Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 180 of 255
Found at i:59361385 original size:44 final size:43
Alignment explanation
Indices: 59361296--59361386 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
59361286 CTCAAATCAT
* * *
59361296 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
59361339 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
59361383 AATA
1 AATA
59361387 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:59361410 original size:120 final size:119
Alignment explanation
Indices: 59361201--59361494 Score: 445
Period size: 120 Copynumber: 2.5 Consensus size: 119
59361191 ATTTAATCAT
* *
59361201 ATTTAAACATAATTATTATTAAATATATTATAATTAAATATATAATTTAAT-AAATTCTTAAAAT
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAATATATAATTTAATAAAATTCTTAAAAA
* * *
59361265 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 TAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
59361320 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATT-AAATATATAATTTAATAAAATTCTTAA-A
*
59361383 AATAAAATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
64 AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
59361439 ATTTCAA-ATAATTAATATTAAATATGATT-TAATTAAATATATGATTTAATAAAATT
1 ATTTCAACATAATTATTATTAAATAT-ATTATAATTAAATATATAATTTAATAAAATT
59361495 TAAAATTATT
Statistics
Matches: 162, Mismatches: 7, Indels: 12
0.90 0.04 0.07
Matches are distributed among these distances:
117 30 0.19
118 18 0.11
119 35 0.22
120 74 0.46
121 5 0.03
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (119 bp):
ATTTCAACATAATTATTATTAAATATATTATAATTAAATATATAATTTAATAAAATTCTTAAAAA
TAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:59361475 original size:15 final size:15
Alignment explanation
Indices: 59361455--59361493 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
59361445 AATAATTAAT
59361455 ATTAAATATGATTTA
1 ATTAAATATGATTTA
59361470 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
59361487 ATAAAAT
1 ATTAAAT
59361494 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:59361480 original size:17 final size:17
Alignment explanation
Indices: 59361460--59361493 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59361450 TTAATATTAA
*
59361460 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
59361477 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
59361494 TTAAAATTAT
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:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:59361636 original size:93 final size:92
Alignment explanation
Indices: 59361526--59361720 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
59361516 GATTATAGTT
* * *
59361526 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
59361589 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
59361619 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
59361684 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
59361711 TATGAATTTA
1 TATGAATTTA
59361721 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:59364219 original size:9 final size:9
Alignment explanation
Indices: 59364205--59364229 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
59364195 TCTGAACTAC
59364205 ATTTATCTT
1 ATTTATCTT
59364214 ATTTATCTT
1 ATTTATCTT
59364223 ATTTATC
1 ATTTATC
59364230 AGCAAATGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTATCTT
Found at i:59366092 original size:68 final size:72
Alignment explanation
Indices: 59366015--59366151 Score: 201
Period size: 72 Copynumber: 2.0 Consensus size: 72
59366005 TTTTAGTAAT
* *
59366015 TTAATATTAAATTCAATTTAATACTTATC-T-TA-AT-AGTATTTTATTAATTTAATATTAAAGT
1 TTAATATTAAATTCAATTTAATACTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
59366076 GATTATC
66 GATTATC
* **
59366083 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
1 TTAATATTAAATTCAATTTAATACTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
59366148 GATT
66 GATT
59366152 TAGTTTAATC
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 26 0.43
69 1 0.02
70 2 0.03
71 2 0.03
72 29 0.48
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (72 bp):
TTAATATTAAATTCAATTTAATACTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
GATTATC
Found at i:59367571 original size:149 final size:149
Alignment explanation
Indices: 59367301--59367598 Score: 560
Period size: 149 Copynumber: 2.0 Consensus size: 149
59367291 GTCATTTGGG
59367301 GCATAAAAGTGAGAACCGCATATCAAAGTTCCATAAAGATAGAATTTTAGATTCTTTTGTTTTTG
1 GCATAAAAGTGAGAACCGCATATCAAAGTTCCATAAAGATAGAATTTTAGATTCTTTTGTTTTTG
59367366 AACAATTGGATATATGTGAGTCTTGCTTGTTAAGTAAAATGACTAAAACTCCTTTTTAATAATAA
66 AACAATTGGATATATGTGAGTCTTGCTTGTTAAGTAAAATGACTAAAACTCCTTTTTAATAATAA
59367431 AAGTGACCGAGCTAGTGAT
131 AAGTGACCGAGCTAGTGAT
* *
59367450 GCATAAAAGTGAGAACCGCATATGAAAGTTCCATAAAGATAGAATTTTGGATTCTTTTGTTTTTG
1 GCATAAAAGTGAGAACCGCATATCAAAGTTCCATAAAGATAGAATTTTAGATTCTTTTGTTTTTG
*
59367515 AACAATTGGATATATGTGAGTCTTTCTTGTTAAGTAAAATGACTAAAACTCCTTTTTAATAATAA
66 AACAATTGGATATATGTGAGTCTTGCTTGTTAAGTAAAATGACTAAAACTCCTTTTTAATAATAA
*
59367580 AAGTGACCGAGGTAGTGAT
131 AAGTGACCGAGCTAGTGAT
59367599 TTATTGAGCT
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 145 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (149 bp):
GCATAAAAGTGAGAACCGCATATCAAAGTTCCATAAAGATAGAATTTTAGATTCTTTTGTTTTTG
AACAATTGGATATATGTGAGTCTTGCTTGTTAAGTAAAATGACTAAAACTCCTTTTTAATAATAA
AAGTGACCGAGCTAGTGAT
Found at i:59371986 original size:22 final size:22
Alignment explanation
Indices: 59371958--59372003 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
59371948 TCATTTATAC
*
59371958 ATAT-AAATAAAGAACATAAAAA
1 ATATAAAAAAAAGAACA-AAAAA
*
59371980 ATATAAAAAAAAGAAGAAAAAA
1 ATATAAAAAAAAGAACAAAAAA
59372002 AT
1 AT
59372004 TACCCCAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (22 bp):
ATATAAAAAAAAGAACAAAAAA
Found at i:59372001 original size:23 final size:22
Alignment explanation
Indices: 59371958--59372002 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
59371948 TCATTTATAC
* *
59371958 ATATAAATAAAGAACATAAAAA
1 ATATAAAAAAAGAACAAAAAAA
*
59371980 ATATAAAAAAAAGAAGAAAAAAA
1 ATAT-AAAAAAAGAACAAAAAAA
59372003 TTACCCCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (22 bp):
ATATAAAAAAAGAACAAAAAAA
Found at i:59373108 original size:3 final size:3
Alignment explanation
Indices: 59373100--59373133 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
59373090 ATCTATATAG
59373100 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
59373134 CCTAATATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:59390316 original size:21 final size:21
Alignment explanation
Indices: 59390295--59390389 Score: 88
Period size: 21 Copynumber: 4.7 Consensus size: 21
59390285 GGCTTCACCA
59390295 CCGCCTTCTTTCTTCT--CC-
1 CCGCCTTCTTTCTTCTCCCCG
* * *
59390313 CCACCTTCCTTCTTCTCTCCG
1 CCGCCTTCTTTCTTCTCCCCG
59390334 CCGCCTTCTTTCTTCTCCCCG
1 CCGCCTTCTTTCTTCTCCCCG
* * * * *
59390355 CCTCCTCCTTCCTTCTTCTCG
1 CCGCCTTCTTTCTTCTCCCCG
*
59390376 CCGCCTTCCTTCTT
1 CCGCCTTCTTTCTT
59390390 TCCACCTCCT
Statistics
Matches: 60, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
18 14 0.23
20 2 0.03
21 44 0.73
ACGTcount: A:0.01, C:0.52, G:0.06, T:0.41
Consensus pattern (21 bp):
CCGCCTTCTTTCTTCTCCCCG
Found at i:59390338 original size:39 final size:41
Alignment explanation
Indices: 59390295--59390416 Score: 148
Period size: 39 Copynumber: 3.0 Consensus size: 41
59390285 GGCTTCACCA
59390295 CCGCCTTCTTTCTTCTCCCCACCT-TCCTT-CTTC-TCTCCG
1 CCGCCTTCTTTCTTCTCCCCACCTCTCCTTCCTTCTTCT-CG
*
59390334 CCGCCTTCTTTCTTCTCCCCGCCTCCTCCTTCCTTCTTCTCG
1 CCGCCTTCTTTCTTCTCCCCACCT-CTCCTTCCTTCTTCTCG
* *
59390376 CCGCCTTCCTTCTT-T--CCACCTCCTCCTTCCTCCTTCTCG
1 CCGCCTTCTTTCTTCTCCCCACCT-CTCCTTCCTTCTTCTCG
59390415 CC
1 CC
59390417 TCCGCCCGCA
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
39 47 0.63
41 6 0.08
42 19 0.25
43 3 0.04
ACGTcount: A:0.02, C:0.53, G:0.06, T:0.39
Consensus pattern (41 bp):
CCGCCTTCTTTCTTCTCCCCACCTCTCCTTCCTTCTTCTCG
Found at i:59390355 original size:18 final size:18
Alignment explanation
Indices: 59390295--59390357 Score: 81
Period size: 18 Copynumber: 3.3 Consensus size: 18
59390285 GGCTTCACCA
59390295 CCGCCTTCTTTCTTCTCC
1 CCGCCTTCTTTCTTCTCC
* *
59390313 CCACCTTCCTTCTTCTCTCC
1 CCGCCTTCTTTC-T-TCTCC
59390333 GCCGCCTTCTTTCTTCTCC
1 -CCGCCTTCTTTCTTCTCC
59390352 CCGCCT
1 CCGCCT
59390358 CCTCCTTCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 16 0.42
19 6 0.16
20 6 0.16
21 10 0.26
ACGTcount: A:0.02, C:0.52, G:0.06, T:0.40
Consensus pattern (18 bp):
CCGCCTTCTTTCTTCTCC
Found at i:59390364 original size:24 final size:22
Alignment explanation
Indices: 59390298--59390391 Score: 99
Period size: 24 Copynumber: 4.4 Consensus size: 22
59390288 TTCACCACCG
*
59390298 CCTTCTTTCTTCTCCCCACCTT
1 CCTTCTTTCTTCTCCCCGCCTT
*
59390320 CCTTC-TTC-TCT--CCGCC-G
1 CCTTCTTTCTTCTCCCCGCCTT
59390337 CCTTCTTTCTTCTCCCCGCCTCCT
1 CCTTCTTTCTTCTCCCCGCCT--T
* *
59390361 CCTTCCTTCTTCTCGCCGCCTT
1 CCTTCTTTCTTCTCCCCGCCTT
59390383 CCTTCTTTC
1 CCTTCTTTC
59390392 CACCTCCTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
17 5 0.08
18 7 0.12
19 3 0.05
20 3 0.05
21 8 0.14
22 14 0.24
24 19 0.32
ACGTcount: A:0.01, C:0.51, G:0.05, T:0.43
Consensus pattern (22 bp):
CCTTCTTTCTTCTCCCCGCCTT
Found at i:59390418 original size:21 final size:20
Alignment explanation
Indices: 59390353--59390419 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
59390343 TTCTTCTCCC
59390353 CGCCTCCTCCTTCCTTCTTCT
1 CGCCTCCTCCTTCC-TCTTCT
*
59390374 CGCCGCCTTCCTT-CT-TTC-
1 CGCCTCC-TCCTTCCTCTTCT
*
59390392 CACCTCCTCCTTCCTCCTTCT
1 CGCCTCCTCCTTCCT-CTTCT
59390413 CGCCTCC
1 CGCCTCC
59390420 GCCCGCAGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
17 5 0.14
18 7 0.19
19 3 0.08
20 4 0.11
21 13 0.35
22 5 0.14
ACGTcount: A:0.01, C:0.55, G:0.06, T:0.37
Consensus pattern (20 bp):
CGCCTCCTCCTTCCTCTTCT
Found at i:59392575 original size:70 final size:70
Alignment explanation
Indices: 59392489--59392625 Score: 274
Period size: 70 Copynumber: 2.0 Consensus size: 70
59392479 ATATCATATA
59392489 CAATAATAAATATGTAACCACAACAATTAATGAAAAACTTAAATAAAATAAAACAAATATTTAAA
1 CAATAATAAATATGTAACCACAACAATTAATGAAAAACTTAAATAAAATAAAACAAATATTTAAA
59392554 GCATG
66 GCATG
59392559 CAATAATAAATATGTAACCACAACAATTAATGAAAAACTTAAATAAAATAAAACAAATATTTAAA
1 CAATAATAAATATGTAACCACAACAATTAATGAAAAACTTAAATAAAATAAAACAAATATTTAAA
59392624 GC
66 GC
59392626 CCACCTTTCT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.59, C:0.12, G:0.05, T:0.24
Consensus pattern (70 bp):
CAATAATAAATATGTAACCACAACAATTAATGAAAAACTTAAATAAAATAAAACAAATATTTAAA
GCATG
Found at i:59392603 original size:33 final size:33
Alignment explanation
Indices: 59392495--59392603 Score: 82
Period size: 33 Copynumber: 3.2 Consensus size: 33
59392485 TATACAATAA
59392495 TAAATATGTAACCACAACAATTAATGAAAAACT
1 TAAATATGTAACCACAACAATTAATGAAAAACT
** * *
59392528 TAAATAAAATAA-AACAA-ATATTTAAAGCATGCAATAA--
1 TAAAT-ATGTAACCACAACA-A-TT--A--ATG-AAAAACT
59392565 TAAATATGTAACCACAACAATTAATGAAAAACT
1 TAAATATGTAACCACAACAATTAATGAAAAACT
59392598 TAAATA
1 TAAATA
59392604 AAATAAAACA
Statistics
Matches: 56, Mismatches: 8, Indels: 24
0.64 0.09 0.27
Matches are distributed among these distances:
31 4 0.07
32 4 0.07
33 16 0.29
34 7 0.12
36 7 0.12
37 10 0.18
38 4 0.07
39 4 0.07
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.25
Consensus pattern (33 bp):
TAAATATGTAACCACAACAATTAATGAAAAACT
Found at i:59393560 original size:13 final size:13
Alignment explanation
Indices: 59393542--59393566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59393532 AATTATAAAT
59393542 TTTAATATTTTAC
1 TTTAATATTTTAC
59393555 TTTAATATTTTA
1 TTTAATATTTTA
59393567 AAATAATAAG
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:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAATATTTTAC
Found at i:59393753 original size:24 final size:25
Alignment explanation
Indices: 59393711--59393758 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
59393701 TTATTTCTTA
*
59393711 ATTTTTAATATTTATAAATGAAATT
1 ATTTTTAATATTTATAAATAAAATT
59393736 ATTTTTAACTA-TTA-AAATAAAAT
1 ATTTTTAA-TATTTATAAATAAAAT
59393759 AGTTGCAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 11 0.52
26 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTTTTAATATTTATAAATAAAATT
Found at i:59394842 original size:30 final size:30
Alignment explanation
Indices: 59394765--59394843 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
59394755 AATATATTAT
**
59394765 TTCAATTAATGGAATTAAATGAAAATTTTA
1 TTCAATTAATGGAATTAAATGAAAATAATA
* *** *
59394795 TT-AATCATATTTTATTAAATGAAAATAATC
1 TTCAATTA-ATGGAATTAAATGAAAATAATA
59394825 TTCAATTAATGGAATTAAA
1 TTCAATTAATGGAATTAAA
59394844 GACATCGATT
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
29 4 0.11
30 28 0.78
31 4 0.11
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (30 bp):
TTCAATTAATGGAATTAAATGAAAATAATA
Found at i:59395910 original size:32 final size:32
Alignment explanation
Indices: 59395874--59395936 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
59395864 TCATAAACTT
* *
59395874 ATAAACTGATTACTTTAATTT-AGTAACTCATG
1 ATAAACTAATTAATTTAATTTGA-TAACTCATG
*
59395906 ATAAATTAATTAATTTAATTTGATAACTCAT
1 ATAAACTAATTAATTTAATTTGATAACTCAT
59395937 ATTGATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (32 bp):
ATAAACTAATTAATTTAATTTGATAACTCATG
Found at i:59400750 original size:21 final size:21
Alignment explanation
Indices: 59400724--59400764 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59400714 ATCTGCTCAA
* *
59400724 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
59400745 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
59400765 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:59404810 original size:20 final size:20
Alignment explanation
Indices: 59404767--59404811 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
59404757 ATCTAAACAC
59404767 CAGAAAAGTAAATAATTTTT
1 CAGAAAAGTAAATAATTTTT
*
59404787 -AGAAAAGTAAATCATTTTT
1 CAGAAAAGTAAATAATTTTT
59404806 CAGAAA
1 CAGAAA
59404812 TTATTTTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (20 bp):
CAGAAAAGTAAATAATTTTT
Found at i:59405330 original size:5 final size:6
Alignment explanation
Indices: 59405317--59405358 Score: 57
Period size: 6 Copynumber: 6.5 Consensus size: 6
59405307 ATAATTTAAT
59405317 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATTAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAA-TAA AAA
59405359 AACATATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 21 0.64
7 6 0.18
8 6 0.18
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:59405339 original size:14 final size:12
Alignment explanation
Indices: 59405317--59405358 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 12
59405307 ATAATTTAAT
59405317 AAATAAAAATAA
1 AAATAAAAATAA
59405329 AAATCTAAAAATAA
1 AAA--TAAAAATAA
59405343 AAATAAAAATTAA
1 AAATAAAAA-TAA
59405356 AAA
1 AAA
59405359 AACATATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.33
13 6 0.22
14 12 0.44
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:59405342 original size:20 final size:19
Alignment explanation
Indices: 59405312--59405358 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
59405302 TACAAATAAT
59405312 TTAATAAATAAAAATAAAAA
1 TTAA-AAATAAAAATAAAAA
59405332 TCTAAAAATAAAAATAAAAA
1 T-TAAAAATAAAAATAAAAA
59405352 TTAAAAA
1 TTAAAAA
59405359 AACATATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.23
20 17 0.65
21 3 0.12
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (19 bp):
TTAAAAATAAAAATAAAAA
Found at i:59418887 original size:46 final size:46
Alignment explanation
Indices: 59418832--59419005 Score: 142
Period size: 46 Copynumber: 3.7 Consensus size: 46
59418822 TCACTTATGT
*
59418832 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATG-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATGAA
* *
59418878 GAGCCAGTGTAATACCATGTCTGGGACATGGCATCG--GCATTGA-GACAA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACATT-ATG--AA
* * * *** * *
59418926 GTGCCAATGTAAGACATGTCTGGGACATGCATCGGCCTCGGGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATGAA
*
59418973 -AGCCAGTGTAAGACATGTGTGGGACATGCATCG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
59419006 ACTACGAGAT
Statistics
Matches: 104, Mismatches: 14, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
45 6 0.06
46 47 0.45
47 31 0.30
48 18 0.17
49 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCACATTATGAA
Found at i:59421200 original size:27 final size:27
Alignment explanation
Indices: 59421142--59421259 Score: 96
Period size: 27 Copynumber: 4.4 Consensus size: 27
59421132 TCTAAGGAAC
* * *
59421142 CATTCTTTTAGAGTTCACCATACGTA-
1 CATTCTTTTAGAGTTTACCACACATAT
59421168 CTATTCTTTTAGAGTTTACCACACATAT
1 C-ATTCTTTTAGAGTTTACCACACATAT
** * *
59421196 CATTCACTTAGAGTTTACCATATC-TAC
1 CATTCTTTTAGAGTTTACCACA-CATAT
* * * * *
59421223 CAGTATTTCAAAGTTAACCACACATAT
1 CATTCTTTTAGAGTTTACCACACATAT
59421250 CATTCTTTTA
1 CATTCTTTTA
59421260 TGGTTTTCCA
Statistics
Matches: 69, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
26 2 0.03
27 65 0.94
28 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
CATTCTTTTAGAGTTTACCACACATAT
Found at i:59421208 original size:54 final size:54
Alignment explanation
Indices: 59421149--59421254 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
59421139 AACCATTCTT
* * * * * *
59421149 TTAGAGTTCACCATA-CGTACTATTCTTTTAGAGTTTACCACACATATCATTCAC
1 TTAGAGTTCACCATATC-TACCAGTATTTCAAAGTTAACCACACATATCATTCAC
*
59421203 TTAGAGTTTACCATATCTACCAGTATTTCAAAGTTAACCACACATATCATTC
1 TTAGAGTTCACCATATCTACCAGTATTTCAAAGTTAACCACACATATCATTC
59421255 TTTTATGGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 43 0.98
55 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (54 bp):
TTAGAGTTCACCATATCTACCAGTATTTCAAAGTTAACCACACATATCATTCAC
Found at i:59430583 original size:25 final size:25
Alignment explanation
Indices: 59430549--59430600 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
59430539 CATCCATATT
59430549 ACTAGCCATTTAACCTCGAAATCAA
1 ACTAGCCATTTAACCTCGAAATCAA
59430574 ACTAGCCATTTAACCTCGAAATCAA
1 ACTAGCCATTTAACCTCGAAATCAA
59430599 AC
1 AC
59430601 CAACCTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.29, G:0.08, T:0.23
Consensus pattern (25 bp):
ACTAGCCATTTAACCTCGAAATCAA
Found at i:59430868 original size:24 final size:25
Alignment explanation
Indices: 59430815--59430868 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
59430805 AAATTAGAGG
**
59430815 TTAA-TGTTACATCTACTTCTACAT
1 TTAATTGTTACATCTACAACTACAT
*
59430839 CT-ATTGTTACATCTACAACTA-AT
1 TTAATTGTTACATCTACAACTACAT
59430862 TTAATTG
1 TTAATTG
59430869 AATGGGAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (25 bp):
TTAATTGTTACATCTACAACTACAT
Found at i:59435582 original size:107 final size:103
Alignment explanation
Indices: 59435423--59435919 Score: 511
Period size: 108 Copynumber: 4.9 Consensus size: 103
59435413 ATTGGTATAC
*
59435423 AAAATACGAGTTTT----AAAATTTTTTTTGGTGTGCTGGCCTGTCAATGGTCGGCACCAAGTAC
1 AAAATACGAGTTTTAAAAAAAATTTTTTTTGG-GTGCTGGCCTGTCAATGGCCGGCACCAAGTAC
59435484 AAAAAAAAATTTAAATATTTAAAAAATTTTTTTTTGCTCTCCA
65 AAAAAAAAA-TTAAA-ATTTAAAAAA--TTTTTTTGCTCTCCA
* * *
59435527 AAAATACGAGTTTTAAAAAAAAATTTTTTTGAGTGATGGCCTGTCAATGGCCGGCACCAAGTACA
1 AAAATACGAGTTTTAAAAAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTACA
* * *
59435592 AAAAAAAATTCAAAATATTTTTTAAAATTTTTTTTGCTCTCCG
66 AAAAAAAATT--AAA-A--TTTAAAAAATTTTTTTGCTCTCCA
* ** *
59435635 AAAATACGAATTTTAAAAAAGTTTTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCAAGTACA
1 AAAATACGAGTTTTAAAAAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTACA
* **** * **
59435700 AAAAAGAAATTCAAATTTAAAAAAAAAATTTGCTGTCTG
66 AAAAA-AAATTAAAATTTAAAAAATTTTTTTGCTCTCCA
* **
59435739 AAAATACGAGTTTT-AAAAAATTTTTTTTTGGGTGCTGGCCTGTCAATGGCCAACACCAAGTACA
1 AAAATACGAGTTTTAAAAAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTACA
* * *
59435803 AAAAAAAAATAAAA---ACAAAA-TTTTTT-CTGTCCA
66 AAAAAAAATTAAAATTTAAAAAATTTTTTTGCTCTCCA
* * * *
59435836 AAAATACGAGTTTTTAAAAAAAA----ATTTAGGTCCTGGCCTGTCAATGGCCGACACCAAGTAC
1 AAAATACGAG-TTTTAAAAAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTAC
*
59435897 -AAAAAAAATCAAAATTTAAAAAA
65 AAAAAAAAATTAAAATTTAAAAAA
59435920 AAATAATTTT
Statistics
Matches: 335, Mismatches: 44, Indels: 35
0.81 0.11 0.08
Matches are distributed among these distances:
94 12 0.04
95 34 0.10
97 20 0.06
98 7 0.02
99 11 0.03
102 7 0.02
103 51 0.15
104 43 0.13
106 3 0.01
107 41 0.12
108 94 0.28
109 5 0.01
110 7 0.02
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (103 bp):
AAAATACGAGTTTTAAAAAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTACA
AAAAAAAATTAAAATTTAAAAAATTTTTTTGCTCTCCA
Found at i:59436341 original size:85 final size:87
Alignment explanation
Indices: 59436230--59436403 Score: 289
Period size: 86 Copynumber: 2.0 Consensus size: 87
59436220 GGTGAACATT
* * * *
59436230 AATTTTTTTTTAAAAAACTCGTATTTTCGGACATTAATTTTTTTT-TAAAAACTCGTATTGGTGC
1 AATTTTTTTTTAAAAAACTCATATTTTCGGAAATCAATTTTTTTTAAAAAAACTCGTATTGGTGC
59436294 CGGCCATTGACAGGCCAGCACA
66 CGGCCATTGACAGGCCAGCACA
59436316 AATTTTTTTTT-AAAAACTCATATTTTCGGAAATCAATTTTTTTTAAAAAAACTCGTATTGGTGC
1 AATTTTTTTTTAAAAAACTCATATTTTCGGAAATCAATTTTTTTTAAAAAAACTCGTATTGGTGC
*
59436380 CGGCCATTTACAGGCCAGCACA
66 CGGCCATTGACAGGCCAGCACA
59436402 AA
1 AA
59436404 AAAAATTGAA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 30 0.37
86 52 0.63
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (87 bp):
AATTTTTTTTTAAAAAACTCATATTTTCGGAAATCAATTTTTTTTAAAAAAACTCGTATTGGTGC
CGGCCATTGACAGGCCAGCACA
Found at i:59436419 original size:96 final size:98
Alignment explanation
Indices: 59436315--59436521 Score: 223
Period size: 96 Copynumber: 2.1 Consensus size: 98
59436305 AGGCCAGCAC
* *
59436315 AAATTTTTTTTTAAAAACTCATATTTTCGGAA-ATC-AA-TTTTTTTTAAAAAAACTCGTATTGG
1 AAATTTTTTTTTAAAAACTCATATTTT-AGAACATCAAAGTTTTTTTT--AAAAACTCATATTGG
*
59436377 TGCCGGCCATTTACAGGCCAGCA-CAAAAAAAATTG
63 TGCCGGCCATTGACAGGCCAGCACCAAAAAAAATTG
* *
59436412 -AA--TTTTTTT-AAAACTCGTATTTTAGAACATCAAAAAAGTTTTTTTTTAAAACTCATATTGG
1 AAATTTTTTTTTAAAAACTCATATTTTAGAACATC---AAAGTTTTTTTTAAAAACTCATATTGG
* * * *
59436473 TGCTGGCTATTGACAGGCCAGCACCCAAAAAATTTG
63 TGCCGGCCATTGACAGGCCAGCACCAAAAAAAATTG
59436509 AAATTTTTTTTTA
1 AAATTTTTTTTTA
59436522 GTACTTGGTG
Statistics
Matches: 90, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
92 3 0.03
93 16 0.18
94 7 0.08
96 35 0.39
97 12 0.13
98 10 0.11
100 7 0.08
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (98 bp):
AAATTTTTTTTTAAAAACTCATATTTTAGAACATCAAAGTTTTTTTTAAAAACTCATATTGGTGC
CGGCCATTGACAGGCCAGCACCAAAAAAAATTG
Found at i:59436736 original size:103 final size:98
Alignment explanation
Indices: 59436607--59436981 Score: 513
Period size: 103 Copynumber: 3.7 Consensus size: 98
59436597 TAAAATTTTT
*
59436607 TTTGATTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTAAAACTC
1 TTTGATTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAACACCCAAATTTTTTTTAAAACTC
* *
59436672 GTATTTTCTGACAGTAAAATTTTTTCTTTTAAAAAAA
66 GTATTTTCTGAGAG-AAAA--TTTT-TTTAAAAAAAA
59436709 TTTGAATTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAACACCCAAATTTTTTTTAAAACT
1 TTTG-ATTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAACACCCAAATTTTTTTTAAAACT
59436774 CGTATTTT-TGGAGAGAAAATTTTTTTAAAAAAAA
65 CGTATTTTCT-GAGAGAAAATTTTTTTAAAAAAAA
* * *
59436808 TTTTGATTTTTTTTGGACTTGGTGTCGGCCATTGACA-GACAACACCCAAAATTTTTTTTAAAAC
1 -TTTGATTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAACACCC-AAATTTTTTTTAAAAC
* *
59436872 TCGTATTTTCGGAGAG-AAATTTTTTAAAAAAAAA
64 TCGTATTTTCTGAGAGAAAATTTTTTTAAAAAAAA
** * *
59436906 TTTGAATTTTTTTTTTGTACTTGGTATCGGCCATTGACAGACCAGCACCCAAATTTTTTTTTAAA
1 TTTG-A--TTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAACACCCAAA-TTTTTTTTAAA
59436971 ACTCGTATTTT
62 ACTCGTATTTT
59436982 GTATACCAAT
Statistics
Matches: 250, Mismatches: 13, Indels: 21
0.88 0.05 0.07
Matches are distributed among these distances:
97 4 0.02
98 27 0.11
99 70 0.28
100 40 0.16
101 29 0.12
102 9 0.04
103 71 0.28
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.41
Consensus pattern (98 bp):
TTTGATTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAACACCCAAATTTTTTTTAAAACTC
GTATTTTCTGAGAGAAAATTTTTTTAAAAAAAA
Found at i:59436860 original size:99 final size:100
Alignment explanation
Indices: 59436606--59436981 Score: 498
Period size: 99 Copynumber: 3.7 Consensus size: 100
59436596 TTAAAATTTT
* *
59436606 TTTTG-ATTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTAAAAC
1 TTTTGAATTTTTTTTGTACTTGGTGCCGGCCATTGACAGGACAACACCCAAATTTTTTTTAAAAC
* *
59436670 TCGTATTTTCT-GACAGTAAAATTTTTTCTTTTAAAAAAA
66 TCGTATTTT-TGGAGAG-AAAA--TTTT-TTTAAAAAAAA
*
59436709 -TTTGAATTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAACACCCAAATTTTTTTTAAAAC
1 TTTTGAATTTTTTTTGTACTTGGTGCCGGCCATTGACAGGACAACACCCAAATTTTTTTTAAAAC
59436773 TCGTATTTTTGGAGAGAAAATTTTTTTAAAAAAAA
66 TCGTATTTTTGGAGAGAAAATTTTTTTAAAAAAAA
* *
59436808 TTTTG-ATTTTTTTTGGACTTGGTGTCGGCCATTGACA-GACAACACCCAAAATTTTTTTTAAAA
1 TTTTGAATTTTTTTTGTACTTGGTGCCGGCCATTGACAGGACAACACCC-AAATTTTTTTTAAAA
*
59436871 CTCGTATTTTCGGAGAG-AAA-TTTTTTAAAAAAAA
65 CTCGTATTTTTGGAGAGAAAATTTTTTTAAAAAAAA
* ** *
59436905 ATTTGAATTTTTTTTTTGTACTTGGTATCGGCCATTGACA-GACCAGCACCCAAATTTTTTTTTA
1 TTTTGAA--TTTTTTTTGTACTTGGTGCCGGCCATTGACAGGA-CAACACCCAAA-TTTTTTTTA
59436969 AAACTCGTATTTT
62 AAACTCGTATTTT
59436982 GTATACCAAT
Statistics
Matches: 253, Mismatches: 11, Indels: 20
0.89 0.04 0.07
Matches are distributed among these distances:
97 18 0.07
98 13 0.05
99 71 0.28
100 42 0.17
101 29 0.11
102 9 0.04
103 71 0.28
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.41
Consensus pattern (100 bp):
TTTTGAATTTTTTTTGTACTTGGTGCCGGCCATTGACAGGACAACACCCAAATTTTTTTTAAAAC
TCGTATTTTTGGAGAGAAAATTTTTTTAAAAAAAA
Found at i:59438810 original size:17 final size:17
Alignment explanation
Indices: 59438788--59438829 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
59438778 ATTGACAACT
59438788 AATTAAAAATAAAATGA
1 AATTAAAAATAAAATGA
* *
59438805 AATTAAAATTAAAATTA
1 AATTAAAAATAAAATGA
59438822 AGATTAAA
1 A-ATTAAA
59438830 TAAATGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AATTAAAAATAAAATGA
Found at i:59438813 original size:6 final size:6
Alignment explanation
Indices: 59438788--59438829 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
59438778 ATTGACAACT
* * *
59438788 AATTAA AAATAA AA-TGA AATTAA AATTAA AATTAA GATTAA A
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA A
59438830 TAAATGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (6 bp):
AATTAA
Found at i:59442143 original size:44 final size:42
Alignment explanation
Indices: 59442092--59442242 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 42
59442082 ATATGTGTTA
*
59442092 TCGTGTAAGACCACGTCTAGGACATTGGCATCG-ACTTATGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGATT
* * * *
59442135 TACGTGTAAGACAACATCTGGGACGTTAGCATCGTATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
* *
59442178 TCGTGTAAGACC-CTGTCTGGGACAGTGGCATCAATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATC-GTATTTGATT
* * *
59442221 ACATGTAAGATCACGTCTGGGA
1 TCGTGTAAGACCACGTCTGGGA
59442243 TGTCGGCATT
Statistics
Matches: 89, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 24 0.27
43 33 0.37
44 30 0.34
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
Found at i:59442197 original size:42 final size:42
Alignment explanation
Indices: 59442092--59442201 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 42
59442082 ATATGTGTTA
* *
59442092 TCGTGTAAGACCACGTCTAGGACATTGGCATCGACTTATGATT
1 TCGTGTAAGACC-CGTCTGGGACATTAGCATCGACTTATGATT
* * *
59442135 TACGTGTAAGACAACATCTGGGACGTTAGCATCGTA-TT-TGATT
1 T-CGTGTAAGAC-CCGTCTGGGACATTAGCATCG-ACTTATGATT
59442178 TCGTGTAAGACCCTGTCTGGGACA
1 TCGTGTAAGACCC-GTCTGGGACA
59442202 GTGGCATCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 18 0.33
43 7 0.13
44 28 0.51
45 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCCGTCTGGGACATTAGCATCGACTTATGATT
Found at i:59449834 original size:12 final size:12
Alignment explanation
Indices: 59449817--59449841 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59449807 GATCCATGAT
59449817 TAAATTAATCAG
1 TAAATTAATCAG
59449829 TAAATTAATCAG
1 TAAATTAATCAG
59449841 T
1 T
59449842 CAACAAGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TAAATTAATCAG
Found at i:59454460 original size:21 final size:21
Alignment explanation
Indices: 59454434--59454476 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
59454424 TTTTCTGTTT
59454434 ATGAACTTACTAAGCTCCTTG
1 ATGAACTTACTAAGCTCCTTG
59454455 ATGAACTTACTAAGCTCCTTG
1 ATGAACTTACTAAGCTCCTTG
59454476 A
1 A
59454477 AGCTTACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (21 bp):
ATGAACTTACTAAGCTCCTTG
Found at i:59460465 original size:19 final size:19
Alignment explanation
Indices: 59460437--59460476 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
59460427 AATAATTTTT
*
59460437 ATCAAGTAAAGTT-AAATTA
1 ATCAAATAAA-TTAAAATTA
59460456 ATCAAATAAATTAAAATTA
1 ATCAAATAAATTAAAATTA
59460475 AT
1 AT
59460477 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:59466124 original size:42 final size:43
Alignment explanation
Indices: 59466016--59466173 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 43
59466006 AACTCTTACA
* * *
59466016 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
59466059 ATGCCACTGTCCCAAACAGGGTCTTACACGAAATCTAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
59466101 ATGTCGA-TGTCCTAGACATGGTCTTACACGTAAATCATAAGT-T-G
1 ATG-CCACTGTCCCAGACATGGTCTTACACG-AAATCA-AA-TATCG
*
59466145 ATGCCAAC-GTCCCAGACGTGGTCTTACAC
1 ATGCC-ACTGTCCCAGACATGGTCTTACAC
59466174 AAAAACACAT
Statistics
Matches: 93, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
42 27 0.29
43 39 0.42
44 26 0.28
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:59476468 original size:42 final size:42
Alignment explanation
Indices: 59476421--59476576 Score: 147
Period size: 42 Copynumber: 3.7 Consensus size: 42
59476411 AGCTCGTACA
59476421 ATGCCAATATCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAATATCCCAGACGTGGTCTTACATGTAATCAATATCG
* *
59476463 ATGCCACTATCCCAGACAG-GGTCTTACATGAAATCAAATAT-G
1 ATGCCAATATCCCAGAC-GTGGTCTTACATGTAATC-AATATCG
* * * * * **
59476505 GTGTCGATATCCCAAACATGGTCTTACACATAAATC-ATAAGTCG
1 ATGCCAATATCCCAGACGTGGTCTTACATGT-AATCAAT-A-TCG
**
59476549 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAATATCCCAGACGTGGTCTTACA
59476577 CGAAAACACA
Statistics
Matches: 89, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 2 0.02
42 54 0.61
43 11 0.12
44 22 0.25
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGCCAATATCCCAGACGTGGTCTTACATGTAATCAATATCG
Found at i:59477987 original size:17 final size:17
Alignment explanation
Indices: 59477965--59478001 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
59477955 CAAGTCCTTG
59477965 CATTTTTA-TCACTTTAA
1 CATTTTTAGTC-CTTTAA
59477982 CA-TTTTAGTCCTTTAA
1 CATTTTTAGTCCTTTAA
59477998 CATT
1 CATT
59478002 AAAATTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.27, C:0.19, G:0.03, T:0.51
Consensus pattern (17 bp):
CATTTTTAGTCCTTTAA
Found at i:59491637 original size:47 final size:48
Alignment explanation
Indices: 59491555--59491683 Score: 134
Period size: 48 Copynumber: 2.7 Consensus size: 48
59491545 AATCGATAAG
* * ** * * ** *
59491555 TACCTATATCATGGCCCGTAGCCAAATCATCGTAACTTATC-CCGGAG
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCACCTCCAAAA
* * *
59491602 TGCCTATACCATGGCCCATAGCCAAGTCAAGGTAACTCCCCTCCAAAA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCACCTCCAAAA
*
59491650 TACCTATACCATGGCCTATAGCCAAATCAAGGTA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTA
59491684 TAATTTGCAC
Statistics
Matches: 66, Mismatches: 15, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
47 32 0.48
48 34 0.52
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (48 bp):
TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCACCTCCAAAA
Found at i:59496272 original size:85 final size:85
Alignment explanation
Indices: 59496168--59496361 Score: 316
Period size: 85 Copynumber: 2.3 Consensus size: 85
59496158 CACGACCATG
* * * *
59496168 ACACGCCCGTGTCCTAGCCCGTGTGCAAAGACATGGACATTTTTTTTCTGACGTCAGCATCCTCA
1 ACACGCCCGTGTCCTAGCCCGTGTGCAAAGACATAGACATTCTGTTTCTGACGTCAACATCCTCA
59496233 ATATGTCACACGGCCAAGGC
66 ATATGTCACACGGCCAAGGC
* *
59496253 ACACGCCCATGTCCTAGCCCGTGTGCAAAGACATAGACATTCTGTTTCTGACGTTAACATCCTCA
1 ACACGCCCGTGTCCTAGCCCGTGTGCAAAGACATAGACATTCTGTTTCTGACGTCAACATCCTCA
59496318 ATATGTCACACGGCCAAGGC
66 ATATGTCACACGGCCAAGGC
* *
59496338 ACACGCCTGTGTCCTAGGCCGTGT
1 ACACGCCCGTGTCCTAGCCCGTGT
59496362 CCCTCACACA
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 100 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (85 bp):
ACACGCCCGTGTCCTAGCCCGTGTGCAAAGACATAGACATTCTGTTTCTGACGTCAACATCCTCA
ATATGTCACACGGCCAAGGC
Found at i:59497306 original size:46 final size:44
Alignment explanation
Indices: 59497218--59497434 Score: 193
Period size: 46 Copynumber: 4.7 Consensus size: 44
59497208 GGTAAGGTGT
* * *
59497218 CGATGCCATGTCCCAAACATGGTCTTACATTGACTATCATCTCACAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTCA-AGC
* *
59497266 CGACGCATGTCCCAGACATGTCTTACACTGGCTTGCATCTCGAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCAAG-C
* * *
59497312 CGATGCATGTCCCAAACATGTCTTACACTAGC-ACTAGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTC-A-TCTCAA-GC
* * ***
59497358 CGATGCCATGTCCCAGACATGGTATTACACTGGCTTTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TTCAT-CTCAAGC
59497406 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
59497435 AGCACACACA
Statistics
Matches: 140, Mismatches: 19, Indels: 22
0.77 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 68 0.49
47 41 0.29
48 23 0.16
49 2 0.01
50 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCAAGC
Found at i:59499674 original size:26 final size:26
Alignment explanation
Indices: 59499638--59499747 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
59499628 TGATAGAAAT
59499638 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
59499664 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
59499690 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
59499716 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
59499742 TGATAA
1 TGATAA
59499748 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:59500941 original size:8 final size:8
Alignment explanation
Indices: 59500924--59500959 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
59500914 CTAGATCGGC
*
59500924 AAAAGTCG
1 AAAAGCCG
59500932 AAAAGCCG
1 AAAAGCCG
59500940 AAAAGCCG
1 AAAAGCCG
*
59500948 AAATGCCG
1 AAAAGCCG
59500956 AAAA
1 AAAA
59500960 CCGGTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.53, C:0.19, G:0.22, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:59511434 original size:21 final size:21
Alignment explanation
Indices: 59511365--59511438 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
59511355 TAACTCATAT
*
59511365 GAGTTTTAG-TTAACCCTTAC
1 GAGTTTCAGTTTAACCCTTAC
* * * *
59511385 GGGTTTCAGTTCAACTCTTAG
1 GAGTTTCAGTTTAACCCTTAC
* *
59511406 GAGCTTCAGTTTAACCCTTTC
1 GAGTTTCAGTTTAACCCTTAC
59511427 GAGTTTCAGTTT
1 GAGTTTCAGTTT
59511439 TAGCTTTTTT
Statistics
Matches: 41, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
20 7 0.17
21 34 0.83
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (21 bp):
GAGTTTCAGTTTAACCCTTAC
Found at i:59511461 original size:21 final size:21
Alignment explanation
Indices: 59511437--59511503 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
59511427 GAGTTTCAGT
* *
59511437 TTTAGCTTTTTTAAGCTTCCA
1 TTTAGCTCTTATAAGCTTCCA
* ** *
59511458 TTTAACTCTTATGGGTTTCCA
1 TTTAGCTCTTATAAGCTTCCA
*
59511479 TTTAGCTCTTATGAGCTTCCA
1 TTTAGCTCTTATAAGCTTCCA
59511500 TTTA
1 TTTA
59511504 ACCTTTTTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.49
Consensus pattern (21 bp):
TTTAGCTCTTATAAGCTTCCA
Found at i:59511533 original size:43 final size:42
Alignment explanation
Indices: 59511450--59511540 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 42
59511440 AGCTTTTTTA
* *
59511450 AGCTTCCATTTAACTCTTATGGGTTTCCATTTAGCTCTTATG
1 AGCTTCCATTTAACTCTTATAGGTTTCCATTTAGCACTTATG
* * ** *
59511492 AGCTTCCATTTAACCTTTTTTAGGTTTCTGTTTGGCACTTATG
1 AGCTTCCATTTAA-CTCTTATAGGTTTCCATTTAGCACTTATG
*
59511535 TGCTTC
1 AGCTTC
59511541 AGTTAGCCTC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 13 0.32
43 27 0.68
ACGTcount: A:0.16, C:0.21, G:0.15, T:0.47
Consensus pattern (42 bp):
AGCTTCCATTTAACTCTTATAGGTTTCCATTTAGCACTTATG
Found at i:59512543 original size:47 final size:44
Alignment explanation
Indices: 59512492--59512583 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 44
59512482 CAGATCTTAA
59512492 CTTAGAATTTAGTAGCTCAAGATATAAATAATTTAGTGACCATTACT
1 CTTAGAATTTAGTAGCTCAAGATATAAATAA---AGTGACCATTACT
59512539 CTTAGAATTTAGTAGCTCAAGATATAAATAAAGTGACCATTACT
1 CTTAGAATTTAGTAGCTCAAGATATAAATAAAGTGACCATTACT
59512583 C
1 C
59512584 GAGTGGACAG
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
44 14 0.31
47 31 0.69
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (44 bp):
CTTAGAATTTAGTAGCTCAAGATATAAATAAAGTGACCATTACT
Found at i:59522398 original size:47 final size:46
Alignment explanation
Indices: 59522324--59522593 Score: 228
Period size: 47 Copynumber: 5.8 Consensus size: 46
59522314 GTGGGTAAGG
*
59522324 TGCCGATGCCATGTCCCAGACACGGTCTTACACTAGCTCAT-ATCTCA
1 TGCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTCATCATCTCA
* * *
59522371 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATCATCTCA
* * * *
59522418 TAGCCTATGCATGTCCCAGACATGTCTTACACTGGCTTA-CATCACGA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATCATCTC-A
* * * * * *
59522465 GGTCGATGCAAGTCTCAGACATATCTTACACTAGCAC-TCATCTCGA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATCATCTC-A
* * * *
59522511 TACCGATGCCATGTCCCAGACATGGTCTTACATTGGCTC-TCATAATC-
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATCAT-CTCA
*
59522558 TGGCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGC
59522594 CTACAATAAC
Statistics
Matches: 179, Mismatches: 34, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
46 70 0.39
47 82 0.46
48 25 0.14
49 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCA
Found at i:59522578 original size:94 final size:94
Alignment explanation
Indices: 59522325--59522593 Score: 279
Period size: 94 Copynumber: 2.9 Consensus size: 94
59522315 TGGGTAAGGT
* * * *
59522325 GCCGATGCCATGTCCCAGACACGGTCTTACACTAG--CTCATATCTCATGTC-GATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATC-TGGCTGATG-CATGTCC
*
59522387 CAGACATGGTCTTACACTAACTATCATCTCGTA
63 CAGACAT-GTCTTACACTAGCTATCATCTCGTA
* * * * *
59522420 GCCTATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCA-C-GAGGTCGATGCAAGTCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATCTG-GCT-GATGCATGTCC
*
59522480 CAGACATATCTTACACTAGC-ACTCATCTCGATA
63 CAGACATGTCTTACACTAGCTA-TCATCTCG-TA
*
59522513 -CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATCTGGCTGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCTGGCTGATGCATGTCCCAG
59522577 ACATGTCTTACACTAGC
66 ACATGTCTTACACTAGC
59522594 CTACAATAAC
Statistics
Matches: 143, Mismatches: 18, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
91 2 0.01
92 24 0.17
93 40 0.28
94 63 0.44
95 13 0.09
96 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCTGGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCTATCATCTCGTA
Found at i:59537136 original size:22 final size:22
Alignment explanation
Indices: 59537090--59537136 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
59537080 ATACCACATG
* *
59537090 AACTTACCTGGTCAAAATAAAA
1 AACTTACCTAGTCAAAACAAAA
*
59537112 AACTTACCTAGTCAAAACAACA
1 AACTTACCTAGTCAAAACAAAA
59537134 AAC
1 AAC
59537137 AACAAACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.23, G:0.06, T:0.19
Consensus pattern (22 bp):
AACTTACCTAGTCAAAACAAAA
Found at i:59537769 original size:40 final size:40
Alignment explanation
Indices: 59537714--59537795 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
59537704 TAAGGACTAA
*
59537714 ATAGTTTTGAGCTTTCAAATATGGCTTCAGGTTTCCTTTT
1 ATAGTTTTGAGCTTTCAAACATGGCTTCAGGTTTCCTTTT
*
59537754 ATAGTTTTGAGCTTTCAAACATGGCTTCAGGTTTTCTTTT
1 ATAGTTTTGAGCTTTCAAACATGGCTTCAGGTTTCCTTTT
59537794 AT
1 AT
59537796 GTTCATTTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.48
Consensus pattern (40 bp):
ATAGTTTTGAGCTTTCAAACATGGCTTCAGGTTTCCTTTT
Found at i:59548286 original size:25 final size:25
Alignment explanation
Indices: 59548258--59548308 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
59548248 GAAAGAAAAG
59548258 TAAGTTGATTATCCTTTACTTTTCC
1 TAAGTTGATTATCCTTTACTTTTCC
59548283 TAAGTTGATTATCCTTTACTTTTCC
1 TAAGTTGATTATCCTTTACTTTTCC
59548308 T
1 T
59548309 TCTGTTACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.53
Consensus pattern (25 bp):
TAAGTTGATTATCCTTTACTTTTCC
Found at i:59548552 original size:16 final size:17
Alignment explanation
Indices: 59548521--59548554 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
59548511 TATGATTTCC
59548521 TTTCTTTAACCTTTTTT
1 TTTCTTTAACCTTTTTT
*
59548538 TTTCTTTTA-CTTTTTT
1 TTTCTTTAACCTTTTTT
59548554 T
1 T
59548555 CTTTTCCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTTTAACCTTTTTT
Found at i:59548553 original size:14 final size:14
Alignment explanation
Indices: 59548534--59548564 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
59548524 CTTTAACCTT
59548534 TTTTTTTCTTTTAC
1 TTTTTTTCTTTTAC
*
59548548 TTTTTTTCTTTTCC
1 TTTTTTTCTTTTAC
59548562 TTT
1 TTT
59548565 ACAATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTTCTTTTAC
Found at i:59558553 original size:33 final size:33
Alignment explanation
Indices: 59558511--59558577 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
59558501 TGAAATAGTG
59558511 TATGAGTTAATTGAATATAATCATATGAATTAA
1 TATGAGTTAATTGAATATAATCATATGAATTAA
59558544 TATGAGTTAATTGAATATAATCATATGAATTAA
1 TATGAGTTAATTGAATATAATCATATGAATTAA
59558577 T
1 T
59558578 TATAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (33 bp):
TATGAGTTAATTGAATATAATCATATGAATTAA
Found at i:59558651 original size:18 final size:18
Alignment explanation
Indices: 59558620--59558666 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
59558610 CCCAAGCCCA
59558620 AAATAAAAAC-AAAAAAT
1 AAATAAAAACAAAAAAAT
59558637 AAATAAAAACAAAAAAAT
1 AAATAAAAACAAAAAAAT
59558655 AAA-ACAAAACAA
1 AAATA-AAAACAA
59558667 TAATTAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.09
Consensus pattern (18 bp):
AAATAAAAACAAAAAAAT
Found at i:59561540 original size:130 final size:130
Alignment explanation
Indices: 59561293--59561655 Score: 345
Period size: 131 Copynumber: 2.8 Consensus size: 130
59561283 TAAAAATTCT
* * ** *
59561293 TTAAAACGAAGACAAGATTTAATATTTGGCAATTCGTGGAATCGTGCCTTAACGTGCTGGGTTGC
1 TTAAAACGAAGACAATACTCGATATTTGGCAATTCG-GGAATCGTGCCTTATCGTGCTGGGTTGC
* * * * *
59561358 AATTTCGCGTTTGCTCAAAATAATTGAATATCCCTTCAAAATTCCACCCATGTCTT-TT-AAAAG
65 GATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAAAATTCCACCCATGT-TTATTAAAAAG
59561421 TCCC
129 --CC
* * * * *
59561425 TT-AAACGAAGACAATACTCGGTGTTTGACAATTCGGGAATCATGCCTTATCGTGCTGGGTTGTG
1 TTAAAACGAAGACAATACTCGATATTTGGCAATTCGGGAATCGTGCCTTATCGTGCTGGGTTGCG
* * *** * * *
59561489 ATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTTTATTAAAAAGCT
66 ATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAAAATTCCACCCATGTTTATTAAAAAGCC
* * ** * * * *
59561554 TTCAAAACGAAGGCGATGTTCGATATTTGGCGATTTGAGAATCGTGCCCTATCGTGCTGGGTTGC
1 TT-AAAACGAAGACAATACTCGATATTTGGCAATTCGGGAATCGTGCCTTATCGTGCTGGGTTGC
* * * *
59561619 GCTTTTTCATTTGTTCAAAACAATCGAAGATCCCTTC
65 GATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTC
59561656 GGAATTTCAC
Statistics
Matches: 185, Mismatches: 42, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
129 5 0.03
130 68 0.37
131 110 0.59
132 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (130 bp):
TTAAAACGAAGACAATACTCGATATTTGGCAATTCGGGAATCGTGCCTTATCGTGCTGGGTTGCG
ATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAAAATTCCACCCATGTTTATTAAAAAGCC
Found at i:59569821 original size:50 final size:51
Alignment explanation
Indices: 59569744--59569872 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
59569734 GACCATGGAA
* *
59569744 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
*
59569795 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
59569845 ACAAGTGAAAAGTGGTAGCTTTGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
59569873 CTAATTAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 47 0.67
51 23 0.33
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:59569886 original size:31 final size:31
Alignment explanation
Indices: 59569848--59570058 Score: 278
Period size: 31 Copynumber: 6.8 Consensus size: 31
59569838 ACAAATGACA
* * *
59569848 AGTGAAAAGTGGTAGCTTTGGCTACCTAATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
59569879 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
59569910 AGTGAAAAGTGATAGCTTCTGCTGCCTGATA
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
59569941 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
59569972 AGTGAAAAATGGTAGCTCCGACTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
59570003 AATGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
59570034 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
59570059 AAGTGACAAG
Statistics
Matches: 158, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 158 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:59570231 original size:49 final size:48
Alignment explanation
Indices: 59570080--59570249 Score: 186
Period size: 47 Copynumber: 3.6 Consensus size: 48
59570070 GATTTTCGTA
* * * * *
59570080 TAAGACCATATCTGGGATATGGCATCG-GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTAC-GTG
* * * *
59570127 TAAGACCATATCTGGGATATGGCATC-AGTGAGTTATGTGATT-CGTG
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
*
59570173 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGA-ATGTGATATGTGATTACGTG
* *
59570222 TAAGACCATAGCTGGGCTATGACATCGA
1 TAAGACCATAGCTGGGATATGGCATCGA
59570250 TATATGAAGA
Statistics
Matches: 107, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
46 26 0.24
47 37 0.35
48 13 0.12
49 31 0.29
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
Found at i:59570250 original size:49 final size:48
Alignment explanation
Indices: 59570074--59570291 Score: 168
Period size: 47 Copynumber: 4.7 Consensus size: 48
59570064 ACAAGTGATT
* * * * * * *
59570074 TTCGTATAAGACCATATCTGGGATATGGCATCG--GTGTGATATATGC
1 TTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGA
* * * * * * * *
59570120 TACTGTATAAGACCATATCTGGGATATGGCATC-A-GTGAGTTATGTGA
1 TTC-GTGTAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGA
*
59570167 TTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGA
1 TTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGA
*
59570215 TTACGTGTAAGACCATAGCTGGGCTATGACATCGATATATGA-A---GA
1 TT-CGTGTAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGA
* **
59570260 -T-GTGTAAGACCATAGTTGAACTATGACATCGA
1 TTCGTGTAAGACCATAGCTGGGCTATGACATCGA
59570292 GTAAACGAAG
Statistics
Matches: 150, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
42 28 0.19
44 1 0.01
45 2 0.01
46 28 0.19
47 41 0.27
48 13 0.09
49 37 0.25
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (48 bp):
TTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGA
Found at i:59574141 original size:26 final size:26
Alignment explanation
Indices: 59574112--59574219 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
59574102 TGGTACAAAT
59574112 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
59574138 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59574164 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59574190 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59574216 TGAT
1 TGAT
59574220 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59575928 original size:54 final size:53
Alignment explanation
Indices: 59575790--59575930 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
59575780 AGGAAGCGTC
*
59575790 CTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAA-TATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
59575844 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-AATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
59575898 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACAATATCTG-ATCTGGTG
59575931 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
53 7 0.09
54 73 0.90
55 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:59575941 original size:27 final size:27
Alignment explanation
Indices: 59575790--59575948 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
59575780 AGGAAGCGTC
*
59575790 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
59575817 CTGATGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
59575844 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
59575871 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
59575898 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
59575925 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
59575949 GCAGCCTCAC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:59579754 original size:14 final size:14
Alignment explanation
Indices: 59579735--59579761 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59579725 TACTCACAAT
59579735 TATTTTTTATTATC
1 TATTTTTTATTATC
59579749 TATTTTTTATTAT
1 TATTTTTTATTAT
59579762 TAAATTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTTTATTATC
Found at i:59579796 original size:17 final size:18
Alignment explanation
Indices: 59579776--59579813 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
59579766 TTTATATATT
59579776 ATATTA-ATTATTACAAA
1 ATATTATATTATTACAAA
* *
59579793 ATATTATTTTATTATAAA
1 ATATTATATTATTACAAA
59579811 ATA
1 ATA
59579814 AATTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATATTATTACAAA
Found at i:59579820 original size:17 final size:18
Alignment explanation
Indices: 59579783--59579830 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
59579773 ATTATATTAA
*
59579783 TTATTACAAAATATTATT
1 TTATTACAAAATATAATT
*
59579801 TTATTATAAAATA-AATT
1 TTATTACAAAATATAATT
59579818 TTAATTACCAAAA
1 TT-ATTA-CAAAA
59579831 CAAAGTTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 5 0.20
18 16 0.64
19 4 0.16
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
TTATTACAAAATATAATT
Found at i:59587272 original size:9 final size:10
Alignment explanation
Indices: 59587245--59587302 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 10
59587235 CCAGTGTAGG
59587245 GAAGAAAAGAGA
1 GAAG-AAAG-GA
59587257 GAAAGAAAGGA
1 G-AAGAAAGGA
59587268 G-AGAAAGGA
1 GAAGAAAGGA
*
59587277 GAAGAAA-AA
1 GAAGAAAGGA
*
59587286 GAAG-AAGAA
1 GAAGAAAGGA
59587295 GAAGAAAG
1 GAAGAAAG
59587303 AATAAAAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
8 2 0.05
9 20 0.49
10 8 0.20
11 3 0.07
12 5 0.12
13 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (10 bp):
GAAGAAAGGA
Found at i:59587548 original size:60 final size:60
Alignment explanation
Indices: 59587479--59587602 Score: 205
Period size: 60 Copynumber: 2.1 Consensus size: 60
59587469 AACGTATTTT
* *
59587479 TTTATAATTATTTTAAAATTAATTTGTTAGTAATTT-AGGATTATGCTATAAATTGTTGTG
1 TTTATAATTATTTTAAAACTAATTTATTAGTAATTTAAGG-TTATGCTATAAATTGTTGTG
*
59587539 TTTATAATTATTTTAAAACTAATTTATTAGTAATTTAAGGTTATGTTATAAATTGTTGTG
1 TTTATAATTATTTTAAAACTAATTTATTAGTAATTTAAGGTTATGCTATAAATTGTTGTG
59587599 TTTA
1 TTTA
59587603 GTTTAGTATT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 57 0.95
61 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (60 bp):
TTTATAATTATTTTAAAACTAATTTATTAGTAATTTAAGGTTATGCTATAAATTGTTGTG
Found at i:59587826 original size:15 final size:16
Alignment explanation
Indices: 59587801--59587830 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59587791 GTGATTTTTT
59587801 TAATGTAAATTTTATA
1 TAATGTAAATTTTATA
59587817 TAATGT-AATTTTAT
1 TAATGTAAATTTTAT
59587831 TTGATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TAATGTAAATTTTATA
Found at i:59589893 original size:33 final size:33
Alignment explanation
Indices: 59589856--59589949 Score: 109
Period size: 33 Copynumber: 2.8 Consensus size: 33
59589846 CATCCCGACT
** *
59589856 CGTATCCACCTTAGTACTCCGCTTCTTC-CGGCC
1 CGTATCCACCGCAGTACTCCAC-TCTTCTCGGCC
*
59589889 CGTATCCACCGCCGTACTCCACTCTTCTCGGCC
1 CGTATCCACCGCAGTACTCCACTCTTCTCGGCC
* *
59589922 TGTATCCACCGCCGTACTCCACTACTTC
1 CGTATCCACCGCAGTACTCCACT-CTTC
59589950 CAGCTCAAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 5 0.09
33 45 0.83
34 4 0.07
ACGTcount: A:0.14, C:0.45, G:0.14, T:0.28
Consensus pattern (33 bp):
CGTATCCACCGCAGTACTCCACTCTTCTCGGCC
Found at i:59590231 original size:76 final size:76
Alignment explanation
Indices: 59590143--59590375 Score: 319
Period size: 78 Copynumber: 3.1 Consensus size: 76
59590133 AATAACTTCA
* *
59590143 TATTTATATAATGACTTTTTCTCCATTTTAGTTATTAATTTTATGGTTTTTTTTACAATTTAAAT
1 TATTTATGTAATGACTTTTTCTCCATTTTAGTTATTAATTTTATGGTTTTTTTTGCAATTTAAAT
59590208 AGTAAACTTTG
66 AGTAAACTTTG
59590219 TATTTATGTAATGACTTTTT-TGCCATTTTAGTTATTAATTTTATGAGTTTTTTTTTGCAATTTA
1 TATTTATGTAATGACTTTTTCT-CCATTTTAGTTATTAATTTTATG-G-TTTTTTTTGCAATTTA
* *
59590283 AATAG-ACAATTTTT
63 AATAGTA-AACTTTG
* * * **
59590297 TATTTATGTAATGACTTTTTCACTATTTCAGTTATTAATTTTA-GGAGTTTTTTGCAATTTAAAT
1 TATTTATGTAATGACTTTTTCTCCATTTTAGTTATTAATTTTATGGTTTTTTTTGCAATTTAAAT
*
59590361 AATAAACTTTG
66 AGTAAACTTTG
59590372 TATT
1 TATT
59590376 ATTTACATAA
Statistics
Matches: 139, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
75 28 0.20
76 44 0.32
77 3 0.02
78 64 0.46
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.55
Consensus pattern (76 bp):
TATTTATGTAATGACTTTTTCTCCATTTTAGTTATTAATTTTATGGTTTTTTTTGCAATTTAAAT
AGTAAACTTTG
Found at i:59592180 original size:67 final size:64
Alignment explanation
Indices: 59592042--59592294 Score: 201
Period size: 68 Copynumber: 3.9 Consensus size: 64
59592032 CATAATTTTG
* * * * * * *
59592042 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACACATGCGACCTAGCTACA-TATATCCCGT
59592104 A
64 A
* *
59592105 GCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACACATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGAACCACACATGCGACCTAGCTACATATATCCCG
59592170 TA
63 TA
* * * **
59592172 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACACATGCGACCTAGCTACAT-AT-A--TCCC
59592237 GTA
62 GTA
* * * * *
59592240 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGAACCACACATGCGACCTAGCTACATA
59592295 CCATCTGTAT
Statistics
Matches: 156, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 29 0.19
65 2 0.01
66 24 0.15
67 31 0.20
68 50 0.32
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACACATGCGACCTAGCTACATATATCCCGTA
Found at i:59596348 original size:23 final size:23
Alignment explanation
Indices: 59596285--59596350 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
59596275 ATACACGGAT
*
59596285 TCCAACCAAACACACCAAAATAA
1 TCCAACCAAACACACCAGAATAA
*
59596308 TCCAACTAAACACACCAGAATAA
1 TCCAACCAAACACACCAGAATAA
*
59596331 TCCACCCAAACACACCAGAA
1 TCCAACCAAACACACCAGAA
59596351 CGACACTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.52, C:0.36, G:0.03, T:0.09
Consensus pattern (23 bp):
TCCAACCAAACACACCAGAATAA
Found at i:59596548 original size:24 final size:24
Alignment explanation
Indices: 59596496--59596554 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
59596486 AGGGTATTCA
59596496 ACTT-TCATA-TTTCAATTCAATC
1 ACTTCTCATATTTTCAATTCAATC
*
59596518 ACTTTCTCATATTTTCCATTCAAATC
1 AC-TTCTCATATTTTCAATTC-AATC
59596544 A-TTCTCA-ATTT
1 ACTTCTCATATTT
59596555 AATCAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
22 2 0.06
23 6 0.19
24 11 0.34
25 8 0.25
26 5 0.16
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (24 bp):
ACTTCTCATATTTTCAATTCAATC
Found at i:59597323 original size:92 final size:92
Alignment explanation
Indices: 59597188--59597460 Score: 411
Period size: 92 Copynumber: 3.0 Consensus size: 92
59597178 TTTAACATGA
* * * *
59597188 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
** *
59597253 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTACACATTTCATATCACGC
* * *
59597280 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
*
59597345 CATGGTCTTACACATTTCATATCAGGC
66 CATGGTCTTACACATTTCATATCACGC
* * * *
59597372 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
59597437 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTACACATTTCATATCA
59597461 GAGAGCACAC
Statistics
Matches: 163, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 163 1.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGC
Found at i:59597457 original size:46 final size:46
Alignment explanation
Indices: 59597188--59597461 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
59597178 TTTAACATGA
* * * * * *
59597188 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
59597234 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *** *
59597280 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
59597326 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
59597372 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
59597418 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
59597462 AGAGCACACT
Statistics
Matches: 207, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 203 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:59599638 original size:18 final size:20
Alignment explanation
Indices: 59599623--59599659 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59599613 TAATAATAAA
*
59599623 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
59599643 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
59599660 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:59600226 original size:63 final size:63
Alignment explanation
Indices: 59600153--59600278 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
59600143 GATATCTATA
59600153 CATAATTTTACTTCATCTCAATTTCATTCATTTCAATATTGATACTTACCTTAAAATTTTACT
1 CATAATTTTACTTCATCTCAATTTCATTCATTTCAATATTGATACTTACCTTAAAATTTTACT
59600216 CATAATTTTACTTCATCTCAATTTCATTCATTTCAATATTGATACTTACCTTAAAATTTTACT
1 CATAATTTTACTTCATCTCAATTTCATTCATTTCAATATTGATACTTACCTTAAAATTTTACT
59600279 TACCATATAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.32, C:0.19, G:0.02, T:0.48
Consensus pattern (63 bp):
CATAATTTTACTTCATCTCAATTTCATTCATTTCAATATTGATACTTACCTTAAAATTTTACT
Found at i:59601018 original size:3 final size:3
Alignment explanation
Indices: 59601002--59601055 Score: 67
Period size: 3 Copynumber: 18.0 Consensus size: 3
59600992 TATGCATTAG
*
59601002 ATA ATA A-A ATTA ATA ATA ATA ATA ATA ATA CATT ATA ATA ATA AT-
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
59601047 ATA ATA ATA
1 ATA ATA ATA
59601056 TTTAATTCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 4 0.09
3 37 0.82
4 4 0.09
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:59606681 original size:29 final size:29
Alignment explanation
Indices: 59606647--59606706 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
59606637 TATAAAACAC
*
59606647 AAAAAATATATC-AAAATTCTAAAAAATTA
1 AAAAAATACATCAAAAATT-TAAAAAATTA
*
59606676 AAAAAATACATCAAAAATTTTAAAAATTA
1 AAAAAATACATCAAAAATTTAAAAAATTA
59606705 AA
1 AA
59606707 TAAGTTTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAAAATACATCAAAAATTTAAAAAATTA
Found at i:59611871 original size:5 final size:5
Alignment explanation
Indices: 59611863--59611917 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
59611853 TAAGTTAATA
* *
59611863 TATAT TATAA TATACT TAAGTAT TA-AG TATA- TATAT TATAT TATAT
1 TATAT TATAT TATA-T T-A-TAT TATAT TATAT TATAT TATAT TATAT
59611909 TATAT TATA
1 TATAT TATA
59611918 ATAAAACAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
4 7 0.17
5 28 0.67
6 2 0.05
7 3 0.07
8 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (5 bp):
TATAT
Found at i:59611960 original size:16 final size:15
Alignment explanation
Indices: 59611915--59611962 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
59611905 ATATTATATT
59611915 ATAATAAAACAAAATA
1 ATAATAAAAC-AAATA
* *
59611931 ATAATATAACAAATGG
1 ATAATAAAACAAAT-A
59611947 ATAATAAAACAAATA
1 ATAATAAAACAAATA
59611962 A
1 A
59611963 ATGAAAGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (15 bp):
ATAATAAAACAAATA
Found at i:59612744 original size:11 final size:11
Alignment explanation
Indices: 59612701--59612749 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
59612691 ATGATGAATT
*
59612701 TATTGAATTTA
1 TATTGAATATA
59612712 TATT-AAT-TA
1 TATTGAATATA
*
59612721 AATTGATATATA
1 TATTGA-ATATA
59612733 TATTGAATATA
1 TATTGAATATA
59612744 TATTGA
1 TATTGA
59612750 TTATTTGAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 5 0.15
10 4 0.12
11 17 0.52
12 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (11 bp):
TATTGAATATA
Found at i:59614571 original size:20 final size:20
Alignment explanation
Indices: 59614535--59614574 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
59614525 TATTTATAAC
*
59614535 ATAAAAAAATATTTTAAATT
1 ATAAAAAAATATATTAAATT
59614555 ATAAAAAAAGTA-ATTAAATT
1 ATAAAAAAA-TATATTAAATT
59614575 TAACATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
ATAAAAAAATATATTAAATT
Found at i:59617693 original size:21 final size:22
Alignment explanation
Indices: 59617664--59617710 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
59617654 CAGAAGGAGT
*
59617664 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
59617686 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
59617707 GAGT
1 GAGT
59617711 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:59626273 original size:23 final size:23
Alignment explanation
Indices: 59626243--59626290 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
59626233 AAACACCTAA
*
59626243 AAGAACTTGTTTGTAAGACATGT
1 AAGAACTTGTTTGTAAAACATGT
59626266 AAGAACTTGTTTGTAAAACATGT
1 AAGAACTTGTTTGTAAAACATGT
59626289 AA
1 AA
59626291 AAATAGGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (23 bp):
AAGAACTTGTTTGTAAAACATGT
Found at i:59626927 original size:42 final size:43
Alignment explanation
Indices: 59626845--59626945 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 43
59626835 TGTGTTATCA
* * * * * *
59626845 TGTAAGACCATATCTGGGATATGGTATTGATATGAGA-TTTTG
1 TGTAAGACCATATCTGGGACATGGCATCGAAATAAAATTTTTG
* *
59626887 TGTAAGACCATGTTTGGGACATGGCATCGAAATAAAATTTTTG
1 TGTAAGACCATATCTGGGACATGGCATCGAAATAAAATTTTTG
*
59626930 TATAAGACCATATCTG
1 TGTAAGACCATATCTG
59626946 ATATATGGCA
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
42 29 0.62
43 18 0.38
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACATGGCATCGAAATAAAATTTTTG
Found at i:59638949 original size:93 final size:93
Alignment explanation
Indices: 59638837--59639008 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
59638827 CGCCCATAAG
*
59638837 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
59638901 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
59638930 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59638995 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59639009 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59639003 original size:46 final size:46
Alignment explanation
Indices: 59638830--59639005 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
59638820 TGTAACCCGC
* *
59638830 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
59638876 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
59638926 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59638969 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59639006 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59641262 original size:15 final size:13
Alignment explanation
Indices: 59641242--59641298 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
59641232 TATTTTAGAT
59641242 TTTGTTTCATTTTTA
1 TTTGTTT-A-TTTTA
59641257 TTTGTTTATTTTA
1 TTTGTTTATTTTA
*
59641270 TTTATTTA-TTTA
1 TTTGTTTATTTTA
* *
59641282 -GTATTTATTTTA
1 TTTGTTTATTTTA
59641294 TTTGT
1 TTTGT
59641299 GTTTAGTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 6 0.17
12 8 0.22
13 14 0.39
14 1 0.03
15 7 0.19
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.74
Consensus pattern (13 bp):
TTTGTTTATTTTA
Found at i:59641303 original size:15 final size:15
Alignment explanation
Indices: 59641261--59641308 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
59641251 TTTTTATTTG
59641261 TTTATTT-TATTTA-
1 TTTATTTGTATTTAT
59641274 TTTATTTAGTATTTAT
1 TTTATTT-GTATTTAT
*
59641290 TTTATTTGTGTTTAGT
1 TTTATTTGTATTTA-T
59641306 TTT
1 TTT
59641309 TTTCCCCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 7 0.23
15 12 0.40
16 11 0.37
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (15 bp):
TTTATTTGTATTTAT
Found at i:59655461 original size:20 final size:21
Alignment explanation
Indices: 59655425--59655464 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
59655415 AAGTTATTTT
59655425 AGTTGATAGTTTAAATTTATA
1 AGTTGATAGTTTAAATTTATA
59655446 AGTTGA-AGTTGT-AATTTAT
1 AGTTGATAGTT-TAAATTTAT
59655465 TATAATGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (21 bp):
AGTTGATAGTTTAAATTTATA
Found at i:59658275 original size:39 final size:40
Alignment explanation
Indices: 59658230--59658397 Score: 97
Period size: 40 Copynumber: 4.2 Consensus size: 40
59658220 CGGGGTTTAG
* * *
59658230 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
59658269 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * * **
59658309 CCGGATATAGTCGCTAGCACAAATGCCTTC-GAATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
59658349 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
59658390 CCGGATAT
1 CCGGATAT
59658398 CATTGAGTAA
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 17 0.16
40 61 0.57
41 27 0.25
42 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:59658300 original size:40 final size:40
Alignment explanation
Indices: 59658253--59658397 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
59658243 CTCGCACAAG
* * * * *
59658253 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
59658293 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
59658333 GCCTTC-GAATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
59658374 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
59658398 CATTGAGTAA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 59 0.66
41 27 0.30
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:59659627 original size:38 final size:38
Alignment explanation
Indices: 59659585--59659660 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
59659575 CAAGAACTCC
*
59659585 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTACCTTAGAATTTTCGGCCAAAAGAAATGAA
59659623 TTCCTCCTACCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTACCTTAGAATTTTCGGCCAAAAGAAATGAA
59659661 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (38 bp):
TTCCTCCTACCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:59662152 original size:27 final size:27
Alignment explanation
Indices: 59662122--59662299 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
59662112 ATATTGAGCC
* *
59662122 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
59662149 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
59662176 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
59662204 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
59662231 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
59662258 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
59662285 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59662300 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:59662234 original size:55 final size:54
Alignment explanation
Indices: 59662122--59662299 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
59662112 ATATTGAGCC
* * * * *
59662122 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
59662176 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
59662231 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
59662285 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59662300 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:59695011 original size:50 final size:50
Alignment explanation
Indices: 59694946--59695334 Score: 325
Period size: 50 Copynumber: 7.7 Consensus size: 50
59694936 ACCGAAGCTC
* *
59694946 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* *** * * * * * *
59694996 TCTGGTACATGTAGTAGCCTATGCTTGGTACTATACACGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* **
59695046 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGT-T-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACT--ACACATG--CGACCTATCAA
* * * *
59695098 T-GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * *
59695147 TCCGGTACACGTAGTAACCTGCACTTAGTACTACACATGTGACCTACCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * * * ** * *
59695197 TCTGATACACGTAATAGCTTGCACATAGTACTACATACGTGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCTATCAA
* * * * * *
59695248 TCGGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCGAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* *
59695298 TCTGGTACACGTAGTAGCCTGCACTTAATCCTACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
59695335 CGTGACCAAA
Statistics
Matches: 262, Mismatches: 69, Indels: 16
0.76 0.20 0.05
Matches are distributed among these distances:
47 3 0.01
48 1 0.00
49 10 0.04
50 174 0.66
51 63 0.24
52 7 0.03
53 1 0.00
54 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:59695220 original size:151 final size:151
Alignment explanation
Indices: 59694949--59695341 Score: 554
Period size: 151 Copynumber: 2.6 Consensus size: 151
59694939 GAAGCTCTCT
*
59694949 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*** * * * * * *
59695014 CTATGCTTGGTACTATACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTACCCATCTGATACACGTAATAGCCTGCACATAGTACTA
**
59695079 CACACATGATCGAAGTTAAT-G
131 CACACATGATCGAAACT-ATCG
* * *
59695100 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCCGGTACACGTAGTAAC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
59695165 CTGCACTTAGTACTACACATGTGACCTACCCATCTGATACACGTAATAGCTTGCACATAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTACCCATCTGATACACGTAATAGCCTGCACATAGTACTA
* *
59695230 CATACGTGATCGAAACTATCG
131 CACACATGATCGAAACTATCG
* * *
59695251 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCGAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
59695316 CTGCACTTAATCCTACACACGTGACC
66 CTGCACTTAGTACTACACACGTGACC
59695342 AAAAACTGTC
Statistics
Matches: 213, Mismatches: 28, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
150 2 0.01
151 211 0.99
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTACCCATCTGATACACGTAATAGCCTGCACATAGTACTA
CACACATGATCGAAACTATCG
Found at i:59695387 original size:102 final size:101
Alignment explanation
Indices: 59695158--59695388 Score: 273
Period size: 101 Copynumber: 2.3 Consensus size: 101
59695148 CCGGTACACG
* * * * * * *
59695158 TAGTAACCTGCACTTAGTACTACACATGTGACCTACCCATCTGATACACGTAATAGCTTGCACAT
1 TAGTAGCCTGCACATAGTACTACACATGCGACCGAACAATCTGATACACGTAATAGCCTGCACAT
* * * * ***
59695223 AGTACTACATACGTGATCGAAACTATCGGGTACGCA
66 AATACTACACACGTGACCAAAACTATCGCAAACGCA
* * *
59695259 TAGTAGCCTGCACATAGTACTACACATGCGACCGAACAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACATAGTACTACACATGCGACCGAACAATCTGATACACGTAATAGCCTGCACAT
* * *
59695324 AATCCTACACACGTGACCAAAAACTGTCTCAAACGCA
66 AATACTACACACGTGACC-AAAACTATCGCAAACGCA
59695361 TAGTAGCCTGCACATAGTACTACACATG
1 TAGTAGCCTGCACATAGTACTACACATG
59695389 TGTTCTCAGA
Statistics
Matches: 109, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
101 69 0.63
102 40 0.37
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (101 bp):
TAGTAGCCTGCACATAGTACTACACATGCGACCGAACAATCTGATACACGTAATAGCCTGCACAT
AATACTACACACGTGACCAAAACTATCGCAAACGCA
Found at i:59703368 original size:48 final size:48
Alignment explanation
Indices: 59703248--59703628 Score: 367
Period size: 48 Copynumber: 7.9 Consensus size: 48
59703238 AAGGTAAGAT
* * * *
59703248 GCCGATACCATGT-CCAATACATGGTCTTACACTGGCTCTCATAT-ATCGG
1 GCCGATGCCATGTCCCAA-ACATGGTCTTACACTAGCTCACATATCA--AG
* * *
59703297 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAG
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * *
59703346 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * * * * *
59703394 GTCGATGCCATGTTCAAAACATGGTCTTACACTGGATTACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * * *
59703442 GTCGATGCCATGTCCCAGACATGGTCTTACACTATCT-ATCATATAAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCA-CATATCAAG
* * *
59703490 GTCGATGCCATG-CTCCAAACATGGTCTTACACTGGCTCACATATCAAA
1 GCCGATGCCATGTC-CCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * *
59703538 GCCGACGCCATGTCCCAAACATGGTCTTACAATAGCTCTCATA-CAAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATC-AAG
* * *
59703586 GTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
59703629 ACCCTAGTAT
Statistics
Matches: 274, Mismatches: 50, Indels: 16
0.81 0.15 0.05
Matches are distributed among these distances:
47 3 0.01
48 229 0.84
49 3 0.01
50 35 0.13
51 4 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAG
Found at i:59703448 original size:96 final size:96
Alignment explanation
Indices: 59703248--59703628 Score: 546
Period size: 96 Copynumber: 3.9 Consensus size: 96
59703238 AAGGTAAGAT
* * * * ** *
59703248 GCCGATACCATGTCCAATACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGTCGATGCCATGTTC
* *
59703313 CAAACATGGTCTTACACTAGCTCACATGTCGAG
64 CAAACATGGTCTTACACTGGCTCACATATCGAG
*
59703346 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
* *
59703411 AACATGGTCTTACACTGGATTACATATCGAG
66 AACATGGTCTTACACTGGCTCACATATCGAG
* * * *
59703442 GTCGATGCCATGTCCCAGACATGGTCTTACACTATCTATCATATAAATGTCGATGCCATGCTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
* *
59703507 AACATGGTCTTACACTGGCTCACATATCAAA
66 AACATGGTCTTACACTGGCTCACATATCGAG
* * * *
59703538 GCCGACGCCATGTCCCAAACATGGTCTTACAATAGCTCTCATACAAATGTCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
59703603 AACATGGTCTTACACTGGCTCACATA
66 AACATGGTCTTACACTGGCTCACATA
59703629 ACCCTAGTAT
Statistics
Matches: 254, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 213 0.84
98 41 0.16
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
AACATGGTCTTACACTGGCTCACATATCGAG
Found at i:59703517 original size:144 final size:145
Alignment explanation
Indices: 59703248--59703628 Score: 434
Period size: 144 Copynumber: 2.6 Consensus size: 145
59703238 AAGGTAAGAT
* * * *
59703248 GCCGATACCATGTCCAATACATGGTCTTACACTGGCTCTCATATATCG-GTGCCGATGCCATGTT
1 GCCGATGCCATGTCCAAAACATGGTCTTACACTGGCTCT-ACATATCGAG-GTCGATGCCATGTT
* ** *
59703312 CCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCAGACATGGTCTTACA
64 CCAAACATGGTCTTACACTAGCTCACATATAAAGGCCGATGCCATGTCCCAAACATGGTCTTACA
*
59703377 CTAGCTCTCATAT-AAA
129 CTAGCTCACATATCAAA
* * * *
59703393 TGTCGATGCCATGTTCAAAACATGGTCTTACACTGGAT-TACATATCGAGGTCGATGCCATGTCC
1 -GCCGATGCCATGTCCAAAACATGGTCTTACACTGGCTCTACATATCGAGGTCGATGCCATGTTC
* * * *
59703457 CAGACATGGTCTTACACTATCT-ATCATATAAATGTCGATGCCATG-CTCCAAACATGGTCTTAC
65 CAAACATGGTCTTACACTAGCTCA-CATATAAAGGCCGATGCCATGTC-CCAAACATGGTCTTAC
*
59703520 ACTGGCTCACATATCAAA
128 ACTAGCTCACATATCAAA
* * * * * *
59703538 GCCGACGCCATGTCCCAAACATGGTCTTACAATAGCTCT-CATA-CAAATGTCGATGCCATGTTC
1 GCCGATGCCATGTCCAAAACATGGTCTTACACTGGCTCTACATATC-GAGGTCGATGCCATGTTC
*
59703601 CAAACATGGTCTTACACTGGCTCACATA
65 CAAACATGGTCTTACACTAGCTCACATA
59703629 ACCCTAGTAT
Statistics
Matches: 197, Mismatches: 31, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
143 3 0.02
144 155 0.79
145 7 0.04
146 32 0.16
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (145 bp):
GCCGATGCCATGTCCAAAACATGGTCTTACACTGGCTCTACATATCGAGGTCGATGCCATGTTCC
AAACATGGTCTTACACTAGCTCACATATAAAGGCCGATGCCATGTCCCAAACATGGTCTTACACT
AGCTCACATATCAAA
Found at i:59704430 original size:18 final size:18
Alignment explanation
Indices: 59704407--59704443 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
59704397 AAGAGAAAGA
*
59704407 ATGAAAAATATGATAGCT
1 ATGAAAAAGATGATAGCT
59704425 ATGAAAAAGATGATAGCT
1 ATGAAAAAGATGATAGCT
59704443 A
1 A
59704444 GTCCTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.19, T:0.24
Consensus pattern (18 bp):
ATGAAAAAGATGATAGCT
Found at i:59705644 original size:30 final size:30
Alignment explanation
Indices: 59705598--59705658 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59705588 TTCCAGAGCC
*
59705598 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGAAAAAGTT
* * * *
59705628 TAGGGGCAAAATTGTAATTTTGAAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGAAAAAGTT
59705658 T
1 T
59705659 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.43, C:0.03, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGAAAAAGTT
Found at i:59711073 original size:28 final size:28
Alignment explanation
Indices: 59711025--59711089 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
59711015 GCGTCCCTAG
59711025 CCCGTGTCCCCCAAATAGCCTAGACACA
1 CCCGTGTCCCCCAAATAGCCTAGACACA
* * * *
59711053 CCCGTGTCCCTCACATGGCCTAGACACG
1 CCCGTGTCCCCCAAATAGCCTAGACACA
59711081 CCCGTGTCC
1 CCCGTGTCC
59711090 AAAAACATGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.20, C:0.45, G:0.18, T:0.17
Consensus pattern (28 bp):
CCCGTGTCCCCCAAATAGCCTAGACACA
Found at i:59717134 original size:48 final size:48
Alignment explanation
Indices: 59717025--59717397 Score: 367
Period size: 48 Copynumber: 7.7 Consensus size: 48
59717015 ATGCCAATGT
* * *
59717025 CATGT-CCAAGACATGGTCTTACACTGGTTCTCATATATCG-GTGCCAATGC
1 CATGTCCCAA-ACATGGTCTTACACTAG--CTCACATATCGAG-GCCGATGC
* *
59717075 CATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
* * ** ** * *
59717123 CATGTCCCAAACATGGTCTTACATTAGCTCTCATATAAATACCAACGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
* * *
59717171 CATG-CTCCAAACATGGTCTTACACTGGCTTACATATCGAGGTCGATGC
1 CATGTC-CCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
* * * ** * * *
59717219 CATGTCCCAGACATGGTCTTACACTAGTTCTCATATAAATGTCGATGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
* *
59717267 CATG-CTCCAAACATGGTCTTACACTGGCTCACATATCGAAGCCGATGC
1 CATGTC-CCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
* ** * *
59717315 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
* *
59717363 CATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATA
59717398 ACCCTAGTAT
Statistics
Matches: 265, Mismatches: 52, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
47 2 0.01
48 235 0.89
49 3 0.01
50 21 0.08
51 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
Found at i:59717210 original size:96 final size:96
Alignment explanation
Indices: 59717025--59717397 Score: 523
Period size: 96 Copynumber: 3.9 Consensus size: 96
59717015 ATGCCAATGT
* * ** *
59717025 CATGT-CCAAGACATGGTCTTACACTGGTTCTCATATATCGGTGCCAATGCCATGTTCCAAACAT
1 CATGTCCCAA-ACATGGTCTTACACTAGCTCTCATATA--AATGCCAATGCCATGCTCCAAACAT
* *
59717089 GGTCTTACACTAGCTCACATGTCGAGGCCGATGC
63 GGTCTTACACTGGCTCACATATCGAGGCCGATGC
* * *
59717123 CATGTCCCAAACATGGTCTTACATTAGCTCTCATATAAATACCAACGCCATGCTCCAAACATGGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGCTCCAAACATGGT
* *
59717188 CTTACACTGGCTTACATATCGAGGTCGATGC
66 CTTACACTGGCTCACATATCGAGGCCGATGC
* * * * *
59717219 CATGTCCCAGACATGGTCTTACACTAGTTCTCATATAAATGTCGATGTCATGCTCCAAACATGGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGCTCCAAACATGGT
*
59717284 CTTACACTGGCTCACATATCGAAGCCGATGC
66 CTTACACTGGCTCACATATCGAGGCCGATGC
* * *
59717315 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCAAACATGGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGCTCCAAACATGGT
59717380 CTTACACTGGCTCACATA
66 CTTACACTGGCTCACATA
59717398 ACCCTAGTAT
Statistics
Matches: 247, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
96 214 0.87
98 29 0.12
99 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (96 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGCTCCAAACATGGT
CTTACACTGGCTCACATATCGAGGCCGATGC
Found at i:59721849 original size:12 final size:12
Alignment explanation
Indices: 59721829--59721861 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
59721819 CAGAAAGAGA
*
59721829 ATGATATGTATC
1 ATGACATGTATC
59721841 ATGACATGTATC
1 ATGACATGTATC
59721853 ATGACATGT
1 ATGACATGT
59721862 GTATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (12 bp):
ATGACATGTATC
Found at i:59723410 original size:24 final size:24
Alignment explanation
Indices: 59723383--59723431 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
59723373 TATGTACAAC
59723383 ACAATTGAAGGGTGATCACATTAA
1 ACAATTGAAGGGTGATCACATTAA
*
59723407 ACAATTGAAGGGTGATTACATTAA
1 ACAATTGAAGGGTGATCACATTAA
59723431 A
1 A
59723432 GGTGATAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (24 bp):
ACAATTGAAGGGTGATCACATTAA
Done.