Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 385 of 433
Found at i:120170678 original size:27 final size:30
Alignment explanation
Indices: 120170579--120170684 Score: 119
Period size: 32 Copynumber: 3.5 Consensus size: 30
120170569 CGTCAATCAT
* *
120170579 TTCAATATCCAACAAGTTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
120170611 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
120170643 TTCAATATCTGACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
120170671 -TCAATATCTAACAA
1 TTCAATATCTAACAA
120170685 ATCCAAGACA
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
27 13 0.19
28 2 0.03
29 2 0.03
32 53 0.76
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:120172593 original size:47 final size:47
Alignment explanation
Indices: 120172524--120172622 Score: 180
Period size: 47 Copynumber: 2.1 Consensus size: 47
120172514 TAAATACATT
* *
120172524 AATTTAGTATATATATTATCCACAATTTCTAACTTCACTAGGATATG
1 AATTTAGTATATATAGTATCCACAATTTCTAACTTCACCAGGATATG
120172571 AATTTAGTATATATAGTATCCACAATTTCTAACTTCACCAGGATATG
1 AATTTAGTATATATAGTATCCACAATTTCTAACTTCACCAGGATATG
120172618 AATTT
1 AATTT
120172623 CTTTGAACTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (47 bp):
AATTTAGTATATATAGTATCCACAATTTCTAACTTCACCAGGATATG
Found at i:120175231 original size:21 final size:21
Alignment explanation
Indices: 120175207--120175246 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
120175197 TTACATGACA
*
120175207 TTAATATTTTCATCTTAAATT
1 TTAACATTTTCATCTTAAATT
120175228 TTAACATTTTCATCTTAAA
1 TTAACATTTTCATCTTAAA
120175247 AAAATCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAACATTTTCATCTTAAATT
Found at i:120178242 original size:59 final size:59
Alignment explanation
Indices: 120178134--120178258 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 59
120178124 TTTTTAAAAC
* *
120178134 TTTTAGAATTAGAATTAAGTTGAAAAATTTTGTAAATGTTCAAGATAAATTTATTGAAT
1 TTTTAGAATTAGAATTAAGATGAAAAATTTTGTAAATATTCAAGATAAATTTATTGAAT
* * * * * * *
120178193 TTTTAGAATTAGAATTAA-ATGACAATTTTTGTACATATTGAGGGCTAAATTTATTTAAT
1 TTTTAGAATTAGAATTAAGATGAAAAATTTTGTAAATATTCA-AGATAAATTTATTGAAT
120178252 TTTTAGA
1 TTTTAGA
120178259 TTTAAGATCA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 17 0.30
59 39 0.70
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.44
Consensus pattern (59 bp):
TTTTAGAATTAGAATTAAGATGAAAAATTTTGTAAATATTCAAGATAAATTTATTGAAT
Found at i:120192570 original size:30 final size:30
Alignment explanation
Indices: 120192536--120192596 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
120192526 TTCCCGAGTC
120192536 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
120192566 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
120192596 T
1 T
120192597 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:120195461 original size:36 final size:36
Alignment explanation
Indices: 120195420--120195496 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
120195410 TTGTTGCTAC
120195420 TTAAAGCCATGTTTCAACATGTTCTAAAAAGATAAT
1 TTAAAGCCATGTTTCAACATGTTCTAAAAAGATAAT
*
120195456 TTAAAGTCATGTTTCAACATGTTCTAAAAAGATAAT
1 TTAAAGCCATGTTTCAACATGTTCTAAAAAGATAAT
120195492 TTAAA
1 TTAAA
120195497 TTCATCACTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (36 bp):
TTAAAGCCATGTTTCAACATGTTCTAAAAAGATAAT
Found at i:120197932 original size:10 final size:10
Alignment explanation
Indices: 120197913--120197954 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
120197903 ATCTATCGAA
120197913 AATTAAAATT
1 AATTAAAATT
*
120197923 AATCAAAATT
1 AATTAAAATT
120197933 AATTATAAAATT
1 AA-T-TAAAATT
120197945 AATTAAAATT
1 AATTAAAATT
120197955 CAACATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 18 0.64
11 2 0.07
12 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
AATTAAAATT
Found at i:120198200 original size:10 final size:10
Alignment explanation
Indices: 120198187--120198245 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
120198177 TTTTAAATTT
120198187 TTATATTAAA
1 TTATATTAAA
120198197 TTATATTAAA
1 TTATATTAAA
*
120198207 ATAT-TTAAA
1 TTATATTAAA
*
120198216 ATATTATTAAA
1 TTA-TATTAAA
*
120198227 TCATATTAAA
1 TTATATTAAA
*
120198237 CTAT-TTAAA
1 TTATATTAAA
120198246 AATATTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
9 13 0.31
10 23 0.55
11 6 0.14
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (10 bp):
TTATATTAAA
Found at i:120198224 original size:30 final size:31
Alignment explanation
Indices: 120198190--120198251 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
120198180 TAAATTTTTA
*
120198190 TATTAAATTATATTAAAATATTT-AAAATAT
1 TATTAAATCATATTAAAATATTTAAAAATAT
*
120198220 TATTAAATCATATTAAACTATTTAAAAATAT
1 TATTAAATCATATTAAAATATTTAAAAATAT
120198251 T
1 T
120198252 TTATTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (31 bp):
TATTAAATCATATTAAAATATTTAAAAATAT
Found at i:120198251 original size:10 final size:9
Alignment explanation
Indices: 120198192--120198252 Score: 50
Period size: 10 Copynumber: 6.2 Consensus size: 9
120198182 AATTTTTATA
*
120198192 TTAAATTAT
1 TTAAAATAT
120198201 ATTAAAATAT
1 -TTAAAATAT
120198211 TTAAAATAT
1 TTAAAATAT
*
120198220 TATTAAATCAT
1 T-TAAAAT-AT
*
120198231 ATTAAACTAT
1 -TTAAAATAT
120198241 TTAAAAATAT
1 TT-AAAATAT
120198251 TT
1 TT
120198253 TATTTTTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 12 0.29
10 23 0.55
11 6 0.14
12 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
TTAAAATAT
Found at i:120198301 original size:10 final size:10
Alignment explanation
Indices: 120198288--120198329 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
120198278 AAATAATATT
120198288 TTATTTTAAA
1 TTATTTTAAA
*
120198298 TTATATTAAA
1 TTATTTTAAA
*
120198308 ATATTTTAAA
1 TTATTTTAAA
120198318 TT-TTTTGAAA
1 TTATTTT-AAA
120198328 TT
1 TT
120198330 TAGAAATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 4 0.15
10 23 0.85
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TTATTTTAAA
Found at i:120198321 original size:55 final size:55
Alignment explanation
Indices: 120198256--120198361 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
120198246 AATATTTTAT
* *
120198256 TTTTATATTTTTTGAAAATAAGAAATAATATTTTATTTTAAATTATATTAAAATA
1 TTTTAAATTTTTTGAAAATAAGAAATAATATTTTATATTAAATTATATTAAAATA
* * * *
120198311 TTTTAAATTTTTTGAAATTTAGAAATACTTTTTTATATTAAATTATATTAA
1 TTTTAAATTTTTTGAAAATAAGAAATAATATTTTATATTAAATTATATTAA
120198362 TTTTTTTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (55 bp):
TTTTAAATTTTTTGAAAATAAGAAATAATATTTTATATTAAATTATATTAAAATA
Found at i:120201134 original size:37 final size:37
Alignment explanation
Indices: 120201093--120201174 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
120201083 AAACGCTCAT
* * **
120201093 AAGAGCTAATCTAACCGATAACACGCCAAATGTTCTG
1 AAGAGCTAATCCAACCAATAACACGCCAAATACTCTG
120201130 AAGAGCTAATCCAACCAATAACACGCCAAATACTCTG
1 AAGAGCTAATCCAACCAATAACACGCCAAATACTCTG
120201167 AAGAGCTA
1 AAGAGCTA
120201175 TACATCCGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.18
Consensus pattern (37 bp):
AAGAGCTAATCCAACCAATAACACGCCAAATACTCTG
Found at i:120206557 original size:141 final size:141
Alignment explanation
Indices: 120206322--120206578 Score: 370
Period size: 141 Copynumber: 1.8 Consensus size: 141
120206312 GAAGTAGCTT
* * * *
120206322 TCTTCTTGCCTTTCTCTATGGCATGCTCGAGAAGAATTTGGGGCTAGTGGCCGAAGACGAAGCAA
1 TCTTCTTGCCTTTCTATATGGCATGCCCGAGAAGAATTTAGGGCTAGTGGCCGAAGACGAAACAA
* * * *
120206387 GCAATAAAGGCTGGGTGAGAAGGGCTGTCGGGTTGAGTGAGGAAGGTTTCAGAACGGAGAAAAAC
66 GCAATAAAGGCTGGGTGAGAACGGCTGTCGAGTTGAGTAAAGAAGGTTTCAGAACGGAGAAAAAC
120206452 AAAGGTGAGTC
131 AAAGGTGAGTC
* * **
120206463 TCTTCTTGCCTTTCTATATGGCATGCCCGAGAAGAGTTTAGGGCTAGTGGCCGGAGGTGAAACAA
1 TCTTCTTGCCTTTCTATATGGCATGCCCGAGAAGAATTTAGGGCTAGTGGCCGAAGACGAAACAA
** * *
120206528 GCAATGGAGGCTGGGTGAGCACGGTTGTCGAGTTGAGTAAAGAAGGTTTCA
66 GCAATAAAGGCTGGGTGAGAACGGCTGTCGAGTTGAGTAAAGAAGGTTTCA
120206579 AAATGATAAA
Statistics
Matches: 100, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
141 100 1.00
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (141 bp):
TCTTCTTGCCTTTCTATATGGCATGCCCGAGAAGAATTTAGGGCTAGTGGCCGAAGACGAAACAA
GCAATAAAGGCTGGGTGAGAACGGCTGTCGAGTTGAGTAAAGAAGGTTTCAGAACGGAGAAAAAC
AAAGGTGAGTC
Found at i:120211176 original size:16 final size:17
Alignment explanation
Indices: 120211155--120211192 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
120211145 CTGTAATCTC
120211155 TTTTTGTCTTTTT-TT-T
1 TTTTTGT-TTTTTCTTCT
120211171 TTTTTGTTTTTTCTTCT
1 TTTTTGTTTTTTCTTCT
120211188 TTTTT
1 TTTTT
120211193 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 9 0.45
17 6 0.30
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.87
Consensus pattern (17 bp):
TTTTTGTTTTTTCTTCT
Found at i:120211709 original size:34 final size:34
Alignment explanation
Indices: 120211671--120211738 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
120211661 ATAAATCTAA
*
120211671 ATATTTAGATTAAATTTTTAAGCTTAAGCTTGGT
1 ATATTTAGATTAAAATTTTAAGCTTAAGCTTGGT
120211705 ATATTTAGATTAAAATTTTAAGCTTAAGCTTGGT
1 ATATTTAGATTAAAATTTTAAGCTTAAGCTTGGT
120211739 CCGATCTGAC
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:0.34, C:0.06, G:0.15, T:0.46
Consensus pattern (34 bp):
ATATTTAGATTAAAATTTTAAGCTTAAGCTTGGT
Found at i:120211854 original size:16 final size:16
Alignment explanation
Indices: 120211833--120211871 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
120211823 GTTCAGTATT
* * *
120211833 TTTTTTTTTTAGATTA
1 TTTTTTATTTAAAATA
120211849 TTTTTTATTTAAAATA
1 TTTTTTATTTAAAATA
120211865 TTTTTTA
1 TTTTTTA
120211872 AAAAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTTTATTTAAAATA
Found at i:120212172 original size:26 final size:25
Alignment explanation
Indices: 120212124--120212190 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 25
120212114 TGTATTAATG
120212124 ATTTAATATA-AATATAAATATATT
1 ATTTAATATATAATATAAATATATT
120212148 ATTTAATATATAAT-TAATATGATATT
1 ATTTAATATATAATATAA-AT-ATATT
*
120212174 -TTTTATAATATAATATA
1 ATTTAAT-ATATAATATA
120212191 TTCGGAGCGG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
24 13 0.35
25 10 0.27
26 12 0.32
27 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
ATTTAATATATAATATAAATATATT
Found at i:120215741 original size:15 final size:15
Alignment explanation
Indices: 120215709--120215756 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
120215699 CAATAGGAAT
*
120215709 TTTTAGTTTTATTT-
1 TTTTAGTTATATTTA
120215723 TTTTA-TTATATCTTA
1 TTTTAGTTATAT-TTA
*
120215738 TTTTAGTTTTATTTA
1 TTTTAGTTATATTTA
120215753 TTTT
1 TTTT
120215757 CTCTATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 5 0.17
14 7 0.24
15 12 0.41
16 5 0.17
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (15 bp):
TTTTAGTTATATTTA
Found at i:120215768 original size:29 final size:29
Alignment explanation
Indices: 120215709--120215785 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
120215699 CAATAGGAAT
* *
120215709 TTTTAGTTTTATTTTTTTATTATATCTTA
1 TTTTAGTTTTATTTTTTTCTTATATCATA
120215738 TTTTAGTTTTATTTATTTTCTCTAT-T-ATA
1 TTTTAGTTTTATTT-TTTTCT-TATATCATA
*
120215767 -TTAAGTTTTCATTTTTTTC
1 TTTTAGTTTT-ATTTTTTTC
120215786 ATAAACTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 13 0.31
29 20 0.48
30 6 0.14
31 3 0.07
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.70
Consensus pattern (29 bp):
TTTTAGTTTTATTTTTTTCTTATATCATA
Found at i:120217028 original size:5 final size:5
Alignment explanation
Indices: 120217018--120217044 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
120217008 GTGTGTTCCT
120217018 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
120217045 CTCAAATTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:120218469 original size:27 final size:27
Alignment explanation
Indices: 120218446--120218681 Score: 274
Period size: 27 Copynumber: 8.7 Consensus size: 27
120218436 TTAGTTTACC
* *
120218446 AAATTACTAAAATAACCTTTGTTTATA
1 AAATTACCAAAATACCCTTTGTTTATA
120218473 AAATTACCAAAATACCCTTTTGTTTATA
1 AAATTACCAAAATACCC-TTTGTTTATA
* * *
120218501 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTTGTTTATA
* * *
120218528 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTTGTTTATA
* *
120218555 AAATTACTAAAATACCATTTGTTTATA
1 AAATTACCAAAATACCCTTTGTTTATA
* * *
120218582 AAATTACCAAAATATCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTTGTTTATA
* * *
120218609 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTTGTTTATA
* * * *
120218636 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTTGTTTATA
120218663 AAATTACCAAAATATCCCT
1 AAATTACCAAAATA-CCCT
120218682 GATTTGTGAA
Statistics
Matches: 186, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
27 156 0.84
28 30 0.16
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTTGTTTATA
Found at i:120218595 original size:81 final size:81
Alignment explanation
Indices: 120218446--120218706 Score: 328
Period size: 81 Copynumber: 3.2 Consensus size: 81
120218436 TTAGTTTACC
* * * * * * *
120218446 AAATTACTAAAATAACCTTTGTTTATAAAATTACCAAAATACCCTTTTGTTTATAAAATTACCAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATA-CCATTTGTTTATAAAATTACCAA
*
120218511 AATACCCCTAGTTTGTA
65 AATATCCCTAGTTTGTA
*
120218528 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCATTTGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTTGTTTATAAAATTACCAAA
*
120218593 ATATCCTTAGTTTGTA
66 ATATCCCTAGTTTGTA
** * *
120218609 AAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATACCATTTGTTTATAAAATTACCAA
*
120218673 AATATCCCT-GATTTGTG
65 AATATCCCTAG-TTTGTA
**
120218690 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
120218707 TCGACCTGTA
Statistics
Matches: 159, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 122 0.77
82 35 0.22
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTTGTTTATAAAATTACCAAA
ATATCCCTAGTTTGTA
Found at i:120218687 original size:27 final size:26
Alignment explanation
Indices: 120218471--120218767 Score: 235
Period size: 27 Copynumber: 11.0 Consensus size: 26
120218461 CCTTTGTTTA
*
120218471 TAAAATTACCAAAATACCCTTTTG-TTTA
1 TAAAATTACCAAAATACCC---TGATTTG
120218499 TAAAATTACCAAAATACCCCT-AGTTTG
1 TAAAATTACCAAAATA-CCCTGA-TTTG
*
120218526 TAAAATTACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATA-CCCTGATTTG
* * *
120218553 TAAAATTACTAAAATACCATTTG-TTTA
1 TAAAATTACCAAAATACC--CTGATTTG
* *
120218580 TAAAATTACCAAAATATCCTTAGTTTG
1 TAAAATTACCAAAATACCCTGA-TTTG
120218607 TAAAATTACCAAAATACCCCT-AGTTTG
1 TAAAATTACCAAAATA-CCCTGA-TTTG
*
120218634 TAAAATTATCAAAATACCCCT-AGTTTG
1 TAAAATTACCAAAATA-CCCTGA-TTTG
120218661 TAAAATTACCAAAATATCCCTGATTTG
1 TAAAATTACCAAAATA-CCCTGATTTG
* ** **
120218688 TGAAATTACTGAAATACCCTCGACCTG
1 TAAAATTACCAAAATACCCT-GATTTG
*** * *
120218715 TAAAATTATTGAAATACCCTCAACTTG
1 TAAAATTACCAAAATACCCT-GATTTG
*
120218742 TAAAATTACCAAAGTACCCTTGATTT
1 TAAAATTACCAAAATACCC-TGATTT
120218768 ACAGAATTAC
Statistics
Matches: 228, Mismatches: 29, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
25 1 0.00
26 7 0.03
27 194 0.85
28 23 0.10
29 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCTGATTTG
Found at i:120218688 original size:54 final size:54
Alignment explanation
Indices: 120218446--120218706 Score: 308
Period size: 54 Copynumber: 4.8 Consensus size: 54
120218436 TTAGTTTACC
* * * * * * * *
120218446 AAATTACTAAAATAACCTTTGTTTATAAAATTACCAAAATACCCTTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTA
*
120218501 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* ** * * * *
120218555 AAATTACTAAAATACCATTTGTTTATAAAATTACCAAAATATCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
*
120218609 AAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * **
120218663 AAATTACCAAAATATCCCT-GATTTGTGAAATTACTGAAATACCC
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCC
120218707 TCGACCTGTA
Statistics
Matches: 176, Mismatches: 29, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
53 1 0.01
54 136 0.77
55 39 0.22
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:120218717 original size:81 final size:81
Alignment explanation
Indices: 120218471--120218733 Score: 291
Period size: 81 Copynumber: 3.2 Consensus size: 81
120218461 CCTTTGTTTA
* * * *
120218471 TAAAATTACCAAAATACCCTTTTGTTTATAAAATTACCAAAATACCCCT-AGTTTGTAAAATTAC
1 TAAAATTATCAAAATACCC-CTAGTTTATAAAATTACCAAAATATCCCTGAGTTTGTAAAATTAC
*
120218535 CAAAATACCCCTGGTTTG
65 CAAAATACCCC-GATTTG
** * *
120218553 TAAAATTA-CTAAAATACCATTTGTTTATAAAATTACCAAAATAT-CCTTAGTTTGTAAAATTAC
1 TAAAATTATC-AAAATACCCCTAGTTTATAAAATTACCAAAATATCCCTGAGTTTGTAAAATTAC
*
120218616 CAAAATACCCCTAGTTTG
65 CAAAATACCCCGA-TTTG
* * *
120218634 TAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCTGA-TTTGTGAAATTACT
1 TAAAATTATCAAAATACCCCTAGTTTATAAAATTACCAAAATATCCCTGAGTTTGTAAAATTACC
* **
120218698 GAAATACCCTCGACCTG
66 AAAATACCC-CGATTTG
**
120218715 TAAAATTATTGAAATACCC
1 TAAAATTATCAAAATACCC
120218734 TCAACTTGTA
Statistics
Matches: 158, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
80 3 0.02
81 132 0.84
82 23 0.15
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (81 bp):
TAAAATTATCAAAATACCCCTAGTTTATAAAATTACCAAAATATCCCTGAGTTTGTAAAATTACC
AAAATACCCCGATTTG
Found at i:120218813 original size:27 final size:27
Alignment explanation
Indices: 120218716--120218815 Score: 76
Period size: 27 Copynumber: 3.7 Consensus size: 27
120218706 CTCGACCTGT
* * **
120218716 AAAATTATTGAAATACCCTCAACTTGT
1 AAAATTATCGAAATACCCTCAATTTAC
* **
120218743 AAAATTA-CCAAAGTACCCTTGATTTAC
1 AAAATTATCGAAA-TACCCTCAATTTAC
* * ***
120218770 AGAATTACCGTTTTACCCTCAATTTAC
1 AAAATTATCGAAATACCCTCAATTTAC
120218797 AAAATTATCGAAATACCCT
1 AAAATTATCGAAATACCCT
120218816 TGTATGGTAG
Statistics
Matches: 52, Mismatches: 19, Indels: 4
0.69 0.25 0.05
Matches are distributed among these distances:
26 3 0.06
27 48 0.92
28 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCAATTTAC
Found at i:120218837 original size:27 final size:27
Alignment explanation
Indices: 120218799--120218965 Score: 203
Period size: 27 Copynumber: 6.3 Consensus size: 27
120218789 CAATTTACAA
* * *
120218799 AATTATCGAAATACCCTTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
120218826 AAATCCCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
120218853 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
120218880 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
120218907 AATTATCGAAATACCACTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
120218934 AATTACCGAGATA-CCTTGTGGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
120218959 AATTACC
1 AATTACC
120218966 ATTTTTCCCC
Statistics
Matches: 120, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
25 7 0.06
26 8 0.07
27 105 0.88
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:120219443 original size:22 final size:22
Alignment explanation
Indices: 120219391--120219451 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
120219381 TTAAAGCCTT
* *
120219391 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGGCAAC
*
120219413 CT-ACATATGGCTCTGTGGCAAC
1 CTGA-TTATGGCTCTGTGGCAAC
*
120219435 CTGATTATGGCTGTGTG
1 CTGATTATGGCTCTGTG
120219452 CCAAACGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGGCAAC
Found at i:120219644 original size:27 final size:27
Alignment explanation
Indices: 120219613--120219715 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
120219603 TATTCTGTTA
* *
120219613 AGTGGCTTTGCCACATTATCTGTTTCT
1 AGTGGCTATGCCACAATATCTGTTTCT
* *
120219640 GGTGGCTATGCCACAAATATTTG-TTCT
1 AGTGGCTATGCCAC-AATATCTGTTTCT
* * *
120219667 AGTGGCTCTGCCATAATATCTGTATCT
1 AGTGGCTATGCCACAATATCTGTTTCT
* * *
120219694 AGTGACTCTGTCACAATATCTG
1 AGTGGCTATGCCACAATATCTG
120219716 ATAACTGAGT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.79
28 6 0.10
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (27 bp):
AGTGGCTATGCCACAATATCTGTTTCT
Found at i:120219885 original size:19 final size:19
Alignment explanation
Indices: 120219863--120219920 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
120219853 TTTTGATTTT
120219863 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
120219882 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
120219894 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
120219913 TGATTCTG
1 TGATTCTG
120219921 ATTCTAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:120219890 original size:6 final size:6
Alignment explanation
Indices: 120219875--120219971 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
120219865 ATTCTGTTAC
* * *
120219875 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
120219924 CTAATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
120219972 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 60 0.83
7 6 0.08
8 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:120219897 original size:31 final size:31
Alignment explanation
Indices: 120219863--120219987 Score: 155
Period size: 31 Copynumber: 4.1 Consensus size: 31
120219853 TTTTGATTTT
*
120219863 TGATTCTGTTACCTGATACTGATTCTGATTT
1 TGATTCTGTTACCTGATACTGATTCTGATTC
120219894 TGATTCTGTTACCTGATACTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * * *
120219925 TAATTCTGTCACCTAATTCTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * *
120219956 TGATTCTAGTT--CTGATAATGTTTCTTATTC
1 TGATTCT-GTTACCTGATACTGATTCTGATTC
120219986 TG
1 TG
120219988 TAATGGGTTA
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
30 16 0.20
31 63 0.78
32 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
TGATTCTGTTACCTGATACTGATTCTGATTC
Found at i:120230456 original size:2 final size:2
Alignment explanation
Indices: 120230397--120230437 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
120230387 GGTATTTAAA
*
120230397 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
120230438 ATAGTATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120232150 original size:72 final size:73
Alignment explanation
Indices: 120231934--120232229 Score: 373
Period size: 72 Copynumber: 4.0 Consensus size: 73
120231924 GTGATTTGAA
*
120231934 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCAAC
*
120231999 ATGTGAAC-CGAG
64 --GTG-TCTCGAG
120232011 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAACG
*
120232076 TGTCTTGAG
65 TGTCTCGAG
** * * *
120232085 GCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGT
* *
120232149 GTCCCAAG
66 GTCTCGAG
* * * * *
120232157 GCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTGACAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGT
*
120232221 GTCCCGAG
66 GTCTCGAG
120232229 G
1 G
120232230 TGATTTTTGA
Statistics
Matches: 200, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
72 102 0.51
73 1 0.00
74 34 0.17
76 23 0.12
77 40 0.20
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (73 bp):
GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGT
GTCTCGAG
Found at i:120232185 original size:146 final size:147
Alignment explanation
Indices: 120231929--120232223 Score: 398
Period size: 146 Copynumber: 2.0 Consensus size: 147
120231919 AGTGTGTGAT
* *
120231929 TTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACC
1 TTGAAGCTCAACTCACCTCTCGCAATATAAGTTGA-TATTTTGAAAGACAGAAATTGAAAATACC
*
120231994 TCAACATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAA
65 TCAACA-GTGAACCAAGGCTCAACTCACCTCTCGCAATATAAGTTGA--TTTTTGAAAACAGAAA
120232059 TTGAAAATACCTCAACGTGTC
127 TTGAAAATACCTCAACGTGTC
* ** *
120232080 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAA-ACAGAAATTGAAATTACCT
1 TTGAAGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAGACAGAAATTGAAAATACCT
* ** * * *
120232143 CAGC-GTGTCCCAAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGACAACAGAAATTGA
66 CAACAGTGAACCAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAACAGAAATTGA
* *
120232207 AATTACCTCAGCGTGTC
131 AAATACCTCAACGTGTC
120232224 CCGAGGTGAT
Statistics
Matches: 129, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
144 34 0.26
146 35 0.27
148 21 0.16
149 8 0.06
151 31 0.24
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (147 bp):
TTGAAGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAGACAGAAATTGAAAATACCT
CAACAGTGAACCAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAACAGAAATTGA
AAATACCTCAACGTGTC
Found at i:120232237 original size:46 final size:46
Alignment explanation
Indices: 120232184--120232275 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
120232174 CAATATGAGT
*
120232184 TGATTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGG
1 TGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGG
120232230 TGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGG
1 TGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGG
120232276 CTCAACTCAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (46 bp):
TGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGG
Found at i:120232324 original size:118 final size:118
Alignment explanation
Indices: 120232116--120232347 Score: 419
Period size: 118 Copynumber: 2.0 Consensus size: 118
120232106 ATAAGTTGAA
*
120232116 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTTGCAATATG
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATG
* *
120232181 AGTTGATTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGTGAT
66 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGTGAT
*
120232234 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATG
*
120232299 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTTAGCGTGTCCCGAGG
66 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGG
120232348 CTCAACTCAC
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 109 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (118 bp):
TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATG
AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGTGAT
Found at i:120232329 original size:72 final size:72
Alignment explanation
Indices: 120232234--120233061 Score: 657
Period size: 72 Copynumber: 11.1 Consensus size: 72
120232224 CCGAGGTGAT
*
120232234 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
120232299 AGTTGAA
66 AGTTGAA
* * *
120232306 TTTTGAAAACAGAAATTGAAATTACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTTGCAATATG
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
120232371 AGTTGATTT
66 AGTTGA--A
* * * * * **
120232380 TTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTTAACTCATTTCTCGCAATAT
1 TTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
120232445 GAGTTGAA
65 GAGTTGAA
**
120232453 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
120232518 AGTT-AA
66 AGTTGAA
* * *
120232524 TTTTTTTAACAATAGAAATTGAAAATTACCTCAGCGTG-CCTTAAGGCTCAACTCACCTCTCGCA
1 --TTTTGAA-AACAGAAATTG-AAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCA
*
120232588 ATATGAGTTGAT
61 ATATGAGTTGAA
* ** *
120232600 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTTAACTCATTTCTCGTAATAT
1 TTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
120232665 GAGTTGATT
65 GAGTTGA-A
* * * ** ** * * * *
120232674 TTTTGAAAA-ATAGATTGAAA-CA-CAAAGATTGACAATACCTCAGCGTGCCCCGAGGCTCAACT
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTG----T-CCT--GAG-G-CTC-A-ACTCACCT
* * * *
120232736 CAC-C--TCTCGCAATATAAA
55 CTCGCAATAT-G-AGT-TGAA
*** * * * ****
120232754 TTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTTCC-GAGGCTCAACTCACCTCTCGC
1 -T--TTTGAAAACAGAAATTGA--AATTACCTCAGCGTG-TCCTGAGGCTCAACTCACCTCTCGC
*
120232818 AATATGAGTTGATTTTTTT
60 AATATGAGTTGA------A
* * * * * * ** *
120232837 TTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACCCATTTATCGCAATAT
1 TTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
120232902 GAGTTGAA
65 GAGTTGAA
**
120232910 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
120232975 AGTTGATTTT
66 AGTTGA---A
* *
120232985 TTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATAT
1 TTTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
120233050 GAGTTGAA
65 GAGTTGAA
120233058 TTTT
1 TTTT
120233062 TTTGAAAAAT
Statistics
Matches: 601, Mismatches: 106, Indels: 97
0.75 0.13 0.12
Matches are distributed among these distances:
70 5 0.01
71 3 0.00
72 196 0.33
73 68 0.11
74 42 0.07
75 111 0.18
76 62 0.10
77 12 0.02
78 9 0.01
79 46 0.08
80 9 0.01
81 17 0.03
82 1 0.00
83 5 0.01
84 6 0.01
85 1 0.00
86 2 0.00
87 1 0.00
88 5 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (72 bp):
TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGAA
Found at i:120232366 original size:190 final size:193
Alignment explanation
Indices: 120232043--120232642 Score: 706
Period size: 190 Copynumber: 3.0 Consensus size: 193
120232033 TAAGTTGATT
* * *
120232043 TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
*
120232108 AAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTT
66 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTT
*
120232173 GCAATATGAGTTGATTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGG-T-G-A
131 GCAATATGAGTTGATTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGTTCGAA
* **
120232233 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
* *
120232298 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTT
66 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTT
* * * * *
120232363 GCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTTAA
131 GCAATATGAGTTGA--TTTTTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG-----
120232428 CTCATTTCTCGCAA
188 ------T-TCG-AA
120232442 TATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTT
1 T-T---TT------TGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTT
* * *
120232507 CTCGCAATATGAGTT-AATTTTTTTAACAATAGAAATTGAAAATTACCTCAGCGTG-CCTTAAGG
56 CTCGCAATATGAGTTGAA--TTTTGAA-AACAGAAATTG-AAATTACCTCAGCGTGTCC-CAAGG
*
120232570 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
116 CTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTG
120232635 TCCTGAGG
180 TCCTGAGG
120232643 CTTAACTCAT
Statistics
Matches: 346, Mismatches: 29, Indels: 40
0.83 0.07 0.10
Matches are distributed among these distances:
190 135 0.39
192 6 0.02
193 31 0.09
206 1 0.00
207 1 0.00
209 2 0.01
210 1 0.00
213 2 0.01
218 2 0.01
219 64 0.18
220 43 0.12
221 12 0.03
222 46 0.13
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (193 bp):
TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTT
GCAATATGAGTTGATTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGTTCGAA
Found at i:120232423 original size:147 final size:147
Alignment explanation
Indices: 120232233--120233280 Score: 1079
Period size: 147 Copynumber: 7.0 Consensus size: 147
120232223 CCCGAGGTGA
* * *
120232233 TTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
* * **
120232297 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTTAGCGTGTCCCGAGGCTCAACTCACCTCT
66 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCT
*
120232362 TGCAATATGAGTTGATT
131 CGCAATATGAGTTGATT
* * * **
120232379 TTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTTAACTCATTTCTCGCAATA
1 TTTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
120232444 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCT
66 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCT
*
120232509 CGCAATATGAGTTAATT
131 CGCAATATGAGTTGATT
* * * *
120232526 TTTTT-AACAATAGAAATTGAAAATTACCTCAGCGTG-CCTTAAGGCTCAACTCACCTCTCGCAA
1 TTTTTGAAAAACAAAAATTGAAAA-TACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAA
* *
120232589 TATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTTAACTCATT
64 TATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATT
*
120232654 TCTCGTAATATGAGTTGATT
128 TCTCGCAATATGAGTTGATT
* * * *
120232674 TTTTGAAAAATAGATTGAAACACAAAGATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCAC
1 TTTT------T-GA---AAA-ACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
* * *
120232739 CTCTCGCAATATAAATTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTTCC-GAGGCT
55 CTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG-TCCTGAGGCT
**
120232803 CAACTCACCTCTCGCAATATGAGTTGATTTTTT
119 CAACTCATTTCTCGCAATATGAGTTGA----TT
* * * * ** *
120232836 TTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACCCATTTATCGCAATA
1 TTTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
120232901 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCT
66 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCT
120232966 CGCAATATGAGTTGATTT
131 CGCAATATGAGTTGA-TT
* * * * *
120232984 TTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATA
1 TTTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
* * *
120233049 TGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGTAGAAATTGAAATTACCTCAACATG-CCT
66 TGAGTTGAA---TTTTG--------------AAAA-CAGAAATTGAAATTACCTCAGCGTGTCC-
* * ** *
120233113 TGAGACTCAACTTACCTCTCGCAATATGAG-TCA--
112 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
* * * *
120233146 -ATTT--AAAAC------TAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATA
1 TTTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
* * * * * *
120233202 TGAGTTG-ATTTTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCT
66 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCT
120233266 CGCAATATGAGTTGA
131 CGCAATATGAGTTGA
120233281 GTTTCCTTGA
Statistics
Matches: 767, Mismatches: 91, Indels: 99
0.80 0.10 0.10
Matches are distributed among these distances:
134 47 0.06
135 7 0.01
146 22 0.03
147 178 0.23
148 135 0.18
149 5 0.01
150 3 0.00
151 120 0.16
152 4 0.01
153 49 0.06
154 1 0.00
155 2 0.00
156 2 0.00
158 57 0.07
159 58 0.08
160 12 0.02
161 3 0.00
162 6 0.01
165 8 0.01
166 48 0.06
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (147 bp):
TTTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCT
CGCAATATGAGTTGATT
Found at i:120232777 original size:86 final size:86
Alignment explanation
Indices: 120232615--120232779 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 86
120232605 ACAAACAGAA
* * * ** * * *
120232615 ATTGAAATTACCTCAGCGTGTCCTGAGGCTTAACTCATTTCTCGTAATATGAGTTGATTTTTTGA
1 ATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATAAATTGATTTTTTGA
* *
120232680 AAAATAGATTGAAACACAAAG
66 AAAAGAAATTGAAACACAAAG
120232701 ATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATAAATTGA-TTTTTG
1 ATTGA-AATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATAAATTGATTTTTTG
120232764 AAAACAGAAATTGAAA
65 AAAA-AGAAATTGAAA
120232780 TTACCTCAGC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 10 0.15
86 55 0.82
87 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (86 bp):
ATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATAAATTGATTTTTTGA
AAAAGAAATTGAAACACAAAG
Found at i:120233197 original size:63 final size:65
Alignment explanation
Indices: 120233118--120233277 Score: 173
Period size: 71 Copynumber: 2.4 Consensus size: 65
120233108 TGCCTTGAGA
* * *
120233118 CTCAACTTACCTCTCGCAATATGAGTCAATTT-AAAAC-TAAAAATACCTCAGCGTGTCCCGAGG
1 CTCAACTCACTTCTCGCAATATGAGTCAATTTGAAAACATAAAAATACCTCAACGTGTCCCGAGG
* *
120233181 CTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGTGTC
1 CTCAACTCACTTCTCGCAATATGAG-TCAATTTGAAAAC----A-TAAAAATACCTCAACGTGTC
**
120233246 TTGAGG
60 CCGAGG
120233252 CTCAACTCA-TCTCTCGCAATATGAGT
1 CTCAACTCACT-TCTCGCAATATGAGT
120233278 TGAGTTTCCT
Statistics
Matches: 81, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
63 23 0.28
64 5 0.06
65 5 0.06
70 2 0.02
71 46 0.57
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (65 bp):
CTCAACTCACTTCTCGCAATATGAGTCAATTTGAAAACATAAAAATACCTCAACGTGTCCCGAGG
Found at i:120233923 original size:143 final size:143
Alignment explanation
Indices: 120233665--120233951 Score: 574
Period size: 143 Copynumber: 2.0 Consensus size: 143
120233655 GCGTTGAGGC
120233665 TCTTGTACTTATCAAGTTCTTTATCCAGGTAATGCTTAACATTTCTTTTGTTTAGAGTATGTCAT
1 TCTTGTACTTATCAAGTTCTTTATCCAGGTAATGCTTAACATTTCTTTTGTTTAGAGTATGTCAT
120233730 TTCACTATTTATCATGAAAATAAACGACATAATGAGATGCATGAAAATGGTCAGGTAGGGACAAA
66 TTCACTATTTATCATGAAAATAAACGACATAATGAGATGCATGAAAATGGTCAGGTAGGGACAAA
120233795 GGGATACCTCACA
131 GGGATACCTCACA
120233808 TCTTGTACTTATCAAGTTCTTTATCCAGGTAATGCTTAACATTTCTTTTGTTTAGAGTATGTCAT
1 TCTTGTACTTATCAAGTTCTTTATCCAGGTAATGCTTAACATTTCTTTTGTTTAGAGTATGTCAT
120233873 TTCACTATTTATCATGAAAATAAACGACATAATGAGATGCATGAAAATGGTCAGGTAGGGACAAA
66 TTCACTATTTATCATGAAAATAAACGACATAATGAGATGCATGAAAATGGTCAGGTAGGGACAAA
120233938 GGGATACCTCACA
131 GGGATACCTCACA
120233951 T
1 T
120233952 TTATTTGTTT
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 144 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (143 bp):
TCTTGTACTTATCAAGTTCTTTATCCAGGTAATGCTTAACATTTCTTTTGTTTAGAGTATGTCAT
TTCACTATTTATCATGAAAATAAACGACATAATGAGATGCATGAAAATGGTCAGGTAGGGACAAA
GGGATACCTCACA
Found at i:120237947 original size:40 final size:40
Alignment explanation
Indices: 120237902--120238032 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
120237892 CGGAATATAA
120237902 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
120237942 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
120237982 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
120238022 CCGGATATAAT
1 CCGGATATAAT
120238033 TTCCAGCATG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:120244189 original size:40 final size:40
Alignment explanation
Indices: 120244144--120244274 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
120244134 CGGAATATAA
120244144 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
120244184 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
120244224 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
120244264 CCGGATATAAT
1 CCGGATATAAT
120244275 TTCCAGCATA
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:120250900 original size:12 final size:12
Alignment explanation
Indices: 120250878--120250913 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
120250868 TGGGATATGC
*
120250878 AATGAATGAATG
1 AATGCATGAATG
*
120250890 GATGCATGAATG
1 AATGCATGAATG
120250902 AATGCATGAATG
1 AATGCATGAATG
120250914 TCAAATGAAT
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:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:120250900 original size:16 final size:17
Alignment explanation
Indices: 120250874--120250905 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
120250864 AGTATGGGAT
120250874 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
120250891 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
120250906 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:120252640 original size:15 final size:15
Alignment explanation
Indices: 120252620--120252652 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
120252610 CTAATATGGG
120252620 TATGTAATATAG-ATA
1 TATGT-ATATAGAATA
120252635 TATGTATATAGAATA
1 TATGTATATAGAATA
120252650 TAT
1 TAT
120252653 TTAAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (15 bp):
TATGTATATAGAATA
Found at i:120255416 original size:15 final size:15
Alignment explanation
Indices: 120255396--120255428 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
120255386 CTAATATGGG
120255396 TATGTAATATAG-ATA
1 TATGT-ATATAGAATA
120255411 TATGTATATAGAATA
1 TATGTATATAGAATA
120255426 TAT
1 TAT
120255429 TTAAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (15 bp):
TATGTATATAGAATA
Found at i:120255706 original size:24 final size:24
Alignment explanation
Indices: 120255679--120255726 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
120255669 TACAATACGG
120255679 TATA-AAAATAAACATATATATATA
1 TATAGAAAATAAA-ATATATATATA
**
120255703 TATAGAATTTAAAATATATATATA
1 TATAGAAAATAAAATATATATATA
120255727 CATGGGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
TATAGAAAATAAAATATATATATA
Found at i:120257151 original size:15 final size:15
Alignment explanation
Indices: 120257133--120257165 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
120257123 TTCATTTTAA
120257133 ATATATTCTATA-TAC
1 ATATA-TCTATATTAC
120257148 ATATATCTATATTAC
1 ATATATCTATATTAC
120257163 ATA
1 ATA
120257166 CCCATATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATCTATATTAC
Found at i:120258983 original size:39 final size:39
Alignment explanation
Indices: 120258882--120258983 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 39
120258872 TTTAAAAAAA
* * *
120258882 AAAAAATATATATAT-ATATATATGTATATAATAGTATT
1 AAAAAATATATACATAATATATATATATATAATAGCATT
* * * * *
120258920 TAAGAATATATACATAAGAAATATATA-ACTAATGGCATT
1 AAAAAATATATACATAATATATATATATA-TAATAGCATT
120258959 AAAAAATATATACATAATATATATA
1 AAAAAATATATACATAATATATATA
120258984 AAATACCTAA
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
38 13 0.26
39 37 0.74
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (39 bp):
AAAAAATATATACATAATATATATATATATAATAGCATT
Found at i:120269646 original size:26 final size:26
Alignment explanation
Indices: 120269610--120269693 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
120269600 CATGAAATTC
120269610 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
120269636 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
120269662 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
120269688 TTATCA
1 TTATCA
120269694 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:120276719 original size:21 final size:21
Alignment explanation
Indices: 120276644--120276709 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
120276634 GTCTTGAATT
120276644 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
120276665 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
120276690 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
120276710 TAGTTGGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
25 15 0.41
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:120278309 original size:15 final size:14
Alignment explanation
Indices: 120278276--120278342 Score: 107
Period size: 14 Copynumber: 4.7 Consensus size: 14
120278266 CCAGAAAAGT
120278276 AAATCATTTTCCAG
1 AAATCATTTTCCAG
120278290 AAATCATTTTCCAGG
1 AAATCATTTTCCA-G
120278305 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
120278319 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
120278333 AAAACATTTT
1 AAATCATTTT
120278343 ACCTGCAAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
14 36 0.72
15 14 0.28
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:120278309 original size:29 final size:28
Alignment explanation
Indices: 120278276--120278342 Score: 116
Period size: 29 Copynumber: 2.4 Consensus size: 28
120278266 CCAGAAAAGT
120278276 AAATCATTTTCCAGAAATCATTTTCCAGG
1 AAATCATTTTCCAGAAATCATTTTCC-GG
120278305 AAATCATTTTCCAGAAATCATTTTCCGG
1 AAATCATTTTCCAGAAATCATTTTCCGG
*
120278333 AAAACATTTT
1 AAATCATTTT
120278343 ACCTGCAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 11 0.30
29 26 0.70
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (28 bp):
AAATCATTTTCCAGAAATCATTTTCCGG
Found at i:120278740 original size:2 final size:2
Alignment explanation
Indices: 120278733--120278766 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
120278723 TTTTCTTCAA
120278733 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
120278767 GTCAAAGCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120281605 original size:35 final size:35
Alignment explanation
Indices: 120281538--120281687 Score: 159
Period size: 35 Copynumber: 4.5 Consensus size: 35
120281528 CAATATGGTT
* * * * *
120281538 AATACCATACCTATGTTTCACAACTCGGTATGGAA
1 AATACCATACCTACGTATCATAGCTCAGTATGGAA
* * *
120281573 AATATCATACCTACGTATTATAGCTCAATATGGAA
1 AATACCATACCTACGTATCATAGCTCAGTATGGAA
*
120281608 GATACCATA---A--TATCATAGCTCAGTATGG-A
1 AATACCATACCTACGTATCATAGCTCAGTATGGAA
* *
120281637 AATACCATACCTACGTATCATAGCTCGGTATGGAT
1 AATACCATACCTACGTATCATAGCTCAGTATGGAA
120281672 AATACCATACCTACGT
1 AATACCATACCTACGT
120281688 GCCATAACTT
Statistics
Matches: 94, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
29 9 0.10
30 16 0.17
32 2 0.02
34 17 0.18
35 50 0.53
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (35 bp):
AATACCATACCTACGTATCATAGCTCAGTATGGAA
Found at i:120285124 original size:88 final size:88
Alignment explanation
Indices: 120284975--120285151 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 88
120284965 CATTTCCTCT
120284975 GTCTCCTACTAAAAGACTTTAGTAGGTTATGAAATAGATACTATGGTATCTTTTGAAAATTGTTG
1 GTCTCCTACTAAAAGACTTTAGTAGGTTATGAAATAGATACTATGGTATCTTTTGAAAATTGTTG
120285040 ACATTAGTTTAGTCTTTGAACAA
66 ACATTAGTTTAGTCTTTGAACAA
*
120285063 GTCTCCTACTAAAAGACTTTAGTAGGTTATGAAATAGATCCTATGGTATCTTTTGAAAATTGTTG
1 GTCTCCTACTAAAAGACTTTAGTAGGTTATGAAATAGATACTATGGTATCTTTTGAAAATTGTTG
120285128 ACATTAGTTTAGTCTTTGAACAA
66 ACATTAGTTTAGTCTTTGAACAA
120285151 G
1 G
120285152 ATAAAACACT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (88 bp):
GTCTCCTACTAAAAGACTTTAGTAGGTTATGAAATAGATACTATGGTATCTTTTGAAAATTGTTG
ACATTAGTTTAGTCTTTGAACAA
Found at i:120287827 original size:2 final size:2
Alignment explanation
Indices: 120287820--120287863 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
120287810 TAAATTTGTC
*
120287820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT 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
120287862 AT
1 AT
120287864 TTACAACCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:120288818 original size:21 final size:22
Alignment explanation
Indices: 120288794--120288834 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
120288784 TTTACTGAAG
120288794 ATAATATTATTATT-ATTTTAA
1 ATAATATTATTATTGATTTTAA
*
120288815 ATAATTTTATTATTGATTTT
1 ATAATATTATTATTGATTTT
120288835 GATTGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
ATAATATTATTATTGATTTTAA
Found at i:120288991 original size:26 final size:28
Alignment explanation
Indices: 120288962--120289015 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
120288952 GGTATGATAA
* *
120288962 TAATTTTTTTATAAA-A-TTATTTTTAT
1 TAATTTATGTATAAATATTTATTTTTAT
120288988 TAATTTATGTATAAATATTTATTTTTAT
1 TAATTTATGTATAAATATTTATTTTTAT
120289016 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.54
27 1 0.04
28 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (28 bp):
TAATTTATGTATAAATATTTATTTTTAT
Found at i:120291246 original size:14 final size:15
Alignment explanation
Indices: 120291217--120291251 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
120291207 ATATGCTATG
120291217 GAATGAGTCTAATAT
1 GAATGAGTCTAATAT
120291232 GAATGAGTC-AATAT
1 GAATGAGTCTAATAT
*
120291246 GTATGA
1 GAATGA
120291252 TGAGTTTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (15 bp):
GAATGAGTCTAATAT
Found at i:120291594 original size:27 final size:27
Alignment explanation
Indices: 120291534--120291608 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
120291524 TTTATGGCGA
*
120291534 ACCTCT-AAAAGGAAAGCCTTTGTGACG
1 ACCTCTGAGAAGG-AAGCCTTTGTGACG
*
120291561 ACCTCTGA-AATGGAAGCCTTTGTGGCG
1 ACCTCTGAGAA-GGAAGCCTTTGTGACG
**
120291588 ATTTCTGATGAAGGAAGCCTT
1 ACCTCTGA-GAAGGAAGCCTT
120291609 CATGGCAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 27 0.66
28 12 0.29
29 2 0.05
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (27 bp):
ACCTCTGAGAAGGAAGCCTTTGTGACG
Found at i:120300129 original size:17 final size:17
Alignment explanation
Indices: 120300104--120300145 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
120300094 ATATATATAT
120300104 ATATATAATAAAATGTA
1 ATATATAATAAAATGTA
* *
120300121 ATATGTAATGAAATGTA
1 ATATATAATAAAATGTA
120300138 A-ATATAAT
1 ATATATAAT
120300146 GAAGGATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATGTA
Found at i:120300266 original size:17 final size:17
Alignment explanation
Indices: 120300214--120300273 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 17
120300204 AATTTTTTTA
120300214 AAAAATAATATAT-A-T
1 AAAAATAATATATAAGT
*
120300229 -AAAAT-ATACA-AA-T
1 AAAAATAATATATAAGT
* *
120300242 AAATATAATTTATAAGT
1 AAAAATAATATATAAGT
120300259 AAAAATAATATATAA
1 AAAAATAATATATAA
120300274 ATAATATATC
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
13 6 0.18
14 9 0.26
15 3 0.09
16 2 0.06
17 14 0.41
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAAATAATATATAAGT
Found at i:120302138 original size:87 final size:87
Alignment explanation
Indices: 120301838--120302330 Score: 511
Period size: 87 Copynumber: 5.6 Consensus size: 87
120301828 TACAGAGATA
* * ** * * * *
120301838 CCAAATCATCTTAGATTTGCTTCAGCGTAAACA-CGTGAAAGCCAAATCTTCTATGTCTTCGATT
1 CCAAATCATCTTGGATCTGCTTCAGTATAAACATC-TGAAGGTCAGATCTGCTATGTCTTCGATT
120301902 TG-TTCCTTGTAAACACAAGGATG
65 TGCTT-CTTGTAAACACAAGGATG
*
120301925 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTT
1 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTCTTCGATTT
*
120301990 GCTTCTTGTAAACCCAAGGATG
66 GCTTCTTGTAAACACAAGGATG
* *
120302012 CCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTT
1 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTCTTCGATTT
120302077 GCTTCTTGTAAAC-CTAAGGATG
66 GCTTCTTGTAAACAC-AAGGATG
* * * * *
120302099 TCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGT-GTCTACTC
1 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTCTTCGA-TT
* * * * * *
120302163 TCCGTCGAATATGGAGACGCTA-GAT-
65 TGCTTC---T-TGTAAACACAAGGATG
** * * * *
120302188 -C-TGTTATCTTGGATCTGCTTTGATGTGA-AAACATCTAAAAGTCAGATCTGCTATGTCTTCGA
1 CCAAATCATCTTGGATCTGC-TTCA-GT-ATAAACATCTGAAGGTCAGATCTGCTATGTCTTCGA
* *
120302250 TTTGCTCCTTGTAAACACAAGAATG
63 TTTGCTTCTTGTAAACACAAGGATG
* *
120302275 CCAAATCATCTTGGATCTACTTCAGTA-AAGACATCTGAAGGTTAGATCTGCTATGT
1 CCAAATCATCTTGGATCTGCTTCAGTATAA-ACATCTGAAGGTCAGATCTGCTATGT
120302331 ATCTGCTCTC
Statistics
Matches: 339, Mismatches: 49, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
85 7 0.02
86 10 0.03
87 252 0.74
88 11 0.03
89 44 0.13
90 8 0.02
91 6 0.02
92 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (87 bp):
CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTCTTCGATTT
GCTTCTTGTAAACACAAGGATG
Found at i:120302311 original size:176 final size:176
Alignment explanation
Indices: 120301873--120302433 Score: 654
Period size: 174 Copynumber: 3.2 Consensus size: 176
120301863 CGTAAACACG
* * * *
120301873 TGAAAGCCAAATCTTCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTG
1 TGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTG
* * * * * *
120301938 GATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGA-TTTGCTTC---T-TG
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGT-ATCTACTCTCCTTCGAATATG
* * * ** * * *
120301998 TAAACCCAAGGATGCCAAATCATCTTGGATCTGCTTCAATAT--AAACATC
130 GAGACGCAA-GAT--C-TGTTATCTTGGATCTGCTTTAATGTGAAAACATC
* * * *
120302047 TGAAGGTCAGACCTGCTATGTCTTCGATTTGCTTCTTGTAAAC-CTAAGGATGTCAAATCATCTT
1 TGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACAC-AAGGATGCCAAATCATCTT
* *
120302111 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTACTCTCCGTCGAATATG
65 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCTTCGAATATG
* *
120302176 GAGACGCTAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
130 GAGACGCAAGATCTGTTATCTTGGATCTGCTTTAATGTGAAAACATC
* *
120302223 TAAAAGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTG
1 TGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTG
* * * *
120302288 GATCTACTTCAGTA-AAGACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCTATTTGAATAT
66 GATCTGCTTCAGTATAA-ACATCTGAAGGTTAGATCTGCTATGTATCTACTCTC-CTTCGAATAT
* * *
120302352 GGAGATGCCAGATCTGTTATCTTGGATCTGCTTTAATGTGAGAACATC
129 GGAGACGCAAGATCTGTTATCTTGGATCTGCTTTAATGTGAAAACATC
* *
120302400 CGAAAGTCAGATCTACTATGTCTTCGATTTGCTC
1 TGAAAGTCAGATCTGCTATGTCTTCGATTTGCTC
120302434 TCCGTCGAAG
Statistics
Matches: 332, Mismatches: 44, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
173 4 0.01
174 120 0.36
175 3 0.01
176 111 0.33
177 87 0.26
178 7 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (176 bp):
TGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTG
GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCTTCGAATATGG
AGACGCAAGATCTGTTATCTTGGATCTGCTTTAATGTGAAAACATC
Found at i:120305580 original size:105 final size:102
Alignment explanation
Indices: 120305460--120305657 Score: 233
Period size: 105 Copynumber: 1.9 Consensus size: 102
120305450 ACACTCGTAG
**
120305460 TGCCATAATCCAGTTATGGCC-TTATCA-TCAAGATGCCATAGCCCAGCTATGGTCTTACACTTG
1 TGCCATAATCCAGTTATCACCTTTA-CACTCAA-ATGCCATAGCCCAGCTATGGTCTTACA-TT-
*
120305523 TATATA-TACTGCCATGGTCCAACCATGGTCTTACGTTCACGA
62 TA-ACACT-CTGCCATGGTCCAACCATGGTCTTACGTTCACGA
* * *
120305565 TGCCATAA-CCTAGTTATCATCTTTACACTGAAATGCCATAGCCCATCTATGGTCTTACATTTAA
1 TGCCATAATCC-AGTTATCACCTTTACACTCAAATGCCATAGCCCAGCTATGGTCTTACATTTAA
* *
120305629 CACTTTGCCATGGTCCTACCATGGTCTTA
65 CACTCTGCCATGGTCCAACCATGGTCTTA
120305658 TCTATCAATT
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
102 25 0.31
103 3 0.04
104 4 0.05
105 43 0.53
106 6 0.07
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (102 bp):
TGCCATAATCCAGTTATCACCTTTACACTCAAATGCCATAGCCCAGCTATGGTCTTACATTTAAC
ACTCTGCCATGGTCCAACCATGGTCTTACGTTCACGA
Found at i:120309040 original size:26 final size:26
Alignment explanation
Indices: 120309005--120309057 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
120308995 ATAACAAAAG
*
120309005 AAAAAGAAAACATCTTCTTCTCCATA
1 AAAAAGAAAAAATCTTCTTCTCCATA
120309031 AAAAAGAAAAAATCTTCTTCTCCATA
1 AAAAAGAAAAAATCTTCTTCTCCATA
120309057 A
1 A
120309058 GGTTTCACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.49, C:0.21, G:0.04, T:0.26
Consensus pattern (26 bp):
AAAAAGAAAAAATCTTCTTCTCCATA
Found at i:120317850 original size:21 final size:21
Alignment explanation
Indices: 120317791--120317854 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
120317781 TTGCATCAAC
120317791 TTAATTTTAAT-TTTAACTATTA
1 TTAATTTTAATATTTAA-T-TTA
* * *
120317813 -TATTTTTCATTAATTAATTTA
1 TTAATTTT-AATATTTAATTTA
120317834 TTAATTTTAATATTTAATTTA
1 TTAATTTTAATATTTAATTTA
120317855 AAGTTACAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
21 20 0.61
22 9 0.27
23 4 0.12
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (21 bp):
TTAATTTTAATATTTAATTTA
Found at i:120318972 original size:27 final size:28
Alignment explanation
Indices: 120318942--120318997 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
120318932 AAAAAATATA
120318942 TATAAACACTAAATTTATATTAT-ATTT
1 TATAAACACTAAATTTATATTATAATTT
120318969 TATAAACACTAAATTTATATTATAATTT
1 TATAAACACTAAATTTATATTATAATTT
120318997 T
1 T
120318998 TGACAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (28 bp):
TATAAACACTAAATTTATATTATAATTT
Found at i:120319215 original size:13 final size:13
Alignment explanation
Indices: 120319199--120319224 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
120319189 TTTATTTTTG
120319199 GATAAAATTTAAA
1 GATAAAATTTAAA
120319212 GATAAAATTTAAA
1 GATAAAATTTAAA
120319225 TTTTTTAATT
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:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
GATAAAATTTAAA
Found at i:120326083 original size:19 final size:19
Alignment explanation
Indices: 120326047--120326083 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
120326037 ATGAAAGTTT
**
120326047 TAAAATGTGTAATTAAAAC
1 TAAAATGTGTAAAAAAAAC
120326066 TAAAATGTGTAAAAAAAA
1 TAAAATGTGTAAAAAAAA
120326084 ATCAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (19 bp):
TAAAATGTGTAAAAAAAAC
Found at i:120326090 original size:20 final size:19
Alignment explanation
Indices: 120326047--120326091 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
120326037 ATGAAAGTTT
** *
120326047 TAAAATGTGTAATTAAAAC
1 TAAAATGTGTAAAAAAAAA
120326066 TAAAATGTGTAAAAAAAAA
1 TAAAATGTGTAAAAAAAAA
120326085 TCAAAAT
1 T-AAAAT
120326092 AAAATTTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (19 bp):
TAAAATGTGTAAAAAAAAA
Found at i:120329120 original size:33 final size:33
Alignment explanation
Indices: 120329079--120329254 Score: 165
Period size: 33 Copynumber: 5.4 Consensus size: 33
120329069 AAGGGTGGTA
* * *
120329079 TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
1 TTGAAAAGGAAATGTACACTTTGTGTGTACCAC
* * *
120329112 TTGAAAAGGAAAAGTACACTATATGTGTA-CAC
1 TTGAAAAGGAAATGTACACTTTGTGTGTACCAC
** * *
120329144 TTGAAAAGGTTATGTACACTTTGTGTGTACAAA
1 TTGAAAAGGAAATGTACACTTTGTGTGTACCAC
** *
120329177 TTGAAAAGGGTATGTACACTTCGTGTGTACCAC
1 TTGAAAAGGAAATGTACACTTTGTGTGTACCAC
* * * * * *
120329210 TTGAAAAGGGAATGTGCACCTCGGGTGTACAAC
1 TTGAAAAGGAAATGTACACTTTGTGTGTACCAC
*
120329243 TAGAAAAGGAAA
1 TTGAAAAGGAAA
120329255 GGTCCATCGA
Statistics
Matches: 119, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
32 27 0.23
33 92 0.77
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.27
Consensus pattern (33 bp):
TTGAAAAGGAAATGTACACTTTGTGTGTACCAC
Found at i:120329165 original size:65 final size:66
Alignment explanation
Indices: 120329096--120329218 Score: 160
Period size: 65 Copynumber: 1.9 Consensus size: 66
120329086 GGAAAGGTAT
* *
120329096 ACTTTGTGTATACCACTTGAAAAGGAAAAGTACACTAT-ATGTGTA-CACTTGAAAAGGTTATGT
1 ACTTTGTGTATACAAATTGAAAAGGAAAAGTACACT-TCATGTGTACCACTTGAAAAGGTTATGT
120329159 AC
65 AC
* ** * *
120329161 ACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTCGTGTGTACCACTTGAAAAGG
1 ACTTTGTGTATACAAATTGAAAAGGAAAAGTACACTTCATGTGTACCACTTGAAAAGG
120329219 GAATGTGCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
64 1 0.02
65 36 0.73
66 12 0.24
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (66 bp):
ACTTTGTGTATACAAATTGAAAAGGAAAAGTACACTTCATGTGTACCACTTGAAAAGGTTATGTA
C
Found at i:120331660 original size:46 final size:46
Alignment explanation
Indices: 120331370--120331684 Score: 149
Period size: 49 Copynumber: 6.7 Consensus size: 46
120331360 ATGCCGACGC
* ** *
120331370 CATGTCCCAGACATGATCTTACACTGGCTAGCA-CGTCAAAGCCGATG
1 CATGTCCCAGACATG-TCTTACACTAGCTCTCATC-TCAAAGCTGATG
* * * *
120331417 CCATGTCCCAGACATGTCTTACACT-GACTTTCATGT-ATAGAGGCCGATAA
1 -CATGTCCCAGACATGTCTTACACTAG-CTCTCATCTCA-A-A-GCTGAT-G
* * * * * *** *
120331467 CGTGTTCCAGATAGGTCTTACACTGGCTCTCATCTATCGGTGTTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATC--TCAAAGCTGATG
* * * * *
120331515 CCATGTCCCAGACAGGTCTTACACT-G-ACACA-C-AATAAGCTGACG
1 -CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCA-AAGCTGATG
* * * * * *
120331559 CCATGTCCCAGACAAGTCTTACACTAGTTTGTATATCTCGAGGCTGATG
1 -CATGTCCCAGACATGTCTTACACTAG-CTCT-CATCTCAAAGCTGATG
* *
120331608 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAAGTTGGTG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAAGCTGATG
* * *
120331654 CATGTCCCAAACATTTCTTACAGTAGCTCTC
1 CATGTCCCAGACATGTCTTACACTAGCTCTC
120331685 GTAATGTGAC
Statistics
Matches: 202, Mismatches: 47, Indels: 38
0.70 0.16 0.13
Matches are distributed among these distances:
44 29 0.14
45 1 0.00
46 42 0.21
47 20 0.10
48 43 0.21
49 65 0.32
50 1 0.00
51 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAAGCTGATG
Found at i:120336106 original size:20 final size:20
Alignment explanation
Indices: 120336078--120336129 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
120336068 CGGGTAAGGG
*
120336078 ACACGGGCGTGTCCCAATGC
1 ACACAGGCGTGTCCCAATGC
120336098 ACACAGGCGTGTCCCAATGC
1 ACACAGGCGTGTCCCAATGC
120336118 ACACAGGCGTGT
1 ACACAGGCGTGT
120336130 GCATTGCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.33, G:0.29, T:0.15
Consensus pattern (20 bp):
ACACAGGCGTGTCCCAATGC
Found at i:120341851 original size:33 final size:33
Alignment explanation
Indices: 120341784--120341853 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
120341774 AAAAATGGTT
* * *
120341784 TTTTAATATTATTTTCTTATTATTTTCTCCCTA
1 TTTTAATATTATTTTATTATTATTTGCTCACTA
*
120341817 TTTTACTATTATTTTATTATTATGTTGCT-ACTA
1 TTTTAATATTATTTTATTATTAT-TTGCTCACTA
120341850 TTTT
1 TTTT
120341854 GTTGTTATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.21, C:0.11, G:0.03, T:0.64
Consensus pattern (33 bp):
TTTTAATATTATTTTATTATTATTTGCTCACTA
Found at i:120341927 original size:30 final size:30
Alignment explanation
Indices: 120341891--120341950 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
120341881 ATTTATTTTA
120341891 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
120341921 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
120341951 CTGCTTCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:120343337 original size:2 final size:2
Alignment explanation
Indices: 120343330--120343362 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
120343320 CTAATATGAT
120343330 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 T
120343363 TAGGCATGTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:120343880 original size:2 final size:2
Alignment explanation
Indices: 120343875--120343902 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
120343865 CATGCGTGTG
120343875 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
120343903 ATCATATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:120344020 original size:226 final size:211
Alignment explanation
Indices: 120343678--120344170 Score: 761
Period size: 226 Copynumber: 2.3 Consensus size: 211
120343668 TTTTGTAATG
*
120343678 TCATATTAGTGAATTTGCTAATACATACTTCATCCAGGTAAAGTATGCATTATTAAAATTAAATT
1 TCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATT-TTAAAATTAAATT
120343743 AAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTAGAAAATAACTATTATTGTAA
65 AAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTAGAAAATAACTATTATTGTAA
*
120343808 TGAGATACATGCTTTATTATGTATAAGTATTTAAATTTTTGTTTTTGTAATGTGATACATGCGTG
130 TGAGATACATGCTTTATTAGGTATAAGTATTT-AA--TTT-TTTTTGTAATGTGATACATGC---
120343873 TGTATATATATATATATATATATATATATAA
188 -G----TA-A-ATATATATATATATATATAA
*
120343904 TCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGTATTGTTAAAATTAAATT
1 TCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATT-TTAAAATTAAATT
*
120343969 AAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAA
65 AAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTAGAAAATAACTATTATTGTAA
*
120344034 TGAGATACATGTTTTATTAGGTATAAGTATTTAATTTTTTTTGTAATGTGATACATGCGTAAATA
130 TGAGATACATGCTTTATTAGGTATAAGTATTTAATTTTTTTTGTAATGTGATACATGCGTAAATA
120344099 TATATATATATATATAA
195 TATATATATATATATAA
* * * *
120344116 TCATATTAGTAAATCTACTAATACATACTTCATCCAGATAAAATATGCATTTTAA
1 TCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATTTTAA
120344171 TAACATATGA
Statistics
Matches: 256, Mismatches: 11, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
211 4 0.02
212 66 0.26
213 1 0.00
214 2 0.01
218 1 0.00
222 21 0.08
223 3 0.01
225 2 0.01
226 156 0.61
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (211 bp):
TCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATTTTAAAATTAAATTA
AAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTAGAAAATAACTATTATTGTAAT
GAGATACATGCTTTATTAGGTATAAGTATTTAATTTTTTTTGTAATGTGATACATGCGTAAATAT
ATATATATATATATAA
Found at i:120357512 original size:23 final size:23
Alignment explanation
Indices: 120357459--120357512 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
120357449 AAGCAAATTA
* * *
120357459 TAAATTCAGGTGCACCGAAGTGT
1 TAAATTCAGGAGCACCAAAGTGC
**
120357482 TAGTTTCAGGAGCACCAAAGTGC
1 TAAATTCAGGAGCACCAAAGTGC
120357505 TAAATTCA
1 TAAATTCA
120357513 TAAGCGCGCT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (23 bp):
TAAATTCAGGAGCACCAAAGTGC
Found at i:120363579 original size:13 final size:13
Alignment explanation
Indices: 120363561--120363585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120363551 TTCCCTGTTT
120363561 TCACACGGCCGTA
1 TCACACGGCCGTA
120363574 TCACACGGCCGT
1 TCACACGGCCGT
120363586 GTTTCATCCC
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
TCACACGGCCGTA
Found at i:120370307 original size:13 final size:13
Alignment explanation
Indices: 120370286--120370316 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
120370276 GCTCGACAGG
120370286 GACACGCCCGTGT
1 GACACGCCCGTGT
*
120370299 GACATGCCCGTGT
1 GACACGCCCGTGT
120370312 GACAC
1 GACAC
120370317 TCCCATGTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.16
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:120378135 original size:55 final size:55
Alignment explanation
Indices: 120378043--120378149 Score: 130
Period size: 55 Copynumber: 1.9 Consensus size: 55
120378033 AATGTGCAAC
* *
120378043 ACTGACTTTAATGCATGGCCATGGATCACATCCGTGTGACCTGCCCGTGTACGAT
1 ACTGACTTTAATGCATAGCCATGGATCACATCCGTGTGACCTACCCGTGTACGAT
* *
120378098 ACTGACTTTAA-GACATAGCCATGGCA-CACA-CCAGTGTGGCTTACCCGTGTAC
1 ACTGACTTTAATG-CATAGCCATGG-ATCACATCC-GTGTGACCTACCCGTGTAC
120378150 AACAATAACT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
54 3 0.07
55 41 0.91
56 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (55 bp):
ACTGACTTTAATGCATAGCCATGGATCACATCCGTGTGACCTACCCGTGTACGAT
Found at i:120389868 original size:2 final size:2
Alignment explanation
Indices: 120389861--120389901 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
120389851 AATCAATCTA
120389861 AT AT AT AT 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 AT AT AT AT A
120389902 CCAATTCAAT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120390617 original size:19 final size:18
Alignment explanation
Indices: 120390595--120390646 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
120390585 CCTTCTTTCT
120390595 TTTCTTTTTTTCCTTTAC
1 TTTCTTTTTTTCCTTTAC
* *
120390613 GTTTCTTTTCTACCTTT-C
1 -TTTCTTTTTTTCCTTTAC
*
120390631 TTTCTCTTTTT-CTTTA
1 TTTCTTTTTTTCCTTTA
120390647 TTTATTCATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 1 0.04
19 14 0.52
ACGTcount: A:0.06, C:0.23, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTCTTTTTTTCCTTTAC
Found at i:120404334 original size:23 final size:23
Alignment explanation
Indices: 120404308--120404352 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
120404298 TGGGTATGTG
*
120404308 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
120404331 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
120404353 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:120412167 original size:23 final size:23
Alignment explanation
Indices: 120412141--120412185 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
120412131 TGGGTATGTG
*
120412141 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
120412164 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
120412186 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:120419025 original size:16 final size:17
Alignment explanation
Indices: 120418999--120419034 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
120418989 CCTTCCATTT
120418999 TTTTCACACTTCAATCC
1 TTTTCACACTTCAATCC
120419016 TTTT-ACACTTCAATCC
1 TTTTCACACTTCAATCC
120419032 TTT
1 TTT
120419035 CAATATTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTCACACTTCAATCC
Found at i:120420237 original size:7 final size:7
Alignment explanation
Indices: 120420225--120420277 Score: 106
Period size: 7 Copynumber: 7.6 Consensus size: 7
120420215 TAGTCAAATC
120420225 GTATTTA
1 GTATTTA
120420232 GTATTTA
1 GTATTTA
120420239 GTATTTA
1 GTATTTA
120420246 GTATTTA
1 GTATTTA
120420253 GTATTTA
1 GTATTTA
120420260 GTATTTA
1 GTATTTA
120420267 GTATTTA
1 GTATTTA
120420274 GTAT
1 GTAT
120420278 ATAACTAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:120420807 original size:30 final size:30
Alignment explanation
Indices: 120420771--120420862 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 30
120420761 GACACGGGCT
120420771 CATCAACAGCGCCCAGACAATCACC-GTGCC
1 CATCAACAGCGCCCAGACAATCACCAG-GCC
* *
120420801 CATCAACAGCTCCCATACAATCACCAGGCC
1 CATCAACAGCGCCCAGACAATCACCAGGCC
* ** * *
120420831 CATCAATAGCGGTCACACAGTCACCAGGCC
1 CATCAACAGCGCCCAGACAATCACCAGGCC
120420861 CA
1 CA
120420863 ACACTTCAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
30 52 0.98
31 1 0.02
ACGTcount: A:0.32, C:0.41, G:0.15, T:0.12
Consensus pattern (30 bp):
CATCAACAGCGCCCAGACAATCACCAGGCC
Found at i:120421244 original size:21 final size:22
Alignment explanation
Indices: 120421198--120421245 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
120421188 ACAACATCCA
120421198 CAACCAGATCCCCTGCCAGAAG
1 CAACCAGATCCCCTGCCAGAAG
*
120421220 -AACCAGAATCCCC-GCC-GGAG
1 CAACCAG-ATCCCCTGCCAGAAG
120421240 CAACCA
1 CAACCA
120421246 CAACCCTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 14 0.61
22 6 0.26
ACGTcount: A:0.33, C:0.42, G:0.19, T:0.06
Consensus pattern (22 bp):
CAACCAGATCCCCTGCCAGAAG
Found at i:120421462 original size:54 final size:55
Alignment explanation
Indices: 120421380--120421500 Score: 140
Period size: 54 Copynumber: 2.2 Consensus size: 55
120421370 TATTGTTTCA
* * *
120421380 TTTAATAAAATAAAATTTATTTTGAATAAAG-TA-ATTGT-AATTTACTTTTATATT
1 TTTAATAAAATAAAAGTTATTTTAAATAAAGCAATATTGTGAA--TACTTTTATATT
* * * *
120421434 TTTAATAAAATAGAAGTTCTTTTAAATAAAGCAATATTTTGAATATTTTTATATT
1 TTTAATAAAATAAAAGTTATTTTAAATAAAGCAATATTGTGAATACTTTTATATT
120421489 TTTAATAAAATA
1 TTTAATAAAATA
120421501 TAAATAATGC
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
54 27 0.47
55 24 0.42
56 4 0.07
57 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (55 bp):
TTTAATAAAATAAAAGTTATTTTAAATAAAGCAATATTGTGAATACTTTTATATT
Found at i:120424749 original size:126 final size:126
Alignment explanation
Indices: 120424524--120425272 Score: 1065
Period size: 126 Copynumber: 6.0 Consensus size: 126
120424514 GCCAAATAGG
* *
120424524 AACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTATTTTTGCTGACAATGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCC
* * *
120424589 TGCTTGAAGCGTTTTTGACATTATTTGTTCAGAAACATCTTTTCAAAATTATTTTTTCAGA
66 TGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * * * * *
120424650 AACTACTATAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTTAGTACTTTTGCTGACACTGTACCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCC
* * *
120424715 TACTTAAAGCATTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
66 TGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * * * * * * *
120424776 AACTACTGTAGAAAAAAAACGTCCACATGGGAGCTTTTTTCAATACTTTTGTTGACAGTACATCT
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCC
* * *
120424841 TGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTACTTTTTCAGA
66 TGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* ** *
120424902 AACTATTGTAG--AAA-AGCGTCCATATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCC
* * *
120424964 TGCTTAAAGCTTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAAA
66 TGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
*
120425025 AACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCC
* * *
120425090 TCCTTGAAGCGTTTTTGACATTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
66 TGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * * * *
120425151 AACTACTGTAGAAAAAAAAG-ATCCACGTGAGAGTTTTTTTCAGTACTTTTGCTGACAGTGCATC
1 AACTACTGTAG-AAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATC
* * *
120425215 TTGCTTAAAGCGTTTTTGACACTATTTGTTTAGAAACATTTTCTCAAAATTATTTTTT
65 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT
120425273 AGATACGTCT
Statistics
Matches: 552, Mismatches: 67, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
123 107 0.19
124 3 0.01
125 3 0.01
126 433 0.78
127 6 0.01
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCC
TGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
Found at i:120425241 original size:375 final size:375
Alignment explanation
Indices: 120424551--120425272 Score: 1149
Period size: 375 Copynumber: 1.9 Consensus size: 375
120424541 AGTGTCCACG
* * *
120424551 TGGGAGCTTTTTTCAGTATTTTTGCTGACAATGCATCCTGCTTGAAGCGTTTTTGACATTATTTG
1 TGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCCTGCTTAAAGCGTTTTTGACACTATTTG
* * *
120424616 TTCAGAAACATCTTTTCAAAATTATTTTTTCAGAAACTACTATAGAAAAAGAGCGTCCACGTGGA
66 TTCAGAAACATCTTCTCAAAATTATTTTTTCAAAAACTACTATAGAAAAAGAACGTCCACGTGGA
* * * *
120424681 AGCTTTTTTTAGTACTTTTGCTGACACTGTACCCTACTTAAAGCATTTTTTACACTATTTGTTCA
131 AGCTTTTTTCAGTACTTTTGCTGACAATGCACCCTACTTAAAGCATTTTTGACACTATTTGTTCA
*
120424746 GAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAAAACGTCCACATGGGAGCT
196 GAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAAAACGTCCACATGAGAGCT
* * *
120424811 TTTTTCAATACTTTTGTTGACAGTACATCTTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAA
261 TTTTTCAATACTTTTGCTGACAGTACATCTTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAA
120424876 CATCTTCTCAAAATTACTTTTTCAGAAACTATTGTAGAAAAGCGTCCATA
326 CATCTTCTCAAAATTACTTTTTCAGAAACTATTGTAGAAAAGCGTCCATA
* *
120424926 TGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTAAAGCTTTTTTGACACTATTTG
1 TGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCCTGCTTAAAGCGTTTTTGACACTATTTG
* * *
120424991 TTTAGAAACATCTTCTCAAAATTATTTTTTCAAAAACTACTGTAGAAAAAGAACGTCCACGTGGG
66 TTCAGAAACATCTTCTCAAAATTATTTTTTCAAAAACTACTATAGAAAAAGAACGTCCACGTGGA
* * * * *
120425056 AGCTTTTTTCAGTACTTTTGCTGACAATGCATCCTCCTTGAAGCGTTTTTGACATTATTTGTTCA
131 AGCTTTTTTCAGTACTTTTGCTGACAATGCACCCTACTTAAAGCATTTTTGACACTATTTGTTCA
* *
120425121 GAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAAAA-GATCCACGTGAGAGT
196 GAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAAAACG-TCCACATGAGAGC
* * *
120425185 TTTTTTCAGTACTTTTGCTGACAGTGCATCTTGCTTAAAGCGTTTTTGACACTATTTGTTTAGAA
260 TTTTTTCAATACTTTTGCTGACAGTACATCTTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAA
* *
120425250 ACATTTTCTCAAAATTATTTTTT
325 ACATCTTCTCAAAATTACTTTTT
120425273 AGATACGTCT
Statistics
Matches: 315, Mismatches: 31, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
374 1 0.00
375 314 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (375 bp):
TGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCCTGCTTAAAGCGTTTTTGACACTATTTG
TTCAGAAACATCTTCTCAAAATTATTTTTTCAAAAACTACTATAGAAAAAGAACGTCCACGTGGA
AGCTTTTTTCAGTACTTTTGCTGACAATGCACCCTACTTAAAGCATTTTTGACACTATTTGTTCA
GAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAAAACGTCCACATGAGAGCT
TTTTTCAATACTTTTGCTGACAGTACATCTTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAA
CATCTTCTCAAAATTACTTTTTCAGAAACTATTGTAGAAAAGCGTCCATA
Found at i:120425274 original size:27 final size:27
Alignment explanation
Indices: 120425237--120425312 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
120425227 TTTTTGACAC
120425237 TATTTGTTTAGAAACATTTTCTCAAAAT
1 TATTT-TTTAGAAACATTTTCTCAAAAT
* * * * *
120425265 TATTTTTTAGATACGTCTTCTCTAATT
1 TATTTTTTAGAAACATTTTCTCAAAAT
120425292 TATTTTTTCAGAAACTATTTT
1 TATTTTTT-AGAAAC-ATTTT
120425313 TTTTATTGCT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
27 25 0.66
28 10 0.26
29 3 0.08
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.53
Consensus pattern (27 bp):
TATTTTTTAGAAACATTTTCTCAAAAT
Found at i:120426867 original size:13 final size:13
Alignment explanation
Indices: 120426816--120426872 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 13
120426806 TAAACTTGTG
* *
120426816 AAAAGTACTTCTT
1 AAAAATACTTTTT
*
120426829 AAAAGTACTTTTT
1 AAAAATACTTTTT
* * * *
120426842 CATAACACCTTTT
1 AAAAATACTTTTT
120426855 AAAAATACTTTTT
1 AAAAATACTTTTT
120426868 AAAAA
1 AAAAA
120426873 CATTGCTACT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.39
Consensus pattern (13 bp):
AAAAATACTTTTT
Found at i:120440308 original size:12 final size:12
Alignment explanation
Indices: 120440285--120440321 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
120440275 CCTTTCTTTC
120440285 TTTTCTTT-TTT
1 TTTTCTTTGTTT
120440296 TTTT-TTTGGTTT
1 TTTTCTTT-GTTT
120440308 TTTTCTTTGTTT
1 TTTTCTTTGTTT
120440320 TT
1 TT
120440322 GTTGCAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 3 0.13
11 4 0.17
12 13 0.57
13 3 0.13
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.86
Consensus pattern (12 bp):
TTTTCTTTGTTT
Found at i:120441672 original size:22 final size:21
Alignment explanation
Indices: 120441633--120441681 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
120441623 ATCATATTAT
*
120441633 AAATTTTCAAGGGTTGAAGATA
1 AAATTTTCAAGGGATGAA-ATA
* *
120441655 AAATTTTGAAGTGATGAAATA
1 AAATTTTCAAGGGATGAAATA
*
120441676 TAATTT
1 AAATTT
120441682 AAGGATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (21 bp):
AAATTTTCAAGGGATGAAATA
Found at i:120443276 original size:25 final size:25
Alignment explanation
Indices: 120443248--120443299 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
120443238 ATTAAAATAT
120443248 AAATA-ATAAAAAAATTTAGATTTTA
1 AAATAGATAAAAAAATTTA-ATTTTA
** *
120443273 AAATAGATTTATAAATTTAATTTTA
1 AAATAGATAAAAAAATTTAATTTTA
120443298 AA
1 AA
120443300 TTTTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
AAATAGATAAAAAAATTTAATTTTA
Found at i:120443299 original size:12 final size:13
Alignment explanation
Indices: 120443259--120443302 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
120443249 AATAATAAAA
120443259 AAATTTAGATTTT
1 AAATTTAGATTTT
*
120443272 AAA-ATAGATTTAT
1 AAATTTAGATTT-T
120443285 AAATTTA-ATTTT
1 AAATTTAGATTTT
120443297 AAATTT
1 AAATTT
120443303 TATAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 14 0.52
13 11 0.41
14 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (13 bp):
AAATTTAGATTTT
Found at i:120444662 original size:86 final size:86
Alignment explanation
Indices: 120444566--120444754 Score: 231
Period size: 88 Copynumber: 2.2 Consensus size: 86
120444556 CTTAAAAAAG
* * ** *
120444566 AAAAATAATTAAGCCCCT-CTT-TTTTTCAGTCAATT-GAGTACTTAAACTTTCAAAATGTATCA
1 AAAAACAATTAAGCCCCTGCTTGTTTTTCACTCAATTAG-GTACTTAAACTTTCAAAATACACCA
** *
120444628 AAAAGTTCCTCAAACTTCTTCAAA
65 AAAAGACCCTCAAAATT-TT-AAA
* *
120444652 AAAAGCAATTAAGCTCCTGCTTGTTTTTCACTCAATTAGGTACTTAAACTTTCAAAATACACCAA
1 AAAAACAATTAAGCCCCTGCTTGTTTTTCACTCAATTAGGTACTTAAACTTTCAAAATACACCAA
120444717 AAAGACCCTCAAAATTTTAAA
66 AAAGACCCTCAAAATTTTAAA
*
120444738 AAAAATAATTAAGCCCC
1 AAAAACAATTAAGCCCC
120444755 GGCTCTTATT
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
86 32 0.37
87 5 0.06
88 49 0.56
89 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (86 bp):
AAAAACAATTAAGCCCCTGCTTGTTTTTCACTCAATTAGGTACTTAAACTTTCAAAATACACCAA
AAAGACCCTCAAAATTTTAAA
Found at i:120444814 original size:19 final size:18
Alignment explanation
Indices: 120444792--120444850 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
120444782 TATAAATAAT
120444792 AAAAATAATAAATTTTAGA
1 AAAAATAATAAATTTTA-A
* *
120444811 AAAATTATTAAATTTTAA
1 AAAAATAATAAATTTTAA
* *
120444829 TAAAATATAAAAAAATTTAA
1 -AAAA-ATAATAAATTTTAA
120444849 AA
1 AA
120444851 TTTATTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
18 1 0.03
19 21 0.66
20 10 0.31
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAATAATAAATTTTAA
Found at i:120444856 original size:37 final size:37
Alignment explanation
Indices: 120444788--120444859 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
120444778 AAATTATAAA
* *
120444788 TAATAAAAATAATAAATTTTAGAAAAATTATTAAATTT
1 TAATAAAAATAAAAAAATTTA-AAAAATTATTAAATTT
*
120444826 TAATAAAATATAAAAAAATTT-AAAATTTATTAAA
1 TAATAAAA-ATAAAAAAATTTAAAAAATTATTAAA
120444860 ATTAGAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 12 0.40
38 8 0.27
39 10 0.33
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (37 bp):
TAATAAAAATAAAAAAATTTAAAAAATTATTAAATTT
Found at i:120445117 original size:19 final size:18
Alignment explanation
Indices: 120445095--120445244 Score: 65
Period size: 19 Copynumber: 7.9 Consensus size: 18
120445085 CAAAAATTTT
120445095 ATTTTTTACATTTTGTATA
1 ATTTTTTACATTTT-TATA
* *
120445114 ATTTTCTTACGACTTTATAAA
1 ATTTT-TTAC-A-TTTTTATA
* *
120445135 ATTTTATAC-TTTTT-TT
1 ATTTTTTACATTTTTATA
* *
120445151 ATATTTCTATATATTTTATA
1 AT-TTTTTACAT-TTTTATA
*
120445171 AATTTTTACAATTTTTATACA
1 ATTTTTTAC-ATTTTTAT--A
*
120445192 ATTTTATA-ATTTTTTATA
1 ATTTTTTACA-TTTTTATA
* *
120445210 TTTTTTTACGAATTTTATA
1 ATTTTTTAC-ATTTTTATA
*
120445229 TTTTTTCTA-ATTTTTA
1 ATTTTT-TACATTTTTA
120445245 ATAAATTTTA
Statistics
Matches: 99, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
16 2 0.02
17 9 0.09
18 14 0.14
19 34 0.34
20 21 0.21
21 16 0.16
22 3 0.03
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTTTTACATTTTTATA
Found at i:120445161 original size:29 final size:28
Alignment explanation
Indices: 120445127--120445319 Score: 110
Period size: 28 Copynumber: 6.8 Consensus size: 28
120445117 TTCTTACGAC
*
120445127 TTTATAAAATTTTATACTTTTTTTATATT
1 TTTATAAAATTTTATA-ATTTTTTATATT
* * * *
120445156 TCTAT-ATATTTTATAAATTTTTACAATT
1 TTTATAAAATTTTATAATTTTTTA-TATT
*
120445184 TTTATACAATTTTATAATTTTTTATATT
1 TTTATAAAATTTTATAATTTTTTATATT
* * *
120445212 TTTTTACGAATTTTAT-ATTTTTTCTAATT
1 TTTATA-AAATTTTATAATTTTTTAT-ATT
** *
120445241 TTTA-ATAAATTTTA-AATATTTGAATTTT
1 TTTATA-AAATTTTATAAT-TTTTTATATT
* * **
120445269 TTTAATTAAAATTTAATAA-TATTTATAGA
1 TTT-A-TAAAATTTTATAATTTTTTATATT
**
120445298 TTT-TAATTTTTTATAATTTTTT
1 TTTATAAAATTTTATAATTTTTT
120445320 TCTAATTTTT
Statistics
Matches: 122, Mismatches: 31, Indels: 24
0.69 0.18 0.14
Matches are distributed among these distances:
26 10 0.08
27 10 0.08
28 47 0.39
29 45 0.37
30 7 0.06
31 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTATAAAATTTTATAATTTTTTATATT
Found at i:120445216 original size:10 final size:10
Alignment explanation
Indices: 120445164--120445253 Score: 55
Period size: 10 Copynumber: 9.2 Consensus size: 10
120445154 TTTCTATATA
*
120445164 TTTTATAAAT
1 TTTTATAATT
*
120445174 TTTTACAA-T
1 TTTTATAATT
*
120445183 TTTTATACA-A
1 TTTTATA-ATT
120445193 TTTTATAATT
1 TTTTATAATT
*
120445203 TTTTATATTT
1 TTTTATAATT
*
120445213 TTTTACGAA--
1 TTTTA-TAATT
120445222 TTTTAT-ATT
1 TTTTATAATT
*
120445231 TTTTCTAATT
1 TTTTATAATT
*
120445241 TTTAATAAATT
1 TTTTAT-AATT
120445252 TT
1 TT
120445254 AAATATTTGA
Statistics
Matches: 62, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
7 1 0.02
9 18 0.29
10 36 0.58
11 7 0.11
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:120445229 original size:67 final size:63
Alignment explanation
Indices: 120445064--120445244 Score: 152
Period size: 67 Copynumber: 2.7 Consensus size: 63
120445054 TTTTGGTATG
* * * *
120445064 ATAATTTTTATAATTTTTTTACAAAAATTT-TATTTTTTACATTTTGTATAATTTTCTTACGACT
1 ATAATTTTTAT-ATTTTTTTAC--AATTTTATATTTTTTAAATTTT-TACAATTTTCTTACAACT
120445128 TT
62 TT
* *
120445130 ATAAAATTTTATACTTTTTTTA-TATTTCTATATATTTTATAAATTTTTACAATTTT-TATACAA
1 AT-AATTTTTATA-TTTTTTTACAATTT-TATAT-TTTT-TAAATTTTTACAATTTTCT-TACAA
*
120445193 TTTT
60 CTTT
*
120445197 ATAATTTTTTATATTTTTTTACGAATTTTATATTTTTTCTAATTTTTA
1 ATAA-TTTTTATATTTTTTTAC-AATTTTATATTTTTT-AAATTTTTA
120445245 ATAAATTTTA
Statistics
Matches: 94, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
64 3 0.03
65 2 0.02
66 29 0.31
67 49 0.52
68 11 0.12
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (63 bp):
ATAATTTTTATATTTTTTTACAATTTTATATTTTTTAAATTTTTACAATTTTCTTACAACTTT
Found at i:120445251 original size:28 final size:28
Alignment explanation
Indices: 120445127--120445254 Score: 111
Period size: 28 Copynumber: 4.5 Consensus size: 28
120445117 TTCTTACGAC
*
120445127 TTTATAAAATTTTATACTTTTTT-TATATT
1 TTTAT-AAATTTTATAATTTTTTCTA-ATT
* * *
120445156 TCTATATATTTTATAAATTTTTAC-AATT
1 TTTATAAATTTTAT-AATTTTTTCTAATT
*
120445184 TTTATACAATTTTATAATTTTTTAT-ATT
1 TTTATA-AATTTTATAATTTTTTCTAATT
*
120445212 TTTTTACGAATTTTAT-ATTTTTTCTAATT
1 TTTATA--AATTTTATAATTTTTTCTAATT
120445241 TTTAATAAATTTTA
1 TTT-ATAAATTTTA
120445255 AATATTTGAA
Statistics
Matches: 80, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
28 46 0.57
29 32 0.40
30 2 0.03
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTATAAATTTTATAATTTTTTCTAATT
Found at i:120445570 original size:20 final size:20
Alignment explanation
Indices: 120445547--120445585 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
120445537 AATTGAGCCC
120445547 TTTTTACACACTT-AAACTTT
1 TTTTTA-ACACTTGAAACTTT
*
120445567 TTTTTAACATTTGAAACTT
1 TTTTTAACACTTGAAACTT
120445586 AGTTCTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (20 bp):
TTTTTAACACTTGAAACTTT
Found at i:120452700 original size:44 final size:45
Alignment explanation
Indices: 120452648--120452737 Score: 164
Period size: 44 Copynumber: 2.0 Consensus size: 45
120452638 ATATGATCCT
120452648 ATTTTATCTCATGGTAACCATTACAT-TTTCCTTTATGAAAATTC
1 ATTTTATCTCATGGTAACCATTACATATTTCCTTTATGAAAATTC
*
120452692 ATTTTATCTCATGGTAACCATTACATATTTCTTTTATGAAAATTC
1 ATTTTATCTCATGGTAACCATTACATATTTCCTTTATGAAAATTC
120452737 A
1 A
120452738 ATCACATCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 26 0.59
45 18 0.41
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.46
Consensus pattern (45 bp):
ATTTTATCTCATGGTAACCATTACATATTTCCTTTATGAAAATTC
Found at i:120454674 original size:15 final size:17
Alignment explanation
Indices: 120454654--120454686 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
120454644 CTCCCTTTTC
120454654 TTTGTA-AAT-TGTCGG
1 TTTGTAGAATATGTCGG
120454669 TTTGTAGAATATGTCGG
1 TTTGTAGAATATGTCGG
120454686 T
1 T
120454687 CAGATCACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.21, C:0.06, G:0.27, T:0.45
Consensus pattern (17 bp):
TTTGTAGAATATGTCGG
Found at i:120455246 original size:16 final size:16
Alignment explanation
Indices: 120455225--120455256 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
120455215 TGAATTAATT
*
120455225 ATTAATCCGTTTGTGA
1 ATTAATCCATTTGTGA
120455241 ATTAATCCATTTGTGA
1 ATTAATCCATTTGTGA
120455257 CATTCATGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (16 bp):
ATTAATCCATTTGTGA
Found at i:120456580 original size:16 final size:16
Alignment explanation
Indices: 120456561--120456645 Score: 75
Period size: 16 Copynumber: 5.3 Consensus size: 16
120456551 ATCCTAATAG
*
120456561 TATTTTATTAATTTAA
1 TATTATATTAATTTAA
* *
120456577 TATTAAATTTAA-TAAA
1 TATTATA-TTAATTTAA
*
120456593 TATTCTATTAATTTAA
1 TATTATATTAATTTAA
* *
120456609 TATTAAATTTAA-TAAA
1 TATTATA-TTAATTTAA
*
120456625 TATTCTATTAATTTAA
1 TATTATATTAATTTAA
120456641 TATTA
1 TATTA
120456646 AATTTAATAT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
15 8 0.15
16 36 0.69
17 8 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTATATTAATTTAA
Found at i:120456587 original size:12 final size:12
Alignment explanation
Indices: 120456566--120456665 Score: 87
Period size: 12 Copynumber: 9.1 Consensus size: 12
120456556 AATAGTATTT
120456566 TATT-AATTTAA
1 TATTAAATTTAA
120456577 TATTAAATTT-A
1 TATTAAATTTAA
*
120456588 -A-TAAATATT-C
1 TATTAAAT-TTAA
120456598 TATT-AATTTAA
1 TATTAAATTTAA
120456609 TATTAAATTT-A
1 TATTAAATTTAA
*
120456620 -A-TAAATATT-C
1 TATTAAAT-TTAA
120456630 TATT-AATTTAA
1 TATTAAATTTAA
120456641 TATTAAATTTAA
1 TATTAAATTTAA
120456653 TATTAAATTTAA
1 TATTAAATTTAA
120456665 T
1 T
120456666 GTTTATCTTG
Statistics
Matches: 74, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
9 10 0.14
10 10 0.14
11 22 0.30
12 32 0.43
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
TATTAAATTTAA
Done.