Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 48 of 129
Found at i:9583921 original size:22 final size:21
Alignment explanation
Indices: 9583891--9583932 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9583881 AGAAAGTTTT
*
9583891 GTTATATGAGACATCATCGATG
1 GTTAGATGAGA-ATCATCGATG
*
9583913 GTTAGATGATAATCATCGAT
1 GTTAGATGAGAATCATCGAT
9583933 TTAGATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (21 bp):
GTTAGATGAGAATCATCGATG
Found at i:9589657 original size:21 final size:21
Alignment explanation
Indices: 9589609--9589658 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
9589599 ATAATAAAAC
*
9589609 AAACAACAATCATGCACAAAT
1 AAACAATAATCATGCACAAAT
*
9589630 AAACAATACTCATGCACAAAT
1 AAACAATAATCATGCACAAAT
9589651 AAACAATA
1 AAACAATA
9589659 TCAAAATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.58, C:0.22, G:0.04, T:0.16
Consensus pattern (21 bp):
AAACAATAATCATGCACAAAT
Found at i:9590121 original size:17 final size:17
Alignment explanation
Indices: 9590099--9590144 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
9590089 AAACCCAACT
9590099 CAAAACAAAAAACAAAA
1 CAAAACAAAAAACAAAA
**
9590116 CAAAAC-AAAAACTTAA
1 CAAAACAAAAAACAAAA
*
9590132 CAAAAAAAAAAAC
1 CAAAACAAAAAAC
9590145 CCTTCATGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.78, C:0.17, G:0.00, T:0.04
Consensus pattern (17 bp):
CAAAACAAAAAACAAAA
Found at i:9600428 original size:30 final size:30
Alignment explanation
Indices: 9600370--9600428 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
9600360 TCATTGAGCA
*
9600370 TGGTTAAAGATTTGATTAAAAAAAAAAAAG
1 TGGTTAAAGATTAGATTAAAAAAAAAAAAG
9600400 TGGTTAAAGA-TAG-TTAAAACAAATAAAAA
1 TGGTTAAAGATTAGATTAAAA-AAA-AAAAA
9600429 TAAAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 6 0.23
29 5 0.19
30 15 0.58
ACGTcount: A:0.58, C:0.02, G:0.15, T:0.25
Consensus pattern (30 bp):
TGGTTAAAGATTAGATTAAAAAAAAAAAAG
Found at i:9600432 original size:25 final size:26
Alignment explanation
Indices: 9600404--9600462 Score: 66
Period size: 30 Copynumber: 2.2 Consensus size: 26
9600394 AAAAAGTGGT
9600404 TAAAGAT-AGTTAAAACAAATAAAAA
1 TAAAGATAAGTTAAAACAAATAAAAA
*
9600429 TAAAAATATAGCAGTTAAAACAAATAAAAA
1 T--AAAGATA--AGTTAAAACAAATAAAAA
9600459 TAAA
1 TAAA
9600463 AATATAGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 1 0.04
27 5 0.18
28 3 0.11
30 19 0.68
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (26 bp):
TAAAGATAAGTTAAAACAAATAAAAA
Found at i:9600483 original size:30 final size:30
Alignment explanation
Indices: 9600411--9600471 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
9600401 GGTTAAAGAT
9600411 AGTTAAAACAAATAAAAATAAAAATATAGC
1 AGTTAAAACAAATAAAAATAAAAATATAGC
9600441 AGTTAAAACAAATAAAAATAAAAATATAGC
1 AGTTAAAACAAATAAAAATAAAAATATAGC
9600471 A
1 A
9600472 TTCTCATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (30 bp):
AGTTAAAACAAATAAAAATAAAAATATAGC
Found at i:9605830 original size:28 final size:29
Alignment explanation
Indices: 9605770--9605860 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 29
9605760 TCGATATCAC
**
9605770 ATTA-ATTAATAAA-TTTATAATTTATGT
1 ATTATATTAATAAATTTTATAATTTAAAT
*
9605797 AATATATTAATAAATTTTA-AATTTAAAT
1 ATTATATTAATAAATTTTATAATTTAAAT
** *
9605825 ATTATATTAAATATTTTATTATAATTTAAAA
1 ATTATATT-AATAAATT-TTATAATTTAAAT
9605856 ATTAT
1 ATTAT
9605861 TGATGATATT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.06
28 23 0.44
29 10 0.19
30 3 0.06
31 13 0.25
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
ATTATATTAATAAATTTTATAATTTAAAT
Found at i:9606471 original size:2 final size:2
Alignment explanation
Indices: 9606466--9606490 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9606456 CAGCACACAC
9606466 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9606491 ATTAAATAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9606538 original size:13 final size:13
Alignment explanation
Indices: 9606516--9606553 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
9606506 ATAATAAAAT
9606516 TATT-ATTTAATA
1 TATTAATTTAATA
* *
9606528 TTTTAATTTAAGA
1 TATTAATTTAATA
9606541 TATTAATTTAATA
1 TATTAATTTAATA
9606554 AAAATATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 3 0.14
13 18 0.86
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TATTAATTTAATA
Found at i:9606565 original size:22 final size:24
Alignment explanation
Indices: 9606540--9606584 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
9606530 TTAATTTAAG
9606540 ATATTAAT-T-TAATAAAAATATT
1 ATATTAATGTATAATAAAAATATT
*
9606562 ATATTTATGTATAATAAAAATAT
1 ATATTAATGTATAATAAAAATAT
9606585 AATTTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
ATATTAATGTATAATAAAAATATT
Found at i:9606592 original size:18 final size:21
Alignment explanation
Indices: 9606571--9606618 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 21
9606561 TATATTTATG
9606571 TATAATAAAAA-TAT-AAT-T
1 TATAATAAAAATTATAAATAT
*
9606589 TATATTAAAAATTATAAATAT
1 TATAATAAAAATTATAAATAT
9606610 TATAATAAA
1 TATAATAAA
9606619 TTAAAGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.40
19 3 0.12
20 3 0.12
21 9 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TATAATAAAAATTATAAATAT
Found at i:9606603 original size:40 final size:39
Alignment explanation
Indices: 9606507--9606618 Score: 100
Period size: 42 Copynumber: 2.8 Consensus size: 39
9606497 TAAATTATAA
* * * * *
9606507 TAATAAAATTATTATTTAATATTTTAATTTAAGATATTAATT
1 TAATAAAAATATTA-TAAATATTATAA-TAAAAATA-TAATT
**
9606549 TAATAAAAATATTATATTTATGTATAATAAAAATATAATT
1 TAATAAAAATATTATAAATAT-TATAATAAAAATATAATT
*
9606589 TATATTAAAA-ATTATAAATATTATAATAAA
1 TA-ATAAAAATATTATAAATATTATAATAAA
9606619 TTAAAGTTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
39 9 0.16
40 16 0.28
41 16 0.28
42 17 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (39 bp):
TAATAAAAATATTATAAATATTATAATAAAAATATAATT
Found at i:9607785 original size:16 final size:16
Alignment explanation
Indices: 9607764--9607794 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9607754 TCTCTAGGTT
9607764 TGTTGTGGACCGGATC
1 TGTTGTGGACCGGATC
*
9607780 TGTTGTGGACTGGAT
1 TGTTGTGGACCGGAT
9607795 ATTTGTTCGG
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:0.13, C:0.13, G:0.39, T:0.35
Consensus pattern (16 bp):
TGTTGTGGACCGGATC
Found at i:9616940 original size:14 final size:16
Alignment explanation
Indices: 9616921--9616955 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
9616911 CCTTTAAAAA
9616921 TTAAATTA-ATAAA-T
1 TTAAATTATATAAACT
9616935 TTAAATTATATAAACT
1 TTAAATTATATAAACT
9616951 TTAAA
1 TTAAA
9616956 AAAAGATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 5 0.26
16 6 0.32
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAATTATATAAACT
Found at i:9618893 original size:27 final size:28
Alignment explanation
Indices: 9618841--9618899 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
9618831 TAAAATATAA
* *
9618841 AAAAATTATTTAAATAATATTTTTTTAC
1 AAAAATTATTTAAATAATACTATTTTAC
*
9618869 AAAAA-TATCTTAAATAAT-CTATTTTAT
1 AAAAATTAT-TTAAATAATACTATTTTAC
9618896 AAAA
1 AAAA
9618900 TATAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (28 bp):
AAAAATTATTTAAATAATACTATTTTAC
Found at i:9618899 original size:64 final size:61
Alignment explanation
Indices: 9618831--9619025 Score: 191
Period size: 62 Copynumber: 3.1 Consensus size: 61
9618821 TTCTAAATCT
*** *
9618831 TAAAATATAAAAAAATTATTTAA-ATAATATTTTTTTACAAAAATATCTTAAATAATCTATTTTA
1 TAAAATATAAAAAAATTATTTAAGA-AAT-TTTCAATAC-AAAACATCTTAAATAATC-ATTTTA
** *
9618895 TAAAATATAAAAAAATTATTTAAGACGTTTTCAATACAAAACATCTTAAATAATCCTTTTA
1 TAAAATATAAAAAAATTATTTAAGAAATTTTCAATACAAAACATCTTAAATAATCATTTTA
*** *
9618956 TAAAA-ATATAAAAAATTATTTAAGGCTTTTTCTATACAAAAACA-CTTTAAATAATTC-TTTTA
1 TAAAATATA-AAAAAATTATTTAAGAAATTTTCAATAC-AAAACATC-TTAAATAA-TCATTTTA
9619018 TAAAATAT
1 TAAAATAT
9619026 TAACCCTAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
60 3 0.03
61 36 0.31
62 41 0.36
63 10 0.09
64 24 0.21
65 1 0.01
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (61 bp):
TAAAATATAAAAAAATTATTTAAGAAATTTTCAATACAAAACATCTTAAATAATCATTTTA
Found at i:9618987 original size:61 final size:63
Alignment explanation
Indices: 9618866--9619022 Score: 214
Period size: 62 Copynumber: 2.5 Consensus size: 63
9618856 AATATTTTTT
* *
9618866 TACAAAAATATCTTAAATAATCTATTTTAT-AAAATATAAAAAAATTATTTAAGACGTTTTCAA
1 TACAAAAACATCTTAAATAATC-CTTTTATAAAAATATAAAAAAATTATTTAAGACGTTTTCAA
* * *
9618929 TAC-AAAACATCTTAAATAATCCTTTTATAAAAATAT-AAAAAATTATTTAAGGCTTTTTCTA
1 TACAAAAACATCTTAAATAATCCTTTTATAAAAATATAAAAAAATTATTTAAGACGTTTTCAA
*
9618990 TACAAAAACA-CTTTAAATAATTCTTTTATAAAA
1 TACAAAAACATC-TTAAATAATCCTTTTATAAAA
9619023 TATTAACCCT
Statistics
Matches: 85, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
61 32 0.38
62 50 0.59
63 3 0.04
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (63 bp):
TACAAAAACATCTTAAATAATCCTTTTATAAAAATATAAAAAAATTATTTAAGACGTTTTCAA
Found at i:9619055 original size:83 final size:84
Alignment explanation
Indices: 9618958--9619145 Score: 285
Period size: 83 Copynumber: 2.2 Consensus size: 84
9618948 TCCTTTTATA
**
9618958 AAAATAT-AAAAAATTATTTAAGGC-TTTTTCTATACAAAAACACTTTAAATAATTCTTTTAT-A
1 AAAATATAAAAAAATTATTTAAAACATTTTT-TATACAAAAACACTTTAAATAATTCTTTTATAA
9619020 AAATATTAACCCTAAAC-CTT
65 AAATATTAACCCTAAACTC-T
*
9619040 AAAATATAAAAAAATTATTTAAAACATTTTTTGTACAAAAACACTTTAAATAATTCTTTTATAAA
1 AAAATATAAAAAAATTATTTAAAACATTTTTTATACAAAAACACTTTAAATAATTCTTTTATAAA
*
9619105 AATATTAACTCTAAACTCT
66 AATATTAACCCTAAACTCT
9619124 AAAATATAAAAAAGATTATTTA
1 AAAATATAAAAAA-ATTATTTA
9619146 TGGTATTTTT
Statistics
Matches: 97, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
82 7 0.07
83 45 0.46
84 36 0.37
85 9 0.09
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (84 bp):
AAAATATAAAAAAATTATTTAAAACATTTTTTATACAAAAACACTTTAAATAATTCTTTTATAAA
AATATTAACCCTAAACTCT
Found at i:9619191 original size:130 final size:129
Alignment explanation
Indices: 9619040--9619274 Score: 364
Period size: 130 Copynumber: 1.8 Consensus size: 129
9619030 CCTAAACCTT
* * *
9619040 AAAATATAAAAAAATTATTTAAAACATTTTTTGTACAAAAACACTTTAAATAATTCTTTTATAAA
1 AAAATATAAAAAAATTATTTAAAACATTATTTATACAAAAACACCTTAAATAATTCTTTTATAAA
* *
9619105 AATATTAA-CTCTAAACTCTAAAATATAAAAAAGATTATTTATGGTATTTTTGTACTATTTTCAT
66 AACATCAACCT-TAAACTCTAAAATATAAAAAA-ATTATTTATGGTATTTTTGTACTATTTTCAT
9619169 A
129 A
* *
9619170 AAAATATAAAAAAATTATTTAAGATATTATTTATACAAAAACACCTTAAATAATTCTTTTATAAA
1 AAAATATAAAAAAATTATTTAAAACATTATTTATACAAAAACACCTTAAATAATTCTTTTATAAA
* *
9619235 AACATCAACCTTAAACTCTAAAATATGAAATAATTATTTA
66 AACATCAACCTTAAACTCTAAAATATAAAAAAATTATTTA
9619275 AGACATTTTC
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
129 8 0.08
130 85 0.89
131 2 0.02
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.38
Consensus pattern (129 bp):
AAAATATAAAAAAATTATTTAAAACATTATTTATACAAAAACACCTTAAATAATTCTTTTATAAA
AACATCAACCTTAAACTCTAAAATATAAAAAAATTATTTATGGTATTTTTGTACTATTTTCATA
Found at i:9628124 original size:3 final size:3
Alignment explanation
Indices: 9628116--9628162 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
9628106 CGCTCAGGTT
9628116 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9628163 TCTCCTTTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9634048 original size:19 final size:19
Alignment explanation
Indices: 9634026--9634072 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
9634016 TAAAATAATG
9634026 TAATAATTTT-TAAATTATT
1 TAATAATTTTATAAATTA-T
*
9634045 TAATAATTTTATGAATTAT
1 TAATAATTTTATAAATTAT
*
9634064 AAATAATTT
1 TAATAATTT
9634073 AAAATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TAATAATTTTATAAATTAT
Found at i:9636824 original size:13 final size:13
Alignment explanation
Indices: 9636806--9636830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9636796 CCTGTGAACA
9636806 ATCTTACATAAAT
1 ATCTTACATAAAT
9636819 ATCTTACATAAA
1 ATCTTACATAAA
9636831 AATCCTATAA
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:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
ATCTTACATAAAT
Found at i:9637542 original size:33 final size:33
Alignment explanation
Indices: 9637503--9637701 Score: 166
Period size: 33 Copynumber: 6.1 Consensus size: 33
9637493 TTGTTATTAA
9637503 TAATATAATAATATTTATTAATATATTATTTAT
1 TAATATAATAATATTTATTAATATATTATTTAT
* * * *
9637536 AAATATAATATTCTTTATTAATATATTGTTTAT
1 TAATATAATAATATTTATTAATATATTATTTAT
9637569 TAATATAAT-ATA-TTATT--T-TATTATTTAT
1 TAATATAATAATATTTATTAATATATTATTTAT
*
9637597 TAATATTAAT-ATATTGT-TTAATATATTACTTAT
1 TAATA-TAATAATATT-TATTAATATATTATTTAT
* * *
9637630 TAATATATTAATATTAATATT--TAT-TTCATATAC
1 TAATATAATAATATT--TATTAATATATT-ATTTAT
* * *
9637663 TATATATTATTATATTAATATAATATATTATTTAT
1 TA-ATATAATAATATTTAT-TAATATATTATTTAT
9637698 TAAT
1 TAAT
9637702 GTGGACACCT
Statistics
Matches: 131, Mismatches: 20, Indels: 29
0.73 0.11 0.16
Matches are distributed among these distances:
28 14 0.11
29 8 0.06
30 3 0.02
31 6 0.05
32 9 0.07
33 65 0.50
34 13 0.10
35 11 0.08
36 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (33 bp):
TAATATAATAATATTTATTAATATATTATTTAT
Found at i:9637619 original size:41 final size:40
Alignment explanation
Indices: 9637518--9637696 Score: 159
Period size: 40 Copynumber: 4.4 Consensus size: 40
9637508 TAATAATATT
* * *
9637518 TATTAATATATTATTT-ATA-AATATAATATTCTTTATTAA
1 TATTAATATATTATTTAATATATTAT-TTATTATTTATTAA
** * *
9637557 TATATTGTTTATTAATATAATATATTATTTTATTATTTATTAA
1 TAT-TAATATATT-ATTTAATATATTA-TTTATTATTTATTAA
* * *
9637600 TATTAATATATTGTTTAATATATTACTTATTAATATATTAA
1 TATTAATATATTATTTAATATATTATTTATT-ATTTATTAA
* * *
9637641 TATTAATAT-TTATTTCATATACTATATATTATTATATTAA
1 TATTAATATATTATTTAATATATTATTTATTATT-TATTAA
9637681 TA-TAATATATTATTTA
1 TATTAATATATTATTTA
9637697 TTAATGTGGA
Statistics
Matches: 111, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
39 11 0.10
40 41 0.37
41 31 0.28
42 9 0.08
43 18 0.16
44 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (40 bp):
TATTAATATATTATTTAATATATTATTTATTATTTATTAA
Found at i:9637640 original size:8 final size:8
Alignment explanation
Indices: 9637614--9637684 Score: 51
Period size: 8 Copynumber: 9.0 Consensus size: 8
9637604 AATATATTGT
9637614 TTAATATA
1 TTAATATA
*
9637622 TTACT-TA
1 TTAATATA
9637629 TTAATATA
1 TTAATATA
9637637 TT-A-ATA
1 TTAATATA
9637643 TTAATATTTA
1 TTAATA--TA
*
9637653 TTTCATATA
1 -TTAATATA
*
9637662 CT-ATATA
1 TTAATATA
*
9637669 TTATTATA
1 TTAATATA
9637677 TTAATATA
1 TTAATATA
9637685 ATATATTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
6 5 0.10
7 14 0.29
8 21 0.43
9 2 0.04
10 2 0.04
11 5 0.10
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAATATA
Found at i:9637642 original size:23 final size:23
Alignment explanation
Indices: 9637614--9637701 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 23
9637604 AATATATTGT
*
9637614 TTAATATATTACTTATTAATATA
1 TTAATATATTATTTATTAATATA
* *
9637637 TTAATATTAATATTTATTTCATATA
1 TTAATA-TATTATTTA-TTAATATA
*
9637662 CT-ATATATTATTATATT-A-ATA
1 TTAATATATTATT-TATTAATATA
9637683 -TAATATATTATTTATTAAT
1 TTAATATATTATTTATTAAT
9637702 GTGGACACCT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
20 5 0.09
21 14 0.26
22 1 0.02
23 14 0.26
24 12 0.22
25 8 0.15
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
TTAATATATTATTTATTAATATA
Found at i:9637684 original size:18 final size:18
Alignment explanation
Indices: 9637503--9637693 Score: 72
Period size: 17 Copynumber: 10.9 Consensus size: 18
9637493 TTGTTATTAA
*
9637503 TAATATAATAATATT-TAT
1 TAATAT-ATATTATTATAT
9637521 T-A-ATATATTATT-TAT
1 TAATATATATTATTATAT
* *
9637536 AAATATAATATTCTT-TAT
1 TAATAT-ATATTATTATAT
*
9637554 T-A-ATATATTGTT-TAT
1 TAATATATATTATTATAT
9637569 TAATATA-ATATATTAT-T
1 TAATATATAT-TATTATAT
*
9637586 TTAT-TAT-TTATTAATAT
1 TAATATATATTATT-ATAT
* *
9637603 TAATATATTGTTTAATATAT
1 TAATATA-T-ATTATTATAT
*
9637623 TACT-TATTAATATATTAATAT
1 TAATATA-T-AT-TATT-ATAT
* *
9637644 TAATATTTATT-TCATA-
1 TAATATATATTATTATAT
*
9637660 TACTATATATTATTATAT
1 TAATATATATTATTATAT
9637678 TAATATA-ATATATTAT
1 TAATATATAT-TATTAT
9637694 TTATTAATGT
Statistics
Matches: 133, Mismatches: 20, Indels: 40
0.69 0.10 0.21
Matches are distributed among these distances:
15 25 0.19
16 22 0.17
17 27 0.20
18 27 0.20
19 7 0.05
20 12 0.09
21 12 0.09
22 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (18 bp):
TAATATATATTATTATAT
Found at i:9638287 original size:11 final size:10
Alignment explanation
Indices: 9638261--9638294 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
9638251 AAATGAGTGA
*
9638261 TTTGAGAATT
1 TTTGAAAATT
9638271 TTTGAAAATT
1 TTTGAAAATT
9638281 GTTTGAAAATT
1 -TTTGAAAATT
9638292 TTT
1 TTT
9638295 TGAGTCGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (10 bp):
TTTGAAAATT
Found at i:9639672 original size:13 final size:13
Alignment explanation
Indices: 9639654--9639684 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9639644 AGATTTATTT
9639654 AAATAAAAAGAAA
1 AAATAAAAAGAAA
*
9639667 AAATAAAAATAAA
1 AAATAAAAAGAAA
9639680 AAATA
1 AAATA
9639685 GGAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (13 bp):
AAATAAAAAGAAA
Found at i:9639988 original size:3 final size:3
Alignment explanation
Indices: 9639980--9640024 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
9639970 ATTATAGAAT
9639980 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9640025 CTAGTTTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9641455 original size:26 final size:27
Alignment explanation
Indices: 9641424--9641477 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
9641414 TGTTGCATGT
9641424 TCAACGAGATAGATATGA-CCCAACAA
1 TCAACGAGATAGATATGACCCCAACAA
9641450 TCAACGAGATAGATATGACCCCAACAA
1 TCAACGAGATAGATATGACCCCAACAA
9641477 T
1 T
9641478 TAAACAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.17
Consensus pattern (27 bp):
TCAACGAGATAGATATGACCCCAACAA
Found at i:9642335 original size:374 final size:374
Alignment explanation
Indices: 9641646--9642393 Score: 1199
Period size: 374 Copynumber: 2.0 Consensus size: 374
9641636 GCATCTTGTG
*
9641646 GGAAATCTTGCATGATTACATTATCAAACACTTAGAAGATGAACAAAGCATAAAAATGATAGCTT
1 GGAAATCTTGCACGATTACATTATCAAACACTTAGAAGATGAACAAAGCATAAAAATGATAGCTT
* * * * *
9641711 TGGCAATCTATGGTTTTATCATTTTCCCAAAGGTCCTTAGGTCCATTGAGTTATCAAATAATTTA
66 TGGCAATATAGGGTTTTATCATTTTCCCAAAGGTCATTAGGTACATTGAGTTATCAAATAATTGA
* * *
9641776 TTTTCTCGAGCAAGCGGATAACAAAATCAATCATGTTCCTTCTATACTACCAGAAATTTTTAGAT
131 TTTCCTCGAGCAAGCGGACAACAAAATCAATCATGTTCCTTCTATACTACCAGAAACTTTTAGAT
* * **
9641841 CATTGAATCACTATTACAAAATAGGAGGACATTTCATAGGGTGTGCATAGTTACTCTATATTTAG
196 CATTGAATCACTATTAAAAAAGAGGAAAACATTTCATAGGGTGTGCATAGTTACTCTATATTTAG
*
9641906 GCAAAAAGTCATTTTTAAAATCTTATGGGTAAATTTAATCTTACTTATAGTAATAAAAGCAAGCC
261 GCAAAAAGTCATTTTCAAAATCTTATGGGTAAATTTAATCTTACTTATAGTAATAAAAGCAAGCC
* *
9641971 AATTGAAAATTTCTACAATGTTGAGTGACCAGAATCAAAGTCTAAGAAA
326 AATTGAAAAATTCTACAATGTTGAGTGACCAGAATCAAAGTCCAAGAAA
* *
9642020 GGAAATCTTGCACGATTACATTATCAAACACTTAGAGGGTGAACAAAGCATAAAAATGATAGCTT
1 GGAAATCTTGCACGATTACATTATCAAACACTTAGAAGATGAACAAAGCATAAAAATGATAGCTT
* *
9642085 TGGCAATATAGGGTTTTATCATTTTTCCAAAGGTCATTGGGTACATTGAGTTATCAAATAATTGA
66 TGGCAATATAGGGTTTTATCATTTTCCCAAAGGTCATTAGGTACATTGAGTTATCAAATAATTGA
* * * * *
9642150 TTTCCTTGAGTAAGTGGACAACAAAATCAATCTTGTTCCTTTTATACTACCAGAAACTTTTAGAT
131 TTTCCTCGAGCAAGCGGACAACAAAATCAATCATGTTCCTTCTATACTACCAGAAACTTTTAGAT
* *
9642215 CATTGATTCACTATTAAAAAAGAGGAAAACATTTCATAGGGTGTGCATAGTTACTCTATATTTGG
196 CATTGAATCACTATTAAAAAAGAGGAAAACATTTCATAGGGTGTGCATAGTTACTCTATATTTAG
* ** *
9642280 GCAAAAAGTTATTTTCAGCATCTTATGGGTAAATTTCATCTTACTTATAGTAATAAAAGCAAGCC
261 GCAAAAAGTCATTTTCAAAATCTTATGGGTAAATTTAATCTTACTTATAGTAATAAAAGCAAGCC
* *
9642345 AATTGAAAAATTCTACAATGTTGAGTGGCTAGAATCAAAGTCCAAGAAA
326 AATTGAAAAATTCTACAATGTTGAGTGACCAGAATCAAAGTCCAAGAAA
9642394 TAATGGGTAT
Statistics
Matches: 341, Mismatches: 33, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
374 341 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (374 bp):
GGAAATCTTGCACGATTACATTATCAAACACTTAGAAGATGAACAAAGCATAAAAATGATAGCTT
TGGCAATATAGGGTTTTATCATTTTCCCAAAGGTCATTAGGTACATTGAGTTATCAAATAATTGA
TTTCCTCGAGCAAGCGGACAACAAAATCAATCATGTTCCTTCTATACTACCAGAAACTTTTAGAT
CATTGAATCACTATTAAAAAAGAGGAAAACATTTCATAGGGTGTGCATAGTTACTCTATATTTAG
GCAAAAAGTCATTTTCAAAATCTTATGGGTAAATTTAATCTTACTTATAGTAATAAAAGCAAGCC
AATTGAAAAATTCTACAATGTTGAGTGACCAGAATCAAAGTCCAAGAAA
Found at i:9643834 original size:34 final size:34
Alignment explanation
Indices: 9643542--9643843 Score: 254
Period size: 34 Copynumber: 8.9 Consensus size: 34
9643532 GTGTGTTTCA
* * *
9643542 TTCATTACCTCTAGTTAGAGGAACCATTTAAAGT
1 TTCATTGCCTCTAGTCAGAGGAGCCATTTAAAGT
* * *
9643576 TTCA-TGACCTTTGGTTAGAGGAGCCATTTAAAGT
1 TTCATTG-CCTCTAGTCAGAGGAGCCATTTAAAGT
* *
9643610 TTTATTGCCTCTAGTCAAAGGAGCCATTTAAAGT
1 TTCATTGCCTCTAGTCAGAGGAGCCATTTAAAGT
* * **
9643644 TTCATTGCCTCTGGTTAGAGGAGTTATTTAAAGT
1 TTCATTGCCTCTAGTCAGAGGAGCCATTTAAAGT
* * *
9643678 TTCATTGCCTCTGGTTAGGGGAGCCATTTAAAGT
1 TTCATTGCCTCTAGTCAGAGGAGCCATTTAAAGT
* * * * *
9643712 TGCATTGCTTTTGGTCATAGGAGCTTTC-TTTAAAGT
1 TTCATTGCCTCTAGTCAGAGGAGC---CATTTAAAGT
* **
9643748 GTCATAT-CCTCTAGTCAGAGGAGTTATTTAAAGT
1 TTCAT-TGCCTCTAGTCAGAGGAGCCATTTAAAGT
* * * *
9643782 GTCATAGCCT-TTGATCAGAGAAGCCATTTAAAGT
1 TTCATTGCCTCTAG-TCAGAGGAGCCATTTAAAGT
* *
9643816 TTTATTGCCTCTAGTCAGATGAG-CATTT
1 TTCATTGCCTCTAGTCAGAGGAGCCATTT
9643844 TAAATTTAAA
Statistics
Matches: 215, Mismatches: 43, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
33 8 0.04
34 178 0.83
35 4 0.02
36 23 0.11
37 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (34 bp):
TTCATTGCCTCTAGTCAGAGGAGCCATTTAAAGT
Found at i:9643847 original size:68 final size:68
Alignment explanation
Indices: 9643542--9643843 Score: 306
Period size: 68 Copynumber: 4.4 Consensus size: 68
9643532 GTGTGTTTCA
* * * *
9643542 TTCATTACCTCTAGTTAGAGGAACCATTTAAAGTTTCA-TGACCTTTGGTTAGAGGAGCCATTTA
1 TTCATTGCCTCTAGTCAGAGGAGCCATTTAAAGTTTCATTG-CCTTTGGTCAGAGGAGCCATTTA
9643606 AAGT
65 AAGT
* * * * **
9643610 TTTATTGCCTCTAGTCAAAGGAGCCATTTAAAGTTTCATTGCCTCTGGTTAGAGGAGTTATTTAA
1 TTCATTGCCTCTAGTCAGAGGAGCCATTTAAAGTTTCATTGCCTTTGGTCAGAGGAGCCATTTAA
9643675 AGT
66 AGT
* * * * * *
9643678 TTCATTGCCTCTGGTTAGGGGAGCCATTTAAAGTTGCATTGCTTTTGGTCATAGGAGCTTTC-TT
1 TTCATTGCCTCTAGTCAGAGGAGCCATTTAAAGTTTCATTGCCTTTGGTCAGAGGAGC---CATT
9643742 TAAAGT
63 TAAAGT
* ** * * * *
9643748 GTCATAT-CCTCTAGTCAGAGGAGTTATTTAAAGTGTCATAGCCTTTGATCAGAGAAGCCATTTA
1 TTCAT-TGCCTCTAGTCAGAGGAGCCATTTAAAGTTTCATTGCCTTTGGTCAGAGGAGCCATTTA
9643812 AAGT
65 AAGT
* *
9643816 TTTATTGCCTCTAGTCAGATGAG-CATTT
1 TTCATTGCCTCTAGTCAGAGGAGCCATTT
9643844 TAAATTTAAA
Statistics
Matches: 190, Mismatches: 37, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
67 6 0.03
68 130 0.68
69 2 0.01
70 51 0.27
71 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (68 bp):
TTCATTGCCTCTAGTCAGAGGAGCCATTTAAAGTTTCATTGCCTTTGGTCAGAGGAGCCATTTAA
AGT
Found at i:9643867 original size:40 final size:40
Alignment explanation
Indices: 9643807--9643902 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
9643797 CAGAGAAGCC
* * * *
9643807 ATTTAAAGTTTTATTGCCTCTAGTCAGATGAGCATTTTAA
1 ATTTAAAGTTTCATTACCTCTAGTCAGAGGAACATTTTAA
* *
9643847 ATTTAAAGCTTCATTACCTCTAGTCAGAGGAACCTTTTAA
1 ATTTAAAGTTTCATTACCTCTAGTCAGAGGAACATTTTAA
9643887 ATTCTAAAGTTTCATT
1 ATT-TAAAGTTTCATT
9643903 GGCTCTGGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 37 0.77
41 11 0.23
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (40 bp):
ATTTAAAGTTTCATTACCTCTAGTCAGAGGAACATTTTAA
Found at i:9643955 original size:41 final size:41
Alignment explanation
Indices: 9643879--9643956 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
9643869 GTCAGAGGAA
* *
9643879 CCTTTTAAATTCTAAAGTTTCATTGGCTCTGGTTAAAGAAG
1 CCTTTTAAATTCTAAAGTTTCAGTGGCTCTAGTTAAAGAAG
* * *
9643920 CCTTTTGAATTTTAAAGTTTTAGT-GCATCTAGTTAAA
1 CCTTTTAAATTCTAAAGTTTCAGTGGC-TCTAGTTAAA
9643957 TGAGTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 2 0.06
41 29 0.94
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (41 bp):
CCTTTTAAATTCTAAAGTTTCAGTGGCTCTAGTTAAAGAAG
Found at i:9644444 original size:23 final size:23
Alignment explanation
Indices: 9644393--9644446 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
9644383 ATTATTAAAC
* *
9644393 TTTT-GAAAATTTTGGATTTGAA
1 TTTTAGAAAATCTAGGATTTGAA
**
9644415 TCCTAGAAAATCTAGGATTTGAA
1 TTTTAGAAAATCTAGGATTTGAA
9644438 TTTTAGAAA
1 TTTTAGAAA
9644447 GTTCTATTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.41
Consensus pattern (23 bp):
TTTTAGAAAATCTAGGATTTGAA
Found at i:9645136 original size:13 final size:12
Alignment explanation
Indices: 9645118--9645180 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
9645108 ATATGTAAGC
9645118 TTTTATTTTTTCA
1 TTTTATTTTTT-A
9645131 TTTTA-TTTTTA
1 TTTTATTTTTTA
9645142 TTTT-TTGATTTTA
1 TTTTATT--TTTTA
*
9645155 TTTT-TATTTTGA
1 TTTTAT-TTTTTA
9645167 TTTTATTTTTTA
1 TTTTATTTTTTA
9645179 TT
1 TT
9645181 ATTTGTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
11 6 0.14
12 20 0.47
13 16 0.37
14 1 0.02
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:9645142 original size:19 final size:19
Alignment explanation
Indices: 9645118--9645176 Score: 95
Period size: 19 Copynumber: 3.2 Consensus size: 19
9645108 ATATGTAAGC
*
9645118 TTTTATTTTTTCATTTTAT
1 TTTTATTTTTTGATTTTAT
9645137 TTTTATTTTTTGATTTTAT
1 TTTTATTTTTTGATTTTAT
9645156 TTTTA--TTTTGATTTTAT
1 TTTTATTTTTTGATTTTAT
9645173 TTTT
1 TTTT
9645177 TATTATTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
17 16 0.41
19 23 0.59
ACGTcount: A:0.15, C:0.02, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTTATTTTTTGATTTTAT
Found at i:9645177 original size:19 final size:18
Alignment explanation
Indices: 9645118--9645177 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
9645108 ATATGTAAGC
* *
9645118 TTTTATTTTTTCATTTTA
1 TTTTTTTTTTTGATTTTA
9645136 TTTTTATTTTTTGATTTTA
1 TTTTT-TTTTTTGATTTTA
*
9645155 -TTTTTATTTTGATTTTA
1 TTTTTTTTTTTGATTTTA
9645172 TTTTTT
1 TTTTTT
9645178 ATTATTTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 12 0.32
18 13 0.35
19 12 0.32
ACGTcount: A:0.15, C:0.02, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTTTTTTTTGATTTTA
Found at i:9645806 original size:22 final size:21
Alignment explanation
Indices: 9645770--9645810 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9645760 AAATAATAAG
*
9645770 AAAAAAATAATAATAGAAAACA
1 AAAAAAATAACAATA-AAAACA
*
9645792 AAAAAAATCACAATAAAAA
1 AAAAAAATAACAATAAAAA
9645811 TTAATTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.12
Consensus pattern (21 bp):
AAAAAAATAACAATAAAAACA
Found at i:9646483 original size:9 final size:9
Alignment explanation
Indices: 9646466--9646507 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
9646456 AATATATTAT
9646466 TTAAT-ATA
1 TTAATAATA
9646474 TTAATAATA
1 TTAATAATA
*
9646483 TTTATTAATA
1 -TTAATAATA
*
9646493 TTAATATTA
1 TTAATAATA
9646502 TTAATA
1 TTAATA
9646508 TAATATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 5 0.17
9 16 0.55
10 8 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TTAATAATA
Found at i:9646541 original size:15 final size:15
Alignment explanation
Indices: 9646453--9646533 Score: 101
Period size: 15 Copynumber: 5.2 Consensus size: 15
9646443 TGACAATTAC
*
9646453 ATTAATATATTATTT
1 ATTAATATAATATTT
*
9646468 AATATATTAATAATATTT
1 -AT-TAAT-ATAATATTT
9646486 ATTAATATTAATA-TT
1 ATTAATA-TAATATTT
9646501 ATTAATATAATATTT
1 ATTAATATAATATTT
9646516 ATTAATATAATATTT
1 ATTAATATAATATTT
9646531 ATT
1 ATT
9646534 TTATTAATGT
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.09
15 30 0.52
16 10 0.17
17 5 0.09
18 8 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTAATATAATATTT
Found at i:9649276 original size:11 final size:11
Alignment explanation
Indices: 9649260--9649303 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
9649250 ACATAATAAT
9649260 ATAATATAAAA
1 ATAATATAAAA
9649271 ATAATATAAATAA
1 ATAATAT-AA-AA
*
9649284 AAAATATAAAA
1 ATAATATAAAA
9649295 ATAATATAA
1 ATAATATAA
9649304 TTTAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 17 0.59
12 4 0.14
13 8 0.28
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:9649279 original size:24 final size:23
Alignment explanation
Indices: 9649252--9649304 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 23
9649242 GAAATTCAAC
*
9649252 ATAATAATATAATATAAAAATAAT
1 ATAATAA-AAAATATAAAAATAAT
9649276 ATAAATAAAAAATATAAAAATAAT
1 AT-AATAAAAAATATAAAAATAAT
9649300 ATAAT
1 ATAAT
9649305 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 3 0.11
24 19 0.70
25 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAATAAAAAATATAAAAATAAT
Found at i:9649287 original size:16 final size:16
Alignment explanation
Indices: 9649254--9649298 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
9649244 AATTCAACAT
9649254 AATAATAT-AATATAAA
1 AATAATATAAATA-AAA
9649270 AATAATATAAATAAAA
1 AATAATATAAATAAAA
*
9649286 AAT-ATAAAAATAA
1 AATAATATAAATAA
9649299 TATAATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.33
16 14 0.52
17 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAATATAAATAAAA
Found at i:9649296 original size:15 final size:16
Alignment explanation
Indices: 9649252--9649298 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
9649242 GAAATTCAAC
9649252 ATAATAATATAATATAAAA
1 ATAATAA-A-AATA-AAAA
*
9649271 ATAATATAAATAAAAA
1 ATAATAAAAATAAAAA
9649287 AT-ATAAAAATAA
1 ATAATAAAAATAA
9649299 TATAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 9 0.35
16 6 0.23
17 4 0.15
18 1 0.04
19 6 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAATAAAAATAAAAA
Found at i:9649310 original size:24 final size:24
Alignment explanation
Indices: 9649262--9649332 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
9649252 ATAATAATAT
9649262 AATATAAAAATAATATAAATAAAA
1 AATATAAAAATAATATAAATAAAA
* *
9649286 AATATAAAAATAATATAATTTAAA
1 AATATAAAAATAATATAAATAAAA
* *
9649310 ATTTTAAAAA-AATCATAAATAAA
1 AATATAAAAATAAT-ATAAATAAA
9649333 TTTAATAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
23 3 0.08
24 37 0.93
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (24 bp):
AATATAAAAATAATATAAATAAAA
Found at i:9649893 original size:23 final size:21
Alignment explanation
Indices: 9649837--9649881 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
9649827 ATTTTTATTT
*
9649837 TATAAAAACTTAA--AAAATA
1 TATAAAAAATTAATTAAAATA
9649856 TATAAAAAATTAATTAAAATA
1 TATAAAAAATTAATTAAAATA
9649877 TATAA
1 TATAA
9649882 TTTAATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
21 11 0.48
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
TATAAAAAATTAATTAAAATA
Found at i:9649944 original size:13 final size:13
Alignment explanation
Indices: 9649907--9649945 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
9649897 TTATATTTCG
9649907 ATTTAAATTTAAT
1 ATTTAAATTTAAT
* *
9649920 ATATACATTTAAT
1 ATTTAAATTTAAT
*
9649933 ATTTAAACTTAAT
1 ATTTAAATTTAAT
9649946 CCAACTAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTTAAATTTAAT
Found at i:9651853 original size:2 final size:2
Alignment explanation
Indices: 9651846--9651882 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
9651836 TTGTCATGAA
*
9651846 AT AT AT AT AT AT AT AT AT AT AT AT -T AG AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9651883 CATGTTAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9655688 original size:25 final size:25
Alignment explanation
Indices: 9655660--9655741 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 25
9655650 TCTTTTCTTA
9655660 ATCTATTTTTTAATATTCTAAAATT
1 ATCTATTTTTTAATATTCTAAAATT
*
9655685 ATCT-TTTTTTAAAATATCT--AA-T
1 ATCTATTTTTTAATAT-TCTAAAATT
* * *
9655707 ATTTA-CTTTTAATATTTTAAAATT
1 ATCTATTTTTTAATATTCTAAAATT
*
9655731 -TTTATTTTTTA
1 ATCTATTTTTTA
9655742 TTTTTTACCT
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
21 2 0.04
22 12 0.27
23 8 0.18
24 16 0.36
25 7 0.16
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (25 bp):
ATCTATTTTTTAATATTCTAAAATT
Found at i:9659573 original size:28 final size:27
Alignment explanation
Indices: 9659542--9659607 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
9659532 TAAATTACTC
*
9659542 AATAAAATAAATAATAAAAAATCAGTG-A
1 AATAAAATAAATAATAAAAAA--ACTGCA
*
9659570 AATAAAATAAATGATAAAAAAACTGCA
1 AATAAAATAAATAATAAAAAAACTGCA
9659597 AATAAAATAAA
1 AATAAAATAAA
9659608 AAACTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 3 0.09
27 12 0.34
28 20 0.57
ACGTcount: A:0.70, C:0.05, G:0.06, T:0.20
Consensus pattern (27 bp):
AATAAAATAAATAATAAAAAAACTGCA
Found at i:9659588 original size:27 final size:28
Alignment explanation
Indices: 9659542--9659607 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
9659532 TAAATTACTC
* *
9659542 AATAAAATAAATAATAAAAAATCAGTG-A
1 AATAAAATAAATAATAAAAAA-AACTGCA
*
9659570 AATAAAATAAATGAT-AAAAAAACTGCA
1 AATAAAATAAATAATAAAAAAAACTGCA
9659597 AATAAAATAAA
1 AATAAAATAAA
9659608 AAACTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.09
27 17 0.50
28 14 0.41
ACGTcount: A:0.70, C:0.05, G:0.06, T:0.20
Consensus pattern (28 bp):
AATAAAATAAATAATAAAAAAAACTGCA
Found at i:9659618 original size:19 final size:21
Alignment explanation
Indices: 9659572--9659619 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
9659562 ATCAGTGAAA
9659572 TAAAATAAATGATAAAAAAACT
1 TAAAATAAA-GATAAAAAAACT
**
9659594 GCAAATAAA-AT-AAAAAACT
1 TAAAATAAAGATAAAAAAACT
9659613 TAAAATA
1 TAAAATA
9659620 TAAAATGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 13 0.59
20 2 0.09
22 7 0.32
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (21 bp):
TAAAATAAAGATAAAAAAACT
Found at i:9659630 original size:8 final size:7
Alignment explanation
Indices: 9659598--9659658 Score: 51
Period size: 7 Copynumber: 9.0 Consensus size: 7
9659588 AAAACTGCAA
9659598 ATAAAAT
1 ATAAAAT
*
9659605 AAAAAACT
1 ATAAAA-T
9659613 -TAAAAT
1 ATAAAAT
9659619 ATAAAAT
1 ATAAAAT
9659626 GATAAAA-
1 -ATAAAAT
9659633 ATAAAAT
1 ATAAAAT
9659640 -TGAAAA-
1 AT-AAAAT
9659646 ATAAAA-
1 ATAAAAT
9659652 ATAAAAT
1 ATAAAAT
9659659 GAAAAAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
6 18 0.40
7 20 0.44
8 7 0.16
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (7 bp):
ATAAAAT
Found at i:9659668 original size:19 final size:19
Alignment explanation
Indices: 9659627--9659664 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
9659617 ATATAAAATG
9659627 ATAAAAATAAAATTGAAAA
1 ATAAAAATAAAATTGAAAA
9659646 ATAAAAATAAAA-TGAAAA
1 ATAAAAATAAAATTGAAAA
9659664 A
1 A
9659665 ATAATCTGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (19 bp):
ATAAAAATAAAATTGAAAA
Found at i:9671420 original size:14 final size:14
Alignment explanation
Indices: 9671397--9671440 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
9671387 CAATATAAGC
9671397 AAAG-AAAAGAAAA
1 AAAGAAAAAGAAAA
9671410 AAAGAAAAAGAAAAA
1 AAAGAAAAAG-AAAA
* *
9671425 AAATAAAAATAAAA
1 AAAGAAAAAGAAAA
9671439 AA
1 AA
9671441 TCTCAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 4 0.15
14 11 0.41
15 12 0.44
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.05
Consensus pattern (14 bp):
AAAGAAAAAGAAAA
Found at i:9672354 original size:14 final size:14
Alignment explanation
Indices: 9672331--9672392 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
9672321 ATTACTCAAT
9672331 AAAATAAATAATAA
1 AAAATAAATAATAA
*
9672345 AAAATTAATAA-AA
1 AAAATAAATAATAA
*
9672358 TAAAATAAATGAT-A
1 -AAAATAAATAATAA
* *
9672372 AAAATAAA-ATTGA
1 AAAATAAATAATAA
9672385 AAAATAAA
1 AAAATAAA
9672393 ATTAAAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 1 0.03
13 19 0.47
14 20 0.50
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (14 bp):
AAAATAAATAATAA
Found at i:9672355 original size:11 final size:12
Alignment explanation
Indices: 9672328--9672394 Score: 54
Period size: 13 Copynumber: 5.7 Consensus size: 12
9672318 TAAATTACTC
9672328 AATAAAATAAAT
1 AATAAAATAAAT
*
9672340 AATAAAA-AATT
1 AATAAAATAAAT
9672351 AATAAAAT-AA-
1 AATAAAATAAAT
9672361 AATAAATGATAAA-
1 AATAAA--ATAAAT
9672374 AATAAAATTGAAA-
1 AATAAAA-T-AAAT
9672387 AATAAAAT
1 AATAAAAT
9672395 TAAAATTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
10 6 0.13
11 12 0.26
12 11 0.23
13 18 0.38
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (12 bp):
AATAAAATAAAT
Found at i:9672367 original size:18 final size:18
Alignment explanation
Indices: 9672333--9672400 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
9672323 TACTCAATAA
*
9672333 AATAAATAATAAAA-AATT
1 AATAAA-AATAAAATAAAT
9672351 AAT-AAAATAAAATAAAT
1 AATAAAAATAAAATAAAT
*
9672368 GATAAAAATAAAATTGAAA-
1 AATAAAAATAAAA-T-AAAT
*
9672387 AATAAAATTAAAAT
1 AATAAAAATAAAAT
9672401 TAAAAGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.17
17 7 0.17
18 13 0.31
19 12 0.29
20 3 0.07
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
AATAAAAATAAAATAAAT
Found at i:9672393 original size:13 final size:12
Alignment explanation
Indices: 9672370--9672405 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
9672360 AAATAAATGA
9672370 TAAAAATAAAAT
1 TAAAAATAAAAT
9672382 TGAAAAATAAAAT
1 T-AAAAATAAAAT
*
9672395 TAAAATTAAAA
1 TAAAAATAAAA
9672406 GAAAAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (12 bp):
TAAAAATAAAAT
Found at i:9672393 original size:19 final size:18
Alignment explanation
Indices: 9672354--9672405 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
9672344 AAAAATTAAT
*
9672354 AAAATAAAA-TAAATGATA
1 AAAATAAAATTAAA-AATA
9672372 AAAATAAAATTGAAAAATA
1 AAAATAAAATT-AAAAATA
*
9672391 AAATTAAAATTAAAA
1 AAAATAAAATTAAAA
9672406 GAAAAAAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 13 0.43
19 14 0.47
20 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAATAAAATTAAAAATA
Found at i:9672411 original size:18 final size:18
Alignment explanation
Indices: 9672352--9672411 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
9672342 TAAAAAATTA
*
9672352 ATAAAATAAAA-TAAATG
1 ATAAAATAAAATTAAAAG
9672369 ATAAAAATAAAATTGAAAA-
1 AT-AAAATAAAATT-AAAAG
9672388 ATAAAATTAAAATTAAAAG
1 ATAAAA-TAAAATTAAAAG
9672407 A-AAAA
1 ATAAAA
9672412 AACCTGCGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 2 0.05
18 21 0.57
19 11 0.30
20 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (18 bp):
ATAAAATAAAATTAAAAG
Found at i:9700555 original size:15 final size:15
Alignment explanation
Indices: 9700537--9700582 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
9700527 TTAAATAATT
9700537 ATTATAATTAATCAA
1 ATTATAATTAATCAA
* *
9700552 ATTATAATTACTAAA
1 ATTATAATTAATCAA
*
9700567 AAT-TAATTAA-CAA
1 ATTATAATTAATCAA
9700580 ATT
1 ATT
9700583 TAAAAGATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 4 0.16
14 6 0.24
15 15 0.60
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTATAATTAATCAA
Found at i:9700561 original size:21 final size:21
Alignment explanation
Indices: 9700515--9700561 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9700505 TAATTTTTTA
*
9700515 AATTAAAATTAATTAAATAAT
1 AATTAAAATTAATCAAATAAT
* * *
9700536 TATTATAATTAATCAAATTAT
1 AATTAAAATTAATCAAATAAT
9700557 AATTA
1 AATTA
9700562 CTAAAAATTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTAAAATTAATCAAATAAT
Found at i:9701066 original size:2 final size:2
Alignment explanation
Indices: 9701021--9701050 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9701011 CTAGCAATGA
*
9701021 AT AT AT AT AT GT 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
9701051 CATTACACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9701262 original size:7 final size:7
Alignment explanation
Indices: 9701250--9701283 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
9701240 AATACACCTT
*
9701250 CACCAAC
1 CACCAAA
9701257 CACCAAA
1 CACCAAA
9701264 CACCAAA
1 CACCAAA
*
9701271 CACCAAT
1 CACCAAA
9701278 CACCAA
1 CACCAA
9701284 TCCCCCTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (7 bp):
CACCAAA
Found at i:9701389 original size:15 final size:16
Alignment explanation
Indices: 9701369--9701409 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
9701359 TTAATCCACG
9701369 CTTTTCCTTTTTC-TT
1 CTTTTCCTTTTTCATT
9701384 CTTTT-CTTTTTCATT
1 CTTTTCCTTTTTCATT
9701399 CTTTTCACTTT
1 CTTTTC-CTTT
9701410 CTAACCCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.30
15 12 0.52
17 4 0.17
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (16 bp):
CTTTTCCTTTTTCATT
Found at i:9707378 original size:94 final size:93
Alignment explanation
Indices: 9707197--9707411 Score: 268
Period size: 94 Copynumber: 2.3 Consensus size: 93
9707187 CCATAATTTT
* ** * * ** *
9707197 TTTTAGTTCTTAAGTGATGTAAGATTCATTTAAATATGCATAGATGTTGGTAGAGGAAGAGTATA
1 TTTTGGTTCTTAAGTGATGTGGGATTCATTTAAATATACATAGATGTCGACAGAGGAAGAGGATA
9707262 GGAATTTATAGGCTTTACCCATCCCTTA
66 GGAATTTATAGGCTTTACCCATCCCTTA
* * *
9707290 TTTTGGTTCTTAAGTGATGTGGGATTCATTTAGATATATATAGATGTCCGACAGAGGAAGTGGAT
1 TTTTGGTTCTTAAGTGATGTGGGATTCATTTAAATATACATAGATGT-CGACAGAGGAAGAGGAT
* * *
9707355 AGGAATTTATAGGTTTTACCCATCCTTTG
65 AGGAATTTATAGGCTTTACCCATCCCTTA
* **
9707384 TTTTGGTTGTTAAGCCATGTGGGATTCA
1 TTTTGGTTCTTAAGTGATGTGGGATTCA
9707412 AAATGCGTAA
Statistics
Matches: 104, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
93 41 0.39
94 63 0.61
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (93 bp):
TTTTGGTTCTTAAGTGATGTGGGATTCATTTAAATATACATAGATGTCGACAGAGGAAGAGGATA
GGAATTTATAGGCTTTACCCATCCCTTA
Found at i:9708603 original size:20 final size:20
Alignment explanation
Indices: 9708568--9708617 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
9708558 ACTTGAAATG
* *
9708568 AAAAAA-AAAAA-GTCAAGA
1 AAAAAAGAAAAATATCAAAA
*
9708586 AAACAAGAAAAATATCAAAA
1 AAAAAAGAAAAATATCAAAA
9708606 AAAAAAGAAAAA
1 AAAAAAGAAAAA
9708618 AATTTTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 5 0.19
19 5 0.19
20 16 0.62
ACGTcount: A:0.80, C:0.06, G:0.08, T:0.06
Consensus pattern (20 bp):
AAAAAAGAAAAATATCAAAA
Found at i:9709003 original size:16 final size:15
Alignment explanation
Indices: 9708970--9709010 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
9708960 TCACAAGTGG
9708970 AAAAGAAAAAAGAGA
1 AAAAGAAAAAAGAGA
9708985 AAAATGAAAAAAGCA-A
1 AAAA-GAAAAAAG-AGA
9709001 AAAA-AAAAAA
1 AAAAGAAAAAA
9709011 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.25
15 4 0.17
16 13 0.54
17 1 0.04
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAAGAGA
Found at i:9711373 original size:50 final size:50
Alignment explanation
Indices: 9711229--9711455 Score: 181
Period size: 50 Copynumber: 4.6 Consensus size: 50
9711219 AGAATGAGCT
* * * * * * * *
9711229 TTTTCAATATGAGATTTTTAAAATTTCAAAGCCTTTGTCTATAAGAAGCTA
1 TTTTCAA-ATCAGATTTTTAAAGTTTCAAAACCTCTATTTATAAGGAGCCA
* * * * * *
9711280 TTTTTAAATAAGATTTTTGAAGCTTCAAAGCCTC-AGTTAATAAGGAGCCA
1 TTTTCAAATCAGATTTTTAAAGTTTCAAAACCTCTA-TTTATAAGGAGCCA
* * *
9711330 TTTTCAGATCATATTTTTAAAGTTTCAAAACCTCTATTTATAAGG-GTCA
1 TTTTCAAATCAGATTTTTAAAGTTTCAAAACCTCTATTTATAAGGAGCCA
* * * ** *
9711379 TATTCAAACCAGATTTTTAAAGTTTCAAAACATCTATTTATGTGGAGCTA
1 TTTTCAAATCAGATTTTTAAAGTTTCAAAACCTCTATTTATAAGGAGCCA
* **
9711429 TTATCAAAAAAGA-TTTTAAAGTTTCAA
1 TTTTCAAATCAGATTTTTAAAGTTTCAA
9711456 GGCTTTTTTT
Statistics
Matches: 140, Mismatches: 33, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
49 55 0.39
50 78 0.56
51 7 0.05
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.39
Consensus pattern (50 bp):
TTTTCAAATCAGATTTTTAAAGTTTCAAAACCTCTATTTATAAGGAGCCA
Found at i:9711446 original size:49 final size:49
Alignment explanation
Indices: 9711342--9711455 Score: 135
Period size: 49 Copynumber: 2.3 Consensus size: 49
9711332 TTCAGATCAT
* **
9711342 ATTTTTAAAGTTTCAAAACCTCTATTTATAAGGGTCATATTCAAACCAG
1 ATTTTTAAAGTTTCAAAACATCTATTTATAAGGGTCATATTCAAAAAAG
**
9711391 ATTTTTAAAGTTTCAAAACATCTATTTATGTGGAG-C-TATTATCAAAAAAG
1 ATTTTTAAAGTTTCAAAACATCTATTTATAAGG-GTCATA-T-TCAAAAAAG
9711441 A-TTTTAAAGTTTCAA
1 ATTTTTAAAGTTTCAA
9711456 GGCTTTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
48 2 0.04
49 46 0.81
50 9 0.16
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.39
Consensus pattern (49 bp):
ATTTTTAAAGTTTCAAAACATCTATTTATAAGGGTCATATTCAAAAAAG
Found at i:9714819 original size:16 final size:15
Alignment explanation
Indices: 9714798--9714844 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 15
9714788 TGATTTTAAT
9714798 AAAAAAAAGAAAAATG
1 AAAAAAAA-AAAAATG
9714814 AAAAAATAAAAAAATG
1 AAAAAA-AAAAAAATG
9714830 AAATAAAATAAAAAA
1 AAA-AAAA-AAAAAA
9714845 CTAAAATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 17 0.61
17 11 0.39
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (15 bp):
AAAAAAAAAAAAATG
Found at i:9714851 original size:18 final size:18
Alignment explanation
Indices: 9714816--9714851 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9714806 GAAAAATGAA
*
9714816 AAAATAAAAAAATGAAAT
1 AAAATAAAAAAATAAAAT
*
9714834 AAAATAAAAAACTAAAAT
1 AAAATAAAAAAATAAAAT
9714852 TGTGATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATAAAAAAATAAAAT
Found at i:9722633 original size:32 final size:31
Alignment explanation
Indices: 9722595--9722714 Score: 118
Period size: 31 Copynumber: 3.8 Consensus size: 31
9722585 TAATAAATCT
*
9722595 ATTTTTAAAATAATATGAAAATTTTTACATA
1 ATTTTTAAAATAATATGAAAATTTTTACTTA
* * * *
9722626 ATCTTTTAAAATAATAAG-GAGTTTTTATTTA
1 AT-TTTTAAAATAATATGAAAATTTTTACTTA
*
9722657 ATTTTTTAAACTAATAT-AAAATTTTTACTTA
1 A-TTTTTAAAATAATATGAAAATTTTTACTTA
* * *
9722688 AGTTTTTAAAATGATATGGAATTTTTT
1 A-TTTTTAAAATAATATGAAAATTTTT
9722715 TGTAATTATT
Statistics
Matches: 70, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
31 48 0.69
32 22 0.31
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (31 bp):
ATTTTTAAAATAATATGAAAATTTTTACTTA
Found at i:9722683 original size:62 final size:63
Alignment explanation
Indices: 9722596--9722731 Score: 170
Period size: 62 Copynumber: 2.2 Consensus size: 63
9722586 AATAAATCTA
*
9722596 TTTTTAAAATAATATGAAAATTTTTACATAA-TCTTTTAAAATAATAAGGAGTTTTTATT-TAAT
1 TTTTTAAAATAATATGAAAATTTTTACATAAGT-TTTTAAAATAATAAGGAATTTTT-TTGTAAT
* * * *
9722659 TTTTTAAACTAATAT-AAAATTTTTACTTAAGTTTTTAAAATGATATGGAATTTTTTTGTAAT
1 TTTTTAAAATAATATGAAAATTTTTACATAAGTTTTTAAAATAATAAGGAATTTTTTTGTAAT
*
9722721 TATTTTTAAAT
1 T-TTTTAAAAT
9722732 TTTAACTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
61 2 0.03
62 39 0.62
63 22 0.35
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.51
Consensus pattern (63 bp):
TTTTTAAAATAATATGAAAATTTTTACATAAGTTTTTAAAATAATAAGGAATTTTTTTGTAAT
Found at i:9723442 original size:27 final size:28
Alignment explanation
Indices: 9723369--9723446 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 28
9723359 TCTATAAAGG
9723369 AAAAGATTAAAATAGAACAATTTTAAATAAT
1 AAAA-ATTAAAATA-AAC-ATTTTAAATAAT
* *
9723400 AAAAAATACAATTAAAC-TTTTAAA-AATT
1 AAAAATTA-AAATAAACATTTTAAATAA-T
9723428 AAAAATTAAAATAAA-ATTT
1 AAAAATTAAAATAAACATTT
9723447 AAGTCAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
27 11 0.28
28 15 0.38
30 6 0.15
31 8 0.20
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.31
Consensus pattern (28 bp):
AAAAATTAAAATAAACATTTTAAATAAT
Found at i:9725592 original size:26 final size:24
Alignment explanation
Indices: 9725544--9725606 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 24
9725534 TATGTTCATG
*
9725544 AATAATAAAC-AACCATACCAATA
1 AATAATAAACAAACCATACAAATA
9725567 AATAATAAACAAACCATAACAAAATA
1 AATAATAAACAAACCAT-AC-AAATA
**
9725593 AATTTTAAACAAAC
1 AATAATAAACAAAC
9725607 AAACATACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.29
24 6 0.18
25 2 0.06
26 16 0.47
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.19
Consensus pattern (24 bp):
AATAATAAACAAACCATACAAATA
Found at i:9725609 original size:20 final size:22
Alignment explanation
Indices: 9725584--9725623 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9725574 AACAAACCAT
9725584 AACAAA-ATAAATTT-TAAACA
1 AACAAACATAAATTTATAAACA
*
9725604 AACAAACATACATTTATAAA
1 AACAAACATAAATTTATAAA
9725624 ATTAAGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (22 bp):
AACAAACATAAATTTATAAACA
Found at i:9725706 original size:3 final size:3
Alignment explanation
Indices: 9725700--9725724 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9725690 AAATGTAATA
9725700 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
9725725 CTGGATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:9726249 original size:73 final size:72
Alignment explanation
Indices: 9726132--9726273 Score: 214
Period size: 73 Copynumber: 2.0 Consensus size: 72
9726122 ATCCTCTCCC
* *
9726132 TTTTTAAGCTTTGCTTGTTGTTCCACATTTCTCTTTTTTTACAGTT-ACGAGCTATAAAACAAAG
1 TTTTTAAGCTTTGCTTATTGTTCCACATTTCTCTTTTTTGACAGTTGA-GAGCTATAAAACAAAG
9726196 GCAAATCT
65 GCAAATCT
* * *
9726204 TTTTTGAAGCTTTGCTTATTGTTCCACATTTCTCTTTTTTGACAGTTGATAGCTATGAAGCAAAG
1 TTTTT-AAGCTTTGCTTATTGTTCCACATTTCTCTTTTTTGACAGTTGAGAGCTATAAAACAAAG
9726269 GCAAA
65 GCAAA
9726274 CAAATATAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
72 5 0.08
73 57 0.90
74 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (72 bp):
TTTTTAAGCTTTGCTTATTGTTCCACATTTCTCTTTTTTGACAGTTGAGAGCTATAAAACAAAGG
CAAATCT
Found at i:9728389 original size:14 final size:14
Alignment explanation
Indices: 9728370--9728399 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9728360 AAAATAGAAA
*
9728370 CTTTGAGCCCCGAT
1 CTTTGAGCCCCAAT
9728384 CTTTGAGCCCCAAT
1 CTTTGAGCCCCAAT
9728398 CT
1 CT
9728400 ATATTGATCA
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:0.17, C:0.37, G:0.17, T:0.30
Consensus pattern (14 bp):
CTTTGAGCCCCAAT
Found at i:9728937 original size:19 final size:18
Alignment explanation
Indices: 9728890--9728937 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
9728880 TTTTTGTAAT
* *
9728890 TTTTTTTATATATTATTA
1 TTTTTTTATATTTTAGTA
*
9728908 TTTTTGTTAT-TTTGAGTA
1 TTTTT-TTATATTTTAGTA
9728926 TTTTTTTATATT
1 TTTTTTTATATT
9728938 CATGCATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 4 0.16
18 17 0.68
19 4 0.16
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (18 bp):
TTTTTTTATATTTTAGTA
Found at i:9729084 original size:20 final size:18
Alignment explanation
Indices: 9729050--9729086 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
9729040 TACTTAAAAA
9729050 ATAATAAAAAAAATAATG
1 ATAATAAAAAAAATAATG
9729068 ATAATAAGAATAAAATAAT
1 ATAATAA-AA-AAAATAAT
9729087 ATTTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 2 0.12
20 8 0.47
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
ATAATAAAAAAAATAATG
Found at i:9729196 original size:18 final size:19
Alignment explanation
Indices: 9729166--9729210 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
9729156 AGATGTTGGG
9729166 AATTATAAA-TAAAAAAT-T
1 AATTA-AAATTAAAAAATAT
9729184 AATTAAAATTAAAAAATAT
1 AATTAAAATTAAAAAATAT
9729203 AA-TAAAAT
1 AATTAAAAT
9729211 AATAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTAAAATTAAAAAATAT
Found at i:9729375 original size:21 final size:20
Alignment explanation
Indices: 9729349--9729388 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
9729339 CTTCAGTTAA
*
9729349 AAAACCTAAACCCTAAAATCG
1 AAAACCTAAAACC-AAAATCG
9729370 AAAACCTAAAACCAAAATC
1 AAAACCTAAAACCAAAATC
9729389 CTAAACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.57, C:0.28, G:0.03, T:0.12
Consensus pattern (20 bp):
AAAACCTAAAACCAAAATCG
Found at i:9729485 original size:29 final size:30
Alignment explanation
Indices: 9729436--9729518 Score: 91
Period size: 29 Copynumber: 2.8 Consensus size: 30
9729426 TTCAAACCTA
* *
9729436 AAACCCT-TCAAACCCTGAAATAAAATCCCT
1 AAACCCTCT-AAACCATAAAATAAAATCCCT
*
9729466 AAACCCTGT-AACCATAAAAT-AAATCCCT
1 AAACCCTCTAAACCATAAAATAAAATCCCT
*
9729494 AAACCCTCTAAACCTTAAAACTAAA
1 AAACCCTCTAAACCATAAAA-TAAA
9729519 CCCTCCAAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
28 16 0.36
29 18 0.40
30 8 0.18
31 3 0.07
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.20
Consensus pattern (30 bp):
AAACCCTCTAAACCATAAAATAAAATCCCT
Found at i:9729534 original size:22 final size:23
Alignment explanation
Indices: 9729492--9729545 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
9729482 AAATAAATCC
*
9729492 CTAAACCCTCTAAACCTTAAAA-
1 CTAAACCCTCCAAACCTTAAAAT
*
9729514 CTAAACCCTCCAAGTCC-TAAAAT
1 CTAAACCCTCCAA-ACCTTAAAAT
*
9729537 CGAAACCCT
1 CTAAACCCT
9729546 AAACATCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.41, C:0.35, G:0.04, T:0.20
Consensus pattern (23 bp):
CTAAACCCTCCAAACCTTAAAAT
Found at i:9729554 original size:29 final size:28
Alignment explanation
Indices: 9729529--9729710 Score: 140
Period size: 29 Copynumber: 6.5 Consensus size: 28
9729519 CCCTCCAAGT
9729529 CCTAAAATCGAAACCCTAAACATCCAAAC
1 CCTAAAATCGAAACCCTAAA-ATCCAAAC
* *
9729558 CCTAAAATTGAAACCCTAAAAT-CAAAA
1 CCTAAAATCGAAACCCTAAAATCCAAAC
* * *
9729585 CCTCAAATCTTAAACCCTAAAAT-TAAAGC
1 CCTAAAATC-GAAACCCTAAAATCCAAA-C
* *
9729614 CCTAAAATCG-AA-CCTCAAATTTCAAAC
1 CCTAAAATCGAAACCCT-AAAATCCAAAC
* * * *
9729641 CCTAAAATTGAAATCGT-AAATCCCAAAT
1 CCTAAAATCGAAACCCTAAAAT-CCAAAC
* * * *
9729669 CTTTAAATCAAAACCCTAAACATCTAAAC
1 CCTAAAATCGAAACCCTAAA-ATCCAAAC
9729698 CCTAAAATCGAAA
1 CCTAAAATCGAAA
9729711 ACTTAAACCT
Statistics
Matches: 117, Mismatches: 27, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
26 3 0.03
27 30 0.26
28 37 0.32
29 45 0.38
30 2 0.02
ACGTcount: A:0.48, C:0.27, G:0.04, T:0.21
Consensus pattern (28 bp):
CCTAAAATCGAAACCCTAAAATCCAAAC
Found at i:9729559 original size:15 final size:14
Alignment explanation
Indices: 9729529--9729710 Score: 115
Period size: 14 Copynumber: 12.9 Consensus size: 14
9729519 CCCTCCAAGT
9729529 CCTAAAATCGAAAC
1 CCTAAAATCGAAAC
*
9729543 CCTAAACATCCAAAC
1 CCTAAA-ATCGAAAC
*
9729558 CCTAAAATTGAAAC
1 CCTAAAATCGAAAC
*
9729572 CCTAAAATC-AAAA
1 CCTAAAATCGAAAC
* *
9729585 CCTCAAATCTTAAAC
1 CCTAAAATC-GAAAC
*
9729600 CCTAAAAT-TAAAGC
1 CCTAAAATCGAAA-C
9729614 CCTAAAATCG-AA-
1 CCTAAAATCGAAAC
*
9729626 CCTCAAATTTC-AAAC
1 CCT-AAA-ATCGAAAC
* *
9729641 CCTAAAATTGAAAT
1 CCTAAAATCGAAAC
* * *
9729655 CGT-AAATCCCAAAT
1 CCTAAAAT-CGAAAC
* * *
9729669 CTTTAAATCAAAAC
1 CCTAAAATCGAAAC
*
9729683 CCTAAACATCTAAAC
1 CCTAAA-ATCGAAAC
9729698 CCTAAAATCGAAA
1 CCTAAAATCGAAA
9729711 ACTTAAACCT
Statistics
Matches: 132, Mismatches: 23, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
12 3 0.02
13 23 0.17
14 63 0.48
15 43 0.33
ACGTcount: A:0.48, C:0.27, G:0.04, T:0.21
Consensus pattern (14 bp):
CCTAAAATCGAAAC
Found at i:9729641 original size:41 final size:43
Alignment explanation
Indices: 9729553--9729653 Score: 156
Period size: 41 Copynumber: 2.4 Consensus size: 43
9729543 CCTAAACATC
9729553 CAAACCCTAAAATTGAAACCCTAAAATCAAAACCTCAAATCTT
1 CAAACCCTAAAATTGAAACCCTAAAATCAAAACCTCAAATCTT
*
9729596 -AAACCCTAAAATT-AAAGCCCTAAAATC-GAACCTCAAAT-TT
1 CAAACCCTAAAATTGAAA-CCCTAAAATCAAAACCTCAAATCTT
9729636 CAAACCCTAAAATTGAAA
1 CAAACCCTAAAATTGAAA
9729654 TCGTAAATCC
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
40 2 0.04
41 26 0.48
42 26 0.48
ACGTcount: A:0.50, C:0.26, G:0.04, T:0.21
Consensus pattern (43 bp):
CAAACCCTAAAATTGAAACCCTAAAATCAAAACCTCAAATCTT
Found at i:9729717 original size:42 final size:40
Alignment explanation
Indices: 9729529--9729713 Score: 137
Period size: 42 Copynumber: 4.4 Consensus size: 40
9729519 CCCTCCAAGT
* *
9729529 CCTAAAATCGAAACCCTAAACATCCAAACCCTAAAATTGAAAC
1 CCTAAAATCGAAA-ACTCAA-AT-CAAACCCTAAAATTGAAAC
9729572 CCTAAAATC-AAAACCTCAAATCTTAAACCCTAAAATT-AAAGC
1 CCTAAAATCGAAAA-CTCAAATC--AAACCCTAAAATTGAAA-C
* *
9729614 CCTAAAATCG-AACCTCAAATTTCAAACCCTAAAATTGAAAT
1 CCTAAAATCGAAAACTCAAA--TCAAACCCTAAAATTGAAAC
* * * *
9729655 CGT-AAATCCCAAATCTTTAAATCAAAACCCTAAACATCT-AAAC
1 CCTAAAAT-CGAAAAC-TCAAATC-AAACCCTAAA-AT-TGAAAC
9729698 CCTAAAATCGAAAACT
1 CCTAAAATCGAAAACT
9729714 TAAACCTCAA
Statistics
Matches: 115, Mismatches: 12, Indels: 31
0.73 0.08 0.20
Matches are distributed among these distances:
40 5 0.04
41 29 0.25
42 49 0.43
43 27 0.23
44 5 0.04
ACGTcount: A:0.48, C:0.27, G:0.04, T:0.21
Consensus pattern (40 bp):
CCTAAAATCGAAAACTCAAATCAAACCCTAAAATTGAAAC
Found at i:9739336 original size:131 final size:132
Alignment explanation
Indices: 9739043--9739673 Score: 554
Period size: 132 Copynumber: 4.8 Consensus size: 132
9739033 AAGACCTCCG
* * * * * *
9739043 GGCATAATTTTGATTCGTGGTGTTGTCTTGATTGAGTTC-TTATTTTTGGACTTACGGTGTTGTT
1 GGCATAATTTTGATTCGCGGTGTTGTCTCGATCGA-TTCTTTATTTTTTGACTTGCGGTGTTGTC
* * * * * *
9739107 CTAGTCGATTCTGTAAGACCTTCAGACAT-AATTGCTAAAACCTCC-GGACATAATCCTTATGAC
65 CCAGTCGATTCTGTAAGACCTCCAGACATGAATT-TTAAGACCTCCAGGACATAATCTTTAAGAC
*
9739170 TTCCGA
129 TT--TA
* * *
9739176 GG-ATAATTTCGATTCGTGATGTTGTCTCGATCGATTCTTTATTTTTTGACTTGCGGTGTTGTCC
1 GGCATAATTTTGATTCGCGGTGTTGTCTCGATCGATTCTTTATTTTTTGACTTGCGGTGTTGTCC
* **
9739240 CAGTCGATTCTGTAAGACC-CCAGACATGAATTTTAAGACCTCCAAG-CATAATAATTAAGAGCT
66 CAGTCGATTCTGTAAGACCTCCAGACATGAATTTTAAGACCTCCAGGACATAATCTTTAAGA-CT
9739303 TTA
130 TTA
* * * ** * *
9739306 GGCACAATTTTGATTCACGGTGTTATCTCGATCGATTCTTTATTTTTTGACTTGTAGTATTATCC
1 GGCATAATTTTGATTCGCGGTGTTGTCTCGATCGATTCTTTATTTTTTGACTTGCGGTGTTGTCC
* * * *
9739371 C-GATCGATTCTGTAAGACCT-CACGGCATGATTTTTAAGACCT-CTGGGCATAATCTTTAAGAC
66 CAG-TCGATTCTGTAAGACCTCCA-GACATGAATTTTAAGACCTCCAGGACATAATCTTTAAGAC
9739433 TTTCA
129 TTT-A
* * * *
9739438 GGCATAATTTTGATTCGCGATGTTATC-CTTATCGATTCTTTATTTTTTGACTTGCGATGTTGTC
1 GGCATAATTTTGATTCGCGGTGTTGTCTC-GATCGATTCTTTATTTTTTGACTTGCGGTGTTGTC
* * * ** * * * *
9739502 CTAGTCAATTTTGTAAGACCTCCAGGTATGATTTTTAATACCT--ATGTCATAATCTTTAAGACC
65 CCAGTCGATTCTGTAAGACCTCCAGACATGAATTTTAAGACCTCCAGGACATAATCTTTAAGA-C
*
9739565 TTCA
129 TTTA
** * * ** * **
9739569 GATATAATTTCGATTCGCGGTGTTGTCTCAATTAATTTTTTATTTTTTTGACTTGCGGTGTCAT-
1 GGCATAATTTTGATTCGCGGTGTTGTCTCGATCGATTCTTTA-TTTTTTGACTTGCGGTGTTGTC
*
9739633 CCAATCGATTCTGTAAGACCTCCA-AGCAT-AATCTTTAAGAC
65 CCAGTCGATTCTGTAAGACCTCCAGA-CATGAAT-TTTAAGAC
9739674 ATTTTGGTAT
Statistics
Matches: 410, Mismatches: 70, Indels: 38
0.79 0.14 0.07
Matches are distributed among these distances:
130 6 0.01
131 184 0.45
132 215 0.52
133 5 0.01
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (132 bp):
GGCATAATTTTGATTCGCGGTGTTGTCTCGATCGATTCTTTATTTTTTGACTTGCGGTGTTGTCC
CAGTCGATTCTGTAAGACCTCCAGACATGAATTTTAAGACCTCCAGGACATAATCTTTAAGACTT
TA
Found at i:9739408 original size:22 final size:22
Alignment explanation
Indices: 9739383--9739445 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
9739373 ATCGATTCTG
* *
9739383 TAAGACCTCACGGCATGATTTT
1 TAAGACCTCACGGCATAATCTT
**
9739405 TAAGACCTCTGGGCATAATCTT
1 TAAGACCTCACGGCATAATCTT
*
9739427 TAAGACTTTCA-GGCATAAT
1 TAAGAC-CTCACGGCATAAT
9739446 TTTGATTCGC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (22 bp):
TAAGACCTCACGGCATAATCTT
Found at i:9739490 original size:263 final size:262
Alignment explanation
Indices: 9739111--9739654 Score: 612
Period size: 263 Copynumber: 2.1 Consensus size: 262
9739101 GTTGTTCTAG
*
9739111 TCGATTCTGTAAGACCTTCAGACATAATTGCTAAAACCTCCGGACATAATCCTTATGACTTCCGA
1 TCGATTCTGTAAGACC-TCAGACATAATTGCTAAAACCTCCGGACATAATCCTTAAGACTTCCGA
* * *
9739176 GGATAATTTCGATTCGTGATGTTGTCTCGATCGATTCTTTATTTTTTGACTTGCGGTGTTGTCCC
65 GGATAATTTCGATTCGCGATGTTATCTCGATCGATTCTTTATTTTTTGACTTGCGATGTTGTCCC
* *
9739241 AGTCGATTCTGTAAGACC-CCAGACATGAATTTTAAGACCTCCAAG-CATAATAATTAAGAGCTT
130 AGTCAATTCTGTAAGACCTCCAGACATGAATTTTAAGACCT--AAGTCATAATAATTAAGACCTT
* * * * * * *
9739304 TAGGCACAATTTTGATTCACGGTGTTATCTCGATCGATTCTTTA-TTTTTTGACTTGTAGTATTA
193 CAGACACAATTTCGATTCACGGTGTTATCTCAATCAATTCTTTATTTTTTTGACTTGCAGTATCA
*
9739368 TCCCGA
258 T-CCAA
* * ** * * * * *
9739374 TCGATTCTGTAAGACCTCACGGCATGATTTTTAAGACCTCTGGGCATAATCTTTAAGACTTTC-A
1 TCGATTCTGTAAGACCTCA-GACATAATTGCTAAAACCTCCGGACATAATCCTTAAGACTTCCGA
* *
9739438 GGCATAATTTTGATTCGCGATGTTATC-CTTATCGATTCTTTATTTTTTGACTTGCGATGTTGTC
65 GG-ATAATTTCGATTCGCGATGTTATCTC-GATCGATTCTTTATTTTTTGACTTGCGATGTTGTC
* * ** * * * **
9739502 CTAGTCAATTTTGTAAGACCTCCAGGTATGATTTTTAATACCTATGTCATAATCTTTAAGACCTT
128 CCAGTCAATTCTGTAAGACCTCCAGACATGAATTTTAAGACCTAAGTCATAATAATTAAGACCTT
* * * * * * * *
9739567 CAGATATAATTTCGATTCGCGGTGTTGTCTCAATTAATTTTTTATTTTTTTGACTTGCGGTGTCA
193 CAGACACAATTTCGATTCACGGTGTTATCTCAATCAATTCTTTATTTTTTTGACTTGCAGTATCA
9739632 TCCAA
258 TCCAA
9739637 TCGATTCTGTAAGACCTC
1 TCGATTCTGTAAGACCTC
9739655 CAAGCATAAT
Statistics
Matches: 233, Mismatches: 42, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
262 9 0.04
263 189 0.81
264 35 0.15
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.39
Consensus pattern (262 bp):
TCGATTCTGTAAGACCTCAGACATAATTGCTAAAACCTCCGGACATAATCCTTAAGACTTCCGAG
GATAATTTCGATTCGCGATGTTATCTCGATCGATTCTTTATTTTTTGACTTGCGATGTTGTCCCA
GTCAATTCTGTAAGACCTCCAGACATGAATTTTAAGACCTAAGTCATAATAATTAAGACCTTCAG
ACACAATTTCGATTCACGGTGTTATCTCAATCAATTCTTTATTTTTTTGACTTGCAGTATCATCC
AA
Found at i:9739784 original size:22 final size:22
Alignment explanation
Indices: 9739756--9739798 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9739746 ATCGATTCTG
*
9739756 TAAGACCTCCGGGCATAATTTT
1 TAAGACCTCCCGGCATAATTTT
*
9739778 TAAGACCTCCCGGTATAATTT
1 TAAGACCTCCCGGCATAATTT
9739799 CGATTCATAG
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:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (22 bp):
TAAGACCTCCCGGCATAATTTT
Found at i:9739793 original size:110 final size:109
Alignment explanation
Indices: 9739607--9739895 Score: 308
Period size: 110 Copynumber: 2.6 Consensus size: 109
9739597 CAATTAATTT
* ** *
9739607 TTTATTTTTTTGACTTGCGGTGTCATCCAATCGATTCTGTAAGACCTCCAAGCATAATCTTTAAG
1 TTTA-TTTTTTGACTTGCGGTGTTATCCAATCGATTCTGTAAGACCTCCGGGCATAATTTTTAAG
* *** * ** *
9739672 ACATTTTGGTATAATTTCAATTCACGGTGTTGACTTGATCGGTTC
65 ACCTCCCGGTATAATTTCAATTCACAGTGTTGACCCGATCGCTTC
*
9739717 TTTATTTTTTGACTTGCGGTGTTGTCACAATCGATTCTGTAAGACCTCCGGGCATAATTTTTAAG
1 TTTATTTTTTGACTTGCGGTGTTATC-CAATCGATTCTGTAAGACCTCCGGGCATAATTTTTAAG
* * * *
9739782 ACCTCCCGGTATAATTTCGATTCATAGTGTTGTCCCGATCGCTTT
65 ACCTCCCGGTATAATTTCAATTCACAGTGTTGACCCGATCGCTTC
* * ** * * * * * *
9739827 TTTACTTTTTGATTTATGGTATTATCCCAGTCGATTCTATAAGACCTACGGACATGATTTTTAAG
1 TTTATTTTTTGACTTGCGGTGTTAT-CCAATCGATTCTGTAAGACCTCCGGGCATAATTTTTAAG
9739892 ACCT
65 ACCT
9739896 ACGAGCATAA
Statistics
Matches: 149, Mismatches: 28, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
109 20 0.13
110 128 0.86
111 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (109 bp):
TTTATTTTTTGACTTGCGGTGTTATCCAATCGATTCTGTAAGACCTCCGGGCATAATTTTTAAGA
CCTCCCGGTATAATTTCAATTCACAGTGTTGACCCGATCGCTTC
Found at i:9739891 original size:22 final size:22
Alignment explanation
Indices: 9739866--9739983 Score: 125
Period size: 22 Copynumber: 5.4 Consensus size: 22
9739856 GTCGATTCTA
* *
9739866 TAAGACCTACGGACATGATTTT
1 TAAGACCTACGGACATAATCTT
9739888 TAAGACCTAC-GAGCATAATCTT
1 TAAGACCTACGGA-CATAATCTT
*
9739910 TAAGACCTCCGGACATAATCTT
1 TAAGACCTACGGACATAATCTT
** *
9739932 TAAGACCT-CCAAGCAGAATCTT
1 TAAGACCTACGGA-CATAATCTT
*
9739954 TAAGACCT-CTGAGCATAATCTT
1 TAAGACCTACGGA-CATAATCTT
9739976 TAAGACCT
1 TAAGACCT
9739984 TTGGGCATAA
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
21 4 0.05
22 78 0.93
23 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (22 bp):
TAAGACCTACGGACATAATCTT
Found at i:9739915 original size:44 final size:43
Alignment explanation
Indices: 9739866--9739983 Score: 155
Period size: 44 Copynumber: 2.7 Consensus size: 43
9739856 GTCGATTCTA
* * * *
9739866 TAAGACCTACGGACATGATTTTTAAGACCTACGAGCATAATCTT
1 TAAGACCT-CGGACATAATCTTTAAGACCTACAAGCAGAATCTT
*
9739910 TAAGACCTCCGGACATAATCTTTAAGACCTCCAAGCAGAATCTT
1 TAAGACCT-CGGACATAATCTTTAAGACCTACAAGCAGAATCTT
*
9739954 TAAGACCTCTGAGCATAATCTTTAAGACCT
1 TAAGACCTCGGA-CATAATCTTTAAGACCT
9739984 TTGGGCATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 3 0.05
44 63 0.95
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (43 bp):
TAAGACCTCGGACATAATCTTTAAGACCTACAAGCAGAATCTT
Found at i:9739994 original size:22 final size:22
Alignment explanation
Indices: 9739886--9739983 Score: 144
Period size: 22 Copynumber: 4.5 Consensus size: 22
9739876 GGACATGATT
*
9739886 TTTAAGACCTACGAGCATAATC
1 TTTAAGACCTCCGAGCATAATC
9739908 TTTAAGACCTCCG-GACATAATC
1 TTTAAGACCTCCGAG-CATAATC
* *
9739930 TTTAAGACCTCCAAGCAGAATC
1 TTTAAGACCTCCGAGCATAATC
*
9739952 TTTAAGACCTCTGAGCATAATC
1 TTTAAGACCTCCGAGCATAATC
9739974 TTTAAGACCT
1 TTTAAGACCT
9739984 TTGGGCATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
21 1 0.01
22 66 0.97
23 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (22 bp):
TTTAAGACCTCCGAGCATAATC
Found at i:9740245 original size:37 final size:37
Alignment explanation
Indices: 9740194--9740292 Score: 117
Period size: 37 Copynumber: 2.7 Consensus size: 37
9740184 GGGTATAATT
* *
9740194 TTGACTTGCAGTGTTGTCTCGATCGATTCTTTATTTC
1 TTGACTTGCAGTGTTGTCCCGATCGATTCTTCATTTC
* * *
9740231 TTGACTTGCGGTGTTGTCCCGGTTGATTCTTCATTTC
1 TTGACTTGCAGTGTTGTCCCGATCGATTCTTCATTTC
* * * *
9740268 TTGACTCGTAATGTCGTCCCGATCG
1 TTGACTTGCAGTGTTGTCCCGATCG
9740293 TTGTCTTTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (37 bp):
TTGACTTGCAGTGTTGTCCCGATCGATTCTTCATTTC
Found at i:9740423 original size:22 final size:22
Alignment explanation
Indices: 9740381--9740424 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9740371 GTCAATTCTG
*
9740381 TAAGACCTCCGGACATGATTTT
1 TAAGACCTCCGGACATAATTTT
*
9740403 TAAGACCTTC-GAGCATAATTTT
1 TAAGACCTCCGGA-CATAATTTT
9740425 GATTTGCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (22 bp):
TAAGACCTCCGGACATAATTTT
Found at i:9740504 original size:108 final size:110
Alignment explanation
Indices: 9740324--9740529 Score: 276
Period size: 108 Copynumber: 1.9 Consensus size: 110
9740314 TGACTTAGGA
* * * *
9740324 TGTTGTCCCGATCGATTTTTAAATTTTTGACTTACTGTGTTATCCTGGTCAATTCTGTAAGACCT
1 TGTTATCCCAATCGATTCTTAAATTTTTGACTTACTGTGTTATCCTAGTCAATTCTGTAAGACCT
* *
9740389 CCGGACATGATTTTTAAGACCT-TCGAGCATAATTTTGATTTGCAG
66 CCAGACATGATTTCTAAGACCTCT-GAGCATAATTTTGATTTGCAG
* * *
9740434 TGTTATCCCAATCGATTCTT-AA-TTTTGACTTGC-GATGTTGTCCTAGTTAATTCTGTAAGACC
1 TGTTATCCCAATCGATTCTTAAATTTTTGACTTACTG-TGTTATCCTAGTCAATTCTGTAAGACC
*
9740496 TCCAGACATGATTTCTAAGTCCTCTGAGCATAAT
65 TCCAGACATGATTTCTAAGACCTCTGAGCATAAT
9740530 CGTTAAGACC
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
107 1 0.01
108 63 0.75
109 3 0.04
110 17 0.20
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (110 bp):
TGTTATCCCAATCGATTCTTAAATTTTTGACTTACTGTGTTATCCTAGTCAATTCTGTAAGACCT
CCAGACATGATTTCTAAGACCTCTGAGCATAATTTTGATTTGCAG
Found at i:9741972 original size:18 final size:19
Alignment explanation
Indices: 9741949--9741998 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
9741939 AAAAAAAAAA
*
9741949 ATTTTTTTATATATT-ATT
1 ATTTTTTTATATATTGAGT
9741967 ATTTTTGTTAT-T-TTGAGT
1 ATTTTT-TTATATATTGAGT
9741985 ATTTTTTT-TATATT
1 ATTTTTTTATATATT
9741999 CATGCATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 1 0.04
17 5 0.19
18 17 0.63
19 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTTTTTATATATTGAGT
Found at i:9742252 original size:24 final size:24
Alignment explanation
Indices: 9742224--9742272 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
9742214 TAGATGTTGG
*
9742224 AAAATT-ATAAATAAAAAATTAATT
1 AAAATTAAAAAATAAAAAA-TAATT
*
9742248 AAAATTAAAAAATATAAAATAATT
1 AAAATTAAAAAATAAAAAATAATT
9742272 A
1 A
9742273 TAATAATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATTAAAAAATAAAAAATAATT
Found at i:9742256 original size:18 final size:18
Alignment explanation
Indices: 9742226--9742260 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9742216 GATGTTGGAA
9742226 AATTATAAATAAAAAATT
1 AATTATAAATAAAAAATT
9742244 AATTA-AAATTAAAAAAT
1 AATTATAAA-TAAAAAAT
9742261 ATAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AATTATAAATAAAAAATT
Found at i:9742483 original size:16 final size:15
Alignment explanation
Indices: 9742462--9742511 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 15
9742452 AAACCAAAAA
9742462 CCTAAACTCTCCAAAC
1 CCTAAA-TCTCCAAAC
*
9742478 CCTAAAACT--AAAC
1 CCTAAATCTCCAAAC
9742491 CCTAAATCCTCCAAA-
1 CCTAAAT-CTCCAAAC
9742506 CCTAAA
1 CCTAAA
9742512 ACCCTTCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 10 0.34
14 2 0.07
15 8 0.28
16 9 0.31
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (15 bp):
CCTAAATCTCCAAAC
Found at i:9742527 original size:45 final size:46
Alignment explanation
Indices: 9742459--9742559 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 46
9742449 CGAAAACCAA
*
9742459 AAACCT-AAACTCTCCAAACCCTAAAA-CTAAA-CCCTAAATCC-TCC
1 AAACCTAAAACCCTCCAAACCCTAAAATC-AAATCCCTAAA-CCTTCC
*
9742503 AAACCTAAAACCCTTCAAACCCTAAAATCAAATCCCTAAACCTTCC
1 AAACCTAAAACCCTCCAAACCCTAAAATCAAATCCCTAAACCTTCC
9742549 -AACCATAAAAC
1 AAACC-TAAAAC
9742560 AAATCCCTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
44 6 0.12
45 27 0.54
46 17 0.34
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.18
Consensus pattern (46 bp):
AAACCTAAAACCCTCCAAACCCTAAAATCAAATCCCTAAACCTTCC
Found at i:9742587 original size:28 final size:28
Alignment explanation
Indices: 9742514--9742586 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
9742504 AACCTAAAAC
9742514 CCTTCAAACCCTAAAATCAAATCCCTAAA
1 CCTTCAAACCCTAAAA-CAAATCCCTAAA
* *
9742543 CCTTCCAACCATAAAACAAATCCCTAAA
1 CCTTCAAACCCTAAAACAAATCCCTAAA
* *
9742571 CTTTTTAAACCCTAAA
1 C-CTTCAAACCCTAAA
9742587 CCCTTTAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 13 0.35
29 24 0.65
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (28 bp):
CCTTCAAACCCTAAAACAAATCCCTAAA
Found at i:9742686 original size:42 final size:42
Alignment explanation
Indices: 9742599--9742729 Score: 154
Period size: 42 Copynumber: 3.1 Consensus size: 42
9742589 CTTTAAGTCA
* * * *
9742599 TAAAATCAAAAGCCTAAACATCTAAACCCTAAAACTGAAATCC
1 TAAAATCAAAACCCCAAACATC-AAACCCTAAAATTGAAACCC
* * *
9742642 TAAAATCAAAACCCCAAACCTCAAACCCTATAATTGAAGCCC
1 TAAAATCAAAACCCCAAACATCAAACCCTAAAATTGAAACCC
* ** *
9742684 TAAAATCAAAACCTCAAATTTCAGACCCTAAAATTGAAACCC
1 TAAAATCAAAACCCCAAACATCAAACCCTAAAATTGAAACCC
9742726 TAAA
1 TAAA
9742730 TCCCAAATCT
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 56 0.75
43 19 0.25
ACGTcount: A:0.49, C:0.27, G:0.05, T:0.19
Consensus pattern (42 bp):
TAAAATCAAAACCCCAAACATCAAACCCTAAAATTGAAACCC
Found at i:9742730 original size:28 final size:26
Alignment explanation
Indices: 9742662--9742730 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
9742652 ACCCCAAACC
9742662 TCAAACCCTATAATTGAAGCCCTAAAA
1 TCAAACCCTA-AATTGAAGCCCTAAAA
* **
9742689 TCAAAACCTCAAATTTCAGACCCTAAAA
1 TCAAACCCT-AAATTGAAG-CCCTAAAA
*
9742717 TTGAAACCCTAAAT
1 -TCAAACCCTAAAT
9742731 CCCAAATCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
27 14 0.41
28 13 0.38
29 7 0.21
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (26 bp):
TCAAACCCTAAATTGAAGCCCTAAAA
Found at i:9742769 original size:14 final size:14
Alignment explanation
Indices: 9742599--9742771 Score: 79
Period size: 14 Copynumber: 12.3 Consensus size: 14
9742589 CTTTAAGTCA
*
9742599 TAAAATCAAAAGCC
1 TAAAATCAAAACCC
*
9742613 TAAACATCTAAACCC
1 TAAA-ATCAAAACCC
* *
9742628 TAAAA-CTGAAATCC
1 TAAAATC-AAAACCC
9742642 TAAAATCAAAACCC
1 TAAAATCAAAACCC
* *
9742656 CAAACCTC-AAACCC
1 TAAA-ATCAAAACCC
* ** *
9742670 TATAATTGAAGCCC
1 TAAAATCAAAACCC
9742684 TAAAATCAAAA-CC
1 TAAAATCAAAACCC
* *
9742697 TCAAATTTC-AGACCC
1 T-AAA-ATCAAAACCC
**
9742712 TAAAATTGAAACCC
1 TAAAATCAAAACCC
* * *
9742726 T-AAATCCCAAATCT
1 TAAAAT-CAAAACCC
*
9742740 TTAAATCAAAACCC
1 TAAAATCAAAACCC
9742754 TAAAATCGAAAA-CC
1 TAAAATC-AAAACCC
9742768 TAAA
1 TAAA
9742772 CCTCAAAATC
Statistics
Matches: 117, Mismatches: 30, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
13 10 0.09
14 79 0.68
15 28 0.24
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (14 bp):
TAAAATCAAAACCC
Found at i:9742779 original size:14 final size:14
Alignment explanation
Indices: 9742741--9742799 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
9742731 CCCAAATCTT
*
9742741 TAAA-TCAAAACCC
1 TAAACTCAAAAACC
* *
9742754 TAAAATCGAAAACC
1 TAAACTCAAAAACC
*
9742768 TAAACCTC-AAAATC
1 TAAA-CTCAAAAACC
9742782 TGAAACTCAAAAACC
1 T-AAACTCAAAAACC
9742797 TAA
1 TAA
9742800 CCCTAAAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 4 0.11
14 22 0.59
15 11 0.30
ACGTcount: A:0.54, C:0.25, G:0.03, T:0.17
Consensus pattern (14 bp):
TAAACTCAAAAACC
Found at i:9747605 original size:3 final size:3
Alignment explanation
Indices: 9747591--9747621 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
9747581 CAGAACTGAA
*
9747591 TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
9747622 TTTAATGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:9750932 original size:26 final size:23
Alignment explanation
Indices: 9750903--9750961 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
9750893 ATATCATATA
*
9750903 AAATTTATTTTAAATAGTTAATTAT
1 AAATTTATTTT-AATAATT-ATTAT
*
9750928 GAAATTCA-TTTAATAATTATTAT
1 -AAATTTATTTTAATAATTATTAT
*
9750951 AAAATTATTTT
1 AAATTTATTTT
9750962 TTATATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
22 5 0.18
23 8 0.29
24 6 0.21
25 3 0.11
26 6 0.21
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (23 bp):
AAATTTATTTTAATAATTATTAT
Found at i:9751191 original size:24 final size:24
Alignment explanation
Indices: 9751140--9751192 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
9751130 AGTATTAATT
* *
9751140 TTTTTATTTTTTAATATGCAATAT
1 TTTTTATTTATTAATATGCAATAA
*
9751164 TTTTTATATTATTAATATGC-CTAA
1 TTTTTAT-TTATTAATATGCAATAA
9751188 TTTTT
1 TTTTT
9751193 TAAGTTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTTATTTATTAATATGCAATAA
Found at i:9763152 original size:3 final size:3
Alignment explanation
Indices: 9763144--9763169 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9763134 TAAATATTTT
9763144 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
9763170 TAAATGGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9765207 original size:238 final size:237
Alignment explanation
Indices: 9764790--9765262 Score: 822
Period size: 238 Copynumber: 2.0 Consensus size: 237
9764780 ATGTGTCATG
9764790 ATTGACATACAATTATGAAATATGGCAATTGTTTATCTATCTATAATTATGTTTTAAATTACAAA
1 ATTGACATACAATTATGAAATATGGCAATTGTTTATCTATCTATAATTATGTTTTAAATTACAAA
9764855 TACCATATTGTTGTTATAAAGTAATTAATATAGAAATTTTCTCAAGTACTTGTTTCAATCTGTTA
66 TACCATATTGTTGTTATAAAGTAATTAATATAGAAATTTTCTCAAGTACTTGTTTCAATCTGTTA
* *
9764920 CAAGTTTTCCCCTTTACTTAACTGAATTGGTTCTTAATTTGGTAGAAAGAAAAACACCTATCATG
131 CAAGTTTTCCCCTTTACTTAACTGAATTCGTTCTTAATTTGATAGAAAGAAAAACACCTATCATG
*
9764985 AAGTGAGTTCATCATCAAACTCAAGCTTGACTTGTTTTCTCA
196 AAGTGAGTTCATCATCAAACTCAAGCTAGACTTGTTTTCTCA
9765027 ATTGACATACAATTATGAAATATGGCAATTGTTTATCTATCTATAATTATGTTTTAAATTACAAA
1 ATTGACATACAATTATGAAATATGGCAATTGTTTATCTATCTATAATTATGTTTTAAATTACAAA
* **
9765092 TACCATAATTTTTGTTATAAAGTAATTAATATAGAAATTTTCGT-AAGTACTTGTTTTGATCTGT
66 TACCAT-ATTGTTGTTATAAAGTAATTAATATAGAAATTTTC-TCAAGTACTTGTTTCAATCTGT
* * * * *
9765156 TACAAGTTTTCCCCTTTCCTTAACTTAATTCGTTCTTAATTTGATAGAAAGAGAAATACCTATTA
129 TACAAGTTTTCCCCTTTACTTAACTGAATTCGTTCTTAATTTGATAGAAAGAAAAACACCTATCA
9765221 TGAAGTGAGTTCATCATCAAACTCAAGCTAGACTTGTTTTCT
194 TGAAGTGAGTTCATCATCAAACTCAAGCTAGACTTGTTTTCT
9765263 AATCTAATGA
Statistics
Matches: 223, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
237 71 0.32
238 151 0.68
239 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (237 bp):
ATTGACATACAATTATGAAATATGGCAATTGTTTATCTATCTATAATTATGTTTTAAATTACAAA
TACCATATTGTTGTTATAAAGTAATTAATATAGAAATTTTCTCAAGTACTTGTTTCAATCTGTTA
CAAGTTTTCCCCTTTACTTAACTGAATTCGTTCTTAATTTGATAGAAAGAAAAACACCTATCATG
AAGTGAGTTCATCATCAAACTCAAGCTAGACTTGTTTTCTCA
Done.