Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 54 of 427
Found at i:13119941 original size:13 final size:13
Alignment explanation
Indices: 13119904--13119954 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
13119894 TTTGGCAATG
13119904 CTTTTGAAAAGT-
1 CTTTTGAAAAGTA
* *
13119916 GTTGTGAAAAAGTA
1 CTTTTG-AAAAGTA
* *
13119930 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
13119943 CTTTTGAAAAGT
1 CTTTTGAAAAGT
13119955 TTGGTTTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
12 4 0.13
13 22 0.73
14 4 0.13
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:13125599 original size:21 final size:21
Alignment explanation
Indices: 13125560--13125600 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13125550 AATTAACTTA
**
13125560 AAATTTTATTTTATTTTTTTC
1 AAATTTTATTTTAAGTTTTTC
*
13125581 AAATTTTTTTTTAAGTTTTT
1 AAATTTTATTTTAAGTTTTT
13125601 ACAACGAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
AAATTTTATTTTAAGTTTTTC
Found at i:13130592 original size:3 final size:3
Alignment explanation
Indices: 13130584--13130688 Score: 56
Period size: 3 Copynumber: 35.3 Consensus size: 3
13130574 TATTTTTACT
* *
13130584 TTA TTA TTA TTG TTA TTA TTA TTTA TTA TT- TATA TTA TTA TT- TAA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA
* ** * * * * *
13130629 TTA GTA TTA GAA TTA CTAA CTA -TA ATA TGA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
13130674 TTA -TG TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
13130689 AATATTCCTT
Statistics
Matches: 75, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
2 5 0.07
3 64 0.85
4 6 0.08
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:13130611 original size:19 final size:19
Alignment explanation
Indices: 13130587--13130627 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
13130577 TTTTACTTTA
13130587 TTATTATTGT-TATTATTAT
1 TTATTATT-TATATTATTAT
13130606 TTATTATTTATATTATTAT
1 TTATTATTTATATTATTAT
13130625 TTA
1 TTA
13130628 ATTAGTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTATTATTTATATTATTAT
Found at i:13130684 original size:11 final size:11
Alignment explanation
Indices: 13130584--13130720 Score: 66
Period size: 11 Copynumber: 11.7 Consensus size: 11
13130574 TATTTTTACT
*
13130584 TTATTATTATTG
1 TTATTATTA-TA
13130596 TTATTATTAT-
1 TTATTATTATA
13130606 TTATTATTTATA
1 TTATTA-TTATA
13130618 TTATTATT-TAA
1 TTATTATTAT-A
* *
13130629 TTAGTATTAGAA
1 TTATTATTA-TA
*
13130641 TTACTAACTATAATA
1 TTA-T---TATTATA
*
13130656 TGATTATTAATA
1 TTATTATT-ATA
*
13130668 TTATTATTATG
1 TTATTATTATA
13130679 TTATTATTATA
1 TTATTATTATA
* *
13130690 ATATTCCTT-TA
1 TTATT-ATTATA
13130701 TTTACTTATTAT-
1 -TTA-TTATTATA
13130713 TTATTATT
1 TTATTATT
13130721 CTACCCACAT
Statistics
Matches: 97, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
10 12 0.12
11 39 0.40
12 35 0.36
13 3 0.03
14 1 0.01
15 3 0.03
16 4 0.04
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (11 bp):
TTATTATTATA
Found at i:13133069 original size:17 final size:17
Alignment explanation
Indices: 13133047--13133087 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
13133037 TAGAGGGGTC
13133047 ATGATTAAAGTTTTATT
1 ATGATTAAAGTTTTATT
** *
13133064 ATGATTATTGTTTTGTT
1 ATGATTAAAGTTTTATT
13133081 ATGATTA
1 ATGATTA
13133088 TTGTTGAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (17 bp):
ATGATTAAAGTTTTATT
Found at i:13133088 original size:17 final size:17
Alignment explanation
Indices: 13133056--13133092 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
13133046 CATGATTAAA
13133056 GTTTTATTATGATTATT
1 GTTTTATTATGATTATT
*
13133073 GTTTTGTTATGATTATT
1 GTTTTATTATGATTATT
13133090 GTT
1 GTT
13133093 GAAACTCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (17 bp):
GTTTTATTATGATTATT
Found at i:13136671 original size:31 final size:32
Alignment explanation
Indices: 13136636--13136718 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
13136626 CTTCCTGCAT
* *
13136636 TAAAATCCAACCAAATACAACAAATATA-ATA
1 TAAAATACAACCAAAAACAACAAATATACATA
* * * *
13136667 TAAAATGCAGCCAAAAACAGCAAATTTAGCATA
1 TAAAATACAACCAAAAACAACAAATATA-CATA
*
13136700 AAAAATACAACCAAAAACA
1 TAAAATACAACCAAAAACA
13136719 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 23 0.55
33 19 0.45
ACGTcount: A:0.60, C:0.19, G:0.05, T:0.16
Consensus pattern (32 bp):
TAAAATACAACCAAAAACAACAAATATACATA
Found at i:13140009 original size:40 final size:41
Alignment explanation
Indices: 13139960--13140116 Score: 196
Period size: 40 Copynumber: 3.9 Consensus size: 41
13139950 GTTTTTTAAG
*
13139960 AAAATGCCGCTATTACTCAG-TTTTAGCGGCGTTTGGACCA
1 AAAACGCCGCTATTACTCAGTTTTTAGCGGCGTTTGGACCA
* * *
13140000 AAAACGCCGCTATTTCTAAGTTTTTAGCGGCATTTGGACCA
1 AAAACGCCGCTATTACTCAGTTTTTAGCGGCGTTTGGACCA
* *
13140041 AAAACGCCGCTATTACTCA-ATTTTAGCGGCGTTTTTG-CTC-
1 AAAACGCCGCTATTACTCAGTTTTTAGCGGCG-TTTGGAC-CA
*
13140081 CAAACGCCGCTATTACTCAGTTTTTTAGCGGCGTTT
1 AAAACGCCGCTATTACTCAG-TTTTTAGCGGCGTTT
13140117 TTGTGCAAAC
Statistics
Matches: 101, Mismatches: 11, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
40 46 0.46
41 44 0.44
42 11 0.11
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (41 bp):
AAAACGCCGCTATTACTCAGTTTTTAGCGGCGTTTGGACCA
Found at i:13140103 original size:81 final size:82
Alignment explanation
Indices: 13139960--13140112 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 82
13139950 GTTTTTTAAG
* * *
13139960 AAAATGCCGCTATTACTCAGTTTTAGCGGCGTTTGGACCAAAAACGCCGCTATTTCTAAG-TTTT
1 AAAACGCCGCTATTACTCAATTTTAGCGGCGTTTGGACCAAAAACGCCGCTATTACTAAGTTTTT
13140024 TAGCGGCATTTGGACCA
66 TAGCGGCATTTGGACCA
* * *
13140041 AAAACGCCGCTATTACTCAATTTTAGCGGCGTTTTTG-CTC-CAAACGCCGCTATTACTCAGTTT
1 AAAACGCCGCTATTACTCAATTTTAGCGGCG-TTTGGAC-CAAAAACGCCGCTATTACTAAGTTT
13140104 TTTAGCGGC
64 TTTAGCGGC
13140113 GTTTTTGTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
81 47 0.75
82 16 0.25
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (82 bp):
AAAACGCCGCTATTACTCAATTTTAGCGGCGTTTGGACCAAAAACGCCGCTATTACTAAGTTTTT
TAGCGGCATTTGGACCA
Found at i:13140786 original size:19 final size:18
Alignment explanation
Indices: 13140739--13140786 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
13140729 GAAGGACATA
13140739 AATTTAAAAATTAAAAAT
1 AATTTAAAAATTAAAAAT
*
13140757 -ATCTTAAAAAATAAAAATT
1 AAT-TTAAAAATTAAAAA-T
13140776 AATTTAGAAAA
1 AATTTA-AAAA
13140787 ACCGAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.08
18 13 0.52
19 4 0.16
20 6 0.24
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
AATTTAAAAATTAAAAAT
Found at i:13141955 original size:138 final size:140
Alignment explanation
Indices: 13141657--13142076 Score: 601
Period size: 141 Copynumber: 3.0 Consensus size: 140
13141647 CTCTTGGAGG
* * *
13141657 AAGAGAGTTTGTCTCTTTTTAGAGGACGCACTTGTATAGATGAAGAGATTGACGTGAGTCTCATT
1 AAGAGAGTTTGTCTCTTTTTAGAGGAGGGACTTGTATAGATGAAGAGATTGACGTGGGTCTCATT
* * * * * * *
13141722 GTGCTAGCGATTTATTTTGTAAAATTAGTAGTAAGATTAGAGAGAGTCTTTTTAAGCTATGACTT
66 GTGCTAGTGATTTATCTCGTAAGATTAGTAGTAGGATTA-AGAGAGTCTTTTCAAGCTATGACCT
*
13141787 AATGATAGCAT
130 AATGGTAGCAT
*
13141798 AAGAGAGTTTGTCTCTTTTTAGAGGAGGGACTTGTATAGATGAAGAGATTG-TGTGGGTCTCATT
1 AAGAGAGTTTGTCTCTTTTTAGAGGAGGGACTTGTATAGATGAAGAGATTGACGTGGGTCTCATT
* * *
13141862 GTCCTAGTGATTTATCTCGTAAGATTAGTAGCAGGATT-AGAGAGTCTTTTCAAGTTATGACCTA
66 GTGCTAGTGATTTATCTCGTAAGATTAGTAGTAGGATTAAGAGAGTCTTTTCAAGCTATGACCTA
13141926 ATGGTAGCAT
131 ATGGTAGCAT
* * *
13141936 AAGAGAGTTTGACTCTTTTTAGAGGAGGGACTTGTATAGACGAAGAGATTGACGTAGGTCTCATT
1 AAGAGAGTTTGTCTCTTTTTAGAGGAGGGACTTGTATAGATGAAGAGATTGACGTGGGTCTCATT
* * * * *
13142001 ATGCTAGTGATTTATCTCATAAGTTTAGTAGTAGAATTAGAGAGAGTCTTTTCAAGCTATGACCA
66 GTGCTAGTGATTTATCTCGTAAGATTAGTAGTAGGATTA-AGAGAGTCTTTTCAAGCTATGACCT
13142066 AATGGTAGCAT
130 AATGGTAGCAT
13142077 GTGGAGTTGG
Statistics
Matches: 249, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
138 81 0.33
139 43 0.17
140 42 0.17
141 83 0.33
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.35
Consensus pattern (140 bp):
AAGAGAGTTTGTCTCTTTTTAGAGGAGGGACTTGTATAGATGAAGAGATTGACGTGGGTCTCATT
GTGCTAGTGATTTATCTCGTAAGATTAGTAGTAGGATTAAGAGAGTCTTTTCAAGCTATGACCTA
ATGGTAGCAT
Found at i:13147150 original size:8 final size:8
Alignment explanation
Indices: 13147132--13147162 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
13147122 TATTTAGTCC
13147132 TTTTAAAAA
1 TTTT-AAAA
13147141 TTTTAAAA
1 TTTTAAAA
13147149 TTTTAAAA
1 TTTTAAAA
13147157 TTTTAA
1 TTTTAA
13147163 TTTAGTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTTAAAA
Found at i:13150297 original size:31 final size:31
Alignment explanation
Indices: 13150262--13150334 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
13150252 AAAGGAATTC
13150262 CGGTAGCACAAA-GAGTAAAAGGGAGGGAAAT
1 CGGTAGCA-AAAGGAGTAAAAGGGAGGGAAAT
*
13150293 CGGTAGTAAAAGGAGTAAAAGGGAGGGAAAT
1 CGGTAGCAAAAGGAGTAAAAGGGAGGGAAAT
*
13150324 CAGTAGCAAAA
1 CGGTAGCAAAA
13150335 ATGGAGGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 3 0.08
31 35 0.92
ACGTcount: A:0.47, C:0.08, G:0.34, T:0.11
Consensus pattern (31 bp):
CGGTAGCAAAAGGAGTAAAAGGGAGGGAAAT
Found at i:13154117 original size:2 final size:2
Alignment explanation
Indices: 13154073--13154099 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13154063 AATTAAAATA
13154073 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13154100 AAAGAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13154367 original size:21 final size:22
Alignment explanation
Indices: 13154332--13154373 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
13154322 AATTTAGGTT
*
13154332 TTGATTTTTGAGTTTCGAATTA
1 TTGATTTTAGAGTTTCGAATTA
*
13154354 TTGA-TTTAGAGTTTTGAATT
1 TTGATTTTAGAGTTTCGAATT
13154374 TCAACTTTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.24, C:0.02, G:0.19, T:0.55
Consensus pattern (22 bp):
TTGATTTTAGAGTTTCGAATTA
Found at i:13158284 original size:4 final size:4
Alignment explanation
Indices: 13158277--13158302 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
13158267 ATTCATTCTT
13158277 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
13158303 CAAGTAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:13160188 original size:17 final size:17
Alignment explanation
Indices: 13160163--13160206 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
13160153 TTAAGTCCTA
*
13160163 ATACCCACTTGTTTAGT
1 ATACTCACTTGTTTAGT
13160180 ATACTCACTTGTTTAGT
1 ATACTCACTTGTTTAGT
*
13160197 AAACTCACTT
1 ATACTCACTT
13160207 TTGCACCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (17 bp):
ATACTCACTTGTTTAGT
Found at i:13161902 original size:23 final size:23
Alignment explanation
Indices: 13161858--13161903 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13161848 CTATATTTAG
**
13161858 AGTTTGTCATTATCATTGTCATT
1 AGTTTGTCATTATCATAATCATT
* *
13161881 AGTTTGTCATTGTCGTAATCATT
1 AGTTTGTCATTATCATAATCATT
13161904 GTCATTCTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.13, G:0.15, T:0.50
Consensus pattern (23 bp):
AGTTTGTCATTATCATAATCATT
Found at i:13163727 original size:2 final size:2
Alignment explanation
Indices: 13163720--13163760 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
13163710 TATATCTTAC
13163720 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13163761 TTGTTGTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13164058 original size:48 final size:48
Alignment explanation
Indices: 13164004--13164097 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
13163994 TTTCACGTAT
13164004 ATTGATACGTAAATCAATTATTGGTTGAATATAATTGATTGATTTTAC
1 ATTGATACGTAAATCAATTATTGGTTGAATATAATTGATTGATTTTAC
* * *
13164052 ATTGATATGTAAATTAATTATTGGTTGAATCTAATTGATTGATTTT
1 ATTGATACGTAAATCAATTATTGGTTGAATATAATTGATTGATTTT
13164098 GTTTTATGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (48 bp):
ATTGATACGTAAATCAATTATTGGTTGAATATAATTGATTGATTTTAC
Found at i:13165508 original size:54 final size:54
Alignment explanation
Indices: 13165426--13165534 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
13165416 AGCTTTAACC
*
13165426 CGGTTATCTATTACACATATTTGCTTTACAAGTTAGAAAGGGGAAGACAGGGAA
1 CGGTTATCTATTACACATATTTGCTTTACAAGTTAGAAAGGGCAAGACAGGGAA
13165480 CGGTTATCTATTACACATATTTGCTTTACAAGTTAGAAAGGGCAAGACAGGGAA
1 CGGTTATCTATTACACATATTTGCTTTACAAGTTAGAAAGGGCAAGACAGGGAA
13165534 C
1 C
13165535 ATCAGCGGTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (54 bp):
CGGTTATCTATTACACATATTTGCTTTACAAGTTAGAAAGGGCAAGACAGGGAA
Found at i:13171901 original size:16 final size:17
Alignment explanation
Indices: 13171869--13171901 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13171859 GGCCCTGCTT
*
13171869 AATTTTATAATTTATAA
1 AATTTTATAATTAATAA
13171886 AATTTTA-AATTAATAA
1 AATTTTATAATTAATAA
13171902 TAATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTTATAATTAATAA
Found at i:13172096 original size:34 final size:34
Alignment explanation
Indices: 13172058--13172123 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
13172048 TGTATCTGCT
* *
13172058 ACTGAATTATGCAAAAGCATTTTTTTTTAGTGTC
1 ACTGAATTATGCAAAACCATTTTTCTTTAGTGTC
*
13172092 ACTGAATTATGCAAAACCCTTTTTCTTTAGTG
1 ACTGAATTATGCAAAACCATTTTTCTTTAGTG
13172124 CGGTGATTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (34 bp):
ACTGAATTATGCAAAACCATTTTTCTTTAGTGTC
Found at i:13173621 original size:2 final size:2
Alignment explanation
Indices: 13173614--13173638 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13173604 TTCAGTAGTT
13173614 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13173639 GTAAGTCTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13174996 original size:34 final size:34
Alignment explanation
Indices: 13174956--13175025 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
13174946 TATCTATTAC
13174956 AATCGATGGAACACCTATAATTGGTTCTTCTATT
1 AATCGATGGAACACCTATAATTGGTTCTTCTATT
13174990 AATCGATGGAACACCTATAATTGGTTCTTCTATT
1 AATCGATGGAACACCTATAATTGGTTCTTCTATT
13175024 AA
1 AA
13175026 CCATTCTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (34 bp):
AATCGATGGAACACCTATAATTGGTTCTTCTATT
Found at i:13182318 original size:15 final size:15
Alignment explanation
Indices: 13182300--13182330 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13182290 TACATCAAGA
13182300 AACACAACATTTCTT
1 AACACAACATTTCTT
13182315 AACACAACATTTCTT
1 AACACAACATTTCTT
13182330 A
1 A
13182331 GTTCCAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (15 bp):
AACACAACATTTCTT
Found at i:13195139 original size:21 final size:21
Alignment explanation
Indices: 13195113--13195153 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
13195103 ATTGCCACTC
13195113 AGCAGACTTCACCAATAAAAT
1 AGCAGACTTCACCAATAAAAT
*
13195134 AGCAGATTTCACCAATAAAA
1 AGCAGACTTCACCAATAAAA
13195154 CATTTCATTA
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:0.49, C:0.22, G:0.10, T:0.20
Consensus pattern (21 bp):
AGCAGACTTCACCAATAAAAT
Found at i:13196677 original size:25 final size:24
Alignment explanation
Indices: 13196635--13196682 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
13196625 CCCATATATT
13196635 ATACTTTCAATTCTTTCACATTTA
1 ATACTTTCAATTCTTTCACATTTA
13196659 ATACATTTCAATGTC-TTCACATTT
1 ATAC-TTTCAAT-TCTTTCACATTT
13196683 TTCCCATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 16 0.73
26 2 0.09
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (24 bp):
ATACTTTCAATTCTTTCACATTTA
Found at i:13201177 original size:36 final size:36
Alignment explanation
Indices: 13201137--13201209 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
13201127 TCTTTCATTA
*
13201137 TTATTATATGTTATCATCACT-TTTTTTTTATT-CTTT
1 TTATTA-ATATTATCATCACTATTTTTTTT-TTACTTT
* *
13201173 TTATTAATATTATTATTACTATTTTTTTTTTACTTT
1 TTATTAATATTATCATCACTATTTTTTTTTTACTTT
13201209 T
1 T
13201210 ATACTATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 13 0.41
36 19 0.59
ACGTcount: A:0.22, C:0.08, G:0.01, T:0.68
Consensus pattern (36 bp):
TTATTAATATTATCATCACTATTTTTTTTTTACTTT
Found at i:13207875 original size:30 final size:31
Alignment explanation
Indices: 13207812--13207875 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
13207802 ATTTAACAAG
13207812 CAAATGCCTCTAAAATAATAAAAAAATTTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTTAA
*
13207843 CAAATGCCT-TCAAAATAATAACAAAA-TTAA
1 CAAATGCCTCT-AAAATAATAAAAAAATTTAA
13207873 CAA
1 CAA
13207876 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.58, C:0.16, G:0.03, T:0.23
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATAAAAAAATTTAA
Found at i:13209274 original size:18 final size:19
Alignment explanation
Indices: 13209245--13209280 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13209235 GTGAAAATTT
*
13209245 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
13209264 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
13209281 ATTTAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:13214590 original size:21 final size:21
Alignment explanation
Indices: 13214561--13214622 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
13214551 CCAAACATGC
* * * *
13214561 AACAAAAGCTTATAAGAGTTG
1 AACAGAAGCTCATAAGAGCTA
*
13214582 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* *
13214603 AACAGAAGCTCTTGAGAGCT
1 AACAGAAGCTCATAAGAGCT
13214623 GATCCACCCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:13214809 original size:17 final size:17
Alignment explanation
Indices: 13214789--13214827 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
13214779 GTATTAAATT
13214789 CAATAA-TATATTTCCAA
1 CAATAATTATA-TTCCAA
*
13214806 CAATAATTCTATTCCAA
1 CAATAATTATATTCCAA
13214823 CAATA
1 CAATA
13214828 GAACATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CAATAATTATATTCCAA
Found at i:13214839 original size:2 final size:2
Alignment explanation
Indices: 13214832--13214864 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13214822 ACAATAGAAC
13214832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13214865 CCAATCACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13214912 original size:2 final size:2
Alignment explanation
Indices: 13214907--13214941 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
13214897 ATTATATAGA
*
13214907 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13214942 ATACCAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:13223754 original size:50 final size:50
Alignment explanation
Indices: 13223679--13223804 Score: 234
Period size: 50 Copynumber: 2.5 Consensus size: 50
13223669 CCATGGTAAC
13223679 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
*
13223729 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
*
13223779 AAGTGATAAGGGATAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
13223805 CTGATCAGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
Found at i:13223809 original size:44 final size:46
Alignment explanation
Indices: 13223679--13223821 Score: 166
Period size: 50 Copynumber: 3.0 Consensus size: 46
13223669 CCATGGTAAC
13223679 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTA-AC---TCTGATCAAGGAAAAGTGA
*
13223729 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTA-AC---TCTGATCAAGGAAAAGTGA
*
13223779 AAGTGATAAGGGATAGCTTCGGCT-AC-CTGATC-AGTGAAAAGTG
1 AAGTGATAAGTGATAGCTTCGGCTAACTCTGATCAAG-GAAAAGTG
13223822 GTAGCTCTTG
Statistics
Matches: 89, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
43 2 0.02
44 14 0.16
48 2 0.02
50 71 0.80
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (46 bp):
AAGTGATAAGTGATAGCTTCGGCTAACTCTGATCAAGGAAAAGTGA
Found at i:13223827 original size:31 final size:31
Alignment explanation
Indices: 13223792--13223897 Score: 153
Period size: 31 Copynumber: 3.4 Consensus size: 31
13223782 TGATAAGGGA
13223792 TAGCTTCGGCTACCTGATCAGTGAAAAGTGG
1 TAGCTTCGGCTACCTGATCAGTGAAAAGTGG
*
13223823 TAGC-TCTTGCTACCTGATCAGTGAAAAGTGG
1 TAGCTTC-GGCTACCTGATCAGTGAAAAGTGG
* *
13223854 TAG-TACCGGCTACCTGATCAGTGAATAGTGG
1 TAGCT-TCGGCTACCTGATCAGTGAAAAGTGG
13223885 TAGCTTCGGCTAC
1 TAGCTTCGGCTAC
13223898 AAGTGACAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
30 2 0.03
31 62 0.94
32 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (31 bp):
TAGCTTCGGCTACCTGATCAGTGAAAAGTGG
Found at i:13224083 original size:49 final size:48
Alignment explanation
Indices: 13223930--13224102 Score: 147
Period size: 49 Copynumber: 3.6 Consensus size: 48
13223920 AAGACCATAT
* * * * * *
13223930 CTGGGATATGGCATCG-GTGTGATATATG-CTACTGTATAAGACTATAT
1 CTGGGATATGGCATCGAATGTGATATGTGATTAC-GTATAAAACAATAG
* * * *
13223977 CTGGGATATGGCATC-AGTGAGATATGTGATT-CGTGTAAAACCATAG
1 CTGGGATATGGCATCGAATGTGATATGTGATTACGTATAAAACAATAG
* * *
13224023 TTGGGCTATGGCATCGATATGTGATATGTGATTACGTATAATACAATAG
1 CTGGGATATGGCATCGA-ATGTGATATGTGATTACGTATAAAACAATAG
* *
13224072 CTGGGCTATGGCATCGATATATGAATATGTG
1 CTGGGATATGGCATCGA-ATGTG-ATATGTG
13224103 TAAGACCATA
Statistics
Matches: 104, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
46 23 0.22
47 27 0.26
48 14 0.13
49 33 0.32
50 7 0.07
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (48 bp):
CTGGGATATGGCATCGAATGTGATATGTGATTACGTATAAAACAATAG
Found at i:13224114 original size:42 final size:43
Alignment explanation
Indices: 13224068--13224172 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 43
13224058 GTATAATACA
*
13224068 ATAGCTGGGCTATGGCATCGA-TATATGAATATGTGTAAGACC
1 ATAGCTGGGCTATGGCATCGATTATATGAAGATGTGTAAGACC
*
13224110 ATAGCTGGGCTATGGCATC-ATTATGTGAAGATGTGTAAGACC
1 ATAGCTGGGCTATGGCATCGATTATATGAAGATGTGTAAGACC
* **
13224152 ATAGTTGAACTATGGCATCGA
1 ATAGCTGGGCTATGGCATCGA
13224173 GAAAACGAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
41 1 0.02
42 54 0.96
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (43 bp):
ATAGCTGGGCTATGGCATCGATTATATGAAGATGTGTAAGACC
Found at i:13227353 original size:30 final size:30
Alignment explanation
Indices: 13227317--13227380 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
13227307 AGAAAATTCA
13227317 CTTTACAAAAGCTGTTTATCTATCAACAAC
1 CTTTACAAAAGCTGTTTATCTATCAACAAC
13227347 CTTTACAAAAGCTGTTTATCTATCAACAAC
1 CTTTACAAAAGCTGTTTATCTATCAACAAC
13227377 CTTT
1 CTTT
13227381 CATTTTCTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.36
Consensus pattern (30 bp):
CTTTACAAAAGCTGTTTATCTATCAACAAC
Found at i:13230031 original size:41 final size:41
Alignment explanation
Indices: 13229974--13230057 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
13229964 CCTTCAAAAC
* * **
13229974 AATAGATTGCTGACATACTCACTAGAGGGTTTTTTAAGACA
1 AATAGATTGATGACATACTCACCAGAGGACTTTTTAAGACA
13230015 AATAGATTGATGACATACTCACCAGAGGACTTTTTAAGACA
1 AATAGATTGATGACATACTCACCAGAGGACTTTTTAAGACA
13230056 AA
1 AA
13230058 CTTTAGTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (41 bp):
AATAGATTGATGACATACTCACCAGAGGACTTTTTAAGACA
Found at i:13230897 original size:16 final size:15
Alignment explanation
Indices: 13230868--13230901 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
13230858 ATTTTATTTA
*
13230868 TTTTTTGAAAAATAT
1 TTTTTTAAAAAATAT
13230883 TTTTTTAAAAGAATAT
1 TTTTTTAAAA-AATAT
13230899 TTT
1 TTT
13230902 ATACCAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (15 bp):
TTTTTTAAAAAATAT
Found at i:13231560 original size:13 final size:13
Alignment explanation
Indices: 13231542--13231571 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
13231532 TGGAAAAGAA
13231542 AAGTACTTTTAAG
1 AAGTACTTTTAAG
13231555 AAGTACTTTTAAG
1 AAGTACTTTTAAG
13231568 AAGT
1 AAGT
13231572 GTTTTGAAAA
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:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (13 bp):
AAGTACTTTTAAG
Found at i:13237951 original size:11 final size:11
Alignment explanation
Indices: 13237935--13237974 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
13237925 GTAAGTACCA
13237935 GCTATTTCGTT
1 GCTATTTCGTT
*
13237946 GCTATTTTGTT
1 GCTATTTCGTT
* *
13237957 GTTGTTTCGTT
1 GCTATTTCGTT
13237968 GCTATTT
1 GCTATTT
13237975 TGCTACCATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.07, C:0.12, G:0.20, T:0.60
Consensus pattern (11 bp):
GCTATTTCGTT
Found at i:13237986 original size:22 final size:22
Alignment explanation
Indices: 13237938--13237989 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
13237928 AGTACCAGCT
* ***
13237938 ATTTCGTTGCTATTTTGTTGTT
1 ATTTCGTTGCTATTTTGCTACC
*
13237960 GTTTCGTTGCTATTTTGCTACC
1 ATTTCGTTGCTATTTTGCTACC
13237982 ATTTCGTT
1 ATTTCGTT
13237990 ATTATATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.10, C:0.15, G:0.17, T:0.58
Consensus pattern (22 bp):
ATTTCGTTGCTATTTTGCTACC
Found at i:13238113 original size:102 final size:102
Alignment explanation
Indices: 13237981--13238184 Score: 345
Period size: 102 Copynumber: 2.0 Consensus size: 102
13237971 ATTTTGCTAC
* * *
13237981 CATTTCGTTATTATATTATTACTGTTTTATTGTTATTATTTGGATATTGTATAACTCTTATTTCA
1 CATTTCATTATTATATTATTACTATTTTATTGTTATTATTTGGATATTGTATAAATCTTATTTCA
* * *
13238046 TTGTTAATTTTGCTACTCTTTTAGAGGCATTTGATTG
66 TTGTTAATTTTACTACTATTTTAGAGGCATTTAATTG
13238083 CATTTCATTATTATATTATTACTATTTTATTGTTATTATTTGGATATTGTATAAATCTTATTTCA
1 CATTTCATTATTATATTATTACTATTTTATTGTTATTATTTGGATATTGTATAAATCTTATTTCA
*
13238148 TTGTTAATTTTACTACTATTTTAGAGGTATTTAATTG
66 TTGTTAATTTTACTACTATTTTAGAGGCATTTAATTG
13238185 TTAAGTTGCA
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.55
Consensus pattern (102 bp):
CATTTCATTATTATATTATTACTATTTTATTGTTATTATTTGGATATTGTATAAATCTTATTTCA
TTGTTAATTTTACTACTATTTTAGAGGCATTTAATTG
Found at i:13242062 original size:43 final size:43
Alignment explanation
Indices: 13241942--13242085 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 43
13241932 ACCGAGATGT
* * * *
13241942 GATTACATGTAAGACCCTGTGTGAGACAGTGGCATTGTATTGT
1 GATTACATGTAAGACCCTGTGTGGGACAGTGGCATCGTAATGC
** *
13241985 GATTACATGTAAGACTATGTGTGGAACA-TAGGCATCGTTAAT-C
1 GATTACATGTAAGACCCTGTGTGGGACAGT-GGCATCG-TAATGC
* * * *
13242028 GATTTCGTGTAAGACCCTGTGTGGGATAGTGGCATCGATAA-GT
1 GATTACATGTAAGACCCTGTGTGGGACAGTGGCATCG-TAATGC
13242071 GA-TACATGTAAGACC
1 GATTACATGTAAGACC
13242086 ATATCAAGGA
Statistics
Matches: 80, Mismatches: 17, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
42 12 0.15
43 64 0.80
44 4 0.05
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCCTGTGTGGGACAGTGGCATCGTAATGC
Found at i:13250022 original size:23 final size:23
Alignment explanation
Indices: 13249989--13250034 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
13249979 GATATATTCC
13249989 ACTGAGAGCCAAATTCAACTATG
1 ACTGAGAGCCAAATTCAACTATG
*
13250012 ACTGAGTGCCAAATTCAACTATG
1 ACTGAGAGCCAAATTCAACTATG
13250035 TAAACTATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (23 bp):
ACTGAGAGCCAAATTCAACTATG
Found at i:13250272 original size:61 final size:61
Alignment explanation
Indices: 13250012--13250563 Score: 481
Period size: 61 Copynumber: 9.3 Consensus size: 61
13250002 TTCAACTATG
* * * *
13250012 ACTGAGTGCCAAATTCAACTATGTAAACTATGAAAGGAACTTAATTGACTCACTGAT-TTGT
1 ACTGAGAGCCAAATTCAGCTATGT-AACTATGAAAGGAACTGAATTGACTCACTGATATTCT
* * * * * ** *
13250073 ACTGGGAGCCGATTTCAG-TATGTAACTACGGAAGGAACTGGAATTGGTTGACTGATATAT-T
1 ACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACT-GAATTGACTCACTGATAT-TCT
* * * * * * * * *
13250134 ACTTAGAGCCAAAATCAGCTATGTAACTTTGGAAGGAACTTAATTGGCTCATTGATTTTAT
1 ACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGACTCACTGATATTCT
* * * * **
13250195 AC-AAGAGCCAAGTTCAGCTATCTAATTATGAAAGGGGCTGAATTGACTCACTGATATTCT
1 ACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGACTCACTGATATTCT
* * * *
13250255 ACTGAGAGCCAAATTCAGCTATGTATCTATGGAAGGAGCTGAATTGACTCACTGGTATTCT
1 ACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGACTCACTGATATTCT
* * * * *
13250316 ACTTAGAGCCAAATTTAGCTATCTAACTATGAAAGGAACTTAATTGACTCATTGATATTCT
1 ACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGACTCACTGATATTCT
* * * * * * * *
13250377 ATTGAGAGCCGAATTCAGTTATGTAGCTATGAAAGGAGCTGAATTGGCTCACTGTTATGCT
1 ACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGACTCACTGATATTCT
* * * *
13250438 ACTGAGAGCCAAATTCAGCTATCTAACTATGAAAGGAGCTGAGTTGGCTCACTG--A---T
1 ACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGACTCACTGATATTCT
* * * *
13250494 A-T----G-C-TATTCAGCTATGTAACCATGAAAGGAGCT-AATTGACTCACGGATATTCT
1 ACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGACTCACTGATATTCT
*
13250547 ACTGTGAGCCAAATTCA
1 ACTGAGAGCCAAATTCA
13250564 ATTATGTATT
Statistics
Matches: 393, Mismatches: 80, Indels: 37
0.77 0.16 0.07
Matches are distributed among these distances:
48 10 0.03
49 26 0.07
50 2 0.01
51 1 0.00
53 2 0.01
54 1 0.00
55 1 0.00
56 2 0.01
58 1 0.00
59 16 0.04
60 69 0.18
61 242 0.62
62 20 0.05
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (61 bp):
ACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGACTCACTGATATTCT
Found at i:13250442 original size:183 final size:182
Alignment explanation
Indices: 13250019--13250495 Score: 543
Period size: 183 Copynumber: 2.6 Consensus size: 182
13250009 ATGACTGAGT
* * * * * *
13250019 GCCAAATTCAACTATGTAAACTATGAAAGGAACTTAATTGACTCACTGATT-TG-TACTGGGAGC
1 GCCAAGTTCAGCTATCT-AACTATGAAAGGAGCTGAATTGACTCACTG-TTATGCTACTGAGAGC
* * * * * *
13250082 CGATTTCAG-TATGTAACTACGGAAGGAACTGGAATTGGTTGACTGATATATTACTTAGAGCCAA
64 CAAATTCAGCTATGTAACTATGGAAGGAGCT-GAATTGGCTCACTGATATATTACTTAGAGCCAA
* * * *
13250146 AATCAGCTATGTAACTTTGGAAGGAACTTAATTGGCTCATTGATTTTATACAAGA
128 AATCAGCTATCTAACTATGAAAGGAACTTAATTGACTCATTGATTTTATACAAGA
* * * *
13250201 GCCAAGTTCAGCTATCTAATTATGAAAGGGGCTGAATTGACTCACTGATATTCTACTGAGAGCCA
1 GCCAAGTTCAGCTATCTAACTATGAAAGGAGCTGAATTGACTCACTGTTATGCTACTGAGAGCCA
* * * *
13250266 AATTCAGCTATGTATCTATGGAAGGAGCTGAATTGACTCACTGGTAT-TCTACTTAGAGCCAAAT
66 AATTCAGCTATGTAACTATGGAAGGAGCTGAATTGGCTCACTGATATAT-TACTTAGAGCCAAAA
* **
13250330 TTAGCTATCTAACTATGAAAGGAACTTAATTGACTCATTGATATTCTAT-TGAGA
130 TCAGCTATCTAACTATGAAAGGAACTTAATTGACTCATTGAT-TT-TATACAAGA
* * * *
13250384 GCCGAA-TTCAGTTATGTAGCTATGAAAGGAGCTGAATTGGCTCACTGTTATGCTACTGAGAGCC
1 GCC-AAGTTCAGCTATCTAACTATGAAAGGAGCTGAATTGACTCACTGTTATGCTACTGAGAGCC
* * *
13250448 AAATTCAGCTATCTAACTATGAAAGGAGCTGAGTTGGCTCACTGATAT
65 AAATTCAGCTATGTAACTATGGAAGGAGCTGAATTGGCTCACTGATAT
13250496 GCTATTCAGC
Statistics
Matches: 247, Mismatches: 41, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
180 1 0.00
181 28 0.11
182 95 0.38
183 118 0.48
184 5 0.02
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (182 bp):
GCCAAGTTCAGCTATCTAACTATGAAAGGAGCTGAATTGACTCACTGTTATGCTACTGAGAGCCA
AATTCAGCTATGTAACTATGGAAGGAGCTGAATTGGCTCACTGATATATTACTTAGAGCCAAAAT
CAGCTATCTAACTATGAAAGGAACTTAATTGACTCATTGATTTTATACAAGA
Found at i:13250504 original size:49 final size:48
Alignment explanation
Indices: 13250450--13250543 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 48
13250440 TGAGAGCCAA
* * * *
13250450 ATTCAGCTATCTAACTATGAAAGGAGCTGAGTTGGCTCACTGATATGCT
1 ATTCAGCTATCTAACCATGAAAGGAGCT-AATTGACTCACGGATATGCT
*
13250499 ATTCAGCTATGTAACCATGAAAGGAGCTAATTGACTCACGGATAT
1 ATTCAGCTATCTAACCATGAAAGGAGCTAATTGACTCACGGATAT
13250544 TCTACTGTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 14 0.35
49 26 0.65
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (48 bp):
ATTCAGCTATCTAACCATGAAAGGAGCTAATTGACTCACGGATATGCT
Found at i:13251171 original size:19 final size:19
Alignment explanation
Indices: 13251149--13251186 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13251139 TTACTATTAC
13251149 CCACTGTAATCAAATTTGT
1 CCACTGTAATCAAATTTGT
13251168 CCACTGTAATCAAATTTGT
1 CCACTGTAATCAAATTTGT
13251187 TATTAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (19 bp):
CCACTGTAATCAAATTTGT
Found at i:13252757 original size:15 final size:15
Alignment explanation
Indices: 13252733--13252779 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
13252723 CAAATGCCCA
*
13252733 TTTCTCTCTTTTCTC
1 TTTCTTTCTTTTCTC
13252748 TTTCTTTCTTTTCT-
1 TTTCTTTCTTTTCTC
* *
13252762 TTTCTTTTTTTTTTC
1 TTTCTTTCTTTTCTC
13252777 TTT
1 TTT
13252780 TCTAATTTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTCTTTTCTC
Found at i:13252762 original size:5 final size:5
Alignment explanation
Indices: 13252739--13252782 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
13252729 CCCATTTCTC
*
13252739 TCTTT TCTCTT TC-TT TCTTT TCTTT TCTTTT TTTTT TCTTT TCT
1 TCTTT TCT-TT TCTTT TCTTT TCTTT TC-TTT TCTTT TCTTT TCT
13252783 AATTTGCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 4 0.12
5 22 0.65
6 8 0.24
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:13260017 original size:12 final size:12
Alignment explanation
Indices: 13260002--13260031 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13259992 AATAATTAAA
13260002 TAAATTAGAAAT
1 TAAATTAGAAAT
*
13260014 TAAATTGGAAAT
1 TAAATTAGAAAT
13260026 TAAATT
1 TAAATT
13260032 CAGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:13271691 original size:32 final size:32
Alignment explanation
Indices: 13271655--13271715 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
13271645 GATTAGACAA
*
13271655 TGTTATCGTATAGTTATTTTATATTTTTAAAG
1 TGTTATCGTATACTTATTTTATATTTTTAAAG
*
13271687 TGTTATTGTATACTTATTTTATATTTTTA
1 TGTTATCGTATACTTATTTTATATTTTTA
13271716 TAAAGAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (32 bp):
TGTTATCGTATACTTATTTTATATTTTTAAAG
Found at i:13273024 original size:61 final size:61
Alignment explanation
Indices: 13272940--13273508 Score: 642
Period size: 61 Copynumber: 9.3 Consensus size: 61
13272930 TCTCTCTGAT
* * * *
13272940 ATATTCCACTGAGAGCCAAATTCAACTATGTAAACTATGAAAGGAACTTAATTGACTCACTG
1 ATATTCTACTGAGAGCCAAATTCAGCTATGT-AACTATGAAAGGAACTGAATTGGCTCACTG
* * * * * * *
13273002 GT-TTGTACTGAGAACCGAATTCAG-TATGTAACTATGGAAGGAACTGGAATTGGTTGACTG
1 ATATTCTACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACT-GAATTGGCTCACTG
* * * * * *
13273062 ATATAT-TACTTAGAGCCAAAATCAGCTATGTAACTTTGGAAGGAACTTAATTGGCTCATTG
1 ATAT-TCTACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGGCTCACTG
* * * * * ** * *
13273123 ATTTTATAC-AAGAGCCCAATTCAGCTATCTAACTATGAAAGGGGCTGAATAGACTCACTG
1 ATATTCTACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGGCTCACTG
* * * * *
13273183 ATATTCTACTGAGAGCCAAATTCAGCTATGTATCTATGGAAGGAGCTGAATCGACTCACTG
1 ATATTCTACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGGCTCACTG
* * * *
13273244 ATATTCTACTTAGAGCCAAATTCAGCTATCTAACTATGAAAGGAACTTAATTGACTCACTG
1 ATATTCTACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGGCTCACTG
*
13273305 ATATTCTACTGAGAGCCGAATTCAGCTATGTAACTATGAAAGGAACTGAATTGGCTCACTG
1 ATATTCTACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGGCTCACTG
* ** * * *
13273366 ATATTCTACTGATAGTGAAATTCAGCTATCTAACTATGAAAGGAGCTGGATTGGCTCACTG
1 ATATTCTACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGGCTCACTG
* * * * * *
13273427 TTGTGCTACTGAGAGCCAAATTCAGTTATCTAACTATGAAAGGAGCTGAATTGGCTCACTG
1 ATATTCTACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGGCTCACTG
*
13273488 ATATGCTACTGAGAGCCAAAT
1 ATATTCTACTGAGAGCCAAAT
13273509 CCAACCATGT
Statistics
Matches: 429, Mismatches: 72, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
59 15 0.03
60 63 0.15
61 329 0.77
62 22 0.05
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (61 bp):
ATATTCTACTGAGAGCCAAATTCAGCTATGTAACTATGAAAGGAACTGAATTGGCTCACTG
Found at i:13275988 original size:34 final size:34
Alignment explanation
Indices: 13275945--13276012 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
13275935 ATCACACATG
13275945 ATACCTTCTTTCTATTCAAACCATATCTTCCATC
1 ATACCTTCTTTCTATTCAAACCATATCTTCCATC
*
13275979 ATACCTTCTTTCTATTCGAACCATATCTTCCATC
1 ATACCTTCTTTCTATTCAAACCATATCTTCCATC
13276013 TCCATATATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.32, G:0.01, T:0.41
Consensus pattern (34 bp):
ATACCTTCTTTCTATTCAAACCATATCTTCCATC
Found at i:13280900 original size:40 final size:40
Alignment explanation
Indices: 13280856--13280977 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
13280846 TGTTGCTACC
13280856 TTTATAACTAATAGAATGTATCATGTTATTTTTGTTTTCT
1 TTTATAACTAATAGAATGTATCATGTTATTTTTGTTTTCT
*
13280896 TTTATAAATAATAGAATGTATCATGTTATTTTTGTTTTCT
1 TTTATAACTAATAGAATGTATCATGTTATTTTTGTTTTCT
13280936 TTTATAACTAATAGAATGTATCATGTTATTTTTGTTTTCT
1 TTTATAACTAATAGAATGTATCATGTTATTTTTGTTTTCT
13280976 TT
1 TT
13280978 CTTTTTCTCT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.56
Consensus pattern (40 bp):
TTTATAACTAATAGAATGTATCATGTTATTTTTGTTTTCT
Found at i:13300291 original size:26 final size:26
Alignment explanation
Indices: 13300254--13300304 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
13300244 TATTATATAC
* *
13300254 ATTTTAAGCTATTATATGTATTATTT
1 ATTTTAAGCTATCATACGTATTATTT
13300280 ATTTT-AGTCTATCATACGTATTATT
1 ATTTTAAG-CTATCATACGTATTATT
13300305 ACGAAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (26 bp):
ATTTTAAGCTATCATACGTATTATTT
Found at i:13300728 original size:15 final size:15
Alignment explanation
Indices: 13300711--13300740 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
13300701 ATTTTAAATA
13300711 TTTACATATTATATAT
1 TTTACAT-TTATATAT
13300727 TTTACATTTATATA
1 TTTACATTTATATA
13300741 CATTATGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTACATTTATATAT
Found at i:13300973 original size:25 final size:27
Alignment explanation
Indices: 13300945--13301002 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 27
13300935 AAATACTTTC
13300945 ATTATTTATTGCAAACCTTTT-ATT-T
1 ATTATTTATTGCAAACCTTTTCATTAT
* *
13300970 ATTATTTATTTCAAGCCTTTTCATTAT
1 ATTATTTATTGCAAACCTTTTCATTAT
13300997 ATTATT
1 ATTATT
13301003 ATTTCGACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 19 0.66
26 3 0.10
27 7 0.24
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (27 bp):
ATTATTTATTGCAAACCTTTTCATTAT
Found at i:13301196 original size:2 final size:2
Alignment explanation
Indices: 13301189--13301230 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13301179 TCGAATATTC
13301189 AT AT AT 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 AT AT AT
13301231 TGTTTAAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13305710 original size:28 final size:28
Alignment explanation
Indices: 13305655--13305710 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
13305645 TAAATTAGAC
* * * * *
13305655 ATTTTTTTTCTAATGTGGTACTTGTATT
1 ATTTTTTATCTAATCTAGTACCTATATT
13305683 ATTTTTTATCTAATCTAGTACCTATATT
1 ATTTTTTATCTAATCTAGTACCTATATT
13305711 TGACAAAAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (28 bp):
ATTTTTTATCTAATCTAGTACCTATATT
Found at i:13306197 original size:6 final size:6
Alignment explanation
Indices: 13306178--13306225 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
13306168 CATCCTCTAT
** * * *
13306178 TCCCTA TCTTTA TCTCTA TCCCTA TCCCTA TCCCCA TCGCTA TCCCTA
1 TCCCTA TCCCTA TCCCTA TCCCTA TCCCTA TCCCTA TCCCTA TCCCTA
13306226 GCTATCCTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.44, G:0.02, T:0.38
Consensus pattern (6 bp):
TCCCTA
Found at i:13306209 original size:18 final size:18
Alignment explanation
Indices: 13306172--13306225 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
13306162 CCCTTTCATC
**
13306172 CTCTATTCCCTATCTTTAT
1 CTCTA-TCCCTATCCCTAT
13306191 CTCTATCCCTATCCCTAT
1 CTCTATCCCTATCCCTAT
* * *
13306209 CCCCATCGCTATCCCTA
1 CTCTATCCCTATCCCTA
13306226 GCTATCCTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.17, C:0.43, G:0.02, T:0.39
Consensus pattern (18 bp):
CTCTATCCCTATCCCTAT
Found at i:13306978 original size:12 final size:12
Alignment explanation
Indices: 13306961--13306994 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
13306951 TTATAAATAC
13306961 AATTTAAATATT
1 AATTTAAATATT
*
13306973 AATTTAACAAATT
1 AATTTAA-ATATT
13306986 AATTTAAAT
1 AATTTAAAT
13306995 TAATTAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (12 bp):
AATTTAAATATT
Found at i:13309694 original size:107 final size:108
Alignment explanation
Indices: 13309524--13309739 Score: 398
Period size: 107 Copynumber: 2.0 Consensus size: 108
13309514 AAAAAACACG
13309524 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAAGACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAAGACAATTTTGTTAGAAATTTTATTATTT
13309589 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
* *
13309632 TCAAAAATTTTAT-AGAGTAATTAACAAAAATTTTAATACAATTTTGTTTGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAAGACAATTTTGTTAGAAATTTTATTATTT
*
13309696 AAAACTTATTCTAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
13309739 T
1 T
13309740 TTTTTGTTTA
Statistics
Matches: 105, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 92 0.88
108 13 0.12
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (108 bp):
TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAAGACAATTTTGTTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:13311099 original size:35 final size:34
Alignment explanation
Indices: 13311023--13311099 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 34
13311013 CCCCCCCAAA
***
13311023 AAAAAAAAGAAAAACCTAACCCCCAAAAAAAAAG
1 AAAAAAAAGAAAAACCTAACCAAAAAAAAAAAAG
*
13311057 AAGAAAAAAGAAAAACCTAACCAAAAAATAAAAAAT
1 AA-AAAAAAGAAAAACCTAACCAAAAAA-AAAAAAG
13311093 AAAAAAA
1 AAAAAAA
13311100 CCTAGCCACC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 2 0.05
35 27 0.73
36 8 0.22
ACGTcount: A:0.75, C:0.14, G:0.05, T:0.05
Consensus pattern (34 bp):
AAAAAAAAGAAAAACCTAACCAAAAAAAAAAAAG
Found at i:13313633 original size:12 final size:12
Alignment explanation
Indices: 13313613--13313648 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
13313603 AGTCATTTGA
13313613 CATTCATGCATT
1 CATTCATGCATT
*
13313625 CATTTATGCATT
1 CATTCATGCATT
*
13313637 CATTCATTCATT
1 CATTCATGCATT
13313649 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:13320665 original size:71 final size:72
Alignment explanation
Indices: 13320527--13320684 Score: 232
Period size: 71 Copynumber: 2.2 Consensus size: 72
13320517 GAGTTAAGCC
* *
13320527 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
13320591 TGAGGTA
66 TGAGGTA
** *
13320598 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGTCACG
1 TTTTCAATTTTTGT-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
13320661 CTGAGGTA
65 CTGAGGTA
*
13320669 TTTTCAATTTCTGTTT
1 TTTTCAATTTTTGTTT
13320685 CAATTTACGT
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
70 2 0.03
71 45 0.57
72 28 0.35
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (72 bp):
TTTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTA
Found at i:13321136 original size:137 final size:140
Alignment explanation
Indices: 13320625--13321243 Score: 1096
Period size: 139 Copynumber: 4.5 Consensus size: 140
13320615 TTAATTTCAA
13320625 CTCATATTGCGAGA-GTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTG-TTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
13320688 TTTACG-TGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
13320752 TCAAAATCAG
131 TCAAAATCAG
13320762 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
13320827 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
13320892 TCAAAATCAG
131 TCAAAATCAG
*
13320902 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGG-ATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
13320966 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTAC-TTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
13321030 TC-AAATCAG
131 TCAAAATCAG
*
13321039 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT-ATTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
13321103 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
13321168 TCAAAATCAG
131 TCAAAATCAG
13321178 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGA-GTA-TTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
13321240 TCAA
62 TCAA
13321244 AAAAAAATTC
Statistics
Matches: 464, Mismatches: 7, Indels: 18
0.95 0.01 0.04
Matches are distributed among these distances:
137 128 0.28
138 68 0.15
139 144 0.31
140 113 0.24
141 11 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:13321366 original size:71 final size:72
Alignment explanation
Indices: 13321165--13321386 Score: 274
Period size: 71 Copynumber: 3.0 Consensus size: 72
13321155 AATTTCTACT
* ** * * *
13321165 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGA-GT-ATT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATT
13321226 TCAATTTCTG
63 TCAATTTCTG
13321236 TCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
1 T-TTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
13321301 ATTTCAATTTCTG
60 ATTTCAATTTCTG
13321314 TTTTCAAAATTCAACTCATATTGCGA-AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
13321378 ATTTCTG
66 ATTTCTG
13321385 TT
1 TT
13321387 CAAAATGAGT
Statistics
Matches: 135, Mismatches: 6, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
71 48 0.36
72 25 0.19
76 7 0.05
77 10 0.07
78 44 0.33
79 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:13321393 original size:49 final size:50
Alignment explanation
Indices: 13321339--13321442 Score: 192
Period size: 49 Copynumber: 2.1 Consensus size: 50
13321329 TCATATTGCG
*
13321339 AAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTC
1 AAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTC
13321388 AAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTC
1 AAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTC
13321438 AAAAT
1 AAAAT
13321443 TCAACTCATA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 45 0.85
50 8 0.15
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (50 bp):
AAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTC
Found at i:13321489 original size:120 final size:120
Alignment explanation
Indices: 13321269--13321506 Score: 415
Period size: 120 Copynumber: 2.0 Consensus size: 120
13321259 ATATTGCGAG
*
13321269 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
*
13321334 TTGCGAAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
13321389 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * *
13321453 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGA-AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
13321507 TTTCAAAAAA
Statistics
Matches: 112, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
119 25 0.22
120 87 0.78
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (120 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:13321574 original size:79 final size:76
Alignment explanation
Indices: 13321389--13321736 Score: 409
Period size: 74 Copynumber: 4.7 Consensus size: 76
13321379 TTTCTGTTCA
* *
13321389 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG--TTTC---AAAATTCAACT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACT
13321449 CATATTGCGAG
66 CATATTGCGAG
* *
13321460 AAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAAATCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC---AAAAAAAATCA
*
13321525 ACTCATATTGTGAG
63 ACTCATATTGCGAG
*
13321539 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTG-TTTT-AAAAAAAATCAACT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACT
13321602 CATATTGCGAG
66 CATATTGCGAG
** * * *
13321613 AGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC--TATGTC-AAAAAAATCAACT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACT
* *
13321675 CGTATTGTGAG
66 CATATTGCGAG
* * *
13321686 --ACGAGTTGAGCCTCAGGTCACACGCCGA-GTATTTTCAA-TTCTGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
13321737 TTTCTGCCTT
Statistics
Matches: 240, Mismatches: 22, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
71 59 0.25
72 9 0.04
73 40 0.17
74 64 0.27
78 4 0.02
79 64 0.27
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (76 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACT
CATATTGCGAG
Found at i:13321668 original size:153 final size:150
Alignment explanation
Indices: 13321389--13321668 Score: 407
Period size: 153 Copynumber: 1.8 Consensus size: 150
13321379 TTTCTGTTCA
* *
13321389 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTCAAAATTCAACTCATAT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTAAAAAATCAACTCATAT
* * * * * ***
13321454 TGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAA
66 TGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTATGTCAAAAAAAAAA
13321519 AAATCAACTCATATTGTGAG
131 AAATCAACTCATATTGTGAG
* *
13321539 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTAAAAAAAATCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTT--AAAAAATCAACTCA
**
13321604 TATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTATGTCAAAAAAA
63 TATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTATGTCAAAAAAA
13321669 TCAACTCGTA
Statistics
Matches: 113, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
150 43 0.38
151 3 0.03
153 67 0.59
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (150 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTAAAAAATCAACTCATAT
TGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTATGTCAAAAAAAAAA
AAATCAACTCATATTGTGAG
Found at i:13321810 original size:91 final size:91
Alignment explanation
Indices: 13321662--13321828 Score: 221
Period size: 90 Copynumber: 1.8 Consensus size: 91
13321652 TTTCTATGTC
* * *
13321662 AAAAAAATCAACTCGTATTGTGAGACGAGTTGAGCCTCAGGTCACACGCCGAGTATTTTCAA-TT
1 AAAAAAATCAACTCATATTGCGAGACGAGTTGAGCCTCAGCTCACACGCCGAGTATTTTCAATTT
*
13321726 CTGTTTTTCAATTTCTGCCTTTCAAA
66 CTGTCTTTCAATTTCTGCCTTTCAAA
* * * * *
13321752 AAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGTCT-TGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGA-CGAGTTGAGCCTCAGCTCACACGCCGAG-TATTTTCAAT
13321816 TTCTGTCTTTCAA
64 TTCTGTCTTTCAA
13321829 AAAATCAACT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
90 34 0.52
91 19 0.29
92 12 0.18
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (91 bp):
AAAAAAATCAACTCATATTGCGAGACGAGTTGAGCCTCAGCTCACACGCCGAGTATTTTCAATTT
CTGTCTTTCAATTTCTGCCTTTCAAA
Found at i:13321949 original size:76 final size:75
Alignment explanation
Indices: 13321752--13321949 Score: 245
Period size: 77 Copynumber: 2.6 Consensus size: 75
13321742 GCCTTTCAAA
* * * * *
13321752 AAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGTCTTGCTCACGCGCTGAGCTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGATCACACACTGAGCTATTTTCAATT
* *
13321817 TCTGTCTTTC
66 TATATCTTTC
* * *
13321827 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTTTTTTCAA
1 AAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTC-GATCACACACTGAGCTATTTTCAA
*
13321891 TTTATATTTTTC
64 TTTATATCTTTC
* *
13321903 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGTCACA
1 AAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGATCACA
13321950 TGTCGGTATT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
74 24 0.23
75 11 0.10
76 34 0.32
77 36 0.34
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGATCACACACTGAGCTATTTTCAATT
TATATCTTTC
Found at i:13321976 original size:13 final size:13
Alignment explanation
Indices: 13321958--13321992 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
13321948 CATGTCGGTA
13321958 TTTTCAAAATCTG
1 TTTTCAAAATCTG
* *
13321971 TTTTCAGATTCTG
1 TTTTCAAAATCTG
13321984 TTTTCAAAA
1 TTTTCAAAA
13321993 ATCAACTCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.49
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:13322066 original size:237 final size:236
Alignment explanation
Indices: 13321516--13322304 Score: 835
Period size: 241 Copynumber: 3.3 Consensus size: 236
13321506 TTTTCAAAAA
* * ** * *
13321516 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTATTTTCAA
** * * *
13321578 TTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA-GACACGCTGAG
65 TTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAATCACACACTGAG
* * * * *
13321642 GTAATTTCAATTTCTA-TGTCAAAAAAATCAACTCGTATTGTGAGA-CGAGTTGAGCCTCAGGTC
130 GTATTTTCAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTC-GGTC
* * * * *
13321705 ACACGCCGAGTATTTTC-AATTCTGTTTTTCAATTTCTGCCTTTC
194 ACATGTCGAGTATTTTCAAAATCTGCTTTTCAAGTTCTG--TTTC
* *
13321749 AAAAAAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGTCTT-GCTCACGCGCTGAGCTATTTT
1 ----AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
*
13321812 CAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACAC
62 CAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-ATCACACAC
* * *
13321877 TGAGGTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCT
126 TGAGGTATTTTCAATTTCTA-TTTTCAAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCT
13321942 CGGTCACATGTCG-GTATTTTCAAAATCTG-TTTTC-AGATTCTGTTTTC
189 CGGTCACATGTCGAGTATTTTCAAAATCTGCTTTTCAAG-TTCTG-TTTC
*
13321989 -AAAAATCAACTCATATTACGAGAAGTGAG-TGAGCCTTGGCTCACGTGCTGAGCTA-TTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
* **
13322051 TTCTGTTTTTTTCAAAAAAATTCAACTCATATTGCGAGA-GTGAGTTGAGCTTTTTAATTTCTGA
66 TTCTG--TTTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAA--TCACA
* * * *
13322115 GAGTTGA-GTGAGTCTTTTAATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTT
123 CA-CTGAGGT-A-T-TTTCAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGA-GTGAGTT
* * * **
13322177 GAACCTCAGTCACATATCGAGTATTTTCAAAATCTGCTTTTCAAGTTAAGTTTC
183 GAGCCTCGGTCACATGTCGAGTATTTTCAAAATCTGCTTTTCAAGTTCTGTTTC
*
13322231 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTA-TTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
13322295 TTCTGTTTTT
66 TTCTGTTTTT
13322305 AATGTCTGTT
Statistics
Matches: 474, Mismatches: 49, Indels: 53
0.82 0.09 0.09
Matches are distributed among these distances:
235 40 0.08
236 33 0.07
237 93 0.20
238 19 0.04
239 41 0.09
240 8 0.02
241 94 0.20
242 44 0.09
243 53 0.11
244 49 0.10
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (236 bp):
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
TTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAATCACACACTGAGG
TATTTTCAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGTCAC
ATGTCGAGTATTTTCAAAATCTGCTTTTCAAGTTCTGTTTC
Found at i:13322126 original size:27 final size:27
Alignment explanation
Indices: 13322086--13322140 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
13322076 CTCATATTGC
13322086 GAGAGTGAGTTGAG-CTTTTTAATTTCT
1 GAGAGTGAGTTGAGTC-TTTTAATTTCT
13322113 GAGAGTTGAG-TGAGTCTTTTAATTTCT
1 GAGAG-TGAGTTGAGTCTTTTAATTTCT
13322140 G
1 G
13322141 TTTTCAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (27 bp):
GAGAGTGAGTTGAGTCTTTTAATTTCT
Found at i:13322205 original size:157 final size:159
Alignment explanation
Indices: 13321808--13322206 Score: 383
Period size: 157 Copynumber: 2.5 Consensus size: 159
13321798 CGCTGAGCTA
*
13321808 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTTCAATTTCTGT-TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
* *
13321873 ACACTGAGGTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGA
64 ATACTGA-GTATTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGA
*
13321938 GCCTCGGTCACATGTCGGTATTTTCAAAATCTG
128 GCCTCGGTCACATGTCGGTATGTTCAAAATC-G
* * ** * *
13321971 TTTTCAGA-TTCTGTTTTCAAAAATCAACTCATATTACGAGAAGTGAG-TGAGCCTTGGCTCACG
1 TTTTCA-ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
* * * *
13322034 TGCTGAGCTA-TTTCAATTTCTGTTTTTTTCAAAAAAATTCAACTCATATTGCGAGA-GTGAGTT
65 TACTGAG-TATTTTCAA-TT-TATATTTTTCAAAAAAA-TCAACTCACATTGCGAGATGTGAGTT
** * * * * *
13322097 GAG-CT-TTTTA-ATTTCTGAG-A-GTTGAGTGAGTC-
126 GAGCCTCGGTCACATGTC-G-GTATGTTCA--AAATCG
*
13322129 TTTT-AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAG-TCACAT
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAT
13322192 A-TCGAGTATTTTCAA
66 ACT-GAGTATTTTCAA
13322207 AATCTGCTTT
Statistics
Matches: 195, Mismatches: 28, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
156 4 0.02
157 52 0.27
158 18 0.09
159 11 0.06
160 24 0.12
161 52 0.27
162 21 0.11
163 12 0.06
164 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (159 bp):
TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAT
ACTGAGTATTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCC
TCGGTCACATGTCGGTATGTTCAAAATCG
Found at i:13322299 original size:244 final size:237
Alignment explanation
Indices: 13321516--13322304 Score: 719
Period size: 237 Copynumber: 3.3 Consensus size: 237
13321506 TTTTCAAAAA
* * ** * *
13321516 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTA-TTTCAA
** * * *
13321578 TTTCTG--TTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACGCT
63 TTTCTGTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACT
** * * ** * * *
13321639 GAGGTAATTTCAATTTCTA--TGTCAAAAAAATCAACTCGTATTGTGAGA--CGAGTTGAGCCTC
128 GAGGTCTTTTCAATTTATAGTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAGTTGAACCTC
*** * ** *
13321700 AGGTCACACGCCGAGTATTTTC-AATTCTGTTTTTCA-ATTTCTGCCTTTC
192 A-GTCACATATCG-GTATTTTCAAAATCTG-TTTTCAGA-TTAAG-TTTTC
* *
13321749 AAAAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGTCTT-GCTCACGCGCTGAGCTATTTTC
1 ----AAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTA-TTTC
*
13321813 AATTTCTG--TCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACA
61 AATTTCTGTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACA
* * * *
13321876 CTGAGGTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCC
126 CTGAGGTCTTTTCAATTTATAGTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAGTTGAACC
* * **
13321941 TCGGTCACATGTCGGTATTTTCAAAATCTGTTTTCAGATTCTGTTTTC
190 TCAGTCACATATCGGTATTTTCAAAATCTGTTTTCAGATTAAGTTTTC
*
13321989 -AAAAATCAACTCATATTACGAGAAGTGAG-TGAGCCTTGGCTCACGTGCTGAGCTATTTCAATT
1 AAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTCAATT
* **
13322052 TCTGTTTTTTTCAAAAAAATTCAACTCATATTGCGAGA-GTGAGTTGAGCTTTTTA-ATTTCTGA
65 TCTGTTTTTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA--TCACA
* * * *
13322115 GAGTTGAGTGAGTCTTTT-AATTTCT-GTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTT
124 CA-CTGA--G-GTCTTTTCAATTTATAGTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTT
13322177 GAACCTCAGTCACATATCGAGTATTTTCAAAATCTGCTTTTCA-AGTTAAG-TTTC
185 GAACCTCAGTCACATATCG-GTATTTTCAAAATCTG-TTTTCAGA-TTAAGTTTTC
13322231 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTCAATT
1 AAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTCAATT
13322296 TCTGTTTTT
65 TCTGTTTTT
13322305 AATGTCTGTT
Statistics
Matches: 475, Mismatches: 47, Indels: 53
0.83 0.08 0.09
Matches are distributed among these distances:
235 40 0.08
236 33 0.07
237 93 0.20
238 19 0.04
239 41 0.09
240 7 0.01
241 93 0.20
242 41 0.09
243 52 0.11
244 50 0.11
245 6 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (237 bp):
AAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTCAATTT
CTGTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAG
GTCTTTTCAATTTATAGTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAACCTCAGTC
ACATATCGGTATTTTCAAAATCTGTTTTCAGATTAAGTTTTC
Found at i:13329530 original size:12 final size:12
Alignment explanation
Indices: 13329510--13329545 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
13329500 AGTCATTTGA
13329510 CATTCATGCATT
1 CATTCATGCATT
*
13329522 CATTTATGCATT
1 CATTCATGCATT
*
13329534 CATTCATTCATT
1 CATTCATGCATT
13329546 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:13336477 original size:72 final size:71
Alignment explanation
Indices: 13336356--13336521 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
13336346 GAGTTAAGCC
** * *
13336356 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
13336420 TGAGGTA
65 TGAGGTA
*
13336427 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
13336492 TGAGGTA
65 TGAGGTA
* *
13336499 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
13336522 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:13336624 original size:140 final size:140
Alignment explanation
Indices: 13336454--13337080 Score: 1168
Period size: 140 Copynumber: 4.5 Consensus size: 140
13336444 TTAATTTCAA
13336454 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
13336519 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
13336584 TCAAAATCAG
131 TCAAAATCAG
13336594 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
13336659 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
13336724 TCAAAATCAG
131 TCAAAATCAG
*
13336734 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
13336799 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
13336864 TC-AAATCAG
131 TCAAAATCAG
*
13336873 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTATTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
13336938 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
13337003 TCAAAATCAG
131 TCAAAATCAG
13337013 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
13337077 TCAA
62 TCAA
13337081 AAAAAAATTC
Statistics
Matches: 475, Mismatches: 7, Indels: 7
0.97 0.01 0.01
Matches are distributed among these distances:
139 137 0.29
140 310 0.65
142 22 0.05
143 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:13336934 original size:13 final size:13
Alignment explanation
Indices: 13336916--13336940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13336906 CACGCTGAGG
13336916 TATTTTCAATTTC
1 TATTTTCAATTTC
13336929 TATTTTCAATTT
1 TATTTTCAATTT
13336941 ATGTTGTTCA
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:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTCAATTTC
Found at i:13337000 original size:279 final size:280
Alignment explanation
Indices: 13336454--13337080 Score: 1168
Period size: 279 Copynumber: 2.2 Consensus size: 280
13336444 TTAATTTCAA
13336454 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
13336519 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
13336584 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
131 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
*
13336649 CTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAAT
196 CTATTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAAT
13336714 TTCTACTTTTTCAAAATCAG
261 TTCTACTTTTTCAAAATCAG
*
13336734 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
13336799 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
13336864 TC-AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
131 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
*
13336928 CTATTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAAT
196 CTATTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAAT
13336993 TTCTACTTTTTCAAAATCAG
261 TTCTACTTTTTCAAAATCAG
13337013 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
13337077 TCAA
62 TCAA
13337081 AAAAAAATTC
Statistics
Matches: 338, Mismatches: 5, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
278 2 0.01
279 178 0.53
280 130 0.38
281 22 0.07
282 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (280 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
CTATTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAAT
TTCTACTTTTTCAAAATCAG
Found at i:13337176 original size:72 final size:72
Alignment explanation
Indices: 13337000--13337224 Score: 283
Period size: 72 Copynumber: 3.0 Consensus size: 72
13336990 AATTTCTACT
* ** * * * *
13337000 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATT
13337063 TCAATTTCTG
63 TCAATTTCTG
13337073 TCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
1 T-TTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
13337138 ATTTCAATTTCTG
60 ATTTCAATTTCTG
*
13337151 TTTTCAAAATTCAACTCATATTGCGAAAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
13337216 ATTTCTG
66 ATTTCTG
13337223 TT
1 TT
13337225 CAAAATGAGT
Statistics
Matches: 136, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
72 68 0.50
73 1 0.01
74 4 0.03
77 4 0.03
78 24 0.18
79 4 0.03
80 30 0.22
81 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:13337235 original size:49 final size:49
Alignment explanation
Indices: 13337177--13337273 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
13337167 CATATTGCGA
*
13337177 AAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTC
1 AAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTC
13337226 AAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
13337274 TTCAAAATTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (49 bp):
AAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTC
Found at i:13337320 original size:121 final size:121
Alignment explanation
Indices: 13337106--13337345 Score: 426
Period size: 121 Copynumber: 2.0 Consensus size: 121
13337096 ATATTGCGAG
*
13337106 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
*
13337171 TTGCGAAAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
13337227 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * * *
13337292 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
13337346 TTTCAAAAAA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 113 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:13337397 original size:79 final size:76
Alignment explanation
Indices: 13337227--13337581 Score: 454
Period size: 79 Copynumber: 4.7 Consensus size: 76
13337217 TTTCTGTTCA
* *
13337227 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC---AAAATTCAACT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACT
13337288 CATATTGCGAG
66 CATATTGCGAG
* *
13337299 AAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAAATCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC---AAAAAAAATCA
*
13337364 ACTCATATTGTGAG
63 ACTCATATTGCGAG
*
13337378 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTT-AAAAAAAATCAACT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACT
13337442 CATATTGCGAG
66 CATATTGCGAG
** * * *
13337453 AGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT-ATTGTC-AAAAAAATCAACT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACT
* *
13337516 CGTATTGTGAG
66 CATATTGCGAG
*** * *
13337527 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
13337582 TTTCTGCCTT
Statistics
Matches: 250, Mismatches: 21, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
72 42 0.17
73 5 0.02
74 42 0.17
75 64 0.26
76 23 0.09
77 4 0.02
78 1 0.00
79 69 0.28
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (76 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACT
CATATTGCGAG
Found at i:13337508 original size:154 final size:148
Alignment explanation
Indices: 13337227--13337578 Score: 465
Period size: 151 Copynumber: 2.3 Consensus size: 148
13337217 TTTCTGTTCA
* * *
13337227 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTAAAAAATCAACTCAT
* * * * *
13337291 ATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAA
66 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGATTGTC----AA
13337356 AAAAATCAACTCATATTGTGAG
127 AAAAATCAACTCATATTGTGAG
*
13337378 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTAAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTT--AAAAAATCAACTC
**
13337443 ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT-ATTGTCAAAA
64 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGATTGTCAAAA
*
13337507 AAATCAACTCGTATTGTGAG
129 AAATCAACTCATATTGTGAG
*** * *
13337527 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTT
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTT
13337579 CAATTTCTGC
Statistics
Matches: 178, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
149 38 0.21
151 72 0.40
152 4 0.02
153 4 0.02
154 60 0.34
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (148 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTAAAAAATCAACTCAT
ATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGATTGTCAAAAAA
ATCAACTCATATTGTGAG
Found at i:13337580 original size:14 final size:14
Alignment explanation
Indices: 13337561--13337587 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13337551 CGCCGAGGTA
13337561 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
13337575 TTTTCAATTTCTG
1 TTTTCAATTTCTG
13337588 CCTTTCAAAA
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:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:13337593 original size:14 final size:14
Alignment explanation
Indices: 13337562--13337595 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13337552 GCCGAGGTAT
**
13337562 TTTCAATTTCTGTT
1 TTTCAATTTCTGCC
13337576 TTTCAATTTCTGCC
1 TTTCAATTTCTGCC
13337590 TTTCAA
1 TTTCAA
13337596 AAAAAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCC
Found at i:13337657 original size:94 final size:94
Alignment explanation
Indices: 13337503--13337675 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 94
13337493 TTCTATTGTC
* * *
13337503 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
*
13337568 TTTCTGTTTTTCAATTTCTGCCTTTCAAA
66 TTTCTGTCTTTCAATTTCTGCCTTTCAAA
* * * * *
13337597 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCGAGCTATTTTCA
13337661 ATTTCTGTCTTTCAA
65 ATTTCTGTCTTTCAA
13337676 AAAAATCAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 2 0.03
94 67 0.97
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (94 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
TTTCTGTCTTTCAATTTCTGCCTTTCAAA
Found at i:13337705 original size:77 final size:77
Alignment explanation
Indices: 13337597--13338168 Score: 370
Period size: 88 Copynumber: 7.0 Consensus size: 77
13337587 GCCTTTCAAA
* *
13337597 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
*
13337662 TTTCTGTCTTTC
66 TTTCTGTTTTTC
* * * *
13337674 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACACGCTGAGCTA--TTTT
* *
13337738 CAATTTATATTTTTC
63 CAATTTCTGTTTTTC
* * * * *
13337753 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGG-TCACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCT-GAGCTATTTTCA
**
13337816 AAATCTGTTTTTC
65 ATTTCTGTTTTTC
* * **
13337829 AGATTCTGTTTTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 A-A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGA
13337894 GCTATTTTCAATTTCTGTTTTTTTTC
55 GCTATTTTCAATTTCTG---TTTTTC
* ** * * * *
13337920 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTGTGAGA-GTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC---CT--TGGC--TCACACGCTGAGCT
*
13337984 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTGTTTTTC
* * ** *
13338007 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACACGCT-GAGCTATTTTC
*
13338068 AAAATCTGCTTTTCAAGTTAAGTTTC
64 --AA------TTTC-TGTT---TTTC
**
13338094 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
13338158 TTTCTGTTTTT
66 TTTCTGTTTTT
13338169 AATGTCTGTT
Statistics
Matches: 391, Mismatches: 55, Indels: 99
0.72 0.10 0.18
Matches are distributed among these distances:
75 3 0.01
76 23 0.06
77 58 0.15
78 15 0.04
79 55 0.14
80 11 0.03
81 29 0.07
83 4 0.01
84 33 0.08
85 5 0.01
86 4 0.01
87 53 0.14
88 76 0.19
89 3 0.01
90 12 0.03
91 7 0.02
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
TTTCTGTTTTTC
Found at i:13337786 original size:79 final size:76
Alignment explanation
Indices: 13337597--13337959 Score: 260
Period size: 79 Copynumber: 4.5 Consensus size: 76
13337587 GCCTTTCAAA
* * * *
13337597 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACTGAGCTATTTTCAA
* *
13337662 TTTCTGTCTTTC
65 TTTATATCTTTC
*
13337674 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-AGATCACACACTGAGCTA--TTTTC
*
13337739 AATTTATATTTTTC
63 AATTTATATCTTTC
* * * * * ** *
13337753 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGTCACA-TGTCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTAGATCACACACT-GAGCTATTTTC--
* *
13337817 AATCTGTTTTTCAGATTCTGTTT
63 AA------TTT-ATA-TCT-TTC
** * * * * ***
13337840 TCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACTGAGCTATTTTCAA
* * *
13337905 TTTCTGTTTTTTTTC
65 -TT-T-ATATCTTTC
13337920 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCTT
13337960 TTTAATTTCT
Statistics
Matches: 227, Mismatches: 40, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
76 8 0.04
77 50 0.22
78 14 0.06
79 52 0.23
80 10 0.04
81 32 0.14
82 1 0.00
84 3 0.01
85 2 0.01
86 4 0.02
87 33 0.15
88 17 0.07
89 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTAGATCACACACTGAGCTATTTTCAAT
TTATATCTTTC
Found at i:13337903 original size:243 final size:241
Alignment explanation
Indices: 13337355--13338168 Score: 930
Period size: 253 Copynumber: 3.3 Consensus size: 241
13337345 TTTTCAAAAA
* * ** * *
13337355 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTATTTTCAA
* * * *
13337417 TTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA-GACACGCTGA
65 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAATCACACACTGA
* * * * *
13337481 GGTA-ATTTCAATTTCTA-TTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCA
130 GGTATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-
* * ** *
13337544 GGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTC
194 GGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTG--TTTC
* * *
13337594 AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCACGCGCTGAGCTATTTT
1 ----AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
*
13337659 CAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACA
62 CAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-ATCACACA
* * *
13337724 CTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAG
126 CTGAGGTA-TTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
13337789 CCTCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTC-AGATTCTGTTTTC
190 CCTCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAG-TTCTG-TTTC
*
13337842 -AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
*
13337906 TTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTG
66 TTCTG---TTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAA--TC--
** * * * *
13337971 TGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGT
121 ACACA-CTGAGGT-A-T-TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGT
* * * * **
13338033 GAGTTGAACCTTCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAGTTTC
182 GAGTTGAGCC-TCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTGTTTC
*
13338094 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
13338159 TTCTGTTTTT
66 TTCTGTTTTT
13338169 AATGTCTGTT
Statistics
Matches: 494, Mismatches: 52, Indels: 43
0.84 0.09 0.07
Matches are distributed among these distances:
243 98 0.20
244 1 0.00
245 67 0.14
246 14 0.03
247 42 0.09
248 6 0.01
249 51 0.10
250 46 0.09
252 39 0.08
253 110 0.22
254 16 0.03
255 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (241 bp):
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAATCACACACTGAG
GTATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
TCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTGTTTC
Found at i:13337982 original size:30 final size:30
Alignment explanation
Indices: 13337942--13338001 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
13337932 CTCATATTGC
13337942 GAGAGGTGAGTTGAG-CTTTTTAATTTCTGT
1 GAGAGGTGAGTTGAGTC-TTTTAATTTCTGT
*
13337972 GAGAGTTGAGTTGAGTCTTTTAATTTCTGT
1 GAGAGGTGAGTTGAGTCTTTTAATTTCTGT
13338002 TTTTCAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (30 bp):
GAGAGGTGAGTTGAGTCTTTTAATTTCTGT
Found at i:13338863 original size:36 final size:34
Alignment explanation
Indices: 13338822--13338922 Score: 130
Period size: 35 Copynumber: 2.9 Consensus size: 34
13338812 TAAGCCCCCC
13338822 AAAAAAAACCTAACCCAAAAAAAAAAAAAAGAAA
1 AAAAAAAACCTAACCCAAAAAAAAAAAAAAGAAA
* ** *
13338856 AAGAAAAACCTAACCCCCCAAAAAAAAAGAAGAAA
1 AAAAAAAACCTAA-CCCAAAAAAAAAAAAAAGAAA
*
13338891 AAAGAAAAACCTAACCAAAAAATAAAAAAAAA
1 AAA-AAAAACCTAACCCAAAAA-AAAAAAAAA
13338923 AACCTAGCCA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
34 12 0.22
35 25 0.45
36 18 0.33
ACGTcount: A:0.74, C:0.17, G:0.05, T:0.04
Consensus pattern (34 bp):
AAAAAAAACCTAACCCAAAAAAAAAAAAAAGAAA
Found at i:13339729 original size:37 final size:37
Alignment explanation
Indices: 13339687--13339788 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
13339677 CTAATATTTT
13339687 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
13339724 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
13339767 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
13339789 CCAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:13342117 original size:12 final size:13
Alignment explanation
Indices: 13342088--13342117 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13342078 GGTGTTACTT
*
13342088 TTTTTAAATATTA
1 TTTTTAAATAATA
13342101 TTTTTAAATAATA
1 TTTTTAAATAATA
13342114 TTTT
1 TTTT
13342118 GATCTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTTAAATAATA
Found at i:13343468 original size:18 final size:18
Alignment explanation
Indices: 13343446--13343483 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
13343436 TATAATTATA
13343446 ATTTTTATA-ATTATTTT
1 ATTTTTATATATTATTTT
*
13343463 ATTTTTATATTTTATTTT
1 ATTTTTATATATTATTTT
13343481 ATT
1 ATT
13343484 AAATTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTTATATATTATTTT
Found at i:13343517 original size:17 final size:19
Alignment explanation
Indices: 13343473--13343517 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
13343463 ATTTTTATAT
13343473 TTTATTT-TATTAAATTAA
1 TTTATTTATATTAAATTAA
13343491 -TT-TTTATATATAAATT-A
1 TTTATTTATAT-TAAATTAA
13343508 TTTATTTATA
1 TTTATTTATA
13343518 CATGTGTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.13
17 6 0.26
18 8 0.35
19 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTTATATTAAATTAA
Found at i:13346364 original size:22 final size:23
Alignment explanation
Indices: 13346339--13346382 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
13346329 TAACAATTTA
13346339 ATAAATATATAAATTT-ATTATC
1 ATAAATATATAAATTTAATTATC
*
13346361 ATAAATATATAATTTTAATTAT
1 ATAAATATATAAATTTAATTAT
13346383 TATTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAAATATATAAATTTAATTATC
Found at i:13353496 original size:20 final size:20
Alignment explanation
Indices: 13353473--13353517 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
13353463 TTAAACCCTG
13353473 AACTC-AAATCTTAAATCC-CA
1 AACTCTAAA-CTTAAA-CCTCA
13353493 AACTCTAAACTTAAACCTCA
1 AACTCTAAACTTAAACCTCA
13353513 AACTC
1 AACTC
13353518 GAACCTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.24
Consensus pattern (20 bp):
AACTCTAAACTTAAACCTCA
Found at i:13353529 original size:20 final size:20
Alignment explanation
Indices: 13353473--13353530 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
13353463 TTAAACCCTG
13353473 AACTC-AAATCTTAAATCC-CA
1 AACTCGAAA-CTTAAA-CCTCA
*
13353493 AACTCTAAACTTAAACCTCA
1 AACTCGAAACTTAAACCTCA
* *
13353513 AACTCGAACCTTGAACCT
1 AACTCGAAACTTAAACCT
13353531 ATAACCCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.85
21 3 0.09
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.24
Consensus pattern (20 bp):
AACTCGAAACTTAAACCTCA
Found at i:13353761 original size:17 final size:17
Alignment explanation
Indices: 13353739--13353790 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
13353729 ACTAAACCGA
13353739 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
13353756 CCACTAA----ATCACC
1 CCACTAACTCCATCACC
*
13353769 CCACTAACTCCATTACC
1 CCACTAACTCCATCACC
13353786 CCACT
1 CCACT
13353791 TGTCTGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 13 0.43
17 17 0.57
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (17 bp):
CCACTAACTCCATCACC
Found at i:13353768 original size:13 final size:13
Alignment explanation
Indices: 13353750--13353775 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13353740 CACTAACTCC
13353750 ATCACCCCACTAA
1 ATCACCCCACTAA
13353763 ATCACCCCACTAA
1 ATCACCCCACTAA
13353776 CTCCATTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (13 bp):
ATCACCCCACTAA
Found at i:13353775 original size:30 final size:29
Alignment explanation
Indices: 13353723--13353790 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 29
13353713 ATCCAATTAG
13353723 CACCCCACTAAACCGACCACTAACTCCAT
1 CACCCCACTAAACCGACCACTAACTCCAT
*
13353752 CACCCCACTAAATCAC-CCCACTAACTCCAT
1 CACCCCACTAAA-C-CGACCACTAACTCCAT
*
13353782 TACCCCACT
1 CACCCCACT
13353791 TGTCTGCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 12 0.34
30 22 0.63
31 1 0.03
ACGTcount: A:0.32, C:0.50, G:0.01, T:0.16
Consensus pattern (29 bp):
CACCCCACTAAACCGACCACTAACTCCAT
Found at i:13354180 original size:21 final size:22
Alignment explanation
Indices: 13354124--13354184 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
13354114 TTCCATTGAG
**
13354124 TTCTTTAAAATTCATGTTTTTATA
1 TTCTTT-AAATTCAT-TCATTATA
13354148 TTCTTTATAATTCATTCATTAT-
1 TTCTTTA-AATTCATTCATTATA
13354170 TTCTTTAAATTCATT
1 TTCTTTAAATTCATT
13354185 TGGCATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 8 0.24
22 7 0.21
23 6 0.18
24 13 0.38
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.59
Consensus pattern (22 bp):
TTCTTTAAATTCATTCATTATA
Found at i:13355246 original size:125 final size:125
Alignment explanation
Indices: 13355012--13355323 Score: 457
Period size: 125 Copynumber: 2.5 Consensus size: 125
13355002 CCCTCAACAT
* * * * *
13355012 GAGGAAATCTTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTC
1 GAGGAAATATTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTC
* * *
13355077 ATTCGACTAAAATACAGAATATCCTTTTGAAATTTCGTCTATGTTCTCTTAAATTAAAGC
66 ATTCGACTAAAATACAGAATATCCTTTTGAAATTTCATCCATGTTCTCTTAAATTAAAAC
* *
13355137 GAGGCAATATTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCATGCTGGGTTTCGATTTTTC
1 GAGGAAATATTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTC
* * * *
13355202 ATTTGACTAAAATAC-GAAATATCCTTTTGGAATTTCATCCATGTTTTCTTAAATTAAAAT
66 ATTCGACTAAAATACAG-AATATCCTTTTGAAATTTCATCCATGTTCTCTTAAATTAAAAC
*
13355262 GA-GATAATATTTCGCATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
1 GAGGA-AATATTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
13355324 ACCGTTTGGC
Statistics
Matches: 168, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
124 2 0.01
125 166 0.99
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (125 bp):
GAGGAAATATTTCGTATTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTC
ATTCGACTAAAATACAGAATATCCTTTTGAAATTTCATCCATGTTCTCTTAAATTAAAAC
Found at i:13355347 original size:125 final size:125
Alignment explanation
Indices: 13355028--13355364 Score: 453
Period size: 125 Copynumber: 2.7 Consensus size: 125
13355018 ATCTTTCGTG
* * * *
13355028 TTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATA-C
1 TTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTTGACTAAAATACC
* * * * *
13355092 AGAATATCCTTTTGAAATTTCGTCTATGTTCTCTTAAATTAAAGCGAGGCAATATTTCGTA
66 A-AATATCCTTTTGAAATTTCATCCATGTTCTCTTAAATTAAAACGAGACAATATTTCGCA
* *
13355153 TTTGGAAGTTCGATAAATCGTGCCCAATCATGCTGGGTTTCGATTTTTCATTTGACTAAAATACG
1 TTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTTGACTAAAATACC
* * * *
13355218 AAATATCCTTTTGGAATTTCATCCATGTTTTCTTAAATTAAAATGAGATAATATTTCGCA
66 AAATATCCTTTTGAAATTTCATCCATGTTCTCTTAAATTAAAACGAGACAATATTTCGCA
** * * *
13355278 TTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTACCGTTTGGC-CAAATAGC
1 TTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTTGACTAAAATA-C
13355342 CAAATATCCTTTTTGAAATTTCA
65 CAAATATCC-TTTTGAAATTTCA
13355365 AATGTATGAG
Statistics
Matches: 186, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
124 5 0.03
125 168 0.90
126 13 0.07
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (125 bp):
TTTGGAAGTTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTTGACTAAAATACC
AAATATCCTTTTGAAATTTCATCCATGTTCTCTTAAATTAAAACGAGACAATATTTCGCA
Found at i:13356895 original size:2 final size:2
Alignment explanation
Indices: 13356888--13356924 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13356878 ATAATGCTTT
13356888 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13356925 CTTATAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13358158 original size:15 final size:16
Alignment explanation
Indices: 13358131--13358170 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 16
13358121 ATAAAATTAT
13358131 TAAATATTAAAATAAAA
1 TAAATA-TAAAATAAAA
13358148 TAAA-ATAAAATAAATA
1 TAAATATAAAATAAA-A
13358164 TAAATAT
1 TAAATAT
13358171 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 9 0.43
16 6 0.29
17 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAATATAAAATAAAA
Found at i:13358170 original size:6 final size:5
Alignment explanation
Indices: 13358138--13358167 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
13358128 TATTAAATAT
13358138 TAAAA TAAAA TAAAA TAAAA TAAATA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAA-A TAAA
13358168 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Done.