Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 61 of 325
Found at i:22022773 original size:16 final size:16
Alignment explanation
Indices: 22022715--22022799 Score: 60
Period size: 16 Copynumber: 5.8 Consensus size: 16
22022705 TGATATTAAA
22022715 AATATATACATAA-A-
1 AATATATACATAATAT
*
22022729 AATATA-ATA-AATA-
1 AATATATACATAATAT
*
22022742 AATATATATATAATAT
1 AATATATACATAATAT
*
22022758 AATATATGCATAATAT
1 AATATATACATAATAT
* *
22022774 AGTAT-TA-AAAATAT
1 AATATATACATAATAT
22022788 -ATATAATACATA
1 AATAT-ATACATA
22022800 CACATTAGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
12 2 0.04
13 12 0.21
14 15 0.27
15 7 0.12
16 20 0.36
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (16 bp):
AATATATACATAATAT
Found at i:22023052 original size:24 final size:24
Alignment explanation
Indices: 22022985--22023041 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
22022975 TAGTAATTAT
* * * *
22022985 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
22023009 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
22023033 AATAATAAT
1 AATAATAAT
22023042 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:22023979 original size:26 final size:25
Alignment explanation
Indices: 22023928--22023986 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
22023918 CGGTTTGCAC
*
22023928 TTCTTTTTTTTGATGGCTTTGTTAT
1 TTCTTTTTTTTGATGGCTTTGCTAT
*
22023953 TATCTTTTTTTTGTATTGC-TTGCTAT
1 T-TCTTTTTTTTG-ATGGCTTTGCTAT
22023979 TT-TTTTTT
1 TTCTTTTTT
22023987 AAAGAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 6 0.20
25 2 0.07
26 18 0.60
27 4 0.13
ACGTcount: A:0.08, C:0.08, G:0.12, T:0.71
Consensus pattern (25 bp):
TTCTTTTTTTTGATGGCTTTGCTAT
Found at i:22025024 original size:41 final size:41
Alignment explanation
Indices: 22024967--22025118 Score: 117
Period size: 41 Copynumber: 3.4 Consensus size: 41
22024957 TACCGTCTTC
*
22024967 GATCTGTTCCACTGCAACTTCA-AGGAGACAAGATCTGTTTT
1 GATCTGCTCCACTGCAACTTCAGA-GAGACAAGATCTGTTTT
* *
22025008 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTT
1 GATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTGT--TTT
* * * *
22025051 AGATTTAATCTGTTCCACTGCAACTTCAGGGAAACAAGATTTGCTATATTT
1 -G-----ATCTGCTCCACTGCAACTTCAGAGAGACAAGA--T-CTGT-TTT
22025102 GATCTGCTCCACTGCAA
1 GATCTGCTCCACTGCAA
22025119 TCTCAAGAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
41 33 0.37
42 1 0.01
43 3 0.03
44 1 0.01
45 15 0.17
49 27 0.30
50 1 0.01
51 5 0.06
52 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (41 bp):
GATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTGTTTT
Found at i:22031074 original size:22 final size:23
Alignment explanation
Indices: 22031035--22031081 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
22031025 TAAGGCCAAC
22031035 ACCGAAATACGGGCTGGTTGTTT
1 ACCGAAATACGGGCTGGTTGTTT
22031058 ACCGAAATAC-GGCTGGTTGTTT
1 ACCGAAATACGGGCTGGTTGTTT
22031080 AC
1 AC
22031082 GTAGCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (23 bp):
ACCGAAATACGGGCTGGTTGTTT
Found at i:22037583 original size:12 final size:12
Alignment explanation
Indices: 22037568--22037645 Score: 56
Period size: 12 Copynumber: 6.5 Consensus size: 12
22037558 TGGCAATGAC
22037568 AATGAAAATAAT
1 AATGAAAATAAT
*
22037580 AATGATAATAAT
1 AATGAAAATAAT
22037592 AAT-AATAATAAT
1 AATGAA-AATAAT
22037604 AAT-AATAAT-AT
1 AATGAA-AATAAT
* *
22037615 AACGTAGAA-AAT
1 AATG-AAAATAAT
*
22037627 AATGATAATAAT
1 AATGAAAATAAT
22037639 ATATGAA
1 A-ATGAA
22037646 TAAAGAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
11 8 0.15
12 40 0.75
13 5 0.09
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (12 bp):
AATGAAAATAAT
Found at i:22037639 original size:3 final size:3
Alignment explanation
Indices: 22037574--22037613 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
22037564 TGACAATGAA
*
22037574 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22037614 TAACGTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22037839 original size:9 final size:9
Alignment explanation
Indices: 22037821--22037861 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
22037811 AAATATATAC
22037821 ATAA-AAAT
1 ATAATAAAT
22037829 ATAATAAAT
1 ATAATAAAT
22037838 AT-ATATAAT
1 ATAATA-AAT
*
22037847 ATAATATAT
1 ATAATAAAT
22037856 ATAATA
1 ATAATA
22037862 TAGTATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 7 0.24
9 19 0.66
10 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
ATAATAAAT
Found at i:22037854 original size:14 final size:14
Alignment explanation
Indices: 22037827--22037880 Score: 69
Period size: 14 Copynumber: 4.1 Consensus size: 14
22037817 ATACATAAAA
22037827 ATATAATA-AATAT
1 ATATAATATAATAT
22037840 ATATAATATAATAT
1 ATATAATATAATAT
*
22037854 ATATAATATAGTAT
1 ATATAATATAATAT
*
22037868 -TAAAATAT-ATAT
1 ATATAATATAATAT
22037880 A
1 A
22037881 ATACATACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 3 0.08
13 15 0.42
14 18 0.50
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
ATATAATATAATAT
Found at i:22037862 original size:9 final size:9
Alignment explanation
Indices: 22037827--22037883 Score: 53
Period size: 9 Copynumber: 5.9 Consensus size: 9
22037817 ATACATAAAA
*
22037827 ATATAATAA
1 ATATAATAT
22037836 ATAT-ATAT
1 ATATAATAT
22037844 AATATAATAT
1 -ATATAATAT
22037854 ATATAATAT
1 ATATAATAT
22037863 AGTATTAAAATAT
1 A-TA-T--AATAT
22037876 ATATAATA
1 ATATAATA
22037884 CATACACATT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
8 3 0.07
9 22 0.54
10 6 0.15
11 2 0.05
12 2 0.05
13 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
ATATAATAT
Found at i:22038136 original size:24 final size:24
Alignment explanation
Indices: 22038069--22038125 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
22038059 TAGTAATTAT
* * * *
22038069 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
22038093 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
22038117 AATAATAAT
1 AATAATAAT
22038126 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:22043908 original size:13 final size:13
Alignment explanation
Indices: 22043877--22043918 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
22043867 CCATTAAAAA
*
22043877 TCCATGTCCA-TG
1 TCCATGTCTATTG
22043889 TCCATGTCTATTG
1 TCCATGTCTATTG
*
22043902 TCTATGTCTA-TG
1 TCCATGTCTATTG
22043914 TCCAT
1 TCCAT
22043919 ATCTTGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.17, C:0.26, G:0.14, T:0.43
Consensus pattern (13 bp):
TCCATGTCTATTG
Found at i:22049193 original size:2 final size:2
Alignment explanation
Indices: 22049186--22049216 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
22049176 GCAAAGGCTT
*
22049186 AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
22049217 AGGAGAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22052935 original size:10 final size:10
Alignment explanation
Indices: 22052920--22052946 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
22052910 TCCTAGCTAT
22052920 AAAAATTTTA
1 AAAAATTTTA
22052930 AAAAATTTTA
1 AAAAATTTTA
22052940 AAAAATT
1 AAAAATT
22052947 ATTTTTAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:22060348 original size:22 final size:22
Alignment explanation
Indices: 22060301--22060352 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
22060291 ACACTACTAT
*
22060301 ATATACATAATATGGTATTAAAA
1 ATATATATAATA-GGTATTAAAA
*
22060324 ATATATATAATA-GTATTTAAGA
1 ATATATATAATAGGTA-TTAAAA
22060346 ATATATA
1 ATATATA
22060353 CATAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 3 0.12
22 12 0.46
23 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (22 bp):
ATATATATAATAGGTATTAAAA
Found at i:22060610 original size:22 final size:22
Alignment explanation
Indices: 22060528--22060610 Score: 53
Period size: 22 Copynumber: 3.6 Consensus size: 22
22060518 ACATAGGACA
* *
22060528 ATATAAAATATAAACATGAAAAT
1 ATATAAAA-ATATACATGATAAT
*
22060551 ATATAAATAATATATAACT-AGTAAT
1 ATATAAA-AATATA-CA-TGA-TAAT
**
22060576 ATCA-AAATGTATACATGATAAT
1 AT-ATAAAAATATACATGATAAT
22060598 ATATAAAAATATA
1 ATATAAAAATATA
22060611 TATATATTAG
Statistics
Matches: 45, Mismatches: 8, Indels: 15
0.66 0.12 0.22
Matches are distributed among these distances:
21 1 0.02
22 14 0.31
23 13 0.29
24 7 0.16
25 9 0.20
26 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (22 bp):
ATATAAAAATATACATGATAAT
Found at i:22060617 original size:16 final size:16
Alignment explanation
Indices: 22060596--22060752 Score: 56
Period size: 18 Copynumber: 9.2 Consensus size: 16
22060586 ATACATGATA
22060596 ATATATAAAAATATAT
1 ATATATAAAAATATAT
22060612 ATATATTAGAAAATATAT
1 ATATA-TA-AAAATATAT
* * *
22060630 GTACATAATATAATATGAA
1 ATATATAA-A-AATAT-AT
*
22060649 ATATAT-ATAATATA-
1 ATATATAAAAATATAT
22060663 ATAT-TAAAATATAATAAT
1 ATATATAAAA-AT-AT-AT
* *
22060681 ACAACATTAAAAA-ATAT
1 A-TATA-TAAAAATATAT
*
22060698 GATACATATAAAATATGAT
1 -ATATATA-AAAATAT-AT
*
22060717 AT-T-TAAAGTATATAT
1 ATATATAAA-AATATAT
*
22060732 GACATATAAAAATATAT
1 -ATATATAAAAATATAT
22060749 ATAT
1 ATAT
22060753 CATATAATAC
Statistics
Matches: 105, Mismatches: 15, Indels: 42
0.65 0.09 0.26
Matches are distributed among these distances:
13 1 0.01
14 6 0.06
15 7 0.07
16 25 0.24
17 22 0.21
18 30 0.29
19 8 0.08
20 1 0.01
21 5 0.05
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (16 bp):
ATATATAAAAATATAT
Found at i:22060660 original size:21 final size:21
Alignment explanation
Indices: 22060634--22060681 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
22060624 ATATATGTAC
22060634 ATAATATAATATG-AAATATA
1 ATAATATAATATGAAAATATA
*
22060654 TATAATATAATATTAAAATATA
1 -ATAATATAATATGAAAATATA
22060676 ATAATA
1 ATAATA
22060682 CAACATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAATATAATATGAAAATATA
Found at i:22060689 original size:21 final size:22
Alignment explanation
Indices: 22060647--22060697 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
22060637 ATATAATATG
* *
22060647 AAATATATATAATATAATATTA
1 AAATATATATAATACAACATTA
22060669 AAATATA-ATAATACAACATTA
1 AAATATATATAATACAACATTA
*
22060690 AAAAATAT
1 AAATATAT
22060698 GATACATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATATATATAATACAACATTA
Found at i:22060723 original size:32 final size:32
Alignment explanation
Indices: 22060687--22060750 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
22060677 TAATACAACA
22060687 TTAAAAAATATGAT-ACATAT-AAAATATGATAT
1 TTAAAAAATAT-ATGACATATAAAAATAT-ATAT
**
22060719 TTAAAGTATATATGACATATAAAAATATATAT
1 TTAAAAAATATATGACATATAAAAATATATAT
22060751 ATCATATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 2 0.07
32 19 0.68
33 7 0.25
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (32 bp):
TTAAAAAATATATGACATATAAAAATATATAT
Found at i:22075406 original size:4 final size:4
Alignment explanation
Indices: 22075397--22075421 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22075387 TTCACAGATC
22075397 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
22075422 GTTGTTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:22075819 original size:23 final size:22
Alignment explanation
Indices: 22075775--22075817 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22075765 AATATAAATT
22075775 TTTTTTAAAAATTAAAAATTTA
1 TTTTTTAAAAATTAAAAATTTA
*
22075797 TTTTTTAAAAATTTAAAATTT
1 TTTTTTAAAAATTAAAAATTT
22075818 TAATTAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTTTAAAAATTAAAAATTTA
Found at i:22091905 original size:6 final size:6
Alignment explanation
Indices: 22091896--22091929 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
22091886 AGGAAGAGAA
22091896 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAG
22091930 AGGAGGAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:22106948 original size:17 final size:17
Alignment explanation
Indices: 22106924--22106961 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
22106914 ATAATAATAT
22106924 ATAGATAAAAA-ACATA
1 ATAGATAAAAAGACATA
22106940 ATAGTATAAAAATGACATA
1 ATAG-ATAAAAA-GACATA
22106959 ATA
1 ATA
22106962 TAAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
19 8 0.42
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (17 bp):
ATAGATAAAAAGACATA
Found at i:22106982 original size:23 final size:23
Alignment explanation
Indices: 22106956--22107065 Score: 75
Period size: 23 Copynumber: 4.7 Consensus size: 23
22106946 TAAAAATGAC
22106956 ATAATATAAAATAATTATAATAT
1 ATAATATAAAATAATTATAATAT
* *
22106979 ATAATATGAAAGT-A-TATATGTAT
1 ATAATAT-AAAATAATTATA-ATAT
22107002 ATAATATATATAATAATTAATAAATAT
1 ATAATATA-A-AATAATT-AT-AATAT
* * *
22107029 ATAATA-CAAGTAAATATAATA-
1 ATAATATAAAATAATTATAATAT
*
22107050 ATAATATGTAAATAAT
1 ATAATAT-AAAATAAT
22107066 AATGTAAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
21 6 0.09
22 9 0.13
23 26 0.39
24 11 0.16
25 2 0.03
26 1 0.01
27 11 0.16
28 1 0.01
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (23 bp):
ATAATATAAAATAATTATAATAT
Found at i:22107050 original size:18 final size:17
Alignment explanation
Indices: 22107004--22107052 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
22106994 ATATGTATAT
* *
22107004 AATATATATAATAAT-T
1 AATAAATATAATAATAC
22107020 AATAAATAT-ATAATAC
1 AATAAATATAATAATAC
22107036 AAGTAAATATAATAATA
1 AA-TAAATATAATAATA
22107053 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 7 0.25
18 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
AATAAATATAATAATAC
Found at i:22107054 original size:48 final size:46
Alignment explanation
Indices: 22106956--22107065 Score: 118
Period size: 48 Copynumber: 2.3 Consensus size: 46
22106946 TAAAAATGAC
* *
22106956 ATAATATA-AAATAATTATAATATATAATATGAAAGTATATATGTAT
1 ATAATATATAAATAATTATAATATATAATA-GAAAGTAAATATATAT
*
22107002 ATAATATATATAATAATTAATAAATATATAATA-CAAGTAAATATA-AT
1 ATAATATATA-AATAATT-AT-AATATATAATAGAAAGTAAATATATAT
*
22107049 AATAATATGTAAATAAT
1 -ATAATATATAAATAAT
22107066 AATGTAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
46 8 0.15
47 9 0.16
48 25 0.45
49 2 0.04
50 11 0.20
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (46 bp):
ATAATATATAAATAATTATAATATATAATAGAAAGTAAATATATAT
Found at i:22107116 original size:19 final size:18
Alignment explanation
Indices: 22107092--22107210 Score: 70
Period size: 16 Copynumber: 6.5 Consensus size: 18
22107082 TTTGTGAAAG
22107092 TAATATATAATAATAACAA
1 TAATATATAATAATAA-AA
*
22107111 TAATATAT-ATAA-AATA
1 TAATATATAATAATAAAA
*
22107127 TTATATATAAT-ATAAAAA
1 TAATATATAATAAT-AAAA
*
22107145 TAAGAT-TAA-AATAAAA
1 TAATATATAATAATAAAA
* * *
22107161 AAATA-ACAATATAAAAAA
1 TAATATATAATA-ATAAAA
22107179 TTTATATATATAATAATAGAAA
1 --TA-ATATATAATAATA-AAA
22107201 TAAATATATA
1 T-AATATATA
22107211 GGGTTAAATT
Statistics
Matches: 75, Mismatches: 12, Indels: 25
0.67 0.11 0.22
Matches are distributed among these distances:
16 18 0.24
17 10 0.13
18 16 0.21
19 8 0.11
20 9 0.12
21 6 0.08
22 8 0.11
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
TAATATATAATAATAAAA
Found at i:22107131 original size:14 final size:15
Alignment explanation
Indices: 22107104--22107136 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
22107094 ATATATAATA
22107104 ATAACAATAATATAT
1 ATAACAATAATATAT
*
22107119 ATAA-AATATTATAT
1 ATAACAATAATATAT
22107133 ATAA
1 ATAA
22107137 TATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAACAATAATATAT
Found at i:22109073 original size:206 final size:205
Alignment explanation
Indices: 22108768--22109661 Score: 1335
Period size: 206 Copynumber: 4.3 Consensus size: 205
22108758 ACCTGAGAGT
* * * * * * *
22108768 CAAATCTA-CTATGTCCTCGATTTGTTCCTTGTAAACTC-AGGAATGCCAAATCATCTTGGATCC
1 CAAATC-AGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGG-ATGCCAAACCATCTTGGATCT
* * * * *
22108831 ACTTCAGTATAAATATCTGAAGGTTAGATCTGCTATGTATCTGC-CCTCCGTCGAATATGGAGAT
64 GCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCC-CCGTTGAA-GTGGAGAT
* * * *
22108895 GCCAGACTTCGATTTGTTCCCTGACACTACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGT
127 GCCAGACTTCGACTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGT
22108960 AAACACGTGAAAAC
192 AAACACGTGAAAAC
* * * * *
22108974 CAAATCAGCTATGTATTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGT
1 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGC
* * * *
22109039 TTCAGTATAAACATTTGAACGTGAGATTTGCTATGTATCTGCTCTCCGTTGAAGTGGAGATGCCA
66 TTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCA
* *
22109104 GACTTCGATTTGCTCTCTGACAATACAGGGATGCCAAATCATCTTAGATTTGCTTCATCGTAAAC
131 GACTTCGACTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAAC
*
22109169 ACGTGAAAGC
196 ACGTGAAAAC
* * * * * *
22109179 CAAATCAGTTATGTCTTTGGTTCGTTCCTTATTAGCACAATGATGCCAAACCATCTTGGATCTTA
1 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC-TG
* * *
22109244 CTTCAATATAAACATCTGAAGGTGAGATCTACTATGTATCTGCTCCCCTTTGAAGTGGAGATGCC
65 CTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCC
22109309 AGACTTCGACTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAA
130 AGACTTCGACTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAA
*
22109374 CACGTAAAAAC
195 CACGTGAAAAC
*
22109385 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCCAAACCATATTGGATCTTG
1 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC-TG
22109450 CTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCC
65 CTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCC
*
22109515 AGACTTCGACTTACTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAA
130 AGACTTCGACTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAA
22109580 CACGTGAAAAC
195 CACGTGAAAAC
*
22109591 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCTAAACCATCTTGGATCTTG
1 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC-TG
22109656 CTTCAG
65 CTTCAG
22109662 CCCGATCTGC
Statistics
Matches: 628, Mismatches: 56, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
205 135 0.21
206 489 0.78
207 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGC
TTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCA
GACTTCGACTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAAC
ACGTGAAAAC
Found at i:22117795 original size:14 final size:14
Alignment explanation
Indices: 22117772--22117801 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22117762 ATTCTGGTTC
22117772 AACTTCATTTAGAA
1 AACTTCATTTAGAA
*
22117786 AACTTTATTTAGAA
1 AACTTCATTTAGAA
22117800 AA
1 AA
22117802 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (14 bp):
AACTTCATTTAGAA
Found at i:22121695 original size:25 final size:25
Alignment explanation
Indices: 22121643--22121695 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
22121633 TAAAAAATTT
* *
22121643 ATATTTATAATAAAATAAGTATATA
1 ATATCTATAATAAAATAAGTATAGA
*
22121668 ATATCTAT-ATAAATATAAGTTTAGA
1 ATATCTATAATAAA-ATAAGTATAGA
22121693 ATA
1 ATA
22121696 ACATGAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
ATATCTATAATAAAATAAGTATAGA
Found at i:22121884 original size:20 final size:18
Alignment explanation
Indices: 22121848--22121888 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
22121838 ATAATAATAT
22121848 ATAGATAAAAAAAACATA
1 ATAGATAAAAAAAACATA
*
22121866 ATAGTATAAAAAATGACATA
1 ATAG-ATAAAAAA-AACATA
22121886 ATA
1 ATA
22121889 TAAAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 8 0.40
20 8 0.40
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (18 bp):
ATAGATAAAAAAAACATA
Found at i:22121909 original size:23 final size:23
Alignment explanation
Indices: 22121883--22121962 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 23
22121873 AAAAAATGAC
22121883 ATAATATAAAATAATTATAATAT
1 ATAATATAAAATAATTATAATAT
22121906 ATAATATGAAAGTATATATGTAT-ATA-
1 ATAATAT-AAA--ATA-AT-TATAATAT
22121932 AT-ATATATAAATAATTAATAAATAT
1 ATAATATA-AAATAATT-AT-AATAT
22121957 ATAATA
1 ATAATA
22121963 CAAGTAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 19
0.71 0.00 0.29
Matches are distributed among these distances:
21 1 0.02
22 4 0.09
23 10 0.22
24 7 0.15
25 8 0.17
26 8 0.17
27 5 0.11
28 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
ATAATATAAAATAATTATAATAT
Found at i:22121984 original size:11 final size:11
Alignment explanation
Indices: 22121883--22121985 Score: 52
Period size: 13 Copynumber: 8.6 Consensus size: 11
22121873 AAAAAATGAC
22121883 ATAATATAA-A
1 ATAATATAATA
22121893 ATAATTATAATA
1 ATAA-TATAATA
22121905 TATAATATGAA-A
1 -ATAATAT-AATA
*
22121917 GTATATATGTATATA
1 --ATA-ATATA-ATA
22121932 ATATATATAAATA
1 ATA-ATAT-AATA
22121945 ATTAATA-AATA
1 A-TAATATAATA
*
22121956 TATAATACAAGTA
1 -ATAATATAA-TA
22121969 A-AATATAATA
1 ATAATATAATA
22121979 ATAATAT
1 ATAATAT
22121986 GTAAATAAGA
Statistics
Matches: 76, Mismatches: 3, Indels: 27
0.72 0.03 0.25
Matches are distributed among these distances:
10 7 0.09
11 25 0.33
12 9 0.12
13 27 0.36
14 7 0.09
15 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (11 bp):
ATAATATAATA
Found at i:22122066 original size:16 final size:16
Alignment explanation
Indices: 22122036--22122068 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22122026 ATATATAATA
22122036 AATAACAATAATATAT
1 AATAACAATAATATAT
22122052 AATAA-AATAATTATAT
1 AATAACAATAA-TATAT
22122068 A
1 A
22122069 TAATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAACAATAATATAT
Found at i:22122067 original size:18 final size:19
Alignment explanation
Indices: 22122024--22122082 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
22122014 TTGTGAAAAG
22122024 TAATATATAATAAATAACAA
1 TAATATATAAT-AATAACAA
*
22122044 TAATATATAATAA-AATAA
1 TAATATATAATAATAACAA
* *
22122062 TTATATATAAT-ATAAAAA
1 TAATATATAATAATAACAA
22122080 TAA
1 TAA
22122083 GATTAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 20 0.59
19 2 0.06
20 11 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
TAATATATAATAATAACAA
Found at i:22122076 original size:20 final size:20
Alignment explanation
Indices: 22122024--22122078 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
22122014 TTGTGAAAAG
22122024 TAATATATAATA-AATAACAA
1 TAATATATAATATAA-AACAA
*
22122044 TAATATAT-A-ATAAAATAA
1 TAATATATAATATAAAACAA
*
22122062 TTATATATAATATAAAA
1 TAATATATAATATAAAA
22122079 ATAAGATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 12 0.40
19 4 0.13
20 14 0.47
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TAATATATAATATAAAACAA
Found at i:22122504 original size:35 final size:35
Alignment explanation
Indices: 22122454--22122541 Score: 167
Period size: 35 Copynumber: 2.5 Consensus size: 35
22122444 CCTTTTGTTT
22122454 AAACGACGCCGTTTTAATGCTTATTGAATTAAGCA
1 AAACGACGCCGTTTTAATGCTTATTGAATTAAGCA
*
22122489 AAACGACGCCATTTTAATGCTTATTGAATTAAGCA
1 AAACGACGCCGTTTTAATGCTTATTGAATTAAGCA
22122524 AAACGACGCCGTTTTAAT
1 AAACGACGCCGTTTTAAT
22122542 AAAGGTATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (35 bp):
AAACGACGCCGTTTTAATGCTTATTGAATTAAGCA
Found at i:22125221 original size:141 final size:134
Alignment explanation
Indices: 22124964--22125245 Score: 393
Period size: 141 Copynumber: 2.1 Consensus size: 134
22124954 CTCAGATTAC
*
22124964 ATTTTAGTCACATATGTTTGAAATATTACGTTTTAGTCACTTGGTGTTGTAACATTTTATTCACT
1 ATTTTAGTCACATATGTTTGAAATATTACGTTTTAGTCACTTGGTGTTGTAACATTTTAGTCACT
* * * * * *
22125029 GAATCGTTAATTTCTGTTAACAGTGTAACAGTAAGTTGACGTGGCACGTTAAATCATCATTTCAA
66 GAATCGTTAATTGCCGTTAACAGTGTAACAGTAAGCTGACATAGCAAGTTAAATCATCATTTCAA
22125094 ACAA
131 ACAA
* *
22125098 ATTTTAGTCACTTATGTTTGAAATGTTACGTTTTAGTCACTTGCATTATCGTGTTGTAACATTTT
1 ATTTTAGTCACATATGTTTGAAATATTACGTTTTAGTCACTTG-------GTGTTGTAACATTTT
* *
22125163 AGTCACTGAGTCGTTAATTGCCGTTTACAGTGTAACAGTAAGCTGACATAGCAAGTTAAATCATC
59 AGTCACTGAATCGTTAATTGCCGTTAACAGTGTAACAGTAAGCTGACATAGCAAGTTAAATCATC
22125228 ATTTCAAACAA
124 ATTTCAAACAA
*
22125239 TTTTTAG
1 ATTTTAG
22125246 GTTAAATTAT
Statistics
Matches: 129, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
134 41 0.32
141 88 0.68
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.40
Consensus pattern (134 bp):
ATTTTAGTCACATATGTTTGAAATATTACGTTTTAGTCACTTGGTGTTGTAACATTTTAGTCACT
GAATCGTTAATTGCCGTTAACAGTGTAACAGTAAGCTGACATAGCAAGTTAAATCATCATTTCAA
ACAA
Found at i:22133633 original size:25 final size:25
Alignment explanation
Indices: 22133574--22133636 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 25
22133564 CTTCTCTTAG
* *
22133574 TTAAACTCT-AGTTTTAGTTTCTCAG
1 TTAAACTCTGA-TTTTAATTTCTCAC
22133599 TTAAACTCTGATTTTAATTTCTCAC
1 TTAAACTCTGATTTTAATTTCTCAC
22133624 TTAAACTCTGATT
1 TTAAACTCTGATT
22133637 AACCTAGTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (25 bp):
TTAAACTCTGATTTTAATTTCTCAC
Found at i:22134572 original size:19 final size:18
Alignment explanation
Indices: 22134548--22134586 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
22134538 GTAATAAAGT
22134548 ATGTATAATTAAA-ATTAAA
1 ATGTATAA--AAATATTAAA
22134567 ATGTATAAAAATATTAAA
1 ATGTATAAAAATATTAAA
22134585 AT
1 AT
22134587 AAAGTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 8 0.42
19 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
ATGTATAAAAATATTAAA
Found at i:22141221 original size:44 final size:45
Alignment explanation
Indices: 22141168--22141270 Score: 145
Period size: 44 Copynumber: 2.3 Consensus size: 45
22141158 TGTCTTTGAC
* * *
22141168 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
* *
22141212 ATGGACTTACATGGATCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
22141258 ATGGACTTACATG
1 ATGGACTTACATG
22141271 GCTCATTTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
44 34 0.65
46 18 0.35
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:22148646 original size:46 final size:44
Alignment explanation
Indices: 22148544--22148647 Score: 136
Period size: 44 Copynumber: 2.3 Consensus size: 44
22148534 TGTCTTTGAC
* * * *
22148544 ATGGACTTACATGAATTATTACTGTCTCTAATGCCATATATAAT
1 ATGGACTTACATGGATCAATACTGTCTCTAAAGCCATATATAAT
* *
22148588 ATGGACTTACATGGATCAATCCTGTCTCTAAAGCCATATTTCTAAT
1 ATGGACTTACATGGATCAATACTGTCTCTAAAGCCATA--TATAAT
22148634 ATGGACTTACATGG
1 ATGGACTTACATGG
22148648 CTCATTTCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 33 0.63
46 19 0.37
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (44 bp):
ATGGACTTACATGGATCAATACTGTCTCTAAAGCCATATATAAT
Found at i:22156064 original size:17 final size:18
Alignment explanation
Indices: 22156039--22156072 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22156029 AGGGGTATTT
*
22156039 TTCTGTTTT-TTTTTCTA
1 TTCTATTTTCTTTTTCTA
22156056 TTCTATTTTCTTTTTCT
1 TTCTATTTTCTTTTTCT
22156073 GAATATAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.06, C:0.15, G:0.03, T:0.76
Consensus pattern (18 bp):
TTCTATTTTCTTTTTCTA
Found at i:22156902 original size:3 final size:3
Alignment explanation
Indices: 22156867--22157027 Score: 61
Period size: 3 Copynumber: 55.0 Consensus size: 3
22156857 TATTAACTTT
* **
22156867 TTA TT- TTA TTT TTA TT- TTCA TTA TTA GCA -TA TTA TTA GTT- TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA -TTA TTA
* * * * * *
22156910 TTA ATA -TA TTA TTA TCT- TCTA TTT TTG TTG TTG TTA TTA TTA TTT
1 TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * **
22156955 TTA TCA TTA CTA TTA -TA TTTA TGA TTA TTG TTA GCA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
22156999 TTA TTA CTA TTA TTA TT- TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22157028 CCTACATACT
Statistics
Matches: 119, Mismatches: 26, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
2 15 0.13
3 96 0.81
4 8 0.07
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:22157004 original size:23 final size:23
Alignment explanation
Indices: 22156966--22157028 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
22156956 TATCATTACT
* * *
22156966 ATTATATTTATGATTATTGTTAGC
1 ATTAT-TTTATTATTACTATTAGC
**
22156990 ATTATTTTATTATTACTATTATT
1 ATTATTTTATTATTACTATTAGC
*
22157013 ATTTTTTTATTATTAC
1 ATTATTTTATTATTAC
22157029 CTACATACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 28 0.85
24 5 0.15
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (23 bp):
ATTATTTTATTATTACTATTAGC
Found at i:22157144 original size:23 final size:23
Alignment explanation
Indices: 22157100--22157146 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
22157090 ATTAACGCAT
22157100 TAATTTTTTTTATTAATATATTA
1 TAATTTTTTTTATTAATATATTA
22157123 TAATTATTTTTTCATT-AT-TATTA
1 TAATT-TTTTTT-ATTAATATATTA
22157146 T
1 T
22157147 TGTCATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 11 0.50
24 8 0.36
25 3 0.14
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TAATTTTTTTTATTAATATATTA
Found at i:22157147 original size:26 final size:24
Alignment explanation
Indices: 22157100--22157158 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
22157090 ATTAACGCAT
22157100 TAATT-TTTTTTATTAATATATTA
1 TAATTATTTTTTATTAATATATTA
* *
22157123 TAATTATTTTTTCATTATTATTATTG
1 TAATTATTTTTT-ATTAATA-TATTA
*
22157149 TCATTATTTT
1 TAATTATTTT
22157159 AAACCTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.17
24 6 0.20
25 6 0.20
26 13 0.43
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (24 bp):
TAATTATTTTTTATTAATATATTA
Found at i:22157683 original size:15 final size:15
Alignment explanation
Indices: 22157654--22157719 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
22157644 TGTATTTACT
*
22157654 TAATATATAAGTAAAA
1 TAATA-ATAATTAAAA
*
22157670 TAATAATAATTAAAG
1 TAATAATAATTAAAA
* *
22157685 T-ATACTATATTAATA
1 TAATAATA-ATTAAAA
22157700 TAATAAT-A-TAAAA
1 TAATAATAATTAAAA
22157713 T-ATAATA
1 TAATAATA
22157720 TAATCAATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
12 5 0.12
13 5 0.12
14 6 0.15
15 15 0.38
16 9 0.22
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (15 bp):
TAATAATAATTAAAA
Found at i:22157720 original size:20 final size:20
Alignment explanation
Indices: 22157695--22157732 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22157685 TATACTATAT
22157695 TAATATAAT-AATATAAAATA
1 TAATATAATCAATA-AAAATA
22157715 TAATATAATCAATAAAAA
1 TAATATAATCAATAAAAA
22157733 ACAAGTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TAATATAATCAATAAAAATA
Found at i:22157830 original size:15 final size:15
Alignment explanation
Indices: 22157810--22157839 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22157800 TATTATTAAG
*
22157810 AAAGGAAATAAAGAA
1 AAAGGAAAGAAAGAA
22157825 AAAGGAAAGAAAGAA
1 AAAGGAAAGAAAGAA
22157840 GGCCACGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (15 bp):
AAAGGAAAGAAAGAA
Found at i:22160737 original size:6 final size:6
Alignment explanation
Indices: 22160726--22160752 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
22160716 GTACTTTGTG
22160726 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
22160753 CGTTGCGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:22160946 original size:18 final size:17
Alignment explanation
Indices: 22160894--22160946 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
22160884 GTTTGCTACG
*
22160894 GAATAATTGACTGTTACT
1 GAATAA-TGACTGTTATT
*
22160912 GAATGAATGATTGTTATT
1 GAAT-AATGACTGTTATT
*
22160930 GTATAACTGACTGTTAT
1 GAATAA-TGACTGTTAT
22160947 AGAGTAACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 25 0.86
19 2 0.07
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.42
Consensus pattern (17 bp):
GAATAATGACTGTTATT
Found at i:22161511 original size:22 final size:22
Alignment explanation
Indices: 22161493--22161537 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22161483 AAATATATTA
22161493 GGTCATAAAATGAAATATACAT
1 GGTCATAAAATGAAATATACAT
22161515 GGTCATAAAATGAAATATACAT
1 GGTCATAAAATGAAATATACAT
22161537 G
1 G
22161538 CTTGAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (22 bp):
GGTCATAAAATGAAATATACAT
Found at i:22173704 original size:68 final size:68
Alignment explanation
Indices: 22173574--22173707 Score: 216
Period size: 68 Copynumber: 2.0 Consensus size: 68
22173564 TTAATCGAGT
* *
22173574 TTGTCGAAACCATTTTTCGAAAACGGAAATCGACTTGATTTTGAAAACGAAAAAATGGAGTCGCC
1 TTGTCAAAACCATTTTTCGAAAACGGAAATCGACTTGATTTTGAAAACGAAAAAATGAAGTCGCC
22173639 AAG
66 AAG
* *
22173642 TTGTCAAAATCATTTTTCGAAAACGGGAATCGACTTGATTTTGAAAACGAAAAAA-GAAAGTCGC
1 TTGTCAAAACCATTTTTCGAAAACGGAAATCGACTTGATTTTGAAAACGAAAAAATG-AAGTCGC
22173706 CA
65 CA
22173708 CCGATCTTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 1 0.02
68 60 0.98
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (68 bp):
TTGTCAAAACCATTTTTCGAAAACGGAAATCGACTTGATTTTGAAAACGAAAAAATGAAGTCGCC
AAG
Found at i:22203631 original size:5 final size:5
Alignment explanation
Indices: 22203617--22203646 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
22203607 CGAAAATCCC
22203617 AAAA- AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
22203647 CAAAATTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:22203641 original size:15 final size:14
Alignment explanation
Indices: 22203617--22203651 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
22203607 CGAAAATCCC
22203617 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
22203631 AAAAGAAAAGAAAAG
1 AAAA-AAAAGAAAAG
22203646 ACAAAA
1 A-AAAA
22203652 TTGATGGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.21
15 12 0.63
16 3 0.16
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:22208165 original size:7 final size:7
Alignment explanation
Indices: 22208153--22208177 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22208143 TAGTGTCGGC
22208153 GTTGGCT
1 GTTGGCT
22208160 GTTGGCT
1 GTTGGCT
22208167 GTTGGCT
1 GTTGGCT
22208174 GTTG
1 GTTG
22208178 ACTTGATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.44, T:0.44
Consensus pattern (7 bp):
GTTGGCT
Found at i:22208615 original size:47 final size:47
Alignment explanation
Indices: 22208548--22208641 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
22208538 AGTAAGTTCC
22208548 TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
1 TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
22208595 TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
1 TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
22208642 GAATCTTATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.43
Consensus pattern (47 bp):
TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
Found at i:22210131 original size:23 final size:22
Alignment explanation
Indices: 22210100--22210145 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
22210090 ATAAATTCGT
* *
22210100 AATTAGAGTAGAAGATAAAAAAA
1 AATTAGAGTAAAAG-CAAAAAAA
*
22210123 AATTTGAGTAAAAGCAAAAAAA
1 AATTAGAGTAAAAGCAAAAAAA
22210145 A
1 A
22210146 TTAAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.65, C:0.02, G:0.15, T:0.17
Consensus pattern (22 bp):
AATTAGAGTAAAAGCAAAAAAA
Found at i:22212940 original size:17 final size:16
Alignment explanation
Indices: 22212898--22212941 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
22212888 AATATTATTA
*
22212898 ATATAATATAAAATAT
1 ATATAATATATAATAT
*
22212914 A-ATAACATATAATAT
1 ATATAATATATAATAT
22212929 ATATATATATATA
1 ATATA-ATATATA
22212942 TGAACTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 13 0.57
16 4 0.17
17 6 0.26
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAATATATAATAT
Found at i:22215512 original size:20 final size:22
Alignment explanation
Indices: 22215470--22215513 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
22215460 TTATTGACAA
* *
22215470 ATTTTTTATAATAATTAATATT
1 ATTTTTTAAAATAATTAAAATT
22215492 ATTTTTTAAAAT-A-TAAAATT
1 ATTTTTTAAAATAATTAAAATT
22215512 AT
1 AT
22215514 GTAGTGATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTTTAAAATAATTAAAATT
Found at i:22217111 original size:4 final size:4
Alignment explanation
Indices: 22217104--22217139 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
22217094 TCAATATATA
22217104 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
22217140 GGGAGTGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:22219679 original size:46 final size:46
Alignment explanation
Indices: 22219614--22219799 Score: 248
Period size: 46 Copynumber: 4.0 Consensus size: 46
22219604 TTATCTTTGA
* * * * * *
22219614 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
22219660 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
22219706 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
22219752 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
22219798 CA
1 CA
22219800 AAGAGCACAC
Statistics
Matches: 126, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 122 0.97
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:22221985 original size:11 final size:11
Alignment explanation
Indices: 22221941--22221992 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
22221931 TATACTAAAT
22221941 AAATAATAATA
1 AAATAATAATA
*
22221952 TAATAATAAT-
1 AAATAATAATA
* *
22221962 AAATATCTCATA
1 AAATA-ATAATA
*
22221974 AAATATTAATA
1 AAATAATAATA
22221985 AAATAATA
1 AAATAATA
22221993 TTTATCTAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
10 4 0.12
11 23 0.72
12 5 0.16
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:22222606 original size:27 final size:27
Alignment explanation
Indices: 22222576--22222630 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
22222566 TTCGTTAAGG
22222576 TAAGATTTTACGGGTTAATTCATTGTT
1 TAAGATTTTACGGGTTAATTCATTGTT
*
22222603 TAAGATTTTACGGGTTAATTTATTGTT
1 TAAGATTTTACGGGTTAATTCATTGTT
22222630 T
1 T
22222631 GAGTTGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.51
Consensus pattern (27 bp):
TAAGATTTTACGGGTTAATTCATTGTT
Found at i:22223237 original size:85 final size:85
Alignment explanation
Indices: 22223092--22223257 Score: 314
Period size: 85 Copynumber: 2.0 Consensus size: 85
22223082 GACACGGGCA
22223092 TGTGTCTAGGCCGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGACACAAGCGTG
1 TGTGTCTAGGCCGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGACACAAGCGTG
22223157 TATCCATGCCATGTAAGGCG
66 TATCCATGCCATGTAAGGCG
* *
22223177 TGTGTCTAGGCTGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGATACAAGCGTG
1 TGTGTCTAGGCCGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGACACAAGCGTG
22223242 TATCCATGCCATGTAA
66 TATCCATGCCATGTAA
22223258 CTCACTATTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (85 bp):
TGTGTCTAGGCCGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGACACAAGCGTG
TATCCATGCCATGTAAGGCG
Found at i:22223320 original size:63 final size:63
Alignment explanation
Indices: 22223174--22223346 Score: 172
Period size: 63 Copynumber: 2.7 Consensus size: 63
22223164 GCCATGTAAG
* * * * *
22223174 GCGTGTGTCTAGGCTGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGATACAA
1 GCGTGTGTCCAGGCCGTGTAACTCATTGTTTTGGCTTTAGAGTCATACAGGCTAAGGACACAA
* * * * * * *
22223237 GCGTGTATCCATGCCATGTAACTCACTATTTTGGCTTTAGAGTCATACGGGCT-AGAGACAC-G
1 GCGTGTGTCCAGGCCGTGTAACTCATTGTTTTGGCTTTAGAGTCATACAGGCTAAG-GACACAA
* *
22223299 GATGTGTGTCCAGGCCGTGTAACTCATTGTTTTGGAGTTT-GAGTCATA
1 G-CGTGTGTCCAGGCCGTGTAACTCATTGTTTTGG-CTTTAGAGTCATA
22223347 TGAACCAAGG
Statistics
Matches: 88, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
62 3 0.03
63 82 0.93
64 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (63 bp):
GCGTGTGTCCAGGCCGTGTAACTCATTGTTTTGGCTTTAGAGTCATACAGGCTAAGGACACAA
Found at i:22227317 original size:16 final size:17
Alignment explanation
Indices: 22227296--22227330 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
22227286 TAATGTCTAG
22227296 GAAAATTA-TTAATTGA
1 GAAAATTAGTTAATTGA
22227312 GAAAATTAGTTTAATTGA
1 GAAAATTAG-TTAATTGA
22227330 G
1 G
22227331 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (17 bp):
GAAAATTAGTTAATTGA
Found at i:22230842 original size:22 final size:21
Alignment explanation
Indices: 22230812--22230877 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
22230802 TACAAATTAA
22230812 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
22230834 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
22230855 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
22230874 ATCT
1 ATCT
22230878 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:22230864 original size:19 final size:19
Alignment explanation
Indices: 22230829--22230907 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
22230819 AGATTACAAG
22230829 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
22230850 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
22230869 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
22230886 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
22230905 ATC
1 ATC
22230908 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:22230871 original size:14 final size:15
Alignment explanation
Indices: 22230851--22230907 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
22230841 AGATTGCATA
22230851 TCATATCTAAGATTG
1 TCATATCTAAGATTG
22230866 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
22230885 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
22230902 -CATATC
1 TCATATC
22230908 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:22230893 original size:36 final size:39
Alignment explanation
Indices: 22230829--22230907 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
22230819 AGATTACAAG
22230829 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
22230869 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
22230905 ATC
1 ATC
22230908 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:22234569 original size:19 final size:19
Alignment explanation
Indices: 22234545--22234589 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
22234535 ACAATTAACA
*
22234545 ATATATAAAAAATATATATAC
1 ATATAT-AAAAATA-ATAAAC
*
22234566 ATATATAATAATAATAAAC
1 ATATATAAAAATAATAAAC
22234585 ATATA
1 ATATA
22234590 GGGTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 6 0.27
21 6 0.27
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
ATATATAAAAATAATAAAC
Found at i:22235556 original size:13 final size:13
Alignment explanation
Indices: 22235538--22235564 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22235528 ATGATTCGAA
22235538 GCCTGGAATCACG
1 GCCTGGAATCACG
22235551 GCCTGGAATCACG
1 GCCTGGAATCACG
22235564 G
1 G
22235565 TGTTGATGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.33, T:0.15
Consensus pattern (13 bp):
GCCTGGAATCACG
Found at i:22238028 original size:16 final size:15
Alignment explanation
Indices: 22238007--22238090 Score: 57
Period size: 16 Copynumber: 5.5 Consensus size: 15
22237997 CTTATATATA
22238007 TATTTTATAATTTATT
1 TATTTTA-AATTTATT
22238023 TATTTTAAATATT-TT
1 TATTTTAAAT-TTATT
*
22238038 GTATATT--ATTTATTT
1 -TATTTTAAATTTA-TT
*
22238053 TACTTTAAATTTATT
1 TATTTTAAATTTATT
* **
22238068 TATATGTAAAAATATT
1 TAT-TTTAAATTTATT
22238084 TATTTTA
1 TATTTTA
22238091 TCATTTTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
13 2 0.04
14 6 0.11
15 14 0.26
16 31 0.58
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTTTAAATTTATT
Found at i:22238071 original size:29 final size:29
Alignment explanation
Indices: 22238002--22238072 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
22237992 TAATCCTTAT
*
22238002 ATATATATTT-TATAATTTATTTATTTTAA
1 ATAT-TATTTATATAATTTATTTACTTTAA
*
22238031 ATATT-TTGTATATTATTTATTTTACTTTAA
1 ATATTATT-TATATAATTTA-TTTACTTTAA
22238061 AT-TTATTTATAT
1 ATATTATTTATAT
22238073 GTAAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
27 2 0.06
28 2 0.06
29 19 0.53
30 13 0.36
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (29 bp):
ATATTATTTATATAATTTATTTACTTTAA
Found at i:22238392 original size:17 final size:18
Alignment explanation
Indices: 22238352--22238392 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
22238342 TATTTATATA
* *
22238352 TTATTTTAAATATTTTAT
1 TTATTTTAAATACTTCAT
22238370 TT-TTTT-AATACTTCAT
1 TTATTTTAAATACTTCAT
22238386 TTATTTT
1 TTATTTT
22238393 TAATTGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 10 0.50
17 8 0.40
18 2 0.10
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTTAAATACTTCAT
Found at i:22249575 original size:23 final size:23
Alignment explanation
Indices: 22249549--22249594 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22249539 TTAAGAATTA
* *
22249549 TTTTAGTATTATTTTTTATTTTT
1 TTTTAGTATTAATATTTATTTTT
* *
22249572 TTTTTGTTTTAATATTTATTTTT
1 TTTTAGTATTAATATTTATTTTT
22249595 ATGTTTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTAGTATTAATATTTATTTTT
Found at i:22249611 original size:23 final size:21
Alignment explanation
Indices: 22249565--22249628 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 21
22249555 TATTATTTTT
22249565 TATTT-TTTTT-TTGTTTT-AA
1 TATTTATTTTTATT-TTTTAAA
22249584 TATTTATTTTTATGTTTTTAAA
1 TATTTATTTTTAT-TTTTTAAA
22249606 TGATTTGATTTATTATTTTTTAA
1 T-ATTT-ATTT-TTATTTTTTAA
22249629 TTTTTTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
19 5 0.13
20 5 0.13
21 5 0.13
22 4 0.11
23 4 0.11
24 11 0.29
25 4 0.11
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (21 bp):
TATTTATTTTTATTTTTTAAA
Found at i:22255186 original size:14 final size:14
Alignment explanation
Indices: 22255167--22255197 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
22255157 ATCCATAACA
22255167 TTTCCGATTTTCAT
1 TTTCCGATTTTCAT
22255181 TTTCCGATTTTCAT
1 TTTCCGATTTTCAT
22255195 TTT
1 TTT
22255198 GTGTGTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.19, G:0.06, T:0.61
Consensus pattern (14 bp):
TTTCCGATTTTCAT
Found at i:22262948 original size:27 final size:28
Alignment explanation
Indices: 22262884--22262952 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 28
22262874 GAATATCCAA
*
22262884 CCCAAACACACCCGGAATATTATAAATCCT
1 CCCAAACACA-CCGG-ATATAATAAATCCT
*
22262914 -CCATAACACACCGG-TATAATATATCCT
1 CCCA-AACACACCGGATATAATAAATCCT
22262941 CCCAAACACACC
1 CCCAAACACACC
22262953 AATAAGGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 19 0.54
28 3 0.09
29 7 0.20
30 6 0.17
ACGTcount: A:0.39, C:0.36, G:0.06, T:0.19
Consensus pattern (28 bp):
CCCAAACACACCGGATATAATAAATCCT
Found at i:22264022 original size:12 final size:12
Alignment explanation
Indices: 22264007--22264037 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22263997 TTCTCTTTTA
22264007 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
22264019 TTTTTCTTTCTC
1 TTTTTCTTTCCC
22264031 TTTTTCT
1 TTTTTCT
22264038 CCCCTGCTTC
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:22264138 original size:16 final size:16
Alignment explanation
Indices: 22264117--22264147 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22264107 TTTATTATTT
22264117 TATTAACATAATATAA
1 TATTAACATAATATAA
*
22264133 TATTAATATAATATA
1 TATTAACATAATATA
22264148 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:22264923 original size:26 final size:26
Alignment explanation
Indices: 22264858--22264925 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
22264848 ATTATATTTC
* *
22264858 TTTTATATTTATTTATCTATTCCTTT
1 TTTTACATTTATTTATCTATTACTTT
**
22264884 TTTTACATACATTTAT-T-TTACTTT
1 TTTTACATTTATTTATCTATTACTTT
22264908 GTTTTACCATTTATTTAT
1 -TTTTA-CATTTATTTAT
22264926 ATCTCTTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.18
25 6 0.18
26 22 0.65
ACGTcount: A:0.22, C:0.12, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTTACATTTATTTATCTATTACTTT
Found at i:22265137 original size:18 final size:17
Alignment explanation
Indices: 22265092--22265143 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
22265082 TTATTGTACG
*
22265092 TATA-TATACTTTTATA
1 TATAGTATATTTTTATA
22265108 TATAGTATTATTTTTATA
1 TATAGTA-TATTTTTATA
*
22265126 TATCATTATATTTATTAT
1 TAT-AGTATATTT-TTAT
22265144 TATGCTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 4 0.13
17 2 0.07
18 17 0.57
19 7 0.23
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (17 bp):
TATAGTATATTTTTATA
Found at i:22265756 original size:18 final size:17
Alignment explanation
Indices: 22265735--22265789 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
22265725 ATTCGGATCC
22265735 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGT-TTTT
*
22265753 C-AAAATTTTTGTATTTT
1 CAAAAATTTTCGT-TTTT
* *
22265770 AAAAAATTCTCGTTTTT
1 CAAAAATTTTCGTTTTT
22265787 CAA
1 CAA
22265790 TCGGATCACG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 20 0.67
18 10 0.33
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (17 bp):
CAAAAATTTTCGTTTTT
Found at i:22276326 original size:73 final size:72
Alignment explanation
Indices: 22276234--22276650 Score: 611
Period size: 73 Copynumber: 5.7 Consensus size: 72
22276224 CCTAGTTTTT
*
22276234 ATTTCTGTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
*
22276299 AATTTCA
66 ATTTTCA
22276306 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
22276371 TATTTTCA
65 TATTTTCA
**
22276379 ATTTCTGGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 ATTTCT-GTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
22276444 GTATTTTCA
64 GTATTTTCA
* * * * *
22276453 ATTTCTGGTTTTCAAAAAAATCAACTTACATTGTGAGAGGTGAGTTGGGCCTCAGGACACGCTGA
1 ATTTCT-GTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
* *
22276518 GGTAATTACA
63 GGTATTTTCA
* *
22276528 ATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
22276593 TATTTTCA
65 TATTTTCA
* * *
22276601 A-TTATGCTTTTCAAAAATAAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 ATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
22276651 GGGTTACATG
Statistics
Matches: 313, Mismatches: 26, Indels: 12
0.89 0.07 0.03
Matches are distributed among these distances:
72 52 0.17
73 121 0.39
74 79 0.25
75 61 0.19
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
ATTTTCA
Found at i:22276669 original size:222 final size:219
Alignment explanation
Indices: 22276234--22276690 Score: 650
Period size: 222 Copynumber: 2.1 Consensus size: 219
22276224 CCTAGTTTTT
* * *
22276234 ATTTCTGTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
* * *
22276299 AATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
66 AATTACAATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAGGGCAC
* * * *
22276364 GCTGAGGTATTTTCAATTTCTGGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
131 GCTGAGGTATTTTCAATTTATGCTTTAAAAAAAATAAACTCATATTACGAGAGGTGAGTTGAGCC
*
22276429 TCAGGGCACGCTGAGGTATTTTCA
196 TCAGGGCACGCCGAGGTATTTTCA
* * *
22276453 ATTTCTGGTTTTCAAAAAAATCAACTTACATTGTGAGAGGTGAGTTGGGCCTCAGGACACGCTGA
1 ATTTCT-GTTTTC--AAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
22276518 GGTAATTACAATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAGGG
63 GGTAATTACAATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAGGG
**
22276583 CACGCTGAGGTATTTTCAA-TTATGCTTT-TCAAAAATAAACTCATATTACGAGAGGTGAGTTGA
128 CACGCTGAGGTATTTTCAATTTATGCTTTAAAAAAAATAAACTCATATTACGAGAGGTGAGTTGA
* *
22276646 GCCTC-GGGTTACATGCCGAGGTATTTTAA
193 GCCTCAGGG---CACGCCGAGGTATTTTCA
**
22276675 AAATCTGTTTTGCAAA
1 ATTTCTGTTTT-CAAA
22276691 TTCTGTTTTC
Statistics
Matches: 211, Mismatches: 20, Indels: 13
0.86 0.08 0.05
Matches are distributed among these distances:
219 9 0.04
220 45 0.21
221 12 0.06
222 145 0.69
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (219 bp):
ATTTCTGTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
AATTACAATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAGGGCAC
GCTGAGGTATTTTCAATTTATGCTTTAAAAAAAATAAACTCATATTACGAGAGGTGAGTTGAGCC
TCAGGGCACGCCGAGGTATTTTCA
Found at i:22276770 original size:88 final size:88
Alignment explanation
Indices: 22276608--22276841 Score: 240
Period size: 88 Copynumber: 2.7 Consensus size: 88
22276598 TCAATTATGC
* * * * * *
22276608 TTTTCAAAAATAAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTTACATGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
22276673 AAAAATCTGTTTTGCAAAT-TCT-G
66 AAAAATCTGTTTT--AAATGTCTAG
* * * * *
22276696 TTTTCAAAAATCAACTCATATTGCAAGAAGCGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
* ** *
22276761 CAATTTCTGTTTTTAATGTCTAG
66 AAAAATCTGTTTTAAATGTCTAG
* * * * *
22276784 TTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGCCCCGGGTCACATGCCGAG
1 TTTTCAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAG
22276842 GATAAATATT
Statistics
Matches: 118, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
86 3 0.03
87 6 0.05
88 109 0.92
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (88 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
AAAAATCTGTTTTAAATGTCTAG
Found at i:22276993 original size:21 final size:21
Alignment explanation
Indices: 22276946--22276999 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
22276936 TAGCAGAGCC
* * **
22276946 TTGAAGTTACAATGGAGCTGA
1 TTGAAGTTGCAGTGGAGCACA
*
22276967 TCGAAGTTGCAGTGGAGCACA
1 TTGAAGTTGCAGTGGAGCACA
22276988 TTGAAGTTGCAG
1 TTGAAGTTGCAG
22277000 ATCCTATCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (21 bp):
TTGAAGTTGCAGTGGAGCACA
Found at i:22278691 original size:3 final size:3
Alignment explanation
Indices: 22278683--22278900 Score: 53
Period size: 3 Copynumber: 71.3 Consensus size: 3
22278673 AACCTTCACA
* * * *
22278683 TAT TAT TAT TGT TAT TAT TAT TAT TTT TAC TAT CTAA TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * *
22278728 TA- TACT TAT TTT TACC TGT TA- TATT TAT TAT TAA TAT TAG TAT ATAT
1 TAT TA-T TAT TAT TA-T TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TAT
* * * *
22278775 T-T TAT T-G TACG TAT ATAT ATACT T-T TA- TAT ATAG TAT TAT TTT
1 TAT TAT TAT TA-T TAT -TAT -TA-T TAT TAT TAT -TAT TAT TAT TAT
* ** * *
22278818 TAT ATAT CAT TA- TATT TAT TAT TAT GCT TAT TAT T-T TCAC TAT TGT
1 TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
*
22278864 TACT TAT TAT T-T TAT T-T TAG TAT TAT TAT GTAT TAT T
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
22278901 TGGTATACAT
Statistics
Matches: 155, Mismatches: 35, Indels: 50
0.65 0.15 0.21
Matches are distributed among these distances:
2 21 0.14
3 99 0.64
4 34 0.22
5 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:22279453 original size:18 final size:18
Alignment explanation
Indices: 22279432--22279486 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 18
22279422 ATTTGGATCC
22279432 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
22279450 C-AAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
* *
22279467 AAAAAATTCTCGT-TTTT
1 CAAAAATTTTCGTGTTTT
22279484 CAA
1 CAA
22279487 TCGGATCACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (18 bp):
CAAAAATTTTCGTGTTTT
Found at i:22283880 original size:219 final size:219
Alignment explanation
Indices: 22283497--22283934 Score: 806
Period size: 219 Copynumber: 2.0 Consensus size: 219
22283487 CCTAATCTAT
22283497 TTAATTTATTTATTATTTTAGTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCCTATT
1 TTAATTTATTTATTATTTTAGTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCCTATT
22283562 TTTCTTGTATTATTTATTTTAAATTGCGTTATTATCATGTATACTAAGTTTTACATATTTTAAAC
66 TTTCTTGTATTATTTATTTTAAATTGCGTTATTATCATGTATACTAAGTTTTACATATTTTAAAC
*
22283627 TATTATTCATTTTAATTTTCATATACATTATTTGTTTTAATTATTATGCATATATATTTTTAGAC
131 TATTATTCATTTTAATTTTCATATACACTATTTGTTTTAATTATTATGCATATATATTTTTAGAC
22283692 ACCTTTT-TTTTAAAACTATTTCAC
196 ACCTTTTATTTT-AAACTATTTCAC
* * *
22283716 TTAATTTATTTATTATTTTATTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCTTGTT
1 TTAATTTATTTATTATTTTAGTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCCTATT
*
22283781 TTTCTTGTATTATTTATTTTAAATTGCGTTATTATCATGTATTCTAAGTTTTACATATTTTAAAC
66 TTTCTTGTATTATTTATTTTAAATTGCGTTATTATCATGTATACTAAGTTTTACATATTTTAAAC
*
22283846 TATTATTCATTTTAATTTTCATATACACTATTTGTTTTAATTATTATGCATATGTATTTTTAGAC
131 TATTATTCATTTTAATTTTCATATACACTATTTGTTTTAATTATTATGCATATATATTTTTAGAC
22283911 ACCTTTTATTTTAAACTATTTCAC
196 ACCTTTTATTTTAAACTATTTCAC
22283935 ATATATTATC
Statistics
Matches: 212, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
219 208 0.98
220 4 0.02
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.58
Consensus pattern (219 bp):
TTAATTTATTTATTATTTTAGTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCCTATT
TTTCTTGTATTATTTATTTTAAATTGCGTTATTATCATGTATACTAAGTTTTACATATTTTAAAC
TATTATTCATTTTAATTTTCATATACACTATTTGTTTTAATTATTATGCATATATATTTTTAGAC
ACCTTTTATTTTAAACTATTTCAC
Found at i:22284092 original size:2 final size:2
Alignment explanation
Indices: 22284085--22284111 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22284075 TTTTGGAACT
22284085 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
22284112 TACTTTGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22284603 original size:24 final size:24
Alignment explanation
Indices: 22284576--22284625 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
22284566 TTGATATTAT
* *
22284576 ATCTAATTCGTATTGTATCGTTCC
1 ATCTAATTCGTACTGTATCATTCC
*
22284600 ATCTAATTCGTGCTGTATCATTCC
1 ATCTAATTCGTACTGTATCATTCC
22284624 AT
1 AT
22284626 GCTCTATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (24 bp):
ATCTAATTCGTACTGTATCATTCC
Found at i:22293378 original size:28 final size:27
Alignment explanation
Indices: 22293346--22293402 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
22293336 TATCTTTTTT
22293346 AAATATTTTATAATTTTTAA-AAATTATA
1 AAATATTTTAT-A-TTTTAATAAATTATA
*
22293374 AAATATTTTATATTTTAATAAATTTTA
1 AAATATTTTATATTTTAATAAATTATA
22293401 AA
1 AA
22293403 CTTTAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.22
27 10 0.37
28 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AAATATTTTATATTTTAATAAATTATA
Found at i:22293381 original size:20 final size:20
Alignment explanation
Indices: 22293297--22293382 Score: 52
Period size: 18 Copynumber: 4.2 Consensus size: 20
22293287 ATTACACTAA
*
22293297 ATTTATTAAAAATTCT-AAAT
1 ATTT-TTAAAAATTATAAAAT
* *
22293317 AATTATAAAAATTATTAAATAT
1 ATTTTTAAAAATTA-TAAA-AT
* * * *
22293339 CTTTTTTAAATATT-TTATA-
1 -ATTTTTAAAAATTATAAAAT
22293358 ATTTTTAAAAATTATAAAAT
1 ATTTTTAAAAATTATAAAAT
22293378 ATTTT
1 ATTTT
22293383 ATATTTTAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 12
0.65 0.18 0.17
Matches are distributed among these distances:
18 11 0.23
19 11 0.23
20 10 0.21
21 4 0.09
22 2 0.04
23 9 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTTTAAAAATTATAAAAT
Found at i:22293495 original size:17 final size:17
Alignment explanation
Indices: 22293461--22293496 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22293451 TTCTTTTCAA
*
22293461 TTATTTTTTTGTAATTT
1 TTATTTTTTTATAATTT
*
22293478 TTATTTTTTTATACTTT
1 TTATTTTTTTATAATTT
22293495 TT
1 TT
22293497 CTAGATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (17 bp):
TTATTTTTTTATAATTT
Found at i:22296958 original size:22 final size:23
Alignment explanation
Indices: 22296927--22296969 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
22296917 GTAAATTGAT
22296927 TTTTTAAAATTT-TATATATTTTG
1 TTTTTAAAATTTATA-ATATTTTG
22296950 TTTTT-AAATTTATAATATTT
1 TTTTTAAAATTTATAATATTT
22296970 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTAAAATTTATAATATTTTG
Found at i:22299089 original size:31 final size:27
Alignment explanation
Indices: 22298998--22299090 Score: 69
Period size: 31 Copynumber: 3.2 Consensus size: 27
22298988 TCTAGTTATC
* *
22298998 TTAAATTTAATTTAAATTTATTGATAATTT
1 TTAAATTTAA-TGAAA-TAATT-ATAATTT
* **
22299028 TTAAATTTAATGAAATAATTAAAAAAT
1 TTAAATTTAATGAAATAATTATAATTT
*
22299055 TTAAATTTATTCATGATTATAATTATAATTT
1 TTAAATTTA---ATGA-AATAATTATAATTT
22299086 TTAAA
1 TTAAA
22299091 AATCTAGTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
27 13 0.26
28 4 0.08
29 4 0.08
30 14 0.28
31 15 0.30
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (27 bp):
TTAAATTTAATGAAATAATTATAATTT
Found at i:22301776 original size:20 final size:20
Alignment explanation
Indices: 22301751--22301800 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
22301741 TGGCTTAAAA
22301751 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
22301771 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
22301788 GTGGTAGTGGATT
1 TTGGTAGTGGATT
22301801 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:22302720 original size:2 final size:2
Alignment explanation
Indices: 22302713--22302740 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22302703 AAGCTATCAT
22302713 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
22302741 ATCATTCCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22305634 original size:10 final size:10
Alignment explanation
Indices: 22305619--22305687 Score: 50
Period size: 10 Copynumber: 7.8 Consensus size: 10
22305609 TTATTCTATG
22305619 ATTTTTATAT
1 ATTTTTATAT
22305629 ATTTTTA-AT
1 ATTTTTATAT
22305638 AGTTTTTATA-
1 A-TTTTTATAT
22305648 A-TTTT-TA-
1 ATTTTTATAT
22305655 A-TTTTATAT
1 ATTTTTATAT
22305664 -TTTTTATA-
1 ATTTTTATAT
*
22305672 A--TTTAAAT
1 ATTTTTATAT
22305680 ATTTTTAT
1 ATTTTTAT
22305688 TTTTTATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
7 12 0.25
8 7 0.15
9 10 0.21
10 18 0.38
11 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:22305668 original size:9 final size:9
Alignment explanation
Indices: 22305580--22305699 Score: 67
Period size: 9 Copynumber: 13.9 Consensus size: 9
22305570 TGCCAATATA
22305580 TATATTTTT
1 TATATTTTT
22305589 TAT-TTTTT
1 TATATTTTT
* **
22305597 TAGAAATTT
1 TATATTTTT
*
22305606 TAT-TTATTC
1 TATATT-TTT
22305615 TATGATTTTT
1 TAT-ATTTTT
22305625 ATATATTTTT
1 -TATATTTTT
* *
22305635 AATAGTTTT
1 TATATTTTT
*
22305644 TATAATTTT
1 TATATTTTT
22305653 TA-A--TTT
1 TATATTTTT
22305659 TATATTTTT
1 TATATTTTT
*
22305668 TATA--ATT
1 TATATTTTT
* *
22305675 TAAATATTT
1 TATATTTTT
22305684 T-TATTTTT
1 TATATTTTT
22305692 TATATTTT
1 TATATTTT
22305700 ATAATTATTT
Statistics
Matches: 83, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
6 5 0.06
7 6 0.07
8 14 0.17
9 45 0.54
10 8 0.10
11 5 0.06
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (9 bp):
TATATTTTT
Found at i:22305668 original size:24 final size:24
Alignment explanation
Indices: 22305631--22305754 Score: 91
Period size: 24 Copynumber: 5.2 Consensus size: 24
22305621 TTTTATATAT
*
22305631 TTTTAATAGTTTTTATAATTTTTAA
1 TTTT-ATATTTTTTATAATTTTTAA
*
22305656 TTTTATATTTTTTATAA-TTTAAA
1 TTTTATATTTTTTATAATTTTTAA
*
22305679 TATTTTTATTTTTTAT-ATTTTATAA
1 T-TTTATATTTTTTATAATTTT-TAA
*
22305704 --TTAT-TTTTTT-CAATTTCTTAA
1 TTTTATATTTTTTATAATTT-TTAA
*
22305725 CTTTT-TATTTTTTAAATATTTTATAA
1 -TTTTATATTTTTTATA-ATTTT-TAA
22305751 TTTT
1 TTTT
22305755 TTAACATTAA
Statistics
Matches: 80, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
21 13 0.16
22 4 0.05
23 8 0.10
24 36 0.45
25 12 0.15
26 7 0.09
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (24 bp):
TTTTATATTTTTTATAATTTTTAA
Found at i:22305675 original size:17 final size:17
Alignment explanation
Indices: 22305586--22305699 Score: 60
Period size: 17 Copynumber: 6.6 Consensus size: 17
22305576 TATATATATT
*
22305586 TTTTAT-TTTTTTAGAAA
1 TTTTATATTTTTTA-TAA
* *
22305603 TTTTAT-TTATTCTATGAT
1 TTTTATATT-TTTTAT-AA
*
22305621 TTTTATATATTTTTAATAG
1 TTTTATAT-TTTTT-ATAA
*
22305640 TTTT-TATAATTTT-TAA
1 TTTTATAT-TTTTTATAA
22305656 TTTTATATTTTTTATAA
1 TTTTATATTTTTTATAA
* *
22305673 -TTTAAATATTTTTAT-T
1 TTTTATAT-TTTTTATAA
22305689 TTTTATATTTT
1 TTTTATATTTT
22305700 ATAATTATTT
Statistics
Matches: 77, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
16 19 0.25
17 27 0.35
18 19 0.25
19 9 0.12
20 3 0.04
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTATATTTTTTATAA
Found at i:22305755 original size:9 final size:9
Alignment explanation
Indices: 22305619--22305755 Score: 71
Period size: 9 Copynumber: 15.7 Consensus size: 9
22305609 TTATTCTATG
22305619 ATTTTTATA
1 ATTTTTATA
22305628 TATTTTTAATA
1 -ATTTTT-ATA
*
22305639 GTTTTTATA
1 ATTTTTATA
22305648 A-TTTT-TA
1 ATTTTTATA
22305655 A-TTTTATA
1 ATTTTTATA
*
22305663 TTTTTTATA
1 ATTTTTATA
**
22305672 ATTTAAAT-
1 ATTTTTATA
22305680 ATTTTTAT-
1 ATTTTTATA
22305688 -TTTTTAT-
1 ATTTTTATA
*
22305695 ATTTTATAATT
1 ATTTT-T-ATA
*
22305706 ATTTTTTTCA
1 ATTTTTAT-A
22305716 ATTTCTTA-A
1 ATTT-TTATA
*
22305725 CTTTTTAT-
1 ATTTTTATA
22305733 -TTTTTA-A
1 ATTTTTATA
22305740 ATATTTTATA
1 AT-TTTTATA
22305750 ATTTTT
1 ATTTTT
22305756 TAACATTAAG
Statistics
Matches: 101, Mismatches: 12, Indels: 29
0.71 0.08 0.20
Matches are distributed among these distances:
7 20 0.20
8 20 0.20
9 30 0.30
10 21 0.21
11 10 0.10
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (9 bp):
ATTTTTATA
Found at i:22311851 original size:45 final size:45
Alignment explanation
Indices: 22311800--22311894 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
22311790 ATGCCTCACC
* *
22311800 ATTTTGGCTTATATTTATTTTATTGATTATTTTCAACGAAACTAG
1 ATTTTGGCTTATATTTATTTTAGTGATTATTTTCAACAAAACTAG
22311845 ATTTTGGCTTATATTTATTTTAGTGATTATTTTCAACAAAACTAG
1 ATTTTGGCTTATATTTATTTTAGTGATTATTTTCAACAAAACTAG
22311890 ATTTT
1 ATTTT
22311895 ATCTATAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (45 bp):
ATTTTGGCTTATATTTATTTTAGTGATTATTTTCAACAAAACTAG
Found at i:22315515 original size:17 final size:17
Alignment explanation
Indices: 22315493--22315526 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22315483 ATCCACTAAT
*
22315493 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
22315510 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
22315527 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:22320143 original size:17 final size:17
Alignment explanation
Indices: 22320121--22320154 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22320111 ATCCACTAAT
*
22320121 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
22320138 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
22320155 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:22321469 original size:17 final size:17
Alignment explanation
Indices: 22321447--22321480 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22321437 ATCCACTAAT
*
22321447 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
22321464 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
22321481 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:22326097 original size:17 final size:17
Alignment explanation
Indices: 22326075--22326108 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22326065 ATCCACTAAT
*
22326075 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
22326092 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
22326109 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:22329330 original size:5 final size:5
Alignment explanation
Indices: 22329320--22329357 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
22329310 AATTTGTGTG
*
22329320 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
22329358 TTTCACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:22342149 original size:16 final size:16
Alignment explanation
Indices: 22342128--22342167 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
22342118 CATGATCCGA
*
22342128 TTGAAACACGAGAATT
1 TTGAAACACGAAAATT
*
22342144 TTGAAAATACGAAAATT
1 TTG-AAACACGAAAATT
22342161 TTGAAAC
1 TTGAAAC
22342168 TTGAAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (16 bp):
TTGAAACACGAAAATT
Found at i:22342206 original size:18 final size:17
Alignment explanation
Indices: 22342180--22342287 Score: 50
Period size: 18 Copynumber: 6.5 Consensus size: 17
22342170 GAAATTTTTT
*
22342180 TTTTG-AAACCCAAGAGA
1 TTTTGAAAACCCAA-AAA
*
22342197 TTTTGAAAACGCAAAAA
1 TTTTGAAAACCCAAAAA
** *
22342214 TTCTTGAAAACCTGAGAA
1 TT-TTGAAAACCCAAAAA
*
22342232 TCTTTG-AAACCCGAGAAA
1 T-TTTGAAAACCC-AAAAA
22342250 -TTT-AAAA---AAAAA
1 TTTTGAAAACCCAAAAA
* *
22342262 TTTTGAAAACACGAAAAT
1 TTTTGAAAAC-CCAAAAA
22342280 TTTTGAAA
1 TTTTGAAA
22342288 CCCGAATTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 21
0.67 0.12 0.21
Matches are distributed among these distances:
12 4 0.06
13 3 0.04
14 4 0.06
16 6 0.09
17 14 0.21
18 36 0.53
19 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (17 bp):
TTTTGAAAACCCAAAAA
Found at i:22343759 original size:30 final size:30
Alignment explanation
Indices: 22343715--22343850 Score: 155
Period size: 30 Copynumber: 4.5 Consensus size: 30
22343705 TAAAATTTAA
* *
22343715 GGTCAAAATGAAATTTAAGAAAATTTTAGG
1 GGTCAAAATGAAATTTAAAAAAAGTTTAGG
* * * *
22343745 GATTAAATTGAAATTTAAAAAAAGTTTGGG
1 GGTCAAAATGAAATTTAAAAAAAGTTTAGG
***
22343775 GGTCAAAATGAAATTTAGGGAAAGTTTAGG
1 GGTCAAAATGAAATTTAAAAAAAGTTTAGG
* *
22343805 GGTCAAAATAAAATTTAAAAAAAGTTTAAG
1 GGTCAAAATGAAATTTAAAAAAAGTTTAGG
* *
22343835 GGTTAAAATGTAATTT
1 GGTCAAAATGAAATTT
22343851 TTTATTTTTC
Statistics
Matches: 85, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 85 1.00
ACGTcount: A:0.46, C:0.02, G:0.21, T:0.31
Consensus pattern (30 bp):
GGTCAAAATGAAATTTAAAAAAAGTTTAGG
Found at i:22343779 original size:60 final size:60
Alignment explanation
Indices: 22343706--22343850 Score: 177
Period size: 60 Copynumber: 2.5 Consensus size: 60
22343696 TAATTTTTAT
* * * *
22343706 AAAA-TTTAA-GGTCAAAATGAAATTTAAGAAAATTTTAGGGATTAAATTGAAATTTAAA
1 AAAAGTTTAAGGGTCAAAATGAAATTTAAGAAAAGTTTAGGGATCAAAATAAAATTTAAA
** * * *
22343764 AAAAGTTTGGGGGTCAAAATGAAATTTAGGGAAAGTTTAGGGGTCAAAATAAAATTTAAA
1 AAAAGTTTAAGGGTCAAAATGAAATTTAAGAAAAGTTTAGGGATCAAAATAAAATTTAAA
* *
22343824 AAAAGTTTAAGGGTTAAAATGTAATTT
1 AAAAGTTTAAGGGTCAAAATGAAATTT
22343851 TTTATTTTTC
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
58 4 0.06
59 3 0.04
60 65 0.90
ACGTcount: A:0.48, C:0.02, G:0.19, T:0.31
Consensus pattern (60 bp):
AAAAGTTTAAGGGTCAAAATGAAATTTAAGAAAAGTTTAGGGATCAAAATAAAATTTAAA
Found at i:22346770 original size:34 final size:34
Alignment explanation
Indices: 22346677--22346770 Score: 84
Period size: 35 Copynumber: 2.7 Consensus size: 34
22346667 TTATTCTTCA
* *
22346677 TATTACCTAT-TATTTTTCAAATTATTTTACATCAT
1 TATTTCCTATATA-TTTT-AAATTATTATACATCAT
** * *
22346712 TATTTTTTATATATTATTATATTATTATATATC-T
1 TATTTCCTATATATT-TTAAATTATTATACATCAT
22346746 TATTTCCTATATATATTTAAATTAT
1 TATTTCCTATATAT-TTTAAATTAT
22346771 ATTTTATAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
34 21 0.45
35 22 0.47
36 4 0.09
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (34 bp):
TATTTCCTATATATTTTAAATTATTATACATCAT
Done.