Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 204 of 210
Found at i:60120493 original size:21 final size:22
Alignment explanation
Indices: 60120456--60120504 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
60120446 ATAAAATTAT
60120456 TAAATATTAAAATAAAATAAAA
1 TAAATATTAAAATAAAATAAAA
*
60120478 TAAATATTTAAA-AAAATAAAA
1 TAAATATTAAAATAAAATAAAA
*
60120499 AAAATA
1 TAAATA
60120505 ATATGGGCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAATATTAAAATAAAATAAAA
Found at i:60121439 original size:30 final size:29
Alignment explanation
Indices: 60121405--60121470 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
60121395 TTAAATAAAA
*
60121405 AACTTTCAATTAGTTCAATGATCATTTTCT
1 AACTTTCAA-AAGTTCAATGATCATTTTCT
* *
60121435 AACTTTTTAAAAGTTCAATGATCATTTTGT
1 AAC-TTTCAAAAGTTCAATGATCATTTTCT
60121465 AACTTT
1 AACTTT
60121471 TTAAAGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 24 0.75
31 5 0.16
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.47
Consensus pattern (29 bp):
AACTTTCAAAAGTTCAATGATCATTTTCT
Found at i:60121471 original size:30 final size:30
Alignment explanation
Indices: 60121416--60121475 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
60121406 ACTTTCAATT
60121416 AGTTCAATGATCATTTTCTAACTTTTTAAA
1 AGTTCAATGATCATTTTCTAACTTTTTAAA
*
60121446 AGTTCAATGATCATTTTGTAACTTTTTAAA
1 AGTTCAATGATCATTTTCTAACTTTTTAAA
60121476 GTTAAGTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (30 bp):
AGTTCAATGATCATTTTCTAACTTTTTAAA
Found at i:60131630 original size:26 final size:26
Alignment explanation
Indices: 60131561--60131624 Score: 119
Period size: 26 Copynumber: 2.4 Consensus size: 26
60131551 AGTTATCTCA
60131561 ATTATTAAAATTTTAATTTTTTAAAGT
1 ATTA-TAAAATTTTAATTTTTTAAAGT
60131588 ATTATAAAATTTTAATTTTTTAAAGT
1 ATTATAAAATTTTAATTTTTTAAAGT
60131614 ATTATAAAATT
1 ATTATAAAATT
60131625 AGAATTGGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 33 0.89
27 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
ATTATAAAATTTTAATTTTTTAAAGT
Found at i:60132627 original size:2 final size:2
Alignment explanation
Indices: 60132620--60132663 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
60132610 GTTATACAGA
60132620 AT AT AT AT AT AT 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 AT AT AT AT AT AT
60132662 AT
1 AT
60132664 TAATATTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60133091 original size:31 final size:30
Alignment explanation
Indices: 60133036--60133094 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
60133026 AAAATATGTC
60133036 GTTTTTAGGGTAGTAGTTACGCGGTTAAGA
1 GTTTTTAGGGTAGTAGTTACGCGGTTAAGA
* * *
60133066 GTTTTTATTGGTAGTGGTTATGCGGTTAA
1 GTTTTTA-GGGTAGTAGTTACGCGGTTAA
60133095 TGGTCCATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.20, C:0.05, G:0.32, T:0.42
Consensus pattern (30 bp):
GTTTTTAGGGTAGTAGTTACGCGGTTAAGA
Found at i:60133682 original size:25 final size:25
Alignment explanation
Indices: 60133637--60133685 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
60133627 ATATAGTTTT
*
60133637 TATATTAATTATAAATGTTATAATA
1 TATATTAATTATAAATATTATAATA
60133662 TATATTATATTAT-AATATTATAAT
1 TATATTA-ATTATAAATATTATAAT
60133686 TAAACAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TATATTAATTATAAATATTATAATA
Found at i:60136621 original size:2 final size:2
Alignment explanation
Indices: 60136614--60136667 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
60136604 NNNNNNATAG
60136614 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60136655 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
60136668 TCGACAAATG
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60137805 original size:52 final size:51
Alignment explanation
Indices: 60137732--60137887 Score: 179
Period size: 52 Copynumber: 3.0 Consensus size: 51
60137722 ATGAAGAAAT
* *
60137732 AAAAA-AATATTTTTATTCAATTTGGGTTCATTCAAATAATATGGCGGCACTA
1 AAAAATAAT-TTTTTATTCAATTTGGGTGC-TTCAAATAATATGGCGGCACCA
* * *
60137784 AAAAATAATTTTTTATTCAATTTGGGTGCCTCTAAATAATGTGGTGGCACCA
1 AAAAATAATTTTTTATTCAATTTGGGTGCTTC-AAATAATATGGCGGCACCA
** * * *
60137836 AAAAATAATTTTTTATTTTATTTTGGTGCCTTTAAATAAAATGGCGGCACCA
1 AAAAATAATTTTTTATTCAATTTGGGTG-CTTCAAATAATATGGCGGCACCA
60137888 TAAATATTAA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
51 2 0.02
52 81 0.92
53 5 0.06
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (51 bp):
AAAAATAATTTTTTATTCAATTTGGGTGCTTCAAATAATATGGCGGCACCA
Found at i:60153564 original size:14 final size:13
Alignment explanation
Indices: 60153530--60153562 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
60153520 AATTATCTAG
60153530 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
60153543 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
60153556 ATTTTTT
1 ATTTTTT
60153563 TACTCCTGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTTTTAAAAAT
Found at i:60154118 original size:22 final size:22
Alignment explanation
Indices: 60154091--60154132 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
60154081 AATTAATTAA
60154091 AAAAATGAATTGAATATCATCT
1 AAAAATGAATTGAATATCATCT
60154113 AAAAATGAATTGAATATCAT
1 AAAAATGAATTGAATATCAT
60154133 GTATGGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (22 bp):
AAAAATGAATTGAATATCATCT
Found at i:60162576 original size:10 final size:10
Alignment explanation
Indices: 60162563--60162710 Score: 55
Period size: 10 Copynumber: 15.3 Consensus size: 10
60162553 TTTTGATGCA
60162563 TTTTATAAAT
1 TTTTATAAAT
*
60162573 TTTTAT-GAT
1 TTTTATAAAT
*
60162582 TTTTATAAAA
1 TTTTATAAAT
**
60162592 TTTTACCAAT
1 TTTTATAAAT
*
60162602 TTTTATATAT
1 TTTTATAAAT
60162612 TTTT-TACAAT
1 TTTTATA-AAT
* *
60162622 ATATAT-AA-
1 TTTTATAAAT
*
60162630 TTTTCT-AAT
1 TTTTATAAAT
*
60162639 TTTTAGT-GAT
1 TTTTA-TAAAT
60162649 TTTTA-AATAT
1 TTTTATAA-AT
*
60162659 TTTAAATATAAT
1 TTT-TATA-AAT
* *
60162671 TTAT-TAAAG
1 TTTTATAAAT
*
60162680 TTTAAT-AAT
1 TTTTATAAAT
60162689 TTTTAT-AAT
1 TTTTATAAAT
*
60162698 TTTTATAACT
1 TTTTATAAAT
60162708 TTT
1 TTT
60162711 ATTGATTTTT
Statistics
Matches: 99, Mismatches: 27, Indels: 24
0.66 0.18 0.16
Matches are distributed among these distances:
8 5 0.05
9 36 0.36
10 50 0.51
11 2 0.02
12 5 0.05
13 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:60162585 original size:19 final size:20
Alignment explanation
Indices: 60162563--60162615 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
60162553 TTTTGATGCA
**
60162563 TTTTATAAATTTTTA-TGAT
1 TTTTATAAATTTTTACCAAT
*
60162582 TTTTATAAAATTTTACCAAT
1 TTTTATAAATTTTTACCAAT
*
60162602 TTTTATATATTTTT
1 TTTTATAAATTTTT
60162616 TACAATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATAAATTTTTACCAAT
Found at i:60162698 original size:9 final size:9
Alignment explanation
Indices: 60162563--60162731 Score: 81
Period size: 9 Copynumber: 17.4 Consensus size: 9
60162553 TTTTGATGCA
60162563 TTTTATAAAT
1 TTTTAT-AAT
*
60162573 TTTTATGAT
1 TTTTATAAT
*
60162582 TTTTATAAAA
1 TTTTAT-AAT
*
60162592 TTTTACCAAT
1 TTTTA-TAAT
60162602 TTTTATATATT
1 TTTTATA-A-T
*
60162613 TTTTACAAT
1 TTTTATAAT
* *
60162622 ATATATAA-
1 TTTTATAAT
*
60162630 TTTTCTAAT
1 TTTTATAAT
*
60162639 TTTTAGTGAT
1 TTTTA-TAAT
*
60162649 TTTTAAATAT
1 TTTTATA-AT
60162659 TTTAAATATAAT
1 TTT---TATAAT
*
60162671 TTATTA-AAG
1 TT-TTATAAT
*
60162680 TTTAATAAT
1 TTTTATAAT
60162689 TTTTATAAT
1 TTTTATAAT
*
60162698 TTTTATAAC
1 TTTTATAAT
*
60162707 TTTTATTGATT
1 TTTTA-T-AAT
60162718 TTTTATAACT
1 TTTTATAA-T
60162728 TTTT
1 TTTT
60162732 GCCATATGTC
Statistics
Matches: 118, Mismatches: 26, Indels: 30
0.68 0.15 0.17
Matches are distributed among these distances:
8 7 0.06
9 47 0.40
10 43 0.36
11 13 0.11
12 4 0.03
13 4 0.03
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTATAAT
Found at i:60172357 original size:16 final size:16
Alignment explanation
Indices: 60172336--60172367 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60172326 TTAAACGTAT
60172336 ACAAAAATACAAAAAA
1 ACAAAAATACAAAAAA
*
60172352 ACAAAACTACAAAAAA
1 ACAAAAATACAAAAAA
60172368 TTTAAGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.16, G:0.00, T:0.06
Consensus pattern (16 bp):
ACAAAAATACAAAAAA
Found at i:60177928 original size:3 final size:3
Alignment explanation
Indices: 60177922--60178032 Score: 54
Period size: 3 Copynumber: 37.7 Consensus size: 3
60177912 TATAATATGC
* * *
60177922 ATA ATA A-A AT- ATA A-A AT- ATA ATA ACA ATA ATAA ATC ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * * *
60177964 CTA AT- ATGC ATA ATA A-A ACA ATG ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
60178008 ACA ATA ACA ATAA ATA ATAA ATA AT
1 ATA ATA ATA AT-A ATA AT-A ATA AT
60178033 TTTTTAAGTT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
2 12 0.15
3 58 0.72
4 11 0.14
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:60177994 original size:26 final size:25
Alignment explanation
Indices: 60177913--60177995 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
60177903 TAATAATGGT
* * *
60177913 ATAATATGCATAATAAAATATAAAA
1 ATAATATGCATAATAAAACATGATA
* *
60177938 TATAATA-ACAATAATAAATCATGATA
1 -ATAATATGC-ATAATAAAACATGATA
*
60177964 CTAATATGCATAATAAAACAATGATA
1 ATAATATGCATAATAAAAC-ATGATA
60177990 ATAATA
1 ATAATA
60177996 ATAATAACAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
25 15 0.33
26 30 0.67
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (25 bp):
ATAATATGCATAATAAAACATGATA
Found at i:60178131 original size:7 final size:7
Alignment explanation
Indices: 60178114--60178147 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
60178104 AAAGATAAAG
60178114 TAAAATA
1 TAAAATA
60178121 -AAAATA
1 TAAAATA
60178127 TAAAATA
1 TAAAATA
*
60178134 TAAAAAA
1 TAAAATA
60178141 TAAAATA
1 TAAAATA
60178148 AATAAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAAATA
Found at i:60178137 original size:32 final size:33
Alignment explanation
Indices: 60178092--60178155 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
60178082 TGGAGTAATA
* *
60178092 ATAACAATAATAAAAGATAAAGTAAAATAAAAAT
1 ATAACAATAATAAAAAATAAAAT-AAATAAAAAT
60178126 ATAA-AAT-ATAAAAAATAAAATAAATAAAAA
1 ATAACAATAATAAAAAATAAAATAAATAAAAA
60178156 GAATGCACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 9 0.32
32 12 0.43
33 3 0.11
34 4 0.14
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (33 bp):
ATAACAATAATAAAAAATAAAATAAATAAAAAT
Found at i:60178141 original size:16 final size:16
Alignment explanation
Indices: 60178091--60178155 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
60178081 GTGGAGTAAT
60178091 AATAACAAT-AATAAAA
1 AATAA-AATAAATAAAA
* *
60178107 GATAAAGTAAAATAAAA
1 AATAAAAT-AAATAAAA
60178124 ATATAAAAT--ATAAAA
1 A-ATAAAATAAATAAAA
60178139 AATAAAATAAATAAAA
1 AATAAAATAAATAAAA
60178155 A
1 A
60178156 GAATGCACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
14 7 0.17
15 9 0.22
16 11 0.28
17 7 0.17
18 6 0.15
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (16 bp):
AATAAAATAAATAAAA
Found at i:60178143 original size:14 final size:13
Alignment explanation
Indices: 60178114--60178154 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
60178104 AAAGATAAAG
*
60178114 TAAAATAAAAATA
1 TAAAATAAAAAAA
60178127 TAAAATATAAAAAA
1 TAAAATA-AAAAAA
60178141 TAAAATAAATAAAA
1 TAAAATAAA-AAAA
60178155 AGAATGCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAAATAAAAAAA
Found at i:60181689 original size:31 final size:31
Alignment explanation
Indices: 60181654--60181730 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
60181644 AAAAGAATTT
* * ***
60181654 AATAGTCCAATGACTTCAATAAAAACTTTTG
1 AATAGTTCAATGACTTAAATAAAAACCACTG
* *
60181685 AATAGTTCTATGACTTAAATGAAAACCACTG
1 AATAGTTCAATGACTTAAATAAAAACCACTG
60181716 AATAGTTCAATGACT
1 AATAGTTCAATGACT
60181731 ATTTTGTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.31
Consensus pattern (31 bp):
AATAGTTCAATGACTTAAATAAAAACCACTG
Found at i:60182516 original size:19 final size:19
Alignment explanation
Indices: 60182492--60182531 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60182482 AATGCCCAAA
*
60182492 AATCTTACGTTATAATTTT
1 AATCTTACATTATAATTTT
* *
60182511 AATCTTATATTATTATTTT
1 AATCTTACATTATAATTTT
60182530 AA
1 AA
60182532 AATTAACTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (19 bp):
AATCTTACATTATAATTTT
Found at i:60182829 original size:23 final size:22
Alignment explanation
Indices: 60182800--60182864 Score: 94
Period size: 23 Copynumber: 2.9 Consensus size: 22
60182790 ATAAACTATT
60182800 AATATTCCTCCACTAATACATA
1 AATATTCCTCCACTAATACATA
* *
60182822 ATATATTCCCCCCCTAATACATA
1 A-ATATTCCTCCACTAATACATA
60182845 AACTATTCCTCCACTAATAC
1 AA-TATTCCTCCACTAATAC
60182865 TTACCGATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 2 0.05
23 35 0.95
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.31
Consensus pattern (22 bp):
AATATTCCTCCACTAATACATA
Found at i:60188008 original size:18 final size:19
Alignment explanation
Indices: 60187973--60188018 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
60187963 TAACCAAATA
*
60187973 AAAATAAAAATATTTAATT
1 AAAATAAAAATATGTAATT
*
60187992 AACATAAAAAT-TGTAATT
1 AAAATAAAAATATGTAATT
60188010 AAAATAAAA
1 AAAATAAAA
60188019 TAAAAAGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATAAAAATATGTAATT
Found at i:60192827 original size:22 final size:22
Alignment explanation
Indices: 60192797--60192839 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
60192787 CATTTTTATT
*
60192797 TTATTTTATTTATTATTATTTC
1 TTATATTATTTATTATTATTTC
*
60192819 TTATATTATTTATTTTTATTT
1 TTATATTATTTATTATTATTT
60192840 TACTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (22 bp):
TTATATTATTTATTATTATTTC
Found at i:60192855 original size:42 final size:41
Alignment explanation
Indices: 60192788--60192869 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
60192778 TAATCACCCC
* ** *
60192788 ATTTTTATTTTATTTTATTTATTATTATTTCTTATATTATTT
1 ATTTTTATTTTACTAAATTTATTATTATTTATT-TATTATTT
* *
60192830 ATTTTTATTTTACTAAATTTTTTATTTTTTATTTATTATT
1 ATTTTTATTTTACTAAATTTATTATTATTTATTTATTATT
60192870 CTTATACTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 7 0.21
42 27 0.79
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (41 bp):
ATTTTTATTTTACTAAATTTATTATTATTTATTTATTATTT
Found at i:60224484 original size:23 final size:22
Alignment explanation
Indices: 60224456--60224527 Score: 73
Period size: 21 Copynumber: 3.4 Consensus size: 22
60224446 AAATTAAATC
*
60224456 TCTAAGATTACAAAATCATATTT
1 TCTAAGATTACAATATCATA-TT
*
60224479 TCTAAGATTGC-ATATCATA-T
1 TCTAAGATTACAATATCATATT
60224499 TC-AAGATTACATATATCATA--
1 TCTAAGATTACA-ATATCATATT
60224519 TCTAAGATT
1 TCTAAGATT
60224528 GCATATCCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
19 7 0.16
20 5 0.12
21 14 0.33
22 7 0.16
23 10 0.23
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (22 bp):
TCTAAGATTACAATATCATATT
Found at i:60224506 original size:19 final size:22
Alignment explanation
Indices: 60224479--60224534 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 22
60224469 AATCATATTT
60224479 TCTAAGATTGCATATCAT-AT-
1 TCTAAGATTGCATATCATCATA
*
60224499 TC-AAGATTACATAT-ATCATA
1 TCTAAGATTGCATATCATCATA
60224519 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
60224535 CTTGAAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 2 0.07
19 13 0.43
20 4 0.13
21 11 0.37
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (22 bp):
TCTAAGATTGCATATCATCATA
Found at i:60232460 original size:15 final size:15
Alignment explanation
Indices: 60232440--60232470 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
60232430 ATCCACATCA
60232440 GAGCCATCATGTTTT
1 GAGCCATCATGTTTT
60232455 GAGCCATCATGTTTT
1 GAGCCATCATGTTTT
60232470 G
1 G
60232471 GAATTTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (15 bp):
GAGCCATCATGTTTT
Found at i:60239182 original size:31 final size:31
Alignment explanation
Indices: 60239147--60239211 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
60239137 TAGTTCAATG
* *
60239147 ACTTAAACAAAAATTTTTGAATAATTTAATA
1 ACTTAAACAAAAACTATTGAATAATTTAATA
* *
60239178 ACTTAAATAAAAACTATTGAATAGTTTAATA
1 ACTTAAACAAAAACTATTGAATAATTTAATA
60239209 ACT
1 ACT
60239212 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.37
Consensus pattern (31 bp):
ACTTAAACAAAAACTATTGAATAATTTAATA
Found at i:60243888 original size:14 final size:14
Alignment explanation
Indices: 60243869--60243895 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60243859 TATTCGAGTG
60243869 ATAAAGTGTTTAAA
1 ATAAAGTGTTTAAA
60243883 ATAAAGTGTTTAA
1 ATAAAGTGTTTAA
60243896 GTGTTAAGTG
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:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (14 bp):
ATAAAGTGTTTAAA
Found at i:60244097 original size:23 final size:23
Alignment explanation
Indices: 60244071--60244284 Score: 248
Period size: 23 Copynumber: 9.3 Consensus size: 23
60244061 AGTGTTATTG
60244071 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
60244094 ATCAGTGGTAGCTTCGGCTATAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
60244117 TTCAATGGTAGCTACGGCTATAT
1 ATCAGTGGTAGCTACGGCTACAT
*
60244140 ATCAGTGGTAGCTACGGATACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
60244163 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
60244186 TTCAGTGATAGCTACGACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * **
60244209 ATTAGTGGTAGCTTCAACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * * *
60244232 TTCAGTGGTAGCAACTGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
* *
60244255 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
60244278 ATCAGTG
1 ATCAGTG
60244285 TGGCACTTAT
Statistics
Matches: 159, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 159 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:60244779 original size:31 final size:30
Alignment explanation
Indices: 60244721--60244783 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
60244711 CTTTAGACTT
*
60244721 TTGTATAAATTTTATTTAAACATAAAAAATA
1 TTGTATAAATTTAATTTAAAC-TAAAAAATA
*
60244752 TTGTATAAATTTCAATTTTAA-TAAAAAATA
1 TTGTATAAATTT-AATTTAAACTAAAAAATA
60244782 TT
1 TT
60244784 ATTAGAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 11 0.38
31 12 0.41
32 6 0.21
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (30 bp):
TTGTATAAATTTAATTTAAACTAAAAAATA
Found at i:60249993 original size:21 final size:21
Alignment explanation
Indices: 60249928--60250038 Score: 98
Period size: 21 Copynumber: 5.2 Consensus size: 21
60249918 TGTTGCTCAT
* *
60249928 TATTATTATTATTATTATTAT
1 TATTATTATTATTATCATTAC
*
60249949 TATTATTATTATTATTATTAC
1 TATTATTATTATTATCATTAC
* * *
60249970 TATTATTATTATTGTCCTTGC
1 TATTATTATTATTATCATTAC
** *
60249991 TATTATTATTGGTATTATTAC
1 TATTATTATTATTATCATTAC
*
60250012 TAATATATTTATTACTATCATTA-
1 T-AT-TA-TTATTATTATCATTAC
60250035 TATT
1 TATT
60250039 TATACTCATA
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
21 54 0.74
22 4 0.05
23 3 0.04
24 12 0.16
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTATTATTATTATCATTAC
Found at i:60250000 original size:3 final size:3
Alignment explanation
Indices: 60249926--60249982 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
60249916 TATGTTGCTC
*
60249926 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
60249974 ATT ATT ATT
1 ATT ATT ATT
60249983 GTCCTTGCTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:60250173 original size:14 final size:14
Alignment explanation
Indices: 60250154--60250186 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
60250144 TCATTTTGTA
60250154 TATATATATATATT
1 TATATATATATATT
*
60250168 TATATATGTATATT
1 TATATATATATATT
60250182 TATAT
1 TATAT
60250187 TTTTCTCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TATATATATATATT
Found at i:60250441 original size:8 final size:8
Alignment explanation
Indices: 60250430--60250472 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
60250420 TATATATATC
60250430 TTTTTATA
1 TTTTTATA
60250438 TTTTTATA
1 TTTTTATA
*
60250446 GTTTTATA
1 TTTTTATA
* *
60250454 TTTTTTTG
1 TTTTTATA
*
60250462 TTTTTTTA
1 TTTTTATA
60250470 TTT
1 TTT
60250473 ACATTTTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Found at i:60252151 original size:19 final size:19
Alignment explanation
Indices: 60252127--60252164 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
60252117 ATCTAGCCCT
60252127 CTCCAACACCTGAAATGAG
1 CTCCAACACCTGAAATGAG
60252146 CTCCAACACCTGAAATGAG
1 CTCCAACACCTGAAATGAG
60252165 GATGGTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.32, G:0.16, T:0.16
Consensus pattern (19 bp):
CTCCAACACCTGAAATGAG
Found at i:60252292 original size:21 final size:21
Alignment explanation
Indices: 60252268--60252315 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
60252258 CACCACTCTT
60252268 CTTTCTATTCCACTTTTGGTC
1 CTTTCTATTCCACTTTTGGTC
60252289 CTTTCTATTCCACTTTTGGTC
1 CTTTCTATTCCACTTTTGGTC
60252310 CTTTCT
1 CTTTCT
60252316 TCTTTCACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.08, C:0.29, G:0.08, T:0.54
Consensus pattern (21 bp):
CTTTCTATTCCACTTTTGGTC
Found at i:60260667 original size:104 final size:104
Alignment explanation
Indices: 60260479--60260746 Score: 360
Period size: 104 Copynumber: 2.6 Consensus size: 104
60260469 ATTGCATAAA
** * * *
60260479 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGATGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATT
*
60260544 TTTAAATGTGAAAGAGGGTTGCTAAGTGCTAATTCCCCC
66 TTGAAATGTGAAAGAGGGTTGCTAAGTGCTAATTCCCCC
* *
60260583 GAGGGGTTGCTAAGTGATGATTCCCCTAC-CTATTGGTGGTTGCTAAGTGCTGATTCCACCATAT
1 AAGGGGTTGCTAAGTGATGATTCCCCGACTC-ATTGGTGGTTGCTAAGTGCTGATTCCACCATAT
* *
60260647 CTTTGAAATGT-AAAGGGGGTTGCTAAGTGCTGATTCCCCC
65 -TTTGAAATGTGAAAGAGGGTTGCTAAGTGCTAATTCCCCC
** * * * *
60260687 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCGGAATCCACC
1 AAGGGGTTGCTAAGTGATGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACC
60260747 GAAAACGGTT
Statistics
Matches: 143, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
103 1 0.01
104 132 0.92
105 10 0.07
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGATGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATT
TTGAAATGTGAAAGAGGGTTGCTAAGTGCTAATTCCCCC
Found at i:60268526 original size:18 final size:18
Alignment explanation
Indices: 60268503--60268537 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60268493 CCAATTAGCA
60268503 AAGCCCAAACGGCCCAAT
1 AAGCCCAAACGGCCCAAT
*
60268521 AAGCCCAACCGGCCCAA
1 AAGCCCAAACGGCCCAA
60268538 AATCCAGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.43, G:0.17, T:0.03
Consensus pattern (18 bp):
AAGCCCAAACGGCCCAAT
Found at i:60269602 original size:3 final size:3
Alignment explanation
Indices: 60269594--60269660 Score: 107
Period size: 3 Copynumber: 22.0 Consensus size: 3
60269584 TAGTCCTGTC
60269594 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
60269642 ATT ATAT ATC ATT GTT ATT
1 ATT AT-T ATT ATT ATT ATT
60269661 CTCATTATAT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:60269837 original size:16 final size:16
Alignment explanation
Indices: 60269816--60269851 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
60269806 ATACTTTTTT
60269816 TATATATGTATATCTA
1 TATATATGTATATCTA
*
60269832 TATATATGTCTATCTA
1 TATATATGTATATCTA
60269848 TATA
1 TATA
60269852 CTTTCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (16 bp):
TATATATGTATATCTA
Found at i:60269932 original size:2 final size:2
Alignment explanation
Indices: 60269914--60269948 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
60269904 TGGCTTCTTT
* *
60269914 TA TA TC TA TA CA 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 T
60269949 TTATCTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:60270013 original size:11 final size:11
Alignment explanation
Indices: 60269997--60270034 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
60269987 ACATGCACAT
60269997 TTTTATATATA
1 TTTTATATATA
60270008 TTTTATATATA
1 TTTTATATATA
60270019 TATTTATATAATA
1 T-TTTATAT-ATA
60270032 TTT
1 TTT
60270035 ATACGTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 12 0.48
12 9 0.36
13 4 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTATATATA
Found at i:60270018 original size:13 final size:13
Alignment explanation
Indices: 60269995--60270034 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 13
60269985 TCACATGCAC
60269995 ATTTT-TATATAT
1 ATTTTATATATAT
60270007 ATTTTATATATAT
1 ATTTTATATATAT
60270020 A-TTTATATA-AT
1 ATTTTATATATAT
60270031 ATTT
1 ATTT
60270035 ATACGTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.12
12 15 0.58
13 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTATATATAT
Found at i:60274599 original size:42 final size:42
Alignment explanation
Indices: 60274552--60274664 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 42
60274542 ATCCGATTCG
60274552 AAAAAAAGGAAAAGAAAAAAAAGAAAAAAATCAAAATCAAAAT
1 AAAAAAA-GAAAAGAAAAAAAAGAAAAAAATCAAAATCAAAAT
* * ** *
60274595 AAAAAAACAAAA-AGAAAAAGAGAAATCAATCAAAGTCAAAAT
1 AAAAAAAGAAAAGA-AAAAAAAGAAAAAAATCAAAATCAAAAT
* *
60274637 AAAAATATGAAAAGCAAAGAAAAGAAAA
1 AAAAA-AAGAAAAG-AAAAAAAAGAAAA
60274665 GAAGAGGCCA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
41 1 0.02
42 33 0.59
43 12 0.21
44 9 0.16
45 1 0.02
ACGTcount: A:0.75, C:0.06, G:0.11, T:0.08
Consensus pattern (42 bp):
AAAAAAAGAAAAGAAAAAAAAGAAAAAAATCAAAATCAAAAT
Found at i:60274607 original size:20 final size:20
Alignment explanation
Indices: 60274570--60274606 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60274560 GAAAAGAAAA
60274570 AAAAGAAAAAAATCAAAATC
1 AAAAGAAAAAAATCAAAATC
*
60274590 AAAATAAAAAAA-CAAAA
1 AAAAGAAAAAAATCAAAA
60274607 AGAAAAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.81, C:0.08, G:0.03, T:0.08
Consensus pattern (20 bp):
AAAAGAAAAAAATCAAAATC
Found at i:60275035 original size:20 final size:20
Alignment explanation
Indices: 60275012--60275055 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
60275002 ATGAAGTTCA
60275012 AAAAAAAAAGATG-AAAAATG
1 AAAAAAAAA-ATGAAAAAATG
**
60275032 AAAATGAAAATGAAAAAATG
1 AAAAAAAAAATGAAAAAATG
60275052 AAAA
1 AAAA
60275056 GTAAAATGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (20 bp):
AAAAAAAAAATGAAAAAATG
Found at i:60277606 original size:64 final size:64
Alignment explanation
Indices: 60277519--60277666 Score: 219
Period size: 64 Copynumber: 2.3 Consensus size: 64
60277509 ATATATATTT
* *
60277519 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTAAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCAAATATAGGTTAC
* *
60277583 AAAGTTCTTAAGTTGAATTTAATGTATGAATTTTACTTACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTAAGCTGAATTTAATGTATGAATTTTACTTACATATGTGGTTCAAATATAGGTTAC
*
60277647 AAA-TTCTTTGAGCTGAATTT
1 AAAGTTC-TTAAGCTGAATTT
60277667 TGATGTTGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
63 3 0.04
64 72 0.95
65 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (64 bp):
AAAGTTCTTAAGCTGAATTTAATGTATGAATTTTACTTACATATGTGGTTCAAATATAGGTTAC
Found at i:60277874 original size:41 final size:41
Alignment explanation
Indices: 60277815--60277969 Score: 179
Period size: 41 Copynumber: 3.8 Consensus size: 41
60277805 ATATGAGATT
* * * *
60277815 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
60277856 TTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
60277897 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * * * *
60277939 -TCGGGCTTTGTGCCTAGCAGGCTTTATGCCG
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCG
60277970 ATGTTTTATA
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.02
41 89 0.90
42 8 0.08
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:60284595 original size:64 final size:63
Alignment explanation
Indices: 60284485--60284655 Score: 224
Period size: 64 Copynumber: 2.7 Consensus size: 63
60284475 NNNNNNNNNG
* *
60284485 AGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTACAAAGTTC-TTA
1 AGCTGAATTTAATGTATGAATTTTAT-TACATATGTGGTTCGAATATAGGTTACAAA-TTCTTTA
* *
60284549 AGTTGAATTTAATGTATGAATTTTACTTACATATGTGGTTCGAATATAGGTTACAAATTCTTTG
1 AGCTGAATTTAATGTATGAATTTTA-TTACATATGTGGTTCGAATATAGGTTACAAATTCTTTA
*
60284613 AGCTGAATTTTAATGT-TGTAA-ATTA-TACATATGTGGTTCGAAT
1 AGCTGAA-TTTAATGTATG-AATTTTATTACATATGTGGTTCGAAT
60284656 GTTTGTTTGC
Statistics
Matches: 97, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
62 18 0.19
63 3 0.03
64 65 0.67
65 11 0.11
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.43
Consensus pattern (63 bp):
AGCTGAATTTAATGTATGAATTTTATTACATATGTGGTTCGAATATAGGTTACAAATTCTTTA
Found at i:60284830 original size:41 final size:41
Alignment explanation
Indices: 60284771--60284928 Score: 176
Period size: 41 Copynumber: 3.9 Consensus size: 41
60284761 ATATGAGATT
* * * *
60284771 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
* *
60284812 TTTAGACTTTATGTCTAGCAAGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
60284853 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * * * *
60284895 -TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
60284929 TTTTATACAA
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.02
41 90 0.90
42 8 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:60285642 original size:2 final size:2
Alignment explanation
Indices: 60285635--60285670 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
60285625 TTATATGGTA
60285635 AT AT AT 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 AT AT AT
60285671 GTGCATGGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60291626 original size:64 final size:64
Alignment explanation
Indices: 60291544--60291710 Score: 211
Period size: 64 Copynumber: 2.6 Consensus size: 64
60291534 AAGTTTCTTG
*
60291544 AGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTACAAAGTTC-TTA
1 AGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTACAAA-TTCTTTA
* * *
60291608 AGTTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTACAAATTCTTTG
1 AGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTACAAATTCTTTA
*
60291672 AGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
60291711 GAATGTTTGT
Statistics
Matches: 92, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
61 1 0.01
62 14 0.15
63 4 0.04
64 62 0.67
65 11 0.12
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (64 bp):
AGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTACAAATTCTTTA
Found at i:60291889 original size:41 final size:41
Alignment explanation
Indices: 60291830--60291948 Score: 168
Period size: 41 Copynumber: 2.9 Consensus size: 41
60291820 ATATGAGATT
* * * *
60291830 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
* *
60291871 TTTAGACTTTATGTCTAGCAAGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
60291912 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTGAA
60291949 ATGAATCGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 66 0.96
42 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:60292749 original size:14 final size:15
Alignment explanation
Indices: 60292725--60292759 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
60292715 TACTTTAATC
60292725 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
60292740 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
60292755 ATGGT
1 ATGGT
60292760 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:60293521 original size:87 final size:87
Alignment explanation
Indices: 60293375--60293967 Score: 1035
Period size: 87 Copynumber: 6.8 Consensus size: 87
60293365 AGATCAGTGA
* * *
60293375 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGACATCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
60293440 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTACGTTAACAGCGAAGC
* * *
60293462 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGACATCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * **
60293527 CTTCCTGCGTTAATAATGAAGC
66 CTTCCTACGTTAACAGCGAAGC
60293549 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
60293614 CTTCCTACGTTAACAGCGAAGC
66 CTTCCTACGTTAACAGCGAAGC
* *
60293636 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAAATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
60293701 CTTCCTACGTTAACAGCGAAGC
66 CTTCCTACGTTAACAGCGAAGC
60293723 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
60293788 CTTCCTACGTTAACAGCGAAGC
66 CTTCCTACGTTAACAGCGAAGC
60293810 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
60293875 CTTCCTACGTTAACAGCGAAGC
66 CTTCCTACGTTAACAGCGAAGC
* * *
60293897 AGATCG-AAACAAAGCCTTGCCTCCATCGGTTGTACTGGAGCTGGTTAAAGATAGCAAATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
60293961 CTTCCTA
66 CTTCCTA
60293968 AGTACTAGCG
Statistics
Matches: 487, Mismatches: 19, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
86 62 0.13
87 425 0.87
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTACGTTAACAGCGAAGC
Found at i:60294100 original size:44 final size:44
Alignment explanation
Indices: 60294045--60294452 Score: 238
Period size: 44 Copynumber: 9.6 Consensus size: 44
60294035 CCACCAGTCC
* *
60294045 TATCTCCCTAAGTAGTAGTGGAGCAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* * *
60294089 TATCTCCCTAAGCAGTAGTGGAGCAGATCG--CA-TCAAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* * * ** * *
60294129 TATCTCCCTAAGCAGTAGCGGAGCA-GACAAAAGAAACCA-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAGATTCTAGATCT
* * * * * * *
60294172 TATCTCCCTGAGCAGCATTGGAGTAGCTTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* * ** * * *
60294216 TATCTCTCTAAGCAATAGCAGAGCAGATCG--CA-TCCAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* * *
60294256 TATCTCCCTAAGCAGTAGTAGAGTAGGTCGAAGATTATAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* * *
60294300 TATCTCCCTAAGCAGTAGTGGAGCAGATCG--CA-TCAAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* * * * * ** * *
60294340 TATCTCCCTAAGCAGTAGCGGTGTA-GACAAAAGAAACCA-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAGATTCTAGATCT
* * * * *
60294383 TATCTCCCTGAGCAGTAGGGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
* *
60294427 TATCTCTCTAAGCCA-TAGTAGAGCAG
1 TATCTCCCTAAG-CAGTAGTGGAGCAG
60294453 ATCGCATCCA
Statistics
Matches: 265, Mismatches: 80, Indels: 38
0.69 0.21 0.10
Matches are distributed among these distances:
39 2 0.01
40 80 0.30
41 9 0.03
42 6 0.02
43 63 0.24
44 103 0.39
45 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTCTAGATCT
Found at i:60294173 original size:127 final size:127
Alignment explanation
Indices: 60294001--60294273 Score: 357
Period size: 127 Copynumber: 2.1 Consensus size: 127
60293991 ACGGCGAATA
* * *** ** * * *
60294001 TTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGTAGTAGTGG
1 TTATCTCCCTAAGCAGTAGCGAAGCAGACAAAAGAAACCAATCCTATCTCCCTAAGCAGCAGTGG
* * **
60294066 AGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTC
66 AGCAGCTCGAAGATTGTAGATCTTATCTCCCTAAGCAATAGCAGAGCAGATCGCATCAAGTC
* * *
60294128 TTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAGCAGCATTGG
1 TTATCTCCCTAAGCAGTAGCGAAGCAGACAAAAGAAACCAATCCTATCTCCCTAAGCAGCAGTGG
* * * *
60294193 AGTAGCTTGAAGATTGTAGATCTTATCTCTCTAAGCAATAGCAGAGCAGATCGCATCCAGTC
66 AGCAGCTCGAAGATTGTAGATCTTATCTCCCTAAGCAATAGCAGAGCAGATCGCATCAAGTC
60294255 TTATCTCCCTAAGCAGTAG
1 TTATCTCCCTAAGCAGTAG
60294274 TAGAGTAGGT
Statistics
Matches: 125, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
127 125 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (127 bp):
TTATCTCCCTAAGCAGTAGCGAAGCAGACAAAAGAAACCAATCCTATCTCCCTAAGCAGCAGTGG
AGCAGCTCGAAGATTGTAGATCTTATCTCCCTAAGCAATAGCAGAGCAGATCGCATCAAGTC
Found at i:60294289 original size:84 final size:84
Alignment explanation
Indices: 60294172--60294357 Score: 264
Period size: 84 Copynumber: 2.2 Consensus size: 84
60294162 AAACCAATCC
* * * * * * *
60294172 TATCTCCCTGAGCAGCATTGGAGTAGCTTGAAGATTGTAGATCTTATCTCTCTAAGCAATAGCAG
1 TATCTCCCTAAGCAGTAGTAGAGTAGCTCGAAGATTATAGATCTTATCTCCCTAAGCAATAGCAG
*
60294237 AGCAGATCGCATCCAGTCT
66 AGCAGATCGCATCAAGTCT
* * **
60294256 TATCTCCCTAAGCAGTAGTAGAGTAGGTCGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTAGAGTAGCTCGAAGATTATAGATCTTATCTCCCTAAGCAATAGCAG
60294321 AGCAGATCGCATCAAGTCT
66 AGCAGATCGCATCAAGTCT
60294340 TATCTCCCTAAGCAGTAG
1 TATCTCCCTAAGCAGTAG
60294358 CGGTGTAGAC
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (84 bp):
TATCTCCCTAAGCAGTAGTAGAGTAGCTCGAAGATTATAGATCTTATCTCCCTAAGCAATAGCAG
AGCAGATCGCATCAAGTCT
Found at i:60294291 original size:211 final size:211
Alignment explanation
Indices: 60294038--60294475 Score: 759
Period size: 211 Copynumber: 2.1 Consensus size: 211
60294028 ATTTAAGCCA
* * * *
60294038 CCAGTCCTATCTCCCTAAGTAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCA
1 CCAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGGTCGAAGATTATAGATCTTATCTCCCTAAGCA
60294103 GTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCA
66 GTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCA
**
60294168 ATCCTATCTCCCTGAGCAGCATTGGAGTAGCTTGAAGATTGTAGATCTTATCTCTCTAAGCAATA
131 ATCCTATCTCCCTGAGCAGCAGGGGAGTAGCTTGAAGATTGTAGATCTTATCTCTCTAAGCAATA
60294233 GCAGAGCAGATCGCAT
196 GCAGAGCAGATCGCAT
*
60294249 CCAGTCTTATCTCCCTAAGCAGTAGTAGAGTAGGTCGAAGATTATAGATCTTATCTCCCTAAGCA
1 CCAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGGTCGAAGATTATAGATCTTATCTCCCTAAGCA
* *
60294314 GTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGCGGTGTAGACAAAAGAAACCA
66 GTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCA
* * *
60294379 ATCCTATCTCCCTGAGCAGTAGGGGAGTAGGTTGAAGATTGTAGATCTTATCTCTCTAAGCCATA
131 ATCCTATCTCCCTGAGCAGCAGGGGAGTAGCTTGAAGATTGTAGATCTTATCTCTCTAAGCAATA
*
60294444 GTAGAGCAGATCGCAT
196 GCAGAGCAGATCGCAT
60294460 CCAGTCTTATCTCCCT
1 CCAGTCTTATCTCCCT
60294476 GAAGTTACAG
Statistics
Matches: 214, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
211 214 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (211 bp):
CCAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGGTCGAAGATTATAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAAGAAACCA
ATCCTATCTCCCTGAGCAGCAGGGGAGTAGCTTGAAGATTGTAGATCTTATCTCTCTAAGCAATA
GCAGAGCAGATCGCAT
Found at i:60295823 original size:3 final size:3
Alignment explanation
Indices: 60295815--60295860 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
60295805 TAGTCCTGTC
* *
60295815 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATC ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
60295861 CTCATTATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:60296037 original size:16 final size:16
Alignment explanation
Indices: 60296016--60296051 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
60296006 ATACTTTTTT
*
60296016 TATATATGTATATCTA
1 TATATATGCATATCTA
*
60296032 TATATATGCCTATCTA
1 TATATATGCATATCTA
60296048 TATA
1 TATA
60296052 CTTTCCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (16 bp):
TATATATGCATATCTA
Found at i:60296199 original size:11 final size:11
Alignment explanation
Indices: 60296183--60296220 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
60296173 ACATGCACAT
60296183 TTTTATATATA
1 TTTTATATATA
60296194 TTTTATATATA
1 TTTTATATATA
60296205 TATTTATATAATA
1 T-TTTATAT-ATA
60296218 TTT
1 TTT
60296221 ATACGTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 12 0.48
12 9 0.36
13 4 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTATATATA
Found at i:60296204 original size:13 final size:13
Alignment explanation
Indices: 60296181--60296220 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 13
60296171 TCACATGCAC
60296181 ATTTT-TATATAT
1 ATTTTATATATAT
60296193 ATTTTATATATAT
1 ATTTTATATATAT
60296206 A-TTTATATA-AT
1 ATTTTATATATAT
60296217 ATTT
1 ATTT
60296221 ATACGTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.12
12 15 0.58
13 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTATATATAT
Found at i:60297678 original size:9 final size:9
Alignment explanation
Indices: 60297664--60297690 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
60297654 GTTTGAGGAT
60297664 TTAATATCA
1 TTAATATCA
60297673 TTAATATCA
1 TTAATATCA
60297682 TTAATATCA
1 TTAATATCA
60297691 CTCTTGGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (9 bp):
TTAATATCA
Found at i:60330683 original size:29 final size:30
Alignment explanation
Indices: 60330643--60330700 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 30
60330633 TCTTTTTATT
60330643 AAAAATAGAC-AAATTAAGATCAAAGTATA
1 AAAAATAGACAAAATTAAGATCAAAGTATA
60330672 AAAAATAGACAAAAATTAAGATCAAAGTA
1 AAAAATAGAC-AAAATTAAGATCAAAGTA
60330701 CAAATTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 10 0.37
31 17 0.63
ACGTcount: A:0.64, C:0.07, G:0.10, T:0.19
Consensus pattern (30 bp):
AAAAATAGACAAAATTAAGATCAAAGTATA
Found at i:60336096 original size:57 final size:58
Alignment explanation
Indices: 60335986--60336096 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 58
60335976 GTTTAGCGCC
** * * * * *
60335986 TAACTTGGACTAAAAAAGTTTAGGTCCCAATGTGAGAATAATTGCCAAGTTCAAAGCT
1 TAACTTGGACTAAAAAAAATTAGGCCCCAATATGAGAAAAATTACCAAATTCAAAGCT
*
60336044 TAACTTGGA-TAAAAAAAATTAGGCCCCAATATGAGAAAAATTACTAAATTCAA
1 TAACTTGGACTAAAAAAAATTAGGCCCCAATATGAGAAAAATTACCAAATTCAA
60336097 GCCCCAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 36 0.80
58 9 0.20
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.26
Consensus pattern (58 bp):
TAACTTGGACTAAAAAAAATTAGGCCCCAATATGAGAAAAATTACCAAATTCAAAGCT
Found at i:60340982 original size:22 final size:22
Alignment explanation
Indices: 60340957--60341013 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
60340947 TCCACAAGTA
60340957 TATGTAGAAAATTGCACAAATT
1 TATGTAGAAAATTGCACAAATT
60340979 TATGTAGAAAATTGCACAAATT
1 TATGTAGAAAATTGCACAAATT
60341001 TATGTAGAAAATT
1 TATGTAGAAAATT
60341014 CTGACTTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (22 bp):
TATGTAGAAAATTGCACAAATT
Found at i:60343207 original size:60 final size:60
Alignment explanation
Indices: 60343136--60343259 Score: 221
Period size: 60 Copynumber: 2.1 Consensus size: 60
60343126 ATTTCAAAAT
**
60343136 ATGATGGCTTAAACTTTAATCTTCTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
1 ATGATGGCTTAAACTCGAATCTTCTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
*
60343196 ATGATGGCTTAAACTCGAATCTTCTTTTATCTTCACTTTTAACTCTAGTTTAGAGAGGCA
1 ATGATGGCTTAAACTCGAATCTTCTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
60343256 ATGA
1 ATGA
60343260 CACCTCAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (60 bp):
ATGATGGCTTAAACTCGAATCTTCTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
Found at i:60349000 original size:19 final size:19
Alignment explanation
Indices: 60348976--60349014 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
60348966 GTCTGAAACC
60348976 GCTACTGCTGAAAATAGCG
1 GCTACTGCTGAAAATAGCG
*
60348995 GCTACTGTTGAAAATAGCG
1 GCTACTGCTGAAAATAGCG
60349014 G
1 G
60349015 TCTGAAGCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (19 bp):
GCTACTGCTGAAAATAGCG
Found at i:60353213 original size:2 final size:2
Alignment explanation
Indices: 60353202--60353267 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
60353192 AACTAATACG
60353202 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60353243 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 T
60353268 NNNNNNNNNN
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60359081 original size:10 final size:10
Alignment explanation
Indices: 60359062--60359095 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
60359052 TTTAAAATAT
60359062 AATACACTAA
1 AATACACTAA
*
60359072 AATGCACTAA
1 AATACACTAA
*
60359082 AAAACACTAA
1 AATACACTAA
60359092 AATA
1 AATA
60359096 AAAGTTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (10 bp):
AATACACTAA
Found at i:60364007 original size:60 final size:59
Alignment explanation
Indices: 60363854--60364014 Score: 233
Period size: 54 Copynumber: 2.8 Consensus size: 59
60363844 TTGTACATTA
* *
60363854 ATGGGTTCATAAAGAGGTGCAAACGCAATCCCATTTTCAAGCATCTGGGAACTAGTATTT
1 ATGGGTTCATAAAGA-GTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
*
60363914 ATGGGTTCATAAAGAG-G----TGCAATCCCATGTTCAAGCATTTGGGAACTAGTATTT
1 ATGGGTTCATAAAGAGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
*
60363968 ATGGGTTCATAAAGAGTTGCAAATGCAATCCCATTTTCAACCATTTG
1 ATGGGTTCATAAAGAG-TGCAAATGCAATCCCATTTTCAAGCATTTG
60364015 AATTCCATTG
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
54 50 0.56
56 1 0.01
58 1 0.01
59 1 0.01
60 37 0.41
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (59 bp):
ATGGGTTCATAAAGAGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
Found at i:60370112 original size:21 final size:22
Alignment explanation
Indices: 60370086--60370126 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
60370076 AAACGATGTA
*
60370086 GTTTTGCCTTTTAA-CTTAATG
1 GTTTTGACTTTTAACCTTAATG
60370107 GTTTTGACTTTTAACCTTAA
1 GTTTTGACTTTTAACCTTAA
60370127 AAAAGGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (22 bp):
GTTTTGACTTTTAACCTTAATG
Found at i:60377491 original size:2 final size:2
Alignment explanation
Indices: 60377484--60377508 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60377474 TTATTTTATT
60377484 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 T
60377509 CATCTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60378763 original size:22 final size:21
Alignment explanation
Indices: 60378735--60378783 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
60378725 ATATAATAAT
60378735 AATTATATAAAGAATTTTATTA
1 AATTATAT-AAGAATTTTATTA
** *
60378757 AATTATATATTATTTTTATTA
1 AATTATATAAGAATTTTATTA
60378778 AATTAT
1 AATTAT
60378784 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
AATTATATAAGAATTTTATTA
Found at i:60379445 original size:15 final size:17
Alignment explanation
Indices: 60379427--60379467 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
60379417 TAATTTATCT
60379427 AATATTA-TTTT-ATTA
1 AATATTATTTTTAATTA
60379442 AATAATTATTTTTAAATTA
1 AAT-ATTATTTTT-AATTA
60379461 AATATTA
1 AATATTA
60379468 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 4 0.18
17 4 0.18
18 4 0.18
19 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATATTATTTTTAATTA
Found at i:60386947 original size:25 final size:25
Alignment explanation
Indices: 60386896--60386941 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
60386886 TAACAACTGT
*
60386896 CAAGTTTTCTTCATAATAAAATTGA
1 CAAGTTTTCTGCATAATAAAATTGA
60386921 CAAGTTTTC-GCA-AATAAAATT
1 CAAGTTTTCTGCATAATAAAATT
60386942 TTGACACAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 2 0.10
25 9 0.45
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (25 bp):
CAAGTTTTCTGCATAATAAAATTGA
Found at i:60387943 original size:15 final size:16
Alignment explanation
Indices: 60387915--60387952 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
60387905 TTTCCACCGT
60387915 ATTTGTTGTTAATTTC
1 ATTTGTTGTTAATTTC
60387931 ATTTGTT-TTAATTTC
1 ATTTGTTGTTAATTTC
60387946 ATTTGTT
1 ATTTGTT
60387953 AAAATGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (16 bp):
ATTTGTTGTTAATTTC
Found at i:60390848 original size:5 final size:5
Alignment explanation
Indices: 60390838--60390873 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
60390828 GATTTTTGGG
60390838 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
60390874 TTTTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:60391676 original size:16 final size:17
Alignment explanation
Indices: 60391650--60391682 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
60391640 GTTAATTTGA
*
60391650 TAAAATGATAATTAAAT
1 TAAAATGATAATAAAAT
60391667 TAAAAT-ATAATAAAAT
1 TAAAATGATAATAAAAT
60391683 AAACAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAATGATAATAAAAT
Found at i:60392433 original size:22 final size:23
Alignment explanation
Indices: 60392389--60392435 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
60392379 AATATAAATG
60392389 TTTTATACTTTGCCGAATTTGAA
1 TTTTATACTTTGCCGAATTTGAA
*
60392412 TTTTATATTTTGCCG-ATTTGAA
1 TTTTATACTTTGCCGAATTTGAA
60392434 TT
1 TT
60392436 GTTTATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.23, C:0.11, G:0.13, T:0.53
Consensus pattern (23 bp):
TTTTATACTTTGCCGAATTTGAA
Found at i:60392519 original size:31 final size:30
Alignment explanation
Indices: 60392483--60392698 Score: 98
Period size: 31 Copynumber: 7.7 Consensus size: 30
60392473 GGATATATTG
60392483 ATTTGTATATGGTTGAATATTGTCGAAAATA
1 ATTTGTATATGGTT-AATATTGTCGAAAATA
* * *
60392514 ATTTGTATATGGTTATATATTATTGAAATTGA
1 ATTTGTATATGGTTA-ATATTGTCGAAAAT-A
*
60392546 A-TTGTATATGGAT-ATA-T-T-G------
1 ATTTGTATATGGTTAATATTGTCGAAAATA
*
60392565 ATTTGTATATGGTTGAATATTGCCGAAAATA
1 ATTTGTATATGGTT-AATATTGTCGAAAATA
* * * *
60392596 ATTTGTGTATGGTTATATATTATTGAAATTGA
1 ATTTGTATATGGTTA-ATATTGTCGAAAAT-A
*
60392628 A-TTGTATATGGAT-ATA-T-T-G------
1 ATTTGTATATGGTTAATATTGTCGAAAATA
*
60392647 ATTTGTATATGGTTGAATATTGTCTAAAATA
1 ATTTGTATATGGTT-AATATTGTCGAAAATA
*
60392678 ATTTGTACATGGTTATATATT
1 ATTTGTATATGGTTA-ATATT
60392699 ATTGAAATTG
Statistics
Matches: 140, Mismatches: 16, Indels: 58
0.65 0.07 0.27
Matches are distributed among these distances:
19 2 0.01
20 22 0.16
22 6 0.04
23 2 0.01
24 1 0.01
25 1 0.01
26 2 0.01
27 2 0.01
28 2 0.01
29 6 0.04
30 3 0.02
31 87 0.62
32 4 0.03
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.46
Consensus pattern (30 bp):
ATTTGTATATGGTTAATATTGTCGAAAATA
Found at i:60392537 original size:82 final size:82
Alignment explanation
Indices: 60392434--60392776 Score: 564
Period size: 82 Copynumber: 4.2 Consensus size: 82
60392424 CCGATTTGAA
* *
60392434 TTGTTTATAGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
60392499 ATATTGTCGAAAATAAT
66 ATATTGTCGAAAATAAT
60392516 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
*
60392581 ATATTGCCGAAAATAAT
66 ATATTGTCGAAAATAAT
*
60392598 TTGTGTATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
*
60392663 ATATTGTCTAAAATAAT
66 ATATTGTCGAAAATAAT
* * * * *
60392680 TTGTACATGGTTATATATTATTGAAATTGAATTTTAAATAGATATATTGATTCGTATAT-GTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
*
60392744 ATATTGTCGAAAGTAAT
66 ATATTGTCGAAAATAAT
60392761 TTGTAT-TGGTGTATAT
1 TTGTATATGGT-TATAT
60392777 GATGGAATTG
Statistics
Matches: 245, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
80 4 0.02
81 30 0.12
82 211 0.86
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.47
Consensus pattern (82 bp):
TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
ATATTGTCGAAAATAAT
Found at i:60395565 original size:15 final size:17
Alignment explanation
Indices: 60395547--60395587 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
60395537 TAATTTATCT
60395547 AATATTA-TTTT-ATTA
1 AATATTATTTTTAATTA
60395562 AATAATTATTTTTAAATTA
1 AAT-ATTATTTTT-AATTA
60395581 AATATTA
1 AATATTA
60395588 AAAAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 4 0.18
17 4 0.18
18 4 0.18
19 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATATTATTTTTAATTA
Found at i:60396608 original size:14 final size:14
Alignment explanation
Indices: 60396589--60396628 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
60396579 TTGATTGCCA
60396589 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
60396603 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
60396617 GAAAAATGTTTT
1 GTAAAATGTTTT
60396629 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:60396637 original size:20 final size:20
Alignment explanation
Indices: 60396612--60396651 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
60396602 CGTAAAATGA
*
60396612 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
60396632 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
60396652 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:60396641 original size:34 final size:35
Alignment explanation
Indices: 60396597--60396663 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
60396587 CAGTAAAATG
*
60396597 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
60396631 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
60396664 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:60399249 original size:24 final size:24
Alignment explanation
Indices: 60399222--60399305 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
60399212 CACAACTAGT
* *
60399222 CGGGATGCTCTGAAGAGCTTTTAA
1 CGGGAAGCTCTGAAGAGCTTATAA
* *
60399246 CGGGAAGCTC-GCAAGAACACTATAA
1 CGGGAAGCTCTG-AAGAGC-TTATAA
* *
60399271 CGGGAAGCT-TGATAGGGCTTGTAA
1 CGGGAAGCTCTGA-AGAGCTTATAA
*
60399295 CGGGATGCTCT
1 CGGGAAGCTCT
60399306 TTTGAGCTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
23 1 0.02
24 27 0.59
25 18 0.39
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (24 bp):
CGGGAAGCTCTGAAGAGCTTATAA
Found at i:60403814 original size:10 final size:10
Alignment explanation
Indices: 60403797--60403830 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
60403787 AAATAACTTT
60403797 TATTTTAGTG
1 TATTTTAGTG
*
60403807 TTTTTTAGTG
1 TATTTTAGTG
*
60403817 CATTTTAGTG
1 TATTTTAGTG
60403827 TATT
1 TATT
60403831 ATATTTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.18, C:0.03, G:0.18, T:0.62
Consensus pattern (10 bp):
TATTTTAGTG
Found at i:60404720 original size:6 final size:6
Alignment explanation
Indices: 60404709--60404757 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
60404699 ATTTTTTGTA
* *
60404709 AATTTT AATTTT AATTTTTT AATTTT ATTTTT AAGTTT AATTCTT AATT
1 AATTTT AATTTT AA--TTTT AATTTT AATTTT AATTTT AATT-TT AATT
60404758 ATTTTAAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 24 0.67
7 6 0.17
8 6 0.17
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (6 bp):
AATTTT
Found at i:60404738 original size:13 final size:14
Alignment explanation
Indices: 60404711--60404750 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
60404701 TTTTTGTAAA
60404711 TTTTAATTTTAATT
1 TTTTAATTTTAATT
60404725 TTTTAATTTT-A-T
1 TTTTAATTTTAATT
*
60404737 TTTTAAGTTTAATT
1 TTTTAATTTTAATT
60404751 CTTAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 11 0.48
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTAATTTTAATT
Found at i:60404773 original size:33 final size:32
Alignment explanation
Indices: 60404712--60404775 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
60404702 TTTTGTAAAT
**
60404712 TTTAATTTTAATTTTTTAATTTTATTTTTAAG
1 TTTAATTTTAATTTTTTAAGATTATTTTTAAG
60404744 TTTAATTCTTAATTATTTTAAGATT-TTTTTAA
1 TTTAATT-TTAATT-TTTTAAGATTATTTTTAA
60404776 ATTATATTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 7 0.25
33 13 0.46
34 8 0.29
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (32 bp):
TTTAATTTTAATTTTTTAAGATTATTTTTAAG
Found at i:60405576 original size:30 final size:31
Alignment explanation
Indices: 60405504--60405585 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 31
60405494 TTAAGATGAC
* *
60405504 TATATAAAAAAATTTAATAAATAAAAAGTATAAA
1 TATATTAAAAAA-TT-A-AAATAAAAAGTAAAAA
* *
60405538 TTTATT-AAATATTAAAATAAAAA-TAAAAA
1 TATATTAAAAAATTAAAATAAAAAGTAAAAA
60405567 TATATTTAAAAAATTAAAA
1 TATA-TTAAAAAATTAAAA
60405586 AAATAGAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
29 8 0.20
30 11 0.28
31 11 0.28
32 2 0.05
33 4 0.10
34 4 0.10
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (31 bp):
TATATTAAAAAATTAAAATAAAAAGTAAAAA
Found at i:60406858 original size:12 final size:12
Alignment explanation
Indices: 60406841--60406871 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
60406831 GATGAGGTAT
60406841 ATACATACATGC
1 ATACATACATGC
60406853 ATACATACATGC
1 ATACATACATGC
*
60406865 ATGCATA
1 ATACATA
60406872 GCTCTCTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (12 bp):
ATACATACATGC
Found at i:60407146 original size:2 final size:2
Alignment explanation
Indices: 60407139--60407201 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
60407129 GTTTGGATCT
60407139 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60407181 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
60407202 NNNNNNNNNN
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:60409422 original size:12 final size:13
Alignment explanation
Indices: 60409397--60409421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60409387 TAATTAAATC
60409397 AAAATAATTTTTT
1 AAAATAATTTTTT
60409410 AAAATAATTTTT
1 AAAATAATTTTT
60409422 ATATAAATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAATAATTTTTT
Found at i:60416440 original size:19 final size:19
Alignment explanation
Indices: 60416404--60416441 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
60416394 GAGTAAGAAA
*
60416404 TTGGGCTGTTATAAAAGTT
1 TTGGGCTGTAATAAAAGTT
60416423 TTGGGCTG-AATAACAAGTT
1 TTGGGCTGTAATAA-AAGTT
60416442 GATGGACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (19 bp):
TTGGGCTGTAATAAAAGTT
Found at i:60416557 original size:15 final size:15
Alignment explanation
Indices: 60416522--60416559 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
60416512 TATTAGGATA
60416522 ATATTTTAATTTTTT
1 ATATTTTAATTTTTT
60416537 AGTATTTT-ATCTTTTT
1 A-TATTTTAAT-TTTTT
60416553 ATATTTT
1 ATATTTT
60416560 TAGATAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (15 bp):
ATATTTTAATTTTTT
Found at i:60432345 original size:14 final size:14
Alignment explanation
Indices: 60432299--60432346 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
60432289 AAAAATTCTG
*
60432299 AAAAATAAAAAAATT
1 AAAAATAAATAAA-T
60432314 AAAAACTCAAATAAAT
1 AAAAA-T-AAATAAAT
*
60432330 AAAAATAAATACAT
1 AAAAATAAATAAAT
60432344 AAA
1 AAA
60432347 CATCAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 10 0.34
15 6 0.21
16 7 0.24
17 6 0.21
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATAAATAAAT
Found at i:60432624 original size:15 final size:15
Alignment explanation
Indices: 60432600--60432658 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
60432590 TGTTTGGTAA
60432600 ATTG-AAAATTAAGT
1 ATTGAAAAATTAAGT
60432614 ATTGAAAAATTAAGT
1 ATTGAAAAATTAAGT
**
60432629 GCT-AAAATATTAAGT
1 ATTGAAAA-ATTAAGT
* *
60432644 ATTTAAAAGTTAAGT
1 ATTGAAAAATTAAGT
60432659 GCTAAATTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
14 8 0.22
15 25 0.68
16 4 0.11
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.36
Consensus pattern (15 bp):
ATTGAAAAATTAAGT
Found at i:60432641 original size:30 final size:30
Alignment explanation
Indices: 60432607--60432664 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
60432597 TAAATTGAAA
60432607 ATTAAGTATTGAAAAATTAAGTGCTAAAAT
1 ATTAAGTATTGAAAAATTAAGTGCTAAAAT
* *
60432637 ATTAAGTATTTAAAAGTTAAGTGCTAAA
1 ATTAAGTATTGAAAAATTAAGTGCTAAA
60432665 TTTGAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.34
Consensus pattern (30 bp):
ATTAAGTATTGAAAAATTAAGTGCTAAAAT
Found at i:60435058 original size:22 final size:21
Alignment explanation
Indices: 60435009--60435056 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
60434999 ATTTACTCAA
* *
60435009 TTAAAAAGTAAATGTCATTTT
1 TTAAATAGTAAATGTAATTTT
60435030 TTAAATAGTAAATGGTAATTTT
1 TTAAATAGTAAAT-GTAATTTT
60435052 ATTAA
1 -TTAA
60435057 TATTTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 7 0.30
23 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (21 bp):
TTAAATAGTAAATGTAATTTT
Found at i:60448836 original size:20 final size:19
Alignment explanation
Indices: 60448794--60448836 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
60448784 CGGTCGAAAT
60448794 TTATTTTATAATAATATAA
1 TTATTTTATAATAATATAA
60448813 -TATTTTATATATCAAT-TAA
1 TTATTTTATA-AT-AATATAA
60448832 TTATT
1 TTATT
60448837 ACAAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 9 0.43
19 5 0.24
20 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATTTTATAATAATATAA
Found at i:60449387 original size:22 final size:22
Alignment explanation
Indices: 60449359--60449511 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
60449349 TGTTGATAGT
*
60449359 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
60449381 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
60449403 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
60449425 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
60449447 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
60449469 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
60449491 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
60449512 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:60450311 original size:37 final size:37
Alignment explanation
Indices: 60450264--60450334 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
60450254 AGTATTACTT
*
60450264 AATATTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
60450301 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
60450335 AAAAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:60450339 original size:19 final size:19
Alignment explanation
Indices: 60450270--60450338 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
60450260 ACTTAATATT
60450270 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
60450289 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
60450307 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
60450326 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
60450339 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:60450771 original size:2 final size:2
Alignment explanation
Indices: 60450764--60450789 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
60450754 TCAAAAAGTG
60450764 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
60450790 GAAATTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60453562 original size:2 final size:2
Alignment explanation
Indices: 60453555--60453588 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
60453545 ATTCAATACT
60453555 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60453589 ACAAATCACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60456872 original size:25 final size:24
Alignment explanation
Indices: 60456844--60456925 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 24
60456834 ATGTAAATGA
60456844 GAAGCTCTTTCGAGCCATATAACAG
1 GAAGCTCTTTCGAGCCA-ATAACAG
* * *
60456869 GAAGCTCATGT-GAGCTAAGTAACGG
1 GAAGCTC-TTTCGAGCCAA-TAACAG
* *
60456894 GAAGCTCTTGCGAGCCAAATACCAG
1 GAAGCTCTTTCGAGCC-AATAACAG
60456919 GAAGCTC
1 GAAGCTC
60456926 AAGAGAGCTA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
24 2 0.04
25 39 0.87
26 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.20
Consensus pattern (24 bp):
GAAGCTCTTTCGAGCCAATAACAG
Found at i:60456933 original size:25 final size:24
Alignment explanation
Indices: 60456855--60456983 Score: 80
Period size: 25 Copynumber: 5.2 Consensus size: 24
60456845 AAGCTCTTTC
* *
60456855 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCAAATAAC-GGAAGCTCATGA
* * * *
60456880 GAGCTAAGTAACGGGAAGCTCTTGC
1 GAGCCAAATAAC-GGAAGCTCATGA
* *
60456905 GAGCCAAATACCAGGAAGCTCAAGA
1 GAGCCAAATAAC-GGAAGCTCATGA
* *
60456930 GAG-CTATTAATCGGAAAGCTCATGA
1 GAGCCAAATAA-CGG-AAGCTCATGA
* * *
60456955 GAGCCAAGTATCGGAAAGCTCAAGA
1 GAGCCAAATAACGG-AAGCTCATGA
60456980 GAGC
1 GAGC
60456984 TGTGGTGTGT
Statistics
Matches: 80, Mismatches: 21, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
24 6 0.08
25 70 0.88
26 4 0.05
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.16
Consensus pattern (24 bp):
GAGCCAAATAACGGAAGCTCATGA
Found at i:60456949 original size:50 final size:50
Alignment explanation
Indices: 60456845--60456984 Score: 149
Period size: 50 Copynumber: 2.8 Consensus size: 50
60456835 TGTAAATGAG
* * * * *
60456845 AAGCTCTTTCGAGCCATATAACAGGAAGCTCATGTGAGCTAAGTAACGGG
1 AAGCTCTTGCGAGCCAAATAACAGGAAGCTCAAGAGAGCTAAGTAACGGA
* *
60456895 AAGCTCTTGCGAGCCAAATACCAGGAAGCTCAAGAGAGCT-ATTAATCGGA
1 AAGCTCTTGCGAGCCAAATAACAGGAAGCTCAAGAGAGCTAAGTAA-CGGA
* * * *
60456945 AAGCTCATGAGAGCCAAGTATC-GGAAAGCTCAAGAGAGCT
1 AAGCTCTTGCGAGCCAAATAACAGG-AAGCTCAAGAGAGCT
60456985 GTGGTGTGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
49 6 0.08
50 71 0.92
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.19
Consensus pattern (50 bp):
AAGCTCTTGCGAGCCAAATAACAGGAAGCTCAAGAGAGCTAAGTAACGGA
Found at i:60459572 original size:85 final size:86
Alignment explanation
Indices: 60459420--60459613 Score: 275
Period size: 85 Copynumber: 2.3 Consensus size: 86
60459410 AGATAAAAAC
* * *
60459420 ATTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATGGTTGCAGATTAAACAAACTGTCACTG
1 ATTTGCAGTTACTGCCACTTGTTGTAAGTGCACAACATGATTGCAGATTAAACAAACTGCCACTG
*
60459485 GG-TTTGTGAACGAGCTACAT
66 GGTTTTGTGAACGAGCCACAT
** * * *
60459505 ATTTTTAGTTATTGCTACTTGTTGTAAGTGCACAACAT-ATTCGCAGATTAAACAAACTGCCATT
1 ATTTGCAGTTACTGCCACTTGTTGTAAGTGCACAACATGATT-GCAGATTAAACAAACTGCCACT
*
60459569 GGGTTTTGTGGACGAGCCACAT
65 GGGTTTTGTGAACGAGCCACAT
60459591 ATTTGCAGTTACTGCCACTTGTT
1 ATTTGCAGTTACTGCCACTTGTT
60459614 TGCACAACAT
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
84 2 0.02
85 56 0.60
86 35 0.38
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (86 bp):
ATTTGCAGTTACTGCCACTTGTTGTAAGTGCACAACATGATTGCAGATTAAACAAACTGCCACTG
GGTTTTGTGAACGAGCCACAT
Found at i:60471011 original size:9 final size:9
Alignment explanation
Indices: 60470951--60471010 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
60470941 AGGCAACTTT
60470951 TTTTTTTGC
1 TTTTTTTGC
**
60470960 GCTTTTTGC
1 TTTTTTTGC
*
60470969 TTCTTCTT-C
1 TT-TTTTTGC
60470978 TTTTTTTGC
1 TTTTTTTGC
**
60470987 GCTTTTTGC
1 TTTTTTTGC
60470996 TTTTTTTG-
1 TTTTTTTGC
60471004 TTTTTTT
1 TTTTTTT
60471011 TAAAGAATAA
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
8 11 0.28
9 24 0.62
10 4 0.10
ACGTcount: A:0.00, C:0.15, G:0.12, T:0.73
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:60471011 original size:27 final size:27
Alignment explanation
Indices: 60470947--60471011 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
60470937 AGGTAGGCAA
60470947 CTTTTTTTTTTGCGCTTTTTGCTTCTT
1 CTTTTTTTTTTGCGCTTTTTGCTTCTT
*
60470974 CTTCTTTTTTTGCGCTTTTTGCTT-TT
1 CTTTTTTTTTTGCGCTTTTTGCTTCTT
*
60471000 TTTGTTTTTTTT
1 CTT-TTTTTTTT
60471012 AAAGAATAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.00, C:0.15, G:0.11, T:0.74
Consensus pattern (27 bp):
CTTTTTTTTTTGCGCTTTTTGCTTCTT
Found at i:60478885 original size:25 final size:25
Alignment explanation
Indices: 60478672--60478878 Score: 166
Period size: 25 Copynumber: 8.3 Consensus size: 25
60478662 ACAGTAAATA
* *
60478672 CGAATTCTCTAGAAAGCCTTTGTGG
1 CGAATTCTTTGGAAAGCCTTTGTGG
* * *
60478697 CGAATTCTATGGAAAACATTTGT-G
1 CGAATTCTTTGGAAAGCCTTTGTGG
** * * * *
60478721 ATAACTTTTTTGAAAAGCCTTTAT-A
1 CGAA-TTCTTTGGAAAGCCTTTGTGG
* * * * *
60478746 TGAATCCTCTGAAAAGCCTTTGTGA
1 CGAATTCTTTGGAAAGCCTTTGTGG
*
60478771 CGAATTCTCTGGAAAGCCTTTGTGG
1 CGAATTCTTTGGAAAGCCTTTGTGG
* * * * *
60478796 CAAATCCTTTGGAAATCATTTATGG
1 CGAATTCTTTGGAAAGCCTTTGTGG
*
60478821 CGAATTCTTTAGAAAGCCTTTGTGG
1 CGAATTCTTTGGAAAGCCTTTGTGG
* *
60478846 TGAATTCTTTGGAAAGCTTTTGTGG
1 CGAATTCTTTGGAAAGCCTTTGTGG
60478871 CGAATTCT
1 CGAATTCT
60478879 CTAGAAAATC
Statistics
Matches: 141, Mismatches: 39, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
24 18 0.13
25 123 0.87
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (25 bp):
CGAATTCTTTGGAAAGCCTTTGTGG
Found at i:60481260 original size:19 final size:19
Alignment explanation
Indices: 60481236--60481274 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60481226 TTTCGTAAAT
60481236 TATATAATGTA-TGATGAAA
1 TATAT-ATGTATTGATGAAA
*
60481255 TATATATTTATTGATGAAA
1 TATATATGTATTGATGAAA
60481274 T
1 T
60481275 GAGAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (19 bp):
TATATATGTATTGATGAAA
Done.