Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168459.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_67, 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: 134467
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.37
Warning! 1000 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:39132 original size:20 final size:20
Alignment explanation
Indices: 39071--39140 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
39061 ATATTAATAG
* *
39071 TAATTATTAATATTTATGA-
1 TAATAATTAATATTTATAAT
*
39090 T-A-AATTAAAATTTATAAT
1 TAATAATTAATATTTATAAT
* *
39108 AAATAATTAATATTTATTAT
1 TAATAATTAATATTTATAAT
*
39128 TAATAAATAATAT
1 TAATAATTAATAT
39141 AAATAAATTA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
17 12 0.30
18 1 0.03
19 2 0.05
20 25 0.62
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (20 bp):
TAATAATTAATATTTATAAT
Found at i:39146 original size:37 final size:37
Alignment explanation
Indices: 39059--39148 Score: 94
Period size: 37 Copynumber: 2.4 Consensus size: 37
39049 TAATTGAATT
* *
39059 AAATAT-TAATAGTAATTATTAATATTTATGATAAATTA
1 AAATATATAATA--AATAATTAATATTTATGATAAATAA
* * *
39097 AAATTTATAATAAATAATTAATATTTATTATTAATAA
1 AAATATATAATAAATAATTAATATTTATGATAAATAA
39134 ATAATATA-AATAAAT
1 A-AATATATAATAAAT
39149 TAACTATTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 29 0.66
38 10 0.23
39 5 0.11
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (37 bp):
AAATATATAATAAATAATTAATATTTATGATAAATAA
Found at i:39150 original size:24 final size:24
Alignment explanation
Indices: 39104--39150 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
39094 TTAAAATTTA
**
39104 TAATAAATAATTAATATTTATTAT
1 TAATAAATAATTAATATAAATTAT
39128 TAATAAATAATATAA-ATAAATTA
1 TAATAAATAAT-TAATATAAATTA
39151 ACTATTAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TAATAAATAATTAATATAAATTAT
Found at i:39267 original size:20 final size:19
Alignment explanation
Indices: 39244--39297 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 19
39234 TAATATTACT
*
39244 ATAATTATTATAATATTTG
1 ATAATTATTATAATAATTG
39263 CATAATTTATTCAT-ATAATTG
1 -ATAA-TTATT-ATAATAATTG
39284 ATAATTATTA-AATA
1 ATAATTATTATAATA
39298 GCTAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 4 0.13
19 5 0.17
20 8 0.27
21 11 0.37
22 2 0.07
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Found at i:39400 original size:17 final size:18
Alignment explanation
Indices: 39359--39403 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
39349 TAAATTAAAG
39359 TACTTAAT-TT-ATAATT
1 TACTTAATATTAATAATT
*
39375 TAATTAATATTAATAA-T
1 TACTTAATATTAATAATT
39392 TACTTAATATTA
1 TACTTAATATTA
39404 TTAACATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
18 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
TACTTAATATTAATAATT
Found at i:39419 original size:21 final size:21
Alignment explanation
Indices: 39395--39449 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
39385 TAATAATTAC
39395 TTAATATTATTAACATAATGA
1 TTAATATTATTAACATAATGA
** *
39416 TTAATATTATTAGGATAATTA
1 TTAATATTATTAACATAATGA
39437 TATAATATTATTA
1 T-TAATATTATTA
39450 TATATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (21 bp):
TTAATATTATTAACATAATGA
Found at i:39523 original size:17 final size:18
Alignment explanation
Indices: 39501--39546 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
39491 CAATATTATA
*
39501 TAATTATATTATTAAT-T
1 TAATTATATTAATAATAT
39518 TAATTATA-TAATAATAT
1 TAATTATATTAATAATAT
*
39535 TAATTTTATTAA
1 TAATTATATTAA
39547 ACAATTGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.24
17 16 0.64
18 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTATATTAATAATAT
Found at i:39545 original size:22 final size:25
Alignment explanation
Indices: 39494--39545 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 25
39484 ATATAATCAA
39494 TATTATATAATTATATTATTAATTT
1 TATTATATAATTATATTATTAATTT
*
39519 AATTATATAA-TA-A-TATTAATTT
1 TATTATATAATTATATTATTAATTT
39541 TATTA
1 TATTA
39546 AACAATTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 13 0.52
23 1 0.04
24 2 0.08
25 9 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATATAATTATATTATTAATTT
Found at i:39611 original size:13 final size:14
Alignment explanation
Indices: 39593--39641 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
39583 AATATTTAGA
39593 TAATTAA-TAATAT
1 TAATTAATTAATAT
39606 TAATTAATTAATAT
1 TAATTAATTAATAT
*
39620 TCTATTATATTAA-A-
1 T-AATTA-ATTAATAT
39634 TAATTAAT
1 TAATTAAT
39642 AAGAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 11 0.35
14 8 0.26
15 5 0.16
16 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTAATTAATAT
Found at i:39678 original size:29 final size:30
Alignment explanation
Indices: 39625--39685 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
39615 AATATTCTAT
39625 TATATTAAATAATTAATAAGAATTTATTTAA
1 TATATTAAATAA-TAATAAGAATTTATTTAA
* *
39656 TATATTAAATAA-ATTAAGTATTTATTTAA
1 TATATTAAATAATAATAAGAATTTATTTAA
39685 T
1 T
39686 TAACTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 16 0.57
31 12 0.43
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TATATTAAATAATAATAAGAATTTATTTAA
Found at i:39788 original size:18 final size:18
Alignment explanation
Indices: 39765--39799 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39755 ATTATTCATA
*
39765 ATTAATTGAATTATATAT
1 ATTAATTCAATTATATAT
*
39783 ATTAATTCTATTATATA
1 ATTAATTCAATTATATA
39800 CAGATTAGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTAATTCAATTATATAT
Found at i:40132 original size:19 final size:20
Alignment explanation
Indices: 40103--40146 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
40093 TAATTTATAT
*
40103 TAATTATAATAGATA-ATACA
1 TAATTATAATAAATAGATA-A
40123 TAATTA-AATAAATAGATAA
1 TAATTATAATAAATAGATAA
40142 TAATT
1 TAATT
40147 TATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (20 bp):
TAATTATAATAAATAGATAA
Found at i:40151 original size:23 final size:24
Alignment explanation
Indices: 40090--40151 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 24
40080 ATCAAATTAT
*
40090 TAATAATTTATATTAATTATAATAGA
1 TAATAA-TT-TATTAAATATAATAGA
*
40116 TAATACA-TAATTAAATA-AATAGA
1 TAATA-ATTTATTAAATATAATAGA
40139 TAATAATTTATTA
1 TAATAATTTATTA
40152 TTATTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 1 0.03
23 16 0.52
24 7 0.23
25 1 0.03
26 5 0.16
27 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (24 bp):
TAATAATTTATTAAATATAATAGA
Found at i:40181 original size:21 final size:20
Alignment explanation
Indices: 40138--40179 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 20
40128 AAATAAATAG
40138 ATAATAATTTATTATTATTTT
1 ATAATAATTTATTATTA-TTT
40159 ATAATAATATTATTAATTATT
1 ATAATAAT-TTATT-ATTATT
40180 ATGTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATAATAATTTATTATTATTT
Found at i:40789 original size:16 final size:17
Alignment explanation
Indices: 40757--40789 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
40747 GACCCATGCA
40757 AACAATTATGACTATTTG
1 AACAATTAT-ACTATTTG
40775 AACAATTAT-CTATTT
1 AACAATTATACTATTT
40790 CAAATCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
AACAATTATACTATTTG
Found at i:40891 original size:181 final size:181
Alignment explanation
Indices: 40581--41031 Score: 484
Period size: 181 Copynumber: 2.5 Consensus size: 181
40571 GTTTAATTAG
* * * * * *
40581 TTATAACTATTTGACCAAATATTTATTTCAAATCATTATGACCATTTGTTTTATCATAAAACAAT
1 TTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCACAAAACAAT
** * * ***
40646 TGTTTCTATTCATGTAATCTTATTTGAAATAAAGTAATGCTAATTTATTAATATTTTGAAAATTA
66 TGTTTCTATTCATACAAGCTTATTAGAAATAAAGTAATGCTAATTTATTAATATTCCAAAAATTA
* * * * * *
40711 ATAAGTAACG-GATTTAGAAAATGTATCT-TTTGGCTTGACCCA-TGCAAACAA
131 ATAAGTAA-GAGATTTAAAAAATGAATCTGTTT-AC-CGAACAAGTGCAAACAA
*
40762 TTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCACAAAACAAT
1 TTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCACAAAACAAT
* *
40827 TGCTTT-TGTTCATACAAGCTTATTCAG-AATAACA-TAATTCTAATTTATTAATATTCCAAAAA
66 TG-TTTCTATTCATACAAGCTTATT-AGAAATAA-AGTAATGCTAATTTATTAATATTCCAAAAA
* * *
40889 TTAATAAGTGAGAGATTTAAAAAATGAATCTGTTTACCGAACAAGTTCAAATAA
128 TTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTACCGAACAAGTGCAAACAA
* * ** * * * *
40943 TTATGGCTATTTGAACAATTATCTAGTTCAAATTGTTATAACCTTTT-TTATTATCATAAAATAG
1 TTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTT-TTATCACAAAACAA
*
41007 TTTTTTCTATTCATACAAGCTTATT
65 TTGTTTCTATTCATACAAGCTTATT
41032 TCAAATCAAT
Statistics
Matches: 226, Mismatches: 36, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
180 10 0.04
181 208 0.92
182 8 0.04
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (181 bp):
TTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCACAAAACAAT
TGTTTCTATTCATACAAGCTTATTAGAAATAAAGTAATGCTAATTTATTAATATTCCAAAAATTA
ATAAGTAAGAGATTTAAAAAATGAATCTGTTTACCGAACAAGTGCAAACAA
Found at i:41304 original size:181 final size:181
Alignment explanation
Indices: 41079--41434 Score: 480
Period size: 181 Copynumber: 2.0 Consensus size: 181
41069 CTATTCGGAC
* * * * * ***
41079 AATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTATTTTTGTTCATATT
1 AATTATCTATTTCAAATCATTATGACCTTTCGTTTCGCCATAAAACAATTATATCAATTCATA-T
* * * * *
41144 A-GCATATTCAAATTAAAATAATATTAATTTATTAATATTTCAACAATTAATAAGTAAAAGATTT
65 AGGCATATTCAAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAATAAGTAAAAGATTT
* **
41208 AAAAAATAAATATGTTTACTTAACAAGTTCAAATAGTAATAACTATCTGAAT
130 AAAAAATAAATATATTTACCAAACAAGTTCAAATAGTAATAACTATCTGAAT
*
41260 AATTATCTATTTCAAATCGTTATGACCTTTCGTTTCGCCATAAAACAATTATATCAATTCATATA
1 AATTATCTATTTCAAATCATTATGACCTTTCGTTTCGCCATAAAACAATTATATCAATTCATATA
* * * *
41325 GGCTTATTCAAAATAAAATAATACTAACTTATTACTATTCCAAAAATTAATGAGTAAGAGATTTA
66 GGCATATTCAAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTA
* * *
41390 AAAAATGAATATATTTACCAAACAAGTTCAAATAGTTATGACTAT
131 AAAAATAAATATATTTACCAAACAAGTTCAAATAGTAATAACTAT
41435 TTATATTATA
Statistics
Matches: 150, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
180 2 0.01
181 148 0.99
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (181 bp):
AATTATCTATTTCAAATCATTATGACCTTTCGTTTCGCCATAAAACAATTATATCAATTCATATA
GGCATATTCAAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTA
AAAAATAAATATATTTACCAAACAAGTTCAAATAGTAATAACTATCTGAAT
Found at i:41322 original size:301 final size:300
Alignment explanation
Indices: 40762--41336 Score: 733
Period size: 301 Copynumber: 1.9 Consensus size: 300
40752 ATGCAAACAA
*
40762 TTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCACAAAACAAT
1 TTATGACTATTCGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCACAAAACAAT
* * *
40827 TGCTTTTGTTCATACAAGCTTATTCAGAATAACATAATTCTAATTTATTAATATTCCAAAAATTA
66 TACTTTTGTTCATACAAGCATATTCAGAATAAAATAATTCTAATTTATTAATATTCCAAAAATTA
* * * * * ** *
40892 ATAAGTGAGAGATTTAAAAAATGAATCTGTTTACCGAACAAGTTCAAATAATTATGGCTATTTGA
131 ATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAATAATAACTATCTGA
* * * * * * * * *
40957 ACAATTATCTAGTTCAAATTGTTATAACCTTTTTTATTATCATAAAATAGTTTTTTCTATTCATA
196 ACAATTATCTAGTTCAAATCGTTATAACCTTTGTTATCACCATAAAACAATTATATCAATTCATA
41022 CAAGCTTATTTCAAATCAATTTATTGAATAATTTTAAATAG
261 CAAGCTTA-TTCAAATCAATTTATTGAATAATTTTAAATAG
* * * * *
41063 TTATGCCTATTCGGACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAAT
1 TTATGACTATTCGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCACAAAACAAT
* ** * *
41128 TATTTTTGTTCATATTAGCATATTCA-AATTAAAATAATAT-TAATTTATTAATATTTCAACAAT
66 TACTTTTGTTCATACAAGCATATTCAGAA-TAAAATAAT-TCTAATTTATTAATATTCCAAAAAT
** *
41191 TAATAAGTAAAAGATTTAAAAAATAAATATGTTTACTTAACAAGTTCAAATAGTAATAACTATCT
129 TAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAATAATAACTATCT
* * * *
41256 GAATAATTATCTATTTCAAATCGTTATGACCTTTCGTT-TCGCCATAAAACAATTATATCAATTC
194 GAACAATTATCTAGTTCAAATCGTTATAACCTTT-GTTATCACCATAAAACAATTATATCAATTC
* *
41320 ATATAGGCTTATTCAAA
258 ATACAAGCTTATTCAAA
41337 ATAAAATAAT
Statistics
Matches: 231, Mismatches: 40, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
300 8 0.03
301 220 0.95
302 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (300 bp):
TTATGACTATTCGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCACAAAACAAT
TACTTTTGTTCATACAAGCATATTCAGAATAAAATAATTCTAATTTATTAATATTCCAAAAATTA
ATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAATAATAACTATCTGA
ACAATTATCTAGTTCAAATCGTTATAACCTTTGTTATCACCATAAAACAATTATATCAATTCATA
CAAGCTTATTCAAATCAATTTATTGAATAATTTTAAATAG
Found at i:41488 original size:5 final size:5
Alignment explanation
Indices: 41478--41503 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
41468 TTAATAGATT
41478 TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA T
41504 TAATAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:43643 original size:15 final size:15
Alignment explanation
Indices: 43603--43665 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
43593 TAAACTACTA
43603 ATTAATATTGTCATTAT
1 ATTAATATT-T-ATTAT
43620 -TT-A-ATTTATTAT
1 ATTAATATTTATTAT
*
43632 ATTAATATTTATAAT
1 ATTAATATTTATTAT
* * *
43647 ATTACTAATAATTAT
1 ATTAATATTTATTAT
43662 ATTA
1 ATTA
43666 TTATAATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 5 0.13
13 3 0.08
14 4 0.11
15 24 0.63
16 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTAATATTTATTAT
Found at i:43661 original size:18 final size:17
Alignment explanation
Indices: 43634--43705 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 17
43624 TTTATTATAT
*
43634 TAATATTTATAATATTA
1 TAATAATTATAATATTA
*
43651 CTAATAATTATATTATTA
1 -TAATAATTATAATATTA
*
43669 TAAT-ATAAT-A-ATTA
1 TAATAATTATAATATTA
*
43683 TAATATTTTATAATATTA
1 TAATA-ATTATAATATTA
43701 GTAAT
1 -TAAT
43706 TTTGTTATCC
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
14 8 0.19
16 7 0.16
17 5 0.12
18 19 0.44
19 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (17 bp):
TAATAATTATAATATTA
Found at i:43678 original size:22 final size:24
Alignment explanation
Indices: 43652--43698 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
43642 ATAATATTAC
43652 TAATAATTAT-AT-TATTATAATA
1 TAATAATTATAATATATTATAATA
*
43674 TAATAATTATAATATTTTATAATA
1 TAATAATTATAATATATTATAATA
43698 T
1 T
43699 TAGTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
23 2 0.09
24 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATAATTATAATATATTATAATA
Found at i:44042 original size:19 final size:18
Alignment explanation
Indices: 44018--44056 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
44008 AGTTTGAAAT
44018 ATTAATAATTAATATTTTA
1 ATTAATAATTAAT-TTTTA
*
44037 ATTAATAATTTATTTTTA
1 ATTAATAATTAATTTTTA
44055 AT
1 AT
44057 AAAATAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTAATAATTAATTTTTA
Found at i:44062 original size:19 final size:19
Alignment explanation
Indices: 44021--44074 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
44011 TTGAAATATT
*
44021 AATAATTAATATTTTAATT
1 AATAATTAATATTTTAATA
*
44040 AATAATTTAT-TTTTAATAA
1 AATAATTAATATTTTAAT-A
44059 AATAACATTAATATTT
1 AAT-A-ATTAATATTT
44075 GACTATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 7 0.25
19 12 0.43
20 1 0.04
21 5 0.18
22 3 0.11
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
AATAATTAATATTTTAATA
Found at i:44467 original size:18 final size:18
Alignment explanation
Indices: 44424--44489 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
44414 CTATTATATT
*
44424 TTTTATTAAAGATTATAA
1 TTTTATTAAAAATTATAA
*
44442 TTTAATTAAAAATTA-AA
1 TTTTATTAAAAATTATAA
*
44459 TATTTATTAATATTATTATAA
1 T-TTTATTAA-A-AATTATAA
*
44480 ATTTATTAAA
1 TTTTATTAAA
44490 TTTGAATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 3 0.08
18 20 0.51
19 2 0.05
20 12 0.31
21 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TTTTATTAAAAATTATAA
Found at i:44953 original size:15 final size:12
Alignment explanation
Indices: 44923--44959 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
44913 TAATATTAGC
44923 TATTATTAAATA
1 TATTATTAAATA
44935 TATTATTTAAATA
1 TATTA-TTAAATA
44948 T-TTATT-AATA
1 TATTATTAAATA
44958 TA
1 TA
44960 CATAATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 5 0.22
11 2 0.09
12 8 0.35
13 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATTATTAAATA
Found at i:45263 original size:19 final size:17
Alignment explanation
Indices: 45229--45298 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 17
45219 AGTATATTGT
45229 AATTATTATATTAAATA
1 AATTATTATATTAAATA
45246 AATTATTAGTAGTTAAATTA
1 AATTATTA-TA-TTAAA-TA
*
45266 ATTGTATTA-ATTTAAAATA
1 AAT-TATTATA-TT-AAATA
45285 AATTATTTATATTA
1 AATTA-TTATATTA
45299 TTTTAAATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
17 8 0.19
18 5 0.12
19 17 0.40
20 8 0.19
21 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
AATTATTATATTAAATA
Found at i:45286 original size:24 final size:24
Alignment explanation
Indices: 45259--45310 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
45249 TATTAGTAGT
*
45259 TAAATTAATTGTATTAATTTAAAA
1 TAAATTAATTATATTAATTTAAAA
* * *
45283 TAAATTATTTATATTATTTTAAAT
1 TAAATTAATTATATTAATTTAAAA
45307 TAAA
1 TAAA
45311 CATTTATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TAAATTAATTATATTAATTTAAAA
Found at i:45315 original size:23 final size:24
Alignment explanation
Indices: 45270--45318 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
45260 AAATTAATTG
*
45270 TATTAATTTAAAATAAATTATTTA
1 TATTAATTTAAAATAAATCATTTA
* *
45294 TATTATTTTAAATTAAA-CATTTA
1 TATTAATTTAAAATAAATCATTTA
45317 TA
1 TA
45319 ATTTAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTAATTTAAAATAAATCATTTA
Found at i:45361 original size:15 final size:15
Alignment explanation
Indices: 45341--45387 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
45331 ATTTTTACTA
45341 TAATTAATAATATAT
1 TAATTAATAATATAT
45356 TAATT-ATAAATATAT
1 TAATTAAT-AATATAT
*
45371 T-ATAAATAATATTAT
1 TAATTAATAATA-TAT
45386 TA
1 TA
45388 TCTTAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTAATAATATAT
Found at i:45504 original size:19 final size:18
Alignment explanation
Indices: 45471--45509 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
45461 TAATTAAGTG
*
45471 TAATAATAAATACTATAT
1 TAATAAGAAATACTATAT
45489 TAATAAGAAGATACTATAT
1 TAATAAGAA-ATACTATAT
45508 TA
1 TA
45510 TAGTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (18 bp):
TAATAAGAAATACTATAT
Found at i:45779 original size:15 final size:16
Alignment explanation
Indices: 45745--45787 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
45735 TTATTACATG
* *
45745 TATTATAAATTATTAT
1 TATTATAAATTAATAA
45761 TATT-TAAATTAATAA
1 TATTATAAATTAATAA
*
45776 TATTATTAATTA
1 TATTATAAATTA
45788 TAACTAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTATAAATTAATAA
Found at i:46096 original size:15 final size:14
Alignment explanation
Indices: 46076--46118 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 14
46066 TAGTTATAAT
*
46076 ATTATATTTAAATTA
1 ATTATAATT-AATTA
46091 ATTATAATTAATTA
1 ATTATAATTAATTA
46105 A-TA-AATTAATTA
1 ATTATAATTAATTA
46117 AT
1 AT
46119 ATTATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 10 0.38
13 2 0.08
14 6 0.23
15 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTATAATTAATTA
Found at i:46113 original size:12 final size:12
Alignment explanation
Indices: 46084--46119 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
46074 ATATTATATT
46084 TAAATTAATT-A
1 TAAATTAATTAA
46095 T-AATTAATTAA
1 TAAATTAATTAA
46106 TAAATTAATTAA
1 TAAATTAATTAA
46118 TA
1 TA
46120 TTATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.35
11 3 0.13
12 12 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATTAATTAA
Found at i:46122 original size:22 final size:21
Alignment explanation
Indices: 46072--46129 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
46062 GTAATAGTTA
46072 TAATATTATATTTAAATTAAT
1 TAATATTATATTTAAATTAAT
46093 T-ATAATTA-ATTAATAAATTAAT
1 TAAT-ATTATATT--TAAATTAAT
46115 TAATATTAT-TTTAAA
1 TAATATTATATTTAAA
46130 AGAATGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
20 9 0.28
21 5 0.16
22 16 0.50
23 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATATTATATTTAAATTAAT
Found at i:46681 original size:70 final size:70
Alignment explanation
Indices: 46596--46735 Score: 226
Period size: 70 Copynumber: 2.0 Consensus size: 70
46586 CCAAATAAGC
* * * ** *
46596 CTAAATAAAATAAATAATAATAAATAAAGATAATTTCTATATAAGCTTAAATGGTGGAAAATTTA
1 CTAAATAAAACAAATAATAATAAATAAAGAGAATTTCTAAATAAGCCAAAATGGTGAAAAATTTA
46661 GAAAT
66 GAAAT
46666 CTAAATAAAACAAATAATAATAAATAAAGAGAATTTCTAAATAAGCCAAAATGGTGAAAAATTTA
1 CTAAATAAAACAAATAATAATAAATAAAGAGAATTTCTAAATAAGCCAAAATGGTGAAAAATTTA
46731 GAAAT
66 GAAAT
46736 TCAAAAGAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.28
Consensus pattern (70 bp):
CTAAATAAAACAAATAATAATAAATAAAGAGAATTTCTAAATAAGCCAAAATGGTGAAAAATTTA
GAAAT
Found at i:47295 original size:21 final size:22
Alignment explanation
Indices: 47264--47523 Score: 212
Period size: 21 Copynumber: 11.7 Consensus size: 22
47254 AATTAATAAA
47264 TCTTCAAATGAGAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
* *
47286 TCAT-AAATGAGAATCTTTAAGAAA
1 TCTTCAAATGAGAATCTTT--G-AG
* *
47310 TCCTCAAATGAAAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
* *
47332 TCTT-AAATGAGAATTTTTAAGAAA
1 TCTTCAAATGAGAATCTTT--G-AG
*
47356 TCCTT-AAATGAGAATCTCT-ATG
1 T-CTTCAAATGAGAATCTTTGA-G
* *
47378 TCTT-AAATGAGAATTTTTAAGAAA
1 TCTTCAAATGAGAATCTTT--G-AG
* * *
47402 TCCTCAAATAAGAATCTTTGAA
1 TCTTCAAATGAGAATCTTTGAG
47424 TCTTCAAATGAGAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
* * *
47446 TTTTCAAATGAGAATGTTTAAG
1 TCTTCAAATGAGAATCTTTGAG
* *
47468 T-TTCAAATAAGAATATTTGAG
1 TCTTCAAATGAGAATCTTTGAG
47489 T-TTCAAATGAGAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
47510 T-TTCAAATGAGAAT
1 TCTTCAAATGAGAAT
47524 TTTTAAGATG
Statistics
Matches: 195, Mismatches: 29, Indels: 29
0.77 0.11 0.11
Matches are distributed among these distances:
21 92 0.47
22 49 0.25
23 4 0.02
24 9 0.05
25 41 0.21
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (22 bp):
TCTTCAAATGAGAATCTTTGAG
Found at i:47317 original size:46 final size:46
Alignment explanation
Indices: 47256--47531 Score: 266
Period size: 46 Copynumber: 6.1 Consensus size: 46
47246 TTTAAAATAA
* * *
47256 TTAATAAATCTTCAAATGAGAATCTTTGAGTCATAAATGAGAATCT
1 TTAAGAAATCCTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCT
* *
47302 TTAAGAAATCCTCAAATGAAAATCTTTGAGTCTTAAATGAGAATTT
1 TTAAGAAATCCTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCT
* * *
47348 TTAAGAAATCCTTAAATGAGAATCTCT-ATGTCTTAAATGAGAATTT
1 TTAAGAAATCCTCAAATGAGAATCTTTGA-GTCTTAAATGAGAATCT
* *
47394 TTAAGAAATCCTCAAATAAGAATCTTTGAATCTTCAAATGAGAATCT
1 TTAAGAAATCCTCAAATGAGAATCTTTGAGTCTT-AAATGAGAATCT
* ** * * * *
47441 TT--G-AGTTTTCAAATGAGAATGTTTAAGT-TTCAAATAAGAATAT
1 TTAAGAAATCCTCAAATGAGAATCTTTGAGTCTT-AAATGAGAATCT
* * *
47484 TT--G-AGT-TTCAAATGAGAATCTTTGAGT-TTCAAATGAGAATTT
1 TTAAGAAATCCTCAAATGAGAATCTTTGAGTCTT-AAATGAGAATCT
47526 TTAAGA
1 TTAAGA
47532 TGTGAAACCA
Statistics
Matches: 198, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
42 34 0.17
43 19 0.10
44 19 0.10
45 2 0.01
46 110 0.56
47 14 0.07
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (46 bp):
TTAAGAAATCCTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCT
Found at i:48385 original size:18 final size:17
Alignment explanation
Indices: 48358--48391 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
48348 ACAAAATTAA
*
48358 AAAAAGAAAAGAAAAGC
1 AAAAAGAAAAAAAAAGC
48375 AAAAAGTAAAAAAAAAG
1 AAAAAG-AAAAAAAAAG
48392 TTTGGGAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAGC
Found at i:49423 original size:122 final size:121
Alignment explanation
Indices: 49171--49395 Score: 271
Period size: 122 Copynumber: 1.9 Consensus size: 121
49161 CAAAAAAAGA
* *
49171 AAAAAATAAAAAATAAAAAGAAGAATTTCTGAATAGGCCCAAATGGTAGAAAATTTAGAAATTCC
1 AAAAAATAAAAAATAAAAAGAAGAATTTCTAAATAGGCCCAAATGGTAGAAAAATTAGAAATTCC
* * *
49236 AAAAAGAGAAAATATTTCTAAATTGACCCAAATGGTGGAAAATTTAGAAATCCAAC
66 AAAAAGAGAAAATATTTCTAAATTGACCCAAATGATGAAAAATATAGAAATCCAAC
* *
49292 AAAGAAATAAAAGAA-AAGAAA-AAGAATTTCTAAATAGGCCTAAATGG-AGAAAAAATTAGGAA
1 AAA-AAATAAAA-AATAA-AAAGAAGAATTTCTAAATAGGCCCAAATGGTAG-AAAAATTAGAAA
* ** **
49354 TT-C-AAAAGAGAACATATTTCTAGTTTGGTCCAAATGATGAAA
62 TTCCAAAAAGAGAAAATATTTCTAAATTGACCCAAATGATGAAA
49396 TAAATGATAT
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
120 32 0.36
121 6 0.07
122 46 0.52
123 5 0.06
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.22
Consensus pattern (121 bp):
AAAAAATAAAAAATAAAAAGAAGAATTTCTAAATAGGCCCAAATGGTAGAAAAATTAGAAATTCC
AAAAAGAGAAAATATTTCTAAATTGACCCAAATGATGAAAAATATAGAAATCCAAC
Found at i:50168 original size:26 final size:26
Alignment explanation
Indices: 50120--50200 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 26
50110 ATTAAGAATT
* *
50120 TATAATTATATTAAAT-TATAATTTA
1 TATAATAATATTAATTATATAATTTA
*
50145 TCA-AATAATATTAATTATATAATTAA
1 T-ATAATAATATTAATTATATAATTTA
50171 TATAATAAT-TTATATTATATTAATGTTA
1 TATAATAATATTA-ATTATA-TAAT-TTA
50199 TA
1 TA
50201 ATATTAAACT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
25 16 0.35
26 22 0.48
27 4 0.09
28 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
TATAATAATATTAATTATATAATTTA
Found at i:50201 original size:23 final size:21
Alignment explanation
Indices: 50129--50224 Score: 55
Period size: 23 Copynumber: 4.7 Consensus size: 21
50119 TTATAATTAT
*
50129 ATTAA-ATTATAATTTATCA-A
1 ATTAATATAATAATTTAT-ATA
50149 A-TAATAT--TAA-TTATATA
1 ATTAATATAATAATTTATATA
50166 ATTAATATAATAATTTATATTA
1 ATTAATATAATAATTTATA-TA
* * *
50188 TATTAATGTTATAATATTAAACTA
1 -ATTAATATAATAAT-TTATA-TA
50212 A-TAATATAA-AATT
1 ATTAATATAATAATT
50225 CATTACAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
16 1 0.02
17 6 0.10
18 9 0.15
19 3 0.05
20 7 0.11
21 8 0.13
22 8 0.13
23 13 0.21
24 6 0.10
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (21 bp):
ATTAATATAATAATTTATATA
Found at i:50459 original size:14 final size:16
Alignment explanation
Indices: 50440--50473 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
50430 TAGTATTAAC
50440 TAATTTA-TTAA-TTA
1 TAATTTATTTAATTTA
50454 TAATTTATTTAATTTA
1 TAATTTATTTAATTTA
50470 TAAT
1 TAAT
50474 AATTATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 4 0.22
16 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTATTTAATTTA
Found at i:51173 original size:12 final size:13
Alignment explanation
Indices: 51145--51177 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
51135 GCTTATTATT
51145 TTATTATAGCTTA
1 TTATTATAGCTTA
*
51158 TTATTATATC-TA
1 TTATTATAGCTTA
51170 TTATTATA
1 TTATTATA
51178 ACATTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (13 bp):
TTATTATAGCTTA
Found at i:51620 original size:8 final size:8
Alignment explanation
Indices: 51609--51650 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
51599 TTATTAATAA
*
51609 ATTTAACT
1 ATTTAAAT
51617 ATTTCAAA-
1 ATTT-AAAT
51625 ATTTTAAAT
1 A-TTTAAAT
51634 ATTTAAAT
1 ATTTAAAT
51642 ATTTAAAT
1 ATTTAAAT
51650 A
1 A
51651 AATTTTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
8 24 0.80
9 6 0.20
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTAAAT
Found at i:51768 original size:21 final size:22
Alignment explanation
Indices: 51743--51796 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
51733 ATTAGTTTAA
*
51743 TTTATATAATAAAATA-CTTGT
1 TTTATATAATAAAATATCTTCT
* *
51764 TTTATA-AATCAAATATTTTCT
1 TTTATATAATAAAATATCTTCT
51785 TTTAATATAATA
1 TTT-ATATAATA
51797 GTAAATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.31
21 12 0.46
22 3 0.12
23 3 0.12
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTATATAATAAAATATCTTCT
Found at i:51859 original size:18 final size:19
Alignment explanation
Indices: 51823--51860 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
51813 AATAAACTAA
51823 TAATATATTTGAATATAAG
1 TAATATATTTGAATATAAG
51842 TAATA-ATTT-AATATTAAG
1 TAATATATTTGAATA-TAAG
51860 T
1 T
51861 TGACTAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (19 bp):
TAATATATTTGAATATAAG
Found at i:52504 original size:20 final size:19
Alignment explanation
Indices: 52458--52506 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
52448 TTATTATTCT
52458 TATT-TTATAATAAGAATA
1 TATTATTATAATAAGAATA
* *
52476 TATTAATTATAATAATATTA
1 TATT-ATTATAATAAGAATA
52496 GTATTATTATA
1 -TATTATTATA
52507 TTAAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 4 0.15
20 18 0.69
21 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
TATTATTATAATAAGAATA
Found at i:52940 original size:23 final size:23
Alignment explanation
Indices: 52914--52959 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
52904 CTAATAAGTA
52914 ATAATATTAAT-GATTATATAATT
1 ATAATATTAATCGATTAT-TAATT
* *
52937 ATAATCTTAGTCGATTATTAATT
1 ATAATATTAATCGATTATTAATT
52960 TAAGGTCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (23 bp):
ATAATATTAATCGATTATTAATT
Found at i:53108 original size:20 final size:20
Alignment explanation
Indices: 53071--53109 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
53061 TAATTAAAAA
* *
53071 AATTATTTATTATTATAAAC
1 AATTATTTATAATAATAAAC
53091 AATTATTTATAATAATAAA
1 AATTATTTATAATAATAAA
53110 TAGTAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTATTTATAATAATAAAC
Found at i:53241 original size:9 final size:10
Alignment explanation
Indices: 53212--53251 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
53202 ATAACAAATC
53212 TATTATATTAA
1 TATTATA-TAA
53223 -ATTA-ATAA
1 TATTATATAA
53231 TATT-TATAA
1 TATTATATAA
53240 TATTATATAA
1 TATTATATAA
53250 TA
1 TA
53252 GGTCGCTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 3 0.12
9 12 0.46
10 11 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TATTATATAA
Found at i:53746 original size:21 final size:21
Alignment explanation
Indices: 53714--53754 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53704 AATCAAAATA
53714 ATTTTAAATAATTAT-TATTT
1 ATTTTAAATAATTATATATTT
*
53734 ATTTATAATTAATTATATATT
1 ATTT-TAAATAATTATATATT
53755 AATATATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTAAATAATTATATATTT
Found at i:54001 original size:12 final size:12
Alignment explanation
Indices: 53976--54053 Score: 54
Period size: 12 Copynumber: 6.2 Consensus size: 12
53966 ATAGTTTATA
*
53976 AATTAATA-TAT
1 AATTAATATTTT
53987 AATATAAT-TTTT
1 AAT-TAATATTTT
53999 AATTAATTATTTT
1 AATTAA-TATTTT
*
54012 AATGAATATTTT
1 AATTAATATTTT
54024 AA-TAATCAATTTATT
1 AATTAAT--A-TT-TT
*
54039 AATTATTATTTT
1 AATTAATATTTT
54051 AAT
1 AAT
54054 AAATTAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
11 9 0.17
12 23 0.43
13 12 0.22
14 3 0.06
15 4 0.07
16 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (12 bp):
AATTAATATTTT
Found at i:54075 original size:27 final size:28
Alignment explanation
Indices: 53959--54075 Score: 63
Period size: 27 Copynumber: 4.4 Consensus size: 28
53949 ATATTATTGT
*
53959 ATAATTGATAGTTT-ATAAATTAATATATA
1 ATAATT-ATATTTTAATAAATTAATA-ATA
* * **
53988 AT-ATAAT-TTTTAATTAATT-ATTTTA
1 ATAATTATATTTTAATAAATTAATAATA
* * *
54013 ATGA--ATATTTTAAT-AATCAAT-TTA
1 ATAATTATATTTTAATAAATTAATAATA
*
54037 TTAATTATTATTTTAATAAATTAATAATA
1 ATAATTA-TATTTTAATAAATTAATAATA
54066 AT-ATTATATT
1 ATAATTATATT
54076 ATTATTACTA
Statistics
Matches: 68, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
24 10 0.15
25 13 0.19
26 7 0.10
27 21 0.31
28 12 0.18
29 5 0.07
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (28 bp):
ATAATTATATTTTAATAAATTAATAATA
Found at i:54257 original size:22 final size:22
Alignment explanation
Indices: 54224--54268 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
54214 CTTTTAGTTA
*
54224 TATTCAAATAATACTATAATAT
1 TATTCAAATAATACAATAATAT
54246 TATT-AAATTAATACAATAATAT
1 TATTCAAA-TAATACAATAATAT
54268 T
1 T
54269 TGTTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (22 bp):
TATTCAAATAATACAATAATAT
Found at i:54907 original size:16 final size:15
Alignment explanation
Indices: 54878--54912 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
54868 ACTATTCACA
54878 TATATATTTAATTAT
1 TATATATTTAATTAT
*
54893 TATACTATTTGATTAT
1 TATA-TATTTAATTAT
54909 TATA
1 TATA
54913 AAATTATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (15 bp):
TATATATTTAATTAT
Found at i:55172 original size:13 final size:12
Alignment explanation
Indices: 55154--55196 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
55144 AGTATACTTT
55154 TATAATCTAAATA
1 TATAAT-TAAATA
*
55167 TATAATT-AATT
1 TATAATTAAATA
55178 TATAATTAATATA
1 TATAATTAA-ATA
55191 TATAAT
1 TATAAT
55197 AATTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 10 0.38
12 2 0.08
13 14 0.54
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TATAATTAAATA
Found at i:55180 original size:24 final size:23
Alignment explanation
Indices: 55152--55202 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
55142 TTAGTATACT
55152 TTTATAATCTAA-ATATATAATTAA
1 TTTATAAT-TAATATATATAA-TAA
55176 TTTATAATTAATATATATAATAA
1 TTTATAATTAATATATATAATAA
55199 TTTA
1 TTTA
55203 ATTTATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTATAATTAATATATATAATAA
Found at i:55181 original size:11 final size:11
Alignment explanation
Indices: 55152--55202 Score: 50
Period size: 11 Copynumber: 4.4 Consensus size: 11
55142 TTAGTATACT
55152 TTTATAATCTAAA
1 TTTATAAT-T-AA
*
55165 TATATAATTAA
1 TTTATAATTAA
55176 TTTATAATTAA
1 TTTATAATTAA
55187 TATATATAA-TAA
1 T-T-TATAATTAA
55199 TTTA
1 TTTA
55203 ATTTATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
10 2 0.06
11 14 0.41
12 6 0.18
13 12 0.35
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
TTTATAATTAA
Found at i:55203 original size:28 final size:27
Alignment explanation
Indices: 55152--55239 Score: 75
Period size: 26 Copynumber: 3.4 Consensus size: 27
55142 TTAGTATACT
55152 TTTATAATCT-AA-ATAT-ATAA-TTAA
1 TTTATAAT-TAAATATATAATAATTTAA
55176 TTTATAATTAATATATATAATAATTTAA
1 TTTATAATTAA-ATATATAATAATTTAA
55204 TTTAT--TTAAATATTATAA-AATATT-A
1 TTTATAATTAAATA-TATAATAAT-TTAA
55229 TTGTATAATTA
1 TT-TATAATTA
55240 TACATAATAT
Statistics
Matches: 54, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
23 1 0.02
24 9 0.17
25 10 0.19
26 18 0.33
27 4 0.07
28 12 0.22
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (27 bp):
TTTATAATTAAATATATAATAATTTAA
Found at i:55257 original size:23 final size:21
Alignment explanation
Indices: 55215--55257 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
55205 TTATTTAAAT
* *
55215 ATTATAAAATATTATTGTATA
1 ATTATAAAATATAATCGTATA
55236 ATTATACATAATATAATCGTAT
1 ATTATA-A-AATATAATCGTAT
55258 TCAAATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (21 bp):
ATTATAAAATATAATCGTATA
Found at i:56258 original size:77 final size:77
Alignment explanation
Indices: 56166--56340 Score: 318
Period size: 77 Copynumber: 2.3 Consensus size: 77
56156 TTATTTACTT
56166 ATATTTATAAAAACATATAAATAGTTTATATAATTGTTATTATCATACCTATAGTTAATTAAGAG
1 ATATTTATAAAAACATATAAATAGTTTATATAATTGTTATTATCATACCTATAGTTAATTAAGAG
56231 TTGTTTCAGTTC
66 TTGTTTCAGTTC
56243 ATATTTATAAAAACATATAAATAGTTTATATAATTGTTATTATCATACCTATAGTTAATTAAGAG
1 ATATTTATAAAAACATATAAATAGTTTATATAATTGTTATTATCATACCTATAGTTAATTAAGAG
56308 TTGTTTCAGTTC
66 TTGTTTCAGTTC
* *
56320 ATACTTATTAAAA-ATA-AAATA
1 ATATTTATAAAAACATATAAATA
56341 ATACTAATTT
Statistics
Matches: 96, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
75 5 0.05
76 3 0.03
77 88 0.92
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (77 bp):
ATATTTATAAAAACATATAAATAGTTTATATAATTGTTATTATCATACCTATAGTTAATTAAGAG
TTGTTTCAGTTC
Found at i:57912 original size:181 final size:179
Alignment explanation
Indices: 57510--57939 Score: 425
Period size: 181 Copynumber: 2.4 Consensus size: 179
57500 ATGTAAATAA
*
57510 ATTTATTTTTTAAATCTCTTACTTATTAATTTTGAAAATATTATTAAATTAGTATTATTTTAATC
1 ATTTATTTTTTAAATCTCTTACTTATTAATTTT-AAAATATTATTAAATTAGTATTATTTTATTC
* ** * * * *
57575 CAAATAAGCTTGTAGGAACAAAACAATTGTTTTACATTAAAAGGAAACATCATAACGATTTGAAA
65 TAAATAAAATAGCAGGAACAAAACAATTGTTTGACATTAAAAGAAAACATCATAACGATTTGAAA
** * * *
57640 TAAATAATCATTCATAAAGTCTTAACTATTTGAACTGGTTTGACAATTAG
130 TAAATAATCATTCATAAAGTCAAAACTATTTAAAATGGTTTGACAAGTAG
* * * ** *
57690 ATTTATTCTTTAATTTTCTTGGTTATTAAGTTTTGAAATATTATTAAATTAGTATTATTTTATTC
1 ATTTATTTTTTAAATCTCTTACTTATTAA-TTTTAAAATATTATTAAATTAGTATTATTTTATTC
* * * * ** * *
57755 TAAATAAAATAGCATGAACAGAACCAATTGTTTGATGA-TAAAATAAAAGGTTATAATGATTTGA
65 TAAATAAAATAGCAGGAACA-AAACAATTGTTTGA-CATTAAAAGAAAACATCATAACGATTTGA
* * **
57819 AATAAATAATTATTGA-AATAGTCAAAACTATTTAAAATGGTTTGGTAAGTAG
128 AATAAATAATCATTCATAA-AGTCAAAACTATTTAAAATGGTTTGACAAGTAG
* * * * ** *
57871 ATTT-TCTTTTTAAATCTCTTACATATTTATTTTCTAAATATTAATAAAACAATATTATTTTATT
1 ATTTAT-TTTTTAAATCTCTTACTTATTAATTTT-AAAATATTATTAAATTAGTATTATTTTATT
*
57935 TTAAA
64 CTAAA
57940 CAAACTTATA
Statistics
Matches: 200, Mismatches: 44, Indels: 11
0.78 0.17 0.04
Matches are distributed among these distances:
180 74 0.37
181 125 0.62
182 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (179 bp):
ATTTATTTTTTAAATCTCTTACTTATTAATTTTAAAATATTATTAAATTAGTATTATTTTATTCT
AAATAAAATAGCAGGAACAAAACAATTGTTTGACATTAAAAGAAAACATCATAACGATTTGAAAT
AAATAATCATTCATAAAGTCAAAACTATTTAAAATGGTTTGACAAGTAG
Found at i:59475 original size:9 final size:8
Alignment explanation
Indices: 59463--59518 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 8
59453 TTATTATATG
59463 AATATTTAT
1 AATA-TTAT
59472 AATATTACT
1 AATATTA-T
*
59481 AATAAT-T
1 AATATTAT
59488 AATATTAT
1 AATATTAT
* *
59496 TATAATAT
1 AATATTAT
59504 AATAATTAT
1 AAT-ATTAT
59513 AATATT
1 AATATT
59519 TTTATAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
7 6 0.16
8 15 0.39
9 17 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (8 bp):
AATATTAT
Found at i:59492 original size:16 final size:16
Alignment explanation
Indices: 59469--59516 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
59459 TATGAATATT
59469 TATAATATTACTAATAA
1 TATAATATTA-TAATAA
*
59486 T-TAATATTATTATAA
1 TATAATATTATAATAA
59501 TATAATAATTATAATA
1 TATAAT-ATTATAATA
59517 TTTTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.22
16 12 0.44
17 9 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TATAATATTATAATAA
Found at i:59503 original size:11 final size:11
Alignment explanation
Indices: 59487--59530 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
59477 TACTAATAAT
59487 TAATATTATTA
1 TAATATTATTA
59498 TAATATAATAATTA
1 TAATAT--T-ATTA
*
59512 TAATATTTTTA
1 TAATATTATTA
59523 TAATATTA
1 TAATATTA
59531 GTAATTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 16 0.57
12 1 0.04
13 1 0.04
14 10 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATATTATTA
Found at i:60765 original size:41 final size:40
Alignment explanation
Indices: 60720--60800 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 40
60710 ATAATTATGT
*
60720 TTATTTAATTATATATATAATATTAAATA-TTATTAAGTATA
1 TTATTTAAATATATATA-AATATTAAATATTTATTAA-TATA
*
60761 TTATTTAAATATTTATAAATATTAAATATTTATTAATATA
1 TTATTTAAATATATATAAATATTAAATATTTATTAATATA
60801 CATAATTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 15 0.41
41 22 0.59
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (40 bp):
TTATTTAAATATATATAAATATTAAATATTTATTAATATA
Found at i:60785 original size:17 final size:17
Alignment explanation
Indices: 60765--60799 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
60755 AGTATATTAT
60765 TTAAATATTTATAAATA
1 TTAAATATTTATAAATA
*
60782 TTAAATATTTATTAATA
1 TTAAATATTTATAAATA
60799 T
1 T
60800 ACATAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATATTTATAAATA
Found at i:61049 original size:13 final size:12
Alignment explanation
Indices: 61013--61070 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 12
61003 TTAATTAAGT
61013 TAATA-ATTAT-
1 TAATATATTATA
61023 TAATATATTCATA
1 TAATATATT-ATA
61036 TAATTATATTATA
1 TAA-TATATTATA
*
61049 TAA-AT-TTAAA
1 TAATATATTATA
*
61059 TAGTATATTATA
1 TAATATATTATA
61071 ATTATTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 11 0.28
11 7 0.18
12 6 0.15
13 9 0.23
14 6 0.15
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (12 bp):
TAATATATTATA
Found at i:61104 original size:19 final size:17
Alignment explanation
Indices: 61070--61140 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 17
61060 AGTATATTAT
61070 AATTATTATATTAAATA
1 AATTATTATATTAAATA
61087 AATTATTAGTAGTTAAATTA
1 AATTATTA-TA-TTAAA-TA
* *
61107 ATTGTATTAATTATAAAATA
1 AAT-TATT-A-TATTAAATA
61127 AATTATTAATATTA
1 AATTATT-ATATTA
61141 TTTCATATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
17 8 0.18
18 6 0.14
19 11 0.25
20 8 0.18
21 8 0.18
22 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (17 bp):
AATTATTATATTAAATA
Found at i:61462 original size:16 final size:17
Alignment explanation
Indices: 61443--61527 Score: 70
Period size: 19 Copynumber: 4.9 Consensus size: 17
61433 AATTATTTTA
*
61443 ATTTATAATA-TTAATT
1 ATTTAAAATAGTTAATT
61459 ATTTAAAATAGTTAATAAT
1 ATTTAAAATAGTTAAT--T
*
61478 ATTTTGAAA-A-TT-ATT
1 A-TTTAAAATAGTTAATT
*
61493 ATTTAAAATAGTAAATATT
1 ATTTAAAATAGT-TA-ATT
61512 ATTTAAAATAGTTAAT
1 ATTTAAAATAGTTAAT
61528 AATATTTTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
14 6 0.11
15 3 0.05
16 10 0.18
17 9 0.16
18 3 0.05
19 18 0.33
20 6 0.11
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
ATTTAAAATAGTTAATT
Found at i:61531 original size:22 final size:19
Alignment explanation
Indices: 61489--61534 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
61479 TTTTGAAAAT
61489 TATTATTTAAAATAGTAAA
1 TATTATTTAAAATAGTAAA
*
61508 TATTATTTAAAATAGTTAA
1 TATTATTTAAAATAGTAAA
*
61527 TAATATTT
1 TATTATTT
61535 TGAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (19 bp):
TATTATTTAAAATAGTAAA
Found at i:61601 original size:33 final size:33
Alignment explanation
Indices: 61563--61671 Score: 102
Period size: 33 Copynumber: 3.3 Consensus size: 33
61553 TTTAATTTAC
61563 ATATTATTATAATTAATTTAATAAATAAATTAA
1 ATATTATTATAATTAATTTAATAAATAAATTAA
*
61596 ATATTATTAT-ACT-ATATT-ATAAATGAAGATTAA
1 ATATTATTATAATTAAT-TTAATAAAT-AA-ATTAA
* * *
61629 ATATTA-T-TAATTAAATTAACTTAATATTATTAA
1 ATATTATTATAATTAATTTAA-TAAATA-AATTAA
61662 ATATTATTAT
1 ATATTATTAT
61672 TATATATTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
31 9 0.15
32 11 0.18
33 35 0.57
34 5 0.08
35 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (33 bp):
ATATTATTATAATTAATTTAATAAATAAATTAA
Found at i:61671 original size:13 final size:13
Alignment explanation
Indices: 61653--61684 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
61643 ATTAACTTAA
61653 TATTATTAAATAT
1 TATTATTAAATAT
*
61666 TATTATTATATAT
1 TATTATTAAATAT
61679 TATTAT
1 TATTAT
61685 AATTACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTATTAAATAT
Found at i:61711 original size:22 final size:20
Alignment explanation
Indices: 61656--61711 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
61646 AACTTAATAT
* *
61656 TATTAAATATTATTATTATA
1 TATTATATATTATTACTATA
*
61676 TATTAT-TATAATTACTATAA
1 TATTATATATTATTACTAT-A
61696 TATTGATATATTATTA
1 TATT-ATATATTATTA
61712 TTACCGATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 10 0.34
20 10 0.34
21 2 0.07
22 7 0.24
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTATATATTATTACTATA
Found at i:62549 original size:14 final size:14
Alignment explanation
Indices: 62532--62559 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
62522 AATATATTGT
62532 AATTAATATTATAA
1 AATTAATATTATAA
62546 AATTAATATTATAA
1 AATTAATATTATAA
62560 TTGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTAATATTATAA
Found at i:62610 original size:27 final size:28
Alignment explanation
Indices: 62565--62620 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
62555 TATAATTGTA
62565 AATTATAATTAAAACAATT-TTTAAATT
1 AATTATAATTAAAACAATTATTTAAATT
* * * *
62592 AATTATAATTTATATAATTATTTATATT
1 AATTATAATTAAAACAATTATTTAAATT
62620 A
1 A
62621 TAATATTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (28 bp):
AATTATAATTAAAACAATTATTTAAATT
Found at i:62833 original size:14 final size:15
Alignment explanation
Indices: 62809--62837 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62799 TAATAACTAT
62809 ATATCATAATAAAAA
1 ATATCATAATAAAAA
62824 ATAT-ATAATAAAAA
1 ATATCATAATAAAAA
62838 TTATTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATCATAATAAAAA
Found at i:64105 original size:12 final size:11
Alignment explanation
Indices: 64083--64112 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
64073 TATATAAATT
64083 ATTTATTAAAA
1 ATTTATTAAAA
64094 ATTTATTAAAA
1 ATTTATTAAAA
64105 A-TTATTAA
1 ATTTATTAA
64113 TATTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTTATTAAAA
Found at i:64111 original size:21 final size:19
Alignment explanation
Indices: 64085--64133 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
64075 TATAAATTAT
64085 TTATTAAAAATTTATTAAAAA
1 TTATTAAAAA-TT-TTAAAAA
* *
64106 TTATT-AATATTTTAATAA
1 TTATTAAAAATTTTAAAAA
64124 TTATTAAAAA
1 TTATTAAAAA
64134 GTCGTAACGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 11 0.46
19 5 0.21
20 3 0.12
21 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTATTAAAAATTTTAAAAA
Found at i:64343 original size:14 final size:12
Alignment explanation
Indices: 64337--64394 Score: 64
Period size: 14 Copynumber: 4.6 Consensus size: 12
64327 AAATGAGAAG
64337 AGAAAAAGAAAA
1 AGAAAAAGAAAA
64349 AGAAAAAAAGAAAA
1 AG--AAAAAGAAAA
64363 A-AAAAAGAAAA
1 AGAAAAAGAAAA
*
64374 AGGAAAAGGAAAAA
1 A-GAAAAAG-AAAA
64388 AGAAAAA
1 AGAAAAA
64395 AAATGAAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 11 0.28
12 2 0.05
13 10 0.26
14 16 0.41
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAAAA
Found at i:64348 original size:6 final size:6
Alignment explanation
Indices: 64337--64394 Score: 64
Period size: 6 Copynumber: 9.2 Consensus size: 6
64327 AAATGAGAAG
*
64337 AGAAAA AGAAAA AGAAAAAA AGAAAA A-AAAA AGAAAA AGGAAAA GGAAAAA
1 AGAAAA AGAAAA AG--AAAA AGAAAA AGAAAA AGAAAA A-GAAAA AG-AAAA
64388 AGAAAA A
1 AGAAAA A
64395 AAATGAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
5 5 0.11
6 24 0.53
7 10 0.22
8 6 0.13
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:64354 original size:25 final size:26
Alignment explanation
Indices: 64338--64394 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
64328 AATGAGAAGA
*
64338 GAAAAAGAAAAA-GAAAAAAAGAAAA
1 GAAAAAGAAAAAGGAAAAAGAGAAAA
* * *
64363 AAAAAAGAAAAAGGAAAAGGAAAAAA
1 GAAAAAGAAAAAGGAAAAAGAGAAAA
64389 GAAAAA
1 GAAAAA
64395 AAATGAAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (26 bp):
GAAAAAGAAAAAGGAAAAAGAGAAAA
Found at i:64356 original size:8 final size:8
Alignment explanation
Indices: 64345--64396 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
64335 AGAGAAAAAG
64345 AAAAAGAA
1 AAAAAGAA
64353 AAAAAGAA
1 AAAAAGAA
64361 AAAAA-AA
1 AAAAAGAA
*
64368 AGAAAA-AG
1 A-AAAAGAA
* *
64376 GAAAAGGA
1 AAAAAGAA
64384 AAAAAGAA
1 AAAAAGAA
64392 AAAAA
1 AAAAA
64397 ATGAAAGAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 29 0.81
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:64373 original size:31 final size:31
Alignment explanation
Indices: 64337--64397 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
64327 AAATGAGAAG
64337 AGAAAAAGAAAAAGAAAAAAAGAAAAAAAAA
1 AGAAAAAGAAAAAGAAAAAAAGAAAAAAAAA
* *
64368 AGAAAAAGGAAAAGGAAAAAAGAAAAAAAA
1 AGAAAAAGAAAAAGAAAAAAAGAAAAAAAA
64398 TGAAAGAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (31 bp):
AGAAAAAGAAAAAGAAAAAAAGAAAAAAAAA
Found at i:65266 original size:63 final size:64
Alignment explanation
Indices: 65173--65479 Score: 270
Period size: 63 Copynumber: 4.9 Consensus size: 64
65163 GGCAATGGAT
* * *
65173 GAAATTTGTAT-TAGAATAGCTAGTGTTGAGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATA
1 GAAATTTGT-TCTGGAATGGCTAGTGCTGAGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATA
* * *
65237 G-AATTTATTCTGGAATGGCTAGTGCTGAGAAGCTTATGAGTGGTGACCAAGTGATAGAAGACA
1 GAAATTTGTTCTGGAATGGCTAGTGCTGAGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATA
* *** * * * ** * *
65300 G-AATTTGTT-TTGAAACACTGGTGCTAAAAAGCCTATGAGTTATAACCAAATGAT-GAAAGAT-
1 GAAATTTGTTCTGGAATGGCTAGTGCTGAGAAGCCTATGAGTGGTGACCAAGTGATAG-AAGATA
* * * * *
65361 GAAATTTGTTCTGAAATGGCTAGTACTTAGAAGCCTATGAGTGGTGACCAAATGATAGAAGA-C
1 GAAATTTGTTCTGGAATGGCTAGTGCTGAGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATA
* * * * * * *
65424 GAAACTTGTTCT-GAACTTGCTAATGTTGAGAAGCCTATGAATGATGATCAAGTGAT
1 GAAATTTGTTCTGGAA-TGGCTAGTGCTGAGAAGCCTATGAGTGGTGACCAAGTGAT
65480 GAAAATGATG
Statistics
Matches: 193, Mismatches: 43, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
61 2 0.01
62 48 0.25
63 141 0.73
64 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (64 bp):
GAAATTTGTTCTGGAATGGCTAGTGCTGAGAAGCCTATGAGTGGTGACCAAGTGATAGAAGATA
Found at i:65433 original size:125 final size:125
Alignment explanation
Indices: 65203--65438 Score: 316
Period size: 125 Copynumber: 1.9 Consensus size: 125
65193 TAGTGTTGAG
* * * * *
65203 AAGCCTATGAGTGGTGACCAAGTGATAGAAGATAGAATTTATTCTGGAATGGCTAGTGCTGAGAA
1 AAGCCTATGAGTGATAACCAAATGATAGAAGATAGAATTTATTCTGAAATGGCTAGTACTGAGAA
* * * *
65268 GCTTATGAGTGGTGACCAAGTGATAGAAGACAGAATTTGTTTTGAAACACTGGTGCTAAA
66 GCCTATGAGTGGTGACCAAATGATAGAAGACAGAACTTGTTCTGAAACACTGGTGCTAAA
* * *
65328 AAGCCTATGAGTTATAACCAAATGAT-GAAAGAT-GAAATTTGTTCTGAAATGGCTAGTACTTAG
1 AAGCCTATGAGTGATAACCAAATGATAG-AAGATAG-AATTTATTCTGAAATGGCTAGTACTGAG
65391 AAGCCTATGAGTGGTGACCAAATGATAGAAGAC-GAAACTTGTTCTGAA
64 AAGCCTATGAGTGGTGACCAAATGATAGAAGACAG-AACTTGTTCTGAA
65439 CTTGCTAATG
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
124 3 0.03
125 93 0.97
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (125 bp):
AAGCCTATGAGTGATAACCAAATGATAGAAGATAGAATTTATTCTGAAATGGCTAGTACTGAGAA
GCCTATGAGTGGTGACCAAATGATAGAAGACAGAACTTGTTCTGAAACACTGGTGCTAAA
Found at i:65932 original size:46 final size:46
Alignment explanation
Indices: 65874--66015 Score: 196
Period size: 46 Copynumber: 3.1 Consensus size: 46
65864 ATAAAATTGT
* * *
65874 GAAA-CCTCAAATGAGAATCTTTGAGGCTTTAATAAAAATCTTTAA
1 GAAATCCTCAAATGAGAATCTTTGAGTCTTAAATGAAAATCTTTAA
* *
65919 GAAATCCTCAAATGAGAATATTTGAGTCTTAAATGAGAATCTTTAA
1 GAAATCCTCAAATGAGAATCTTTGAGTCTTAAATGAAAATCTTTAA
* * * *
65965 GAAATCTTCAAATGTGAATCTTTGAGTATTAAATGAAAATTTTTAA
1 GAAATCCTCAAATGAGAATCTTTGAGTCTTAAATGAAAATCTTTAA
66011 GAAAT
1 GAAAT
66016 ACCAAAAAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.05
46 81 0.95
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (46 bp):
GAAATCCTCAAATGAGAATCTTTGAGTCTTAAATGAAAATCTTTAA
Found at i:65954 original size:21 final size:21
Alignment explanation
Indices: 65882--66000 Score: 76
Period size: 21 Copynumber: 5.3 Consensus size: 21
65872 GTGAAACCTC
*
65882 AAATGAGAATCTTTGAGGCTT
1 AAATGAGAATCTTTGAGTCTT
* * * * *
65903 TAATAAAAATCTTTAAGAAATCCTC
1 AAATGAGAATCTTT--G-AGT-CTT
*
65928 AAATGAGAATATTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
*
65949 AAATGAGAATCTTTAAGAAATCTT
1 AAATGAGAATCTTT--G-AGTCTT
* *
65973 CAAATGTGAATCTTTGAGTATT
1 -AAATGAGAATCTTTGAGTCTT
65995 AAATGA
1 AAATGA
66001 AAATTTTTAA
Statistics
Matches: 72, Mismatches: 18, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
21 31 0.43
22 6 0.08
23 4 0.06
24 6 0.08
25 25 0.35
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.34
Consensus pattern (21 bp):
AAATGAGAATCTTTGAGTCTT
Found at i:65978 original size:25 final size:25
Alignment explanation
Indices: 65910--65987 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 25
65900 CTTTAATAAA
*
65910 AATCTTTAAGAAATCCTCAAATGAG
1 AATCTTTAAGAAATCTTCAAATGAG
* *
65935 AATATTT--G-AGTCTT-AAATGAG
1 AATCTTTAAGAAATCTTCAAATGAG
*
65956 AATCTTTAAGAAATCTTCAAATGTG
1 AATCTTTAAGAAATCTTCAAATGAG
65981 AATCTTT
1 AATCTTT
65988 GAGTATTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 13 0.30
22 4 0.09
23 2 0.05
24 5 0.12
25 19 0.44
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (25 bp):
AATCTTTAAGAAATCTTCAAATGAG
Found at i:66433 original size:77 final size:76
Alignment explanation
Indices: 66292--66436 Score: 168
Period size: 77 Copynumber: 1.9 Consensus size: 76
66282 TGAAGAAAAA
* * * * * *
66292 ATGACAAAATAGAAAAAAATTTAGTTTATAAAATACAAACAAATAATAAGAAATAAAGATATAAA
1 ATGACAAAATAGAAAAAAA-TTAGATTAGAAAATACAAACAAATAAAAAGAAAGAAAAAAATAAA
66357 AAATGAAAAGGG
65 AAATGAAAAGGG
* *
66369 ATGACAAAGTAGAAAAAAA-TAGATTAGAAAATACAAGCAAA-AAAAAGTAATAAGAAAAAAATA
1 ATGACAAAATAGAAAAAAATTAGATTAGAAAATACAAACAAATAAAAAG--A-AAGAAAAAAATA
66432 AAAAA
63 AAAAA
66437 ATCAAAGATA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
74 5 0.09
75 19 0.33
76 1 0.02
77 32 0.56
ACGTcount: A:0.67, C:0.04, G:0.12, T:0.17
Consensus pattern (76 bp):
ATGACAAAATAGAAAAAAATTAGATTAGAAAATACAAACAAATAAAAAGAAAGAAAAAAATAAAA
AATGAAAAGGG
Found at i:66587 original size:20 final size:21
Alignment explanation
Indices: 66535--66588 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
66525 CAAGAAATAA
* *
66535 AAAAAAATTATGAAAAAAATC
1 AAAAAAATCAAGAAAAAAATC
*
66556 AGAAAAA-CAAGAAAAAAAT-
1 AAAAAAATCAAGAAAAAAATC
*
66575 AAAAAAATGAAGAA
1 AAAAAAATCAAGAA
66589 GCAAAAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 6 0.22
20 15 0.56
21 6 0.22
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.11
Consensus pattern (21 bp):
AAAAAAATCAAGAAAAAAATC
Found at i:66719 original size:16 final size:16
Alignment explanation
Indices: 66700--66732 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
66690 ATAAGTAAAG
66700 AAAAAGAAATAAA-TT
1 AAAAAGAAATAAAGTT
66715 AAAAAGAAATAAAGTT
1 AAAAAGAAATAAAGTT
66731 AA
1 AA
66733 TGAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (16 bp):
AAAAAGAAATAAAGTT
Found at i:66835 original size:7 final size:7
Alignment explanation
Indices: 66820--66917 Score: 56
Period size: 7 Copynumber: 13.6 Consensus size: 7
66810 AAATTAAAGC
*
66820 AAAAGAA
1 AAAATAA
66827 AAAATAA
1 AAAATAA
*
66834 AAAACAA
1 AAAATAA
66841 ACAAA-AA
1 A-AAATAA
*
66848 TACAATAAAA
1 -A-AA-ATAA
66858 AAAATAA
1 AAAATAA
*
66865 AAAGTAA
1 AAAATAA
66872 GAAAAT-A
1 -AAAATAA
*
66879 AAAATAT
1 AAAATAA
** *
66886 TGAATCA
1 AAAATAA
66893 AAAATAA
1 AAAATAA
66900 AAAATAA
1 AAAATAA
*
66907 AAAAGAA
1 AAAATAA
66914 AAAA
1 AAAA
66918 ATTGAATAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
6 5 0.07
7 49 0.69
8 13 0.18
9 2 0.03
10 2 0.03
ACGTcount: A:0.79, C:0.04, G:0.05, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:66841 original size:19 final size:19
Alignment explanation
Indices: 66787--66841 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
66777 AAAAATTTAT
*
66787 GAAAAAATAAATAAA-ATAA
1 GAAAAAATAAA-AAACAAAA
* *
66806 GAAAAAAT-TAAAGCAAAA
1 GAAAAAATAAAAAACAAAA
66824 GAAAAAATAAAAAACAAA
1 GAAAAAATAAAAAACAAA
66842 CAAAAATACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 2 0.07
18 12 0.41
19 15 0.52
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (19 bp):
GAAAAAATAAAAAACAAAA
Found at i:66896 original size:35 final size:33
Alignment explanation
Indices: 66857--66930 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 33
66847 ATACAATAAA
* * *
66857 AAAAATAAAAAGTAAGAAAATAAAAATATTGAAT
1 AAAAATAAAAAATAA-AAAAGAAAAAAATTGAAT
66891 CAAAAATAAAAAATAAAAAAGAAAAAAATTGAAT
1 -AAAAATAAAAAATAAAAAAGAAAAAAATTGAAT
66925 AAAAAT
1 AAAAAT
66931 TTGAAAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 6 0.17
34 16 0.44
35 14 0.39
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.18
Consensus pattern (33 bp):
AAAAATAAAAAATAAAAAAGAAAAAAATTGAAT
Found at i:66922 original size:34 final size:34
Alignment explanation
Indices: 66795--66930 Score: 107
Period size: 35 Copynumber: 3.9 Consensus size: 34
66785 ATGAAAAAAT
* * *
66795 AAATAAAATAAG-AAAAAATTAAAGC-AAAAGAAA
1 AAATAAAA-AAGAAAAAAATTGAATCAAAAATAAA
* ** *
66828 AAATAAAAAACAAACAAAAATACAATAAAAAAAATAAA
1 AAATAAAAAA-GAA-AAAAATTGAAT--CAAAAATAAA
* * *
66866 AAGTAAGAAAATAAAAATATTGAATCAAAAATAAA
1 AAATAA-AAAAGAAAAAAATTGAATCAAAAATAAA
66901 AAATAAAAAAGAAAAAAATTGAAT-AAAAAT
1 AAATAAAAAAGAAAAAAATTGAATCAAAAAT
66931 TTGAAAAATG
Statistics
Matches: 81, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
32 2 0.02
33 14 0.17
34 17 0.21
35 22 0.27
37 8 0.10
38 14 0.17
39 4 0.05
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.15
Consensus pattern (34 bp):
AAATAAAAAAGAAAAAAATTGAATCAAAAATAAA
Found at i:67281 original size:17 final size:17
Alignment explanation
Indices: 67221--67285 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
67211 TCAAATAAAA
*
67221 AAAGAATAT-AAAAATTTT
1 AAAGAA-ATGAAAAA-TTG
67239 AAA-AAATGAAAAATTG
1 AAAGAAATGAAAAATTG
67255 AAAGAAATGAAAAA-TG
1 AAAGAAATGAAAAATTG
*
67271 AAAGCATATGAAAAA
1 AAAG-AAATGAAAAA
67286 AATTAGCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 13 0.31
17 26 0.62
18 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.20
Consensus pattern (17 bp):
AAAGAAATGAAAAATTG
Found at i:67391 original size:15 final size:15
Alignment explanation
Indices: 67357--67391 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
67347 TAAAAAATAG
*
67357 CAAAAAATAAGAAGA
1 CAAAAAATAAGAAAA
67372 CAAAAAATAAGAAAA
1 CAAAAAATAAGAAAA
*
67387 TAAAA
1 CAAAA
67392 TAAAAAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.77, C:0.06, G:0.09, T:0.09
Consensus pattern (15 bp):
CAAAAAATAAGAAAA
Found at i:67479 original size:15 final size:15
Alignment explanation
Indices: 67459--67499 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
67449 AAATATGAAT
67459 AAAAAATAAAAGAAA
1 AAAAAATAAAAGAAA
*
67474 AAAAAATAAGAGAAA
1 AAAAAATAAAAGAAA
*
67489 ATAAAATAAAA
1 AAAAAATAAAA
67500 TACTAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAAATAAAAGAAA
Found at i:67546 original size:15 final size:14
Alignment explanation
Indices: 67459--67562 Score: 57
Period size: 15 Copynumber: 6.9 Consensus size: 14
67449 AAATATGAAT
67459 AAAAAATAAAAGAAA
1 AAAAAATAAAA-AAA
*
67474 AAAAAATAAGAGAAA
1 AAAAAATAA-AAAAA
* **
67489 ATAAAATAAAATACT
1 AAAAAATAAAA-AAA
* *
67504 AAAAAAT-AACAAT
1 AAAAAATAAAAAAA
*
67517 TAAAAATAAGCAAAAA
1 AAAAAATAA--AAAAA
67533 CAAAAAATAAAAAAGTA
1 -AAAAAATAAAAAA--A
*
67550 AGAAAATAAAAAA
1 AAAAAATAAAAAA
67563 TTAGAGAATA
Statistics
Matches: 68, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
13 8 0.12
14 4 0.06
15 31 0.46
16 16 0.24
17 9 0.13
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (14 bp):
AAAAAATAAAAAAA
Found at i:67572 original size:15 final size:16
Alignment explanation
Indices: 67536--67577 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
67526 GCAAAAACAA
67536 AAAATAAAAAAGTAAG
1 AAAATAAAAAAGTAAG
*
67552 AAAATAAAAAA-TTAG
1 AAAATAAAAAAGTAAG
*
67567 AGAATAAAAAA
1 AAAATAAAAAA
67578 AATATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAAGTAAG
Found at i:67578 original size:16 final size:16
Alignment explanation
Indices: 67459--67578 Score: 54
Period size: 15 Copynumber: 7.4 Consensus size: 16
67449 AAATATGAAT
67459 AAAAAATAA-AAGAA-A
1 AAAAAATAAGAA-AATA
67474 AAAAAATAAGAGAAAATAA
1 AAAAAAT-A-AGAAAAT-A
**
67493 AATAAAATACTAAAA-A
1 AA-AAAATAAGAAAATA
* *
67509 ATAACAATTA-AAAATA
1 A-AAAAATAAGAAAATA
*
67525 AGCAAAAACAA-AAAATA
1 A--AAAAATAAGAAAATA
*
67542 AAAAAGTAAGAAAAT-
1 AAAAAATAAGAAAATA
* *
67557 AAAAAATTAGAGAATA
1 AAAAAATAAGAAAATA
67573 AAAAAA
1 AAAAAA
67579 ATATAAAAAG
Statistics
Matches: 80, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
15 29 0.36
16 20 0.25
17 16 0.20
18 6 0.08
19 4 0.05
20 5 0.06
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAAAATAAGAAAATA
Found at i:68105 original size:20 final size:20
Alignment explanation
Indices: 68080--68117 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
68070 AAAGTAAGAA
68080 AATAAAAAATACAAAAATTG
1 AATAAAAAATACAAAAATTG
* *
68100 AATAAAAATTTCAAAAAT
1 AATAAAAAATACAAAAAT
68118 GAAAAGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (20 bp):
AATAAAAAATACAAAAATTG
Found at i:68445 original size:16 final size:18
Alignment explanation
Indices: 68413--68451 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
68403 AAAAAATATT
68413 AAAAC-AATGAAATAATG
1 AAAACAAATGAAATAATG
68430 AAAACAAAT-AAA-AATG
1 AAAACAAATGAAATAATG
68446 AAAACA
1 AAAACA
68452 TGTGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 8 0.38
18 3 0.14
ACGTcount: A:0.72, C:0.08, G:0.08, T:0.13
Consensus pattern (18 bp):
AAAACAAATGAAATAATG
Found at i:68640 original size:6 final size:6
Alignment explanation
Indices: 68608--68655 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
68598 GCCCAATTTG
*
68608 ATTTTT ATTTTGT A-TTTT A-TATT ATTTTT ATTTTT ATTTTAT ATTTTT
1 ATTTTT ATTTT-T ATTTTT ATTTTT ATTTTT ATTTTT ATTTT-T ATTTTT
68656 CCCTTTGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
5 6 0.16
6 23 0.62
7 8 0.22
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:68645 original size:22 final size:23
Alignment explanation
Indices: 68608--68652 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
68598 GCCCAATTTG
68608 ATTTTTATTTTGTATTTTATATT
1 ATTTTTATTTTGTATTTTATATT
68631 ATTTTTATTTT-TATTTTATATT
1 ATTTTTATTTTGTATTTTATATT
68653 TTTCCCTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (23 bp):
ATTTTTATTTTGTATTTTATATT
Found at i:68649 original size:17 final size:16
Alignment explanation
Indices: 68610--68654 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
68600 CCAATTTGAT
68610 TTTTATTTTGTATTTTA
1 TTTTATTTT-TATTTTA
*
68627 TATTATTTTTATTTTTA
1 TTTTATTTTTA-TTTTA
68644 TTTTATATTTT
1 TTTTAT-TTTT
68655 TCCCTTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 18 0.75
18 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:68688 original size:11 final size:11
Alignment explanation
Indices: 68667--68697 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
68657 CCTTTGTATC
68667 TTATGTATTTAT
1 TTAT-TATTTAT
68679 TTATTATTTAT
1 TTATTATTTAT
68690 TTATTATT
1 TTATTATT
68698 ACTATGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (11 bp):
TTATTATTTAT
Found at i:68819 original size:21 final size:21
Alignment explanation
Indices: 68754--68881 Score: 85
Period size: 22 Copynumber: 6.3 Consensus size: 21
68744 TATATATGTA
68754 TTTTATTTATCTAGTTATATATT
1 TTTTATTTATCTA-TTAT-TATT
* *
68777 TATTA-TTA--TATTATAATT
1 TTTTATTTATCTATTATTATT
*
68795 TATTTA-CTAT-TATTA-T-TT
1 T-TTTATTTATCTATTATTATT
* *
68813 TTTTATTCATCT-TGTAATATT
1 TTTTATTTATCTAT-TATTATT
68834 TTTTATTTATCTTATTATTATT
1 TTTTATTTATC-TATTATTATT
* *
68856 TTTTAATTATCTGTTATT-TT
1 TTTTATTTATCTATTATTATT
68876 TTTTAT
1 TTTTAT
68882 ATTCGTTTAT
Statistics
Matches: 84, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
17 4 0.05
18 10 0.12
19 12 0.14
20 15 0.18
21 18 0.21
22 20 0.24
23 5 0.06
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTATTTATCTATTATTATT
Found at i:68836 original size:22 final size:21
Alignment explanation
Indices: 68808--68881 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
68798 TTACTATTAT
68808 TATTTTTTTATTCATCTTGTAA
1 TATTTTTTTATT-ATCTTGTAA
* *
68830 TA-TTTTTTATTTATCTTATTAT
1 TATTTTTTTA-TTATCTT-GTAA
* *
68852 TATTTTTTAATTATC-TGTTA
1 TATTTTTTTATTATCTTGTAA
68872 T-TTTTTTTAT
1 TATTTTTTTAT
68882 ATTCGTTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.19
20 2 0.05
21 13 0.31
22 13 0.31
23 6 0.14
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (21 bp):
TATTTTTTTATTATCTTGTAA
Found at i:68891 original size:19 final size:18
Alignment explanation
Indices: 68869--68922 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
68859 TAATTATCTG
68869 TTATTT-TTTTTATATTCGT
1 TTATTTATTTTT-T-TTCGT
68888 TTATTTGATTTTTTTTCGT
1 TTATTT-ATTTTTTTTCGT
*
68907 TTATCTGATTTTTTTT
1 TTAT-TTATTTTTTTT
68923 TCTTTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 24 0.77
20 2 0.06
21 5 0.16
ACGTcount: A:0.13, C:0.06, G:0.07, T:0.74
Consensus pattern (18 bp):
TTATTTATTTTTTTTCGT
Found at i:68924 original size:20 final size:19
Alignment explanation
Indices: 68883--68922 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
68873 TTTTTTTATA
*
68883 TTCGTTTATTTGATTTTTT
1 TTCGTTTATCTGATTTTTT
68902 TTCGTTTATCTGATTTTTT
1 TTCGTTTATCTGATTTTTT
68921 TT
1 TT
68923 TCTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.72
Consensus pattern (19 bp):
TTCGTTTATCTGATTTTTT
Found at i:69248 original size:26 final size:26
Alignment explanation
Indices: 69211--69263 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
69201 TTAGAAGAAA
* * *
69211 TTTTTTGGAAATTTTTGGCAAAATTT
1 TTTTTTGAAAATTTCTGGAAAAATTT
69237 TTTTTTGAAAATTTCTGGAAAAATTT
1 TTTTTTGAAAATTTCTGGAAAAATTT
69263 T
1 T
69264 CAGATTCCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.53
Consensus pattern (26 bp):
TTTTTTGAAAATTTCTGGAAAAATTT
Found at i:69806 original size:5 final size:5
Alignment explanation
Indices: 69781--69891 Score: 52
Period size: 5 Copynumber: 21.6 Consensus size: 5
69771 TTTTTTTAAA
* * * *
69781 TTTA- TTTAT TTGT-T TTT-T TTTAT TTTAGG TTTAT TTAAT ATTCT TTTAT
1 TTTAT TTTAT TT-TAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT
* * *
69830 CTTTGT TTTATT TTTATT TTTGT TTTACT TTT-C TTTAT TTT-T TTTAT
1 -TTTAT TTTA-T TTTA-T TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT
69877 TTTCACT TTTAT TTT
1 TTT-A-T TTTAT TTT
69892 GTTATTTTCT
Statistics
Matches: 82, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
4 16 0.20
5 37 0.45
6 25 0.30
7 4 0.05
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:69846 original size:17 final size:18
Alignment explanation
Indices: 69824--69861 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
69814 TTTAATATTC
69824 TTTTATCTTTGTTTTA-T
1 TTTTATCTTTGTTTTACT
*
69841 TTTTATTTTTGTTTTACT
1 TTTTATCTTTGTTTTACT
69859 TTT
1 TTT
69862 CTTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTATCTTTGTTTTACT
Found at i:69965 original size:59 final size:58
Alignment explanation
Indices: 69924--70618 Score: 596
Period size: 59 Copynumber: 11.7 Consensus size: 58
69914 AAAAAAATAT
69924 ATAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
1 ATAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAATTTTCAAAAAA
* * *
69983 A-CGTTTCTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC-AAAAA
1 ATAGTTT-TTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAT-AAA-TTTTCAAAAAA
* * * * *
70043 ATA-TTTTT-AGGAAAAAGTTGAAAATATCAATTCTCCTCAAAAATAAATGTTCAAAAAA
1 ATAGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCT-TAAAATAAATTTTCAAAAAA
** * *
70101 ATTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAA
1 A-TAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAT-AAATTTTCAAAAAA
* *
70162 ATA-TTTTT-AGGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1 ATAGTTTTTGA-GGAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAATTTTCAAAAAA
* * * * *
70220 A-GGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAA
1 ATAG-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT-TAAAAT-AAATTTTCAAAAAA
* * * * *
70280 ATA-TTTTTGGGGAAAAGTTAAAAGTATCAATTATCAATTTTCCTCGAAAATCAAAGTTTCCAAA
1 ATAGTTTTTGAGGAAAAGTTGAAAGTATC-A--AT---TTTT-CT-TAAAAT-AAATTTTCAAAA
70344 AA
57 AA
* * *
70346 ATA-TTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTTCAAAAAA
1 ATAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAA-TTTTCAAAAAA
* * * * *
70405 GGT-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAATCAAAGTTTCCAAAAA
1 -ATAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT-TAAAAT-AAATTTTCAAAAAA
* *
70465 ATA-TTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTTAGAAATAAATTTTCAAGAAA
1 ATAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTA-AAATAAATTTTCAAAAAA
* * * * *
70523 A-GGTTTTTGAGGAAAAGTTAAAAGTATTAA-TTTTCCTAGAAATTAAAGTTTTTC-CAAAA
1 ATAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA-AAA-TAAA--TTTTCAAAAAA
*
70582 ATA--TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTT
1 ATAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
70619 GCACAAAAGC
Statistics
Matches: 533, Mismatches: 62, Indels: 82
0.79 0.09 0.12
Matches are distributed among these distances:
57 10 0.02
58 106 0.20
59 220 0.41
60 114 0.21
61 23 0.04
62 2 0.00
63 2 0.00
65 4 0.01
66 52 0.10
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (58 bp):
ATAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAATTTTCAAAAAA
Found at i:70151 original size:119 final size:117
Alignment explanation
Indices: 69928--70619 Score: 724
Period size: 119 Copynumber: 5.8 Consensus size: 117
69918 AAATATATAG
* * * * * *
69928 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAACGTTTCTTG
1 TTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCAAAAATAAATGTTCAAAAAAA-TTTTTTTG
69993 GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAAAATA
65 GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAAAATA
*
70046 TTTTT-AGGAAAAAGTTGAAAATATCAATTCTCCTCAAAAATAAATGTTCAAAAAAATTTTTTTT
1 TTTTTGAGG-AAAAGTTGAAAATATCAATTTTCCTCAAAAATAAATGTTCAAAAAAA--TTTTTT
* * *
70110 TGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAAATA
63 TGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAAAATA
* * *
70165 TTTTT-AGGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGGTTTTTT
1 TTTTTGA-GGAAAAGTTGAAAATATCAATTTTCCTCAAAAATAAATGTTCAAAAAAA-TTTTTTT
* * *
70229 GAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAATA
64 GGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAAAATA
* * * *
70283 TTTTTGGGGAAAAGTTAAAAGTATCAATTATCAATTTTCCTCGAAAATCAAA-GTTTCCAAAAAA
1 TTTTTGAGGAAAAGTT----G-A--AAATATCAATTTTCCTCAAAAAT-AAATG-TTCAAAAAAA
* * * * *
70347 TATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAAT-AAATTTTTCAAAAAAGGTT
57 TTTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAAAA--TA
* * * * *
70409 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAATCAAA-GTTTCCAAAAAATATTTTT
1 TTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCAAAAAT-AAATG-TTCAAAAAAATTTTTTT
* **
70473 GGGGAAAAGTTGAAAGTATCAATTTT-CTTTAGAAAT-AAA-TTTTCAAGAAAAGG
64 GGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAAGTTTTCAA-AAAATA
* * * * *
70526 TTTTTGAGGAAAAGTT-AAAAGTATTAATTTTCCT-AGAAATTAAAGTTTTTC-CAAAAA-TATT
1 TTTTTGAGGAAAAGTTGAAAA-TATCAATTTTCCTCA-AAAATAAA--TGTTCAAAAAAATTTTT
*
70587 TTGGGGAAAAGTTGAAAGTATCAATTTTTCTTG
62 TTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
70620 CACAAAAGCA
Statistics
Matches: 501, Mismatches: 50, Indels: 47
0.84 0.08 0.08
Matches are distributed among these distances:
116 36 0.07
117 42 0.08
118 133 0.27
119 186 0.37
120 2 0.00
121 1 0.00
122 2 0.00
123 1 0.00
124 13 0.03
125 57 0.11
126 28 0.06
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.36
Consensus pattern (117 bp):
TTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCAAAAATAAATGTTCAAAAAAATTTTTTTGG
GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAAAATA
Found at i:70361 original size:32 final size:32
Alignment explanation
Indices: 70259--70361 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 32
70249 AATTTTCCTC
70259 GAAAATCAAAGTTTCCAAAAAATATTTTTGGG
1 GAAAATCAAAGTTTCCAAAAAATATTTTTGGG
* * ** ****
70291 GAAAAGTTAAAAGTAT-C-AATTATCAATTTTCCTC
1 GAAAA--TCAAAGTTTCCAAAAAAT--ATTTTTGGG
70325 GAAAATCAAAGTTTCCAAAAAATATTTTTGGG
1 GAAAATCAAAGTTTCCAAAAAATATTTTTGGG
70357 GAAAA
1 GAAAA
70362 GTTAAAAGTA
Statistics
Matches: 49, Mismatches: 16, Indels: 12
0.64 0.21 0.16
Matches are distributed among these distances:
32 26 0.53
33 2 0.04
34 21 0.43
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.31
Consensus pattern (32 bp):
GAAAATCAAAGTTTCCAAAAAATATTTTTGGG
Found at i:70468 original size:303 final size:300
Alignment explanation
Indices: 69927--70612 Score: 980
Period size: 303 Copynumber: 2.3 Consensus size: 300
69917 AAAATATATA
* * * **
69927 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA-AAAATAAATTTTCAAAAAAACGTTTCT
1 GTTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTAGAAAATAAAGTTTCCAAAAAATATTT-T
* * *
69991 TGGGGAAAAGTT---G-A--AAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAAAATATTTT
64 TGGGGAAAAGTTAAAGTATCAATTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAATATTTT
**
70050 TAGGAAAAAGTTGAAAATATCAATTCTCCTCAAAAATAAATGTTCAAAAAAATTTTTTTTTGAGG
129 TAGGAAAAAGTTGAAAATATCAATTCTCCTCAAAAATAAATGTTCAAAAAAAGGTTTTTTTGAGG
*
70115 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAAATATTTTTAGGGAAAAGT
194 AAAAGTTGAAAGTATCAATTTTTCTCGAAAATCAAAGTTTCCAAAAAATATTTTTAGGGAAAAGT
70180 TGAAAATATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
259 TGAAAATATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
*
70222 GTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAATATTTT
1 G-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT-AAAGTTTCCAAAAAATATTTT
70287 TGGGGAAAAGTTAAAAGTATCAATTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAATATTT
64 TGGGGAAAAGTT-AAAGTATCAATTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAATATTT
* * * * *
70352 TTGGGGAAAAGTT-AAAAGTATCAATTTTCCTTAAAAATAAATTTTTC-AAAAAAGGTTTTTTTG
128 TTAGGAAAAAGTTGAAAA-TATCAATTCTCCTCAAAAATAAA-TGTTCAAAAAAAGGTTTTTTTG
*
70415 AGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAATCAAAGTTTCCAAAAAATATTTTTGGGGAAA
191 AGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAATCAAAGTTTCCAAAAAATATTTTTAGGGAAA
* * * *
70480 AGTTGAAAGTATCAATTTTCTTTAGAAATAAATTTTCAAGAAAAG
256 AGTTGAAAATATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
* * *
70525 GTTTTTGAGGAAAAGTTAAAAGTATTAATTTTCCTAGAAATTAAAGTTTTTCC-AAAAATA-TTT
1 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAATAAAG--TTTCCAAAAAATATTTT
70588 TGGGGAAAAGTTGAAAGTATCAATT
64 TGGGGAAAAGTT-AAAGTATCAATT
70613 TTTCTTGCAC
Statistics
Matches: 350, Mismatches: 27, Indels: 22
0.88 0.07 0.06
Matches are distributed among these distances:
295 7 0.02
296 45 0.13
297 16 0.05
300 1 0.00
301 32 0.09
302 48 0.14
303 197 0.56
304 4 0.01
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.35
Consensus pattern (300 bp):
GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAATAAAGTTTCCAAAAAATATTTTTG
GGGAAAAGTTAAAGTATCAATTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAATATTTTTA
GGAAAAAGTTGAAAATATCAATTCTCCTCAAAAATAAATGTTCAAAAAAAGGTTTTTTTGAGGAA
AAGTTGAAAGTATCAATTTTTCTCGAAAATCAAAGTTTCCAAAAAATATTTTTAGGGAAAAGTTG
AAAATATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
Done.