Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 161 of 185
Found at i:49634804 original size:25 final size:23
Alignment explanation
Indices: 49634755--49634811 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
49634745 CAAGAAAAAC
* *
49634755 TATTTTATCTTTTTAATTTCATT
1 TATTTTTTCTTTTTAAATTCATT
*
49634778 TATTTTTTCTTTTTAGAATTGATTT
1 TATTTTTTCTTTTTA-AATTCA-TT
49634803 TAATTTTTT
1 T-ATTTTTT
49634812 AGTAGAAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.50
24 4 0.14
25 3 0.11
26 7 0.25
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.70
Consensus pattern (23 bp):
TATTTTTTCTTTTTAAATTCATT
Found at i:49634967 original size:22 final size:22
Alignment explanation
Indices: 49634921--49634986 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
49634911 TCAGTAGGAG
* *
49634921 GGGAA-AACTTAAG-TTTTACA
1 GGGAATAACTTGAGTTTTTATA
*
49634941 AGGAATAACTTGAGTTTTTATA
1 GGGAATAACTTGAGTTTTTATA
* *
49634963 GGGAATAACCTGAATTTTTATA
1 GGGAATAACTTGAGTTTTTATA
49634985 GG
1 GG
49634987 AAAAATCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.11
21 7 0.18
22 27 0.71
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (22 bp):
GGGAATAACTTGAGTTTTTATA
Found at i:49639948 original size:3 final size:3
Alignment explanation
Indices: 49639942--49639981 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
49639932 AAAAAATTTT
49639942 GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
49639982 GAGCGAGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:49640200 original size:27 final size:26
Alignment explanation
Indices: 49640157--49640222 Score: 123
Period size: 26 Copynumber: 2.5 Consensus size: 26
49640147 TTATTTAGTA
49640157 AATTTTTTTTGTTAAAAATAAATGTT
1 AATTTTTTTTGTTAAAAATAAATGTT
49640183 AATTTTTTTTGTTAAAAATAAATGTT
1 AATTTTTTTTGTTAAAAATAAATGTT
49640209 AATTTATTTTTGTT
1 AATTT-TTTTTGTT
49640223 TTTTTTGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
26 31 0.79
27 8 0.21
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (26 bp):
AATTTTTTTTGTTAAAAATAAATGTT
Found at i:49640320 original size:11 final size:11
Alignment explanation
Indices: 49640304--49640334 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
49640294 TATTAAGATG
49640304 TTTGTATTTAT
1 TTTGTATTTAT
49640315 TTTGTATTTAT
1 TTTGTATTTAT
*
49640326 TTTATATTT
1 TTTGTATTT
49640335 TCATTCATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (11 bp):
TTTGTATTTAT
Found at i:49640427 original size:16 final size:16
Alignment explanation
Indices: 49640408--49640480 Score: 53
Period size: 16 Copynumber: 4.4 Consensus size: 16
49640398 TAAAGAATGT
49640408 TTTATTTTTTATGTAA
1 TTTATTTTTTATGTAA
* *
49640424 TTTATTTGTTATGT-G
1 TTTATTTTTTATGTAA
*
49640439 TGTT-TTAGGTTTAT-TAGA
1 T-TTATT--TTTTATGTA-A
49640457 TTTATTTTTTTATGTAA
1 TTTA-TTTTTTATGTAA
49640474 TTTATTT
1 TTTATTT
49640481 GGCATGTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
15 3 0.07
16 19 0.44
17 16 0.37
18 3 0.07
19 2 0.05
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (16 bp):
TTTATTTTTTATGTAA
Found at i:49642498 original size:8 final size:8
Alignment explanation
Indices: 49642485--49642516 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
49642475 AGATTAATTG
49642485 CAACATTA
1 CAACATTA
49642493 CAACATTA
1 CAACATTA
49642501 CAACATTA
1 CAACATTA
*
49642509 CAATATTA
1 CAACATTA
49642517 AAACTTGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (8 bp):
CAACATTA
Found at i:49642540 original size:27 final size:26
Alignment explanation
Indices: 49642510--49642589 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 26
49642500 ACAACATTAC
49642510 AATATTAAAACTTGGAACAAGCTTTGT
1 AATATTAAAACTTGGAACAA-CTTTGT
* **
49642537 AATA-T-AAA-TT--AA-ATACATTAC
1 AATATTAAAACTTGGAACA-ACTTTGT
49642558 AATATTAAAACTTGGAACAAACTTTGT
1 AATATTAAAACTTGGAAC-AACTTTGT
49642585 AATAT
1 AATAT
49642590 AAATTAGGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 16
0.64 0.10 0.26
Matches are distributed among these distances:
21 8 0.21
22 4 0.10
23 3 0.08
24 4 0.10
25 3 0.08
26 3 0.08
27 13 0.33
28 1 0.03
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (26 bp):
AATATTAAAACTTGGAACAACTTTGT
Found at i:49642574 original size:48 final size:48
Alignment explanation
Indices: 49642503--49642595 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
49642493 CAACATTACA
*
49642503 ACATTACAATATTAAAACTTGGAACAAGCTTTGTAATATAAATTAAAT
1 ACATTACAATATTAAAACTTGGAACAAACTTTGTAATATAAATTAAAT
49642551 ACATTACAATATTAAAACTTGGAACAAACTTTGTAATATAAATTA
1 ACATTACAATATTAAAACTTGGAACAAACTTTGTAATATAAATTA
49642596 GGTATATTGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (48 bp):
ACATTACAATATTAAAACTTGGAACAAACTTTGTAATATAAATTAAAT
Found at i:49646890 original size:17 final size:17
Alignment explanation
Indices: 49646824--49646890 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
49646814 ATTTAAATTC
*
49646824 ATTATTATGTTTTTAAAAT
1 ATTATTAT-TTTTT-ATAT
49646843 ATTTATGTA-TTTTTATAT
1 A-TTAT-TATTTTTTATAT
* *
49646861 ATTTTTAATTTTTATAT
1 ATTATTATTTTTTATAT
49646878 ATTATTATTTTTT
1 ATTATTATTTTTT
49646891 GTCAACATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 2 0.05
17 23 0.56
18 4 0.10
19 6 0.15
20 4 0.10
21 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTATTATTTTTTATAT
Found at i:49648450 original size:18 final size:18
Alignment explanation
Indices: 49648436--49648471 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
49648426 TTGTTTTATT
49648436 TTTATTATTATTTTTTTA
1 TTTATTATTATTTTTTTA
* *
49648454 TTTGTTTTTATTTTTTTA
1 TTTATTATTATTTTTTTA
49648472 AAAAGAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTATTATTATTTTTTTA
Found at i:49656768 original size:41 final size:40
Alignment explanation
Indices: 49656711--49656817 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 40
49656701 TGATCGAATG
* * * *
49656711 TAATTCAAACTTATTGTCTAGCAGGCTTGATGCCGGTGATA
1 TAATTCAGAC-TATTGTCTAGCAGGCTTAATGCCAGTGAAA
49656752 TAATTCAGACTCATTGTCTAGCAGGCTTAATGCCAGTGAAA
1 TAATTCAGACT-ATTGTCTAGCAGGCTTAATGCCAGTGAAA
* * *
49656793 TTATTCGGACTATAAGTCTAGCAGG
1 TAATTCAGACTAT-TGTCTAGCAGG
49656818 ATAAAAGCCG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 3 0.05
41 54 0.95
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (40 bp):
TAATTCAGACTATTGTCTAGCAGGCTTAATGCCAGTGAAA
Found at i:49664946 original size:12 final size:12
Alignment explanation
Indices: 49664899--49664946 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
49664889 TAATAATTAA
*
49664899 AAATATTAAAATC
1 AAAT-TTAAAATT
*
49664912 ATATTTAAAA-T
1 AAATTTAAAATT
*
49664923 AAATTTTAAATT
1 AAATTTAAAATT
49664935 AAATTTAAAATT
1 AAATTTAAAATT
49664947 TTATAATACC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 8 0.28
12 18 0.62
13 3 0.10
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
AAATTTAAAATT
Found at i:49669596 original size:26 final size:27
Alignment explanation
Indices: 49669542--49669598 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
49669532 CTGTTTAGAA
* * *
49669542 TATTTTAAAAATACTTTTTTTATTTTT
1 TATTTTAAAAATACATTTTTTAGTGTT
*
49669569 TATTTTTAAAATA-ATTTTTTAGTGTT
1 TATTTTAAAAATACATTTTTTAGTGTT
49669595 TATT
1 TATT
49669599 AAAAAATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (27 bp):
TATTTTAAAAATACATTTTTTAGTGTT
Found at i:49672371 original size:35 final size:35
Alignment explanation
Indices: 49672325--49672483 Score: 246
Period size: 35 Copynumber: 4.5 Consensus size: 35
49672315 TACTTTTTGT
* *
49672325 TTGGCATGTTTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
*
49672360 TTGGCGTGTTTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
* *
49672395 TTGGTGTGTTACGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
* *
49672430 TTGGTGTGTTATGGTTGGATTAGATCTTATGAGCA
1 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
*
49672465 TTGGCGTATTATGGTTGGA
1 TTGGCGTGTTATGGTTGGA
49672484 CTGATGATGT
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 116 1.00
ACGTcount: A:0.17, C:0.09, G:0.31, T:0.42
Consensus pattern (35 bp):
TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
Found at i:49676113 original size:10 final size:10
Alignment explanation
Indices: 49676098--49676157 Score: 58
Period size: 10 Copynumber: 6.5 Consensus size: 10
49676088 ATAGTTTTTT
49676098 AAATTATAAA
1 AAATTATAAA
49676108 AAA-T-T-AA
1 AAATTATAAA
*
49676115 AAATT-TTAA
1 AAATTATAAA
*
49676124 AAATTGTAAA
1 AAATTATAAA
*
49676134 ATATTAT-AA
1 AAATTATAAA
49676143 AAATTATAAA
1 AAATTATAAA
49676153 AAATT
1 AAATT
49676158 GGAAATTGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
7 5 0.12
8 3 0.07
9 16 0.38
10 18 0.43
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
AAATTATAAA
Found at i:49676123 original size:9 final size:9
Alignment explanation
Indices: 49676098--49676154 Score: 71
Period size: 9 Copynumber: 6.3 Consensus size: 9
49676088 ATAGTTTTTT
49676098 AAATTATAA
1 AAATTATAA
*
49676107 AAAAT-TAA
1 AAATTATAA
*
49676115 AAATTTTAA
1 AAATTATAA
*
49676124 AAATTGTAA
1 AAATTATAA
49676133 AATATTATAA
1 AA-ATTATAA
49676143 AAATTATAA
1 AAATTATAA
49676152 AAA
1 AAA
49676155 ATTGGAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.17
9 27 0.64
10 8 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
AAATTATAA
Found at i:49676124 original size:17 final size:18
Alignment explanation
Indices: 49676098--49676145 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
49676088 ATAGTTTTTT
49676098 AAATTATAAAAAAT-TAA
1 AAATTATAAAAAATGTAA
* *
49676115 AAATTTTAAAAATTGTAA
1 AAATTATAAAAAATGTAA
49676133 AATATTATAAAAA
1 AA-ATTATAAAAA
49676146 TTATAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 12 0.46
18 5 0.19
19 9 0.35
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATTATAAAAAATGTAA
Found at i:49676145 original size:19 final size:17
Alignment explanation
Indices: 49676098--49676154 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 17
49676088 ATAGTTTTTT
*
49676098 AAATTATAAAAAATTAA
1 AAATTATAAAAATTTAA
*
49676115 AAATTTTAAAAATTGTAA
1 AAATTATAAAAATT-TAA
49676133 AATATTATAAAAATTATAA
1 AA-ATTATAAAAATT-TAA
49676152 AAA
1 AAA
49676155 ATTGGAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 12 0.35
18 6 0.18
19 16 0.47
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAATTATAAAAATTTAA
Found at i:49677205 original size:28 final size:29
Alignment explanation
Indices: 49677162--49677220 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
49677152 CTAAGATACA
* *
49677162 TTTTAAAGATTATTATAATTTTTACAATT
1 TTTTAAAGATTATTATAATTTTCAAAATT
* *
49677191 TTTTAAA-ATTTTTATGATTTTCAAAATT
1 TTTTAAAGATTATTATAATTTTCAAAATT
49677219 TT
1 TT
49677221 AAACTCTTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTTAAAGATTATTATAATTTTCAAAATT
Found at i:49677210 original size:19 final size:18
Alignment explanation
Indices: 49677178--49677220 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
49677168 AGATTATTAT
*
49677178 AATTTTTACAATTTTTTAA
1 AATTTTTACAA-TTTTCAA
**
49677197 AATTTTTATGATTTTCAA
1 AATTTTTACAATTTTCAA
49677215 AATTTT
1 AATTTT
49677221 AAACTCTTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
AATTTTTACAATTTTCAA
Found at i:49686098 original size:16 final size:16
Alignment explanation
Indices: 49686077--49686144 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
49686067 TTTGGTTCGC
49686077 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
49686093 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
49686108 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
49686125 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
49686141 TGTA
1 TGTA
49686145 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:49686116 original size:32 final size:32
Alignment explanation
Indices: 49686077--49686144 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
49686067 TTTGGTTCGC
49686077 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
49686109 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
49686141 TGTA
1 TGTA
49686145 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:49686468 original size:157 final size:157
Alignment explanation
Indices: 49686274--49686583 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
49686264 CCCTTAGCAT
*
49686274 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
49686339 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
49686404 TTTAATAAAATTCTTAATAATTACTAG
131 TTTAATAAAATTCTTAATAATTACTAG
* * * *
49686431 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
49686496 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
49686561 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
49686584 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACTAG
Found at i:49686657 original size:157 final size:155
Alignment explanation
Indices: 49686320--49686641 Score: 358
Period size: 157 Copynumber: 2.0 Consensus size: 155
49686310 TTAAATTTTA
* * * *
49686320 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * * * * ** *
49686385 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACTAGAAATTTGTTTTGGTAAATT
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATACAAATATGATTTACTAAATC
* * * * *
49686450 ATTATTGTTATTGTTATTTAAATTTTG
131 ATAATTATTATTGATATATAAA--TAG
* *
49686477 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* **
49686542 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATA--CAAATATG-ATTTACT-A
49686607 AATCATAATATATTATATGATACTATAAA-AG
127 AATCATAAT-TATTAT-TGATA-TATAAATAG
49686638 ATAA
1 ATAA
49686642 TTTGAAATAA
Statistics
Matches: 138, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
157 103 0.75
159 4 0.03
160 4 0.03
161 13 0.09
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATACAAATATGATTTACTAAATC
ATAATTATTATTGATATATAAATAG
Found at i:49687480 original size:13 final size:13
Alignment explanation
Indices: 49687462--49687491 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
49687452 CAATCAGCTA
49687462 AATTCAGAAAAAC
1 AATTCAGAAAAAC
49687475 AATTCAGAAAAAC
1 AATTCAGAAAAAC
49687488 AATT
1 AATT
49687492 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:49690679 original size:6 final size:6
Alignment explanation
Indices: 49690663--49690694 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
49690653 TGTTTCTATG
49690663 TAAAAA T-AAAA TAAAAA TAAAAA T-AAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAA
49690695 TAATGGAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.42
6 14 0.58
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:49696978 original size:28 final size:29
Alignment explanation
Indices: 49696947--49697003 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
49696937 TCTTTGCTTC
49696947 TTTCTTCAATCTAG-CCAAATTGTATCCT
1 TTTCTTCAATCTAGCCCAAATTGTATCCT
* *
49696975 TTTCTTCTATTTAGCCCCAAATTGTATCC
1 TTTCTTCAATCTAG-CCCAAATTGTATCC
49697004 CTGCACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.48
30 13 0.52
ACGTcount: A:0.23, C:0.26, G:0.07, T:0.44
Consensus pattern (29 bp):
TTTCTTCAATCTAGCCCAAATTGTATCCT
Found at i:49697712 original size:19 final size:19
Alignment explanation
Indices: 49697657--49697693 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
49697647 AAATAAACAT
49697657 TAAAAAATTATTTTAAAAA
1 TAAAAAATTATTTTAAAAA
49697676 TAAAAAATTATTTTAAAA
1 TAAAAAATTATTTTAAAA
49697694 GTATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAAATTATTTTAAAAA
Found at i:49697723 original size:30 final size:30
Alignment explanation
Indices: 49697660--49697723 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
49697650 TAAACATTAA
* * ***
49697660 AAAATTATTTTAAAAATAAAAAATTATTTT
1 AAAAGTATTTTAAAAATAAAAAATAAAAAT
*
49697690 AAAAGTATTTTAAAATTAAAAAATAAAAAT
1 AAAAGTATTTTAAAAATAAAAAATAAAAAT
49697720 AAAA
1 AAAA
49697724 AATATATATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (30 bp):
AAAAGTATTTTAAAAATAAAAAATAAAAAT
Found at i:49697912 original size:2 final size:2
Alignment explanation
Indices: 49697907--49697982 Score: 50
Period size: 2 Copynumber: 44.0 Consensus size: 2
49697897 CAAAACACAC
* *
49697907 AT AT AT AT -T A- AT AT AT -T AT AG AT -T AT A- AC AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49697943 AT -T A- AT AT AT AT -T AT AT AT -T AT AT AT -T AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49697979 AT AT
1 AT AT
49697983 TAAATGTTTC
Statistics
Matches: 59, Mismatches: 3, Indels: 24
0.69 0.03 0.28
Matches are distributed among these distances:
1 12 0.20
2 47 0.80
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49697953 original size:32 final size:29
Alignment explanation
Indices: 49697905--49697982 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 29
49697895 TACAAAACAC
49697905 ACATATATATTA-ATATATTATAGATTAT
1 ACATATATATTATATATATTATAGATTAT
*
49697933 AACATAATATATTAATATATATTATATATTAT
1 -ACAT-ATATATT-ATATATATTATAGATTAT
*
49697965 ATATTATATATTATATAT
1 ACA-TATATATTATATAT
49697983 TAAATGTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
29 4 0.09
30 13 0.30
31 10 0.23
32 16 0.37
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (29 bp):
ACATATATATTATATATATTATAGATTAT
Found at i:49697960 original size:7 final size:7
Alignment explanation
Indices: 49697908--49697984 Score: 82
Period size: 7 Copynumber: 10.3 Consensus size: 7
49697898 AAAACACACA
49697908 TATATAT
1 TATATAT
49697915 TAATATAT
1 T-ATATAT
*
49697923 TATAGAT
1 TATATAT
*
49697930 TATAACATAA
1 TAT---ATAT
*
49697940 TATATTAA
1 TATA-TAT
49697948 TATATAT
1 TATATAT
49697955 TATATAT
1 TATATAT
49697962 TATATAT
1 TATATAT
49697969 TATATAT
1 TATATAT
49697976 TATATAT
1 TATATAT
49697983 TA
1 TA
49697985 AATGTTTCAC
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
7 42 0.69
8 14 0.23
10 5 0.08
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (7 bp):
TATATAT
Found at i:49707093 original size:32 final size:32
Alignment explanation
Indices: 49707050--49707126 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
49707040 CAAAATAAAT
** *
49707050 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
49707082 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
49707114 GATGAAAAGTTAC
1 TATGAAAAGTTAC
49707127 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:49707587 original size:12 final size:12
Alignment explanation
Indices: 49707570--49707607 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
49707560 TGGGCCCACC
49707570 ATATTAATTTTT
1 ATATTAATTTTT
49707582 ATATT-ATTTTT
1 ATATTAATTTTT
*
49707593 ATA-TAATTTTA
1 ATATTAATTTTT
49707604 ATAT
1 ATAT
49707608 ATATAATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 1 0.04
11 17 0.74
12 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:49707768 original size:30 final size:30
Alignment explanation
Indices: 49707724--49707786 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
49707714 ACTTAACAAG
*
49707724 CAAATGCCTCTAAAATAATGACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
49707754 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
49707784 CAA
1 CAA
49707787 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:49712453 original size:31 final size:31
Alignment explanation
Indices: 49712418--49712571 Score: 84
Period size: 26 Copynumber: 5.2 Consensus size: 31
49712408 TCATATAAGA
49712418 ATATTTAATATTAAGAATTTTATTAAATTAT
1 ATATTTAATATTAAGAATTTTATTAAATTAT
* *
49712449 ATATTT-TTATT-A-AATTATATTTAAA--A-
1 ATATTTAATATTAAGAATTTTA-TTAAATTAT
* *
49712475 ATAATTAAT-TT-A-AATTATATT---TTAT
1 ATATTTAATATTAAGAATTTTATTAAATTAT
* * *
49712500 AGTA-TTATATATTATG-ATTTTAGTAAATTCTAAGA
1 A-TATTTA-ATATTAAGAATTTTATTAAA-T-T-A-T
49712535 ATATTTAATATTAAGAATTTTATTAAATTAT
1 ATATTTAATATTAAGAATTTTATTAAATTAT
49712566 ATATTT
1 ATATTT
49712572 TTACTAAATT
Statistics
Matches: 93, Mismatches: 11, Indels: 38
0.65 0.08 0.27
Matches are distributed among these distances:
24 1 0.01
25 6 0.06
26 19 0.20
27 4 0.04
28 12 0.13
29 6 0.06
30 4 0.04
31 12 0.13
32 2 0.02
33 2 0.02
34 11 0.12
35 14 0.15
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (31 bp):
ATATTTAATATTAAGAATTTTATTAAATTAT
Found at i:49712512 original size:120 final size:120
Alignment explanation
Indices: 49712358--49712967 Score: 1046
Period size: 120 Copynumber: 5.1 Consensus size: 120
49712348 TTCAAATTTT
49712358 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
*
49712423 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAAAAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
*
49712478 ATTAATTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
*
49712540 TAATATTAAGAATTTTATTAAATTATATATTTTTACTAAATTATAATTTTAATAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT-A-TTTAATAATA
*
49712597 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
*
49712662 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAAAA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
* * * * *
49712717 AATATTTTAAATTATATTTTATTGTATTATATATTATGATTTTATTAAATTCGTACAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
*
49712782 TAATATTAAGAATTTTATTAAATTATATTTTTTTATTAAATTATATTTAATAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
* * *
49712837 ATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAAAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
49712902 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
*
49712957 ATTATGTTAAA
1 ATTATTTTAAA
49712968 ATATGATTAA
Statistics
Matches: 462, Mismatches: 23, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
117 53 0.11
118 1 0.00
119 60 0.13
120 294 0.64
121 1 0.00
122 53 0.11
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
Found at i:49712573 original size:18 final size:17
Alignment explanation
Indices: 49712552--49712589 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
49712542 ATATTAAGAA
*
49712552 TTTTATTAAATTATATAT
1 TTTTACTAAATTATA-AT
49712570 TTTTACTAAATTATAAT
1 TTTTACTAAATTATAAT
49712587 TTT
1 TTT
49712590 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTACTAAATTATAAT
Found at i:49712628 original size:59 final size:57
Alignment explanation
Indices: 49712360--49712868 Score: 197
Period size: 61 Copynumber: 8.5 Consensus size: 57
49712350 CAAATTTTAT
* * ** *
49712360 TATTTTAAATTATATTTTATAGTATTATA-TATTATGATTTTAGTAAATTCATATAAGAA
1 TATTTTAAATTATATTTTATAGTATTATATTTTTATTAAATTA-T-AATTTA-ATAAGAA
* * * *
49712419 TA-TTTAATATTAAGAATTTTATTA-AATTATATATTTTTATTAAATTAT-ATTTAAAAATAA
1 TATTTTAA-ATT-A-TATTTTA-TAGTA-T-TATATTTTTATTAAATTATAATTTAATAAGAA
* * * ** * *
49712479 TTAATTTAAATTATATTTTATAGTATTATA-TATTATGATTTTAGTAAATT-CTAAGAA
1 -TATTTTAAATTATATTTTATAGTATTATATTTTTATTAAATTA-TAATTTAATAAGAA
* * * *
49712536 TA-TTTAATATTAAGAATTTTATTA-AATTATATATTTTTACTAAATTATAATTTTAATAATAA
1 TATTTTAA-ATT-A-TATTTTA-TAGTA-T-TATATTTTTATTAAATTATAA-TTTAATAAGAA
* * ** * *
49712598 TTATTTTAAATTATATTTTATAGTATTATA-TATTATGATTTTAGTAAATTCATTTAAGAA
1 -TATTTTAAATTATATTTTATAGTATTATATTTTTATTAAATTA-T-AATTTA-ATAAGAA
* * *
49712658 TA-TTTAATATTAAGAATTTTATTA-AATTATATATTTTTATTAAATTAT-ATTTAATAAAAAA
1 TATTTTAA-ATT-A-TATTTTA-TAGTA-T-TATATTTTTATTAAATTATAATTTAAT-AAGAA
* * ** *
49712719 TATTTTAAATTATATTTTATTGTATTATATATTATGATTTTATTA-AATTCGT-ACAAGAA
1 TATTTTAAATTATATTTTATAGTATTATAT-TT-TTATTAAATTATAATT--TAATAAGAA
* * *
49712778 TA-TTTAATATTAAGAATTTTATTA-AATTATATTTTTTTATTAAATTAT-ATTTAATAATAA
1 TATTTTAA-ATT-A-TATTTTA-TAGTATTATA--TTTTTATTAAATTATAATTTAATAAGAA
*
49712838 TTATGTTAAATTATATTTTATAGTATTATAT
1 -TATTTTAAATTATATTTTATAGTATTATAT
49712869 ATTATGATTT
Statistics
Matches: 330, Mismatches: 67, Indels: 108
0.65 0.13 0.21
Matches are distributed among these distances:
55 5 0.02
56 14 0.04
57 16 0.05
58 42 0.13
59 68 0.21
60 35 0.11
61 82 0.25
62 29 0.09
63 16 0.05
64 23 0.07
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (57 bp):
TATTTTAAATTATATTTTATAGTATTATATTTTTATTAAATTATAATTTAATAAGAA
Found at i:49712815 original size:18 final size:18
Alignment explanation
Indices: 49712794--49712829 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
49712784 ATATTAAGAA
49712794 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
49712812 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
49712830 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:49713196 original size:45 final size:44
Alignment explanation
Indices: 49713107--49713202 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 44
49713097 ATTACAACAT
* *
49713107 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACGCCTCAATTC
* * *
49713151 CATTACATTCAACCAAACA-ATTGAATTACTATTATGCTTCAATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACGCCTCAATTC
*
49713196 CACTACA
1 CATTACA
49713203 GCTCTATTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 22 0.50
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.30
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCCTCAATTC
Found at i:49713215 original size:32 final size:32
Alignment explanation
Indices: 49713179--49713248 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
49713169 AATTGAATTA
* *
49713179 CTATTATGCTTCAATTCCACTACAGCTCTATT
1 CTATTATACCTCAATTCCACTACAGCTCTATT
* * *
49713211 CTATTATACCTCTATTTCATTACAGCTCTATT
1 CTATTATACCTCAATTCCACTACAGCTCTATT
*
49713243 CCATTA
1 CTATTA
49713249 CAGCGAACTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.27, G:0.04, T:0.43
Consensus pattern (32 bp):
CTATTATACCTCAATTCCACTACAGCTCTATT
Found at i:49713251 original size:16 final size:16
Alignment explanation
Indices: 49713192--49713252 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
49713182 TTATGCTTCA
*
49713192 ATTCCACTACAGCTCT
1 ATTCCATTACAGCTCT
* * *
49713208 ATTCTATTATACCTCT
1 ATTCCATTACAGCTCT
*
49713224 ATTTCATTACAGCTCT
1 ATTCCATTACAGCTCT
49713240 ATTCCATTACAGC
1 ATTCCATTACAGC
49713253 GAACTAAACG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.26, C:0.30, G:0.05, T:0.39
Consensus pattern (16 bp):
ATTCCATTACAGCTCT
Found at i:49719499 original size:21 final size:21
Alignment explanation
Indices: 49719473--49719513 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49719463 ATCTGCTCAA
* *
49719473 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
49719494 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
49719514 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:49727882 original size:23 final size:23
Alignment explanation
Indices: 49727843--49727898 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
49727833 GGTATTAAAA
*
49727843 TAATATAATCAAGTATTATTATAT
1 TAAT-TAATCAAATATTATTATAT
*
49727867 TAATTAATCAAATATTGTTATAT
1 TAATTAATCAAATATTATTATAT
49727890 TAATTAATC
1 TAATTAATC
49727899 TAAAACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (23 bp):
TAATTAATCAAATATTATTATAT
Found at i:49731203 original size:23 final size:23
Alignment explanation
Indices: 49731176--49731228 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
49731166 TTCTAATTTT
*
49731176 ATTAAAGTCATGGCAACTTTACC
1 ATTAAAGTCATGACAACTTTACC
* *
49731199 GTTAAAGTTATGACAACTTTACC
1 ATTAAAGTCATGACAACTTTACC
49731222 ATTAAAG
1 ATTAAAG
49731229 AATATATGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (23 bp):
ATTAAAGTCATGACAACTTTACC
Found at i:49734938 original size:22 final size:25
Alignment explanation
Indices: 49734892--49734938 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 25
49734882 AAAGTGATAG
49734892 GTGAAATGTATAATAAGAATTATTA
1 GTGAAATGTATAATAAGAATTATTA
*
49734917 GTGAAAT-TATGA-AAG-ATTATTA
1 GTGAAATGTATAATAAGAATTATTA
49734939 AATATTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 3 0.14
24 4 0.19
25 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (25 bp):
GTGAAATGTATAATAAGAATTATTA
Found at i:49737492 original size:31 final size:31
Alignment explanation
Indices: 49737425--49737492 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
49737415 GTTAGAAATT
**
49737425 TTATTTTTTGACTAGTCGAAATTAAATTGTA
1 TTATTTTTTGACTAGTAAAAATTAAATTGTA
* *
49737456 -TATTTTTATGA-TAGTAAAAATTTAATTTTA
1 TTATTTTT-TGACTAGTAAAAATTAAATTGTA
49737486 TTATTTT
1 TTATTTT
49737493 AATAGCTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (31 bp):
TTATTTTTTGACTAGTAAAAATTAAATTGTA
Found at i:49738594 original size:14 final size:14
Alignment explanation
Indices: 49738575--49738604 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
49738565 GTCATTTAGG
49738575 CCAACCAAACTGGC
1 CCAACCAAACTGGC
49738589 CCAACCAAACTGGC
1 CCAACCAAACTGGC
49738603 CC
1 CC
49738605 GGTGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:49743709 original size:14 final size:14
Alignment explanation
Indices: 49743690--49743719 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
49743680 GTCATTTAGG
49743690 CCAACCAAACTGGC
1 CCAACCAAACTGGC
49743704 CCAACCAAACTGGC
1 CCAACCAAACTGGC
49743718 CC
1 CC
49743720 GGTGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:49746298 original size:57 final size:60
Alignment explanation
Indices: 49746178--49746299 Score: 141
Period size: 57 Copynumber: 2.1 Consensus size: 60
49746168 AATATTAATG
* *
49746178 ACTAATTTGGACCAAGAAAATGTTCAAATCCCAATGTGAGAATGATTGTCAAATTTAGAA
1 ACTAATTTGGACCAAGAAAATATTCAAATCCCAATGTGAGAATAATTGTCAAATTTAGAA
49746238 ACTAATTTGG-CCAA-AAAA-ATTCAAA-CCCTAATGT-AGCAATAATTG-CAAAGTTTA-AGA
1 ACTAATTTGGACCAAGAAAATATTCAAATCCC-AATGTGAG-AATAATTGTCAAA-TTTAGA-A
49746295 ACTAA
1 ACTAA
49746300 CTTGAATAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
56 10 0.18
57 28 0.50
58 4 0.07
59 4 0.07
60 10 0.18
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (60 bp):
ACTAATTTGGACCAAGAAAATATTCAAATCCCAATGTGAGAATAATTGTCAAATTTAGAA
Found at i:49755112 original size:6 final size:6
Alignment explanation
Indices: 49755094--49755129 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
49755084 GGTTTTCTCC
* *
49755094 AAAATG GAAATG AAGATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
49755130 GAGAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:49761427 original size:30 final size:31
Alignment explanation
Indices: 49761395--49761463 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
49761385 AATTATAAAT
*
49761395 AAATATATGATAAAATCTTT-TAAAAATAATA
1 AAAT-TATAATAAAATCTTTCTAAAAATAATA
** *
49761426 AAATTATAATTTAATCTTTCTAAAAATTATA
1 AAATTATAATAAAATCTTTCTAAAAATAATA
49761457 AAATTAT
1 AAATTAT
49761464 GAGTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 12 0.36
31 21 0.64
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (31 bp):
AAATTATAATAAAATCTTTCTAAAAATAATA
Found at i:49761512 original size:22 final size:22
Alignment explanation
Indices: 49761473--49761515 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
49761463 TGAGTTTATA
*
49761473 ATAAAAAAATACATTTTAATTC
1 ATAAAAAAATACAATTTAATTC
* *
49761495 ATAAAAAATTATAATTTAATT
1 ATAAAAAAATACAATTTAATT
49761516 TTTACACTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAAAAAATACAATTTAATTC
Found at i:49763261 original size:3 final size:3
Alignment explanation
Indices: 49763255--49763304 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
49763245 AACAAGATTA
* *
49763255 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAG AAT AAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
49763303 AA
1 AA
49763305 AGGTTGGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:49770154 original size:19 final size:19
Alignment explanation
Indices: 49770130--49770167 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
49770120 AGCAGCTCAA
49770130 AGTGTATGTGTTGGATAAT
1 AGTGTATGTGTTGGATAAT
49770149 AGTGTATGTGTTGGATAAT
1 AGTGTATGTGTTGGATAAT
49770168 GTGGAACAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
AGTGTATGTGTTGGATAAT
Found at i:49778111 original size:151 final size:151
Alignment explanation
Indices: 49777837--49778112 Score: 471
Period size: 151 Copynumber: 1.8 Consensus size: 151
49777827 CTATTCACTT
* * *
49777837 TCACGAGTCTGCTCACACAAGCTGTCAGTCTTTCGTTACTACTCAGTGCTGCTCACACAAGCTGT
1 TCACGAGCCTACTCACACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGT
* ** *
49777902 CAGGTATCTGCAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACTAGCACCCAAGTT
66 CAAGTATCCACAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCCAAGTT
49777967 CACATTAATCACAATTTCGCA
131 CACATTAATCACAATTTCGCA
*
49777988 TCACGAGCCTACTCATACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGT
1 TCACGAGCCTACTCACACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGT
*
49778053 CAAGTATCCACAACATATGCCGGTATACCCAGCCACTGGTAGAACTTATGACCAGCACCC
66 CAAGTATCCACAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCC
49778113 GGATCCACTT
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 116 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (151 bp):
TCACGAGCCTACTCACACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGT
CAAGTATCCACAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCCAAGTT
CACATTAATCACAATTTCGCA
Found at i:49781228 original size:25 final size:23
Alignment explanation
Indices: 49781195--49781240 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
49781185 AATTAATAAC
*
49781195 ATTATAAATTATAATATCTAAATAT
1 ATTAGAAATTA-AATATC-AAATAT
49781220 ATTAGAAATTAAATATCAAAT
1 ATTAGAAATTAAATATCAAAT
49781241 TTTAACATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 6 0.30
25 10 0.50
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTAGAAATTAAATATCAAATAT
Found at i:49782083 original size:13 final size:13
Alignment explanation
Indices: 49782067--49782114 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
49782057 TAAACTAAAT
49782067 TTTTCAAAAATAC
1 TTTTCAAAAATAC
* *
49782080 TTTTTC-ATAACAC
1 -TTTTCAAAAATAC
*
49782093 TTTTCAAAAATAT
1 TTTTCAAAAATAC
49782106 TTTTCAAAA
1 TTTTCAAAA
49782115 GTAACGAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 5 0.18
13 18 0.64
14 5 0.18
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTTCAAAAATAC
Found at i:49784209 original size:10 final size:11
Alignment explanation
Indices: 49784196--49784239 Score: 58
Period size: 10 Copynumber: 4.2 Consensus size: 11
49784186 ATTGAAAAAG
49784196 AATAATAA-AA
1 AATAATAATAA
49784206 AATACATAATAA
1 AATA-ATAATAA
49784218 AATAA-AATAA
1 AATAATAATAA
49784228 AATAA-AATAA
1 AATAATAATAA
49784238 AA
1 AA
49784240 GATATAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 21 0.66
11 5 0.16
12 6 0.19
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (11 bp):
AATAATAATAA
Found at i:49784223 original size:5 final size:5
Alignment explanation
Indices: 49784213--49784239 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
49784203 AAAAATACAT
49784213 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
49784240 GATATAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:49784777 original size:18 final size:19
Alignment explanation
Indices: 49784734--49784777 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
49784724 AAATTTCTTT
*
49784734 TTTTTTTCCAAATTTTTAA
1 TTTTTTTCCAAATTTTCAA
*
49784753 TTTTTTT-CAACTTTTCAA
1 TTTTTTTCCAAATTTTCAA
49784771 TTTTTTT
1 TTTTTTT
49784778 AAAAATAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTTTCCAAATTTTCAA
Found at i:49787591 original size:20 final size:20
Alignment explanation
Indices: 49787568--49787612 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
49787558 TTTAGAATAT
*
49787568 AAAAAATTAAATTAAAAACA
1 AAAAAATTAAAATAAAAACA
* *
49787588 AAAATATTAAAATAAAAATA
1 AAAAAATTAAAATAAAAACA
49787608 AAAAA
1 AAAAA
49787613 TGGCTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAAAATTAAAATAAAAACA
Found at i:49791970 original size:51 final size:51
Alignment explanation
Indices: 49791912--49792098 Score: 198
Period size: 51 Copynumber: 3.7 Consensus size: 51
49791902 TCGGTTCACA
* * *
49791912 TAGTAGCCTGCACATAGTGCCACACATGTGACCATTACCATCTGATACACG
1 TAGTAGCCTGCACATAGTACCACACACGTGACCATTACCATCTGGTACACG
* * ** * *
49791963 TAGTAGCCTACACATAGTACCACACACGTGATCAAAACTATCTGGTACACA
1 TAGTAGCCTGCACATAGTACCACACACGTGACCATTACCATCTGGTACACG
* * * * * *
49792014 TAGTAGTCTGCACATAGTACTACACATGCGACC--TACCATTCCGGTACATG
1 TAGTAGCCTGCACATAGTACCACACACGTGACCATTACCA-TCTGGTACACG
* *
49792064 TAGTAGCCTGCATATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACCACACACGTGACCAT
49792099 CACTTTCACT
Statistics
Matches: 109, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
49 3 0.03
50 37 0.34
51 69 0.63
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACCACACACGTGACCATTACCATCTGGTACACG
Found at i:49792118 original size:101 final size:101
Alignment explanation
Indices: 49791908--49792097 Score: 238
Period size: 101 Copynumber: 1.9 Consensus size: 101
49791898 ATGTTCGGTT
* * *
49791908 CACATAGTAGCCTGCACATAGTGCCACACATGTGACCATTACCATCTGATACACGTAGTAGCCTA
1 CACATAGTAGCCTGCACATAGTACCACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTA
* **
49791973 CACATAGTACCACACACGTGATCAAAACTATCTGGTA
65 CACATAGTACCACACACGTGACCAAAACTATCACGTA
* * * * *
49792010 CACATAGTAGTCTGCACATAGTACTACACATGCGACC-TACCATTCCGGTACATGTAGTAGCCTG
1 CACATAGTAGCCTGCACATAGTACCACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTA
* *
49792074 CATATAGTACTACACACGTGACCA
65 CACATAGTACCACACACGTGACCA
49792098 TCACTTTCAC
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
100 5 0.07
101 38 0.50
102 33 0.43
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAGTACCACACATGCGACCATACCATCCGATACACGTAGTAGCCTAC
ACATAGTACCACACACGTGACCAAAACTATCACGTA
Found at i:49793416 original size:16 final size:15
Alignment explanation
Indices: 49793395--49793455 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
49793385 CGTTTGGTTC
49793395 ACTGTAATGAAATAGA
1 ACTGTAATG-AATAGA
49793411 ACTGTAATTGAATAGA
1 ACTGTAA-TGAATAGA
* *
49793427 GCTGTAATGGAATAAA
1 ACTGTAAT-GAATAGA
*
49793443 ACTGTAATCAATA
1 ACTGTAATGAATA
49793456 ATTCCATTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
15 5 0.13
16 32 0.82
17 2 0.05
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (15 bp):
ACTGTAATGAATAGA
Found at i:49793485 original size:46 final size:44
Alignment explanation
Indices: 49793432--49793525 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
49793422 ATAGAGCTGT
49793432 AATGGAATAAAACTGTAATCAATAATTCCAT-TGTTTGGTTGAATGA
1 AATGGAATAAAACTGTAAT-AAT-ATT-CATGTGTTTGGTTGAATGA
* * * *
49793478 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAAAACTGTAATAATATTCATGTGTTTGGTTGAATGA
49793522 AATG
1 AATG
49793526 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.05
44 21 0.49
45 2 0.05
46 18 0.42
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.36
Consensus pattern (44 bp):
AATGGAATAAAACTGTAATAATATTCATGTGTTTGGTTGAATGA
Found at i:49798980 original size:48 final size:48
Alignment explanation
Indices: 49798925--49799017 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
49798915 TGAGGGTTAT
49798925 GGTCTTGAAGGGTTTGTATTAGGTACAGTTCTTTCTCCTCATCCTTTC
1 GGTCTTGAAGGGTTTGTATTAGGTACAGTTCTTTCTCCTCATCCTTTC
*
49798973 GGTCTTGAAGGGTTTGTATTAGGTATAGTTCTTTCTCCTCATCCT
1 GGTCTTGAAGGGTTTGTATTAGGTACAGTTCTTTCTCCTCATCCT
49799018 ATCATCATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (48 bp):
GGTCTTGAAGGGTTTGTATTAGGTACAGTTCTTTCTCCTCATCCTTTC
Found at i:49808408 original size:14 final size:15
Alignment explanation
Indices: 49808384--49808428 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
49808374 GAGGGAGAAA
*
49808384 AATATGAAGAAAAAG
1 AATAAGAAGAAAAAG
49808399 -ATAAGAAGAAAAAG
1 AATAAGAAGAAAAAG
*
49808413 AATGAGAAGGAAAAAG
1 AATAAGAA-GAAAAAG
49808429 GTAAAGACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 13 0.50
15 6 0.23
16 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (15 bp):
AATAAGAAGAAAAAG
Found at i:49808682 original size:30 final size:31
Alignment explanation
Indices: 49808617--49808682 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
49808607 TGTTAGTAGT
*
49808617 TGACTGATTTGTCACTTTTCGATAACGTTAG
1 TGACTGATTTGTCACTTTTCGATAACGTGAG
*
49808648 TGACTGATTTGTCATTTTTCGA-AA-GCTGAG
1 TGACTGATTTGTCACTTTTCGATAACG-TGAG
49808678 TGACT
1 TGACT
49808683 AAATTGAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 1 0.03
30 10 0.31
31 21 0.66
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (31 bp):
TGACTGATTTGTCACTTTTCGATAACGTGAG
Found at i:49815326 original size:19 final size:19
Alignment explanation
Indices: 49815299--49815350 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
49815289 AAATATAAAA
49815299 TTTGAAATTTTTATAAATAT
1 TTTGAAATTTTT-TAAATAT
49815319 TTTG-AA-TTTTTAAATAT
1 TTTGAAATTTTTTAAATAT
*
49815336 TATTGTAATTTTTTA
1 T-TTGAAATTTTTTA
49815351 TTGTAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.28
18 7 0.24
19 4 0.14
20 10 0.34
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTGAAATTTTTTAAATAT
Found at i:49815332 original size:17 final size:19
Alignment explanation
Indices: 49815307--49815348 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
49815297 AATTTGAAAT
49815307 TTTTATAAATATT-TTG-AA
1 TTTT-TAAATATTATTGTAA
49815325 TTTTTAAATATTATTGTAA
1 TTTTTAAATATTATTGTAA
49815344 TTTTT
1 TTTTT
49815349 TATTGTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 7 0.32
19 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTTAAATATTATTGTAA
Found at i:49815366 original size:12 final size:13
Alignment explanation
Indices: 49815335--49815361 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49815325 TTTTTAAATA
49815335 TTATTGTAATTTT
1 TTATTGTAATTTT
49815348 TTATTGTAATTTT
1 TTATTGTAATTTT
49815361 T
1 T
49815362 GTTGTGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTATTGTAATTTT
Found at i:49821590 original size:20 final size:20
Alignment explanation
Indices: 49821565--49821603 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
49821555 GATGTGGCGG
49821565 TATAATGTGGGGAAATCCCA
1 TATAATGTGGGGAAATCCCA
49821585 TATAATGTGGGGAAATCCC
1 TATAATGTGGGGAAATCCC
49821604 TTGTACTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (20 bp):
TATAATGTGGGGAAATCCCA
Found at i:49824570 original size:38 final size:38
Alignment explanation
Indices: 49824514--49824588 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
49824504 TCTAACTTCC
* *
49824514 TTTTGCTTGTTAATAGCTTCTTTAAGAATTTTACATAA
1 TTTTGCTTGTTAACAGCTTCTTTAAAAATTTTACATAA
*
49824552 TTTTGTTTGTTAACAGCTTCTTTAAAAATTTTACATA
1 TTTTGCTTGTTAACAGCTTCTTTAAAAATTTTACATA
49824589 CTTTGACATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (38 bp):
TTTTGCTTGTTAACAGCTTCTTTAAAAATTTTACATAA
Found at i:49831261 original size:43 final size:43
Alignment explanation
Indices: 49831137--49831266 Score: 170
Period size: 43 Copynumber: 3.0 Consensus size: 43
49831127 ATGCCGCTAT
* * **
49831137 AGAACATGACATGTAGCGGCGCTTTTATCACAAACGCCACTAA
1 AGAACATGACATTTAGCGGCGCTTTTATCACAAACACCGTTAA
* ** *
49831180 AGAACATGACATTTCGCAACACTTTTATCACAAACACCGTTAA
1 AGAACATGACATTTAGCGGCGCTTTTATCACAAACACCGTTAA
* *
49831223 AGAACATGACCTTTAGTGGCGCTTTTATCACAAACACCGTTAA
1 AGAACATGACATTTAGCGGCGCTTTTATCACAAACACCGTTAA
49831266 A
1 A
49831267 AGTACCGTTC
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
AGAACATGACATTTAGCGGCGCTTTTATCACAAACACCGTTAA
Found at i:49846063 original size:41 final size:42
Alignment explanation
Indices: 49846014--49846096 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
49846004 AAAAAAACGA
* *
49846014 TACTATTGCTCGAC-TTTTAGCGGCGTTTAG-ACCAAAAATGC
1 TACTATTGCTCAACTTTTTAGCGGCGTTT-GCAACAAAAATGC
*
49846055 TACTATTGCTCAACTTTTTTGCGGCGTTTGCAACAAAAATGC
1 TACTATTGCTCAACTTTTTAGCGGCGTTTGCAACAAAAATGC
49846097 CGCTATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 14 0.38
42 23 0.62
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (42 bp):
TACTATTGCTCAACTTTTTAGCGGCGTTTGCAACAAAAATGC
Found at i:49846648 original size:8 final size:7
Alignment explanation
Indices: 49846630--49846828 Score: 50
Period size: 7 Copynumber: 28.0 Consensus size: 7
49846620 TACTATTAAT
49846630 CTAAACC
1 CTAAACC
49846637 CTAAACCC
1 CTAAA-CC
49846645 CT-AACTC
1 CTAAAC-C
**
49846652 CTATCCC
1 CTAAACC
*
49846659 CTAAATC
1 CTAAACC
*
49846666 CTAAATC
1 CTAAACC
* *
49846673 ATAAAAC
1 CTAAACC
*
49846680 ATAAACCC
1 CTAAA-CC
*
49846688 CTAACCC
1 CTAAACC
*
49846695 CTAACCC
1 CTAAACC
49846702 CTAAACC
1 CTAAACC
*
49846709 C-CAACTC
1 CTAAAC-C
*
49846716 TTAAACC
1 CTAAACC
*
49846723 AT-AACC
1 CTAAACC
*
49846729 AT-AACC
1 CTAAACC
*
49846735 CATAATCC
1 C-TAAACC
49846743 CTAAACC
1 CTAAACC
*
49846750 CATAATCC
1 C-TAAACC
*
49846758 TTAAACC
1 CTAAACC
*
49846765 TTAAA--
1 CTAAACC
*
49846770 ATAGTAACTC
1 CTA--AAC-C
*
49846780 TTAAACC
1 CTAAACC
*
49846787 TTAAACC
1 CTAAACC
49846794 CTAAACC
1 CTAAACC
* *
49846801 ATATACC
1 CTAAACC
*
49846808 CTAAATC
1 CTAAACC
* *
49846815 ATATACC
1 CTAAACC
49846822 CTAAACC
1 CTAAACC
49846829 ATAGAGCCTA
Statistics
Matches: 144, Mismatches: 34, Indels: 28
0.70 0.17 0.14
Matches are distributed among these distances:
5 2 0.01
6 14 0.10
7 102 0.71
8 24 0.17
10 2 0.01
ACGTcount: A:0.41, C:0.36, G:0.01, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:49846726 original size:43 final size:43
Alignment explanation
Indices: 49846627--49846750 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 43
49846617 AAATACTATT
* * * * *
49846627 AATC-TAAACCCTAAACCCCTAACTCCTATCCCCTAAATCCTA
1 AATCATAAACCATAAACCCCTAACCCCTAACCCCTAAACCCCA
*
49846669 AATCATAAAACATAAACCCCTAACCCCTAACCCCTAAACCCCA
1 AATCATAAACCATAAACCCCTAACCCCTAACCCCTAAACCCCA
* * * * *
49846712 ACTCTTAAACCAT-AA-CCATAACCCATAATCCCTAAACCC
1 AATCATAAACCATAAACCCCTAACCCCTAACCCCTAAACCC
49846751 ATAATCCTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 21 0.30
42 6 0.09
43 42 0.61
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.19
Consensus pattern (43 bp):
AATCATAAACCATAAACCCCTAACCCCTAACCCCTAAACCCCA
Found at i:49846751 original size:15 final size:15
Alignment explanation
Indices: 49846731--49846764 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
49846721 CCATAACCAT
49846731 AACCCATAATCCCTA
1 AACCCATAATCCCTA
*
49846746 AACCCATAATCCTTA
1 AACCCATAATCCCTA
49846761 AACC
1 AACC
49846765 TTAAAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCATAATCCCTA
Found at i:49846800 original size:14 final size:14
Alignment explanation
Indices: 49846781--49846841 Score: 77
Period size: 14 Copynumber: 4.4 Consensus size: 14
49846771 TAGTAACTCT
* *
49846781 TAAACCTTAAACCC
1 TAAACCATATACCC
49846795 TAAACCATATACCC
1 TAAACCATATACCC
*
49846809 TAAATCATATACCC
1 TAAACCATATACCC
* *
49846823 TAAACCATAGAGCC
1 TAAACCATATACCC
49846837 TAAAC
1 TAAAC
49846842 TATAATGATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.44, C:0.31, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAACCATATACCC
Found at i:49847221 original size:40 final size:40
Alignment explanation
Indices: 49847163--49847258 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
49847153 CGTTTTTGAT
* * *
49847163 AAAGCGCCGCCAAAGCTCGATCTATAGCGGCATTTTTCAA
1 AAAGCGCCGCTAATGCTCGATCTACAGCGGCATTTTTCAA
* *** *
49847203 AAAGCACCGCTAATGCTCGATCTACATTTGCGTTTTTCAA
1 AAAGCGCCGCTAATGCTCGATCTACAGCGGCATTTTTCAA
49847243 AAAGCGCCGCTAATGC
1 AAAGCGCCGCTAATGC
49847259 CACTAAAGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTCGATCTACAGCGGCATTTTTCAA
Found at i:49847353 original size:38 final size:39
Alignment explanation
Indices: 49847298--49847384 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 39
49847288 ATTTTTTTGT
* * *
49847298 GGCATTTTTCAAGAAGCG-GCTAATGGTCGACCTATAGC
1 GGCATTTTTCAAAAAGCGCGCTAATGCTCAACCTATAGC
*
49847336 GGCATTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGC
1 GGCATTTTTCAAAAAGCG-CGCTAATGCTCAACCTATAGC
49847376 GGCATTTTT
1 GGCATTTTT
49847385 TATCCAAACG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 17 0.40
40 26 0.60
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (39 bp):
GGCATTTTTCAAAAAGCGCGCTAATGCTCAACCTATAGC
Found at i:49849765 original size:20 final size:18
Alignment explanation
Indices: 49849740--49849779 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
49849730 ATGAAATGAA
49849740 ATATTTAATATAAATAATAT
1 ATATTT-ATAT-AATAATAT
49849760 ATATTTATATAATAATAT
1 ATATTTATATAATAATAT
49849778 AT
1 AT
49849780 GTAAAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 4 0.20
20 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTATATAATAATAT
Found at i:49851454 original size:18 final size:17
Alignment explanation
Indices: 49851416--49851453 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
49851406 ACTTTTGGAC
49851416 TTTTAATTTATTTTTAAT
1 TTTTAATTTATTTTT-AT
*
49851434 TTTTAATTT-TATTTAT
1 TTTTAATTTATTTTTAT
49851450 TTTT
1 TTTT
49851454 TGTAAGGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 4 0.21
18 9 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTAATTTATTTTTAT
Found at i:49853649 original size:17 final size:17
Alignment explanation
Indices: 49853624--49853656 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49853614 GGATCTTTTT
*
49853624 TTTTTAGGTTGTTTTGG
1 TTTTAAGGTTGTTTTGG
49853641 TTTTAAGGTTGTTTTG
1 TTTTAAGGTTGTTTTG
49853657 AATCTCAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.27, T:0.64
Consensus pattern (17 bp):
TTTTAAGGTTGTTTTGG
Found at i:49864079 original size:22 final size:22
Alignment explanation
Indices: 49864049--49864098 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
49864039 GGGTAAAGAG
*
49864049 AAGGCTAGGATGTGATGGGTGA
1 AAGGTTAGGATGTGATGGGTGA
*
49864071 AAGGTTAGGATTTGATGGGTGA
1 AAGGTTAGGATGTGATGGGTGA
49864093 AAGGTT
1 AAGGTT
49864099 TTTGTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.02, G:0.42, T:0.28
Consensus pattern (22 bp):
AAGGTTAGGATGTGATGGGTGA
Found at i:49864200 original size:21 final size:22
Alignment explanation
Indices: 49864176--49864222 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
49864166 GTTTTTTTTA
* *
49864176 GGTGAAAAGTT-TGATTTGATG
1 GGTGAAAAGTTAGGATGTGATG
*
49864197 GGTGAAAGGTTAGGATGTGATG
1 GGTGAAAAGTTAGGATGTGATG
49864219 GGTG
1 GGTG
49864223 TAAGGGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.26, C:0.00, G:0.43, T:0.32
Consensus pattern (22 bp):
GGTGAAAAGTTAGGATGTGATG
Found at i:49879694 original size:21 final size:19
Alignment explanation
Indices: 49879655--49879732 Score: 61
Period size: 19 Copynumber: 3.9 Consensus size: 19
49879645 GTATGTAATG
49879655 TATAAAAAAAATTTAAAAA
1 TATAAAAAAAATTTAAAAA
49879674 TATAAAAAATAATTTTTAAAAA
1 TATAAAAAA-AA--TTTAAAAA
* *
49879696 T-TAGAAAATA-TTAAAAA
1 TATAAAAAAAATTTAAAAA
* *
49879713 TTTGAAAATAAATTTCAAAA
1 TAT-AAAAAAAATTT-AAAA
49879733 GAGAAGCTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
17 8 0.17
18 1 0.02
19 14 0.30
20 5 0.11
21 10 0.21
22 9 0.19
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (19 bp):
TATAAAAAAAATTTAAAAA
Found at i:49879694 original size:22 final size:20
Alignment explanation
Indices: 49879655--49879713 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
49879645 GTATGTAATG
49879655 TATAAAAAA-AATTTAAAAA
1 TATAAAAAATAATTTAAAAA
49879674 TATAAAAAATAATTTTTAAAAA
1 TATAAAAAATAA--TTTAAAAA
*
49879696 T-TAGAAAAT-A-TTAAAAA
1 TATAAAAAATAATTTAAAAA
49879713 T
1 T
49879714 TTGAAAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 8 0.22
19 9 0.25
20 3 0.08
21 7 0.19
22 9 0.25
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
TATAAAAAATAATTTAAAAA
Found at i:49879711 original size:17 final size:17
Alignment explanation
Indices: 49879689--49879722 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49879679 AAAATAATTT
49879689 TTAAAAATTAGAAAATA
1 TTAAAAATTAGAAAATA
*
49879706 TTAAAAATTTGAAAATA
1 TTAAAAATTAGAAAATA
49879723 AATTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
TTAAAAATTAGAAAATA
Found at i:49882054 original size:32 final size:29
Alignment explanation
Indices: 49881984--49882064 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
49881974 TTGTCTATTT
* * *
49881984 AATTTGTTTTAAATAATAATAATAAAATAA
1 AATTTGTTTTAAATAA-AAAAACAAAAGAA
49882014 AATTTGTTTTAAATAAAAAAACCAAAAGGATA
1 AATTTGTTTTAAATAAAAAAA-CAAAA-GA-A
*
49882046 AATTTGTTTTAAATGAAAA
1 AATTTGTTTTAAATAAAAA
49882065 GTCATTTTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 4 0.09
30 20 0.45
31 1 0.02
32 19 0.43
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.36
Consensus pattern (29 bp):
AATTTGTTTTAAATAAAAAAACAAAAGAA
Found at i:49885972 original size:36 final size:35
Alignment explanation
Indices: 49885906--49885981 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 35
49885896 TAAAAAATAG
* * * *
49885906 TAAAAAAATATTCAAATTATGTATACTAGTAAAAA
1 TAAAAAAAAAATCAAATTAAGAATACTAGTAAAAA
* *
49885941 TTAAAAAAAAAATCAAATTAAGAATATTAGTAACAA
1 -TAAAAAAAAAATCAAATTAAGAATACTAGTAAAAA
49885977 TAAAA
1 TAAAA
49885982 TATTTACAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 5 0.15
36 29 0.85
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (35 bp):
TAAAAAAAAAATCAAATTAAGAATACTAGTAAAAA
Found at i:49890120 original size:20 final size:22
Alignment explanation
Indices: 49890085--49890124 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
49890075 CTTTTGAAAT
49890085 TTAATTTTTATATTTAAAAAAA
1 TTAATTTTTATATTTAAAAAAA
49890107 TTAA-TTTT-TATTTAAAAA
1 TTAATTTTTATATTTAAAAA
49890125 TCTCAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATTTTTATATTTAAAAAAA
Found at i:49891241 original size:9 final size:10
Alignment explanation
Indices: 49891220--49891245 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
49891210 TGAAAAATAG
49891220 AAAATTTTAA
1 AAAATTTTAA
49891230 AAAATTTTAA
1 AAAATTTTAA
49891240 AAAATT
1 AAAATT
49891246 CTTTAAGAAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:49896790 original size:21 final size:22
Alignment explanation
Indices: 49896764--49896810 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
49896754 CTCTGCTCAA
*
49896764 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
49896785 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
49896807 ACTC
1 ACTC
49896811 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:49901976 original size:12 final size:12
Alignment explanation
Indices: 49901959--49901989 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
49901949 TAGGTAAATA
49901959 ATATATATACAT
1 ATATATATACAT
49901971 ATATATATACAT
1 ATATATATACAT
49901983 ATATATA
1 ATATATA
49901990 ACTTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATATACAT
Found at i:49903625 original size:44 final size:44
Alignment explanation
Indices: 49903576--49903695 Score: 151
Period size: 40 Copynumber: 2.8 Consensus size: 44
49903566 ATCTTCGACT
* * * *
49903576 TGCTCCACTATTACTTAGGGAGATAAGATCTGGTTTCTTTCG-TC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTATGT-GATC
*
49903620 TGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGTGATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTATGTGATC
49903660 TGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTT
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTT
49903696 TCTTCACTCT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
39 1 0.02
40 34 0.52
41 1 0.02
43 1 0.02
44 28 0.43
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (44 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTATGTGATC
Found at i:49903850 original size:46 final size:46
Alignment explanation
Indices: 49903800--49903993 Score: 121
Period size: 46 Copynumber: 4.3 Consensus size: 46
49903790 ATCTGCTTCG
*
49903800 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATTTATTCCA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATTTATTCCA
* * * * ** * * *
49903846 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCT
1 CTGCCAAATACAGGAAGACA-AGATCTGCAATCTTCAATTTATTCCA
* * * ** * * * ** *
49903891 CTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT-CG
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAAT-TTATTCCA
* *
49903934 CTGCCAAATACAGAAAGACAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATTTATTCCA
49903980 CTGCCAAATACAGG
1 CTGCCAAATACAGG
49903994 GAGATAGAAT
Statistics
Matches: 102, Mismatches: 38, Indels: 16
0.65 0.24 0.10
Matches are distributed among these distances:
41 3 0.03
42 10 0.10
43 12 0.12
44 1 0.01
45 19 0.19
46 53 0.52
47 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATTTATTCCA
Found at i:49903851 original size:134 final size:134
Alignment explanation
Indices: 49903696--49905040 Score: 2426
Period size: 134 Copynumber: 10.1 Consensus size: 134
49903686 GATCTGGTTT
* * * * *
49903696 TCTTCACTCTATTCTACTGCCAAACACAGGGAGATAGAGTTATCGGCTTCAATGCACTCCACTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
49903761 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
49903826 GCAA
131 GCAA
*
49903830 TCTTCAATTTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
* *
49903895 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGAAAGACAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
49903960 GCAA
131 GCAA
* *
49903964 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
* * *
49904029 AGTCAGTGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
49904094 GCAA
131 GCAA
* *
49904098 TCTTCAATCTATTCCACTGCC-AA-CCAGGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
*
49904161 AGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
49904226 GCAA
131 GCAA
49904230 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
*
49904295 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGTTGCCAAATACAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
49904360 GCAA
131 GCAA
49904364 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
49904429 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
49904494 GCAA
131 GCAA
49904498 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
49904563 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
49904628 GCAA
131 GCAA
49904632 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
* *
49904697 AGTCAGGGAGGTAAAATCTTCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCC
66 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
49904762 GCAA
131 GCAA
* *
49904766 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTAT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
*
49904831 AGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
49904896 GCAA
131 GCAA
* *
49904900 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTAT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
* *
49904965 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGGTCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
49905030 G-ATA
131 GCA-A
49905034 TCTTCAA
1 TCTTCAA
49905041 CCAGCTCTAC
Statistics
Matches: 1169, Mismatches: 39, Indels: 6
0.96 0.03 0.00
Matches are distributed among these distances:
132 122 0.10
133 5 0.00
134 1042 0.89
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (134 bp):
TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGT
AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
GCAA
Found at i:49905124 original size:86 final size:86
Alignment explanation
Indices: 49904988--49905337 Score: 529
Period size: 86 Copynumber: 4.1 Consensus size: 86
49904978 AAATCTGCCA
* * *
49904988 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGGTCTGATATCTTCAACCAGCTCTACTA
1 TCTTCGATCTGCTTCGCTGTC-AATACAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
49905053 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* * * *
49905075 TCTTCGATCTACTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
49905140 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * *
49905161 TCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
49905226 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * *
49905247 TCTTCGATCTGCTTCACTGTCAATACAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* * *
49905312 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
49905333 TCTTC
1 TCTTC
49905338 AATTTTTACT
Statistics
Matches: 242, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
86 223 0.92
87 19 0.08
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:49905283 original size:42 final size:42
Alignment explanation
Indices: 49905150--49905283 Score: 96
Period size: 42 Copynumber: 3.1 Consensus size: 42
49905140 AAACGAGAGT
* * *
49905150 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAA
1 GGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATACAGGAA
* * * * * * *
49905192 GGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGAGT
1 GGCAAGGT-T--TGTCTTCGATCTGCTTC-ACTGTCAATACAG-GA-A
49905236 GGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATACAGGAA
1 GGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATACAGGAA
49905278 GGCAAG
1 GGCAAG
49905284 ATCTGATAAC
Statistics
Matches: 65, Mismatches: 17, Indels: 20
0.64 0.17 0.20
Matches are distributed among these distances:
41 13 0.20
42 19 0.29
43 8 0.12
44 13 0.20
45 12 0.18
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (42 bp):
GGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATACAGGAA
Found at i:49909502 original size:19 final size:20
Alignment explanation
Indices: 49909478--49909521 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
49909468 CGTGAAAGTC
* *
49909478 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
49909497 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
49909517 -AATGC
1 TAATGC
49909522 CAAAAGAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:49911858 original size:2 final size:2
Alignment explanation
Indices: 49911851--49911885 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
49911841 TAGGTAAATA
* *
49911851 AT AT AT AT AC AT AT AT AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49911886 ACTTAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:49913277 original size:40 final size:40
Alignment explanation
Indices: 49913216--49913346 Score: 178
Period size: 40 Copynumber: 3.3 Consensus size: 40
49913206 CGTTTGGATA
*
49913216 AAAAACGCCACTAAAGATCGAGCATTAGCGGCGCTTTTTGG
1 AAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTT-G
*
49913257 AAAAA-GCCGCTAAAGATCGAGTATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTG
* *
49913296 AAAAACGCCGCTAAA-AACAAGCATTAGCGGCG-TTTTCTG
1 AAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTT-TG
49913335 AAAAAGCGCCGC
1 AAAAA-CGCCGC
49913347 AAAAAACCTA
Statistics
Matches: 82, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
38 4 0.05
39 27 0.33
40 46 0.56
41 5 0.06
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:49913445 original size:41 final size:41
Alignment explanation
Indices: 49913387--49913640 Score: 332
Period size: 41 Copynumber: 6.2 Consensus size: 41
49913377 TGAGCTTTGG
* * *
49913387 GGGCTTTAGCAGCGTTTTTGGGAAAGAGCCGCTAATTCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* **
49913428 AGGCTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
49913469 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* *
49913510 AGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTTA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* *
49913551 GGGCTTTAGCGGCG-TTTTGGTTAAAGCGCCGCGAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGG-GAAAGCGCCGCTAATGCTCA
* * ** *
49913592 GGGCTTTTGCGGCATTTTCTAAG-AAGCACCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTT-TGGGAAAGCGCCGCTAATGCTCA
*
49913633 GGGATTTA
1 GGGCTTTA
49913641 AAATAATTTA
Statistics
Matches: 186, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
40 6 0.03
41 176 0.95
42 3 0.02
43 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
Found at i:49913781 original size:13 final size:13
Alignment explanation
Indices: 49913763--49913789 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49913753 TTCTTTTATA
49913763 ATCGTTAGAGTAT
1 ATCGTTAGAGTAT
49913776 ATCGTTAGAGTAT
1 ATCGTTAGAGTAT
49913789 A
1 A
49913790 GGGTTTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (13 bp):
ATCGTTAGAGTAT
Found at i:49913885 original size:7 final size:7
Alignment explanation
Indices: 49913873--49913976 Score: 52
Period size: 7 Copynumber: 14.4 Consensus size: 7
49913863 GGTTTAGGAG
49913873 TTATGGT
1 TTATGGT
49913880 TTATGGT
1 TTATGGT
*
49913887 TTATGAT
1 TTATGGT
* *
49913894 TTAAAGGC
1 TT-ATGGT
*
49913902 TTAAGGT
1 TTATGGT
*
49913909 TTA-GAGG
1 TTATG-GT
49913916 TTAT-GT
1 TTATGGT
*
49913922 GTTAAGAGT
1 -TTATG-GT
49913931 TTATGGTT
1 TTATGG-T
49913939 TTATGGTT
1 TTATGG-T
*
49913947 TTAGGGT
1 TTATGGT
*
49913954 TTA-AGT
1 TTATGGT
49913960 TTATGGT
1 TTATGGT
*
49913967 TTAGGGT
1 TTATGGT
49913974 TTA
1 TTA
49913977 GATTAACTAG
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
6 7 0.09
7 45 0.59
8 22 0.29
9 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:49913971 original size:20 final size:21
Alignment explanation
Indices: 49913938--49913976 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
49913928 AGTTTATGGT
49913938 TTTATGGTTTTAGGGTTTAAG
1 TTTATGGTTTTAGGGTTTAAG
49913959 TTTATGG-TTTAGGGTTTA
1 TTTATGGTTTTAGGGTTTA
49913977 GATTAACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (21 bp):
TTTATGGTTTTAGGGTTTAAG
Found at i:49914274 original size:21 final size:21
Alignment explanation
Indices: 49914249--49914320 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
49914239 TAGGGATTAT
* *
49914249 GGTTTAAGGGTTGGGATTTAA
1 GGTTTAAGGGTTAGGAGTTAA
*
49914270 TGTTTAAGGGTTAGGAGTTAA
1 GGTTTAAGGGTTAGGAGTTAA
* *
49914291 GGGTTAAGGGTTAAGAGTTAGA
1 GGTTTAAGGGTTAGGAGTTA-A
*
49914313 GATTTAAG
1 GGTTTAAG
49914321 ATTTAGGGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 35 0.83
22 7 0.17
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.35
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGAGTTAA
Found at i:49914304 original size:7 final size:7
Alignment explanation
Indices: 49914273--49914310 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
49914263 GATTTAATGT
49914273 TTAAGGG
1 TTAAGGG
49914280 TT-AGGAG
1 TTAAGG-G
49914287 TTAAGGG
1 TTAAGGG
49914294 TTAAGGG
1 TTAAGGG
*
49914301 TTAAGAG
1 TTAAGGG
49914308 TTA
1 TTA
49914311 GAGATTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 3 0.11
7 22 0.79
8 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.37, T:0.32
Consensus pattern (7 bp):
TTAAGGG
Found at i:49917642 original size:25 final size:25
Alignment explanation
Indices: 49917613--49917691 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
49917603 GATCTTTGCT
49917613 TAATTTCATATGCTCTAACTTACAG
1 TAATTTCATATGCTCTAACTTACAG
*
49917638 TAATTTCATATGCT-TCAA---AAAG
1 TAATTTCATATGCTCT-AACTTACAG
49917660 TAATTTCATATGCTCTAACTTACAG
1 TAATTTCATATGCTCTAACTTACAG
49917685 TAATTTC
1 TAATTTC
49917692 TTTTTGCAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
22 19 0.40
23 1 0.02
24 1 0.02
25 26 0.55
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.41
Consensus pattern (25 bp):
TAATTTCATATGCTCTAACTTACAG
Found at i:49918085 original size:18 final size:17
Alignment explanation
Indices: 49918058--49918212 Score: 65
Period size: 18 Copynumber: 9.0 Consensus size: 17
49918048 AATATTAAGA
49918058 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
49918075 ATTTCTATTAAA-T-TAT
1 ATTT-TATTAAATTATAT
* *
49918091 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
49918105 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
49918124 AGTATTA-TATATTATA-
1 A-TTTTATTAAATTATAT
49918140 ATTTTATTAAATTCATAT
1 ATTTTATTAAATT-ATAT
*** *
49918158 AAGAATATTTAATATTA-AGA
1 -ATTTTA-TTAA-ATTATA-T
*
49918178 ATTTTATTAAATTATGT
1 ATTTTATTAAATTATAT
49918195 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
49918213 TTAATAATAA
Statistics
Matches: 100, Mismatches: 20, Indels: 35
0.65 0.13 0.23
Matches are distributed among these distances:
13 2 0.02
14 5 0.05
15 10 0.10
16 10 0.10
17 23 0.23
18 30 0.30
19 9 0.09
20 8 0.08
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:49918115 original size:44 final size:39
Alignment explanation
Indices: 49917856--49918220 Score: 180
Period size: 38 Copynumber: 9.2 Consensus size: 39
49917846 ATATTTTTAA
*
49917856 TAATAATTATT-TTAAATTATAT-TTTATAGTATTATATAT
1 TAATAATT-TTATTAAATTATATATTTATATTATTATAT-T
* * * *** *
49917895 T-ATGATTTTAGTAAATTCATTTAAGAATATT-TAATA-T
1 TAATAATTTTATTAAATT-ATATATTTATATTATTATATT
* * *
49917932 TAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATT
1 TAATAATTTTATTAAATTATATATTTATATT--ATTATATT
* *
49917973 TAATAATAATTATTTTAAATTATAT-TTTATAGTATTATATAT
1 TAATAAT--TT-TATTAAATTATATATTTATATTATTATAT-T
* * * * * * *
49918015 T-ATGATTTTAGTAAATT-CAT-TTAAGAATATTTAAATAT
1 TAATAATTTTATTAAATTATATATTTATATTA-TTATAT-T
* *
49918053 TAAGAATTTTATTAAATTATATATTTCTATTAAATTATATT
1 TAATAATTTTATTAAATTATATATTTATATT--ATTATATT
* *
49918094 TAATAATAATTATTTTAAATTATAT-TTTATAGTATTATATAT
1 TAATAAT--TT-TATTAAATTATATATTTATATTATTATAT-T
*** *
49918136 T-ATAATTTTATTAAATTCATATAAGAATATT-TAATA-T
1 TAATAATTTTATTAAATT-ATATATTTATATTATTATATT
* * *
49918173 TAAGAATTTTATTAAATTATGTATTTTTATTAAATTATATT
1 TAATAATTTTATTAAATTATATATTTATATT--ATTATATT
49918214 TAATAAT
1 TAATAAT
49918221 AATTATGTTA
Statistics
Matches: 239, Mismatches: 58, Indels: 56
0.68 0.16 0.16
Matches are distributed among these distances:
37 29 0.12
38 62 0.26
39 33 0.14
40 18 0.08
41 48 0.20
42 9 0.04
43 16 0.07
44 24 0.10
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (39 bp):
TAATAATTTTATTAAATTATATATTTATATTATTATATT
Found at i:49918128 original size:121 final size:120
Alignment explanation
Indices: 49917815--49918354 Score: 748
Period size: 120 Copynumber: 4.5 Consensus size: 120
49917805 GAATATAATG
* *
49917815 ATTTGATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTT
1 ATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATTTTAAATTATATTT
49917880 TATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
64 TATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
*
49917937 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
49918002 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAAGA
66 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTT-AATATTAAGA
*
49918058 ATTTTATTAAATTATATATTTCTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
* * *
49918123 TAGTATTATATATTATAATTTTATTAAATTCATATAAGAATATTTAATATTAAGA
66 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
* * *
49918178 ATTTTATTAAATTATGTATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATCTTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
* * * ** ** ** * *
49918243 AATTATT-TATTATTAATAATAATTTACCAAAATAAATTTCTG-CTA---ATTATTAAGA
66 TAGTATTATA-TATT-ATGAT--TTTA-GTAAATTCATTTAAGAATATTTAATATTAAGA
* * *
49918298 ATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT-TTTAAAT
49918355 ATGATTAAAT
Statistics
Matches: 383, Mismatches: 28, Indels: 15
0.90 0.07 0.04
Matches are distributed among these distances:
119 2 0.01
120 210 0.55
121 126 0.33
122 31 0.08
123 6 0.02
124 8 0.02
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (120 bp):
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
Found at i:49918129 original size:22 final size:23
Alignment explanation
Indices: 49918104--49918146 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
49918094 TAATAATAAT
*
49918104 TATTTTAAATTAT-ATTTTATAG
1 TATTATAAATTATAATTTTATAG
*
49918126 TATTATATATTATAATTTTAT
1 TATTATAAATTATAATTTTAT
49918147 TAAATTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTATAAATTATAATTTTATAG
Found at i:49918326 original size:18 final size:17
Alignment explanation
Indices: 49918298--49918332 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49918288 ATTATTAAGA
*
49918298 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
49918315 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
49918333 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:49918332 original size:16 final size:16
Alignment explanation
Indices: 49918298--49918352 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
49918288 ATTATTAAGA
49918298 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
49918315 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
49918331 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
49918345 ATGTTTAA
1 AT-TTTAA
49918353 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:49918354 original size:241 final size:237
Alignment explanation
Indices: 49917815--49918354 Score: 730
Period size: 241 Copynumber: 2.2 Consensus size: 237
49917805 GAATATAATG
* * *
49917815 ATTTGATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTT
1 ATTTTATTAAATTATATA-TTTTATTAAA--ATATATTTAATAATAATTATTTTAAATTATATTT
* *
49917880 TATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATT
63 TATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
* * *
49917945 AAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
128 AAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTAAAGTATTA
* **
49918010 TATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAAGA
193 TATATTATAATTTTACCAAA-T-A-TTAAGAATATTTAAATATTAAGA
*
49918058 ATTTTATTAAATTATATATTTCTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTT-TATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTA
*
49918123 TAGTATTATATATTATAATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
65 TAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* * *
49918188 ATTATGTATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATCTTTTAAATTATT-TA
130 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTAAAGTATTATA
* *
49918252 TTATTAATAATAATTTACCAAA-A-T-A-AATTTCTGCTAATTATTAAGA
195 -TATT-ATAAT--TTTACCAAATATTAAGAATAT-T--TAAATATTAAGA
*
49918298 ATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 ATTTTATTAAATTATATATTTT-ATTAAAATATATTTAATAATAATTAT-TTTAAAT
49918355 ATGATTAAAT
Statistics
Matches: 267, Mismatches: 20, Indels: 22
0.86 0.06 0.07
Matches are distributed among these distances:
237 4 0.01
238 2 0.01
239 2 0.01
240 58 0.22
241 164 0.61
242 7 0.03
243 23 0.09
244 7 0.03
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (237 bp):
ATTTTATTAAATTATATATTTTATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTAT
AGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAA
TTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTAAAGTATTATAT
ATTATAATTTTACCAAATATTAAGAATATTTAAATATTAAGA
Done.