Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009254.1 Hibiscus syriacus cultivar Beakdansim tig00112902_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 155719
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:7111 original size:20 final size:20
Alignment explanation
Indices: 7086--7176 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
7076 TAAATTAAAT
*
7086 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
7106 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
7126 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
7138 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
7158 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
7177 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:7201 original size:53 final size:52
Alignment explanation
Indices: 7085--7234 Score: 275
Period size: 53 Copynumber: 2.9 Consensus size: 52
7075 CTAAATTAAA
*
7085 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
7137 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
7190 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
7235 GTTGCTAATT
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 10 0.10
52 35 0.36
53 51 0.53
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:7216 original size:20 final size:20
Alignment explanation
Indices: 7191--7230 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7181 TCTATTAGTT
*
7191 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
7211 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
7231 TTCTGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:11634 original size:14 final size:14
Alignment explanation
Indices: 11615--11644 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11605 AAATTAAATA
*
11615 TTAGATAGGATCAG
1 TTAGATAGAATCAG
11629 TTAGATAGAATCAG
1 TTAGATAGAATCAG
11643 TT
1 TT
11645 TTTATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (14 bp):
TTAGATAGAATCAG
Found at i:11664 original size:31 final size:30
Alignment explanation
Indices: 11629--11731 Score: 82
Period size: 31 Copynumber: 3.6 Consensus size: 30
11619 ATAGGATCAG
11629 TTAGATAGAATCAGTTTTTATTTATTAGTTA
1 TTAGATAGAATCA-TTTTTATTTATTAGTTA
*
11660 TTAGATAGGATC------ATTT-TTA---A
1 TTAGATAGAATCATTTTTATTTATTAGTTA
11680 TTAGATAGAATCAGTTTTTTATTTTATTAGTTA
1 TTAGATAGAATCA--TTTTTA-TTTATTAGTTA
*
11713 TTAGATAGGATCATTTTTA
1 TTAGATAGAATCATTTTTA
11732 ATTAGATAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 26
0.66 0.04 0.31
Matches are distributed among these distances:
20 12 0.21
23 3 0.05
24 4 0.07
28 1 0.02
29 3 0.05
30 3 0.05
31 17 0.30
33 13 0.23
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (30 bp):
TTAGATAGAATCATTTTTATTTATTAGTTA
Found at i:11684 original size:20 final size:21
Alignment explanation
Indices: 11659--11698 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11649 TTTATTAGTT
*
11659 ATTAGATAGGATCA-TTTTTA
1 ATTAGATAGAATCAGTTTTTA
11679 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTT
11699 TATTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (21 bp):
ATTAGATAGAATCAGTTTTTA
Found at i:11720 original size:53 final size:52
Alignment explanation
Indices: 11629--11750 Score: 221
Period size: 53 Copynumber: 2.4 Consensus size: 52
11619 ATAGGATCAG
11629 TTAGATAGAATCAG-TTTTTATTTATTAGTTATTAGATAGGATCATTTTTAA
1 TTAGATAGAATCAGTTTTTTATTTATTAGTTATTAGATAGGATCATTTTTAA
11680 TTAGATAGAATCAGTTTTTTATTTTATTAGTTATTAGATAGGATCATTTTTAA
1 TTAGATAGAATCAGTTTTTTA-TTTATTAGTTATTAGATAGGATCATTTTTAA
11733 TTAGATAGAATCA-TTTTT
1 TTAGATAGAATCAGTTTTT
11751 ATTATGTTGC
Statistics
Matches: 69, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
51 14 0.20
52 11 0.16
53 44 0.64
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (52 bp):
TTAGATAGAATCAGTTTTTTATTTATTAGTTATTAGATAGGATCATTTTTAA
Found at i:11737 original size:20 final size:20
Alignment explanation
Indices: 11712--11751 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11702 TTTATTAGTT
*
11712 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
11732 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
11752 TTATGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:22432 original size:45 final size:45
Alignment explanation
Indices: 22383--22471 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
22373 GAGTCATTCA
* *
22383 CTGTCACAGG-CATCTCTTTGTTCATCCTCTCAGCTGAACTATTTG
1 CTGTCA-AGGCCATCACTTTCTTCATCCTCTCAGCTGAACTATTTG
* * *
22428 CTGTCAAGGCCATCACTTTCTTCATCTTCTCAGGTGAGCTATTT
1 CTGTCAAGGCCATCACTTTCTTCATCCTCTCAGCTGAACTATTT
22472 ACTGCCATCG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
44 3 0.08
45 35 0.92
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.38
Consensus pattern (45 bp):
CTGTCAAGGCCATCACTTTCTTCATCCTCTCAGCTGAACTATTTG
Found at i:22614 original size:39 final size:42
Alignment explanation
Indices: 22443--22601 Score: 132
Period size: 42 Copynumber: 3.8 Consensus size: 42
22433 AAGGCCATCA
*
22443 CTTTCTTCATCTTCTCAGGTGAGCTATTTACTGCCATCGTC-C-
1 CTTTC-TCATCTTCTCAGCTGAGCTATTTACTGCCATCG-CACT
* *
22485 CTTGACTCATCTTCTCAGCTGAGCTATTTACTGCCATGGCCAACT
1 CTT-TCTCATCTTCTCAGCTGAGCTATTTACTGCCATCG-C-ACT
* * * * * *
22530 CTTTCTTCCTCTTCTCAGATGAACTATTCACAG-C-T-G-TCT
1 CTTTC-TCATCTTCTCAGCTGAGCTATTTACTGCCATCGCACT
22569 CTTTCTCGATCTTCTCAGCTGAGCTATTTACTG
1 CTTTCTC-ATCTTCTCAGCTGAGCTATTTACTG
22602 TCATGACCTT
Statistics
Matches: 95, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
38 2 0.02
39 27 0.28
42 36 0.38
43 2 0.02
44 3 0.03
45 25 0.26
ACGTcount: A:0.17, C:0.30, G:0.14, T:0.39
Consensus pattern (42 bp):
CTTTCTCATCTTCTCAGCTGAGCTATTTACTGCCATCGCACT
Found at i:22616 original size:84 final size:87
Alignment explanation
Indices: 22404--22641 Score: 261
Period size: 84 Copynumber: 2.8 Consensus size: 87
22394 ATCTCTTTGT
* * * * * * *
22404 TCATCCTCTCAGCTGAACTATTTGCTGTCAAGGCCATCACTTTCTTCATCTTCTCAGGTGAGCTA
1 TCATCTTCTCAGCTGAGCTATTTACTGTCATGGCCATCTCTTTCTTCATCTTCTCAGATGAACTA
* *
22469 TTTACTGCCATCGTCCCTTGAC
66 TTCACAGCCATCGTCCCTTGAC
* * *
22491 TCATCTTCTCAGCTGAGCTATTTACTGCCATGGCCAACTCTTTCTTCCTCTTCTCAGATGAACTA
1 TCATCTTCTCAGCTGAGCTATTTACTGTCATGGCCATCTCTTTCTTCATCTTCTCAGATGAACTA
* *
22556 TTCACAG-C-T-GTCTCTT-TC
66 TTCACAGCCATCGTCCCTTGAC
* * * *
22574 TCGATCTTCTCAGCTGAGCTATTTACTGTCATGACCTTCTCTTTCTTCAT-TTCATCAGCTGAAT
1 TC-ATCTTCTCAGCTGAGCTATTTACTGTCATGGCCATCTCTTTCTTCATCTTC-TCAGATGAAC
22638 TATT
64 TATT
22642 TGTTGTCATG
Statistics
Matches: 128, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
83 6 0.05
84 60 0.47
85 1 0.01
86 1 0.01
87 60 0.47
ACGTcount: A:0.18, C:0.29, G:0.13, T:0.39
Consensus pattern (87 bp):
TCATCTTCTCAGCTGAGCTATTTACTGTCATGGCCATCTCTTTCTTCATCTTCTCAGATGAACTA
TTCACAGCCATCGTCCCTTGAC
Found at i:22617 original size:45 final size:44
Alignment explanation
Indices: 22395--22635 Score: 187
Period size: 45 Copynumber: 5.6 Consensus size: 44
22385 GTCACAGGCA
* * * * * *
22395 TCTCTTTGTTCATCCTCTCAGCTGAACTATTTGCTGTCAAGGCC
1 TCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGCCATGGCC
* * *
22439 ATCACTTTCTTCATCTTCTCAGGTGAGCTATTTACTGCCATCGTCC
1 -TCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGCCAT-GGCC
**
22485 -CT-TGAC-TCATCTTCTCAGCTGAGCTATTTACTGCCATGGCC
1 TCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGCCATGGCC
* * * * * *
22526 AACTCTTTCTTCCTCTTCTCAGATGAACTATTCACAG-C-T-G--
1 -TCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGCCATGGCC
* *
22566 TCTCTTTC-TCGATCTTCTCAGCTGAGCTATTTACTGTCATGACC
1 TCTCTTTCTTC-ATCTTCTCAGCTGAGCTATTTACTGCCATGGCC
22610 TTCTCTTTCTTCAT-TTCATCAGCTGA
1 -TCTCTTTCTTCATCTTC-TCAGCTGA
22636 ATTATTTGTT
Statistics
Matches: 154, Mismatches: 28, Indels: 28
0.73 0.13 0.13
Matches are distributed among these distances:
38 2 0.01
39 27 0.18
40 1 0.01
41 4 0.03
42 31 0.20
43 5 0.03
44 7 0.05
45 72 0.47
46 5 0.03
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.39
Consensus pattern (44 bp):
TCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGCCATGGCC
Found at i:22660 original size:45 final size:46
Alignment explanation
Indices: 22561--22662 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 46
22551 AACTATTCAC
*
22561 AGCTGTCTCTTTCTCGATCTTCTCAGCTGAGCTATTTACTGTCATG
1 AGCTGTCTCTTTCTCGATCTTCTCAGCTGAACTATTTACTGTCATG
* * **
22607 ACCT-TCTCTTTCTTC-AT-TTCATCAGCTGAATTATTTGTTGTCATG
1 AGCTGTCTCTTTC-TCGATCTTC-TCAGCTGAACTATTTACTGTCATG
22652 -GCTGTCTCTTT
1 AGCTGTCTCTTT
22663 GTTTGTCTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
44 5 0.11
45 37 0.79
46 5 0.11
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.46
Consensus pattern (46 bp):
AGCTGTCTCTTTCTCGATCTTCTCAGCTGAACTATTTACTGTCATG
Found at i:28236 original size:21 final size:23
Alignment explanation
Indices: 28211--28257 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
28201 TCTATAAAAA
*
28211 TAAAAATATT-AT-ATTATATTT
1 TAAAAATATTAATAAATATATTT
*
28232 TAAAATTATTAATAAATATATTT
1 TAAAAATATTAATAAATATATTT
28255 TAA
1 TAA
28258 GGAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATATTAATAAATATATTT
Found at i:28272 original size:23 final size:22
Alignment explanation
Indices: 28211--28273 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
28201 TCTATAAAAA
* *
28211 TAAAAATA-TTATATTATATTT
1 TAAAATTATTTATAATATATTT
*
28232 TAAAATTATTAATAAATATATTT
1 TAAAATTATTTAT-AATATATTT
28255 TAAGGAATT-TTTATAATAT
1 TAA--AATTATTTATAATAT
28274 TATTAGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 3 0.09
23 16 0.47
24 4 0.12
25 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (22 bp):
TAAAATTATTTATAATATATTT
Found at i:28451 original size:26 final size:26
Alignment explanation
Indices: 28400--28461 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
28390 TATTATTAAA
*
28400 ATAAGAATATAATAGTATTATATATT
1 ATAATAATATAATAGTATTATATATT
*
28426 ATTATAATATAATTGAGTA-TAT-TATT
1 ATAATAATATAA-T-AGTATTATATATT
28452 ATAATAATAT
1 ATAATAATAT
28462 TATTATGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 23 0.74
27 4 0.13
28 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (26 bp):
ATAATAATATAATAGTATTATATATT
Found at i:32824 original size:5 final size:5
Alignment explanation
Indices: 32814--32882 Score: 65
Period size: 5 Copynumber: 14.4 Consensus size: 5
32804 TAGATATAAA
* * **
32814 AAAAT AAAAT AAAAT -AAAT AAAAT -AAAT -AAAT AAATT CAACC AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
32861 AAAA- AGAAAT AAAAT AAAAT AA
1 AAAAT A-AAAT AAAAT AAAAT AA
32883 TAAATAAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
4 13 0.25
5 39 0.74
6 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:32834 original size:4 final size:4
Alignment explanation
Indices: 32809--32898 Score: 53
Period size: 4 Copynumber: 21.2 Consensus size: 4
32799 CATGTTAGAT
*
32809 ATAA AAAA ATAAA ATAAA ATAA ATAAA ATAA ATAA ATAA ATTCAA CCA-AA
1 ATAA ATAA AT-AA AT-AA ATAA AT-AA ATAA ATAA ATAA A-T-AA --ATAA
*
32859 AT-A A-AA AGAA ATAAA ATAA A-ATA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA ATA-A ATAA ATAA ATAA ATAA A
32899 GCATAGAAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 24
0.72 0.03 0.24
Matches are distributed among these distances:
3 6 0.08
4 41 0.58
5 21 0.30
6 2 0.03
8 1 0.01
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:33685 original size:37 final size:36
Alignment explanation
Indices: 33642--33743 Score: 165
Period size: 34 Copynumber: 2.9 Consensus size: 36
33632 TTAGTAGAAC
33642 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
33679 GT-TATCCTATTTTTAGGAGTTTGAATCCT--AAAAT
1 -TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
33713 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
33744 TAGGACGAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
33 1 0.02
34 32 0.52
37 27 0.44
38 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:34594 original size:105 final size:105
Alignment explanation
Indices: 34290--34842 Score: 762
Period size: 105 Copynumber: 5.3 Consensus size: 105
34280 CATTGTTCCA
* * * * * *
34290 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAG
* * * *
34355 CAGCCGTCCGTTCGTTGTGAAG-TGAACTT--GTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** *
34393 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
34453 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
34493 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
*
34558 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
34598 AGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
*
34663 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
34703 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAG
* * * *
34768 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
34809 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
34843 CGCGGATGGC
Statistics
Matches: 406, Mismatches: 32, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
97 29 0.07
98 7 0.02
99 6 0.01
100 44 0.11
101 1 0.00
102 3 0.01
103 35 0.09
104 5 0.01
105 202 0.50
106 49 0.12
107 3 0.01
109 22 0.05
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:35536 original size:68 final size:65
Alignment explanation
Indices: 35446--35603 Score: 208
Period size: 68 Copynumber: 2.4 Consensus size: 65
35436 AAGATATATG
* * * **
35446 TTGTTTCATGAAAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
35511 TT
64 TT
* * *
35513 TATGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
35578 T
65 T
*
35579 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
35604 ATAGACGAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 22 0.28
66 3 0.04
67 24 0.30
68 31 0.39
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.32
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:35579 original size:67 final size:65
Alignment explanation
Indices: 35446--35629 Score: 215
Period size: 65 Copynumber: 2.8 Consensus size: 65
35436 AAGATATATG
* * * * **
35446 TTGTTTCATGAAAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
35511 TT
64 TT
* *
35513 TATGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
35578 T
65 T
* ** * * *
35579 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTTCAAGAGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
35630 CTGTCTCAGA
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
65 42 0.42
66 3 0.03
67 24 0.24
68 31 0.31
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:35630 original size:36 final size:36
Alignment explanation
Indices: 35578--35828 Score: 209
Period size: 36 Copynumber: 7.2 Consensus size: 36
35568 ATTCAAAGAT
* *
35578 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
35614 TTTGTTTCAAGAGAAACTGTCTC-AGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * * *
35649 CTTAGTTCCAAAAGAAGCTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * * *
35686 TTTGTTTCAAAGAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
* *
35715 TTTATTTCAAGGGAAACTGTCTCAA-A-AGGCAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
35749 TTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
35785 TTTTGTTTTAAGGGAAACTATCTCAAGAGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
35822 TTTGTTT
1 TTTGTTT
35829 TAAAAAAGCA
Statistics
Matches: 173, Mismatches: 30, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
28 2 0.01
29 17 0.10
30 1 0.01
31 1 0.01
32 1 0.01
34 27 0.16
35 11 0.06
36 69 0.40
37 44 0.25
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:35687 original size:137 final size:136
Alignment explanation
Indices: 35527--35832 Score: 389
Period size: 137 Copynumber: 2.2 Consensus size: 136
35517 TTTCAAGAGT
* ** * * *
35527 AACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAGACGAAATTTGTTTTAAAGAAAACAAATTCAAAGATTTTATTTCAAGGGA
* *
35592 AACTGTCTCAAGATAGACGAAATTTGTTTCAAGAGAAACTGTCTC-AGAGAGACAAAACTTAGTT
66 AACTGTCTCAA-A-AGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
35656 CCAAAAGA
129 CCAAAAGA
* * * *
35664 AGCTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTATTTCAAGGGA
1 AACTGTCTCAAGGGAGACGAAATTTGTTTTAAAGAAAACAAATTCAAAGATTTTATTTCAAGGGA
* * * * **
35729 AACTGTCTCAAAAGGCAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTTTT
66 AACTGTCTCAAAAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCC
**
35794 AAGGGA
131 AAAAGA
* *
35800 AACTATCTCAAGAGAGACGAAATTTGTTTTAAA
1 AACTGTCTCAAGGGAGACGAAATTTGTTTTAAA
35833 AAAGCAATCT
Statistics
Matches: 144, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
135 27 0.19
136 51 0.35
137 66 0.46
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (136 bp):
AACTGTCTCAAGGGAGACGAAATTTGTTTTAAAGAAAACAAATTCAAAGATTTTATTTCAAGGGA
AACTGTCTCAAAAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCC
AAAAGA
Found at i:35758 original size:34 final size:37
Alignment explanation
Indices: 35708--35824 Score: 159
Period size: 37 Copynumber: 3.2 Consensus size: 37
35698 AAAACATATT
*
35708 CAAATATTTTATTTCAAGGGAAACTGTCTCAA-A-AGG
1 CAAA-ATTTTATTTCAAGGGAAACTGTCTCAAGAGAGA
35744 CAAAA-TTTATTTCAAGGGAAACTGTCTCAAGAGAGA
1 CAAAATTTTATTTCAAGGGAAACTGTCTCAAGAGAGA
* * *
35780 CAAAATTTTGTTTTAAGGGAAACTATCTCAAGAGAGA
1 CAAAATTTTATTTCAAGGGAAACTGTCTCAAGAGAGA
*
35817 CGAAATTT
1 CAAAATTT
35825 GTTTTAAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
34 25 0.34
35 2 0.03
36 11 0.15
37 35 0.48
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (37 bp):
CAAAATTTTATTTCAAGGGAAACTGTCTCAAGAGAGA
Found at i:35843 original size:35 final size:36
Alignment explanation
Indices: 35768--35851 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 36
35758 AGGGAAACTG
* *
35768 TCTCAAGAGAGACAAAATTTTGTTTTAAGGGAAACTA
1 TCTCAAGAGAGACAAAATTTTGTTTTAA-GAAAACAA
*
35805 TCTCAAGAGAGACGAAA-TTTGTTTTAA-AAAAGCAA
1 TCTCAAGAGAGACAAAATTTTGTTTTAAGAAAA-CAA
*
35840 TCTCAAGTGAGA
1 TCTCAAGAGAGA
35852 TAATCATCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 3 0.07
35 13 0.31
36 10 0.24
37 16 0.38
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (36 bp):
TCTCAAGAGAGACAAAATTTTGTTTTAAGAAAACAA
Found at i:36221 original size:18 final size:18
Alignment explanation
Indices: 36194--36229 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36184 TGTTGAATCC
* *
36194 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
36212 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
36230 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:36658 original size:22 final size:22
Alignment explanation
Indices: 36632--36686 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
36622 TTGTGTTTGG
36632 TCAAAGGTTTGGCATTTGATAC
1 TCAAAGGTTTGGCATTTGATAC
*
36654 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATAC
36676 TCAAAGGTTTG
1 TCAAAGGTTTG
36687 ATGGGATAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATAC
Found at i:37344 original size:7 final size:8
Alignment explanation
Indices: 37325--37395 Score: 51
Period size: 8 Copynumber: 8.9 Consensus size: 8
37315 TTGATTCTTG
37325 TTTTTTCC
1 TTTTTTCC
37333 TTTTTTCC
1 TTTTTTCC
37341 TTTTGTT-C
1 TTTT-TTCC
*
37349 TTGTTTCTC
1 TTTTTTC-C
*
37358 TTTTTTTC
1 TTTTTTCC
37366 TTTGTTT--
1 TTT-TTTCC
*
37373 TTTTTTGC
1 TTTTTTCC
37381 TTCTTTT-C
1 TT-TTTTCC
37389 TTTTTTC
1 TTTTTTC
37396 TTCTTGATTG
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
6 3 0.06
7 9 0.17
8 25 0.48
9 15 0.29
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (8 bp):
TTTTTTCC
Found at i:37363 original size:27 final size:27
Alignment explanation
Indices: 37308--37368 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
37298 TTTGTTCCTC
*
37308 TTTCTTTTTGATTCTTGTTTTTTCCTTT
1 TTTCCTTTTGATTCTTGTTTTTT-CTTT
*
37336 TTTCCTTTTG-TTCTTG-TTTCTCTTT
1 TTTCCTTTTGATTCTTGTTTTTTCTTT
*
37361 TTTTCTTT
1 TTTCCTTT
37369 GTTTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 11 0.37
26 4 0.13
27 6 0.20
28 9 0.30
ACGTcount: A:0.02, C:0.16, G:0.07, T:0.75
Consensus pattern (27 bp):
TTTCCTTTTGATTCTTGTTTTTTCTTT
Found at i:37366 original size:17 final size:17
Alignment explanation
Indices: 37295--37372 Score: 56
Period size: 16 Copynumber: 4.6 Consensus size: 17
37285 TTTGCATGTG
*
37295 TTTT-TTGTTCCTCTTT
1 TTTTCTTGTTTCTCTTT
* *
37311 CTTT-TTGATTCT-TGTT
1 TTTTCTTGTTTCTCT-TT
*
37327 TTTTCCTTTTTTC-CTTT
1 TTTT-CTTGTTTCTCTTT
*
37344 TGTTCTTGTTTCTCTTT
1 TTTTCTTGTTTCTCTTT
37361 TTTTCTTTGTTT
1 TTTTC-TTGTTT
37373 TTTTTTGCTT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
15 1 0.02
16 21 0.45
17 13 0.28
18 12 0.26
ACGTcount: A:0.01, C:0.17, G:0.08, T:0.74
Consensus pattern (17 bp):
TTTTCTTGTTTCTCTTT
Found at i:37369 original size:24 final size:23
Alignment explanation
Indices: 37326--37397 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
37316 TGATTCTTGT
*
37326 TTTTTC-CTTTTTTCCTTTTGTTC
1 TTTTTCTCTTTTTTTC-TTTGTTC
37349 TTGTTTCTCTTTTTTTCTTTGTT-
1 TT-TTTCTCTTTTTTTCTTTGTTC
* * *
37372 TTTTTTTGCTTCTTTTCTTTTTTC
1 TTTTTCT-CTTTTTTTCTTTGTTC
37396 TT
1 TT
37398 CTTGATTGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
22 4 0.10
23 17 0.41
24 12 0.29
25 8 0.20
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (23 bp):
TTTTTCTCTTTTTTTCTTTGTTC
Found at i:37378 original size:15 final size:15
Alignment explanation
Indices: 37358--37400 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
37348 CTTGTTTCTC
37358 TTTTTTTCTT-TGTTT
1 TTTTTTTCTTCT-TTT
*
37373 TTTTTTGCTTCTTTT
1 TTTTTTTCTTCTTTT
*
37388 CTTTTTTCTTCTT
1 TTTTTTTCTTCTT
37401 GATTGGATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (15 bp):
TTTTTTTCTTCTTTT
Found at i:40435 original size:4 final size:5
Alignment explanation
Indices: 40413--40490 Score: 92
Period size: 5 Copynumber: 16.4 Consensus size: 5
40403 TGTTAGATAT
* * **
40413 AAATA AAATA AAATA AAAT- AAAT- AAATA AATTC AACCA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
40461 AAATA AAATA AAATA AAAT- AAAT- AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
40491 GCATAGAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
4 16 0.25
5 48 0.75
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:40513 original size:48 final size:47
Alignment explanation
Indices: 40408--40534 Score: 139
Period size: 48 Copynumber: 2.6 Consensus size: 47
40398 AAACATGTTA
* *
40408 GATATAAATAAAATAAAATAAAATAAATAAATAAATTCAACCAAAAT
1 GATATAAATAAAATAAAATAAAATAAATAAATAAATGCAACAAAAAT
* * *
40455 AAAATAAAATAAAATAAAATAAAATAAATAAATAAA-GCATAGAAAAAT
1 GATAT-AAATAAAATAAAATAAAATAAATAAATAAATGCA-ACAAAAAT
40503 GATAGTAAATAATAGTATAAATATAAAATAAA
1 GATA-TAAATAA-A--ATAAA-ATAAAATAAA
40535 AAAGGTAATA
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
47 5 0.08
48 44 0.67
49 2 0.03
51 5 0.08
52 10 0.15
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (47 bp):
GATATAAATAAAATAAAATAAAATAAATAAATAAATGCAACAAAAAT
Found at i:41659 original size:21 final size:21
Alignment explanation
Indices: 41633--41689 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
41623 ATTTACTGTG
*
41633 ATTGCGGCCGTCGCGGGCGCT
1 ATTGCGGCCGTCGCGGACGCT
* *
41654 ATTGCGACCATCGCGGACGCT
1 ATTGCGGCCGTCGCGGACGCT
*
41675 ATTGCGGTCGTCGCG
1 ATTGCGGCCGTCGCG
41690 AATAACTCGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.11, C:0.32, G:0.37, T:0.21
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGACGCT
Found at i:54361 original size:24 final size:24
Alignment explanation
Indices: 54308--54362 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
54298 TAATAAAAAA
* *
54308 TAAAACTAAAACTTTTATATTAAT
1 TAAAATTAAAACTTCTATATTAAT
54332 TAAAATTAAAACTTCTATATTAAT
1 TAAAATTAAAACTTCTATATTAAT
54356 TAAAATT
1 TAAAATT
54363 GATAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (24 bp):
TAAAATTAAAACTTCTATATTAAT
Found at i:57247 original size:33 final size:33
Alignment explanation
Indices: 57199--57262 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
57189 AAAGAAAGCG
* * *
57199 TTACATTTTTTTTATTATATTTATATTTTTTCA
1 TTACACTTTTCTTATTATATTTACATTTTTTCA
57232 TTACACTTTTCTTATTATATTTACATTTTTT
1 TTACACTTTTCTTATTATATTTACATTTTTT
57263 TTCATTCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (33 bp):
TTACACTTTTCTTATTATATTTACATTTTTTCA
Found at i:58014 original size:37 final size:37
Alignment explanation
Indices: 57941--58015 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
57931 GTTGGAAAAT
* *
57941 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAGTCATAAA
* *
57978 ATTTATATAATTTTTTTTACAAAATTGAAAGT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAGTCATAAA
58015 A
1 A
58016 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAGTCATAAA
Found at i:61138 original size:2 final size:2
Alignment explanation
Indices: 61131--61186 Score: 69
Period size: 2 Copynumber: 27.0 Consensus size: 2
61121 TTAAATAATT
61131 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TCA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T-A TA TA
*
61174 CA TA TA TCA TA TA
1 TA TA TA T-A TA TA
61187 AAGTCGAGGG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
1 1 0.02
2 42 0.88
3 5 0.10
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:69321 original size:23 final size:23
Alignment explanation
Indices: 69292--69428 Score: 247
Period size: 23 Copynumber: 6.0 Consensus size: 23
69282 GTCGAGGGTT
* *
69292 CTATGTGGTCATTCGGGACAAAT
1 CTATGTGGTTATTCGGGACAAAC
69315 CTATGTGGTTATTCGGGACAAAC
1 CTATGTGGTTATTCGGGACAAAC
*
69338 CTATGTGGTTATTCAGGACAAAC
1 CTATGTGGTTATTCGGGACAAAC
69361 CTATGTGGTTATTCGGGACAAAC
1 CTATGTGGTTATTCGGGACAAAC
69384 CTATGTGGTTATTCGGGACAAAC
1 CTATGTGGTTATTCGGGACAAAC
69407 CTATGTGGTTATTCGGGACAAA
1 CTATGTGGTTATTCGGGACAAA
69429 TATGTAGCAC
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 110 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (23 bp):
CTATGTGGTTATTCGGGACAAAC
Found at i:70357 original size:31 final size:29
Alignment explanation
Indices: 70288--70358 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 29
70278 AACTTCAGAA
*
70288 AAAATATGAATTTGATATTTAAATTATAG
1 AAAATATTAATTTGATATTTAAATTATAG
* * *
70317 ACAAGATATTAATTTTATCTTTAAACTTTATAT
1 A-AA-ATATTAATTTGATATTTAAA--TTATAG
70350 AAAATATTA
1 AAAATATTA
70359 TCTTAACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 1 0.03
30 2 0.06
31 23 0.68
32 2 0.06
33 6 0.18
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (29 bp):
AAAATATTAATTTGATATTTAAATTATAG
Found at i:71395 original size:2 final size:2
Alignment explanation
Indices: 71388--71448 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
71378 AGGATAAAAT
71388 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
71430 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
71449 GAGTTAATAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:74285 original size:6 final size:6
Alignment explanation
Indices: 74274--74308 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
74264 CTTTAATGTC
74274 AATTAA AATTAA AATTAA AATTAA AATTAA AATTA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTA
74309 TACTCGATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATTAA
Found at i:83503 original size:21 final size:21
Alignment explanation
Indices: 83477--83520 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
83467 ATTATGGGCT
*
83477 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGGTACCCATTCA
* *
83498 AGGGGAACCGTTACCCCTTCA
1 AGGGGAACCGGTACCCATTCA
83519 AG
1 AG
83521 CGAATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (21 bp):
AGGGGAACCGGTACCCATTCA
Found at i:83980 original size:22 final size:20
Alignment explanation
Indices: 83959--83996 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
83949 CTATGTTATG
83959 ATGAT-ATAAACTATATGAT
1 ATGATAATAAACTATATGAT
*
83978 ATGATAATAAATTATATGA
1 ATGATAATAAACTATATGA
83997 ATATAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGATAATAAACTATATGAT
Found at i:85240 original size:23 final size:23
Alignment explanation
Indices: 85210--85269 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
85200 ATTATTATAT
*
85210 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
85233 GGCACTACGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
85256 GGCACTTCGGTGCA
1 GGCACTACGGTGCA
85270 TTTATATGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.27, G:0.28, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:86515 original size:31 final size:31
Alignment explanation
Indices: 86410--86536 Score: 159
Period size: 31 Copynumber: 4.1 Consensus size: 31
86400 GTCCTGAATG
*
86410 ACCTATCCATATGTTCC-GAAGAACATAGGTA
1 ACCTATCCATATG-TCCTGAAGGACATAGGTA
* *
86441 A-CTGTCCATATGTCCCGAAGGACATAGGTA
1 ACCTATCCATATGTCCTGAAGGACATAGGTA
* *
86471 ATCCTGTCCATATGTCCTGAAGGACATATGTA
1 A-CCTATCCATATGTCCTGAAGGACATAGGTA
* *
86503 ACCTATCCATATGTCTTGAAAGACATAGGTA
1 ACCTATCCATATGTCCTGAAGGACATAGGTA
86534 ACC
1 ACC
86537 CTCGACTCTT
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
29 3 0.04
30 24 0.28
31 30 0.35
32 28 0.33
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (31 bp):
ACCTATCCATATGTCCTGAAGGACATAGGTA
Found at i:86532 original size:63 final size:62
Alignment explanation
Indices: 86415--86534 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 62
86405 GAATGACCTA
* *
86415 TCCATATGTTCCGAAGAACATAGGTAACTGTCCATATGTCCCGAAGGACATAGGTAATCCTG
1 TCCATATGTTCCGAAGAACATAGGTAACTATCCATATGTCCCGAAAGACATAGGTAATCCTG
* * **
86477 TCCATATG-TCCTGAAGGACATATGTAACCTATCCATATGTCTTGAAAGACATAGGTAA
1 TCCATATGTTCC-GAAGAACATAGGTAA-CTATCCATATGTCCCGAAAGACATAGGTAA
86535 CCCTCGACTC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
61 3 0.06
62 21 0.42
63 26 0.52
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (62 bp):
TCCATATGTTCCGAAGAACATAGGTAACTATCCATATGTCCCGAAAGACATAGGTAATCCTG
Found at i:86786 original size:2 final size:2
Alignment explanation
Indices: 86779--86809 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
86769 CTCTATTGAC
86779 AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
86810 CACATAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87345 original size:20 final size:21
Alignment explanation
Indices: 87315--87353 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
87305 CCATTTTCCT
87315 TTATAAGTGTATCGGTACACA
1 TTATAAGTGTATCGGTACACA
87336 TTAT-AGTGTATCGGTACA
1 TTATAAGTGTATCGGTACA
87354 TTCCTTAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (21 bp):
TTATAAGTGTATCGGTACACA
Found at i:87891 original size:21 final size:21
Alignment explanation
Indices: 87865--87920 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
87855 TCTTATTGTT
87865 TTAAGCTTATATAAGCTTTCC
1 TTAAGCTTATATAAGCTTTCC
87886 TTAAGCTTATATAAGCTTTCC
1 TTAAGCTTATATAAGCTTTCC
87907 TTAAGCTTATATAA
1 TTAAGCTTATATAA
87921 CACCCAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (21 bp):
TTAAGCTTATATAAGCTTTCC
Found at i:91121 original size:30 final size:32
Alignment explanation
Indices: 91085--91156 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 32
91075 GAAGGACCTA
* *
91085 TCCATATGTTCCGAAGAACATAGATAA-C-TG
1 TCCATATATCCCGAAGAACATAGATAATCATG
* * *
91115 TCCATATATCCCGAAGGATATAGGTAATCATG
1 TCCATATATCCCGAAGAACATAGATAATCATG
91147 TCCATATATC
1 TCCATATATC
91157 TTGAAAGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 22 0.63
31 1 0.03
32 12 0.34
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (32 bp):
TCCATATATCCCGAAGAACATAGATAATCATG
Found at i:93559 original size:31 final size:31
Alignment explanation
Indices: 93517--93641 Score: 180
Period size: 31 Copynumber: 4.0 Consensus size: 31
93507 AGGGTCGAGG
93517 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
93548 GTTTACTTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
93579 ATTTACCTATGTTCTTCGGGACATGTGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
93610 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
93641 G
1 G
93642 GTCCTTCGGG
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
31 83 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:99064 original size:30 final size:30
Alignment explanation
Indices: 99028--99105 Score: 131
Period size: 30 Copynumber: 2.6 Consensus size: 30
99018 AGGGTCGAGG
99028 GTTTACCTATGTTCTTCGGGACATATGGAC
1 GTTTACCTATGTTCTTCGGGACATATGGAC
99058 GTTTACCTATGTTCTTCGGGACATATGGAC
1 GTTTACCTATGTTCTTCGGGACATATGGAC
* *
99088 G-ATACCTAGGTTCTTCGG
1 GTTTACCTATGTTCTTCGG
99106 AATCTATGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 15 0.33
30 31 0.67
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (30 bp):
GTTTACCTATGTTCTTCGGGACATATGGAC
Found at i:99476 original size:21 final size:21
Alignment explanation
Indices: 99450--99492 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
99440 CTGTAGCAGT
99450 ACTGTAGCAGTGCATCGATGC
1 ACTGTAGCAGTGCATCGATGC
99471 ACTGTAGCAGTGCATCGATGC
1 ACTGTAGCAGTGCATCGATGC
99492 A
1 A
99493 TAAATTGGCT
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:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGATGC
Found at i:99623 original size:13 final size:13
Alignment explanation
Indices: 99605--99629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99595 ATAAATACGT
99605 TTTTATATCAAAA
1 TTTTATATCAAAA
99618 TTTTATATCAAA
1 TTTTATATCAAA
99630 CACAATTGAA
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTATATCAAAA
Found at i:99953 original size:14 final size:15
Alignment explanation
Indices: 99923--99955 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
99913 ATAATACAAA
99923 TTATATAAATTAGAAT
1 TTATATAAATTA-AAT
99939 TTATATAAATT-AAT
1 TTATATAAATTAAAT
99953 TTA
1 TTA
99956 ATACGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
16 11 0.65
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TTATATAAATTAAAT
Found at i:100236 original size:59 final size:59
Alignment explanation
Indices: 100112--100236 Score: 139
Period size: 59 Copynumber: 2.1 Consensus size: 59
100102 TCGGATGACC
* ** * *
100112 ATTTTGTAACTTTTAATAGTCGGAAACTCAACAAAGCAACATCTTATGGTCCGAGTATC
1 ATTTTGTAACTTTTAATAGTCGGAAACTCAACAAAGCAACATCCTATAATCCGAGGATA
* *
100171 ATTTTGTAACTTTTAATAGTC-GATTGACTCAACAAAGCACCATCCTATAAT-CGAGGA-A
1 ATTTTGTAACTTTTAATAGTCGGA--AACTCAACAAAGCAACATCCTATAATCCGAGGATA
100229 ATATTTGT
1 AT-TTTGT
100237 GTACTTTATC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
58 4 0.07
59 31 0.55
60 21 0.38
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (59 bp):
ATTTTGTAACTTTTAATAGTCGGAAACTCAACAAAGCAACATCCTATAATCCGAGGATA
Found at i:107453 original size:60 final size:60
Alignment explanation
Indices: 107355--107513 Score: 180
Period size: 60 Copynumber: 2.6 Consensus size: 60
107345 AATAACCTTG
**
107355 ATTTTAAATTAGTCTTTAATTTTTTGAATATT-TCAATTTAATCCCTAAACCATG-ACACTC
1 ATTTTAAATTAGTCTTTAAACTTTTGAATATTCT-AATTTAATCCCTAAACCATGAAC-CTC
* * * *
107415 ATTTTAAATTAGTCTTTAAACTTTTAAACATTCTAATTTCATCCCTAAACTATGAACCTC
1 ATTTTAAATTAGTCTTTAAACTTTTGAATATTCTAATTTAATCCCTAAACCATGAACCTC
* ** *
107475 -TTTCTAAATTAATCCATAAACTTTTGAATATTCCAATTT
1 ATTT-TAAATTAGTCTTTAAACTTTTGAATATTCTAATTT
107514 CATACCCAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
59 3 0.04
60 78 0.93
61 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.44
Consensus pattern (60 bp):
ATTTTAAATTAGTCTTTAAACTTTTGAATATTCTAATTTAATCCCTAAACCATGAACCTC
Found at i:108457 original size:2 final size:2
Alignment explanation
Indices: 108450--108474 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
108440 TAAACTATTC
108450 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
108475 AATTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:108835 original size:35 final size:36
Alignment explanation
Indices: 108794--108869 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 36
108784 CACAATCATT
* *
108794 AATTATATTTTAAACCCCAAATT-CAAAAATACTTC
1 AATTATATTCTAAACCCCAAATTCCAAAAACACTTC
*
108829 AATTATATTCTAAACCTCAAATTCCAAAAACACTTC
1 AATTATATTCTAAACCCCAAATTCCAAAAACACTTC
108865 AATTA
1 AATTA
108870 CATGACCAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 21 0.57
36 16 0.43
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (36 bp):
AATTATATTCTAAACCCCAAATTCCAAAAACACTTC
Found at i:109381 original size:183 final size:187
Alignment explanation
Indices: 109056--109429 Score: 720
Period size: 183 Copynumber: 2.0 Consensus size: 187
109046 TGGGTTTAGG
109056 ATTTAAAAGTTAGATTTAACCAACTATAAGTGAACAATACTCAATTCGATTCGAAAAAAATTATT
1 ATTTAAAAGTTAGATTTAACCAACTATAAGTGAACAATACTCAATTCGATTCGAAAAAAATTATT
109121 TTTGACTTGAATTGATTCAAAAAATTTGATACAAATTGACTTTGAGTTTTAATTTCATAAACTCA
66 TTTGACTTGAATTGATTCAAAAAATTTGATACAAATTGACTTTGAGTTTTAATTTCATAAACTCA
109186 ACTTAAAAAAATTCAAGTTAAAATCGAGTTGTAAAATACAACTCGAATATCTAAAAA
131 ACTTAAAAAAATTCAAGTTAAAATCGAGTTGTAAAATACAACTCGAATATCTAAAAA
109243 ATTTAAAAGTTAGATTTAACCAACTATAAGTGAACAATACTCAATTCGATTCG-AAAAAATTATT
1 ATTTAAAAGTTAGATTTAACCAACTATAAGTGAACAATACTCAATTCGATTCGAAAAAAATTATT
109307 TTTGACTTG-ATTGA-TC-AAAAATTTGATACAAATTGACTTTGAGTTTTAATTTCATAAACTCA
66 TTTGACTTGAATTGATTCAAAAAATTTGATACAAATTGACTTTGAGTTTTAATTTCATAAACTCA
109369 ACTTAAAAAAATTCAAGTTAAAATCGAGTTGTAAAATACAACTCGAATATCTAAAAA
131 ACTTAAAAAAATTCAAGTTAAAATCGAGTTGTAAAATACAACTCGAATATCTAAAAA
109426 ATTT
1 ATTT
109430 TAGTAATTAG
Statistics
Matches: 187, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
183 107 0.57
184 2 0.01
185 5 0.03
186 20 0.11
187 53 0.28
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (187 bp):
ATTTAAAAGTTAGATTTAACCAACTATAAGTGAACAATACTCAATTCGATTCGAAAAAAATTATT
TTTGACTTGAATTGATTCAAAAAATTTGATACAAATTGACTTTGAGTTTTAATTTCATAAACTCA
ACTTAAAAAAATTCAAGTTAAAATCGAGTTGTAAAATACAACTCGAATATCTAAAAA
Found at i:109739 original size:148 final size:146
Alignment explanation
Indices: 109552--109844 Score: 480
Period size: 148 Copynumber: 2.0 Consensus size: 146
109542 AAAAACTATT
* * * *
109552 TAAATTAGAATCAAATAATATTATAGTATTGTAAATATTTATAATTAAATTTAAATAGAAACTCG
1 TAAATTAGAATCAAATAATATTATAATATTGTAAATATTTATAATTAAATTTAAACAAAAACTCA
* *
109617 AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATTGAAATTTTTTTGAGTCAA
66 AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCG-AATTTTTTT-AGTAAA
109682 CTATTTTATAAACTGAAC
129 CTATTTTATAAACTGAAC
*
109700 TAAATTATAATCAAATAATATTATAATA-TGATAAATATTTATAATTAAATTTAAACAAAAACTC
1 TAAATTAGAATCAAATAATATTATAATATTG-TAAATATTTATAATTAAATTTAAACAAAAACTC
*
109764 AAAAATTCAATTCAATTTGACTTGATTTAAATTTTATAAACTCAAATCGAATTTTTTTAGTAAAC
65 AAAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAATTTTTTTAGTAAAC
109829 TATTTTATAAACTGAA
130 TATTTTATAAACTGAA
109845 TTGAGTATTT
Statistics
Matches: 136, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
146 22 0.16
147 11 0.08
148 103 0.76
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (146 bp):
TAAATTAGAATCAAATAATATTATAATATTGTAAATATTTATAATTAAATTTAAACAAAAACTCA
AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAATTTTTTTAGTAAACT
ATTTTATAAACTGAAC
Found at i:114965 original size:171 final size:172
Alignment explanation
Indices: 114460--115164 Score: 866
Period size: 171 Copynumber: 4.1 Consensus size: 172
114450 AGCTGCTAAG
* * * ** * * *
114460 CATGAGAAACAACAAAAGCAAAAAAATTTAATATCCTGAT-TAAGAACTATTCAATCAAACTCTT
1 CATGAGAAACAACAAAAGCAAAGATATTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
* **
114524 ACAAATTCTAATAGTATGAGAAGAGCAAACAGTTAACTTTCTTAAAAAAAAACCCAGAACCATTC
66 ACAAATTCTAATAGCATGAGAAGAGCAAACAGTTAACTTTC-T-AAAAAAAACCCAGAATAATTC
* ** * * ** * * *
114589 AATCAAAATTAAATAAAAATAAGGGCAAAAATCCCAAGAAGCTAAG
129 AATCGAAATT-AAGCAAAAGAAGGAC-AAAATAGCAAGTAGCAAAT
* *
114635 CATGAGAAACAACAAAAGCAAAGATATTCAAT-CCCTGATGAAAGAACCATTCAATCAAAATCGT
1 CATGAGAAACAACAAAAGCAAAGATATTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
*
114699 ACAAATTCTAATAGCATGAGAAGATCAAACAGTTAACTTTCTAAAAAAAAAACCCAGAATAATTC
66 ACAAATTCTAATAGCATGAGAAGAGCAAACAGTTAACTTTCT--AAAAAAAACCCAGAATAATTC
114764 AATCGAAATTAAG-AAAA-AAGGACAAAATAGCAAGTAGCAAAT
129 AATCGAAATTAAGCAAAAGAAGGACAAAATAGCAAGTAGCAAAT
* *
114806 CATGAGAAACAACAATAGCAAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
1 CATGAGAAACAACAAAAGCAAAGATATTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
* * * *
114871 TCAAATTCTAATAGCATGAGAAGAGCAAACAATTAACTTTCT-ATAAAAA-CCATAATAATTCAA
66 ACAAATTCTAATAGCATGAGAAGAGCAAACAGTTAACTTTCTAAAAAAAACCCAGAATAATTCAA
*
114934 TCGAAATTAAGCAAAAAGAAGGACAAAATAGCATGTAGCAAAT
131 TCGAAATTAAGC-AAAAGAAGGACAAAATAGCAAGTAGCAAAT
* * * *
114977 AATGAAAAACAACAAAAGCAAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCCT
1 CATGAGAAACAACAAAAGCAAAGATATTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
* *
115042 ACAAATTCTAATAGCATGAGAAGATCAAACAGTTAACTTTCTATGAAAAAA-CCAGAATAATTCA
66 ACAAATTCTAATAGCATGAGAAGAGCAAACAGTTAACTTTCTA-AAAAAAACCCAGAATAATTCA
*
115106 ATCGAAATGAAGC--AAGAAGG-------AGCAAGTAGCAAAT
130 ATCGAAATTAAGCAAAAGAAGGACAAAATAGCAAGTAGCAAAT
* *
115140 AATGAGAAACAACAACAGCAAAGAT
1 CATGAGAAACAACAAAAGCAAAGAT
115165 TCTTAATTTT
Statistics
Matches: 478, Mismatches: 44, Indels: 28
0.87 0.08 0.05
Matches are distributed among these distances:
163 36 0.08
168 24 0.05
169 6 0.01
170 11 0.02
171 168 0.35
172 74 0.15
173 33 0.07
174 9 0.02
175 117 0.24
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (172 bp):
CATGAGAAACAACAAAAGCAAAGATATTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
ACAAATTCTAATAGCATGAGAAGAGCAAACAGTTAACTTTCTAAAAAAAACCCAGAATAATTCAA
TCGAAATTAAGCAAAAGAAGGACAAAATAGCAAGTAGCAAAT
Found at i:115052 original size:343 final size:336
Alignment explanation
Indices: 114460--115164 Score: 907
Period size: 343 Copynumber: 2.1 Consensus size: 336
114450 AGCTGCTAAG
* * * * * *
114460 CATGAGAAACAACAAAAGCAAAAAAATTTAATATCCTGATTAAGAACTATTCAATCAAACTCTTA
1 CATGAGAAACAACAAAAGCAAAGATATTCAATACCCTGATAAAGAACAATTCAATCAAACTCTTA
* * *
114525 CAAATTCTAATAGTATGAGAAGAGCAAACAGTTAACTTTCTTAAAAAAAAACCCAGAACCATTCA
66 CAAATTCTAATAGCATGAGAAGAGCAAACAATTAACTTTCTT-AAAAAAAACCCAGAACAATTCA
* * * * * * *
114590 ATCAAAATTAAATAAAAATAAGGGCAAAAATCCCAAGAAGCTAAGCATGAGAAACAACAAAAGCA
130 ATCAAAATTAAACAAAAAGAAGGACAAAAATACCAAGAAGCAAAGAATGAAAAACAACAAAAGCA
* *
114655 AAGATATTCAATCCCTGATGAAAGAACCATTCAATCAAAATCGTACAAATTCTAATAGCATGAGA
195 AAGATATTCAATCCCTGATGAAAGAACAATTCAATCAAAATCCTACAAATTCTAATAGCATGAGA
*
114720 AGATCAAACAGTTAACTTTCTAAAAAAAAAACCCAGAATAATTCAATCGAAATTAAGAAAAAAGG
260 AGATCAAACAGTTAACTTTCT-AAAAAAAAA-CCAGAATAATTCAATCGAAATGAAGAAAAAAGG
114785 ACAAAATAGCAAGTAGCAAAT
323 -------AGCAAGTAGCAAAT
* * *
114806 CATGAGAAACAACAATAGCAAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCGT
1 CATGAGAAACAACAAAAGCAAAGATATTCAATACCCTGAT-AAAGAACAATTCAATCAAACTC-T
* * *
114871 T-CAAATTCTAATAGCATGAGAAGAGCAAACAATTAACTTTC-T-ATAAAAA-CCATAATAATTC
64 TACAAATTCTAATAGCATGAGAAGAGCAAACAATTAACTTTCTTAAAAAAAACCCAGAACAATTC
* * * * * *
114932 AATCGAAATTAAGCAAAAAGAAGGAC-AAAATAGCATGTAGCAAATAATGAAAAACAACAAAAGC
129 AATCAAAATTAAACAAAAAGAAGGACAAAAATACCAAGAAGCAAAGAATGAAAAACAACAAAAGC
* *
114996 AAAGATCTTCAATCCCCTGATGAAAGAACAATTCAATCAAACTCCTACAAATTCTAATAGCATGA
194 AAAGATATTCAAT-CCCTGATGAAAGAACAATTCAATCAAAATCCTACAAATTCTAATAGCATGA
** * *
115061 GAAGATCAAACAGTTAACTTTCTATGAAAAAACCAGAATAATTCAATCGAAATGAAGCAAGAAGG
258 GAAGATCAAACAGTTAACTTTCTAAAAAAAAACCAGAATAATTCAATCGAAATGAAGAAAAAAGG
115126 AGCAAGTAGCAAAT
323 AGCAAGTAGCAAAT
* *
115140 AATGAGAAACAACAACAGCAAAGAT
1 CATGAGAAACAACAAAAGCAAAGAT
115165 TCTTAATTTT
Statistics
Matches: 317, Mismatches: 39, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
334 37 0.12
341 30 0.09
342 49 0.15
343 101 0.32
344 6 0.02
346 34 0.11
347 58 0.18
348 2 0.01
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (336 bp):
CATGAGAAACAACAAAAGCAAAGATATTCAATACCCTGATAAAGAACAATTCAATCAAACTCTTA
CAAATTCTAATAGCATGAGAAGAGCAAACAATTAACTTTCTTAAAAAAAACCCAGAACAATTCAA
TCAAAATTAAACAAAAAGAAGGACAAAAATACCAAGAAGCAAAGAATGAAAAACAACAAAAGCAA
AGATATTCAATCCCTGATGAAAGAACAATTCAATCAAAATCCTACAAATTCTAATAGCATGAGAA
GATCAAACAGTTAACTTTCTAAAAAAAAACCAGAATAATTCAATCGAAATGAAGAAAAAAGGAGC
AAGTAGCAAAT
Found at i:115905 original size:31 final size:31
Alignment explanation
Indices: 115871--115928 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
115861 TGATTTCAAA
115871 AAAAATAA-AGTTT-GAATACTAAAATAGAAT
1 AAAAATAATAGTTTAG-ATACTAAAATAGAAT
*
115901 AAAAATAATAGTTTAGATACTAGAATAG
1 AAAAATAATAGTTTAGATACTAAAATAG
115929 TATTTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 8 0.32
31 16 0.64
32 1 0.04
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (31 bp):
AAAAATAATAGTTTAGATACTAAAATAGAAT
Found at i:122937 original size:19 final size:19
Alignment explanation
Indices: 122913--122983 Score: 133
Period size: 19 Copynumber: 3.7 Consensus size: 19
122903 TTGGACCCTT
122913 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
122932 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
122951 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
*
122970 AGTGCATCGATGCA
1 AGTGCATCGGTGCA
122984 TAAAATGCAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (19 bp):
AGTGCATCGGTGCACTAAG
Found at i:123040 original size:64 final size:63
Alignment explanation
Indices: 122970--123122 Score: 256
Period size: 64 Copynumber: 2.4 Consensus size: 63
122960 GTGCACTAAG
122970 AGTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AACAAGCCTGAGTGCATCGATGCATGGT
1 AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AA-CCTGAGTGCATCGATGCATGGT
*
123033 CTGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGCATGGT
1 -AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGCATGGT
123097 AGTGCATCGATGCATAAAATGCATTC
1 AGTGCATCGATGCATAAAATGCATTC
123123 AATATGGTGA
Statistics
Matches: 85, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
63 25 0.29
64 51 0.60
65 7 0.08
66 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (63 bp):
AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGCATGGT
Found at i:123155 original size:20 final size:20
Alignment explanation
Indices: 123130--123167 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
123120 TTCAATATGG
123130 TGAGTGCATCGATGCATCAA
1 TGAGTGCATCGATGCATCAA
*
123150 TGAGTGCATCGGTGCATC
1 TGAGTGCATCGATGCATC
123168 CATTCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAGTGCATCGATGCATCAA
Found at i:124066 original size:252 final size:246
Alignment explanation
Indices: 123472--124197 Score: 849
Period size: 252 Copynumber: 2.9 Consensus size: 246
123462 TACATGGAGC
* * * * * *
123472 GAAATCATAAGAGACATTTGCCCTT-GTGTTTATCTATCTCAT-GCTTCACTGCCAGACCACGAA
1 GAAATAATGAGAGACATTTGGCTTTAG-GTTTATCTATCAC-TGGCTTCACTGCCAAACCACGAA
** *
123535 TGTGAATTCTTTTCGAGTTTCAGCAATGGAATTCAAGGGAA-GTTCTTACTGTTGCTAAGCTTGT
64 TCCGTATTCTTTTCGAGTTTCAGCAATGGAATTCAAGGGAAGGTT-TTACTGTTGCTAAGCTTGT
* *
123599 TGGATTGCAATGGTGTTTATATAGTGGTTTTCATAGATTTCGAATTTTCGGTTCTTTGATACTAG
128 TGGATTGCAATGGTGTTTATATAGTGGTTTCCATAGA-TTCTAATTTTCGGTTCTTTGATACTAG
* * * * * * *
123664 TTTCTATGTTATGTTATGCTTT-CAATTTGTTCATGTCCTCCTGGCTCCTACATGGATT
192 TTTCTATGCTATGTTATGCTTTAAAATATGTTCACG-CCT-CT-G-TCCTACACGAAGT
* *
123722 GAAATAATGAGAGACATTTGGCTTTAGGTTTATCTATCACTGGCTTCACTGCTAGACCACGAATC
1 GAAATAATGAGAGACATTTGGCTTTAGGTTTATCTATCACTGGCTTCACTGCCAAACCACGAATC
*
123787 CGTATTCTTTTTGAGTTTCAGCAATGGAATTCAAGGGAAGGTTTTACTGTTGCTAAGCTTGTTGG
66 CGTATTCTTTTCGAGTTTCAGCAATGGAATTCAAGGGAAGGTTTTACTGTTGCTAAGCTTGTTGG
* * *
123852 ATTGCAAATTTGCATTGGTGTTTATATGGTGGTTTCCAAAGATCCCTAATTTTCGGTTCTTTGAT
131 ATTGC--A-----A-TGGTGTTTATATAGTGGTTTCCATAGAT-TCTAATTTTCGGTTCTTTGAT
* *
123917 ACTAGTTTCTCTGCTATGTTATGCTTTAAAATATGTTCACG-CT-T-TCCTGCACGAAGT
187 ACTAGTTTCTATGCTATGTTATGCTTTAAAATATGTTCACGCCTCTGTCCTACACGAAGT
* * * *
123974 GAAATCATGAGAGACATTTGGCTTTAGGTTTGTCTATCACTGGCTTCACTGCCAAACTATGGAAT
1 GAAATAATGAGAGACATTTGGCTTTAGGTTTATCTATCACTGGCTTCACTGCCAAACCA-CGAAT
* * * *
124039 CTTGT-TT-TTTTCGAGTTTCGGCAATGGAATTCAGGGGAAGGTTTTACTGTTGCTGAGCTTGTT
65 C-CGTATTCTTTTCGAGTTTCAGCAATGGAATTCAAGGGAAGGTTTTACTGTTGCTAAGCTTGTT
* * * *
124102 GGATTGCAATGGTGTTTATATAGTGGTTTGCATAGAGTTATAATTGTCGGTTCTGTGATACTAGT
129 GGATTGCAATGGTGTTTATATAGTGGTTTCCATAGA-TTCTAATTTTCGGTTCTTTGATACTAGT
* *
124167 TTCTATGCTATGTTATGCTTTAGAGTATGTT
193 TTCTATGCTATGTTATGCTTTAAAATATGTT
124198 TGCGCAGAGA
Statistics
Matches: 415, Mismatches: 45, Indels: 38
0.83 0.09 0.08
Matches are distributed among these distances:
244 75 0.18
245 2 0.00
249 1 0.00
250 118 0.28
251 4 0.01
252 123 0.30
253 7 0.02
254 2 0.00
255 1 0.00
257 4 0.01
258 68 0.16
259 10 0.02
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.40
Consensus pattern (246 bp):
GAAATAATGAGAGACATTTGGCTTTAGGTTTATCTATCACTGGCTTCACTGCCAAACCACGAATC
CGTATTCTTTTCGAGTTTCAGCAATGGAATTCAAGGGAAGGTTTTACTGTTGCTAAGCTTGTTGG
ATTGCAATGGTGTTTATATAGTGGTTTCCATAGATTCTAATTTTCGGTTCTTTGATACTAGTTTC
TATGCTATGTTATGCTTTAAAATATGTTCACGCCTCTGTCCTACACGAAGT
Found at i:125523 original size:7 final size:7
Alignment explanation
Indices: 125511--125535 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
125501 TGGAGTAAGG
125511 TTGATGT
1 TTGATGT
125518 TTGATGT
1 TTGATGT
125525 TTGATGT
1 TTGATGT
125532 TTGA
1 TTGA
125536 AATTGTACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (7 bp):
TTGATGT
Found at i:127500 original size:123 final size:120
Alignment explanation
Indices: 127324--127793 Score: 554
Period size: 120 Copynumber: 3.9 Consensus size: 120
127314 ATGAATTAAC
* *
127324 TATATGATCAAACAGACCCTGACCCCATGGCTCTACATTGGGGATGAACCAGACTCGAACTGTAT
1 TATATGACCAAACAGACCCTGA-CCCATGGCTCCACATTGGGGATGAACCAGACTCGAACTGTAT
127389 GACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATTAACAAAAGACTCAAAT
65 GACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGA-TAA-AAAAGACTC-AAT
* * * *
127448 TATATGATCAAACAGACCCTGACCCATGGCTCTACATTGGAGATGAACCAGACTCGAACTATATG
1 TATATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGGATGAACCAGACTCGAACTGTATG
* **
127513 ACCAAACAGACCCTGACCCAAGATGGCTCCACATT-AAGA-AAGAACAAGACTCAAT
66 ACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATAA-AA-AAGACTCAAT
* ** * *
127568 TGTATGACCAAACAGACCCTGACCCATAACTCCACATTGGGAATGAACCAGACTCGAACCGTATG
1 TATATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGGATGAACCAGACTCGAACTGTATG
* * * * * * * *
127633 ATCAAACAGATCCTGACCCAAGATTAATGCACATTAGGGATAAATAAGACTCGAAC
66 ACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATAAAAAAGACTC-AAT
* * * * * *
127689 TGTATGACCAAATAGACCTTGACCCATGGCTCCACAGTGGGGATGTGAACCAAACTCAAACTGTA
1 TATATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGGA--TGAACCAGACTCGAACTGTA
* *
127754 TGACCAAACAGACCCTGGCCC---ATGACTCCACAATGGGGAT
64 TGACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGAT
127794 GTGAACCAAA
Statistics
Matches: 298, Mismatches: 42, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
120 113 0.38
121 49 0.16
122 4 0.01
123 110 0.37
124 22 0.07
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (120 bp):
TATATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGGATGAACCAGACTCGAACTGTATG
ACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATAAAAAAGACTCAAT
Found at i:127633 original size:120 final size:120
Alignment explanation
Indices: 127326--127775 Score: 532
Period size: 123 Copynumber: 3.7 Consensus size: 120
127316 GAATTAACTA
* *
127326 TATGATCAAACAGACCCTGACCCCATGGCTCTACATTGGG-GATGAACCAGACTCGAACTGTATG
1 TATGACCAAACAGACCCTGA-CCCATGGCTCCACATTGGGAGATGAACCAGACTCGAACTGTATG
* *
127390 ACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATTAACAAAAGACTCAAATTA
65 ACCAAACAGACCCTGACCCAAGATGACTCCACATT-AGGA--AA-AAAAGACTCAAATTG
* * *
127450 TATGATCAAACAGACCCTGACCCATGGCTCTACATT-GGAGATGAACCAGACTCGAACTATATGA
1 TATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGAGATGAACCAGACTCGAACTGTATGA
* *
127514 CCAAACAGACCCTGACCCAAGATGGCTCCACATTAAGAAAGAACAAGACTC-AATTG
66 CCAAACAGACCCTGACCCAAGATGACTCCACATTAGGAAA-AA-AAGACTCAAATTG
** *
127570 TATGACCAAACAGACCCTGACCCATAACTCCACATTGGGA-ATGAACCAGACTCGAACCGTATGA
1 TATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGAGATGAACCAGACTCGAACTGTATGA
* * * * * * * *
127634 TCAAACAGATCCTGACCCAAGATTAATGCACATTAGGGATAAATAAGACTCGAACTG
66 CCAAACAGACCCTGACCCAAGATGACTCCACATTA-GGA-AAAAAAGACTCAAATTG
* * * * *
127691 TATGACCAAATAGACCTTGACCCATGGCTCCACAGTGGG-GATGTGAACCAAACTCAAACTGTAT
1 TATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGAGA--TGAACCAGACTCGAACTGTAT
*
127755 GACCAAACAGACCCTGGCCCA
64 GACCAAACAGACCCTGACCCA
127776 TGACTCCACA
Statistics
Matches: 285, Mismatches: 32, Indels: 19
0.85 0.10 0.06
Matches are distributed among these distances:
120 98 0.34
121 52 0.18
122 6 0.02
123 109 0.38
124 20 0.07
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.19
Consensus pattern (120 bp):
TATGACCAAACAGACCCTGACCCATGGCTCCACATTGGGAGATGAACCAGACTCGAACTGTATGA
CCAAACAGACCCTGACCCAAGATGACTCCACATTAGGAAAAAAAGACTCAAATTG
Found at i:127759 original size:61 final size:59
Alignment explanation
Indices: 127321--127826 Score: 460
Period size: 61 Copynumber: 8.3 Consensus size: 59
127311 AAGATGAATT
* * * * *
127321 AACTATATGATCAAACAGACCCTGACCCCATGGCTCTACATTGGGGATGAACCAGACTCG
1 AACTGTATGACCAAACAGACCCTGA-CCCATGACTCCACATTGGGGATGAACCAAACTCG
* * *
127381 AACTGTATGACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATTAACAAAAGACTCA
1 AACTGTATGACCAAACAGACCCTGACCC---ATGACTCCACATTGGGGATGAAC-CAA-ACTCG
* * * * * * *
127445 AATTATATGATCAAACAGACCCTGACCCATGGCTCTACATTGGAGATGAACCAGACTCG
1 AACTGTATGACCAAACAGACCCTGACCCATGACTCCACATTGGGGATGAACCAAACTCG
* * ** * *
127504 AACTATATGACCAAACAGACCCTGACCCAAGATGGCTCCACATTAAGAAAGAA-CAAGACTC-
1 AACTGTATGACCAAACAGACCCTGACCC---ATGACTCCACATTGGGGATGAACCAA-ACTCG
* * * *
127565 AATTGTATGACCAAACAGACCCTGACCCATAACTCCACATTGGGAATGAACCAGACTCG
1 AACTGTATGACCAAACAGACCCTGACCCATGACTCCACATTGGGGATGAACCAAACTCG
* * * * * * * **
127624 AACCGTATGATCAAACAGATCCTGACCCAAGATTAATGCACATTAGGGAT-AAATAAGACTCG
1 AACTGTATGACCAAACAGACCCTGACCC---ATGACTCCACATTGGGGATGAACCAA-ACTCG
* * * * *
127686 AACTGTATGACCAAATAGACCTTGACCCATGGCTCCACAGTGGGGATGTGAACCAAACTCA
1 AACTGTATGACCAAACAGACCCTGACCCATGACTCCACATTGGGGA--TGAACCAAACTCG
* *
127747 AACTGTATGACCAAACAGACCCTGGCCCATGACTCCACAATGGGGATGTGAACCAAACTCG
1 AACTGTATGACCAAACAGACCCTGACCCATGACTCCACATTGGGGA--TGAACCAAACTCG
127808 AACTGTATGACCAAACAGA
1 AACTGTATGACCAAACAGA
127827 TGGACATATA
Statistics
Matches: 361, Mismatches: 67, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
58 21 0.06
59 71 0.20
60 24 0.07
61 129 0.36
62 86 0.24
63 1 0.00
64 29 0.08
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (59 bp):
AACTGTATGACCAAACAGACCCTGACCCATGACTCCACATTGGGGATGAACCAAACTCG
Found at i:127817 original size:243 final size:242
Alignment explanation
Indices: 127321--127826 Score: 599
Period size: 243 Copynumber: 2.1 Consensus size: 242
127311 AAGATGAATT
* * ** * * *
127321 AACTATATGATCAAACAGACCCTGACCCCATGGCTCTACATTGGGGATGAACCAGACTCGAACTG
1 AACTGTATGACCAAACAGACCCTGACCCCATAACTCCACATTGGGAATGAACCAGACTCGAACCG
* * *
127386 TATGACCAAACAGACCCTGACCCAAGATGACTCCACATTGGGGATTAACAAAAGACTCAAATTAT
66 TATGACCAAACAGACCCTGACCCAAGATGAATCCACATTAGGGATTAACAAAAGACTCAAACTAT
* * * * *
127451 ATGATCAAACAGACCCTGACCCATGGCTCTACATTGGAGATGAACCAGACTCGAACTATATGACC
131 ATGACCAAACAGACCCTGACCCATGGCTCCACAGTGGAGATGAACCAAACTCAAACTATATGACC
* *
127516 AAACAGACCCTGACCCAAGATGGCTCCACATTAAGAAAGAACAAGACTC
196 AAACAGACCCTGACCC-A-ATGACTCCACATGAAGAAAGAACAAGACTC
*
127565 AATTGTATGACCAAACAGACCCTGA-CCCATAACTCCACATTGGGAATGAACCAGACTCGAACCG
1 AACTGTATGACCAAACAGACCCTGACCCCATAACTCCACATTGGGAATGAACCAGACTCGAACCG
* * * * * * *
127629 TATGATCAAACAGATCCTGACCCAAGATTAATGCACATTAGGGA-TAA-ATAAGACTCGAACTGT
66 TATGACCAAACAGACCCTGACCCAAGATGAATCCACATTAGGGATTAACAAAAGACTCAAACTAT
* * * *
127692 ATGACCAAATAGACCTTGACCCATGGCTCCACAGTGGGGATGTGAACCAAACTCAAACTGTATGA
131 ATGACCAAACAGACCCTGACCCATGGCTCCACAGTGGAGA--TGAACCAAACTCAAACTATATGA
* ** **
127757 CCAAACAGACCCTGGCCC-ATGACTCCACAATGGGGATGTGAACCAA-ACTC
194 CCAAACAGACCCTGACCCAATGACTCCAC-ATGAAGA-AAGAA-CAAGACTC
127807 GAACTGTATGACCAAACAGA
1 -AACTGTATGACCAAACAGA
127827 TGGACATATA
Statistics
Matches: 221, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
240 9 0.04
241 50 0.23
242 10 0.05
243 130 0.59
244 22 0.10
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (242 bp):
AACTGTATGACCAAACAGACCCTGACCCCATAACTCCACATTGGGAATGAACCAGACTCGAACCG
TATGACCAAACAGACCCTGACCCAAGATGAATCCACATTAGGGATTAACAAAAGACTCAAACTAT
ATGACCAAACAGACCCTGACCCATGGCTCCACAGTGGAGATGAACCAAACTCAAACTATATGACC
AAACAGACCCTGACCCAATGACTCCACATGAAGAAAGAACAAGACTC
Found at i:130260 original size:21 final size:20
Alignment explanation
Indices: 130236--130285 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
130226 TTGAATTAAT
130236 TCGATTAATTCGGTTCGGTTA
1 TCGATTAATTCGG-TCGGTTA
130257 TCGAATTAATTCGGTCGGTTA
1 TCG-ATTAATTCGGTCGGTTA
*
130278 ACGATTAA
1 TCGATTAA
130286 GAAAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 5 0.19
21 12 0.44
22 10 0.37
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (20 bp):
TCGATTAATTCGGTCGGTTA
Found at i:130563 original size:183 final size:184
Alignment explanation
Indices: 130348--130736 Score: 588
Period size: 183 Copynumber: 2.1 Consensus size: 184
130338 ATTAAATTTT
*
130348 AAATATTAAATATATTATATATATAACATATGGGCTCAA-CCCAAATCATTAAAAACCCAATTAA
1 AAATATTAAATATA-T-TATATATAACATATGGG-TCAAGCCCAAACCATTAAAAACCCAATTAA
** *
130412 TAATTTAAGATTTAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAA-ATTATATAAAT
63 TAATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATATTATATAAAA
*
130476 TTTTTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTT-AATTAAA
128 TTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
* * * *
130533 AAATATTAAATATATTATATATAACATATGGGTTAAGCCTAAACCATTTAAAATCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGTCAAGCCCAAACCATTAAAAACCCAATTAATAA
* *
130598 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATTTTATCTAAAATTT
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATATTATATAAAATTT
*
130663 TTATTTTATAATTATTTATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
* *
130717 AAATATTCAAT-TTTTATATA
1 AAATATTAAATATATTATATA
130737 AATTAGAAAA
Statistics
Matches: 187, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
182 3 0.02
183 103 0.55
184 67 0.36
185 14 0.07
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGGGTCAAGCCCAAACCATTAAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
Found at i:130874 original size:15 final size:15
Alignment explanation
Indices: 130854--130882 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
130844 AAAAAAAATT
130854 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
130869 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
130883 CGGTCGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:131132 original size:2 final size:2
Alignment explanation
Indices: 131125--131153 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
131115 CAATATTAAC
131125 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
131154 ACACTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131488 original size:27 final size:27
Alignment explanation
Indices: 131433--131488 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
131423 TCGTCATCAC
*
131433 CACTTTGAACTTGAAACTCCATAGCAT
1 CACTTTGAACTTGAAACTCCACAGCAT
* * *
131460 CACTTTGAATTTGAAAGTCCACAGGAT
1 CACTTTGAACTTGAAACTCCACAGCAT
131487 CA
1 CA
131489 AAATCTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (27 bp):
CACTTTGAACTTGAAACTCCACAGCAT
Found at i:134665 original size:21 final size:21
Alignment explanation
Indices: 134635--134699 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
134625 AATATAAATT
*
134635 GTGTATCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
*
134656 GTGTACCGATACACTGCTACA
1 GTGTACCGATGCACTGCTACA
*
134677 GTGTACCGATGCACTACTACA
1 GTGTACCGATGCACTGCTACA
134698 GT
1 GT
134700 AATTTCAGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (21 bp):
GTGTACCGATGCACTGCTACA
Found at i:137624 original size:34 final size:34
Alignment explanation
Indices: 137581--137650 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
137571 TTTTTTAATG
137581 ATGATGTGATATTACCTTATAGTGCCACGTCAAC
1 ATGATGTGATATTACCTTATAGTGCCACGTCAAC
*
137615 ATGATGTGATATTACCTTATAGTGTCACGTCAAC
1 ATGATGTGATATTACCTTATAGTGCCACGTCAAC
137649 AT
1 AT
137651 CACCGTTAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (34 bp):
ATGATGTGATATTACCTTATAGTGCCACGTCAAC
Found at i:146945 original size:36 final size:35
Alignment explanation
Indices: 146898--147079 Score: 224
Period size: 36 Copynumber: 5.0 Consensus size: 35
146888 GTGGCCAAAT
146898 TATATATTATATAATTTTCCAAAAT-TTTTAAAAAAC
1 TATATATTATATAATTTT-CAAAATGTTTT-AAAAAC
* *
146934 TATATACTATATAAGTTTTCAAAATGTGTTAAAAAC
1 TATATATTATATAA-TTTTCAAAATGTTTTAAAAAC
146970 TATATATTATATAAGTTTTCAAAATGTTTTAAAAAC
1 TATATATTATATAA-TTTTCAAAATGTTTTAAAAAC
* *
147006 TATATAATATATAAATGTTCTCAAAATGTTTTCAAAAC
1 TATATATTATAT-AAT-TT-TCAAAATGTTTTAAAAAC
*
147044 TATATATTATATATATTTT-AAAATATTTTCAAAAAC
1 TATATATTATATA-ATTTTCAAAATGTTTT-AAAAAC
147080 CGTATAATAT
Statistics
Matches: 130, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
35 9 0.07
36 77 0.59
37 14 0.11
38 30 0.23
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.43
Consensus pattern (35 bp):
TATATATTATATAATTTTCAAAATGTTTTAAAAAC
Found at i:146993 original size:72 final size:73
Alignment explanation
Indices: 146898--147090 Score: 250
Period size: 74 Copynumber: 2.6 Consensus size: 73
146888 GTGGCCAAAT
* *
146898 TATATATTATATAATTTTCCAAAAT-TTTTAAAAAACTATATACTATAT-AA-GTTTTCAAAATG
1 TATATATTATATAATTTT-CAAAATATTTT-AAAAACTATATAATATATAAATGTTCTCAAAATG
146960 TGTTAAAAAC
64 TGTTAAAAAC
*
146970 TATATATTATATAAGTTTTCAAAATGTTTTAAAAACTATATAATATATAAATGTTCTCAAAATGT
1 TATATATTATATAA-TTTTCAAAATATTTTAAAAACTATATAATATATAAATGTTCTCAAAATGT
* *
147035 TTTCAAAAC
65 GTTAAAAAC
**
147044 TATATATTATATATATTTT-AAAATATTTTCAAAAACCGTATAATATA
1 TATATATTATATA-ATTTTCAAAATATTTT-AAAAACTATATAATATA
147091 CAAACTTTCA
Statistics
Matches: 108, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
72 37 0.34
73 19 0.18
74 51 0.47
75 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (73 bp):
TATATATTATATAATTTTCAAAATATTTTAAAAACTATATAATATATAAATGTTCTCAAAATGTG
TTAAAAAC
Found at i:147112 original size:74 final size:74
Alignment explanation
Indices: 146898--147112 Score: 194
Period size: 74 Copynumber: 2.9 Consensus size: 74
146888 GTGGCCAAAT
* * * * *
146898 TATATATTATATAA-TTTTCCAAAAT-TTTTAAAAAACTATATACTATA-TAA-GTTTTCAAAAT
1 TATATATTATATAAGTTTT-CAAAATATTTT-AAAAACCATATAATATACAAATGTTCTAAAAAT
* * *
146959 GTGTTAAAAAC
64 ATTTTCAAAAC
* * * * *
146970 TATATATTATATAAGTTTTCAAAATGTTTTAAAAACTATATAATATATAAATGTTCTCAAAATGT
1 TATATATTATATAAGTTTTCAAAATATTTTAAAAACCATATAATATACAAATGTTCTAAAAATAT
147035 TTTCAAAAC
66 TTTCAAAAC
*
147044 TATATATTATATATA-TTTT-AAAATATTTTCAAAAACCGTATAATATACAAACT-TTC-AAAAA
1 TATATATTATATA-AGTTTTCAAAATATTTT-AAAAACCATATAATATACAAA-TGTTCTAAAAA
147105 TCATTTTC
63 T-ATTTTC
147113 TGAAATTATA
Statistics
Matches: 124, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
72 36 0.29
73 24 0.19
74 62 0.50
75 2 0.02
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (74 bp):
TATATATTATATAAGTTTTCAAAATATTTTAAAAACCATATAATATACAAATGTTCTAAAAATAT
TTTCAAAAC
Found at i:148178 original size:248 final size:247
Alignment explanation
Indices: 147734--148856 Score: 980
Period size: 248 Copynumber: 4.6 Consensus size: 247
147724 TGCTTTGGGC
* * * * *
147734 TATGTTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTC-AAGGGTCTTTGGTGACAGA
1 TATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAA-GGTCTTT-GTGACAGA
* *
147797 TAA-CC--CTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTT
64 TAACCCTTCTAGACTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
*
147859 GGGGGTCTTTGGCAGATAGCCATTCTCGACTTAAGCTATGCTACAAATGATGTGCCGTTGAGCTG
129 GGGGGTCTTTGGCAGATAGCC-TTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTG
147924 AGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
193 AGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
* * * *
147979 TATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTGACAGAT
1 TATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTT-GTGACAGAT
* *
148043 AACCCTTCTAGACTTGAGTTATGTTGTGAATGATATGCCCTCGAAGCCGAGTGTAATCGAACTCG
65 AACCCTTCTAGACTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCG
*
148108 GGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTTA
130 GGGGTCTTTGGCAGATAGC-CTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGA
148173 GCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
194 GCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
* * * * **
148227 TGTGCTGTAAATTATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTG-G-CAGATA
1 TATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGTGACAGATA
* * * * * * * * * * * * *
148290 GCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCGTTG-AGCTGAGCGTAGTCGAACTCAA
66 ACCCTTCTAGACTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC--
*** * * * * * * *
148354 AGGTTTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCC-TTAGAG
129 -GGGGGTCT-TTGGCAGA-TAGCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAG
* * * * *
148418 CTGAGCGTAGTCGAA--CGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTGAGT
190 CTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
* * * **
148473 TATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTC-TTG-G-CAGATA
1 TATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGTGACAGATA
* ** * * * * * *** * * *
148535 GCTTTCTCTCGACTTAAGCTT-TGCTGCAAATGATGTGTTGTTG-AGCTGAGCGTAGTCGAACTC
66 ACCCT-TCTAGACTTGAG-TTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
*** * * * * * * ** *
148598 AAAGGTCTTTTGTTGGCAGAAAACCCTTTTAGACTTAAGTTGTATTGCAAATGATATGCC-TTAG
129 GGGGGTC---T-TTGGCAG-ATAGCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-G
* * * * *
148662 AGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTGAGT
188 AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
* * * **
148721 TATGATGTGAATGATATGCCCTCGAAGCTGAGTGT-ATCGAACTCGGGGGTCTTTG-G-CAGATA
1 TATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGTGACAGATA
* * * * * * * * * * * *
148783 GCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTG-AGCTGAGCGTAGTCGAACTCGA
66 ACCCTTCTAGACTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGG
*
148847 AGGTCTTTGG
131 GGGTCTTTGG
148857 TTGGAAAATA
Statistics
Matches: 781, Mismatches: 75, Indels: 46
0.87 0.08 0.05
Matches are distributed among these distances:
243 5 0.01
244 1 0.00
245 90 0.12
246 237 0.30
247 82 0.10
248 278 0.36
249 86 0.11
250 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (247 bp):
TATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGTGACAGATA
ACCCTTCTAGACTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGG
GGGTCTTTGGCAGATAGCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGC
GTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
Found at i:148281 original size:165 final size:164
Alignment explanation
Indices: 147951--148874 Score: 920
Period size: 165 Copynumber: 5.6 Consensus size: 164
147941 AGGTCTTTTG
* * *
147951 TTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTT-GAGCTGAGCGTAGT
* * * * *
148016 CGAACTCGAAGGTCTTTAG-TGACAGATAACCCTTCTAGACTTGAGTTATGTTGTGAATGATATG
65 CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATG
*
148080 CCCTCGAAGCCGAGTGTAATCGAACTCGGGGGTCT
130 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCT
* * * *
148115 TTGGCAGATAGCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTTAGCGTAGT
1 TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCC-TTGAGCTGAGCGTAGT
* * * *
148180 CGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGTAAATTATATG
65 CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATG
*
148245 CCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCT
130 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCT
* * * *
148280 TTGGCAGATAGCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCGTTGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATATG-CCTTGAGCTGAGCGTAGT
* * * * *
148345 CGAACTCAAAGGTTTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATG
65 CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATG
* * * * **
148410 CCTTAG-AGCTGAGCGTAGTCGAA--CGAAGGTCT
130 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCT
* * * ** * *
148442 TTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTG
1 TT-G-G-CAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATATG-CCTTG-AGCTGAGCG
* * ** * ** * *
148507 TAATCGAACTTGGGGGTC-----TTGGCAGATAGCTTTCTCTCGACTTAAGCTT-TGCTGCAAAT
61 TAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCT-TCTAGACTTAAG-TTATGCTGTAAAT
* *** * * * ***
148566 GATGTGTTGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTT
124 GATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC---T
* * * * * **
148609 GTTGGCAGAAAACCCTTTTAGACTTAAGTTGTATTGCAAATGATATGCCTTAGAGCTGAGCGTAG
1 -TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTT-GAGCTGAGCGTAG
* * * * *
148674 TCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGATGTGAATGATAT
64 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATAT
148738 GCCCTCGAAGCTGAGTGT-ATCGAACTCGGGGGTCT
129 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCT
* *
148773 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCC-TTGAGCTGAGCGTAGT
* * * *
148838 CGAACTCGAAGGTCTTTGGTTGGAAAATAGCCCTTCT
65 CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCT
148875 TGTCTTGAGC
Statistics
Matches: 628, Mismatches: 108, Indels: 48
0.80 0.14 0.06
Matches are distributed among these distances:
161 11 0.02
162 53 0.08
163 70 0.11
164 139 0.22
165 272 0.43
166 24 0.04
167 38 0.06
168 21 0.03
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (164 bp):
TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGC
CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCT
Found at i:148519 original size:246 final size:248
Alignment explanation
Indices: 147867--148874 Score: 1185
Period size: 246 Copynumber: 4.1 Consensus size: 248
147857 TTGGGGGTCT
* * * * *
147867 TTGGCAGATAGCCATTCTCGACTTAAGCTATGCTACAAATGATGTGCCGTTGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCGTTGAGCTGAGCGTAGT
* * *
147932 CGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG
66 CGAAC-CAAAGGTCTTTTGGTGACAGACAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATG
* * * * ** * * *
147997 -CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTGACAGATAACCCTTCTAGACTTGAG
130 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAG
* * ** * * * * * * ***
148061 TTATGTTGTGAATGATATGCCCTCGAAGCCGAGTGTAATCGAACTCGGGGGTC---T-
192 CTATGCTGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * * * *
148115 TTGGCAGATAGCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTTAGCGTAGT
1 TTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCGTTGAGCTGAGCGTAGT
* * * *
148180 CGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGTAAATTATATG
66 CGAAC-CAAAGGTCTTTTGGTGACAGACAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATG
* *
148245 CCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTA
130 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
* *
148310 TGCTGCAAATGATGTGTCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTTTTTTG
195 TGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * *
148364 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCC-TTAGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCGTT-GAGCTGAGCGTAG
* * * *
148428 TCGAA-CGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTGAATGATATG
65 TCGAACCAAAGGTCTTTTGGTGACAGACAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATG
* **
148491 CCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTC-TTGGCAGATAGCTTTCTCTCGACTTAAGCT
130 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCT-TCTCGACTTAAGCT
* **
148555 TTGCTGCAAATGATGTGTTGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
194 ATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * * * **
148610 TTGGCAGAAAACCCTTTTAGACTTAAGTTGTATTGCAAATGATATGCC-TTAGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCGTT-GAGCTGAGCGTAG
* * * * *
148674 TCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGATGTGAATGATAT
65 TCGAAC-CAAAGGTCTTTTGGTGACAGACAACCCTTCTAGACTTAAGTTATGCTGTAAATGATAT
148738 GCCCTCGAAGCTGAGTGT-ATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
129 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
* * *
148802 ATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
194 ATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * *
148857 TTGGAAAATAGCCCTTCT
1 TTGGCAGATAACCCTTCT
148875 TGTCTTGAGC
Statistics
Matches: 678, Mismatches: 72, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
245 34 0.05
246 244 0.36
247 99 0.15
248 214 0.32
249 87 0.13
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (248 bp):
TTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCGTTGAGCTGAGCGTAGT
CGAACCAAAGGTCTTTTGGTGACAGACAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGC
CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
GCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
Found at i:148850 original size:411 final size:411
Alignment explanation
Indices: 147732--148857 Score: 1396
Period size: 413 Copynumber: 2.7 Consensus size: 411
147722 CTTGCTTTGG
* * * * *
147732 GCTATGTTGTAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAGGGTC-TTTGGTGACA
1 GCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCA
* * * * ** * * *
147795 GATAA-CC--CTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAAC
65 GAAAACCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCCTAGAAGCTGAGCGTAATCGAAC
* ** * * * * * * * *
147857 TTGGGGGTCTTTGGCAGATAGCCATTCTCGACTTAAGCTATGCTACAAATGATGTGCCGTTGAGC
130 TCGAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGATGCAAATGATATGCCCTCGAGC
**
147922 TGAGCGTAGTCGAACTCA-AAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTG
195 TGAGCGTAGTCGAACTCAGGGGGTC---TGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTG
* *
147986 CAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTGACAGATAACCCTTC
257 CAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTC
*
148051 TAGACTTGAGTTATGTTGTGAATGATATGCCCTCGAAGCCGAGTGTAATCGAACTCGGGGGTCTT
322 TAGACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCCGAGTGTAATCGAACTCGGGGGTCTT
148116 TGGCAGATAGCTCTTCTCGACTTAA
387 TGGCAGATAGCTCTTCTCGACTTAA
*
148141 GCTATGCTGCAAATGATGTGCCGTTGAGCTTAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
1 GCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
* * * * * *
148206 ACAACCCTTCTAGACTTAAGTTGTGCTGTAAATTATATGCCCTCGAAGCTGAGTGTAATCGAACT
66 AAAACCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCCTAGAAGCTGAGCGTAATCGAACT
* ** * * * * * * * *
148271 TGGGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCGTTGAGCT
131 CGAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGATGCAAATGATATGCCCTCGAGCT
*** * *
148336 GAGCGTAGTCGAACTCAAAGGTTTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCA
196 GAGCGTAGTCGAACTC--AGGGGGTCTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCA
148401 AATGATATGCCTTAGAGCTGAGCGTAGTCGAA--CGAAGGTCTTTGGTGACAGATAACCCTTCTA
259 AATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTA
* *
148464 GACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTC-TTG
324 GACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCCGAGTGTAATCGAACTCGGGGGTCTTTG
*
148528 GCAGATAGCTTTCTCTCGACTTAA
389 GCAGATAGCTCT-TCTCGACTTAA
* **
148552 GCTTTGCTGCAAATGATGTGTTGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
1 GCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
* * * *
148617 AAAACCCTTTTAGACTTAAGTTGTATTGCAAATGATATGCCTTAG-AGCTGAGCGTAGTCGAACT
66 AAAACCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCCTAGAAGCTGAGCGTAATCGAACT
* * **
148681 CGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGATGTGAATGATATGCCCTCGA
131 CGAAGGTCTTT-G-G-CAGATAACCCTTCTAGACTTAAGCTATGATGCAAATGATATGCCCTCG-
* * * * *
148746 AGCTGAGTGTA-TCGAACTC-GGGGGTCT-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTG
192 AGCTGAGCGTAGTCGAACTCAGGGGGTCTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTG
* *
148808 CAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
257 CAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
148858 TGGAAAATAG
Statistics
Matches: 633, Mismatches: 69, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
409 108 0.17
410 57 0.09
411 214 0.34
412 1 0.00
413 241 0.38
414 10 0.02
415 1 0.00
416 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (411 bp):
GCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
AAAACCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCCTAGAAGCTGAGCGTAATCGAACT
CGAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGATGCAAATGATATGCCCTCGAGCT
GAGCGTAGTCGAACTCAGGGGGTCTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAA
TGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGA
CTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCCGAGTGTAATCGAACTCGGGGGTCTTTGGC
AGATAGCTCTTCTCGACTTAA
Found at i:148897 original size:84 final size:83
Alignment explanation
Indices: 147742--148874 Score: 950
Period size: 84 Copynumber: 13.8 Consensus size: 83
147732 GCTATGTTGT
* * * *
147742 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC-AAGGGTCTTTGGTGACAGATAA-CC--C
1 AAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTGTTGGCAGATAACCCTTC
* * * *
147803 TAGCCTTGAGTTATGTTGT
65 TAGACTTAAGTTATGCTGC
* * * * * ** * *
147822 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTC--T-TTGGCAGATAGCCATTC
1 AAATGATATGCCTTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
* * *
147884 TCGACTTAAGCTATGCTAC
65 TAGACTTAAGTTATGCTGC
* * * *
147903 AAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTC
1 AAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC
147968 TAGACTTAAGTTATGCTGC
65 TAGACTTAAGTTATGCTGC
* *
147987 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAG-TGACAGATAACCCTTC
1 AAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTC
* * *
148051 TAGACTTGAGTTATGTTGT
65 TAGACTTAAGTTATGCTGC
* * * * * * ** * *
148070 GAATGATATGCCCTCGAAGCCGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGATAGCTCTTC
1 AAATGATATGCCTTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
* *
148132 TCGACTTAAGCTATGCTGC
65 TAGACTTAAGTTATGCTGC
* * * * *
148151 AAATGATGTGCCGTTGAGCTTAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTC
1 AAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC
* *
148216 TAGACTTAAGTTGTGCTGT
65 TAGACTTAAGTTATGCTGC
* * * * * * ** * *
148235 AAATTATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTC--T-TTGGCAGATAGCTCTTC
1 AAATGATATGCCTTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
* *
148297 TCGACTTAAGCTATGCTGC
65 TAGACTTAAGTTATGCTGC
* * * * * *
148316 AAATGATGTGTCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTTTTTTGTTGGCAGACAACCCTTC
1 AAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGTTGGCAGATAACCCTTC
*
148381 TAGACTTAAGTTGTGCTGC
65 TAGACTTAAGTTATGCTGC
* * *
148400 AAATGATATGCCTTAGAGCTGAGCGTAGTCGAA--CGAAGGTCTTTGGTGACAGATAACCCTTCT
1 AAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* *
148463 AGACTTGAGTTATGCTGT
66 AGACTTAAGTTATGCTGC
* * * * * * ** * **
148481 GAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTC----TTGGCAGATAGCTTTCT
1 AAATGATATGCCTTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCT-T
*
148542 CTCGACTTAAGCTT-TGCTGC
64 CTAGACTTAAG-TTATGCTGC
* * * *
148562 AAATGATGTG-TTGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGAAAACCCTT
1 AAATGATATGCCT-TTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTT
* * **
148626 TTAGACTTAAGTTGTATTGC
64 CTAGACTTAAGTTATGCTGC
* * *
148646 AAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
1 AAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * *
148711 AGACTTGAGTTATGATGT
66 AGACTTAAGTTATGCTGC
* * * * ** *
148729 GAATGATATGCCCTCGAAGCTGAGTGTA-TCGAACTCGGGGGTC--T-TTGGCAGATAGCCCTTC
1 AAATGATATGCCTTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
* *
148790 TCGACTTAAGCTATGCTGC
65 TAGACTTAAGTTATGCTGC
* * * *
148809 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGAAAATAGCCCTTC
1 AAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTC
148874 T
65 T
148875 TGTCTTGAGC
Statistics
Matches: 817, Mismatches: 196, Indels: 76
0.75 0.18 0.07
Matches are distributed among these distances:
78 8 0.01
79 12 0.01
80 157 0.19
81 201 0.25
82 25 0.03
83 108 0.13
84 274 0.34
85 32 0.04
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (83 bp):
AAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
AGACTTAAGTTATGCTGC
Found at i:152304 original size:18 final size:19
Alignment explanation
Indices: 152245--152308 Score: 121
Period size: 19 Copynumber: 3.4 Consensus size: 19
152235 AGTTAATGTG
152245 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
152264 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
152283 AATGCAAAGAAAATAA-AA
1 AATGCAAAGAAAATAACAA
152301 AATGCAAA
1 AATGCAAA
152309 ATGTCTAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
18 10 0.22
19 35 0.78
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:153780 original size:2 final size:2
Alignment explanation
Indices: 153773--153797 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
153763 CAAAAACATA
153773 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
153798 ATAGTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:153886 original size:19 final size:19
Alignment explanation
Indices: 153864--153912 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
153854 GTAAATCAAG
153864 AATAAAGAAAA-AGAAAAGA
1 AATAAA-AAAATAGAAAAGA
* *
153883 AATAAAAAAATATAAAATA
1 AATAAAAAAATAGAAAAGA
*
153902 AATAAATAAAT
1 AATAAAAAAAT
153913 TATTTCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (19 bp):
AATAAAAAAATAGAAAAGA
Found at i:153997 original size:20 final size:20
Alignment explanation
Indices: 153951--153998 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
153941 TATGAAGTAA
* * *
153951 AAATAAAAAATGTTAGTACT
1 AAATAAAAAATGCTAATAAT
* *
153971 AATTAAAACATGCTAATAAT
1 AAATAAAAAATGCTAATAAT
153991 AAATAAAA
1 AAATAAAA
153999 TAAGACTTTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.27
Consensus pattern (20 bp):
AAATAAAAAATGCTAATAAT
Done.