Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, 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: 7441454
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 92215 characters in sequence are not A, C, G, or T
File 11 of 18
Found at i:4446083 original size:34 final size:34
Alignment explanation
Indices: 4446009--4446084 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 34
4445999 GTATGGATAG
* *** * *
4446009 TGCTTGCCCTCGGTAAAAGGCATTGTGTGGTTTG
1 TGCTTGCTCTCGGTAAAAGGCATTACATGGGTTA
* *
4446043 TACTTGCTCTTGGTAAAAGGCATTACATGGGTTA
1 TGCTTGCTCTCGGTAAAAGGCATTACATGGGTTA
4446077 TGCTTGCT
1 TGCTTGCT
4446085 TCCAGTAAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.37
Consensus pattern (34 bp):
TGCTTGCTCTCGGTAAAAGGCATTACATGGGTTA
Found at i:4451676 original size:28 final size:28
Alignment explanation
Indices: 4451645--4451698 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
4451635 AAGTTAAAAC
*
4451645 AAATAAATTATA-TCAAACATAAATAAGA
1 AAATAAATTACACT-AAACATAAATAAGA
*
4451673 AAATAAATTGCACTAAACATAAATAA
1 AAATAAATTACACTAAACATAAATAA
4451699 AGTTTCAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.63, C:0.09, G:0.04, T:0.24
Consensus pattern (28 bp):
AAATAAATTACACTAAACATAAATAAGA
Found at i:4458903 original size:30 final size:30
Alignment explanation
Indices: 4458837--4458910 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
4458827 AAGAATATTT
* *
4458837 AAATAAGTTCTTAT-TTTTTAATTACGTTC
1 AAATAAGTTTTTATATTTTTAATTACGATC
* *
4458866 AATTAAGTTTTTATATTTTTATTTTA-GATC
1 AAATAAGTTTTTATATTTTTA-ATTACGATC
*
4458896 AAATAAGTTTCTATA
1 AAATAAGTTTTTATA
4458911 ATTAATGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 12 0.32
30 22 0.59
31 3 0.08
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.53
Consensus pattern (30 bp):
AAATAAGTTTTTATATTTTTAATTACGATC
Found at i:4462008 original size:29 final size:26
Alignment explanation
Indices: 4461971--4462102 Score: 110
Period size: 27 Copynumber: 4.8 Consensus size: 26
4461961 AATATTTTAT
*
4461971 AATATTATAATTAAACTAAAAAATATTAA
1 AATAATATAA-TAAA-TAAAAAA-ATTAA
4462000 AATAATAT-AT-AATATAAAAAATTAA
1 AATAATATAATAAATA-AAAAAATTAA
4462025 AA-AATATAATATAATATAAAAAATTAA
1 AATAATATAATA-AATA-AAAAAATTAA
*
4462052 AATTTATATAATATAAATAAAAAAATTAA
1 AA-TAATAT-A-ATAAATAAAAAAATTAA
4462081 AAT-ATAATATATAATATAAAAA
1 AATAAT-ATA-ATAA-ATAAAAA
4462103 TTATATAAAA
Statistics
Matches: 91, Mismatches: 2, Indels: 21
0.80 0.02 0.18
Matches are distributed among these distances:
24 5 0.05
25 11 0.12
26 7 0.08
27 26 0.29
28 11 0.12
29 23 0.25
30 5 0.05
31 3 0.03
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.33
Consensus pattern (26 bp):
AATAATATAATAAATAAAAAAATTAA
Found at i:4462028 original size:27 final size:27
Alignment explanation
Indices: 4461998--4462129 Score: 144
Period size: 27 Copynumber: 4.7 Consensus size: 27
4461988 AAAAAATATT
4461998 AAAATAATATATAATATAAAAAATTAA
1 AAAATAATATATAATATAAAAAATTAA
4462025 AAAAT-ATAATATAATATAAAAAATTAA
1 AAAATAAT-ATATAATATAAAAAATTAA
4462052 AATTTATATAATATA-AATA-AAAAAATTAA
1 AA---A-ATAATATATAATATAAAAAATTAA
*
4462081 AATATAATATATAATATAAAAATTATATAA
1 AAAATAATATATAATATAAAAA--AT-TAA
*
4462111 AAAATTAAAATATAATATA
1 AAAA-TAATATATAATATA
4462130 TGACATTAAA
Statistics
Matches: 90, Mismatches: 3, Indels: 20
0.80 0.03 0.18
Matches are distributed among these distances:
25 8 0.09
26 6 0.07
27 31 0.34
29 14 0.16
30 11 0.12
31 18 0.20
32 2 0.02
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAATAATATATAATATAAAAAATTAA
Found at i:4462119 original size:38 final size:38
Alignment explanation
Indices: 4462071--4462146 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
4462061 AATATAAATA
4462071 AAAAAATTAAAATATAATATAT-A-ATATAAAAATTATAT
1 AAAAAATTAAAATATAATATATGACAT-TAAAAA-TATAT
4462109 AAAAAATTAAAATATAATATATGACATTAAAAATATAT
1 AAAAAATTAAAATATAATATATGACATTAAAAATATAT
4462147 TTAAGAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
38 27 0.75
39 7 0.19
40 2 0.06
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (38 bp):
AAAAAATTAAAATATAATATATGACATTAAAAATATAT
Found at i:4462137 original size:20 final size:18
Alignment explanation
Indices: 4462075--4462145 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 18
4462065 TAAATAAAAA
4462075 AATTAAAATATAATATAT
1 AATTAAAATATAATATAT
* *
4462093 AATATAAAA-ATTATATAAAA
1 AAT-TAAAATA-TA-ATATAT
4462113 AATTAAAATATAATATAT
1 AATTAAAATATAATATAT
4462131 GACATTAAAAATATA
1 -A-ATT-AAAATATA
4462146 TTTAAGAGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
18 8 0.19
19 15 0.36
20 11 0.26
21 8 0.19
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (18 bp):
AATTAAAATATAATATAT
Found at i:4462360 original size:15 final size:15
Alignment explanation
Indices: 4462340--4462400 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
4462330 TTTTTTACAT
*
4462340 TCACATTATTTTTAA
1 TCACATTATTTATAA
4462355 TCACATTATTTATAA
1 TCACATTATTTATAA
*
4462370 TCATATTATTTATAA
1 TCACATTATTTATAA
* *
4462385 TTATATTATATTATAA
1 TCACATTAT-TTATAA
4462401 AATATCAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
15 36 0.86
16 6 0.14
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.52
Consensus pattern (15 bp):
TCACATTATTTATAA
Found at i:4462996 original size:17 final size:19
Alignment explanation
Indices: 4462962--4463003 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
4462952 TATTTCCTTC
*
4462962 AATTTTATATTGATTTGTT
1 AATTTTATATTAATTTGTT
4462981 -ATTTTA-ATTAATTTGTT
1 AATTTTATATTAATTTGTT
4462998 AATTTT
1 AATTTT
4463004 TTAATGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (19 bp):
AATTTTATATTAATTTGTT
Found at i:4464046 original size:20 final size:20
Alignment explanation
Indices: 4464023--4464064 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4464013 TAATAGATAA
4464023 AATA-AAAAAATAAAAAAATT
1 AATAGAAAAAA-AAAAAAATT
* *
4464043 AATAGAAATAAAATAAAATT
1 AATAGAAAAAAAAAAAAATT
4464063 AA
1 AA
4464065 ATATAAAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (20 bp):
AATAGAAAAAAAAAAAAATT
Found at i:4470026 original size:16 final size:16
Alignment explanation
Indices: 4470005--4470035 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4469995 TTGAACCATC
4470005 AGAGTTAAGCTTTGTT
1 AGAGTTAAGCTTTGTT
4470021 AGAGTTAAGCTTTGT
1 AGAGTTAAGCTTTGT
4470036 CTTGTACACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (16 bp):
AGAGTTAAGCTTTGTT
Found at i:4488545 original size:26 final size:23
Alignment explanation
Indices: 4488496--4488563 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 23
4488486 TTTATAAATT
*
4488496 TTAAAATATTAATATTTTATATATAA
1 TTAAAATATTAATA--CTA-ATATAA
*
4488522 TTTAAACATTATTAATACTAATATGA
1 -TTAAA-A-TATTAATACTAATATAA
4488548 TTAAAATATTAATACT
1 TTAAAATATTAATACT
4488564 TTAATATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 10 0.27
24 1 0.03
25 5 0.14
26 5 0.14
27 7 0.19
28 1 0.03
29 8 0.22
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (23 bp):
TTAAAATATTAATACTAATATAA
Found at i:4488700 original size:15 final size:16
Alignment explanation
Indices: 4488682--4488715 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4488672 ATTTTAATAA
4488682 TAAATTATT-AAATTT
1 TAAATTATTAAAATTT
*
4488697 TAAATTTTTAAAATTT
1 TAAATTATTAAAATTT
4488713 TAA
1 TAA
4488716 TGAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAAATTATTAAAATTT
Found at i:4488957 original size:15 final size:15
Alignment explanation
Indices: 4488914--4489004 Score: 86
Period size: 15 Copynumber: 6.3 Consensus size: 15
4488904 NNNNTTAATC
4488914 ATAATAATATTAA-ATT
1 ATAA-AATATTAATA-T
4488930 ATAAAATATTAATAT
1 ATAAAATATTAATAT
4488945 ATAAAATATTAATA-
1 ATAAAATATTAATAT
* *
4488959 AT--TACATT-ATA-
1 ATAAAATATTAATAT
*
4488970 CTAAAATATTAATAT
1 ATAAAATATTAATAT
4488985 ATAAAATATTAATAT
1 ATAAAATATTAATAT
*
4489000 TTAAA
1 ATAAA
4489005 TTAGATTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
11 4 0.06
12 4 0.06
13 4 0.06
14 5 0.08
15 41 0.65
16 5 0.08
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAAATATTAATAT
Found at i:4488977 original size:40 final size:40
Alignment explanation
Indices: 4488931--4489007 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
4488921 TATTAAATTA
*
4488931 TAAAATATTAATATATAAAATATTAATAATTACATTATAC
1 TAAAATATTAATATATAAAATATTAATAATTAAATTATAC
*
4488971 TAAAATATTAATATATAAAATATTAATATTTAAATTA
1 TAAAATATTAATATATAAAATATTAATAATTAAATTA
4489008 GATTATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (40 bp):
TAAAATATTAATATATAAAATATTAATAATTAAATTATAC
Found at i:4492863 original size:2 final size:2
Alignment explanation
Indices: 4492856--4492897 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
4492846 AAGAACATCA
* *
4492856 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4492898 GTATGTATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4496192 original size:29 final size:28
Alignment explanation
Indices: 4496113--4496197 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
4496103 AATTTCATTG
* *
4496113 GAAATTCTTTTGAAATGG-AATTTCGTT
1 GAAATTCTTTTGAAACGGAAATTCCGTT
* *
4496140 GGAAA-T-TTCT--AACGAAAATTCCGTT
1 -GAAATTCTTTTGAAACGGAAATTCCGTT
4496165 AGAAATTCTTTTGAAACGGAAATTCCGTT
1 -GAAATTCTTTTGAAACGGAAATTCCGTT
4496194 GAAA
1 GAAA
4496198 AAGCATTTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
24 3 0.07
25 12 0.27
26 4 0.09
27 4 0.09
28 8 0.18
29 14 0.31
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (28 bp):
GAAATTCTTTTGAAACGGAAATTCCGTT
Found at i:4497707 original size:13 final size:13
Alignment explanation
Indices: 4497689--4497726 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
4497679 TGTAGACACC
4497689 ATAAATAAAATAA
1 ATAAATAAAATAA
4497702 ATAAAT-AAATAA
1 ATAAATAAAATAA
4497714 ATTAAATCAAAAT
1 A-TAAAT-AAAAT
4497727 TAAAAAAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
13 11 0.50
15 4 0.18
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
ATAAATAAAATAA
Found at i:4517716 original size:11 final size:11
Alignment explanation
Indices: 4517700--4517728 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
4517690 GTCTCTTTTC
4517700 ATTGTTCTGTT
1 ATTGTTCTGTT
4517711 ATTGTTCTGTT
1 ATTGTTCTGTT
4517722 ATTGTTC
1 ATTGTTC
4517729 CAAAGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.10, G:0.17, T:0.62
Consensus pattern (11 bp):
ATTGTTCTGTT
Found at i:4521753 original size:17 final size:18
Alignment explanation
Indices: 4521717--4521762 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
4521707 TTTATATTTT
*
4521717 TAAGAAATTATA-AAAGA
1 TAAGAAACTATATAAAGA
4521734 TAAGAAACTATATAAA-A
1 TAAGAAACTATATAAAGA
*
4521751 TAA-AAAGTATAT
1 TAAGAAACTATAT
4521763 TTAAGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 8 0.31
17 15 0.58
18 3 0.12
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (18 bp):
TAAGAAACTATATAAAGA
Found at i:4522963 original size:14 final size:13
Alignment explanation
Indices: 4522936--4522979 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
4522926 ATTTAAAATT
4522936 ATTAAAA-TAAAA
1 ATTAAAACTAAAA
4522948 ATTAAAACTAATAA
1 ATTAAAACTAA-AA
*
4522962 ATTGAAACT-AAA
1 ATTAAAACTAAAA
4522974 ATTAAA
1 ATTAAA
4522980 TAGTAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 14 0.50
13 4 0.14
14 10 0.36
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (13 bp):
ATTAAAACTAAAA
Found at i:4526575 original size:21 final size:21
Alignment explanation
Indices: 4526550--4526617 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
4526540 TTGACTTTGA
* *
4526550 ATGAAAGCATCAGTCTTTGTC
1 ATGAAGGCATCAGTCTTTCTC
* * * *
4526571 ATGAAGGCTTCAATTTTTTTC
1 ATGAAGGCATCAGTCTTTCTC
*
4526592 ATGAAGGTATCAGTCTTTCTC
1 ATGAAGGCATCAGTCTTTCTC
4526613 ATGAA
1 ATGAA
4526618 TTGCATGAAC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (21 bp):
ATGAAGGCATCAGTCTTTCTC
Found at i:4535120 original size:28 final size:29
Alignment explanation
Indices: 4535077--4535142 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
4535067 TAATTTTTTT
* *
4535077 CCTTTTTTCCT-TTTTTTTACTGA-CTAGA
1 CCTTTTTTTCTGTTTTTCTACT-AGCTAGA
*
4535105 CCTTTTTTTCTGTTTTTCTGCTAGCTAGA
1 CCTTTTTTTCTGTTTTTCTACTAGCTAGA
4535134 -CTTTTTTTC
1 CCTTTTTTTC
4535143 CCTTTTTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 20 0.61
29 13 0.39
ACGTcount: A:0.11, C:0.21, G:0.09, T:0.59
Consensus pattern (29 bp):
CCTTTTTTTCTGTTTTTCTACTAGCTAGA
Found at i:4535121 original size:29 final size:28
Alignment explanation
Indices: 4535077--4535151 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 28
4535067 TAATTTTTTT
*
4535077 CCTTTTTTCCTTTTTTTTACT-GACTAGA
1 CCTTTTTTTCTTTTTTTTACTAG-CTAGA
* *
4535105 CCTTTTTTTCTGTTTTTCTGCTAGCTAGA
1 CCTTTTTTTCT-TTTTTTTACTAGCTAGA
*
4535134 -CTTTTTTTCCCTTTTTTT
1 CCTTTTTTT-CTTTTTTTT
4535152 CTTTTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 24 0.62
29 14 0.36
30 1 0.03
ACGTcount: A:0.09, C:0.21, G:0.08, T:0.61
Consensus pattern (28 bp):
CCTTTTTTTCTTTTTTTTACTAGCTAGA
Found at i:4535150 original size:39 final size:39
Alignment explanation
Indices: 4535105--4535181 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
4535095 ACTGACTAGA
4535105 CCTTTTTTTC-TGTTTTTCTGCTA-GCTAGACTTTTTTTC
1 CCTTTTTTTCTTGTTTTTCTGC-AGGCTAGACTTTTTTTC
* * *
4535143 CCTTTTTTTCTTTTTTTTTTGCAGGCTAGATTTTTTTTC
1 CCTTTTTTTCTTGTTTTTCTGCAGGCTAGACTTTTTTTC
4535182 TACTTCTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 11 0.32
39 23 0.68
ACGTcount: A:0.08, C:0.18, G:0.10, T:0.64
Consensus pattern (39 bp):
CCTTTTTTTCTTGTTTTTCTGCAGGCTAGACTTTTTTTC
Found at i:4535547 original size:56 final size:56
Alignment explanation
Indices: 4535463--4535568 Score: 167
Period size: 56 Copynumber: 1.9 Consensus size: 56
4535453 TTTCTTATTC
* *
4535463 TTTTTCTTTTGTAAATGAATCAAGCAATTATCATTCATCAAATTAGAAAACTCTCT
1 TTTTTCTTTTGTAAATCAATCAAACAATTATCATTCATCAAATTAGAAAACTCTCT
* * *
4535519 TTTTTTTTTTGTGAATCAATCAAACAATTATCATTTATCAAATTAGAAAA
1 TTTTTCTTTTGTAAATCAATCAAACAATTATCATTCATCAAATTAGAAAA
4535569 ACCCTTTGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (56 bp):
TTTTTCTTTTGTAAATCAATCAAACAATTATCATTCATCAAATTAGAAAACTCTCT
Found at i:4542688 original size:20 final size:20
Alignment explanation
Indices: 4542663--4542723 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
4542653 TAATTTATAA
4542663 TTTATTTAAAATATTAATAT
1 TTTATTTAAAATATTAATAT
*
4542683 TTTATTTATAAT-TTAAATAT
1 TTTATTTAAAATATT-AATAT
*
4542703 TATTATGATTAAAGTATTAAT
1 T-TTAT--TTAAAATATTAAT
4542724 TAATTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 2 0.06
20 17 0.52
21 4 0.12
23 8 0.24
24 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTATTTAAAATATTAATAT
Found at i:4542974 original size:6 final size:6
Alignment explanation
Indices: 4542963--4543022 Score: 50
Period size: 6 Copynumber: 9.5 Consensus size: 6
4542953 TTACTATAAT
* * *
4542963 TTTTTA TTTTTA TTTTT- TTCTCTA TTTTCA TTTTTTA TTTTTTAA TTTGTA
1 TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA -TTTTTA -TTTTT-A TTTTTA
4543014 TTTTTA TTT
1 TTTTTA TTT
4543023 AATAGTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
5 2 0.05
6 24 0.55
7 17 0.39
8 1 0.02
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:4543041 original size:15 final size:15
Alignment explanation
Indices: 4543021--4543062 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
4543011 GTATTTTTAT
*
4543021 TTAATAGTTTAAACA
1 TTAATATTTTAAACA
*
4543036 TTAATATTTTTAAATA
1 TTAATA-TTTTAAACA
4543052 TTAATATTTTA
1 TTAATATTTTA
4543063 TTTATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TTAATATTTTAAACA
Found at i:4543049 original size:16 final size:16
Alignment explanation
Indices: 4543028--4543061 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4543018 TATTTAATAG
4543028 TTTAAACATTAATATT
1 TTTAAACATTAATATT
*
4543044 TTTAAATATTAATATT
1 TTTAAACATTAATATT
4543060 TT
1 TT
4543062 ATTTATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAAACATTAATATT
Found at i:4543081 original size:14 final size:14
Alignment explanation
Indices: 4543044--4543127 Score: 50
Period size: 14 Copynumber: 5.8 Consensus size: 14
4543034 CATTAATATT
4543044 TTTAAATATTA-ATA
1 TTTAAATATTATA-A
*
4543058 TTT-TAT-TTATAA
1 TTTAAATATTATAA
4543070 TTTAAATATTATTAAGA
1 TTTAAATATTA-T-A-A
*
4543087 TTAAAATATTTATAA
1 TTTAAATA-TTATAA
*
4543102 TTTATAAT-TTTTAA
1 TTTA-AATATTATAA
4543116 TTTAAAATATTA
1 TTT-AAATATTA
4543128 ATTTTGTGAG
Statistics
Matches: 54, Mismatches: 6, Indels: 19
0.68 0.08 0.24
Matches are distributed among these distances:
12 7 0.13
13 5 0.09
14 17 0.31
15 8 0.15
16 5 0.09
17 9 0.17
18 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (14 bp):
TTTAAATATTATAA
Found at i:4543098 original size:32 final size:30
Alignment explanation
Indices: 4543061--4543126 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 30
4543051 ATTAATATTT
4543061 TATTTATAATTTA-AATATTATTAAGATTAAAA
1 TATTTATAATTTATAAT-TT-TTAA-ATTAAAA
*
4543093 TATTTATAATTTATAATTTTTAATTTAAAA
1 TATTTATAATTTATAATTTTTAAATTAAAA
4543123 TATT
1 TATT
4543127 AATTTTGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 10 0.31
31 4 0.12
32 15 0.47
33 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
TATTTATAATTTATAATTTTTAAATTAAAA
Found at i:4544778 original size:7 final size:7
Alignment explanation
Indices: 4544768--4544800 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
4544758 ATTTTTATTT
*
4544768 AATAATT
1 AATAATA
4544775 AAT-ATA
1 AATAATA
4544781 AATAATA
1 AATAATA
4544788 AATAATA
1 AATAATA
4544795 AATAAT
1 AATAAT
4544801 CCCACTACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (7 bp):
AATAATA
Found at i:4545596 original size:21 final size:21
Alignment explanation
Indices: 4545538--4545600 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
4545528 ACTTTGAAAC
4545538 TTAAACAAATTAAATTTAAAT
1 TTAAACAAATTAAATTTAAAT
* ** *
4545559 GT-AATTAATCCT-TATTTAAAT
1 TTAAACAAAT--TAAATTTAAAT
4545580 TTAAACAAATTAAATTTAAAT
1 TTAAACAAATTAAATTTAAAT
4545601 ATAATGGATT
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
20 6 0.20
21 18 0.60
22 6 0.20
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (21 bp):
TTAAACAAATTAAATTTAAAT
Found at i:4545597 original size:42 final size:46
Alignment explanation
Indices: 4545538--4545649 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 46
4545528 ACTTTGAAAC
*
4545538 TTAAACAAATTAAATTTAAATGT-A-A-T-TAATCCTTATTTAAAT
1 TTAAACAAATTAAATTTAAATATAAGATTATAATCCTTATTTAAAT
*
4545580 TTAAACAAATTAAATTTAAATATAATGGATTGATAATTCTTATTTAAAT
1 TTAAACAAATTAAATTTAAATATAA--GATT-ATAATCCTTATTTAAAT
4545629 TTAAACAAATTAAATTTAAAT
1 TTAAACAAATTAAATTTAAAT
4545650 TTTTATGTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
42 22 0.36
43 1 0.02
46 1 0.02
47 1 0.02
49 36 0.59
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (46 bp):
TTAAACAAATTAAATTTAAATATAAGATTATAATCCTTATTTAAAT
Found at i:4549216 original size:121 final size:121
Alignment explanation
Indices: 4549067--4549348 Score: 289
Period size: 121 Copynumber: 2.3 Consensus size: 121
4549057 CTTGATAAAT
* * * ** * *
4549067 TTACATACTATGTACAAAACCATGTTACATGCCTTGGTTAGGTTGTTAAACGTCATATGTA-AAA
1 TTACACACCATGTACAAAAACATGTTACACACCATGGTTAGGTTGTTAAACAT--TATGTACAAA
* * ** *
4549131 -ATATATGACATATCATGGTTAGGTTATTACATGCCATGTTAAAAAAAAATACTGTTG
64 GATATATGACACATCATGATTAGGTTATTACACACCATATTAAAAAAAAATACTGTTG
** * * * *
4549188 TTACACGTCATGTATAAAAACATATTACACACCATGGTTTGGTTGTTACACATTATGTACAAAGA
1 TTACACACCATGTACAAAAACATGTTACACACCATGGTTAGGTTGTTAAACATTATGTACAAAGA
* * * * * *
4549253 TATGTTACACGTCATGATTAGGTTGTTACACACTATATTCAAAAAAAATACTGTTG
66 TATATGACACATCATGATTAGGTTATTACACACCATATTAAAAAAAAATACTGTTG
* **
4549309 TTACATACCATGTACAAAAACATGTTACACGTCATGGTTA
1 TTACACACCATGTACAAAAACATGTTACACACCATGGTTA
4549349 AAAAAGGTTA
Statistics
Matches: 127, Mismatches: 32, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
119 6 0.05
120 3 0.02
121 118 0.93
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (121 bp):
TTACACACCATGTACAAAAACATGTTACACACCATGGTTAGGTTGTTAAACATTATGTACAAAGA
TATATGACACATCATGATTAGGTTATTACACACCATATTAAAAAAAAATACTGTTG
Found at i:4549261 original size:45 final size:45
Alignment explanation
Indices: 4549184--4549284 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 45
4549174 AAAAAATACT
* * * *
4549184 GTTGTTACACGTCATGTATAAAAACATATTACACACCATGGTTTG
1 GTTGTTACACATCATGTACAAAAACATATTACACACCATGATTAG
* * * * **
4549229 GTTGTTACACATTATGTACAAAGATATGTTACACGTCATGATTAG
1 GTTGTTACACATCATGTACAAAAACATATTACACACCATGATTAG
4549274 GTTGTTACACA
1 GTTGTTACACA
4549285 CTATATTCAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (45 bp):
GTTGTTACACATCATGTACAAAAACATATTACACACCATGATTAG
Found at i:4552142 original size:28 final size:28
Alignment explanation
Indices: 4552110--4552179 Score: 140
Period size: 28 Copynumber: 2.5 Consensus size: 28
4552100 TAGATTATGA
4552110 GAACAACTCCCATTATCCTTAAGCATGG
1 GAACAACTCCCATTATCCTTAAGCATGG
4552138 GAACAACTCCCATTATCCTTAAGCATGG
1 GAACAACTCCCATTATCCTTAAGCATGG
4552166 GAACAACTCCCATT
1 GAACAACTCCCATT
4552180 TACCACATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (28 bp):
GAACAACTCCCATTATCCTTAAGCATGG
Found at i:4552721 original size:47 final size:47
Alignment explanation
Indices: 4552630--4552831 Score: 257
Period size: 47 Copynumber: 4.3 Consensus size: 47
4552620 TTTTACATAC
* *
4552630 AATTTTA-CTGAAGAAATAAGTAAAAATAATTATATCATGCATTTTATA
1 AATTTTACCT-AAAAAATAAGT-AAAATAATTACATCATGCATTTTATA
* ** *
4552678 AATTTTACCTAATAAATAAGTAAAATAATTACATTGTGTATTTTATA
1 AATTTTACCTAAAAAATAAGTAAAATAATTACATCATGCATTTTATA
* * * *
4552725 AATTTTACCTAACAAATAA-TTAAATAAATTACACCATGCATTTTACA
1 AATTTTACCTAAAAAATAAGTAAAAT-AATTACATCATGCATTTTATA
*
4552772 AATTTTACCTAAAAAATAAGTAAGATAATTACATCATGCATTTTATA
1 AATTTTACCTAAAAAATAAGTAAAATAATTACATCATGCATTTTATA
4552819 AATTTTACC-AAAA
1 AATTTTACCTAAAA
4552832 TCATACAAAC
Statistics
Matches: 134, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
46 9 0.07
47 102 0.76
48 21 0.16
49 2 0.01
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (47 bp):
AATTTTACCTAAAAAATAAGTAAAATAATTACATCATGCATTTTATA
Found at i:4553969 original size:21 final size:21
Alignment explanation
Indices: 4553904--4553973 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
4553894 GGATATTACT
4553904 TTTAAATTTAAACAAATTAAA
1 TTTAAATTTAAACAAATTAAA
** * * *
4553925 TTTTTATGT-AATAAATCCT-TA
1 TTTAAATTTAAACAAAT--TAAA
4553946 TTTAAATTTAAACAAATTAAA
1 TTTAAATTTAAACAAATTAAA
4553967 TTTAAAT
1 TTTAAAT
4553974 ATAATGGATT
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
20 7 0.20
21 21 0.60
22 7 0.20
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (21 bp):
TTTAAATTTAAACAAATTAAA
Found at i:4556515 original size:27 final size:27
Alignment explanation
Indices: 4556477--4556529 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
4556467 AAAACTTTCA
4556477 TCGGTGATGTTATCGATGAAATTTTAG
1 TCGGTGATGTTATCGATGAAATTTTAG
4556504 TCGGTGATGTTATCGATGAAATTTTA
1 TCGGTGATGTTATCGATGAAATTTTA
4556530 AAATATCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.42
Consensus pattern (27 bp):
TCGGTGATGTTATCGATGAAATTTTAG
Found at i:4558166 original size:16 final size:15
Alignment explanation
Indices: 4558141--4558170 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4558131 ACAATTTTTA
4558141 AAAGATTTCCAATGG
1 AAAGATTTCCAATGG
4558156 AAAGCATTTCCAATG
1 AAAG-ATTTCCAATG
4558171 ATGTTTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (15 bp):
AAAGATTTCCAATGG
Found at i:4575047 original size:27 final size:27
Alignment explanation
Indices: 4575012--4575063 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
4575002 TCGAGTGAAC
*
4575012 TAGTAAAGATTTTATTTTGAAACATAG
1 TAGTAAAGATCTTATTTTGAAACATAG
4575039 TAGTAAAGATCTTATTTTGAAACAT
1 TAGTAAAGATCTTATTTTGAAACAT
4575064 TTTTTTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (27 bp):
TAGTAAAGATCTTATTTTGAAACATAG
Found at i:4578758 original size:25 final size:25
Alignment explanation
Indices: 4578730--4578932 Score: 129
Period size: 25 Copynumber: 8.5 Consensus size: 25
4578720 TTCTGAGGTG
* *
4578730 AAGATATAAAGTGAAGTTTGTGATC
1 AAGATATCAAGTGAAGTTCGTGATC
** *
4578755 AAGATATCAAGCAAAGTTCATGATC
1 AAGATATCAAGTGAAGTTCGTGATC
* *
4578780 AAGTTATTAAGTGAAGTTCGTGATC
1 AAGATATCAAGTGAAGTTCGTGATC
* * * *
4578805 AAGATATCAAGTAAAATTCGCGATT
1 AAGATATCAAGTGAAGTTCGTGATC
* *
4578830 AAGATATC-----AAG--CGCGATT
1 AAGATATCAAGTGAAGTTCGTGATC
* * *
4578848 AAAATATCAAGCGAAGTTCGTGAAC
1 AAGATATCAAGTGAAGTTCGTGATC
* * * *
4578873 AGGATATCAAGCGAGGTTTGTGATC
1 AAGATATCAAGTGAAGTTCGTGATC
* *
4578898 AAAATATCAAGT-ATAGTTCGTTATC
1 AAGATATCAAGTGA-AGTTCGTGATC
4578923 AA-A-ATCAAGT
1 AAGATATCAAGT
4578933 TGTCAAGACC
Statistics
Matches: 138, Mismatches: 32, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
18 14 0.10
20 2 0.01
23 10 0.07
24 2 0.01
25 110 0.80
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (25 bp):
AAGATATCAAGTGAAGTTCGTGATC
Found at i:4578846 original size:18 final size:18
Alignment explanation
Indices: 4578823--4578860 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
4578813 AAGTAAAATT
*
4578823 CGCGATTAAGATATCAAG
1 CGCGATTAAAATATCAAG
4578841 CGCGATTAAAATATCAAG
1 CGCGATTAAAATATCAAG
4578859 CG
1 CG
4578861 AAGTTCGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (18 bp):
CGCGATTAAAATATCAAG
Found at i:4588915 original size:25 final size:25
Alignment explanation
Indices: 4588859--4588957 Score: 83
Period size: 25 Copynumber: 4.0 Consensus size: 25
4588849 TAAAGTGAAG
* * *
4588859 ATATCAAGCAAAGTTCATGATCAAG
1 ATATCAAGCGAAGTTCGTGATCAAA
* *
4588884 TTCTCAAGCGAAGTTCGTGATCAAA
1 ATATCAAGCGAAGTTCGTGATCAAA
* * * **
4588909 ATATCAAACGAGGTTCGTGATTATT
1 ATATCAAGCGAAGTTCGTGATCAAA
*
4588934 ATATCAAG-TATAGTTCGTGATCAA
1 ATATCAAGCGA-AGTTCGTGATCAA
4588958 GATCAAGTTG
Statistics
Matches: 56, Mismatches: 17, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
24 1 0.02
25 55 0.98
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (25 bp):
ATATCAAGCGAAGTTCGTGATCAAA
Found at i:4590593 original size:24 final size:24
Alignment explanation
Indices: 4590549--4590595 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4590539 GTGTTGAAGA
*
4590549 AAGAAAAAGAAAGATAGAAAGAGC
1 AAGAAAAAGAAAGATAAAAAGAGC
*
4590573 AAGAAAAA-AACAGGTAAAAAGAG
1 AAGAAAAAGAA-AGATAAAAAGAG
4590596 GCCCGTGTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.68, C:0.04, G:0.23, T:0.04
Consensus pattern (24 bp):
AAGAAAAAGAAAGATAAAAAGAGC
Found at i:4594146 original size:32 final size:32
Alignment explanation
Indices: 4594105--4594273 Score: 128
Period size: 30 Copynumber: 5.6 Consensus size: 32
4594095 AGTTAATTTG
4594105 TTACACGTCATATTGAAAAAAAAATATTATTA
1 TTACACGTCATATTGAAAAAAAAATATTATTA
* * *
4594137 TTACACGTCA-AGTG-AAAAAAAATACTATTG
1 TTACACGTCATATTGAAAAAAAAATATTATTA
4594167 TTACACGTCATGATT-----AAAAA-A-TATTA
1 TTACACGTCAT-ATTGAAAAAAAAATATTATTA
* * * ** *
4594193 TTGCATGTTATATTGAAAAATTATTATTATTA
1 TTACACGTCATATTGAAAAAAAAATATTATTA
** *
4594225 TTACACGT-A-ATT-TTAAAAAAATATTGTTA
1 TTACACGTCATATTGAAAAAAAAATATTATTA
*
4594254 TTACACGTCATATTTAAAAA
1 TTACACGTCATATTGAAAAA
4594274 TATTTTATTA
Statistics
Matches: 104, Mismatches: 21, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
25 3 0.03
26 12 0.12
27 1 0.01
28 5 0.05
29 19 0.18
30 30 0.29
31 8 0.08
32 26 0.25
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.37
Consensus pattern (32 bp):
TTACACGTCATATTGAAAAAAAAATATTATTA
Found at i:4594249 original size:29 final size:30
Alignment explanation
Indices: 4594122--4594300 Score: 108
Period size: 30 Copynumber: 6.1 Consensus size: 30
4594112 TCATATTGAA
* **
4594122 AAAAAAATATTATTATTACACGTCAA-GTGA
1 AAAAAAATATTATTATTACACGT-AATATTT
* * *
4594152 AAAAAAATACTATTGTTACACGTCATGA-TT
1 AAAAAAATATTATTATTACACGTAAT-ATTT
* * * *
4594182 --AAAAA-A-TATTATTGCATGTTATATTG
1 AAAAAAATATTATTATTACACGTAATATTT
*
4594208 AAAAATTATTATTATTATTACACGTAAT-TTT
1 AAAAA--AATATTATTATTACACGTAATATTT
* *
4594239 AAAAAAATATTGTTATTACACGTCATATTT
1 AAAAAAATATTATTATTACACGTAATATTT
* *
4594269 --AAAAATATT-TTATTACACTTTAATACTT
1 AAAAAAATATTATTATTACAC-GTAATATTT
4594297 AAAA
1 AAAA
4594301 TATTGTTGTT
Statistics
Matches: 114, Mismatches: 22, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
25 1 0.01
26 13 0.11
27 10 0.09
28 23 0.20
29 19 0.17
30 27 0.24
31 8 0.07
32 13 0.11
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (30 bp):
AAAAAAATATTATTATTACACGTAATATTT
Found at i:4594282 original size:88 final size:88
Alignment explanation
Indices: 4594114--4594277 Score: 224
Period size: 88 Copynumber: 1.9 Consensus size: 88
4594104 GTTACACGTC
*
4594114 ATATTGAAAAAAAAATATTATTATTACACGTCAAGTGAAAAAAAATACTATTGTTACACGTCATG
1 ATATTGAAAAAAAAATATTATTATTACACGTCAAGTGAAAAAAAATACTATTATTACACGTCATG
4594179 ATTAAAAAATATTATTGCATGTT
66 ATTAAAAAATATTATTGCATGTT
** * * ** * *
4594202 ATATTGAAAAATTATTATTATTATTACACGT-AATTTTAAAAAAATATTGTTATTACACGTCAT-
1 ATATTGAAAAAAAAATATTATTATTACACGTCAAGTGAAAAAAAATACTATTATTACACGTCATG
*
4594265 ATTTAAAAATATT
66 ATTAAAAAATATT
4594278 TTATTACACT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
86 12 0.18
87 26 0.39
88 28 0.42
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (88 bp):
ATATTGAAAAAAAAATATTATTATTACACGTCAAGTGAAAAAAAATACTATTATTACACGTCATG
ATTAAAAAATATTATTGCATGTT
Found at i:4594300 original size:27 final size:28
Alignment explanation
Indices: 4594217--4594312 Score: 90
Period size: 28 Copynumber: 3.4 Consensus size: 28
4594207 GAAAAATTAT
* *
4594217 TATTATTATTACACGTAAT-TTTAAAAAAA
1 TATTGTTATTACACGTAATACTT--AAAAA
* *
4594246 TATTGTTATTACACGTCATATTTAAAAA
1 TATTGTTATTACACGTAATACTTAAAAA
*
4594274 TATT-TTATTACACTTTAATACTT-AAAA
1 TATTGTTATTACAC-GTAATACTTAAAAA
*
4594301 TATTGTTGTTAC
1 TATTGTTATTAC
4594313 TTATGAACTA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
27 17 0.29
28 21 0.36
29 17 0.29
30 3 0.05
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (28 bp):
TATTGTTATTACACGTAATACTTAAAAA
Found at i:4596755 original size:3 final size:3
Alignment explanation
Indices: 4596747--4596779 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4596737 AGGAAGAACA
4596747 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
4596780 CTTTGCCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:4598903 original size:16 final size:17
Alignment explanation
Indices: 4598871--4598923 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 17
4598861 TATAGAAAGT
*
4598871 TAAAATAT-ATGAGAAA
1 TAAAATATAATTAGAAA
4598887 TAAAATATAATTA-AAA
1 TAAAATATAATTAGAAA
*
4598903 T-AAATAATAA-TATAAA
1 TAAAAT-ATAATTAGAAA
4598919 TAAAA
1 TAAAA
4598924 AAATTAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 6 0.19
16 20 0.62
17 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (17 bp):
TAAAATATAATTAGAAA
Found at i:4598916 original size:21 final size:19
Alignment explanation
Indices: 4598884--4598938 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 19
4598874 AATATATGAG
*
4598884 AAATAAAATATAATTAAAA
1 AAATAAAATATAAATAAAA
4598903 TAAATAATAATATAAATAAAA
1 -AAATAA-AATATAAATAAAA
* *
4598924 AAATTAAATAAAAAT
1 AAATAAAATATAAAT
4598939 TTTACTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.26
20 11 0.35
21 12 0.39
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AAATAAAATATAAATAAAA
Found at i:4608358 original size:28 final size:28
Alignment explanation
Indices: 4608310--4608363 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
4608300 AATTAAATTA
* * *
4608310 CAAAATTCAATATCTCAAATTTTTAATC
1 CAAAACTCAAGATCTCAAATTATTAATC
4608338 CAAAACTCAAGAT-TCACAATTATTAA
1 CAAAACTCAAGATCTCA-AATTATTAA
4608364 AATAATAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.14
28 19 0.86
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (28 bp):
CAAAACTCAAGATCTCAAATTATTAATC
Found at i:4610789 original size:19 final size:19
Alignment explanation
Indices: 4610767--4610806 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4610757 AGAATATAAT
4610767 ATTATTTAAAAAAATTTAA
1 ATTATTTAAAAAAATTTAA
* *
4610786 ATTATTTTAAATAATTTAA
1 ATTATTTAAAAAAATTTAA
4610805 AT
1 AT
4610807 AAATTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTATTTAAAAAAATTTAA
Found at i:4624687 original size:4 final size:4
Alignment explanation
Indices: 4624672--4624704 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
4624662 GGGATCCCTT
4624672 ATAA AT-A A-AA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
4624705 TGGCGTAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 4 0.15
4 23 0.85
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:4634879 original size:18 final size:18
Alignment explanation
Indices: 4634856--4634899 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
4634846 AATTCGTTAC
4634856 TTTTTAAAATAAAT-ATTT
1 TTTTTAAAA-AAATAATTT
4634874 TTTTTAAAAAAATAATTT
1 TTTTTAAAAAAATAATTT
*
4634892 TTATTAAA
1 TTTTTAAA
4634900 CACGGAAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTTTAAAAAAATAATTT
Found at i:4635037 original size:19 final size:20
Alignment explanation
Indices: 4634975--4635038 Score: 58
Period size: 25 Copynumber: 3.0 Consensus size: 20
4634965 AATAAAAAGA
*
4634975 TAATTTTTTTTTATTAAATTT
1 TAATTATTTTTTATT-AATTT
4634996 TAAAATTATTATTATTATATAATTT
1 T--AATTATT-TT-TTAT-TAATTT
4635021 T-ATTATTTTTTATTAATT
1 TAATTATTTTTTATTAATT
4635039 AAGAAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
19 5 0.14
20 4 0.11
21 3 0.08
22 6 0.16
23 6 0.16
24 2 0.05
25 10 0.27
26 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TAATTATTTTTTATTAATTT
Found at i:4648085 original size:22 final size:22
Alignment explanation
Indices: 4648044--4648087 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
4648034 AAAAAAAGTT
4648044 TTAAAATATAAATTTTTATTTC
1 TTAAAATATAAATTTTTATTTC
4648066 TTAAAA-A-AAATTCTTCTATTTC
1 TTAAAATATAAATT-TT-TATTTC
4648088 CTTTCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.25
21 3 0.15
22 12 0.60
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAAAATATAAATTTTTATTTC
Found at i:4648423 original size:26 final size:26
Alignment explanation
Indices: 4648389--4648445 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
4648379 AATTTTGAGT
4648389 TTTTA-TTTTAAA-AATATATTTTATA
1 TTTTATTTTTAAAGAATATATTTTA-A
* *
4648414 TTTTATTTTTTAAAGAATTTTTTTTAA
1 TTTTA-TTTTTAAAGAATATATTTTAA
4648441 TTTTA
1 TTTTA
4648446 CAAACATCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.19
27 13 0.48
28 9 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTATTTTTAAAGAATATATTTTAA
Found at i:4649434 original size:18 final size:17
Alignment explanation
Indices: 4649401--4649437 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
4649391 AAAAGTTTTT
*
4649401 TTATTTTTTAATTTATA
1 TTATTATTTAATTTATA
4649418 TTATTATTTATATTTATA
1 TTATTATTTA-ATTTATA
4649436 TT
1 TT
4649438 TTTCTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTATTTAATTTATA
Found at i:4658697 original size:26 final size:26
Alignment explanation
Indices: 4658662--4658714 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
4658652 AGAACTAAGC
4658662 ATATAAAAATTAGACATCATTTCATT
1 ATATAAAAATTAGACATCATTTCATT
4658688 ATATAAAAATTAGACATCATTTCATT
1 ATATAAAAATTAGACATCATTTCATT
4658714 A
1 A
4658715 GAAATCATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (26 bp):
ATATAAAAATTAGACATCATTTCATT
Found at i:4661096 original size:21 final size:22
Alignment explanation
Indices: 4661066--4661120 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
4661056 GAAAAGAACA
*
4661066 AAGAATTATTGTGTTTGCTATT
1 AAGAACTATTGTGTTTGCTATT
4661088 -AGAACTATTGTGTTTGCTATT
1 AAGAACTATTGTGTTTGCTATT
*
4661109 AAGAACTGTTGT
1 AAGAACTATTGT
4661121 ACTTGAATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.45
Consensus pattern (22 bp):
AAGAACTATTGTGTTTGCTATT
Found at i:4666724 original size:27 final size:27
Alignment explanation
Indices: 4666683--4666753 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
4666673 TAAATGTATC
4666683 TATCCACATCCACTTCTGGTAAG-TAAAAG
1 TATCCA-A-CCACTTCT-GTAAGATAAAAG
**
4666712 TATCCAACCACTTCTGTTGGATAAAAG
1 TATCCAACCACTTCTGTAAGATAAAAG
**
4666739 TATCCATTCACTTCT
1 TATCCAACCACTTCT
4666754 AATAGGTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.08
27 27 0.73
28 1 0.03
29 6 0.16
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.32
Consensus pattern (27 bp):
TATCCAACCACTTCTGTAAGATAAAAG
Found at i:4666763 original size:27 final size:26
Alignment explanation
Indices: 4666705--4666764 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
4666695 CTTCTGGTAA
* *
4666705 GTAAAAGTATCCAACCACTTCTGTTG
1 GTAAAAGTATCCAACCACTTCTATAG
**
4666731 GATAAAAGTATCCATTCACTTCTAATAG
1 G-TAAAAGTATCCAACCACTTCT-ATAG
4666759 GTAAAA
1 GTAAAA
4666765 TTATTTATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.04
27 24 0.86
28 3 0.11
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (26 bp):
GTAAAAGTATCCAACCACTTCTATAG
Found at i:4666842 original size:64 final size:64
Alignment explanation
Indices: 4666714--4666842 Score: 161
Period size: 64 Copynumber: 2.0 Consensus size: 64
4666704 AGTAAAAGTA
* * * **
4666714 TCCAACCACTTCTGTTGGATAAAAGTATCCATTCACTTCTAATAGGTAAAATTATTTATCCACT
1 TCCAACCACTTCTGTAGGATAAAAGTATCCATTCAATTCTAATAGGTAAAAATATCCATCCACT
* * * *
4666778 TCCATCCACTTCTAGTAGG-TAAAGGTATCCATTCAATTCTAATGGGTAAAAATATCCATGCACT
1 TCCAACCACTTCT-GTAGGATAAAAGTATCCATTCAATTCTAATAGGTAAAAATATCCATCCACT
4666842 T
1 T
4666843 TTAGCAGGTA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 51 0.93
65 4 0.07
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.34
Consensus pattern (64 bp):
TCCAACCACTTCTGTAGGATAAAAGTATCCATTCAATTCTAATAGGTAAAAATATCCATCCACT
Found at i:4666852 original size:91 final size:91
Alignment explanation
Indices: 4666689--4666854 Score: 206
Period size: 91 Copynumber: 1.8 Consensus size: 91
4666679 TATCTATCCA
* * ** * *
4666689 CATCCACTTCTGGTAAGTAAAAGTATCCAACCACTTCTGTTGGATAAAAGTATCCATTCACTTCT
1 CATCCACTTCTAGTAAGTAAAAGTATCCAACCAATTCTAATGGATAAAAATATCCATGCACTTCT
*
4666754 AATAGGTAAAATTATTTATCCACTTC
66 AACAGGTAAAATTATTTATCCACTTC
* * ** * *
4666780 CATCCACTTCTAGTAGGTAAAGGTATCCATTCAATTCTAATGGGTAAAAATATCCATGCACTTTT
1 CATCCACTTCTAGTAAGTAAAAGTATCCAACCAATTCTAATGGATAAAAATATCCATGCACTTCT
*
4666845 AGCAGGTAAA
66 AACAGGTAAA
4666855 TGTATCCATC
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
91 61 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (91 bp):
CATCCACTTCTAGTAAGTAAAAGTATCCAACCAATTCTAATGGATAAAAATATCCATGCACTTCT
AACAGGTAAAATTATTTATCCACTTC
Found at i:4666860 original size:54 final size:53
Alignment explanation
Indices: 4666778--4667002 Score: 177
Period size: 54 Copynumber: 4.2 Consensus size: 53
4666768 TTTATCCACT
* * *
4666778 TCCATCCACTTCTAGTAGGTAAAGGTATCCATTCAATTCTAATGGGTAAAAATA
1 TCCATCCACTTTTAG-AGGTAAAAGTATCCATCCAATTCTAATGGGTAAAAATA
* * ** *
4666832 TCCATGCACTTTTAGCAGGTAAATGTATCCATCCAACTT-TAGCGGGTAAAAGGTA
1 TCCATCCACTTTTAG-AGGTAAAAGTATCCATCCAA-TTCTAATGGGTAAAA-ATA
* * * * * * *
4666887 TTCATTCACTTTTAGAAAGTAAAACTATCCATCCACTTCT-ATCTGGTAAAACTA
1 TCCATCCACTTTTAG-AGGTAAAAGTATCCATCCAATTCTAAT-GGGTAAAAATA
* * * * *
4666941 TTCATCCACTTTTA-ATGGATAAAAGTATCCATCCACTTCTAGTGAGTAAAATTA
1 TCCATCCACTTTTAGA-GG-TAAAAGTATCCATCCAATTCTAATGGGTAAAAATA
4666995 TCCATCCA
1 TCCATCCA
4667003 TTTCTAGTGG
Statistics
Matches: 137, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
52 1 0.01
53 1 0.01
54 93 0.68
55 42 0.31
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (53 bp):
TCCATCCACTTTTAGAGGTAAAAGTATCCATCCAATTCTAATGGGTAAAAATA
Found at i:4667017 original size:27 final size:26
Alignment explanation
Indices: 4666778--4667013 Score: 150
Period size: 27 Copynumber: 8.7 Consensus size: 26
4666768 TTTATCCACT
**
4666778 TCCATCCACTTCTAGTAGGTAAAGGTA
1 TCCATCCACTTCTAGT-GGTAAAACTA
* * * *
4666805 TCCATTCAATTCTAATGGGTAAAAATA
1 TCCATCCACTTCTAGT-GGTAAAACTA
* * * **
4666832 TCCATGCACTTTTAGCAGGTAAATGTA
1 TCCATCCACTTCTAG-TGGTAAAACTA
* *
4666859 TCCATCCAACTT-TAGCGGGTAAAAGGTA
1 TCCATCC-ACTTCTAG-TGGTAAAA-CTA
* * * **
4666887 TTCATTCACTTTTAGAAAGTAAAACTA
1 TCCATCCACTTCTAG-TGGTAAAACTA
*
4666914 TCCATCCACTTCTATCTGGTAAAACTA
1 TCCATCCACTTCTA-GTGGTAAAACTA
* * * *
4666941 TTCATCCACTTTTAATGGATAAAAGTA
1 TCCATCCACTTCTAGTGG-TAAAACTA
*
4666968 TCCATCCACTTCTAGTGAGTAAAATTA
1 TCCATCCACTTCTAGTG-GTAAAACTA
*
4666995 TCCATCCATTTCTAGTGGT
1 TCCATCCACTTCTAGTGGT
4667014 TAAATGTATT
Statistics
Matches: 165, Mismatches: 37, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
26 5 0.03
27 138 0.84
28 22 0.13
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (26 bp):
TCCATCCACTTCTAGTGGTAAAACTA
Found at i:4668950 original size:28 final size:28
Alignment explanation
Indices: 4668869--4668999 Score: 136
Period size: 29 Copynumber: 4.5 Consensus size: 28
4668859 AACATGGTTG
* *
4668869 TCTTAATTTAGATAAGAAAATATGTTTGG
1 TCTTAATTTAGATAAGAAAATATATTT-A
* *
4668898 TTTTAATTTAGACAAGAAAATATATTTA
1 TCTTAATTTAGATAAGAAAATATATTTA
* *
4668926 TCTTAATTTAAGACAAGAAAAATATTTTTTA
1 TCTTAATTT-AGATAAG-AAAATA-TATTTA
* * *
4668957 TCTTAATCTAAATAAGAAAATATATTTG
1 TCTTAATTTAGATAAGAAAATATATTTA
*
4668985 TCTCAATTTAGATAA
1 TCTTAATTTAGATAA
4669000 AATAAAATAT
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
28 24 0.28
29 37 0.44
30 11 0.13
31 13 0.15
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (28 bp):
TCTTAATTTAGATAAGAAAATATATTTA
Found at i:4668963 original size:59 final size:58
Alignment explanation
Indices: 4668869--4669014 Score: 168
Period size: 59 Copynumber: 2.5 Consensus size: 58
4668859 AACATGGTTG
* * * * *
4668869 TCTTAATTTAGATAAG-AAAATATGTTTGGTTTTAATTTAGACAAGAAAATATATTTA
1 TCTTAATTTAGATAAGAAAAATATTTTTGATCTTAATCTAAACAAGAAAATATATTTA
* * * *
4668926 TCTTAATTTAAGACAAGAAAAATATTTTTTATCTTAATCTAAATAAGAAAATATATTTG
1 TCTTAATTT-AGATAAGAAAAATATTTTTGATCTTAATCTAAACAAGAAAATATATTTA
* *
4668985 TCTCAATTTAGATAAAATAAAATATTTTTG
1 TCTTAATTTAGATAAGA-AAAATATTTTTG
4669015 TCGTACAAGA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
57 9 0.12
58 12 0.16
59 52 0.71
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (58 bp):
TCTTAATTTAGATAAGAAAAATATTTTTGATCTTAATCTAAACAAGAAAATATATTTA
Found at i:4670148 original size:24 final size:22
Alignment explanation
Indices: 4670120--4670181 Score: 54
Period size: 24 Copynumber: 2.6 Consensus size: 22
4670110 TATTCATAAC
*
4670120 ATAAATAAGAATATAAATTAAAAA
1 ATAAA-AAGAATATAAA-GAAAAA
4670144 ATAAAAAATGCAA-ATAAAGAAAAA
1 AT-AAAAA-G-AATATAAAGAAAAA
*
4670168 ATAAAAAAAATATA
1 ATAAAAAGAATATA
4670182 CTAATACTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
21 2 0.06
22 3 0.09
23 5 0.16
24 11 0.34
25 9 0.28
26 2 0.06
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (22 bp):
ATAAAAAGAATATAAAGAAAAA
Found at i:4670459 original size:16 final size:15
Alignment explanation
Indices: 4670393--4670541 Score: 70
Period size: 16 Copynumber: 10.4 Consensus size: 15
4670383 TAAAAATTAA
4670393 TTAAAATTATTAATATT
1 TTAAAA-TATTAATA-T
* *
4670410 TTAATCATAGTAATAT
1 TTAA-AATATTAATAT
*
4670426 TTAAATTA-TAA-A-
1 TTAAAATATTAATAT
4670438 -TAAAATATTAATATT
1 TTAAAATATTAATA-T
* *
4670453 TTAAAATGTTAATAA
1 TTAAAATATTAATAT
*
4670468 TT--AA-ATT-ATAG
1 TTAAAATATTAATAT
* *
4670479 CTAAAATATTAATTT
1 TTAAAATATTAATAT
4670494 TTAAAATTATTAATAT
1 TTAAAA-TATTAATAT
*
4670510 TT-TAA-A-TAAT-T
1 TTAAAATATTAATAT
* *
4670521 ATAAATTATTAATAT
1 TTAAAATATTAATAT
4670536 TTAAAA
1 TTAAAA
4670542 AATAAAATAG
Statistics
Matches: 97, Mismatches: 20, Indels: 32
0.65 0.13 0.21
Matches are distributed among these distances:
11 12 0.12
12 10 0.10
13 8 0.08
14 10 0.10
15 18 0.19
16 27 0.28
17 11 0.11
18 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.46
Consensus pattern (15 bp):
TTAAAATATTAATAT
Found at i:4670466 original size:42 final size:42
Alignment explanation
Indices: 4670394--4670542 Score: 151
Period size: 42 Copynumber: 3.5 Consensus size: 42
4670384 AAAAATTAAT
*
4670394 TAAAATTATTAATATTTTAATCATAG-TAATATTTAAATTATAAA
1 TAAAA-TATTAATATTTTAA-AAT-GTTAATATTTAAATTATAAA
* **
4670438 TAAAATATTAATATTTTAAAATGTTAATAATTAAATTATAGC
1 TAAAATATTAATATTTTAAAATGTTAATATTTAAATTATAAA
* * *
4670480 TAAAATATTAAT-TTTTAAAATTATTAATATTTTAAATAAT-TA
1 TAAAATATTAATATTTTAAAA-TGTTAATA-TTTAAATTATAAA
* *
4670522 TAAATTATTAATATTTAAAAA
1 TAAAATATTAATATTTTAAAA
4670543 ATAAAATAGA
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
41 9 0.10
42 47 0.52
43 29 0.32
44 5 0.06
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (42 bp):
TAAAATATTAATATTTTAAAATGTTAATATTTAAATTATAAA
Found at i:4670748 original size:22 final size:22
Alignment explanation
Indices: 4670723--4670769 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4670713 ATTTTCATTC
* * *
4670723 TATTATCATAGAATGCCTATTT
1 TATTACCACAGAATACCTATTT
*
4670745 TATTCCCACAGAATACCTATTT
1 TATTACCACAGAATACCTATTT
4670767 TAT
1 TAT
4670770 CCCATTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (22 bp):
TATTACCACAGAATACCTATTT
Found at i:4672046 original size:24 final size:24
Alignment explanation
Indices: 4672019--4672081 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 24
4672009 AATCATTAAT
*
4672019 TATAAAAATATATTTAATTTAAA-A
1 TATAAAAAAATATTTAA-TTAAATA
4672043 TATAAATATAAATATTTAATTAAATA
1 TATAAA-A-AAATATTTAATTAAATA
4672069 TAATAAAAAAATA
1 T-ATAAAAAAATA
4672082 AAAATTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 6 0.18
25 11 0.32
26 12 0.35
27 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TATAAAAAAATATTTAATTAAATA
Found at i:4679085 original size:16 final size:17
Alignment explanation
Indices: 4679047--4679086 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
4679037 CATTTTGTTT
4679047 TTTTTTTTTTCTCTTCA
1 TTTTTTTTTTCTCTTCA
**
4679064 ACTTTTTTTT-TCTTCA
1 TTTTTTTTTTCTCTTCA
4679080 TTTTTTT
1 TTTTTTT
4679087 ATAGCAATGG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTTTTTCTCTTCA
Found at i:4689769 original size:98 final size:99
Alignment explanation
Indices: 4689647--4689833 Score: 279
Period size: 99 Copynumber: 1.9 Consensus size: 99
4689637 AATAGTATCT
* * *
4689647 AAATGCAGTTTGAATTTTAGATTTTTTTT-TCTTAATGTTTGTTAAAACAAGAAAATTCTAGA-T
1 AAATGCAGTTTGAATTTTAGATTTTTTTTCTCTTAATCTTTGTAAAAACAAAAAAATTCTAGATT
* * *
4689710 TTGATATAGTGTTGTTGGGTCTTTTTTTTAAAAA
66 TTGACATACTGTTGTTAGGTCTTTTTTTTAAAAA
*
4689744 AAATGTAGTTTTGAATTTTAGATTTTTTTTCTCTTAATCTTTGTAAAAACAAAAAAATTCTAGAT
1 AAATGCAG-TTTGAATTTTAGATTTTTTTTCTCTTAATCTTTGTAAAAACAAAAAAATTCTAGAT
*
4689809 TTTGACATTCTGTTGTTAGGTCTTT
65 TTTGACATACTGTTGTTAGGTCTTT
4689834 CATTTTTTAA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
97 7 0.09
98 21 0.27
99 30 0.38
100 21 0.27
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (99 bp):
AAATGCAGTTTGAATTTTAGATTTTTTTTCTCTTAATCTTTGTAAAAACAAAAAAATTCTAGATT
TTGACATACTGTTGTTAGGTCTTTTTTTTAAAAA
Found at i:4692211 original size:22 final size:22
Alignment explanation
Indices: 4692173--4692229 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
4692163 AGGTATTACA
*
4692173 TGATTGG-TTATAAGCATTGCG
1 TGATTGGTTTTTAAGCATTGCG
*
4692194 TGATTGGTTTTTAAGCATTGTG
1 TGATTGGTTTTTAAGCATTGCG
*
4692216 TGATTGATTTTTAA
1 TGATTGGTTTTTAA
4692230 ACAATGCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 7 0.22
22 25 0.78
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (22 bp):
TGATTGGTTTTTAAGCATTGCG
Found at i:4692266 original size:23 final size:23
Alignment explanation
Indices: 4692239--4692305 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
4692229 AACAATGCCT
4692239 AAGTCACACAATGCCTTACTAAC
1 AAGTCACACAATGCCTTACTAAC
* *
4692262 CAGTCACACAATGACTTACTAAC
1 AAGTCACACAATGCCTTACTAAC
* *
4692285 AAATCACGCAATGCC-TACTAA
1 AAGTCACACAATGCCTTACTAA
4692306 TTAGTCACGC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
22 6 0.16
23 32 0.84
ACGTcount: A:0.40, C:0.30, G:0.09, T:0.21
Consensus pattern (23 bp):
AAGTCACACAATGCCTTACTAAC
Found at i:4692313 original size:22 final size:22
Alignment explanation
Indices: 4692239--4692323 Score: 80
Period size: 23 Copynumber: 3.8 Consensus size: 22
4692229 AACAATGCCT
4692239 AAGTCACACAATGCCTTACTAAC
1 AAGTCACACAATGCC-TACTAAC
* *
4692262 CAGTCACACAATGACTTACTAAC
1 AAGTCACACAATG-CCTACTAAC
* * *
4692285 AAATCACGCAATGCCTACTAAT
1 AAGTCACACAATGCCTACTAAC
* * *
4692307 TAGTCACGCAATACCTA
1 AAGTCACACAATGCCTA
4692324 AAAATAAGTC
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
22 21 0.41
23 29 0.57
24 1 0.02
ACGTcount: A:0.39, C:0.29, G:0.09, T:0.22
Consensus pattern (22 bp):
AAGTCACACAATGCCTACTAAC
Found at i:4692333 original size:22 final size:22
Alignment explanation
Indices: 4692288--4692404 Score: 105
Period size: 22 Copynumber: 5.4 Consensus size: 22
4692278 TACTAACAAA
* ** *
4692288 TCACGCAATGCCTACTAATTAG
1 TCACGCAATACCTAAAAATAAG
4692310 TCACGCAATACCTAAAAATAAG
1 TCACGCAATACCTAAAAATAAG
* * *
4692332 TCACGTAATACC-CAAAATCAG
1 TCACGCAATACCTAAAAATAAG
* *
4692353 TCACGTAATA--TATAAAGTAAG
1 TCACGCAATACCTA-AAAATAAG
* *
4692374 TCACGCAATACTTAAAAATTAG
1 TCACGCAATACCTAAAAATAAG
4692396 TCACGCAAT
1 TCACGCAAT
4692405 GTCAAAAAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
21 32 0.41
22 44 0.56
23 2 0.03
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (22 bp):
TCACGCAATACCTAAAAATAAG
Found at i:4692354 original size:21 final size:22
Alignment explanation
Indices: 4692308--4692400 Score: 93
Period size: 21 Copynumber: 4.3 Consensus size: 22
4692298 CCTACTAATT
*
4692308 AGTCACGCAATACCTAAAAATA
1 AGTCACGTAATACCTAAAAATA
* *
4692330 AGTCACGTAATACC-CAAAATC
1 AGTCACGTAATACCTAAAAATA
*
4692351 AGTCACGTAATA--TATAAAGTA
1 AGTCACGTAATACCTA-AAAATA
* * *
4692372 AGTCACGCAATACTTAAAAATT
1 AGTCACGTAATACCTAAAAATA
4692394 AGTCACG
1 AGTCACG
4692401 CAATGTCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
21 32 0.55
22 24 0.41
23 2 0.03
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (22 bp):
AGTCACGTAATACCTAAAAATA
Found at i:4720068 original size:2 final size:2
Alignment explanation
Indices: 4720063--4720091 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4720053 TACGTGTGTG
4720063 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4720092 CCTTGAATGC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4728351 original size:27 final size:25
Alignment explanation
Indices: 4728313--4728367 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
4728303 AACAATATTT
* *
4728313 AATTATCAATTATTTATATTTGAAATA
1 AATTATAAATTATTAATATTT-AAA-A
4728340 AATTATAAATTATTAATATTTAAAA
1 AATTATAAATTATTAATATTTAAAA
4728365 AAT
1 AAT
4728368 AAAATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 4 0.15
26 3 0.12
27 19 0.73
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
AATTATAAATTATTAATATTTAAAA
Found at i:4732084 original size:2 final size:2
Alignment explanation
Indices: 4732077--4732106 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4732067 TATGAATTTA
4732077 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4732107 GTATGCGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4742374 original size:30 final size:30
Alignment explanation
Indices: 4742315--4742433 Score: 124
Period size: 30 Copynumber: 4.2 Consensus size: 30
4742305 AATCTGGTGA
* * *
4742315 TCCCATGGCTTGA-AAGCACCGTCGAGTGC
1 TCCCTTGGCTTGAGGAGCATCGTCGAGTGC
* * *
4742344 TCCTTTAGCTTGAGGAGCATCGTCAAGTGC
1 TCCCTTGGCTTGAGGAGCATCGTCGAGTGC
* *
4742374 TCCCCTGGCTTGGGGAGCA-C-TCGA---C
1 TCCCTTGGCTTGAGGAGCATCGTCGAGTGC
4742399 TCCCTTGGCTTGAGGAGCATCGTCGAGTGC
1 TCCCTTGGCTTGAGGAGCATCGTCGAGTGC
4742429 TCCCT
1 TCCCT
4742434 AGGCCAAAGA
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
25 18 0.25
26 1 0.01
27 4 0.06
28 3 0.04
29 11 0.15
30 34 0.48
ACGTcount: A:0.16, C:0.30, G:0.29, T:0.25
Consensus pattern (30 bp):
TCCCTTGGCTTGAGGAGCATCGTCGAGTGC
Found at i:4746106 original size:2 final size:2
Alignment explanation
Indices: 4746099--4746126 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4746089 CCTCTTAAAG
4746099 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
4746127 CACACACACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4748260 original size:1 final size:1
Alignment explanation
Indices: 4748254--4748283 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
4748244 CCAAGTAATG
4748254 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4748284 GCCATTCACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4751445 original size:22 final size:23
Alignment explanation
Indices: 4751419--4751462 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4751409 AAAATAAAAG
4751419 AACAAAAGAGA-AGAGAAAGAGT
1 AACAAAAGAGAGAGAGAAAGAGT
* *
4751441 AACAAAATAGAGGGAGAAAGAG
1 AACAAAAGAGAGAGAGAAAGAG
4751463 GTGTGAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.61, C:0.05, G:0.30, T:0.05
Consensus pattern (23 bp):
AACAAAAGAGAGAGAGAAAGAGT
Found at i:4762826 original size:15 final size:15
Alignment explanation
Indices: 4762802--4762845 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4762792 TGATATGTCG
*
4762802 TTGAAAATATGATTA
1 TTGAAAATATAATTA
*
4762817 TTGAATATATAATTA
1 TTGAAAATATAATTA
* *
4762832 TTAAAAATTTAATT
1 TTGAAAATATAATT
4762846 TTATAGTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (15 bp):
TTGAAAATATAATTA
Found at i:4762891 original size:15 final size:16
Alignment explanation
Indices: 4762863--4762895 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4762853 ATTTATTATA
4762863 ATAAAAAATAATAATT
1 ATAAAAAATAATAATT
4762879 ATAAAAAAT-ATAATT
1 ATAAAAAATAATAATT
4762894 AT
1 AT
4762896 TTATAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAAAATAATAATT
Found at i:4762901 original size:19 final size:19
Alignment explanation
Indices: 4762857--4762892 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4762847 TATAGTATTT
4762857 ATTATAATAAAAAATAATA
1 ATTATAATAAAAAATAATA
*
4762876 ATTATAA-AAAATATAAT
1 ATTATAATAAAAAATAAT
4762893 TATTTATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTATAATAAAAAATAATA
Found at i:4763506 original size:27 final size:27
Alignment explanation
Indices: 4763450--4763506 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
4763440 AGAAAAAGCC
*
4763450 AGAAGGTAAGAAAGAAGAAAGTGGTAA
1 AGAAGGTAAGAAAGAAGAAAGAGGTAA
* * *
4763477 AGAAGGTAGGAATGAGAGAAA-AGGTCA
1 AGAAGGTAAGAAAGA-AGAAAGAGGTAA
4763504 AGA
1 AGA
4763507 GGTTAAGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.53, C:0.02, G:0.35, T:0.11
Consensus pattern (27 bp):
AGAAGGTAAGAAAGAAGAAAGAGGTAA
Found at i:4775909 original size:46 final size:44
Alignment explanation
Indices: 4775811--4775915 Score: 108
Period size: 47 Copynumber: 2.3 Consensus size: 44
4775801 TACTTTTGTT
4775811 TTATAAAAT-TAAAAAAAAAGAAATAATTTTTTATTTTTAAAAG
1 TTATAAAATATAAAAAAAAAGAAATAATTTTTTATTTTTAAAAG
* * *
4775854 ATCTCAAAATATAAAATGAAAAA-AAATATATTTTTATATTTTTACAA-
1 TTAT-AAAATATAAAA--AAAAAGAAATA-ATTTTT-TATTTTTAAAAG
4775901 TTATAAAATAATAAA
1 TTATAAAAT-ATAAA
4775916 TTTTTTTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
43 2 0.04
44 5 0.10
45 5 0.10
46 10 0.20
47 18 0.36
48 10 0.20
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (44 bp):
TTATAAAATATAAAAAAAAAGAAATAATTTTTTATTTTTAAAAG
Found at i:4782177 original size:2 final size:2
Alignment explanation
Indices: 4782170--4782206 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4782160 TGCTTCTCAT
4782170 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4782207 CCTCTTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4787656 original size:9 final size:10
Alignment explanation
Indices: 4787639--4787667 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
4787629 AAAAAATCTC
4787639 TCTTTCTTCT
1 TCTTTCTTCT
4787649 TC-TTCTTCT
1 TCTTTCTTCT
4787658 TCTTTCTTCT
1 TCTTTCTTCT
4787668 CTCACAGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TCTTTCTTCT
Found at i:4787864 original size:2 final size:2
Alignment explanation
Indices: 4787859--4787895 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
4787849 AAGAACTTTG
* *
4787859 GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA GA TA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
4787896 GGGTGAAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.51, T:0.03
Consensus pattern (2 bp):
GA
Found at i:4804447 original size:19 final size:20
Alignment explanation
Indices: 4804415--4804453 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4804405 TCACAATTAG
4804415 ATAGAAATTTATCAGTATAA
1 ATAGAAATTTATCAGTATAA
4804435 ATAGAAA-TTATCAGTATAA
1 ATAGAAATTTATCAGTATAA
4804454 TGCAGCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (20 bp):
ATAGAAATTTATCAGTATAA
Found at i:4806182 original size:89 final size:89
Alignment explanation
Indices: 4806029--4806197 Score: 266
Period size: 89 Copynumber: 1.9 Consensus size: 89
4806019 GATCACAAGT
* * * * * *
4806029 ATAGTTATCTGTCCTGTATATATCTAGGTAACCTATAATGCAGGATATCATAATTTGAATTAAAT
1 ATAGTTATATGTCCTGTATATATCTAGGCAACCTACAATGCAAGATATCACAATTTGAACTAAAT
*
4806094 TTTAATGAAACAATGACCATCAGA
66 TTTAATCAAACAATGACCATCAGA
*
4806118 ATAGTTATATGTCCTGTATATATCTAGGCAACTTACAATGCAAGATATCACAATTTGAACTAAAT
1 ATAGTTATATGTCCTGTATATATCTAGGCAACCTACAATGCAAGATATCACAATTTGAACTAAAT
4806183 TTTAATCAAACAATG
66 TTTAATCAAACAATG
4806198 GTCTTGCTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (89 bp):
ATAGTTATATGTCCTGTATATATCTAGGCAACCTACAATGCAAGATATCACAATTTGAACTAAAT
TTTAATCAAACAATGACCATCAGA
Found at i:4806645 original size:152 final size:152
Alignment explanation
Indices: 4806396--4806700 Score: 540
Period size: 152 Copynumber: 2.0 Consensus size: 152
4806386 TATTTTGATG
* *
4806396 ATATTGAAGATACGGAAAAAGTAAGGAACCGTGTAAATCTAAATTTCCTAAAACACATTACACCT
1 ATATTGAAGATACAGAAAAAATAAGGAACCGTGTAAATCTAAATTTCCTAAAACACATTACACCT
*
4806461 TGGATTTTTTGCAGGCCCTACTGATTCAAATAATCATAAAGCAACACTCAAAGCATGGTGTTTGA
66 TGGATTTTTTGCAGGCCCTACTGATTCAAATAATCATAAAGCAACACTCAAAGCATGGTGTCTGA
4806526 GGAACGAATGATCAGAACTCAA
131 GGAACGAATGATCAGAACTCAA
* *
4806548 ATATTGAAGATACAGAAAAAATAAGGAACCGTGTAAATCTAAA-TTCCTTAAAACACATTGCACT
1 ATATTGAAGATACAGAAAAAATAAGGAACCGTGTAAATCTAAATTTCC-TAAAACACATTACACC
*
4806612 TTGGATTTTTTGCAGGCCCTACTGATTCAAATAATCATAAATCAACACTCAAAGCATGGTGTCTG
65 TTGGATTTTTTGCAGGCCCTACTGATTCAAATAATCATAAAGCAACACTCAAAGCATGGTGTCTG
4806677 AGGAACGAATGATCAGAACTCAA
130 AGGAACGAATGATCAGAACTCAA
4806700 A
1 A
4806701 AATAACACAT
Statistics
Matches: 146, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
151 4 0.03
152 142 0.97
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (152 bp):
ATATTGAAGATACAGAAAAAATAAGGAACCGTGTAAATCTAAATTTCCTAAAACACATTACACCT
TGGATTTTTTGCAGGCCCTACTGATTCAAATAATCATAAAGCAACACTCAAAGCATGGTGTCTGA
GGAACGAATGATCAGAACTCAA
Found at i:4817105 original size:26 final size:26
Alignment explanation
Indices: 4817075--4817128 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
4817065 CGTTCCTTGG
*
4817075 GGTGTTCCAAGCACT-GAAGCGCCCAA
1 GGTGTTCCAAG-AATAGAAGCGCCCAA
*
4817101 GGTGTTGCAAGAATAGAAGCGCCCAA
1 GGTGTTCCAAGAATAGAAGCGCCCAA
4817127 GG
1 GG
4817129 GCATTACAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.30, C:0.24, G:0.31, T:0.15
Consensus pattern (26 bp):
GGTGTTCCAAGAATAGAAGCGCCCAA
Found at i:4817208 original size:26 final size:26
Alignment explanation
Indices: 4817159--4817244 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 26
4817149 GCCATGGGCA
4817159 TTCCAAGTACAGAAATGC-C-CAGGGTG
1 TTCCAAGTACAG-AA-GCACTCAGGGTG
*
4817185 TTCCAAGTACAGAAGCACTTAGGG-G
1 TTCCAAGTACAGAAGCACTCAGGGTG
* *
4817210 CATTCCAAGTGCAGAAGCGCTCAGGGTG
1 --TTCCAAGTACAGAAGCACTCAGGGTG
4817238 TTCCAAG
1 TTCCAAG
4817245 CGGAGAAGCC
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
24 2 0.04
25 4 0.08
26 23 0.45
27 21 0.41
28 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (26 bp):
TTCCAAGTACAGAAGCACTCAGGGTG
Found at i:4817235 original size:27 final size:27
Alignment explanation
Indices: 4817115--4817235 Score: 102
Period size: 27 Copynumber: 4.5 Consensus size: 27
4817105 TTGCAAGAAT
* * *
4817115 AGAAGCGCCCAAGGGCATTACAAGTGC
1 AGAAGCGCCCAGGGGCATTCCAAGTAC
* * *
4817142 AAAAGCGGCCATGGGCATTCCAAGTAC
1 AGAAGCGCCCAGGGGCATTCCAAGTAC
**
4817169 AGAAATGCCCAGGGTG--TTCCAAGTAC
1 AGAAGCGCCCAGGG-GCATTCCAAGTAC
* ** *
4817195 AGAAGCACTTAGGGGCATTCCAAGTGC
1 AGAAGCGCCCAGGGGCATTCCAAGTAC
*
4817222 AGAAGCGCTCAGGG
1 AGAAGCGCCCAGGG
4817236 TGTTCCAAGC
Statistics
Matches: 73, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
25 1 0.01
26 19 0.26
27 52 0.71
28 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.30, T:0.15
Consensus pattern (27 bp):
AGAAGCGCCCAGGGGCATTCCAAGTAC
Found at i:4817252 original size:53 final size:55
Alignment explanation
Indices: 4817154--4817315 Score: 157
Period size: 62 Copynumber: 2.9 Consensus size: 55
4817144 AAGCGGCCAT
* ** * *** *
4817154 GGGCATTCCAAGTACAGAAATGCCCAGGGTGTTCCAAGTACAGAAGCACT-TAG-
1 GGGCATTCCAAGTGCAGAAGCGCTCAGGGTGTTCCAAGCGGAGAAGCACTAAAGC
*
4817207 GGGCATTCCAAGTGCAGAAGCGCTCAGGGTGTTCCAAGCGGAGAAGCCCCTAGAAGCACCC
1 GGGCATTCCAAGTGCAGAAGCGCTCAGGGTGTTCCAAGCGGAGAAG-CACTA-AAG----C
*
4817268 TGGGCATTTCAAGTGCAGAAGCGCTCAGGGTGTTCCAAGCGGAGAAGC
1 -GGGCATTCCAAGTGCAGAAGCGCTCAGGGTGTTCCAAGCGGAGAAGC
4817316 GCCCAAGGGT
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
53 39 0.43
54 3 0.03
56 2 0.02
61 1 0.01
62 45 0.50
ACGTcount: A:0.28, C:0.25, G:0.31, T:0.17
Consensus pattern (55 bp):
GGGCATTCCAAGTGCAGAAGCGCTCAGGGTGTTCCAAGCGGAGAAGCACTAAAGC
Found at i:4817306 original size:26 final size:26
Alignment explanation
Indices: 4817277--4817608 Score: 100
Period size: 27 Copynumber: 12.5 Consensus size: 26
4817267 CTGGGCATTT
*
4817277 CAAGTGCAGAAGCGCTCAGGGTGTTC
1 CAAGCGCAGAAGCGCTCAGGGTGTTC
* *
4817303 CAAGCGGAGAAGCGCCCAAGGGTGTTC
1 CAAGCGCAGAAGCGCTC-AGGGTGTTC
*** * *
4817330 CAATTACAAAAGCGC-CTAGGAGAGTTC
1 CAAGCGCAGAAGCGCTC-AGG-GTGTTC
* * * *
4817357 CAAGCGTAAAAGCACTCAGAGGCGTTC
1 CAAGCGCAGAAGCGCTCAG-GGTGTTC
* * * * *
4817384 CAAGCACAAAAACACCTAAGGGTGTTC
1 CAAGCGCAGAAGC-GCTCAGGGTGTTC
* * *
4817411 CAAGCACAGAAACAC-CTAGGGTGTTC
1 CAAGCGCAGAAGCGCTC-AGGGTGTTC
*** * * *
4817437 CAAGTATAAAAGCGCTCATGGTGTTT
1 CAAGCGCAGAAGCGCTCAGGGTGTTC
* * * *
4817463 CAAGCGTAGAAGAGCCCAAGGGAGTTC
1 CAAGCGCAGAAGCGCTC-AGGGTGTTC
* * * *
4817490 CAAGAGCAGAATCGCCCAGGGGAGTTC
1 CAAGCGCAGAAGCGCTCA-GGGTGTTC
* * * *
4817517 CAAGCACGGAAGCAC-CTAGGGAGTTC
1 CAAGCGCAGAAGCGCTC-AGGGTGTTC
* * *
4817543 TAAGCACAGAAATGC-CT-AGAGTGTTC
1 CAAGCGCAG-AA-GCGCTCAGGGTGTTC
*** *
4817569 CAAGTATAGAAGCG-TCTAGAGGCGTTC
1 CAAGCGCAGAAGCGCTC-AG-GGTGTTC
4817596 CAAGCGCAGAAGC
1 CAAGCGCAGAAGC
4817609 ACCCAAAGGT
Statistics
Matches: 228, Mismatches: 61, Indels: 33
0.71 0.19 0.10
Matches are distributed among these distances:
24 3 0.01
25 2 0.01
26 89 0.39
27 126 0.55
28 8 0.04
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.16
Consensus pattern (26 bp):
CAAGCGCAGAAGCGCTCAGGGTGTTC
Found at i:4817626 original size:27 final size:27
Alignment explanation
Indices: 4817596--4817657 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
4817586 AGAGGCGTTC
*
4817596 CAAGCGCAGAAGCACCCAAAGG-TGTTT
1 CAAGCACAGAAGCA-CCAAAGGTTGTTT
* *
4817623 CAAGTACAGAAGCACCTAAGGTTGTTT
1 CAAGCACAGAAGCACCAAAGGTTGTTT
4817650 CAAGCACA
1 CAAGCACA
4817658 TAAATGCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (27 bp):
CAAGCACAGAAGCACCAAAGGTTGTTT
Found at i:4826708 original size:20 final size:21
Alignment explanation
Indices: 4826670--4826708 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
4826660 CAAACTGATT
*
4826670 TAAAAGCCATGATGCATATCC
1 TAAAAGCCATCATGCATATCC
*
4826691 TAAAA-CCATCATGTATAT
1 TAAAAGCCATCATGCATAT
4826709 TCACAATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (21 bp):
TAAAAGCCATCATGCATATCC
Found at i:4828523 original size:252 final size:255
Alignment explanation
Indices: 4828078--4828586 Score: 801
Period size: 252 Copynumber: 2.0 Consensus size: 255
4828068 TGAATACTTG
*
4828078 TAGTGTTCTAGTTTCTAGATTTCAAGGTAGGTTTGGTTTTGACAAGAGAAGAGAGAATAAAATTA
1 TAGTGTTCTAGTTTCTAGATTTCAAGGTAGGTTCGGTTTTGACAAGAGAAGAGAGAATAAAATTA
*
4828143 ATGGCCTTTCAATCTAGTTTCCCCATCCTTGCTGTTAATATCTACGTAATAAGATAAGATTTGCA
66 ATAGCCTTTCAATCTAGTTTCCCCATCCTTGCTGTTAATATCTACGTAATAAGATAAGATTTGCA
* * * *
4828208 TGCAATAGACAACCAATAGATAAGGATTTCTTGCATTTGTTACCAATAAGACTTGACATTATTAA
131 AGCAATAGACAACCAATAGATAAGGATTTATTGCATTTGCTACCAACAAGACTTGACATTATTAA
*** * *
4828273 CTAA-GAAA-AGGCAAAAAA-TTACATGCATATTCTGCCAAAGTAATGTGGTCTTAGTAA
196 CTAAGGAAAGAAAAAAAAAACCTACATGCATATTCTGCCAAAGTAATGTGGTCTTAGGAA
* *
4828330 TAGTGTTCTAGTTTCTAGATTTCAAGGTAGGTTCGGTTTTGGCAAGAGAAGAGAGAATACAATTA
1 TAGTGTTCTAGTTTCTAGATTTCAAGGTAGGTTCGGTTTTGACAAGAGAAGAGAGAATAAAATTA
* * * *
4828395 ATAGCGTTTCAATCTAGTTTCCCCATCCTT-CTCGTTAATGTCTATGTAATAAGATAAGATTTTC
66 ATAGCCTTTCAATCTAGTTTCCCCATCCTTGCT-GTTAATATCTACGTAATAAGATAAGATTTGC
* *
4828459 AAGCAATAGACAGCCAATAGATAAGGATTTATTGCATTTGCTACCAACAAGACTTGGCATTATTA
130 AAGCAATAGACAACCAATAGATAAGGATTTATTGCATTTGCTACCAACAAGACTTGACATTATTA
*
4828524 ACTAAGGAAAGAAAAAAAAAACCTGCATGCATATTCTGCCAAAGTAATGTGGTCTTAGGAA
195 ACTAAGGAAAGAAAAAAAAAACCTACATGCATATTCTGCCAAAGTAATGTGGTCTTAGGAA
4828585 TA
1 TA
4828587 AAAAGAAAAA
Statistics
Matches: 233, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
251 2 0.01
252 182 0.78
253 4 0.02
254 7 0.03
255 38 0.16
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (255 bp):
TAGTGTTCTAGTTTCTAGATTTCAAGGTAGGTTCGGTTTTGACAAGAGAAGAGAGAATAAAATTA
ATAGCCTTTCAATCTAGTTTCCCCATCCTTGCTGTTAATATCTACGTAATAAGATAAGATTTGCA
AGCAATAGACAACCAATAGATAAGGATTTATTGCATTTGCTACCAACAAGACTTGACATTATTAA
CTAAGGAAAGAAAAAAAAAACCTACATGCATATTCTGCCAAAGTAATGTGGTCTTAGGAA
Found at i:4848858 original size:6 final size:6
Alignment explanation
Indices: 4848814--4848858 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
4848804 TTACTTGTTC
* * * *
4848814 TTTTAG TTCTAA TTCTAG TTCTAG TTTTAG TTTTAG TTTTAG TTT
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTT
4848859 ATTTAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.18, C:0.07, G:0.13, T:0.62
Consensus pattern (6 bp):
TTTTAG
Found at i:4848858 original size:12 final size:12
Alignment explanation
Indices: 4848814--4848857 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
4848804 TTACTTGTTC
*
4848814 TTTTAGTTCTAA
1 TTTTAGTTCTAG
*
4848826 TTCTAGTTCTAG
1 TTTTAGTTCTAG
*
4848838 TTTTAGTTTTAG
1 TTTTAGTTCTAG
4848850 TTTTAGTT
1 TTTTAGTT
4848858 TATTTAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.18, C:0.07, G:0.14, T:0.61
Consensus pattern (12 bp):
TTTTAGTTCTAG
Found at i:4855829 original size:15 final size:15
Alignment explanation
Indices: 4855809--4855845 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
4855799 TTTTATGGAC
4855809 TAGGTTTGGAAAGTA
1 TAGGTTTGGAAAGTA
* *
4855824 TAGGTTTTGAAATTA
1 TAGGTTTGGAAAGTA
4855839 TAGGTTT
1 TAGGTTT
4855846 CGTTTCAAAA
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:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (15 bp):
TAGGTTTGGAAAGTA
Found at i:4859959 original size:4 final size:4
Alignment explanation
Indices: 4859950--4859976 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4859940 AATATTTTAT
4859950 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
4859977 TATTTCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:4878408 original size:30 final size:30
Alignment explanation
Indices: 4878367--4878428 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
4878357 CAAAAAGTTA
* *
4878367 ATGAAGAGATTCAAAATGATCATAGAAATC
1 ATGAAGAGATTCAAAATGATCACAAAAATC
* *
4878397 ATGAAGTGATTCAAAATTATCACAAAAATC
1 ATGAAGAGATTCAAAATGATCACAAAAATC
4878427 AT
1 AT
4878429 AATGAAGATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (30 bp):
ATGAAGAGATTCAAAATGATCACAAAAATC
Found at i:4879350 original size:33 final size:33
Alignment explanation
Indices: 4879308--4879447 Score: 108
Period size: 33 Copynumber: 4.6 Consensus size: 33
4879298 ATAATGTTAT
*
4879308 AATTAAAATAAAATATATAATATAAGAATAAAA
1 AATTAAAATAAAATATATAATATAATAATAAAA
4879341 AATTAAAAT--AA-A-AT-A-A-AAT-ATAAAA
1 AATTAAAATAAAATATATAATATAATAATAAAA
* * *
4879366 AATTAAAAT---TTATATAATATAGCTAA-AATA
1 AATTAAAATAAAATATATAATATA-ATAATAAAA
* * *
4879396 AATTAAAATAAAATATATAAGATTATAATAATA
1 AATTAAAATAAAATATATAATATAATAATAAAA
*
4879429 AA-TGAAATAAAATATATAA
1 AATTAAAATAAAATATATAA
4879448 CATTAAAAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
25 16 0.18
26 4 0.05
27 2 0.02
28 2 0.02
29 3 0.03
30 14 0.16
31 3 0.03
32 19 0.22
33 24 0.28
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (33 bp):
AATTAAAATAAAATATATAATATAATAATAAAA
Found at i:4895876 original size:4 final size:4
Alignment explanation
Indices: 4895867--4895894 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
4895857 GGGTCCATTC
4895867 TTGA TTGA TTGA TTGA TTGA TTGA TTGA
1 TTGA TTGA TTGA TTGA TTGA TTGA TTGA
4895895 CGATTCAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TTGA
Found at i:4903457 original size:46 final size:46
Alignment explanation
Indices: 4903404--4903494 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
4903394 TTTTATGCAA
* * *
4903404 ACATTGCTCTCCTTCTCCAAATTTCC-CTTCCAGCTTTCAGCAGTGG
1 ACATTGCTCACCTTC-CCAAAGTTCCACTTCCAGCCTTCAGCAGTGG
* *
4903450 ACATTGCTCACTTTCCCGAAGTTCCACTTCCAGCCTTCAGCAGTG
1 ACATTGCTCACCTTCCCAAAGTTCCACTTCCAGCCTTCAGCAGTG
4903495 ACGCATATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 8 0.21
46 31 0.79
ACGTcount: A:0.19, C:0.35, G:0.14, T:0.32
Consensus pattern (46 bp):
ACATTGCTCACCTTCCCAAAGTTCCACTTCCAGCCTTCAGCAGTGG
Found at i:4907194 original size:7 final size:7
Alignment explanation
Indices: 4907184--4907214 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
4907174 TTGGAAGGAA
4907184 GAAGAGC
1 GAAGAGC
4907191 GAAGAGC
1 GAAGAGC
4907198 GAAGAGC
1 GAAGAGC
4907205 GAAGAGC
1 GAAGAGC
4907212 GAA
1 GAA
4907215 TGGTTCACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.42, T:0.00
Consensus pattern (7 bp):
GAAGAGC
Found at i:4919289 original size:15 final size:15
Alignment explanation
Indices: 4919265--4919295 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4919255 TTTAAATTAT
4919265 ACAAAATAATTTTAA
1 ACAAAATAATTTTAA
*
4919280 ACAAATTAATTTTAA
1 ACAAAATAATTTTAA
4919295 A
1 A
4919296 AGATGGAGTA
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:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
ACAAAATAATTTTAA
Done.