bp):
AAATTTAGGGGTC
Found at i:21071217 original size:11 final size:10
Alignment explanation
Indices: 21071189--21071213 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21071179 CATTATATAG
21071189 AAAAATAATT
1 AAAAATAATT
21071199 AAAAATAATT
1 AAAAATAATT
21071209 AAAAA
1 AAAAA
21071214 ATAAGTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATAATT
Found at i:21071388 original size:24 final size:24
Alignment explanation
Indices: 21071350--21071601 Score: 152
Period size: 24 Copynumber: 10.8 Consensus size: 24
21071340 TGAATTGGAT
* *
21071350 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
21071375 AATTTGAAATAATAATACAT-ATAA
1 AATTTAAAATAATAATATATGAT-A
*
21071399 AATTT-AAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* * **
21071419 AATTCTAGAATAATCATACGTGATA
1 AATT-TAAAATAATAATATATGATA
** * *
21071444 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
21071468 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
21071489 AATTTGAAATAA-ATATACATGATA
1 AATTTAAAATAATA-ATATATGATA
** * *
21071513 AATTTAAAATAATGTTA-ACGATG
1 AATTTAAAATAATAATATATGATA
21071536 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* *
21071559 AA-TTACAAATAATAAAACATGATA
1 AATTTA-AAATAATAATATATGATA
*
21071583 AATCTAAAATAATAATATA
1 AATTTAAAATAATAATATA
21071602 CAATAAACTT
Statistics
Matches: 173, Mismatches: 36, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
20 5 0.03
21 13 0.08
22 20 0.12
23 49 0.28
24 72 0.42
25 14 0.08
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:21071422 original size:69 final size:67
Alignment explanation
Indices: 21071347--21071635 Score: 190
Period size: 69 Copynumber: 4.1 Consensus size: 67
21071337 AAATGAATTG
* * * *
21071347 GATAATTTACAATAAATAATATATAATAAATTTGAAATAATAATACAT-ATAAAATTTAAAAATT
1 GATAATTTA-AATAAAT-ATACATGATAAATTTAAAATAATAATACATAAT-AAATTTAAAAATA
*
21071411 TTGAT
63 TTAAT
* ** * *
21071416 GATAATTCTAGAAT-AATCATACGTGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATA
1 GATAATT-TA-AATAAAT-ATACATGATAAATTTAAAATAATAATACATAATAAATTTAAAAATA
21071480 TTAAT
63 TTAAT
** ** *
21071485 GATAAATTTGAAATAAATATACATGATAAATTTAAAATAATGTTA-ACGATGAATTTAAAATAAT
1 GAT-AATTT-AAATAAATATACATGATAAATTTAAAATAATAATACATAATAAATTT-AAA-AAT
* *
21071549 AATATT
62 ATTAAT
* * * * * * *
21071555 GATAAATTACAA-ATAATAAAACATGATAAATCTAAAATAATAATATACAATAAACTTAGATAAT
1 GATAATTTA-AATA-AAT-ATACATGATAAATTTAAAATAATAATACATAATAAATTTA-AAAAT
*
21071619 ATTAAC
62 ATTAAT
21071625 GATTAATTTAA
1 GA-TAATTTAA
21071636 TGATAATAAG
Statistics
Matches: 172, Mismatches: 35, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
68 10 0.06
69 89 0.52
70 58 0.34
71 15 0.09
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.34
Consensus pattern (67 bp):
GATAATTTAAATAAATATACATGATAAATTTAAAATAATAATACATAATAAATTTAAAAATATTA
AT
Found at i:21071618 original size:70 final size:69
Alignment explanation
Indices: 21071439--21071619 Score: 177
Period size: 70 Copynumber: 2.6 Consensus size: 69
21071429 TAATCATACG
* * * * * **
21071439 TGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAAATA
1 TGATAAATCTAAAATAATAATATACAATAAATTTAATAATAATAATGATAAATTACAAATAAATA
*
21071504 TACA
66 AACA
* ** * * *
21071508 TGATAAATTTAAAATAATGTTA-ACGATGAATTTAAAATAATAATATTGATAAATTACAAAT-AA
1 TGATAAATCTAAAATAATAATATACAATAAATTT--AATAATAATAATGATAAATTACAAATAAA
21071571 TAAAACA
64 T-AAACA
*
21071578 TGATAAATCTAAAATAATAATATACAATAAACTTAGATAATA
1 TGATAAATCTAAAATAATAATATACAATAAATTTA-ATAATA
21071620 TTAACGATTA
Statistics
Matches: 88, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
68 8 0.09
69 22 0.25
70 50 0.57
71 8 0.09
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (69 bp):
TGATAAATCTAAAATAATAATATACAATAAATTTAATAATAATAATGATAAATTACAAATAAATA
AACA
Found at i:21072796 original size:41 final size:41
Alignment explanation
Indices: 21072739--21072897 Score: 291
Period size: 41 Copynumber: 3.9 Consensus size: 41
21072729 GAGTTTTGGG
21072739 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAATGCTCT
21072780 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAATGCTCT
21072821 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAATGCTCT
* * *
21072862 GGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAAT
21072898 AATAATAAAA
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 115 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAATGCTCT
Found at i:21073641 original size:7 final size:7
Alignment explanation
Indices: 21073627--21073667 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
21073617 TAAGGTTTAT
21073627 GGGTTAG
1 GGGTTAG
*
21073634 GGGCTAG
1 GGGTTAG
21073641 GGGTTAG
1 GGGTTAG
21073648 GGGTTAG
1 GGGTTAG
21073655 GGGTTAG
1 GGGTTAG
*
21073662 AGGTTA
1 GGGTTA
21073668 AGATCAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.17, C:0.02, G:0.54, T:0.27
Consensus pattern (7 bp):
GGGTTAG
Found at i:21073695 original size:15 final size:16
Alignment explanation
Indices: 21073675--21073706 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
21073665 TTAAGATCAA
21073675 TTATGGATTT-AGGGT
1 TTATGGATTTAAGGGT
21073690 TTATGGATTTAAGGGT
1 TTATGGATTTAAGGGT
21073706 T
1 T
21073707 AGATGTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (16 bp):
TTATGGATTTAAGGGT
Found at i:21073850 original size:21 final size:22
Alignment explanation
Indices: 21073824--21073864 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
21073814 TTTAGGATCG
*
21073824 GGTTAGGATTTA-AGGTTTAAA
1 GGTTAGGAGTTAGAGGTTTAAA
21073845 GGTTAGGAGTTAGAGGTTTA
1 GGTTAGGAGTTAGAGGTTTA
21073865 GGGGTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (22 bp):
GGTTAGGAGTTAGAGGTTTAAA
Found at i:21073872 original size:30 final size:30
Alignment explanation
Indices: 21073828--21073895 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
21073818 GGATCGGGTT
* *
21073828 AGGATTTA-AGGTTTAAAGGTTAGGAGTTA
1 AGGATTTAGGGGTTTAAAGGTTAAGAGTTA
**
21073857 GAGG-TTTAGGGGTTTAGGGGTTAAGAGTTA
1 -AGGATTTAGGGGTTTAAAGGTTAAGAGTTA
21073887 AGGATTTAG
1 AGGATTTAG
21073896 AGTTTAGGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.34
Consensus pattern (30 bp):
AGGATTTAGGGGTTTAAAGGTTAAGAGTTA
Found at i:21074189 original size:21 final size:20
Alignment explanation
Indices: 21074155--21074195 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
21074145 TATGGATTTA
*
21074155 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
21074175 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
21074196 AGTGGTTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:21079710 original size:43 final size:43
Alignment explanation
Indices: 21079620--21079797 Score: 259
Period size: 43 Copynumber: 4.2 Consensus size: 43
21079610 TTTTTTTTGT
* * * * *
21079620 GGCGTTTTTGAGAGAAGCGTTGCTAAAGGT-TTGTTCTTTAGC
1 GGCGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
*
21079662 GGCGTTTATGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
1 GGCGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
*
21079705 GGCGTTTGTGACAAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
1 GGCGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
* **
21079748 GGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGCCTTTAGC
1 GGCGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
21079791 GGCGTTT
1 GGCGTTT
21079798 CTTCACATAA
Statistics
Matches: 124, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 26 0.21
43 98 0.79
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
GGCGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
Found at i:21082989 original size:21 final size:21
Alignment explanation
Indices: 21082965--21083005 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
21082955 GTTCCAATCC
*
21082965 TTTTCTTACCCGTTTCATTTA
1 TTTTCTTACCCGTCTCATTTA
21082986 TTTTCTTACCCGTCTCATTT
1 TTTTCTTACCCGTCTCATTT
21083006 GCTTAGTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTCTTACCCGTCTCATTTA
Found at i:21086485 original size:24 final size:24
Alignment explanation
Indices: 21086471--21086531 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
21086461 AAAAGAGTTA
*
21086471 TAAG-AATATGAAAGATAAAGAAT
1 TAAGAAATATGAAAGAGAAAGAAT
21086494 TAAGAAATATGAAAGAGAAAGAAT
1 TAAGAAATATGAAAGAGAAAGAAT
*
21086518 TAAGAAAGATGAAA
1 TAAGAAATATGAAA
21086532 AATGAAAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 4 0.11
24 31 0.89
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.18
Consensus pattern (24 bp):
TAAGAAATATGAAAGAGAAAGAAT
Found at i:21088048 original size:35 final size:35
Alignment explanation
Indices: 21088009--21088129 Score: 122
Period size: 35 Copynumber: 3.4 Consensus size: 35
21087999 TTTAATTAAA
21088009 TTTATTAAATGAATTTAGATTTTGTCAATAAAAAC
1 TTTATTAAATGAATTTAGATTTTGTCAATAAAAAC
* * * * **
21088044 TTTATTGAATGAATTAATATCATAAT-ACATAAAAAC
1 TTTATTAAATGAATTTAGAT-TTTGTCA-ATAAAAAC
*
21088080 -TTA-TAAATTAGAATTTAGATTTTGTCAAAAAAAAC
1 TTTATTAAA-T-GAATTTAGATTTTGTCAATAAAAAC
21088115 TTTATTAAATGAATT
1 TTTATTAAATGAATT
21088130 AATATCATAA
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
34 3 0.05
35 36 0.55
36 23 0.35
37 4 0.06
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.40
Consensus pattern (35 bp):
TTTATTAAATGAATTTAGATTTTGTCAATAAAAAC
Found at i:21088094 original size:36 final size:36
Alignment explanation
Indices: 21088036--21088148 Score: 110
Period size: 36 Copynumber: 3.2 Consensus size: 36
21088026 GATTTTGTCA
*
21088036 ATAAAAACTTTATTGAATGAATTAATATCATAATAC
1 ATAAAAACTTTATTAAATGAATTAATATCATAATAC
* ** *
21088072 ATAAAAAC-TTA-TAAATTAGAATTTAGATTTTGTCA-A-
1 ATAAAAACTTTATTAAA-T-GAA-TTA-ATATCATAATAC
21088108 A-AAAAACTTTATTAAATGAATTAATATCATAATAC
1 ATAAAAACTTTATTAAATGAATTAATATCATAATAC
21088143 ATAAAA
1 ATAAAA
21088149 TGGTTAAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
33 5 0.08
34 7 0.12
35 14 0.24
36 20 0.34
37 8 0.14
38 5 0.08
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.35
Consensus pattern (36 bp):
ATAAAAACTTTATTAAATGAATTAATATCATAATAC
Found at i:21088832 original size:15 final size:15
Alignment explanation
Indices: 21088812--21088919 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
21088802 TTTATGGAAA
21088812 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
21088827 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
21088841 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
21088857 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
21088871 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
21088887 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
21088901 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
21088917 ATC
1 ATC
21088920 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:21088849 original size:30 final size:30
Alignment explanation
Indices: 21088806--21088929 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
21088796 TTCATATTTA
* *
21088806 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
21088836 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
21088866 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
21088896 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
21088927 TGG
1 TGG
21088930 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:21093551 original size:30 final size:30
Alignment explanation
Indices: 21093498--21093620 Score: 185
Period size: 30 Copynumber: 4.1 Consensus size: 30
21093488 TCCATATTTA
* *
21093498 TGGAAAATCAAAGATAT-GGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
21093527 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
21093557 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
21093587 TGGAAAGTCAAAGATATGAGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
21093618 TGG
1 TGG
21093621 CATAATAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
29 15 0.17
30 63 0.73
31 8 0.09
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:21093552 original size:15 final size:15
Alignment explanation
Indices: 21093504--21093610 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
21093494 TTTATGGAAA
21093504 ATCAAAGATAT-GGT
1 ATCAAAGATATGGGT
* * **
21093518 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
21093532 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
21093548 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
21093562 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
21093578 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
*
21093592 AGTCAAAGATATGAGT
1 A-TCAAAGATATGGGT
21093608 ATC
1 ATC
21093611 GAGATATTGG
Statistics
Matches: 66, Mismatches: 20, Indels: 13
0.67 0.20 0.13
Matches are distributed among these distances:
13 2 0.03
14 17 0.26
15 36 0.55
16 11 0.17
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:21098374 original size:14 final size:14
Alignment explanation
Indices: 21098355--21098397 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
21098345 AATTATTGTT
21098355 GGTGAGCTTGAAAA
1 GGTGAGCTTGAAAA
* *
21098369 GGTGAGCTTGGAGA
1 GGTGAGCTTGAAAA
*
21098383 GATGAGACTTGAAAA
1 GGTGAG-CTTGAAAA
21098398 AGGAAAGAGC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.35, C:0.07, G:0.37, T:0.21
Consensus pattern (14 bp):
GGTGAGCTTGAAAA
Found at i:21103864 original size:35 final size:35
Alignment explanation
Indices: 21103792--21103866 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
21103782 AATATTGGCA
* ** *
21103792 TTGTGGCGAGACGTTAAATGAATGAAGTATTGGTG
1 TTGTGGCGAGACGTTAAATGAATAAAGTAACGATG
*
21103827 TTGTGGC-AGGACGTTACATGAATAAAGTAACGATG
1 TTGTGGCGA-GACGTTAAATGAATAAAGTAACGATG
21103862 TTGTG
1 TTGTG
21103867 AGGGAATGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.03
35 33 0.97
ACGTcount: A:0.29, C:0.08, G:0.32, T:0.31
Consensus pattern (35 bp):
TTGTGGCGAGACGTTAAATGAATAAAGTAACGATG
Found at i:21118742 original size:17 final size:17
Alignment explanation
Indices: 21118720--21118772 Score: 88
Period size: 17 Copynumber: 3.1 Consensus size: 17
21118710 ATAGAAAGTC
*
21118720 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAA
*
21118737 AAAGATATGAGTATCAA
1 AAAGATATGGGTATCAA
21118754 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
21118771 AA
1 AA
21118773 TCTGAGATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.23, T:0.23
Consensus pattern (17 bp):
AAAGATATGGGTATCAA
Found at i:21121852 original size:17 final size:17
Alignment explanation
Indices: 21121830--21121862 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21121820 ATAGAAAGTC
21121830 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
21121847 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
21121863 AAATCTGGGA
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:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:21124100 original size:134 final size:134
Alignment explanation
Indices: 21123759--21124173 Score: 609
Period size: 138 Copynumber: 3.0 Consensus size: 134
21123749 AACATAGATT
* *
21123759 TAATTAATATATGAATTAGATTCATACAAAATATTAGTTGTATATATTTTACCAAATTTATTAAT
1 TAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAAT
* * *
21123824 ATAAATAGTTATATTAATTAATTTCGATCAAAATATAAAA-ACATGAAAATTAATATTCTTTTGG
66 ATAAATAGTTATATTAA-T--TTT-GGTCAAAATATAAAAGAAATGAGAATTAATATTCTTTTGG
21123888 AAAGAATA
127 AAAGAATA
* *
21123896 TAATTAATATATGAATTTGATTCATACGAAATATTTAATTGTATATATTTTACCGAATTTATTAA
1 TAATTAATATATGAATTTGATTCATACAAAATA-TTAATTGTATATATTTTACCAAATTTATTAA
*
21123961 TATAAAAAGTTATATTAATTTTGGTCAAAATATAAAAGAAATGAGAATTAATATTCTTTTGGAAA
65 TATAAATAGTTATATTAATTTTGGTCAAAATATAAAAGAAATGAGAATTAATATTCTTTTGGAAA
21124026 GAATA
130 GAATA
* *
21124031 TAATTAATATATGAATTTGAGTCATACAAAATATTAATTGTATATATTTTACTAAATTTATTAAT
1 TAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAAT
* *
21124096 ATAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGATATG-GAAATTAATACTCTTTTG
66 ATAAATAG-T-TA-T-ATTAATTTTGGTCAAAATATAAAAGAAATGAG-AATTAATATTCTTTTG
21124160 GAAAGAATA
126 GAAAGAATA
*
21124169 CAATT
1 TAATT
21124174 CATTTTTCTA
Statistics
Matches: 255, Mismatches: 16, Indels: 13
0.90 0.06 0.05
Matches are distributed among these distances:
134 51 0.20
135 65 0.25
136 2 0.01
137 34 0.13
138 103 0.40
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (134 bp):
TAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAAT
ATAAATAGTTATATTAATTTTGGTCAAAATATAAAAGAAATGAGAATTAATATTCTTTTGGAAAG
AATA
Found at i:21124588 original size:4 final size:4
Alignment explanation
Indices: 21124579--21124617 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
21124569 AACAAGACTA
21124579 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
21124618 ACATTAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:21127409 original size:37 final size:37
Alignment explanation
Indices: 21127359--21127437 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21127349 TTATTACGAA
* * *
21127359 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21127396 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21127433 GTCTT
1 GTCTT
21127438 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:21127705 original size:47 final size:47
Alignment explanation
Indices: 21127637--21127911 Score: 514
Period size: 47 Copynumber: 5.9 Consensus size: 47
21127627 CCTATCACAA
* * *
21127637 ATATGTACTCTTTCACATTCATCACATCGGCCATTAGGCCGTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
21127684 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
21127731 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
21127778 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
21127825 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
21127872 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
21127912 ATACTATCAT
Statistics
Matches: 223, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 223 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:21127765 original size:94 final size:94
Alignment explanation
Indices: 21127555--21127911 Score: 566
Period size: 94 Copynumber: 3.8 Consensus size: 94
21127545 GCCCTTCGGG
*
21127555 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATTTACACTTTCACATTCATC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACATATA--TACACTTTCACATTCATC
* * * *
21127620 ACATC-GCC-CTA----TCA-CAAATATGTAC
63 ACATCGGCCATTAGGCCTTATCACATATATAC
* *
21127645 TCTTTCACATTCATCACATCGGCCATTAGGCCGTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
21127710 TCGGCCATTAGGCCTTATCACATATATAC
66 TCGGCCATTAGGCCTTATCACATATATAC
*
21127739 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
21127804 TCGGCCATTAGGCCTTATCACATATATAC
66 TCGGCCATTAGGCCTTATCACATATATAC
21127833 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
21127898 TCGGCCATTAGGCC
66 TCGGCCATTAGGCC
21127912 ATACTATCAT
Statistics
Matches: 250, Mismatches: 10, Indels: 10
0.93 0.04 0.04
Matches are distributed among these distances:
87 23 0.09
88 3 0.01
89 41 0.16
90 3 0.01
93 2 0.01
94 178 0.71
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (94 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATAC
Found at i:21137171 original size:24 final size:22
Alignment explanation
Indices: 21137121--21137175 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
21137111 TCAATAAAAT
* *
21137121 CAATAAATCAAAACAACAAGAA
1 CAATAAATTAAAAAAACAAGAA
21137143 C--TAAATTAAAATAAACAAGAAA
1 CAATAAATTAAAA-AAACAAG-AA
21137165 CAATAAATTAA
1 CAATAAATTAA
21137176 GGCTAGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 9 0.33
21 6 0.22
22 4 0.15
24 8 0.30
ACGTcount: A:0.67, C:0.13, G:0.04, T:0.16
Consensus pattern (22 bp):
CAATAAATTAAAAAAACAAGAA
Found at i:21138827 original size:17 final size:19
Alignment explanation
Indices: 21138787--21138828 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
21138777 TTGATCTAAC
21138787 ATACAATGTGATATAAATT
1 ATACAATGTGATATAAATT
* *
21138806 TTACAAT-TTATAT-AATT
1 ATACAATGTGATATAAATT
21138823 ATACAA
1 ATACAA
21138829 ATACAACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 9 0.45
18 5 0.25
19 6 0.30
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (19 bp):
ATACAATGTGATATAAATT
Found at i:21141677 original size:25 final size:26
Alignment explanation
Indices: 21141638--21141690 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
21141628 TCATGTCCCT
* *
21141638 TTTCTTTCTCGTGTTTTTTCTTT-GC
1 TTTCTTTCTCATGTTTTTCCTTTAGC
*
21141663 TTTCTTTTTCATGTTTTTCCTTTAGC
1 TTTCTTTCTCATGTTTTTCCTTTAGC
21141689 TT
1 TT
21141691 CCTAGACTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.04, C:0.19, G:0.09, T:0.68
Consensus pattern (26 bp):
TTTCTTTCTCATGTTTTTCCTTTAGC
Found at i:21142331 original size:41 final size:41
Alignment explanation
Indices: 21142268--21142650 Score: 480
Period size: 41 Copynumber: 9.4 Consensus size: 41
21142258 ATTCGGTGGC
* * * * *
21142268 TTTAGTGGCGTTTATGAGAAAGCGCCGCTAATGCTCTGGGT
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGGTCTGGGT
** * *
21142309 TTTAGCGGCGTTTTTTTTAAAGCGCTGCTACTGGTCTGGGT
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGGTCTGGGT
* *
21142350 TTTAGCGGCGTTTTTTAAAAAGCGTCGCTAATGCTCTGGGT
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGGTCTGGGT
* * *
21142391 TTTAGCGGCGTTTTTTAAAAAACGCCTCTAATGCTCTGGGT
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGGTCTGGGT
* * * *
21142432 TTTAGCAGCGTTTTTTAAAAAGCACCACTAATGGTCTTGGT
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGGTCTGGGT
* * * * *
21142473 TGTAGCGGCGTTTTTTTAAATGAGCCGCTAATGGTCTGAGT
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGGTCTGGGT
21142514 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGGTCTGGGT
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGGTCTGGGT
** * * *
21142555 TTTA-CCACGTGTTTTAAAAAGAGCCGCTAATGGTCTTGGT
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGGTCTGGGT
* * *
21142595 TTTAACGGCATTTTTTTAAAAGCGCCGCTAATGGTCTGGGT
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGGTCTGGGT
21142636 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
21142651 GTTAAAGCGC
Statistics
Matches: 290, Mismatches: 51, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
40 35 0.12
41 255 0.88
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGGTCTGGGT
Found at i:21143429 original size:22 final size:22
Alignment explanation
Indices: 21143404--21143458 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
21143394 AGGGTTGGGA
* *
21143404 TTTAAGGTTTAGGTGTTAGGGG
1 TTTAAGGGTTAGATGTTAGGGG
21143426 TTTAAGGGTTAGATGTTAGGGG
1 TTTAAGGGTTAGATGTTAGGGG
*
21143448 -TTAAGAGTTAG
1 TTTAAGGGTTAG
21143459 GGATTTGGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (22 bp):
TTTAAGGGTTAGATGTTAGGGG
Found at i:21143778 original size:324 final size:317
Alignment explanation
Indices: 21143028--21143883 Score: 1050
Period size: 324 Copynumber: 2.7 Consensus size: 317
21143018 TTTTAGTGAG
* * * *
21143028 TATATATCGATTAATTAGGGATTATGGATGAGGGATTATGGTTTAATTAAAGGTTTGGATTTAA-
1 TATATATAGATTAATTAGGGATTATGGATTAGGGATTATGGTTTAATTAAGGGTTGGGATTTAAG
* * * * *
21143092 ---T--GTTTAGGGG-TTAAGGGTTAGACGTTAAAGGTTAATAGTTAGGGATTTAAGGTTTACAA
66 GTTTAGGGTTAGGGGTTTAAGGGTTAGACGTTAGAGGTTAAGAGTTAGGGATTTAGGGTTTACGA
* * * *
21143151 ATTTAGGGGTC-AGGTTAGGGTTTTGAGATTAGATTATTTTTTGTTTTATATTTTAAATATATTA
131 ATTCAGGGGTCGA-GTTAGGGTTTTGGGTTTAGATTATTTTTTTTTTTATATTTTAAAT-T-TT-
* * * *
21143215 TTATATATGTAATTGTAATTTAACATAATAATAAAATTGTTTAGGGTTTTTAATTAGTTTAGGGT
192 TTAT-TATGTAATTGTAA---AAGATAATAATAAAAATGTTTACGGTTTTAAATTAGTTTAGGGT
* * *
21143280 ATATGATAAATTTAAGATTTAAGGCTGGTTTAGGAGTTCATATTTTAAGGTTTAGGTAGTATATA
253 ATATGATAAATTTAAGATTTAAGGCTGATTTAGGAATTCATATTTTAAGGTTTAGGGAGTATATA
** *
21143345 TGGATTTAG-TT-A-TAGGGATTATGGATTAGGGATTATGGTTTAATATTTAAGGGTTGGGATTT
1 TATATATAGATTAATTAGGGATTATGGATTAGGGATTATGGTTT-A-A-TTAAGGGTTGGGATTT
* * *
21143407 AAGGTTTAGGTGTTAGGGGTTTAAGGGTTAGATGTTAGGGGTTAAGAGTTAGGGATTTGGGGTTT
63 AAGGTTTAGG-GTTAGGGGTTTAAGGGTTAGACGTTAGAGGTTAAGAGTTAGGGATTTAGGGTTT
* *
21143472 ATGAATTCAGGGGTCGAGTTAGGGTTTTGGGTTTAGATTATTATTTTTTCTTTATACTTTAAATT
127 ACGAATTCAGGGGTCGAGTTAGGGTTTTGGGTTTAGATTATT-TTTTTT-TTTATATTTTAAATT
*
21143537 TTTTATTATGTAGTTGTAAAAGATAATAATAAAAATGTTTACGGTTTTAAATTAGTTTAGGGTAT
190 TTTTATTATGTAATTGTAAAAGATAATAATAAAAATGTTTACGGTTTTAAATTAGTTTAGGGTAT
*
21143602 ATGATAAATTTAAGATTTTAGGCTGATTTAGGAATTCATATTTTAAGGTTTAGGGAGTACTATA
255 ATGATAAATTTAAGATTTAAGGCTGATTTAGGAATTCATATTTTAAGGTTTAGGGAGTA-TATA
* *
21143666 TATATATGGATTAATTAGGGATTATAGATTAGGGATTATGGTTTAATTAAGGGTTGGCCAGATTT
1 TATATATAGATTAATTAGGGATTATGGATTAGGGATTATGGTTTAATTAAGGGTTGG---GATTT
* * **
21143731 AAGGTTTAAGGGTTAGGGGTTTAGGGGTTAGACGTTAGTGGTTAAGAGTTAAAGATTTAGGGTTT
63 AAGGTTT-AGGGTTAGGGGTTTAAGGGTTAGACGTTAGAGGTTAAGAGTTAGGGATTTAGGGTTT
* * * * * * *
21143796 AGGATTTCAAGGGTTGGGTTAGGGTTTTGGGTTTAGATTAATTTTTTTATTTATATTTTAAATAT
127 ACGAATTCAGGGGTCGAGTTAGGGTTTTGGGTTTAGATT-ATTTTTTTTTTTATATTTTAAATTT
* *
21143861 GTTCTTATGTAATTGTAAAAGAT
191 TTTATTATGTAATTGTAAAAGAT
21143884 GTATAATTTA
Statistics
Matches: 464, Mismatches: 52, Indels: 40
0.83 0.09 0.07
Matches are distributed among these distances:
314 28 0.06
315 2 0.00
316 3 0.01
317 21 0.05
320 97 0.21
321 21 0.05
322 3 0.01
323 49 0.11
324 138 0.30
325 82 0.18
326 7 0.02
327 13 0.03
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (317 bp):
TATATATAGATTAATTAGGGATTATGGATTAGGGATTATGGTTTAATTAAGGGTTGGGATTTAAG
GTTTAGGGTTAGGGGTTTAAGGGTTAGACGTTAGAGGTTAAGAGTTAGGGATTTAGGGTTTACGA
ATTCAGGGGTCGAGTTAGGGTTTTGGGTTTAGATTATTTTTTTTTTTATATTTTAAATTTTTTAT
TATGTAATTGTAAAAGATAATAATAAAAATGTTTACGGTTTTAAATTAGTTTAGGGTATATGATA
AATTTAAGATTTAAGGCTGATTTAGGAATTCATATTTTAAGGTTTAGGGAGTATATA
Found at i:21144213 original size:19 final size:18
Alignment explanation
Indices: 21144180--21144218 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
21144170 AAATTATATG
*
21144180 AAATAAAATTAAAATACAA
1 AAATAAAAATAAAATA-AA
*
21144199 AAATAAAAATGAAATAAA
1 AAATAAAAATAAAATAAA
21144217 AA
1 AA
21144219 CACTAGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (18 bp):
AAATAAAAATAAAATAAA
Found at i:21144290 original size:47 final size:48
Alignment explanation
Indices: 21144213--21144311 Score: 137
Period size: 47 Copynumber: 2.1 Consensus size: 48
21144203 AAAAATGAAA
* ** * * *
21144213 TAAAAACACTAGAATTTTTAATTTTGTCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTGATAATTTTATCTAAATTTTATAAATATTACC
21144261 TAAAAA-ACTAAAATTGATAATTTTATCTAAATTTTATAAATATTACC
1 TAAAAACACTAAAATTGATAATTTTATCTAAATTTTATAAATATTACC
21144308 TAAA
1 TAAA
21144312 CAAAAGTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
47 39 0.87
48 6 0.13
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (48 bp):
TAAAAACACTAAAATTGATAATTTTATCTAAATTTTATAAATATTACC
Found at i:21144695 original size:16 final size:15
Alignment explanation
Indices: 21144674--21144714 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
21144664 ACGGTGTCGT
21144674 TTTATTCCCATCCAAA
1 TTTATTCCCATCC-AA
*
21144690 TTTATTCCCCTCCAA
1 TTTATTCCCATCCAA
21144705 TTT-TTCCCAT
1 TTTATTCCCAT
21144715 ACCCGAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 6 0.26
15 5 0.22
16 12 0.52
ACGTcount: A:0.22, C:0.34, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTATTCCCATCCAA
Found at i:21145970 original size:13 final size:13
Alignment explanation
Indices: 21145952--21145976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21145942 TGAATGAACG
21145952 GAATTTTCTGAAT
1 GAATTTTCTGAAT
21145965 GAATTTTCTGAA
1 GAATTTTCTGAA
21145977 GGTAAATTTT
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:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
GAATTTTCTGAAT
Found at i:21147731 original size:66 final size:66
Alignment explanation
Indices: 21147625--21147794 Score: 207
Period size: 66 Copynumber: 2.6 Consensus size: 66
21147615 AGAAAATTAC
** * * *
21147625 ACAACTTAAAGCGGAGGCAGCATCGAAAGAAGCTGAGGTTCAAA-AAAGATATGAAAAACTCCAG
1 ACAACTTAAAGTAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAG-TATGAAAAACTCCAG
21147689 CT
65 CT
* *
21147691 ACAACTTAAAGTAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGGAAGTATGAAGAACTCCAGC
1 ACAACTTAAAGTAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAAAACTCCAGC
21147756 T
66 T
* * * * * *
21147757 GCAGCTTAAAGTAGATGCGGTAGCGAGGGAAGCAGAGG
1 ACAACTTAAAGTAGATGCAGCAGCGAGAGAAGCTGAGG
21147795 CAGCAGCGAG
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
66 87 0.97
67 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.29, T:0.15
Consensus pattern (66 bp):
ACAACTTAAAGTAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAAAACTCCAGC
T
Found at i:21148212 original size:43 final size:43
Alignment explanation
Indices: 21148145--21148298 Score: 186
Period size: 43 Copynumber: 3.6 Consensus size: 43
21148135 AAAAAGCGTT
* * * * *
21148145 GCTAAAAGTCATGGCCTTTTGCGGCATTTTTGGGAAAAGCGCC
1 GCTAAAAGTCATGGTCTATAGCGGCATTTGTGGGAAAAGCACC
* * *
21148188 GCTAAAAGTCATAGTATATAGCGGCGTTTGTGGGAAAAGCACC
1 GCTAAAAGTCATGGTCTATAGCGGCATTTGTGGGAAAAGCACC
* *
21148231 GCTAAAGGTCATGGTCTATAGCGGTGA-TTGTGGGAAAAGCACC
1 GCTAAAAGTCATGGTCTATAGCGG-CATTTGTGGGAAAAGCACC
21148274 GCT-AAAGATCATGGTCTATAGCGGC
1 GCTAAAAG-TCATGGTCTATAGCGGC
21148299 GTTTCTGTAA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
42 3 0.03
43 91 0.97
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (43 bp):
GCTAAAAGTCATGGTCTATAGCGGCATTTGTGGGAAAAGCACC
Found at i:21148312 original size:43 final size:43
Alignment explanation
Indices: 21148165--21148349 Score: 210
Period size: 43 Copynumber: 4.3 Consensus size: 43
21148155 ATGGCCTTTT
* * * * *
21148165 GCGGCATTTTTGGGAAAAGCGCCGCTAAA-AGTCATAGTATATA
1 GCGGCGTTTGTGGGAAAAGCACCGCTAAAGA-TCATGGTCTATA
*
21148208 GCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCATGGTCTATA
1 GCGGCGTTTGTGGGAAAAGCACCGCTAAAGATCATGGTCTATA
* *
21148251 GCGGTGATTGTGGGAAAAGCACCGCTAAAGATCATGGTCTATA
1 GCGGCGTTTGTGGGAAAAGCACCGCTAAAGATCATGGTCTATA
* ** * * ** *
21148294 GCGGCGTTTCTGTAAAAAGCGCAGCTAAAGATCATGACCTTTA
1 GCGGCGTTTGTGGGAAAAGCACCGCTAAAGATCATGGTCTATA
21148337 GCGGCGTTTGTGG
1 GCGGCGTTTGTGG
21148350 AGAAGCGCAC
Statistics
Matches: 120, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 120 1.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (43 bp):
GCGGCGTTTGTGGGAAAAGCACCGCTAAAGATCATGGTCTATA
Found at i:21151416 original size:34 final size:34
Alignment explanation
Indices: 21151378--21151444 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
21151368 TCAATTTAAT
* * *
21151378 TGGGCCTTAACCTATTATAGTGACAGTATCAGTA
1 TGGGCCTTAACCCATTACAGTGACAGTAACAGTA
*
21151412 TGGGCCTTAGCCCATTACAGTGACAGTAACAGT
1 TGGGCCTTAACCCATTACAGTGACAGTAACAGT
21151445 TCAGACATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (34 bp):
TGGGCCTTAACCCATTACAGTGACAGTAACAGTA
Found at i:21151764 original size:27 final size:27
Alignment explanation
Indices: 21151721--21151921 Score: 217
Period size: 27 Copynumber: 7.5 Consensus size: 27
21151711 AAGCATACAA
* * *
21151721 TCATTTT-TAACTTAGGGGCGTAATAA
1 TCATTTTATAACATAGGGGCATAATAG
21151747 TCATTTTATAACATAGGGGCATAATAG
1 TCATTTTATAACATAGGGGCATAATAG
* * **
21151774 TTATTTTATAACATAAGGGCATAACCG
1 TCATTTTATAACATAGGGGCATAATAG
* **
21151801 TCATTTTATAACATAGAGGCATAACCG
1 TCATTTTATAACATAGGGGCATAATAG
* * *
21151828 TCATTTTATAACATAAGGACATGATAG
1 TCATTTTATAACATAGGGGCATAATAG
*
21151855 TCATTTTATAACATAGGAGCATAATAG
1 TCATTTTATAACATAGGGGCATAATAG
* ** *
21151882 TTATTTTACCACGT-GAGGGCATAATAG
1 TCATTTTATAACATAG-GGGCATAATAG
21151909 TCATTTTATAACA
1 TCATTTTATAACA
21151922 GTTTAAAGGT
Statistics
Matches: 144, Mismatches: 29, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
26 8 0.06
27 136 0.94
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (27 bp):
TCATTTTATAACATAGGGGCATAATAG
Found at i:21153210 original size:16 final size:16
Alignment explanation
Indices: 21153189--21153220 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21153179 TACTTAGAAT
*
21153189 TTTAGTCGATCTCAAA
1 TTTAGTCAATCTCAAA
21153205 TTTAGTCAATCTCAAA
1 TTTAGTCAATCTCAAA
21153221 CTCTCACACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (16 bp):
TTTAGTCAATCTCAAA
Found at i:21155465 original size:31 final size:31
Alignment explanation
Indices: 21155427--21155486 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
21155417 AGTCAAATTA
21155427 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
21155458 CAAGAGTAATTGAATCCTAATAAAACTCT
1 CAAGAGTAATTGAATCCTAATAAAACTCT
21155487 CTAAGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:21157811 original size:15 final size:15
Alignment explanation
Indices: 21157791--21157823 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
21157781 AATTTTTTAA
21157791 AAATTA-TAAAAATAT
1 AAATTATTAAAAAT-T
21157806 AAATTATTAAAAATT
1 AAATTATTAAAAATT
21157821 AAA
1 AAA
21157824 ATTTTATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTATTAAAAATT
Found at i:21158227 original size:145 final size:143
Alignment explanation
Indices: 21158040--21158302 Score: 373
Period size: 145 Copynumber: 1.8 Consensus size: 143
21158030 TTATTTATTT
* * * ** *
21158040 TTTTACGATTAAAAAATTGAGATTTACTATAAATTGTTAAATTTCAATTAAATATCAAGTTTTAC
1 TTTTACAATTAAAAAATTAAGATTTACTACAAATTGACAAATTTCAATTAAAGATCAAGTTTTAC
* * * *
21158105 TCAATTCTTTATTTATTTCCATACTCAAAATAATTATATTATATTAGTAACACCTTCTATAATTT
66 CCAATTATCTATTTATTTCCATACCCAAAATAATTATATTATATTAGTAACACCTTCTATAATTT
21158170 ACCCATTTTGTTA
131 ACCCATTTTGTTA
* ** *
21158183 TTTTACAATTAAAAATTATTAAGATTTACTACAAATTGACAAATTTCAATTGAAGATTGATTTTT
1 TTTTACAATTAAAAA--ATTAAGATTTACTACAAATTGACAAATTTCAATTAAAGATCAAGTTTT
*
21158248 ACCCAATTATCTATTTCTTTCCATACCCAAAATAATTATATTATATTAGTAACAC
64 ACCCAATTATCTATTTATTTCCATACCCAAAATAATTATATTATATTAGTAACAC
21158303 TTTTTATAGT
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
143 14 0.14
145 89 0.86
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.43
Consensus pattern (143 bp):
TTTTACAATTAAAAAATTAAGATTTACTACAAATTGACAAATTTCAATTAAAGATCAAGTTTTAC
CCAATTATCTATTTATTTCCATACCCAAAATAATTATATTATATTAGTAACACCTTCTATAATTT
ACCCATTTTGTTA
Found at i:21165188 original size:27 final size:27
Alignment explanation
Indices: 21165158--21165225 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
21165148 AAACCTAAAG
**
21165158 GAATGATATTCATGTCGAACTTTGAAT
1 GAATGATATTCATGGAGAACTTTGAAT
*
21165185 GAATGATATTTATGGAGAACTTTGAAT
1 GAATGATATTCATGGAGAACTTTGAAT
* *
21165212 GAACGATATGCATG
1 GAATGATATTCATG
21165226 ACAAACTATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (27 bp):
GAATGATATTCATGGAGAACTTTGAAT
Found at i:21169997 original size:27 final size:27
Alignment explanation
Indices: 21169966--21170143 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
21169956 TAAATTGTAC
*
21169966 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
21169993 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
21170019 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
21170047 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
21170074 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
21170102 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
21170129 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21170144 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:21170027 original size:54 final size:55
Alignment explanation
Indices: 21169966--21170143 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
21169956 TAAATTGTAC
* **
21169966 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
21170021 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
21170074 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
21170129 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21170144 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:21176995 original size:23 final size:23
Alignment explanation
Indices: 21176965--21177011 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
21176955 ATTTGATGAA
*
21176965 TGAATTATTTTAAAA-TTTTTATT
1 TGAATTA-TTCAAAAGTTTTTATT
21176988 TGAATTATTCAAAAGTTTTTATT
1 TGAATTATTCAAAAGTTTTTATT
21177011 T
1 T
21177012 AAGTCATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (23 bp):
TGAATTATTCAAAAGTTTTTATT
Found at i:21182567 original size:107 final size:107
Alignment explanation
Indices: 21182381--21182592 Score: 352
Period size: 107 Copynumber: 2.0 Consensus size: 107
21182371 AAAGGAAGGT
** * *
21182381 TTTTCTAAATAAGGTAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAGCGTGCTGGGTT
1 TTTTCTAAATAAGACAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
* * *
21182446 TCGATTTCTTGTTCGACCAAATAGCCAAGTATCCTTTTAAGA
66 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAAGA
21182488 TTTTCTAAATAAGACAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
1 TTTTCTAAATAAGACAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
*
21182553 TCGATTTCTCGTTCGACTAAATAGCCAAATATCCTCTTAA
66 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAA
21182593 AACTTCAAAG
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 97 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (107 bp):
TTTTCTAAATAAGACAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAAGA
Found at i:21194173 original size:88 final size:89
Alignment explanation
Indices: 21194072--21194432 Score: 340
Period size: 88 Copynumber: 4.1 Consensus size: 89
21194062 GTATTGGCGT
* * *
21194072 GAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGACGATGCAG
1 GAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATGCAG
*
21194136 ATCTGGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCCCATACTGGTGGC
* * * * * *
21194160 GAAGTAGATCAAAGA-AAGCAGATCTTATCTTCATTTATTGG-CGTGAAGTAGATCAAAGATAGC
1 GAAGTAGATCAAAGATAA-CAGATCCTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT-GC
* * * * *
21194223 AGGTCCTGTCTTCCTATATTGGTAG-
64 AGATCTTGTCTTCCCATACTGGTGGC
* * * * * * * * *
21194248 GAAGTGGATCGACGATGA-AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAG-ATGCA
*** * * *
21194312 GATCTTGTCTTCATTTATTGG-CGT
65 GATCTTGTCTTCCCATACTGGTGGC
* * * *
21194336 GAAGTTGATCAAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAG
1 GAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATGCAG
21194400 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCCCATACTGGTGGC
21194424 GAAGTAGAT
1 GAAGTAGAT
21194433 TGAAGACCAC
Statistics
Matches: 213, Mismatches: 51, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
87 42 0.20
88 128 0.60
89 43 0.20
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (89 bp):
GAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATGCAG
ATCTTGTCTTCCCATACTGGTGGC
Found at i:21194438 original size:44 final size:43
Alignment explanation
Indices: 21194045--21194438 Score: 299
Period size: 44 Copynumber: 9.0 Consensus size: 43
21194035 AGTCATTAAA
* * * *
21194045 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGAT
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * * *
21194088 AACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT
1 -GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * * * * *
21194132 GCAGATCTGGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAA
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAG-AT
* * * * *
21194177 GCAGATCTTATCTTCATTTATTGG-CGTGAAGTAGATCAAAGAT
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * *
21194220 AGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT
1 -GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * * * *
21194264 GAAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAG-AT
* * * * *
21194309 GCAGATCTTGTCTTCATTTATTGG-CGTGAAGTTGATCAAAGAT
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * *
21194352 AGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
1 -GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * * *
21194396 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGA
21194439 CCACAGATCT
Statistics
Matches: 270, Mismatches: 70, Indels: 20
0.75 0.19 0.06
Matches are distributed among these distances:
43 65 0.24
44 163 0.60
45 42 0.16
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
Found at i:21194449 original size:132 final size:132
Alignment explanation
Indices: 21194042--21194438 Score: 704
Period size: 132 Copynumber: 3.0 Consensus size: 132
21194032 TGAAGTCATT
* *
21194042 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTA
* *
21194107 TATTGGTAGGAAGTGGATCGACGATGCAGATCTGGTCTTCCCATACTGGTGGCGAAGTAGATCAA
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
21194172 AG
131 AG
*
21194174 AAAGCAGATCTTATCTTCATTTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTA
* *
21194239 TATTGGTAGGAAGTGGATCGACGATGAAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
21194304 AG
131 AG
*
21194306 AAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTTGATCAAAGATAGCAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTA
* *
21194371 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGA
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
21194436 AG
131 AG
21194438 A
1 A
21194439 CCACAGATCT
Statistics
Matches: 252, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 252 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTA
TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
AG
Found at i:21196917 original size:107 final size:107
Alignment explanation
Indices: 21196723--21196934 Score: 363
Period size: 107 Copynumber: 2.0 Consensus size: 107
21196713 AAAGGAAGGT
* *
21196723 TTTTCTAAATAAGGTAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTT
1 TTTTCTAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
* *
21196788 TCGATTTCTCGTTCGACCAAATAGCCAAGTATCCTTTTAAGA
66 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAAGA
21196830 TTTTCTAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
1 TTTTCTAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
*
21196895 TCGATTTCTCGTTCTG-CTAAATAGCCAAATATCCTCTTAA
66 TCGATTTCTCGTTC-GACCAAATAGCCAAATATCCTCTTAA
21196935 AACTTCAAAG
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
107 98 0.99
108 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (107 bp):
TTTTCTAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAAGA
Found at i:21198028 original size:26 final size:26
Alignment explanation
Indices: 21197999--21198088 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 26
21197989 ATTGTAATGT
21197999 AAATTATACCTAAACTTATTCTCAGC
1 AAATTATACCTAAACTTATTCTCAGC
* * *
21198025 AAATTTACTAGGACTAATACACATT-TTCTTATC
1 AAA-TTA-TA--CCT-A-A-AC-TTATTCTCAGC
*
21198058 AAATTATACATAAACTTATTCTCAGC
1 AAATTATACCTAAACTTATTCTCAGC
21198084 AAATT
1 AAATT
21198089 TACTAGGACT
Statistics
Matches: 48, Mismatches: 7, Indels: 18
0.66 0.10 0.25
Matches are distributed among these distances:
25 2 0.04
26 16 0.33
27 4 0.08
28 3 0.06
29 1 0.02
30 2 0.04
31 3 0.06
32 4 0.08
33 11 0.23
34 2 0.04
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.37
Consensus pattern (26 bp):
AAATTATACCTAAACTTATTCTCAGC
Found at i:21198066 original size:59 final size:59
Alignment explanation
Indices: 21197999--21198124 Score: 234
Period size: 59 Copynumber: 2.1 Consensus size: 59
21197989 ATTGTAATGT
*
21197999 AAATTATACCTAAACTTATTCTCAGCAAATTTACTAGGACTAATACACATTTTCTTATC
1 AAATTATACATAAACTTATTCTCAGCAAATTTACTAGGACTAATACACATTTTCTTATC
21198058 AAATTATACATAAACTTATTCTCAGCAAATTTACTAGGACTAATACACATTTTCTTATC
1 AAATTATACATAAACTTATTCTCAGCAAATTTACTAGGACTAATACACATTTTCTTATC
*
21198117 AACTTATA
1 AAATTATA
21198125 TTAATTACTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 65 1.00
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (59 bp):
AAATTATACATAAACTTATTCTCAGCAAATTTACTAGGACTAATACACATTTTCTTATC
Found at i:21201791 original size:45 final size:45
Alignment explanation
Indices: 21201733--21201932 Score: 188
Period size: 45 Copynumber: 4.5 Consensus size: 45
21201723 TTGGAAATAT
* * ** *
21201733 AGGTGGATGCTATGTGCTGATTCCACCCAATATTAATGAAAATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCCAATACCAATGAATATAA
** ** *
21201778 AGGTGGTTGCTATGTGCTGATTTCACCGGATACCAATGGTTATAT
1 AGGTGGTTGCTATGTGCTGATTTCACCCAATACCAATGAATATAA
** * *
21201823 AGGTGGTTGCTATGTGCTGATTTCACCCGGTACCATTGAGTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCCAATACCAATGAATATAA
* * * * *
21201868 AGGTAGTTGTTATGTGCTGATTTCA-CCAAGTACTATTGACTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCCAA-TACCAATGAATATAA
* *
21201913 GGGTGG-TGCTGTGTGCTGAT
1 AGGTGGTTGCTATGTGCTGAT
21201933 CCACCGTGTA
Statistics
Matches: 128, Mismatches: 26, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
44 14 0.11
45 114 0.89
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (45 bp):
AGGTGGTTGCTATGTGCTGATTTCACCCAATACCAATGAATATAA
Found at i:21201868 original size:90 final size:90
Alignment explanation
Indices: 21201713--21201894 Score: 238
Period size: 90 Copynumber: 2.0 Consensus size: 90
21201703 TTGGAATGGG
* **
21201713 CCGGATACCATTGGAAATATAGGTGGATGCTATGTGCTGATTCCACCCAATATTAATGAAAATAA
1 CCGGATACCAATGGAAATATAGGTGGATGCTATGTGCTGATTCCACCCAATACCAATGAAAATAA
*
21201778 AGGTGGTTGCTATGTGCTGATTTCA
66 AGGTAGTTGCTATGTGCTGATTTCA
** * * ** * **
21201803 CCGGATACCAATGGTTATATAGGTGGTTGCTATGTGCTGATTTCACCCGGTACCATTGAGTATAA
1 CCGGATACCAATGGAAATATAGGTGGATGCTATGTGCTGATTCCACCCAATACCAATGAAAATAA
*
21201868 AGGTAGTTGTTATGTGCTGATTTCA
66 AGGTAGTTGCTATGTGCTGATTTCA
21201893 CC
1 CC
21201895 AAGTACTATT
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (90 bp):
CCGGATACCAATGGAAATATAGGTGGATGCTATGTGCTGATTCCACCCAATACCAATGAAAATAA
AGGTAGTTGCTATGTGCTGATTTCA
Found at i:21209445 original size:25 final size:28
Alignment explanation
Indices: 21209417--21209467 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
21209407 AGTGTGTTAT
21209417 ATGG-AAAACTT-G-TTAATATGTCACC
1 ATGGTAAAACTTGGATTAATATGTCACC
*
21209442 ATGGTAAAATTTGGATTAATATGTCA
1 ATGGTAAAACTTGGATTAATATGTCA
21209468 TTATAGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 6 0.27
27 1 0.05
28 11 0.50
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (28 bp):
ATGGTAAAACTTGGATTAATATGTCACC
Found at i:21210685 original size:37 final size:38
Alignment explanation
Indices: 21210644--21210726 Score: 100
Period size: 37 Copynumber: 2.2 Consensus size: 38
21210634 ACCCTATACC
21210644 TCAAAATTTTA-AATTTTTA-GAAAATAGTCCCTAAAAT
1 TCAAAATTTTATAATTTTTATG-AAATAGTCCCTAAAAT
** *
21210681 TC-AAATTTTATAATTTTTATGATTTTGTCCCTAAAAT
1 TCAAAATTTTATAATTTTTATGAAATAGTCCCTAAAAT
*
21210718 CCAAAATTT
1 TCAAAATTT
21210727 ACACAATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
36 8 0.21
37 24 0.62
38 7 0.18
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (38 bp):
TCAAAATTTTATAATTTTTATGAAATAGTCCCTAAAAT
Found at i:21212815 original size:41 final size:41
Alignment explanation
Indices: 21212753--21212902 Score: 219
Period size: 41 Copynumber: 3.7 Consensus size: 41
21212743 TGATCGAATG
*
21212753 TAATACAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
1 TAATTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
*
21212794 TAATTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAA
1 TAATTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
* *
21212835 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGATA
1 TAATTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
* * * * *
21212876 CATTTCGGACTATAGGTCTAGCAGGCT
1 TAATTCAGACTTTACGTCTAGCAGGCT
21212903 AAAAGCAAGT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 99 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (41 bp):
TAATTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
Found at i:21217559 original size:24 final size:25
Alignment explanation
Indices: 21217514--21217566 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
21217504 AAATTTTTAT
21217514 CAAATTAATCACTTAAAATCATCCAC
1 CAAATTAATCAC-TAAAATCATCCAC
*
21217540 CAAATTAATCA-TAAAATCATTCAC
1 CAAATTAATCACTAAAATCATCCAC
21217564 CAA
1 CAA
21217567 TCATATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 15 0.58
26 11 0.42
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (25 bp):
CAAATTAATCACTAAAATCATCCAC
Found at i:21221867 original size:43 final size:43
Alignment explanation
Indices: 21221819--21221906 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
21221809 ATTGAAACAT
**
21221819 AATTTAAAATTTATGCAAAATGCTGTATACCCCCTTTAAAGGG
1 AATTTAAAATTTATGCAAAATGCCATATACCCCCTTTAAAGGG
21221862 AATTTAAAATTTATGCAAAATGCCATATACCCCCTTTAAAGGG
1 AATTTAAAATTTATGCAAAATGCCATATACCCCCTTTAAAGGG
21221905 AA
1 AA
21221907 ACAATATCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (43 bp):
AATTTAAAATTTATGCAAAATGCCATATACCCCCTTTAAAGGG
Found at i:21223240 original size:50 final size:50
Alignment explanation
Indices: 21223133--21223380 Score: 187
Period size: 50 Copynumber: 4.9 Consensus size: 50
21223123 ATTTGGGTAA
*
21223133 AGAGATCCCATGTAAGACCATGTCCGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG---CATTGAG---ATG
*
21223189 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGATG
* * * * * ** *
21223239 AGAGATCCC-TCGTAAGACCATGTATAGGACCTGACATGGGCACCGATATG
1 AGAGATCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCATTGAGATG
* * ** * * * *
21223289 AGA-ACTCCCATGTATGACCATATCTGGGTTATTGCATTGGCAGT-ATAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGATG
* * * * * *
21223338 AAACATCCCATGTAAGTCCATGTCTAGGACATGACTTTGGCAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
21223381 GTTATTATCA
Statistics
Matches: 153, Mismatches: 35, Indels: 15
0.75 0.17 0.07
Matches are distributed among these distances:
49 36 0.24
50 71 0.46
51 1 0.01
53 7 0.05
56 38 0.25
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGATG
Found at i:21226152 original size:37 final size:37
Alignment explanation
Indices: 21226102--21226175 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
21226092 GTGCTCGTGA
*
21226102 AGAGGCATCCTCCACTGATGTGATTACGAGTACATTT
1 AGAGGCATCCTCCACTGATGTGATTACAAGTACATTT
21226139 AGAGGCATCCTCCACTGATGTGATTACAAGTACATTT
1 AGAGGCATCCTCCACTGATGTGATTACAAGTACATTT
21226176 TCTCTCTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (37 bp):
AGAGGCATCCTCCACTGATGTGATTACAAGTACATTT
Found at i:21228993 original size:50 final size:50
Alignment explanation
Indices: 21228938--21229077 Score: 172
Period size: 50 Copynumber: 2.8 Consensus size: 50
21228928 CATTGAGATT
* * *
21228938 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAA
** * * *
21228988 ATGAGAGGTCCCCCGTAAGACCATGTCAGAGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAA
** * *
21229038 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT
21229078 TGACAGTACA
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAA
Found at i:21241246 original size:24 final size:23
Alignment explanation
Indices: 21241219--21241264 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
21241209 TATGGGTAGG
* *
21241219 ATCTGTTTATGCATTCGTATCTGT
1 ATCTATTTATGAATT-GTATCTGT
21241243 ATCTATTTATGAATTGTATCTG
1 ATCTATTTATGAATTGTATCTG
21241265 ATTCTGTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.22, C:0.13, G:0.15, T:0.50
Consensus pattern (23 bp):
ATCTATTTATGAATTGTATCTGT
Found at i:21244082 original size:27 final size:26
Alignment explanation
Indices: 21244029--21244085 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
21244019 TAGGTTAGTT
* * *
21244029 TTAAAATAAGTAATATATAAAATAAC
1 TTAAAATAAATAATATACAAAACAAC
*
21244055 TTAAAATAAAATAATATACAAAGCAAC
1 TTAAAAT-AAATAATATACAAAACAAC
21244082 TTAA
1 TTAA
21244086 TGTAAATACT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (26 bp):
TTAAAATAAATAATATACAAAACAAC
Found at i:21248006 original size:6 final size:6
Alignment explanation
Indices: 21247997--21248023 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21247987 GCAAAATAAT
21247997 AATTAA AATTAA AATTAA AATTAA AAT
1 AATTAA AATTAA AATTAA AATTAA AAT
21248024 ACTTAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:21254768 original size:7 final size:7
Alignment explanation
Indices: 21254756--21254791 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
21254746 AAAAATTGTT
21254756 ATTAATG
1 ATTAATG
21254763 ATTAATGG
1 ATTAAT-G
*
21254771 AATAATG
1 ATTAATG
21254778 ATTAATG
1 ATTAATG
21254785 ATTAATG
1 ATTAATG
21254792 GACTAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (7 bp):
ATTAATG
Found at i:21254781 original size:22 final size:22
Alignment explanation
Indices: 21254756--21254798 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
21254746 AAAAATTGTT
21254756 ATTAATGATTAATGGAATAATG
1 ATTAATGATTAATGGAATAATG
*
21254778 ATTAATGATTAATGGACTAAT
1 ATTAATGATTAATGGAATAAT
21254799 AAAACTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (22 bp):
ATTAATGATTAATGGAATAATG
Found at i:21255854 original size:44 final size:44
Alignment explanation
Indices: 21255777--21255865 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
21255767 GATTTAGGCC
* *
21255777 ATAGTAGAGAAGATTAAAGCTAGTAATCTTATCTCCCTGAGATT
1 ATAGCAGAGAAGATTAAAGCTAGTAATCCTATCTCCCTGAGATT
* *
21255821 ATAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ATAGCAGAGAAGATTAAAGCTAGTAATCCTATCTCCCTGAGATT
21255865 A
1 A
21255866 CAGTGGAGCG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (44 bp):
ATAGCAGAGAAGATTAAAGCTAGTAATCCTATCTCCCTGAGATT
Found at i:21255898 original size:44 final size:44
Alignment explanation
Indices: 21255801--21256197 Score: 134
Period size: 44 Copynumber: 8.6 Consensus size: 44
21255791 TAAAGCTAGT
* ** * **
21255801 AATCTTATCTCCCTGAGATTATAGCAGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
*
21255844 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
* * * *
21255889 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATTAGATTGAAGCCAAA-
1 AATCTTATCTCCCTGAGA-TTACAGT-G-G-AG--CGGATTA-A---AA--TAAAG
* * **
21255943 AATCTTATCTCCTTGAGATTACAGTGGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
* * *
21255986 TAATCCTATCTCCCTAAGATTACAGTAGAGCGGATTAAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
* * ***
21256031 TATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAA-
1 AATCTTATCTCCCTGAGA-TTACAGT-G-G-AG--CG-----GATT-AAAATAAAG
* * ** **
21256085 AATCTTATCTCCCTGAGACTACAGCGGAGCATATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
*
21256128 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAA-
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
* *
21256172 AGATCTTGTCTCTCTGA-AGTTACAGT
1 A-ATCTTATCTCCCTGAGA-TTACAGT
21256198 AGAGTAAATC
Statistics
Matches: 262, Mismatches: 52, Indels: 78
0.67 0.13 0.20
Matches are distributed among these distances:
42 2 0.01
43 13 0.05
44 156 0.60
45 6 0.02
46 2 0.01
47 4 0.02
49 14 0.05
50 2 0.01
51 4 0.02
52 2 0.01
53 4 0.02
54 43 0.16
55 10 0.04
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
Found at i:21255975 original size:142 final size:142
Alignment explanation
Indices: 21255801--21256214 Score: 711
Period size: 142 Copynumber: 2.9 Consensus size: 142
21255791 TAAAGCTAGT
* *
21255801 AATCTTATCTCCCTGAGATTATAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
*
21255866 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATTAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
21255931 ATTGAAGCCAAA
131 ATTGAAGCCAAA
* * *
21255943 AATCTTATCTCCTTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* *
21256008 CAGTAGAGCGGATTAAAATAAAGTATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
21256073 ATTGAAGCCAAA
131 ATTGAAGCCAAA
* *
21256085 AATCTTATCTCCCTGAGACTACAGCGGAGCATATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* * *
21256150 CAGTGGAGCGGATTAAAATAAAAGATCTTGTCTCTCTGAAGTTACAGTAGAGTAAATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
21256215 GTCTTATCTC
Statistics
Matches: 254, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 254 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (142 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
ATTGAAGCCAAA
Found at i:21256009 original size:98 final size:97
Alignment explanation
Indices: 21255831--21256015 Score: 221
Period size: 98 Copynumber: 1.9 Consensus size: 97
21255821 ATAGCAGAGC
* ** * * *
21255831 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTA
1 AGATTGAAGCCAAAAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGAATCCTA
*
21255896 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATT
65 TCTCCCTGAAGTTACAGTAGAGTAGATCGCATT
* * **
21255929 AGATTGAAGCCAAAAATCTTATCTCCTTGAGATTACAGTGGAGCAGATTGAAGCT-AGTAATCCT
1 AGATTGAAGCCAAAAATCCTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG-AATCCT
21255993 ATCTCCCT-AAGATTACAGTAGAG
64 ATCTCCCTGAAG-TTACAGTAGAG
21256016 CGGATTAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
97 5 0.07
98 65 0.89
99 3 0.04
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (97 bp):
AGATTGAAGCCAAAAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAGAATCCTAT
CTCCCTGAAGTTACAGTAGAGTAGATCGCATT
Found at i:21258671 original size:28 final size:28
Alignment explanation
Indices: 21258639--21258694 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
21258629 TCGCATTGTA
*
21258639 CATTGAAATTCCATCTCGCTTTATTCGC
1 CATTGAAATTCCATCGCGCTTTATTCGC
21258667 CATTGAAATTCCATCGCGCTTTATTCGC
1 CATTGAAATTCCATCGCGCTTTATTCGC
21258695 TTAAAAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (28 bp):
CATTGAAATTCCATCGCGCTTTATTCGC
Found at i:21264536 original size:9 final size:9
Alignment explanation
Indices: 21264522--21264546 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
21264512 TTGCTGCTTA
21264522 TCTTCCTCC
1 TCTTCCTCC
21264531 TCTTCCTCC
1 TCTTCCTCC
21264540 TCTTCCT
1 TCTTCCT
21264547 TGTAATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (9 bp):
TCTTCCTCC
Found at i:21269441 original size:28 final size:28
Alignment explanation
Indices: 21269378--21269475 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
21269368 ATATTAAGTC
*
21269378 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
21269405 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
21269433 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
21269462 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21269476 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21277443 original size:28 final size:28
Alignment explanation
Indices: 21277380--21277477 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
21277370 ATATTAAGTC
*
21277380 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
21277407 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
21277435 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
21277464 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21277478 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21287696 original size:26 final size:26
Alignment explanation
Indices: 21287664--21287732 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
21287654 TATCCGAAGC
*
21287664 TCCTGATTAAAGGCTCTTCGTGAGCT
1 TCCTGATTAAAGGCTCTTCGTGAACT
** *
21287690 TCCTGATTAGAA-TTTCTTTGTGAACT
1 TCCTGATTA-AAGGCTCTTCGTGAACT
*
21287716 TCCTGATT-ATGGCTCTT
1 TCCTGATTAAAGGCTCTT
21287733 TTGAGTTTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 1 0.03
25 4 0.12
26 27 0.79
27 2 0.06
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (26 bp):
TCCTGATTAAAGGCTCTTCGTGAACT
Found at i:21293464 original size:35 final size:35
Alignment explanation
Indices: 21293425--21293540 Score: 97
Period size: 35 Copynumber: 3.2 Consensus size: 35
21293415 CGGTTTATCC
*
21293425 GACTAGCGCTGGGTGCAACTTTCATCAGTTTAACT
1 GACTAGAGCTGGGTGCAACTTTCATCAGTTTAACT
* ** * * * *
21293460 GACTAGTGCTGGGCACATCTTTATACTCATCGGTTTACCC
1 GACTAGAGCTGGGTGCAAC--T-T--TCATCAGTTTAACT
* *
21293500 GACTAGAGCTGGTTGCAACTTTCATTAGTTTAACT
1 GACTAGAGCTGGGTGCAACTTTCATCAGTTTAACT
21293535 GACTAG
1 GACTAG
21293541 TGTTGGGCAC
Statistics
Matches: 60, Mismatches: 16, Indels: 10
0.70 0.19 0.12
Matches are distributed among these distances:
35 31 0.52
37 2 0.03
38 2 0.03
40 25 0.42
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (35 bp):
GACTAGAGCTGGGTGCAACTTTCATCAGTTTAACT
Found at i:21293639 original size:75 final size:75
Alignment explanation
Indices: 21293420--21293667 Score: 311
Period size: 75 Copynumber: 3.3 Consensus size: 75
21293410 ATTGTCGGTT
* *
21293420 TATCCGACTAGCGCTGGGTGCAACTTTCATCAGTTTAACTGACTAGTGCTGGGCACATC-TT-TA
1 TATCCGACTAGTGCTGGGCGCAACTTTCATCAGTTTAACTGACTAGTGCTGGGCACATCATTATA
* * *
21293483 TACTCATCGGTT
66 TA-T-GTCAGTC
* * ** * * *
21293495 TACCCGACTAGAGCTGGTTGCAACTTTCATTAGTTTAACTGACTAGTGTTGGGCACATCATTATG
1 TATCCGACTAGTGCTGGGCGCAACTTTCATCAGTTTAACTGACTAGTGCTGGGCACATCATTATA
21293560 TATGTCAGTC
66 TATGTCAGTC
* ** *
21293570 TATTCGACTAGTGCTGGGCGCAACCGTCATCAGTTTAACTGAGTAGTGCTGGGCACATCATTATA
1 TATCCGACTAGTGCTGGGCGCAACTTTCATCAGTTTAACTGACTAGTGCTGGGCACATCATTATA
21293635 TATGTCAGTC
66 TATGTCAGTC
*
21293645 TATCCAACTAGTGCTGGGCGCAA
1 TATCCGACTAGTGCTGGGCGCAA
21293668 AACTTGATTA
Statistics
Matches: 149, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
75 143 0.96
76 3 0.02
77 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (75 bp):
TATCCGACTAGTGCTGGGCGCAACTTTCATCAGTTTAACTGACTAGTGCTGGGCACATCATTATA
TATGTCAGTC
Found at i:21301469 original size:4 final size:4
Alignment explanation
Indices: 21301452--21301483 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
21301442 AATATTAAGG
21301452 TTAA TTATA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTA-A TTAA TTAA TTAA TTAA TTAA TTA
21301484 TTATTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:21301492 original size:16 final size:15
Alignment explanation
Indices: 21301460--21301515 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
21301450 GGTTAATTAT
*
21301460 ATTAATTAATTAATTA
1 ATTAATT-ATTATTTA
21301476 ATTAATTATTATTTTA
1 ATTAATTATTA-TTTA
*
21301492 AATAA-TATTACTTTA
1 ATTAATTATTA-TTTA
21301507 CATTAATTA
1 -ATTAATTA
21301516 CATAAAGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 13 0.39
16 18 0.55
17 2 0.06
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTAATTATTATTTA
Found at i:21301696 original size:26 final size:26
Alignment explanation
Indices: 21301667--21301717 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
21301657 TCTAATTATT
*
21301667 ATAATTAAA-AATATAATATTTAAAAA
1 ATAATTAAATAATA-AATATGTAAAAA
21301693 ATAATTAAATAATAAATATGTAAAA
1 ATAATTAAATAATAAATATGTAAAA
21301718 TCAAAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
ATAATTAAATAATAAATATGTAAAAA
Found at i:21307567 original size:31 final size:31
Alignment explanation
Indices: 21307532--21307591 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
21307522 GCATCACAAA
21307532 ATGTTAAAATT-T-ATTAATAATATATTTTTTT
1 ATGTT-AAATTATAATTAA-AATATATTTTTTT
21307563 ATGTTAAATTATAAATTAAAATATATTTT
1 ATGTTAAATTAT-AATTAAAATATATTTT
21307592 AAAAACATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 5 0.19
31 6 0.23
32 10 0.38
33 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
ATGTTAAATTATAATTAAAATATATTTTTTT
Found at i:21309853 original size:23 final size:23
Alignment explanation
Indices: 21309821--21309864 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
21309811 GCTACCATTT
21309821 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
21309844 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
21309865 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:21309857 original size:13 final size:11
Alignment explanation
Indices: 21309825--21309867 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
21309815 CCATTTTCTA
*
21309825 AATAAAATAAT
1 AATAAAATATT
21309836 AAT-AAATATCT
1 AATAAAATAT-T
21309847 AAGTAAAATATT
1 AA-TAAAATATT
21309859 AATAAAATA
1 AATAAAATA
21309868 ATTTTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:21314221 original size:50 final size:50
Alignment explanation
Indices: 21314050--21314220 Score: 234
Period size: 50 Copynumber: 3.4 Consensus size: 50
21314040 TATCCCATAT
** * * * *
21314050 ATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
** * *
21314100 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCTTGTTCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
21314150 ATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
21314200 ATGGTCTTACATTGGACCTCT
1 ATGGTCTTACATGGGACCTCT
21314221 TTACCCAAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 105 1.00
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.29
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:21317123 original size:37 final size:37
Alignment explanation
Indices: 21317081--21317178 Score: 135
Period size: 37 Copynumber: 2.6 Consensus size: 37
21317071 CATATTGAGA
* *
21317081 TCTGATTTGCATGTTAAA-CATGCCATATTTTTTATAT
1 TCTGATTTGCATG-TAAAGCATGCCATATTTCTGATAT
* *
21317118 TCTGATTCGCATGTAAAGCATGTCATATTTCTGATAT
1 TCTGATTTGCATGTAAAGCATGCCATATTTCTGATAT
*
21317155 TCTGATTTGCTTGTAAAGCATGCC
1 TCTGATTTGCATGTAAAGCATGCC
21317179 TACTGAAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
36 4 0.08
37 49 0.92
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (37 bp):
TCTGATTTGCATGTAAAGCATGCCATATTTCTGATAT
Found at i:21317778 original size:25 final size:25
Alignment explanation
Indices: 21317737--21317795 Score: 100
Period size: 25 Copynumber: 2.3 Consensus size: 25
21317727 GTTTAATTAT
*
21317737 TTTGGACTTTGGTTTTGGACATGGAC
1 TTTGGA-TTTGGATTTGGACATGGAC
21317763 TTTGGATTTGGATTTGGACATGGAC
1 TTTGGATTTGGATTTGGACATGGAC
21317788 TTTGGATT
1 TTTGGATT
21317796 ATTTTTGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 26 0.81
26 6 0.19
ACGTcount: A:0.17, C:0.08, G:0.31, T:0.44
Consensus pattern (25 bp):
TTTGGATTTGGATTTGGACATGGAC
Found at i:21317780 original size:19 final size:19
Alignment explanation
Indices: 21317737--21317795 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
21317727 GTTTAATTAT
*
21317737 TTTGGACTTTGGTTTTGGA
1 TTTGGACTTTGGATTTGGA
**
21317756 CATGGACTTTGGATTTGGA
1 TTTGGACTTTGGATTTGGA
*
21317775 TTTGGAC-ATGGACTTTGGA
1 TTTGGACTTTGGA-TTTGGA
21317794 TT
1 TT
21317796 ATTTTTGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 4 0.12
19 29 0.88
ACGTcount: A:0.17, C:0.08, G:0.31, T:0.44
Consensus pattern (19 bp):
TTTGGACTTTGGATTTGGA
Found at i:21319991 original size:75 final size:74
Alignment explanation
Indices: 21319827--21319998 Score: 204
Period size: 75 Copynumber: 2.3 Consensus size: 74
21319817 CTAGTCAGAT
* * * * *
21319827 AAACCGAAAAATATAATGGTGTGCCGAGCACTAGTAAGATAATTGATGAAACTTGCGCTCAGCAG
1 AAACCGAAAAATATAATGGTGTGCCCAACACTAGTAAGAAAATTGATGAAACTTGCGCTCAACAC
21319892 TAGTCGTAA
66 TAGTCGTAA
* * *
21319901 AAACC-AAAAACTATAATGGTGTGCCCAACACTAGTCAGAAAAATTGATGAAAGTTTCGC-CAAA
1 AAACCGAAAAA-TATAATGGTGTGCCCAACACTAGTAAG-AAAATTGATGAAACTTGCGCTC-AA
*
21319964 CACTAGTCGTAT
63 CACTAGTCGTAA
* *
21319976 CAACCGACAAATATAATGGTGTG
1 AAACCGAAAAATATAATGGTGTG
21319999 TCCAGCAGTA
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
73 5 0.06
74 30 0.36
75 44 0.53
76 4 0.05
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.23
Consensus pattern (74 bp):
AAACCGAAAAATATAATGGTGTGCCCAACACTAGTAAGAAAATTGATGAAACTTGCGCTCAACAC
TAGTCGTAA
Found at i:21321390 original size:38 final size:38
Alignment explanation
Indices: 21321339--21321415 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
21321329 CAGTAACTTG
* *
21321339 ATCAATGGTTTATTTTCCTAATAAGCCCCTTGTTTGAT
1 ATCAATGGCTTATTTGCCTAATAAGCCCCTTGTTTGAT
21321377 ATCAATGGCTTATTTGCCTAATAAGCCCCTTGTTTGAT
1 ATCAATGGCTTATTTGCCTAATAAGCCCCTTGTTTGAT
21321415 A
1 A
21321416 GTCACTTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (38 bp):
ATCAATGGCTTATTTGCCTAATAAGCCCCTTGTTTGAT
Found at i:21326419 original size:18 final size:18
Alignment explanation
Indices: 21326398--21326434 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21326388 AAACTCATTC
*
21326398 ATTTAAAGAATTACACTA
1 ATTTAAAGAATCACACTA
21326416 ATTTAAAGAATCACACTA
1 ATTTAAAGAATCACACTA
21326434 A
1 A
21326435 CACCTAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
ATTTAAAGAATCACACTA
Found at i:21326839 original size:40 final size:39
Alignment explanation
Indices: 21326713--21326848 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 39
21326703 AAAAGTTGCA
* * *
21326713 CCCAGCGCTAGTTAGATAAATCGAAAAATATAATGGTGTG
1 CCCAGCACTAGTTAGATAAACCG-ACAATATAATGGTGTG
* * * *
21326753 CCCAACACTAGTAAGATAAACTGAC--GA-AA-GGTGTG
1 CCCAGCACTAGTTAGATAAACCGACAATATAATGGTGTG
* * *
21326788 CCTAGCGCTAGTTGGATAAACCGAGCAATATAATGGTGTG
1 CCCAGCACTAGTTAGATAAACCGA-CAATATAATGGTGTG
*
21326828 CCCAGCACTAGTCAGATAAAC
1 CCCAGCACTAGTTAGATAAAC
21326849 TAACGAAAGT
Statistics
Matches: 73, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
35 24 0.33
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 41 0.56
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (39 bp):
CCCAGCACTAGTTAGATAAACCGACAATATAATGGTGTG
Found at i:21326855 original size:75 final size:75
Alignment explanation
Indices: 21326664--21326907 Score: 272
Period size: 75 Copynumber: 3.3 Consensus size: 75
21326654 TAATTTGACG
* * * * ** ** *
21326664 AATATAATGATGTGCCTATCACTAGTCGGATAAACTGATAAAAGTTGCACCCAGCGCTAGTTAGA
1 AATATAATGGTGTGCCCAACACTAGTCAGATAAACTGACGAAAGTTGTGCCCAGCGCTAGTTGGA
*
21326729 TAAATCGAAA
66 TAAACCGAAA
* * *
21326739 AATATAATGGTGTGCCCAACACTAGTAAGATAAACTGACGAAAGGTGTGCCTAGCGCTAGTTGGA
1 AATATAATGGTGTGCCCAACACTAGTCAGATAAACTGACGAAAGTTGTGCCCAGCGCTAGTTGGA
**
21326804 TAAACCGAGC
66 TAAACCGAAA
* * * *
21326814 AATATAATGGTGTGCCCAGCACTAGTCAGATAAACTAACGAAAGTTATGCCCAGTGCTAGTTGGA
1 AATATAATGGTGTGCCCAACACTAGTCAGATAAACTGACGAAAGTTGTGCCCAGCGCTAGTTGGA
** *
21326879 TAAACATATA
66 TAAACCGAAA
* *
21326889 AATAGAATGGTATGCCCAA
1 AATATAATGGTGTGCCCAA
21326908 AGTAGTTGAA
Statistics
Matches: 140, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 140 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (75 bp):
AATATAATGGTGTGCCCAACACTAGTCAGATAAACTGACGAAAGTTGTGCCCAGCGCTAGTTGGA
TAAACCGAAA
Found at i:21328505 original size:16 final size:16
Alignment explanation
Indices: 21328484--21328553 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
21328474 TTTGGTTCGC
* * *
21328484 TGTATTGGATTAGAAG
1 TGTAATGGAATAGAGG
* *
21328500 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
21328516 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
21328532 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
21328548 TGTAAT
1 TGTAAT
21328554 AGCAAATCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:21328535 original size:32 final size:32
Alignment explanation
Indices: 21328484--21328553 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
21328474 TTTGGTTCGC
* * * *
21328484 TGTATTGGATTAGAAGTGTATTGGATTAGAGG
1 TGTAATGGAATAGAAGTGTAATGGAATAGAGG
*
21328516 TGTAATGGAATAGATGTGTAATGGAATAGAGG
1 TGTAATGGAATAGAAGTGTAATGGAATAGAGG
21328548 TGTAAT
1 TGTAAT
21328554 AGCAAATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.34
Consensus pattern (32 bp):
TGTAATGGAATAGAAGTGTAATGGAATAGAGG
Found at i:21328637 original size:39 final size:43
Alignment explanation
Indices: 21328532--21328641 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
21328522 GGAATAGATG
21328532 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
21328577 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
21328617 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
21328642 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:21328808 original size:18 final size:17
Alignment explanation
Indices: 21328787--21328821 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21328777 TTATTATTAA
*
21328787 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21328805 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21328822 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Done.