Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 11 of 133
Found at i:2898052 original size:36 final size:35
Alignment explanation
Indices: 2897985--2898053 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
2897975 ATTTAATCAA
**
2897985 ATTATTAATATTTTAAATTTTTTTTGTTAAAATTG
1 ATTATTAATATTTTAAATTTTTTAAGTTAAAATTG
*
2898020 ATTATGTAATATTTTAACTTTTTTGAAG-TAAAAT
1 ATTAT-TAATATTTTAAATTTTTT-AAGTTAAAAT
2898054 CTTTATTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 5 0.17
36 23 0.79
37 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (35 bp):
ATTATTAATATTTTAAATTTTTTAAGTTAAAATTG
Found at i:2898883 original size:13 final size:13
Alignment explanation
Indices: 2898865--2898903 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
2898855 TTTCACCAAC
2898865 TAAACAATAAAAA
1 TAAACAATAAAAA
2898878 TAAACAATAAATAA
1 TAAACAATAAA-AA
2898892 TAATA-AATAAAA
1 TAA-ACAATAAAA
2898904 TATTTTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 11 0.46
15 1 0.04
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAACAATAAAAA
Found at i:2901708 original size:16 final size:17
Alignment explanation
Indices: 2901683--2901715 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2901673 GACTTTGGAG
*
2901683 TTTAA-TTTTAATTTTA
1 TTTAAGTTTAAATTTTA
2901699 TTTAAGTTTAAATTTTA
1 TTTAAGTTTAAATTTTA
2901716 ATATATGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTAAGTTTAAATTTTA
Found at i:2906649 original size:110 final size:112
Alignment explanation
Indices: 2906505--2906705 Score: 246
Period size: 110 Copynumber: 1.8 Consensus size: 112
2906495 AAAAAATTAT
* * * * *
2906505 ATTTTTATCTTAGAAACATTATCTTTATTAAATTTTAAAAAATAT-A-TTTTCATGTTTTTAACA
1 ATTTTTATCTTAAAAACATCATCTTTATTAAATTTTAAAAAATATAATTTTTCATATGTTCAACA
* * *
2906568 AAAATTATGTTTT-TATTTTTAAAAACGTCACCTTTTCAACAAAGTGC
66 AAAACTATATTTTCT-TTCTTAAAAACGTCACCTTTTCAACAAAGTGC
* * * * * *
2906615 ATTTTTATTTTAAAAATATCATTTTTATTGAATTTTGAAAACTATAATTTTTCATATGTTCAACA
1 ATTTTTATCTTAAAAACATCATCTTTATTAAATTTTAAAAAATATAATTTTTCATATGTTCAACA
2906680 AAAACTATATTTTCTTTCTTAAAAAC
66 AAAACTATATTTTCTTTCTTAAAAAC
2906706 ATTACTCTTG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
110 37 0.50
111 1 0.01
112 35 0.47
113 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.47
Consensus pattern (112 bp):
ATTTTTATCTTAAAAACATCATCTTTATTAAATTTTAAAAAATATAATTTTTCATATGTTCAACA
AAAACTATATTTTCTTTCTTAAAAACGTCACCTTTTCAACAAAGTGC
Found at i:2906720 original size:74 final size:76
Alignment explanation
Indices: 2906615--2906803 Score: 203
Period size: 74 Copynumber: 2.6 Consensus size: 76
2906605 AACAAAGTGC
* * * * *
2906615 ATTTT-TATTTTAAAAATATCAT-TTTTATTGAATTTTGAAAAC-TATAATTTTTCATATGTTCA
1 ATTTTCTATCTTAGAAATATCATATATTGTTGAATTTTGAAAACGCATAATTTTTCATATGTTCA
*
2906677 ACAAAAACTAT
66 ACAAAAACAAT
* * * * *
2906688 ATTTTCTTTCTTA-AAA-A-CATTACTCTTGTTGAATTCT-AAAACGCATATTTTTTCATATTTT
1 ATTTTCTATCTTAGAAATATCA-TA-TATTGTTGAATTTTGAAAACGCATAATTTTTCATATGTT
*
2906749 TAACAAAAACAAT
64 CAACAAAAACAAT
2906762 ATTTTCTATCTTAGAAATATCATATATTGTTGAATTTTGAAA
1 ATTTTCTATCTTAGAAATATCATATATTGTTGAATTTTGAAA
2906804 TTTTTTTTCA
Statistics
Matches: 94, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
71 2 0.02
72 2 0.02
73 13 0.14
74 54 0.57
75 15 0.16
76 6 0.06
77 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.47
Consensus pattern (76 bp):
ATTTTCTATCTTAGAAATATCATATATTGTTGAATTTTGAAAACGCATAATTTTTCATATGTTCA
ACAAAAACAAT
Found at i:2906954 original size:110 final size:111
Alignment explanation
Indices: 2906760--2907006 Score: 313
Period size: 110 Copynumber: 2.2 Consensus size: 111
2906750 AACAAAAACA
* * * * * *
2906760 ATATTTTCTATCTTAGAAATATCATATATTGTTGAATTTTGAAATTTTTTTTCATGTTTATAATA
1 ATATTTTTTATCTTAAAAATATCATATATTGTTGAATTTTAAAATATTTTTTCATATTTACAATA
* *
2906825 AAAATTACATTTTTATCTTATAAACA-CAGTCTTTTCAATATAAA-TT
66 AAAATTACATTTTTATCTTAAAAACATCA-TCTTTTCAACA-AAACTT
*
2906871 ATATTTTTTATCTTAAAAATATCAT-TTTTGTTGAATTTTAAAAATATTTTTT-ATATTTACAAT
1 ATATTTTTTATCTTAAAAATATCATATATTGTTGAATTTT-AAAATATTTTTTCATATTTACAAT
* * *
2906934 CAAAATTACATTTTTATCTTAAAAATATTATCTTTTCAACAAAACTT
65 AAAAATTACATTTTTATCTTAAAAACATCATCTTTTCAACAAAACTT
*
2906981 ATGTTTTTTTATCTTAAAAATATCAT
1 AT-ATTTTTTATCTTAAAAATATCAT
2907007 CATTATTAAA
Statistics
Matches: 119, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
109 3 0.03
110 60 0.50
111 56 0.47
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (111 bp):
ATATTTTTTATCTTAAAAATATCATATATTGTTGAATTTTAAAATATTTTTTCATATTTACAATA
AAAATTACATTTTTATCTTAAAAACATCATCTTTTCAACAAAACTT
Found at i:2907963 original size:19 final size:17
Alignment explanation
Indices: 2907925--2907963 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2907915 TCCGTATGCA
*
2907925 TATATATTTCTCGTATG
1 TATATATTTCTCGTAAG
2907942 TATATATTTCTCCTGTAAG
1 TATATATTTCT-C-GTAAG
2907961 TAT
1 TAT
2907964 TGAAAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 1 0.05
19 7 0.37
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (17 bp):
TATATATTTCTCGTAAG
Found at i:2908224 original size:23 final size:23
Alignment explanation
Indices: 2908197--2908242 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2908187 GAAAGTTATT
2908197 CCAATATATGATCATACTGACTC
1 CCAATATATGATCATACTGACTC
2908220 CCAATATATGATCATACTGACTC
1 CCAATATATGATCATACTGACTC
2908243 GATTCTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (23 bp):
CCAATATATGATCATACTGACTC
Found at i:2912656 original size:18 final size:15
Alignment explanation
Indices: 2912615--2912644 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2912605 ACTACGTATC
2912615 ATTAT-TTAAAAATA
1 ATTATATTAAAAATA
2912629 ATTATATTAAAAATA
1 ATTATATTAAAAATA
2912644 A
1 A
2912645 ATATCATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTATATTAAAAATA
Found at i:2914248 original size:30 final size:30
Alignment explanation
Indices: 2914176--2914327 Score: 114
Period size: 30 Copynumber: 5.1 Consensus size: 30
2914166 TTAATTTATA
* *
2914176 TTAATAATTTATTTAGATACAAATT-AAAT
1 TTAAAAATTTATTTAGATATAAATTAAAAT
* * *
2914205 ATCAATAGTTTATTTAGATATAAATTAAAAT
1 -TTAAAAATTTATTTAGATATAAATTAAAAT
* * ** *
2914236 TTAAAAAATTATTTATATGCAAAATAAAAT
1 TTAAAAATTTATTTAGATATAAATTAAAAT
* *
2914266 TTAAAAATTTATTAAG-TAT-AATAAAAAT
1 TTAAAAATTTATTTAGATATAAATTAAAAT
* * *
2914294 ATATAAATTTATTTAAATA-AAATGATAAAAT
1 TTAAAAATTTATTTAGATATAAAT--TAAAAT
2914325 TTA
1 TTA
2914328 CGAACTTTTA
Statistics
Matches: 93, Mismatches: 24, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
28 19 0.20
29 6 0.06
30 57 0.61
31 11 0.12
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (30 bp):
TTAAAAATTTATTTAGATATAAATTAAAAT
Found at i:2918124 original size:15 final size:16
Alignment explanation
Indices: 2918099--2918128 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2918089 CAATTGGCCA
2918099 ATATATTTATTTATTT
1 ATATATTTATTTATTT
2918115 ATAT-TTTATTTATT
1 ATATATTTATTTATT
2918129 ATTTTTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATATATTTATTTATTT
Found at i:2918300 original size:18 final size:18
Alignment explanation
Indices: 2918264--2918305 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2918254 TTATTATTAT
*
2918264 TAATTATTTATTAATAAA
1 TAATTATTTAATAATAAA
*
2918282 TTATTATTTAAT-ATAAAA
1 TAATTATTTAATAAT-AAA
2918300 TAATTA
1 TAATTA
2918306 ATAATTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTATTTAATAATAAA
Found at i:2929426 original size:9 final size:9
Alignment explanation
Indices: 2929414--2929452 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
2929404 TATCTTGTAT
2929414 TTAATTCCC
1 TTAATTCCC
*
2929423 TTAATTCTC
1 TTAATTCCC
*
2929432 TTAATTCTC
1 TTAATTCCC
2929441 TTAATTCTCC
1 TTAATTC-CC
2929451 TT
1 TT
2929453 CCTTTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 24 0.89
10 3 0.11
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.54
Consensus pattern (9 bp):
TTAATTCCC
Found at i:2929437 original size:18 final size:18
Alignment explanation
Indices: 2929414--2929449 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2929404 TATCTTGTAT
2929414 TTAATTCCCTTAATTCTC
1 TTAATTCCCTTAATTCTC
*
2929432 TTAATTCTCTTAATTCTC
1 TTAATTCCCTTAATTCTC
2929450 CTTCCTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATTCCCTTAATTCTC
Found at i:2932333 original size:27 final size:26
Alignment explanation
Indices: 2932294--2932346 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
2932284 GATACAAAAA
2932294 ATTATGATAAAA-TAAGATAAAATAAT
1 ATTATGATAAAATTAA-ATAAAATAAT
*
2932320 ATTATGAATAAAATTAAATTAAATAAT
1 ATTATG-ATAAAATTAAATAAAATAAT
2932347 GTTAATCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 6 0.25
27 15 0.62
28 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (26 bp):
ATTATGATAAAATTAAATAAAATAAT
Found at i:2934763 original size:30 final size:28
Alignment explanation
Indices: 2934685--2934789 Score: 131
Period size: 30 Copynumber: 3.6 Consensus size: 28
2934675 AATAATAAAA
*
2934685 GTATTTAAATAATTTTTAAAATTTTA-TT
1 GTATTTAAATAAATTTT-AAATTTTATTT
* *
2934713 ATATTTAAATAAGTTTTAAATTTTATTTT
1 GTATTTAAATAAATTTTAAATTTTA-TTT
2934742 GTATTTAAATAAATCTTTAAATTTTAATTT
1 GTATTTAAATAAAT-TTTAAATTTT-ATTT
*
2934772 GTATTTAAATAAAATTTA
1 GTATTTAAATAAATTTTA
2934790 TCTTTTATAA
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.12
28 15 0.22
29 18 0.26
30 26 0.38
31 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (28 bp):
GTATTTAAATAAATTTTAAATTTTATTT
Found at i:2934831 original size:18 final size:16
Alignment explanation
Indices: 2934792--2934843 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 16
2934782 AAAATTTATC
2934792 TTTTATAATTAAATAAG
1 TTTT-TAATTAAATAAG
*
2934809 TTTTTAATATAAATTAG
1 TTTTTAAT-TAAATAAG
*
2934826 TATTTTATTTGAAATAAG
1 T-TTTTAATT-AAATAAG
2934844 GATATATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.14
17 13 0.45
18 12 0.41
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (16 bp):
TTTTTAATTAAATAAG
Found at i:2935114 original size:32 final size:32
Alignment explanation
Indices: 2935068--2935129 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
2935058 TCGTTGTGTT
*
2935068 AAATTTAAAATATATATTTTAAT-TTTTATCA
1 AAATTTAAAATATATATATTAATATTTTATCA
*
2935099 AAATTTCAAATTATATATATTAATATTTTAT
1 AAATTT-AAAATATATATATTAATATTTTAT
2935130 ATTATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 6 0.22
32 15 0.56
33 6 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (32 bp):
AAATTTAAAATATATATATTAATATTTTATCA
Found at i:2946647 original size:21 final size:21
Alignment explanation
Indices: 2946614--2946661 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
2946604 ATTATTTGAT
2946614 AAAA-AATTAATTGATCAATG
1 AAAATAATTAATTGATCAATG
* *
2946634 AAAATAATTTATTGATTAATG
1 AAAATAATTAATTGATCAATG
2946655 AAAATAA
1 AAAATAA
2946662 AATTATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (21 bp):
AAAATAATTAATTGATCAATG
Found at i:2947002 original size:12 final size:12
Alignment explanation
Indices: 2946985--2947009 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2946975 GATTTAATCT
2946985 AAAATATTATTA
1 AAAATATTATTA
2946997 AAAATATTATTA
1 AAAATATTATTA
2947009 A
1 A
2947010 TTTAAAAAAG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATATTATTA
Found at i:2947185 original size:39 final size:38
Alignment explanation
Indices: 2947098--2947233 Score: 100
Period size: 39 Copynumber: 3.5 Consensus size: 38
2947088 ACATAAATAT
*
2947098 TTTTAAT-AT-TTAA-ATAATAAATAGTATTATATTATTA
1 TTTTAATAATATTAATATAATAAATAATATT-T-TTATTA
*
2947135 TTTTGAGAATAAATATTAATATAGTAAATAATATTTTTATTA
1 TTTT---AAT-AATATTAATATAATAAATAATATTTTTATTA
* * * * *
2947177 TTTTAATAATCAATAATAT-TTAATATAAAAATATTATTA
1 TTTTAATAAT-ATTAATATAATAA-ATAATATTTTTATTA
*
2947216 TTTTAATAATATAAATAT
1 TTTTAATAATATTAATAT
2947234 TTTTAATCAT
Statistics
Matches: 81, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
37 4 0.05
38 12 0.15
39 32 0.40
40 3 0.04
42 12 0.15
43 5 0.06
44 13 0.16
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (38 bp):
TTTTAATAATATTAATATAATAAATAATATTTTTATTA
Found at i:2947507 original size:33 final size:31
Alignment explanation
Indices: 2947469--2947548 Score: 97
Period size: 33 Copynumber: 2.5 Consensus size: 31
2947459 AGTAGTAATA
2947469 TTATTTTAAATATTAATATAAATAATAAATATT
1 TTATTTTAAATATTAATATAAAT-AT-AATATT
* * *
2947502 TTATTTTAAATGTTTATATTAATATAATATT
1 TTATTTTAAATATTAATATAAATATAATATT
*
2947533 TTAATATTAAATATTA
1 TT-ATTTTAAATATTA
2947549 TGATTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
31 8 0.20
32 12 0.30
33 20 0.50
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (31 bp):
TTATTTTAAATATTAATATAAATATAATATT
Found at i:2947546 original size:26 final size:25
Alignment explanation
Indices: 2947368--2947548 Score: 70
Period size: 26 Copynumber: 7.0 Consensus size: 25
2947358 TTCAATATAA
2947368 AATATAATTATTTTAATAGTATAAATATT
1 AATATAA-TATTTT-A-A-TATAAATATT
* *
2947397 -TTA-AATATTTTAATA-AACATACT
1 AATATAATATTTTAATATAA-ATATT
* * *
2947420 ATTTTTATATTATT-ATATAAATA--
1 AATATAATATT-TTAATATAAATATT
*
2947443 AAAATAATATTTTAATAGTAGTAATATT
1 AATATAATATTTTAATA-TA--AATATT
* * * *
2947471 ATTTTAA-ATATTAATATAAATAATA
1 AATATAATATTTTAATATAAAT-ATT
** * **
2947496 AATATTTTATTTTAAATGTTTATATT
1 AATATAATATTTT-AATATAAATATT
2947522 AATATAATATTTTAATATTAAATATT
1 AATATAATATTTTAATA-TAAATATT
2947548 A
1 A
2947549 TGATTAAAAT
Statistics
Matches: 110, Mismatches: 27, Indels: 33
0.65 0.16 0.19
Matches are distributed among these distances:
22 4 0.04
23 16 0.15
24 8 0.07
25 20 0.18
26 40 0.36
27 16 0.15
28 6 0.05
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (25 bp):
AATATAATATTTTAATATAAATATT
Found at i:2947555 original size:32 final size:31
Alignment explanation
Indices: 2947491--2947575 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 31
2947481 TTAATATAAA
* *
2947491 TAATA-AATATTTTATTTTAAATGTTTATAT
1 TAATATAATATTTTATATTAAATGATTATAT
2947521 TAATATAATATTTTAATATTAAAT-ATTATGAT
1 TAATATAATATTTT-ATATTAAATGATTAT-AT
*
2947553 TAAAATATAATTATTTTTTATTA
1 T--AATATAA-TATTTTATATTA
2947576 TTAATAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
30 5 0.11
31 12 0.26
32 11 0.24
34 12 0.26
35 6 0.13
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (31 bp):
TAATATAATATTTTATATTAAATGATTATAT
Found at i:2947632 original size:26 final size:24
Alignment explanation
Indices: 2947589--2947637 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
2947579 ATAATTTTGA
*
2947589 TAATAAATCATTTCAATATATTTAT
1 TAATAAATAATTTCAATAT-TTTAT
*
2947614 TAATAAATAATTTTTAATATTTTA
1 TAATAAATAA-TTTCAATATTTTA
2947638 ATAGTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATAAATAATTTCAATATTTTAT
Found at i:2947637 original size:25 final size:23
Alignment explanation
Indices: 2947576--2947637 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 23
2947566 TTTTTTATTA
*
2947576 TTAATAATTTTGATAATAAATCATT
1 TTAAT-ATTTT-ATAATAAATAATT
*
2947601 TCAATATATTTATTAATAAATAATTT
1 TTAATAT-TTTA-TAATAAATAA-TT
2947627 TTAATATTTTA
1 TTAATATTTTA
2947638 ATAGTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 3 0.10
25 20 0.65
26 8 0.26
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATATTTTATAATAAATAATT
Found at i:2949059 original size:17 final size:18
Alignment explanation
Indices: 2949039--2949088 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
2949029 GAATTTTCTA
*
2949039 ATTTTTTATATATT-ATT
1 ATTTTTTATATATTAAGT
*
2949056 ATTTTTGT-TATTTTAAGT
1 ATTTTT-TATATATTAAGT
2949074 ATTTTTTTATATATT
1 A-TTTTTTATATATT
2949089 GATGCATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 11 0.42
18 5 0.19
19 10 0.38
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (18 bp):
ATTTTTTATATATTAAGT
Found at i:2949482 original size:15 final size:15
Alignment explanation
Indices: 2949438--2949511 Score: 69
Period size: 16 Copynumber: 4.7 Consensus size: 15
2949428 ATTTTTAATT
**
2949438 TTCAAAATCCTAGATT
1 TTCAAAATCCTA-AAA
2949454 TTCAAAACTCCTAAAA
1 TTCAAAA-TCCTAAAA
2949470 TTCAAAATCCTAAAA
1 TTCAAAATCCTAAAA
* *
2949485 TTCGAAACCCTTAAAA
1 TTCAAAATCC-TAAAA
2949501 -TCTAAAATCCT
1 TTC-AAAATCCT
2949512 TTAAATCTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
15 19 0.39
16 25 0.51
17 5 0.10
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.30
Consensus pattern (15 bp):
TTCAAAATCCTAAAA
Found at i:2949501 original size:16 final size:15
Alignment explanation
Indices: 2949454--2949501 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
2949444 ATCCTAGATT
2949454 TTCAAAACTCCTAAAA
1 TTCAAAAC-CCTAAAA
*
2949470 TTCAAAATCCTAAAA
1 TTCAAAACCCTAAAA
*
2949485 TTCGAAACCCTTAAAA
1 TTCAAAACCC-TAAAA
2949501 T
1 T
2949502 CTAAAATCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (15 bp):
TTCAAAACCCTAAAA
Found at i:2949551 original size:16 final size:16
Alignment explanation
Indices: 2949463--2949596 Score: 70
Period size: 16 Copynumber: 8.8 Consensus size: 16
2949453 TTTCAAAACT
*
2949463 CCTAAAATTCAAAAT-
1 CCTAAAATCCAAAATC
* *
2949478 CCTAAAATTCGAAA-C
1 CCTAAAATCCAAAATC
*
2949493 CCTTAAAATCTAAAATC
1 CC-TAAAATCCAAAATC
* * *
2949510 CTTTAAAT-CTAAA-C
1 CCTAAAATCCAAAATC
* *
2949524 CCCAAAAACCAAAATC
1 CCTAAAATCCAAAATC
2949540 CCTAAAATCCAAACAT-
1 CCTAAAATCCAAA-ATC
*
2949556 --TTAAATCC-AAA-C
1 CCTAAAATCCAAAATC
* * *
2949568 CCCAAAAACCAAGATC
1 CCTAAAATCCAAAATC
2949584 CCTAAAATCCAAA
1 CCTAAAATCCAAA
2949597 CCCTTAAATC
Statistics
Matches: 85, Mismatches: 23, Indels: 21
0.66 0.18 0.16
Matches are distributed among these distances:
12 1 0.01
13 2 0.02
14 17 0.20
15 24 0.28
16 37 0.44
17 4 0.05
ACGTcount: A:0.50, C:0.28, G:0.01, T:0.20
Consensus pattern (16 bp):
CCTAAAATCCAAAATC
Found at i:2949561 original size:44 final size:44
Alignment explanation
Indices: 2949511--2949617 Score: 160
Period size: 44 Copynumber: 2.4 Consensus size: 44
2949501 TCTAAAATCC
*
2949511 TTTAAATCTAAACCCCAAAAACCAAAATCCCTAAAATCCAAACA
1 TTTAAATCAAAACCCCAAAAACCAAAATCCCTAAAATCCAAACA
* * *
2949555 TTTAAATCCAAACCCCAAAAACCAAGATCCCTAAAATCCAAACC
1 TTTAAATCAAAACCCCAAAAACCAAAATCCCTAAAATCCAAACA
* *
2949599 CTTAAATCAAAACCTCAAA
1 TTTAAATCAAAACCCCAAA
2949618 CCACAAAACT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.50, C:0.31, G:0.01, T:0.18
Consensus pattern (44 bp):
TTTAAATCAAAACCCCAAAAACCAAAATCCCTAAAATCCAAACA
Found at i:2949579 original size:14 final size:14
Alignment explanation
Indices: 2949458--2949612 Score: 76
Period size: 14 Copynumber: 10.4 Consensus size: 14
2949448 TAGATTTTCA
*
2949458 AAACTCCTAAAATTCA
1 AAAC-CCTAAAA-TCC
* *
2949474 AAATCCTAAAATTCG
1 AAACCCTAAAA-TCC
*
2949489 AAACCCTTAAAATCTA
1 AAACCC-TAAAATC-C
* * *
2949505 AAATCCTTTAAATCT
1 AAA-CCCTAAAATCC
* *
2949520 AAACCCCAAAAACC
1 AAACCCTAAAATCC
2949534 AAAATCCCTAAAATCC
1 -AAA-CCCTAAAATCC
** *
2949550 AAACATTTAAATCC
1 AAACCCTAAAATCC
* *
2949564 AAACCCCAAAAACC
1 AAACCCTAAAATCC
2949578 AAGATCCCTAAAATCC
1 AA-A-CCCTAAAATCC
* *
2949594 AAACCCTTAAATCA
1 AAACCCTAAAATCC
2949608 AAACC
1 AAACC
2949613 TCAAACCACA
Statistics
Matches: 106, Mismatches: 26, Indels: 16
0.72 0.18 0.11
Matches are distributed among these distances:
14 39 0.37
15 28 0.26
16 37 0.35
17 2 0.02
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (14 bp):
AAACCCTAAAATCC
Found at i:2955964 original size:3 final size:3
Alignment explanation
Indices: 2955958--2955987 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2955948 AATAATAATA
2955958 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2955988 GCTGTTGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2956345 original size:34 final size:35
Alignment explanation
Indices: 2956250--2956491 Score: 167
Period size: 34 Copynumber: 7.0 Consensus size: 35
2956240 CTTTTGAAAA
* ** * *
2956250 GAGCTCTTCTGATAAGAGGCAATGAAACTTTGAAAA
1 GAGCTCTTTTGAGCAGAAGCAATGAAACTTT-AAAT
* * * * *
2956286 GAGCTATTTTGACCATAAGCTATGAAACTTTGAAT
1 GAGCTCTTTTGAGCAGAAGCAATGAAACTTTAAAT
2956321 GA-CTCTTTTGAGCAGAAGCAATGAAACTTTAAAAT
1 GAGCTCTTTTGAGCAGAAGCAATGAAACTTT-AAAT
* *
2956356 -AGCT-TCTTTGAGCA-AAGGCTATGAGACTTTAAAT
1 GAGCTCT-TTTGAGCAGAA-GCAATGAAACTTTAAAT
* * * *
2956390 -AGCTCATTTGACCAGAGGCAATGAGACTTTAAAT
1 GAGCTCTTTTGAGCAGAAGCAATGAAACTTTAAAT
* * * *
2956424 GA-CTTTTTTTAGTAGAGGCAATGAAACTTTAAAT
1 GAGCTCTTTTGAGCAGAAGCAATGAAACTTTAAAT
* * * *
2956458 GA-CTTTTTTTAACAG-AGATAATGAAACTTTAAAT
1 GAGCTCTTTTGAGCAGAAG-CAATGAAACTTTAAAT
2956492 TAAAAATCTG
Statistics
Matches: 168, Mismatches: 30, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
33 1 0.01
34 113 0.67
35 30 0.18
36 24 0.14
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (35 bp):
GAGCTCTTTTGAGCAGAAGCAATGAAACTTTAAAT
Found at i:2956400 original size:69 final size:69
Alignment explanation
Indices: 2956268--2956422 Score: 181
Period size: 69 Copynumber: 2.2 Consensus size: 69
2956258 CTGATAAGAG
* * *
2956268 GCAATGAAACTTTGAAAAGAGCTATTTTGACCATAAGCTATGAAACTTTGAATGACTCTTTTGAG
1 GCAATGAAACTTT-AAAAGAGCTATTTTGACCATAAGCTATGAAACTTTAAATGACTCATTTGAC
2956333 CAGAA
65 CAGAA
* * *
2956338 GCAATGAAACTTTAAAATAGCT-TCTTTGAGCA-AAGGCTATGAGACTTTAAAT-AGCTCATTTG
1 GCAATGAAACTTTAAAAGAGCTAT-TTTGACCATAA-GCTATGAAACTTTAAATGA-CTCATTTG
*
2956400 ACCAGAG
63 ACCAGAA
*
2956407 GCAATGAGACTTTAAA
1 GCAATGAAACTTTAAA
2956423 TGACTTTTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
68 4 0.05
69 57 0.77
70 13 0.18
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (69 bp):
GCAATGAAACTTTAAAAGAGCTATTTTGACCATAAGCTATGAAACTTTAAATGACTCATTTGACC
AGAA
Found at i:2956949 original size:24 final size:23
Alignment explanation
Indices: 2956918--2956963 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
2956908 GTGACTTTCA
2956918 TGACCTCACCATGTAGCACTTAG
1 TGACCTCACCATGTAGCACTTAG
** *
2956941 TGACTCTCATGATGTATCACTTA
1 TGAC-CTCACCATGTAGCACTTA
2956964 ATTTTCACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (23 bp):
TGACCTCACCATGTAGCACTTAG
Found at i:2958078 original size:8 final size:8
Alignment explanation
Indices: 2958065--2958093 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
2958055 CATACGTATG
2958065 ATGCATGA
1 ATGCATGA
2958073 ATGCATGA
1 ATGCATGA
2958081 ATGCATGA
1 ATGCATGA
2958089 ATGCA
1 ATGCA
2958094 AAAGATGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (8 bp):
ATGCATGA
Found at i:2961467 original size:50 final size:51
Alignment explanation
Indices: 2961371--2961483 Score: 140
Period size: 50 Copynumber: 2.2 Consensus size: 51
2961361 CACTCTTTTG
* * * * *
2961371 CGAAATCTTAAAAACTTTTAAGTTGATTTTCGAATTATCTCGACTTT-TCAA
1 CGAAATCTTAAAAACTTTTAAATTGATTTTAGAATCATCCCAACTTTCT-AA
*
2961422 CGAAATCTTAAAAA-TTTTAAATTGATTTTAGGATCATCCCAACTTTCTAA
1 CGAAATCTTAAAAACTTTTAAATTGATTTTAGAATCATCCCAACTTTCTAA
*
2961472 CGAAATCCTAAA
1 CGAAATCTTAAA
2961484 TAAAATTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 39 0.72
51 15 0.28
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (51 bp):
CGAAATCTTAAAAACTTTTAAATTGATTTTAGAATCATCCCAACTTTCTAA
Found at i:2961531 original size:12 final size:13
Alignment explanation
Indices: 2961506--2961537 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
2961496 TTATTGATGA
2961506 TAATTAAGATATT
1 TAATTAAGATATT
2961519 TAATTAA-ATATT
1 TAATTAAGATATT
2961531 TAATTAA
1 TAATTAA
2961538 TTTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
TAATTAAGATATT
Found at i:2961642 original size:10 final size:10
Alignment explanation
Indices: 2961627--2961652 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
2961617 AATATTTTTA
2961627 TTTTTATTAT
1 TTTTTATTAT
2961637 TTTTTATTAT
1 TTTTTATTAT
2961647 TTTTTA
1 TTTTTA
2961653 AATAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:2962115 original size:18 final size:18
Alignment explanation
Indices: 2962079--2962122 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
2962069 AATAAAAATT
*
2962079 AAAAG-AAATGAAATAAG
1 AAAAGAAAATAAAATAAG
2962096 AAAATGAAAATAAAAT-AG
1 AAAA-GAAAATAAAATAAG
2962114 AAAAGAAAA
1 AAAAGAAAA
2962123 AAGTAACCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 7 0.29
19 8 0.33
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (18 bp):
AAAAGAAAATAAAATAAG
Found at i:2962123 original size:18 final size:19
Alignment explanation
Indices: 2962084--2962122 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2962074 AAATTAAAAG
*
2962084 AAATGAAATAAGAAAATGA
1 AAATAAAATAAGAAAATGA
2962103 AAATAAAAT-AGAAAA-GA
1 AAATAAAATAAGAAAATGA
2962120 AAA
1 AAA
2962123 AAGTAACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 6 0.32
19 8 0.42
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (19 bp):
AAATAAAATAAGAAAATGA
Found at i:2973375 original size:43 final size:43
Alignment explanation
Indices: 2973314--2973405 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
2973304 CCCAGTTGGA
2973314 TTCAACTAGAATTTTCATTTAATTTTCTTTCCTTTTTTTCCTT
1 TTCAACTAGAATTTTCATTTAATTTTCTTTCCTTTTTTTCCTT
*
2973357 TTCAACTAGATTTTTCATTTAATTTTCTTTCCTTTTTTTCCTT
1 TTCAACTAGAATTTTCATTTAATTTTCTTTCCTTTTTTTCCTT
*
2973400 CTCAAC
1 TTCAAC
2973406 AAAGAAACAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.18, C:0.21, G:0.02, T:0.59
Consensus pattern (43 bp):
TTCAACTAGAATTTTCATTTAATTTTCTTTCCTTTTTTTCCTT
Found at i:2980705 original size:62 final size:63
Alignment explanation
Indices: 2980596--2980718 Score: 171
Period size: 62 Copynumber: 2.0 Consensus size: 63
2980586 ATATATTTAA
* *
2980596 AATAATTAATAAATAAAAATAAGTATCATAATATTTTAATTTCCTTTATAAAATTTAAAAATT
1 AATAATTAATAAATAAAAATAAGTAGCATAATATTTTAATCTCCTTTATAAAATTTAAAAATT
* *
2980659 AATAATTAATAAATAAAACTACA-T-GGATAATATTTTAATC-CTCTTTATAAAATTTAAAAA
1 AATAATTAATAAATAAAAATA-AGTAGCATAATATTTTAATCTC-CTTTATAAAATTTAAAAA
2980719 CTTCATCTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
61 1 0.02
62 31 0.57
63 21 0.39
64 1 0.02
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (63 bp):
AATAATTAATAAATAAAAATAAGTAGCATAATATTTTAATCTCCTTTATAAAATTTAAAAATT
Found at i:2984616 original size:875 final size:865
Alignment explanation
Indices: 2982678--2985607 Score: 3231
Period size: 875 Copynumber: 3.4 Consensus size: 865
2982668 TGGGTTATTG
* * * * * * * *
2982678 TTGTTAGGCCAAAAGGTCTCAATCCAATCATATCAACGGAAGCGAAATCAATCAATTAATCAATC
1 TTGTTAGGCCAAAAGGCCTCAATCCAATCACACCAACGAAAGCAAAATTAAACAATCAATCAATC
* * * * * * * * * **
2982743 ACACAAGATATAACAATTTAGCATGATTCGGTTCAACTAACCTAAGTCTGCGGATGAAAAATAAT
66 ACATAAGAGATCATAATTAAACATGATTCGATCCAACTAACCTACGTCCACGGATGAAAAATAA-
* * * *
2982808 GTTTCACTAGTTGTACAGAATTATAAATATACATCAAAACGTATCAACCACTCAACAATCAATAC
130 GATTCACTAGTTGTAGAGAATTACAAACATACATCAAAACGTATCAACCACTCAACAATCAATAC
* * * * *
2982873 CCATAAACCCTCTCAATCTCCTCTAATCTCATGGAGTATTCTCAACCCAAACAAACACATATCTA
195 CCATAGACCCTCTCAATCTCTTC-AGTCT-ATAGAGTATTCTCAACCCAAACAAACACATATCCA
* * * * * * *
2982938 TGTGCACCATTTCAACACAACCAAACATATACTTATATGCACTCATACATCATACCTTTGTGGAC
258 TGTGCACCCTTTTAACACAACCAAATATATAC-AATATGCACCCATACATCATACCTATGTGAAC
* * * * * **
2983003 CTTCTCAGTCTCCTCTACTCCATTCACAAACAAACATACACACTTATAAGATGTAAATC-TCTAA
322 CTTCTCAGTCTCTTCTAGTTCATTCACAAATAAACATATACACACATAAGATGTAAATCTTC-AA
* ** * * * *
2983067 TAGTCTCAT-GGACAGTCTATCTCATAAAACTCTACAACACTCTTACATCTTTTTTTCATATCTA
386 TAGTCTTATAGGGTA-TCTATCTCATAAAACTCTATAACTCTTTTACATCTTTTTTTCATACCTA
* * * * *
2983131 ATCTTATAAAGACTTTACCTATTTATAACCATACAAACTTGCCTATTAAGAA-TCTATTTCTTTT
450 ACCTTATAGAGACTTCACCTATTTATAACTATACAAACTTGCCTATTAAGAATTC-ATTTCCTTT
* * * * ** * * *
2983195 TAGAAATTTTCTTTTGCAAATCAAACTTGCCTATTAAGAATCCCTTTTTTTCTTAGAGTTTTTCT
514 TAG-AATTTTATTTTGTAAGTCAAACTTGCATATTAAGAATCTATTTTCTT-TTAGAATTCTTCT
* ** * *
2983260 TCTGCAAGTTTTCTTGTCCA-TAAAATAATATCTAACAATCCCAAATAAATCTCCTATGGGATTT
577 TCTGCAAGTCTTCTTGTCCATTAAAA-AATATCTGCCAATTCCAAATAAATCTCTTATGGGATTT
* *
2983324 GAGTCATTATTTCCAACAATCTCTACCTTGACTCAAATTTCATCAAATCATCTGTCTTCATGCTA
641 AAGTCATTATTTCCAACAATCTCCACCTTGACTCAAATTTCATCAAATCATCTGTCTTCATGCTA
* * *
2983389 GACAAGCTTGGCTCCACCTACAATGAAAGTCTCACAATCCTCTTTTCTTGTGTGTCTTCACTCTT
706 GACAAGCTTGGCTCCACCTACAATGAAAGT-TCACAATCTTCTTCTCTTGTGTGTCTTCACTTTT
* *
2983454 CATGCAGACCAATCTTCAAAATACGAACTTGAACTTCTTCCTTGAATAAAGCTCCTCTAAGCTTA
770 CATGCA-A-CAATCTTCAAAATACGAACTCGAACTTCTTCCTTGAATAGAGCTCCTCTAAGCTTA
* * *
2983519 CATCTTCCTTTGTTTCAAACCATGCTCTGATACAAC
833 CCTCTT--TTTGTCT-AAACCATGCTCTGATACCAC
* * ** * * * * * *
2983555 TTATTAAGTAAAAAAGCCTCAATACAATCATATCAGCGGAAGCAAAATTAAACAATCAATCAATC
1 TTGTTAGGCCAAAAGGCCTCAATCCAATCACACCAACGAAAGCAAAATTAAACAATCAATCAATC
* * * * **
2983620 ACATAAGAGACCATAATTAAATATGGTTCGATCCAACTGACCTATATCCACGGATGAAAAATAAG
66 ACATAAGAGATCATAATTAAACATGATTCGATCCAACTAACCTACGTCCACGGATGAAAAATAAG
* * * * * * *
2983685 ATCCGCTAGTTATAAAGAATTACAAACATATATCAAAACGTATCAACCACTCAACAATTAATACT
131 ATTCACTAGTTGTAGAGAATTACAAACATACATCAAAACGTATCAACCACTCAACAATCAATACC
* * * * * *
2983750 CATAGACTCTCTCAAACTCTTCAGTCCTATAAAATATTTTCAACCCAAATAAACACATATCCATG
196 CATAGACCCTCTCAATCTCTTCAGT-CTATAGAGTATTCTCAACCCAAACAAACACATATCCATG
* * * *
2983815 TGCACCCTTTTAATACAATCAAATATATATCAATATGCACCCATACATTATACCTATATGAACCT
260 TGCACCCTTTTAACACAACCAAATATATA-CAATATGCACCCATACATCATACCTATGTGAACCT
* * * *
2983880 TCTCAGTCTCTTCTAGTTCACTCATAAATAAATATATACACACATAAGATGTAAATCTTCAGTAG
324 TCTCAGTCTCTTCTAGTTCATTCACAAATAAACATATACACACATAAGATGTAAATCTTCAATAG
* * *
2983945 TCTTATAGGGTATCTATCCCATAAAATTCTATAACTCTTTTACATCTTTTTTATTATACCTAACC
389 TCTTATAGGGTATCTATCTCATAAAACTCTATAACTCTTTTACATCTTTTTT-TCATACCTAACC
*
2984010 TTATAGAGACTTCACCTATTTATAATTATACAAACTTGCCTATTAAGAATTCATTTCCTTTTAGA
453 TTATAGAGACTTCACCTATTTATAACTATACAAACTTGCCTATTAAGAATTCATTTCCTTTTAGA
* * *
2984075 ATTCTTATATTGTAAGTCAAACTTACATATTAAGAATTTATTTTCTTTTAGAATTCTTCTTCTGC
518 ATT-TTATTTTGTAAGTCAAACTTGCATATTAAGAATCTATTTTCTTTTAGAATTCTTCTTCTGC
*
2984140 AAGTCTTCTTGTCCATTAAAAAATATCTGGCCAATTCCAAATAAATCTCTTATGGAATTTAAGTC
582 AAGTCTTCTTGTCCATTAAAAAATATCT-GCCAATTCCAAATAAATCTCTTATGGGATTTAAGTC
** *
2984205 ATTATTTCCAACAATCTCCATATTGACTCAAATTTAATCAAATCATCTGTCTTCATGCTAGACAA
646 ATTATTTCCAACAATCTCCACCTTGACTCAAATTTCATCAAATCATCTGTCTTCATGCTAGACAA
*
2984270 GCTTGGCTCCACCTACAATGAAAGCTTCACAATCTTCTTCTCTTGTGTGTTTTCACTTTTCATGC
711 GCTTGGCTCCACCTACAATGAAAG-TTCACAATCTTCTTCTCTTGTGTGTCTTCACTTTTCATGC
* *
2984335 AAACAAATCTTCAAAATACGAACTCGAACTTCTTCCTTGAATAGAGCTCGTTTAAGCTTACCTCT
775 -AAC-AATCTTCAAAATACGAACTCGAACTTCTTCCTTGAATAGAGCTCCTCTAAGCTTACCTCT
* *
2984400 TTTATGTCTAAAACCATGTTCTGATACCAT
838 TTT-TGTCT-AAACCATGCTCTGATACCAC
* *
2984430 TTGTTAGGCCAAAAGGCCTCAATCCAATCACACCAATGAAAGCAAAATTAAATAATCAATCAATC
1 TTGTTAGGCCAAAAGGCCTCAATCCAATCACACCAACGAAAGCAAAATTAAACAATCAATCAATC
* * *
2984495 ACATAAGAGATCATAATTAAACGTGATTTGATCCAACTGACCTACGTCCACGGATGAAAAATAAG
66 ACATAAGAGATCATAATTAAACATGATTCGATCCAACTAACCTACGTCCACGGATGAAAAATAAG
*
2984560 ATTCACTAGTTGTAGAGAATTACAAACATACATCAAAACGTATCAACCATTCAACAATCAATACC
131 ATTCACTAGTTGTAGAGAATTACAAACATACATCAAAACGTATCAACCACTCAACAATCAATA-C
2984625 CCATAGACCCTCTCAATCTTCGTT-AGTTCTATAGAGTATTCTCAACCCAAACAAACACATATCC
195 CCATAGACCCTCTCAATC-TC-TTCAG-TCTATAGAGTATTCTCAACCCAAACAAACACATATCC
* * *
2984689 ATGTGCACCCTGTTAACACAACCAAATATATACCCATATGTACCCATACATCATACCTATGT-AG
257 ATGTGCACCCTTTTAACACAACCAAATATATA-CAATATGCACCCATACATCATACCTATGTGA-
* * * * * *
2984753 ACCCTCTCAGTCTCTTTTAGTTTATTTACAAATAAACAT-TCACACCCATAAGACGTAAATCTTC
320 ACCTTCTCAGTCTCTTCTAGTTCATTCACAAATAAACATAT-ACACACATAAGATGTAAATCTTC
* * * *
2984817 AATAGTCTTATAGGGTATCTATCTCATAAAACTCTATAACTCATTTATATCTTTTTCTCATACTT
384 AATAGTCTTATAGGGTATCTATCTCATAAAACTCTATAACTCTTTTACATCTTTTTTTCATACCT
* * * * * *
2984882 AACCCTATAGAGACTTCACATATTTATAACTATATAAACTTACCTATTAAGAATT-TTTTTCTTT
449 AACCTTATAGAGACTTCACCTATTTATAACTATACAAACTTGCCTATTAAGAATTCATTTCCTTT
* * * *
2984946 TA-AATTTTTTTTTTGTAAGTCAAACTTGTATATTAAAAATCTATTTTCTCTTAGAATTCTTCTT
514 TAGAA-TTTTATTTTGTAAGTCAAACTTGCATATTAAGAATCTATTTTCTTTTAGAATTCTTCTT
* * * * * * * * *
2985010 CTACAAGTCTTTTTGTTCATCAAAAAATATCTAGCTAA-TCTTAAACAAAATATTTTATGGGATT
578 CTGCAAGTCTTCTTGTCCATTAAAAAATATCT-GCCAATTC-CAAA-TAAATCTCTTATGGGATT
* * * * *
2985074 TAAGTCATTATTTCCAACAATATCCACCTCGACTCAAATTTCATCAAATCATCTATCTTTATACT
640 TAAGTCATTATTTCCAACAATCTCCACCTTGACTCAAATTTCATCAAATCATCTGTCTTCATGCT
* * * *
2985139 AGACAAGCTAGGCTTCACCTACAATGAAAGTTTCACAATCATT-TTCTCTTATGTGTCTTCACAC
705 AGACAAGCTTGGCTCCACCTACAATGAAAG-TTCACAATC-TTCTTCTCTTGTGTGTCTTCAC-T
* * * *
2985203 TTT-ATGC--C---CTTCAAAACACGAACTCGAACTTCTTCCTTTAAT-GAAACTCCTCTAAACT
767 TTTCATGCAACAATCTTCAAAATACGAACTCGAACTTCTTCCTTGAATAG-AGCTCCTCTAAGCT
2985261 TACCTC----T-TC----CCATGCTCTGATACCAC
831 TACCTCTTTTTGTCTAAACCATGCTCTGATACCAC
* * *** *** ** * *
2985287 TTGTTAGGTCAAAAGGTCTCAATCCAATCACACCAGTAAAAATGAAACCAAACAATCAATTAATT
1 TTGTTAGGCCAAAAGGCCTCAATCCAATCACACCAACGAAAGCAAAATTAAACAATCAATCAATC
* * * * * * *
2985352 ACATAAGAGA-CAATAATTTAACGT-ATTTTGATCTAACTAACCTACGTCTACGGATGAGAGATA
66 ACATAAGAGATC-ATAATTAAACATGA-TTCGATCCAACTAACCTACGTCCACGGATGAAAAATA
* * * * * *
2985415 AGATTCACTAGTTGTAGAGGATTATAAACATACATCAAAATGCATTAACCACTCAATAATCAATA
129 AGATTCACTAGTTGTAGAGAATTACAAACATACATCAAAACGTATCAACCACTCAACAATCAATA
* * * * * *
2985480 CCCATAGACTCTCTCAATCTCTTTTAATCTCA-AGAAGTATTCTCAATCCAAACAAACATATACC
194 CCCATAGACCCTCTCAATCTC-TTCAGTCT-ATAG-AGTATTCTCAACCCAAACAAACACATATC
* *** * * *
2985544 CATGTACATTTTTTTAACACAACTAAACACATATCCAA-ATGCACCCATACATCATACCTATGTG
256 CATGTGCACCCTTTTAACACAAC-CAA-ATATATACAATATGCACCCATACATCATACCTATGTG
2985608 CACACTTTCA
Statistics
Matches: 1750, Mismatches: 270, Indels: 86
0.83 0.13 0.04
Matches are distributed among these distances:
855 9 0.01
856 90 0.05
857 183 0.10
858 5 0.00
862 2 0.00
863 1 0.00
867 1 0.00
868 48 0.03
872 1 0.00
873 2 0.00
874 89 0.05
875 546 0.31
876 471 0.27
877 299 0.17
878 3 0.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (865 bp):
TTGTTAGGCCAAAAGGCCTCAATCCAATCACACCAACGAAAGCAAAATTAAACAATCAATCAATC
ACATAAGAGATCATAATTAAACATGATTCGATCCAACTAACCTACGTCCACGGATGAAAAATAAG
ATTCACTAGTTGTAGAGAATTACAAACATACATCAAAACGTATCAACCACTCAACAATCAATACC
CATAGACCCTCTCAATCTCTTCAGTCTATAGAGTATTCTCAACCCAAACAAACACATATCCATGT
GCACCCTTTTAACACAACCAAATATATACAATATGCACCCATACATCATACCTATGTGAACCTTC
TCAGTCTCTTCTAGTTCATTCACAAATAAACATATACACACATAAGATGTAAATCTTCAATAGTC
TTATAGGGTATCTATCTCATAAAACTCTATAACTCTTTTACATCTTTTTTTCATACCTAACCTTA
TAGAGACTTCACCTATTTATAACTATACAAACTTGCCTATTAAGAATTCATTTCCTTTTAGAATT
TTATTTTGTAAGTCAAACTTGCATATTAAGAATCTATTTTCTTTTAGAATTCTTCTTCTGCAAGT
CTTCTTGTCCATTAAAAAATATCTGCCAATTCCAAATAAATCTCTTATGGGATTTAAGTCATTAT
TTCCAACAATCTCCACCTTGACTCAAATTTCATCAAATCATCTGTCTTCATGCTAGACAAGCTTG
GCTCCACCTACAATGAAAGTTCACAATCTTCTTCTCTTGTGTGTCTTCACTTTTCATGCAACAAT
CTTCAAAATACGAACTCGAACTTCTTCCTTGAATAGAGCTCCTCTAAGCTTACCTCTTTTTGTCT
AAACCATGCTCTGATACCAC
Found at i:2985644 original size:58 final size:53
Alignment explanation
Indices: 2985559--2985711 Score: 163
Period size: 49 Copynumber: 2.9 Consensus size: 53
2985549 ACATTTTTTT
* * *
2985559 AACACAACTAAACACATATCC-AAATGCACCCATACATCATACCTATGTGCACACTTTC
1 AACATAACCAAACACATA-CCTATATGCACCCATACATCATACCTAT-T---C-CTTTC
*
2985617 AACATAATCAAACACATACCTATATGCACCCATACATCATA-C---TCCTTTC
1 AACATAACCAAACACATACCTATATGCACCCATACATCATACCTATTCCTTTC
* *
2985666 AACATAACCAAATACATACCTATATGCACCTATACATCATACCTAT
1 AACATAACCAAACACATACCTATATGCACCCATACATCATACCTAT
2985712 ATGGACCATC
Statistics
Matches: 83, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
49 43 0.52
50 2 0.02
53 1 0.01
57 3 0.04
58 34 0.41
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.25
Consensus pattern (53 bp):
AACATAACCAAACACATACCTATATGCACCCATACATCATACCTATTCCTTTC
Found at i:2985665 original size:49 final size:49
Alignment explanation
Indices: 2985612--2985707 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
2985602 TATGTGCACA
*
2985612 CTTTCAACATAATCAAACACATACCTATATGCACCCATACATCATACTC
1 CTTTCAACATAACCAAACACATACCTATATGCACCCATACATCATACTC
* *
2985661 CTTTCAACATAACCAAATACATACCTATATGCACCTATACATCATAC
1 CTTTCAACATAACCAAACACATACCTATATGCACCCATACATCATAC
2985708 CTATATGGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.40, C:0.31, G:0.02, T:0.27
Consensus pattern (49 bp):
CTTTCAACATAACCAAACACATACCTATATGCACCCATACATCATACTC
Found at i:2985962 original size:52 final size:50
Alignment explanation
Indices: 2985879--2986005 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 50
2985869 TATGACCATA
*
2985879 AAACTTGCCTATTAAGAATCCATTTCATTTTAGAATTCTTCTTTTGCAAGTC
1 AAACTTGCCTATTAAGAAACCATTTCATTTT--AATTCTTCTTTTGCAAGTC
* ** ** *
2985931 AAACTTGCTTATTAAGAAACTTTTTTTTTTTAATTTTTCTTTTGCAAGTC
1 AAACTTGCCTATTAAGAAACCATTTCATTTTAATTCTTCTTTTGCAAGTC
* * *
2985981 AAACTTGTCTATTGAGAATCCATTT
1 AAACTTGCCTATTAAGAAACCATTT
2986006 TCTCTTAGAA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
50 37 0.60
52 25 0.40
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.46
Consensus pattern (50 bp):
AAACTTGCCTATTAAGAAACCATTTCATTTTAATTCTTCTTTTGCAAGTC
Found at i:2991682 original size:73 final size:73
Alignment explanation
Indices: 2991558--2991706 Score: 289
Period size: 73 Copynumber: 2.0 Consensus size: 73
2991548 ATAATTTTTG
2991558 AACACATTATAGGTGCCTTCAACAGAGTTATGAAAGAATTGTTTAAGATTATTAAAGGTGTTTAC
1 AACACATTATAGGTGCCTTCAACAGAGTTATGAAAGAATTGTTTAAGATTATTAAAGGTGTTTAC
2991623 ACTATAAA
66 ACTATAAA
*
2991631 AACATATTATAGGTGCCTTCAACAGAGTTATGAAAGAATTGTTTAAGATTATTAAAGGTGTTTAC
1 AACACATTATAGGTGCCTTCAACAGAGTTATGAAAGAATTGTTTAAGATTATTAAAGGTGTTTAC
2991696 ACTATAAA
66 ACTATAAA
2991704 AAC
1 AAC
2991707 GTCTTCACTA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (73 bp):
AACACATTATAGGTGCCTTCAACAGAGTTATGAAAGAATTGTTTAAGATTATTAAAGGTGTTTAC
ACTATAAA
Found at i:2992902 original size:420 final size:419
Alignment explanation
Indices: 2992268--2993188 Score: 1079
Period size: 420 Copynumber: 2.2 Consensus size: 419
2992258 TATTTCATTA
* * * ** * * * **
2992268 TGTACATAATTATTAAAGGTGTTT-CTTATAATAACTGCCTTCAATAATTTTTTTTTTAAAAATT
1 TGTAAATAATTAGTGAAGGTGTTTGCAAATAACAACCGCCTTCAATAA-TTTCTTTAAAAAAATT
*
2992332 TTG-GATTATTAAAGGCGTATTCTACTGAAAAATGCCTTCAATATACCATTACGGTTATAGAAGG
65 TTGAGATTATTAAAGGCGTATTCTACTGAAAAATGCCTTCAATATACCATTACGATTATAGAAGG
* * * * *
2992396 CATTTATTCCAGAAAAATACCTTTAATAATTTCTCTCTAAAAAATTTTGAGATTATTAAAGCATC
130 AATTTATTCCAAAAAAATACCTTTAATAATTTCTCTCT-AAAAATTGTGACATAATTAAAGCATC
* * * ** *
2992461 TTCTATTGATAAATGCCTTTAATAATTCCTTTTAAATTATCTACATAAATATTAAAGGCGTTTCT
194 TTCTAATAACAAACACCTTTAATAATTCCTTTTAAATTATCTACATAAATATTAAAGACGTTTCT
* * *
2992526 TGATAACAAACGCCTTCAATAATTT-TTTAAAAAAATTTGTTAGGATTATTAAAGGTGTCTTTTA
259 TGATAACAAACGCCTTCAATAATTTCCTT-AAAAAATTTGTTAGGATTATTAAAGGAGTCTTCTA
* * * * * * ** * *
2992590 CTGTAAAACACCTTTAATATACCGTTACACAAATTTTAACACGGTTATTGAAGGCGTATATTTAA
323 CTATAAAACACCTTCAATAAACCATCACACAAATTTCAACACAATTATTAAAAGCGTATATTTAA
**
2992655 GAAAAATACATTTAATAATTTTTTTTAAATTT
388 GAAAAATACATTTAATAATTCCTTTTAAATTT
* *
2992687 TGTAGATAATTAGTGAAGGTGTTTGCAGATAACAACCGCCTTCAATAATTTACTTTAAAAAAATT
1 TGTAAATAATTAGTGAAGGTGTTTGCAAATAACAACCGCCTTCAATAATTT-CTTTAAAAAAATT
* * *
2992752 TTGAGATTCTTAAAGGTGTCTTCTACTG-AAAATGCCTTCAATATACCATTACGATTATAGAA-G
65 TTGAGATTATTAAAGGCGTATTCTACTGAAAAATGCCTTCAATATACCATTACGATTATAGAAGG
* *
2992815 AAGTTTATTCCAAAAAAAATACCTTTAATAA-TTC-CT-T-GAACTTAGT-ACATAATTACTGAA
130 AA-TTTATTCC-AAAAAAATACCTTTAATAATTTCTCTCTAAAAATT-GTGACATAATTA---AA
** * * ** ** *
2992875 GGTTTTTGTTAATAACAAACACCTTTAATAATTTTTTTTAAATTATCTTTATAAATATTGAAGAC
189 GCATCTT-CTAATAACAAACACCTTTAATAATTCCTTTTAAATTATCTACATAAATATTAAAGAC
* * * ** * *
2992940 GTTTCTTGATAATAAATGCCTTTAATAATTTCCTTCTAAAATTTGTTTGGATTATTAAATGAGTC
253 GTTTCTTGATAACAAACGCCTTCAATAATTTCCTTAAAAAATTTGTTAGGATTATTAAAGGAGTC
*
2993005 TTCTACTATAAAACACCTTCAATAAACCATCACACAAATTTCAATACAATTATTAAAAGCGTATA
318 TTCTACTATAAAACACCTTCAATAAACCATCACACAAATTTCAACACAATTATTAAAAGCGTATA
**
2993070 TTTAAGAAAAATGTATTTAATAATTCCTTTTAAATTT
383 TTTAAGAAAAATACATTTAATAATTCCTTTTAAATTT
* *
2993107 TGTAAATAATTAGTGAAAGTGTTTGCAAATAACAACCGCCTTCAATAATTTCTTTTAAAAAAAAT
1 TGTAAATAATTAGTGAAGGTGTTTGCAAATAACAACCGCCTTCAATAATTTC-TTTAAAAAAATT
2993172 TTGAGATTATTAAAGGC
65 TTGAGATTATTAAAGGC
2993189 ATCTTTTATT
Statistics
Matches: 423, Mismatches: 67, Indels: 23
0.82 0.13 0.04
Matches are distributed among these distances:
416 11 0.03
417 1 0.00
418 1 0.00
419 35 0.08
420 334 0.79
421 41 0.10
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (419 bp):
TGTAAATAATTAGTGAAGGTGTTTGCAAATAACAACCGCCTTCAATAATTTCTTTAAAAAAATTT
TGAGATTATTAAAGGCGTATTCTACTGAAAAATGCCTTCAATATACCATTACGATTATAGAAGGA
ATTTATTCCAAAAAAATACCTTTAATAATTTCTCTCTAAAAATTGTGACATAATTAAAGCATCTT
CTAATAACAAACACCTTTAATAATTCCTTTTAAATTATCTACATAAATATTAAAGACGTTTCTTG
ATAACAAACGCCTTCAATAATTTCCTTAAAAAATTTGTTAGGATTATTAAAGGAGTCTTCTACTA
TAAAACACCTTCAATAAACCATCACACAAATTTCAACACAATTATTAAAAGCGTATATTTAAGAA
AAATACATTTAATAATTCCTTTTAAATTT
Found at i:2995845 original size:20 final size:20
Alignment explanation
Indices: 2995820--2995859 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2995810 CATTATGACC
2995820 CTTGCTTAGGCTTCCATGGA
1 CTTGCTTAGGCTTCCATGGA
2995840 CTTGCTTAGGCTTCCATGGA
1 CTTGCTTAGGCTTCCATGGA
2995860 TGAGTTATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (20 bp):
CTTGCTTAGGCTTCCATGGA
Found at i:2997330 original size:35 final size:35
Alignment explanation
Indices: 2997286--2997353 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
2997276 ATATATAAAC
* *
2997286 CAAATATTTTCTGGGCATAAATATACAACTGACAG
1 CAAACATTTTCTGGGCATAAACATACAACTGACAG
*
2997321 CAAACATTTTCTGGGCATAAACCTACAACTGAC
1 CAAACATTTTCTGGGCATAAACATACAACTGAC
2997354 CTGACATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (35 bp):
CAAACATTTTCTGGGCATAAACATACAACTGACAG
Found at i:2998357 original size:65 final size:65
Alignment explanation
Indices: 2998232--2998358 Score: 145
Period size: 65 Copynumber: 2.0 Consensus size: 65
2998222 TGTAGAAAAC
* * *
2998232 GCCTTCAATAATCTCATACAATTTTTTATGAGGTGATTATTGAAAGCATTGTCTGTCAAAAATGT
1 GCCTTCAATAATCTCATACAATTTTTTATGAGCTGATTATTCAAAGCATTGTCTGCCAAAAATGT
* *
2998297 GCCTTCAATAAT-TCTTTATCAATTTTTT-TGA-CTGAATTATTC-AAGACATTTTCTGCCAAAA
1 GCCTTCAATAATCTC-ATA-CAATTTTTTATGAGCTG-ATTATTCAAAG-CATTGTCTGCCAAAA
2998358 A
62 A
2998359 CGTCGTTAGT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
64 7 0.13
65 37 0.70
66 9 0.17
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (65 bp):
GCCTTCAATAATCTCATACAATTTTTTATGAGCTGATTATTCAAAGCATTGTCTGCCAAAAATGT
Found at i:3001273 original size:24 final size:24
Alignment explanation
Indices: 3001240--3001289 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
3001230 TGTGTTCAAT
* *
3001240 AGTGTCACTTTAGAAAGGAAGAGA
1 AGTGTCACTTCAGAAAGGAAAAGA
*
3001264 AGTGTTACTTCAGAAAGGAAAAGA
1 AGTGTCACTTCAGAAAGGAAAAGA
3001288 AG
1 AG
3001290 GTTTGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.28, T:0.20
Consensus pattern (24 bp):
AGTGTCACTTCAGAAAGGAAAAGA
Found at i:3009452 original size:18 final size:19
Alignment explanation
Indices: 3009431--3009472 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
3009421 TAGGTCATTA
3009431 TTTTATTTTAGTT-TTTAT
1 TTTTATTTTAGTTATTTAT
*
3009449 TTTTATTTTATTTATTTAT
1 TTTTATTTTAGTTATTTAT
3009468 TTTTA
1 TTTTA
3009473 AAAGAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTATTTTAGTTATTTAT
Found at i:3009554 original size:21 final size:21
Alignment explanation
Indices: 3009531--3009570 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3009521 AATAAACATA
*
3009531 AAAATCAACA-CAAAATAAAT
1 AAAATCAAAATCAAAATAAAT
3009551 AAAATCAAAATCAAAATAAA
1 AAAATCAAAATCAAAATAAA
3009571 AAATAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.15
Consensus pattern (21 bp):
AAAATCAAAATCAAAATAAAT
Found at i:3010373 original size:3 final size:3
Alignment explanation
Indices: 3010367--3010416 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
3010357 TTTTTCTTTT
3010367 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3010415 TA
1 TA
3010417 TAAAAAAGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3010519 original size:17 final size:17
Alignment explanation
Indices: 3010497--3010530 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3010487 CACAATTAAT
3010497 TAAATTTATGAATATTA
1 TAAATTTATGAATATTA
3010514 TAAATTTATGAATATTA
1 TAAATTTATGAATATTA
3010531 AATTCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
TAAATTTATGAATATTA
Found at i:3010532 original size:15 final size:15
Alignment explanation
Indices: 3010495--3010548 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 15
3010485 TCCACAATTA
3010495 ATTAAATTTATGAAT
1 ATTAAATTTATGAAT
3010510 ATTATAAATTTATGAAT
1 A-T-TAAATTTATGAAT
* *
3010527 ATTAAATTCATAAAT
1 ATTAAATTTATGAAT
3010542 AATTAAA
1 -ATTAAA
3010549 ATACGTTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 12 0.35
16 8 0.24
17 14 0.41
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (15 bp):
ATTAAATTTATGAAT
Found at i:3011284 original size:14 final size:15
Alignment explanation
Indices: 3011265--3011293 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3011255 TTAATTTGGC
3011265 TTTTATTA-AATTTA
1 TTTTATTATAATTTA
3011279 TTTTATTATAATTTA
1 TTTTATTATAATTTA
3011294 ATTCTTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTATTATAATTTA
Found at i:3013557 original size:14 final size:14
Alignment explanation
Indices: 3013538--3013566 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3013528 TAAAAGTACC
3013538 TTTTATATATATCA
1 TTTTATATATATCA
3013552 TTTTATATATATCA
1 TTTTATATATATCA
3013566 T
1 T
3013567 AGAAAATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTATATATATCA
Found at i:3016502 original size:21 final size:22
Alignment explanation
Indices: 3016471--3016514 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
3016461 TTTAAAATTT
*
3016471 TAACAAAAATTATAAATAAATC
1 TAACAAAAATTAAAAATAAATC
*
3016493 TAAC-AAAATTAAAAATATATC
1 TAACAAAAATTAAAAATAAATC
3016514 T
1 T
3016515 TTTATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
TAACAAAAATTAAAAATAAATC
Found at i:3016755 original size:12 final size:12
Alignment explanation
Indices: 3016738--3016763 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3016728 TTTTCGTTAC
3016738 AACAGTGATTGA
1 AACAGTGATTGA
3016750 AACAGTGATTGA
1 AACAGTGATTGA
3016762 AA
1 AA
3016764 GCGAGGTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (12 bp):
AACAGTGATTGA
Found at i:3020808 original size:14 final size:13
Alignment explanation
Indices: 3020772--3020810 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
3020762 CAACTCTTTT
3020772 TTTTTTATTTTTGA
1 TTTTTTA-TTTTGA
*
3020786 TTTTCTATTTTGA
1 TTTTTTATTTTGA
3020799 TTTGTTTATTTT
1 TTT-TTTATTTT
3020811 AGGTAAAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.77
Consensus pattern (13 bp):
TTTTTTATTTTGA
Found at i:3021370 original size:23 final size:22
Alignment explanation
Indices: 3021340--3021382 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
3021330 TATCATGCAA
3021340 TTGAAATGTCAGCACAAATTAG
1 TTGAAATGTCAGCACAAATTAG
* *
3021362 TTGATAATGTTAGCACTAATT
1 TTGA-AATGTCAGCACAAATT
3021383 CATTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (22 bp):
TTGAAATGTCAGCACAAATTAG
Found at i:3023097 original size:18 final size:17
Alignment explanation
Indices: 3023064--3023100 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
3023054 ATTTAATTTT
3023064 ATTTTATTTATAATATC
1 ATTTTATTTATAATATC
*
3023081 ATTTTATTTTATCATATC
1 ATTTTA-TTTATAATATC
3023099 AT
1 AT
3023101 AATCATGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTTATAATATC
Found at i:3027968 original size:26 final size:24
Alignment explanation
Indices: 3027916--3027969 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
3027906 AAAAATAGTG
* * *
3027916 ATAAAAATAAAATTAATTATTATA
1 ATAAAAATAAAATTAATGATAAAA
3027940 ATAATAAATTAAAATTAATGATAAAA
1 ATAA-AAA-TAAAATTAATGATAAAA
3027966 ATAA
1 ATAA
3027970 GTGTTTAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.16
25 3 0.12
26 18 0.72
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
ATAAAAATAAAATTAATGATAAAA
Found at i:3031049 original size:20 final size:20
Alignment explanation
Indices: 3031017--3031055 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3031007 ATTATATTTA
*
3031017 ATATGTATTTAAAGAAAATG
1 ATATGTATTTAAAAAAAATG
3031037 ATATG-ATTATAAAAAAAAT
1 ATATGTATT-TAAAAAAAAT
3031056 TAATCACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.33
Consensus pattern (20 bp):
ATATGTATTTAAAAAAAATG
Found at i:3032162 original size:25 final size:27
Alignment explanation
Indices: 3032134--3032192 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 27
3032124 TTTTTATCTT
* * *
3032134 ATATATTTAGATA-ATTTTT-TTATAA
1 ATATATTTAAATATATTTTTAATAAAA
*
3032159 ATATATATAAATATATTTTTAATAAAA
1 ATATATTTAAATATATTTTTAATAAAA
3032186 ATATATT
1 ATATATT
3032193 AATTTTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 11 0.41
26 6 0.22
27 10 0.37
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
ATATATTTAAATATATTTTTAATAAAA
Found at i:3032238 original size:27 final size:27
Alignment explanation
Indices: 3032170--3032239 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
3032160 TATATATAAA
*
3032170 TATATT-TTTAATAAAAATATATTAATT
1 TATATTATTTAATAAAAA-ATAATAATT
**
3032197 T-TA--A-TTAATTTAAAATAATAATT
1 TATATTATTTAATAAAAAATAATAATT
3032220 TATATTATTTAATAAAAAAT
1 TATATTATTTAATAAAAAAT
3032240 CTATTTACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
23 9 0.27
24 10 0.30
26 3 0.09
27 11 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TATATTATTTAATAAAAAATAATAATT
Found at i:3032956 original size:16 final size:15
Alignment explanation
Indices: 3032935--3032971 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
3032925 ATTCTCTTTT
3032935 ATATTAATTAATTATA
1 ATATTAATTAATT-TA
3032951 ATATTAA-TAATTTA
1 ATATTAATTAATTTA
3032965 A-ATTAAT
1 ATATTAAT
3032972 ATATCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.25
14 3 0.15
15 5 0.25
16 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTAATTAATTTA
Found at i:3032983 original size:39 final size:41
Alignment explanation
Indices: 3032940--3033031 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 41
3032930 CTTTTATATT
*
3032940 AATTAATTATAATATTAA-TAATTTAAAT-TA-ATATATCAA
1 AATTAA-TATAATATTAATTAATTTAAATATACATATAACAA
* *
3032979 AATTAATATTATTTTAATTAATTTAAATATATCATATAACAA
1 AATTAATATAATATTAATTAATTTAAATATA-CATATAACAA
3033021 AATT--TATAATA
1 AATTAATATAATA
3033032 AACCAAACTC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
38 9 0.20
39 16 0.36
40 7 0.16
42 12 0.27
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (41 bp):
AATTAATATAATATTAATTAATTTAAATATACATATAACAA
Found at i:3032992 original size:29 final size:25
Alignment explanation
Indices: 3032940--3033005 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 25
3032930 CTTTTATATT
*
3032940 AATTAATTATAATATTAATAATTTA
1 AATTAATTATAAAATTAATAATTTA
*
3032965 AATTAATATATCAAAATTAATATTATTTT
1 AATTAAT-TAT-AAAATTAATA--ATTTA
3032994 AATTAATT-TAAA
1 AATTAATTATAAA
3033006 TATATCATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 7 0.20
26 6 0.17
27 10 0.29
28 1 0.03
29 11 0.31
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AATTAATTATAAAATTAATAATTTA
Found at i:3033529 original size:19 final size:19
Alignment explanation
Indices: 3033505--3033541 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
3033495 ATTTAATAAA
3033505 TTAATAAAGAATA-ATAGTT
1 TTAATAAA-AATAGATAGTT
3033524 TTAATAAAAATAGATAGT
1 TTAATAAAAATAGATAGT
3033542 GACATATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (19 bp):
TTAATAAAAATAGATAGTT
Found at i:3043166 original size:113 final size:112
Alignment explanation
Indices: 3042858--3043150 Score: 381
Period size: 113 Copynumber: 2.6 Consensus size: 112
3042848 AAGAGATGGA
* * * * * *
3042858 TTTCCCCTGAACGATTGTGATCAACTGCTAGTTCCTAGCTGATCTTGAAGACCTGAAACCCTGGT
1 TTTCCCTTGAATGTTTGTGATCAACTGCTAGTTCCTAGTTGGTCTTGAAGA-CTGAAAACCTGGT
** **
3042923 GTGTGTTGCAATTATACCGACCAATTAAGCTATGCCAGATTTGTTGCC
65 GCATGTTGCAATTATATTGACCAATTAAGCTATGCCAGATTTGTTGCC
* * * *
3042971 TTTCCTTTGAATGTATGTGATCAACTGCTAATTCCTAGTTGGTCTTGACGACTGGAAAACCTGGT
1 TTTCCCTTGAATGTTTGTGATCAACTGCTAGTTCCTAGTTGGTCTTGAAGACT-GAAAACCTGGT
**
3043036 GCATGTTGCAATTATATTGACC-ATGTAAGCTATGCTGGATTTGTTGCC
65 GCATGTTGCAATTATATTGACCAAT-TAAGCTATGCCAGATTTGTTGCC
* *
3043084 TTTCCCTTGAATGTTTGTGATCAACTGCTAGTTCCTAGTTGGTCTTTAAGACATGAAAACCTTGT
1 TTTCCCTTGAATGTTTGTGATCAACTGCTAGTTCCTAGTTGGTCTTGAAGAC-TGAAAACCTGGT
3043149 GC
65 GC
3043151 CCATTGCAAT
Statistics
Matches: 155, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
112 4 0.03
113 150 0.97
114 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (112 bp):
TTTCCCTTGAATGTTTGTGATCAACTGCTAGTTCCTAGTTGGTCTTGAAGACTGAAAACCTGGTG
CATGTTGCAATTATATTGACCAATTAAGCTATGCCAGATTTGTTGCC
Found at i:3047395 original size:49 final size:49
Alignment explanation
Indices: 3047325--3048093 Score: 882
Period size: 49 Copynumber: 15.8 Consensus size: 49
3047315 GAAAATAAAT
* *
3047325 GAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAATGA
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAATGA
** * *
3047374 GATTTTTTAAAGTTATGGAGCCTCTGTTGAGAGGAGCTTTTTC-AA-GAA
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAATG-A
* * ** *
3047422 AAAATTTTAAAGTTGTTGAGCCTCTGCGGATAGGAGCTTTTCCAAATGA
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAATGA
** * * *
3047471 GATTTTTTAAAGTTGTGGAGCCTCTGTTGAGATGAGCTTTTTC-AATAAA
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAAT-GA
* * *
3047520 AAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAATGA
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAATGA
**
3047569 GATTTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCC-AA-GA
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAATGA
* * * *
3047616 AAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAAAGA
1 GA-AATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCC-AAATGA
*
3047667 AAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGA
1 GA-AATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAA-ATGA
* *
3047718 -AAATTTCAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTC-AA-GAA
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAATG-A
* *
3047765 GAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAATGA
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAATGA
** * *
3047814 GATTTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGA-AA
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAA-ATGA
* * *
3047863 GAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTCCAAATGA
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAATGA
** * *
3047912 GATTTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGA-AA
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAA-ATGA
* * *
3047961 GAAATTTTGAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCGAAAT-A
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCC-AAATGA
* *
3048010 -AAATTTTAAAGTTGTGGAACCTCTGTTGAGAGGAGCTTTTTC-AA-GAA
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAATG-A
* * * * *
3048057 AAAATTTTAAAGTTGTTGAGCCTATGCTAAGAGGAGC
1 GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGC
3048094 CCTTTTCTGT
Statistics
Matches: 610, Mismatches: 88, Indels: 45
0.82 0.12 0.06
Matches are distributed among these distances:
46 3 0.00
47 7 0.01
48 187 0.31
49 352 0.58
50 14 0.02
51 47 0.08
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (49 bp):
GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAATGA
Found at i:3047492 original size:97 final size:95
Alignment explanation
Indices: 3047326--3048093 Score: 874
Period size: 97 Copynumber: 7.9 Consensus size: 95
3047316 AAAATAAATG
* ** *
3047326 AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAATGAGATTTTTTAAAGTTATG
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAA-GAGAAATTTTAAAGTTGTG
*
3047391 GAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAA
65 GAGCCTCTGTTGAGAGGAGCTTTTCCAA-AAA
* * * **
3047423 AAATTTTAAAGTTGTTGAGCCTCTGCGGATAGGAGCTTTTCCAAATGAGATTTTTTAAAGTTGTG
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAA-GAGAAATTTTAAAGTTGTG
* *
3047488 GAGCCTCTGTTGAGATGAGCTTTTTCAATAAAA
65 GAGCCTCTGTTGAGAGGAGC-TTTTCCA-AAAA
* **
3047521 AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAATGAGATTTTTTAAAGTTGTG
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAA-GAGAAATTTTAAAGTTGTG
3047586 GAGCCTCTGTTGAGAGGAGCTTTTCCAAGAAA
65 GAGCCTCTGTTGAGAGGAGCTTTTCCAA-AAA
* * *
3047618 GAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAAAGAAAGAATTTTAAAGTTG
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC--AAAGAGA-AATTTTAAAGTTG
*
3047683 TGGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGA
63 TGGAGCCTCTGTTGAGAGGAGCTTTTCCAA-A-AA
* * * *
3047718 AAATTTCAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTC-AAGAAGAAATTTTAAAGTTGTT
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAAG-AGAAATTTTAAAGTTGTG
* *
3047782 GAGCCTCTGCTGAGAGGAGCTTTTCCAAATGAG
65 GAGCCTCTGTTGAGAGGAGCTTTTCCAAA--AA
** * * * *
3047815 ATTTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAATTTTAAAGTTGTT
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAA-AGAGAAATTTTAAAGTTGTG
* * *
3047880 GAGCCTCTGCTGAGAAGAGCTTTTCCAAATGAG
65 GAGCCTCTGTTGAGAGGAGCTTTTCCAAA--AA
** * * * * *
3047913 ATTTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAATTTTGAAGTTGTT
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAA-AGAGAAATTTTAAAGTTGTG
* *
3047978 GAGCCTCTGCTGAGAGGAGCTTTTCCGAAATA
65 GAGCCTCTGTTGAGAGGAGCTTTTCC-AAAAA
* * * * *
3048010 AAATTTTAAAGTTGTGGAACCTCTGTTGAGAGGAGCTTTTTC-AAGAAAAAATTTTAAAGTTGTT
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAAG-AGAAATTTTAAAGTTGTG
* * *
3048074 GAGCCTATGCTAAGAGGAGC
65 GAGCCTCTGTTGAGAGGAGC
3048094 CCTTTTCTGT
Statistics
Matches: 615, Mismatches: 43, Indels: 27
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.00
96 37 0.06
97 253 0.41
98 235 0.38
99 51 0.08
100 38 0.06
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (95 bp):
AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAAGAGAAATTTTAAAGTTGTGG
AGCCTCTGTTGAGAGGAGCTTTTCCAAAAA
Found at i:3047960 original size:343 final size:341
Alignment explanation
Indices: 3047326--3048093 Score: 1263
Period size: 343 Copynumber: 2.2 Consensus size: 341
3047316 AAAATAAATG
* * ** *
3047326 AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAA-ATGAGATTTTTTAAAGTTAT
1 AAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGA-AAATTTTAAAGTTGT
*
3047390 GGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAAAATTTTAAAGTTGTTGAGCCTCTGCGGATAG
65 GGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAAAATTTTAAAGTTGTTGAGCCTCTGCGGAGAG
* *
3047455 GAGCTTTTCCAAATGAGATTTTTTAAAGTTGTGGAGCCTCTGTTGAGATGAGCTTTTTCAATAAA
130 GAGCTTTTCCAAATGAGATTTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAA
*
3047520 AAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAATGAGATTTTTTAAAGTTGT
195 AAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTCCAAATGAGATTTTTTAAAGTTGT
3047585 GGAGCCTCTGTTGAGAGGAGCTTTTCCAAGAAAG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGA
260 GGAGCCTCTGTTGAGAGGAGCTTTTCCAAGAAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGA
3047649 GGAGCTTTTCCAAAAAGAA
325 GGAGCTTTTCC-AAAA-AA
*
3047668 AGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAAAATTTCAAAGTTGT
1 A-AATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGT
* *
3047733 GGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAG
65 GGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAAAATTTTAAAGTTGTTGAGCCTCTGCGGAGAG
3047798 GAGCTTTTCCAAATGAGATTTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAA
130 GAGCTTTTCCAAATGAGATTTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAA
*
3047863 GAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTCCAAATGAGATTTTTTAAAGTTGT
195 AAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTCCAAATGAGATTTTTTAAAGTTGT
* *
3047928 GGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAATTTTGAAGTTGTTGAGCCTCTGCTGAGA
260 GGAGCCTCTGTTGAGAGGAGCTTTTCCAAGAAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGA
* *
3047993 GGAGCTTTTCCGAAATA
325 GGAGCTTTTCCAAAAAA
* * * *
3048010 AAATTTTAAAGTTGTGGAACCTCTGTTGAGAGGAGCTTTTTCAAGA-AAAAATTTTAAAGTTGTT
1 AAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTG
* * *
3048074 GAGCCTATGCTAAGAGGAGC
66 GAGCCTCTGTTGAGAGGAGC
3048094 CCTTTTCTGT
Statistics
Matches: 398, Mismatches: 25, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
340 32 0.08
341 43 0.11
342 3 0.01
343 276 0.69
344 44 0.11
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (341 bp):
AAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTG
GAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAAAATTTTAAAGTTGTTGAGCCTCTGCGGAGAGG
AGCTTTTCCAAATGAGATTTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAA
AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTCCAAATGAGATTTTTTAAAGTTGTG
GAGCCTCTGTTGAGAGGAGCTTTTCCAAGAAAGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAG
GAGCTTTTCCAAAAAA
Found at i:3048268 original size:5 final size:5
Alignment explanation
Indices: 3048258--3048306 Score: 75
Period size: 5 Copynumber: 10.0 Consensus size: 5
3048248 AATAATATTT
3048258 AACAA AACAA AACAA AA-AA AACAA AACAA AACAGA AA-AA AACAA AACAA
1 AACAA AACAA AACAA AACAA AACAA AACAA AACA-A AACAA AACAA AACAA
3048307 GTAAACAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
4 7 0.17
5 31 0.76
6 3 0.07
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:3048282 original size:19 final size:20
Alignment explanation
Indices: 3048258--3048306 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
3048248 AATAATATTT
3048258 AACAAAACAAAACA-AAAAA
1 AACAAAACAAAACAGAAAAA
3048277 AACAAAACAAAACAGAAAAA
1 AACAAAACAAAACAGAAAAA
3048297 AACAAAACAA
1 AACAAAACAA
3048307 GTAAACAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (20 bp):
AACAAAACAAAACAGAAAAA
Found at i:3052419 original size:24 final size:25
Alignment explanation
Indices: 3052392--3052448 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
3052382 TTTTTATCTT
* * *
3052392 ATATATTTAGATA-ATTTTTTATAA
1 ATATATATAAATATATTTTTAATAA
3052416 ATATATATAAATATATTTTTAATAA
1 ATATATATAAATATATTTTTAATAA
*
3052441 AAATATAT
1 ATATATAT
3052449 TAATTTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
ATATATATAAATATATTTTTAATAA
Found at i:3052904 original size:20 final size:20
Alignment explanation
Indices: 3052872--3052909 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3052862 TCAATAATGT
*
3052872 TGATGTAATCGTTGATTTGA
1 TGATGTAATCGTTAATTTGA
3052892 TGATGTAGA-CGTTAATTT
1 TGATGTA-ATCGTTAATTT
3052910 TGTTGATACG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (20 bp):
TGATGTAATCGTTAATTTGA
Found at i:3053048 original size:30 final size:31
Alignment explanation
Indices: 3052979--3053048 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
3052969 ATTATGTAAA
* *
3052979 TAATTTTTGTATTCATATAAAATTTAAATTT
1 TAATTTTTATATTCATACAAAATTTAAATTT
* *
3053010 TAGTTTTTATATTCGTACAAAATTT-AA-TT
1 TAATTTTTATATTCATACAAAATTTAAATTT
3053039 TAATATTTTA
1 TAAT-TTTTA
3053049 AAACATAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 7 0.21
31 21 0.64
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (31 bp):
TAATTTTTATATTCATACAAAATTTAAATTT
Found at i:3053213 original size:16 final size:15
Alignment explanation
Indices: 3053192--3053228 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
3053182 ATTCTCTTTT
3053192 ATATTAATTAATTATA
1 ATATTAATTAATT-TA
3053208 ATATTAA-TAATTTA
1 ATATTAATTAATTTA
3053222 A-ATTAAT
1 ATATTAAT
3053229 ATATCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.25
14 3 0.15
15 5 0.25
16 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTAATTAATTTA
Found at i:3053240 original size:39 final size:41
Alignment explanation
Indices: 3053197--3053281 Score: 104
Period size: 39 Copynumber: 2.1 Consensus size: 41
3053187 CTTTTATATT
*
3053197 AATTAATTATAATATTAA-TAATTTAAAT-TA-ATATATCAA
1 AATTAA-TATAATATTAATTAATTTAAATATACATATAACAA
* *
3053236 AATTAATATTATTTTAATTAATTTAAATATATCATATAACAA
1 AATTAATATAATATTAATTAATTTAAATATA-CATATAACAA
3053278 AATT
1 AATT
3053282 TATAATGAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
38 9 0.23
39 16 0.41
40 2 0.05
42 12 0.31
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (41 bp):
AATTAATATAATATTAATTAATTTAAATATACATATAACAA
Found at i:3053249 original size:29 final size:25
Alignment explanation
Indices: 3053197--3053262 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 25
3053187 CTTTTATATT
*
3053197 AATTAATTATAATATTAATAATTTA
1 AATTAATTATAAAATTAATAATTTA
*
3053222 AATTAATATATCAAAATTAATATTATTTT
1 AATTAAT-TAT-AAAATTAATA--ATTTA
3053251 AATTAATT-TAAA
1 AATTAATTATAAA
3053263 TATATCATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 7 0.20
26 6 0.17
27 10 0.29
28 1 0.03
29 11 0.31
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AATTAATTATAAAATTAATAATTTA
Found at i:3054202 original size:31 final size:31
Alignment explanation
Indices: 3054167--3054244 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
3054157 TAGAAAAATT
*
3054167 AATTTCAAATTTCGTATG-AATATAAGGACT-A
1 AATTTCAAATTT--TATGCAATATAAAGACTAA
* *
3054198 AATTTTAAATTTTTTGCTAATATAAAGACTAA
1 AATTTCAAATTTTATGC-AATATAAAGACTAA
3054230 AATTTCAAATTTTAT
1 AATTTCAAATTTTAT
3054245 ATGAGTTCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 3 0.08
31 22 0.56
32 14 0.36
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (31 bp):
AATTTCAAATTTTATGCAATATAAAGACTAA
Found at i:3054730 original size:20 final size:20
Alignment explanation
Indices: 3054682--3054731 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
3054672 TATATATATT
*
3054682 TTTATATATTTAATAAATAAA
1 TTTAT-TATTAAATAAATAAA
*
3054703 TTTTTTATTAAATAATATAAA
1 TTTATTATTAAATAA-ATAAA
3054724 -TTATTATT
1 TTTATTATT
3054732 TTAAATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATTATTAAATAAATAAA
Found at i:3058118 original size:113 final size:112
Alignment explanation
Indices: 3057810--3058102 Score: 392
Period size: 113 Copynumber: 2.6 Consensus size: 112
3057800 AAGAGATGGA
* * * *
3057810 TTTCCCTTGAACGATTGTGATCAACTGCTAGTTCCTAGCTGGTCTTGAAGACCTGAAACCCTGGT
1 TTTCCCTTGAATGTTTGTGATCAACTGCTAGTTCCTAGTTGGTCTTGAAGA-CTGAAAACCTGGT
** *
3057875 GTGTGTTGCAATTATATAGACCAATTAAGCTATGCCAGATTTGTTGCC
65 GCATGTTGCAATTATATTGACCAATTAAGCTATGCCAGATTTGTTGCC
* * * *
3057923 TTTTCTTTGAATGTATGTGATCAACTGCTAATTCCTAGTTGGTCTTGACA-ACTGGAAAACCTGG
1 TTTCCCTTGAATGTTTGTGATCAACTGCTAGTTCCTAGTTGGTCTTGA-AGACT-GAAAACCTGG
**
3057987 TGCATGTTGCAATTATATTGACC-ATGTAAGCTATGCTGGATTTGTTGCC
64 TGCATGTTGCAATTATATTGACCAAT-TAAGCTATGCCAGATTTGTTGCC
* *
3058036 TTTCCCTTGAATGTTTGTGATCAACTGCTAGTTCCTAGTTGGTCTTTAAGACATGAAAACCTTGT
1 TTTCCCTTGAATGTTTGTGATCAACTGCTAGTTCCTAGTTGGTCTTGAAGAC-TGAAAACCTGGT
3058101 GC
65 GC
3058103 CCATTGCAAT
Statistics
Matches: 156, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
112 5 0.03
113 149 0.96
114 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37
Consensus pattern (112 bp):
TTTCCCTTGAATGTTTGTGATCAACTGCTAGTTCCTAGTTGGTCTTGAAGACTGAAAACCTGGTG
CATGTTGCAATTATATTGACCAATTAAGCTATGCCAGATTTGTTGCC
Found at i:3060688 original size:5 final size:6
Alignment explanation
Indices: 3060661--3060703 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
3060651 AAGCTAAACC
* *
3060661 AAAAAT AAAACAT -CAAAT AAAAAT AAAAAT AAAAAT AATAAT A
1 AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
3060704 TATGATTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 2 0.06
6 28 0.88
7 2 0.06
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:3060788 original size:14 final size:14
Alignment explanation
Indices: 3060771--3060797 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3060761 AGTTTTTTTT
3060771 TTTAACATATATAC
1 TTTAACATATATAC
3060785 TTTAACATATATA
1 TTTAACATATATA
3060798 ATTGTTTTTT
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:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTAACATATATAC
Found at i:3062404 original size:15 final size:14
Alignment explanation
Indices: 3062372--3062400 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3062362 TAAACTCTTT
3062372 ATTTTTATTTTGAA
1 ATTTTTATTTTGAA
3062386 ATTTTTATTTTGAA
1 ATTTTTATTTTGAA
3062400 A
1 A
3062401 ATTTGACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (14 bp):
ATTTTTATTTTGAA
Found at i:3062770 original size:27 final size:27
Alignment explanation
Indices: 3062736--3062814 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
3062726 ATTTTATAAT
* *
3062736 TTAAATTTAAATAATTATTTAAGTATA
1 TTAAATTTAAATAATTATTCAAATATA
* *
3062763 TTAAATTTACATAATTATCCAAATATA
1 TTAAATTTAAATAATTATTCAAATATA
3062790 TTAAATTTAAATAAATTATT-AAATA
1 TTAAATTTAAAT-AATTATTCAAATA
3062815 AAATTACTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 39 0.87
28 6 0.13
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (27 bp):
TTAAATTTAAATAATTATTCAAATATA
Found at i:3062989 original size:19 final size:19
Alignment explanation
Indices: 3062951--3062990 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
3062941 AGATTTATTT
3062951 ATTATATTAAATTAATAAA
1 ATTATATTAAATTAATAAA
*
3062970 ATTATTTTATAATTAA-AAA
1 ATTATATTA-AATTAATAAA
3062989 AT
1 AT
3062991 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTATATTAAATTAATAAA
Found at i:3066764 original size:113 final size:113
Alignment explanation
Indices: 3066566--3066902 Score: 435
Period size: 113 Copynumber: 3.0 Consensus size: 113
3066556 AAGAGATGGA
* * * *
3066566 TTTCCCTTGAACG-ATTGTGATCAACTGCTAGTTCCTAGCTGGTCTTGAAGACCTGAAACCCTGG
1 TTTCCCTTGAATGTA-TGTGATCAACTGCTAGTTCCTAGTTGGTCTTGAAGACCAGAAAACCTGG
** *
3066630 TGTGTGTTGCAATTATATTGACCAATTAAGCTATGCCAGATTTTTTGCC
65 TGCATGTTGCAATTATATTGACCAATTAAGCTATGCCAGATTTGTTGCC
* *
3066679 TTTCCTTTGAATGTATGTGATCAACTGCTAGTTCCTAGTTGGTCTTGACGACCAGAAAACCTGGT
1 TTTCCCTTGAATGTATGTGATCAACTGCTAGTTCCTAGTTGGTCTTGAAGACCAGAAAACCTGGT
* **
3066744 GCATGTTGCAATTATATTGACCATTTAAGCTATGCTGGATTTGTTGCC
66 GCATGTTGCAATTATATTGACCAATTAAGCTATGCCAGATTTGTTGCC
* * *
3066792 TTTCCCTTGAATGTTTGTGATCAACTGCTAGTTCCTAGTTGGTCTTTAAGA-CATGAAAACCTTG
1 TTTCCCTTGAATGTATGTGATCAACTGCTAGTTCCTAGTTGGTCTTGAAGACCA-GAAAACCTGG
*** * * * **
3066856 TGCCCATTGCAATGATATTGATCGATTAAGCTATGCTGGATTTGTTG
65 TGCATGTTGCAATTATATTGACCAATTAAGCTATGCCAGATTTGTTG
3066903 AGTTATTGAG
Statistics
Matches: 198, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
112 2 0.01
113 195 0.98
114 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (113 bp):
TTTCCCTTGAATGTATGTGATCAACTGCTAGTTCCTAGTTGGTCTTGAAGACCAGAAAACCTGGT
GCATGTTGCAATTATATTGACCAATTAAGCTATGCCAGATTTGTTGCC
Found at i:3070272 original size:27 final size:27
Alignment explanation
Indices: 3070237--3070355 Score: 82
Period size: 27 Copynumber: 4.4 Consensus size: 27
3070227 GTGGTTGTCA
3070237 AGGTGACTGATAATGAGATTAATCAAG
1 AGGTGACTGATAATGAGATTAATCAAG
* * *
3070264 AGGTTACTGATAGTGAGATTGATCAGGAG
1 AGGTGACTGATAATGAGATTAATCA--AG
* * * * *
3070293 ATGATCACTGATGATGTGATTGAT---G
1 A-GGTGACTGATAATGAGATTAATCAAG
* * *
3070318 TGATGACTGATAATGAGATTAATCACG
1 AGGTGACTGATAATGAGATTAATCAAG
*
3070345 AGTTGACTGAT
1 AGGTGACTGAT
3070356 GATAAAGTTG
Statistics
Matches: 71, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
24 18 0.25
25 1 0.01
27 32 0.45
29 3 0.04
30 17 0.24
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (27 bp):
AGGTGACTGATAATGAGATTAATCAAG
Found at i:3070369 original size:27 final size:27
Alignment explanation
Indices: 3070321--3070479 Score: 178
Period size: 27 Copynumber: 5.9 Consensus size: 27
3070311 ATTGATGTGA
* * *
3070321 TGACTGATAATG-AGATTAATCACGAGT
1 TGACTGATGATGAAG-TTGATCAGGAGT
* *
3070348 TGACTGATGATAAAGTTGATCATGAGT
1 TGACTGATGATGAAGTTGATCAGGAGT
3070375 TGACTGATGATGAAGTTGATCAGGAGT
1 TGACTGATGATGAAGTTGATCAGGAGT
* * * *
3070402 TTACTGGTGATG-AGTTTGATCAGGTGG
1 TGACTGATGATGAAG-TTGATCAGGAGT
* *
3070429 TGACTGATGATGAGGTTGATCAGGAGC
1 TGACTGATGATGAAGTTGATCAGGAGT
*
3070456 TGATTGATGATGAAGTTGATCAGG
1 TGACTGATGATGAAGTTGATCAGG
3070480 CGATTGATGA
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.02
27 107 0.96
28 3 0.03
ACGTcount: A:0.29, C:0.08, G:0.31, T:0.31
Consensus pattern (27 bp):
TGACTGATGATGAAGTTGATCAGGAGT
Found at i:3070415 original size:81 final size:81
Alignment explanation
Indices: 3070330--3070479 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 81
3070320 ATGACTGATA
* * *
3070330 ATGAGATTAATCACGAGTTGACTGATGATAAAGTTGATCATGAGTTGACTGATGATGAAGTTGAT
1 ATGAGATTAATCACGAGGTGACTGATGATAAAGTTGATCAGGAGCTGACTGATGATGAAGTTGAT
3070395 CAGGAGTTTACTGGTG
66 CAGGAGTTTACTGGTG
* * * * * * *
3070411 ATGAGTTTGATCAGGTGGTGACTGATGATGAGGTTGATCAGGAGCTGATTGATGATGAAGTTGAT
1 ATGAGATTAATCACGAGGTGACTGATGATAAAGTTGATCAGGAGCTGACTGATGATGAAGTTGAT
3070476 CAGG
66 CAGG
3070480 CGATTGATGA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 59 1.00
ACGTcount: A:0.29, C:0.08, G:0.32, T:0.31
Consensus pattern (81 bp):
ATGAGATTAATCACGAGGTGACTGATGATAAAGTTGATCAGGAGCTGACTGATGATGAAGTTGAT
CAGGAGTTTACTGGTG
Found at i:3073624 original size:2 final size:2
Alignment explanation
Indices: 3073617--3073646 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3073607 AAGATGCCAT
3073617 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
3073647 AAGTGAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3080922 original size:72 final size:72
Alignment explanation
Indices: 3080805--3080949 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
3080795 CCGGTGACTC
3080805 ATACTCTGGCAAGGTTGTACCTATAGTTGTTCAAGCAATATCAGACGGTAGCTATGTGCTTATCC
1 ATACTCTGGCAAGGTTGTACCTATAGTTGTTCAAGCAATATCAGACGGTAGCTATGTGCTTATCC
3080870 CCTTAAA
66 CCTTAAA
3080877 ATACTCTGGCAAGGTTGTACCTATAGTTGTTCAAGCAATATCAGACGGTAGCTATGTGCTTATCC
1 ATACTCTGGCAAGGTTGTACCTATAGTTGTTCAAGCAATATCAGACGGTAGCTATGTGCTTATCC
3080942 CCTTAAA
66 CCTTAAA
3080949 A
1 A
3080950 CTTGGATTCT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (72 bp):
ATACTCTGGCAAGGTTGTACCTATAGTTGTTCAAGCAATATCAGACGGTAGCTATGTGCTTATCC
CCTTAAA
Found at i:3081076 original size:105 final size:105
Alignment explanation
Indices: 3080894--3081105 Score: 424
Period size: 105 Copynumber: 2.0 Consensus size: 105
3080884 GGCAAGGTTG
3080894 TACCTATAGTTGTTCAAGCAATATCAGACGGTAGCTATGTGCTTATCCCCTTAAAACTTGGATTC
1 TACCTATAGTTGTTCAAGCAATATCAGACGGTAGCTATGTGCTTATCCCCTTAAAACTTGGATTC
3080959 TATATATATTGTTAACCGATGGATCAATGACTGGGTTACT
66 TATATATATTGTTAACCGATGGATCAATGACTGGGTTACT
3080999 TACCTATAGTTGTTCAAGCAATATCAGACGGTAGCTATGTGCTTATCCCCTTAAAACTTGGATTC
1 TACCTATAGTTGTTCAAGCAATATCAGACGGTAGCTATGTGCTTATCCCCTTAAAACTTGGATTC
3081064 TATATATATTGTTAACCGATGGATCAATGACTGGGTTACT
66 TATATATATTGTTAACCGATGGATCAATGACTGGGTTACT
3081104 TA
1 TA
3081106 TGGTGCTTCA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 107 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (105 bp):
TACCTATAGTTGTTCAAGCAATATCAGACGGTAGCTATGTGCTTATCCCCTTAAAACTTGGATTC
TATATATATTGTTAACCGATGGATCAATGACTGGGTTACT
Found at i:3099638 original size:23 final size:23
Alignment explanation
Indices: 3099610--3099685 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 23
3099600 TTGTGATAGA
3099610 ATTCATGAATATTAAATAAATAT
1 ATTCATGAATATTAAATAAATAT
* *
3099633 ATTCATTAAATATATAAAAATAAAAAGT
1 ATTCA-TGAATAT-T--AAATAAATA-T
* * *
3099661 GTTTATGAATAATAAATAAATAT
1 ATTCATGAATATTAAATAAATAT
3099684 AT
1 AT
3099686 AAACAAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
23 7 0.17
24 14 0.35
25 1 0.03
26 1 0.03
27 13 0.32
28 4 0.10
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (23 bp):
ATTCATGAATATTAAATAAATAT
Found at i:3104155 original size:47 final size:47
Alignment explanation
Indices: 3104086--3104179 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
3104076 GTCTCACAAG
3104086 AAAGAGATAGTTATACCCTAGTGACATTTTTATTATATTCGATGTGA
1 AAAGAGATAGTTATACCCTAGTGACATTTTTATTATATTCGATGTGA
* *
3104133 AAAGAGATGGTTATACCCTAGTGACCTTTTTATTATATTCGATGTGA
1 AAAGAGATAGTTATACCCTAGTGACATTTTTATTATATTCGATGTGA
3104180 GATTCATGAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (47 bp):
AAAGAGATAGTTATACCCTAGTGACATTTTTATTATATTCGATGTGA
Found at i:3112310 original size:20 final size:24
Alignment explanation
Indices: 3112270--3112316 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
3112260 GTTATATTAA
3112270 AAAAATAAAATTTTAGTATAAA-T
1 AAAAATAAAATTTTAGTATAAACT
3112293 AAAAA-AAAATTTT-G-ATAAACT
1 AAAAATAAAATTTTAGTATAAACT
3112314 AAA
1 AAA
3112317 CTTTTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.22
21 5 0.22
22 8 0.35
23 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAAATAAAATTTTAGTATAAACT
Found at i:3115811 original size:47 final size:47
Alignment explanation
Indices: 3115742--3115837 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
3115732 CGTCTCACAA
3115742 GAAAAGAGATAGTTATACCCTAGTGACATTTTTATTATATTCGATGT
1 GAAAAGAGATAGTTATACCCTAGTGACATTTTTATTATATTCGATGT
* *
3115789 GAAAAGAGATGGTTATACCCTAGTGACCTTTTTATTATATTCGATGT
1 GAAAAGAGATAGTTATACCCTAGTGACATTTTTATTATATTCGATGT
3115836 GA
1 GA
3115838 GATTCATGAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (47 bp):
GAAAAGAGATAGTTATACCCTAGTGACATTTTTATTATATTCGATGT
Found at i:3118661 original size:20 final size:20
Alignment explanation
Indices: 3118624--3118675 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
3118614 TAATTAGATC
* * * *
3118624 ATATATATATACATATATCT
1 ATATATGTATATACATATCA
* *
3118644 ATGTATGTATATACATATGA
1 ATATATGTATATACATATCA
3118664 ATATATGTATAT
1 ATATATGTATAT
3118676 TTTTTTGTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (20 bp):
ATATATGTATATACATATCA
Found at i:3121478 original size:7 final size:7
Alignment explanation
Indices: 3121466--3121493 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
3121456 TGACCATTTA
3121466 TCACCAT
1 TCACCAT
3121473 TCACCAT
1 TCACCAT
3121480 TCACCAT
1 TCACCAT
3121487 TCACCAT
1 TCACCAT
3121494 GCATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.43, G:0.00, T:0.29
Consensus pattern (7 bp):
TCACCAT
Found at i:3137791 original size:29 final size:32
Alignment explanation
Indices: 3137747--3137822 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
3137737 CGCTGTAATT
*
3137747 ATTTTAATATAATATTATAA-T-T-ATATCATA
1 ATTTT-ATATATTATTATAATTATAATATCATA
*
3137777 ATTTTATATATTATTTTAATTATAATATCATA
1 ATTTTATATATTATTATAATTATAATATCATA
3137809 ATTTT-TAATATTAT
1 ATTTTAT-ATATTAT
3137823 GTTTAATCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
29 12 0.30
30 6 0.15
31 2 0.05
32 20 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (32 bp):
ATTTTATATATTATTATAATTATAATATCATA
Found at i:3137810 original size:32 final size:33
Alignment explanation
Indices: 3137769--3137834 Score: 100
Period size: 32 Copynumber: 2.0 Consensus size: 33
3137759 TATTATAATT
*
3137769 ATATCATAA-TTTTATATATTAT-TTTAATTATA
1 ATATCATAATTTTTA-ATATTATGTTTAATCATA
3137801 ATATCATAATTTTTAATATTATGTTTAATCATA
1 ATATCATAATTTTTAATATTATGTTTAATCATA
3137834 A
1 A
3137835 AATTACATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (33 bp):
ATATCATAATTTTTAATATTATGTTTAATCATA
Found at i:3138234 original size:25 final size:25
Alignment explanation
Indices: 3138206--3138266 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
3138196 AAAAACACCG
*
3138206 ATCAAAGAAAACTTATTAAAA-TAAA
1 ATCAAAGAAAA-TTATAAAAATTAAA
* *
3138231 ATCAAA-AGTAATTATAAAAATTAAC
1 ATCAAAGA-AAATTATAAAAATTAAA
3138256 ATCAAAGAAAA
1 ATCAAAGAAAA
3138267 AAAATTCCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
24 9 0.31
25 19 0.66
26 1 0.03
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (25 bp):
ATCAAAGAAAATTATAAAAATTAAA
Found at i:3139021 original size:30 final size:30
Alignment explanation
Indices: 3138982--3139049 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
3138972 TTTTTTAAAT
* * *
3138982 TAAT-TTTTTAATTATATATATTTATATAA
1 TAATATTTTTAAATATATATATTTAAAAAA
* *
3139011 TGATATTTTTAAATATTTATATTTAAAAAA
1 TAATATTTTTAAATATATATATTTAAAAAA
3139041 TAATATTTT
1 TAATATTTT
3139050 ATTAATTTCG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (30 bp):
TAATATTTTTAAATATATATATTTAAAAAA
Found at i:3142659 original size:22 final size:22
Alignment explanation
Indices: 3142634--3142683 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
3142624 TATTTTTTGG
*
3142634 TTTTATCT-TCAATTTTTTTTAA
1 TTTTATCTATCAATTTTATTT-A
* *
3142656 TTTTATTTATCTATTTTATTTA
1 TTTTATCTATCAATTTTATTTA
3142678 TTTTAT
1 TTTTAT
3142684 TTTTAGACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTATCTATCAATTTTATTTA
Found at i:3144322 original size:7 final size:7
Alignment explanation
Indices: 3144305--3144335 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
3144295 AACAAAAATG
3144305 ATAAT-A
1 ATAATAA
3144311 ATAATAA
1 ATAATAA
3144318 ATAATAA
1 ATAATAA
3144325 ATAATAA
1 ATAATAA
3144332 ATAA
1 ATAA
3144336 ATATTTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAATAA
Found at i:3145442 original size:30 final size:30
Alignment explanation
Indices: 3145401--3145457 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
3145391 TGGATGATTG
3145401 TAAACTATATTTAATGACTTTAAGTAAGTA
1 TAAACTATATTTAATGACTTTAAGTAAGTA
* *
3145431 TAAATTATATTTAATGATTTTAAGTAA
1 TAAACTATATTTAATGACTTTAAGTAA
3145458 ATTAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (30 bp):
TAAACTATATTTAATGACTTTAAGTAAGTA
Found at i:3153171 original size:2 final size:2
Alignment explanation
Indices: 3153164--3153203 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3153154 ATACTATCTT
3153164 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3153204 TTTGTCTACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3160987 original size:91 final size:92
Alignment explanation
Indices: 3160824--3160998 Score: 257
Period size: 91 Copynumber: 1.9 Consensus size: 92
3160814 TGATACCCAA
* *
3160824 GTATATCCAAGAAATAGTGACATGGAGTGACGAAACATTTTTGACATCCATCATTTTCATGTTTT
1 GTATATCCAAGAAATAGTGACATGGAGCGACGAAACATTTTTAACATCCATCATTTTCATGTTTT
* * *
3160889 CCAAAACTATAATGTATTACTTGTCGC
66 CAAAAACTACAATGCATTACTTGTCGC
*
3160916 GTATATCCAAGAAATAGTG-CATGGAGCGGC-AAGACATTTTTAACATCCATCATTTTCATGTTT
1 GTATATCCAAGAAATAGTGACATGGAGCGACGAA-ACATTTTTAACATCCATCATTTTCATGTTT
3160979 T-AAGAAACTACAATGCATTA
65 TCAA-AAACTACAATGCATTA
3160999 TTGGTTTTCC
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
90 3 0.04
91 53 0.71
92 19 0.25
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (92 bp):
GTATATCCAAGAAATAGTGACATGGAGCGACGAAACATTTTTAACATCCATCATTTTCATGTTTT
CAAAAACTACAATGCATTACTTGTCGC
Found at i:3163858 original size:15 final size:15
Alignment explanation
Indices: 3163840--3163869 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3163830 AATTATATCT
3163840 AATTGAATAATTTTA
1 AATTGAATAATTTTA
*
3163855 AATTGAATTATTTTA
1 AATTGAATAATTTTA
3163870 CTATTACCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
AATTGAATAATTTTA
Found at i:3191431 original size:15 final size:15
Alignment explanation
Indices: 3191410--3191445 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
3191400 ATCAATATAA
3191410 AATTTTTTAATT-TT
1 AATTTTTTAATTATT
3191424 ATATTTTTTAATTATT
1 A-ATTTTTTAATTATT
3191440 AATTTT
1 AATTTT
3191446 AATAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 16 0.80
16 3 0.15
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
AATTTTTTAATTATT
Found at i:3205884 original size:18 final size:18
Alignment explanation
Indices: 3205857--3205893 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3205847 TTTACAAAAC
*
3205857 ACAAACTCATTCACCAAT
1 ACAAACTCATACACCAAT
*
3205875 ACAAATTCATACACCAAT
1 ACAAACTCATACACCAAT
3205893 A
1 A
3205894 ACTTTACCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.22
Consensus pattern (18 bp):
ACAAACTCATACACCAAT
Found at i:3206094 original size:45 final size:44
Alignment explanation
Indices: 3206030--3206149 Score: 152
Period size: 45 Copynumber: 2.7 Consensus size: 44
3206020 AGGGCATAAA
*
3206030 CTACAGATGTCGGAAACAAGAAGTTTCCCTGATACCGGAAACAGG
1 CTACAGATG-CGGAAACAAGAAGTTTCCCTGATACCAGAAACAGG
* *
3206075 CTACAGATGCAGGAAACAAGAAGTTTCCTTGATGCCAGAAACAGG
1 CTACAGATGC-GGAAACAAGAAGTTTCCCTGATACCAGAAACAGG
* *
3206120 ATATAGATATG-GGAAACAAGAAGTTTCCCT
1 CTACAG--ATGCGGAAACAAGAAGTTTCCCT
3206150 AATGCAGGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
44 1 0.02
45 62 0.94
47 3 0.05
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (44 bp):
CTACAGATGCGGAAACAAGAAGTTTCCCTGATACCAGAAACAGG
Done.