Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 167 of 325
Found at i:51722513 original size:24 final size:24
Alignment explanation
Indices: 51722455--51722725 Score: 427
Period size: 24 Copynumber: 11.1 Consensus size: 24
51722445 GCAAAGACCA
51722455 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51722479 TA-GGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
51722502 TATGGCACTATGCACTATGTGTGATTTAC
1 TATGGCACTATG-----TGTGCGATTTAC
51722531 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51722555 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
51722579 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
51722603 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
51722627 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
51722651 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51722675 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
51722699 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
51722723 TAT
1 TAT
51722726 AGTCACATTC
Statistics
Matches: 233, Mismatches: 8, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
23 22 0.09
24 189 0.81
29 22 0.09
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:51727916 original size:30 final size:30
Alignment explanation
Indices: 51727880--51727943 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
51727870 TGCTAGGCCG
51727880 TGTCATCCACACAGCTGAGACACACAGCCA
1 TGTCATCCACACAGCTGAGACACACAGCCA
*
51727910 TGTCATCCACACAGCTGAGACACACGGCCA
1 TGTCATCCACACAGCTGAGACACACAGCCA
51727940 TGTC
1 TGTC
51727944 TCTGCTCGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.30, C:0.36, G:0.19, T:0.16
Consensus pattern (30 bp):
TGTCATCCACACAGCTGAGACACACAGCCA
Found at i:51732340 original size:30 final size:30
Alignment explanation
Indices: 51732285--51732415 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
51732275 ATAGTGAATC
*
51732285 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
51732314 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
51732344 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
51732372 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
51732402 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51732416 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:51732395 original size:58 final size:58
Alignment explanation
Indices: 51732284--51732415 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
51732274 TATAGTGAAT
* * * * *
51732284 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
51732343 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
51732401 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
51732416 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:51737139 original size:40 final size:40
Alignment explanation
Indices: 51737090--51737240 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
51737080 ATCACGATTT
*
51737090 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
51737130 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
51737170 GCATAAATGTCC-TCGGGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
51737210 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
51737241 TAATTTCCAG
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:51737178 original size:80 final size:81
Alignment explanation
Indices: 51737094--51737280 Score: 226
Period size: 80 Copynumber: 2.3 Consensus size: 81
51737084 CGATTTGCAC
* * *
51737094 AAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCGCACGAA-TGCCTTCGGGTCTTAGCCCG
1 AAATGCCTTCGGGACTTAGCCCGGATAGAA-GCACTAGCAC-AATTGCCTTCGGGTCTTAACCCG
*
51737157 GATATAATTACTAGCA-T
64 GATATAATTACCAGCATT
*
51737174 AAATGTCC-TCGGGACTTAGCCCGGAT-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 AAATG-CCTTCGGGACTTAGCCCGGATAGAAG-CACTAGCACAATTGCCTTCGGGTCTTAACCCG
*
51737237 GATATAATTTCCAGCATT
64 GATATAATTACCAGCATT
51737255 AACAT--CTTCGGGACTTAGCCCGGATA
1 AA-ATGCCTTCGGGACTTAGCCCGGATA
51737281 TCATTCAATT
Statistics
Matches: 93, Mismatches: 6, Indels: 15
0.82 0.05 0.13
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 80 0.86
81 5 0.05
82 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (81 bp):
AAATGCCTTCGGGACTTAGCCCGGATAGAAGCACTAGCACAATTGCCTTCGGGTCTTAACCCGGA
TATAATTACCAGCATT
Found at i:51742873 original size:10 final size:10
Alignment explanation
Indices: 51742860--51742884 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51742850 CTCCTTCAAA
51742860 CTCAAATCAG
1 CTCAAATCAG
51742870 CTCAAATCAG
1 CTCAAATCAG
51742880 CTCAA
1 CTCAA
51742885 CTTCAACTCA
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:0.40, C:0.32, G:0.08, T:0.20
Consensus pattern (10 bp):
CTCAAATCAG
Found at i:51744530 original size:12 final size:13
Alignment explanation
Indices: 51744496--51744530 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
51744486 TACAAGTTTG
51744496 AAAAAAAAAATTC
1 AAAAAAAAAATTC
*
51744509 CAAAAAAAAA-TC
1 AAAAAAAAAATTC
51744521 AAAAAAAAAA
1 AAAAAAAAAA
51744531 AAAGTGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.09
Consensus pattern (13 bp):
AAAAAAAAAATTC
Found at i:51749703 original size:21 final size:21
Alignment explanation
Indices: 51749669--51749717 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
51749659 TACTCCTTCA
51749669 AGCTCAA-ATCAACTCAAATC
1 AGCTCAACATCAACTCAAATC
* * *
51749689 AGCTCAACTTCAACTCAACTT
1 AGCTCAACATCAACTCAAATC
51749710 AGCTCAAC
1 AGCTCAAC
51749718 GAGCTCGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.39, C:0.33, G:0.06, T:0.22
Consensus pattern (21 bp):
AGCTCAACATCAACTCAAATC
Found at i:51752679 original size:2 final size:2
Alignment explanation
Indices: 51752672--51752707 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
51752662 GCTTCGCCAC
51752672 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51752708 CTGTTCTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51752756 original size:27 final size:26
Alignment explanation
Indices: 51752704--51752763 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
51752694 ATATATATAT
*
51752704 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
51752730 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
51752757 ATATCTG
1 ATATCTG
51752764 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:51753631 original size:2 final size:2
Alignment explanation
Indices: 51753626--51753650 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51753616 ATATATGCAC
51753626 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
51753651 CAATCAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51754659 original size:35 final size:35
Alignment explanation
Indices: 51754614--51754775 Score: 180
Period size: 35 Copynumber: 4.6 Consensus size: 35
51754604 AATACTCAAG
*
51754614 GTTCATTATATCATCACATATGGCCAAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * *
51754649 GTACAATATATCATCATATATGACCAAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * * * * * *
51754684 GCTCAATAAAACATCACATGTAGTCAAATATTCAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * *
51754719 GTTTAATATAACATCACATGTGGCCAAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* *
51754754 GTTCAACATGTCATCACATATG
1 GTTCAATATATCATCACATATG
51754776 TACATACCTA
Statistics
Matches: 102, Mismatches: 25, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 102 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (35 bp):
GTTCAATATATCATCACATATGGCCAAATATACAA
Found at i:51759749 original size:27 final size:27
Alignment explanation
Indices: 51759719--51759831 Score: 154
Period size: 27 Copynumber: 4.2 Consensus size: 27
51759709 CGATTTACAA
* *
51759719 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCCTATAAGGTAG
51759746 AATTATTGAAATACCCCTATAAGGTAG
1 AATTATTGAAATACCCCTATAAGGTAG
* * *
51759773 AATTATCGAAATACCCTTGTAAGGTAG
1 AATTATTGAAATACCCCTATAAGGTAG
* * *
51759800 AAATACTGAAATACCCCTATAGGGTAG
1 AATTATTGAAATACCCCTATAAGGTAG
51759827 AATTA
1 AATTA
51759832 CCGAGATACC
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (27 bp):
AATTATTGAAATACCCCTATAAGGTAG
Found at i:51759843 original size:54 final size:54
Alignment explanation
Indices: 51759726--51759845 Score: 177
Period size: 54 Copynumber: 2.2 Consensus size: 54
51759716 CAAAATTATT
* * * * *
51759726 GAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTATAAGGTAGAATTATC
1 GAAATACCCTTGTAAGGTAGAAATACTGAAATACCCCTATAAGGTAGAATTACC
*
51759780 GAAATACCCTTGTAAGGTAGAAATACTGAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCTTGTAAGGTAGAAATACTGAAATACCCCTATAAGGTAGAATTACC
*
51759834 GAGATACCCTTG
1 GAAATACCCTTG
51759846 GGGGTAAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
GAAATACCCTTGTAAGGTAGAAATACTGAAATACCCCTATAAGGTAGAATTACC
Found at i:51759850 original size:26 final size:26
Alignment explanation
Indices: 51759726--51759859 Score: 101
Period size: 27 Copynumber: 5.0 Consensus size: 26
51759716 CAAAATTATT
* **
51759726 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCTTG-AGGGTAGAATTACC
* *
51759753 GAAATACCCCTAT-AAGGTAGAATTATC
1 GAAATA-CCCT-TGAGGGTAGAATTACC
* * *
51759780 GAAATACCCTTGTAAGGTAGAAATACT
1 GAAATACCCTTG-AGGGTAGAATTACC
51759807 GAAATACCCCTAT-AGGGTAGAATTACC
1 GAAATA-CCCT-TGAGGGTAGAATTACC
* * *
51759834 GAGATACCCTTGGGGGTAAAATTACC
1 GAAATACCCTTGAGGGTAGAATTACC
51759860 ATTTTGCCCC
Statistics
Matches: 88, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
25 2 0.02
26 20 0.23
27 57 0.65
28 7 0.08
29 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (26 bp):
GAAATACCCTTGAGGGTAGAATTACC
Found at i:51760427 original size:22 final size:20
Alignment explanation
Indices: 51760373--51760428 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 20
51760363 GCCAATTATT
51760373 CTGATTATGGCTTTGCACAAAC
1 CTGATTATGGCTTTGC-C-AAC
*
51760395 CTACATT-TGGCTCTGTGCCAAC
1 CT-GATTATGGCT-T-TGCCAAC
51760417 CTGATTATGGCT
1 CTGATTATGGCT
51760429 GTATGCCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
21 3 0.11
22 17 0.61
23 5 0.18
24 3 0.11
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (20 bp):
CTGATTATGGCTTTGCCAAC
Found at i:51760591 original size:216 final size:217
Alignment explanation
Indices: 51760216--51760605 Score: 482
Period size: 216 Copynumber: 1.8 Consensus size: 217
51760206 GAAGATTGTG
* * * *
51760216 TGCCAAACATATTTGCCTAAGGCTATGTGCCAATATATGATTATTGACGACTCTGTGTCGATCAT
1 TGCCAAACATACTTGCCTAAGGATATGTGCCAATATATGATTAATGACGACTCTGTGTCGATCAC
* * * *
51760281 ATTTACTCAAGGCTGTGTGCCGACTATATTACCGTCGCTGCTGGCTATGTACCTAACATGATACA
66 ATTTACTCAAGGCTGTATGCCGACTATATTACCGTAGCTGATGGCTATGTACCTAACATAATACA
*
51760346 ACTACCAATGGCTTAAAGCCAATTATTCTGATT-A-TGGCTTTGCACAAACCTACATTTGGCTCT
131 ACTACCAATGGCTTAAAGCCAAGTATTCTG-TTAAGTGGCTTTGCACAAACCTACATTTGGCTCT
51760409 GTGCCAACCTGATTATGGCTGTA
195 GTGCCAACCTGATTATGGCTGTA
* * *
51760432 TGCCAAACGTACTTGCCTAAGGATATGTGCCAATATATGGTTAATGATGACTCTGTGTCGATCAC
1 TGCCAAACATACTTGCCTAAGGATATGTGCCAATATATGATTAATGACGACTCTGTGTCGATCAC
* ** * * * *
51760497 ATTTAC-CTAGGACTGTATGCCGGTTATGTTACTC-TAGTTGATGGCTATGTGCCTAACATAATG
66 ATTTACTCAAGG-CTGTATGCCGACTATATTAC-CGTAGCTGATGGCTATGTACCTAACATAATA
** * * *** *
51760560 CAGTTATCGATGGCTTTGTGCCACGTATTCTGTTAAGTGGCTTTGC
129 CAACTACCAATGGCTTAAAGCCAAGTATTCTGTTAAGTGGCTTTGC
51760606 CACATTATCT
Statistics
Matches: 143, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
215 6 0.04
216 127 0.89
217 10 0.07
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (217 bp):
TGCCAAACATACTTGCCTAAGGATATGTGCCAATATATGATTAATGACGACTCTGTGTCGATCAC
ATTTACTCAAGGCTGTATGCCGACTATATTACCGTAGCTGATGGCTATGTACCTAACATAATACA
ACTACCAATGGCTTAAAGCCAAGTATTCTGTTAAGTGGCTTTGCACAAACCTACATTTGGCTCTG
TGCCAACCTGATTATGGCTGTA
Found at i:51760626 original size:27 final size:27
Alignment explanation
Indices: 51760596--51760677 Score: 85
Period size: 28 Copynumber: 3.0 Consensus size: 27
51760586 ATTCTGTTAA
* *
51760596 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* *
51760623 GTGGCTATGCAACAAATATCTGTATCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
51760651 GTGACTCTGTCACAATATCTG-TTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
51760677 G
1 G
51760678 CAGCCATGCT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
26 5 0.11
27 19 0.42
28 21 0.47
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:51760804 original size:6 final size:6
Alignment explanation
Indices: 51760795--51760894 Score: 71
Period size: 6 Copynumber: 16.3 Consensus size: 6
51760785 TTGCATTCAC
* * * *
51760795 ATTCTG ATTCTG ATTCT- ATCACCTA ATTCTG ATTCTG ATTCTA ATTCTA
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
51760844 ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
51760893 AT
1 AT
51760895 AATGTTTCTT
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.83
7 6 0.08
8 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:51760885 original size:37 final size:37
Alignment explanation
Indices: 51760795--51760886 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 37
51760785 TTGCATTCAC
*
51760795 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTG
1 ATTCTAATTCTGATTCTATCACCTAATTCTGATTCTG
* * *
51760832 ATTCTAATTCTAATTCTGTCACCTGATTCTGATTCTG
1 ATTCTAATTCTGATTCTATCACCTAATTCTGATTCTG
* *
51760869 ATTCTCATTTTGATTCTA
1 ATTCTAATTCTGATTCTA
51760887 GTTCTGATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.48
Consensus pattern (37 bp):
ATTCTAATTCTGATTCTATCACCTAATTCTGATTCTG
Found at i:51765088 original size:30 final size:30
Alignment explanation
Indices: 51765054--51765150 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
51765044 TATACTAAAA
51765054 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
51765084 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
51765114 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
51765144 TGAGCTA
1 TGAGCTA
51765151 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:51768247 original size:28 final size:28
Alignment explanation
Indices: 51768215--51768271 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
51768205 AAGCTAACTT
51768215 AGCTTAGTAAGCTTTAAGCAAATTAAAC
1 AGCTTAGTAAGCTTTAAGCAAATTAAAC
51768243 AGCTTAGTAAGCTTTAAGCAAATTAAAC
1 AGCTTAGTAAGCTTTAAGCAAATTAAAC
51768271 A
1 A
51768272 TTTCAAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (28 bp):
AGCTTAGTAAGCTTTAAGCAAATTAAAC
Found at i:51768702 original size:35 final size:35
Alignment explanation
Indices: 51768569--51768739 Score: 138
Period size: 35 Copynumber: 5.0 Consensus size: 35
51768559 CTTACTTGTA
* * ** *
51768569 TGGCCAAATACT-CAAGGTCATTATATTATCACATA
1 TGGCCAAATA-TACAAGTTCAATATAACATCACATG
* * *
51768604 TGGCCAAATATACAAG-T-ACTAT--CATCATATA
1 TGGCCAAATATACAAGTTCAATATAACATCACATG
* * *
51768635 TGACCAAATATACAAGCTCAATAAAAACATCACATG
1 TGGCCAAATATACAAGTTCAAT-ATAACATCACATG
* * *
51768671 TAGTCC-AATATTCAAGTTTAATATAACATCACATG
1 T-GGCCAAATATACAAGTTCAATATAACATCACATG
*
51768706 TGGCCAAATATACAAGTTCAATATATCATCACAT
1 TGGCCAAATATACAAGTTCAATATAACATCACAT
51768740 ATGTATATAC
Statistics
Matches: 111, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
31 22 0.20
32 1 0.01
33 6 0.05
34 6 0.05
35 52 0.47
36 21 0.19
37 3 0.03
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (35 bp):
TGGCCAAATATACAAGTTCAATATAACATCACATG
Found at i:51769621 original size:15 final size:15
Alignment explanation
Indices: 51769598--51769627 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51769588 TCAAAAACTC
51769598 TAATACAAAACATAT
1 TAATACAAAACATAT
*
51769613 TAATCCAAAACATAT
1 TAATACAAAACATAT
51769628 CTTTCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:51772544 original size:49 final size:49
Alignment explanation
Indices: 51772373--51772595 Score: 306
Period size: 49 Copynumber: 4.5 Consensus size: 49
51772363 TGAGGTCGCA
* * * * *
51772373 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-CAAAATTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
51772423 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
51772473 TGTGTAGTACTAAGTGCA-GCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
51772521 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
51772570 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
51772596 TGCGTACAGA
Statistics
Matches: 156, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
48 25 0.16
49 74 0.47
50 56 0.36
51 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:51774176 original size:2 final size:2
Alignment explanation
Indices: 51774171--51774195 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51774161 ATAAAAAATG
51774171 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
51774196 AGTGATAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51775627 original size:14 final size:13
Alignment explanation
Indices: 51775608--51775662 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 13
51775598 TCGTATCTTG
51775608 GGTTTCTTTACTCT
1 GGTTTCTTTA-TCT
51775622 GGTTTCTTTATTCT
1 GGTTTCTTTA-TCT
*
51775636 GGGTTTCTCTATCTT
1 -GGTTTCTTTATC-T
51775651 GGATTTCTTTAT
1 GG-TTTCTTTAT
51775663 TCGGTTTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 17 0.49
15 18 0.51
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.58
Consensus pattern (13 bp):
GGTTTCTTTATCT
Found at i:51775642 original size:15 final size:15
Alignment explanation
Indices: 51775606--51775673 Score: 70
Period size: 14 Copynumber: 4.7 Consensus size: 15
51775596 TATCGTATCT
*
51775606 TGGGTTTCTTTACTC
1 TGGGTTTCTTTATTC
51775621 T-GGTTTCTTTATTC
1 TGGGTTTCTTTATTC
*
51775635 TGGGTTTCTCTA-TC
1 TGGGTTTCTTTATTC
*
51775649 TTGGATTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
51775665 -GGTTTTCTT
1 TGGGTTTCTT
51775674 GTTATCTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
14 23 0.51
15 20 0.44
16 2 0.04
ACGTcount: A:0.07, C:0.16, G:0.18, T:0.59
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:51777974 original size:49 final size:49
Alignment explanation
Indices: 51777808--51778032 Score: 315
Period size: 49 Copynumber: 4.5 Consensus size: 49
51777798 TGAGGTCGCA
* * * * *
51777808 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
51777859 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
51777909 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
51777958 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
51778007 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
51778033 TGCGTACCAG
Statistics
Matches: 158, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
49 80 0.51
50 45 0.28
51 33 0.21
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:51777988 original size:99 final size:100
Alignment explanation
Indices: 51777801--51778040 Score: 331
Period size: 99 Copynumber: 2.4 Consensus size: 100
51777791 TCTATTGTGA
* *
51777801 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
* **
51777866 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
51777901 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTA
*
51777964 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
51778000 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
51778041 AGATAGCTTT
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
98 36 0.29
99 45 0.37
100 1 0.01
101 41 0.33
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:51782053 original size:46 final size:45
Alignment explanation
Indices: 51782003--51782126 Score: 117
Period size: 46 Copynumber: 2.7 Consensus size: 45
51781993 ATATCGAGGA
**
51782003 CGATGCATGTCCTAGACATGTTCTACACTAGCTCTCATCTTAAT-GC
1 CGATGCATGTCCTAGACATG-TCTACACTAGCTCTCATAAT-ATGGC
* * * * *
51782049 CGATGTATGT-CTCAGACATGTCTTACATTGGCTCTTATAATGTGGC
1 CGATGCATGTCCT-AGACATGTC-TACACTAGCTCTCATAATATGGC
*
51782095 CGATGCATGTCCCAGACATGTCTAACACTAGC
1 CGATGCATGTCCTAGACATGTCT-ACACTAGC
51782127 ATACATATCA
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
45 6 0.10
46 55 0.89
47 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (45 bp):
CGATGCATGTCCTAGACATGTCTACACTAGCTCTCATAATATGGC
Found at i:51783874 original size:19 final size:19
Alignment explanation
Indices: 51783850--51783886 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
51783840 TACTACAGCA
51783850 ATTTAAGTTGTCTTAGTTC
1 ATTTAAGTTGTCTTAGTTC
*
51783869 ATTTAATTTGTCTTAGTT
1 ATTTAAGTTGTCTTAGTT
51783887 TAATGCATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.57
Consensus pattern (19 bp):
ATTTAAGTTGTCTTAGTTC
Found at i:51786292 original size:41 final size:41
Alignment explanation
Indices: 51786247--51786328 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
51786237 GGTTCGTATG
51786247 CGTCCAAGTATTCACCCACAAAAGATCATTCTCAAAGAGGT
1 CGTCCAAGTATTCACCCACAAAAGATCATTCTCAAAGAGGT
51786288 CGTCCAAGTATTCACCCACAAAAGATCATTCTCAAAGAGGT
1 CGTCCAAGTATTCACCCACAAAAGATCATTCTCAAAGAGGT
51786329 TCATATCATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.22
Consensus pattern (41 bp):
CGTCCAAGTATTCACCCACAAAAGATCATTCTCAAAGAGGT
Found at i:51786662 original size:19 final size:19
Alignment explanation
Indices: 51786640--51786722 Score: 55
Period size: 19 Copynumber: 4.4 Consensus size: 19
51786630 AAAGAAAGCA
51786640 AAAAGAGAATTAGAAAAAG
1 AAAAGAGAATTAGAAAAAG
* *
51786659 AAAAAAGAAATCA-AAAAAG
1 AAAAGAG-AATTAGAAAAAG
* * * **
51786678 TAAA-ATAATTTGATCAAG
1 AAAAGAGAATTAGAAAAAG
*
51786696 AAAAGAAAATT-GAAAAAG
1 AAAAGAGAATTAGAAAAAG
51786714 AGAAAGAGA
1 A-AAAGAGA
51786723 CTGAAGAAAG
Statistics
Matches: 47, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
17 3 0.06
18 14 0.30
19 26 0.55
20 4 0.09
ACGTcount: A:0.67, C:0.02, G:0.17, T:0.13
Consensus pattern (19 bp):
AAAAGAGAATTAGAAAAAG
Found at i:51786682 original size:20 final size:21
Alignment explanation
Indices: 51786634--51786682 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
51786624 AGTGTGAAAG
* *
51786634 AAAGCAAAAAGAGAATTAGAA
1 AAAGAAAAAAGAGAATCAGAA
51786655 AAAGAAAAAAGA-AATCA-AA
1 AAAGAAAAAAGAGAATCAGAA
*
51786674 AAAGTAAAA
1 AAAGAAAAA
51786683 TAATTTGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 10 0.40
20 4 0.16
21 11 0.44
ACGTcount: A:0.73, C:0.04, G:0.14, T:0.08
Consensus pattern (21 bp):
AAAGAAAAAAGAGAATCAGAA
Found at i:51786714 original size:18 final size:19
Alignment explanation
Indices: 51786693--51786738 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
51786683 TAATTTGATC
*
51786693 AAGAAAAGAAAATTGAA-A
1 AAGAAAAGAAAACTGAAGA
*
51786711 AAGAGAAAG-AGACTGAAGA
1 AAGA-AAAGAAAACTGAAGA
51786730 AAGAAAAGA
1 AAGAAAAGA
51786739 TGATAAGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (19 bp):
AAGAAAAGAAAACTGAAGA
Found at i:51789981 original size:30 final size:30
Alignment explanation
Indices: 51789947--51790007 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51789937 TCCTTAACTC
51789947 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
51789977 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
51790007 A
1 A
51790008 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:51792472 original size:27 final size:26
Alignment explanation
Indices: 51792437--51792492 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
51792427 ACACAGCTTA
51792437 AATGTGTCTAGTTTAG-GACATCAATTT
1 AATGTGTCTAGTTTAGAGACA--AATTT
51792464 AATGTGTCTAGTTTAGAGACAAATTT
1 AATGTGTCTAGTTTAGAGACAAATTT
51792490 AAT
1 AAT
51792493 TAGTTGCTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (26 bp):
AATGTGTCTAGTTTAGAGACAAATTT
Found at i:51793813 original size:20 final size:20
Alignment explanation
Indices: 51793790--51793837 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
51793780 AGCTCCGTCC
51793790 AGCTCAACTCAGCTCATTTA
1 AGCTCAACTCAGCTCATTTA
*** * *
51793810 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTA
51793830 AGCTCAAC
1 AGCTCAAC
51793838 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTA
Found at i:51796229 original size:6 final size:5
Alignment explanation
Indices: 51796194--51796261 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
51796184 ACATTCTTGT
* *
51796194 AAAGA AAAAA CAAAGA AAAGA AAAGAA AAAGTA AAAGA AGA-A AAAGA
1 AAAGA AAAGA -AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA
51796241 AAATGA AATA-A AAAGA AAAGA
1 AAA-GA AA-AGA AAAGA AAAGA
51796262 GAGGCAAGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
4 4 0.08
5 29 0.56
6 18 0.35
7 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:51796234 original size:15 final size:14
Alignment explanation
Indices: 51796205--51796261 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
51796195 AAGAAAAAAC
51796205 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
51796221 AAAGTAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
51796236 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
51796252 AAAGAAAAGA
1 AAAGAAAAGA
51796262 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:51796373 original size:24 final size:24
Alignment explanation
Indices: 51796346--51796408 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
51796336 AAAACAAAAA
*
51796346 GAAAAAGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAAAGAGATT
* * *
51796370 GAAAAAGAGAATGAAAAAGAGTTT
1 GAAAAAGAAAAAGAAAAAGAGATT
* *
51796394 GAGAGAGAAAAAGAA
1 GAAAAAGAAAAAGAA
51796409 TGTGAACAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.63, C:0.00, G:0.25, T:0.11
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAAAGAGATT
Found at i:51796375 original size:13 final size:12
Alignment explanation
Indices: 51796346--51796390 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
51796336 AAAACAAAAA
* *
51796346 GAAAAAGAAAAA
1 GAAAAAGAGAAT
* *
51796358 GAAAATGAGATT
1 GAAAAAGAGAAT
51796370 GAAAAAGAGAAT
1 GAAAAAGAGAAT
51796382 GAAAAAGAG
1 GAAAAAGAG
51796391 TTTGAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (12 bp):
GAAAAAGAGAAT
Found at i:51798048 original size:20 final size:20
Alignment explanation
Indices: 51798025--51798072 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
51798015 AGCTCCGTCC
51798025 AGCTCAACTCAGCTCATTTA
1 AGCTCAACTCAGCTCATTTA
*** * *
51798045 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTA
51798065 AGCTCAAC
1 AGCTCAAC
51798073 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTA
Found at i:51798322 original size:11 final size:13
Alignment explanation
Indices: 51798297--51798328 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
51798287 CAAGTTTGAA
51798297 AAAAAAAATTCCG
1 AAAAAAAATTCCG
51798310 AAAAAAAA-T-CG
1 AAAAAAAATTCCG
51798321 AAAAAAAA
1 AAAAAAAA
51798329 AGTGATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.53
12 1 0.05
13 8 0.42
ACGTcount: A:0.75, C:0.09, G:0.06, T:0.09
Consensus pattern (13 bp):
AAAAAAAATTCCG
Found at i:51803459 original size:10 final size:10
Alignment explanation
Indices: 51803444--51803470 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
51803434 TACTCCTTCA
51803444 AGCTCAAATC
1 AGCTCAAATC
51803454 AGCTCAAATC
1 AGCTCAAATC
51803464 AGCTCAA
1 AGCTCAA
51803471 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:51805001 original size:279 final size:278
Alignment explanation
Indices: 51804559--51805116 Score: 1080
Period size: 279 Copynumber: 2.0 Consensus size: 278
51804549 GAACTAAAAG
*
51804559 AGCTTATAAACAACGGGTCGATACCAAATCGTATTGGTTCTTGTTTGCACTTTTTGTTCAACCCC
1 AGCTTATAAACAACGGGTCGATACCAAATCGTATTGATTCTTGTTTGCACTTTTTGTTCAACCCC
*
51804624 ATTTCTCCATTTACCTAATTGAACCAATTCCTTCATCCATACCTATTCGGACTCCAAACCCGAAT
66 ATTTCTCCATTTACCTAATTGAACCAATTCCTTCATCCATACCTATTCGGACTCCAAACCCAAAT
51804689 TTTCAAACTCTTCTTACCTATTCTAATCCGAACCCAAAACCAATACCCTTCTTTCCTTCATCTGA
131 TTTCAAACTCTTCTTACCTATTCTAATCCGAACCCAAAACCAATACCCTTCTTTCCTTCATCTGA
*
51804754 CCTTTTCAATTAAACCTAACGTAACTTCTTGTTGACGATCGGGCACACTAATACGACTCGATTCT
196 CCTTTTCAATTAAACCTAACGTAACTTCTTGTTGACGATCGGGCACACTAATACGACTCGACTCT
51804819 TCCGAGGCGGATCGTATC
261 TCCGAGGCGGATCGTATC
51804837 AGCTTATAAACAACGGGTCGATACCAAATCAGTATTGATTCTTGTTTGCACTTTTTGTTCAACCC
1 AGCTTATAAACAACGGGTCGATACCAAATC-GTATTGATTCTTGTTTGCACTTTTTGTTCAACCC
51804902 CATTTCTCCATTTACCTAATTGAACCAATTCCTTCATCCATACCTATTCGGACTCCAAACCCAAA
65 CATTTCTCCATTTACCTAATTGAACCAATTCCTTCATCCATACCTATTCGGACTCCAAACCCAAA
51804967 TTTTCAAACTCTTCTTACCTATTCTAATCCGAACCCAAAACCAATACCCTTCTTTCCTTCATCTG
130 TTTTCAAACTCTTCTTACCTATTCTAATCCGAACCCAAAACCAATACCCTTCTTTCCTTCATCTG
51805032 ACCTTTTCAATTAAACCTAACGTAACTTCTTGTTGACGATCGGGCACACTAATACGACTCGACTC
195 ACCTTTTCAATTAAACCTAACGTAACTTCTTGTTGACGATCGGGCACACTAATACGACTCGACTC
51805097 TTCCGAGGCGGATCGTATC
260 TTCCGAGGCGGATCGTATC
51805116 A
1 A
51805117 ACGTGCCTAT
Statistics
Matches: 276, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
278 30 0.11
279 246 0.89
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (278 bp):
AGCTTATAAACAACGGGTCGATACCAAATCGTATTGATTCTTGTTTGCACTTTTTGTTCAACCCC
ATTTCTCCATTTACCTAATTGAACCAATTCCTTCATCCATACCTATTCGGACTCCAAACCCAAAT
TTTCAAACTCTTCTTACCTATTCTAATCCGAACCCAAAACCAATACCCTTCTTTCCTTCATCTGA
CCTTTTCAATTAAACCTAACGTAACTTCTTGTTGACGATCGGGCACACTAATACGACTCGACTCT
TCCGAGGCGGATCGTATC
Found at i:51806214 original size:21 final size:21
Alignment explanation
Indices: 51806190--51806236 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
51806180 AGCTCGTTTG
51806190 AGCTCAACCGAGCTTACTTTC
1 AGCTCAACCGAGCTTACTTTC
51806211 AGCTCAACCGAGCTTACTTTC
1 AGCTCAACCGAGCTTACTTTC
51806232 AGCTC
1 AGCTC
51806237 TTTCTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (21 bp):
AGCTCAACCGAGCTTACTTTC
Found at i:51811624 original size:19 final size:19
Alignment explanation
Indices: 51811600--51811639 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51811590 AGCTCCCATG
51811600 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
51811619 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
51811638 TA
1 TA
51811640 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:51818320 original size:30 final size:30
Alignment explanation
Indices: 51818235--51818331 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
51818225 TAAACTAAAA
* * *
51818235 TGAGTTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
51818265 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
51818295 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
51818324 ATGAGCTA
1 -TGAGCTA
51818332 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:51822496 original size:15 final size:15
Alignment explanation
Indices: 51822476--51822523 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
51822466 TCAAAGATGG
51822476 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
51822491 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
51822506 -TTTATGGATATAAA
1 GTTTATGGATATGAA
51822520 GTTT
1 GTTT
51822524 TTCTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:51823549 original size:14 final size:14
Alignment explanation
Indices: 51823507--51823551 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
51823497 TTAAAGAAGC
51823507 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
51823521 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
51823534 AACTCATTTAATTA
1 AACTCATTAAATTA
51823548 AACT
1 AACT
51823552 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:51826051 original size:18 final size:18
Alignment explanation
Indices: 51826030--51826079 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
51826020 AAACTCTTTT
51826030 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
51826048 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
51826066 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
51826080 TTTTTCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:51826086 original size:24 final size:24
Alignment explanation
Indices: 51826005--51826082 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
51825995 CTTGTTCACA
* *
51826005 TTCTTTCTCTCTCTCAAACTCTTT
1 TTCTTTCTCACTCTCAATCTCTTT
* ** * *
51826029 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTCTCACTCTCAATCTCTTT
*
51826053 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTCTCACTCTCAATCTCTTT
51826077 TTCTTT
1 TTCTTT
51826083 TTCATTTATT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (24 bp):
TTCTTTCTCACTCTCAATCTCTTT
Found at i:51827395 original size:15 final size:15
Alignment explanation
Indices: 51827375--51827422 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
51827365 TCAAAGATGG
51827375 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
51827390 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
51827405 -TTTATGGATATAAA
1 GTTTATGGATATGAA
51827419 GTTT
1 GTTT
51827423 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:51827402 original size:29 final size:29
Alignment explanation
Indices: 51827369--51827428 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
51827359 AAGGATTCAA
* *
51827369 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
51827398 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
51827427 AG
1 AG
51827429 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:51828447 original size:14 final size:14
Alignment explanation
Indices: 51828405--51828449 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
51828395 TTAAAGAAGC
51828405 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
51828419 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
51828432 AACTCATTTAATTA
1 AACTCATTAAATTA
51828446 AACT
1 AACT
51828450 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:51829779 original size:13 final size:13
Alignment explanation
Indices: 51829759--51829791 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
51829749 TTTTTTTTCA
51829759 TTCT-TTTTATTT
1 TTCTCTTTTATTT
*
51829771 TTCTCTTTTCTTT
1 TTCTCTTTTATTT
51829784 TTCTCTTT
1 TTCTCTTT
51829792 CAATGGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTCTTTTATTT
Found at i:51833898 original size:20 final size:21
Alignment explanation
Indices: 51833863--51833901 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
51833853 CCACTTGTTG
51833863 AGCTCAATTCAGCTCATTTCT
1 AGCTCAATTCAGCTCATTTCT
*
51833884 AGCTCAA-TGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
51833902 GCTCATTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCT
Found at i:51834071 original size:19 final size:19
Alignment explanation
Indices: 51834047--51834084 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
51834037 TTACTACAGC
51834047 AATTTAAGTTATCTTAGTT
1 AATTTAAGTTATCTTAGTT
* *
51834066 AATTTAATTTGTCTTAGTT
1 AATTTAAGTTATCTTAGTT
51834085 TAATGCATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (19 bp):
AATTTAAGTTATCTTAGTT
Found at i:51840051 original size:30 final size:30
Alignment explanation
Indices: 51839963--51840060 Score: 72
Period size: 30 Copynumber: 3.3 Consensus size: 30
51839953 TTAAACTAAA
* * * *
51839963 ATGAGCTAAGCTTTAGCTTGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAACTGAAG
* * * * *
51839993 TTGAGCTGAGATTAAACTCCT-AAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAA-CTGAAG
* * *
51840023 CTGAGCTAAGGTTTAGCTCGTGAACTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAACTGAAG
51840053 ATGAGCTA
1 ATGAGCTA
51840061 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
29 1 0.02
30 46 0.94
31 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAACTGAAG
Found at i:51842455 original size:5 final size:5
Alignment explanation
Indices: 51842445--51842512 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
51842435 CTCTTGCCTC
*
51842445 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
*
51842492 TCTTT TCTTT GTTTTT TCTTT
1 TCTTT TCTTT -TCTTT TCTTT
51842513 ACAAGAATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
4 4 0.08
5 33 0.63
6 10 0.19
7 5 0.10
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (5 bp):
TCTTT
Found at i:51842485 original size:15 final size:14
Alignment explanation
Indices: 51842445--51842501 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
51842435 CTCTTGCCTC
*
51842445 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
51842460 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
51842475 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
51842492 TCTTTTCTTT
1 TCTTTTCTTT
51842502 GTTTTTTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:51842502 original size:21 final size:21
Alignment explanation
Indices: 51842445--51842512 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
51842435 CTCTTGCCTC
* *
51842445 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
51842466 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
*
51842487 TCTTTTCTTTTCTTTGTTTTT
1 TCTTTTCTTTTCTTTGCTTTT
51842508 TCTTT
1 TCTTT
51842513 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.08
21 31 0.79
22 5 0.13
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:51845119 original size:30 final size:30
Alignment explanation
Indices: 51845085--51845167 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 30
51845075 TAAACTAAAA
* *
51845085 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
* * * * * *
51845115 TGAGCTGAGATTAAACTCCTAAGCTGAAGC
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
*
51845145 TGAGCTAAGGTTTAGCTCGTGAG
1 TGAGCTAAGATTTAGCTCGTGAG
51845168 TTGAATATGA
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
Found at i:51852687 original size:20 final size:20
Alignment explanation
Indices: 51852643--51852680 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
51852633 AGAAAGAAAG
*
51852643 AAGCTAAATCAAGCTCAAAC
1 AAGCTAAAACAAGCTCAAAC
51852663 AAGCTAAAACAAGCTCAA
1 AAGCTAAAACAAGCTCAA
51852681 GTGAGCTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.24, G:0.11, T:0.13
Consensus pattern (20 bp):
AAGCTAAAACAAGCTCAAAC
Found at i:51854602 original size:20 final size:20
Alignment explanation
Indices: 51854555--51854603 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
51854545 AAACAAGCTC
51854555 AAATGAGCTGAGTTGAGCTGG
1 AAATGAGCTGAG-TGAGCTGG
*
51854576 ACA-GAGCTCGAG-GAGCTGG
1 AAATGAGCT-GAGTGAGCTGG
51854595 AAATGAGCT
1 AAATGAGCT
51854604 AGGATCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.18
Consensus pattern (20 bp):
AAATGAGCTGAGTGAGCTGG
Found at i:51855817 original size:19 final size:19
Alignment explanation
Indices: 51855772--51855817 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
51855762 ATTAACACAC
*
51855772 AATTAATTAAAATATAACT
1 AATTAATAAAAATATAACT
*
51855791 -ATTCATAAAAATCATAA-T
1 AATTAATAAAAAT-ATAACT
51855809 AATTAATAA
1 AATTAATAA
51855818 TTAAACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTAATAAAAATATAACT
Found at i:51856426 original size:129 final size:130
Alignment explanation
Indices: 51856186--51856445 Score: 335
Period size: 129 Copynumber: 2.0 Consensus size: 130
51856176 CTTGTTTCGA
* * ** *
51856186 ACCAAGGTTTTGCATTAGAAGCTAAAATAGCTTCTAGGAAATGTTTAGCATGAGCTTGAGTTATA
1 ACCAAGGTTTTGCATTAGAAGCTAAAACAGCTTCTAGGAAATGCTTAGCACAAGCTCGAGTTATA
* * * * * *
51856251 GGTCCTTTAGGCAGCTCGTTTAGATCTTGGTTTGCACTCGAAGATGCCCCGGGCGTG-TCACATC
66 GGTCCTTTAGGAAGCTCATTGAGATCTTGATATGCACTCGAAGATGCCCCAGGCGTGCTCACATC
* *
51856315 ACCAAGGTTTTGCATTAGAAGCTAAAACCGCTTCTAGGAAATGCTTAGCACAAGCTCGAGTTATG
1 ACCAAGGTTTTGCATTAGAAGCTAAAACAGCTTCTAGGAAATGCTTAGCACAAGCTCGAGTTATA
** * * *
51856380 GGTGTTTTTGGAAGCTCAATTGA-ATCTTGATATGCATTCGAGGATGCCCCAGGCGTGCTCACAT
66 GGTCCTTTAGGAAGCTC-ATTGAGATCTTGATATGCACTCGAAGATGCCCCAGGCGTGCTCACAT
51856444 C
130 C
51856445 A
1 A
51856446 AATAGGCTAT
Statistics
Matches: 111, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
129 100 0.90
130 11 0.10
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (130 bp):
ACCAAGGTTTTGCATTAGAAGCTAAAACAGCTTCTAGGAAATGCTTAGCACAAGCTCGAGTTATA
GGTCCTTTAGGAAGCTCATTGAGATCTTGATATGCACTCGAAGATGCCCCAGGCGTGCTCACATC
Found at i:51858082 original size:6 final size:6
Alignment explanation
Indices: 51858061--51858112 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
51858051 TCAGACTCAA
* * **
51858061 TTTCTT TTTCAAT TTTCTT TTTC-T TCTCTT TTTCTT TTTCAC TTTCTT
1 TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
51858109 TTTC
1 TTTC
51858113 ATTCATTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
5 4 0.11
6 27 0.75
7 5 0.14
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTCTT
Found at i:51858121 original size:29 final size:30
Alignment explanation
Indices: 51858061--51858122 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
51858051 TCAGACTCAA
* *
51858061 TTTCTTTTTCAATTTTCTTTTTCTTCTCTT
1 TTTCTTTTTCAACTTTCTTTTTCTTCTATT
51858091 TTTCTTTTTC-ACTTTCTTTTTCATTC-ATT
1 TTTCTTTTTCAACTTTCTTTTTC-TTCTATT
51858120 TTT
1 TTT
51858123 TCATTACAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTCTTTTTCAACTTTCTTTTTCTTCTATT
Found at i:51860650 original size:25 final size:25
Alignment explanation
Indices: 51860622--51860691 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
51860612 CTCCTTTAAT
* * *
51860622 AACTGGGGAAAAGCCTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
51860647 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
51860672 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
51860692 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:51860762 original size:11 final size:11
Alignment explanation
Indices: 51860738--51860767 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
51860728 ATATGTGAAT
51860738 ATATCATG-GC
1 ATATCATGTGC
51860748 ATATCATGTGC
1 ATATCATGTGC
51860759 ATATCATGT
1 ATATCATGT
51860768 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (11 bp):
ATATCATGTGC
Found at i:51863564 original size:27 final size:26
Alignment explanation
Indices: 51863540--51863852 Score: 338
Period size: 27 Copynumber: 11.7 Consensus size: 26
51863530 TTAGTTTACC
51863540 AAATTACCAAAATACCCCTTGTTTATA
1 AAATTACCAAAATA-CCCTTGTTTATA
*
51863567 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTT-GTTTATA
* * *
51863594 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTTGTTTATA
*
51863621 AAATTACTAAAATACCCTTGATTTATA
1 AAATTACCAAAATACCCTTG-TTTATA
* *
51863648 AAATTACCAAAATACCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGTTTATA
*
51863674 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTT-GTTTATA
* *
51863701 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTTGTTTATA
* *
51863728 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTT-GTTTATA
* *
51863755 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTTGTTTATA
* * *
51863782 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTG-TTTATA
* ***
51863809 AAATTACCGAAATACCCTTGTAGGGTA
1 AAATTACCAAAATACCCTTGT-TTATA
*
51863836 GAATTACCAAAATACCC
1 AAATTACCAAAATACCC
51863853 CTGTAGGGTA
Statistics
Matches: 241, Mismatches: 36, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
26 42 0.17
27 187 0.78
28 12 0.05
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATTACCAAAATACCCTTGTTTATA
Found at i:51863603 original size:54 final size:54
Alignment explanation
Indices: 51863540--51863825 Score: 430
Period size: 54 Copynumber: 5.3 Consensus size: 54
51863530 TTAGTTTACC
* *
51863540 AAATTACCAAAATACCCCTTGTTTATAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
51863594 AAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGATTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
51863648 AAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
51863701 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * * *
51863755 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
51863809 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
51863826 TTGTAGGGTA
Statistics
Matches: 211, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
53 49 0.23
54 162 0.77
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:51863660 original size:81 final size:81
Alignment explanation
Indices: 51863540--51863855 Score: 406
Period size: 81 Copynumber: 3.9 Consensus size: 81
51863530 TTAGTTTACC
* *
51863540 AAATTACCAAAATACCCCTTG-TTTATAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAA
1 AAATTACCAAAATACCCC-TGATTTATAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAA
51863604 AATACCCCTGGTTTGTA
65 AATACCCCTGGTTTGTA
* * * *
51863621 AAATTACTAAAATACCCTTGATTTATAAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
* **
51863685 ATACCCTTGGTTTACA
66 ATACCCCTGGTTTGTA
* * *
51863701 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAATTACCAA
1 AAATTACCAAAATACCCCTGA-TTTATAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAA
51863765 AATACCCCTGGTTTGTA
65 AATACCCCTGGTTTGTA
* * * *** *
51863782 AAATTACCAAAATACCCCTGATTTGTGAAATTACCGAAATACCCTT-GTAGGGTAGAATTACCAA
1 AAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCTTGGT-TTATAAAATTACCAA
51863846 AATACCCCTG
65 AATACCCCTG
51863856 TAGGGTAGAA
Statistics
Matches: 203, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.00
80 71 0.35
81 130 0.64
82 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
ATACCCCTGGTTTGTA
Found at i:51863857 original size:27 final size:27
Alignment explanation
Indices: 51863756--51864024 Score: 303
Period size: 27 Copynumber: 10.0 Consensus size: 27
51863746 TGGTTTATAA
** *
51863756 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCAAAATACCCCT-GTAGGGTAG
**
51863783 AATTACCAAAATACCCCTG-ATTTGT-G
1 AATTACCAAAATACCCCTGTA-GGGTAG
* *
51863809 AAATTACCGAAATACCCTTGTAGGGTAG
1 -AATTACCAAAATACCCCTGTAGGGTAG
51863837 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
51863864 AATTACTGAAAA-ACCCCTGTAGGGTAG
1 AATTAC-CAAAATACCCCTGTAGGGTAG
*
51863891 AATTACCAGAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* **
51863918 AATTACCGAAATATACCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
51863945 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
**
51863972 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
51863999 AATTACCAAGATACCCTTGTGGGGTA
1 AATTACCAAAATACCCCTGTAGGGTA
51864025 AAATGGTAAT
Statistics
Matches: 211, Mismatches: 24, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
26 4 0.02
27 201 0.95
28 6 0.03
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:51863868 original size:81 final size:79
Alignment explanation
Indices: 51863540--51864028 Score: 344
Period size: 81 Copynumber: 6.1 Consensus size: 79
51863530 TTAGTTTACC
* * *** *
51863540 AAATTACCAAAATACCCCTTG-TTTATAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAA
1 AAATTACCAAAATACCCC-TGATTTGTAAAATTACCAAAATACCCTT-GTGGGTAAAATTACCAA
**
51863604 AATACCCCTGGTTTGTA
64 AATACCCCT-GTGGGTA
* * * * **
51863621 AAATTACTAAAATACCCTTGATTTATAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGTGGGTAAAATTACCAAAA
*
51863686 TA-CCCT-TGGTTTACA
66 TACCCCTGTGG-GT--A
* * ***
51863701 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAATTACCAA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCTT-GTGGGTAAAATTACCAA
**
51863765 AATACCCCTGGTTTGTA
64 AATACCCCT-GTGGGTA
* * *
51863782 AAATTACCAAAATACCCCTGATTTGTGAAATTACCGAAATACCCTTGTAGGGTAGAATTACCAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGT-GGGTAAAATTACCAAA
51863847 ATACCCCTGTAGGGTA
65 ATACCCCTGT-GGGTA
* * ** * * * * *
51863863 GAATTACTGAAAA-ACCCCTG-TAGGGTAGAATTACCAGAATACCCCTGTAGGGTAGAATTACCG
1 AAATTAC-CAAAATACCCCTGAT-TTGTAAAATTACCAAAATACCCTTGT-GGGTAAAATTACCA
**
51863926 AAATATACCTGTAGGGTA
63 AAATACCCCTGT-GGGTA
* * ** * ** * *
51863944 GAATTACCGAAATACCCCT-ATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCAA
1 AAATTACCAAAATACCCCTGAT-TTGTAAAATTACCAAAATACCCTTGT-GGGTAAAATTACCAA
* *
51864008 GATACCCTTGTGGGGTA
64 AATACCCCTGT-GGGTA
51864025 AAAT
1 AAAT
51864029 GGTAATTTTA
Statistics
Matches: 339, Mismatches: 53, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
77 1 0.00
78 1 0.00
79 5 0.01
80 68 0.20
81 253 0.75
82 9 0.03
83 1 0.00
84 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (79 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGTGGGTAAAATTACCAAAA
TACCCCTGTGGGTA
Found at i:51864412 original size:22 final size:22
Alignment explanation
Indices: 51864379--51864437 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
51864369 CACGTTATCG
51864379 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
51864401 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
*
51864423 ATGGTTTCGTGCCAA
1 ATGGCTTCGTGCCAA
51864438 ACATATTTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:51864841 original size:6 final size:6
Alignment explanation
Indices: 51864832--51864946 Score: 76
Period size: 6 Copynumber: 18.7 Consensus size: 6
51864822 TACCTGATAT
* *
51864832 TGATTC TGATTT TGATTC T-ATTACC TGATAC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC
* * * * *
51864881 T-ATCACC TAATTC TGATTC TAATTC T-ATCACC TAATTC TGATTC TGATTC
1 TGAT--TC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
51864931 TGATTC T-AGTTC TGAT
1 TGATTC TGA-TTC TGAT
51864947 AGTGTTTCTT
Statistics
Matches: 87, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
5 8 0.09
6 66 0.76
7 7 0.08
8 6 0.07
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:51864856 original size:31 final size:31
Alignment explanation
Indices: 51864802--51864900 Score: 126
Period size: 31 Copynumber: 3.2 Consensus size: 31
51864792 TTGCATTCAC
* * *
51864802 ATTCTGATTTTTTATTCTGTTACCTGATATTG
1 ATTCTGA-TTTTGATTCTATTACCTGATACTG
51864834 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTTTGATTCTATTACCTGATACTG
* * * *
51864865 ATTCTGATTCTGATTCTATCACCTAATTCTG
1 ATTCTGATTTTGATTCTATTACCTGATACTG
51864896 ATTCT
1 ATTCT
51864901 AATTCTATCA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
31 53 0.88
32 7 0.12
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATTACCTGATACTG
Found at i:51864893 original size:25 final size:25
Alignment explanation
Indices: 51864865--51864931 Score: 125
Period size: 25 Copynumber: 2.7 Consensus size: 25
51864855 CCTGATACTG
51864865 ATTCTGATTCTGATTCTATCACCTA
1 ATTCTGATTCTGATTCTATCACCTA
*
51864890 ATTCTGATTCTAATTCTATCACCTA
1 ATTCTGATTCTGATTCTATCACCTA
51864915 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
51864932 GATTCTAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTATCACCTA
Found at i:51864906 original size:31 final size:31
Alignment explanation
Indices: 51864832--51864938 Score: 136
Period size: 31 Copynumber: 3.6 Consensus size: 31
51864822 TACCTGATAT
* * * *
51864832 TGATTCTGATTTTGATTCTATTACCTGATAC
1 TGATTCTGATTCTGATTCTATCACCTAATTC
51864863 TGATTCTGATTCTGATTCTATCACCTAATTC
1 TGATTCTGATTCTGATTCTATCACCTAATTC
51864894 TGATTCT-A-----ATTCTATCACCTAATTC
1 TGATTCTGATTCTGATTCTATCACCTAATTC
51864919 TGATTCTGATTCTGATTCTA
1 TGATTCTGATTCTGATTCTA
51864939 GTTCTGATAG
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
25 24 0.36
26 1 0.02
30 1 0.02
31 40 0.61
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (31 bp):
TGATTCTGATTCTGATTCTATCACCTAATTC
Found at i:51864917 original size:13 final size:13
Alignment explanation
Indices: 51864877--51864919 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
51864867 TCTGATTCTG
51864877 ATTCTATCACCTA
1 ATTCTATCACCTA
*
51864890 ATTCTGAT--TCTA
1 ATTCT-ATCACCTA
51864902 ATTCTATCACCTA
1 ATTCTATCACCTA
51864915 ATTCT
1 ATTCT
51864920 GATTCTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 2 0.08
12 8 0.32
13 13 0.52
14 2 0.08
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTCTATCACCTA
Found at i:51866330 original size:20 final size:21
Alignment explanation
Indices: 51866287--51866332 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
51866277 GAGCTTCGTC
*
51866287 GAGCTCAAATCCAACTTATTT
1 GAGCTCAAATCCAACTTATCT
* *
51866308 GAGCTC-AATCCATCTTGTCT
1 GAGCTCAAATCCAACTTATCT
51866328 GAGCT
1 GAGCT
51866333 AAACCGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (21 bp):
GAGCTCAAATCCAACTTATCT
Found at i:51866385 original size:19 final size:19
Alignment explanation
Indices: 51866363--51866404 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
51866353 TCACTTTCAA
51866363 CTCACGAGCTAAACCTTAG
1 CTCACGAGCTAAACCTTAG
*
51866382 CTCACGAGCTAAAGCTTAG
1 CTCACGAGCTAAACCTTAG
51866401 CTCA
1 CTCA
51866405 TTTTAGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (19 bp):
CTCACGAGCTAAACCTTAG
Found at i:51867991 original size:30 final size:30
Alignment explanation
Indices: 51867957--51868053 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
51867947 TAAACTAAAA
*
51867957 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
* * * * * *
51867987 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCATGAGCTAAAGT
* *
51868017 TGAGCTAAGGTTTAGCTCATGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCATGAGCT-AAAGT
51868047 TGAGCTA
1 TGAGCTA
51868054 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
Found at i:51870352 original size:30 final size:30
Alignment explanation
Indices: 51870281--51870362 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
51870271 CTTTTGTTTC
* *
51870281 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
51870312 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
51870341 ATTTTCTTTTTCATTTTCTTTT
1 AATTTCTTTTTC-TTCTCTTTT
51870363 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 31 0.70
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.63
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:51870380 original size:12 final size:12
Alignment explanation
Indices: 51870365--51870395 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
51870355 TTTCTTTTGC
51870365 TTTTCAAAGGCT
1 TTTTCAAAGGCT
51870377 TTTTCAAAGGCT
1 TTTTCAAAGGCT
51870389 TTTTCAA
1 TTTTCAA
51870396 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:51870453 original size:5 final size:5
Alignment explanation
Indices: 51870443--51870505 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
51870433 CTCTTGCCTC
*
51870443 TCTTT TCTTT T-TATT TCATTT TCTTTT TCTTT T-TCT TCTTT TGCTTTT
1 TCTTT TCTTT TCT-TT TC-TTT TC-TTT TCTTT TCTTT TCTTT T-C-TTT
51870491 TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT
51870506 ATTTTCTCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
4 4 0.08
5 29 0.59
6 11 0.22
7 5 0.10
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (5 bp):
TCTTT
Found at i:51870465 original size:6 final size:6
Alignment explanation
Indices: 51870456--51870505 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
51870446 TTTCTTTTTA
*
51870456 TTTCAT TTTCTT TTTCTT TTTCTTCT TTTGCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTC-T-T TTT-CTT TTTCTT TTTCTT TTTCTT
51870505 T
1 T
51870506 ATTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 18 0.46
7 5 0.13
8 5 0.13
9 1 0.03
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:51870489 original size:21 final size:20
Alignment explanation
Indices: 51870445--51870505 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 20
51870435 CTTGCCTCTC
51870445 TTTTCTTTTTATTTCATTTTCT
1 TTTTCTTTTT-TTTC-TTTTCT
*
51870467 TTTTCTTTTTCTTCTTTTGCT
1 TTTTCTTTTTTTTCTTTT-CT
51870488 TTTTCTTTTCTTTTCTTT
1 TTTTCTTTT-TTTTCTTT
51870506 ATTTTCTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.11
21 14 0.40
22 17 0.49
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTCTTTTTTTTCTTTTCT
Found at i:51873082 original size:30 final size:30
Alignment explanation
Indices: 51873048--51873144 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
51873038 TAAACTAAAA
*
51873048 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGTTAAAGT
* * * * * *
51873078 TGAGCTGAGGC-TAAACTCCTAAGTTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGTTAAAGT
*
51873108 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGTT-AAAGT
51873138 TGAGCTA
1 TGAGCTA
51873145 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGTTAAAGT
Found at i:51876199 original size:15 final size:15
Alignment explanation
Indices: 51876153--51876200 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
51876143 AAACCTACAA
*
51876153 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
51876168 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
51876182 AAACTTCATATCCAT
1 AAACTTCATATCCAT
51876197 AAAC
1 AAAC
51876201 CCACCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:51882452 original size:29 final size:29
Alignment explanation
Indices: 51882419--51882478 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
51882409 ATAACCAAAC
* *
51882419 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
51882448 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
51882477 CT
1 CT
51882479 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:51882471 original size:15 final size:15
Alignment explanation
Indices: 51882425--51882472 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
51882415 AAACCTACAA
*
51882425 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
51882440 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
51882454 AAACTTCATATCCAT
1 AAACTTCATATCCAT
51882469 AAAC
1 AAAC
51882473 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:51882710 original size:10 final size:10
Alignment explanation
Indices: 51882695--51882732 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
51882685 GTAAGTTTAA
*
51882695 AAAAAAATCG
1 AAAAAAATTG
51882705 AAAAAAATTG
1 AAAAAAATTG
51882715 AAAAAAAATTG
1 -AAAAAAATTG
51882726 AAAAAAA
1 AAAAAAA
51882733 AACAAAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.13
Consensus pattern (10 bp):
AAAAAAATTG
Found at i:51882710 original size:11 final size:11
Alignment explanation
Indices: 51882694--51882733 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
51882684 AGTAAGTTTA
*
51882694 AAAAAAAATCG
1 AAAAAAAATTG
51882705 -AAAAAAATTG
1 AAAAAAAATTG
51882715 AAAAAAAATTG
1 AAAAAAAATTG
51882726 AAAAAAAA
1 AAAAAAAA
51882734 ACAAAATCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:51882739 original size:21 final size:21
Alignment explanation
Indices: 51882694--51882739 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
51882684 AGTAAGTTTA
***
51882694 AAAAAAAATCGAAAAAAATTG
1 AAAAAAAATCGAAAAAAAAAC
*
51882715 AAAAAAAATTGAAAAAAAAAC
1 AAAAAAAATCGAAAAAAAAAC
51882736 AAAA
1 AAAA
51882740 TCTGAAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (21 bp):
AAAAAAAATCGAAAAAAAAAC
Found at i:51883649 original size:12 final size:12
Alignment explanation
Indices: 51883634--51883667 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
51883624 CTTGAAAGAG
* *
51883634 ATTGAGAAAGTC
1 ATTGAAAAAGCC
51883646 ATTGAAAAAGCC
1 ATTGAAAAAGCC
51883658 ATTGAAAAAG
1 ATTGAAAAAG
51883668 AAAAAGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.21
Consensus pattern (12 bp):
ATTGAAAAAGCC
Found at i:51887020 original size:15 final size:15
Alignment explanation
Indices: 51886974--51887021 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
51886964 AAACCTACAA
*
51886974 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
51886989 AAA-TCCATCTGCAT
1 AAACTTCATATCCAT
51887003 AAACTTCATATCCAT
1 AAACTTCATATCCAT
51887018 AAAC
1 AAAC
51887022 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:51888394 original size:30 final size:30
Alignment explanation
Indices: 51888299--51888395 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
51888289 AGCTCACTCC
* *
51888299 TAGCTC-ACTTTCAACTCACGAGCTAAACGT
1 TAGCTCAACTTT-AGCTCACGAGCTAAACCT
* * * * * *
51888329 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
*
51888359 CAGCTCAACTTTAGCTCACGAGCTAAACCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
51888389 TAGCTCA
1 TAGCTCA
51888396 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 46 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:51891325 original size:30 final size:30
Alignment explanation
Indices: 51891240--51891336 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
51891230 AAACTAAAAA
* * *
51891240 TGAGTTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
51891270 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
51891300 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
51891329 ATGAGCTA
1 -TGAGCTA
51891337 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:51892324 original size:22 final size:22
Alignment explanation
Indices: 51892296--51892339 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
51892286 AGTTGTGTTT
51892296 CAAATTCATTATTTCTTTCTAA
1 CAAATTCATTATTTCTTTCTAA
51892318 CAAATTCATTATTTCTTTCTAA
1 CAAATTCATTATTTCTTTCTAA
51892340 AACCAAACCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (22 bp):
CAAATTCATTATTTCTTTCTAA
Found at i:51894238 original size:24 final size:24
Alignment explanation
Indices: 51894179--51894245 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 24
51894169 AAATTGGCAG
51894179 AAAAAGTAGAAGAAAAAAAGAGTGAA
1 AAAAAG-A-AAGAAAAAAAGAGTGAA
*
51894205 AAAGAA-AAAGACAAAAAA-ATTGAA
1 AAA-AAGAAAGA-AAAAAAGAGTGAA
*
51894229 AAAAAGAAAGGAAAAAA
1 AAAAAGAAAGAAAAAAA
51894246 TGAGAGAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 8 0.22
24 16 0.44
25 7 0.19
26 3 0.08
27 2 0.06
ACGTcount: A:0.75, C:0.01, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAAAGAAAGAAAAAAAGAGTGAA
Found at i:51896137 original size:14 final size:14
Alignment explanation
Indices: 51896118--51896144 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51896108 CAGCTGAATG
51896118 AATGACTCTTGAAA
1 AATGACTCTTGAAA
51896132 AATGACTCTTGAA
1 AATGACTCTTGAA
51896145 TTATCCCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (14 bp):
AATGACTCTTGAAA
Found at i:51897222 original size:19 final size:20
Alignment explanation
Indices: 51897193--51897231 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
51897183 AGAGCAGCAA
*
51897193 TAAAGGAGCTGCTGGTGCAT
1 TAAAGGAGCTGCTGATGCAT
51897213 TAAA-GAGCTGCTGATGCAT
1 TAAAGGAGCTGCTGATGCAT
51897232 AGAACAGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (20 bp):
TAAAGGAGCTGCTGATGCAT
Found at i:51898324 original size:14 final size:14
Alignment explanation
Indices: 51898305--51898349 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
51898295 AACTCATCTT
*
51898305 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
51898319 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
51898332 AATTTAATTTAATG
1 AGTTTAATTTAATG
51898346 AGTT
1 AGTT
51898350 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:51901115 original size:18 final size:18
Alignment explanation
Indices: 51901087--51901135 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
51901077 AAGAGAATGA
*
51901087 GAAAAAGGAAAGCGAAATT
1 GAAAAA-GAAAGCGAAAGT
* *
51901106 GAAAAAGAAAGTGAGAGT
1 GAAAAAGAAAGCGAAAGT
51901124 GAAGAAAGAAAG
1 GAA-AAAGAAAG
51901136 AAAAATGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.59, C:0.02, G:0.31, T:0.08
Consensus pattern (18 bp):
GAAAAAGAAAGCGAAAGT
Found at i:51901174 original size:6 final size:6
Alignment explanation
Indices: 51901163--51901196 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
51901153 GAGTGCAGCT
*
51901163 GAAAAA GAAAAA GAAAAT GAAAAA GAAAAA GAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAA
51901197 GTGAGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:51901185 original size:18 final size:18
Alignment explanation
Indices: 51901162--51901196 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
51901152 TGAGTGCAGC
51901162 TGAAAAAGAAAAAGAAAA
1 TGAAAAAGAAAAAGAAAA
51901180 TGAAAAAGAAAAAGAAA
1 TGAAAAAGAAAAAGAAA
51901197 GTGAGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (18 bp):
TGAAAAAGAAAAAGAAAA
Found at i:51903335 original size:10 final size:10
Alignment explanation
Indices: 51903320--51903346 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
51903310 TAAGTTGAAG
51903320 TTGAGCTGAT
1 TTGAGCTGAT
51903330 TTGAGCTGAT
1 TTGAGCTGAT
51903340 TTGAGCT
1 TTGAGCT
51903347 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:51907830 original size:30 final size:30
Alignment explanation
Indices: 51907745--51907841 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
51907735 TAAACTAAAA
* *
51907745 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
51907775 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
51907805 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
51907834 ATGAGCTA
1 -TGAGCTA
51907842 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:51910149 original size:30 final size:30
Alignment explanation
Indices: 51910078--51910160 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
51910068 CTTTTGTTTT
* *
51910078 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
51910109 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
51910138 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
51910161 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:51910160 original size:18 final size:18
Alignment explanation
Indices: 51910111--51910166 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
51910101 CACTCTCAAA
* *
51910111 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
51910128 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
51910146 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
51910165 TT
1 TT
51910167 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:51910167 original size:12 final size:12
Alignment explanation
Indices: 51910136--51910160 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51910126 TTTTTCAATC
51910136 TCATTTTCTTTT
1 TCATTTTCTTTT
51910148 TCATTTTCTTTT
1 TCATTTTCTTTT
51910160 T
1 T
51910161 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:51910239 original size:5 final size:5
Alignment explanation
Indices: 51910229--51910285 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
51910219 CTTTTGCCTC
*
51910229 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
51910276 TCTTT TCTTT
1 TCTTT TCTTT
51910286 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:51910269 original size:15 final size:14
Alignment explanation
Indices: 51910229--51910285 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
51910219 CTTTTGCCTC
*
51910229 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
51910244 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
51910259 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
51910276 TCTTTTCTTT
1 TCTTTTCTTT
51910286 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:51910295 original size:21 final size:20
Alignment explanation
Indices: 51910227--51910296 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
51910217 GCCTTTTGCC
51910227 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
51910250 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
51910270 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
51910290 TCTCTTT
1 TCTCTTT
51910297 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Done.