Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 20 of 332
Found at i:5759916 original size:23 final size:23
Alignment explanation
Indices: 5759822--5759917 Score: 72
Period size: 23 Copynumber: 4.0 Consensus size: 23
5759812 AATAGAAACG
*
5759822 ATAATACTATATAA-AAAGTA-T
1 ATAATACTATATAATAAAATATT
5759843 ATATATACATATATAATAAAATATAT
1 ATA-ATAC-TATATAATAAAATAT-T
* *
5759869 ACTAATATTAATAATGAATATAATATT
1 A-TAATACT-AT-AT-AATAAAATATT
5759896 ATAATACTA-ATAATAACAATAT
1 ATAATACTATATAATAA-AATAT
5759918 GAAATTAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
21 3 0.05
22 8 0.13
23 14 0.23
24 5 0.08
25 2 0.03
26 13 0.22
27 6 0.10
28 9 0.15
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAATACTATATAATAAAATATT
Found at i:5760028 original size:18 final size:18
Alignment explanation
Indices: 5759990--5760050 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
5759980 AAACCTACAC
*
5759990 TAATATATA-AAAAAATAA
1 TAATAT-TAGAAATAATAA
* *
5760008 TAATATT-GATAATATTCA
1 TAATATTAGA-AATAATAA
5760026 TAATATTAGAAATAATAA
1 TAATATTAGAAATAATAA
5760044 TAATATT
1 TAATATT
5760051 TAATAAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 2 0.06
18 31 0.89
19 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (18 bp):
TAATATTAGAAATAATAA
Found at i:5761887 original size:87 final size:86
Alignment explanation
Indices: 5761707--5762003 Score: 282
Period size: 87 Copynumber: 3.4 Consensus size: 86
5761697 GTAATCCTGA
** * * * * * * *
5761707 GCTCAACTCATTTCTCGCAATATGAGCTGACTCTTTAAAAACAGACATT-AAAAATAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAG-TTAATTTTTGAAAACATAAATTGAAAAA-A-AAATTAA
* * *
5761771 AAATAGCTCAG-CACGTGAGCCGAG
63 AAATACCTCAGTGA-GTGACCCGAG
* * * * *
5761795 GCTCAACTCACCTCTCGCGATATGAGTTGATTTTTG-AAAC-TGAATTTGAAAAACAAATTTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAACAT-AAATTGAAAAA-AAA-ATTAA
5761858 AAATACCTC-GAT-ATGTGACCCGAG
63 AAATACCTCAG-TGA-GTGACCCGAG
*
5761882 ACTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACATAAATTGAAAAAAAAATTAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTG-AAAACATAAATTGAAAAAAAAATTAAAA
*
5761947 ATACCTCAGTGAGTAACCCGAG
65 ATACCTCAGTGAGTGACCCGAG
*
5761969 GCTCAACTCACCTTTCGCAATATGAGTTAATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
5762004 TTAATGAACA
Statistics
Matches: 174, Mismatches: 25, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
86 10 0.06
87 121 0.70
88 28 0.16
89 14 0.08
90 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (86 bp):
GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAACATAAATTGAAAAAAAAATTAAAAA
TACCTCAGTGAGTGACCCGAG
Found at i:5762063 original size:75 final size:75
Alignment explanation
Indices: 5761966--5762153 Score: 290
Period size: 75 Copynumber: 2.5 Consensus size: 75
5761956 TGAGTAACCC
* *
5761966 GAGGCTCAACTCACCTTTCGCAATATGAGTTAATTTTTTTAATGAACAGAAATT-AAAATTACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAATGAACAGAAATTGAAAA-TACCT
*
5762030 -TAGCGTGTCCT
65 CCA-CGTGTCCT
*
5762041 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAATGAACAGAAATTGAAAATACCTC
*
5762106 CACGTGTCTT
66 CACGTGTCCT
*
5762116 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
5762154 GAAAACAGAA
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
75 100 0.95
76 5 0.05
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (75 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAATGAACAGAAATTGAAAATACCTC
CACGTGTCCT
Found at i:5763023 original size:42 final size:44
Alignment explanation
Indices: 5762933--5763040 Score: 141
Period size: 42 Copynumber: 2.5 Consensus size: 44
5762923 TAGAATGCCC
* *
5762933 TTTCGGGTTTTCATCC-TAATCTTTTGTGTTAATCAAGACACCCT
1 TTTCGGGTTTTCA-CCTTAATCCTTTGTATTAATCAAGACACCCT
* *
5762977 TTTCGGGTTTTCACCTTAATCCTTT-TATT-ATCAAGACGCTCT
1 TTTCGGGTTTTCACCTTAATCCTTTGTATTAATCAAGACACCCT
*
5763019 TTTCGGGTTTTCACCTTGATCC
1 TTTCGGGTTTTCACCTTAATCC
5763041 CCTTTTTTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
42 32 0.55
43 5 0.09
44 21 0.36
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.44
Consensus pattern (44 bp):
TTTCGGGTTTTCACCTTAATCCTTTGTATTAATCAAGACACCCT
Found at i:5773584 original size:12 final size:12
Alignment explanation
Indices: 5773567--5773591 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5773557 CTCTTCATGA
5773567 CGTCGTCCATTG
1 CGTCGTCCATTG
5773579 CGTCGTCCATTG
1 CGTCGTCCATTG
5773591 C
1 C
5773592 ATCATCCCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.36, G:0.24, T:0.32
Consensus pattern (12 bp):
CGTCGTCCATTG
Found at i:5774721 original size:10 final size:11
Alignment explanation
Indices: 5774702--5774735 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
5774692 ATCAAGAATG
5774702 AAAGAATAAAT
1 AAAGAATAAAT
5774713 AAA-AATAAAT
1 AAAGAATAAAT
*
5774723 AAAGAAAAAAT
1 AAAGAATAAAT
5774734 AA
1 AA
5774736 CTAGTGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (11 bp):
AAAGAATAAAT
Found at i:5778737 original size:122 final size:123
Alignment explanation
Indices: 5778517--5778787 Score: 418
Period size: 122 Copynumber: 2.2 Consensus size: 123
5778507 TTTAATTCAG
* *
5778517 TTTTTAGTTTTAATTTATTTATAAAATCTTTTTTAAGATTTTTTTTGCCCTTTTTGCCAAAAGTA
1 TTTTTAGTTTTAATTTATTTATAAAATCTTTTATAAGATTCTTTTT-CCCTTTTTGCCAAAAGTA
*** * *
5778582 TTTAAGACTTTTAATAAATATCTATCACTACAAATAACCATTCAATGCAAAAAAATCAC
65 TTTAAGACTCGCAATAAATATCTATCACCACAAATAACCATTCAATGAAAAAAAATCAC
*
5778641 TTTTTAGTTTTAATTTATTTATAAAATCTTTTATAAGATTCTTTTT-CCTTTTTGCCAAAGGTAT
1 TTTTTAGTTTTAATTTATTTATAAAATCTTTTATAAGATTCTTTTTCCCTTTTTGCCAAAAGTAT
* *
5778705 TTAAGAGTCGCAATAAATATCTATCACCACAAATAACCATTCAATTAAAAAAAATCAC
66 TTAAGACTCGCAATAAATATCTATCACCACAAATAACCATTCAATGAAAAAAAATCAC
* *
5778763 TTTTTGGTTTTAATTTCTTTATAAA
1 TTTTTAGTTTTAATTTATTTATAAA
5778788 TAATAAATTA
Statistics
Matches: 135, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
122 91 0.67
124 44 0.33
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (123 bp):
TTTTTAGTTTTAATTTATTTATAAAATCTTTTATAAGATTCTTTTTCCCTTTTTGCCAAAAGTAT
TTAAGACTCGCAATAAATATCTATCACCACAAATAACCATTCAATGAAAAAAAATCAC
Found at i:5782495 original size:20 final size:20
Alignment explanation
Indices: 5782458--5782495 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
5782448 TAAATAATTC
*
5782458 AAACTTTAAAACTGTTAACT
1 AAACTTTAAAACGGTTAACT
5782478 AAAC-TTAAAACGGCTTAA
1 AAACTTTAAAACGG-TTAA
5782496 ACAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (20 bp):
AAACTTTAAAACGGTTAACT
Found at i:5784696 original size:31 final size:29
Alignment explanation
Indices: 5784658--5784731 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
5784648 ACCATTAAAA
*
5784658 TAGTCACTTTTATTTGACTCAA-GTTACATTT
1 TAGTCACTTATATTTGA---AATGTTACATTT
*
5784689 TAGTCACTTATGTTTGAAATGTTACATTT
1 TAGTCACTTATATTTGAAATGTTACATTT
5784718 TAGTCACTTATATT
1 TAGTCACTTATATT
5784732 ATCTTGTTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 2 0.05
29 22 0.56
31 15 0.38
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.49
Consensus pattern (29 bp):
TAGTCACTTATATTTGAAATGTTACATTT
Found at i:5786330 original size:17 final size:18
Alignment explanation
Indices: 5786298--5786331 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5786288 AAATATTGTG
*
5786298 ATAATTATACATTTAAAA
1 ATAATTAGACATTTAAAA
5786316 ATAATTAGA-ATTTAAA
1 ATAATTAGACATTTAAA
5786332 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTAGACATTTAAAA
Found at i:5786560 original size:22 final size:22
Alignment explanation
Indices: 5786510--5786561 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
5786500 ATTGTAGTTG
5786510 AATATATTAAAAATATATTAATT
1 AATAT-TTAAAAATATATTAATT
*
5786533 ATTATTTAAAAAATTATATT-A-T
1 AATATTT-AAAAA-TATATTAATT
5786555 AATATTT
1 AATATTT
5786562 GAATTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 9 0.36
23 10 0.40
24 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATTTAAAAATATATTAATT
Found at i:5786990 original size:22 final size:20
Alignment explanation
Indices: 5786944--5786981 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5786934 TAATATGTAA
*
5786944 AAATATTTTAATTATAATTT
1 AAATTTTTTAATTATAATTT
*
5786964 AAATTTTTTTATTATAAT
1 AAATTTTTTAATTATAAT
5786982 ATTTAAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATTTTTTAATTATAATTT
Found at i:5787240 original size:19 final size:20
Alignment explanation
Indices: 5787186--5787240 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
5787176 ATAAGTTAAA
5787186 TAATAATATAAAATATTTTG
1 TAATAATATAAAATATTTTG
*
5787206 CAA-AATATATAAATATTTT-
1 TAATAATATA-AAATATTTTG
*
5787225 TAATAATATGAAATAT
1 TAATAATATAAAATAT
5787241 AAAAAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
TAATAATATAAAATATTTTG
Found at i:5791690 original size:118 final size:119
Alignment explanation
Indices: 5791452--5791684 Score: 308
Period size: 118 Copynumber: 1.9 Consensus size: 119
5791442 TAAATCGAAT
* *
5791452 AAAAAACGAAGCCCAGTACGGTAGGGCACATTTTTTAAAATGATTAAGTATAGAAAATTGCCCTT
1 AAAAAACGAAGCCCAATACGGTAGGGCACATTTTTTAAAACGATTAAGTATAGAAAATTGCCCTT
* * * * * * *
5791517 ATTAAAAACTATTTGGGAATAAAATGTTGAATAAAATACTTAAATCGAATATAA
66 ATTAAAAACAAATTGAGAATAAAATGTGGAATAAAAGAATTAAAACGAATATAA
* *
5791571 AAAAAACGAA-CCCAATACGGTAGGGCACGTTTTTTAAAACGATTAAGTATAGAAAATTG-TCTT
1 AAAAAACGAAGCCCAATACGGTAGGGCACATTTTTTAAAACGATTAAGTATAGAAAATTGCCCTT
* *
5791634 CATGTTAAAAACAAATTGAGAATACATTGTGGAATAAAAGAATTAAAACGA
66 -A--TTAAAAACAAATTGAGAATAAAATGTGGAATAAAAGAATTAAAACGA
5791685 TTAAAATTTG
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
117 3 0.03
118 47 0.48
119 10 0.10
120 38 0.39
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (119 bp):
AAAAAACGAAGCCCAATACGGTAGGGCACATTTTTTAAAACGATTAAGTATAGAAAATTGCCCTT
ATTAAAAACAAATTGAGAATAAAATGTGGAATAAAAGAATTAAAACGAATATAA
Found at i:5791948 original size:22 final size:22
Alignment explanation
Indices: 5791913--5791954 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5791903 GATAAAAGTG
5791913 AAAATTAAAATAATAACTATACT
1 AAAATTAAAATAATAA-TATACT
*
5791936 AAAA-TAACATAATAATATA
1 AAAATTAAAATAATAATATA
5791955 GTATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATTAAAATAATAATATACT
Found at i:5792186 original size:24 final size:24
Alignment explanation
Indices: 5792158--5792204 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5792148 AAAAATGTGA
*
5792158 TAATAATAATATG-CTTATAAAAAG
1 TAATAATAA-ATGACTAATAAAAAG
*
5792182 TAATATTAAATGACTAATAAAAA
1 TAATAATAAATGACTAATAAAAA
5792205 ATGGTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (24 bp):
TAATAATAAATGACTAATAAAAAG
Found at i:5793168 original size:29 final size:30
Alignment explanation
Indices: 5793125--5793190 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
5793115 TTGCTGTAGG
*
5793125 TGAAGGCA-A-AACGTGGG-AATGGATGCA
1 TGAAGGCAGAGAACGTGGGTAATGGAAGCA
* *
5793152 TGGAGGCAGAGAACGTGGGTAGTGGAAGCA
1 TGAAGGCAGAGAACGTGGGTAATGGAAGCA
5793182 TGAAGGCAG
1 TGAAGGCAG
5793191 TTGGAGGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 7 0.22
28 1 0.03
29 8 0.25
30 16 0.50
ACGTcount: A:0.33, C:0.11, G:0.42, T:0.14
Consensus pattern (30 bp):
TGAAGGCAGAGAACGTGGGTAATGGAAGCA
Found at i:5793934 original size:23 final size:23
Alignment explanation
Indices: 5793904--5793950 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
5793894 CTTAGGGAGT
5793904 TAAAGCCTGTTCATCGTCTTCGA
1 TAAAGCCTGTTCATCGTCTTCGA
5793927 TAAAGCCTGTTCATCGTCTTCGA
1 TAAAGCCTGTTCATCGTCTTCGA
5793950 T
1 T
5793951 CTGCTCCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (23 bp):
TAAAGCCTGTTCATCGTCTTCGA
Found at i:5794113 original size:46 final size:46
Alignment explanation
Indices: 5794037--5794125 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
5794027 AGTGGCTTGA
* *
5794037 ATCTGCTCCGCTCTTACTCGGTGAAGATAAGATCTGCTGAAAATTG
1 ATCTGCTCCGCTCTTACTCAGCGAAGATAAGATCTGCTGAAAATTG
* * *
5794083 ATCTGCTCCGCTCTTACTTAGCGAATATAAGATCTGCTTAAAA
1 ATCTGCTCCGCTCTTACTCAGCGAAGATAAGATCTGCTGAAAA
5794126 CTTGTAGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (46 bp):
ATCTGCTCCGCTCTTACTCAGCGAAGATAAGATCTGCTGAAAATTG
Found at i:5795312 original size:92 final size:90
Alignment explanation
Indices: 5795155--5795355 Score: 294
Period size: 92 Copynumber: 2.2 Consensus size: 90
5795145 AAATTTGAAT
5795155 TGCCCTTTTCGGGTTTTCAATTCAAAACCCCTTTAGTCTCAAGGCGCCCTTTGCGGGTTTTCACC
1 TGCCCTTTTCGGGTTTTCAATTCAAAACCCCTTTAGTCTCAAGGCGCCCTTTGCGGGTTTTCACC
**
5795220 TTGGCCTCACCCTTTTGTTTTTTTAGG
66 TTGGCCTCACCC-CCT-TTTTTTTAGG
* * * * * *
5795247 TGCCCTTTTCGGGTTTTCAATTCATAACCCCTTTGGTCTTAATGCGTCCTTTGTGGGTTTTCACC
1 TGCCCTTTTCGGGTTTTCAATTCAAAACCCCTTTAGTCTCAAGGCGCCCTTTGCGGGTTTTCACC
5795312 TTGGCCTCACCCCCTTTTTTTTAGG
66 TTGGCCTCACCCCCTTTTTTTTAGG
* *
5795337 TGCCATTTACGGGTTTTCA
1 TGCCCTTTTCGGGTTTTCA
5795356 CCTCTTAAGT
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
90 27 0.27
91 1 0.01
92 71 0.72
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.42
Consensus pattern (90 bp):
TGCCCTTTTCGGGTTTTCAATTCAAAACCCCTTTAGTCTCAAGGCGCCCTTTGCGGGTTTTCACC
TTGGCCTCACCCCCTTTTTTTTAGG
Found at i:5806528 original size:22 final size:22
Alignment explanation
Indices: 5806493--5806534 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5806483 GATAAAAGTG
5806493 AAAATTAAAATAATAACTATACT
1 AAAATTAAAATAATAA-TATACT
*
5806516 AAAA-TAACATAATAATATA
1 AAAATTAAAATAATAATATA
5806535 GTATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATTAAAATAATAATATACT
Found at i:5806676 original size:21 final size:22
Alignment explanation
Indices: 5806646--5806690 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
5806636 TAATAAAAAT
*
5806646 ATAATGAATAT-ATAATATTAA
1 ATAATGAATATAATAATATGAA
*
5806667 ATAATTAATATAATAATATGAA
1 ATAATGAATATAATAATATGAA
5806689 AT
1 AT
5806691 CAAAACTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
ATAATGAATATAATAATATGAA
Found at i:5819761 original size:20 final size:20
Alignment explanation
Indices: 5819728--5819784 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
5819718 ATTAATTCCA
*
5819728 TAACTTCATTTGGATAACGC
1 TAACTTCGTTTGGATAACGC
* * *
5819748 TAAGTTGGTTTGGATAATGC
1 TAACTTCGTTTGGATAACGC
*
5819768 TAACTTCTTTTGGATAA
1 TAACTTCGTTTGGATAA
5819785 ACAATTAGAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.40
Consensus pattern (20 bp):
TAACTTCGTTTGGATAACGC
Found at i:5820890 original size:33 final size:33
Alignment explanation
Indices: 5820824--5820890 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
5820814 TTGCTTGTTA
*
5820824 TAAAACCGAGTATTAAAAACAACTATACGATAT
1 TAAAACCGAGTATTAAAAACAACTATACAATAT
* * * * *
5820857 TAAAACTGTGTATTAAAACCAACTTTGCAATAT
1 TAAAACCGAGTATTAAAAACAACTATACAATAT
5820890 T
1 T
5820891 GCCAACTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (33 bp):
TAAAACCGAGTATTAAAAACAACTATACAATAT
Found at i:5824060 original size:117 final size:116
Alignment explanation
Indices: 5823841--5824065 Score: 330
Period size: 117 Copynumber: 1.9 Consensus size: 116
5823831 GTTGTATAAA
*
5823841 GTCTTGATCAAAAGGGAATCACCAATTACCTATTTGAATCTTACTGCAAAATCATGATGCATGAT
1 GTCTTGATCAAAAGGGAATCACCAATTACCTATTTGAATCTTACTGCAAAATCATGATGCATAAT
* *
5823906 TTCCATTATTGTTCATTTTCCTAGATTTGCTTACAAAGGGCTATACTGTAT
66 TTCCATCATTGTTCATCTTCCTAGATTTGCTTACAAAGGGCTATACTGTAT
*
5823957 GTCTTGATC-AAAGGGCAATCACCAAATTACCTGTTTGAATCATTACTGCAAAATCATGATGCAT
1 GTCTTGATCAAAAGGG-AATCACC-AATTACCTATTTGAATC-TTACTGCAAAATCATGATGCAT
** *
5824021 AACTTT-TGTCATTGTTCATCTT-CTAGATTTGCTTTCAAAGGGCTA
63 AA-TTTCCATCATTGTTCATCTTCCTAGATTTGCTTACAAAGGGCTA
5824066 CTGCCACGAT
Statistics
Matches: 98, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
115 6 0.06
116 16 0.16
117 38 0.39
118 35 0.36
119 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (116 bp):
GTCTTGATCAAAAGGGAATCACCAATTACCTATTTGAATCTTACTGCAAAATCATGATGCATAAT
TTCCATCATTGTTCATCTTCCTAGATTTGCTTACAAAGGGCTATACTGTAT
Found at i:5827521 original size:27 final size:21
Alignment explanation
Indices: 5827469--5827512 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
5827459 TGAATTTCAC
5827469 TCAAAATCGAATATCAATCAT
1 TCAAAATCGAATATCAATCAT
5827490 TCAAAATCGAATATCAATCAT
1 TCAAAATCGAATATCAATCAT
5827511 TC
1 TC
5827513 TTAATCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (21 bp):
TCAAAATCGAATATCAATCAT
Found at i:5829703 original size:22 final size:24
Alignment explanation
Indices: 5829671--5829722 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
5829661 TAACTCTAAA
5829671 ATTTGAAAATTATT-TA-TAAA-AAT
1 ATTT-AAAATT-TTATATTAAATAAT
5829694 ATTTAAAATTTTATATTAAATAAT
1 ATTTAAAATTTTATATTAAATAAT
5829718 ATTTA
1 ATTTA
5829723 TACTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.08
22 8 0.31
23 8 0.31
24 8 0.31
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTAAAATTTTATATTAAATAAT
Found at i:5830560 original size:26 final size:25
Alignment explanation
Indices: 5830525--5830580 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
5830515 AATTTAAATG
*
5830525 AATTTCATTTATTGATAATATATAA
1 AATTTCATTTATTGATAATACATAA
* *
5830550 TAATTTGATTTATTGATGATACATAA
1 -AATTTCATTTATTGATAATACATAA
5830576 AATTT
1 AATTT
5830581 TATGTTGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (25 bp):
AATTTCATTTATTGATAATACATAA
Found at i:5834217 original size:25 final size:25
Alignment explanation
Indices: 5834189--5834238 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
5834179 ATTAAGAATG
5834189 ATTGATATTCGATCTTGAGTGAAAT
1 ATTGATATTCGATCTTGAGTGAAAT
*
5834214 ATTGATATTCGATTTTGAGTGAAAT
1 ATTGATATTCGATCTTGAGTGAAAT
5834239 TCAATTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (25 bp):
ATTGATATTCGATCTTGAGTGAAAT
Found at i:5834371 original size:10 final size:9
Alignment explanation
Indices: 5834341--5834379 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
5834331 AATAAAGGGG
5834341 AAGAAAAAA
1 AAGAAAAAA
* *
5834350 AGGAAAATA
1 AAGAAAAAA
5834359 AAGAAATAAA
1 AAGAAA-AAA
5834369 AAGAAAAAA
1 AAGAAAAAA
5834378 AA
1 AA
5834380 TTAAATTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:5835464 original size:16 final size:16
Alignment explanation
Indices: 5835443--5835494 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
5835433 TTAAACATTG
*
5835443 TAATATATATTAAATA
1 TAATATATATTAATTA
* *
5835459 TAATATAAAATAATTA
1 TAATATATATTAATTA
5835475 TAAT-TATAATTAATTA
1 TAATATAT-ATTAATTA
5835491 TAAT
1 TAAT
5835495 CATAACCATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 2 0.07
16 28 0.93
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATATATATTAATTA
Found at i:5836533 original size:13 final size:13
Alignment explanation
Indices: 5836512--5836541 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5836502 ATTTTAATTG
*
5836512 GGCCTGACGTATA
1 GGCCCGACGTATA
5836525 GGCCCGACGTATA
1 GGCCCGACGTATA
5836538 GGCC
1 GGCC
5836542 TAACAAACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (13 bp):
GGCCCGACGTATA
Found at i:5859385 original size:38 final size:38
Alignment explanation
Indices: 5859313--5859385 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 38
5859303 GCACATATTT
* *
5859313 TTTAAAATATATATATTATATTCTTTTTTAATTTAAAA
1 TTTAAAATATATATATTATATTATTTATTAATTTAAAA
*
5859351 TTTAATAAT-TATATA-TATTTTATTTATTACATTTA
1 TTTAA-AATATATATATTATATTATTTATTA-ATTTA
5859386 TTACATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
37 11 0.37
38 16 0.53
39 3 0.10
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (38 bp):
TTTAAAATATATATATTATATTATTTATTAATTTAAAA
Found at i:5871113 original size:223 final size:223
Alignment explanation
Indices: 5870720--5871165 Score: 865
Period size: 223 Copynumber: 2.0 Consensus size: 223
5870710 TTGAAAATGG
5870720 CAACAATCTATTTATTTTTGCTCACTGCAAAAGAATCTTTTCAGAAAACAAATAGATCTGATGTG
1 CAACAATCTATTTATTTTTGCTCACTGCAAAAGAATCTTTTCAGAAAACAAATAGATCTGATGTG
5870785 TGACTTTTAGAGTTGACGTTCCAGTTGGTACTCTGATCATATATTTGAAATTAGGGAAAAAAAGG
66 TGACTTTTAGAGTTGACGTTCCAGTTGGTACTCTGATCATATATTTGAAATTAGGGAAAAAAAGG
5870850 AAAAATGGCTGGGGCATTCCGAGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATAC
131 AAAAATGGCTGGGGCATTCCGAGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATAC
5870915 CACTAGACCAAATGCCCAATTTTGATGT
196 CACTAGACCAAATGCCCAATTTTGATGT
* *
5870943 CAACTATCTATTTATTTTTGCTCACTGCAAAAGAATCTTTTCAGAAAACAAATAGATCTGTTGTG
1 CAACAATCTATTTATTTTTGCTCACTGCAAAAGAATCTTTTCAGAAAACAAATAGATCTGATGTG
*
5871008 TGACTTTTAGAGTTGACTTTCCAGTTGGTACTCTGATCATATATTTGAAATTAGGGAAAAAAAGG
66 TGACTTTTAGAGTTGACGTTCCAGTTGGTACTCTGATCATATATTTGAAATTAGGGAAAAAAAGG
5871073 AAAAATGGCTGGGGCATTCCGAGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATAC
131 AAAAATGGCTGGGGCATTCCGAGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATAC
5871138 CACTAGACCAAATGCCCAATTTTGATGT
196 CACTAGACCAAATGCCCAATTTTGATGT
5871166 TTATATTCTC
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
223 220 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (223 bp):
CAACAATCTATTTATTTTTGCTCACTGCAAAAGAATCTTTTCAGAAAACAAATAGATCTGATGTG
TGACTTTTAGAGTTGACGTTCCAGTTGGTACTCTGATCATATATTTGAAATTAGGGAAAAAAAGG
AAAAATGGCTGGGGCATTCCGAGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATAC
CACTAGACCAAATGCCCAATTTTGATGT
Found at i:5877055 original size:7 final size:7
Alignment explanation
Indices: 5877043--5877067 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5877033 ATTAAATAAA
5877043 TTTATAT
1 TTTATAT
5877050 TTTATAT
1 TTTATAT
5877057 TTTATAT
1 TTTATAT
5877064 TTTA
1 TTTA
5877068 CTTTTTTTGT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATAT
Found at i:5878214 original size:127 final size:127
Alignment explanation
Indices: 5878066--5878385 Score: 392
Period size: 127 Copynumber: 2.5 Consensus size: 127
5878056 TTTAGTCCAA
* * * * *
5878066 CGAAAAACTGAAACCCGGCACGGTAGTGCACGATTCTTCGAACTTCCAAACATTGATCATTGCCT
1 CGAAAATC-GAAACCCAGCACGGTAGGGCACGATTCTTCGAATTTCCAAACATTGAACATTGCCT
* *
5878131 TGCTTTAAAATTTATAAAAGACGAGTGAAATACTAAAGGAACATTCAATTA-TTTGGAACAAAC
65 TGCTTTAAAATTTAGAAAACACGAGTGAAATACTAAAGGAACATTCAATTACTTT-GAACAAAC
* * * * *
5878194 CGAAAATCGAAACCCAGCACGATAGGGCACAATTCCTCGAATTTCTAAACCTTGAACATTGCCTT
1 CGAAAATCGAAACCCAGCACGGTAGGGCACGATTCTTCGAATTTCCAAACATTGAACATTGCCTT
* * * * * *
5878259 GTTTTAGAATTTGGAAAACACGAGTGAAATTCTAAAGGAATATTCGATTACTTTGAACAAAC
66 GCTTTAAAATTTAGAAAACACGAGTGAAATACTAAAGGAACATTCAATTACTTTGAACAAAC
* * * **
5878321 GGGAAATCGAAACCTAGCACGGTAGGGCACGATT-TCTCGAATTTCCAAACATCAAACATTGCCT
1 CGAAAATCGAAACCCAGCACGGTAGGGCACGATTCT-TCGAATTTCCAAACATTGAACATTGCCT
5878385 T
65 T
5878386 CGTTTTAAGG
Statistics
Matches: 162, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
127 152 0.94
128 10 0.06
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (127 bp):
CGAAAATCGAAACCCAGCACGGTAGGGCACGATTCTTCGAATTTCCAAACATTGAACATTGCCTT
GCTTTAAAATTTAGAAAACACGAGTGAAATACTAAAGGAACATTCAATTACTTTGAACAAAC
Found at i:5878715 original size:16 final size:16
Alignment explanation
Indices: 5878677--5878719 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
5878667 TAATCAATAT
5878677 AATAATAATACAAAAC
1 AATAATAATACAAAAC
* * *
5878693 AAAAATAATATACAAC
1 AATAATAATACAAAAC
5878709 AATAAT-ATACA
1 AATAATAATACA
5878720 TGGCCTAATG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (16 bp):
AATAATAATACAAAAC
Found at i:5883088 original size:23 final size:22
Alignment explanation
Indices: 5883062--5883105 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
5883052 GTGATGAGGT
5883062 TATCTT-ATAAATATGTATGAATC
1 TATCTTGA-AAATATGT-TGAATC
5883085 TATCTTGAAAATATGTTGAAT
1 TATCTTGAAAATATGTTGAAT
5883106 TGGATTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 14 0.70
24 1 0.05
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (22 bp):
TATCTTGAAAATATGTTGAATC
Found at i:5884543 original size:17 final size:17
Alignment explanation
Indices: 5884521--5884560 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
5884511 GGGTGAAAAA
5884521 GAAGCTGAACAAATATC
1 GAAGCTGAACAAATATC
5884538 GAAGCTGAACAAATATC
1 GAAGCTGAACAAATATC
5884555 GAAGCT
1 GAAGCT
5884561 AAGTAATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (17 bp):
GAAGCTGAACAAATATC
Found at i:5886105 original size:18 final size:19
Alignment explanation
Indices: 5886073--5886115 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
5886063 TTTTTTTTAC
5886073 TTTTTTTTAACTTTTGTCT
1 TTTTTTTTAACTTTTGTCT
*
5886092 TTTTTTTTAA-TTTTTTCT
1 TTTTTTTTAACTTTTGTCT
5886110 TATTTT
1 T-TTTT
5886116 ATTTTGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTTTAACTTTTGTCT
Found at i:5886115 original size:28 final size:26
Alignment explanation
Indices: 5886061--5886141 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 26
5886051 CCCTTATGAT
* *
5886061 TTTTTTTTTTACTTTTTTTTAACTTTTG
1 TTTTTTTTTTAATTTTTTTT-A-TTTTA
5886089 TCTTTTTTTTTAATTTTTTCTTATTTTA
1 T-TTTTTTTTTAATTTTTT-TTATTTTA
5886117 TTTTGTTTATTT-ATTTTTTGTTATT
1 TTTT-TTT-TTTAATTTTTT-TTATT
5886142 AATTTTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
27 3 0.07
28 21 0.46
29 20 0.43
30 2 0.04
ACGTcount: A:0.12, C:0.05, G:0.04, T:0.79
Consensus pattern (26 bp):
TTTTTTTTTTAATTTTTTTTATTTTA
Found at i:5886134 original size:14 final size:14
Alignment explanation
Indices: 5886101--5886147 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
5886091 TTTTTTTTTA
*
5886101 ATTTTTTCTTATTT
1 ATTTTTTGTTATTT
*
5886115 -TATTTTGTTTATTT
1 ATTTTTTG-TTATTT
*
5886129 ATTTTTTGTTATTA
1 ATTTTTTGTTATTT
5886143 ATTTT
1 ATTTT
5886148 AAAAAATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 5 0.19
14 16 0.59
15 6 0.22
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (14 bp):
ATTTTTTGTTATTT
Found at i:5886285 original size:23 final size:24
Alignment explanation
Indices: 5886254--5886312 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
5886244 AAAAAATTTG
* *
5886254 AAATGTATATTTGAAATGT-TTTAT
1 AAATATATATTTAAAAT-TATTTAT
*
5886278 -AATATATATTTAAAATTATTTTT
1 AAATATATATTTAAAATTATTTAT
5886301 AAATATATATTT
1 AAATATATATTT
5886313 TTGAAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 1 0.03
23 18 0.60
24 11 0.37
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (24 bp):
AAATATATATTTAAAATTATTTAT
Found at i:5886299 original size:96 final size:96
Alignment explanation
Indices: 5886118--5886304 Score: 324
Period size: 96 Copynumber: 1.9 Consensus size: 96
5886108 CTTATTTTAT
5886118 TTTGTTTATTTATTTTTTGTTATTAATTTTAAAAAATTTGAAATGTATATTTGAAATGTTTTATA
1 TTTGTTTATTTATTTTTTGTTATTAATTTTAAAAAATTTGAAATGTATATTTGAAATGTTTTATA
*
5886183 ATATATATTTTTTAAAA-TTTTAAATTTTAAA
66 ATATATA-TTTTAAAAATTTTTAAATTTTAAA
5886214 TTTGTTTATTTATTTTTTGTTATTAATTTTAAAAAATTTGAAATGTATATTTGAAATGTTTTATA
1 TTTGTTTATTTATTTTTTGTTATTAATTTTAAAAAATTTGAAATGTATATTTGAAATGTTTTATA
5886279 ATATATA-TTTAAAATTATTTTTAAAT
66 ATATATATTTTAAAA--ATTTTTAAAT
5886305 ATATATTTTT
Statistics
Matches: 87, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
94 6 0.07
96 73 0.84
97 8 0.09
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (96 bp):
TTTGTTTATTTATTTTTTGTTATTAATTTTAAAAAATTTGAAATGTATATTTGAAATGTTTTATA
ATATATATTTTAAAAATTTTTAAATTTTAAA
Found at i:5886303 original size:12 final size:13
Alignment explanation
Indices: 5886272--5886325 Score: 58
Period size: 12 Copynumber: 4.2 Consensus size: 13
5886262 ATTTGAAATG
*
5886272 TTTTATAATATAT
1 TTTTAAAATATAT
*
5886285 ATTTAAAAT-TAT
1 TTTTAAAATATAT
5886297 TTTTAAATATATAT
1 TTTTAAA-ATATAT
*
5886311 TTTTGAAAT-TAT
1 TTTTAAAATATAT
5886323 TTT
1 TTT
5886326 ATTTTGTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 15 0.43
13 11 0.31
14 9 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTTAAAATATAT
Found at i:5886313 original size:14 final size:14
Alignment explanation
Indices: 5886278--5886407 Score: 56
Period size: 14 Copynumber: 9.1 Consensus size: 14
5886268 AATGTTTTAT
*
5886278 AATATATATTT-AA
1 AATATATTTTTAAA
5886291 AAT-TATTTTTAAA
1 AATATATTTTTAAA
*
5886304 TATATATTTTTGAAA
1 AATATATTTTT-AAA
* *
5886319 TTATTTTATTTTGTTTAAAA
1 --A--ATATATT-TTT-AAA
5886339 AATATATTTTTAAA
1 AATATATTTTTAAA
5886353 AATATA--TTT-AA
1 AATATATTTTTAAA
* **
5886364 AATTTAAAATTTAGAA
1 AATAT-ATTTTTA-AA
* *
5886380 AAT-TAATTTCAAA
1 AATATATTTTTAAA
5886393 AATATATTTTTAAA
1 AATATATTTTTAAA
5886407 A
1 A
5886408 TTTATAAGAC
Statistics
Matches: 90, Mismatches: 13, Indels: 27
0.69 0.10 0.21
Matches are distributed among these distances:
11 6 0.07
12 10 0.11
13 12 0.13
14 33 0.37
15 7 0.08
16 10 0.11
18 1 0.01
19 5 0.06
20 6 0.07
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (14 bp):
AATATATTTTTAAA
Found at i:5886323 original size:96 final size:95
Alignment explanation
Indices: 5886118--5886325 Score: 287
Period size: 96 Copynumber: 2.2 Consensus size: 95
5886108 CTTATTTTAT
* *
5886118 TTTGTTTATTTATTTTTTGTTATTAATTTTAAAAAATTTGAAATGTATATTTGAAATGTTTTATA
1 TTTGTTAAATTATTTTTTGTTATTAATTTTAAAAAATTTGAAATGTATATTTGAAATGTTTTATA
* *
5886183 ATATATATTTTTTAAAATTTTAAATTTTAAA
66 ATATATA-TTTTAAAAATTTTAAATTATAAA
* *
5886214 TTTGTTTATTTATTTTTTGTTATTAATTTTAAAAAATTTGAAATGTATATTTGAAATGTTTTATA
1 TTTGTTAAATTATTTTTTGTTATTAATTTTAAAAAATTTGAAATGTATATTTGAAATGTTTTATA
*
5886279 ATATATA-TTTAAAATTATTTTTAAA-TATATA
66 ATATATATTTTAAAA--A-TTTTAAATTATAAA
5886310 TTT-TTGAAATTATTTT
1 TTTGTT-AAATTATTTT
5886326 ATTTTGTTTA
Statistics
Matches: 103, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
94 6 0.06
95 2 0.02
96 88 0.85
97 7 0.07
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (95 bp):
TTTGTTAAATTATTTTTTGTTATTAATTTTAAAAAATTTGAAATGTATATTTGAAATGTTTTATA
ATATATATTTTAAAAATTTTAAATTATAAA
Found at i:5886430 original size:36 final size:36
Alignment explanation
Indices: 5886365--5886478 Score: 107
Period size: 31 Copynumber: 3.3 Consensus size: 36
5886355 TATATTTAAA
*
5886365 ATTTAAAATTTAGAAAATTAATTTCAAAAATAT-AT
1 ATTTAAAATTTAGAAAATTAATTTCAAAAAAATAAT
* *
5886400 TTTTAAAATTTATAAGACA-TAATTTCAAAAAAATAAT
1 ATTTAAAATTTAGAA-A-ATTAATTTCAAAAAAATAAT
* * *
5886437 ATTCAAAATTTA-AAAAAT-ATTT---AAAATTAAT
1 ATTTAAAATTTAGAAAATTAATTTCAAAAAAATAAT
5886468 ATTTAAAATTT
1 ATTTAAAATTT
5886479 TAAAAAATAT
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
31 18 0.26
34 5 0.07
35 15 0.22
36 17 0.25
37 13 0.19
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (36 bp):
ATTTAAAATTTAGAAAATTAATTTCAAAAAAATAAT
Found at i:5886457 original size:18 final size:19
Alignment explanation
Indices: 5886429--5886464 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5886419 TAATTTCAAA
5886429 AAAATAATATTCAAAATTT
1 AAAATAATATTCAAAATTT
*
5886448 AAAA-AATATTTAAAATT
1 AAAATAATATTCAAAATT
5886465 AATATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATAATATTCAAAATTT
Found at i:5886468 original size:31 final size:32
Alignment explanation
Indices: 5886428--5886488 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
5886418 ATAATTTCAA
5886428 AAAAATAATATTCAAAA-TTTAAAAAATATTT
1 AAAAATAATATTCAAAATTTTAAAAAATATTT
* *
5886459 AAAATTAATATTTAAAATTTTAAAAAATAT
1 AAAAATAATATTCAAAATTTTAAAAAATAT
5886489 ATATTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (32 bp):
AAAAATAATATTCAAAATTTTAAAAAATATTT
Found at i:5886470 original size:13 final size:13
Alignment explanation
Indices: 5886444--5886477 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
5886434 AATATTCAAA
5886444 ATTTAAAA--AAT
1 ATTTAAAATTAAT
5886455 ATTTAAAATTAAT
1 ATTTAAAATTAAT
5886468 ATTTAAAATT
1 ATTTAAAATT
5886478 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.38
13 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTAAAATTAAT
Found at i:5886484 original size:22 final size:24
Alignment explanation
Indices: 5886450--5886499 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
5886440 CAAAATTTAA
*
5886450 AAAATATTTAAAATTA-ATATT-T
1 AAAATATTTAAAAATATATATTAT
5886472 AAAAT-TTTAAAAAATATATATTAT
1 AAAATATTT-AAAAATATATATTAT
5886496 AAAA
1 AAAA
5886500 CATATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 3 0.12
22 11 0.46
23 5 0.21
24 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAATATTTAAAAATATATATTAT
Found at i:5886504 original size:16 final size:16
Alignment explanation
Indices: 5886479--5886518 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
5886469 TTTAAAATTT
*
5886479 TAAAAAATATATATTA
1 TAAAACATATATATTA
5886495 TAAAACATATATATTA
1 TAAAACATATATATTA
5886511 TAAAACAT
1 TAAAACAT
5886519 TTCAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAACATATATATTA
Found at i:5886567 original size:14 final size:13
Alignment explanation
Indices: 5886544--5886671 Score: 54
Period size: 12 Copynumber: 10.2 Consensus size: 13
5886534 CAATTTTTTT
*
5886544 AAAATTAATAACAA
1 AAAATAAATAA-AA
* *
5886558 AAAATAAATATAT
1 AAAATAAATAAAA
5886571 AAAATAAATAAAA
1 AAAATAAATAAAA
*
5886584 TAAAAT-AAGAAAA
1 -AAAATAAATAAAA
* ***
5886597 AATATAAA-ACTT
1 AAAATAAATAAAA
*
5886609 AAAA-AAAGAAAA
1 AAAATAAATAAAA
5886621 AAAATAAA-AAAGA
1 AAAATAAATAAA-A
* **
5886634 CAAA-AGTTAAAA
1 AAAATAAATAAAA
*
5886646 AAAGTAAA-AAAA
1 AAAATAAATAAAA
*
5886658 AAAGTAAA-AAAA
1 AAAATAAATAAAA
5886670 AA
1 AA
5886672 GGGTAAAACA
Statistics
Matches: 86, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
11 3 0.03
12 38 0.44
13 31 0.36
14 14 0.16
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (13 bp):
AAAATAAATAAAA
Found at i:5886598 original size:24 final size:24
Alignment explanation
Indices: 5886571--5886629 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
5886561 ATAAATATAT
*
5886571 AAAATAAATAAAA-TAAAATAAGA
1 AAAATAAATAAAACTAAAAAAAGA
*
5886594 AAAA-ATATAAAACTTAAAAAAAGA
1 AAAATAAATAAAAC-TAAAAAAAGA
5886618 AAAA-AAATAAAA
1 AAAATAAATAAAA
5886630 AAGACAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.23
23 4 0.13
24 20 0.65
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (24 bp):
AAAATAAATAAAACTAAAAAAAGA
Found at i:5886630 original size:33 final size:32
Alignment explanation
Indices: 5886556--5886658 Score: 95
Period size: 33 Copynumber: 3.2 Consensus size: 32
5886546 AATTAATAAC
* *
5886556 AAAAAAT-AAATATATAAAA-TAAATAAAA-TA
1 AAAAAATAAAAAATATAAAATTAAA-AAAAGAA
* *
5886586 AAATAAGAAAAAATATAAAACTTAAAAAAAGAA
1 AAAAAATAAAAAATATAAAA-TTAAAAAAAGAA
* *
5886619 AAAAAATAAAAAAGACAAAAGTTAAAAAAAGTAA
1 AAAAAATAAAAAATATAAAA-TTAAAAAAAG-AA
5886653 AAAAAA
1 AAAAAA
5886659 AAGTAAAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
30 5 0.08
31 11 0.19
32 4 0.07
33 31 0.53
34 8 0.14
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (32 bp):
AAAAAATAAAAAATATAAAATTAAAAAAAGAA
Found at i:5886671 original size:16 final size:15
Alignment explanation
Indices: 5886609--5886660 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 15
5886599 TATAAAACTT
5886609 AAAAAAAGAAAAAAA
1 AAAAAAAGAAAAAAA
**
5886624 ATAAAAAAGACAAAAGTT
1 A-AAAAAAGA-AAAA-AA
5886642 AAAAAAAGTAAAAAAA
1 AAAAAAAG-AAAAAAA
5886658 AAA
1 AAA
5886661 GTAAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 1 0.03
16 11 0.38
17 15 0.52
18 2 0.07
ACGTcount: A:0.83, C:0.02, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAAGAAAAAAA
Found at i:5886672 original size:33 final size:33
Alignment explanation
Indices: 5886593--5886658 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
5886583 ATAAAATAAG
* * *
5886593 AAAAAATATAAAACTTAAAAAAAGAAAAAAAAT
1 AAAAAAGACAAAAGTTAAAAAAAGAAAAAAAAT
5886626 AAAAAAGACAAAAGTTAAAAAAAGTAAAAAAAA
1 AAAAAAGACAAAAGTTAAAAAAAG-AAAAAAAA
5886659 AAGTAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 21 0.72
34 8 0.28
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (33 bp):
AAAAAAGACAAAAGTTAAAAAAAGAAAAAAAAT
Found at i:5886679 original size:13 final size:12
Alignment explanation
Indices: 5886642--5886671 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
5886632 GACAAAAGTT
5886642 AAAAAAAGTAAA
1 AAAAAAAGTAAA
5886654 AAAAAAAGTAAA
1 AAAAAAAGTAAA
5886666 AAAAAA
1 AAAAAA
5886672 GGGTAAAACA
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:0.87, C:0.00, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAAAAGTAAA
Found at i:5887377 original size:21 final size:22
Alignment explanation
Indices: 5887337--5887377 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5887327 TTCCAAATAA
* *
5887337 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
5887359 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
5887378 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:5888619 original size:15 final size:16
Alignment explanation
Indices: 5888592--5888621 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5888582 AGATATTCCA
5888592 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
5888608 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
5888622 GGAATTTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:5889724 original size:5 final size:5
Alignment explanation
Indices: 5889714--5889756 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
5889704 GTTGATAGAG
**
5889714 AAAAT AAAAT AAAAAT AAAAAT GTAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT A
5889757 TTTTAAAGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 22 0.67
6 11 0.33
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:5895063 original size:19 final size:19
Alignment explanation
Indices: 5895017--5895064 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
5895007 GTATATATTT
5895017 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
5895035 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
5895054 TAAGTTTTATT
1 TAAATTTTATT
5895065 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:5895126 original size:43 final size:43
Alignment explanation
Indices: 5895074--5895170 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
5895064 TCATATTCTA
5895074 GAAA-TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAG
1 GAAACTATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAG
* * *
5895116 GGAACTATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAG
1 GAAACTATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAG
5895159 GAAACTATTTTC
1 GAAACTATTTTC
5895171 CCAATTAGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 3 0.06
43 45 0.92
44 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.49
Consensus pattern (43 bp):
GAAACTATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAG
Found at i:5899779 original size:19 final size:19
Alignment explanation
Indices: 5899733--5899780 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
5899723 GTATATATTT
5899733 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
5899751 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
5899770 TAAGTTTTATT
1 TAAATTTTATT
5899781 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:5899841 original size:43 final size:42
Alignment explanation
Indices: 5899789--5899886 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 42
5899779 TTCATATTCT
*
5899789 AGAAATATTTTTATTTTATCTTTTAGTAGTTTATTAGAATAAG
1 AGAACTATTTTT-TTTTATCTTTTAGTAGTTTATTAGAATAAG
* *
5899832 GGAACTATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAG
1 AGAACTATTTT-TTTTTATCTTTTAGTAGTTTATTAGAATAAG
5899875 AGAACTATTTTT
1 AGAACTATTTTT
5899887 CCAATTAGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.02
43 48 0.96
44 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (42 bp):
AGAACTATTTTTTTTTATCTTTTAGTAGTTTATTAGAATAAG
Found at i:5902473 original size:3 final size:3
Alignment explanation
Indices: 5902412--5902464 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
5902402 TTTGTTAACT
* *
5902412 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
*
5902457 TTA GTA TT
1 TTA TTA TT
5902465 GGTATTATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:5902545 original size:22 final size:23
Alignment explanation
Indices: 5902498--5902546 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
5902488 ATCTCTATTC
*
5902498 ATATATACTTATGTATTTTCAAAT
1 ATATATACTTATGTATTATC-AAT
5902522 ATATATATCTTAT-TATTATC-AT
1 ATATATA-CTTATGTATTATCAAT
5902544 ATA
1 ATA
5902547 AGTGCTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATACTTATGTATTATCAAT
Found at i:5913971 original size:1 final size:1
Alignment explanation
Indices: 5913965--5913994 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
5913955 TTTGCTTCCT
5913965 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5913995 CTTTGGAGAG
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:5915299 original size:44 final size:44
Alignment explanation
Indices: 5915249--5915387 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
5915239 GACAAAGGAT
5915249 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
** * * * * * *
5915293 CTTGCCTCTT-TCGGTTGTGATA--G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCT-TTCT-GCAT-TGACAGCGAAGCAGATCGAAGACACAA-AC
* *
5915337 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
5915381 CTTGCCT
1 CTTGCCT
5915388 CTTTCGGTTG
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 4 0.06
43 16 0.23
44 27 0.39
45 18 0.26
46 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (44 bp):
CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:5915330 original size:43 final size:43
Alignment explanation
Indices: 5915281--5915418 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
5915271 GAAGCAGATC
5915281 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
* * * * * ** ** * * *
5915324 GAAGACAAAAGATCTTGCCTTCCTAC-ATTGACAGCGAAGCAGATC
1 GAAGACACAA-ACCTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTT
5915369 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
5915412 GAAGACA
1 GAAGACA
5915419 AAGGATCTTG
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 25 0.37
44 24 0.36
45 18 0.27
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
Found at i:5915384 original size:88 final size:88
Alignment explanation
Indices: 5915235--5915547 Score: 418
Period size: 88 Copynumber: 3.6 Consensus size: 88
5915225 GACAGATCAA
* *
5915235 TGAAGACAAAGGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
5915300 CTTTCGGTTGTGATAGAGCTGGT
66 CTTTCGGTTGTGATAGAGCTGGT
*
5915323 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
5915388 CTTTCGGTTGTGATAGAGCTGGT
66 CTTTCGGTTGTGATAGAGCTGGT
* * * *
5915411 TGAAGACAAAGGATCTTGCCTTTCTGCATCGACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCA
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCC
** * * * *
5915474 TCCATCGATTG-CAGTGGAGCTAGT
65 TCTTTCGGTTGTGA-TAGAGCTGGT
* ** * *
5915498 TAAAGA-AGTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGA
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGA
5915548 TAGTAATCCT
Statistics
Matches: 200, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
86 41 0.20
87 29 0.14
88 130 0.65
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
CTTTCGGTTGTGATAGAGCTGGT
Found at i:5915429 original size:44 final size:43
Alignment explanation
Indices: 5915293--5915431 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 43
5915283 AGACACAAAC
5915293 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGAC-AAAGAT
* * * ** ** * * * *
5915337 CTTGCCTTCCTAC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
1 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACA-AAGAT
5915381 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAGGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAA-GAT
5915425 CTTGCCT
1 CTTGCCT
5915432 TTCTGCATCG
Statistics
Matches: 67, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
42 2 0.03
43 16 0.24
44 32 0.48
45 17 0.25
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (43 bp):
CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAGAT
Found at i:5915782 original size:44 final size:44
Alignment explanation
Indices: 5915589--5916006 Score: 216
Period size: 44 Copynumber: 9.6 Consensus size: 44
5915579 AGCGGATTAA
* * * * *
5915589 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGA-TCACAT-C
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* ** *
5915631 AGG-TCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAAGAAATGC
1 AGGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGA--TTA-AAATAC
* * * * * *
5915677 A-GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAT
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT-TAAAATAC
* * *
5915721 A--ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* * * ***
5915763 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCGCAT-C
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* * * ** *
5915805 AGG-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGC
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA-TAC
* * **
5915851 A-GATCTTATCCCCCTGAAGTTACAGTGGAGCAGATT-GAAGCC
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* * ** *
5915893 AGAGATCTTATCTCCCCG-AGATTACAGCGGAGCAGA-TCGAAGAC
1 AG-GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATAC
** * ** * *
5915937 ACTATCCTATCTCCCTGAAGTTACAGTGGAGTGGGTTAAAATAA
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* *
5915981 AGGATCTTATCTCTCTGAGGTTACAG
1 AGGATCTTATCTCCCTGAAGTTACAG
5916007 CAGAGTAGGT
Statistics
Matches: 284, Mismatches: 69, Indels: 44
0.72 0.17 0.11
Matches are distributed among these distances:
40 2 0.01
41 53 0.19
42 14 0.05
43 59 0.21
44 92 0.32
45 7 0.02
46 56 0.20
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
Found at i:5915793 original size:174 final size:170
Alignment explanation
Indices: 5915528--5915918 Score: 518
Period size: 174 Copynumber: 2.3 Consensus size: 170
5915518 TCCTGCATTA
* * *
5915528 ACAGCGAAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGA
1 ACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAAGGA
5915593 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTG
66 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTG
* * *
5915658 GAACAGACCGAAGAAATGCAGATCTTGTCTCCCTGAGGTT
131 GAACAGACCGAAGAAATGCAGATCTTATCCCCCTGAAGTT
*
5915698 ACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAAT
1 ACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGA-TTACAATGGAGCGGA-T----T
* * * *
5915761 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTT
60 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATT
** *
5915826 ACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCCCCCTGAAGTT
125 ACAGTGGAACAGACCGAAGAAATGCAGATCTTATCCCCCTGAAGTT
* * ** * *
5915872 ACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCCGAGATTACA
1 ACAGCGGAGCAGATCGAAGATAGTA-ATCCTATCTCCCTGAGATTACA
5915919 GCGGAGCAGA
Statistics
Matches: 192, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
168 1 0.01
169 30 0.16
170 21 0.11
174 121 0.63
175 18 0.09
176 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (170 bp):
ACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAAGGA
TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTG
GAACAGACCGAAGAAATGCAGATCTTATCCCCCTGAAGTT
Found at i:5915856 original size:87 final size:86
Alignment explanation
Indices: 5915591--5915963 Score: 308
Period size: 87 Copynumber: 4.3 Consensus size: 86
5915581 CGGATTAAAG
* * * *
5915591 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
*
5915656 TGGAACAGACCGAAGAAATGCA
66 TGGAGCAGACCGAAG-AATGCA
* * ** * ** * *
5915678 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** **
5915742 CAGTGGAGCGGA-TTAA-AATAAA
63 CAGTGGAGCAGACCGAAGAATGCA
* * *
5915764 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACA
1 -GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
*
5915829 GTGGAGTAGACCGAAGAATTGCA
65 GTGGAGCAGACCGAAGAA-TGCA
* * * * * * *
5915852 GATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCCGAGATTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCA-TCAG-G-TCTTATCTCCCTGAGGTTA
* *
5915917 CAGCGGAGCAGATCGAAG-A--CA
63 CAGTGGAGCAGACCGAAGAATGCA
* *
5915938 CTATCCTATCTCCCTGAAGTTACAGT
1 -GATCTTATCTCCCTGAAGTTACAGT
5915964 GGAGTGGGTT
Statistics
Matches: 221, Mismatches: 53, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
85 28 0.13
86 9 0.04
87 115 0.52
88 8 0.04
89 30 0.14
90 31 0.14
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (86 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
TGGAGCAGACCGAAGAATGCA
Found at i:5915860 original size:46 final size:44
Alignment explanation
Indices: 5915591--5915967 Score: 235
Period size: 46 Copynumber: 8.7 Consensus size: 44
5915581 CGGATTAAAG
* * * * *
5915591 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC--A-CATCA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATCA
* *
5915632 GGTCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAAGAAATGCA
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAG-AAT-CA
* * * *
5915678 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAT-A
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGA-ATCA
* * ** *
5915722 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AATAAA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAAT-CA
* * * * *
5915764 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCATCA
1 -GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATCA
* * * *
5915806 GGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAA-T-CA
* ** * *
5915852 GATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCA-GA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAG-AATCA
* * *
5915896 GATCTTATCTCCCCG-AGATTACAGCGGAGCAGATCGAAG-A-CA
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATCA
* *
5915938 CTATCCTATCTCCCTGAAGTTACAGTGGAG
1 -GATCTTATCTCCCTGAAGTTACAGTGGAG
5915968 TGGGTTAAAA
Statistics
Matches: 262, Mismatches: 51, Indels: 44
0.73 0.14 0.12
Matches are distributed among these distances:
40 4 0.02
41 58 0.22
42 6 0.02
43 54 0.21
44 65 0.25
45 4 0.02
46 69 0.26
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATCA
Found at i:5915930 original size:131 final size:128
Alignment explanation
Indices: 5915680--5915931 Score: 276
Period size: 131 Copynumber: 1.9 Consensus size: 128
5915670 GAAATGCAGA
* * *
5915680 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCCCCCTGAAGTTACAG
* * * * * *
5915745 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 TGGAGCAGATTAAAACAAAGGATCTTATCTCCCCGAAGTTACAGCAGAGCAGATCGCATCAGG
* * * *
5915808 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTGCAGATCTTATCCCCCTGAAGTT
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATA-T--A-ATCCTATCCCCCTGAAGTT
* * * *
5915872 ACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCCG-AGATTACAGCGGAGCAGATCG
62 ACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCCGAAG-TTACAGCAGAGCAGATCG
5915932 AAGACACTAT
Statistics
Matches: 101, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
127 1 0.01
128 34 0.34
130 5 0.05
131 61 0.60
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (128 bp):
TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCCCCCTGAAGTTACAG
TGGAGCAGATTAAAACAAAGGATCTTATCTCCCCGAAGTTACAGCAGAGCAGATCGCATCAGG
Found at i:5915957 original size:174 final size:174
Alignment explanation
Indices: 5915591--5915968 Score: 463
Period size: 174 Copynumber: 2.2 Consensus size: 174
5915581 CGGATTAAAG
* *
5915591 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
1 GATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
* * * * *
5915656 TGGAACAGACCGAAGAAATGCAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAT
66 TGGAACAGACCGAAGAAATGCAGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
* * * * *
5915721 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
131 AATCCTATCTCCCCGAAGTTACAGCGGAGCAGATTAAAAGAAAC
* * * *
5915765 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACAG
1 GATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
** * * * *
5915830 TGGAGTAGACCGAAGAATTGCAGATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
66 TGGAACAGACCGAAGAAATGCAGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
* ** *
5915895 AGATCTTATCTCCCCG-AGATTACAGCGGAGCAGA-TCGAAGACAC
131 A-ATCCTATCTCCCCGAAG-TTACAGCGGAGCAGATTAAAAGAAAC
* * *
5915939 TATCCTATCTCCCTGAAGTTACAGTGGAGT
1 GATCCTATCTCTCTGAAGTTACAGTAGAGT
5915969 GGGTTAAAAT
Statistics
Matches: 174, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
174 149 0.86
175 25 0.14
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (174 bp):
GATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
TGGAACAGACCGAAGAAATGCAGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
AATCCTATCTCCCCGAAGTTACAGCGGAGCAGATTAAAAGAAAC
Found at i:5917386 original size:3 final size:3
Alignment explanation
Indices: 5917325--5917377 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
5917315 TTTGTTAACT
* *
5917325 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
*
5917370 TTA GTA TT
1 TTA TTA TT
5917378 GGTATTATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:5917458 original size:22 final size:23
Alignment explanation
Indices: 5917411--5917459 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
5917401 ATCTCTATTC
*
5917411 ATATATACTTATGTATTTTCAAAT
1 ATATATACTTATGTATTATC-AAT
5917435 ATATATATCTTAT-TATTATC-AT
1 ATATATA-CTTATGTATTATCAAT
5917457 ATA
1 ATA
5917460 AGTGCTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATACTTATGTATTATCAAT
Found at i:5919843 original size:17 final size:18
Alignment explanation
Indices: 5919808--5919844 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
5919798 CTCAATTGTG
5919808 TCTTCATTCCATGTGTATA
1 TCTTCATTCCA-GTGTATA
5919827 TCTTCATTCCA-TGTATA
1 TCTTCATTCCAGTGTATA
5919844 T
1 T
5919845 GAGATGGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.49
Consensus pattern (18 bp):
TCTTCATTCCAGTGTATA
Found at i:5930239 original size:26 final size:25
Alignment explanation
Indices: 5930195--5930244 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
5930185 CATTTAATTA
5930195 ATTTTTTAAATAAAATATTTTTAAT
1 ATTTTTTAAATAAAATATTTTTAAT
* *
5930220 ATTTTTTAATATTAATTATTTTTAA
1 ATTTTTTAA-ATAAAATATTTTTAA
5930245 AAAAATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTTAAATAAAATATTTTTAAT
Found at i:5933890 original size:13 final size:13
Alignment explanation
Indices: 5933872--5933896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5933862 TTTTTGGAAT
5933872 CAAAAAAATTGAC
1 CAAAAAAATTGAC
5933885 CAAAAAAATTGA
1 CAAAAAAATTGA
5933897 ATTTCGAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.12, G:0.08, T:0.16
Consensus pattern (13 bp):
CAAAAAAATTGAC
Found at i:5938495 original size:18 final size:19
Alignment explanation
Indices: 5938463--5938505 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
5938453 AATTCAAAAT
* * *
5938463 AATTTTAAATAATTTTTTA
1 AATTTAAAATAATTTATAA
5938482 AATTTAAAAT-ATTTATAA
1 AATTTAAAATAATTTATAA
5938500 AATTTA
1 AATTTA
5938506 TTTTTAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTAAAATAATTTATAA
Found at i:5939606 original size:36 final size:36
Alignment explanation
Indices: 5939559--5939630 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
5939549 ATGTGGAGAG
* *
5939559 TTAGATAATTCTAAGCCTTATAAAGGAAGCAAATCT
1 TTAGACAATTCTAAGCCTTAGAAAGGAAGCAAATCT
5939595 TTAGACAATTCTAAGCCTTAGAAAGGAAGCAAATCT
1 TTAGACAATTCTAAGCCTTAGAAAGGAAGCAAATCT
5939631 CATGCTATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (36 bp):
TTAGACAATTCTAAGCCTTAGAAAGGAAGCAAATCT
Found at i:5942316 original size:72 final size:72
Alignment explanation
Indices: 5942157--5942347 Score: 179
Period size: 72 Copynumber: 2.7 Consensus size: 72
5942147 GATGCTGTTT
* * * * *
5942157 ACACAAGCTTCAAAGAATCCACAACACGTGTTGGATCTCAAGCCATCGGTAAAGGATAATTAGAT
1 ACACAAACTTCAGAGAATCCACAACACATGTTGGATCTCAAGCCATCGATAAAGAATAATTAGAT
5942222 GCTACTC
66 GCTACTC
** * * * *
5942229 ACACAATTTTTAGAGAATCCACAACACATGTTGGATTTCAAGTCATCGATAGAA-AATGATTCA-
1 ACACAAACTTCAGAGAATCCACAACACATGTTGGATCTCAAGCCATCGATA-AAGAATAATT-AG
*
5942292 ATGCTGCTC
64 ATGCTACTC
* *** * * *
5942301 ATACAAACTTCAGAGAATCGGTAACACATGCTGGAACTCACGCCATC
1 ACACAAACTTCAGAGAATCCACAACACATGTTGGATCTCAAGCCATC
5942348 AATCATTAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
72 91 0.97
73 3 0.03
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (72 bp):
ACACAAACTTCAGAGAATCCACAACACATGTTGGATCTCAAGCCATCGATAAAGAATAATTAGAT
GCTACTC
Found at i:5952759 original size:21 final size:23
Alignment explanation
Indices: 5952735--5952781 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
5952725 GTATATAATA
*
5952735 TTTATACTTTT-T-ATACTTTTT
1 TTTATACTTTTCTAATAATTTTT
*
5952756 TTTATAGTTTTCTAATAATTTTT
1 TTTATACTTTTCTAATAATTTTT
5952779 TTT
1 TTT
5952782 GAATTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 1 0.05
23 11 0.50
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTATACTTTTCTAATAATTTTT
Found at i:5955987 original size:10 final size:11
Alignment explanation
Indices: 5955962--5955986 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5955952 ACTTGAGAGC
5955962 AAAATGAGTGA
1 AAAATGAGTGA
5955973 AAAATGAGTGA
1 AAAATGAGTGA
5955984 AAA
1 AAA
5955987 TCAGAGCGTC
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:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (11 bp):
AAAATGAGTGA
Found at i:5957345 original size:24 final size:24
Alignment explanation
Indices: 5957317--5957365 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
5957307 TTATAATCAC
5957317 AATTGAATATTTAAAACCACATTT
1 AATTGAATATTTAAAACCACATTT
5957341 AATTGAATATTTAAAACCACATTT
1 AATTGAATATTTAAAACCACATTT
5957365 A
1 A
5957366 TTCATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (24 bp):
AATTGAATATTTAAAACCACATTT
Found at i:5966753 original size:213 final size:210
Alignment explanation
Indices: 5966379--5966806 Score: 678
Period size: 213 Copynumber: 2.0 Consensus size: 210
5966369 ATCAAAACAC
*
5966379 AACCAAGACCGCTCAAGGAAGCATCACTATAAATGAAAAAATCCTTTCCCGATTTTGGTAAAGTC
1 AACCAAGACCGCTCAAGGAAGCATCACTATAAACGAAAAAATCCTTTCCCGATTTTGGTAAAGTC
* *
5966444 AATACTGGCGCTTCAGTTAACATCTGCTTTAATTTCTCAAAACTTTCTTGACATTGATCGTCCCA
66 AATACTGGCGCTTCAGTCAACATCTGCTTTAATTTCTCAAAACTTTCTTAACATTGATCGTCCCA
* * *
5966509 TACGAATTGAACATTTTTAAACAATAACTTTGTCATCGGTAAAGCTATCTTCGAAAATTCATTTA
131 TACGAATTGAACATTCTTAAACAACAACTTTGTCATCGGTAAAGCTATCTTCGAAAATCCATTTA
*
5966574 CAAATCTTCGGTAAT
196 CAAATCTTCGATAAT
* * *
5966589 AACCAAGATCGCTCAAGGAAGTATCACTATAAACGACAAAATCCTTTCCCGATTTTGGTAAAGTC
1 AACCAAGACCGCTCAAGGAAGCATCACTATAAACGAAAAAATCCTTTCCCGATTTTGGTAAAGT-
*
5966654 AACAATA-TCGGCGCTTCAGTCAACATCTGCTTTAATTTCTCAAAGCTTTCTTAACATTGATCGT
65 --CAATACT-GGCGCTTCAGTCAACATCTGCTTTAATTTCTCAAAACTTTCTTAACATTGATCGT
* * * *
5966718 CCCATATGAATTGAACATTCTTATACAACAACTTTGTCATCGGTAAAGTTATCTTTGAAAATCCA
127 CCCATACGAATTGAACATTCTTAAACAACAACTTTGTCATCGGTAAAGCTATCTTCGAAAATCCA
5966783 TTTACAAATCTTCGATAAT
192 TTTACAAATCTTCGATAAT
5966802 AACCA
1 AACCA
5966807 GCTAGTCCAA
Statistics
Matches: 199, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
210 60 0.30
212 1 0.01
213 138 0.69
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (210 bp):
AACCAAGACCGCTCAAGGAAGCATCACTATAAACGAAAAAATCCTTTCCCGATTTTGGTAAAGTC
AATACTGGCGCTTCAGTCAACATCTGCTTTAATTTCTCAAAACTTTCTTAACATTGATCGTCCCA
TACGAATTGAACATTCTTAAACAACAACTTTGTCATCGGTAAAGCTATCTTCGAAAATCCATTTA
CAAATCTTCGATAAT
Found at i:5973584 original size:56 final size:47
Alignment explanation
Indices: 5973410--5973897 Score: 733
Period size: 47 Copynumber: 10.2 Consensus size: 47
5973400 ATATGTGATT
*
5973410 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
5973457 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATATA
1 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
5973504 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATA
1 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
5973551 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTGTATA
1 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
5973598 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
5973645 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
5973692 TGTGATAAGGTCGAATGGCCAATGTGATGAATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCGAATGGCC--------G-ATGTGATGAATGTGAAAGTGTATATA
*
5973748 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
5973795 TGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTATATA
1 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
5973842 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATAAA
1 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
5973889 TGTGATAAG
1 TGTGATAAG
5973898 TCCCGAAGGG
Statistics
Matches: 408, Mismatches: 24, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
47 362 0.89
55 1 0.00
56 45 0.11
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:5973708 original size:31 final size:31
Alignment explanation
Indices: 5973673--5973764 Score: 76
Period size: 31 Copynumber: 3.2 Consensus size: 31
5973663 CCGATGTGAT
5973673 GAATGTGAAAGTGTATATATGTGATAAGGTC
1 GAATGTGAAAGTGTATATATGTGATAAGGTC
*
5973704 GAATG-GCCAA-TGTGATGA-ATGTG---A--T-
1 GAATGTG-AAAGTGT-AT-ATATGTGATAAGGTC
*
5973729 GAATGTGAAAGTGTATATATGTGATAAGGCC
1 GAATGTGAAAGTGTATATATGTGATAAGGTC
5973760 GAATG
1 GAATG
5973765 GCCAATGTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 24
0.63 0.04 0.33
Matches are distributed among these distances:
24 1 0.02
25 14 0.30
26 5 0.11
28 2 0.04
30 4 0.09
31 19 0.41
32 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.29
Consensus pattern (31 bp):
GAATGTGAAAGTGTATATATGTGATAAGGTC
Found at i:5973726 original size:9 final size:9
Alignment explanation
Indices: 5973712--5973736 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
5973702 TCGAATGGCC
5973712 AATGTGATG
1 AATGTGATG
5973721 AATGTGATG
1 AATGTGATG
5973730 AATGTGA
1 AATGTGA
5973737 AAGTGTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (9 bp):
AATGTGATG
Found at i:5973782 original size:31 final size:30
Alignment explanation
Indices: 5973691--5973783 Score: 76
Period size: 31 Copynumber: 3.2 Consensus size: 30
5973681 AAGTGTATAT
5973691 ATGTGATAAGGTCGAATGGCCAATGTGATGA
1 ATGTGATAAGG-CGAATGGCCAATGTGATGA
*
5973722 ATGTGAT-----GAATGTG--AAAGTGTAT-A
1 ATGTGATAAGGCGAATG-GCCAATGTG-ATGA
5973746 TATGTGATAAGGCCGAATGGCCAATGTGATGA
1 -ATGTGATAAGG-CGAATGGCCAATGTGATGA
5973778 ATGTGA
1 ATGTGA
5973784 AAGTGTATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 24
0.65 0.03 0.32
Matches are distributed among these distances:
24 6 0.12
25 14 0.29
26 1 0.02
30 1 0.02
31 20 0.42
32 6 0.12
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (30 bp):
ATGTGATAAGGCGAATGGCCAATGTGATGA
Found at i:5980870 original size:12 final size:12
Alignment explanation
Indices: 5980853--5980879 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5980843 GTTCGTCGAT
5980853 CACGGGCGACCA
1 CACGGGCGACCA
5980865 CACGGGCGACCA
1 CACGGGCGACCA
5980877 CAC
1 CAC
5980880 ACCCGTGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.44, G:0.30, T:0.00
Consensus pattern (12 bp):
CACGGGCGACCA
Found at i:5985875 original size:10 final size:10
Alignment explanation
Indices: 5985847--5985885 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
5985837 TGTTCTCTAC
*
5985847 TTTATATTAT
1 TTTATTTTAT
*
5985857 ATT-TTTTAT
1 TTTATTTTAT
5985866 TTTATTTTAT
1 TTTATTTTAT
5985876 TTTATTTTAT
1 TTTATTTTAT
5985886 ATATTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:5985881 original size:22 final size:22
Alignment explanation
Indices: 5985851--5985901 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
5985841 CTCTACTTTA
* *
5985851 TATTATATTTTTTATTTTATTT
1 TATTATATTTTATATATTATTT
* *
5985873 TATTTTATTTTATATATTA-TA
1 TATTATATTTTATATATTATTT
5985894 TATTATAT
1 TATTATAT
5985902 AAAATCATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTATATTTTATATATTATTT
Found at i:5985902 original size:14 final size:14
Alignment explanation
Indices: 5985847--5985902 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
5985837 TGTTCTCTAC
*
5985847 TTTATATTATATTT
1 TTTATATTATATAT
* *
5985861 TTTATTTTATTTTAT
1 TTTATATTA-TATAT
*
5985876 TTTATTTTATATAT
1 TTTATATTATATAT
*
5985890 TATATATTATATA
1 TTTATATTATATA
5985903 AAATCATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 23 0.66
15 12 0.34
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATATTATATAT
Found at i:5989737 original size:37 final size:38
Alignment explanation
Indices: 5989676--5989751 Score: 109
Period size: 37 Copynumber: 2.0 Consensus size: 38
5989666 AAGTTATTAA
* *
5989676 ATTTTAATAAAAAATCTAAGAAATATTTATCTGTTATT
1 ATTTTAATAAAAAATATAACAAATATTTATCTGTTATT
* *
5989714 ATTTTAAT-AAAAATATAACAAATATTTATTTTTTATT
1 ATTTTAATAAAAAATATAACAAATATTTATCTGTTATT
5989751 A
1 A
5989752 AAAATTAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
37 26 0.76
38 8 0.24
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (38 bp):
ATTTTAATAAAAAATATAACAAATATTTATCTGTTATT
Found at i:5989793 original size:19 final size:20
Alignment explanation
Indices: 5989750--5989916 Score: 62
Period size: 20 Copynumber: 8.4 Consensus size: 20
5989740 TATTTTTTAT
*
5989750 TAAAAATTAG-AAAAAGATTA
1 TAAAAATTCGTAAAAA-ATTA
* **
5989770 CAAAAATT-GTAAAATTTTA
1 TAAAAATTCGTAAAAAATTA
5989789 T-AAAATTCGTAAAAAATTA
1 TAAAAATTCGTAAAAAATTA
* * **
5989808 TAAAATATATAG-AAATATAGAA
1 TAAAA-AT-TCGTAAA-AAATTA
* * * * *
5989830 AAAAAAATAG-ATAAAATTT
1 TAAAAATTCGTAAAAAATTA
* *
5989849 TATAAAGTT-GTAAGAAAATGA
1 TA-AAAATTCGTAA-AAAATTA
* *
5989870 TAAAAAAT-GTAAAGAATTA
1 TAAAAATTCGTAAAAAATTA
5989889 T-AAAATTCGTAAAAGAATTA
1 TAAAAATTCGTAAAA-AATTA
5989909 TAAAAATT
1 TAAAAATT
5989917 ATAATCCTAA
Statistics
Matches: 106, Mismatches: 29, Indels: 23
0.67 0.18 0.15
Matches are distributed among these distances:
18 11 0.10
19 29 0.27
20 38 0.36
21 19 0.18
22 9 0.08
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (20 bp):
TAAAAATTCGTAAAAAATTA
Found at i:5995385 original size:24 final size:25
Alignment explanation
Indices: 5995351--5995418 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 25
5995341 GTGAATTGAT
* * *
5995351 CTGAAATTATT-TTGATAGTATATC
1 CTGAAACTATTGTAGATAGTATATA
*
5995375 CTGAAACTATTGTAGGTAGTATATA
1 CTGAAACTATTGTAGATAGTATATA
* * *
5995400 CTGAGACTACTATAGATAG
1 CTGAAACTATTGTAGATAG
5995419 GCTGTATTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 10 0.29
25 25 0.71
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (25 bp):
CTGAAACTATTGTAGATAGTATATA
Found at i:6008185 original size:19 final size:19
Alignment explanation
Indices: 6008142--6008182 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6008132 ATCTGATGCA
**
6008142 TTTTATAATTTTTTATGAT
1 TTTTATAAAATTTTATGAT
6008161 TTTTATAAAATTTTAT-AT
1 TTTTATAAAATTTTATGAT
6008179 TTTT
1 TTTT
6008183 TATGACTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTATAAAATTTTATGAT
Found at i:6008195 original size:28 final size:29
Alignment explanation
Indices: 6008141--6008195 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
6008131 CATCTGATGC
* *
6008141 ATTTTATAATTTTTTATGATTTTTATAAA
1 ATTTTATAATTTTTTATGACTTGTATAAA
6008170 ATTTTAT-ATTTTTTATGACTTGTATA
1 ATTTTATAATTTTTTATGACTTGTATA
6008196 TATATTTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (29 bp):
ATTTTATAATTTTTTATGACTTGTATAAA
Found at i:6008276 original size:9 final size:9
Alignment explanation
Indices: 6008142--6008277 Score: 69
Period size: 10 Copynumber: 14.4 Consensus size: 9
6008132 ATCTGATGCA
6008142 TTTTATAATT
1 TTTTATAA-T
*
6008152 TTTTATGAT
1 TTTTATAAT
*
6008161 TTTTATAAAA
1 TTTTAT-AAT
*
6008171 TTTTATATT
1 TTTTATAAT
* *
6008180 TTTTATGAC
1 TTTTATAAT
*
6008189 TTGTATATAT
1 TTTTATA-AT
* *
6008199 ATTTCTAAT
1 TTTTATAAT
*
6008208 TTTTAGTATT
1 TTTTA-TAAT
*
6008218 TTTTTTACAT
1 TTTTATA-AT
*
6008228 TTTTATTAAAG
1 TTTTA-T-AAT
*
6008239 TTTAATAAT
1 TTTTATAAT
*
6008248 TTTTATTGAT
1 TTTTA-TAAT
6008258 TTTTAT--T
1 TTTTATAAT
6008265 TTTTATAAT
1 TTTTATAAT
6008274 TTTT
1 TTTT
6008278 TGTCACATGT
Statistics
Matches: 92, Mismatches: 25, Indels: 19
0.68 0.18 0.14
Matches are distributed among these distances:
7 7 0.08
9 38 0.41
10 40 0.43
11 6 0.07
12 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:6010392 original size:14 final size:14
Alignment explanation
Indices: 6010373--6010399 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6010363 TCCCCAATAG
6010373 AAGAAAAAGAAAAA
1 AAGAAAAAGAAAAA
6010387 AAGAAAAAGAAAA
1 AAGAAAAAGAAAA
6010400 GCAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAAAAA
Found at i:6014591 original size:7 final size:7
Alignment explanation
Indices: 6014581--6014611 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
6014571 TTTTTAATTT
6014581 TTTAAAA
1 TTTAAAA
6014588 TTTAAAA
1 TTTAAAA
6014595 TTTAAAA
1 TTTAAAA
6014602 TTTTAAAA
1 -TTTAAAA
6014610 TT
1 TT
6014612 ATTATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAAAA
Found at i:6014600 original size:14 final size:15
Alignment explanation
Indices: 6014581--6014611 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6014571 TTTTTAATTT
6014581 TTTAAAA-TTTAAAA
1 TTTAAAATTTTAAAA
6014595 TTTAAAATTTTAAAA
1 TTTAAAATTTTAAAA
6014610 TT
1 TT
6014612 ATTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAAAATTTTAAAA
Found at i:6014654 original size:17 final size:17
Alignment explanation
Indices: 6014612--6014655 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
6014602 TTTTAAAATT
*
6014612 ATTATAAAAATTATTAA
1 ATTATTAAAATTATTAA
*
6014629 A-AATGTAAAATTATTAA
1 ATTAT-TAAAATTATTAA
6014646 ATTATTAAAA
1 ATTATTAAAA
6014656 AGTATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 2 0.09
17 18 0.82
18 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
ATTATTAAAATTATTAA
Found at i:6016664 original size:27 final size:27
Alignment explanation
Indices: 6016626--6016679 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
6016616 AATAAAATAT
*
6016626 TGGTCTTGCCTCTGTCAGAGGCGGCAC
1 TGGTCTTGCCTCTGCCAGAGGCGGCAC
6016653 TGGTCTTGCCTCTGCCAGAGGCGGCAC
1 TGGTCTTGCCTCTGCCAGAGGCGGCAC
6016680 CAGTTGGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.11, C:0.31, G:0.33, T:0.24
Consensus pattern (27 bp):
TGGTCTTGCCTCTGCCAGAGGCGGCAC
Found at i:6017318 original size:21 final size:20
Alignment explanation
Indices: 6017280--6017334 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
6017270 TATTTTTTTT
**
6017280 ATTTTTTTTTCAGATTCAAAA
1 ATTTTTTTTT-ACTTTCAAAA
**
6017301 ATTTTTTTATTACTTTCAACT
1 ATTTTTTT-TTACTTTCAAAA
6017322 ATTTTTTTTTACT
1 ATTTTTTTTTACT
6017335 AATTTTAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 5 0.17
21 22 0.76
22 2 0.07
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTTTTTTACTTTCAAAA
Found at i:6018545 original size:17 final size:17
Alignment explanation
Indices: 6018504--6018555 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
6018494 ACTTTTATTT
*
6018504 ATTTAAAATTTTTAAAA
1 ATTTAAATTTTTTAAAA
6018521 A--T--ATTTTTTAAAA
1 ATTTAAATTTTTTAAAA
*
6018534 TTTTAAATTTTTTAAAA
1 ATTTAAATTTTTTAAAA
6018551 ATTTA
1 ATTTA
6018556 TTTATTGCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
13 10 0.36
15 2 0.07
17 16 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTAAATTTTTTAAAA
Found at i:6024085 original size:139 final size:139
Alignment explanation
Indices: 6023910--6024183 Score: 494
Period size: 139 Copynumber: 2.0 Consensus size: 139
6023900 CACTTCCTCC
*
6023910 GAATAACAACCCCCAACCCAATGCAATACAACATACAATGGATGATATGTTATTATGCAATTTTA
1 GAATAACAACCCCCAACCCAATGCAATACAACATACAATGGATGATATGATATTATGCAATTTTA
*
6023975 GTACATTTATTCAGTTCAGATATTAACATGCTCAGTACAGATATCATTCAGTCAATTTCACACAT
66 GTACATATATTCAGTTCAGATATTAACATGCTCAGTACAGATATCATTCAGTCAATTTCACACAT
6024040 TTAGGCTTT
131 TTAGGCTTT
*
6024049 GAATAACAACCCCCAACCCAATGCAATGCAACATACAATGGATGATATGATATTATGCAATTTTA
1 GAATAACAACCCCCAACCCAATGCAATACAACATACAATGGATGATATGATATTATGCAATTTTA
* * *
6024114 GTACATATATTCAGTTCAGATATTAACATGTTCAGTACAGATATTATTCAGTCAATTTCATACAT
66 GTACATATATTCAGTTCAGATATTAACATGCTCAGTACAGATATCATTCAGTCAATTTCACACAT
6024179 TTAGG
131 TTAGG
6024184 GGTTTAAATA
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 129 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (139 bp):
GAATAACAACCCCCAACCCAATGCAATACAACATACAATGGATGATATGATATTATGCAATTTTA
GTACATATATTCAGTTCAGATATTAACATGCTCAGTACAGATATCATTCAGTCAATTTCACACAT
TTAGGCTTT
Found at i:6025791 original size:24 final size:24
Alignment explanation
Indices: 6025764--6025815 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
6025754 CTTAACCACC
6025764 AAACCACCAAGCCCATTCTAATAT
1 AAACCACCAAGCCCATTCTAATAT
* *
6025788 AAACTAGCAAGCCCATTCTAATAT
1 AAACCACCAAGCCCATTCTAATAT
6025812 AAAC
1 AAAC
6025816 TTACCAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.29, G:0.06, T:0.21
Consensus pattern (24 bp):
AAACCACCAAGCCCATTCTAATAT
Found at i:6025816 original size:24 final size:24
Alignment explanation
Indices: 6025771--6025816 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
6025761 ACCAAACCAC
6025771 CAAGCCCATTCTAATATAAACTAG
1 CAAGCCCATTCTAATATAAACTAG
6025795 CAAGCCCATTCTAATATAAACT
1 CAAGCCCATTCTAATATAAACT
6025817 TACCAACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (24 bp):
CAAGCCCATTCTAATATAAACTAG
Found at i:6028597 original size:29 final size:30
Alignment explanation
Indices: 6028538--6028595 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6028528 TCCGAGCCTT
*
6028538 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
6028568 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
6028596 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:6028825 original size:13 final size:13
Alignment explanation
Indices: 6028807--6028838 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6028797 TTTCCAGCAA
6028807 TTATGAATTTATT
1 TTATGAATTTATT
6028820 TTATGAATTTATT
1 TTATGAATTTATT
*
6028833 TGATGA
1 TTATGA
6028839 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6029046 original size:50 final size:50
Alignment explanation
Indices: 6028933--6029174 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
6028923 ATTTGGGTAA
* * *
6028933 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
6028989 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6029039 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6029089 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
6029139 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
6029175 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:6029122 original size:100 final size:103
Alignment explanation
Indices: 6028933--6029182 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
6028923 ATTTGGGTAA
6028933 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
6028998 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
6029039 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
6029101 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
6029139 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
6029183 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Done.