Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397260.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_51.0, 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: 10072460
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Warning! 70252 characters in sequence are not A, C, G, or T
File 19 of 20
Found at i:8890839 original size:12 final size:12
Alignment explanation
Indices: 8890822--8890876 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
8890812 TCTTTCCGGT
*
8890822 CATCCTTCTTCT
1 CATCCTTCTTCC
* *
8890834 CGTCCTGCTTCC
1 CATCCTTCTTCC
8890846 CATCCTTCTTCC
1 CATCCTTCTTCC
*
8890858 CATCCTTCTTCT
1 CATCCTTCTTCC
8890870 CATCCTT
1 CATCCTT
8890877 TGCAGCTGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.07, C:0.45, G:0.04, T:0.44
Consensus pattern (12 bp):
CATCCTTCTTCC
Found at i:8891682 original size:128 final size:128
Alignment explanation
Indices: 8891454--8891709 Score: 449
Period size: 128 Copynumber: 2.0 Consensus size: 128
8891444 TTCATGTAAT
*
8891454 TTTAAAAGTGTTTTTGAGTACGGTTTTTCCTATGCTTTTGGATAGAAATTTGGTTGGAAAGTAAA
1 TTTAAAAGTGTTTTTGAGTACGGTTTTTCCTATGCTTTTGGATAGAAATTTGGTTGGAAACTAAA
* * * *
8891519 TGGACTGACAGTGTTAGTTGGTGACAAGTAAATGCCAGTCAGAAGGTTCTTGATTGGGTTACC
66 TGGACTAACAGTGTTAGTTGGTGACAAGCAAATGCCAGTCAGAAGGTGCCTGATTGGGTTACC
* *
8891582 TTTAAAAGTGTTTTTGAGTATGGTTTTTCCTATGCTTTTGGATAGAAGTTTGGTTGGAAACTAAA
1 TTTAAAAGTGTTTTTGAGTACGGTTTTTCCTATGCTTTTGGATAGAAATTTGGTTGGAAACTAAA
8891647 TGGACTAACAGTGTTAGTTGGTGACAAGCAAATGCCAGTCAGAAGGTGCCTGATTGGGTTACC
66 TGGACTAACAGTGTTAGTTGGTGACAAGCAAATGCCAGTCAGAAGGTGCCTGATTGGGTTACC
8891710 AAAGGCATCA
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 121 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.36
Consensus pattern (128 bp):
TTTAAAAGTGTTTTTGAGTACGGTTTTTCCTATGCTTTTGGATAGAAATTTGGTTGGAAACTAAA
TGGACTAACAGTGTTAGTTGGTGACAAGCAAATGCCAGTCAGAAGGTGCCTGATTGGGTTACC
Found at i:8899085 original size:19 final size:20
Alignment explanation
Indices: 8899057--8899096 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8899047 AGTAGGAAGG
*
8899057 TTTTTAAAATAAACACGTTC
1 TTTTTAAAATAAACACATTC
*
8899077 TTTTT-AAATATACACATTC
1 TTTTTAAAATAAACACATTC
8899096 T
1 T
8899097 GTTATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.45
Consensus pattern (20 bp):
TTTTTAAAATAAACACATTC
Found at i:8900705 original size:20 final size:21
Alignment explanation
Indices: 8900670--8900711 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
8900660 AATATTCTTA
*
8900670 ATTTTTTTATATTTTTAAATT
1 ATTTTTTAATATTTTTAAATT
*
8900691 ATTTTTTAAT-TTTTTATATT
1 ATTTTTTAATATTTTTAAATT
8900711 A
1 A
8900712 AAAAATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTTTTAATATTTTTAAATT
Found at i:8906853 original size:26 final size:25
Alignment explanation
Indices: 8906789--8906847 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
8906779 ATTATACTTT
* *
8906789 TTTTTTTAACATGACGTGTAACAAC
1 TTTTTTTAACATGAAGTATAACAAC
*
8906814 -TGTTTTAACCATGAAGTATAACAAC
1 TTTTTTTAA-CATGAAGTATAACAAC
8906839 TTTTTTTAA
1 TTTTTTTAA
8906848 TTATGATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 7 0.25
25 14 0.50
26 7 0.25
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (25 bp):
TTTTTTTAACATGAAGTATAACAAC
Found at i:8906958 original size:24 final size:26
Alignment explanation
Indices: 8906930--8907044 Score: 64
Period size: 25 Copynumber: 4.5 Consensus size: 26
8906920 ATTTTTTAGC
8906930 CATGACGTGTAATATA-TTTTTGTAA
1 CATGACGTGTAATATACTTTTTGTAA
* * *
8906955 -ATGAAGTGTAACAATACTATTTTTTTTAA
1 CATGACGTGT---AATA-TACTTTTTGTAA
*
8906984 TATGACGTGTAATA-ACTTTTT-TAA
1 CATGACGTGTAATATACTTTTTGTAA
* * *
8907008 CCATGGCAT-TAAACATA-TTTTTGT-A
1 -CATGACGTGT-AATATACTTTTTGTAA
8907033 CATGACGTGTAA
1 CATGACGTGTAA
8907045 CAATAATATT
Statistics
Matches: 69, Mismatches: 10, Indels: 23
0.68 0.10 0.23
Matches are distributed among these distances:
24 20 0.29
25 21 0.30
26 2 0.03
27 8 0.12
28 2 0.03
29 8 0.12
30 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (26 bp):
CATGACGTGTAATATACTTTTTGTAA
Found at i:8907031 original size:79 final size:81
Alignment explanation
Indices: 8906832--8907057 Score: 246
Period size: 81 Copynumber: 2.8 Consensus size: 81
8906822 CCATGAAGTA
* ** ** * *
8906832 TAACAACTTTTTTTAATTATGATGTGTAGCATATTTTTGTACATGGCA-TGTAACAATAATATTT
1 TAACAACATTTTTTAACCATGACATGTAACATATTTTTGTACAT-GAAGTGTAACAATAATATTT
*
8906896 TTTTTCAATACTGTGTG
65 TTTTTCAATACTGCGTG
* * * * *
8906913 TAACAACATTTTTTAGCCATGACGTGTAATATATTTTTGTAAATGAAGTGTAACAATACTATTTT
1 TAACAACATTTTTTAACCATGACATGTAACATATTTTTGTACATGAAGTGTAACAATAATATTTT
8906978 TTTT-AATA-TGACGTG
66 TTTTCAATACTG-CGTG
* * *
8906993 TAATAAC-TTTTTTAACCATGGCAT-TAAACATATTTTTGTACATGACGTGTAACAATAATATTT
1 TAACAACATTTTTTAACCATGACATGT-AACATATTTTTGTACATGAAGTGTAACAATAATATTT
8907056 TT
65 TT
8907058 CAACATGATG
Statistics
Matches: 123, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 51 0.41
80 15 0.12
81 56 0.46
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (81 bp):
TAACAACATTTTTTAACCATGACATGTAACATATTTTTGTACATGAAGTGTAACAATAATATTTT
TTTTCAATACTGCGTG
Found at i:8912376 original size:17 final size:17
Alignment explanation
Indices: 8912354--8912388 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8912344 CTTTGTTAGT
*
8912354 TTATATAATCTTTATAA
1 TTATATAATATTTATAA
*
8912371 TTATATATTATTTATAA
1 TTATATAATATTTATAA
8912388 T
1 T
8912389 ACTGTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATATAATATTTATAA
Found at i:8913934 original size:17 final size:17
Alignment explanation
Indices: 8913912--8913945 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8913902 TTTAAGTATG
8913912 GTACTAAATGGCCAAAT
1 GTACTAAATGGCCAAAT
8913929 GTACTAAATGGCCAAAT
1 GTACTAAATGGCCAAAT
8913946 CTTGGAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (17 bp):
GTACTAAATGGCCAAAT
Found at i:8919192 original size:76 final size:76
Alignment explanation
Indices: 8919066--8919217 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
8919056 TTTGATATAG
*
8919066 TTGCAACTTTGCATTGAATTCAAAGGTATTCTCAAAAAATACAGTTGCACATTATATTTTAAACT
1 TTGCAACTTTGCATTGAATTCAAAGGTATTCTCAAAAAATACAGCTGCACATTATATTTTAAACT
8919131 AAAAGATAGTA
66 AAAAGATAGTA
8919142 TTGCAACTTTGCATTGAATTCAAAGGTATTCTCAAAAAATACAGCTGCACATTATATTTTAAACT
1 TTGCAACTTTGCATTGAATTCAAAGGTATTCTCAAAAAATACAGCTGCACATTATATTTTAAACT
8919207 AAAAGATAGTA
66 AAAAGATAGTA
8919218 CTCTATATAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (76 bp):
TTGCAACTTTGCATTGAATTCAAAGGTATTCTCAAAAAATACAGCTGCACATTATATTTTAAACT
AAAAGATAGTA
Found at i:8927115 original size:15 final size:15
Alignment explanation
Indices: 8927095--8927132 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
8927085 GTTAAAACTT
8927095 TTTTAAAAAT-TATAA
1 TTTTAAAAATAT-TAA
*
8927110 TTTTAAAAATATTTA
1 TTTTAAAAATATTAA
8927125 TTTTAAAA
1 TTTTAAAA
8927133 TAACAATGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.95
16 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTAAAAATATTAA
Found at i:8931450 original size:11 final size:11
Alignment explanation
Indices: 8931436--8931479 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
8931426 ATAAATAAAT
8931436 TTTAAAAATTA
1 TTTAAAAATTA
8931447 TTTAAAAATTAA
1 TTTAAAAATT-A
*
8931459 TTTTAATAATTTA
1 -TTTAA-AAATTA
8931472 TTTAAAAA
1 TTTAAAAA
8931480 ATTAATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 12 0.43
12 6 0.21
13 6 0.21
14 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTAAAAATTA
Found at i:8931455 original size:24 final size:25
Alignment explanation
Indices: 8931428--8931479 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
8931418 TAAAAAATAT
8931428 AAATAAATTTTAA-AAATTATTTAA
1 AAATAAATTTTAATAAATTATTTAA
* *
8931452 AAATTAATTTTAATAATTTATTTAA
1 AAATAAATTTTAATAAATTATTTAA
8931477 AAA
1 AAA
8931480 ATTAATTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AAATAAATTTTAATAAATTATTTAA
Found at i:8931469 original size:13 final size:13
Alignment explanation
Indices: 8931428--8931486 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
8931418 TAAAAAATAT
*
8931428 AAATAAATTTTAA
1 AAATTAATTTTAA
8931441 AAATT-A-TTTAA
1 AAATTAATTTTAA
8931452 AAATTAATTTTAA
1 AAATTAATTTTAA
* * *
8931465 TAATTTATTTAAA
1 AAATTAATTTTAA
8931478 AAATTAATT
1 AAATTAATT
8931487 AGTGTAATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
11 10 0.26
12 2 0.05
13 26 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTAATTTTAA
Found at i:8931478 original size:25 final size:25
Alignment explanation
Indices: 8931428--8931486 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
8931418 TAAAAAATAT
*
8931428 AAATAAATTTTAAAAATTATTT-AA
1 AAATTAATTTTAAAAATTATTTAAA
*
8931452 AAATTAATTTTAATAATTTATTTAAA
1 AAATTAATTTTAA-AAATTATTTAAA
8931478 AAATTAATT
1 AAATTAATT
8931487 AGTGTAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 12 0.39
25 8 0.26
26 11 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AAATTAATTTTAAAAATTATTTAAA
Found at i:8931930 original size:15 final size:15
Alignment explanation
Indices: 8931910--8931946 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
8931900 ACTAAAAATT
8931910 ATTAAAAAAATTAAA
1 ATTAAAAAAATTAAA
*
8931925 ATTAAAAATATTAAA
1 ATTAAAAAAATTAAA
*
8931940 AATAAAA
1 ATTAAAA
8931947 TAAGTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
ATTAAAAAAATTAAA
Found at i:8931954 original size:24 final size:24
Alignment explanation
Indices: 8931902--8931954 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
8931892 AATCATCAAC
*
8931902 TAAAAATTATTAAAAAAATTAAAAT
1 TAAAAATTATTAAAAAAA-TAAAAG
8931927 TAAAAA-TATTAAAAATAA-AATAAG
1 TAAAAATTATTAAAAA-AATAA-AAG
8931951 TAAA
1 TAAA
8931955 TAAATCAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 2 0.08
24 15 0.60
25 8 0.32
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (24 bp):
TAAAAATTATTAAAAAAATAAAAG
Found at i:8932229 original size:17 final size:18
Alignment explanation
Indices: 8932209--8932244 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8932199 AAAATTATTA
*
8932209 TAAAAT-TATACAAAAAT
1 TAAAATATATAAAAAAAT
8932226 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
8932244 T
1 T
8932245 TAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:8932288 original size:29 final size:29
Alignment explanation
Indices: 8932255--8932311 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
8932245 TAATTTTTTT
**
8932255 ATAAAAATGAAATTA-TTAAAATTTAAAAA
1 ATAAAAAT-AAATTAGAAAAAATTTAAAAA
8932284 ATAAAAATAAATTAGAAAAAATTTAAAA
1 ATAAAAATAAATTAGAAAAAATTTAAAA
8932312 TTGTTGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (29 bp):
ATAAAAATAAATTAGAAAAAATTTAAAAA
Found at i:8933044 original size:29 final size:29
Alignment explanation
Indices: 8932989--8933050 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
8932979 TTTTTAAAAA
*
8932989 AATTAATATAAATTTTTATTCTTTATTAT
1 AATTAATATAAATTTTTATTCTATATTAT
*
8933018 AATTAATCA-AAATTTTATATT-TATATTTT
1 AATTAAT-ATAAATTTT-TATTCTATATTAT
8933047 AATT
1 AATT
8933051 TTTTTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (29 bp):
AATTAATATAAATTTTTATTCTATATTAT
Found at i:8933075 original size:14 final size:13
Alignment explanation
Indices: 8933054--8933088 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
8933044 TTTAATTTTT
8933054 TTAAAATAATTAA
1 TTAAAATAATTAA
*
8933067 TTAATAATATTTAA
1 TTAA-AATAATTAA
8933081 TTAAAATA
1 TTAAAATA
8933089 TCATTTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAAAATAATTAA
Found at i:8933222 original size:4 final size:4
Alignment explanation
Indices: 8933204--8933244 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
8933194 AAACAATGTT
*
8933204 TTAA TTAA -TAG TTAA TTAA TTAA TT-A TTAA TTAAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT-AA TTAA TT
8933245 TATTTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 5 0.16
4 23 0.72
5 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:8933255 original size:17 final size:16
Alignment explanation
Indices: 8933206--8933244 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
8933196 ACAATGTTTT
8933206 AATTAA-TAGTTAATT-
1 AATTAATTA-TTAATTA
8933221 AATTAATTATTAATTA
1 AATTAATTATTAATTA
8933237 AATTAATT
1 AATTAATT
8933245 TATTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
AATTAATTATTAATTA
Found at i:8986767 original size:2 final size:2
Alignment explanation
Indices: 8986762--8986787 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8986752 ACACACTGAA
8986762 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
8986788 CCCAGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9011777 original size:2 final size:2
Alignment explanation
Indices: 9011770--9011809 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
9011760 CATTCACTCA
*
9011770 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9011810 CTCACCAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9022630 original size:14 final size:15
Alignment explanation
Indices: 9022606--9022634 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9022596 TAACTTCTTT
9022606 CTTTCTCTTTTTCTC
1 CTTTCTCTTTTTCTC
9022621 CTTT-TCTTTTTCTC
1 CTTTCTCTTTTTCTC
9022635 TGCAATGCAC
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
CTTTCTCTTTTTCTC
Found at i:9022903 original size:5 final size:5
Alignment explanation
Indices: 9022893--9022917 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9022883 ATGAAGGTCA
9022893 AAATC AAATC AAATC AAATC AAATC
1 AAATC AAATC AAATC AAATC AAATC
9022918 CCCATTTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATC
Found at i:9025770 original size:5 final size:6
Alignment explanation
Indices: 9025755--9025784 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
9025745 ATTGAAAGTG
9025755 AAAATAA AAAATA AAAATA AAAATA AAAAT
1 AAAAT-A AAAATA AAAATA AAAATA AAAAT
9025785 TTTGGGATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:9034998 original size:12 final size:12
Alignment explanation
Indices: 9034981--9035010 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
9034971 GATTTGGAGT
9034981 TTGGGTTTGCGC
1 TTGGGTTTGCGC
9034993 TTGGGTTTGCGC
1 TTGGGTTTGCGC
9035005 TTGGGT
1 TTGGGT
9035011 CGGGGTGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.43, T:0.43
Consensus pattern (12 bp):
TTGGGTTTGCGC
Found at i:9048457 original size:13 final size:13
Alignment explanation
Indices: 9048437--9048474 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
9048427 TAAACAGAGA
9048437 AGTTTTGTCTTCC
1 AGTTTTGTCTTCC
* *
9048450 ATTTTTGTCTTTC
1 AGTTTTGTCTTCC
9048463 AGTTTTGTCTTC
1 AGTTTTGTCTTC
9048475 GCAAAGGTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.08, C:0.18, G:0.13, T:0.61
Consensus pattern (13 bp):
AGTTTTGTCTTCC
Found at i:9049393 original size:3 final size:3
Alignment explanation
Indices: 9049385--9049418 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
9049375 TACTTAATTT
9049385 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
9049419 CATGCTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:9057174 original size:10 final size:10
Alignment explanation
Indices: 9057156--9057196 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
9057146 ACTTAAAAAA
9057156 AATTA-ATTT
1 AATTATATTT
9057165 AATTATATTT
1 AATTATATTT
*
9057175 AATTAAATTT
1 AATTATATTT
9057185 --TTATATTT
1 AATTATATTT
9057193 AATT
1 AATT
9057197 TTAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 7 0.26
9 5 0.19
10 15 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
AATTATATTT
Found at i:9073102 original size:28 final size:29
Alignment explanation
Indices: 9073071--9073132 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
9073061 TTAAAAAAAC
*
9073071 TTTAAAT-ATTTTT-TATTTTTATATTATT
1 TTTAAATCATTTTTATATTTATAT-TTATT
*
9073099 TTTAATTCATTTTTATATTTATATTTATT
1 TTTAAATCATTTTTATATTTATATTTATT
*
9073128 ATTAA
1 TTTAA
9073133 TTAAAAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 15 0.52
30 8 0.28
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTAAATCATTTTTATATTTATATTTATT
Found at i:9073126 original size:29 final size:28
Alignment explanation
Indices: 9073080--9073134 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
9073070 CTTTAAATAT
* *
9073080 TTTTTATTTTTATATTATTTTTAATTCA
1 TTTTTATATTTATATTATTATTAATTCA
9073108 TTTTTATATTTATATTTATTATTAATT
1 TTTTTATATTTATA-TTATTATTAATT
9073135 AAAAAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTTTATATTTATATTATTATTAATTCA
Found at i:9073454 original size:17 final size:18
Alignment explanation
Indices: 9073434--9073468 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9073424 TAAATATAAA
9073434 AAATATTT-TTTAAAAAT
1 AAATATTTATTTAAAAAT
*
9073451 AAATATTTATTTTAAAAT
1 AAATATTTATTTAAAAAT
9073469 TTTAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATATTTATTTAAAAAT
Found at i:9073474 original size:21 final size:20
Alignment explanation
Indices: 9073449--9073496 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
9073439 TTTTTTAAAA
9073449 ATAAATATTTATTTTAAAATT
1 ATAAATATTTATTTT-AAATT
* *
9073470 TTAAAATTTTTATTTTAAATT
1 AT-AAATATTTATTTTAAATT
9073491 ATAAAT
1 ATAAAT
9073497 TAACACTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 7 0.30
22 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAAATATTTATTTTAAATT
Found at i:9087471 original size:97 final size:101
Alignment explanation
Indices: 9087264--9087482 Score: 270
Period size: 97 Copynumber: 2.2 Consensus size: 101
9087254 TTCTTTAACC
* * * * *
9087264 AGGTAAATATGGTTAC-AAAAAGTTCTCATAGTTCCTTGATCTTAACCCCTTCCTCGTGCTATGA
1 AGGTAAAAATGGCTACAAAAAAATTCCCATAGTTCCTCGATCTTAACCCCTTCCTCGTGCTATGA
* *
9087328 TCCCACTATGCTAGTATCATAATTGCCCTTTTAAAG
66 TCCCACTATACTAGTATCATAATTGCCCTTTCAAAG
*
9087364 AGGTAAAAATGGCT-CAAAAAAATTCCCATAGTTCCTCGATCTTAACTCCTT-C-C-TGCTATGA
1 AGGTAAAAATGGCTACAAAAAAATTCCCATAGTTCCTCGATCTTAACCCCTTCCTCGTGCTATGA
* * * *
9087425 TCCTACTGTACTAGTATCATAATTGTGCC-TTCAATG
66 TCCCACTATACTAGTATCATAATTG-CCCTTTCAAAG
*
9087461 AGGTACAAATGGCTACAAAAAA
1 AGGTAAAAATGGCTACAAAAAA
9087483 GCCTATTCAC
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
97 48 0.47
98 10 0.10
99 2 0.02
100 43 0.42
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (101 bp):
AGGTAAAAATGGCTACAAAAAAATTCCCATAGTTCCTCGATCTTAACCCCTTCCTCGTGCTATGA
TCCCACTATACTAGTATCATAATTGCCCTTTCAAAG
Found at i:9104855 original size:22 final size:22
Alignment explanation
Indices: 9104830--9104876 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
9104820 CTCTATAACT
9104830 AAAAATTAAGAAAATAAAAGAC
1 AAAAATTAAGAAAATAAAAGAC
9104852 AAAAATTAAGAAAATAAAAGAC
1 AAAAATTAAGAAAATAAAAGAC
9104874 AAA
1 AAA
9104877 GATTGCTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (22 bp):
AAAAATTAAGAAAATAAAAGAC
Found at i:9140871 original size:6 final size:6
Alignment explanation
Indices: 9140862--9140895 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
9140852 GAGAGAAACA
* *
9140862 GAGACG GAGACG GAGACG GAGACA GAGACA GAGA
1 GAGACG GAGACG GAGACG GAGACG GAGACG GAGA
9140896 AGAAGATAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.44, T:0.00
Consensus pattern (6 bp):
GAGACG
Found at i:9140877 original size:12 final size:12
Alignment explanation
Indices: 9140859--9140895 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
9140849 AGAGAGAGAA
9140859 ACAGAGACGGAG
1 ACAGAGACGGAG
*
9140871 ACGGAGACGGAG
1 ACAGAGACGGAG
*
9140883 ACAGAGACAGAG
1 ACAGAGACGGAG
9140895 A
1 A
9140896 AGAAGATAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.43, C:0.16, G:0.41, T:0.00
Consensus pattern (12 bp):
ACAGAGACGGAG
Found at i:9160484 original size:2 final size:2
Alignment explanation
Indices: 9160477--9160514 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
9160467 AAACGTAAAA
* *
9160477 AC AC AC AC AG AC AC AC AC AC AC AC AC AC AC GC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9160515 TCATGCTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.47, G:0.05, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9209901 original size:23 final size:23
Alignment explanation
Indices: 9209866--9209910 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 23
9209856 GTGCAGTTGA
*
9209866 TTTTTTTGACTCTTCTTTTCTTTCC
1 TTTTTTT-ACTC-TATTTTCTTTCC
9209891 TTTTTTT-CTCTATTTTCTTT
1 TTTTTTTACTCTATTTTCTTT
9209911 TACATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 3 0.16
25 7 0.37
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTTTACTCTATTTTCTTTCC
Found at i:9216404 original size:16 final size:15
Alignment explanation
Indices: 9216383--9216423 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
9216373 CGACAAAAAT
9216383 AAATAAATTAATAATA
1 AAATAAATTAAT-ATA
9216399 AAATAATATTAATATA
1 AAATAA-ATTAATATA
9216415 AAA-AAATTA
1 AAATAAATTA
9216424 TTAAATACGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.17
15 2 0.08
16 12 0.50
17 6 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATAAATTAATATA
Found at i:9220762 original size:2 final size:2
Alignment explanation
Indices: 9220749--9220782 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9220739 TGGGTACTTT
*
9220749 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9220783 GTTGTTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9233483 original size:49 final size:48
Alignment explanation
Indices: 9233414--9233510 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 48
9233404 CGGGCCAGCC
*
9233414 CGGCGGGCTGCAGGGGGGAACCGGGACTCGTGGGAGCCGGAGGAGGGG
1 CGGCGGGCCGCAGGGGGGAACCGGGACTCGTGGGAGCCGGAGGAGGGG
9233462 CGGCAGGGCCGCAGGGGGGAACCGGGACTCGTGGGAGCCGGAGGAGGGG
1 CGGC-GGGCCGCAGGGGGGAACCGGGACTCGTGGGAGCCGGAGGAGGGG
9233511 GGGGGCAGGG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 4 0.09
49 43 0.91
ACGTcount: A:0.15, C:0.22, G:0.58, T:0.05
Consensus pattern (48 bp):
CGGCGGGCCGCAGGGGGGAACCGGGACTCGTGGGAGCCGGAGGAGGGG
Found at i:9245716 original size:5 final size:5
Alignment explanation
Indices: 9245700--9245729 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
9245690 CAGGGGAATC
9245700 AGAAA A-AAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
9245730 AGTGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:9263275 original size:14 final size:16
Alignment explanation
Indices: 9263258--9263289 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9263248 CAATATTTCC
9263258 AAGC-AAAT-AAACAG
1 AAGCAAAATCAAACAG
9263272 AAGCAAAATCAAACAG
1 AAGCAAAATCAAACAG
9263288 AA
1 AA
9263290 ACTGAGCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 4 0.25
16 8 0.50
ACGTcount: A:0.66, C:0.16, G:0.12, T:0.06
Consensus pattern (16 bp):
AAGCAAAATCAAACAG
Found at i:9268210 original size:4 final size:4
Alignment explanation
Indices: 9268201--9268235 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
9268191 ACAATTTCCA
9268201 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
9268236 TTTTAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:9268739 original size:23 final size:23
Alignment explanation
Indices: 9268713--9268756 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9268703 GATTTAAGTC
9268713 TTATGAGATTCTTTAAAAAAAAT
1 TTATGAGATTCTTTAAAAAAAAT
* *
9268736 TTATGAGATTTTTTTAAAAAA
1 TTATGAGATTCTTTAAAAAAA
9268757 CATCTTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (23 bp):
TTATGAGATTCTTTAAAAAAAAT
Found at i:9275793 original size:49 final size:49
Alignment explanation
Indices: 9275736--9275893 Score: 176
Period size: 50 Copynumber: 3.2 Consensus size: 49
9275726 ATACAAATTT
9275736 AATATATTTATATTTTTTATTATTAATTTTTATATAATATCATCTCTTA
1 AATATATTTATATTTTTTATTATTAATTTTTATATAATATCATCTCTTA
* * * * * * * * *
9275785 AATATATTTTTAATGTCATATATT-TT-ATTTTCATTTATTATTATAATTTTA
1 AATATATTTAT-AT-T-TTTTATTATTAATTTTTATATAATATCAT-CTCTTA
*
9275836 AATATATTTATATTTTTTATTATTAATTTTTATGTAATATCATCTCTTA
1 AATATATTTATATTTTTTATTATTAATTTTTATATAATATCATCTCTTA
9275885 AATATATTT
1 AATATATTT
9275894 TTAATATCAT
Statistics
Matches: 85, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
48 5 0.06
49 26 0.31
50 32 0.38
51 17 0.20
52 5 0.06
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.59
Consensus pattern (49 bp):
AATATATTTATATTTTTTATTATTAATTTTTATATAATATCATCTCTTA
Found at i:9275841 original size:100 final size:98
Alignment explanation
Indices: 9275733--9275949 Score: 373
Period size: 100 Copynumber: 2.2 Consensus size: 98
9275723 AAAATACAAA
9275733 TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCATCTCTTAAATATATTTTTAA
1 TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCATCTCTTAAATATATTTTTAA
*
9275798 TGTCATATATTTTATTTTCATTTATTATTATAAT
66 TATCATATATTTTATTTTCATTTATTATTAT-AT
*
9275832 TTTAAATATATTTATATTTTTTATTATTAATTTTTATGTAATATCATCTCTTAAATATATTTTTA
1 TTT-AATATATTTATATTTTTTATTATTAATTTTTATATAATATCATCTCTTAAATATATTTTTA
*
9275897 ATATCATATATTTTATTTTTATTTATTATTATAT
65 ATATCATATATTTTATTTTCATTTATTATTATAT
*
9275931 TTTTATATA-TTATATTTTT
1 TTTAATATATTTATATTTTT
9275950 GTTTTTTAAT
Statistics
Matches: 113, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
97 10 0.09
98 5 0.04
99 8 0.07
100 90 0.80
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (98 bp):
TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCATCTCTTAAATATATTTTTAA
TATCATATATTTTATTTTCATTTATTATTATAT
Found at i:9275913 original size:21 final size:21
Alignment explanation
Indices: 9275889--9275961 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
9275879 CTCTTAAATA
*
9275889 TATTTTTAATATCATATATTT
1 TATTTTTAATATTATATATTT
*
9275910 TATTTTT-AT-TTAT-TATTA
1 TATTTTTAATATTATATATTT
9275928 TATTTTTATATATTATAT-TTT
1 TATTTTTA-ATATTATATATTT
*
9275949 TGTTTTTTAATAT
1 T-ATTTTTAATAT
9275962 ATTTTTATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 11 0.26
19 3 0.07
20 4 0.09
21 18 0.42
22 7 0.16
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (21 bp):
TATTTTTAATATTATATATTT
Found at i:9275923 original size:15 final size:15
Alignment explanation
Indices: 9275902--9275949 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
9275892 TTTTAATATC
9275902 ATATATTTTATTTTT
1 ATATATTTTATTTTT
*
9275917 ATTTATTATTATATTTTT
1 A--TA-TATTTTATTTTT
*
9275935 ATATATTATATTTTT
1 ATATATTTTATTTTT
9275950 GTTTTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 13 0.45
16 2 0.07
17 2 0.07
18 12 0.41
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
ATATATTTTATTTTT
Found at i:9275926 original size:18 final size:18
Alignment explanation
Indices: 9275905--9275991 Score: 81
Period size: 18 Copynumber: 4.9 Consensus size: 18
9275895 TAATATCATA
*
9275905 TATTTTATTTTTATTTAT
1 TATTATATTTTTATTTAT
9275923 TATTATATTTTTA--TA-
1 TATTATATTTTTATTTAT
* *
9275938 TATTATATTTTTGTTTTT
1 TATTATATTTTTATTTAT
*
9275956 TAATATATTTTTATATTAT
1 TATTATATTTTTAT-TTAT
* *
9275975 ATATTTTATTTTAATTT
1 -TATTATATTTTTATTT
9275992 GNNNNNNNNN
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
15 12 0.22
16 2 0.04
17 1 0.02
18 24 0.44
19 5 0.09
20 11 0.20
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (18 bp):
TATTATATTTTTATTTAT
Found at i:9275947 original size:33 final size:33
Alignment explanation
Indices: 9275802--9275985 Score: 121
Period size: 33 Copynumber: 5.6 Consensus size: 33
9275792 TTTTAATGTC
* * *
9275802 ATATATTTTATTTTCATTTATTATTATAATTTTAA
1 ATATATTATATTTTTATTTATTATTAT-ATTTT-T
*
9275837 ATATATT-TATATTT-TTTATTATTA-ATTTTT
1 ATATATTATATTTTTATTTATTATTATATTTTT
* * * * * * *
9275867 ATGTAATATCATCTCTTAAATATATT-TT-TAATATC
1 ATATATTAT-AT-T-TT-TATTTATTATTATATTTTT
*
9275902 ATATATTTTATTTTTATTTATTATTATATTTTT
1 ATATATTATATTTTTATTTATTATTATATTTTT
* * *
9275935 ATATATTATATTTTTGTTTTTTAATATA-TTTT
1 ATATATTATATTTTTATTTATTATTATATTTTT
9275967 -TATATTATATATTTTATTT
1 ATATATTATAT-TTTTATTT
9275986 TAATTTGNNN
Statistics
Matches: 115, Mismatches: 24, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
30 5 0.04
31 22 0.19
32 17 0.15
33 39 0.34
34 9 0.08
35 18 0.16
36 5 0.04
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.65
Consensus pattern (33 bp):
ATATATTATATTTTTATTTATTATTATATTTTT
Found at i:9276055 original size:26 final size:24
Alignment explanation
Indices: 9276012--9276089 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 24
9276002 NATTATATAA
**
9276012 ATTTTAATTTTTTATATTTTATTTT
1 ATTTTAATTTAAT-TATTTTATTTT
*
9276037 ATTTTAAAATTTAATTATTATATTATAT
1 ATTTT--AATTTAATTATTTTATT-T-T
* *
9276065 ATTTTATTTTAATTTTTTTATTTT
1 ATTTTAATTTAATTATTTTATTTT
9276089 A
1 A
9276090 ATTATAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
24 2 0.05
25 6 0.14
26 22 0.51
27 7 0.16
28 6 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (24 bp):
ATTTTAATTTAATTATTTTATTTT
Found at i:9276100 original size:33 final size:33
Alignment explanation
Indices: 9276009--9276076 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
9275999 NNNNATTATA
* *
9276009 TAAATTTTAATTTTTTATATT-T-TATTTTATTT
1 TAAAATTTAA-TTATTATATTATATATTTTATTT
9276041 TAAAATTTAATTATTATATTATATATTTTATTT
1 TAAAATTTAATTATTATATTATATATTTTATTT
9276074 TAA
1 TAA
9276077 TTTTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 9 0.28
32 10 0.31
33 13 0.41
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (33 bp):
TAAAATTTAATTATTATATTATATATTTTATTT
Found at i:9276100 original size:40 final size:38
Alignment explanation
Indices: 9276024--9276103 Score: 106
Period size: 40 Copynumber: 2.1 Consensus size: 38
9276014 TTTAATTTTT
*
9276024 TATATTTTATTTTATTTTAAAATTTAATTATTATATTA
1 TATATTTTATTTTATTTTAAAATTTAATTATAATATTA
** *
9276062 TATATTTTATTTTAATTTTTTTATTTTAATTATAATATTA
1 TATATTTTATTTT-A-TTTTAAAATTTAATTATAATATTA
9276102 TA
1 TA
9276104 AACTATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
38 13 0.36
39 1 0.03
40 22 0.61
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (38 bp):
TATATTTTATTTTATTTTAAAATTTAATTATAATATTA
Found at i:9278545 original size:12 final size:12
Alignment explanation
Indices: 9278528--9278553 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9278518 CTCGTCATCT
9278528 TGAATCAACGGA
1 TGAATCAACGGA
9278540 TGAATCAACGGA
1 TGAATCAACGGA
9278552 TG
1 TG
9278554 TGATGGATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.19
Consensus pattern (12 bp):
TGAATCAACGGA
Found at i:9291386 original size:150 final size:150
Alignment explanation
Indices: 9291115--9291416 Score: 541
Period size: 150 Copynumber: 2.0 Consensus size: 150
9291105 GATTTCGTAT
*
9291115 TTAATGGATTAGTATTTGGTAATAATTACAGTGATTAAAGGGCAATTAACCTTGATAAAGGAAGT
1 TTAATGGATTAGTATTTGGTAATAATTACAGTGATTAAAGGGCAATTAACCTTGATAAAGGAAAT
* *
9291180 TGAGTATTGTGATTGAAAAGACAGAGCTTACTGAGGTCAATTGCTTTTGTTCAGATTCAATGTGT
66 TGAGTATTGTGATTGAAAAGACAGAGCTTAATAAGGTCAATTGCTTTTGTTCAGATTCAATGTGT
*
9291245 CTCTTCATCAAATCCATTGA
131 CTCTTCATCAAATCCATCGA
9291265 TTAATGGATTAGTATTTGGTAATAATTACAGTGATTAAAGGGCAATTAACCTTGATAAAGGAAAT
1 TTAATGGATTAGTATTTGGTAATAATTACAGTGATTAAAGGGCAATTAACCTTGATAAAGGAAAT
* * *
9291330 TGATTATTGTGATTGAAAAGACGGAGCTTAATAAGTTCAATTGCTTTTGTTCAGATTCAATGTGT
66 TGAGTATTGTGATTGAAAAGACAGAGCTTAATAAGGTCAATTGCTTTTGTTCAGATTCAATGTGT
9291395 CTCTTCATCAAATCCATCGA
131 CTCTTCATCAAATCCATCGA
9291415 TT
1 TT
9291417 TATTAATATG
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
150 145 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (150 bp):
TTAATGGATTAGTATTTGGTAATAATTACAGTGATTAAAGGGCAATTAACCTTGATAAAGGAAAT
TGAGTATTGTGATTGAAAAGACAGAGCTTAATAAGGTCAATTGCTTTTGTTCAGATTCAATGTGT
CTCTTCATCAAATCCATCGA
Found at i:9302656 original size:25 final size:22
Alignment explanation
Indices: 9302619--9302675 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 22
9302609 TTAAAAAACA
9302619 TTATTTTAAAATTTTAAGTAAATTT
1 TTATTTTAAAATTTTAA-T--ATTT
**
9302644 TTATTTTTTAATTTTAATATTT
1 TTATTTTAAAATTTTAATATTT
9302666 TTATTTTAAA
1 TTATTTTAAA
9302676 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 12 0.43
24 1 0.04
25 15 0.54
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATTTTAAAATTTTAATATTT
Found at i:9302851 original size:19 final size:19
Alignment explanation
Indices: 9302824--9302862 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9302814 TAATATAAAA
9302824 TAATAAATAA-TATTTTAAT
1 TAATAAATAATTA-TTTAAT
*
9302843 TAATTAATAATTATTTAAT
1 TAATAAATAATTATTTAAT
9302862 T
1 T
9302863 TAAAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATAAATAATTATTTAAT
Found at i:9304412 original size:11 final size:10
Alignment explanation
Indices: 9304390--9304433 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
9304380 TCTGCACACC
9304390 AAAAAAAAA-
1 AAAAAAAAAG
*
9304399 AAAAAAAGAG
1 AAAAAAAAAG
9304409 AAAAAGAAAAG
1 AAAAA-AAAAG
9304420 AAAAGAAAAAG
1 AAAA-AAAAAG
9304431 AAA
1 AAA
9304434 CCCAGAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.27
10 5 0.17
11 16 0.53
12 1 0.03
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:9304418 original size:16 final size:16
Alignment explanation
Indices: 9304390--9304433 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
9304380 TCTGCACACC
9304390 AAAA-AAAAA-AAAA-
1 AAAAGAAAAAGAAAAG
9304403 AAAGAGAAAAAGAAAAG
1 AAA-AGAAAAAGAAAAG
9304420 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
9304434 CCCAGAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.11
14 1 0.04
15 5 0.19
16 15 0.56
17 3 0.11
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAG
Found at i:9311491 original size:8 final size:8
Alignment explanation
Indices: 9311478--9311504 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9311468 TTCACATTCA
9311478 TTCAATAG
1 TTCAATAG
9311486 TTCAATAG
1 TTCAATAG
9311494 TTCAATAG
1 TTCAATAG
9311502 TTC
1 TTC
9311505 GAAGTTAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (8 bp):
TTCAATAG
Found at i:9313425 original size:19 final size:19
Alignment explanation
Indices: 9313389--9313424 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9313379 ATTTATTAAT
*
9313389 TTTTAAAATAGATATTTTG
1 TTTTAAAATAAATATTTTG
9313408 TTTTAAAA-AAATATTTT
1 TTTTAAAATAAATATTTT
9313425 TTTGTTAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
TTTTAAAATAAATATTTTG
Found at i:9319181 original size:3 final size:3
Alignment explanation
Indices: 9319175--9319201 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9319165 AAAAGAAAAT
9319175 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
9319202 AAGAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9320254 original size:20 final size:19
Alignment explanation
Indices: 9320222--9320266 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
9320212 ATGTGCTTAC
9320222 ATTT-TTAACATAAAAAACA
1 ATTTATTAACATAAAAAA-A
9320241 TATTTATTAA-ATAAAAAAA
1 -ATTTATTAACATAAAAAAA
9320260 ATTTATT
1 ATTTATT
9320267 TATAAACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.29
19 1 0.04
20 12 0.50
21 4 0.17
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTTATTAACATAAAAAAA
Found at i:9326527 original size:15 final size:15
Alignment explanation
Indices: 9326507--9326537 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9326497 TAACATTGCA
9326507 TTTTCTTTCCTTTTT
1 TTTTCTTTCCTTTTT
*
9326522 TTTTCTTTTCTTTTT
1 TTTTCTTTCCTTTTT
9326537 T
1 T
9326538 GTGGGTGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCTTTCCTTTTT
Found at i:9334900 original size:6 final size:6
Alignment explanation
Indices: 9334891--9334931 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
9334881 CGATTGGAAT
* * *
9334891 TAGCAT TAGCAT TAGCAA TAGCAG TAGCAG TAGCAG TAGCA
1 TAGCAG TAGCAG TAGCAG TAGCAG TAGCAG TAGCAG TAGCA
9334932 CCATATTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (6 bp):
TAGCAG
Found at i:9351072 original size:14 final size:14
Alignment explanation
Indices: 9351050--9351083 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9351040 AAATAACAAC
*
9351050 AATTGTCATAAAAA
1 AATTATCATAAAAA
*
9351064 ATTTATCATAAAAA
1 AATTATCATAAAAA
9351078 AATTAT
1 AATTAT
9351084 AAATTAAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
AATTATCATAAAAA
Found at i:9354664 original size:2 final size:2
Alignment explanation
Indices: 9354657--9354683 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9354647 AAGAGATGTA
9354657 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9354684 CATAAATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9355929 original size:31 final size:31
Alignment explanation
Indices: 9355891--9355954 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
9355881 TTCCCCACGT
*
9355891 GCCAGCCACCGCTACTATGGGATCAAGAACG
1 GCCAGCCACCGCGACTATGGGATCAAGAACG
* *
9355922 GCCAGCCACCGCGACTATTGGATCAAGACCG
1 GCCAGCCACCGCGACTATGGGATCAAGAACG
9355953 GC
1 GC
9355955 AAATCAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.34, G:0.27, T:0.12
Consensus pattern (31 bp):
GCCAGCCACCGCGACTATGGGATCAAGAACG
Found at i:9360972 original size:10 final size:10
Alignment explanation
Indices: 9360957--9360990 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
9360947 AATAAAAAAA
9360957 TTATTTAAAT
1 TTATTTAAAT
9360967 TTATTTAAAT
1 TTATTTAAAT
9360977 TT-TTTAAAT
1 TTATTTAAAT
9360986 ATTAT
1 -TTAT
9360991 ATCTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.32
10 14 0.64
11 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATTTAAAT
Found at i:9362781 original size:25 final size:25
Alignment explanation
Indices: 9362753--9362803 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
9362743 TGGGAAAATT
9362753 CATGAATTGTCACAGTCGTAGTTTC
1 CATGAATTGTCACAGTCGTAGTTTC
* *
9362778 CATGAATTTTCACAGTTGTAGTTTC
1 CATGAATTGTCACAGTCGTAGTTTC
9362803 C
1 C
9362804 CTTTATGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (25 bp):
CATGAATTGTCACAGTCGTAGTTTC
Found at i:9366925 original size:35 final size:35
Alignment explanation
Indices: 9366840--9366925 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 35
9366830 AATTTAGGTA
*
9366840 AAACAATTAAAAGAAGTGAGTTACTACTCCATATG
1 AAACAATTAAAATAAGTGAGTTACTACTCCATATG
* * * *
9366875 AAACAACTAAAATAAGTGGAG-TATTATTCCATGTG
1 AAACAATTAAAATAAGT-GAGTTACTACTCCATATG
*
9366910 AAACAATTAATATAAG
1 AAACAATTAAAATAAG
9366926 CAGAACAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 40 0.93
36 3 0.07
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.27
Consensus pattern (35 bp):
AAACAATTAAAATAAGTGAGTTACTACTCCATATG
Found at i:9372580 original size:2 final size:2
Alignment explanation
Indices: 9372573--9372601 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9372563 CATTCATCTT
9372573 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 T
9372602 AGCTTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9372638 original size:12 final size:14
Alignment explanation
Indices: 9372604--9372642 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
9372594 CTCTCTCTAG
*
9372604 CTTTCTTTTCTTTT
1 CTTTCTTCTCTTTT
9372618 CTTTCTTCTCTTTT
1 CTTTCTTCTCTTTT
9372632 -TTT-TTCTCTTT
1 CTTTCTTCTCTTT
9372643 CTTGGAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 8 0.33
13 3 0.12
14 13 0.54
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
CTTTCTTCTCTTTT
Found at i:9386362 original size:25 final size:23
Alignment explanation
Indices: 9386325--9386374 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
9386315 TATATGAGTA
9386325 AATAAAATATAAT-TGAAATAAAT
1 AATAAAATATAATAT-AAATAAAT
9386348 AATAATAATAATAATATAAATAAAT
1 AATAA-AAT-ATAATATAAATAAAT
9386373 AA
1 AA
9386375 AAACTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 5 0.21
24 3 0.12
25 15 0.62
26 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
AATAAAATATAATATAAATAAAT
Found at i:9386462 original size:18 final size:19
Alignment explanation
Indices: 9386429--9386478 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
9386419 ATGAGTAGAG
**
9386429 AAATTTAAAAAATAAA-AA
1 AAATTTAAAATTTAAATAA
9386447 AAATTTAAAATTTAAATAA
1 AAATTTAAAATTTAAATAA
*
9386466 AATATATAAAATT
1 AA-ATTTAAAATT
9386479 ATTTTATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 14 0.52
19 4 0.15
20 9 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATTTAAAATTTAAATAA
Found at i:9387696 original size:21 final size:23
Alignment explanation
Indices: 9387672--9387715 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
9387662 CATTTTATAT
9387672 TTATATAATA-TTT-TTAAATAA
1 TTATATAATATTTTATTAAATAA
* *
9387693 TTATTTATTATTTTATTAAATAA
1 TTATATAATATTTTATTAAATAA
9387716 ATATGTCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATATAATATTTTATTAAATAA
Found at i:9389789 original size:41 final size:41
Alignment explanation
Indices: 9389702--9389789 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
9389692 TTGTCCAAAA
* * * * * *
9389702 AAAATATCTTAATGAAATGTATCAATTGGTTGGGTCAAATC
1 AAAATGTCATAATGAAATATACCAATTGATTAGGTCAAATC
9389743 AAAATGTCATAATGAAATATACCAATTGATTAGGTCAAATC
1 AAAATGTCATAATGAAATATACCAATTGATTAGGTCAAATC
9389784 AAAATG
1 AAAATG
9389790 CCTCAATTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (41 bp):
AAAATGTCATAATGAAATATACCAATTGATTAGGTCAAATC
Found at i:9390969 original size:17 final size:19
Alignment explanation
Indices: 9390941--9390976 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9390931 ATGTTCATCA
9390941 TTATTATTATTTCT-TTTT
1 TTATTATTATTTCTATTTT
9390959 TTATT-TTATTTCTATTTT
1 TTATTATTATTTCTATTTT
9390977 AACTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (19 bp):
TTATTATTATTTCTATTTT
Found at i:9395822 original size:15 final size:15
Alignment explanation
Indices: 9395794--9395860 Score: 80
Period size: 15 Copynumber: 4.4 Consensus size: 15
9395784 CGTTTGGTAC
9395794 ATTACAATGTAATGTG
1 ATTACAA-GTAATGTG
*
9395810 ATTACAGGTAATGTG
1 ATTACAAGTAATGTG
**
9395825 ATTGTAAGTAATGTG
1 ATTACAAGTAATGTG
* *
9395840 ATTGCAAGCAATGTG
1 ATTACAAGTAATGTG
9395855 ATTACA
1 ATTACA
9395861 GGGAAAATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
15 38 0.86
16 6 0.14
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.34
Consensus pattern (15 bp):
ATTACAAGTAATGTG
Found at i:9396250 original size:6 final size:6
Alignment explanation
Indices: 9396192--9396369 Score: 58
Period size: 6 Copynumber: 30.0 Consensus size: 6
9396182 TTTAATATCA
* *
9396192 TATATT TAT-TT T-TATT TAT-TAT TATA-A TATTTT TATATT T-TATT
1 TATATT TATATT TATATT TATAT-T TATATT TATATT TATATT TATATT
* * * * *
9396236 TTTA-A TATATT TATATT TATA-T TATAATT TTTATA TA-ATAT CATATT
1 TATATT TATATT TATATT TATATT TAT-ATT TATATT TATAT-T TATATT
** *
9396283 T-TAAA TATATT TTTAATGT CATATATT TAT-TT T-TATT TATTATT ATAATATT
1 TATATT TATATT TAT-AT-T --TATATT TATATT TATATT TA-TATT -T-ATATT
* *
9396335 TATATAT T-TATT TTTA-A TATATT TATATT TATATT
1 TATAT-T TATATT TATATT TATATT TATATT TATATT
9396370 ATTAAATTTT
Statistics
Matches: 126, Mismatches: 22, Indels: 48
0.64 0.11 0.24
Matches are distributed among these distances:
4 2 0.02
5 38 0.30
6 60 0.48
7 14 0.11
8 7 0.06
9 3 0.02
10 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:9396290 original size:112 final size:113
Alignment explanation
Indices: 9396014--9396460 Score: 727
Period size: 112 Copynumber: 4.0 Consensus size: 113
9396004 AAAATATAAG
*
9396014 TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAA
1 TTTAATATATTTATA-TTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAA
9396079 TATCATATATTTATTTTTATTTA-T-TTATAATATTT-TATATTTTATT
65 TATCATATATTTATTTTTATTTATTATTATAATATTTATATATTTTATT
*
9396125 TTTAATATA-TTATATTT-TATTATTAATTTTTATATAATATCCTTTCTTAAATATATTTTTAAT
1 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
*
9396188 ATCATATATTTATTTTTATTTATTATTATAATATTTTTATATTTTATT
66 ATCATATATTTATTTTTATTTATTATTATAATATTTATATATTTTATT
9396236 TTTAATATATTTATATTTATATTA-TAATTTTTATATAATATCATATT-TTAAATATATTTTTAA
1 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCAT-TTCTTAAATATATTTTTAA
*
9396299 TGTCATATATTTATTTTTATTTATTATTATAATATTTATATA-TTTATT
65 TATCATATATTTATTTTTATTTATTATTATAATATTTATATATTTTATT
*
9396347 TTTAATATATTTATATTTATATTATTAAATTTTATATAATATCATATT-TTAAATATA-TTTTAA
1 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCAT-TTCTTAAATATATTTTTAA
*
9396410 TGTCATATATTTTATTTTTATTTATTATTATAAT-TTTATATATTTTATT
65 TATCATATA-TTTATTTTTATTTATTATTATAATATTTATATATTTTATT
9396459 TT
1 TT
9396461 CATTTCTTTA
Statistics
Matches: 322, Mismatches: 5, Indels: 17
0.94 0.01 0.05
Matches are distributed among these distances:
108 67 0.21
109 4 0.01
110 16 0.05
111 82 0.25
112 146 0.45
113 7 0.02
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (113 bp):
TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
ATCATATATTTATTTTTATTTATTATTATAATATTTATATATTTTATT
Found at i:9396346 original size:23 final size:22
Alignment explanation
Indices: 9396316--9396384 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 22
9396306 TATTTATTTT
9396316 TATTTATTATTATAATATTTATA
1 TATTTATTATTA-AATATTTATA
*
9396339 TATTTATTTTTAATATATTTATA
1 TATTTATTATTAA-ATATTTATA
9396362 T-TTATATTATTAAAT-TTTATA
1 TATT-TATTATTAAATATTTATA
9396383 TA
1 TA
9396385 ATATCATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 7 0.17
22 5 0.12
23 29 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTATTATTAAATATTTATA
Found at i:9396395 original size:48 final size:47
Alignment explanation
Indices: 9396303--9396406 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 47
9396293 TTTTAATGTC
* *
9396303 ATATATTTATTTTTATTTATTATTATAATATTTATATATTTATTTTTA
1 ATATATTTATATTTA-TTATTATTATAATATTTATATATTTATTTTAA
9396351 ATATATTTATATTTA-TATTATTA-AAT-TTTATATAATATCATATTTTAA
1 ATATATTTATATTTATTATTATTATAATATTTATAT-AT-T--TATTTTAA
9396399 ATATATTT
1 ATATATTT
9396407 TAATGTCATA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
44 7 0.14
45 5 0.10
46 9 0.18
48 29 0.58
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.62
Consensus pattern (47 bp):
ATATATTTATATTTATTATTATTATAATATTTATATATTTATTTTAA
Found at i:9396451 original size:10 final size:9
Alignment explanation
Indices: 9396201--9396457 Score: 74
Period size: 9 Copynumber: 29.7 Consensus size: 9
9396191 ATATATTTAT
*
9396201 TTTTATTTA
1 TTTTATATA
9396210 TTATTATAATA
1 TT-TTAT-ATA
9396221 TTTT-TATA
1 TTTTATATA
9396229 TTTTAT-T-
1 TTTTATATA
*
9396236 TTTAATATA
1 TTTTATATA
*
9396245 TTTATATTTA
1 TTT-TATATA
*
9396255 TATTATA-A
1 TTTTATATA
9396263 TTTT-TATA
1 TTTTATATA
**
9396271 TAATATCATA
1 TTTTAT-ATA
9396281 TTTTAAATATA
1 TTTT--ATATA
9396292 TTTT-TA-A
1 TTTTATATA
* *
9396299 TGTCATATA
1 TTTTATATA
9396308 --TT-TAT-
1 TTTTATATA
*
9396313 TTTTATTTA
1 TTTTATATA
9396322 TTATTATA-A
1 TT-TTATATA
9396331 TATTTATATA
1 T-TTTATATA
9396341 -TTTAT-T-
1 TTTTATATA
*
9396347 TTTAATATA
1 TTTTATATA
*
9396356 TTTATATTTA
1 TTT-TATATA
* *
9396366 TATTATTAAA
1 TTTTA-TATA
9396376 TTTTATATA
1 TTTTATATA
*
9396385 --ATATCATA
1 TTTTAT-ATA
*
9396393 TTTTAAATA
1 TTTTATATA
9396402 TATTT-TA-A
1 T-TTTATATA
* *
9396410 TGTCATATA
1 TTTTATATA
9396419 -TTT-TAT-
1 TTTTATATA
*
9396425 TTTTATTTA
1 TTTTATATA
9396434 TTATTATA-A
1 TT-TTATATA
9396443 TTTTATATA
1 TTTTATATA
9396452 TTTTAT
1 TTTTAT
9396458 TTTCATTTCT
Statistics
Matches: 178, Mismatches: 34, Indels: 72
0.63 0.12 0.25
Matches are distributed among these distances:
6 3 0.02
7 28 0.16
8 43 0.24
9 47 0.26
10 44 0.25
11 11 0.06
12 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTATATA
Found at i:9396489 original size:39 final size:38
Alignment explanation
Indices: 9396398--9396585 Score: 122
Period size: 39 Copynumber: 4.9 Consensus size: 38
9396388 TCATATTTTA
* * *
9396398 AATATATTTTAATGTCATATATTTTA--TT-TTTATTT
1 AATATATTTTTATATTATATATTTTATTTTATTTATTT
* * * *
9396433 -AT-TATTATAATTTTATATATTTTATTTTCATTTCTTT
1 AATATATTTTTATATTATATATTTTATTTT-ATTTATTT
*
9396470 AATATATTTTTATATTATATATTTTATTTTAATTTGTTTT
1 AATATATTTTTATATTATATATTTTATTTT-ATTT-ATTT
* * *
9396510 ATCTATATTTATAAATATTA-AT-TTTTATATTTTTTTATTT
1 A-ATATATTT-T-TATATTATATATTTTAT-TTTATTTATTT
* * *
9396550 AATTTTATTCTTATATTATATA-TTTATTTTAATTAT
1 AA-TATATTTTTATATTATATATTTTATTTTATTTAT
9396586 AATATTATAA
Statistics
Matches: 120, Mismatches: 19, Indels: 25
0.73 0.12 0.15
Matches are distributed among these distances:
33 19 0.16
34 2 0.02
35 2 0.02
37 6 0.05
38 15 0.12
39 35 0.29
40 13 0.11
41 16 0.13
42 6 0.05
43 6 0.05
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (38 bp):
AATATATTTTTATATTATATATTTTATTTTATTTATTT
Found at i:9396502 original size:30 final size:28
Alignment explanation
Indices: 9396462--9396582 Score: 60
Period size: 26 Copynumber: 4.4 Consensus size: 28
9396452 TTTTATTTTC
*
9396462 ATTTCTTTAATATATTTTTATATTATAT
1 ATTTTTTTAATATATTTTTATATTATAT
* *
9396490 ATTTTATTT--TA-ATTTGT-T-TTATCT
1 ATTTT-TTTAATATATTTTTATATTATAT
* *
9396514 ATATTTATAAATATTAATTTTTATATT-T-T
1 AT-TTTTTTAATA-T-ATTTTTATATTATAT
* * *
9396543 -TTTATTTAATTTTATTCTTATATTATAT
1 ATTTTTTTAA-TATATTTTTATATTATAT
9396571 ATTTATTTTAAT
1 ATTT-TTTTAAT
9396583 TATAATATTA
Statistics
Matches: 67, Mismatches: 12, Indels: 27
0.63 0.11 0.25
Matches are distributed among these distances:
24 8 0.12
25 4 0.06
26 17 0.25
27 9 0.13
28 7 0.10
29 13 0.19
30 7 0.10
31 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (28 bp):
ATTTTTTTAATATATTTTTATATTATAT
Found at i:9398273 original size:14 final size:14
Alignment explanation
Indices: 9398248--9398284 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
9398238 AACCATATAG
9398248 AAATCAATTGCAGTC
1 AAATC-ATTGCAGTC
9398263 AAATCATTGCAGTC
1 AAATCATTGCAGTC
9398277 AAATCATT
1 AAATCATT
9398285 CATGGGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (14 bp):
AAATCATTGCAGTC
Found at i:9413471 original size:33 final size:31
Alignment explanation
Indices: 9413426--9413496 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 31
9413416 TTTAAAATAA
*
9413426 AAAATATTAAAATAAAATATATAATATAAGAATC
1 AAAA-ATTAAAATAAAATA-A-AATATAAAAATC
*
9413460 AAAAATTAAAATAAAATAAAATATAAAAATT
1 AAAAATTAAAATAAAATAAAATATAAAAATC
9413491 AAAAAT
1 AAAAAT
9413497 ATATAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
31 16 0.46
32 1 0.03
33 14 0.40
34 4 0.11
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (31 bp):
AAAAATTAAAATAAAATAAAATATAAAAATC
Found at i:9413478 original size:24 final size:23
Alignment explanation
Indices: 9413446--9413529 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 23
9413436 AATAAAATAT
*
9413446 ATAATATAAGAATCAAAAATTAAA
1 ATAAAATAAGAAT-AAAAATTAAA
*
9413470 ATAAAATAAAATATAAAAATTAAAAA
1 ATAAAATAAGA-ATAAAAATT--AAA
9413496 TATATAATATAAGTAA-AAAAATTAAA
1 -ATA-AA-ATAAG-AATAAAAATTAAA
9413522 ATAAAATA
1 ATAAAATA
9413530 TATAATATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
23 3 0.06
24 18 0.36
25 5 0.10
26 6 0.12
27 3 0.06
28 9 0.18
29 5 0.10
30 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.26
Consensus pattern (23 bp):
ATAAAATAAGAATAAAAATTAAA
Found at i:9413552 original size:32 final size:32
Alignment explanation
Indices: 9413492--9413586 Score: 97
Period size: 32 Copynumber: 3.0 Consensus size: 32
9413482 ATAAAAATTA
*
9413492 AAAATATATAATATAAGTAAAA--AAATTAAAAT
1 AAAATATATAATATAA--AAAATTATATTAAAAT
9413524 AAAATATATAATATAAAAAATTATATTAAAAAT
1 AAAATATATAATATAAAAAATTATATT-AAAAT
* * * *
9413557 AAAA-ATAAAATATATAAGATTATAATAAAA
1 AAAATATATAATATAAAAAATTATATTAAAA
9413587 AATAAAAATC
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
30 4 0.07
31 4 0.07
32 38 0.69
33 9 0.16
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (32 bp):
AAAATATATAATATAAAAAATTATATTAAAAT
Found at i:9413553 original size:27 final size:26
Alignment explanation
Indices: 9413434--9413566 Score: 105
Period size: 27 Copynumber: 5.1 Consensus size: 26
9413424 AAAAAATATT
* * *
9413434 AAAA-TAAAATATATAATATAAGAATCA
1 AAAATTAAAATA-AAAATATAA-TATAA
*
9413461 AAAATTAAAAT-AAAATAAAATAT-A
1 AAAATTAAAATAAAAATATAATATAA
*
9413485 AAAATTAAAAATATATAATATAAGTA-AA
1 AAAATT-AAAATA-AAAATATAA-TATAA
9413513 AAAATTAAAATAAAATATATAATATAA
1 AAAATTAAAATAAAA-ATATAATATAA
* * *
9413540 AAAATTATATTAAAAATA-AAAATAA
1 AAAATTAAAATAAAAATATAATATAA
9413565 AA
1 AA
9413567 TATATAAGAT
Statistics
Matches: 89, Mismatches: 9, Indels: 18
0.77 0.08 0.16
Matches are distributed among these distances:
24 7 0.08
25 15 0.17
26 14 0.16
27 38 0.43
28 15 0.17
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.27
Consensus pattern (26 bp):
AAAATTAAAATAAAAATATAATATAA
Found at i:9413560 original size:5 final size:5
Alignment explanation
Indices: 9413418--9413529 Score: 52
Period size: 5 Copynumber: 21.4 Consensus size: 5
9413408 ATGTTATATT
* * *
9413418 TAAAA TAAAA -AATAT TAAAA TAAAA T-ATA TAATA TAAGAA TCAAAAA
1 TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA TAA-AA T--AAAA
* * *
9413465 TTAAAA TAAAA TAAAA TATAA -AAAT TAAAAA TATATAA TATAAG TAAAA
1 -TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA TA-A-AA TA-AAA TAAAA
*
9413514 -AAAT TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TA
9413530 TATAATATAA
Statistics
Matches: 83, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
4 10 0.12
5 46 0.55
6 16 0.19
7 8 0.10
8 3 0.04
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.27
Consensus pattern (5 bp):
TAAAA
Found at i:9413560 original size:47 final size:46
Alignment explanation
Indices: 9413467--9413568 Score: 120
Period size: 47 Copynumber: 2.2 Consensus size: 46
9413457 ATCAAAAATT
* * *
9413467 AAAATAAAATAAAATATAAAAATTAAAAATATATAATATAAGTAAA
1 AAAATAAAATAAAATATAAAAATAAAAAATATATAATAAAAATAAA
* *
9413513 AAAATTAAAATAAAATATATAATATAAAAAAT-TATATTAAAAAT--A
1 AAAA-TAAAATAAAATATA-AAAATAAAAAATATATAATAAAAATAAA
9413558 AAAATAAAATA
1 AAAATAAAATA
9413569 TATAAGATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
44 7 0.14
45 5 0.10
46 4 0.08
47 23 0.47
48 10 0.20
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (46 bp):
AAAATAAAATAAAATATAAAAATAAAAAATATATAATAAAAATAAA
Found at i:9413587 original size:32 final size:33
Alignment explanation
Indices: 9413519--9413664 Score: 109
Period size: 33 Copynumber: 4.4 Consensus size: 33
9413509 TAAAAAAATT
* * *
9413519 AAAATAAAATATATAATATAAAAAATTAT-ATTA
1 AAAATAAAA-ATAAAATATATAAAATTATAATAA
*
9413552 AAAATAAAAATAAAATATATAAGATTATAATAA
1 AAAATAAAAATAAAATATATAAAATTATAATAA
* * * *
9413585 AAAATAAAAATCAAACATATGACATTA-AAT-A
1 AAAATAAAAATAAAATATATAAAATTATAATAA
* ** *
9413616 TATTTAAAAAATAATATTATATAAAAATTAATAATAA
1 AAAAT-AAAAATAA-AATATAT-AAAATT-ATAATAA
*
9413653 AAAATATAAATA
1 AAAATAAAAATA
9413665 TATTATACTT
Statistics
Matches: 86, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
31 3 0.03
32 26 0.30
33 40 0.47
34 4 0.05
35 1 0.01
36 9 0.10
37 3 0.03
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.30
Consensus pattern (33 bp):
AAAATAAAAATAAAATATATAAAATTATAATAA
Found at i:9413846 original size:20 final size:20
Alignment explanation
Indices: 9413823--9413863 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9413813 TTCTGTAATC
*
9413823 ACATTACTTACAATCATATT
1 ACATTACGTACAATCATATT
9413843 ACATTACGTACAATCATATT
1 ACATTACGTACAATCATATT
9413863 A
1 A
9413864 TATTGTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (20 bp):
ACATTACGTACAATCATATT
Found at i:9418319 original size:40 final size:40
Alignment explanation
Indices: 9418256--9418341 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
9418246 TAATAGCCCA
9418256 AAAG-TAAGCTGAAGTTTCATTTATTGTTGCAAATGCTAC
1 AAAGCTAAGCTGAAGTTTCATTTATTGTTGCAAATGCTAC
*
9418295 AAAGCTAAGCTGAAGTTTCTTTTATTGTTGCAAATGCTAC
1 AAAGCTAAGCTGAAGTTTCATTTATTGTTGCAAATGCTAC
9418335 -AAGCTAA
1 AAAGCTAA
9418342 TAACAAACAG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
39 11 0.24
40 34 0.76
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (40 bp):
AAAGCTAAGCTGAAGTTTCATTTATTGTTGCAAATGCTAC
Found at i:9427209 original size:41 final size:41
Alignment explanation
Indices: 9427147--9427257 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
9427137 AGAGTCTGAG
*
9427147 AGGATGGTTGAAACT-GTGATTAGCTTAGGACAGGGCTGTAA
1 AGGATGGTTTAAACTAG-GATTAGCTTAGGACAGGGCTGTAA
* * **
9427188 AGGATAGTTTAAACTAGGATTAGCTTAGGATAGGGCTGTGG
1 AGGATGGTTTAAACTAGGATTAGCTTAGGACAGGGCTGTAA
* * *
9427229 AGGATGGTTTAAACCAGGACTAGCATAGG
1 AGGATGGTTTAAACTAGGATTAGCTTAGG
9427258 GTAGTTGACC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 59 0.98
42 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (41 bp):
AGGATGGTTTAAACTAGGATTAGCTTAGGACAGGGCTGTAA
Found at i:9433692 original size:22 final size:24
Alignment explanation
Indices: 9433640--9433694 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 24
9433630 CCTTTCAAAA
* *
9433640 ATTTTAAAATATTTTATATATAAT
1 ATTTTTAAATATTTAATATATAAT
* *
9433664 ATATTTAAATA-TTAAT-TATATT
1 ATTTTTAAATATTTAATATATAAT
9433686 ATTTTTAAA
1 ATTTTTAAA
9433695 AAAGTAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 13 0.50
23 4 0.15
24 9 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTTTAAATATTTAATATATAAT
Found at i:9441042 original size:25 final size:25
Alignment explanation
Indices: 9440979--9441068 Score: 65
Period size: 25 Copynumber: 3.5 Consensus size: 25
9440969 NNNNNNNNNA
* * *
9440979 TTAATTTTTATATAATATCATTTCT
1 TTAATTTTTATTTAATATCATATAT
* * *
9441004 TAAATATATT-TTTAATGTCATATAT
1 TTAAT-TTTTATTTAATATCATATAT
* *
9441029 TTAATTTTTATTTATTATTATAATAT
1 TTAATTTTTATTTAATATCAT-ATAT
*
9441055 TTTATATTTTATTT
1 TTAAT-TTTTATTT
9441069 TTAATATGTT
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
24 3 0.06
25 27 0.55
26 11 0.22
27 8 0.16
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (25 bp):
TTAATTTTTATTTAATATCATATAT
Found at i:9441065 original size:23 final size:23
Alignment explanation
Indices: 9441032--9441094 Score: 80
Period size: 22 Copynumber: 2.8 Consensus size: 23
9441022 CATATATTTA
9441032 ATTTT-TA-TTTATTATTATAAT
1 ATTTTATATTTTATTATTATAAT
9441053 ATTTTATATTTTATT-TT-TAAT
1 ATTTTATATTTTATTATTATAAT
9441074 ATGTTTATATTTATATTATTA
1 AT-TTTATATTT-TATTATTA
9441095 ATTTTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
21 11 0.31
22 13 0.36
23 10 0.28
24 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTTTATATTTTATTATTATAAT
Found at i:9441095 original size:23 final size:22
Alignment explanation
Indices: 9441032--9441104 Score: 91
Period size: 21 Copynumber: 3.4 Consensus size: 22
9441022 CATATATTTA
9441032 ATTTT-TATTTATTATTA-TAAT
1 ATTTTATATTTA-TATTATTAAT
*
9441053 ATTTTATATTT-TATTTTTAAT
1 ATTTTATATTTATATTATTAAT
9441074 ATGTTTATATTTATATTATTAAT
1 AT-TTTATATTTATATTATTAAT
9441097 -TTTTATAT
1 ATTTTATAT
9441105 AATATCATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
20 4 0.09
21 18 0.39
22 15 0.33
23 9 0.20
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (22 bp):
ATTTTATATTTATATTATTAAT
Found at i:9442797 original size:107 final size:109
Alignment explanation
Indices: 9442618--9442827 Score: 284
Period size: 107 Copynumber: 1.9 Consensus size: 109
9442608 TATAAAAAAT
* *
9442618 TTTAAATAAATTTAAATAAAAAATTAAATTAGATAAGAGTTGAATAATTATAAAAAAATGTGTAT
1 TTTAAATAAATTTAAATAAAAAAGTAAATTAGATAAAAGTTGAATAATTATAAAAAAATGTGTAT
* * * * *
9442683 TTGTAAATTTTGAAAGTTGTAACTAAATTAATATATTTTACTAA
66 TTATAAATTATGAAAGTTATAACTAAATCAACATATTTTACTAA
* * *
9442727 TTTAAGTAAATTTAAAT-AAAAAGTAAATT-GGTAAAAGTTGAATAATT-TCAAAAGAATGTGT-
1 TTTAAATAAATTTAAATAAAAAAGTAAATTAGATAAAAGTTGAATAATTAT-AAAAAAATGTGTA
9442788 TTGTATAAATTATGAAAGTTATAACTAAATCAACATATTT
65 TT-TATAAATTATGAAAGTTATAACTAAATCAACATATTT
9442828 AATTATTTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
106 3 0.03
107 59 0.66
108 11 0.12
109 16 0.18
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (109 bp):
TTTAAATAAATTTAAATAAAAAAGTAAATTAGATAAAAGTTGAATAATTATAAAAAAATGTGTAT
TTATAAATTATGAAAGTTATAACTAAATCAACATATTTTACTAA
Found at i:9444502 original size:18 final size:19
Alignment explanation
Indices: 9444461--9444507 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
9444451 TATTCATAAT
*
9444461 CATTT-GAAGATTGGGAGA
1 CATTTCGAAGATTGAGAGA
9444479 CA-TTCGAAGATTGAGAG-
1 CATTTCGAAGATTGAGAGA
*
9444496 CATTTCGGAGAT
1 CATTTCGAAGAT
9444508 CTAGAAGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.28
Consensus pattern (19 bp):
CATTTCGAAGATTGAGAGA
Found at i:9444534 original size:18 final size:18
Alignment explanation
Indices: 9444511--9444550 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
9444501 CGGAGATCTA
9444511 GAAGAGTAGAAGATTTCT
1 GAAGAGTAGAAGATTTCT
9444529 GAAGAGTAGAAGATTTCT
1 GAAGAGTAGAAGATTTCT
9444547 GAAG
1 GAAG
9444551 TAAAGATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.25
Consensus pattern (18 bp):
GAAGAGTAGAAGATTTCT
Found at i:9444842 original size:27 final size:27
Alignment explanation
Indices: 9444800--9444857 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
9444790 TTGAATTTGT
9444800 GACTTCAACTCATGAAGACCATATCAA
1 GACTTCAACTCATGAAGACCATATCAA
*
9444827 GACTTCAACTCGTGAAGACCATATCAA
1 GACTTCAACTCATGAAGACCATATCAA
9444854 GACT
1 GACT
9444858 AAGTCTAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (27 bp):
GACTTCAACTCATGAAGACCATATCAA
Found at i:9444855 original size:72 final size:76
Alignment explanation
Indices: 9444758--9444910 Score: 206
Period size: 80 Copynumber: 2.0 Consensus size: 76
9444748 GCGAAGTTAG
* *
9444758 TTCAACTTGTGAAGATCATACCAAGACTAAG-T-T-TGAA-TTTGTGACTTCAACTCATGAAGAC
1 TTCAACTCGTGAAGACCATACCAAGACTAAGCTATATGAAGTTTGTGACTTCAACTCATGAAGAC
9444819 CATATCAAGAC
66 CATATCAAGAC
*
9444830 TTCAACTCGTGAAGACCATATCAAGACTAAGTCTAAAGTATGAAGTTTGTGACTTCAACTCATGA
1 TTCAACTCGTGAAGACCATACCAAGACTAAG-CT--A-TATGAAGTTTGTGACTTCAACTCATGA
*
9444895 AGATCATATCAAGAC
62 AGACCATATCAAGAC
9444910 T
1 T
9444911 AAGTCTGAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
72 28 0.41
74 1 0.01
78 1 0.01
79 4 0.06
80 35 0.51
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (76 bp):
TTCAACTCGTGAAGACCATACCAAGACTAAGCTATATGAAGTTTGTGACTTCAACTCATGAAGAC
CATATCAAGAC
Found at i:9445081 original size:44 final size:44
Alignment explanation
Indices: 9445029--9445179 Score: 141
Period size: 44 Copynumber: 3.5 Consensus size: 44
9445019 CAACTTGTCA
*
9445029 AGACCATATCAAGACTAAGTTTGAATTTATGACTTCAACTCGTG
1 AGACCATATCAAGACTAAGTCTGAATTTATGACTTCAACTCGTG
* *
9445073 AGACCATATCAAGACTAAGTCTGAATTCTTAAGAC--GAA---GTG
1 AGACCATATCAAGACTAAGTCTGAA-T-TTATGACTTCAACTCGTG
* * * * * *
9445114 AAGATCATACCAAGACTAAGTCTAAATTTGTGAATTCAACTCATG
1 -AGACCATATCAAGACTAAGTCTGAATTTATGACTTCAACTCGTG
*
9445159 AAAGCCATATCAAGACTAAGT
1 AGA-CCATATCAAGACTAAGT
9445180 TTAGATTCGT
Statistics
Matches: 84, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
40 4 0.05
41 4 0.05
42 24 0.29
44 28 0.33
45 18 0.21
46 6 0.07
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (44 bp):
AGACCATATCAAGACTAAGTCTGAATTTATGACTTCAACTCGTG
Found at i:9464030 original size:13 final size:13
Alignment explanation
Indices: 9464012--9464045 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
9464002 AGGTCTTAAG
9464012 CTCTTCTTTTGTT
1 CTCTTCTTTTGTT
*
9464025 CTCTTCTCTTGTT
1 CTCTTCTTTTGTT
9464038 CT-TTCTTT
1 CTCTTCTTT
9464046 CTCTACTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.00, C:0.26, G:0.06, T:0.68
Consensus pattern (13 bp):
CTCTTCTTTTGTT
Found at i:9467935 original size:2 final size:2
Alignment explanation
Indices: 9467928--9467954 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9467918 TTAATTTGGG
9467928 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9467955 AAAGATCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9495311 original size:22 final size:22
Alignment explanation
Indices: 9495261--9495321 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
9495251 TATATTATAT
9495261 TTATTAATTTTAATTATATAAAAAA
1 TTATT-ATTTTAA--ATATAAAAAA
9495286 --ATTATTTTAAATATAAAAAA
1 TTATTATTTTAAATATAAAAAA
* *
9495306 TTATTAATTTATATAT
1 TTATTATTTTAAATAT
9495322 CGTATTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 10 0.31
22 19 0.59
23 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATTATTTTAAATATAAAAAA
Found at i:9495319 original size:20 final size:20
Alignment explanation
Indices: 9495266--9495320 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
9495256 TATATTTATT
9495266 AATT-TTAA-TTATATAAAAA
1 AATTATTAATTTATAT-AAAA
*
9495285 AATTATT--TTAAATATAAAA
1 AATTATTAATT-TATATAAAA
9495304 AATTATTAATTTATATA
1 AATTATTAATTTATATA
9495321 TCGTATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
19 16 0.55
20 11 0.38
21 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTATTAATTTATATAAAA
Found at i:9498385 original size:11 final size:11
Alignment explanation
Indices: 9498369--9498393 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9498359 TGAATCTGAT
9498369 GCATTGGTTAG
1 GCATTGGTTAG
9498380 GCATTGGTTAG
1 GCATTGGTTAG
9498391 GCA
1 GCA
9498394 CATATTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.12, G:0.36, T:0.32
Consensus pattern (11 bp):
GCATTGGTTAG
Found at i:9501483 original size:7 final size:7
Alignment explanation
Indices: 9501471--9501495 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9501461 CTGCAGGCTT
9501471 TTTTTTG
1 TTTTTTG
9501478 TTTTTTG
1 TTTTTTG
9501485 TTTTTTG
1 TTTTTTG
9501492 TTTT
1 TTTT
9501496 CAAAATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:9506289 original size:15 final size:15
Alignment explanation
Indices: 9506266--9506306 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9506256 ATTTTTTCTG
*
9506266 TAATAACATTGCTTA
1 TAATAACATTACTTA
*
9506281 TAATCACATTACTTA
1 TAATAACATTACTTA
*
9506296 CAATAACATTA
1 TAATAACATTA
9506307 TATTATAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (15 bp):
TAATAACATTACTTA
Found at i:9506371 original size:2 final size:2
Alignment explanation
Indices: 9506364--9506392 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9506354 GCAAATGATA
9506364 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 T
9506393 ATACACACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Done.