Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 93 of 103
Found at i:34103169 original size:25 final size:24
Alignment explanation
Indices: 34103123--34103194 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
34103113 ATTAATATTT
34103123 TAAAATATTAAAATTAAATTATAA
1 TAAAATATTAAAATTAAATTATAA
* *
34103147 TAAAATATTCATATTTAAATTATCAA
1 TAAAATATT-AAAATTAAATTAT-AA
* * *
34103173 T-TATTAATAAAA-TAAATTATAA
1 TAAAATATTAAAATTAAATTATAA
34103195 ATTAGTCCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
22 2 0.05
23 8 0.21
24 11 0.28
25 15 0.38
26 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAATATTAAAATTAAATTATAA
Found at i:34103179 original size:40 final size:40
Alignment explanation
Indices: 34103098--34103172 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
34103088 GATTAATTCC
* * *
34103098 AAATTTTAATTAAATATTAATATTTTAAAATATTAAAATT
1 AAATTATAATAAAATATTAATATTTTAAAATATCAAAATT
* *
34103138 AAATTATAATAAAATATTCATA-TTTAAATTATCAA
1 AAATTATAATAAAATATTAATATTTTAAAATATCAA
34103173 TTATTAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
39 11 0.37
40 19 0.63
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (40 bp):
AAATTATAATAAAATATTAATATTTTAAAATATCAAAATT
Found at i:34103378 original size:113 final size:110
Alignment explanation
Indices: 34103136--34103391 Score: 266
Period size: 113 Copynumber: 2.3 Consensus size: 110
34103126 AATATTAAAA
* * *
34103136 TTAAATTATAATAAAATATTCATATTTAAATTATCAATTATTAATAAAATAAATTATAAATTAGT
1 TTAAATTATAATAAAATATTAATATTTAAATCATCAATTATTAATAAAATAAATTACAAATTAGT
** * *
34103201 CCTATTTAAAAACAAAATAAATTAAAAATAAATAGGCATGATATCAT
66 AATATTTAAAAACAAAATAAAATAAAAATAAAT--GCATAATATCAT
** * * * *
34103248 TTAAATTATGTTAAAAATATTAATAATTAAATCATCAATTATTAGTATTTTAAATAACTTACCAA
1 TTAAATTATAAT-AAAATATTAATATTTAAATCATCAATTATTA--A--TAAAATAAATTACAAA
* * *
34103313 TTATTAATATTTAAAAAATAAAATAAAATAAAAATTAAT-CATAATAAT-AT
61 TTAGTAATATTT-AAAAACAAAATAAAATAAAAATAAATGCATAAT-ATCAT
34103363 TTAAATTA-AATAAAATATTAATATTTAAA
1 TTAAATTATAATAAAATATTAATATTTAAA
34103392 NAAAATATTA
Statistics
Matches: 118, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
112 10 0.08
113 45 0.38
114 1 0.01
115 16 0.14
116 2 0.02
117 21 0.18
118 23 0.19
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.38
Consensus pattern (110 bp):
TTAAATTATAATAAAATATTAATATTTAAATCATCAATTATTAATAAAATAAATTACAAATTAGT
AATATTTAAAAACAAAATAAAATAAAAATAAATGCATAATATCAT
Found at i:34103381 original size:18 final size:20
Alignment explanation
Indices: 34103353--34103400 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
34103343 AAAATTAATC
34103353 ATAATAATATTTAA-A-TTAA
1 ATAA-AATATTTAATATTTAA
34103372 ATAAAATA-TTAATATTTAA
1 ATAAAATATTTAATATTTAA
*
34103391 ANAAAATATT
1 ATAAAATATT
34103401 AATGATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.16
18 5 0.20
19 15 0.60
20 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAAATATTTAATATTTAA
Found at i:34103417 original size:26 final size:26
Alignment explanation
Indices: 34103388--34103437 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
34103378 TATTAATATT
*
34103388 TAAANAAAATATTAATGA-TTAAATCA
1 TAAATAAAATATTAAT-ATTTAAATCA
34103414 TAAATAAAATATTAATATTTAAAT
1 TAAATAAAATATTAATATTTAAAT
34103438 GATCTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
TAAATAAAATATTAATATTTAAATCA
Found at i:34103473 original size:27 final size:27
Alignment explanation
Indices: 34103433--34103490 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
34103423 TATTAATATT
* * *
34103433 TAAATGATCTATTATTAATATTTTAAA
1 TAAATAATCAATTATTAATATTTAAAA
34103460 TAAATAATCAATTATTAATATTTAAAA
1 TAAATAATCAATTATTAATATTTAAAA
34103487 TAAA
1 TAAA
34103491 ATAAGCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (27 bp):
TAAATAATCAATTATTAATATTTAAAA
Found at i:34103598 original size:152 final size:154
Alignment explanation
Indices: 34103261--34103616 Score: 470
Period size: 152 Copynumber: 2.3 Consensus size: 154
34103251 AATTATGTTA
* * * *
34103261 AAAATATTAATAATTAAATCATCA-ATTATTAGTATTTTAAATAACTTACCAATTATTAATATTT
1 AAAATATTAATATTTAAATCAT-ATATTATTAATATTTTAAATAAATAACCAATTATTAATATTT
34103325 AAAAAATAAAATAAAATAAAAATTAATCATAATAATATTTAAATTAAATAAAATATTAATATTTA
65 -AAAAATAAAATAAAATAAAAATTAATCATAATAATATTTAAATTAAATAAAATATTAATATTT-
34103390 AANAAAATATTAATGATTAAATCATAAAT
128 -A-AAAATATTAATGATTAAATCATAAAT
* * *
34103419 AAAATATTAATATTTAAATGATCTATTATTAATATTTTAAATAAATAATCAATTATTAATATTT-
1 AAAATATTAATATTTAAATCATATATTATTAATATTTTAAATAAATAACCAATTATTAATATTTA
** * *
34103483 AAAATAAAATAAGCT-AAAATTATGGTCATAATAATA-TTAAATTAAATAAATTATTAATATTT-
66 AAAATAAAATAAAATAAAAATTA--ATCATAATAATATTTAAATTAAATAAAATATTAATATTTA
* *
34103545 TAAATATTAATGATTAAATTATAAAT
129 AAAATATTAATGATTAAATCATAAAT
* *
34103571 AAAATATTAATATTTAAATTATATATTATTAATATTTAAAAATAAA
1 AAAATATTAATATTTAAATCATATATTATTAATATTT-TAAATAAA
34103617 ATAGTTGATG
Statistics
Matches: 178, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
152 59 0.33
153 7 0.04
155 7 0.04
156 38 0.21
157 11 0.06
158 56 0.31
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (154 bp):
AAAATATTAATATTTAAATCATATATTATTAATATTTTAAATAAATAACCAATTATTAATATTTA
AAAATAAAATAAAATAAAAATTAATCATAATAATATTTAAATTAAATAAAATATTAATATTTAAA
AATATTAATGATTAAATCATAAAT
Found at i:34103634 original size:120 final size:122
Alignment explanation
Indices: 34103460--34103782 Score: 426
Period size: 120 Copynumber: 2.6 Consensus size: 122
34103450 ATATTTTAAA
* * *
34103460 TAAATAATCAATTATTAATA-TTTAAAATAAAATAAGCTAAAATT-ATGGTCATAATAATATTAA
1 TAAATTATCAATTATTAATATTTTAAAA-ATAA-AA--T-AAATTAATGGTAATAAT-AT-TTAA
* *
34103523 ATTAAATAAATTATTAATA-TTTT-AAATATTAATGATTAAATTATAAATAAAATATTAATATT
59 ATTAAATAAAATATTAATATTTTTAAAATATTAAGGATTAAATTATAAATAAAATATTAATATT
* *
34103585 TAAATTAT-ATATTATTAATA-TTTAAAAATAAAAT-AGTTGATGGTAATAATATTTAAATTAAA
1 TAAATTATCA-ATTATTAATATTTTAAAAATAAAATAAATTAATGGTAATAATATTTAAATTAAA
*
34103647 TAAAGTATTAATATTTTTAAAATATTAAGGATTAAATTATAAATAAAATATTAATATT
65 TAAAATATTAATATTTTTAAAATATTAAGGATTAAATTATAAATAAAATATTAATATT
**
34103705 TAAATTATCAATTATTAATATTTTAAAAATAAAATAAAATTAATCATAATAATATTTAAATTAAA
1 TAAATTATCAATTATTAATATTTTAAAAATAAAAT-AAATTAATGGTAATAATATTTAAATTAAA
34103770 TAAAATATTAATA
65 TAAAATATTAATA
34103783 ATTGAATTAT
Statistics
Matches: 179, Mismatches: 11, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
118 22 0.12
119 9 0.05
120 66 0.37
121 16 0.09
123 38 0.21
124 4 0.02
125 24 0.13
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (122 bp):
TAAATTATCAATTATTAATATTTTAAAAATAAAATAAATTAATGGTAATAATATTTAAATTAAAT
AAAATATTAATATTTTTAAAATATTAAGGATTAAATTATAAATAAAATATTAATATT
Found at i:34103707 original size:26 final size:26
Alignment explanation
Indices: 34103664--34103817 Score: 111
Period size: 26 Copynumber: 5.8 Consensus size: 26
34103654 TTAATATTTT
*
34103664 TAAAATATTAAGGA-TTAAATTATAAA
1 TAAAATATTAA-TATTTAAATTATAAA
34103690 TAAAATATTAATATTTAAATTATCAATTA
1 TAAAATATTAATATTTAAATTAT-AA--A
* * ** *
34103719 TTAATATTTTAA-AAATAAAATA-AAA
1 -TAAAATATTAATATTTAAATTATAAA
* *
34103744 TTAATCATAATAATATTTAAA-T-TAAA
1 -TAA-AATATTAATATTTAAATTATAAA
* *
34103770 TAAAATATTAATAATTGAATTATAAA
1 TAAAATATTAATATTTAAATTATAAA
*
34103796 TAAAATATTAATATTTTAATTA
1 TAAAATATTAATATTTAAATTA
34103818 AATTCTAGAT
Statistics
Matches: 101, Mismatches: 17, Indels: 20
0.73 0.12 0.14
Matches are distributed among these distances:
24 12 0.12
25 10 0.10
26 53 0.52
27 9 0.09
29 8 0.08
30 9 0.09
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (26 bp):
TAAAATATTAATATTTAAATTATAAA
Found at i:34103722 original size:41 final size:40
Alignment explanation
Indices: 34103513--34103794 Score: 159
Period size: 41 Copynumber: 7.1 Consensus size: 40
34103503 TATGGTCATA
*
34103513 ATAA-TATTAAA-T-TAAATAAATTATTAATATTTTAAA-T
1 ATAATTATTAAATTATAAATAAAATATTAATA-TTTAAATT
*
34103550 ATTAATGATTAAATTATAAATAAAATATTAATATTTAAATT
1 A-TAATTATTAAATTATAAATAAAATATTAATATTTAAATT
* * ** *
34103591 ATATATTATTAATATTTAAAAATAAAATAGTTGAT-GGT-AATA
1 ATA-ATTATTAA-A-TTATAAATAAAATA-TTAATATTTAAATT
* *
34103633 AT-A-T-TTAAA-T-TAAATAAAGTATTAATATTTTTAAAAT
1 ATAATTATTAAATTATAAATAAAATATTAATA--TTTAAATT
**
34103670 ATTAAGGATTAAATTATAAATAAAATATTAATATTTAAATT
1 A-TAATTATTAAATTATAAATAAAATATTAATATTTAAATT
* *
34103711 ATCAATTATTAATATTTTAAAAATAAAATA--AA-A-TT-AATC
1 AT-AATTATTAA-A--TTATAAATAAAATATTAATATTTAAATT
* *
34103750 ATAATAATATTTAAA-T-TAAATAAAATATTAATAATTGAATT
1 ATAAT--TA-TTAAATTATAAATAAAATATTAATATTTAAATT
34103791 ATAA
1 ATAA
34103795 ATAAAATATT
Statistics
Matches: 190, Mismatches: 24, Indels: 58
0.70 0.09 0.21
Matches are distributed among these distances:
33 4 0.02
34 9 0.05
35 1 0.01
36 11 0.06
37 6 0.03
38 13 0.07
39 14 0.07
40 18 0.09
41 57 0.30
42 10 0.05
43 30 0.16
44 17 0.09
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (40 bp):
ATAATTATTAAATTATAAATAAAATATTAATATTTAAATT
Found at i:34104350 original size:22 final size:22
Alignment explanation
Indices: 34104307--34104348 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
34104297 TTATAATTAA
* *
34104307 AATTTTTATTTACAAATTAAAT
1 AATTCTTATTTACAAATAAAAT
34104329 AATTCTTATTTAC-AATAAAA
1 AATTCTTATTTACAAATAAAA
34104349 ATTAAATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTCTTATTTACAAATAAAAT
Found at i:34108351 original size:43 final size:43
Alignment explanation
Indices: 34108261--34108369 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 43
34108251 GTACTCGACT
* * ** **
34108261 ATGTGCGAGT-AGAGAGTGCGCATAAGTCGATGATGATCTGGTT
1 ATGTGCGAGTAAG-GAGTGCGCATAAATCGATGATGACCCAGCC
*
34108304 ATGTGTGAGTAAGGAGTGCGCATAAATCGATGATGACCCAGCC
1 ATGTGCGAGTAAGGAGTGCGCATAAATCGATGATGACCCAGCC
*
34108347 ATGTGCGAGTAGGGAGTGCGCAT
1 ATGTGCGAGTAAGGAGTGCGCAT
34108370 GAGCTGGTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 54 0.96
44 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.24
Consensus pattern (43 bp):
ATGTGCGAGTAAGGAGTGCGCATAAATCGATGATGACCCAGCC
Found at i:34110478 original size:146 final size:145
Alignment explanation
Indices: 34110307--34110597 Score: 564
Period size: 146 Copynumber: 2.0 Consensus size: 145
34110297 TTTCTTTTAC
*
34110307 ATAATATTTTATTAATTTATAATTTATACCATTAGATATTTAATGTTTAATTTTTAAATTATTTA
1 ATAATATTTTATTAATCTATAATTTATACCATTAGATATTTAATGTTTAATTTTTAAATTATTTA
34110372 TTGTTTTGGATTTTCCTTATTAATAGTTTTTATTATTTGTCTATTTATTTAATGTCATGGATGTT
66 TTGTTTTGGATTTTCCTTATTAATAGTTTTTATTATTTGTCTATTTATTTAATGTCATGGATGTT
34110437 AACATTTCACAAATT
131 AACATTTCACAAATT
34110452 NATAATATTTTATTAATCTATAATTTATACCATTAGATATTTAATGTTTAATTTTTAAATTATTT
1 -ATAATATTTTATTAATCTATAATTTATACCATTAGATATTTAATGTTTAATTTTTAAATTATTT
34110517 ATTGTTTTGGATTTTCCTTATTAATAGTTTTTATTATTTGTCTATTTATTTAATGTCATGGATGT
65 ATTGTTTTGGATTTTCCTTATTAATAGTTTTTATTATTTGTCTATTTATTTAATGTCATGGATGT
34110582 TAACATTTCACAAATT
130 TAACATTTCACAAATT
34110598 TATTATATAT
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 144 1.00
ACGTcount: A:0.31, C:0.07, G:0.08, T:0.55
Consensus pattern (145 bp):
ATAATATTTTATTAATCTATAATTTATACCATTAGATATTTAATGTTTAATTTTTAAATTATTTA
TTGTTTTGGATTTTCCTTATTAATAGTTTTTATTATTTGTCTATTTATTTAATGTCATGGATGTT
AACATTTCACAAATT
Found at i:34110942 original size:14 final size:14
Alignment explanation
Indices: 34110923--34110955 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34110913 ATGAGAATTC
34110923 TATTTATTTCA-TTT
1 TATTTATTT-ATTTT
34110937 TATTTATTTATTTT
1 TATTTATTTATTTT
34110951 TATTT
1 TATTT
34110956 TTCAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 1 0.06
14 17 0.94
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTTATTTATTTT
Found at i:34112527 original size:1 final size:1
Alignment explanation
Indices: 34112521--34112601 Score: 54
Period size: 1 Copynumber: 81.0 Consensus size: 1
34112511 TTACCAAAGC
** * * * * * * * * *
34112521 TTTTTTTTTTTTGGTTTTGTTTTTTTTTTGTTTTTTGTTTTTGTTGTTGTTGTTTGTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
34112586 TTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTT
34112602 AAATGAGACT
Statistics
Matches: 58, Mismatches: 22, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (1 bp):
T
Found at i:34112538 original size:7 final size:6
Alignment explanation
Indices: 34112522--34112599 Score: 88
Period size: 6 Copynumber: 12.8 Consensus size: 6
34112512 TACCAAAGCT
* * *
34112522 TTTTTT TTTTTG GTTTTG TTTTT- TTTTTG TTTTTTG TTTTTG TTGTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG -TTTTTG TTTTTG TTTTTG
34112570 TTGTTTG TTTTTTG TTTTT- TTTTTG TTTTT
1 TT-TTTG -TTTTTG TTTTTG TTTTTG TTTTT
34112600 TTAAATGAGA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
5 10 0.16
6 37 0.60
7 13 0.21
8 2 0.03
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:34112574 original size:33 final size:30
Alignment explanation
Indices: 34112521--34112593 Score: 101
Period size: 33 Copynumber: 2.3 Consensus size: 30
34112511 TTACCAAAGC
*
34112521 TTTTTTTTTTTTGGTTTTGTTTTTTTTTTG
1 TTTTTTTTTTTTGGTTTTGTTTGTTTTTTG
*
34112551 TTTTTTGTTTTTGTTGTTGTTGTTTGTTTTTTG
1 TTTTTT-TTTTT-TGGTT-TTGTTTGTTTTTTG
34112584 TTTTTTTTTT
1 TTTTTTTTTT
34112594 GTTTTTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 6 0.16
31 5 0.13
32 8 0.21
33 19 0.50
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (30 bp):
TTTTTTTTTTTTGGTTTTGTTTGTTTTTTG
Found at i:34112600 original size:7 final size:7
Alignment explanation
Indices: 34112521--34112593 Score: 64
Period size: 7 Copynumber: 10.6 Consensus size: 7
34112511 TTACCAAAGC
34112521 TTTTTT-
1 TTTTTTG
34112527 TTTTTTGG
1 TTTTTT-G
*
34112535 TTTTGTTTT
1 -TTT-TTTG
34112544 TTTTTTG
1 TTTTTTG
34112551 TTTTTTG
1 TTTTTTG
34112558 -TTTTTG
1 TTTTTTG
*
34112564 -TTGTTG
1 TTTTTTG
*
34112570 TTGTTTG
1 TTTTTTG
34112577 TTTTTTG
1 TTTTTTG
34112584 TTTTTT-
1 TTTTTTG
34112590 TTTT
1 TTTT
34112594 GTTTTTTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
6 21 0.38
7 26 0.46
8 3 0.05
9 3 0.05
10 3 0.05
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (7 bp):
TTTTTTG
Found at i:34112731 original size:39 final size:39
Alignment explanation
Indices: 34112602--34112819 Score: 291
Period size: 39 Copynumber: 5.7 Consensus size: 39
34112592 TTGTTTTTTT
* * *
34112602 AAATGAGACTCCTCAAAGCTGAGGCAACGAGACTT-TTAA
1 AAATGA-ACTCCTCAAAACTGAGGCAACGAAACTTCTAAA
* * * * *
34112641 AAATGAACTCTTCAAAACTGAAGTAACGAGACTT-TTAA
1 AAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAA
*
34112679 AAATGAACTCCTCAAAACTGAGGCAACAAAACTTCTAAA
1 AAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAA
34112718 AAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAA
1 AAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAA
* *
34112757 AAATGAACTCCTTAAAATTGAGGCAACGAAACTTCT--A
1 AAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAA
*
34112794 AAATAAACTCCTCAAAACTGAGGCAA
1 AAATGAACTCCTCAAAACTGAGGCAA
34112820 TAAGACTTTT
Statistics
Matches: 162, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
37 24 0.15
38 57 0.35
39 81 0.50
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (39 bp):
AAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAA
Found at i:34112805 original size:115 final size:116
Alignment explanation
Indices: 34112602--34112833 Score: 317
Period size: 115 Copynumber: 2.0 Consensus size: 116
34112592 TTGTTTTTTT
* * * *
34112602 AAATGAGACTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCTTCAAAACTGAAGTAA
1 AAATGAGACTCCTCAAAACTGAGGCAACGAAACTTTAAAAAATGAACTCTTCAAAACTGAAGCAA
* * *
34112667 CGAGACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACAAAACTTCTAAA
66 CGAAACTTCTAAAAATAAACTCCTCAAAACTGAGGCAACAAAACTTCTAAA
* *
34112718 AAATGA-ACTCCTCAAAACTGAGGCAACGAAACTTCTAAAAAATGAACTCCTT-AAAATTGAGGC
1 AAATGAGACTCCTCAAAACTGAGGCAACGAAACTT-TAAAAAATGAACT-CTTCAAAACTGAAGC
* * *
34112781 AACGAAACTTCT-AAAATAAACTCCTCAAAACTGAGGCAATAAGACTTTTAAA
64 AACGAAACTTCTAAAAATAAACTCCTCAAAACTGAGGCAACAAAACTTCTAAA
34112833 A
1 A
34112834 GTCTTGAAAC
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
115 63 0.62
116 36 0.35
117 3 0.03
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (116 bp):
AAATGAGACTCCTCAAAACTGAGGCAACGAAACTTTAAAAAATGAACTCTTCAAAACTGAAGCAA
CGAAACTTCTAAAAATAAACTCCTCAAAACTGAGGCAACAAAACTTCTAAA
Found at i:34125055 original size:146 final size:145
Alignment explanation
Indices: 34124791--34125082 Score: 521
Period size: 146 Copynumber: 2.0 Consensus size: 145
34124781 AGCGAAAGCC
* * * *
34124791 TTTTATTAAAGATGTTTCTCGAGCCCTCCCATCATATTGGTGGGACCCGAGAACATCTTTTCACC
1 TTTTATTAAAAATATTTCTCGAGCCCTCCCATCATACTGGTGGGACCCGAAAACATCTTTTCACC
34124856 TATGAAACTTTTCGAGAAATACCCGCCTTGGCAAAATTCTTGGAAGATCCCATCATTGGGGCTTA
66 TATGAAACTTTTCGAGAAATACCCGCCTTGGCAAAATTCTTGGAAGATCCCATCATTGGGGCTTA
34124921 ACCCGTAAACAAAAA
131 ACCCGTAAACAAAAA
34124936 NTTTTATTAAAAATATTTCTCGAGCCCTCCCATCATACTGGTGGGACCCGAAAACATCTTTTCAC
1 -TTTTATTAAAAATATTTCTCGAGCCCTCCCATCATACTGGTGGGACCCGAAAACATCTTTTCAC
*
34125001 CTATGAAACTTTTCGAGAAATACCCGTCTTGGCAAAATTCTTGGAAGATCCCATCATTGGGGCTT
65 CTATGAAACTTTTCGAGAAATACCCGCCTTGGCAAAATTCTTGGAAGATCCCATCATTGGGGCTT
*
34125066 AACTCGTAAACAAAAA
130 AACCCGTAAACAAAAA
34125082 T
1 T
34125083 ACTTATATGC
Statistics
Matches: 140, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
145 1 0.01
146 139 0.99
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (145 bp):
TTTTATTAAAAATATTTCTCGAGCCCTCCCATCATACTGGTGGGACCCGAAAACATCTTTTCACC
TATGAAACTTTTCGAGAAATACCCGCCTTGGCAAAATTCTTGGAAGATCCCATCATTGGGGCTTA
ACCCGTAAACAAAAA
Found at i:34125978 original size:4 final size:4
Alignment explanation
Indices: 34125959--34125996 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
34125949 ATGAGAATTC
34125959 TATT TATTT TATTT TATT TATT TA-T TATT TATT TATT T
1 TATT TA-TT TA-TT TATT TATT TATT TATT TATT TATT T
34125997 TTCAAAATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.09
4 20 0.62
5 9 0.28
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:34128125 original size:380 final size:380
Alignment explanation
Indices: 34127422--34128182 Score: 1409
Period size: 380 Copynumber: 2.0 Consensus size: 380
34127412 AAGATACATG
* *
34127422 TTGTAGACAATTTATATACACTTGTTTAGTATGCCAGTATAAGGTGACAATGTTTAATATTATTT
1 TTGTAGACAATGTATATAAACTTGTTTAGTATGCCAGTATAAGGTGACAATGTTTAATATTATTT
* *
34127487 TGATCCTAAGTTATGAAATGTGACTTAACAGTTTATGATAGAATGATGAACATGATAGATTAATA
66 TGATCCTAAGTTATGAAATGTGACTTAACAGTTTATGATAGAATGATAAACATGATAAATTAATA
34127552 GGCTTGTTTGGGCTTAGTGGACTACGTCCATTAGACCCATGCACAGGTTATGGCCCAGAATTTAG
131 GGCTTGTTTGGGCTTAGTGGACTACGTCCATTAGACCCATGCACAGGTTATGGCCCAGAATTTAG
34127617 ATCGTGACACTTACGTATTAAAATTTCCCTTTAATTGATATTTTAGTATTTAACCTTCTGTTTTC
196 ATCGTGACACTTACGTATTAAAATTTCCCTTTAATTGATATTTTAGTATTTAACCTTCTGTTTTC
34127682 ATTTTTTATTTTTATTAAAAAAGGTTAAAAATTTAAGTCTCATATTTTCAATGAGCTAGCTGATA
261 ATTTTTTATTTTTATTAAAAAAGGTTAAAAATTTAAGTCTCATATTTTCAATGAGCTAGCTGATA
*
34127747 AGAAAAACACCAATTAATGCACGCAATGGACTAGAGACCTAACACCTTATCCACA
326 AGAAAAACACCAATTAATGCACACAATGGACTAGAGACCTAACACCTTATCCACA
*
34127802 TNTGTAGACAATGTATATAAACTTGTTTGGTATGCCAGTATAAGGTGACAATGTTTAATATTATT
1 T-TGTAGACAATGTATATAAACTTGTTTAGTATGCCAGTATAAGGTGACAATGTTTAATATTATT
34127867 TTGATCCTAAGTTATGAAATGTGACTTAACAGTTTATGATAGAATGATAAACATG-TCAAATTAA
65 TTGATCCTAAGTTATGAAATGTGACTTAACAGTTTATGATAGAATGATAAACATGAT-AAATTAA
34127931 TAGGCTTGTTT-GGCTTAGTGGACTACGTCCATTAGACCCATGCACAGGTTATGGCCCAGAATTT
129 TAGGCTTGTTTGGGCTTAGTGGACTACGTCCATTAGACCCATGCACAGGTTATGGCCCAGAATTT
34127995 AGATCGTGACACTTACGTATTAAAATTTCCCTTTAATTGATATTTTAGTATTTAACCTTCTGTTT
194 AGATCGTGACACTTACGTATTAAAATTTCCCTTTAATTGATATTTTAGTATTTAACCTTCTGTTT
** *
34128060 TTGTTTTTTATTTTTATTAAAAAAGGTTAAAATTTTAAGTCTCATATTTTCAATGAGCTAGCTGA
259 TCATTTTTTATTTTTATTAAAAAAGGTTAAAAATTTAAGTCTCATATTTTCAATGAGCTAGCTGA
34128125 TAAGAAAAACACCAATTAATGCACACAATGGACTAGAGACCTAACACCTTATCCACA
324 TAAGAAAAACACCAATTAATGCACACAATGGACTAGAGACCTAACACCTTATCCACA
34128182 T
1 T
34128183 CTTAAATATC
Statistics
Matches: 370, Mismatches: 9, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
380 239 0.65
381 131 0.35
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (380 bp):
TTGTAGACAATGTATATAAACTTGTTTAGTATGCCAGTATAAGGTGACAATGTTTAATATTATTT
TGATCCTAAGTTATGAAATGTGACTTAACAGTTTATGATAGAATGATAAACATGATAAATTAATA
GGCTTGTTTGGGCTTAGTGGACTACGTCCATTAGACCCATGCACAGGTTATGGCCCAGAATTTAG
ATCGTGACACTTACGTATTAAAATTTCCCTTTAATTGATATTTTAGTATTTAACCTTCTGTTTTC
ATTTTTTATTTTTATTAAAAAAGGTTAAAAATTTAAGTCTCATATTTTCAATGAGCTAGCTGATA
AGAAAAACACCAATTAATGCACACAATGGACTAGAGACCTAACACCTTATCCACA
Found at i:34129761 original size:10 final size:10
Alignment explanation
Indices: 34129746--34129775 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
34129736 GAAGGGATAG
34129746 AAATGGAGAA
1 AAATGGAGAA
34129756 AAATGGAGAA
1 AAATGGAGAA
*
34129766 AAATGTAGAA
1 AAATGGAGAA
34129776 GAATATACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (10 bp):
AAATGGAGAA
Found at i:34174220 original size:188 final size:190
Alignment explanation
Indices: 34173983--34174352 Score: 645
Period size: 188 Copynumber: 2.0 Consensus size: 190
34173973 TTTTTAAGTA
* *
34173983 TTTTTTATTAAAATAAATAAAAGTAAAAAAAAACCCTTCAAATGTCAAAAACAACTTATTTTTGA
1 TTTTATATTAAAATAAATAAAAGTAAAAAAAAACCCTTCAAATGTCAAAAACAACTTATTTTTAA
* *
34174048 CATAAGGTGTAAAAAAAATTAATTTAATAGAAAACGAAAGGTCAAAAAAAATAAAAAAGAGTTCT
66 CATAAGGTGTAAAAAAAATTAATTCAATAGAAAACGAAAGGTCAAAAAAAATAAAAAAGAGTTAT
*
34174113 AATTGAATGACACTTGTCATTCAATTGAA-A-AAAATTGAAAGAAATTGAAACATCCTAC
131 AATTGAATGACACTTGTCATTCAATTGAAGACAAAATTGAAAAAAATTGAAACATCCTAC
* *
34174171 TTTTATATTAAAATAAATAAAAGTAAAAAAAAACCCTTTAAATGTCAAAAATAACTTATTTTTAA
1 TTTTATATTAAAATAAATAAAAGTAAAAAAAAACCCTTCAAATGTCAAAAACAACTTATTTTTAA
34174236 CATAAGGTGTAAAAAAAATTAATTCAATAGAAAACGAAAGGTCAAAAAAAATAAAAAAGAGTTAT
66 CATAAGGTGTAAAAAAAATTAATTCAATAGAAAACGAAAGGTCAAAAAAAATAAAAAAGAGTTAT
**
34174301 AATTGAATGACACTTGTCATTCAATTGAAGACTCAATTGAAAAAAATTGAAA
131 AATTGAATGACACTTGTCATTCAATTGAAGACAAAATTGAAAAAAATTGAAA
34174353 GAAATTGAAG
Statistics
Matches: 171, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
188 153 0.89
189 1 0.01
190 17 0.10
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (190 bp):
TTTTATATTAAAATAAATAAAAGTAAAAAAAAACCCTTCAAATGTCAAAAACAACTTATTTTTAA
CATAAGGTGTAAAAAAAATTAATTCAATAGAAAACGAAAGGTCAAAAAAAATAAAAAAGAGTTAT
AATTGAATGACACTTGTCATTCAATTGAAGACAAAATTGAAAAAAATTGAAACATCCTAC
Found at i:34187379 original size:21 final size:20
Alignment explanation
Indices: 34187356--34187414 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
34187346 AAAAGTATCA
34187356 AAAAATTTGTCAAAAAAGTT
1 AAAAATTTGTCAAAAAAGTT
* *
34187376 AAAAATTTATTGAAAAAAGATT
1 AAAAATTT-GTCAAAAAAG-TT
* *
34187398 CAAAATCTGTCAAAAAA
1 AAAAATTTGTCAAAAAA
34187415 AGCACTCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 8 0.26
21 15 0.48
22 8 0.26
ACGTcount: A:0.58, C:0.07, G:0.08, T:0.27
Consensus pattern (20 bp):
AAAAATTTGTCAAAAAAGTT
Found at i:34189335 original size:16 final size:15
Alignment explanation
Indices: 34189309--34189349 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
34189299 CTATCTATCT
34189309 ATATATATATTTTTTA
1 ATAT-TATATTTTTTA
*
34189325 TTTATTATATTTTTTA
1 -ATATTATATTTTTTA
34189341 ATATTATAT
1 ATATTATAT
34189350 ATATAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 8 0.36
16 11 0.50
17 3 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATTATATTTTTTA
Found at i:34189345 original size:15 final size:16
Alignment explanation
Indices: 34189308--34189349 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
34189298 TCTATCTATC
34189308 TATATA-TATATTTTT
1 TATATATTATATTTTT
*
34189323 TATTTATTATATTTTT
1 TATATATTATATTTTT
34189339 TA-ATATTATAT
1 TATATATTATAT
34189350 ATATAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATATATTATATTTTT
Found at i:34189570 original size:2 final size:2
Alignment explanation
Indices: 34189563--34189601 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
34189553 ACATACATAC
*
34189563 AT AT AT AT AG AT AT AT AT AT AT AT A- AT AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34189602 ATAATTTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:34189602 original size:14 final size:15
Alignment explanation
Indices: 34189563--34189604 Score: 68
Period size: 14 Copynumber: 2.8 Consensus size: 15
34189553 ACATACATAC
34189563 ATATATATAGATATAT
1 ATATATATA-ATATAT
34189579 ATATATATAATATA-
1 ATATATATAATATAT
34189593 ATATATATAATA
1 ATATATATAATA
34189605 ATTTAAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 12 0.46
15 5 0.19
16 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
ATATATATAATATAT
Found at i:34189605 original size:12 final size:11
Alignment explanation
Indices: 34189563--34189606 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
34189553 ACATACATAC
34189563 ATATATATAGAT
1 ATATATATA-AT
34189575 ATATATAT-AT
1 ATATATATAAT
34189585 ATA-ATATAAT
1 ATATATATAAT
34189595 ATATATAATAAT
1 ATATAT-ATAAT
34189607 TTAAGTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.14
10 10 0.34
11 2 0.07
12 13 0.45
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (11 bp):
ATATATATAAT
Found at i:34193235 original size:17 final size:17
Alignment explanation
Indices: 34193213--34193247 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34193203 TTATAAATCT
34193213 TTCTCAAAATTGGAGCC
1 TTCTCAAAATTGGAGCC
* *
34193230 TTCTCAAATTTGGGGCC
1 TTCTCAAAATTGGAGCC
34193247 T
1 T
34193248 AAAGCCCTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (17 bp):
TTCTCAAAATTGGAGCC
Found at i:34196021 original size:4 final size:4
Alignment explanation
Indices: 34196000--34196068 Score: 52
Period size: 4 Copynumber: 17.2 Consensus size: 4
34195990 ACCTATTTAG
* * * *
34196000 TTAA TTTAA TTAA CTAA TTAA TTAG TTAA CTAT TTAA TTTAA TTAA TT--
1 TTAA -TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA -TTAA TTAA TTAA
* *
34196048 TTAA ATAA TTAA TCAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA T
34196069 ATTAATCACA
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
2 2 0.04
4 39 0.80
5 8 0.16
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (4 bp):
TTAA
Found at i:34209457 original size:253 final size:250
Alignment explanation
Indices: 34208888--34209942 Score: 1175
Period size: 253 Copynumber: 4.2 Consensus size: 250
34208878 AAGTATTTTA
* * *
34208888 TAATTTATAAATGAATAATAGTAAGGATTAAAAAATTATAATGAAAATTACTAGTTAAAAACTTT
1 TAATTTATAAATGAATAATAGTAAGGATAAAAAAATTATAATGAAAATTAGTAGTTAAAAA-TCT
** ** * ** * * *
34208953 TGATGTAAGCCTGA-ACGAATTAATGTAAAAAATTATAAAGGTAGATCAAATATTATCAAAATAT
65 TGACATAAAACT-ATAAGAATTAACATAAAAAATTATAAAAGTAGAACAAACATTATCAAAATAT
** ** * * *
34209017 TAATGTAAATGTATGAGATTTAAAATAACAAGTCAATTATATCAAATAAACATAATTTTTAAAAA
129 TAACATAAACATATGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTTAAAA
* * * * * *
34209082 AATTAAATATTTAAATTTATATTTTCAAATTTAAAGTATTTAATGGTTTACAAATTT
194 AATTAAACATTTAAATTTATATTTTCGAGTTTAAAATATTTAATGATTTATAAATTT
* * * **
34209139 TAATTTATAAATGAATAACAGTATGGATAAAAATAATCATTTTGAAAATTAGTAGTTAAAAAATC
1 TAATTTATAAATGAATAATAGTAAGGATAAAAA-AATTATAATGAAAATTAGTAGTT-AAAAATC
** * ** * * * *
34209204 TTGATGTAAACCTATAAGAATTAACATAAAAAATTATAATGGTGGAGCAAGCATTGTCAAAATAT
64 TTGACATAAAACTATAAGAATTAACATAAAAAATTATAAAAGTAGAACAAACATTATCAAAATAT
* * * *
34209269 TAACATAAATATATGAGATTTAACGTAACAAGTAAATTATGTCAAATAAATATAATTTTTTTAAA
129 TAACATAAACATATGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAA-TTTTTTAAA
* * *
34209334 AAATCAAACATTTAAATTTATATTTTCTAGTTTAAAATATTTAACGATTTATAAATTT
193 AAATTAAACATTTAAATTTATATTTTCGAGTTTAAAATATTTAATGATTTATAAATTT
* ** *
34209392 TAATTTATAAATGAAGAATAGTAAGGATAAAAAAATTTATGGTGAAAATTAATAGTTGAAAAATC
1 TAATTTATAAATGAATAATAGTAAGGATAAAAAAA-TTATAATGAAAATTAGTAGTT-AAAAATC
* * * * * *
34209457 TCGACATAAAACTGTAAGGATTGACATAAAAAATTATAAAAGTAGAACAAATATTATTAAAATAT
64 TTGACATAAAACTATAAGAATTAACATAAAAAATTATAAAAGTAGAACAAACATTATCAAAATAT
* * * * * *
34209522 TGACGTAAACATGTGAGATTGAACATAACAAGTCAATTAAGTCAAAATAAACATAATTTTTTAGA
129 TAACATAAACATATGAGATTTAACATAACAAGTCAATTATGTC-AAATAAACATAATTTTTTAAA
* * * *
34209587 AAATTAAACATTTAAATTTATGTTCTT-GAGTTTAAAGTATTTAATGGTTTATAAATAT
193 AAATTAAACATTTAAATTTATATT-TTCGAGTTTAAAATATTTAATGATTTATAAATTT
** *
34209645 TAATTTATAAATGAATAATAAAAAGGATAAAAAAATTATAATGAAAATTAGTAGTTAAAAAACTT
1 TAATTTATAAATGAATAATAGTAAGGATAAAAAAATTATAATGAAAATTAGTAGTTAAAAATC-T
* * * * *
34209710 TGACATAAAATTATAATG-ATTAACATAAAAACCTTATAACAGTAGAACAAGCATTTTCAAAATA
65 TGACATAAAACTATAA-GAATTAACATAAAAA-ATTATAAAAGTAGAACAAACATTATCAAAATA
* * * * * *
34209774 TTAACATAAACATGTGAGATTTAACGTAACAAGTTAATTATGTCAAATAAATATGATTTTTTGAA
128 TTAACATAAACATATGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTTAAA
* * *
34209839 AAATTAAATATTTGAATTTATATTCTCGAGTTTAAAATATTTAATGA-TTATAAATTT
193 AAATTAAACATTTAAATTTATATTTTCGAGTTTAAAATATTTAATGATTTATAAATTT
** * *
34209896 TAATTTATAAATGAATAATAAAAAAGAT-AAAAAATTATAATTAAAAT
1 TAATTTATAAATGAATAATAGTAAGGATAAAAAAATTATAATGAAAAT
34209943 AATTATTTAT
Statistics
Matches: 682, Mismatches: 111, Indels: 23
0.84 0.14 0.03
Matches are distributed among these distances:
250 18 0.03
251 74 0.11
252 222 0.33
253 355 0.52
254 13 0.02
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (250 bp):
TAATTTATAAATGAATAATAGTAAGGATAAAAAAATTATAATGAAAATTAGTAGTTAAAAATCTT
GACATAAAACTATAAGAATTAACATAAAAAATTATAAAAGTAGAACAAACATTATCAAAATATTA
ACATAAACATATGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTTAAAAAA
TTAAACATTTAAATTTATATTTTCGAGTTTAAAATATTTAATGATTTATAAATTT
Found at i:34209956 original size:16 final size:16
Alignment explanation
Indices: 34209923--34209983 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
34209913 ATAAAAAAGA
*
34209923 TAAAA-AATTA-TAAT
1 TAAAATAATTATTTAT
34209937 TAAAATAATTATTTAT
1 TAAAATAATTATTTAT
*
34209953 TAAACTAAATT-TTTAT
1 TAAAAT-AATTATTTAT
* *
34209969 TACAATATTTATTTA
1 TAAAATAATTATTTA
34209984 AAAATTTCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 5 0.13
15 8 0.21
16 21 0.55
17 4 0.11
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATAATTATTTAT
Found at i:34210236 original size:206 final size:201
Alignment explanation
Indices: 34209858--34210418 Score: 763
Period size: 206 Copynumber: 2.8 Consensus size: 201
34209848 ATTTGAATTT
* *
34209858 ATATTCTCGAGTTTAAAATATTTAATGATTATAAATTTTAATTTATAAATGAATAATAAAAAAGA
1 ATATTCTCGAGTTTAAAGTATTTAATGTTTATAAATTTTAATTTATAAATGAATAAT-AAAAAGA
* *
34209923 T-AAAA-AATTATAATTAAAATAATTATTTATTAAACTAAATTTTTATTACAATATTTATTTAAA
65 TAAAAATAATTATAGTT-AAATAATTATTTATTAAACTAAATTTTTATTATAATATTTATTTAAA
34209986 AATTTCTTAATGGTTAATATTTTTTACTCGAAAATATAAATGTAAATGATCAATTTTAATAAAAA
129 AATTTCTTAATGGTTAATATTTTTTACTCGAAAATATAAATGTAAATGATCAATTTTAATAAAAA
34210051 TTCTATTA
194 TTCTATTA
* * * * * *
34210059 ATATTCTCAATTTTAAAGTTTTTAATGGTTTATAAATTTTGATTTATAAAAGAATAATAATAAGG
1 ATATTCTCGAGTTTAAAGTATTTAAT-GTTTATAAATTTTAATTTATAAATGAATAATAA-AAAG
* * *
34210124 ATAAAAATAATTATAGTTAAATAATTA-TTCTTAAATTAAATTTTTTTTATTATAAATATTTACT
64 ATAAAAATAATTATAGTTAAATAATTATTTATTAAACTAAA---TTTTTATTAT-AATATTTATT
* *
34210188 TAAAAATTTCTCAATGGTTAATATTTTTTACTCGAAAATATAAATGTAAATGATTAATTTTAATA
125 TAAAAATTTCTTAATGGTTAATATTTTTTACTCGAAAATATAAATGTAAATGATCAATTTTAATA
34210253 AAAATTCTATTA
190 AAAATTCTATTA
* * *
34210265 ATGTGCTCGAGTTTAAAGTATTTAATAGTTTACAAATTTTAATTTATAAATGAATAATAACGAAA
1 ATATTCTCGAGTTTAAAGTATTTAAT-GTTTATAAATTTTAATTTATAAATGAATAATAA--AAA
** *
34210330 -ATAAAAATACCTATAGTAAAAGTAATTATTTATTAAACTAAA-TTTTATTATAATATTTATTTA
63 GATAAAAATAATTATAGTTAAA-TAATTATTTATTAAACTAAATTTTTATTATAATATTTATTTA
* * *
34210393 AAAATTGCTTAATGGGTACTATTTTT
127 AAAATTTCTTAATGGTTAATATTTTT
34210419 ACTTGCGAAT
Statistics
Matches: 313, Mismatches: 36, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
201 24 0.08
202 44 0.14
203 46 0.15
204 18 0.06
205 9 0.03
206 153 0.49
207 8 0.03
208 11 0.04
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.44
Consensus pattern (201 bp):
ATATTCTCGAGTTTAAAGTATTTAATGTTTATAAATTTTAATTTATAAATGAATAATAAAAAGAT
AAAAATAATTATAGTTAAATAATTATTTATTAAACTAAATTTTTATTATAATATTTATTTAAAAA
TTTCTTAATGGTTAATATTTTTTACTCGAAAATATAAATGTAAATGATCAATTTTAATAAAAATT
CTATTA
Found at i:34212898 original size:30 final size:29
Alignment explanation
Indices: 34212859--34212940 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
34212849 AGTCAATCGT
34212859 AAATCATAAAAATTTATTTAATTCAAAATAA
1 AAAT-ATAAAAATTTATTTAATT-AAAATAA
* * * *
34212890 AAATATAAAAACTTATTCAAATATAATAA
1 AAATATAAAAATTTATTTAATTAAAATAA
*
34212919 AAGA-ATCAAAATTTATTTAATT
1 AA-ATATAAAAATTTATTTAATT
34212941 TTTTTAACAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 22 0.52
30 16 0.38
31 4 0.10
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.35
Consensus pattern (29 bp):
AAATATAAAAATTTATTTAATTAAAATAA
Found at i:34237420 original size:12 final size:12
Alignment explanation
Indices: 34237387--34237433 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
34237377 GGCATTGTTG
* *
34237387 GAGGAGGAGGAG
1 GAGGAGGAAGAA
*
34237399 GAGGAAGAAGAA
1 GAGGAGGAAGAA
*
34237411 GTGGAGGAAGAA
1 GAGGAGGAAGAA
34237423 GAGGAGGAAGA
1 GAGGAGGAAGA
34237434 GTCGGAGTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.53, T:0.02
Consensus pattern (12 bp):
GAGGAGGAAGAA
Found at i:34240801 original size:18 final size:18
Alignment explanation
Indices: 34240780--34240814 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34240770 CGTGTTATCT
*
34240780 TGTTTAAATGTATATACG
1 TGTTTAAACGTATATACG
34240798 TGTTTAAACGTATATAC
1 TGTTTAAACGTATATAC
34240815 TTGACACGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (18 bp):
TGTTTAAACGTATATACG
Found at i:34240993 original size:20 final size:20
Alignment explanation
Indices: 34240955--34241000 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
34240945 ATATTAAATT
*
34240955 TTATTATATTTGATGTTATTA
1 TTATTATATTT-ATGTTATAA
34240976 TTATTATTATTT-TGTTATAA
1 TTATTA-TATTTATGTTATAA
34240996 TTATT
1 TTATT
34241001 TTAATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 12 0.52
21 6 0.26
22 5 0.22
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (20 bp):
TTATTATATTTATGTTATAA
Found at i:34249474 original size:23 final size:22
Alignment explanation
Indices: 34249448--34249492 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
34249438 TAAATAAATT
34249448 TAAAAATTAAAAATCTTTAAAAA
1 TAAAAATTAAAAAT-TTTAAAAA
* * *
34249471 TAAATATTCATAATTTTAAAAA
1 TAAAAATTAAAAATTTTAAAAA
34249493 CATTTATCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAAATTAAAAATTTTAAAAA
Found at i:34250258 original size:23 final size:24
Alignment explanation
Indices: 34250234--34250324 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 24
34250224 ATATAATATT
34250234 AAATAATAAATAATATTTTAATTA
1 AAATAATAAATAATATTTTAATTA
* * *
34250258 ATAATTATAAAAAATTAATTTTATTTA
1 A-AATAATAAATAA-T-ATTTTAATTA
* *
34250285 AAATAAAAATATAAAATTTTAATTA
1 AAATAATAA-ATAATATTTTAATTA
34250310 AACATAATAAA-AATA
1 AA-ATAATAAATAATA
34250325 AAAATTATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
24 4 0.08
25 22 0.42
26 13 0.25
27 13 0.25
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATAATAAATAATATTTTAATTA
Found at i:34250333 original size:51 final size:51
Alignment explanation
Indices: 34250234--34250339 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
34250224 ATATAATATT
* * * * **
34250234 AAATAATAAATAATATTTTAATTAATAATTATAAAAAATTAATTTTATTTA
1 AAATAAAAAATAAAATTTTAATTAATAATAATAAAAAATAAAAATTATTTA
34250285 AAATAAAAATATAAAATTTTAATTAA-ACATAAT-AAAAATAAAAATTATTTA
1 AAATAAAAA-ATAAAATTTTAATTAATA-ATAATAAAAAATAAAAATTATTTA
34250336 AAAT
1 AAAT
34250340 CATTTAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
51 28 0.60
52 19 0.40
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (51 bp):
AAATAAAAAATAAAATTTTAATTAATAATAATAAAAAATAAAAATTATTTA
Found at i:34250336 original size:26 final size:25
Alignment explanation
Indices: 34250278--34250339 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
34250268 AAAATTAATT
* *
34250278 TTATTTAAAATAAAAATATAAAATT
1 TTATTTAAAATAAAAAAATAAAATA
*
34250303 TTAATTAAACATAATAAAAATAAAA-A
1 TTATTTAAA-ATAA-AAAAATAAAATA
34250329 TTATTTAAAAT
1 TTATTTAAAAT
34250340 CATTTAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 10 0.32
26 12 0.39
27 9 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
TTATTTAAAATAAAAAAATAAAATA
Found at i:34250689 original size:24 final size:24
Alignment explanation
Indices: 34250657--34250705 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
34250647 GAATCTTCTG
34250657 GGTCCAACCCAAATCGACCAAATT
1 GGTCCAACCCAAATCGACCAAATT
34250681 GGTCCAACCCAAATCGACCAAATT
1 GGTCCAACCCAAATCGACCAAATT
34250705 G
1 G
34250706 CACTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.33, G:0.14, T:0.16
Consensus pattern (24 bp):
GGTCCAACCCAAATCGACCAAATT
Found at i:34255899 original size:58 final size:58
Alignment explanation
Indices: 34255809--34255922 Score: 201
Period size: 58 Copynumber: 2.0 Consensus size: 58
34255799 CAAAAAGGTG
*
34255809 GAGACACAACCTCCAATAACATGAAATAGAAAACTACCACTAACAATAAAATAGGATA
1 GAGACACAACCTCCAACAACATGAAATAGAAAACTACCACTAACAATAAAATAGGATA
* *
34255867 GAGACACAACCTCCAACAACATGAAATGGAAAACTACCACTAACACTAAAATAGGA
1 GAGACACAACCTCCAACAACATGAAATAGAAAACTACCACTAACAATAAAATAGGA
34255923 ATCACAATGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.52, C:0.23, G:0.11, T:0.14
Consensus pattern (58 bp):
GAGACACAACCTCCAACAACATGAAATAGAAAACTACCACTAACAATAAAATAGGATA
Found at i:34260683 original size:58 final size:58
Alignment explanation
Indices: 34260588--34260703 Score: 180
Period size: 58 Copynumber: 2.0 Consensus size: 58
34260578 AAAGTGAAAA
* *
34260588 AGTGGAGACACAACCTCCAATAACATGAAATAGAAAACTACCACTAACAATAAAATAG
1 AGTGGAAACACAACCTCCAACAACATGAAATAGAAAACTACCACTAACAATAAAATAG
* *
34260646 AGTGGAAACACAACCTCCAACAGCATGAAAT-GAAAAACTACCACTAACACTAAAATAG
1 AGTGGAAACACAACCTCCAACAACATGAAATAG-AAAACTACCACTAACAATAAAATAG
34260704 GAACCACAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 1 0.02
58 52 0.98
ACGTcount: A:0.51, C:0.22, G:0.12, T:0.15
Consensus pattern (58 bp):
AGTGGAAACACAACCTCCAACAACATGAAATAGAAAACTACCACTAACAATAAAATAG
Found at i:34274897 original size:25 final size:25
Alignment explanation
Indices: 34274869--34274919 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
34274859 GTTAGTGATT
* *
34274869 TATTTATACTTTTATATAGACATTA
1 TATTTAGACTGTTATATAGACATTA
*
34274894 TATTTAGACTGTTATATAGACGTTA
1 TATTTAGACTGTTATATAGACATTA
34274919 T
1 T
34274920 CAATTACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (25 bp):
TATTTAGACTGTTATATAGACATTA
Found at i:34276295 original size:32 final size:32
Alignment explanation
Indices: 34276259--34276324 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
34276249 TTATAGAAGT
34276259 TGAGTTAATTATGGTAATCTAAACAAAGTAAC
1 TGAGTTAATTATGGTAATCTAAACAAAGTAAC
*
34276291 TGAGTTAATTATGGTAATCTAAATAAAGTAAC
1 TGAGTTAATTATGGTAATCTAAACAAAGTAAC
34276323 TG
1 TG
34276325 CTTATGTGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (32 bp):
TGAGTTAATTATGGTAATCTAAACAAAGTAAC
Found at i:34279379 original size:31 final size:31
Alignment explanation
Indices: 34279351--34279412 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
34279341 CACAAACAAG
34279351 CACAGCAAGAGTGCAAGAGAACAAAAACACA
1 CACAGCAAGAGTGCAAGAGAACAAAAACACA
34279382 CACAGCAAGAGTGCAAGAGAACAAAAACACA
1 CACAGCAAGAGTGCAAGAGAACAAAAACACA
34279413 TGAACCATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.55, C:0.23, G:0.19, T:0.03
Consensus pattern (31 bp):
CACAGCAAGAGTGCAAGAGAACAAAAACACA
Found at i:34293835 original size:2 final size:2
Alignment explanation
Indices: 34293828--34293868 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
34293818 AAGCTGAAGA
*
34293828 AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
34293869 AGGAAAGGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34305871 original size:2 final size:2
Alignment explanation
Indices: 34305864--34305888 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34305854 ATCATTTGTT
34305864 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
34305889 GGTAGGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34326772 original size:25 final size:22
Alignment explanation
Indices: 34326744--34326801 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 22
34326734 AATATAGTAT
34326744 TAAAATTTTAATAAAAAAGTTAACA
1 TAAAATTTT-ATAAAAAA-TTAA-A
34326769 TAAATTATTTT-TAAAAAATTAAA
1 TAAA--ATTTTATAAAAAATTAAA
34326792 T-AAATTTTAT
1 TAAAATTTTAT
34326802 TTTTTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
20 5 0.17
21 1 0.03
22 2 0.07
23 2 0.07
24 4 0.13
25 11 0.37
27 5 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TAAAATTTTATAAAAAATTAAA
Found at i:34326773 original size:24 final size:22
Alignment explanation
Indices: 34326746--34326800 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
34326736 TATAGTATTA
34326746 AAATTTTAATAAAAAAGTTAACAT
1 AAATTTTAATAAAAAA-TTAA-AT
**
34326770 AAATTATTTTTAAAAAATTAAAT
1 AAATT-TTAATAAAAAATTAAAT
34326793 AAATTTTA
1 AAATTTTA
34326801 TTTTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 2 0.07
23 7 0.26
24 9 0.33
25 9 0.33
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTTTAATAAAAAATTAAAT
Found at i:34326849 original size:26 final size:27
Alignment explanation
Indices: 34326786--34326856 Score: 72
Period size: 30 Copynumber: 2.5 Consensus size: 27
34326776 TTTTTAAAAA
34326786 ATTAAATAAA-TTTTATTTTTTATTAT
1 ATTAAATAAATTTTTATTTTTTATTAT
* *
34326812 ATTTAATTAAATTTTTATATTTTTATTTTAA
1 A-TTAAATAAATTTTTAT-TTTTTA--TTAT
*
34326843 ATAAAATAAATTTT
1 ATTAAATAAATTTT
34326857 AATAATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.03
27 8 0.22
28 6 0.17
29 6 0.17
30 11 0.31
31 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
ATTAAATAAATTTTTATTTTTTATTAT
Found at i:34333141 original size:19 final size:19
Alignment explanation
Indices: 34333117--34333183 Score: 125
Period size: 19 Copynumber: 3.5 Consensus size: 19
34333107 AGACGTGAAA
34333117 AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATT
34333136 AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATT
*
34333155 AATAAAATAAAATTTTATT
1 AATAAAATAATATTTTATT
34333174 AATAAAATAA
1 AATAAAATAA
34333184 AAATAAGATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAAAATAATATTTTATT
Found at i:34333196 original size:38 final size:38
Alignment explanation
Indices: 34333117--34333202 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
34333107 AGACGTGAAA
* ** * *
34333117 AATAAAATAATATTTTATTAATAAAATAATATTTTATT
1 AATAAAATAAAATTTTATTAATAAAATAATAAATAAAT
34333155 AATAAAATAAAATTTTATTAATAAAATAA-AAATAAGAT
1 AATAAAATAAAATTTTATTAATAAAATAATAAATAA-AT
34333193 AATAATAATA
1 AATAA-AATA
34333203 TTATAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 3 0.07
38 34 0.83
39 4 0.10
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (38 bp):
AATAAAATAAAATTTTATTAATAAAATAATAAATAAAT
Found at i:34350762 original size:8 final size:8
Alignment explanation
Indices: 34350749--34350934 Score: 156
Period size: 8 Copynumber: 22.5 Consensus size: 8
34350739 GAAAGCTTGT
34350749 ATATATAC
1 ATATATAC
*
34350757 ATATATAT
1 ATATATAC
34350765 ATATATAC
1 ATATATAC
* *
34350773 ACATATAT
1 ATATATAC
* *
34350781 ATATACAT
1 ATATATAC
*
34350789 ATATATAT
1 ATATATAC
34350797 ATATATAC
1 ATATATAC
*
34350805 ATATATAT
1 ATATATAC
34350813 ATATATAC
1 ATATATAC
* *
34350821 ACATATAT
1 ATATATAC
* *
34350829 ATATACAT
1 ATATATAC
*
34350837 ATATATAT
1 ATATATAC
34350845 ATATATAC
1 ATATATAC
34350853 ATATATAC
1 ATATATAC
*
34350861 ATATGTATAT
1 ATA--TATAC
*
34350871 ATGTATAC
1 ATATATAC
*
34350879 ATATGTAC
1 ATATATAC
*
34350887 ATATGTAC
1 ATATATAC
*
34350895 ATATGTAC
1 ATATATAC
34350903 ATATGTATAC
1 ATA--TATAC
*
34350913 ATATGTAC
1 ATATATAC
34350921 ATATGTATAC
1 ATA--TATAC
34350931 ATAT
1 ATAT
34350935 GTATATTGAC
Statistics
Matches: 148, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
8 128 0.86
10 20 0.14
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (8 bp):
ATATATAC
Found at i:34350771 original size:18 final size:18
Alignment explanation
Indices: 34350751--34350940 Score: 177
Period size: 18 Copynumber: 10.6 Consensus size: 18
34350741 AAGCTTGTAT
* *
34350751 ATATACATATATATATAT
1 ATATATATATATATATAC
* *
34350769 ATACACATATATATATAC
1 ATATATATATATATATAC
34350787 ATATATATATATATATAC
1 ATATATATATATATATAC
*
34350805 ATATATATATATATACAC
1 ATATATATATATATATAC
*
34350823 ATATATATATACATATATAT
1 ATATATATAT--ATATATAC
*
34350843 ATATATATACATATATAC
1 ATATATATATATATATAC
* *
34350861 ATATGTATATATGTATAC
1 ATATATATATATATATAC
* * *
34350879 --ATATGTACATATGTAC
1 ATATATATATATATATAC
* * *
34350895 ATATGTACATATGTATAC
1 ATATATATATATATATAC
* * *
34350913 ATATGTACATATGTATAC
1 ATATATATATATATATAC
*
34350931 ATATGTATAT
1 ATATATATAT
34350941 TGACAGATAT
Statistics
Matches: 144, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.08
18 118 0.82
20 15 0.10
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (18 bp):
ATATATATATATATATAC
Found at i:34350784 original size:30 final size:30
Alignment explanation
Indices: 34350748--34350872 Score: 164
Period size: 30 Copynumber: 4.2 Consensus size: 30
34350738 AGAAAGCTTG
34350748 TATATATACATATATATATATATACACATA
1 TATATATACATATATATATATATACACATA
*
34350778 TATATATACATATATATATATATATACATA
1 TATATATACATATATATATATATACACATA
* * * *
34350808 TATATATATATACACATATATATATACATA
1 TATATATACATATATATATATATACACATA
* * *
34350838 TATATAT--ATATATACATATATACATATG
1 TATATATACATATATATATATATACACATA
34350866 TATATAT
1 TATATAT
34350873 GTATACATAT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 22 0.26
30 63 0.74
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.42
Consensus pattern (30 bp):
TATATATACATATATATATATATACACATA
Found at i:34350872 original size:26 final size:26
Alignment explanation
Indices: 34350749--34350934 Score: 183
Period size: 26 Copynumber: 7.2 Consensus size: 26
34350739 GAAAGCTTGT
*
34350749 ATATATACATATATATATATATACAC
1 ATATATACATATATATATATATATAC
* * *
34350775 ATATATATATACATATATATATATAT
1 ATATATACATATATATATATATATAC
* * * * *
34350801 ATACATATATATATATATACACATAT
1 ATATATACATATATATATATATATAC
34350827 ATATATACATATATATATATATATAC
1 ATATATACATATATATATATATATAC
* *
34350853 ATATATACATATGTATATATGTATAC
1 ATATATACATATATATATATATATAC
* * * * * *
34350879 ATATGTACATATGTACATATGTACAT
1 ATATATACATATATATATATATATAC
* * * *
34350905 ATGTATACATATGTACATATGTATAC
1 ATATATACATATATATATATATATAC
34350931 ATAT
1 ATAT
34350935 GTATATTGAC
Statistics
Matches: 136, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 136 1.00
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (26 bp):
ATATATACATATATATATATATATAC
Found at i:34350882 original size:12 final size:12
Alignment explanation
Indices: 34350751--34350871 Score: 143
Period size: 12 Copynumber: 9.9 Consensus size: 12
34350741 AAGCTTGTAT
* *
34350751 ATATACATATAT
1 ATATATATATAC
*
34350763 ATATATATACAC
1 ATATATATATAC
34350775 ATATATATATAC
1 ATATATATATAC
*
34350787 ATATATATATAT
1 ATATATATATAC
* *
34350799 ATATACATATAT
1 ATATATATATAC
*
34350811 ATATATATACAC
1 ATATATATATAC
34350823 ATATATATATAC
1 ATATATATATAC
*
34350835 ATATATATATAT
1 ATATATATATAC
34350847 ATATACATATATAC
1 ATAT--ATATATAC
*
34350861 ATATGTATATA
1 ATATATATATA
34350872 TGTATACATA
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
12 83 0.88
14 11 0.12
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:34350896 original size:34 final size:34
Alignment explanation
Indices: 34350835--34350940 Score: 149
Period size: 34 Copynumber: 3.1 Consensus size: 34
34350825 ATATATATAC
* * * *
34350835 ATATATATATATATATACATATATACATATGTAT
1 ATATGTATACATATGTACATATGTACATATGTAT
*
34350869 ATATGTATACATATGTACATATGTACATATGTAC
1 ATATGTATACATATGTACATATGTACATATGTAT
34350903 ATATGTATACATATGTACATATGTATACATATGTAT
1 ATATGTATACATATGTACATATG--TACATATGTAT
34350939 AT
1 AT
34350941 TGACAGATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
34 52 0.81
36 12 0.19
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (34 bp):
ATATGTATACATATGTACATATGTACATATGTAT
Found at i:34352252 original size:10 final size:10
Alignment explanation
Indices: 34352225--34352265 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
34352215 ATTTAAAATA
34352225 AAAATAT-A-
1 AAAATATAAT
34352233 AAAATATAAT
1 AAAATATAAT
*
34352243 AAAATGTAAT
1 AAAATATAAT
34352253 AAAATAATAAT
1 AAAAT-ATAAT
34352264 AA
1 AA
34352266 TTTATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.25
9 1 0.04
10 14 0.50
11 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAATATAAT
Found at i:34352259 original size:18 final size:18
Alignment explanation
Indices: 34352225--34352262 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
34352215 ATTTAAAATA
34352225 AAAATATAAAAATATAAT
1 AAAATATAAAAATATAAT
*
34352243 AAAATGTAATAAA-ATAAT
1 AAAATATAA-AAATATAAT
34352261 AA
1 AA
34352263 TAATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAATATAAAAATATAAT
Found at i:34356843 original size:51 final size:51
Alignment explanation
Indices: 34356787--34356885 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
34356777 GGGTCTATAG
* * *
34356787 AGGGAAGGCAGTATCCTCTGTATGTTCCTAATGTAATTCAGATATAAGTAT
1 AGGGAAGGCAGTATCCTCAGCATGTTCCAAATGTAATTCAGATATAAGTAT
34356838 AGGGAAGGCAGTATCCTCAGCATGTTCCAAATGTAATTCAGATATAAG
1 AGGGAAGGCAGTATCCTCAGCATGTTCCAAATGTAATTCAGATATAAG
34356886 GTCTGTAAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (51 bp):
AGGGAAGGCAGTATCCTCAGCATGTTCCAAATGTAATTCAGATATAAGTAT
Found at i:34366298 original size:10 final size:10
Alignment explanation
Indices: 34366283--34366307 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34366273 TTATAATATT
34366283 ATTTTTTATA
1 ATTTTTTATA
34366293 ATTTTTTATA
1 ATTTTTTATA
34366303 ATTTT
1 ATTTT
34366308 ACCTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:34369435 original size:24 final size:23
Alignment explanation
Indices: 34369384--34369429 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
34369374 ATGTTCAATC
34369384 AAATTTATATATTATAATTAAAT
1 AAATTTATATATTATAATTAAAT
*
34369407 AAATTTGTATTATTAATAATTAA
1 AAATTTATA-TATT-ATAATTAA
34369430 TTAATTATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 4 0.20
25 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
AAATTTATATATTATAATTAAAT
Found at i:34372886 original size:35 final size:36
Alignment explanation
Indices: 34372847--34372920 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 36
34372837 TAATTTATTA
34372847 TATTGAATATAATTATTATGAT-ATATAGGAAAGTG
1 TATTGAATATAATTATTATGATAATATAGGAAAGTG
34372882 TATTGAATATAATTATTATGATAAATATAGGAAAGTG
1 TATTGAATATAATTATTATGAT-AATATAGGAAAGTG
34372919 TA
1 TA
34372921 AATATAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 22 0.59
37 15 0.41
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (36 bp):
TATTGAATATAATTATTATGATAATATAGGAAAGTG
Found at i:34380577 original size:11 final size:11
Alignment explanation
Indices: 34380561--34380602 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
34380551 TATTAAATTA
34380561 TATATATATAG
1 TATATATATAG
34380572 TATATATATAG
1 TATATATATAG
*
34380583 TTTCA-ATATA-
1 TAT-ATATATAG
34380593 TATATATATA
1 TATATATATA
34380603 TTGTGACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 1 0.04
10 7 0.26
11 18 0.67
12 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (11 bp):
TATATATATAG
Found at i:34380579 original size:15 final size:15
Alignment explanation
Indices: 34380559--34380602 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
34380549 TGTATTAAAT
*
34380559 TATATATATATAGTA
1 TATATATATATAATA
*
34380574 TATATATAGTTTCAATA
1 TATATATA-TAT-AATA
34380591 TATATATATATA
1 TATATATATATA
34380603 TTGTGACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 9 0.38
16 4 0.17
17 11 0.46
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (15 bp):
TATATATATATAATA
Found at i:34392466 original size:81 final size:81
Alignment explanation
Indices: 34392329--34392490 Score: 306
Period size: 81 Copynumber: 2.0 Consensus size: 81
34392319 ACCCGTATCT
34392329 GACATTCACAACTGAGTCTAAGTAACATAGGGAAAAACTATCACAAAATGAAAAAGTTTTGTAAA
1 GACATTCACAACTGAGTCTAAGTAACATAGGGAAAAACTATCACAAAATGAAAAAGTTTTGTAAA
34392394 CCATGAGGTGCCCTAC
66 CCATGAGGTGCCCTAC
* *
34392410 GACATTCACACCTGAGTCTAAGTAACATAGGGAAAAACTATCACAAAATGATAAAGTTTTGTAAA
1 GACATTCACAACTGAGTCTAAGTAACATAGGGAAAAACTATCACAAAATGAAAAAGTTTTGTAAA
34392475 CCATGAGGTGCCCTAC
66 CCATGAGGTGCCCTAC
34392491 TAACAAACTC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (81 bp):
GACATTCACAACTGAGTCTAAGTAACATAGGGAAAAACTATCACAAAATGAAAAAGTTTTGTAAA
CCATGAGGTGCCCTAC
Found at i:34395070 original size:13 final size:13
Alignment explanation
Indices: 34395052--34395076 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34395042 AAAAAATTTG
34395052 ATTTAATTAATTA
1 ATTTAATTAATTA
34395065 ATTTAATTAATT
1 ATTTAATTAATT
34395077 TTTTATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTAATTAATTA
Found at i:34404721 original size:61 final size:61
Alignment explanation
Indices: 34404646--34404766 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
34404636 GCATTCTCAT
*
34404646 TGATCATCCATGATACTGAC-ATGCCCAAGATAATATTTTTTTTATCCAACATGGTAATCAG
1 TGATCATCCATGATACTGACAAT-CCCAAGATAATATTTTTTTTATCAAACATGGTAATCAG
34404707 TGATCATCCATGATACTGACAATCCCAAGATAATATTTTTTTTATCAAACATGGTAATCA
1 TGATCATCCATGATACTGACAATCCCAAGATAATATTTTTTTTATCAAACATGGTAATCA
34404767 CATGGTAAGG
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
61 56 0.97
62 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (61 bp):
TGATCATCCATGATACTGACAATCCCAAGATAATATTTTTTTTATCAAACATGGTAATCAG
Found at i:34407743 original size:11 final size:12
Alignment explanation
Indices: 34407681--34407743 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 12
34407671 TAAACATTTT
*
34407681 ATTTATTATTTTA
1 ATTTATTA-TATA
34407694 ATTT-TTATAT-
1 ATTTATTATATA
34407704 ATTT-TTAATATA
1 ATTTATT-ATATA
*
34407716 ATTAATTATATA
1 ATTTATTATATA
34407728 A-TTATTATA-A
1 ATTTATTATATA
34407738 ATTTAT
1 ATTTAT
34407744 GGAACCTATG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 8 0.19
11 17 0.40
12 12 0.28
13 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTATTATATA
Found at i:34410001 original size:17 final size:17
Alignment explanation
Indices: 34409979--34410011 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34409969 GATATTATTT
34409979 TTTTTC-TTTCTATTTTG
1 TTTTTCATTT-TATTTTG
34409996 TTTTTCATTTTATTTT
1 TTTTTCATTTTATTTT
34410012 CTATCGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTCATTTTATTTTG
Found at i:34415221 original size:165 final size:165
Alignment explanation
Indices: 34415038--34415372 Score: 627
Period size: 166 Copynumber: 2.0 Consensus size: 165
34415028 ATATAGATCT
34415038 TTAAATAAAATATATATAT-TTTATATTAATTTATTAATTAAAAAATAAAAAATATTTATCATGT
1 TTAAATAAAATATATATATATTTATATTAATTTATTAATTAAAAAATAAAAAATATTTATCATGT
34415102 TAAAATTAAAAAGGAATTTGATTTTTTAGTATTTTTTGTGTAAAATCTAATGATTGAAATTCATA
66 TAAAATTAAAAAGGAATTTGATTTTTTAGTATTTTTTGTGTAAAATCTAATGATTGAAATTCATA
34415167 AAATATAATTTTTCATGTTCCAACTTAAAAAAATA
131 AAATATAATTTTTCATGTTCCAACTTAAAAAAATA
34415202 NTTAAATAAAATATATATATATTTATATTAATTTATTAATTAAAAAATAAAAAATATTTATCATG
1 -TTAAATAAAATATATATATATTTATATTAATTTATTAATTAAAAAATAAAAAATATTTATCATG
34415267 TTAAAATTAAAAAGGAATTTGATTTTTTAGTATTTTTTGTGTAAAATCTAATGATTGAAATTCAT
65 TTAAAATTAAAAAGGAATTTGATTTTTTAGTATTTTTTGTGTAAAATCTAATGATTGAAATTCAT
* *
34415332 AAAATATAATTTTTCATGTTTCAACTTTAAAAAATA
130 AAAATATAATTTTTCATGTTCCAACTTAAAAAAATA
*
34415368 ATAAA
1 TTAAA
34415373 AATAAAAGTT
Statistics
Matches: 166, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
165 23 0.14
166 143 0.86
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (165 bp):
TTAAATAAAATATATATATATTTATATTAATTTATTAATTAAAAAATAAAAAATATTTATCATGT
TAAAATTAAAAAGGAATTTGATTTTTTAGTATTTTTTGTGTAAAATCTAATGATTGAAATTCATA
AAATATAATTTTTCATGTTCCAACTTAAAAAAATA
Found at i:34429628 original size:19 final size:19
Alignment explanation
Indices: 34429604--34429653 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
34429594 GAAGGTTAGG
* * *
34429604 ATATATGTATATGGATATT
1 ATATATATATATGCATACT
34429623 ATATATATATATGCATACT
1 ATATATATATATGCATACT
34429642 ATATATATATAT
1 ATATATATATAT
34429654 ATATATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (19 bp):
ATATATATATATGCATACT
Found at i:34429664 original size:19 final size:18
Alignment explanation
Indices: 34429604--34429664 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
34429594 GAAGGTTAGG
* *
34429604 ATATATGTATATGGATATT
1 ATATATATATATGCATA-T
34429623 ATATATATATATGCATACT
1 ATATATATATATGCATA-T
34429642 ATATATATATAT--ATAT
1 ATATATATATATGCATAT
34429658 ATA-ATAT
1 ATATATAT
34429665 GTAATTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
15 4 0.10
16 4 0.10
17 3 0.08
19 28 0.72
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (18 bp):
ATATATATATATGCATAT
Found at i:34429679 original size:2 final size:2
Alignment explanation
Indices: 34429604--34429664 Score: 54
Period size: 2 Copynumber: 31.0 Consensus size: 2
34429594 GAAGGTTAGG
* ** **
34429604 AT AT AT GT AT AT GG AT AT -T AT AT AT AT AT AT GC AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
34429646 AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT
34429665 GTAATTTAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
1 2 0.04
2 42 0.91
3 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (2 bp):
AT
Found at i:34435362 original size:23 final size:24
Alignment explanation
Indices: 34435332--34435376 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
34435322 TTTTATATTA
34435332 ATTTATTA-ATTAAAAATAAAAAT
1 ATTTATTATATTAAAAATAAAAAT
* *
34435355 ATTTATTATGTTAAAATTAAAA
1 ATTTATTATATTAAAAATAAAA
34435377 GGGAATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
ATTTATTATATTAAAAATAAAAAT
Found at i:34440416 original size:30 final size:28
Alignment explanation
Indices: 34440376--34440518 Score: 112
Period size: 30 Copynumber: 5.0 Consensus size: 28
34440366 TGGAAAAGTA
*
34440376 ATTTCGACGGATAATTCCGTTGAAAATG
1 ATTTCGACGGAAAATTCCGTTGAAAATG
*
34440404 CATTTCCGACGGATAATTCCGTTGAAAAT-
1 -ATTT-CGACGGAAAATTCCGTTGAAAATG
* * *
34440433 -TTTCAACAGAAAATTCCGTTGGAAATG
1 ATTTCGACGGAAAATTCCGTTGAAAATG
* *
34440460 TATTTCCGAAGAAAAATTCCGTTGGAAAAT-
1 -ATTT-CGACGGAAAATTCCGTT-GAAAATG
* * *
34440490 ATTTTTCAACGAAAAATTCCATTGAAAAT
1 A--TTTCGACGGAAAATTCCGTTGAAAAT
34440519 TTCCAACGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
26 19 0.20
27 3 0.03
29 14 0.15
30 50 0.53
31 8 0.09
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (28 bp):
ATTTCGACGGAAAATTCCGTTGAAAATG
Found at i:34442563 original size:22 final size:22
Alignment explanation
Indices: 34442530--34442591 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
34442520 ATTCGGGAGG
* *
34442530 AAAAA-AA-AATAAAAAATAAT
1 AAAAAGAACAATAAAAAAGAAC
*
34442550 AAAAAGAACAATAACAAAGAAC
1 AAAAAGAACAATAAAAAAGAAC
* *
34442572 AGAAAGAACAATAACAAAGA
1 AAAAAGAACAATAAAAAAGA
34442592 GACATAGGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.14
21 2 0.06
22 29 0.81
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (22 bp):
AAAAAGAACAATAAAAAAGAAC
Found at i:34443292 original size:17 final size:16
Alignment explanation
Indices: 34443261--34443296 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
34443251 ATTTAATTTT
34443261 ATTAAAAATTAAATAA
1 ATTAAAAATTAAATAA
*
34443277 ATTATAAATATAAATAA
1 ATTAAAAAT-TAAATAA
34443294 ATT
1 ATT
34443297 TTAATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTAAAAATTAAATAA
Found at i:34446999 original size:21 final size:20
Alignment explanation
Indices: 34446974--34447036 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
34446964 TGTTTTATCG
34446974 TTTTATATATTTATTAAATA
1 TTTTATATATTTATTAAATA
** *
34446994 TATTTATATACGTATTTAATA
1 T-TTTATATATTTATTAAATA
*
34447015 TTTTAATATTATTTATTGAATA
1 TTTT-ATA-TATTTATTAAATA
34447037 AAATATTATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 4 0.12
21 20 0.59
22 10 0.29
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTATATATTTATTAAATA
Found at i:34448147 original size:12 final size:12
Alignment explanation
Indices: 34448130--34448171 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
34448120 TAAATCAAGT
34448130 TAATAAAGTTAC
1 TAATAAAGTTAC
34448142 TAATAAAGGTTA-
1 TAATAAA-GTTAC
*
34448154 TAATTAA-TTAC
1 TAATAAAGTTAC
34448165 TAATAAA
1 TAATAAA
34448172 CTATTATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 3 0.12
11 6 0.23
12 13 0.50
13 4 0.15
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (12 bp):
TAATAAAGTTAC
Found at i:34451034 original size:64 final size:64
Alignment explanation
Indices: 34450933--34451058 Score: 225
Period size: 64 Copynumber: 2.0 Consensus size: 64
34450923 CAACTAAATT
* *
34450933 TTCCTTATAACCATTAGCTGTCTTTAATTGTGCTAATATTTTAATGGGACTAATTAACATTAGC
1 TTCCTTATAACCATTAGCTGTCTTGAATTGTACTAATATTTTAATGGGACTAATTAACATTAGC
*
34450997 TTCCTTATAACCATTAGCTGTCTTGAATTTTACTAATATTTTAATGGGACTAATTAACATTA
1 TTCCTTATAACCATTAGCTGTCTTGAATTGTACTAATATTTTAATGGGACTAATTAACATTA
34451059 ACTCCAATCT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (64 bp):
TTCCTTATAACCATTAGCTGTCTTGAATTGTACTAATATTTTAATGGGACTAATTAACATTAGC
Found at i:34451092 original size:36 final size:36
Alignment explanation
Indices: 34451045--34451117 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
34451035 TTTTAATGGG
* *
34451045 ACTAATTAACATTAACTCCAATCTAGTTAAATATTT
1 ACTAACTAACATTAACGCCAATCTAGTTAAATATTT
*
34451081 ACTAACTAACATTAGCGCCAATCTAGTTAAATATTT
1 ACTAACTAACATTAACGCCAATCTAGTTAAATATTT
34451117 A
1 A
34451118 AGAAGGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (36 bp):
ACTAACTAACATTAACGCCAATCTAGTTAAATATTT
Found at i:34453916 original size:10 final size:9
Alignment explanation
Indices: 34453896--34453928 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
34453886 TTTCTGTTGG
34453896 AAAAAAT-A
1 AAAAAATAA
34453904 AAAAAATAA
1 AAAAAATAA
34453913 AAAAAATAA
1 AAAAAATAA
34453922 AGAAAAA
1 A-AAAAA
34453929 GAAGAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 7 0.30
9 11 0.48
10 5 0.22
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (9 bp):
AAAAAATAA
Found at i:34454672 original size:2 final size:2
Alignment explanation
Indices: 34454665--34454708 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
34454655 AATGTTCATC
* * *
34454665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT CT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34454707 AT
1 AT
34454709 GTCTATAGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34455204 original size:24 final size:24
Alignment explanation
Indices: 34455156--34455212 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
34455146 CATATATTTT
*
34455156 ATTTTTATTTTTTATTATCATTATA
1 ATTTTTA-TTTTTATTATCAATATA
* * *
34455181 TTTTTTATTTTTATTTTTAATATA
1 ATTTTTATTTTTATTATCAATATA
34455205 ATTTTTAT
1 ATTTTTAT
34455213 ATTATATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
ATTTTTATTTTTATTATCAATATA
Found at i:34455223 original size:20 final size:18
Alignment explanation
Indices: 34455187--34455234 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
34455177 TATATTTTTT
*
34455187 ATTTTTATTTTTAATATA
1 ATTTTTATTTATAATATA
34455205 ATTTTTATATTAT-ATAT-
1 ATTTTTAT-TTATAATATA
34455222 A-TTTTATTT-TAAT
1 ATTTTTATTTATAAT
34455235 TTCTTTTACC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 6 0.22
17 1 0.04
18 12 0.44
19 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTATTTATAATATA
Found at i:34463322 original size:27 final size:27
Alignment explanation
Indices: 34463283--34463335 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
34463273 TTCTCTTTTA
* *
34463283 TTACACGTCATGTTAAAAATGTAATTG
1 TTACACATCATGTTAAAAATATAATTG
*
34463310 TTACACATTATGTTAAAAATATAATT
1 TTACACATCATGTTAAAAATATAATT
34463336 ATTTTACGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (27 bp):
TTACACATCATGTTAAAAATATAATTG
Found at i:34463347 original size:27 final size:28
Alignment explanation
Indices: 34463280--34463394 Score: 108
Period size: 28 Copynumber: 4.2 Consensus size: 28
34463270 TGTTTCTCTT
* *
34463280 TTATTACACGTCATGTT-AAAAATGTAA
1 TTATTATACGTCATGTTAAAAAATATAA
* * * *
34463307 TTGTTACACATTATGTT-AAAAATATAA
1 TTATTATACGTCATGTTAAAAAATATAA
* * *
34463334 TTATTTTACGTTATATTAAAAAATATAA
1 TTATTATACGTCATGTTAAAAAATATAA
* * *
34463362 TTATTATATGTCATGTTGAAAAATTTAA
1 TTATTATACGTCATGTTAAAAAATATAA
34463390 TTATT
1 TTATT
34463395 GCAAGTCATA
Statistics
Matches: 72, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
27 35 0.49
28 37 0.51
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (28 bp):
TTATTATACGTCATGTTAAAAAATATAA
Found at i:34463362 original size:28 final size:28
Alignment explanation
Indices: 34463280--34463412 Score: 90
Period size: 28 Copynumber: 4.8 Consensus size: 28
34463270 TGTTTCTCTT
* * *
34463280 TTATTACACGTCATGTT-AAAAATGTAA
1 TTATTATACGTCATATTAAAAAATATAA
* * * * *
34463307 TTGTTACACATTATGTT-AAAAATATAA
1 TTATTATACGTCATATTAAAAAATATAA
* *
34463334 TTATTTTACGTTATATTAAAAAATATAA
1 TTATTATACGTCATATTAAAAAATATAA
* * * *
34463362 TTATTATATGTCATGTTGAAAAATTTAA
1 TTATTATACGTCATATTAAAAAATATAA
** * *
34463390 TTATTGCAAGTCATAATAAAAAA
1 TTATTATACGTCATATTAAAAAA
34463413 GTTGTTACAT
Statistics
Matches: 84, Mismatches: 21, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
27 35 0.42
28 49 0.58
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (28 bp):
TTATTATACGTCATATTAAAAAATATAA
Found at i:34465631 original size:2 final size:2
Alignment explanation
Indices: 34465624--34465667 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
34465614 TCTTTAACTT
34465624 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34465666 TA
1 TA
34465668 ATAATGATGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34466138 original size:21 final size:21
Alignment explanation
Indices: 34466112--34466162 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
34466102 ATCTTCCCCA
34466112 TGGGCACCAACTCCTGAATCT
1 TGGGCACCAACTCCTGAATCT
34466133 TGGGCACCAACTCCTGAATCT
1 TGGGCACCAACTCCTGAATCT
*
34466154 TGGTCACCA
1 TGGGCACCA
34466163 GCTGCACCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (21 bp):
TGGGCACCAACTCCTGAATCT
Found at i:34468097 original size:29 final size:29
Alignment explanation
Indices: 34468064--34468119 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
34468054 ATTTACTAAA
34468064 ATTCAAAT-AAGCCTTTATATTTTTATTAC
1 ATTC-AATCAAGCCTTTATATTTTTATTAC
*
34468093 ATTCAATCAAGCCTTTGTATTTTTATT
1 ATTCAATCAAGCCTTTATATTTTTATT
34468120 TTAAGCCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.50
Consensus pattern (29 bp):
ATTCAATCAAGCCTTTATATTTTTATTAC
Found at i:34468281 original size:33 final size:33
Alignment explanation
Indices: 34468244--34468333 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
34468234 TATGTTAAAT
* * * * *
34468244 TATCATAACTGATTATGATGTGGCTTGTTGATG
1 TATCATAAATAATGATGATGTGGCTTATTGATA
34468277 TATCATAAATAATGATGATGTGGCTTATTGATA
1 TATCATAAATAATGATGATGTGGCTTATTGATA
*
34468310 TATCATAAATAATGATGATATGGC
1 TATCATAAATAATGATGATGTGGC
34468334 ATGCTAATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (33 bp):
TATCATAAATAATGATGATGTGGCTTATTGATA
Found at i:34468623 original size:20 final size:21
Alignment explanation
Indices: 34468587--34468626 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
34468577 CCAAATTTAT
34468587 ATAATTGATATGTATTTATTA
1 ATAATTGATATGTATTTATTA
34468608 ATAATT-ATAT-TAATTTATT
1 ATAATTGATATGT-ATTTATT
34468627 TAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 11 0.61
21 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
ATAATTGATATGTATTTATTA
Found at i:34473396 original size:21 final size:21
Alignment explanation
Indices: 34473370--34473419 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
34473360 TTCCCCTACA
34473370 GCACCAACACCTGAACCTTGG
1 GCACCAACACCTGAACCTTGG
34473391 GCACCAACACCTGAACCTTGG
1 GCACCAACACCTGAACCTTGG
*
34473412 GCATCAAC
1 GCACCAAC
34473420 TACACCTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.38, G:0.18, T:0.14
Consensus pattern (21 bp):
GCACCAACACCTGAACCTTGG
Found at i:34475976 original size:20 final size:21
Alignment explanation
Indices: 34475935--34475976 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34475925 CATTATTTCT
**
34475935 TTATTTTTTAAAAACTTTTAA
1 TTATTTTTTAAAAACTAATAA
34475956 TTATTTTTTAAAAA-TAATAA
1 TTATTTTTTAAAAACTAATAA
34475976 T
1 T
34475977 AAAAGTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTTTTTAAAAACTAATAA
Found at i:34490888 original size:33 final size:33
Alignment explanation
Indices: 34490846--34490915 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
34490836 CTCTCATGCT
34490846 TGCTTTCCTTCTCCATTGACCCAATATAGGTAG
1 TGCTTTCCTTCTCCATTGACCCAATATAGGTAG
*
34490879 TGCTTTCCTTCTCTATTGACCCAATATAGGTAG
1 TGCTTTCCTTCTCCATTGACCCAATATAGGTAG
34490912 TGCT
1 TGCT
34490916 ACAAATTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.39
Consensus pattern (33 bp):
TGCTTTCCTTCTCCATTGACCCAATATAGGTAG
Found at i:34491029 original size:3 final size:3
Alignment explanation
Indices: 34491021--34491051 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
34491011 TGTATATGAC
34491021 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
34491052 ACCAATAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:34493851 original size:80 final size:80
Alignment explanation
Indices: 34493710--34493870 Score: 286
Period size: 80 Copynumber: 2.0 Consensus size: 80
34493700 CTCTGCTTAA
* *
34493710 GATGGTTTTGCCTGGCCTCACTTTGGAACTGTGCTTTCTATAGATTTGCATGGTTAATGTGTTGT
1 GATGGTTTTGCCTGGCCTCACTTTGGAACCGTGCTTTCTATAGATTTGCATGCTTAATGTGTTGT
34493775 TTTCACCACCTGCAT
66 TTTCACCACCTGCAT
* *
34493790 GATGGTTTTGCCTGGCCTCACTTTGGAACCGTGCTTTCTCTAGATTTGCATGCTTACTGTGTTGT
1 GATGGTTTTGCCTGGCCTCACTTTGGAACCGTGCTTTCTATAGATTTGCATGCTTAATGTGTTGT
34493855 TTTCACCACCTGCAT
66 TTTCACCACCTGCAT
34493870 G
1 G
34493871 TGCTAATATT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.40
Consensus pattern (80 bp):
GATGGTTTTGCCTGGCCTCACTTTGGAACCGTGCTTTCTATAGATTTGCATGCTTAATGTGTTGT
TTTCACCACCTGCAT
Found at i:34496552 original size:138 final size:138
Alignment explanation
Indices: 34496312--34496560 Score: 306
Period size: 138 Copynumber: 1.8 Consensus size: 138
34496302 AAGTATGTGT
* * ** *
34496312 TTGAGTAGGACTTCAGAACCTGATGTACAAGATAATGACATTTCTACGAGGTTGCAAGGGAGACA
1 TTGAGTAGGACTTCAGAACCCGATGTACAAAATAATGACAGCTCTACGAGGTTGCAAGAGAGACA
* * * *
34496377 TGACAAACAGAGGAACATGAGAGAAACTAAATCCCCTGTTTCAGGAGGAAAGAGAACTAGTGTGT
66 TGACAAACAGAGGAACATAAAAGAAACCAAATCCCCTGTTGCAGGAGGAAAGAGAACTAGTGTGT
34496442 TTTTGCGC
131 TTTTGCGC
* * *
34496450 TTGAGTAGGACTTCAGAACCCGATGTA-AACAATAGTGGCAGCTCTAC-ATTGTTGCAAGAGAGA
1 TTGAGTAGGACTTCAGAACCCGATGTACAA-AATAATGACAGCTCTACGA-GGTTGCAAGAGAGA
* * * *
34496513 CATGACAAGCAGAGGAAGA-AACAAGAAACCGAATGCCCTGTTGCAGGA
64 CATGACAAACAGAGGAACATAA-AAGAAACCAAATCCCCTGTTGCAGGA
34496561 AAATTTATCA
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
137 4 0.04
138 88 0.96
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (138 bp):
TTGAGTAGGACTTCAGAACCCGATGTACAAAATAATGACAGCTCTACGAGGTTGCAAGAGAGACA
TGACAAACAGAGGAACATAAAAGAAACCAAATCCCCTGTTGCAGGAGGAAAGAGAACTAGTGTGT
TTTTGCGC
Found at i:34497604 original size:15 final size:16
Alignment explanation
Indices: 34497569--34497605 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
34497559 AATCAGTTTT
*
34497569 TATTATTAATTATTAA
1 TATTATTAATTATAAA
34497585 T-TTATTAATTA-AAA
1 TATTATTAATTATAAA
34497599 TATTATT
1 TATTATT
34497606 TATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 3 0.16
15 15 0.79
16 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATTAATTATAAA
Found at i:34502998 original size:25 final size:25
Alignment explanation
Indices: 34502970--34503022 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
34502960 TTCCTTATTC
*
34502970 CTGTGGTTTCTCATCACATTCATAG
1 CTGTAGTTTCTCATCACATTCATAG
34502995 CTGTAGTTTCTCATCACATTCATAG
1 CTGTAGTTTCTCATCACATTCATAG
34503020 CTG
1 CTG
34503023 GACTTGGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (25 bp):
CTGTAGTTTCTCATCACATTCATAG
Found at i:34506746 original size:62 final size:63
Alignment explanation
Indices: 34506630--34506751 Score: 221
Period size: 64 Copynumber: 2.0 Consensus size: 63
34506620 AGCCATTGCC
34506630 TCTCTCTCTCTCTCTCTCTCTAATGCCTATTATAGTATTATTTGAGACCTACTTTCAGATACT
1 TCTCTCTCTCTCTCTCTCTCTAATGCCTATTATAGTATTATTTGAGACCTACTTTCAGATACT
34506693 NTCTCTCTCTCTCTCTCTCTCTAATGCCTATTATAGTA-TATTTGAGACC-ACTTTCAGAT
1 -TCTCTCTCTCTCTCTCTCTCTAATGCCTATTATAGTATTATTTGAGACCTACTTTCAGAT
34506752 CAAACGTTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 10 0.17
63 11 0.19
64 37 0.64
ACGTcount: A:0.20, C:0.27, G:0.08, T:0.43
Consensus pattern (63 bp):
TCTCTCTCTCTCTCTCTCTCTAATGCCTATTATAGTATTATTTGAGACCTACTTTCAGATACT
Found at i:34511118 original size:41 final size:41
Alignment explanation
Indices: 34511046--34511131 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
34511036 GCTTTTGTCA
* *
34511046 TTTGTATCGGTAGTTACCATTAAGATCTCTTGACGTAGTGT
1 TTTGTATCAGTAGTTACCATTAAGATCTCTTGACATAGTGT
* * * * *
34511087 TTTGTATCAGTAGTTTCCGTTAGGATTTCTTGACATGGTGT
1 TTTGTATCAGTAGTTACCATTAAGATCTCTTGACATAGTGT
34511128 TTTG
1 TTTG
34511132 CATGGAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (41 bp):
TTTGTATCAGTAGTTACCATTAAGATCTCTTGACATAGTGT
Found at i:34520809 original size:2 final size:2
Alignment explanation
Indices: 34520753--34520795 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
34520743 CACAAGTAGC
34520753 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34520795 T
1 T
34520796 NCTTTAGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:34525497 original size:15 final size:15
Alignment explanation
Indices: 34525472--34525514 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
34525462 ACCAGCTCAT
*
34525472 GAAAAAGAAAAAATA
1 GAAATAGAAAAAATA
34525487 -AAATGAGAAAAAATA
1 GAAAT-AGAAAAAATA
34525502 GAAATA-AAAAAAT
1 GAAATAGAAAAAAT
34525515 TATTTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 10 0.40
15 11 0.44
16 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
GAAATAGAAAAAATA
Found at i:34525573 original size:28 final size:26
Alignment explanation
Indices: 34525522--34525573 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
34525512 AATTATTTTA
*
34525522 AATTTAAAATATTAATATTTATATAT
1 AATTTAAAATATTAATATTAATATAT
34525548 AATTTAAACATTATTAATATTAATAT
1 AATTTAAA-A-TATTAATATTAATAT
34525574 TTTAGGGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 8 0.35
27 1 0.04
28 14 0.61
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATTTAAAATATTAATATTAATATAT
Found at i:34525718 original size:15 final size:15
Alignment explanation
Indices: 34525684--34525727 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
34525674 TAATAATATT
*
34525684 AAATT-ATAAATAAA
1 AAATTAATAATTAAA
*
34525698 AAATTATTAATTAAA
1 AAATTAATAATTAAA
*
34525713 ATATTAATAATTAAA
1 AAATTAATAATTAAA
34525728 TTATACTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATTAATAATTAAA
Found at i:34525721 original size:26 final size:27
Alignment explanation
Indices: 34525681--34525731 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
34525671 TCATAATAAT
*
34525681 ATTAAATTATAAATAA-AAAATTATTA
1 ATTAAAATATAAATAATAAAATTATTA
* *
34525707 ATTAAAATATTAATAATTAAATTAT
1 ATTAAAATATAAATAATAAAATTAT
34525732 ACTAAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTAAAATATAAATAATAAAATTATTA
Found at i:34525721 original size:40 final size:40
Alignment explanation
Indices: 34525677--34525833 Score: 183
Period size: 40 Copynumber: 3.9 Consensus size: 40
34525667 TTAATCATAA
* * * *
34525677 TAAT-ATTAAATTATAAATAAAAAATT-ATTAATTAAAATAT
1 TAATAATTAAATTAT-ACTAAAATATTGA-TATTTAAATTAT
34525717 TAATAATTAAATTATACTAAAATATTGATATTTAAATTAT
1 TAATAATTAAATTATACTAAAATATTGATATTTAAATTAT
34525757 TAATAATTAAATTATACTAAAATATTGATATTTAAATTAT
1 TAATAATTAAATTATACTAAAATATTGATATTTAAATTAT
* * * * * *
34525797 TAATTATTAATATTTTAATGAATTATTAATATTTAAA
1 TAATAATTAA-ATTATACTAAAATATTGATATTTAAA
34525834 AAATAAAATA
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
40 72 0.69
41 32 0.31
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (40 bp):
TAATAATTAAATTATACTAAAATATTGATATTTAAATTAT
Found at i:34525741 original size:25 final size:25
Alignment explanation
Indices: 34525709--34525756 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
34525699 AATTATTAAT
34525709 TAAAATATTAATAATTAAATTATAC
1 TAAAATATTAATAATTAAATTATAC
* *
34525734 TAAAATATTGATATTTAAATTAT
1 TAAAATATTAATAATTAAATTAT
34525757 TAATAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TAAAATATTAATAATTAAATTATAC
Found at i:34525757 original size:15 final size:15
Alignment explanation
Indices: 34525734--34525797 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 15
34525724 TAAATTATAC
*
34525734 TAAAATATTGATATT
1 TAAATTATTGATATT
* *
34525749 TAAATTATTAATAAT
1 TAAATTATTGATATT
34525764 TAAATTA-T-ACTA--
1 TAAATTATTGA-TATT
34525776 -AAA-TATTGATATT
1 TAAATTATTGATATT
34525789 TAAATTATT
1 TAAATTATT
34525798 AATTATTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
10 2 0.05
11 6 0.15
12 1 0.03
13 1 0.03
14 6 0.15
15 23 0.59
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (15 bp):
TAAATTATTGATATT
Found at i:34525777 original size:25 final size:23
Alignment explanation
Indices: 34525748--34525808 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
34525738 ATATTGATAT
34525748 TTAAATTATTAATAATTAAATTA
1 TTAAATTATTAATAATTAAATTA
* * *
34525771 TACTAAAATATTGATATTTAAATTA
1 T--TAAATTATTAATAATTAAATTA
34525796 TT-AATTATTAATA
1 TTAAATTATTAATA
34525809 TTTTAATGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 9 0.29
23 2 0.06
25 20 0.65
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAAATTATTAATAATTAAATTA
Found at i:34532182 original size:19 final size:18
Alignment explanation
Indices: 34532139--34532181 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
34532129 ACTAAAGCTC
**
34532139 TTTTTTTAAAAAATTTTA
1 TTTTTTTAAAAAAAATTA
34532157 TTTTTTTAAAAAAAATTA
1 TTTTTTTAAAAAAAATTA
34532175 TTTTTTT
1 TTTTTTT
34532182 TGTGAAGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTTTAAAAAAAATTA
Done.