Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 64
Found at i:6199277 original size:25 final size:25
Alignment explanation
Indices: 6199241--6199332 Score: 118
Period size: 25 Copynumber: 3.7 Consensus size: 25
6199231 GAGTCGAGGG
*
6199241 TTCTACGCGGTCCTTCGGGACAAAT
1 TTCTACGTGGTCCTTCGGGACAAAT
6199266 TTCTACGTGGTCCTTCGGGACAAAT
1 TTCTACGTGGTCCTTCGGGACAAAT
* *
6199291 TTCTACACT-GTCCTTCAGGACAAAT
1 TTCTAC-GTGGTCCTTCGGGACAAAT
6199316 TT-TACGTGG-CACTTCGG
1 TTCTACGTGGTC-CTTCGG
6199333 TGCAACTGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
23 2 0.03
24 9 0.15
25 47 0.80
26 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.32
Consensus pattern (25 bp):
TTCTACGTGGTCCTTCGGGACAAAT
Found at i:6203279 original size:20 final size:20
Alignment explanation
Indices: 6203182--6203282 Score: 141
Period size: 20 Copynumber: 5.0 Consensus size: 20
6203172 CAGTTAGACA
*
6203182 GGGGGAATCGGTA-CCCCTGG
1 GGGGGAATCTGTACCCCCT-G
*
6203202 GGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTGTACCCCCTG
*
6203222 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
* *
6203242 AGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTGTACCCCCTG
6203262 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
6203282 G
1 G
6203283 ACAATCTGAT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
20 66 0.93
21 5 0.07
ACGTcount: A:0.14, C:0.29, G:0.38, T:0.20
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:6203279 original size:40 final size:40
Alignment explanation
Indices: 6203182--6203281 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
6203172 CAGTTAGACA
*
6203182 GGGGGAATCGGTA-CCCCTGGGGGGGAATCTGTTCCCCCTG
1 GGGGGAATCGGTACCCCCT-GAGGGGAATCTGTTCCCCCTG
6203222 GGGGGAATCGGTACCCCCTGAGGGGAATCTGTTCCCCCTG
1 GGGGGAATCGGTACCCCCTGAGGGGAATCTGTTCCCCCTG
*
6203262 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
6203282 GACAATCTGA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
40 52 0.91
41 5 0.09
ACGTcount: A:0.14, C:0.29, G:0.37, T:0.20
Consensus pattern (40 bp):
GGGGGAATCGGTACCCCCTGAGGGGAATCTGTTCCCCCTG
Found at i:6204725 original size:19 final size:20
Alignment explanation
Indices: 6204682--6204729 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
6204672 CTCTAAATCC
*
6204682 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
6204702 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
6204721 TTTTCAAAA
1 TTTTCAAAA
6204730 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:6205975 original size:20 final size:21
Alignment explanation
Indices: 6205938--6206020 Score: 132
Period size: 21 Copynumber: 4.0 Consensus size: 21
6205928 TTGGAGCGTT
*
6205938 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
6205959 GGGGGAATCTGTTCCCCCT-G
1 GGGGGAATCTGTACCCCCTGG
6205979 GGGGGAATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
6206000 GGGAGAATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
6206021 ACAATCTGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
20 19 0.33
21 38 0.67
ACGTcount: A:0.14, C:0.29, G:0.37, T:0.19
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:6205993 original size:41 final size:41
Alignment explanation
Indices: 6205938--6206020 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
6205928 TTGGAGCGTT
* *
6205938 GGGGGAATCGGTACCCCCTGGGGGGGAATCTGTTCCCCCTG
1 GGGGGAATCGGTACCCCCTGGGGGAGAATCTGTACCCCCTG
*
6205979 GGGGGAATCTGTACCCCCTGGGGGAGAATCTGTACCCCCTG
1 GGGGGAATCGGTACCCCCTGGGGGAGAATCTGTACCCCCTG
6206020 G
1 G
6206021 ACAATCTGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.14, C:0.29, G:0.37, T:0.19
Consensus pattern (41 bp):
GGGGGAATCGGTACCCCCTGGGGGAGAATCTGTACCCCCTG
Found at i:6206028 original size:18 final size:19
Alignment explanation
Indices: 6205964--6206028 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 19
6205954 CCTGGGGGGG
* **
6205964 AATCTGTTCCCCCTGGGGGG
1 AATCTGTACCCCCT-GGGAC
*
6205984 AATCTGTACCCCCTGGGGGAG
1 AATCTGTACCCCCT--GGGAC
6206005 AATCTGTACCCCCT-GGAC
1 AATCTGTACCCCCTGGGAC
6206023 AATCTG
1 AATCTG
6206029 ATTTTTCTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
18 9 0.22
20 13 0.32
21 19 0.46
ACGTcount: A:0.18, C:0.31, G:0.28, T:0.23
Consensus pattern (19 bp):
AATCTGTACCCCCTGGGAC
Found at i:6210020 original size:23 final size:23
Alignment explanation
Indices: 6209977--6210021 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6209967 AGGAGATAAT
*
6209977 TTATAAAATTAAGAGATACGAAC
1 TTATAAAATTAAGAGAAACGAAC
*
6210000 TTATAAAAATTTAG-GAAACGAA
1 TTAT-AAAATTAAGAGAAACGAA
6210022 AAATAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (23 bp):
TTATAAAATTAAGAGAAACGAAC
Found at i:6223712 original size:15 final size:17
Alignment explanation
Indices: 6223683--6223714 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
6223673 CATGATTTAC
6223683 ATATAGAAAAGATGTGA
1 ATATAGAAAAGATGTGA
6223700 ATATA-AAAA-ATGTGA
1 ATATAGAAAAGATGTGA
6223715 TAGATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (17 bp):
ATATAGAAAAGATGTGA
Found at i:6225315 original size:39 final size:38
Alignment explanation
Indices: 6225250--6225393 Score: 164
Period size: 39 Copynumber: 3.7 Consensus size: 38
6225240 AATGCAACTT
* *
6225250 AAATTATTACATTTTTCTTAACATTTTCGATTGAATCA
1 AAATTGTTACTTTTTTCTTAACATTTTCGATTGAATCA
* *
6225288 AAATTGTTACTTTTTTTCTTAATATTTTCGATTAAATCA
1 AAATTGTTAC-TTTTTTCTTAACATTTTCGATTGAATCA
**
6225327 AAATTGTTACTTTTTTGATAACATTTTCGATTAGTAATCGA
1 AAATTGTTACTTTTTTCTTAACATTTTCGATT-G-AATC-A
* * *
6225368 AAA-TGTTACATTCTTCGTAACATTTT
1 AAATTGTTACTTTTTTCTTAACATTTT
6225394 AAATTCAACA
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
38 28 0.31
39 35 0.39
40 23 0.26
41 4 0.04
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.49
Consensus pattern (38 bp):
AAATTGTTACTTTTTTCTTAACATTTTCGATTGAATCA
Found at i:6225375 original size:40 final size:39
Alignment explanation
Indices: 6225250--6225393 Score: 154
Period size: 38 Copynumber: 3.7 Consensus size: 39
6225240 AATGCAACTT
*
6225250 AAATTATTACATTTTTCT-TAACATTTTCGATT-GAATCA
1 AAATTGTTACATTTTT-TGTAACATTTTCGATTAGAATCA
* * *
6225288 AAATTGTTACTTTTTTTCTTAATATTTTCGATTA-AATCA
1 AAATTGTTACATTTTTT-GTAACATTTTCGATTAGAATCA
6225327 AAATTGTTAC-TTTTTTGATAACATTTTCGATTAGTAATCGA
1 AAATTGTTACATTTTTTG-TAACATTTTCGATTAG-AATC-A
* *
6225368 AAA-TGTTACATTCTTCGTAACATTTT
1 AAATTGTTACATTTTTTGTAACATTTT
6225394 AAATTCAACA
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
37 1 0.01
38 34 0.37
39 28 0.31
40 19 0.21
41 9 0.10
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.49
Consensus pattern (39 bp):
AAATTGTTACATTTTTTGTAACATTTTCGATTAGAATCA
Found at i:6225406 original size:77 final size:77
Alignment explanation
Indices: 6225250--6225406 Score: 167
Period size: 77 Copynumber: 2.0 Consensus size: 77
6225240 AATGCAACTT
* * * * *
6225250 AAATTATTACATTTTTCTTAACATTTTCGATTGAATCAAAATTGTTACTTTTTTTCTTAATATTT
1 AAATTATTACATTTTTCATAACATTTTCGATTGAATCAAAATTGTTACTATTCTTCGTAACATTT
**
6225315 TCGATTAAATCA
66 TAAATTAAATCA
* * *
6225327 AAATTGTTACTTTTTTGATAACATTTTCGATTAGTAATCGAAAA-TGTTAC-ATTCTTCGTAACA
1 AAATTATTACATTTTTCATAACATTTTCGATT-G-AATC-AAAATTGTTACTATTCTTCGTAACA
*
6225390 TTTTAAATTCAA-CA
63 TTTTAAATTAAATCA
6225404 AAA
1 AAA
6225407 AATGTTAATA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
77 33 0.50
78 19 0.29
79 10 0.15
80 4 0.06
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (77 bp):
AAATTATTACATTTTTCATAACATTTTCGATTGAATCAAAATTGTTACTATTCTTCGTAACATTT
TAAATTAAATCA
Found at i:6225680 original size:27 final size:27
Alignment explanation
Indices: 6225632--6225685 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
6225622 AAGGTTAAAG
*
6225632 TTAAAATATTTTTTAAAAAAAT-TTGA
1 TTAAAATATTATTTAAAAAAATGTTGA
**
6225658 TTAAAATGATTATTTAATTAAATGTTGA
1 TTAAAAT-ATTATTTAAAAAAATGTTGA
6225686 GAATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.30
27 12 0.52
28 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (27 bp):
TTAAAATATTATTTAAAAAAATGTTGA
Found at i:6226860 original size:15 final size:15
Alignment explanation
Indices: 6226840--6226876 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6226830 CTATTTTAAA
6226840 ATTTTATTTATATTT
1 ATTTTATTTATATTT
*
6226855 ATTTTATATATATTT
1 ATTTTATTTATATTT
6226870 -TTTTATT
1 ATTTTATT
6226877 ATTAATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTATTTATATTT
Found at i:6227492 original size:59 final size:60
Alignment explanation
Indices: 6227429--6227541 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
6227419 CCATGGTTTG
* * *
6227429 GGGATGAAATTCAAATATTCAAAA-ATTAAAGACTAATTTAGAATGATAGTCATAATTTA
1 GGGATGAAATTCAAATATTCAAAATATTAAAGACTAAATTAAAATGAGAGTCATAATTTA
** * * *
6227488 GGGATGAAATTGGAATATTTAAAATTTTAGAGACTAAATTAAAATGAGAGTCAT
1 GGGATGAAATTCAAATATTCAAAATATTAAAGACTAAATTAAAATGAGAGTCAT
6227542 GCTTTGAGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 21 0.47
60 24 0.53
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.32
Consensus pattern (60 bp):
GGGATGAAATTCAAATATTCAAAATATTAAAGACTAAATTAAAATGAGAGTCATAATTTA
Found at i:6228019 original size:16 final size:16
Alignment explanation
Indices: 6227981--6228019 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
6227971 TCGGATTCTT
*
6227981 GATTTTATATCTTTTA
1 GATTTTGTATCTTTTA
6227997 GATTTTGTATCTTTTA
1 GATTTTGTATCTTTTA
6228013 GATTTTG
1 GATTTTG
6228020 GTACCAACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (16 bp):
GATTTTGTATCTTTTA
Found at i:6232095 original size:170 final size:168
Alignment explanation
Indices: 6231481--6232100 Score: 674
Period size: 168 Copynumber: 3.7 Consensus size: 168
6231471 GCCTTCCTTT
* * * * * * *
6231481 TTTTTTTAGATTTTCTCTGCATTCTTCAGTCAATTATATGCAAATATGATGTTCCCAATT-GGGA
1 TTTTTTCAGATTTTCTCTGTATTTTTCAATCAATTATATGCAGATATGATGTTACC-ATTCAGGA
* * * * * *
6231545 AACTATTCACGTCAACCCCTCATTTGTTTGATGGGATGATATAATATGACATGGCAGAGACTT-T
65 AACTATTCACGTCAACCCCTCATCTGTCTGATGGGATGAGACACTATGACATGGAAGAGA-TTCT
* * *
6231609 TTGAAAAAGGTGAAAGCATTTCTTGTGGAACTCCCCTTCCC
129 TTGAAAAAGGTGAAAGCGTTTCTT-TGGGACTCGCCTTCCC
* * * * * * * **
6231650 TTTTTTTAGGTTTCCTCTGTATTTTT-AGTCAATTATATGTAGATATTATGTTACCATTCGGGTC
1 TTTTTTCAGATTTTCTCTGTATTTTTCAATCAATTATATGCAGATATGATGTTACCATTCAGGAA
* * * * *
6231714 ACCATTCAAGTCAACCCATCATCTGTCTGATGGGATGAGATAGTATGACATGGAAGAGA-TCATT
66 ACTATTCACGTCAACCCCTCATCTGTCTGATGGGATGAGACACTATGACATGGAAGAGATTC-TT
* * *
6231778 TGAAAAAGGTGAAAGCGCTTCTCGTGGGACTCGCCTTACC
130 TGAAAAAGGTGAAAGCGTTTCT-TTGGGACTCGCCTTCCC
* * * * * *
6231818 TTTTTTCATATTTTCTCTGTATTTTTCAATCAATTATATGTATATATGATGTTACTAGTCAGGGA
1 TTTTTTCAGATTTTCTCTGTATTTTTCAATCAATTATATGCAGATATGATGTTACCATTCAGGAA
* * * *
6231883 ACTATTCACATCAACCCCTCAACTGTCTAATGGG-TCGAGACACTGTGACATGGAAGAGATTCTC
66 ACTATTCACGTCAACCCCTCATCTGTCTGATGGGAT-GAGACACTATGACATGGAAGAGATTCT-
** * *
6231947 TAAAAAAAAGTGAAAGCGTTTCTTTGGGACGCGCCTTCCC
129 TTGAAAAAGGTGAAAGCGTTTCTTTGGGACTCGCCTTCCC
*
6231987 TTTTTGTCAGATTTTCTCTGTATTTTTCAATCAATTATATGCAGATATGATGTTCCCATTCAGGA
1 TTTTT-TCAGATTTTCTCTGTATTTTTCAATCAATTATATGCAGATATGATGTTACCATTCAGGA
* * *
6232052 AACTATTCATGTCAACCCCTCATCTATTTGATGGGATGAGACACTATGA
65 AACTATTCACGTCAACCCCTCATCTGTCTGATGGGATGAGACACTATGA
6232101 TATTGCATAA
Statistics
Matches: 375, Mismatches: 66, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
166 1 0.00
167 3 0.01
168 137 0.37
169 120 0.32
170 113 0.30
171 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (168 bp):
TTTTTTCAGATTTTCTCTGTATTTTTCAATCAATTATATGCAGATATGATGTTACCATTCAGGAA
ACTATTCACGTCAACCCCTCATCTGTCTGATGGGATGAGACACTATGACATGGAAGAGATTCTTT
GAAAAAGGTGAAAGCGTTTCTTTGGGACTCGCCTTCCC
Found at i:6232117 original size:170 final size:169
Alignment explanation
Indices: 6231481--6232147 Score: 662
Period size: 169 Copynumber: 3.9 Consensus size: 169
6231471 GCCTTCCTTT
* * * * * * *
6231481 TTTTTTTAGATTTTCTCTGCATTCTTCAGTCAATTATATGCAAATATGATGTTCCCAATT-GGGA
1 TTTTTTCAGATTTTCTCTGTATTTTTCAATCAATTATATGCAGATATGATGTTACC-ATTCAGGA
* * * * * * *
6231545 AACTATTCACGTCAACCCCTCATTTGTTTGATGGGATGATATAATATGACATGGCAGAGACTT-T
65 AACTATTCACGTCAACCCCTCATCTGTCTGATGGGATGAGACACTATGACATGGAAGA-AATTCT
* ** * * *
6231609 TTGAAAAAGGTGAAAGCATTTCTTGTGGAACTCCCCTTCCC
129 TTAAAAAAGGTGAAAGCGCTTCTTGTGGGACGCGCCTTCCC
* * * * * * * **
6231650 TTTTTTTAGGTTTCCTCTGTATTTTT-AGTCAATTATATGTAGATATTATGTTACCATTCGGGTC
1 TTTTTTCAGATTTTCTCTGTATTTTTCAATCAATTATATGCAGATATGATGTTACCATTCAGGAA
* * * * * *
6231714 ACCATTCAAGTCAACCCATCATCTGTCTGATGGGATGAGATAGTATGACATGGAAGAGA-TCATT
66 ACTATTCACGTCAACCCCTCATCTGTCTGATGGGATGAGACACTATGACATGGAAGAAATTC-TT
* * * *
6231778 TGAAAAAGGTGAAAGCGCTTCTCGTGGGACTCGCCTTACC
130 TAAAAAAGGTGAAAGCGCTTCTTGTGGGACGCGCCTTCCC
* * * * * *
6231818 TTTTTTCATATTTTCTCTGTATTTTTCAATCAATTATATGTATATATGATGTTACTAGTCAGGGA
1 TTTTTTCAGATTTTCTCTGTATTTTTCAATCAATTATATGCAGATATGATGTTACCATTCAGGAA
* * * * *
6231883 ACTATTCACATCAACCCCTCAACTGTCTAATGGG-TCGAGACACTGTGACATGGAAGAGATTCTC
66 ACTATTCACGTCAACCCCTCATCTGTCTGATGGGAT-GAGACACTATGACATGGAAGAAATTCT-
* * *
6231947 TAAAAAAAAGTGAAAGCGTTTCTT-TGGGACGCGCCTTCCC
129 TTAAAAAAGGTGAAAGCGCTTCTTGTGGGACGCGCCTTCCC
*
6231987 TTTTTGTCAGATTTTCTCTGTATTTTTCAATCAATTATATGCAGATATGATGTTCCCATTCAGGA
1 TTTTT-TCAGATTTTCTCTGTATTTTTCAATCAATTATATGCAGATATGATGTTACCATTCAGGA
* * * * * * * *
6232052 AACTATTCATGTCAACCCCTCATCTATTTGATGGGATGAGACACTATGATATTGCATAAATTCTC
65 AACTATTCACGTCAACCCCTCATCTGTCTGATGGGATGAGACACTATGACATGGAAGAAATTCTT
* *
6232117 TAGAAAAGGTGAAAGTGCTTCTTGTGGGACG
130 TAAAAAAGGTGAAAGCGCTTCTTGTGGGACG
6232148 AGTTTTCCCA
Statistics
Matches: 409, Mismatches: 79, Indels: 19
0.81 0.16 0.04
Matches are distributed among these distances:
166 1 0.00
167 3 0.01
168 136 0.33
169 138 0.34
170 130 0.32
171 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (169 bp):
TTTTTTCAGATTTTCTCTGTATTTTTCAATCAATTATATGCAGATATGATGTTACCATTCAGGAA
ACTATTCACGTCAACCCCTCATCTGTCTGATGGGATGAGACACTATGACATGGAAGAAATTCTTT
AAAAAAGGTGAAAGCGCTTCTTGTGGGACGCGCCTTCCC
Found at i:6233603 original size:31 final size:30
Alignment explanation
Indices: 6233568--6233663 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 30
6233558 TCTAATGTAA
6233568 TGTAATGTCCTGTAGAGTTCGAGTTAATGCT
1 TGTAATGTCCTGTAGAGTT-GAGTTAATGCT
*
6233599 TGTAATG--CTATTA-ATGTT---TCTAATGCT
1 TGTAATGTCCT-GTAGA-GTTGAGT-TAATGCT
*
6233626 TGTAATGTCCTGTAGTGTTTGAGTTAATGCT
1 TGTAATGTCCTGTAGAG-TTGAGTTAATGCT
6233657 TGTAATG
1 TGTAATG
6233664 CTTCTAATGT
Statistics
Matches: 52, Mismatches: 3, Indels: 20
0.69 0.04 0.27
Matches are distributed among these distances:
26 1 0.02
27 14 0.27
28 3 0.06
29 7 0.13
30 5 0.10
31 21 0.40
32 1 0.02
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.44
Consensus pattern (30 bp):
TGTAATGTCCTGTAGAGTTGAGTTAATGCT
Found at i:6233606 original size:9 final size:9
Alignment explanation
Indices: 6233592--6233672 Score: 56
Period size: 9 Copynumber: 8.6 Consensus size: 9
6233582 GAGTTCGAGT
6233592 TAATGCTTG
1 TAATGCTTG
6233601 TAATGCTAT-
1 TAATGCT-TG
* *
6233610 TAATGTTTC
1 TAATGCTTG
6233619 TAATGCTTG
1 TAATGCTTG
*
6233628 TAATGTCCTG
1 TAATG-CTTG
* *
6233638 TAGTGTTTGAG
1 TAATGCTT--G
6233649 TTAATGCTTG
1 -TAATGCTTG
*
6233659 TAATGCTTC
1 TAATGCTTG
6233668 TAATG
1 TAATG
6233673 TTTTACTTTC
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
8 1 0.02
9 39 0.70
10 9 0.16
11 1 0.02
12 6 0.11
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (9 bp):
TAATGCTTG
Found at i:6233650 original size:58 final size:57
Alignment explanation
Indices: 6233550--6233675 Score: 182
Period size: 58 Copynumber: 2.2 Consensus size: 57
6233540 TGCTAACAAG
*
6233550 TTAATGATTCTAATGTAATGTAATGTCCTGTAGAGTTCGAGTTAATGCTTGTAATGCT
1 TTAATGTTTCTAATGT-ATGTAATGTCCTGTAGAGTTCGAGTTAATGCTTGTAATGCT
* *
6233608 ATTAATGTTTCTAATGCT-TGTAATGTCCTGTAGTGTTTGAGTTAATGCTTGTAATGCT
1 -TTAATGTTTCTAATG-TATGTAATGTCCTGTAGAGTTCGAGTTAATGCTTGTAATGCT
6233666 TCTAATGTTT
1 T-TAATGTTT
6233676 TACTTTCTCA
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
57 1 0.02
58 46 0.74
59 14 0.23
60 1 0.02
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (57 bp):
TTAATGTTTCTAATGTATGTAATGTCCTGTAGAGTTCGAGTTAATGCTTGTAATGCT
Found at i:6236482 original size:104 final size:106
Alignment explanation
Indices: 6236368--6236577 Score: 336
Period size: 104 Copynumber: 2.0 Consensus size: 106
6236358 ATATATGACA
6236368 ATTTCCCTAATTAATAAACATTCAACGAATTAAAATTTGAAATAATATTAAAATAA-TT-AAATT
1 ATTTCCCTAATTAATAAACATTCAACGAATTAAAATTTGAAATAATATTAAAA-AATTTGAAATT
* *
6236431 AATAAAATATTTAAAAAA-AAATTAAAATAACATAATTTAAT
65 AATAAAATATTCAAAAAATAAAATAAAATAACATAATTTAAT
* * * *
6236472 ATTTCTCTAATTAATAAACATTCTATGAATTAAAATTTGAAATAATATTAAAAAATTTGCAATTA
1 ATTTCCCTAATTAATAAACATTCAACGAATTAAAATTTGAAATAATATTAAAAAATTTGAAATTA
6236537 ATAAAATATTCAAAAAATAAAATAAAATAACATAATTTAAT
66 ATAAAATATTCAAAAAATAAAATAAAATAACATAATTTAAT
6236578 TTAATTTAAT
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
103 2 0.02
104 52 0.54
105 21 0.22
106 22 0.23
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (106 bp):
ATTTCCCTAATTAATAAACATTCAACGAATTAAAATTTGAAATAATATTAAAAAATTTGAAATTA
ATAAAATATTCAAAAAATAAAATAAAATAACATAATTTAAT
Found at i:6240781 original size:29 final size:30
Alignment explanation
Indices: 6240739--6240810 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
6240729 CCCGAAAGAC
*
6240739 CTATCCAGAGGTCACAAAG-ACCCCGGTAA
1 CTATCCAGAGGTCACAAAGAACCCCGGCAA
* *
6240768 CTATCCAGAGGTCATAAAGAACCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCCCGGCAA
* *
6240798 CTGTCCATAGGTC
1 CTATCCAGAGGTC
6240811 CCGACGAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 18 0.49
30 19 0.51
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCCCGGCAA
Found at i:6240822 original size:31 final size:32
Alignment explanation
Indices: 6240796--6240865 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
6240786 GAACCTCGGC
6240796 AACTGTCCATAGGTCCCGACGAAACCTAGGTA
1 AACTGTCCATAGGTCCCGACGAAACCTAGGTA
* *
6240828 AACTGTCCATAGGTCCCGAAG-AACCTATGTA
1 AACTGTCCATAGGTCCCGACGAAACCTAGGTA
6240859 AACTGTC
1 AACTGTC
6240866 TATATGTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 16 0.44
32 20 0.56
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (32 bp):
AACTGTCCATAGGTCCCGACGAAACCTAGGTA
Found at i:6240832 original size:32 final size:31
Alignment explanation
Indices: 6240796--6240892 Score: 115
Period size: 31 Copynumber: 3.1 Consensus size: 31
6240786 GAACCTCGGC
*
6240796 AACTGTCCATAGGTCCCGACGAAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAG-AACCTAGGTA
*
6240828 AACTGTCCATAGGTCCCGAAGAACCTATGTA
1 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
* * * *
6240859 AACTGTCTATATGTCTCGAA-AGACATAGGTA
1 AACTGTCCATAGGTCCCGAAGA-ACCTAGGTA
6240890 AAC
1 AAC
6240893 CCTCGACTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
30 1 0.02
31 36 0.63
32 20 0.35
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAGAACCTAGGTA
Found at i:6244383 original size:27 final size:27
Alignment explanation
Indices: 6244326--6244383 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
6244316 GATAAGCTAT
* * *
6244326 CTGCTTTATCTCCTGATTTAATTATTC
1 CTGCTTTATCTCCTCATTTAATTACTA
*
6244353 CTGCTTTATCTCCTCATATTCATT-CTA
1 CTGCTTTATCTCCTCAT-TTAATTACTA
6244380 CTGC
1 CTGC
6244384 AAAACTCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.17, C:0.28, G:0.07, T:0.48
Consensus pattern (27 bp):
CTGCTTTATCTCCTCATTTAATTACTA
Found at i:6244507 original size:24 final size:24
Alignment explanation
Indices: 6244475--6244567 Score: 168
Period size: 24 Copynumber: 3.9 Consensus size: 24
6244465 TTATTCCTTG
6244475 GTACTGTAAAGTGTAAAATACTTT
1 GTACTGTAAAGTGTAAAATACTTT
6244499 GTACTGTAAAGTGTAAAATACTTT
1 GTACTGTAAAGTGTAAAATACTTT
*
6244523 GTAGTGTAAAGTGTAAAATACTTT
1 GTACTGTAAAGTGTAAAATACTTT
*
6244547 ATACTGTAAAGTGTAAAATAC
1 GTACTGTAAAGTGTAAAATAC
6244568 GCTGCTAGAG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (24 bp):
GTACTGTAAAGTGTAAAATACTTT
Found at i:6245129 original size:16 final size:16
Alignment explanation
Indices: 6245101--6245133 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6245091 TTGTTTCCTT
6245101 TTAATCTTATCTTAAA
1 TTAATCTTATCTTAAA
6245117 TTAA-CTTATTCTTAAA
1 TTAATCTTA-TCTTAAA
6245133 T
1 T
6245134 GAGATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATCTTATCTTAAA
Found at i:6245171 original size:26 final size:26
Alignment explanation
Indices: 6245112--6245177 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
6245102 TAATCTTATC
* *
6245112 TTAAATTAACTTATTCTTAAATGAGA
1 TTAAATTAAATTATTCTTAAATAAGA
* *
6245138 TTATATTAATTTATTCTTAAACTAAG-
1 TTAAATTAAATTATTCTTAAA-TAAGA
6245164 TTAAATTAAATTAT
1 TTAAATTAAATTAT
6245178 ATTAATTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 31 0.91
27 3 0.09
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (26 bp):
TTAAATTAAATTATTCTTAAATAAGA
Found at i:6245177 original size:36 final size:36
Alignment explanation
Indices: 6245128--6245203 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
6245118 TAACTTATTC
* *
6245128 TTAAATGAGATTATATTAATTTATTCTTAAACTAAG
1 TTAAATGAAATTATATTAATTTATTCTTAAACTAAA
* *
6245164 TTAAATTAAATTATATTAATTTATTCTTAAATTAAA
1 TTAAATGAAATTATATTAATTTATTCTTAAACTAAA
6245200 TTAA
1 TTAA
6245204 TATGTAAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (36 bp):
TTAAATGAAATTATATTAATTTATTCTTAAACTAAA
Found at i:6254273 original size:27 final size:29
Alignment explanation
Indices: 6254241--6254300 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
6254231 TTTAATTTTT
* *
6254241 TATTTATA-TAATTTATAAA-TATAATAA
1 TATTTATATTAAATTATAAATTATAAGAA
6254268 TATTTATATTTAAATTATAAATTATAAGAA
1 TATTTATA-TTAAATTATAAATTATAAGAA
6254298 TAT
1 TAT
6254301 ATTAAGTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.29
29 10 0.36
30 10 0.36
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
TATTTATATTAAATTATAAATTATAAGAA
Found at i:6254491 original size:5 final size:5
Alignment explanation
Indices: 6254477--6254547 Score: 52
Period size: 5 Copynumber: 14.0 Consensus size: 5
6254467 TTATTTATAG
* ** * * * *
6254477 ATTAA ATTAA GTTAA ATTAA ATTGT GTTAA ATTATT CTTAA ATTAA GTTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTA-A ATTAA ATTAA ATTAA
* *
6254528 ACTAA ATTAA ATTAT ATTAA
1 ATTAA ATTAA ATTAA ATTAA
6254548 TTTATTCTCA
Statistics
Matches: 47, Mismatches: 18, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
5 44 0.94
6 3 0.06
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (5 bp):
ATTAA
Found at i:6254497 original size:36 final size:35
Alignment explanation
Indices: 6254457--6254542 Score: 84
Period size: 36 Copynumber: 2.4 Consensus size: 35
6254447 TAATCTTATC
6254457 TTAAATTAATTTATTTATAGATTAAATTAAGTTAAA
1 TTAAATTAATTTATTTAT-GATTAAATTAAGTTAAA
* * **
6254493 TTAAATT-GTGTTAAATTATTCTTAAATTAAGTTAAA
1 TTAAATTAAT-TT-ATTTATGATTAAATTAAGTTAAA
* *
6254529 CTAAATTAAATTAT
1 TTAAATTAATTTAT
6254543 ATTAATTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
35 2 0.05
36 32 0.82
37 5 0.13
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (35 bp):
TTAAATTAATTTATTTATGATTAAATTAAGTTAAA
Found at i:6256006 original size:2 final size:2
Alignment explanation
Indices: 6255999--6256042 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
6255989 GTTTATGAAC
*
6255999 AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6256041 AT
1 AT
6256043 TATTTTAAAT
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:6256684 original size:16 final size:17
Alignment explanation
Indices: 6256649--6256685 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
6256639 TATGTGATGA
6256649 AAAAATAGTATTATTGT
1 AAAAATAGTATTATTGT
6256666 AAAAAT-GTAATTATT-T
1 AAAAATAGT-ATTATTGT
6256682 AAAA
1 AAAA
6256686 TAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAATAGTATTATTGT
Found at i:6256745 original size:19 final size:20
Alignment explanation
Indices: 6256703--6256745 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
6256693 TTACTAACAT
* * *
6256703 AATATTATTTTTTATATATT
1 AATATTATTTTATATAAATA
6256723 AATA-TATTTTATATAAATA
1 AATATTATTTTATATAAATA
6256742 AATA
1 AATA
6256746 CGATACTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATTATTTTATATAAATA
Found at i:6257094 original size:88 final size:88
Alignment explanation
Indices: 6256981--6257170 Score: 355
Period size: 88 Copynumber: 2.2 Consensus size: 88
6256971 TCAAACACTC
*
6256981 TAATCTTACATTCCTACTAAACAAACCAAACAAGGTAATACAATATTCCCATAGTAATTTTACAT
1 TAATCTTACATTCCTACTAAACAAACCAAACAAGGTAATACAATATTCCCATAGTAATGTTACAT
6257046 TCCA-TAAATGTTATTCCCAAATG
66 TCCAGT-AATGTTATTCCCAAATG
6257069 TAATCTTACATTCCTACTAAACAAACCAAACAAGGTAATACAATATTCCCATAGTAATGTTACAT
1 TAATCTTACATTCCTACTAAACAAACCAAACAAGGTAATACAATATTCCCATAGTAATGTTACAT
6257134 TCCAGTAATGTTATTCCCAAATG
66 TCCAGTAATGTTATTCCCAAATG
6257157 TAATCTTACATTCC
1 TAATCTTACATTCC
6257171 GTGAATCAAA
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
88 99 0.99
89 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.32
Consensus pattern (88 bp):
TAATCTTACATTCCTACTAAACAAACCAAACAAGGTAATACAATATTCCCATAGTAATGTTACAT
TCCAGTAATGTTATTCCCAAATG
Found at i:6265793 original size:32 final size:32
Alignment explanation
Indices: 6265748--6265861 Score: 151
Period size: 32 Copynumber: 3.6 Consensus size: 32
6265738 ATAACGTCTG
6265748 AGGGACCA-T-TTATACTAAATCGATAATGTT
1 AGGGACCATTATTATACTAAATCGATAATGTT
* *
6265778 AGGGACCATTATTATACTAAATTGGTAATGTT
1 AGGGACCATTATTATACTAAATCGATAATGTT
* * *
6265810 AGAGACAATTATTATATTAAATCGATAATGTT
1 AGGGACCATTATTATACTAAATCGATAATGTT
* *
6265842 AAGGATCATTATTATACTAA
1 AGGGACCATTATTATACTAA
6265862 TTTTAAGGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
30 8 0.11
31 1 0.01
32 61 0.87
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (32 bp):
AGGGACCATTATTATACTAAATCGATAATGTT
Found at i:6265862 original size:24 final size:24
Alignment explanation
Indices: 6265835--6265885 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
6265825 ATTAAATCGA
6265835 TAATGTTAAGGATCATTATTATAC
1 TAATGTTAAGGATCATTATTATAC
*
6265859 TAATTTTAAGGATCATTATTATAC
1 TAATGTTAAGGATCATTATTATAC
6265883 TAA
1 TAA
6265886 ATAGATCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (24 bp):
TAATGTTAAGGATCATTATTATAC
Found at i:6266486 original size:7 final size:7
Alignment explanation
Indices: 6266474--6266592 Score: 68
Period size: 7 Copynumber: 16.7 Consensus size: 7
6266464 AAATAGTAAT
6266474 AAAATAA
1 AAAATAA
6266481 AAAATAA
1 AAAATAA
6266488 AAAAT-A
1 AAAATAA
*
6266494 AAAGT-A
1 AAAATAA
6266500 AAAATAAA
1 AAAAT-AA
6266508 AAAATAA
1 AAAATAA
*
6266515 AACAATAT
1 AA-AATAA
*
6266523 TAAATAA
1 AAAATAA
**
6266530 ATCAAGGAA
1 A--AAATAA
* *
6266539 GAAAACAT
1 -AAAATAA
6266547 AAAAT--
1 AAAATAA
6266552 AAAATAA
1 AAAATAA
6266559 AATAATAA
1 AA-AATAA
*
6266567 AAACATTA
1 AAA-ATAA
6266575 AAAAT-A
1 AAAATAA
6266581 AAAATAA
1 AAAATAA
6266588 AAAAT
1 AAAAT
6266593 GTTAAATAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 22
0.72 0.11 0.18
Matches are distributed among these distances:
5 5 0.06
6 16 0.18
7 35 0.40
8 27 0.31
9 4 0.05
10 1 0.01
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (7 bp):
AAAATAA
Found at i:6266503 original size:20 final size:19
Alignment explanation
Indices: 6266471--6266591 Score: 75
Period size: 20 Copynumber: 6.1 Consensus size: 19
6266461 GAAAAATAGT
6266471 AATAAAATAAAAA-ATAAAA
1 AATAAAATAAAAATA-AAAA
6266490 AATAAAAGTAAAAATAAAAA
1 AATAAAA-TAAAAATAAAAA
* * * *
6266510 AATAAAACAATATTAAATA
1 AATAAAATAAAAATAAAAA
* ** *
6266529 AATCAAGGAAGAAA-ACATAA
1 AATAAAATAA-AAATA-AAAA
6266549 AATAAAATAAAATAATAAAAA
1 AATAAAAT-AAA-AATAAAAA
*
6266570 CATTAAAAATAAAAATAAAAA
1 -AAT-AAAATAAAAATAAAAA
6266591 A
1 A
6266592 TGTTAAATAA
Statistics
Matches: 77, Mismatches: 16, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
19 23 0.30
20 27 0.35
21 16 0.21
22 6 0.08
23 5 0.06
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (19 bp):
AATAAAATAAAAATAAAAA
Found at i:6266514 original size:34 final size:34
Alignment explanation
Indices: 6266474--6266591 Score: 94
Period size: 41 Copynumber: 3.1 Consensus size: 34
6266464 AAATAGTAAT
6266474 AAAATAAAAAATAAAAAATAAAAGTAAAAATAAA
1 AAAATAAAAAATAAAAAATAAAAGTAAAAATAAA
6266508 AAAATAAAACAATATTAAATAAATCAAGGAAG-AAAACATAAAA
1 AAAAT-AAA-AA-A-TAAA-AAAT-AA--AAGTAAAA-AT-AAA
*
6266551 TAAAATAAAATAATAAAAACATTAAAAATAAAAATAAA
1 -AAAATAAAA-AATAAAAA-A-TAAAAGTAAAAATAAA
6266589 AAA
1 AAA
6266592 TGTTAAATAA
Statistics
Matches: 68, Mismatches: 1, Indels: 27
0.71 0.01 0.28
Matches are distributed among these distances:
34 5 0.07
35 3 0.04
36 2 0.03
37 4 0.06
38 7 0.10
39 8 0.12
40 8 0.12
41 11 0.16
42 8 0.12
43 7 0.10
44 5 0.07
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (34 bp):
AAAATAAAAAATAAAAAATAAAAGTAAAAATAAA
Found at i:6268146 original size:26 final size:26
Alignment explanation
Indices: 6268111--6268169 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
6268101 TGATAACTTA
*
6268111 TTAAATATATTTTATTATTAATTTAAT
1 TTAAA-ATATTATATTATTAATTTAAT
* * *
6268138 TTAAAATATTATATTTTTATTTTTAT
1 TTAAAATATTATATTATTAATTTAAT
6268164 TTAAAA
1 TTAAAA
6268170 CTATATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TTAAAATATTATATTATTAATTTAAT
Found at i:6268385 original size:31 final size:33
Alignment explanation
Indices: 6268350--6268442 Score: 122
Period size: 31 Copynumber: 2.9 Consensus size: 33
6268340 AAAGGTACAA
6268350 GTTATCGATCCGTTCAATTTTAGTCCCT-AA-C
1 GTTATCGATCCGTTCAATTTTAGTCCCTCAATC
*
6268381 GTTATCGATCCGTTCAATTTTAGTCTCTCAATC
1 GTTATCGATCCGTTCAATTTTAGTCCCTCAATC
* *
6268414 GTTAAC--TCTCGTTCGATTTTAGTCCCTCA
1 GTTATCGATC-CGTTCAATTTTAGTCCCTCA
6268443 GCTATGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
31 29 0.53
32 20 0.36
33 6 0.11
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (33 bp):
GTTATCGATCCGTTCAATTTTAGTCCCTCAATC
Found at i:6268560 original size:15 final size:15
Alignment explanation
Indices: 6268540--6268573 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
6268530 TTAAATTAGT
6268540 GACCAAAGTCGGATA
1 GACCAAAGTCGGATA
6268555 GACCAAAGTCGGATA
1 GACCAAAGTCGGATA
6268570 GACC
1 GACC
6268574 CTAAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (15 bp):
GACCAAAGTCGGATA
Found at i:6268687 original size:33 final size:33
Alignment explanation
Indices: 6268607--6268689 Score: 107
Period size: 31 Copynumber: 2.6 Consensus size: 33
6268597 TAGTTTACCC
* *
6268607 TAAAATATATACTTTGAAAAGTTAAAATAATAA
1 TAAAATATATACTTTTAAAAGTTAAAATAAGAA
* * *
6268640 TAAAATATAT--TTTTAAAATTTCATATAAGAA
1 TAAAATATATACTTTTAAAAGTTAAAATAAGAA
6268671 TAAAATATATACTTTTAAA
1 TAAAATATATACTTTTAAA
6268690 TTGAAATGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
31 26 0.60
33 17 0.40
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (33 bp):
TAAAATATATACTTTTAAAAGTTAAAATAAGAA
Found at i:6268772 original size:25 final size:26
Alignment explanation
Indices: 6268718--6268779 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
6268708 ATTTTAAAAT
*
6268718 TAAGTTAATA-ATAAAATATATTCAA
1 TAAGTTAATATAAAAAATATATTCAA
*
6268743 TAAGTTAATATAAAAAATAT-TTC-T
1 TAAGTTAATATAAAAAATATATTCAA
6268767 TAAAGTTAATATA
1 T-AAGTTAATATA
6268780 TATAAGATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 1 0.03
25 24 0.73
26 8 0.24
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (26 bp):
TAAGTTAATATAAAAAATATATTCAA
Found at i:6268780 original size:27 final size:27
Alignment explanation
Indices: 6268718--6268790 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 27
6268708 ATTTTAAAAT
*
6268718 TAAGTTAATA-ATAAAATATA-TTCAA
1 TAAGTTAATATATAAAAAATATTTCAA
*
6268743 TAAGTT-A-ATATAAAAAATATTTC-T
1 TAAGTTAATATATAAAAAATATTTCAA
* *
6268767 TAAAGTTAATATATATAAGATATT
1 T-AAGTTAATATATAAAAAATATT
6268791 ATGAATTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.03
24 11 0.28
25 14 0.36
26 1 0.03
27 12 0.31
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (27 bp):
TAAGTTAATATATAAAAAATATTTCAA
Found at i:6269502 original size:31 final size:31
Alignment explanation
Indices: 6269465--6269529 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
6269455 TAACCACATC
* *
6269465 TTAATTAAATAAAAATGAAAGTGATTATATA
1 TTAATTAAATAAAAACGAAAGTGACTATATA
6269496 TTAATTAAATAAAAACGAAAGTGACTATATA
1 TTAATTAAATAAAAACGAAAGTGACTATATA
6269527 TTA
1 TTA
6269530 TGTTTTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (31 bp):
TTAATTAAATAAAAACGAAAGTGACTATATA
Found at i:6278130 original size:20 final size:21
Alignment explanation
Indices: 6278107--6278147 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6278097 TTGTAAGGTA
*
6278107 ATTTTTTTTAAATAT-ATTAT
1 ATTTATTTTAAATATGATTAT
*
6278127 ATTTATTTTATATATGATTAT
1 ATTTATTTTAAATATGATTAT
6278148 TTGAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTTATTTTAAATATGATTAT
Found at i:6278663 original size:12 final size:12
Alignment explanation
Indices: 6278624--6278697 Score: 60
Period size: 12 Copynumber: 6.2 Consensus size: 12
6278614 ACCTAATTTT
*
6278624 AAAATAAAAT-A
1 AAAAAAAAATAA
* *
6278635 AAATAACAATAA
1 AAAAAAAAATAA
*
6278647 CAAAAAAAATAA
1 AAAAAAAAATAA
* *
6278659 AAAAAAAACTTTA
1 AAAAAAAA-ATAA
*
6278672 AAAAAAACATAA
1 AAAAAAAAATAA
*
6278684 AATAAAAAATAA
1 AAAAAAAAATAA
6278696 AA
1 AA
6278698 TAAACATAAG
Statistics
Matches: 47, Mismatches: 14, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
11 7 0.15
12 31 0.66
13 9 0.19
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAAAAAATAA
Found at i:6278701 original size:12 final size:11
Alignment explanation
Indices: 6278624--6278697 Score: 67
Period size: 11 Copynumber: 6.3 Consensus size: 11
6278614 ACCTAATTTT
*
6278624 AAAATAAAATA
1 AAAAAAAAATA
* *
6278635 AAATAACAATA
1 AAAAAAAAATA
6278646 ACAAAAAAAATA
1 A-AAAAAAAATA
6278658 AAAAAAAAACTTTA
1 AAAAAAAAA---TA
*
6278672 AAAAAAACATA
1 AAAAAAAAATA
6278683 AAATAAAAAATA
1 AAA-AAAAAATA
6278695 AAA
1 AAA
6278698 TAAACATAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
11 22 0.43
12 19 0.37
14 10 0.20
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:6278702 original size:23 final size:22
Alignment explanation
Indices: 6278623--6278706 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 22
6278613 AACCTAATTT
6278623 TAAAATAAAATAAAATAACAATAA
1 TAAAATAAAATAAAATAA-AA-AA
*
6278647 CAAAA-AAAATAAAA-AAAAAA
1 TAAAATAAAATAAAATAAAAAA
*
6278667 CTTTAAAAAAAACATAAAATAAAAAA
1 ---TAAAATAAA-ATAAAATAAAAAA
6278693 TAAAATAAACATAA
1 TAAAATAAA-ATAA
6278707 GTATAAGGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
20 2 0.04
21 2 0.04
22 2 0.04
23 26 0.51
24 7 0.14
25 6 0.12
26 6 0.12
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (22 bp):
TAAAATAAAATAAAATAAAAAA
Found at i:6279696 original size:14 final size:14
Alignment explanation
Indices: 6279679--6279706 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6279669 AAATAATGAT
6279679 AAAAACAAAAAATG
1 AAAAACAAAAAATG
6279693 AAAAACAAAAAATG
1 AAAAACAAAAAATG
6279707 GTGGTTACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAAACAAAAAATG
Found at i:6280305 original size:78 final size:78
Alignment explanation
Indices: 6280175--6280350 Score: 289
Period size: 78 Copynumber: 2.3 Consensus size: 78
6280165 TCATCAGATG
**
6280175 AGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCACCTCCTTCTGTGATGGAATCGAA
1 AGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCACCTCAGTCTGTGATGGAATCGAA
*
6280240 CTAAGGTTGAACA
66 CCAAGGTTGAACA
* *
6280253 AGTTCTTCTCATTATGAACTCTCCATTAGAAATGTTGATCCACTTCAGTCTGTGATGGAATCGAA
1 AGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCACCTCAGTCTGTGATGGAATCGAA
6280318 CCAAGGTTGAACA
66 CCAAGGTTGAACA
* *
6280331 AATTCCTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
6280351 TCTTCTCCTT
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 91 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (78 bp):
AGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCACCTCAGTCTGTGATGGAATCGAA
CCAAGGTTGAACA
Found at i:6280583 original size:136 final size:136
Alignment explanation
Indices: 6280337--6280818 Score: 648
Period size: 136 Copynumber: 3.6 Consensus size: 136
6280327 AACAAATTCC
* * * *
6280337 TCTCATTATGAACTTCTTCT-CCTTTGTCTGATGAGTTCTTCTCATTATGAACTCTCCA-CTGAA
1 TCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTG-A
* * *
6280400 AATGTTGATCCCTCAA-TAGAGACGTCACTGATTCGAATTGCCGTGAATTGAGTGATAGGTCAAA
65 AATGTTAATCCCTCAAGT-GAGACGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGTCAAA
6280464 CAAGCTCT
129 CAAGCTCT
* *
6280472 TCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTTTCATCATGAACTCTCCATTTGAA
1 TCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAA
* * * * *
6280537 ATGTTAATCCCTCAAGTGAGGCATCACTGATTCAAAATGCCATGAATCGAGTGATAGGTCGAACA
66 ATGTTAATCCCTCAAGTGAGACGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGTCAAACA
6280602 AGCTCT
131 AGCTCT
* * *
6280608 TCTCATTATGAACTT-TTCCTCACTCTGTCGGATGAGTTCATCTCATTATGAACTCTCCATTTGA
1 TCTCATTATGAACTTCTT-CTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGA
* * * *
6280672 AAGGTTAATCCCTCAAGCGAGACGTCACTGATTCGAAATGTCGTGAATCGAGTGATAAGTCAAAC
65 AATGTTAATCCCTCAAGTGAGACGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGTCAAAC
*
6280737 AAGATCT
130 AAGCTCT
* * * * * *
6280744 TCTCATTATGAACTTCTTATCCCTCTATCGAATGAGTTCTTATCATTATGAACTCCCCAATAGAA
1 TCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAA
*
6280809 GTGTTAATCC
66 ATGTTAATCC
6280819 AAGGTTGAAC
Statistics
Matches: 302, Mismatches: 40, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
135 22 0.07
136 275 0.91
137 5 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (136 bp):
TCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAA
ATGTTAATCCCTCAAGTGAGACGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGTCAAACA
AGCTCT
Found at i:6286817 original size:6 final size:6
Alignment explanation
Indices: 6286806--6286839 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6286796 GCAATAATCC
6286806 CAAATG CAAATG CAAATG CAAATG CAAATG CAAA
1 CAAATG CAAATG CAAATG CAAATG CAAATG CAAA
6286840 AATAACATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.53, C:0.18, G:0.15, T:0.15
Consensus pattern (6 bp):
CAAATG
Found at i:6288222 original size:5 final size:5
Alignment explanation
Indices: 6288212--6288277 Score: 55
Period size: 5 Copynumber: 12.6 Consensus size: 5
6288202 AACCTAATTT
* *
6288212 TAAAA TAAAA TAAAA TAATAA -AAAA -AAAT TAAAAA TAACA TAAAA TAAAAAA
1 TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA T-AAAA TAAAA TAAAA T--AAAA
6288264 TAAAA TAAACA TAA
1 TAAAA TAAA-A TAA
6288278 GTACAAGGAC
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
4 5 0.10
5 31 0.61
6 10 0.20
7 5 0.10
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:6288261 original size:23 final size:22
Alignment explanation
Indices: 6288213--6288277 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 22
6288203 ACCTAATTTT
6288213 AAAATAAAATAAA-ATAATAAAAA
1 AAAATAAAATAAACAT-A-AAAAA
6288236 AAAATTAAAA-ATAACATAAAATAA
1 AAAA-TAAAATA-AACATAAAA-AA
6288260 AAAATAAAATAAACATAA
1 AAAATAAAATAAACATAA
6288278 GTACAAGGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
23 20 0.54
24 15 0.41
25 2 0.05
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAATAAAATAAACATAAAAAA
Found at i:6288271 original size:17 final size:17
Alignment explanation
Indices: 6288212--6288277 Score: 87
Period size: 17 Copynumber: 3.8 Consensus size: 17
6288202 AACCTAATTT
6288212 TAAAATAAAATAAAATAA
1 TAAAATAAAATAAAA-AA
* *
6288230 TAAAAAAAAATTAAAAA
1 TAAAATAAAATAAAAAA
*
6288247 TAACATAAAATAAAAAA
1 TAAAATAAAATAAAAAA
6288264 TAAAATAAACATAA
1 TAAAATAAA-ATAA
6288278 GTACAAGGAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
17 24 0.59
18 17 0.41
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (17 bp):
TAAAATAAAATAAAAAA
Found at i:6298962 original size:2 final size:2
Alignment explanation
Indices: 6298957--6299015 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
6298947 AAAAAAAGGA
*
6298957 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6298999 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
6299016 CCTATGATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6299164 original size:11 final size:11
Alignment explanation
Indices: 6299133--6299167 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
6299123 AAACCCTCAA
6299133 AAAAAT-AAAT
1 AAAAATAAAAT
6299143 AAAAATAAAAAT
1 AAAAAT-AAAAT
6299155 AAAAATAAAAT
1 AAAAATAAAAT
6299166 AA
1 AA
6299168 TGATATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 7 0.30
12 10 0.43
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:6299167 original size:5 final size:6
Alignment explanation
Indices: 6299139--6299164 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6299129 TCAAAAAAAT
6299139 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
6299165 TAATGATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:6299320 original size:30 final size:31
Alignment explanation
Indices: 6299216--6299325 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 31
6299206 AAAATAAACA
*
6299216 AAAAAACGAAAATGAAAAATAGTAAAAAGAATAAT
1 AAAAAA-GAAAAT--AAAATAGTAAAAAGAAT-AC
*
6299251 AAGTAAAAGAATAATAATAATAATAAAAAGAA-AC
1 AA--AAAAGAA-AATAA-AATAGTAAAAAGAATAC
*
6299285 CAAAAAGAAAATAAAATAGTAAAAAGAATA-
1 AAAAAAGAAAATAAAATAGTAAAAAGAATAC
*
6299315 AAAAAATAAAA
1 AAAAAAGAAAA
6299326 AATAATGTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
30 22 0.34
31 6 0.09
32 7 0.11
34 2 0.03
35 4 0.06
36 16 0.25
37 7 0.11
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.15
Consensus pattern (31 bp):
AAAAAAGAAAATAAAATAGTAAAAAGAATAC
Found at i:6299327 original size:19 final size:19
Alignment explanation
Indices: 6299286--6299327 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
6299276 AAAAGAAACC
* *
6299286 AAAAAGAAAATAAAATAGT
1 AAAAAGAAAAAAAAATAGA
6299305 AAAAAGAATAAAAAAATA-A
1 AAAAAGAA-AAAAAAATAGA
6299324 AAAA
1 AAAA
6299328 TAATGTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAAGAAAAAAAAATAGA
Found at i:6303839 original size:21 final size:21
Alignment explanation
Indices: 6303813--6303858 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
6303803 AATTCACAAC
6303813 GCGAACTTCGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
6303834 GCGAACTTGGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
6303855 GCGA
1 GCGA
6303859 TTTACATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (21 bp):
GCGAACTTCGACTATCGCAAT
Found at i:6303966 original size:42 final size:42
Alignment explanation
Indices: 6303876--6303970 Score: 138
Period size: 45 Copynumber: 2.2 Consensus size: 42
6303866 ATTCGCATTA
6303876 CGATAGTCAAAGTTCGCGTTGCGATAGGATTTTCCAAATTCGTTG
1 CGATAGTCAAAGTTCGCGTTGCGAT---ATTTTCCAAATTCGTTG
*
6303921 CGATAGTCGAAGTTCGCGTTGCGAT-TTATTCCAAATTCGTTG
1 CGATAGTCAAAGTTCGCGTTGCGATATT-TTCCAAATTCGTTG
6303963 CGATAGTC
1 CGATAGTC
6303971 CAAAATCGCA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
41 2 0.04
42 22 0.46
45 24 0.50
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (42 bp):
CGATAGTCAAAGTTCGCGTTGCGATATTTTCCAAATTCGTTG
Found at i:6303974 original size:19 final size:19
Alignment explanation
Indices: 6303908--6303974 Score: 71
Period size: 21 Copynumber: 3.3 Consensus size: 19
6303898 GATAGGATTT
6303908 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
* * *
6303927 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAATT--CGTTGCGA--TAG
6303950 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
6303969 TCCAAA
1 TCCAAA
6303975 ATCGCAACGA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 14 0.37
21 16 0.42
23 8 0.21
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (19 bp):
TCCAAATTCGTTGCGATAG
Found at i:6304180 original size:19 final size:20
Alignment explanation
Indices: 6304156--6304210 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
6304146 TCATTGCGAT
6304156 TTTGGACTATCGCAA-CGAA
1 TTTGGACTATCGCAACCGAA
**
6304175 TTTGGAAAATCGCAACGCGAA
1 TTTGGACTATCGCAAC-CGAA
* *
6304196 CTTCGACTATCGCAA
1 TTTGGACTATCGCAA
6304211 TGCGAATATG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 13 0.46
21 15 0.54
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (20 bp):
TTTGGACTATCGCAACCGAA
Found at i:6304252 original size:21 final size:21
Alignment explanation
Indices: 6304227--6304277 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
6304217 TATGTAAATT
*
6304227 GCATTGCGATAGTCTAAGTTC
1 GCATTGCGATAGTCGAAGTTC
6304248 GCATTGCGATAGTCGAAGTTC
1 GCATTGCGATAGTCGAAGTTC
*
6304269 GCGTTGCGA
1 GCATTGCGA
6304278 ATCTGGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (21 bp):
GCATTGCGATAGTCGAAGTTC
Found at i:6306581 original size:3 final size:3
Alignment explanation
Indices: 6306573--6306627 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
6306563 AGAACTATCC
6306573 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6306621 AAT AAT A
1 AAT AAT A
6306628 CTTTCTCATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6307765 original size:23 final size:23
Alignment explanation
Indices: 6307737--6307782 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
6307727 CCCAAATTCG
6307737 CGTTTATTAAGTTCATTTAAGTT
1 CGTTTATTAAGTTCATTTAAGTT
*
6307760 CGTTTATTAAGTTCGTTTAAGTT
1 CGTTTATTAAGTTCATTTAAGTT
6307783 GTTAGTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (23 bp):
CGTTTATTAAGTTCATTTAAGTT
Found at i:6307769 original size:13 final size:13
Alignment explanation
Indices: 6307737--6307778 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
6307727 CCCAAATTCG
6307737 CGTTTATTAAGTT
1 CGTTTATTAAGTT
*
6307750 C--AT-TTAAGTT
1 CGTTTATTAAGTT
6307760 CGTTTATTAAGTT
1 CGTTTATTAAGTT
6307773 CGTTTA
1 CGTTTA
6307779 AGTTGTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 8 0.33
11 1 0.04
12 1 0.04
13 14 0.58
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (13 bp):
CGTTTATTAAGTT
Found at i:6309191 original size:65 final size:65
Alignment explanation
Indices: 6309065--6309216 Score: 193
Period size: 65 Copynumber: 2.4 Consensus size: 65
6309055 GAGTGAATCA
* * * *
6309065 ATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGTTGCATCG
1 ATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCAATGCATGGATGTTGCATCG
* *
6309129 ATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCAATGCATGGTATG-TGCAT
1 ATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCAATGCATGG-ATGTTGCAT
6309192 CG
64 CG
* *
6309194 ATGTATAAAATGCATTCGATGTT
1 ATGCATCAAATGCATTCGATGTT
6309217 CAATTTAATT
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
64 20 0.26
65 52 0.68
66 5 0.06
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (65 bp):
ATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCAATGCATGGATGTTGCATCG
Found at i:6309256 original size:65 final size:62
Alignment explanation
Indices: 6309065--6309264 Score: 174
Period size: 65 Copynumber: 3.1 Consensus size: 62
6309055 GAGTGAATCA
* * * * *
6309065 ATGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAGTGCATCGATGCATGGCTGTTGCATC
1 ATGCATAAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCAATGCATGGTTG-TGCATC
6309128 G
62 G
*
6309129 ATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCAATGCATGGTATGTGCATCG
1 ATGCATAAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCAATGCATGGT-TGTGCATCG
* **
6309194 ATGTATAAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCAATGCATGGATTGATGCAT
1 ATGCATAAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCAATGCATGG-TTG-TGCAT
6309257 CG
61 CG
*
6309259 GTGCAT
1 ATGCAT
6309265 CACTTTGATA
Statistics
Matches: 116, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 43 0.37
65 60 0.52
66 6 0.05
67 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (62 bp):
ATGCATAAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCAATGCATGGTTGTGCATCG
Found at i:6309644 original size:26 final size:27
Alignment explanation
Indices: 6309613--6309663 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
6309603 CCCTTACTTT
6309613 AACACTTTAACACTTCTCC-CCTTTAA
1 AACACTTTAACACTTCTCCACCTTTAA
*
6309639 AACACTTTAACATTTCTCCACCTTT
1 AACACTTTAACACTTCTCCACCTTT
6309664 TTGTTAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.37
Consensus pattern (27 bp):
AACACTTTAACACTTCTCCACCTTTAA
Found at i:6317913 original size:65 final size:65
Alignment explanation
Indices: 6317779--6317934 Score: 174
Period size: 65 Copynumber: 2.4 Consensus size: 65
6317769 CTAAGAGTGT
* * * **
6317779 ATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGGCAGAGTTTATCGATGCATGGCTGGTGC
1 ATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTGGTGC
* * * *
6317843 ATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGATGTATGG-TATGT
1 ATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGCT-GGT
6317906 GC
64 GC
* *
6317908 ATCGATGCATGAAATGCATTCTATGTT
1 ATCGATGCATCAAATGCATTCGATGTT
6317935 CAATTTAATT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 25 0.32
65 50 0.64
66 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (65 bp):
ATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTGGTGC
Found at i:6319097 original size:23 final size:23
Alignment explanation
Indices: 6319066--6319130 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
6319056 CTTATATGGT
6319066 ACTTCGGTGCATTTCTACGTGGC
1 ACTTCGGTGCATTTCTACGTGGC
* * *
6319089 ACTTAGGTGCAATTCTATGTGGC
1 ACTTCGGTGCATTTCTACGTGGC
*
6319112 ACTTCGGTGCATTTATACG
1 ACTTCGGTGCATTTCTACG
6319131 AGTTGTGGTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (23 bp):
ACTTCGGTGCATTTCTACGTGGC
Found at i:6323936 original size:30 final size:29
Alignment explanation
Indices: 6323897--6323955 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
6323887 GAGAATTTAC
* *
6323897 ATGAACTACGTGATTAAATGTATATGTGA
1 ATGAACTACGAGATTAAATGAATATGTGA
* *
6323926 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTAAATGAATATGTGA
6323956 TATGTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTAAATGAATATGTGA
Found at i:6324220 original size:23 final size:23
Alignment explanation
Indices: 6324186--6324276 Score: 110
Period size: 23 Copynumber: 4.0 Consensus size: 23
6324176 CATCTTATAA
* *
6324186 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTAGGTGCATTTATACGC
6324209 GGCACTTAGGTGCATTTATACGC
1 GGCACTTAGGTGCATTTATACGC
** * * *
6324232 GGCAGATAGGTGCAATTCTACGT
1 GGCACTTAGGTGCATTTATACGC
*
6324255 GGCACTTCGGTGCATTTATACG
1 GGCACTTAGGTGCATTTATACG
6324277 AGCTGTGGTG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (23 bp):
GGCACTTAGGTGCATTTATACGC
Found at i:6324558 original size:2 final size:2
Alignment explanation
Indices: 6324551--6324636 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
6324541 AGGAAATGAA
6324551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6324593 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6324635 AT
1 AT
6324637 GTTTGGATGC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6329151 original size:12 final size:12
Alignment explanation
Indices: 6329134--6329179 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
6329124 AAAAAATTTA
6329134 ATTAAATAAAAT
1 ATTAAATAAAAT
*
6329146 ATT-AA-AATA-
1 ATTAAATAAAAT
6329155 ATTAAATAAAAT
1 ATTAAATAAAAT
*
6329167 ATTAAATATAAT
1 ATTAAATAAAAT
6329179 A
1 A
6329180 AAATATACCT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 3 0.11
10 5 0.18
11 5 0.18
12 15 0.54
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATTAAATAAAAT
Found at i:6329157 original size:21 final size:22
Alignment explanation
Indices: 6329127--6329184 Score: 91
Period size: 21 Copynumber: 2.7 Consensus size: 22
6329117 CTGCACAAAA
*
6329127 AAATTTAATTAAATAAAATATT
1 AAATATAATTAAATAAAATATT
6329149 AAA-ATAATTAAATAAAATATT
1 AAATATAATTAAATAAAATATT
*
6329170 AAATATAATAAAATA
1 AAATATAATTAAATA
6329185 TACCTTAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 20 0.61
22 13 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATATAATTAAATAAAATATT
Found at i:6329179 original size:17 final size:17
Alignment explanation
Indices: 6329126--6329185 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
6329116 ACTGCACAAA
*
6329126 AAAAT-TTAATTA-AAT
1 AAAATATTAAATATAAT
6329141 AAAATATTAAAATAATTAAAT
1 AAAATATT-AAAT-A-T-AAT
6329162 AAAATATTAAATATAAT
1 AAAATATTAAATATAAT
6329179 AAAATAT
1 AAAATAT
6329186 ACCTTAAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 5 0.13
16 2 0.05
17 13 0.34
18 2 0.05
19 1 0.03
20 4 0.11
21 11 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATATTAAATATAAT
Found at i:6329818 original size:6 final size:6
Alignment explanation
Indices: 6329807--6329831 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6329797 ATTATTAACA
6329807 TAATAT TAATAT TAATAT TAATAT T
1 TAATAT TAATAT TAATAT TAATAT T
6329832 TCATAACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATAT
Found at i:6329852 original size:20 final size:20
Alignment explanation
Indices: 6329827--6329868 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
6329817 ATTAATATTA
6329827 ATATTTCATAACATAAA-AAT
1 ATATTT-ATAACATAAATAAT
6329847 ATATTTATAACATAAATAAT
1 ATATTTATAACATAAATAAT
6329867 AT
1 AT
6329869 TTATATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATTTATAACATAAATAAT
Found at i:6329871 original size:18 final size:18
Alignment explanation
Indices: 6329825--6329873 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
6329815 ATATTAATAT
6329825 TAATATTTCATAACATAAA
1 TAATATTT-ATAACATAAA
*
6329844 AATATATTTATAACATAAA
1 TA-ATATTTATAACATAAA
6329863 TAATATTTATA
1 TAATATTTATA
6329874 TGAAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 9 0.33
19 12 0.44
20 6 0.22
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATATTTATAACATAAA
Found at i:6329873 original size:24 final size:24
Alignment explanation
Indices: 6329819--6329874 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 24
6329809 ATATTAATAT
*
6329819 TAATATTAATATTTCATAACATAA
1 TAATATTTATATTTCATAACATAA
6329843 -AA-A--TATATTT-ATAACATAAA
1 TAATATTTATATTTCATAACAT-AA
6329863 TAATATTTATAT
1 TAATATTTATAT
6329875 GAAAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 10
0.70 0.03 0.27
Matches are distributed among these distances:
19 7 0.27
20 8 0.31
21 2 0.08
22 2 0.08
23 2 0.08
24 5 0.19
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (24 bp):
TAATATTTATATTTCATAACATAA
Found at i:6330072 original size:8 final size:8
Alignment explanation
Indices: 6330059--6330110 Score: 56
Period size: 8 Copynumber: 6.8 Consensus size: 8
6330049 ATTTAAATTT
6330059 TTTTAATA
1 TTTTAATA
6330067 TTTTAATA
1 TTTTAATA
6330075 TTTTAAT-
1 TTTTAATA
6330082 TTTTAA-A
1 TTTTAATA
*
6330089 TTTAAAATA
1 TTT-TAATA
*
6330098 TTTTTAT-
1 TTTTAATA
6330105 TTTTAA
1 TTTTAA
6330111 AAAAATCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
7 14 0.38
8 19 0.51
9 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTTAATA
Found at i:6330097 original size:23 final size:22
Alignment explanation
Indices: 6330058--6330111 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
6330048 TATTTAAATT
*
6330058 TTTTTAATATTTTAATATTTTAA
1 TTTTTAA-ATTTAAATATTTTAA
*
6330081 TTTTTAAATTTAAAATATTTTTA
1 TTTTTAAATTT-AAATATTTTAA
6330104 TTTTTAAA
1 TTTTTAAA
6330112 AAAATCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTTAAATTTAAATATTTTAA
Found at i:6330167 original size:27 final size:28
Alignment explanation
Indices: 6330110--6330177 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
6330100 TTTATTTTTA
* ** *
6330110 AAAAAATCAAATAAACTTTTAAACTTTG
1 AAAAAATCAATTAAACAATTAAACTTCG
*
6330138 AAAAAATCAATTTAACAATTAAAC-TCG
1 AAAAAATCAATTAAACAATTAAACTTCG
*
6330165 AAAAAATTAATTA
1 AAAAAATCAATTA
6330178 TTTATCTATT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
27 13 0.39
28 20 0.61
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.29
Consensus pattern (28 bp):
AAAAAATCAATTAAACAATTAAACTTCG
Found at i:6331055 original size:21 final size:21
Alignment explanation
Indices: 6331027--6331086 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
6331017 CGTCCGAGTT
6331027 ACCCGCGACGGCCGCAATAGC
1 ACCCGCGACGGCCGCAATAGC
** * *
6331048 GTCTGCGACAGCCGCAATAGC
1 ACCCGCGACGGCCGCAATAGC
*
6331069 ACCCGCGATGGCCGCAAT
1 ACCCGCGACGGCCGCAAT
6331087 CACGGTAAAT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.38, G:0.28, T:0.10
Consensus pattern (21 bp):
ACCCGCGACGGCCGCAATAGC
Found at i:6331756 original size:22 final size:24
Alignment explanation
Indices: 6331717--6331766 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
6331707 GCCCATATTG
*
6331717 TTTAAATATATAGAATTTCAAGTA
1 TTTAAATATATAGAATTTCAAGCA
* *
6331741 TTTAAATATA-A-TATTTTAAGCA
1 TTTAAATATATAGAATTTCAAGCA
6331763 TTTA
1 TTTA
6331767 TTCGCTGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 12 0.52
23 1 0.04
24 10 0.43
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (24 bp):
TTTAAATATATAGAATTTCAAGCA
Found at i:6335470 original size:21 final size:21
Alignment explanation
Indices: 6335345--6335471 Score: 69
Period size: 21 Copynumber: 6.0 Consensus size: 21
6335335 CCATGTACAA
* *
6335345 ATGTCCCGAATGACCACATAGA
1 ATGTCCCGAAGGACCACATA-T
* *
6335367 AT-TCTCCTTAAGGACCATATAT
1 ATGTC-CC-GAAGGACCACATAT
* * *
6335389 ATATTCC-AATGGACCAAATAT
1 ATGTCCCGAA-GGACCACATAT
** * *
6335410 GGGTCCCTAAGTACCACATAT
1 ATGTCCCGAAGGACCACATAT
* * **
6335431 ATGTTCCAAAGGATTACATAT
1 ATGTCCCGAAGGACCACATAT
6335452 ATGTCCCGAAGGACCACATA
1 ATGTCCCGAAGGACCACATA
6335472 GAACCCTTGA
Statistics
Matches: 77, Mismatches: 23, Indels: 11
0.69 0.21 0.10
Matches are distributed among these distances:
20 2 0.03
21 54 0.70
22 10 0.13
23 11 0.14
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (21 bp):
ATGTCCCGAAGGACCACATAT
Found at i:6336176 original size:19 final size:22
Alignment explanation
Indices: 6336128--6336178 Score: 72
Period size: 19 Copynumber: 2.5 Consensus size: 22
6336118 TCTTACTATA
6336128 GTACCGATACTATCCTCTTATG
1 GTACCGATACTATCCTCTTATG
*
6336150 GTATCGATACT-TCC-CTTA-G
1 GTACCGATACTATCCTCTTATG
6336169 GTACCGATAC
1 GTACCGATAC
6336179 CATTTTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 4 0.15
21 3 0.11
22 10 0.37
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (22 bp):
GTACCGATACTATCCTCTTATG
Found at i:6336935 original size:2 final size:2
Alignment explanation
Indices: 6336928--6336958 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
6336918 AAATACGAGT
6336928 TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
6336959 AGTTTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6340068 original size:15 final size:15
Alignment explanation
Indices: 6340048--6340077 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6340038 AGAACTAAAG
6340048 ATATGTGAGTACATT
1 ATATGTGAGTACATT
6340063 ATATGTGAGTACATT
1 ATATGTGAGTACATT
6340078 GAGGTTGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
ATATGTGAGTACATT
Found at i:6340160 original size:23 final size:21
Alignment explanation
Indices: 6340133--6340202 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 21
6340123 CTAGGAGCAT
6340133 ATAAAATTATCTCGAAGGACCAC
1 ATAAAA-TATC-CGAAGGACCAC
* *
6340156 GTAAAAATGTCCTGAAGGACCAC
1 AT-AAAATATCC-GAAGGACCAC
*
6340179 AT-ATATATCCCGAAGGACCAC
1 ATAAAATAT-CCGAAGGACCAC
6340200 ATA
1 ATA
6340203 GAATTCTCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
21 16 0.42
22 3 0.08
23 15 0.39
24 4 0.11
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (21 bp):
ATAAAATATCCGAAGGACCAC
Found at i:6340195 original size:21 final size:21
Alignment explanation
Indices: 6340169--6340309 Score: 70
Period size: 21 Copynumber: 6.6 Consensus size: 21
6340159 AAAATGTCCT
6340169 GAAGGACCACATATATATCCC
1 GAAGGACCACATATATATCCC
*
6340190 GAAGGACCACATAGA-ATTCTCC
1 GAAGGACCACATATATA-TC-CC
* * * *
6340212 TTAAAGACCATATATATATTCC
1 -GAAGGACCACATATATATCCC
* ***
6340234 -AATGGACCAAATATGGGTCCC
1 GAA-GGACCACATATATATCCC
* * ** * *
6340255 TAAGTACTGCATATATGTTCC
1 GAAGGACCACATATATATCCC
* **
6340276 AAAGGATTACATATATATCCC
1 GAAGGACCACATATATATCCC
6340297 GAAGGACCACATA
1 GAAGGACCACATA
6340310 GAACCCTCAA
Statistics
Matches: 86, Mismatches: 28, Indels: 12
0.68 0.22 0.10
Matches are distributed among these distances:
20 3 0.03
21 64 0.74
22 6 0.07
23 12 0.14
24 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (21 bp):
GAAGGACCACATATATATCCC
Found at i:6340221 original size:44 final size:44
Alignment explanation
Indices: 6340140--6340230 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 44
6340130 CATATAAAAT
* * * *
6340140 TATCTCGAAGGACCACGTAAAAATGTCCTGAAGGACCACATATA
1 TATCCCGAAGGACCACATAAAAATCTCCTGAAAGACCACATATA
* * * *
6340184 TATCCCGAAGGACCACATAGAATTCTCCTTAAAGACCATATATA
1 TATCCCGAAGGACCACATAAAAATCTCCTGAAAGACCACATATA
6340228 TAT
1 TAT
6340231 TCCAATGGAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.24
Consensus pattern (44 bp):
TATCCCGAAGGACCACATAAAAATCTCCTGAAAGACCACATATA
Found at i:6345496 original size:23 final size:23
Alignment explanation
Indices: 6345449--6345498 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
6345439 AATAACATAT
**
6345449 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
6345472 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
6345495 TAGG
1 TAGG
6345499 CATTTAACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:6345560 original size:87 final size:87
Alignment explanation
Indices: 6345414--6345574 Score: 304
Period size: 87 Copynumber: 1.9 Consensus size: 87
6345404 TGTTATATCT
* *
6345414 TTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAG
1 TTTAACCGGAAATATTACCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAA
6345479 CGCTTATATAATAAAATAGGCA
66 CGCTTATATAATAAAATAGGCA
6345501 TTTAACCGGAAATATTACCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAA
1 TTTAACCGGAAATATTACCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAA
6345566 CGCTTATAT
66 CGCTTATAT
6345575 TGACCTATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (87 bp):
TTTAACCGGAAATATTACCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAA
CGCTTATATAATAAAATAGGCA
Found at i:6349668 original size:200 final size:200
Alignment explanation
Indices: 6349307--6350923 Score: 756
Period size: 200 Copynumber: 8.1 Consensus size: 200
6349297 GCGTAATTTT
* * * * * ***
6349307 AAAAAGTGTCGACACGAATTTAAAAAGTGTCGACACATTATGTTGACCTATTTTCT-ATTTGCAC
1 AAAAAGTATCGACACAAATATAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCA-TAAAAC
* *
6349371 CGGTAAATTTCAACCAGTTACATTGTAAATTGACCTATTACATTATAATTTTCAGTCTCGATGTA
65 CGGTAAATTTAAACCAGTTACATTGTAAAGTGACCTATTACATTATAATTTTCAGTCTCGATGTA
* * * *
6349436 TTTGGGGTCGATACTTTTTATAAATGTATCGACACTTTATGCGTGGACATCGTTT-GACATTCAT
130 TTTGGGGTCGATACTTTTAATAAATATATCGACACTTTATGCGTGCACATAGTTTGGA-ATTCAT
6349500 TATGGAC
194 TATGGAC
* ** * * *
6349507 ATAAAGTATCGACACAAATGCAAAAAGTATCGATACATTATGTAGACCTATTTGCTCATAAAATC
1 AAAAAGTATCGACACAAATATAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * * * *
6349572 GGTAAATTTAAACCGGTTACTTTGTAAAGTGACCTATTGCGTTATAATTTTCGGTCTCGATGTAT
66 GGTAAATTTAAACCAGTTACATTGTAAAGTGACCTATTACATTATAATTTTCAGTCTCGATGTAT
*
6349637 TTGGGGTTGATACTTTTAATAAATATATCGACACTTTATGCGTGCACATAGTTTGGGAATTCATT
131 TTGGGGTCGATACTTTTAATAAATATATCGACACTTTATGCGTGCACATAGTTT-GGAATTCATT
*
6349702 ATGGAT
195 ATGGAC
* * * * *
6349708 AAAAAGTATCGACACACATATATAAAGTGTTGATACTTTATGTATACCTATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATATAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * ** * *
6349773 GGTAAATTTAAACCAGTTACATTGTAAAGTGATCTATTACATTAT-ATCTATGTGTTTCGATGTT
66 GGTAAATTTAAACCAGTTACATTGTAAAGTGACCTATTACATTATAAT-TTTCAGTCTCGATGTA
* ** * * * * * * * *
6349837 TTTAGTATCGACACTTGTT-ATAAATGTATCTACACTTTGT-CGTACACTTGGTTTGGAAAATAC
130 TTTGGGGTCGATACTT-TTAATAAATATATCGACACTTTATGCGTGCACATAGTTTGG--AATTC
6349900 ATTATGGAC
192 ATTATGGAC
*** * *** * * * *
6349909 AAAAAGTATCGACACTTGT-TGTATTTGTGTCGATACTTTATGTATATCTGTTTTCTCAT-AAAC
1 AAAAAGTATCGACACAAATAT-AAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAAC
* ** ** * * ** * *
6349972 AGGTGTATTTAGGCCGGTTACATTGTTATTTTACCTATTACATTAT-ATCTATGTGA-T-TCGAT
65 CGGTAAATTTAAACCAGTTACATTGTAAAGTGACCTATTACATTATAAT-T-T-TCAGTCTCGAT
* * * ** * * * * * *
6350034 ATTTTTAGTATCGACACTTGTT-ATAAATGTATCAACA-TTT-TGTCGTGCTCTTGGTTTGGAAA
127 GTATTTGGGGTCGATACTT-TTAATAAATATATCGACACTTTATG-CGTGCACATAGTTTGG--A
*
6350096 ATACATTATGGAC
188 ATTCATTATGGAC
*** *** * * * *
6350109 AAAAAGTATCGACACTTGT-TGAATTTGTGTCGATACTTTATGGATACCTGTTTTCTCAT-AAAC
1 AAAAAGTATCGACACAAATAT-AAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAAC
** *** * ** * * ** *
6350172 CGGTGTATTTAGGTC-GATTACATTGTTATTTTACCTATTACATTAT-ATCTATGTGTTTCGATG
65 CGGTAAATTTAAACCAG-TTACATTGTAAAGTGACCTATTACATTATAAT-TTTCAGTCTCGATG
* * ** * * * * *
6350235 TTTTTAGTATCGACACTTGTT-ATAAATGTATCGACACTTTGT-CGTGCACTTGGTTTGGAAAAT
128 TATTTGGGGTCGATACTT-TTAATAAATATATCGACACTTTATGCGTGCACATAGTTTGG--AAT
*
6350298 ACATTATGGAC
190 TCATTATGGAC
*** * *** * * * *
6350309 AAAAAGTATCGACACTTGT-TGTATTTGTGTCGATACTTTATGTATATCTGTTTTCTCAT-AAAC
1 AAAAAGTATCGACACAAATAT-AAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAAC
** ** * * * * ** *
6350372 CGGTGTATTTAGGCCGGTTACATTGT-TAGTTTACCTATTACATTAT-ATCTATGTGTTTCGATG
65 CGGTAAATTTAAACCAGTTACATTGTAAAG-TGACCTATTACATTATAAT-TTTCAGTCTCGATG
* ** * * * * *
6350435 CT-TTTAGTATCGACACTTGTT-ATAAATGTATCGACACTTTGT-CGTGCACTTGGTTTGGAAAA
128 -TATTTGGGGTCGATACTT-TTAATAAATATATCGACACTTTATGCGTGCACATAGTTTGG--AA
* *
6350497 TACATTATGGAA
189 TTCATTATGGAC
*** *** * * * *
6350509 AAAAAGTATCGACACTTGT-TGAATTTGTGTCGATACTTTATGTATACTTGTTTTCTCAT-AAAC
1 AAAAAGTATCGACACAAATAT-AAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAAC
** ** ** * ** * *
6350572 CGGTGTATTTAGGCTGGTTACATTGTTATTTTACCTATTACATTAT-ATCTATGTGA-T-TCGAT
65 CGGTAAATTTAAACCAGTTACATTGTAAAGTGACCTATTACATTATAAT-T-T-TCAGTCTCGAT
* * ** * * * * * *
6350634 GTTTTTAGTATCGACACTTGTT-ATAAATGTACCGACACTTTGT-CGTGCACTTGGTTTGGAAAA
127 GTATTTGGGGTCGATACTT-TTAATAAATATATCGACACTTTATGCGTGCACATAGTTTGG--AA
*
6350697 TACATTATGGAC
189 TTCATTATGGAC
* *** * *** * *
6350709 AAAAAGTAACGACACTTGT-TGGATTTGTGTCGATACTTTATGTATACCTATTTTCTCATAAAAC
1 AAAAAGTATCGACACAAATAT-AAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAAC
* * *
6350773 CGGTAAATTTAAACC-GATTACATTGTAAAGTGACCTATTACATTATAATTAT-AGGTTTCGATT
65 CGGTAAATTTAAACCAG-TTACATTGTAAAGTGACCTATTACATTATAATTTTCA-GTCTCGATG
* * * * * ** * * *
6350836 TATTTGGGATCGACACATGTT-ATAAATGTATCAACACTTT-TTTGTTCA-TTGGTTTGGAAAAT
128 TATTTGGGGTCGATAC-TTTTAATAAATATATCGACACTTTATGCGTGCACATAGTTTGG--AAT
*
6350898 ACATTATGGAC
190 TCATTATGGAC
6350909 AAAAAGTATCGACAC
1 AAAAAGTATCGACAC
6350924 TTGTTGGATT
Statistics
Matches: 1244, Mismatches: 141, Indels: 64
0.86 0.10 0.04
Matches are distributed among these distances:
198 4 0.00
199 9 0.01
200 926 0.74
201 293 0.24
202 12 0.01
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (200 bp):
AAAAAGTATCGACACAAATATAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
GGTAAATTTAAACCAGTTACATTGTAAAGTGACCTATTACATTATAATTTTCAGTCTCGATGTAT
TTGGGGTCGATACTTTTAATAAATATATCGACACTTTATGCGTGCACATAGTTTGGAATTCATTA
TGGAC
Found at i:6349800 original size:201 final size:200
Alignment explanation
Indices: 6349307--6349923 Score: 659
Period size: 201 Copynumber: 3.1 Consensus size: 200
6349297 GCGTAATTTT
* * ** * * * * ***
6349307 AAAAAGTGTCGACACGAATTTAAAAAGTGTCGACACATTATGTTGACCTATTTTCT-ATTTGCAC
1 AAAAAGTATCGACACAAATACAAAAAGTATCGATACATTATGTAGACCTATTTGCTCA-TAAAAC
* *
6349371 CGGTAAATTTCAACCAGTTACATTGTAAATTGACCTATTACATTATAATTTTCAGTCTCGATGTA
65 CGGTAAATTTAAACCAGTTACATTGTAAAGTGACCTATTACATTATAATTTTCAGTCTCGATGTA
* * * *
6349436 TTTGGGGTCGATACTTTTTATAAATGTATCGACACTTTATGCGTGGACATCGTTTGACATTCATT
130 TTTGGGGTCGATACTTTTAATAAATATATCGACACTTTATGCGTGCACATAGTTTGACATTCATT
6349501 ATGGAC
195 ATGGAC
* * *
6349507 ATAAAGTATCGACACAAATGCAAAAAGTATCGATACATTATGTAGACCTATTTGCTCATAAAATC
1 AAAAAGTATCGACACAAATACAAAAAGTATCGATACATTATGTAGACCTATTTGCTCATAAAACC
* * * * *
6349572 GGTAAATTTAAACCGGTTACTTTGTAAAGTGACCTATTGCGTTATAATTTTCGGTCTCGATGTAT
66 GGTAAATTTAAACCAGTTACATTGTAAAGTGACCTATTACATTATAATTTTCAGTCTCGATGTAT
*
6349637 TTGGGGTTGATACTTTTAATAAATATATCGACACTTTATGCGTGCACATAGTTTGGGA-ATTCAT
131 TTGGGGTCGATACTTTTAATAAATATATCGACACTTTATGCGTGCACATAGTTT--GACATTCAT
*
6349701 TATGGAT
194 TATGGAC
* * * * * * * *
6349708 AAAAAGTATCGACACACATATATAAAGTGTTGATACTTTATGTATACCTATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATACAAAAAGTATCGATACATTATGTAGACCTATTTGCTCATAAAACC
* * ** * *
6349773 GGTAAATTTAAACCAGTTACATTGTAAAGTGATCTATTACATTAT-ATCTATGTGTTTCGATGTT
66 GGTAAATTTAAACCAGTTACATTGTAAAGTGACCTATTACATTATAAT-TTTCAGTCTCGATGTA
* ** * * * * * * * * *
6349837 TTTAGTATCGACACTTGTT-ATAAATGTATCTACACTTTGT-CGTACACTTGGTTTGGAAAATAC
130 TTTGGGGTCGATACTT-TTAATAAATATATCGACACTTTATGCGTGCACATAGTTT-G-ACATTC
6349900 ATTATGGAC
192 ATTATGGAC
6349909 AAAAAGTATCGACAC
1 AAAAAGTATCGACAC
6349924 TTGTTGTATT
Statistics
Matches: 350, Mismatches: 60, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
199 2 0.01
200 171 0.49
201 173 0.49
202 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (200 bp):
AAAAAGTATCGACACAAATACAAAAAGTATCGATACATTATGTAGACCTATTTGCTCATAAAACC
GGTAAATTTAAACCAGTTACATTGTAAAGTGACCTATTACATTATAATTTTCAGTCTCGATGTAT
TTGGGGTCGATACTTTTAATAAATATATCGACACTTTATGCGTGCACATAGTTTGACATTCATTA
TGGAC
Found at i:6351321 original size:200 final size:200
Alignment explanation
Indices: 6349655--6351304 Score: 2375
Period size: 200 Copynumber: 8.2 Consensus size: 200
6349645 GATACTTTTA
* * * * * * *
6349655 ATAAATATATCGACACTTTATGCGTGCACATAGTTTGG-GAATTCATTATGGATAAAAAGTATCG
1 ATAAATGTATCGACACTTTGT-CGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCG
*** ** * * **
6349719 ACACACATAT--ATAAAGTGTTGATACTTTATGTATACCTATTTTCTCATAAAACCGGTAAATTT
65 ACACTTGT-TGGAT-TTGTGTCGATACTTTATGTATACCTGTTTTCTCAT-AAACCGGTGTATTT
** * * ** * *
6349782 AAACCAGTTACATTGTAAAGTGATCTATTACATTATATCTATGTGTTTCGATGTTTTTAGTATCG
127 AGGCCGGTTACATTGTTATTTTACCTATTACATTATATCTATGTGTTTCGATGTTTTTAGTATCG
6349847 ACACTTGTT
192 ACACTTGTT
* *
6349856 ATAAATGTATCTACACTTTGTCGTACACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGA
1 ATAAATGTATCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGA
* * *
6349921 CACTTGTTGTATTTGTGTCGATACTTTATGTATATCTGTTTTCTCATAAACAGGTGTATTTAGGC
66 CACTTGTTGGATTTGTGTCGATACTTTATGTATACCTGTTTTCTCATAAACCGGTGTATTTAGGC
* *
6349986 CGGTTACATTGTTATTTTACCTATTACATTATATCTATGTGATTCGATATTTTTAGTATCGACAC
131 CGGTTACATTGTTATTTTACCTATTACATTATATCTATGTGTTTCGATGTTTTTAGTATCGACAC
6350051 TTGTT
196 TTGTT
* * *
6350056 ATAAATGTATCAACATTTTGTCGTGCTCTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGA
1 ATAAATGTATCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGA
* * *
6350121 CACTTGTTGAATTTGTGTCGATACTTTATGGATACCTGTTTTCTCATAAACCGGTGTATTTAGGT
66 CACTTGTTGGATTTGTGTCGATACTTTATGTATACCTGTTTTCTCATAAACCGGTGTATTTAGGC
*
6350186 CGATTACATTGTTATTTTACCTATTACATTATATCTATGTGTTTCGATGTTTTTAGTATCGACAC
131 CGGTTACATTGTTATTTTACCTATTACATTATATCTATGTGTTTCGATGTTTTTAGTATCGACAC
6350251 TTGTT
196 TTGTT
6350256 ATAAATGTATCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGA
1 ATAAATGTATCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGA
* *
6350321 CACTTGTTGTATTTGTGTCGATACTTTATGTATATCTGTTTTCTCATAAACCGGTGTATTTAGGC
66 CACTTGTTGGATTTGTGTCGATACTTTATGTATACCTGTTTTCTCATAAACCGGTGTATTTAGGC
* *
6350386 CGGTTACATTGTTAGTTTACCTATTACATTATATCTATGTGTTTCGATGCTTTTAGTATCGACAC
131 CGGTTACATTGTTATTTTACCTATTACATTATATCTATGTGTTTCGATGTTTTTAGTATCGACAC
6350451 TTGTT
196 TTGTT
*
6350456 ATAAATGTATCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTATGGAAAAAAAGTATCGA
1 ATAAATGTATCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGA
* *
6350521 CACTTGTTGAATTTGTGTCGATACTTTATGTATACTTGTTTTCTCATAAACCGGTGTATTTAGGC
66 CACTTGTTGGATTTGTGTCGATACTTTATGTATACCTGTTTTCTCATAAACCGGTGTATTTAGGC
* *
6350586 TGGTTACATTGTTATTTTACCTATTACATTATATCTATGTGATTCGATGTTTTTAGTATCGACAC
131 CGGTTACATTGTTATTTTACCTATTACATTATATCTATGTGTTTCGATGTTTTTAGTATCGACAC
6350651 TTGTT
196 TTGTT
* *
6350656 ATAAATGTACCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTAACGA
1 ATAAATGTATCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGA
* ** **
6350721 CACTTGTTGGATTTGTGTCGATACTTTATGTATACCTATTTTCTCATAAAACCGGTAAATTTAAA
66 CACTTGTTGGATTTGTGTCGATACTTTATGTATACCTGTTTTCTCAT-AAACCGGTGTATTTAGG
* * ** * * *
6350786 CCGATTACATTGTAAAGTGACCTATTACATTATAAT-TATAG-GTTTCGAT-TTATTTGGGATCG
130 CCGGTTACATTGTTATTTTACCTATTACATTAT-ATCTAT-GTGTTTCGATGTT-TTTAGTATCG
*
6350848 ACACATGTT
192 ACACTTGTT
* * * *
6350857 ATAAATGTATCAACACTTTTTTGTTCA-TTGGTTTGGAAAATACATTATGGACAAAAAGTATCGA
1 ATAAATGTATCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGA
* *
6350921 CACTTGTTGGATTTGTGTCGATACTTTATGTATACTTGTTTTCTCATAAACCAGTGTATTTAGGC
66 CACTTGTTGGATTTGTGTCGATACTTTATGTATACCTGTTTTCTCATAAACCGGTGTATTTAGGC
*
6350986 CGGTTACATTGTTATTTTACCTATTACATTATATCTATGTGTTTCGATGATTTTAGTATCGACAC
131 CGGTTACATTGTTATTTTACCTATTACATTATATCTATGTGTTTCGATGTTTTTAGTATCGACAC
6351051 TTGTT
196 TTGTT
*
6351056 ATAAATGTATCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTCTGGACAAAAAGTATCGA
1 ATAAATGTATCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGA
* * * * * *
6351121 CACTTGTTGGATTTGTGTCGAAACTTTATGTATACCTATTTTCTCAAAAACCAGTTTATTTAGAC
66 CACTTGTTGGATTTGTGTCGATACTTTATGTATACCTGTTTTCTCATAAACCGGTGTATTTAGGC
* * * * * * *
6351186 TGGTTACATTGTTAATTTACTTATTACATTATAAT-TATGTGTTTCGATATTTTTGGGATCGATA
131 CGGTTACATTGTTATTTTACCTATTACATTAT-ATCTATGTGTTTCGATGTTTTTAGTATCGACA
6351250 CTTGTT
195 CTTGTT
*
6351256 ATAAATGTATTGACACTTT-TCGCGTGCACTTGGTTTGG-AAATACATTAT
1 ATAAATGTATCGACACTTTGT--CGTGCACTTGGTTTGGAAAATACATTAT
6351305 TAACAACATG
Statistics
Matches: 1312, Mismatches: 123, Indels: 29
0.90 0.08 0.02
Matches are distributed among these distances:
198 3 0.00
199 91 0.07
200 1031 0.79
201 182 0.14
202 5 0.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (200 bp):
ATAAATGTATCGACACTTTGTCGTGCACTTGGTTTGGAAAATACATTATGGACAAAAAGTATCGA
CACTTGTTGGATTTGTGTCGATACTTTATGTATACCTGTTTTCTCATAAACCGGTGTATTTAGGC
CGGTTACATTGTTATTTTACCTATTACATTATATCTATGTGTTTCGATGTTTTTAGTATCGACAC
TTGTT
Found at i:6351523 original size:24 final size:24
Alignment explanation
Indices: 6351496--6351554 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
6351486 AGTGGAGCCG
6351496 AAATTTAAATTTAAATTCAAACTC
1 AAATTTAAATTTAAATTCAAACTC
*
6351520 AAATTGAAATTTAAATTCAAACTC
1 AAATTTAAATTTAAATTCAAACTC
*
6351544 TAATTATAAAT
1 AAATT-TAAAT
6351555 GAAATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATTTAAATTTAAATTCAAACTC
Found at i:6351529 original size:18 final size:18
Alignment explanation
Indices: 6351502--6351540 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6351492 GCCGAAATTT
*
6351502 AAATTTAAATTCAAACTC
1 AAATTGAAATTCAAACTC
* *
6351520 AAATTGAAATTTAAATTC
1 AAATTGAAATTCAAACTC
6351538 AAA
1 AAA
6351541 CTCTAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (18 bp):
AAATTGAAATTCAAACTC
Found at i:6352822 original size:3 final size:3
Alignment explanation
Indices: 6352814--6352863 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
6352804 ACTTGTTTGG
* * * *
6352814 ATC ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC TTC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
6352862 AT
1 AT
6352864 TGACCGCTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.26, C:0.32, G:0.02, T:0.40
Consensus pattern (3 bp):
ATC
Found at i:6354055 original size:15 final size:15
Alignment explanation
Indices: 6354031--6354072 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
6354021 AGGAGGTTGT
6354031 GGTTGAGAAGAGGTG
1 GGTTGAGAAGAGGTG
*
6354046 GGTTGGGAAGAGGTG
1 GGTTGAGAAGAGGTG
6354061 GGTTGAGAAGAG
1 GGTTGAGAAGAG
6354073 CTTTGAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.55, T:0.19
Consensus pattern (15 bp):
GGTTGAGAAGAGGTG
Found at i:6354779 original size:198 final size:198
Alignment explanation
Indices: 6354438--6355776 Score: 2146
Period size: 199 Copynumber: 6.7 Consensus size: 198
6354428 TAATTATACA
* *
6354438 TGTTTTATTTGTATCGATA-TTTTTTTACACTTGTTTTCTCAAAAACCGGTATATTTAGACCGGT
1 TGTTTTATTTGTGTCGATACTTTTTGTACAC-TGTTTTCTCAAAAACCGGTATATTTAGACCGGT
* * * *
6354502 TACATTATTAATTTACCTACTACATTATAATTATGGGTTTCAATGTTTTTGGGATCAACACTTGT
65 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGT
* * *
6354567 TATAAATGTATCGACACTTATTCATACACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCGA
130 TATAAATGTATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCGA
6354632 CACT
195 CACT
*
6354636 TGTTTTATTTGTGTCGATACTTTTTGTACATCTGTTTTCTCAAAAACC-GTACATTTAGACCGGT
1 TGTTTTATTTGTGTCGATACTTTTTGTACA-CTGTTTTCTCAAAAACCGGTATATTTAGACCGGT
* * * * *
6354700 TACATTGTTAATTTACCTATTAAATTAAAATTTTGGGTTTCGATATTTTTGGGATCGACACTTAT
65 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGT
* * *
6354765 TATAAATATATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATCCTGGACTAAAAGTATCGA
130 TATAAATGTATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCGA
6354830 CACT
195 CACT
* *
6354834 TGTTTTATTTGTGTCGATACTTTTTGTACAGCTGTTTTCTCAAAAACTGGTATATTTAGACTGGT
1 TGTTTTATTTGTGTCGATACTTTTTGTACA-CTGTTTTCTCAAAAACCGGTATATTTAGACCGGT
* *
6354899 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATATTTTTGGGATCGACACTTAT
65 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGT
*
6354964 TATAAATGTATCGACACTATTTCGTGCACTTGGTTTAGAAATACAATT-TGGACCAAAAGTATCG
130 TATAAATGTATCGACACTTTTTCGTGCACTTGGTTTAGAAATAC-ATTCTGGACCAAAAGTATCG
6355028 ACACT
194 ACACT
* * *
6355033 TGTTTTATTTGTGTCGATA-TTTTTGTACACATGTTTTCTAAAAAACCGGTATATTTAGACTGAT
1 TGTTTTATTTGTGTCGATACTTTTTGTACAC-TGTTTTCTCAAAAACCGGTATATTTAGACCGGT
*
6355097 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTT
65 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGT
* *
6355162 TATAAATGTATCGACACTTTTTCGTGCACTCGGTTTAGAAATACATTCTGGACCAAAAGTATTGA
130 TATAAATGTATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCGA
6355227 CACT
195 CACT
* * * *
6355231 TGTTTTATTTGTGTTGATATTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGATCGGT
1 TGTTTTATTTGTGTCGATACTTTTTGTACA-CTGTTTTCTCAAAAACCGGTATATTTAGACCGGT
* *
6355296 TACATTGTTAATTTACCTATTACATTATAACTATGGGTTTTGATGTTTTTGGGATCGACACTTGT
65 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGT
*
6355361 TATAAATGTATCGACACTTTTTCGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGA
130 TATAAATGTATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCGA
6355426 CACT
195 CACT
** *
6355430 TGTTTTATTTGTGTCGATACTTTTTTGTACACTTGTTTTCTCAAAAACCAATATATTTAGACTGG
1 TGTTTTATTTGTGTCGATAC-TTTTTGTACAC-TGTTTTCTCAAAAACCGGTATATTTAGACCGG
*
6355495 TTACATTGTTAATTTACTTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTG
64 TTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTG
*
6355560 TTATAAATATATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCG
129 TTATAAATGTATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCG
*
6355625 ACATT
194 ACACT
* * *
6355630 TGTTTTATTTGTGTCGATATTTTTTGTACACCTGTTTTCTAAAAAACCGATATATTTAGACCGGT
1 TGTTTTATTTGTGTCGATACTTTTTGTACA-CTGTTTTCTCAAAAACCGGTATATTTAGACCGGT
* *
6355695 TACATTGTTAATTTACCTATTTCATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTGT
65 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGT
6355760 TATAAATGTATCGACAC
130 TATAAATGTATCGACAC
6355777 ATAAGTTTGC
Statistics
Matches: 1060, Mismatches: 70, Indels: 21
0.92 0.06 0.02
Matches are distributed among these distances:
197 4 0.00
198 381 0.36
199 485 0.46
200 190 0.18
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (198 bp):
TGTTTTATTTGTGTCGATACTTTTTGTACACTGTTTTCTCAAAAACCGGTATATTTAGACCGGTT
ACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTT
ATAAATGTATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCGAC
ACT
Found at i:6355202 original size:397 final size:395
Alignment explanation
Indices: 6354438--6355776 Score: 2189
Period size: 397 Copynumber: 3.4 Consensus size: 395
6354428 TAATTATACA
* *
6354438 TGTTTTATTTGTATCGATATTTTTT-TACACTTGTTTTCTCAAAAACCGGTATATTTAGACCGGT
1 TGTTTTATTTGTGTCGATATTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGT
* * * *
6354502 TACATTATTAATTTACCTACTACATTATAATTATGGGTTTCAATGTTTTTGGGATCAACACTTGT
66 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGT
* *
6354567 TATAAATGTATCGACACTTATTCATACACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCGA
131 TATAAATGTATCGACACTT-TTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCGA
* *
6354632 CACTTGTTTTATTTGTGTCGATACTTTTTGTACATCTGTTTTCTCAAAAACCGTACATTTAGACC
195 CACTTGTTTTATTTGTGTCGATACTTTTTGTACA-CTGTTTTCTCAAAAACCGTATATTTAGACT
* * * *
6354697 GGTTACATTGTTAATTTACCTATTAAATTAAAATTTTGGGTTTCGATATTTTTGGGATCGACACT
259 GGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACT
* *
6354762 TATTATAAATATATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATCCTGGACTAAAAGTAT
324 TATTATAAATATATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGTAT
6354827 CGACACT
389 CGACACT
* * * *
6354834 TGTTTTATTTGTGTCGATACTTTTTGTACAGCTGTTTTCTCAAAAACTGGTATATTTAGACTGGT
1 TGTTTTATTTGTGTCGATATTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGT
* *
6354899 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATATTTTTGGGATCGACACTTAT
66 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGT
6354964 TATAAATGTATCGACACTATTTCGTGCACTTGGTTTAGAAATACAATT-TGGACCAAAAGTATCG
131 TATAAATGTATCGACACT-TTTCGTGCACTTGGTTTAGAAATAC-ATTCTGGACCAAAAGTATCG
*
6355028 ACACTTGTTTTATTTGTGTCGATA-TTTTTGTACACATGTTTTCTAAAAAACCGGTATATTTAGA
194 ACACTTGTTTTATTTGTGTCGATACTTTTTGTACAC-TGTTTTCTCAAAAACC-GTATATTTAGA
*
6355092 CTGATTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACA
257 CTGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACA
* * *
6355157 CTTTTTATAAATGTATCGACACTTTTTCGTGCACTCGGTTTAGAAATACATTCTGGACCAAAAGT
322 CTTATTATAAATATATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGT
*
6355222 ATTGACACT
387 ATCGACACT
* * *
6355231 TGTTTTATTTGTGTTGATATTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGATCGGT
1 TGTTTTATTTGTGTCGATATTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGT
* *
6355296 TACATTGTTAATTTACCTATTACATTATAACTATGGGTTTTGATGTTTTTGGGATCGACACTTGT
66 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGT
*
6355361 TATAAATGTATCGACACTTTTTCGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGA
131 TATAAATGTATCGACAC-TTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCGA
*
6355426 CACTTGTTTTATTTGTGTCGATACTTTTTTGTACACTTGTTTTCTCAAAAACCAATATATTTAGA
195 CACTTGTTTTATTTGTGTCGATAC-TTTTTGTACAC-TGTTTTCTCAAAAACC-GTATATTTAGA
*
6355491 CTGGTTACATTGTTAATTTACTTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACA
257 CTGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACA
*
6355556 CTTGTTATAAATATATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGT
322 CTTATTATAAATATATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGT
*
6355621 ATCGACATT
387 ATCGACACT
* *
6355630 TGTTTTATTTGTGTCGATATTTTTTGTACACCTGTTTTCTAAAAAACCGATATATTTAGACCGGT
1 TGTTTTATTTGTGTCGATATTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGT
* *
6355695 TACATTGTTAATTTACCTATTTCATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTGT
66 TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGT
6355760 TATAAATGTATCGACAC
131 TATAAATGTATCGACAC
6355777 ATAAGTTTGC
Statistics
Matches: 874, Mismatches: 60, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
395 1 0.00
396 51 0.06
397 511 0.58
398 5 0.01
399 306 0.35
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (395 bp):
TGTTTTATTTGTGTCGATATTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGT
TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGT
TATAAATGTATCGACACTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCGAC
ACTTGTTTTATTTGTGTCGATACTTTTTGTACACTGTTTTCTCAAAAACCGTATATTTAGACTGG
TTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTA
TTATAAATATATCGACACTTTTTCGTGCACTTGGTTTAGAAATACATTCTGGACCAAAAGTATCG
ACACT
Found at i:6356174 original size:19 final size:19
Alignment explanation
Indices: 6356150--6356198 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
6356140 TTACATTCAC
6356150 ATACAAAATTATAAATCAT
1 ATACAAAATTATAAATCAT
*
6356169 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCAT
6356188 ATACAAAATTA
1 ATACAAAATTA
6356199 GCCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCAT
Found at i:6358399 original size:22 final size:23
Alignment explanation
Indices: 6358371--6358426 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
6358361 AACCTGCATT
*
6358371 TATAATAAAA-GTTATCATTTTA
1 TATAATAAAATATTATCATTTTA
6358393 TATAATAAATATATTATCATTTTA
1 TATAATAAA-ATATTATCATTTTA
6358417 T-TATATAAAA
1 TATA-ATAAAA
6358427 AAAAACAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 9 0.30
23 4 0.13
24 17 0.57
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (23 bp):
TATAATAAAATATTATCATTTTA
Found at i:6359716 original size:19 final size:19
Alignment explanation
Indices: 6359688--6359838 Score: 113
Period size: 19 Copynumber: 7.6 Consensus size: 19
6359678 CATTTATACA
*
6359688 ACCTAAAATATCATTTTCT
1 ACCTATAATATCATTTTCT
* *
6359707 ACCTATAATATTATATTATAT
1 ACCTATAATATCAT-TT-TCT
* * *
6359728 ACAGGTATCCATATTTATTTTCT
1 AC--CTAT-AATA-TCATTTTCT
* *
6359751 ACCTAGAATATCACTTTCT
1 ACCTATAATATCATTTTCT
* * *
6359770 ACATGTAATATCATTTTTT
1 ACCTATAATATCATTTTCT
*
6359789 ACCTATAATATCATTTTTT
1 ACCTATAATATCATTTTCT
* *
6359808 ACCTATAATATAATTTTTTT
1 ACCTATAATATCA-TTTTCT
6359828 ACCTATAATAT
1 ACCTATAATAT
6359839 TAAATAAAAG
Statistics
Matches: 106, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
19 62 0.58
20 22 0.21
21 6 0.06
23 7 0.07
24 5 0.05
25 4 0.04
ACGTcount: A:0.34, C:0.16, G:0.03, T:0.47
Consensus pattern (19 bp):
ACCTATAATATCATTTTCT
Found at i:6360647 original size:179 final size:179
Alignment explanation
Indices: 6360263--6361098 Score: 1091
Period size: 179 Copynumber: 4.6 Consensus size: 179
6360253 TACGCGTACT
* * * *
6360263 TATTAAAGTATCGACACTTTCAACATATCTGATAACGCTTTACCGGTTTTGTCATTTTGAGAACG
1 TATTAAA-TATCGACACTTTCAACATATCCGAT-ACTCTTTATCGGTTTTGTCATTTTGAGACCG
*
6360328 GTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTTTTAAAGTATCGACACTT
64 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAGTATCGACACTT
*
6360393 TATAGGCGCTATAA---CTTCTCTTTTAAATTCCAAAAGTGTTGATACTTA
129 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* *
6360441 TATTAAAGTATCGACACTTTCAACATATCCGATAGTTCTTTATCAGTTTTGTCATTTTGAGACCG
1 TATTAAA-TATCGACACTTTCAACATATCCGATA-CTCTTTATCGGTTTTGTCATTTTGAGACCG
* * * * *
6360506 ATTTTGTCATATTTTTAACTGTTATATTGTTATAGATCAATACATTTTCATAAAGTATCGACACT
64 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT-TTAAAGTATCGACACT
*
6360571 TTTTAGGCGCTATAACTTC-T-T-TTTTAAATT-CAGAAAGTGTCGATACTTA
128 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* * * * *
6360620 TATTAAATAATCGACACTTTTAACATATCCGGTAGCGCTTTATCGGATTTGTCATTTTGGGACCG
1 TATTAAAT-ATCGACACTTTCAACATATCCGATA-CTCTTTATCGGTTTTGTCATTTTGAGACCG
* *
6360685 GTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTTTAAGTATCGACACTT
64 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAGTATCGACACTT
* *
6360750 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAAAATTTCGATACTTA
129 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCC--AAAAGTGTCGATACTTA
* * *
6360803 TATTAAATTATCGACACTTTCAACATATCCTG-TATTTTTTA-CTGATTTTGTCATTTTTGAGAC
1 TATTAAA-TATCGACACTTTCAACATATCC-GATACTCTTTATC-GGTTTTGTCA-TTTTGAGAC
** *
6360866 CTCTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACA
62 CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTTTAAAGTATCGACA
6360931 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
126 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * * *
6360985 TATTAAATTATCGACACTTTTAACATATCCGGTA-TCGTTTTACCGATTTTGTCATTTCGATG-C
1 TATTAAA-TATCGACACTTTCAACATATCCGATACTC--TTTATCGGTTTTGTCATTTTGA-GAC
* * *
6361048 CGGTTTTGTCATATTTTTACCTGTAATATTGCTATGGAGCGATACATTTTT
62 CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
6361099 CATTTGTGGC
Statistics
Matches: 581, Mismatches: 54, Indels: 43
0.86 0.08 0.06
Matches are distributed among these distances:
177 1 0.00
178 135 0.23
179 153 0.26
180 2 0.00
181 18 0.03
182 106 0.18
183 108 0.19
184 58 0.10
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.44
Consensus pattern (179 bp):
TATTAAATATCGACACTTTCAACATATCCGATACTCTTTATCGGTTTTGTCATTTTGAGACCGGT
TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAGTATCGACACTTTA
TAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:6373734 original size:41 final size:41
Alignment explanation
Indices: 6373689--6373791 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
6373679 AAGTACTTTA
* *
6373689 GTGGCATTTTTAAACAAATGCCGCAATAGAGTACATATATC
1 GTGGCATTTTTAAACAAACGCCACAATAGAGTACATATATC
* * * *
6373730 GTGGCATTTTTAGACAAACGCCATAATAGGGTACATATATT
1 GTGGCATTTTTAAACAAACGCCACAATAGAGTACATATATC
**
6373771 GTGGCGCTTTTAAACAAACGC
1 GTGGCATTTTTAAACAAACGC
6373792 TGCAACAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (41 bp):
GTGGCATTTTTAAACAAACGCCACAATAGAGTACATATATC
Found at i:6373885 original size:85 final size:84
Alignment explanation
Indices: 6373736--6373998 Score: 261
Period size: 82 Copynumber: 3.2 Consensus size: 84
6373726 TATCGTGGCA
* * * * *
6373736 TTTTTAGACAAACGCCATAATAGG-GTACATATATTGTGGCGCTTTTAAACAAACGCTGCAACAA
1 TTTTTAGACAAACGCCACAATAGGTTTACATATATAGTGGCGTTTTTAAACAAACGCCGCAACAA
** *
6373800 A-TTGGTATTTTAGTGATGT
66 ACTT-GTACCTTAGTGACGT
* * * **
6373819 TTTTTACACAAACGCCACAATAGGTTTTACATATATAGTGGCGTTTTTGAACAAATGCCGTTACA
1 TTTTTAGACAAACGCCACAATAGG-TTTACATATATAGTGGCGTTTTTAAACAAACGCCGCAACA
*
6373884 AACTTGTACCTTAGTGGCGT
65 AACTTGTACCTTAGTGACGT
* ** * *
6373904 TTTTTAGA-AAACACCACAATACATTT-CATATATAGTGGCGTTATTAAACAAAC-ACGACAACA
1 TTTTTAGACAAACGCCACAATAGGTTTACATATATAGTGGCGTTTTTAAACAAACGCCG-CAACA
*
6373966 AACTTGTACTTTAGTGGA-GT
65 AACTTGTACCTTAGT-GACGT
6373986 TTTTTAGA-AAACG
1 TTTTTAGACAAACG
6373999 TCGTAATGTT
Statistics
Matches: 148, Mismatches: 27, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
81 2 0.01
82 55 0.37
83 26 0.18
84 12 0.08
85 51 0.34
86 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (84 bp):
TTTTTAGACAAACGCCACAATAGGTTTACATATATAGTGGCGTTTTTAAACAAACGCCGCAACAA
ACTTGTACCTTAGTGACGT
Found at i:6374737 original size:24 final size:23
Alignment explanation
Indices: 6374708--6374757 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
6374698 ATGTGGGAAA
6374708 GAATTTATAAAATTTTAGGAAGGC
1 GAATTTATAAAATTTTAGGAA-GC
* *
6374732 GAATTTATAAGATTTTTGGAAGC
1 GAATTTATAAAATTTTAGGAAGC
6374755 GAA
1 GAA
6374758 AATAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (23 bp):
GAATTTATAAAATTTTAGGAAGC
Found at i:6376443 original size:21 final size:21
Alignment explanation
Indices: 6376401--6376444 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6376391 AACATCCGAT
*
6376401 GAGGATGAAGAGGAGGAGGAA
1 GAGGATGAAGAGGAAGAGGAA
* *
6376422 GAGGATGAAGATGAAGATGAA
1 GAGGATGAAGAGGAAGAGGAA
6376443 GA
1 GA
6376445 TGAGGAGAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (21 bp):
GAGGATGAAGAGGAAGAGGAA
Found at i:6379151 original size:12 final size:12
Alignment explanation
Indices: 6379134--6379158 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6379124 ACTAAACTAA
6379134 AGATAAAGATAG
1 AGATAAAGATAG
6379146 AGATAAAGATAG
1 AGATAAAGATAG
6379158 A
1 A
6379159 AGTCTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AGATAAAGATAG
Done.