Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 26 of 74
Found at i:5975763 original size:24 final size:24
Alignment explanation
Indices: 5975734--5975783 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
5975724 AATAAATTAA
*
5975734 AATTAAAGT-TCATACAAAATTATT
1 AATTAAAGTATCA-AAAAAATTATT
*
5975758 AATTAAATTATCAAAAAAATTATT
1 AATTAAAGTATCAAAAAAATTATT
5975782 AA
1 AA
5975784 GAAAGAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (24 bp):
AATTAAAGTATCAAAAAAATTATT
Found at i:5976946 original size:61 final size:59
Alignment explanation
Indices: 5976816--5977216 Score: 486
Period size: 61 Copynumber: 6.7 Consensus size: 59
5976806 TTGTGTAGGA
** * *
5976816 AAAATTGATACTTTCAACTTTTTCC-CAAAAATA--TTTTTTGGAAATTTCTTTTTAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTTAAAATTTATTTTCAAGG
* * *
5976873 AAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTTTTAAAACTTTGATTTCCAATG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTAAAA-TTT-ATTTTCAAGG
* ** * *
5976934 AAAATTGATACTTTTAACTTTTCCTCAAAAAT-CCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTAAAATTTATTTTCAAGG
* *
5976992 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTT-AAAATTT-ATTTTCAAGG
* *
5977053 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTAAAATTT-ATTTTCAAGG
* * * *
5977113 AAAATTGATACCTTCAACTTTTCCTCAAAAATTTTTTTTTTTTTTGAAAATTTATTTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA---TATTTTTTTTT-AAAATTTA-TTTTCAAGG
*
5977177 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
5977217 GATTTTTTTA
Statistics
Matches: 298, Mismatches: 33, Indels: 22
0.84 0.09 0.06
Matches are distributed among these distances:
56 6 0.02
57 25 0.08
58 38 0.13
59 18 0.06
60 66 0.22
61 93 0.31
63 10 0.03
64 42 0.14
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTAAAATTTATTTTCAAGG
Found at i:5976997 original size:119 final size:118
Alignment explanation
Indices: 5976816--5977218 Score: 542
Period size: 119 Copynumber: 3.3 Consensus size: 118
5976806 TTGTGTAGGA
* * *
5976816 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTGGAAATTTCTTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
* *
5976880 ATACTTTCAATTTTTCCTCAAAAATATTTTTTTTTAAAACTTTGATTTCCAATG
65 ATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTAAAACTTTGATTTCCAAAG
* *
5976934 AAAATTGATACTTTTAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTGAAAATTTATTTTTAAGGAAAATTG
* *
5976999 ATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGG
65 ATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTAAAACTTTGATTTCCAAAG
* *
5977053 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAA-ATTTTTTTTGAAAATTT-ATTTTTAAGGAAAAT
* * **
5977118 TGATACCTTCAACTTTTCCTCAAAAATTTTTTTTTTTTTTGAAAA-TTT-ATTTTTTAAAG
63 TGATACTTTCAACTTTTCCTCAAAAA---TATTTTTTTTT-AAAACTTTGA-TTTCCAAAG
*
5977177 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTGA
5977219 TTTTTTTATT
Statistics
Matches: 256, Mismatches: 18, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
117 6 0.02
118 24 0.09
119 105 0.41
120 17 0.07
121 41 0.16
122 2 0.01
123 14 0.05
124 44 0.17
125 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTGAAAATTTATTTTTAAGGAAAATTGA
TACTTTCAACTTTTCCTCAAAAATATTTTTTTTTAAAACTTTGATTTCCAAAG
Found at i:5977094 original size:60 final size:59
Alignment explanation
Indices: 5976816--5977216 Score: 504
Period size: 60 Copynumber: 6.7 Consensus size: 59
5976806 TTGTGTAGGA
* * *
5976816 AAAATTGATACTTTCAACTTTTTCC-CAAAAATA-TTTTTTGGAAA-TTTCTTTTTAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTGAAACTTTATTTTCAAGG
* * * *
5976873 AAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTTTTAAAACTTTGATTTCCAATG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTGAAACTTT-ATTTTCAAGG
* ** * *
5976934 AAAATTGATACTTTTAACTTTTCCTCAAAAAT-CCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTATTTTCAAGG
*
5976992 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTGAAACTTT-ATTTTCAAGG
5977053 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTT-ATTTTCAAGG
* * * * *
5977113 AAAATTGATACCTTCAACTTTTCCTCAAAAATTTTTTTTTTTTTTGAAAATTTATTTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA----TATTTTTTTTGAAACTTTA-TTTTCAAGG
*
5977177 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
5977217 GATTTTTTTA
Statistics
Matches: 300, Mismatches: 31, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
56 6 0.02
57 25 0.08
58 38 0.13
59 21 0.07
60 80 0.27
61 77 0.26
63 1 0.00
64 52 0.17
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTATTTTCAAGG
Found at i:5977271 original size:10 final size:10
Alignment explanation
Indices: 5977256--5977296 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
5977246 AATAAAAGTG
5977256 AAAATAAAAA
1 AAAATAAAAA
*
5977266 AAAATAAAGA
1 AAAATAAAAA
*
5977276 AAAGTAAAACA
1 AAAATAAAA-A
5977287 AAAATAAAAA
1 AAAATAAAAA
5977297 TAAGATAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.83, C:0.02, G:0.05, T:0.10
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:5977289 original size:21 final size:19
Alignment explanation
Indices: 5977255--5977294 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
5977245 GAATAAAAGT
5977255 GAAAATAAAAAAAAATAAA
1 GAAAATAAAAAAAAATAAA
5977274 GAAAAGTAAAACAAAAATAAA
1 GAAAA-TAAAA-AAAAATAAA
5977295 AATAAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 9 0.47
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (19 bp):
GAAAATAAAAAAAAATAAA
Found at i:5977306 original size:27 final size:27
Alignment explanation
Indices: 5977261--5977312 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
5977251 AAGTGAAAAT
5977261 AAAAAAAAATAAAGAAAAG-TAAAACA
1 AAAAAAAAATAAAGAAAAGATAAAACA
5977287 AAAATAAAAAT-AAGATAAAGATAAAA
1 AAAA-AAAAATAAAGA-AAAGATAAAA
5977313 AAGGATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 8 0.35
27 10 0.43
28 5 0.22
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.12
Consensus pattern (27 bp):
AAAAAAAAATAAAGAAAAGATAAAACA
Found at i:5977342 original size:4 final size:4
Alignment explanation
Indices: 5977335--5977370 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
5977325 AATCTAATCT
*
5977335 AATA AATA AATA AATAA AATA AATA AATA AAGA AAT
1 AATA AATA AATA AAT-A AATA AATA AATA AATA AAT
5977371 TCTGAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:5977356 original size:13 final size:13
Alignment explanation
Indices: 5977338--5977365 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5977328 CTAATCTAAT
5977338 AAATAAATAAATA
1 AAATAAATAAATA
5977351 AAATAAATAAATA
1 AAATAAATAAATA
5977364 AA
1 AA
5977366 GAAATTCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:5978365 original size:21 final size:21
Alignment explanation
Indices: 5978308--5978415 Score: 71
Period size: 22 Copynumber: 5.0 Consensus size: 21
5978298 ATAAACCCAA
5978308 AAATATATTACAAAAAAATA-AT
1 AAATATA-TA-AAAAAAATATAT
* *
5978330 -AATA-ATAATATAAATATAT
1 AAATATATAAAAAAAATATAT
* *
5978349 AACTATATAAACAAAATACATAT
1 AAATATATAAA-AAAA-ATATAT
*
5978372 AAATAT-TAACAAAAAATAAAT
1 AAATATATAA-AAAAAATATAT
* *
5978393 AAATAAATAAATAAAGATATAT
1 AAATATATAAA-AAAAATATAT
5978415 A
1 A
5978416 TATTAATACA
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
18 7 0.11
19 4 0.06
20 4 0.06
21 18 0.27
22 22 0.33
23 11 0.17
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.28
Consensus pattern (21 bp):
AAATATATAAAAAAAATATAT
Found at i:5978431 original size:41 final size:41
Alignment explanation
Indices: 5978368--5978447 Score: 92
Period size: 41 Copynumber: 2.0 Consensus size: 41
5978358 AACAAAATAC
5978368 ATATAAATATTAACAAAAAAT-A-AATAAATAAATAAATAAAG
1 ATATAAATATTAACAAAAAATAATAAT-AAT-AATAAATAAAG
* * * *
5978409 ATATATATATTAATACATAATAATAATAATAATAAATAA
1 ATATAAATATTAACAAAAAATAATAATAATAATAAATAA
5978448 TAAAATACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
41 26 0.79
42 4 0.12
43 3 0.09
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (41 bp):
ATATAAATATTAACAAAAAATAATAATAATAATAAATAAAG
Found at i:5978433 original size:3 final size:3
Alignment explanation
Indices: 5978419--5978492 Score: 57
Period size: 3 Copynumber: 24.7 Consensus size: 3
5978409 ATATATATAT
5978419 TAA TACA TAA TAA TAA TAA TAA TAAA TAA TAA -AA TACA TAA -AA TACA
1 TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA-A TAA TAA TA-A
* * *
5978466 AAA GAA -AA -AA TAA TAA TAA AAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5978493 CCAGATAGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
2 8 0.13
3 41 0.68
4 11 0.18
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.24
Consensus pattern (3 bp):
TAA
Found at i:5978455 original size:31 final size:31
Alignment explanation
Indices: 5978420--5978481 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
5978410 TATATATATT
* * *
5978420 AATACATAATAATA-ATAATAATAAATAATAA
1 AATACATAA-AATACAAAAGAAAAAATAATAA
5978451 AATACATAAAATACAAAAGAAAAAATAATAA
1 AATACATAAAATACAAAAGAAAAAATAATAA
5978482 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.23
Consensus pattern (31 bp):
AATACATAAAATACAAAAGAAAAAATAATAA
Found at i:5978670 original size:1 final size:1
Alignment explanation
Indices: 5978660--5978728 Score: 57
Period size: 1 Copynumber: 69.0 Consensus size: 1
5978650 AACATTGTCA
* * * * * ** * *
5978660 TTTTTGTTTTTTTTGTTTGTTTTTTTGTGTTTTTTTTGGTTTTTTTTTTTTGTTTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5978725 TTTT
1 TTTT
5978729 GTGAGCCAAA
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.01, C:0.00, G:0.12, T:0.87
Consensus pattern (1 bp):
T
Found at i:5978680 original size:13 final size:13
Alignment explanation
Indices: 5978662--5978730 Score: 72
Period size: 14 Copynumber: 5.4 Consensus size: 13
5978652 CATTGTCATT
5978662 TTTGTTTTTTTTG
1 TTTGTTTTTTTTG
5978675 TTTG-TTTTTTTG
1 TTTGTTTTTTTTG
5978687 --TGTTTTTTTTGG
1 TTTGTTTTTTTT-G
*
5978699 TTTTTTTTTTTTG
1 TTTGTTTTTTTTG
* *
5978712 TTTTTTTATTTTTT
1 TTTGTTT-TTTTTG
5978726 TTTGT
1 TTTGT
5978731 GAGCCAAAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
10 2 0.04
11 7 0.15
12 9 0.19
13 12 0.25
14 18 0.38
ACGTcount: A:0.01, C:0.00, G:0.13, T:0.86
Consensus pattern (13 bp):
TTTGTTTTTTTTG
Found at i:5978712 original size:33 final size:32
Alignment explanation
Indices: 5978660--5978729 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 32
5978650 AACATTGTCA
*
5978660 TTTTT-GTTTTTTTTGTTTGTTTTTTTGTGTTT
1 TTTTTGGTTTTTTTTGTTTGTTTTTTTAT-TTT
*
5978692 TTTTTGGTTTTTTTTTTTTGTTTTTTTATTTT
1 TTTTTGGTTTTTTTTGTTTGTTTTTTTATTTT
5978724 TTTTTG
1 TTTTTG
5978730 TGAGCCAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 14 0.40
33 21 0.60
ACGTcount: A:0.01, C:0.00, G:0.13, T:0.86
Consensus pattern (32 bp):
TTTTTGGTTTTTTTTGTTTGTTTTTTTATTTT
Found at i:5978725 original size:23 final size:23
Alignment explanation
Indices: 5978660--5978728 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
5978650 AACATTGTCA
*
5978660 TTTTTGTTTTTTTTGTTTGTTTT
1 TTTTTGTTTTTTTTGTTTTTTTT
* *
5978683 TTTGTGTTTTTTTTGGTTTTTTT
1 TTTTTGTTTTTTTTGTTTTTTTT
*
5978706 TTTTTG-TTTTTTTATTTTTTTT
1 TTTTTGTTTTTTTTGTTTTTTTT
5978728 T
1 T
5978729 GTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
22 15 0.38
23 25 0.62
ACGTcount: A:0.01, C:0.00, G:0.12, T:0.87
Consensus pattern (23 bp):
TTTTTGTTTTTTTTGTTTTTTTT
Found at i:5978923 original size:41 final size:41
Alignment explanation
Indices: 5978739--5979213 Score: 487
Period size: 42 Copynumber: 11.1 Consensus size: 41
5978729 GTGAGCCAAA
* * *
5978739 GCTCCTCTAAAACAGAAGCTCAACGACTTTGAAGAAACATAAAATT
1 GCTCCTCT-AAACAGAGGCACCACGACTTTG--GAAA-AT-AAATT
5978785 GCTGCCTCTAAACAGAGGCACCACCGAC-TT-GAAAATAAATT
1 GCT-CCTCTAAACAGAGGCACCA-CGACTTTGGAAAATAAATT
* ** **
5978826 GCTCCTCTAAAAACAGAGGCAAACAAAAACTTTAAAAAATAAATT
1 GCTCCTCT--AAACAGAGGC--ACCACGACTTTGGAAAATAAATT
*
5978871 GGCTCCTCTAAACAGAGGCACCATGACTTTGGAAAATAAATT
1 -GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
*
5978913 GCTCCTCTAAAACAGA-GCACCACGACTTTGGGAAAGTAACATT
1 GCTCCTCT-AAACAGAGGCACCACGACTTT-GGAAAATAA-ATT
* *
5978956 GCTCTTCCTAAACAGAGGGCACCCATGACTTTGGAAAA-ATAATT
1 GCTCCT-CTAAACAGA-GGCA-CCACGACTTTGGAAAATA-AATT
* * *
5979000 GCT-CT-TAAACAGAAGGCACGCACGACTTTTGAAAGTAATTT
1 GCTCCTCTAAACAG-AGGCAC-CACGACTTTGGAAAATAAATT
* *
5979041 GCTCCTCTAAACAGAGGTACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
*
5979083 GCTCCTCTAAACAGAAGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAATAAATT
*
5979125 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
* *
5979167 GCTCTTCTAAACAGAGGCAACA-GAACTTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAATAAATT
5979208 GCTCCT
1 GCTCCT
5979214 TGACAATCAT
Statistics
Matches: 369, Mismatches: 34, Indels: 57
0.80 0.07 0.12
Matches are distributed among these distances:
40 6 0.02
41 87 0.24
42 158 0.43
43 33 0.09
44 24 0.07
45 19 0.05
46 33 0.09
47 9 0.02
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
Found at i:5980459 original size:31 final size:31
Alignment explanation
Indices: 5980421--5980481 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
5980411 TTAACCTGGA
*
5980421 TCTTTTTTTTTTC-TCATTTTTCTTTTTTCTT
1 TCTTTTTTTTTTCATCATCTTT-TTTTTTCTT
5980452 TCTTTTTTTTTTCATCATCTTTTTTTTTCT
1 TCTTTTTTTTTTCATCATCTTTTTTTTTCT
5980482 CATTTTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (31 bp):
TCTTTTTTTTTTCATCATCTTTTTTTTTCTT
Found at i:5980857 original size:10 final size:10
Alignment explanation
Indices: 5980822--5980851 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
5980812 GTGGCATTTA
5980822 TTTTTTCTTT
1 TTTTTTCTTT
5980832 TTTTTTCTTT
1 TTTTTTCTTT
5980842 TTTTTTCTTT
1 TTTTTTCTTT
5980852 CATTTTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:5984534 original size:62 final size:62
Alignment explanation
Indices: 5984401--5984863 Score: 566
Period size: 62 Copynumber: 7.6 Consensus size: 62
5984391 TTGTGTAGGA
** * *
5984401 AAAATTGATACTTTCAACTTTTCCCCAAAAATA----TTTTTTGAAA-TTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTTTGAAACTTTGATTTTCAAGG
* **
5984458 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTTTGAAACTTTGATTTCCAAAA
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTTTGAAACTTTGATTTTCAAGG
* * *
5984520 AAAATTGATACTTTCAACTTTT-TCTC-AAAA-A-TCTTTTTTTGAAAATTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCT-TCAAAAATATTTTTTTTTTGAAACTTTGATTTTCAAGG
*
5984578 AAAATTGATACTTTCAACTTTTCCTT-AAAAATATTTTTTTTTT-AAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTT-CTTCAAAAATATTTTTTTTTTGAAACTTTGATTTTCAAGG
* *
5984639 AAAATTAATACTTTCAACTTTTCCTT-AAAAATA-TTTTTTTTT-AAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTT-CTTCAAAAATATTTTTTTTTTGAAACTTTGATTTTCAAGG
* *
5984699 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTTGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTTTGAAACTTTGATTTTCAAGG
* * * *
5984761 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTGTTTTTTTTTTTAAA-TTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCTTCAAAAA---TATTTTTTTTTTGAAACTTTGATTTTCAAGG
5984824 AAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCTT-CAAAAATATTTTTTT
5984864 GATTTTTTTA
Statistics
Matches: 359, Mismatches: 28, Indels: 35
0.85 0.07 0.08
Matches are distributed among these distances:
57 31 0.09
58 28 0.08
59 22 0.06
60 72 0.20
61 71 0.20
62 82 0.23
63 37 0.10
64 3 0.01
65 13 0.04
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (62 bp):
AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTTTGAAACTTTGATTTTCAAGG
Found at i:5984658 original size:32 final size:31
Alignment explanation
Indices: 5984622--5984719 Score: 78
Period size: 32 Copynumber: 3.2 Consensus size: 31
5984612 TTTTTTTTTA
5984622 AACTTTGATTTCCAAGGAAAATTAATACTTTC
1 AACTTTGATTTCCAAGGAAAATT-ATACTTTC
*** * ** *
5984654 AACTTTTCCTT--AA--AAATATTTTTTTTTA
1 AACTTTGATTTCCAAGGAAA-ATTATACTTTC
5984682 AACTTTGATTTCCAAGGAAAATTGATACTTTC
1 AACTTTGATTTCCAAGGAAAATT-ATACTTTC
5984714 AACTTT
1 AACTTT
5984720 TCCTCAAAAA
Statistics
Matches: 46, Mismatches: 14, Indels: 12
0.64 0.19 0.17
Matches are distributed among these distances:
28 15 0.33
29 3 0.07
30 4 0.09
31 3 0.07
32 21 0.46
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (31 bp):
AACTTTGATTTCCAAGGAAAATTATACTTTC
Found at i:5984919 original size:20 final size:20
Alignment explanation
Indices: 5984896--5984963 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
5984886 AGAACAGAAT
*
5984896 AAAAGTGAAAATAAAAA-AAA
1 AAAAGT-AAAACAAAAATAAA
5984916 AAAAGTAAAACAAAAATAAA
1 AAAAGTAAAACAAAAATAAA
* *
5984936 AATAAGATAAAGATAAAGATAAA
1 AA-AAG-TAAA-ACAAAAATAAA
5984959 AAAAG
1 AAAAG
5984964 ATTAAATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 9 0.22
20 11 0.27
21 3 0.07
22 7 0.17
23 11 0.27
ACGTcount: A:0.76, C:0.01, G:0.10, T:0.12
Consensus pattern (20 bp):
AAAAGTAAAACAAAAATAAA
Found at i:5984969 original size:11 final size:10
Alignment explanation
Indices: 5984913--5984965 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 10
5984903 AAAATAAAAA
5984913 AAAAAAAG-T
1 AAAAAAAGAT
*
5984922 AAAACAAAAAT
1 AAAA-AAAGAT
5984933 AAAAATAAGAT
1 AAAAA-AAGAT
5984944 AAAGATAAAGAT
1 AAA-A-AAAGAT
5984956 AAAAAAAGAT
1 AAAAAAAGAT
5984966 TAAATAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 4 0.11
10 10 0.27
11 13 0.35
12 9 0.24
13 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.13
Consensus pattern (10 bp):
AAAAAAAGAT
Found at i:5984989 original size:4 final size:4
Alignment explanation
Indices: 5984982--5985026 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
5984972 AATCTAATCT
* *
5984982 AATA AATAA AATA AATA AATA AATAA AACA AATA AATA AAGA AAT
1 AATA AAT-A AATA AATA AATA AAT-A AATA AATA AATA AATA AAT
5985027 TTCAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
4 28 0.80
5 7 0.20
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:5985000 original size:13 final size:13
Alignment explanation
Indices: 5984982--5985021 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
5984972 AATCTAATCT
5984982 AATAAATAAA-ATA
1 AATAAATAAATA-A
5984995 AATAAATAAATAA
1 AATAAATAAATAA
*
5985008 AACAAATAAATAA
1 AATAAATAAATAA
5985021 A
1 A
5985022 GAAATTTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 24 0.96
14 1 0.04
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (13 bp):
AATAAATAAATAA
Found at i:5985004 original size:17 final size:17
Alignment explanation
Indices: 5984982--5985021 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
5984972 AATCTAATCT
*
5984982 AATAAATAAAATAAATA
1 AATAAATAAAACAAATA
5984999 AATAAATAAAACAAATA
1 AATAAATAAAACAAATA
5985016 AATAAA
1 AATAAA
5985022 GAAATTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (17 bp):
AATAAATAAAACAAATA
Found at i:5986007 original size:25 final size:30
Alignment explanation
Indices: 5985933--5986007 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
5985923 CAAAAAAAAT
*
5985933 AATAATAATAATATAAATATATAACTATATA
1 AATAA-AATAATATAAATATATAACTATAAA
5985964 AATAAAATACATATAAATAT-TAAC-A-AAA
1 AATAAAATA-ATATAAATATATAACTATAAA
5985992 AAT-AAATAA-ATAAATA
1 AATAAAATAATATAAATA
5986008 AAGATATATA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 7 0.17
26 1 0.02
27 5 0.12
28 5 0.12
29 1 0.02
30 8 0.19
31 15 0.36
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (30 bp):
AATAAAATAATATAAATATATAACTATAAA
Found at i:5986033 original size:37 final size:36
Alignment explanation
Indices: 5985942--5986033 Score: 85
Period size: 37 Copynumber: 2.5 Consensus size: 36
5985932 TAATAATAAT
* * * *
5985942 AATATAAATATATAACTATATAAATAAAATACATATA
1 AATATTAATAAATAA-TAAATAAATAAAAAACATATA
* * *
5985979 AATATTAACAAAAAATAAATAAATAAATAAAGATATA
1 AATATTAATAAATAATAAATAAATAAA-AAACATATA
* *
5986016 TATATTAATACATAATAA
1 AATATTAATAAATAATAA
5986034 TAATAATAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
36 11 0.26
37 32 0.74
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (36 bp):
AATATTAATAAATAATAAATAAATAAAAAACATATA
Found at i:5986035 original size:3 final size:3
Alignment explanation
Indices: 5986021--5986096 Score: 57
Period size: 3 Copynumber: 24.7 Consensus size: 3
5986011 ATATATATAT
5986021 TAA TACA TAA TAA TAA TAA TAA TAAA TAA TAA -AA TACA T-A TAA TACA
1 TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA-A TAA TAA TA-A
* * * * *
5986068 AAA GAA AAA AAA TAA TAA TAA AAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5986097 CTAGATAGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.07
3 47 0.77
4 10 0.16
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (3 bp):
TAA
Found at i:5986065 original size:40 final size:38
Alignment explanation
Indices: 5985934--5986090 Score: 106
Period size: 40 Copynumber: 3.9 Consensus size: 38
5985924 AAAAAAAATA
*
5985934 ATAATAATAATATAAATATATAACTATATAAATAAAATACAT
1 ATAATAATAATA-AAA-A-ATAA-TAAATAAATAAAATACAT
* * *
5985976 ATAAATATTAACAAAAAATAAATAAATAAATAAAGATATATAT
1 AT-AATAATAATAAAAAAT-AATAAATAAAT-AA-A-ATACAT
5986019 ATTAATACATAATAATAATAATAATAAAT-AATAAAATACAT
1 A-TAATA-ATAATAA-AA-AATAATAAATAAATAAAATACAT
* *
5986060 ATAATACAAAAGAAAAAA-AAT-AAT-AATAAAA
1 ATAATA-ATAATAAAAAATAATAAATAAATAAAA
5986091 ATAATACTAG
Statistics
Matches: 97, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
36 10 0.10
37 3 0.03
38 2 0.02
39 2 0.02
40 21 0.22
41 11 0.11
42 7 0.07
43 20 0.21
44 9 0.09
45 9 0.09
46 3 0.03
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (38 bp):
ATAATAATAATAAAAAATAATAAATAAATAAAATACAT
Found at i:5987534 original size:22 final size:21
Alignment explanation
Indices: 5987487--5987534 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
5987477 AATTTTGTTA
* *
5987487 TAAATTAGTGATAATTTAGAC
1 TAAATCAGTAATAATTTAGAC
* *
5987508 AAAATCAGTAATAACTTTATAC
1 TAAATCAGTAATAA-TTTAGAC
5987530 TAAAT
1 TAAAT
5987535 TAATGATAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (21 bp):
TAAATCAGTAATAATTTAGAC
Found at i:5987543 original size:22 final size:22
Alignment explanation
Indices: 5987518--5987630 Score: 99
Period size: 22 Copynumber: 5.2 Consensus size: 22
5987508 AAAATCAGTA
*
5987518 ATAACTTTATACTAAATTAATG
1 ATAACTTTATAGTAAATTAATG
*
5987540 ATAACTGTATAGTAAATT-ATGG
1 ATAACTTTATAGTAAATTAAT-G
* * *
5987562 ATAACTTAATAGTAAAATAATA
1 ATAACTTTATAGTAAATTAATG
* *
5987584 ATAACTTAATAGTAAA-TAATA
1 ATAACTTTATAGTAAATTAATG
*
5987605 ATAA-TTTAGTAATAAA-TAATTG
1 ATAACTTTA-TAGTAAATTAA-TG
5987627 ATAA
1 ATAA
5987631 AAAAAGTATG
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
20 3 0.04
21 20 0.26
22 53 0.68
23 2 0.03
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.36
Consensus pattern (22 bp):
ATAACTTTATAGTAAATTAATG
Found at i:5987810 original size:22 final size:22
Alignment explanation
Indices: 5987739--5987811 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
5987729 CACATATTAG
**
5987739 TAAATTAAGGATAACTTAATAA
1 TAAATTACCGATAACTTAATAA
* * ** *
5987761 AAAATAAGTGATAACTTAATAG
1 TAAATTACCGATAACTTAATAA
* *
5987783 TTAATTACCGATAACTTAGTAA
1 TAAATTACCGATAACTTAATAA
5987805 TAAATTA
1 TAAATTA
5987812 ATTATATCTT
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.33
Consensus pattern (22 bp):
TAAATTACCGATAACTTAATAA
Found at i:5988398 original size:22 final size:22
Alignment explanation
Indices: 5988358--5988431 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
5988348 TAGTCAAAGG
* **
5988358 ATAATAACTTAATAATAAATCA
1 ATAATAACATAATTGTAAATCA
*
5988380 ATTATAACATAATTGTAAATGC-
1 ATAATAACATAATTGTAAAT-CA
* *
5988402 ATAATAACATAGTTGTAAATTA
1 ATAATAACATAATTGTAAATCA
*
5988424 ATGATAAC
1 ATAATAAC
5988432 TTTATAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 41 0.98
23 1 0.02
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (22 bp):
ATAATAACATAATTGTAAATCA
Found at i:5988542 original size:22 final size:23
Alignment explanation
Indices: 5988517--5988571 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
5988507 AGTGATACCA
*
5988517 TAATAGTAAATTTATTTT-AGTT
1 TAATAGTAAATTTATTTTAAATT
5988539 TAATAGT-AA-TTATTTTAAATT
1 TAATAGTAAATTTATTTTAAATT
*
5988560 TAGTAGTAAATT
1 TAATAGTAAATT
5988572 ATAAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 7 0.25
21 11 0.39
22 9 0.32
23 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (23 bp):
TAATAGTAAATTTATTTTAAATT
Found at i:5988561 original size:21 final size:21
Alignment explanation
Indices: 5988517--5988573 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
5988507 AGTGATACCA
*
5988517 TAATAGTAAATTTATTTTAGTT
1 TAATAGTAAA-TTATTTTAATT
5988539 TAATAGT-AATTATTTTAAATT
1 TAATAGTAAATTATTTT-AATT
*
5988560 TAGTAGTAAATTAT
1 TAATAGTAAATTAT
5988574 AAATAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 7 0.23
21 11 0.35
22 13 0.42
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (21 bp):
TAATAGTAAATTATTTTAATT
Found at i:5988697 original size:22 final size:22
Alignment explanation
Indices: 5988672--5988769 Score: 97
Period size: 22 Copynumber: 4.5 Consensus size: 22
5988662 AACAGTATAG
*
5988672 TAGTAAATCATTAATAATTTAA
1 TAGTAAATCATTAATAACTTAA
* ** *
5988694 TAGTAAATTATCGATAATTTAA
1 TAGTAAATCATTAATAACTTAA
* *
5988716 TAGTAAATCACTAATAACATAA
1 TAGTAAATCATTAATAACTTAA
* * *
5988738 TAGTAAAACATTGATAACTTAG
1 TAGTAAATCATTAATAACTTAA
*
5988760 TTGTAAATCA
1 TAGTAAATCA
5988770 GTGATGATTT
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 60 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (22 bp):
TAGTAAATCATTAATAACTTAA
Found at i:5988754 original size:44 final size:44
Alignment explanation
Indices: 5988672--5988769 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
5988662 AACAGTATAG
* ** ** *
5988672 TAGTAAATCATTAATAATTTAATAGTAAATTATCGATAATTTAA
1 TAGTAAATCACTAATAACATAATAGTAAAACATCGATAACTTAA
* *
5988716 TAGTAAATCACTAATAACATAATAGTAAAACATTGATAACTTAG
1 TAGTAAATCACTAATAACATAATAGTAAAACATCGATAACTTAA
*
5988760 TTGTAAATCA
1 TAGTAAATCA
5988770 GTGATGATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (44 bp):
TAGTAAATCACTAATAACATAATAGTAAAACATCGATAACTTAA
Found at i:5988774 original size:22 final size:22
Alignment explanation
Indices: 5988669--5988811 Score: 72
Period size: 22 Copynumber: 6.5 Consensus size: 22
5988659 CATAACAGTA
* * *
5988669 TAGTAGTAAATCATTAATAATT
1 TAGTTGTAAATCAATGATAATT
* * *
5988691 TAATAGTAAAT-TATCGATAATT
1 TAGTTGTAAATCAAT-GATAATT
* * * * **
5988713 TAATAGTAAATCACTAATAACA
1 TAGTTGTAAATCAATGATAATT
* * * * *
5988735 TAATAGTAAAACATTGATAACT
1 TAGTTGTAAATCAATGATAATT
* *
5988757 TAGTTGTAAATCAGTGATGATT
1 TAGTTGTAAATCAATGATAATT
* *
5988779 TTGTTATAAATCAATGATAATT
1 TAGTTGTAAATCAATGATAATT
*
5988801 TAGTTTTAAAT
1 TAGTTGTAAAT
5988812 TAGTTAATTA
Statistics
Matches: 94, Mismatches: 25, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
21 1 0.01
22 92 0.98
23 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.39
Consensus pattern (22 bp):
TAGTTGTAAATCAATGATAATT
Found at i:5988849 original size:22 final size:22
Alignment explanation
Indices: 5988817--5988930 Score: 97
Period size: 22 Copynumber: 5.2 Consensus size: 22
5988807 TAAATTAGTT
* *
5988817 AATTATTAATAACTTTATAGTA
1 AATTATCAATAACTTTATAATA
* * *
5988839 AATCATCAATAACTTTATAGTC
1 AATTATCAATAACTTTATAATA
* *
5988861 AATAAGT-AATAACATTATAATA
1 AATTA-TCAATAACTTTATAATA
* * *
5988883 AATTATTAATAACTTAATAATC
1 AATTATCAATAACTTTATAATA
*
5988905 AATTATCAACAAC-TTAGTAATA
1 AATTATCAATAACTTTA-TAATA
5988927 AATT
1 AATT
5988931 GTTTATAACT
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
21 3 0.04
22 70 0.95
23 1 0.01
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.38
Consensus pattern (22 bp):
AATTATCAATAACTTTATAATA
Found at i:5988894 original size:44 final size:42
Alignment explanation
Indices: 5988823--5988942 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 42
5988813 AGTTAATTAT
* * * * *
5988823 TAATAACTTTATAGTAAATCATCAATAACTTTATAGTCAATAA
1 TAATAAC-TTATAATAAATTATTAATAACTTAATAATCAATAA
*
5988866 GTAATAACATTATAATAAATTATTAATAACTTAATAATCAATTA
1 -TAATAAC-TTATAATAAATTATTAATAACTTAATAATCAATAA
* * *
5988910 TCAACAACTTAGTAATAAATTGTTTATAACTTA
1 T-AATAACTTA-TAATAAATTATTAATAACTTA
5988943 GTAGTAAATC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 4 0.06
44 60 0.94
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.38
Consensus pattern (42 bp):
TAATAACTTATAATAAATTATTAATAACTTAATAATCAATAA
Found at i:5988940 original size:22 final size:22
Alignment explanation
Indices: 5988817--5988965 Score: 90
Period size: 22 Copynumber: 6.8 Consensus size: 22
5988807 TAAATTAGTT
* *
5988817 AATTATTAATAACTTTA-TAGTA
1 AATTATCAATAAC-TTAGTAATA
* * *
5988839 AATCATCAATAACTTTA-TAGTC
1 AATTATCAATAAC-TTAGTAATA
*
5988861 AATAAGT-AATAACATTA-TAATA
1 AATTA-TCAATAAC-TTAGTAATA
* * *
5988883 AATTATTAATAACTTAATAATC
1 AATTATCAATAACTTAGTAATA
*
5988905 AATTATCAACAACTTAGTAATA
1 AATTATCAATAACTTAGTAATA
* ** *
5988927 AATTGTTTATAACTTAGTAGTA
1 AATTATCAATAACTTAGTAATA
* *
5988949 AATCATCTATAACTTAG
1 AATTATCAATAACTTAG
5988966 CGAGAAATCA
Statistics
Matches: 103, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
21 4 0.04
22 98 0.95
23 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (22 bp):
AATTATCAATAACTTAGTAATA
Found at i:5988963 original size:44 final size:44
Alignment explanation
Indices: 5988868--5988965 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
5988858 GTCAATAAGT
* *
5988868 AATAACATTA-TAATAAATTATTAATAACTTAATAATCAATTATC
1 AATAAC-TTAGTAATAAATTATTAATAACTTAATAATAAATCATC
* * * * *
5988912 AACAACTTAGTAATAAATTGTTTATAACTTAGTAGTAAATCATC
1 AATAACTTAGTAATAAATTATTAATAACTTAATAATAAATCATC
*
5988956 TATAACTTAG
1 AATAACTTAG
5988966 CGAGAAATCA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
43 3 0.07
44 41 0.93
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (44 bp):
AATAACTTAGTAATAAATTATTAATAACTTAATAATAAATCATC
Found at i:5988973 original size:22 final size:22
Alignment explanation
Indices: 5988934--5988975 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5988924 ATAAATTGTT
*
5988934 TATAACTTAGTAGTAAATCATC
1 TATAACTTAGGAGTAAATCATC
5988956 TATAACTTAGCGAG-AAATCA
1 TATAACTTAG-GAGTAAATCA
5988976 AGATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (22 bp):
TATAACTTAGGAGTAAATCATC
Found at i:5989469 original size:22 final size:22
Alignment explanation
Indices: 5989445--5989616 Score: 100
Period size: 22 Copynumber: 7.9 Consensus size: 22
5989435 TATATCGATG
* *
5989445 ATAATTTTGTAGTAAATCATCG
1 ATAATTTAGTAGTAAATCATCA
** *
5989467 ATAATTTCA-TAGTAAATTGT-T
1 ATAATTT-AGTAGTAAATCATCA
* *
5989488 ATAACTTTA-TAATAAATTATCA
1 ATAA-TTTAGTAGTAAATCATCA
* *
5989510 ATAATTTAGTACTACATCATCA
1 ATAATTTAGTAGTAAATCATCA
* **
5989532 ATAACTTAGTAGTAAATCATTT
1 ATAATTTAGTAGTAAATCATCA
* * * *
5989554 TTAAGTTAATAGTAAATCATTA
1 ATAATTTAGTAGTAAATCATCA
* * *
5989576 ATAATTTAATAATAAATCAAT-G
1 ATAATTTAGTAGTAAATC-ATCA
* *
5989598 ATAATATAGTAATAAATCA
1 ATAATTTAGTAGTAAATCA
5989617 GTAATAACTT
Statistics
Matches: 120, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
21 19 0.16
22 99 0.82
23 2 0.02
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATCATCA
Found at i:5989623 original size:22 final size:22
Alignment explanation
Indices: 5989560--5989623 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
5989550 ATTTTTAAGT
* * *
5989560 TAATAGTAAATCATTAATAATT
1 TAATAATAAATCAATAATAATA
*
5989582 TAATAATAAATCAATGATAATA
1 TAATAATAAATCAATAATAATA
* *
5989604 TAGTAATAAATCAGTAATAA
1 TAATAATAAATCAATAATAA
5989624 CTTAATTGTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (22 bp):
TAATAATAAATCAATAATAATA
Found at i:5989864 original size:22 final size:22
Alignment explanation
Indices: 5989815--5989864 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
5989805 CAATGATAAC
*
5989815 AATAAATCAATGATAACTTATT
1 AATAAATCAATGATAACTTAGT
* ** *
5989837 AGTAAATCAATTTTAGCTTAGT
1 AATAAATCAATGATAACTTAGT
5989859 AATAAA
1 AATAAA
5989865 CTTTGGATAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (22 bp):
AATAAATCAATGATAACTTAGT
Found at i:5990505 original size:27 final size:22
Alignment explanation
Indices: 5990458--5990516 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 22
5990448 CATAATATTT
5990458 TAAACTAA-AATATATGATCTAA
1 TAAACTAATAATATATGATCT-A
5990480 TAATACTAATAATAGTATGAATTCTA
1 TAA-ACTAATAATA-TATG-A-TCTA
5990506 TAAACT-ATAAT
1 TAAACTAATAAT
5990517 TTTAAAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
22 3 0.09
23 5 0.16
24 9 0.28
25 7 0.22
26 5 0.16
27 3 0.09
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (22 bp):
TAAACTAATAATATATGATCTA
Found at i:5994400 original size:2 final size:2
Alignment explanation
Indices: 5994393--5994431 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
5994383 ATTATCATAT
5994393 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
5994432 ATATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:5994436 original size:2 final size:2
Alignment explanation
Indices: 5994431--5994463 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5994421 TCTCTCTCTC
5994431 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5994464 GCAGGATCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5998527 original size:22 final size:22
Alignment explanation
Indices: 5998502--5998546 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
5998492 ATTATATATC
* * *
5998502 TTTTAATATATATTTAAAAAAA
1 TTTTAAAATAAATTAAAAAAAA
5998524 TTTTAAAATAAATTAAAAAAAA
1 TTTTAAAATAAATTAAAAAAAA
5998546 T
1 T
5998547 AAATTATGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTTAAAATAAATTAAAAAAAA
Found at i:6006276 original size:19 final size:19
Alignment explanation
Indices: 6006252--6006288 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6006242 AGATACAAGA
6006252 TTAACAGAGGTGTCATCAG
1 TTAACAGAGGTGTCATCAG
6006271 TTAACAGAGGTGTCATCA
1 TTAACAGAGGTGTCATCA
6006289 ACAAACATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (19 bp):
TTAACAGAGGTGTCATCAG
Found at i:6006295 original size:19 final size:19
Alignment explanation
Indices: 6006254--6006295 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6006244 ATACAAGATT
***
6006254 AACAGAGGTGTCATCAGTT
1 AACAGAGGTGTCATCAACA
6006273 AACAGAGGTGTCATCAACA
1 AACAGAGGTGTCATCAACA
6006292 AACA
1 AACA
6006296 TACTAACTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (19 bp):
AACAGAGGTGTCATCAACA
Found at i:6011181 original size:2 final size:2
Alignment explanation
Indices: 6011174--6011203 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6011164 TAGACTCAGG
6011174 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6011204 AGACAGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6013584 original size:43 final size:43
Alignment explanation
Indices: 6013523--6013615 Score: 161
Period size: 43 Copynumber: 2.2 Consensus size: 43
6013513 AAAGGTGTCA
6013523 ATAGCTTTCTTATTTATTTTATTCCTGGATATCTGAGCATATG
1 ATAGCTTTCTTATTTATTTTATTCCTGGATATCTGAGCATATG
* *
6013566 ATAGCTTTCTTATTTATTTTATTGCTGGATATTTGAGCATATG
1 ATAGCTTTCTTATTTATTTTATTCCTGGATATCTGAGCATATG
6013609 ATA-CTTT
1 ATAGCTTT
6013616 GCTACTTCTA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 4 0.08
43 44 0.92
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.51
Consensus pattern (43 bp):
ATAGCTTTCTTATTTATTTTATTCCTGGATATCTGAGCATATG
Found at i:6022448 original size:12 final size:12
Alignment explanation
Indices: 6022427--6022460 Score: 50
Period size: 12 Copynumber: 2.7 Consensus size: 12
6022417 TTTCTCATTA
6022427 AAAAATAAAAAAC
1 AAAAA-AAAAAAC
6022440 AAAAAAAAAAAC
1 AAAAAAAAAAAC
6022452 AAAAGAAAA
1 AAAA-AAAA
6022461 GACCTTAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.88, C:0.06, G:0.03, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:6031155 original size:18 final size:18
Alignment explanation
Indices: 6031132--6031179 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
6031122 AAAATTCATT
* *
6031132 TTTTAAAAATATAATACA
1 TTTTAAAAATATAAAAAA
*
6031150 TTTTAAAAATAAAAAAAA
1 TTTTAAAAATATAAAAAA
*
6031168 TATTAAAAATAT
1 TTTTAAAAATAT
6031180 TATTTTACTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TTTTAAAAATATAAAAAA
Found at i:6035556 original size:48 final size:48
Alignment explanation
Indices: 6035489--6035593 Score: 183
Period size: 48 Copynumber: 2.2 Consensus size: 48
6035479 GGTTGCTATG
* *
6035489 TTACACTTATAGGAGTATCTATTTTCAAAACATTAGACTAGGACATGT
1 TTACACTTATAAGAGTATCTATTTCCAAAACATTAGACTAGGACATGT
6035537 TTACACTTATAAGAGTATCTATTTCCAAAACATTAGACTAGGACATGT
1 TTACACTTATAAGAGTATCTATTTCCAAAACATTAGACTAGGACATGT
*
6035585 TTAAACTTA
1 TTACACTTA
6035594 AACCTAAACT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (48 bp):
TTACACTTATAAGAGTATCTATTTCCAAAACATTAGACTAGGACATGT
Found at i:6037617 original size:22 final size:23
Alignment explanation
Indices: 6037573--6037619 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
6037563 TAACGCACCC
*
6037573 ATTATTTGGGTGAAAAAGAAAAA
1 ATTATTTGGGTAAAAAAGAAAAA
6037596 ATTATTTGGGTAAAAAAGAAAAA
1 ATTATTTGGGTAAAAAAGAAAAA
6037619 A
1 A
6037620 GTAGTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (23 bp):
ATTATTTGGGTAAAAAAGAAAAA
Found at i:6045339 original size:3 final size:3
Alignment explanation
Indices: 6045331--6045363 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6045321 GGAGTGAGTT
6045331 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
6045364 ATCTTCTCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6045530 original size:8 final size:8
Alignment explanation
Indices: 6045517--6045547 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
6045507 AATGTAAGAC
6045517 GAGAGAAA
1 GAGAGAAA
6045525 GAGAGAAA
1 GAGAGAAA
6045533 GAGAGAAA
1 GAGAGAAA
*
6045541 GACAGAA
1 GAGAGAA
6045548 GCCGTCTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.61, C:0.03, G:0.35, T:0.00
Consensus pattern (8 bp):
GAGAGAAA
Found at i:6046419 original size:10 final size:11
Alignment explanation
Indices: 6046396--6046428 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
6046386 TTTTATAATT
*
6046396 ATTTTAATATA
1 ATTTAAATATA
6046407 ATTTAAATA-A
1 ATTTAAATATA
6046417 ATTTAAATATA
1 ATTTAAATATA
6046428 A
1 A
6046429 AATAATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTTAAATATA
Found at i:6053986 original size:18 final size:18
Alignment explanation
Indices: 6053963--6053997 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6053953 CTTAAAACCA
6053963 TATTTCT-TTCTTTCTTAT
1 TATTTCTGTT-TTTCTTAT
6053981 TATTTCTGTTTTTCTTA
1 TATTTCTGTTTTTCTTA
6053998 AATTTACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.11, C:0.14, G:0.03, T:0.71
Consensus pattern (18 bp):
TATTTCTGTTTTTCTTAT
Found at i:6054865 original size:1 final size:1
Alignment explanation
Indices: 6054859--6054884 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
6054849 AGATTTCTTC
6054859 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
6054885 CTTTGTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6063963 original size:11 final size:11
Alignment explanation
Indices: 6063947--6063972 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6063937 TAATATTTCG
6063947 TTTTTTTTTAT
1 TTTTTTTTTAT
6063958 TTTTTTTTTAT
1 TTTTTTTTTAT
6063969 TTTT
1 TTTT
6063973 ATGAATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTAT
Found at i:6070244 original size:118 final size:119
Alignment explanation
Indices: 6070035--6070273 Score: 453
Period size: 118 Copynumber: 2.0 Consensus size: 119
6070025 ATAAAGGAGA
6070035 TTTGAAAATCATTACTGTTTTTCCTTTTCGTTTTCCTTAATTTTTGTTTTGATAATAACAGGATA
1 TTTGAAAATCATTACTGTTTTTCCTTTTCGTTTTCCTTAATTTTTGTTTTGATAATAACAGGATA
*
6070100 ACGAAGATAACCAAAGTATTTAAGGAGTATACGGCTGTGCCTGGTTCCTGTATC
66 ACGAAGATAACCAAAGTACTTAAGGAGTATACGGCTGTGCCTGGTTCCTGTATC
*
6070154 TTTGAAAATCGTTACTG-TTTTCCTTTTCGTTTTCCTTAATTTTTGTTTTGATAATAACAGGATA
1 TTTGAAAATCATTACTGTTTTTCCTTTTCGTTTTCCTTAATTTTTGTTTTGATAATAACAGGATA
6070218 ACGAAGATAACCAAAGTACTTAAGGAGTATACGGCTGTGCCTGGTTCCTGTATC
66 ACGAAGATAACCAAAGTACTTAAGGAGTATACGGCTGTGCCTGGTTCCTGTATC
6070272 TT
1 TT
6070274 GCACCCAACA
Statistics
Matches: 118, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
118 102 0.86
119 16 0.14
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (119 bp):
TTTGAAAATCATTACTGTTTTTCCTTTTCGTTTTCCTTAATTTTTGTTTTGATAATAACAGGATA
ACGAAGATAACCAAAGTACTTAAGGAGTATACGGCTGTGCCTGGTTCCTGTATC
Found at i:6082952 original size:29 final size:29
Alignment explanation
Indices: 6082918--6082973 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
6082908 CAAAAATTTA
* * *
6082918 ATAATCATTTAAACCCTTAATATTTTATT
1 ATAATCAATCAAACCCTAAATATTTTATT
*
6082947 ATAATCAATCAAACCCTAAATTTTTTA
1 ATAATCAATCAAACCCTAAATATTTTA
6082974 ATTTTAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (29 bp):
ATAATCAATCAAACCCTAAATATTTTATT
Found at i:6085844 original size:40 final size:40
Alignment explanation
Indices: 6085783--6085894 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
6085773 AGGTGTTCCA
* * *
6085783 TAAAATAACATTTACTGAAATAGTCTTATCACATGTTTCG
1 TAAAATAACCTTCACTAAAATAGTCTTATCACATGTTTCG
* * * *
6085823 TAAAATAACCTTCATTAAAATAGTTTTATTACCTGTTTCG
1 TAAAATAACCTTCACTAAAATAGTCTTATCACATGTTTCG
*
6085863 TAAAATAACCTTCACTAAAAGAGTCTTATCAC
1 TAAAATAACCTTCACTAAAATAGTCTTATCAC
6085895 TTATTCTGAC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (40 bp):
TAAAATAACCTTCACTAAAATAGTCTTATCACATGTTTCG
Found at i:6086722 original size:148 final size:143
Alignment explanation
Indices: 6086424--6086779 Score: 391
Period size: 148 Copynumber: 2.5 Consensus size: 143
6086414 AGTGTTTTTC
* * * * * *
6086424 TAAAAAATACGAGAAAT-TAAAAAG-AATAGGTAACGGGTGTTTTTACCTAAAAAATAGAAAAAT
1 TAAAAAATAGGAAAAATATTAAAAGAAATAGGTAA-GGGAGTGTTTCCCTAAAAAATAGAAAAAT
* *
6086487 TATTGAAAAGAATAGGTAAGAAAGTATTTCCTTAAAAAAAAAAGAAATATTAAAAGAAATAAGTA
65 TATTGAAAAGAATAGGTAAGAAAGTATTTCCTAAAAAAAAAAAGAAATATTAAAACAAATAAGTA
*
6086552 AGAGAGCATTTCCA
130 AGAGAACATTTCCA
*
6086566 TAAAAAATA-GAATAAATATTAAAAGAAATAGGTAAGGGAGTGTTTCCCTAAAAAATAAAAAAAT
1 TAAAAAATAGGAA-AAATATTAAAAGAAATAGGTAAGGGAGTGTTTCCCTAAAAAATAGAAAAAT
* *
6086630 ATATT-AAAAGGAATAGGTAATG-GAGTGTTTTCCTAAAAAAAAAAAGGGAAATTATTAAAACAA
65 -TATTGAAAA-GAATAGGTAA-GAAAGT-ATTTCCTAAAAAAAAAAA--GAAA-TATTAAAACAA
* **
6086693 ATAGGTAAGAGAATGTTTCCA
123 ATAAGTAAGAGAACATTTCCA
* * * * * *
6086714 TGAAAAATAGGGAAATTATTAAAA-AGATTAGGTAAAGAAGTGTTTCCCTAAAAAATAGAAAAAT
1 TAAAAAATAGGAAAAATATTAAAAGA-AATAGGTAAGGGAGTGTTTCCCTAAAAAATAGAAAAAT
6086778 TA
65 TA
6086780 GTAATAAGAG
Statistics
Matches: 181, Mismatches: 21, Indels: 19
0.82 0.10 0.09
Matches are distributed among these distances:
141 2 0.01
142 13 0.07
143 35 0.19
144 26 0.14
145 17 0.09
147 7 0.04
148 79 0.44
149 2 0.01
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.25
Consensus pattern (143 bp):
TAAAAAATAGGAAAAATATTAAAAGAAATAGGTAAGGGAGTGTTTCCCTAAAAAATAGAAAAATT
ATTGAAAAGAATAGGTAAGAAAGTATTTCCTAAAAAAAAAAAGAAATATTAAAACAAATAAGTAA
GAGAACATTTCCA
Found at i:6086778 original size:48 final size:48
Alignment explanation
Indices: 6086439--6086788 Score: 261
Period size: 48 Copynumber: 7.2 Consensus size: 48
6086429 AATACGAGAA
* * *
6086439 ATTAAAAAGAATAGGTAACG-GGTGTTTTTACCTAAAAAATAGAAAAATT
1 ATTAAAAAGAATAGGTAAAGAAGTG--TTTCCCTAAAAAATAGAAAAATT
* * * *
6086488 ATTGAAAAGAATAGGT-AAGAAAGTATTTCCTTAAAAAA-A-AAAGAAAT
1 ATTAAAAAGAATAGGTAAAG-AAGTGTTTCCCTAAAAAATAGAAA-AATT
* ** *
6086535 ATT-AAAAGAAATAAGT-AAGAGAGCATTTCCATAAAAAATAGAATAAA-T
1 ATTAAAAAG-AATAGGTAAAGA-AGTGTTTCCCTAAAAAATAGAA-AAATT
* * *
6086583 ATT-AAAAGAAATAGGTAAGGGAGTGTTTCCCTAAAAAATAAAAAAATAT
1 ATTAAAAAG-AATAGGTAAAGAAGTGTTTCCCTAAAAAATAGAAAAAT-T
* * * * * *
6086632 ATTAAAAGGAATAGGTAATGGAGTGTTTTCCTAAAAAAAAAAAGGGAAATT
1 ATTAAAAAGAATAGGTAAAGAAGTGTTTCCCTAAAAAATAGAA---AAATT
* * **
6086683 ATTAAAACA-AATAGGTAAGAGAA-TGTTTCCATGAAAAATAGGGAAATT
1 ATTAAAA-AGAATAGGTAA-AGAAGTGTTTCCCTAAAAAATAGAAAAATT
*
6086731 ATTAAAAAGATTAGGTAAAGAAGTGTTTCCCTAAAAAATAGAAAAATT
1 ATTAAAAAGAATAGGTAAAGAAGTGTTTCCCTAAAAAATAGAAAAATT
* *
6086779 AGTAATAAGA
1 ATTAAAAAGA
6086789 GTGTTTTTCT
Statistics
Matches: 244, Mismatches: 38, Indels: 39
0.76 0.12 0.12
Matches are distributed among these distances:
46 9 0.04
47 39 0.16
48 97 0.40
49 56 0.23
50 7 0.03
51 30 0.12
52 6 0.02
ACGTcount: A:0.53, C:0.05, G:0.17, T:0.25
Consensus pattern (48 bp):
ATTAAAAAGAATAGGTAAAGAAGTGTTTCCCTAAAAAATAGAAAAATT
Found at i:6086852 original size:36 final size:36
Alignment explanation
Indices: 6086803--6086932 Score: 163
Period size: 36 Copynumber: 3.6 Consensus size: 36
6086793 TTTTCTTAAT
*
6086803 AAAAATAGGAGAACAAGTAATGTGAGTATTTCCCTA
1 AAAAATAAGAGAACAAGTAATGTGAGTATTTCCCTA
* * * * * *
6086839 AAAAATAAAAGAACAAATGATGTGAATGTTTCCTTA
1 AAAAATAAGAGAACAAGTAATGTGAGTATTTCCCTA
*
6086875 AAAAATAAGAGAACAAGTAAT-TAGAGTATTTTCCTA
1 AAAAATAAGAGAACAAGTAATGT-GAGTATTTCCCTA
*
6086911 AAAAATAAGAGAATAAGTAATG
1 AAAAATAAGAGAACAAGTAATG
6086933 AAAGTTTGTT
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
35 1 0.01
36 76 0.99
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.25
Consensus pattern (36 bp):
AAAAATAAGAGAACAAGTAATGTGAGTATTTCCCTA
Found at i:6086945 original size:36 final size:36
Alignment explanation
Indices: 6086803--6086950 Score: 140
Period size: 36 Copynumber: 4.1 Consensus size: 36
6086793 TTTTCTTAAT
* ** *
6086803 AAAAATAGGAGAACAAGTAATGTGAGTATTTCCCTA
1 AAAAATAAGAGAACAAGTAATGAAAGTATTTTCCTA
* * * * *
6086839 AAAAATAAAAGAACAAATGATGTGAA-T-GTTTCCTTA
1 AAAAATAAGAGAACAAGTAATG-AAAGTATTTTCC-TA
* *
6086875 AAAAATAAGAGAACAAGTAATTAGAGTATTTTCCTA
1 AAAAATAAGAGAACAAGTAATGAAAGTATTTTCCTA
*
6086911 AAAAATAAGAGAATAAGTAATGAAAGT-TTGTTCCTA
1 AAAAATAAGAGAACAAGTAATGAAAGTATT-TTCCTA
6086947 AAAA
1 AAAA
6086951 GTGATAAAAT
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
35 7 0.08
36 76 0.85
37 6 0.07
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (36 bp):
AAAAATAAGAGAACAAGTAATGAAAGTATTTTCCTA
Found at i:6086950 original size:72 final size:72
Alignment explanation
Indices: 6086803--6086939 Score: 181
Period size: 72 Copynumber: 1.9 Consensus size: 72
6086793 TTTTCTTAAT
* * *
6086803 AAAAATAGGAGAACAAGTAATGTGAGTATTTCCCTAAAAAATAAAAGAACAAATGATGTGAATGT
1 AAAAATAAGAGAACAAGTAATGTGAGTATTTCCCTAAAAAATAAAAGAACAAATAATGTAAATGT
6086868 TTCCTTA
66 TTCCTTA
* * * *
6086875 AAAAATAAGAGAACAAGTAAT-TAGAGTATTTTCCTAAAAAATAAGAGAATAAGTAATG-AAA-G
1 AAAAATAAGAGAACAAGTAATGT-GAGTATTTCCCTAAAAAATAAAAGAACAAATAATGTAAATG
6086937 TTT
65 TTT
6086940 GTTCCTAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
70 4 0.07
71 3 0.05
72 50 0.88
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.26
Consensus pattern (72 bp):
AAAAATAAGAGAACAAGTAATGTGAGTATTTCCCTAAAAAATAAAAGAACAAATAATGTAAATGT
TTCCTTA
Found at i:6090473 original size:40 final size:40
Alignment explanation
Indices: 6090390--6090507 Score: 121
Period size: 40 Copynumber: 3.0 Consensus size: 40
6090380 AGTTGTTTCG
* * * * * *
6090390 TAAAACAACCTTTACT-AAACAGTCTTATCACCTATTCTG
1 TAAAATAACCTTCACTAAAACAATTTTATCACATATTCTA
* * * *
6090429 TAAAATAACCTTCATTAAAATAGTTTTATCACATGTTCTA
1 TAAAATAACCTTCACTAAAACAATTTTATCACATATTCTA
* *
6090469 TAAAATAACCTTCACTGAAACAATTTTATCACTTATTCT
1 TAAAATAACCTTCACTAAAACAATTTTATCACATATTCT
6090508 GACTTATCCT
Statistics
Matches: 64, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 13 0.20
40 51 0.80
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.37
Consensus pattern (40 bp):
TAAAATAACCTTCACTAAAACAATTTTATCACATATTCTA
Found at i:6090825 original size:70 final size:70
Alignment explanation
Indices: 6090712--6090852 Score: 255
Period size: 70 Copynumber: 2.0 Consensus size: 70
6090702 AATTATGTTC
* * *
6090712 ACTTAATTGAATCATTGTTAGTAGTGTTCCCATTAAGAGTGACCATGAAATTGATTTTTGTTTCT
1 ACTTAACTGAATCATTGTTAGTAGTGTTCCCATTAAGAATGACCATGAAATTGATTTTTGTTACT
6090777 TTGCT
66 TTGCT
6090782 ACTTAACTGAATCATTGTTAGTAGTGTTCCCATTAAGAATGACCATGAAATTGATTTTTGTTACT
1 ACTTAACTGAATCATTGTTAGTAGTGTTCCCATTAAGAATGACCATGAAATTGATTTTTGTTACT
6090847 TTGCT
66 TTGCT
6090852 A
1 A
6090853 TTGTTTTATT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (70 bp):
ACTTAACTGAATCATTGTTAGTAGTGTTCCCATTAAGAATGACCATGAAATTGATTTTTGTTACT
TTGCT
Found at i:6095033 original size:21 final size:21
Alignment explanation
Indices: 6095009--6095058 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
6094999 CTAAAATTTT
*
6095009 GCATGCTCTTACTCCATTCTA
1 GCATGCTCTTACTCAATTCTA
* * * *
6095030 GCATGTTCTTCCTCAATTTTG
1 GCATGCTCTTACTCAATTCTA
6095051 GCATGCTC
1 GCATGCTC
6095059 CTGTTCTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.30, G:0.14, T:0.40
Consensus pattern (21 bp):
GCATGCTCTTACTCAATTCTA
Found at i:6102559 original size:186 final size:187
Alignment explanation
Indices: 6102322--6102699 Score: 573
Period size: 186 Copynumber: 2.0 Consensus size: 187
6102312 GGATAGTTAG
6102322 TGAAGGCGTTTTTTGAGAACAAACACATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
1 TGAAGGCGTTTTTTGAGAACAAACACATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
* * *
6102387 TGTGTCTTCCAGTAAAAAATATCTTCAATATTTCACAAACTCAAAT-TTTAAGACGTTTAGTGAA
66 GGTGTCTTCCAGTAAAAAATACCTTCAATATTTCAC-AACTCAAATATTTAAGACATTTAGTGAA
* * *
6102451 TGTGTTTATTCTAAAAAAATGCCTTCACTAATTCTTTTTAATATACATACATAATTGT
130 GGCGTTTATTCTAAAAAAATGCCTTCACTAATTCTTTTTAATATACATACATAATTAT
*
6102509 TGAAGGC-TATTTTT-AGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAA
1 TGAAGGCGT-TTTTTGAGAACAAACACATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAA
* * * * * * *
6102572 AGGTGTCTTCTAGTGAAAAATGCCTTTAATTTTTCACAACTTAAATATTTAAGACATTTGGTGAA
65 AGGTGTCTTCCAGTAAAAAATACCTTCAATATTTCACAACTCAAATATTTAAGACATTTAGTGAA
* *
6102637 GGCGTTTATTCTAGAAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTAT
130 GGCGTTTATTCTAAAAAAATGCCTTCACTAATTCTTTTTAATATACATACATAATTAT
6102695 TGAAG
1 TGAAG
6102700 TTTATTCTAG
Statistics
Matches: 173, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
185 8 0.05
186 153 0.88
187 12 0.07
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (187 bp):
TGAAGGCGTTTTTTGAGAACAAACACATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
GGTGTCTTCCAGTAAAAAATACCTTCAATATTTCACAACTCAAATATTTAAGACATTTAGTGAAG
GCGTTTATTCTAAAAAAATGCCTTCACTAATTCTTTTTAATATACATACATAATTAT
Found at i:6102710 original size:59 final size:59
Alignment explanation
Indices: 6102640--6102758 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
6102630 TGGTGAAGGC
6102640 GTTTATTCTAGAAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTATTGAA
1 GTTTATTCTAGAAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTATTGAA
6102699 GTTTATTCTAGAAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTATTGAA
1 GTTTATTCTAGAAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTATTGAA
6102758 G
1 G
6102759 GTGTTTTTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.42
Consensus pattern (59 bp):
GTTTATTCTAGAAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTATTGAA
Found at i:6102889 original size:245 final size:244
Alignment explanation
Indices: 6102454--6102939 Score: 751
Period size: 246 Copynumber: 2.0 Consensus size: 244
6102444 TAGTGAATGT
*
6102454 GTTTATTCTAAAAAAATGCCTTCACTAATTCTTTTTAATATACATACATAATTGTTGAAGGCTAT
1 GTTTATTCTAAAAAAATGCCTTCACTAATTCTTTTTAATATACATACATAATTATTGAAGGCTAT
6102519 TTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTCTA
66 TTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTCTA
* * * * * *
6102584 GTGAAAAATGCCTTTAATTTTTCACAACTTAAATATTTAAGACATTTGGTGAAGGCGTTTATTCT
131 GTGAAAAACGCCTTCAATTTTTCACAACTCAAATATTTAAGACAGTTAGTGAAGGCGTTTAATCT
* *
6102649 AGAAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTATTGAA
196 AG-AAAATGCCTTCACTAATTCCTTCTAATATACGTACATAATTATTGAA
* * * *
6102699 GTTTATTCTAGAAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTATTGAAGGTGTT
1 GTTTATTCTAAAAAAATGCCTTCACTAATTCTTTTTAATATACATACATAATTATTGAAGG-CTA
* * *
6102764 TTTTTAGAACAAACACCTTTAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTAT-TTTT
65 TTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTCT
** *
6102828 CAGTGAAAAACGCCTTCAATTTTTCACAACTCAAAT-TTTAAGATGGTTAGTTAAGGCGTTTAAT
130 -AGTGAAAAACGCCTTCAATTTTTCACAACTCAAATATTTAAGACAGTTAGTGAAGGCGTTTAAT
*
6102892 CTAGAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATT
194 CTAGAAAATGCCTTCACTAATTCCTTCTAATATACGTACATAATTATT
6102940 AAAGGTGTTT
Statistics
Matches: 219, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
244 41 0.19
245 87 0.40
246 91 0.42
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (244 bp):
GTTTATTCTAAAAAAATGCCTTCACTAATTCTTTTTAATATACATACATAATTATTGAAGGCTAT
TTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTCTA
GTGAAAAACGCCTTCAATTTTTCACAACTCAAATATTTAAGACAGTTAGTGAAGGCGTTTAATCT
AGAAAATGCCTTCACTAATTCCTTCTAATATACGTACATAATTATTGAA
Found at i:6102909 original size:185 final size:186
Alignment explanation
Indices: 6102699--6103687 Score: 1252
Period size: 185 Copynumber: 5.3 Consensus size: 186
6102689 AATTATTGAA
* * *
6102699 GTTTATTCTAGAAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTATTGAAGGTGTT
1 GTTTATTCTAGAAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGTATT
* * ** *
6102764 TTTTTAGAACAAACACCTTTAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTATTTTTC
66 TTTTTAGAACAAACGCCTTTAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTC
* *
6102829 AGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGATGGTTAGTTAAGGC
131 AGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGATGGTTAGTGAAGGT
* * * *
6102885 GTTTAATCTAG-AAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGTGTT
1 GTTTATTCTAGAAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGTATT
* *
6102949 TTTTTAGAACAAACACCTTTAATAATTTCCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTC
66 TTTTTAGAACAAACGCCTTTAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTC
* * * *
6103014 AATGAAAAACGCCTTCAATTTTTCACAAATCAAATTTTAAGGTGGTAAGTGAAGGT
131 AGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGATGGTTAGTGAAGGT
* * * * * *
6103070 GTTTATTCTAGAATAAATGTCTTCACTGATTTCTTTTAATTTACGTATATAATTATTGAATGCAT
1 GTTTATTCTAGAA-AAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGTAT
* * * * * * * *
6103135 TTTTTGAGAACAAATGCCTTCAATAATTTTCTTTTAAAATTTTAGAGATTATTAAAGGTGTCTTC
65 TTTTTTAGAACAAACGCCTTTAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTT
* * * * *
6103200 CAGTAAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGACGATTAGTGGAGGT
130 CAGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGATGGTTAGTGAAGGT
* *
6103257 GTTTATTCTAGAAAAACGCCTTCACTAATTTCTTTTAATTTACGTACATAATTATTGAAGGTATT
1 GTTTATTCTAGAAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGTATT
* * * *
6103322 TTTTTAGAGCAAACGCCTTTAATAATTCTT-T-TTAAAATTTTTGGGATTATTAAAGACATTTTT
66 TTTTTAGAACAAACGCCTTTAATAATT-TTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTT
* * * *
6103385 CAATGAAAAATGCCTTCAATTTTTCACAACTTAAATTTTAAGACGGTTAGTGAAGGT
130 CAGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGATGGTTAGTGAAGGT
** * *
6103442 GTTTATTCTAGAAAAACACCTTCACTAATTCCTTCTAATTTATGTACATAATTATTGAAGGTATT
1 GTTTATTCTAGAAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGTATT
* * * * ** *
6103507 TTTTAAGAACAAATGTCTTTAATAATTTTCTCTTAAAATTTTAGGGATTATTAAAAACGTCTTCC
66 TTTTTAGAACAAACGCCTTTAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTC
*** * * * *
6103572 AGTG-AAAACATTTTCAA-TATTCTACTATTCAAATTTTAAAATGGTTAGTGAAGGT
131 AGTGAAAAACGCCTTCAATTTTTC-ACAACTCAAATTTTAAGATGGTTAGTGAAGGT
* * * * * *
6103627 GTTTGTTCTAGAAAAATGTCTTTACTAATTCCTTTAAATTT-TGTGCATAATTATTGAAGGT
1 GTTTATTCTAGAAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGT
6103688 GGTTTTCTAC
Statistics
Matches: 696, Mismatches: 101, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
184 25 0.04
185 399 0.57
186 112 0.16
187 160 0.23
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (186 bp):
GTTTATTCTAGAAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGTATT
TTTTTAGAACAAACGCCTTTAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTC
AGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGATGGTTAGTGAAGGT
Found at i:6103022 original size:431 final size:432
Alignment explanation
Indices: 6102322--6103129 Score: 1113
Period size: 431 Copynumber: 1.9 Consensus size: 432
6102312 GGATAGTTAG
6102322 TGAAGGCGTTTTTTGAGAACAAACACATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
1 TGAAGGCGTTTTTTGAGAACAAACACATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
* * * * * *
6102387 TGTGTCTTCCAGTAAAAAATATCTTCAATATTTCACAAACTCAAATTTTAAGACGTTTAGTGAAT
66 GGTATCTTCCAGTAAAAAACACCTTCAATATTTCACAAACTCAAATTTTAAGACGGTTAGTGAAG
* * * * * *
6102452 GTGTTTATTCTAAAAAAATGCCTTCACTAATTCTTTTTAATATACATACATAATTGTTGAAGGCT
131 GCGTTTAATCTAAAAAAATGCCTTCACTAATTCCTTCTAATATACATACATAATTATTAAAGGCT
* *
6102517 ATTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTC
196 ATTTTTAGAACAAACACCTTCAATAATTTCCTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTC
* * * * * * **
6102582 TAGTGAAAAATGCCTTTAATTTTTCACAACTTAAATATTTAAGACATTTGGTGAAGGCGTTTATT
261 TAATGAAAAACGCCTTCAATTTTTCACAAATCAAAT-TTTAAGACAGTAAGTGAAGGCGTTTATT
6102647 CTAGAA-AAATGCCTTCACTAA-TTCTTTTTAATATACGTACATAATTATTGAAGTTTATTCTAG
325 CTAGAATAAATGCCTTCACTAATTTC-TTTTAATATACGTACATAATTATTGAAGTTTATTCTAG
6102710 AAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTAT
389 AAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTAT
* * * *
6102754 TGAAGGTGTTTTTTTAGAACAAACACCTTTAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
1 TGAAGGCGTTTTTTGAGAACAAACACATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
* * * * * * *
6102819 GGTATTTTTCAGTGAAAAACGCCTTCAATTTTTCAC-AACTCAAATTTTAAGATGGTTAGTTAAG
66 GGTATCTTCCAGTAAAAAACACCTTCAATATTTCACAAACTCAAATTTTAAGACGGTTAGTGAAG
* * * *
6102883 GCGTTTAATCT-AGAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGTG
131 GCGTTTAATCTAAAAAAATGCCTTCACTAATTCCTTCTAATATACATACATAATTATTAAAGG-C
* * *
6102947 TTTTTTTAGAACAAACACCTTTAATAATTTCCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTT
195 TATTTTTAGAACAAACACCTTCAATAATTTCCTCTTAAAATTTTTGAGATTATTAAAGGCGTCTT
*** *
6103012 -TCAATGAAAAACGCCTTCAATTTTTCACAAATCAAATTTTAAGGTGGTAAGTGAAGGTGTTTAT
260 CT-AATGAAAAACGCCTTCAATTTTTCACAAATCAAATTTTAAGACAGTAAGTGAAGGCGTTTAT
* * * *
6103076 TCTAGAATAAATGTCTTCACTGATTTCTTTTAATTTACGTATATAATTATTGAA
324 TCTAGAATAAATGCCTTCACTAATTTCTTTTAATATACGTACATAATTATTGAA
6103130 TGCATTTTTT
Statistics
Matches: 324, Mismatches: 48, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
430 72 0.22
431 161 0.50
432 91 0.28
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (432 bp):
TGAAGGCGTTTTTTGAGAACAAACACATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
GGTATCTTCCAGTAAAAAACACCTTCAATATTTCACAAACTCAAATTTTAAGACGGTTAGTGAAG
GCGTTTAATCTAAAAAAATGCCTTCACTAATTCCTTCTAATATACATACATAATTATTAAAGGCT
ATTTTTAGAACAAACACCTTCAATAATTTCCTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTC
TAATGAAAAACGCCTTCAATTTTTCACAAATCAAATTTTAAGACAGTAAGTGAAGGCGTTTATTC
TAGAATAAATGCCTTCACTAATTTCTTTTAATATACGTACATAATTATTGAAGTTTATTCTAGAA
AAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTAT
Found at i:6103051 original size:246 final size:245
Alignment explanation
Indices: 6102454--6103040 Score: 560
Period size: 246 Copynumber: 2.4 Consensus size: 245
6102444 TAGTGAATGT
* ** * * * * * * * *
6102454 GTTTATTCTAAAAAAATGCCTTCACTAATTCTTTTTAATATACATACATAATTGTTGAAGGC-TA
1 GTTTATTCTAGAAAAACACCTTCAATAATTCCTCTTAATATACGTACAGAATTATTAAAGGCGTC
** * *
6102518 TTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTCT
66 TTTCAAGAACAAACACCTTCAAT-ATTTTCACATAAAATTTTTGAGATTATTAAAGGTGTCTTCT
* * * * * *
6102583 AGTGAAAAATGCCTTTAATTTTTCACAACTTAAATATTTAAGACATTTGGTGAAGGCGTTTATTC
130 AGTGAAAAACGCCTTCAATTTTTCACAACTCAAATATTTAAGACAGTTAGTGAAGGCGTTTAATC
* * *
6102648 TAGAAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTATTGAA
195 TAGAAAAATGCCTTCACTAATTCCTTCTAATATACGTACATAATTATTAAA
** * * * * * * *
6102699 GTTTATTCTAGAAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTATTGAAGGTGTT
1 GTTTATTCTAGAAAAACACCTTCAATAATTCCTCTTAATATACGTACAGAATTATTAAAGGCGTC
** * * * * *
6102764 TTTTTAGAACAAACACCTTTAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTAT-TTTT
66 TTTCAAGAACAAACACCTTCAAT-ATTTTCACATAAAATTTTTGAGATTATTAAAGGTGTCTTCT
** *
6102828 CAGTGAAAAACGCCTTCAATTTTTCACAACTCAAAT-TTTAAGATGGTTAGTTAAGGCGTTTAAT
130 -AGTGAAAAACGCCTTCAATTTTTCACAACTCAAATATTTAAGACAGTTAGTGAAGGCGTTTAAT
*
6102892 CTAG-AAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAA
194 CTAGAAAAATGCCTTCACTAATTCCTTCTAATATACGTACATAATTATTAAA
* * * ** *** *
6102943 GGTGTTTTTTTAGAACAAACACCTTTAATAATTTCCTCTTAA-A-ATTTTTGGGATTATTAAAGG
1 -GT-TTATTCTAGAA-AAACACCTTCAATAA-TTCCTCTTAATATACGTACAGAATTATTAAAGG
*
6103006 CGTCTTTCAATGAA-AAACGCCTTCAAT-TTTTCACA
62 CGTCTTTCAA-GAACAAACACCTTCAATATTTTCACA
6103041 AATCAAATTT
Statistics
Matches: 290, Mismatches: 45, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
244 49 0.17
245 89 0.31
246 129 0.44
247 15 0.05
248 8 0.03
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (245 bp):
GTTTATTCTAGAAAAACACCTTCAATAATTCCTCTTAATATACGTACAGAATTATTAAAGGCGTC
TTTCAAGAACAAACACCTTCAATATTTTCACATAAAATTTTTGAGATTATTAAAGGTGTCTTCTA
GTGAAAAACGCCTTCAATTTTTCACAACTCAAATATTTAAGACAGTTAGTGAAGGCGTTTAATCT
AGAAAAATGCCTTCACTAATTCCTTCTAATATACGTACATAATTATTAAA
Found at i:6103403 original size:372 final size:370
Alignment explanation
Indices: 6102699--6103687 Score: 1286
Period size: 372 Copynumber: 2.7 Consensus size: 370
6102689 AATTATTGAA
* * *
6102699 GTTTATTCTAGAAAAATGCCTTCACTAATTCTTTTTAATATACGTACATAATTATTGAAGGTGTT
1 GTTTATTCTAGAAAAATGCCTTCACTATTTC-TTTTAATTTACGTACATAATTATTGAAGGTATT
* ** * * * *
6102764 TTTTTAGAACAAACACCTTTAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTATTTTTC
65 TTTTAAGAACAAATGCCTTTAATAATTTTCTCTTAAAATTTTAGAGATTATTAAAGGTGTCTTCC
* * * *
6102829 AGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGATGGTTAGTTAAGGCGTTTAATCT
130 AGT-AAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGATGGTTAGTGAAGGTGTTTATTCT
* * *
6102894 AG-AAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGTGTTTTTTTAGAA
194 AGAAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGTATTTTTTTAGAA
* *
6102958 CAAACACCTTTAATAATTTCCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTCAATGAAAAA
259 CAAACACCTTTAATAATTTCCTCTTAAAATTTTTGGGATTATTAAAGACATCTTTCAATGAAAAA
**
6103023 CGCCTTCAATTTTTCACAAATCAAATTTTAAGGTGGTAAGTGAAGGT
324 CGCCTTCAATTTTTCACAAATCAAATTTTAAGACGGTAAGTGAAGGT
* * * *
6103070 GTTTATTCTAGAATAAATGTCTTCACTGATTTCTTTTAATTTACGTATATAATTATTGAATGCAT
1 GTTTATTCTAGAA-AAATGCCTTCACT-ATTTCTTTTAATTTACGTACATAATTATTGAAGGTAT
* * *
6103135 TTTTTGAGAACAAATGCCTTCAATAATTTTCTTTTAAAATTTTAGAGATTATTAAAGGTGTCTTC
64 TTTTTAAGAACAAATGCCTTTAATAATTTTCTCTTAAAATTTTAGAGATTATTAAAGGTGTCTTC
* * *
6103200 CAGTAAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGACGATTAGTGGAGGTGTTTATTC
129 CAGT-AAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGATGGTTAGTGAAGGTGTTTATTC
* *
6103265 TAGAAAAACGCCTTCACTAATTTCTTTTAATTTACGTACATAATTATTGAAGGTATTTTTTTAGA
193 TAGAAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGTATTTTTTTAGA
* * * * *
6103330 GCAAACGCCTTTAATAA-TTCTTTTTAAAATTTTTGGGATTATTAAAGACATTTTTCAATGAAAA
258 ACAAACACCTTTAATAATTTCCTCTTAAAATTTTTGGGATTATTAAAGACATCTTTCAATGAAAA
* * * *
6103394 ATGCCTTCAATTTTTCACAACTTAAATTTTAAGACGGTTAGTGAAGGT
323 ACGCCTTCAATTTTTCACAAATCAAATTTTAAGACGGTAAGTGAAGGT
** * * *
6103442 GTTTATTCTAGAAAAACACCTTCACTAATTCCTTCTAATTTATGTACATAATTATTGAAGGTATT
1 GTTTATTCTAGAAAAATGCCTTCACT-ATTTCTTTTAATTTACGTACATAATTATTGAAGGTATT
* * ***
6103507 TTTTAAGAACAAATGTCTTTAATAATTTTCTCTTAAAATTTTAGGGATTATTAAAAACGTCTTCC
65 TTTTAAGAACAAATGCCTTTAATAATTTTCTCTTAAAATTTTAGAGATTATTAAAGGTGTCTTCC
* ** * * * * *
6103572 AGTGAAAAC-ATTTTCAA-TATTCTACTATTCAAATTTTAAAATGGTTAGTGAAGGTGTTTGTTC
130 AGTAAAAACGCCTTT-AATTTTTC-ACAACTCAAATTTTAAGATGGTTAGTGAAGGTGTTTATTC
* * * * *
6103635 TAGAAAAATGTCTTTACTAATTCCTTTAAATTT-TGTGCATAATTATTGAAGGT
193 TAGAAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGT
6103688 GGTTTTCTAC
Statistics
Matches: 535, Mismatches: 78, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
369 25 0.05
370 68 0.13
371 115 0.21
372 252 0.47
373 75 0.14
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (370 bp):
GTTTATTCTAGAAAAATGCCTTCACTATTTCTTTTAATTTACGTACATAATTATTGAAGGTATTT
TTTAAGAACAAATGCCTTTAATAATTTTCTCTTAAAATTTTAGAGATTATTAAAGGTGTCTTCCA
GTAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGATGGTTAGTGAAGGTGTTTATTCTAG
AAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGTATTTTTTTAGAACA
AACACCTTTAATAATTTCCTCTTAAAATTTTTGGGATTATTAAAGACATCTTTCAATGAAAAACG
CCTTCAATTTTTCACAAATCAAATTTTAAGACGGTAAGTGAAGGT
Found at i:6107639 original size:35 final size:35
Alignment explanation
Indices: 6107593--6107663 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
6107583 CATATATAAA
* *
6107593 TCAAATGTTTTCTGGGCGTAAATATACAACTGACT
1 TCAAATGTTTTCTGGGCATAAACATACAACTGACT
* *
6107628 TCAAATGTTTTCTGGGCATAAACCTACAATTGACT
1 TCAAATGTTTTCTGGGCATAAACATACAACTGACT
6107663 T
1 T
6107664 GATATATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (35 bp):
TCAAATGTTTTCTGGGCATAAACATACAACTGACT
Found at i:6108896 original size:10 final size:10
Alignment explanation
Indices: 6108881--6108918 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
6108871 TAAAATTATT
6108881 TTTTAATAAA
1 TTTTAATAAA
6108891 TTTTAATAAA
1 TTTTAATAAA
6108901 TTTT-A-AAA
1 TTTTAATAAA
*
6108909 TTTTATTAAA
1 TTTTAATAAA
6108919 AATGTAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
8 7 0.28
9 1 0.04
10 17 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:6116501 original size:14 final size:12
Alignment explanation
Indices: 6116474--6116512 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
6116464 AGTCAAAATA
6116474 TAAAATTTTTAT
1 TAAAATTTTTAT
6116486 TAAATATTTGTTAT
1 TAAA-ATTT-TTAT
*
6116500 TAAAATTATTAT
1 TAAAATTTTTAT
6116512 T
1 T
6116513 TCTTCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 9 0.38
13 7 0.29
14 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (12 bp):
TAAAATTTTTAT
Found at i:6121954 original size:21 final size:21
Alignment explanation
Indices: 6121928--6121978 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
6121918 TAGAATCTAA
*
6121928 ATCGATGATTAGCATCTAACC
1 ATCGATGATTAGCATCTAAAC
6121949 ATCGATGATTAGCATCTAAAC
1 ATCGATGATTAGCATCTAAAC
6121970 ATCGATGAT
1 ATCGATGAT
6121979 GTCTCATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (21 bp):
ATCGATGATTAGCATCTAAAC
Found at i:6139680 original size:7 final size:7
Alignment explanation
Indices: 6139668--6139709 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
6139658 AAAAAAATTA
6139668 TTTTATT
1 TTTTATT
6139675 TTTTATACGT
1 TTTTAT---T
6139685 TTTTATT
1 TTTTATT
6139692 TTTTA-T
1 TTTTATT
6139698 TTTTATT
1 TTTTATT
6139705 TTTTA
1 TTTTA
6139710 AAAAAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 6 0.19
7 18 0.58
10 7 0.23
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (7 bp):
TTTTATT
Found at i:6139702 original size:13 final size:13
Alignment explanation
Indices: 6139684--6139709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6139674 TTTTTATACG
6139684 TTTTTATTTTTTA
1 TTTTTATTTTTTA
6139697 TTTTTATTTTTTA
1 TTTTTATTTTTTA
6139710 AAAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:6140577 original size:16 final size:15
Alignment explanation
Indices: 6140551--6140595 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
6140541 TCAACACCTT
*
6140551 TTTTTTGTTTTTTCA
1 TTTTTTATTTTTTCA
*
6140566 TTCTTTTATTTTTATTA
1 TT-TTTTATTTTT-TCA
6140583 TTTTTTATTTTTT
1 TTTTTTATTTTTT
6140596 AGAATTTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 3 0.12
16 19 0.73
17 4 0.15
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTTTTATTTTTTCA
Found at i:6140728 original size:10 final size:9
Alignment explanation
Indices: 6140713--6140738 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6140703 ACTCGACATA
6140713 TTTTTTTAT
1 TTTTTTTAT
6140722 TTTTTTTAT
1 TTTTTTTAT
6140731 TTTTTTTA
1 TTTTTTTA
6140739 CTTACACTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:6140924 original size:43 final size:43
Alignment explanation
Indices: 6140822--6140932 Score: 143
Period size: 42 Copynumber: 2.6 Consensus size: 43
6140812 TTTTAAACAG
* * * *
6140822 AGGCTTAACGGCTTTGAAAAATAAATAATGCTCCTCTAATGAG
1 AGGCTTAACGACTTTGAAAAATAAATAAGGCTCCTCTAATCAA
* * *
6140865 ACGCTCAACGACTTTG-AAAATAAATAAGGCTCTTCTAATCAA
1 AGGCTTAACGACTTTGAAAAATAAATAAGGCTCCTCTAATCAA
6140907 AGGCTTAACGACTTTTGAAAAATAAA
1 AGGCTTAACGAC-TTTGAAAAATAAA
6140933 GCTCATCGAC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 32 0.56
43 17 0.30
44 8 0.14
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (43 bp):
AGGCTTAACGACTTTGAAAAATAAATAAGGCTCCTCTAATCAA
Found at i:6141604 original size:22 final size:22
Alignment explanation
Indices: 6141573--6141978 Score: 133
Period size: 22 Copynumber: 17.7 Consensus size: 22
6141563 TTTCCTATCT
6141573 CAAAGATTCTCATTTGAAAATG
1 CAAAGATTCTCATTTGAAAATG
* *
6141595 CAAAGGTTCTCATTTGAAAATT
1 CAAAGATTCTCATTTGAAAATG
* * *
6141617 CAAAGATTCTCGTTTTCAAACT-
1 CAAAGATTCTC-ATTTGAAAATG
* * * *
6141639 CAAATATTCTCATTTGAGGATTT
1 CAAAGATTCTCATTTGA-AAATG
* *
6141662 CTTAAAGATTTTTATTT-AAGAACT-
1 C--AAAGATTCTCATTTGAA-AA-TG
*
6141686 CAAAGATTCTCATTTGAAAATTTTT
1 CAAAGATTCTCATTTGAAAA---TG
* *
6141711 TAAAGATTCTCATTT-AAGACT-
1 CAAAGATTCTCATTTGAA-AATG
* * * *
6141732 CAAAGATTGTCATTTGAGGATTT
1 CAAAGATTCTCATTTGA-AAATG
*
6141755 CTTAAGGATTCTCATTT-AAGAACT-
1 C--AAAGATTCTCATTTGAA-AA-TG
*
6141779 CAAAGATTCTCATTTGAAAATTT
1 CAAAGATTCTCATTTGAAAA-TG
*
6141802 CTTAAAGATTTTCATTT-AAAACT-
1 C--AAAGATTCTCATTTGAAAA-TG
* *
6141825 CAAAGATTCTCATTT-AAGGATTT
1 CAAAGATTCTCATTTGAA--AATG
* *
6141848 CTTAAAGACTCTCATTT-AAGACT-
1 C--AAAGATTCTCATTTGAA-AATG
* *
6141871 CAAAGATTCTCATTTGAGGATTG
1 CAAAGATTCTCATTTGA-AAATG
*
6141894 CTTAAGGATTCTCATTT-AAGAACT-
1 C--AAAGATTCTCATTTGAA-AA-TG
*
6141918 CAAAGATTCTCATTTGAAAATTT
1 CAAAGATTCTCATTTGAAAA-TG
*
6141941 CTTAAAGATTTTCATTT-AAAACT-
1 C--AAAGATTCTCATTTGAAAA-TG
6141964 CAAAGATTCTCATTT
1 CAAAGATTCTCATTT
6141979 AAGGATTTCT
Statistics
Matches: 297, Mismatches: 48, Indels: 79
0.70 0.11 0.19
Matches are distributed among these distances:
21 58 0.20
22 96 0.32
23 23 0.08
24 25 0.08
25 95 0.32
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.39
Consensus pattern (22 bp):
CAAAGATTCTCATTTGAAAATG
Found at i:6141765 original size:46 final size:46
Alignment explanation
Indices: 6141574--6142031 Score: 575
Period size: 46 Copynumber: 9.9 Consensus size: 46
6141564 TTCCTATCTC
* * * *
6141574 AAAGATTCTCATTTGAA-AATGCAAAGGTTCTCATTTGA-AAATTC--
1 AAAGATTCTCATTT-AAGACT-CAAAGATTCTCATTTGAGGATTTCTT
* *
6141618 AAAGATTCTCGTTTTCAA-ACTCAAATATTCTCATTTGAGGATTTCTT
1 AAAGATTCTC-ATTT-AAGACTCAAAGATTCTCATTTGAGGATTTCTT
* * ** *
6141665 AAAGATTTTTATTTAAGAACTCAAAGATTCTCATTTGAAAATTTTTT
1 AAAGATTCTCATTTAAG-ACTCAAAGATTCTCATTTGAGGATTTCTT
*
6141712 AAAGATTCTCATTTAAGACTCAAAGATTGTCATTTGAGGATTTCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTT
* **
6141758 AAGGATTCTCATTTAAGAACTCAAAGATTCTCATTTGAAAATTTCTT
1 AAAGATTCTCATTTAAG-ACTCAAAGATTCTCATTTGAGGATTTCTT
* * *
6141805 AAAGATTTTCATTTAAAACTCAAAGATTCTCATTTAAGGATTTCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTT
* *
6141851 AAAGACTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTGCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTT
* **
6141897 AAGGATTCTCATTTAAGAACTCAAAGATTCTCATTTGAAAATTTCTT
1 AAAGATTCTCATTTAAG-ACTCAAAGATTCTCATTTGAGGATTTCTT
* * *
6141944 AAAGATTTTCATTTAAAACTCAAAGATTCTCATTTAAGGATTTCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTT
*
6141990 AAAGACTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATT
6142032 CACAATTTTA
Statistics
Matches: 356, Mismatches: 50, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
44 25 0.07
45 13 0.04
46 190 0.53
47 128 0.36
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (46 bp):
AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTT
Found at i:6141772 original size:93 final size:93
Alignment explanation
Indices: 6141574--6142031 Score: 610
Period size: 93 Copynumber: 5.0 Consensus size: 93
6141564 TTCCTATCTC
* *
6141574 AAAGATTCTCATTTGAA-AA-TGCAAAGGTTCTCATTTGAAAA-TTC--AAAGATTCTCGTTTTC
1 AAAGATTCTCATTT-AAGAACT-CAAAGATTCTCATTTGAAAATTTCTTAAAGATTCTC-ATTT-
*
6141634 AA-ACTCAAATATTCTCATTTGAGGATTTCTT
62 AAGACTCAAAGATTCTCATTTGAGGATTTCTT
* * *
6141665 AAAGATTTTTATTTAAGAACTCAAAGATTCTCATTTGAAAATTTTTTAAAGATTCTCATTTAAGA
1 AAAGATTCTCATTTAAGAACTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTCTCATTTAAGA
*
6141730 CTCAAAGATTGTCATTTGAGGATTTCTT
66 CTCAAAGATTCTCATTTGAGGATTTCTT
* * *
6141758 AAGGATTCTCATTTAAGAACTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTTTCATTTAAAA
1 AAAGATTCTCATTTAAGAACTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTCTCATTTAAGA
*
6141823 CTCAAAGATTCTCATTTAAGGATTTCTT
66 CTCAAAGATTCTCATTTGAGGATTTCTT
* ** * *
6141851 AAAGACTCTCATTTAAG-ACTCAAAGATTCTCATTTGAGGATTGCTTAAGGATTCTCATTTAAGA
1 AAAGATTCTCATTTAAGAACTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTCTCATTTAAG-
**
6141915 ACTCAAAGATTCTCATTTGAAAATTTCTT
65 ACTCAAAGATTCTCATTTGAGGATTTCTT
* * *
6141944 AAAGATTTTCATTTAA-AACTCAAAGATTCTCATTT-AAGGATTTCTTAAAGACTCTCATTTAAG
1 AAAGATTCTCATTTAAGAACTCAAAGATTCTCATTTGAA-AATTTCTTAAAGATTCTCATTTAAG
6142007 ACTCAAAGATTCTCATTTGAGGATT
65 ACTCAAAGATTCTCATTTGAGGATT
6142032 CACAATTTTA
Statistics
Matches: 324, Mismatches: 34, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
90 2 0.01
91 33 0.10
92 69 0.21
93 210 0.65
94 10 0.03
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (93 bp):
AAAGATTCTCATTTAAGAACTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTCTCATTTAAGA
CTCAAAGATTCTCATTTGAGGATTTCTT
Found at i:6141884 original size:139 final size:139
Alignment explanation
Indices: 6141635--6142031 Score: 688
Period size: 139 Copynumber: 2.8 Consensus size: 139
6141625 CTCGTTTTCA
* ** *
6141635 AACTCAAATATTCTCATTTGAGGATTTCTTAAAGATTTTTATTTAAGAACTCAAAGATTCTCATT
1 AACTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTTTCATTTAA-AACTCAAAGATTCTCATT
* * * * *
6141700 TGAA-AATTTTTTAAAGATTCTCATTTAAGACTCAAAGATTGTCATTTGAGGATTTCTTAAGGAT
65 T-AAGGATTTCTTAAAGACTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTGCTTAAGGAT
6141764 TCTCATTTAAG
129 TCTCATTTAAG
6141775 AACTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTTTCATTTAAAACTCAAAGATTCTCATTT
1 AACTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTTTCATTTAAAACTCAAAGATTCTCATTT
6141840 AAGGATTTCTTAAAGACTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTGCTTAAGGATTC
66 AAGGATTTCTTAAAGACTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTGCTTAAGGATTC
6141905 TCATTTAAG
131 TCATTTAAG
6141914 AACTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTTTCATTTAAAACTCAAAGATTCTCATTT
1 AACTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTTTCATTTAAAACTCAAAGATTCTCATTT
6141979 AAGGATTTCTTAAAGACTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATT
66 AAGGATTTCTTAAAGACTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATT
6142032 CACAATTTTA
Statistics
Matches: 247, Mismatches: 9, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
138 2 0.01
139 203 0.82
140 42 0.17
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.39
Consensus pattern (139 bp):
AACTCAAAGATTCTCATTTGAAAATTTCTTAAAGATTTTCATTTAAAACTCAAAGATTCTCATTT
AAGGATTTCTTAAAGACTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTGCTTAAGGATTC
TCATTTAAG
Found at i:6143178 original size:19 final size:17
Alignment explanation
Indices: 6143174--6143248 Score: 82
Period size: 17 Copynumber: 4.4 Consensus size: 17
6143164 ATTCTTTCAT
*
6143174 TTTTTTTTCTTTTTTTC
1 TTTTTTTTCATTTTTTC
*
6143191 TTTCTTTT--TTTTTTC
1 TTTTTTTTCATTTTTTC
*
6143206 TTTTTTTTTCTTTTTTTTC
1 -TTTTTTTTC-ATTTTTTC
6143225 TTTTTTTTCATTTTTTC
1 TTTTTTTTCATTTTTTC
*
6143242 ATTTTTT
1 TTTTTTT
6143249 CTTTTTCATC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
15 7 0.14
16 7 0.14
17 20 0.40
18 9 0.18
19 7 0.14
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTTTTTCATTTTTTC
Found at i:6143186 original size:8 final size:8
Alignment explanation
Indices: 6143175--6143254 Score: 90
Period size: 8 Copynumber: 9.6 Consensus size: 8
6143165 TTCTTTCATT
6143175 TTTTTTTC
1 TTTTTTTC
6143183 TTTTTTTC
1 TTTTTTTC
6143191 TTTCTTTT-
1 TTT-TTTTC
*
6143199 TTTTTTCTT
1 TTTTTT-TC
6143208 TTTTTTTC
1 TTTTTTTC
6143216 TTTTTTTTC
1 -TTTTTTTC
6143225 TTTTTTTTC
1 -TTTTTTTC
*
6143234 ATTTTTTC
1 TTTTTTTC
*
6143242 ATTTTTTC
1 TTTTTTTC
6143250 TTTTT
1 TTTTT
6143255 CATCTATTAG
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
7 3 0.05
8 35 0.54
9 27 0.42
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTTC
Found at i:6143188 original size:10 final size:11
Alignment explanation
Indices: 6143168--6143254 Score: 92
Period size: 11 Copynumber: 7.8 Consensus size: 11
6143158 TTTTCCATTC
*
6143168 TTTCATTTTTT
1 TTTCTTTTTTT
6143179 TTTCTTTTTTT
1 TTTCTTTTTTT
6143190 CTTTCTTTTTTT
1 -TTTCTTTTTTT
6143202 TTTC-TTTTTT
1 TTTCTTTTTTT
6143212 TTTC--TTTTT
1 TTTCTTTTTTT
6143221 TTTCTTTTTTT
1 TTTCTTTTTTT
6143232 TCATT-TTTTCATTT
1 T--TTCTTTT--TTT
6143246 TTTCTTTTT
1 TTTCTTTTT
6143255 CATCTATTAG
Statistics
Matches: 67, Mismatches: 1, Indels: 16
0.80 0.01 0.19
Matches are distributed among these distances:
9 9 0.13
10 10 0.15
11 21 0.31
12 17 0.25
13 6 0.09
14 4 0.06
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:6143248 original size:1 final size:1
Alignment explanation
Indices: 6143173--6143232 Score: 66
Period size: 1 Copynumber: 60.0 Consensus size: 1
6143163 CATTCTTTCA
* * * * * *
6143173 TTTTTTTTTCTTTTTTTCTTTCTTTTTTTTTTCTTTTTTTTTCTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6143233 CATTTTTTCA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:6143249 original size:34 final size:34
Alignment explanation
Indices: 6143176--6143254 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
6143166 TCTTTCATTT
**
6143176 TTTTTTC-TTTTTTTCTTTCTTTTTTTTTTCTTT
1 TTTTTTCTTTTTTTTCTTTCTTTTTTTTTTCTCA
6143209 TTTTTTCTTTTTTTTCTTT-TTTTTCATTTTT-TCA
1 TTTTTTCTTTTTTTTCTTTCTTTTT--TTTTTCTCA
6143243 TTTTTTCTTTTT
1 TTTTTTCTTTTT
6143255 CATCTATTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
33 12 0.29
34 24 0.59
35 5 0.12
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (34 bp):
TTTTTTCTTTTTTTTCTTTCTTTTTTTTTTCTCA
Found at i:6147425 original size:26 final size:27
Alignment explanation
Indices: 6147377--6147427 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
6147367 ACAAATTTAG
* *
6147377 AAAAATTTCTCACTTAGAGATTTCTTA
1 AAAAATTTATCACTTAGAAATTTCTTA
*
6147404 AAAAATTTATCA-TTTGAAATTTCT
1 AAAAATTTATCACTTAGAAATTTCT
6147428 GATAATTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (27 bp):
AAAAATTTATCACTTAGAAATTTCTTA
Found at i:6147495 original size:26 final size:28
Alignment explanation
Indices: 6147447--6147502 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
6147437 ATCCTTGGGT
6147447 AATTTGTATTTTTTCAAAATTTT-ATTA
1 AATTTGTATTTTTTCAAAATTTTGATTA
* **
6147474 AATTT-TATTTTTTTAATTTTTTGATTA
1 AATTTGTATTTTTTCAAAATTTTGATTA
6147501 AA
1 AA
6147503 AATAAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (28 bp):
AATTTGTATTTTTTCAAAATTTTGATTA
Found at i:6149792 original size:22 final size:22
Alignment explanation
Indices: 6149767--6149809 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6149757 TTTTTTGTCA
*
6149767 TTAATTCTAGGGATACAAATAC
1 TTAATTCTAGAGATACAAATAC
*
6149789 TTAATTTTAGAGATACAAATA
1 TTAATTCTAGAGATACAAATA
6149810 TAAATATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAC
Found at i:6153397 original size:24 final size:22
Alignment explanation
Indices: 6153349--6153408 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
6153339 CTTTACAAGC
*
6153349 ATAATTAAAAACATATTAAAGTAA
1 ATAATTAAAAA-ATATTAAACT-A
*
6153373 ATAATTAAAAAATTTTAAAACTA
1 ATAATTAAAAAATATT-AAACTA
6153396 A-AATTAAAAAATA
1 ATAATTAAAAAATA
6153409 AAGTCCAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 11 0.34
23 6 0.19
24 15 0.47
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAATTAAAAAATATTAAACTA
Found at i:6155009 original size:18 final size:18
Alignment explanation
Indices: 6154988--6155030 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
6154978 AAATAAAGGA
*
6154988 AAATGAAAAATGAAAAAG
1 AAATAAAAAATGAAAAAG
6155006 AAATAAAAAATG-AAAA-
1 AAATAAAAAATGAAAAAG
6155022 AAATAAAAA
1 AAATAAAAA
6155031 GAGAAATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 4 0.17
18 11 0.46
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (18 bp):
AAATAAAAAATGAAAAAG
Found at i:6155938 original size:31 final size:32
Alignment explanation
Indices: 6155902--6155969 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 32
6155892 CATGGAAAAT
*
6155902 ATATAATAA-ATCAAACAAAAATTATCATGC-A
1 ATATAA-AATATCAAACAAAAATTATCATACAA
* **
6155933 ATATAAAATATTATGCAAAAATTATCATACAA
1 ATATAAAATATCAAACAAAAATTATCATACAA
6155965 ATATA
1 ATATA
6155970 TAATCATGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 2 0.06
31 23 0.74
32 6 0.19
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.29
Consensus pattern (32 bp):
ATATAAAATATCAAACAAAAATTATCATACAA
Found at i:6156104 original size:20 final size:20
Alignment explanation
Indices: 6156081--6156131 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
6156071 AAAAATATCG
*
6156081 ATCATGCAAATACATTATTA
1 ATCATGCAAATACAATATTA
* *
6156101 ATCATGTAAATATAATATTA
1 ATCATGCAAATACAATATTA
*
6156121 TTCATGCAAAT
1 ATCATGCAAAT
6156132 TCATGCAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (20 bp):
ATCATGCAAATACAATATTA
Found at i:6156297 original size:23 final size:23
Alignment explanation
Indices: 6156271--6156323 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
6156261 ATCACTTAAT
* *
6156271 TAAAATAATA-AATAGAATAAATA
1 TAAAATAAGATAATAAAATAAA-A
*
6156294 TAAAA-AAGATGATAAAATAAAA
1 TAAAATAAGATAATAAAATAAAA
6156316 TAAAATAA
1 TAAAATAA
6156324 AAAACCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.23
Consensus pattern (23 bp):
TAAAATAAGATAATAAAATAAAA
Found at i:6156950 original size:17 final size:17
Alignment explanation
Indices: 6156928--6156963 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
6156918 TCCCAGAATT
6156928 AATT-AAACCCTAAAAAC
1 AATTAAAACCC-AAAAAC
6156945 AATTAAAACCCAAAAAC
1 AATTAAAACCCAAAAAC
6156962 AA
1 AA
6156964 AAACTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.64, C:0.22, G:0.00, T:0.14
Consensus pattern (17 bp):
AATTAAAACCCAAAAAC
Found at i:6159158 original size:24 final size:25
Alignment explanation
Indices: 6159114--6159199 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 25
6159104 CCCGACCCGA
* **
6159114 TATATATTTATA-AAAAATTATTTT
1 TATATATTTATATTAATTTTATTTT
*
6159138 TA-ATTATTTAT-TTAATTTTATATT
1 TATA-TATTTATATTAATTTTATTTT
* *
6159162 TATATATTTATATTTA-TTTA-TAT
1 TATATATTTATATTAATTTTATTTT
6159185 T-TATATTTATATTAA
1 TATATATTTATATTAA
6159200 AAATAATATT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
22 13 0.26
23 3 0.06
24 30 0.60
25 4 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATATTTATATTAATTTTATTTT
Found at i:6159163 original size:6 final size:6
Alignment explanation
Indices: 6159142--6159197 Score: 57
Period size: 6 Copynumber: 9.7 Consensus size: 6
6159132 TATTTTTAAT
*
6159142 TATTTA T-TTAA T-TTTA TATTTA TATATT- TATATT- TATTTA TATTTA
1 TATTTA TATTTA TATTTA TATTTA TAT-TTA TAT-TTA TATTTA TATTTA
6159188 TATTTA TATT
1 TATTTA TATT
6159198 AAAAATAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
5 10 0.22
6 33 0.73
7 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:6159163 original size:16 final size:15
Alignment explanation
Indices: 6159142--6159194 Score: 72
Period size: 16 Copynumber: 3.5 Consensus size: 15
6159132 TATTTTTAAT
6159142 TATTTATTTAATTTTA
1 TATTTATTT-ATTTTA
*
6159158 TATTTATATA-TTTA
1 TATTTATTTATTTTA
6159172 TATTTATTTATATTTA
1 TATTTATTTAT-TTTA
6159188 TATTTAT
1 TATTTAT
6159195 ATTAAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.39
15 1 0.03
16 19 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATTTATTTTA
Found at i:6160610 original size:304 final size:304
Alignment explanation
Indices: 6159968--6160584 Score: 694
Period size: 304 Copynumber: 2.0 Consensus size: 304
6159958 ATTTTGAAAA
* * * **
6159968 GAAT-ATTGAAGGCATTTTTGGTAGAGAAATGCCCTTAATAATCCATATGAAAAATATTGAA-GT
1 GAATGATT-AAGGCATTTTCGGTAGAAAAATGCCCTTAATAATCCATA-CAAAAATATAAAATG-
* * ** * * *
6160031 AATTTTTAAAGGCGTTTTCAGCC-AAACTCGCCTTCAATAATCCAATTAATAAATTTTTAGTTTG
63 AATTATTACAGGTATTTT-TGCCGAAA-GCACCTTCAATAATCCAATTAATAAATTTTTAGTTTG
* * * * **
6160095 GATTATTAAATGCGGCTTTTGTCAAAAACACCTTTAATAATTCATACACAAAAGTTGAAACGGAT
126 GATTATTAAATGCAGCTTTTGTCAAAAACACCTTCAATAATTCATACAAAAAAATTGAAACAAAT
* * * *
6160160 TCTTGAAGGCACTTTTTGGCTTAAAATACCTTTAATATTTCACACTATAAATTTGAATGGTTAGA
191 TCTTGAAGGCACTTTTTGGCTCAAAATACCTTTAATATTACACACAATAAATTTGAATGGTGAGA
* **
6160225 TTATTAAAGGTAATTTTTTTTAAAAACGCCTTCAATAACATTTTGTTAT
256 TTATTAAAGGTAAGTTTTGGTAAAAACGCCTTCAATAACATTTTGTTAT
** *
6160274 GGGTTATTAAGGCATTTTCGGTAGAAAAATGCCCTTAATAATCCATACAAAAATATAAAATGAAT
1 GAATGATTAAGGCATTTTCGGTAGAAAAATGCCCTTAATAATCCATACAAAAATATAAAATGAAT
* *
6160339 TATTACAGGTATTTTTGCCGAAAGCACCTTCAATAATCCATTTAATTAATTTTTAG-TTGGTATT
66 TATTACAGGTATTTTTGCCGAAAGCACCTTCAATAATCCAATTAATAAATTTTTAGTTTGG-ATT
* * ** **
6160403 ATTGAAA-GCAGTTTTTTTTTAAAATGCCTTCAATAA-TCGATACAAAAAAAATTGAAACAAATT
130 ATT-AAATGCAGCTTTTGTCAAAAACACCTTCAATAATTC-ATAC-AAAAAAATTGAAACAAATT
* * **
6160466 CTTGAAGGCA-TTTTTTGCTCAAAATGCCTTTAATATTACACACAATAAATTTTTA-GGTGAGAT
192 CTTGAAGGCACTTTTTGGCTCAAAATACCTTTAATATTACACACAATAAATTTGAATGGTGAGAT
* * *
6160529 TATTGAAGG-CAGTTTTGGTAAAAAGCGTCTTCAATAACATTTTGTTAT
257 TATTAAAGGTAAGTTTTGGTAAAAA-CGCCTTCAATAACATTTTGTTAT
6160577 GAATGATT
1 GAATGATT
6160585 CAAGCTATTT
Statistics
Matches: 258, Mismatches: 45, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
302 11 0.04
303 48 0.19
304 101 0.39
305 55 0.21
306 40 0.16
307 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (304 bp):
GAATGATTAAGGCATTTTCGGTAGAAAAATGCCCTTAATAATCCATACAAAAATATAAAATGAAT
TATTACAGGTATTTTTGCCGAAAGCACCTTCAATAATCCAATTAATAAATTTTTAGTTTGGATTA
TTAAATGCAGCTTTTGTCAAAAACACCTTCAATAATTCATACAAAAAAATTGAAACAAATTCTTG
AAGGCACTTTTTGGCTCAAAATACCTTTAATATTACACACAATAAATTTGAATGGTGAGATTATT
AAAGGTAAGTTTTGGTAAAAACGCCTTCAATAACATTTTGTTAT
Found at i:6165300 original size:187 final size:185
Alignment explanation
Indices: 6164758--6165899 Score: 1144
Period size: 187 Copynumber: 6.1 Consensus size: 185
6164748 TCCTTAACAT
* * *
6164758 TATTAAAGGCGTTTTAT-ACTA-AAAGACGCCTATAATAATCTC-AAAAATGTTTAAAAAAAATT
1 TATTAAAGGCATTTT-TCACTAGAAA-ATGCCTTTAATAATC-CAAAAAAT-TTTAAAAAAAATT
* * * *
6164820 ATTTAAA-ATGTTTGTTCTCAAAAACTGCCTTCAATAATTATGTAAAAAAATTAAAAT-GAATTA
62 A-TTAAAGACGTTTGTTCTCAAAAAATGCCTTCAATAATTATGT-ACAAAATTTAAATGGAATTA
* * * * *
6164883 GTGAAGGCATTTTTCTAAAATAAACGCCTTCACTAACCGTCTTAAAATTTTACTAGTGAAA
125 GTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTAAGTAGTGGAA
* * * *
6164944 TATTGAAGGCATTTTTCACTAGAAGAT-CCTTTTAATAATCCTAAAAAGTTTTTAAAAAAATTAT
1 TATTAAAGGCATTTTTCACTAGAAAATGCC-TTTAATAATCC-AAAAAATTTTAAAAAAAATTAT
* * * *
6165008 TGAATGTA--TTTGTTCTCAAAAAATGCCTTAAATAATTATGTAAAAAAATTTTAAA--AAATTA
64 T-AAAG-ACGTTTGTTCTCAAAAAATGCCTTCAATAATTATGT-ACAAAA-TTTAAATGGAATTA
* * * * * * * * *
6165069 TTTAAGACATTTTTTTGGAATAAACGCATTCACTAACTATCTTAAAATTTAAGTACTGGTA
125 GTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTAAGTAGTGGAA
* * * *
6165130 TATTTAAGGCATATTTAACTAGAAAATGCCTTTAATAATCTCAAAAAAATTTTAAATAAAATTAT
1 TATTAAAGGCATTTTTCACTAGAAAATGCCTTTAATAATC-C-AAAAAATTTTAAAAAAAATTAT
* * * *
6165195 TAAAGACCTTTGTTCTGAAAAAATGCCTTCAATATTTATGTACATAAA-TTAAATGGAATCAGTG
64 TAAAGACGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACA-AAATTTAAATGGAATTAGTG
* * * * **
6165259 AAGGTATTTTTTTAGAATAAACACCTTCATTAACCATCTTAAAATTTGAA-TAGTAAAA
128 AAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTT-AAGTAGTGGAA
* * *
6165317 TATTAAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCTAAAAAATTTTAAAAGAAAATTAT
1 TATTAAAGGCATTTTTCACTAGAAAATGCCTTTAATAATCC-AAAAAATTTTAAAA-AAAATTAT
* * * * * *
6165382 TAAAGATGTTTGTTATCAAAAAATACCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTGA
64 TAAAGACGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACAAAATTTAAATGGAATTAGTGA
** ** ** *
6165447 AGGTGTTTTTCTAGAATAAATACCTTCACTAACCATCTTAAAATTTAAGTACCGGTA
129 AGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTAAGTAGTGGAA
* * * *
6165504 TATTAAAGGCATTTTTCACTAGAATACGCCTTTAATAATCTCAAAAACTTTTAAAATGAAATTAT
1 TATTAAAGGCATTTTTCACTAGAAAATGCCTTTAATAATC-CAAAAAATTTTAAAA-AAAATTAT
* * * * * *
6165569 TTAAGGCGTTTATTCTAAAAAAAATGCCTTCAATAATTATGTACATAAA-ATAAATGGAATCAGT
64 TAAAGACGTTTGTTCT-CAAAAAATGCCTTCAATAATTATGTACA-AAATTTAAATGGAATTAGT
* * * * *
6165633 GAAGGCATTTTCCTAGAATAAATGCCTTCATTAACCTTCTTAAAATTTGAGTAGTGGAA
127 GAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTAAGTAGTGGAA
* * *
6165692 TATTGAAGGTATTTTTCACT-GAAAGATGCCTTTAATAATCCCAAAAACTTTTAAAAAGAAATTA
1 TATTAAAGGCATTTTTCACTAGAAA-ATGCCTTTAATAAT-CCAAAAAATTTTAAAAA-AAATTA
* *
6165756 TTAAAGGCGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACAAAATTTAAAAGGAATTAG-G
63 TTAAAGACGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACAAAATTTAAATGGAATTAGTG
* * * * * * *
6165820 AAAGGCATTTTTCTATAATAAATGCCTCCATTAACCGTCTTAAAATTTGAGTAGTAGAA
128 -AAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTAAGTAGTGGAA
* * *
6165879 TATTGAAGGCGTTTTACACTA
1 TATTAAAGGCATTTTTCACTA
6165900 AAAGACACCT
Statistics
Matches: 800, Mismatches: 127, Indels: 56
0.81 0.13 0.06
Matches are distributed among these distances:
185 12 0.01
186 193 0.24
187 435 0.54
188 156 0.19
189 4 0.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.35
Consensus pattern (185 bp):
TATTAAAGGCATTTTTCACTAGAAAATGCCTTTAATAATCCAAAAAATTTTAAAAAAAATTATTA
AAGACGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACAAAATTTAAATGGAATTAGTGAAG
GCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTAAGTAGTGGAA
Found at i:6165756 original size:375 final size:370
Alignment explanation
Indices: 6164758--6165872 Score: 1368
Period size: 375 Copynumber: 3.0 Consensus size: 370
6164748 TCCTTAACAT
* *
6164758 TATTAAAGGCGTTTTATACTA-AAAGACGCCTATAATAATCTCAAAAATGTTTAAAA-AAAATTA
1 TATTAAAGGCATTTT-TACTAGAAA-ACGCCTTTAATAATCTCAAAAAT-TTTAAAATAAAATTA
* * * * * *
6164821 TTTAAAATGTTTGTTCTCAAAAACTGCCTTCAATAATTATGTA-AAAAAATTAAAAT-GAATTAG
63 TTTAAGACGTTTGTTCTAAAAAAATGCCTTCAATAATTATGTACATAAAA-T-AAATGGAATCAG
* * * * *
6164884 TGAAGGCATTTTTCTAAAATAAACGCCTTCACTAACCGTCTTAAAATTTTACTAGTGAAATATTG
126 TGAAGGCATTTTTCTAGAATAAACGCCTTCATTAACCATCTTAAAATTTGAATAGTGAAATATTG
*
6164949 AAGGCATTTTTCACT-AGAAGAT-CCTTTTAATAATCCTAAAAAGTTTTTAAAA-AAATTATTGA
191 AAGGCATTTTTCACTGA-AAGATGCC-TTTAATAATCCTAAAAA-ATTTTAAAAGAAATTATT-A
* * * * * *
6165011 ATGTATTTGTTCTCAAAAAATGCCTTAAATAATTATGTAAAAAAATTTTAAA-AAATTATTTAAG
252 AAGTGTTTGTTCTCAAAAAATGCCTTCAATAATTATGT-ACAAAATTTAAAAGAAATTATTGAAG
* * * * * * *
6165075 ACATTTTTTTGGAATAAACGCATTCACTAACTATCTTAAAATTTAAGTACTGGTA
316 GCATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTAAGTACCGGTA
* * *
6165130 TATTTAAGGCATATTTAACTAGAAAATGCCTTTAATAATCTCAAAAAAATTTT-AAATAAAATTA
1 TATTAAAGGCAT-TTTTACTAGAAAACGCCTTTAATAATCTC--AAAAATTTTAAAATAAAATTA
* * * * *
6165194 TTAAAGACCTTTGTTCTGAAAAAATGCCTTCAATATTTATGTACATAAATTAAATGGAATCAGTG
63 TTTAAGACGTTTGTTCTAAAAAAATGCCTTCAATAATTATGTACATAAAATAAATGGAATCAGTG
* * * * *
6165259 AAGGTATTTTTTTAGAATAAACACCTTCATTAACCATCTTAAAATTTGAATAGTAAAATATTAAA
128 AAGGCATTTTTCTAGAATAAACGCCTTCATTAACCATCTTAAAATTTGAATAGTGAAATATTGAA
* *
6165324 GGCATTTTTCACTGGAAGACGCCTTTAATAATCCTAAAAAATTTTAAAAGAAAATTATTAAAGAT
193 GGCATTTTTCACTGAAAGATGCCTTTAATAATCCTAAAAAATTTTAAAAG-AAATTATTAAAG-T
* * **
6165389 GTTTGTTATCAAAAAATACCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTGAAGGTGTT
256 GTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTGAAGGCATT
*
6165454 TTTCTAGAATAAATACCTTCACTAACCATCTTAAAATTTAAGTACCGGTA
321 TTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTAAGTACCGGTA
* *
6165504 TATTAAAGGCATTTTTCACTAGAATACGCCTTTAATAATCTCAAAAACTTTTAAAATGAAATTAT
1 TATTAAAGGCATTTTT-ACTAGAAAACGCCTTTAATAATCTCAAAAA-TTTTAAAATAAAATTAT
* *
6165569 TTAAGGCGTTTATTCTAAAAAAAATGCCTTCAATAATTATGTACATAAAATAAATGGAATCAGTG
64 TTAAGACGTTTGTTCT-AAAAAAATGCCTTCAATAATTATGTACATAAAATAAATGGAATCAGTG
* * * * *
6165634 AAGGCATTTTCCTAGAATAAATGCCTTCATTAACCTTCTTAAAATTTGAGTAGTGGAATATTGAA
128 AAGGCATTTTTCTAGAATAAACGCCTTCATTAACCATCTTAAAATTTGAATAGTGAAATATTGAA
* * * *
6165699 GGTATTTTTCACTGAAAGATGCCTTTAATAATCCCAAAAACTTTTAAAAAGAAATTATTAAAGGC
193 GGCATTTTTCACTGAAAGATGCCTTTAATAATCCTAAAAAATTTT-AAAAGAAATTATTAAA-GT
* *
6165764 GTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACAAAATTTAAAAGGAATTA-GGAAAGGCAT
256 GTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTG-AAGGCAT
* * * * *
6165828 TTTTCTATAATAAATGCCTCCATTAACCGTCTTAAAATTTGAGTA
320 TTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTAAGTA
6165873 GTAGAATATT
Statistics
Matches: 637, Mismatches: 86, Indels: 37
0.84 0.11 0.05
Matches are distributed among these distances:
372 49 0.08
373 171 0.27
374 165 0.26
375 246 0.39
376 6 0.01
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (370 bp):
TATTAAAGGCATTTTTACTAGAAAACGCCTTTAATAATCTCAAAAATTTTAAAATAAAATTATTT
AAGACGTTTGTTCTAAAAAAATGCCTTCAATAATTATGTACATAAAATAAATGGAATCAGTGAAG
GCATTTTTCTAGAATAAACGCCTTCATTAACCATCTTAAAATTTGAATAGTGAAATATTGAAGGC
ATTTTTCACTGAAAGATGCCTTTAATAATCCTAAAAAATTTTAAAAGAAATTATTAAAGTGTTTG
TTCTCAAAAAATGCCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTGAAGGCATTTTTCT
AGAATAAATGCCTTCACTAACCATCTTAAAATTTAAGTACCGGTA
Found at i:6173932 original size:7 final size:7
Alignment explanation
Indices: 6173920--6173948 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
6173910 TTATCATCAT
6173920 ATTTTAA
1 ATTTTAA
6173927 ATTTTAA
1 ATTTTAA
6173934 ATTTTAA
1 ATTTTAA
6173941 ATTTTAA
1 ATTTTAA
6173948 A
1 A
6173949 ATCAGTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTTTAA
Found at i:6177114 original size:13 final size:12
Alignment explanation
Indices: 6177079--6177114 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
6177069 AATTATTAAT
6177079 TTAAATTTTTTA
1 TTAAATTTTTTA
*
6177091 TTAAAATTTTTA
1 TTAAATTTTTTA
6177103 TTAAATTATTTT
1 TTAAATT-TTTT
6177115 TAAGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTAAATTTTTTA
Found at i:6177457 original size:26 final size:27
Alignment explanation
Indices: 6177406--6177459 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6177396 GATGAATGAG
* *
6177406 AAATTATTTGTAAGGTAGAGTTTTTAA
1 AAATTATTTGTAAGCTAGAATTTTTAA
*
6177433 AAATTATTTGTTA-CTAGAATTTTTAA
1 AAATTATTTGTAAGCTAGAATTTTTAA
6177459 A
1 A
6177460 TTTCATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (27 bp):
AAATTATTTGTAAGCTAGAATTTTTAA
Done.