Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 19 of 74
Found at i:4800619 original size:23 final size:23
Alignment explanation
Indices: 4800583--4800631 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
4800573 AGATCTTAGA
4800583 AATCATGTCCGAAGGTCTTATAG
1 AATCATGTCCGAAGGTCTTATAG
4800606 AATCATG-CCTGAAGGTCTTATAG
1 AATCATGTCC-GAAGGTCTTATAG
4800629 AAT
1 AAT
4800632 TACTCGACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (23 bp):
AATCATGTCCGAAGGTCTTATAG
Found at i:4800726 original size:175 final size:173
Alignment explanation
Indices: 4800114--4800742 Score: 687
Period size: 175 Copynumber: 3.6 Consensus size: 173
4800104 ACCATGTTCA
* * * * * *
4800114 GAGGTCTTAGAAATCATGCCCGAAGGTTTTATAGAATTGACT-GGATAACACCGTAAATCAGAAA
1 GAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAA
* * **
4800178 TAAAGAATCGATCGGGATAACACCGCTAATCAAAATTATGCCCGGAGGTCTTAGAAATCATGCCT
66 TAAAGAATCGATCGGGACAACACCGCGAATCAAAATTATGCCAAGA-GTCTTAGAAATCATGCC-
* * * *
4800243 GAAAGTCTTATAGAATCATACCCT-AAGGTCTTACAGAATTACCCT
129 GAAGGTCTTATAGAATCAT-GCCTGAAGGTCTTACAGAATTACTCG
* * * * * *
4800288 GAGGTCTTAAAAATCATGCCTGGAGATCTTACAGAATTGACTAGGATAACACAGCAAGTCAGAAA
1 GAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAA
* * * * * *
4800353 TAAAAAATCGAT-GGGTACAACACCGCGAATCGAAATTATACCCGAAG-GTCTTAAAAATTATAC
66 TAAAGAATCGATCGGG-ACAACACCGCGAATCAAAATTAT-GCC-AAGAGTCTTAGAAATCATGC
* * *
4800416 CCAGAGGTCTTATAGAATCATG-CTCGGAGGTCTTACAAAATTACTCG
128 CGA-AGGTCTTATAGAATCATGCCT-GAAGGTCTTACAGAATTACTCG
* * * *
4800463 GAGGTCTTAAAAATCATGCCCGAAGGTCTTATAGAACTGACTGGGATAGCACCACAAGTCAAAAA
1 GAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAA
* * * * * *
4800528 TAAAGAATCAATCGGCACAACACTGCTAATCGAAATTATGTCAAGAGATCTTAGAAATCATGTCC
66 TAAAGAATCGATCGGGACAACACCGCGAATCAAAATTATGCCAAGAG-TCTTAGAAATCATG-CC
*
4800593 GAAGGTCTTATAGAATCATGCCTGAAGGTCTTATAGAATTACTC-
129 GAAGGTCTTATAGAATCATGCCTGAAGGTCTTACAGAATTACTCG
* * * *
4800637 GACGATCTTAAAAATCATACCCGAAGGTCTTACAGAATTGACTGGGATAACACCGTAAGTTAAAA
1 GA-GGTCTTAAAAATCATGCCCGAAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAA
**
4800702 ATAAAGAATCGATCGAGG-CAACACTACGAATCAAAATTATG
65 ATAAAGAATCGATCG-GGACAACACCGCGAATCAAAATTATG
4800743 ATTGCCCAAA
Statistics
Matches: 378, Mismatches: 63, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
173 5 0.01
174 44 0.12
175 318 0.84
176 10 0.03
177 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (173 bp):
GAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAA
TAAAGAATCGATCGGGACAACACCGCGAATCAAAATTATGCCAAGAGTCTTAGAAATCATGCCGA
AGGTCTTATAGAATCATGCCTGAAGGTCTTACAGAATTACTCG
Found at i:4800741 original size:350 final size:350
Alignment explanation
Indices: 4800114--4800764 Score: 855
Period size: 350 Copynumber: 1.9 Consensus size: 350
4800104 ACCATGTTCA
* * * ** *
4800114 GAGGTCTTAGAAATCATGCCCGAAGGTTTTATAGAATTGACTGGATAACACCGTAAATCAGAAAT
1 GAGGTCTTAAAAATCATGCCCGAAGGTCTTATAGAACTGACTGGATAACACCACAAATCAAAAAT
* * * ** *
4800179 AAAGAATCGATCGGGATAACACCGCTAATCAAAATTATGCCCGGAGGTCTTAGAAATCATGCCTG
66 AAAGAATCAATCGGCACAACACCGCTAATCAAAATTATGCCAAGAGATCTTAGAAATCATGCCTG
* * *
4800244 AAAGTCTTATAGAATCATACCCTAAGGTCTTACAGAATTACCCTGAGGTCTTAAAAATCATGCCT
131 AAAGTCTTATAGAATCATACCCTAAGGTCTTACAGAATTACCCTGAGATCTTAAAAATCATACCC
* *
4800309 GGAGATCTTACAGAATTGACTAGGATAACACAGCAAGTCAGAAATAAAAAATCGATGGGTACAAC
196 GAAGATCTTACAGAATTGACTAGGATAACACAGCAAGTCAAAAATAAAAAATCGATGGG-ACAAC
* * *
4800374 ACCGCGAATCGAAATTAT-A-CCCGAAGGTCTTAAAAATTATACCCAGAGGTCTTATAGAATCAT
260 ACCACGAATCAAAATTATGATCCCAAAGGTCTTAAAAATTATACCCAGAGGTCTTATAGAATCAT
4800437 GCTCGGAGGTCTTACAAAATTACTCG
325 GCTCGGAGGTCTTACAAAATTACTCG
* *
4800463 GAGGTCTTAAAAATCATGCCCGAAGGTCTTATAGAACTGACTGGGATAGCACCACAAGTCAAAAA
1 GAGGTCTTAAAAATCATGCCCGAAGGTCTTATAGAACTGACT-GGATAACACCACAAATCAAAAA
* * *
4800528 TAAAGAATCAATCGGCACAACACTGCTAATCGAAATTATGTCAAGAGATCTTAGAAATCATGTCC
65 TAAAGAATCAATCGGCACAACACCGCTAATCAAAATTATGCCAAGAGATCTTAGAAATCATG-CC
* * * *
4800593 -GAAGGTCTTATAGAATCAT-GCCTGAAGGTCTTATAGAATTACTC-GACGATCTTAAAAATCAT
129 TGAAAGTCTTATAGAATCATACCCT-AAGGTCTTACAGAATTACCCTGA-GATCTTAAAAATCAT
* * * * * *
4800655 ACCCGAAGGTCTTACAGAATTGACTGGGATAACACCGTAAGTTAAAAATAAAGAATCGATCGAGG
192 ACCCGAAGATCTTACAGAATTGACTAGGATAACACAGCAAGTCAAAAATAAAAAATCGAT-G-GG
*
4800720 -CAACACTACGAATCAAAATTATGATTGCCCAAAGGTCTTAAAAAT
255 ACAACACCACGAATCAAAATTATGA-T-CCCAAAGGTCTTAAAAAT
4800765 CATGTCTGGA
Statistics
Matches: 256, Mismatches: 36, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
349 44 0.17
350 189 0.74
351 4 0.02
352 2 0.01
354 17 0.07
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (350 bp):
GAGGTCTTAAAAATCATGCCCGAAGGTCTTATAGAACTGACTGGATAACACCACAAATCAAAAAT
AAAGAATCAATCGGCACAACACCGCTAATCAAAATTATGCCAAGAGATCTTAGAAATCATGCCTG
AAAGTCTTATAGAATCATACCCTAAGGTCTTACAGAATTACCCTGAGATCTTAAAAATCATACCC
GAAGATCTTACAGAATTGACTAGGATAACACAGCAAGTCAAAAATAAAAAATCGATGGGACAACA
CCACGAATCAAAATTATGATCCCAAAGGTCTTAAAAATTATACCCAGAGGTCTTATAGAATCATG
CTCGGAGGTCTTACAAAATTACTCG
Found at i:4800777 original size:22 final size:22
Alignment explanation
Indices: 4800752--4800822 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
4800742 GATTGCCCAA
*
4800752 AGGTCTTAAAAATCATGTCTGG
1 AGGTCTTAAAAATCATGTCCGG
* *
4800774 AGGTCTTACAAAAT--TATCCGA
1 AGGTCTTA-AAAATCATGTCCGG
4800795 AGGTCTTAAAAATCATGTCCGG
1 AGGTCTTAAAAATCATGTCCGG
4800817 AGGTCT
1 AGGTCT
4800823 AACACCGTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
20 5 0.12
21 12 0.29
22 19 0.46
23 5 0.12
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (22 bp):
AGGTCTTAAAAATCATGTCCGG
Found at i:4801099 original size:23 final size:22
Alignment explanation
Indices: 4801063--4801117 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
4801053 ATGCCTGCAA
* *
4801063 GTCTTAGAAATCATACTCGAAG
1 GTCTTACAAATCATACCCGAAG
4801085 GTCTTACAGAATCATACCCGAAG
1 GTCTTACA-AATCATACCCGAAG
*
4801108 ATCTTACAAA
1 GTCTTACAAA
4801118 ATTGTCAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (22 bp):
GTCTTACAAATCATACCCGAAG
Found at i:4801134 original size:153 final size:151
Alignment explanation
Indices: 4800931--4801207 Score: 405
Period size: 153 Copynumber: 1.8 Consensus size: 151
4800921 TCATGTCTGG
* * * *
4800931 AGGTCTTACAAAATTACCCGAAGATTTTAAAAATCATGTCCGGAGGTCTTATAGAATTGATTGGG
1 AGGTCTTACAAAATTACCCGAAGATCTTAAAAAT-ATGTCAGGAGGTCTTACAGAATTGACTGGG
*
4800996 ATAACATCGTAAGTCAGAAATAAAAAATCAATCAGGACAACACAGCT-AATCGAAATTATGCCTG
65 ATAACATCGTAACTCAGAAATAAAAAATCAATCAGGACAACACAG-TGAATCGAAATTATGCCTG
4801060 CAAGTCTTAGAAATCATACTCGA
129 CAAGTCTTAGAAATCATACTCGA
*
4801083 AGGTCTTACAGAATCATACCCGAAGATCTTACAAAAT-TGTCAGGAGGTCTTACAGAATTGACTG
1 AGGTCTTACAAAAT--TACCCGAAGATCTTA-AAAATATGTCAGGAGGTCTTACAGAATTGACTG
* * * *
4801147 GGATAACATCGTAACTCATAAATAAAAAATCGATCAGGACAATACCGTGAATCGAAATTAT
63 GGATAACATCGTAACTCAGAAATAAAAAATCAATCAGGACAACACAGTGAATCGAAATTAT
4801208 ACCCGAAGGT
Statistics
Matches: 111, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
152 14 0.13
153 78 0.70
154 14 0.13
155 5 0.05
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (151 bp):
AGGTCTTACAAAATTACCCGAAGATCTTAAAAATATGTCAGGAGGTCTTACAGAATTGACTGGGA
TAACATCGTAACTCAGAAATAAAAAATCAATCAGGACAACACAGTGAATCGAAATTATGCCTGCA
AGTCTTAGAAATCATACTCGA
Found at i:4801461 original size:121 final size:120
Alignment explanation
Indices: 4801236--4801660 Score: 620
Period size: 121 Copynumber: 3.5 Consensus size: 120
4801226 TCATGTCCGG
* *
4801236 AAGTCTTACAAATATCAAAATCTTTGAATGCTCATCATAATCAAAGGCAATGAAACTTTAAATTT
1 AAGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAAAGGCAATGAAACTTTAAATTT
*
4801301 TAAAAATCTTTTAATCTTGAAAGTCGTG-CGCAGTAGCTTTTAGAGATTATGCCCGA
66 TGAAAATCTTTTAATCTTGAAAGTCGTGACGCAG--GCTTTTAGAGATTATGCCCGA
* *
4801357 AAGTCTTACAAATCTCAAAATCTTTGGATGCTCCTCATAATCAGAGGCAATGAAACTTTAAATTT
1 AAGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAAAGGCAATGAAACTTTAAATTT
* *
4801422 TGAAAATCTTTTAATCTTGAAAGTCGTGTATGGAGGCTTTTAGAGATTATGCCC-A
66 TGAAAATCTTTTAATCTTGAAAGTCGTG-ACGCAGGCTTTTAGAGATTATGCCCGA
* * * *
4801477 GAGGTCTTACAAATCTCAAAATCTTTGAATGCTCTTCATAATTAAAGGTAATGAAACTTTAAATT
1 -AAGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAAAGGCAATGAAACTTTAAATT
* ** *
4801542 TTGAAAATCTTTTAATCTTGAAAGTCATGCACATAGGCTTTTAGAGATTATGCCCGG
65 TTGAAAATCTTTTAATCTTGAAAGTCGTG-ACGCAGGCTTTTAGAGATTATGCCCGA
* * * *
4801599 AGGTCTTACAAATCTCAAAATCTTTGAATGGTTCTCATAATCAAAGGCAATAAAACTTTAAA
1 AAGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAAAGGCAATGAAACTTTAAA
4801661 AATCTTTTAA
Statistics
Matches: 275, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
120 1 0.00
121 271 0.99
123 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (120 bp):
AAGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAAAGGCAATGAAACTTTAAATTT
TGAAAATCTTTTAATCTTGAAAGTCGTGACGCAGGCTTTTAGAGATTATGCCCGA
Found at i:4801785 original size:41 final size:41
Alignment explanation
Indices: 4801728--4801837 Score: 161
Period size: 41 Copynumber: 2.7 Consensus size: 41
4801718 TTCTAAGGAA
4801728 GGTTCC-CTCTAAACAGAGGCTTTGAAATCTTGATTGA-AATT
1 GGTTCCTCT-TAAACAGAGGCTTTGAAATCTTGATTGAGAA-T
4801769 GGTTCCTCTTAAACAGAGGCTTTGAAATCTTGATTGAGAAT
1 GGTTCCTCTTAAACAGAGGCTTTGAAATCTTGATTGAGAAT
* * *
4801810 GGTTCTTCTTAAACAGAGACTTTAAAAT
1 GGTTCCTCTTAAACAGAGGCTTTGAAAT
4801838 TTTAAAAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
41 60 0.94
42 4 0.06
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (41 bp):
GGTTCCTCTTAAACAGAGGCTTTGAAATCTTGATTGAGAAT
Found at i:4803535 original size:12 final size:12
Alignment explanation
Indices: 4803518--4803560 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
4803508 TGAATATGTC
4803518 TTTTTTTTTTTG
1 TTTTTTTTTTTG
4803530 TTTTTTTTTTTG
1 TTTTTTTTTTTG
* *
4803542 TTATTTTTTTTA
1 TTTTTTTTTTTG
4803554 TTTTTTT
1 TTTTTTT
4803561 ATGCCCCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:4803578 original size:1 final size:1
Alignment explanation
Indices: 4803518--4803560 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
4803508 TGAATATGTC
* * * *
4803518 TTTTTTTTTTTGTTTTTTTTTTTGTTATTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4803561 ATGCCCCATT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.91
Consensus pattern (1 bp):
T
Found at i:4807631 original size:21 final size:21
Alignment explanation
Indices: 4807601--4807646 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4807591 CTTTAAAAAA
*
4807601 TAAA-ATAAAAGAAATTAAAT
1 TAAATATAAAAGAAAATAAAT
* *
4807621 TAAATATAAAATAAAATCAAT
1 TAAATATAAAAGAAAATAAAT
4807642 TAAAT
1 TAAAT
4807647 CCAACCATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (21 bp):
TAAATATAAAAGAAAATAAAT
Found at i:4808895 original size:7 final size:7
Alignment explanation
Indices: 4808853--4808959 Score: 65
Period size: 7 Copynumber: 14.4 Consensus size: 7
4808843 GATTTTAGGG
*
4808853 TTTGGGT
1 TTTGGAT
4808860 TTTGTGAT
1 TTTG-GAT
*
4808868 TTGGGAT
1 TTTGGAT
4808875 TTT-GAT
1 TTTGGAT
**
4808881 TTAAGAT
1 TTTGGAT
4808888 TTTGGAT
1 TTTGGAT
*
4808895 TTTGAGGT
1 TTTG-GAT
4808903 TTTGGAT
1 TTTGGAT
4808910 TTTAAGGAGAT
1 TTT---G-GAT
4808921 TTTGGAT
1 TTTGGAT
4808928 TTTAGGGA-
1 TTT--GGAT
4808936 TTTGGAT
1 TTTGGAT
**
4808943 TTTGGGG
1 TTTGGAT
4808950 TTTGGAT
1 TTTGGAT
4808957 TTT
1 TTT
4808960 AGGGGTTTCG
Statistics
Matches: 78, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
6 8 0.10
7 45 0.58
8 15 0.19
9 3 0.04
10 1 0.01
11 6 0.08
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (7 bp):
TTTGGAT
Found at i:4808907 original size:15 final size:15
Alignment explanation
Indices: 4808887--4809006 Score: 75
Period size: 15 Copynumber: 7.7 Consensus size: 15
4808877 TGATTTAAGA
4808887 TTTTGGATTTTGAGG
1 TTTTGGATTTTGAGG
*
4808902 TTTTGGATTTTAAGGAGA
1 TTTTGGATTTT---GAGG
4808920 TTTTGGATTTT-AGGG
1 TTTTGGATTTTGA-GG
*
4808935 ATTTGGATTTTG-GG
1 TTTTGGATTTTGAGG
* *
4808949 GTTTGGATTTTAGGGG
1 TTTTGGATTTT-GAGG
* * *
4808965 TTTCGAAATTT-AGGG
1 TTTTGGATTTTGA-GG
**
4808980 TTTTGGATTCAGAGG
1 TTTTGGATTTTGAGG
4808995 ATTTTGGATTTT
1 -TTTTGGATTTT
4809007 TACGGGTTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
14 13 0.16
15 33 0.42
16 19 0.24
18 14 0.18
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (15 bp):
TTTTGGATTTTGAGG
Found at i:4810585 original size:15 final size:14
Alignment explanation
Indices: 4810565--4810623 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
4810555 TTTTTATTTA
4810565 TTTATTAATAATTAT
1 TTTATTAAT-ATTAT
4810580 TTTATT--TCATT-T
1 TTTATTAAT-ATTAT
4810592 TTTATTAAATTATTAT
1 TTTATT-AA-TATTAT
4810608 TATTATTAATATTAT
1 T-TTATTAATATTAT
4810623 T
1 T
4810624 ATTAAAACGA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
12 7 0.19
13 4 0.11
15 16 0.43
16 5 0.14
17 5 0.14
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTATTAATATTAT
Found at i:4810607 original size:28 final size:29
Alignment explanation
Indices: 4810560--4810614 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
4810550 TTTGTTTTTT
4810560 ATTTATTTATTAATAATTATT-TTATTTC
1 ATTTATTTATTAATAATTATTATTATTTC
*
4810588 ATTT-TTTATTAAATTATTATTATTATT
1 ATTTATTTATT-AATAATTATTATTATT
4810615 AATATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 13 0.54
29 5 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
ATTTATTTATTAATAATTATTATTATTTC
Found at i:4816634 original size:63 final size:60
Alignment explanation
Indices: 4816558--4816702 Score: 175
Period size: 62 Copynumber: 2.3 Consensus size: 60
4816548 TATTTAATAT
* * *
4816558 TTTGTAAGA-GATTATTCAATACGTTTTCTGGTCAAAAATGCCTTTAATAATCCCCTCATAAAA
1 TTTG-AAGAGGATTATTCAATA--TTTT-TGGCCAAAAATGCCTTCAATAATCCACTCATAAAA
4816621 TTTGAAGAGGATTATTCAAGGTATTTTTGGCCAAAAATGCCTTCAATAATCCACTCATAAAA
1 TTTGAAGAGGATTATTCAA--TATTTTTGGCCAAAAATGCCTTCAATAATCCACTCATAAAA
* * *
4816683 ATTGAAGGGGGTTATTCAAT
1 TTTGAAGAGGATTATTCAAT
4816703 GCGTATCTAG
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
60 1 0.01
62 52 0.71
63 18 0.25
65 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (60 bp):
TTTGAAGAGGATTATTCAATATTTTTGGCCAAAAATGCCTTCAATAATCCACTCATAAAA
Found at i:4816721 original size:62 final size:61
Alignment explanation
Indices: 4816590--4816731 Score: 160
Period size: 62 Copynumber: 2.3 Consensus size: 61
4816580 GTTTTCTGGT
* * * * *
4816590 CAAAAATGCCTTTAATAATCCCCTCATAAAATTTGAAGAGGATTATTCAAGGTATTTTTGGC
1 CAAAAATGCCTTCAATAATCCACTCATAAAAATTGAAGAGGATTATTCAAGGTA-TTCTAGC
* *
4816652 CAAAAATGCCTTCAATAATCCACTCATAAAAATTGAAGGGGGTTATTCAATGCGTA-TCTAGC
1 CAAAAATGCCTTCAATAATCCACTCATAAAAATTGAAGAGGATTATTCAA-G-GTATTCTAGC
* * *
4816714 TAGAAATGCTTTCAATAA
1 CAAAAATGCCTTCAATAA
4816732 CCCTATTCAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
62 64 0.94
63 1 0.01
64 3 0.04
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (61 bp):
CAAAAATGCCTTCAATAATCCACTCATAAAAATTGAAGAGGATTATTCAAGGTATTCTAGC
Found at i:4819794 original size:68 final size:68
Alignment explanation
Indices: 4819647--4819773 Score: 218
Period size: 68 Copynumber: 1.9 Consensus size: 68
4819637 GTATTACATT
*
4819647 AATGAATAAGATGTTTATAAAATTATTTTTACTAGTATATAAATGGATGATTATCTTCTATATAT
1 AATGAATAAGATGTTTATAAAATTATTTTTACTAGTATATAAATGGATGATTACCTTCTATATAT
4819712 ATG
66 ATG
* * *
4819715 AATGAATAAGATGTTTATAAAATTATTTTTATTGGTATATGAATGGATGATTACCTTCT
1 AATGAATAAGATGTTTATAAAATTATTTTTACTAGTATATAAATGGATGATTACCTTCT
4819774 TACCTTTTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (68 bp):
AATGAATAAGATGTTTATAAAATTATTTTTACTAGTATATAAATGGATGATTACCTTCTATATAT
ATG
Found at i:4825643 original size:26 final size:27
Alignment explanation
Indices: 4825596--4825646 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
4825586 AACTTAATAA
* * *
4825596 ACTTGATATGTTAATAATATAAAAAGT
1 ACTTGATATATTAAAAAAATAAAAAGT
4825623 ACTTG-TATATTAAAAAAATAAAAA
1 ACTTGATATATTAAAAAAATAAAAA
4825647 AATTAGTACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (27 bp):
ACTTGATATATTAAAAAAATAAAAAGT
Found at i:4826347 original size:27 final size:27
Alignment explanation
Indices: 4826289--4826343 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
4826279 CTTTAGCTTT
4826289 ATAAATATTATTTAAGTATTATAAAAA
1 ATAAATATTATTTAAGTATTATAAAAA
* *
4826316 ATAAATTTTATTTAAG-ATTTTAAAAA
1 ATAAATATTATTTAAGTATTATAAAAA
4826342 AT
1 AT
4826344 TAAAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (27 bp):
ATAAATATTATTTAAGTATTATAAAAA
Found at i:4826354 original size:27 final size:27
Alignment explanation
Indices: 4826291--4826355 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
4826281 TTAGCTTTAT
4826291 AAATATTATTTAAGTATTATAAAAAATA
1 AAATA-TATTTAAGTATTATAAAAAATA
* * *
4826319 AATTTTATTTAAG-ATTTTAAAAAATTA
1 AAATATATTTAAGTATTATAAAAAA-TA
4826346 AAATATATTT
1 AAATATATTT
4826356 TTAAATAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 10 0.32
27 18 0.58
28 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
AAATATATTTAAGTATTATAAAAAATA
Found at i:4829282 original size:21 final size:21
Alignment explanation
Indices: 4829256--4829298 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4829246 TAGTTATAAG
4829256 TTAATTTCTTGATCTGGCATT
1 TTAATTTCTTGATCTGGCATT
*
4829277 TTAATTTCTTGATTTGGCATT
1 TTAATTTCTTGATCTGGCATT
4829298 T
1 T
4829299 GTTCTAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (21 bp):
TTAATTTCTTGATCTGGCATT
Found at i:4831707 original size:20 final size:20
Alignment explanation
Indices: 4831656--4831695 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4831646 TAAGTAGTGA
4831656 ATAGCAGCATCTCATTGCAG
1 ATAGCAGCATCTCATTGCAG
4831676 ATAGCAGCATCTCATTGCAG
1 ATAGCAGCATCTCATTGCAG
4831696 TTTGCATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (20 bp):
ATAGCAGCATCTCATTGCAG
Found at i:4834107 original size:39 final size:39
Alignment explanation
Indices: 4834064--4834142 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
4834054 GGATATGGAA
4834064 AGCCTTTGGTTTCTAGTGAAGTCTATTGCCTTGTAGTCT
1 AGCCTTTGGTTTCTAGTGAAGTCTATTGCCTTGTAGTCT
4834103 AGCCTTTGGTTTCTAGTGAAGTCTATTGCCTTGTAGTCT
1 AGCCTTTGGTTTCTAGTGAAGTCTATTGCCTTGTAGTCT
4834142 A
1 A
4834143 TTTTAATTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.43
Consensus pattern (39 bp):
AGCCTTTGGTTTCTAGTGAAGTCTATTGCCTTGTAGTCT
Found at i:4834918 original size:28 final size:30
Alignment explanation
Indices: 4834867--4834926 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 30
4834857 AAATTAATAA
*
4834867 AATATTAATTTGTAATATAAAATATTATTT
1 AATATTAATTTGTAACATAAAATATTATTT
*
4834897 AATATT-ATTT-TAACATAAAATATTTTTT
1 AATATTAATTTGTAACATAAAATATTATTT
4834925 AA
1 AA
4834927 ATATGAAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 18 0.64
29 4 0.14
30 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (30 bp):
AATATTAATTTGTAACATAAAATATTATTT
Found at i:4834967 original size:10 final size:10
Alignment explanation
Indices: 4834949--4835032 Score: 91
Period size: 10 Copynumber: 8.4 Consensus size: 10
4834939 AATTAAATAC
4834949 ATATATATAA
1 ATATATATAA
*
4834959 ATATTTATAA
1 ATATATATAA
4834969 ATATATATAA
1 ATATATATAA
*
4834979 ATATAAATTAA
1 ATATATA-TAA
4834990 ATA-A-ATAA
1 ATATATATAA
*
4834998 TATATATATAT
1 -ATATATATAA
*
4835009 ATATATATAT
1 ATATATATAA
*
4835019 ATATATATAG
1 ATATATATAA
4835029 ATAT
1 ATAT
4835033 CAAGTTGGGT
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
8 3 0.05
9 4 0.06
10 49 0.75
11 9 0.14
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (10 bp):
ATATATATAA
Found at i:4834976 original size:4 final size:4
Alignment explanation
Indices: 4834949--4835032 Score: 82
Period size: 4 Copynumber: 21.5 Consensus size: 4
4834939 AATTAAATAC
* * * * * * *
4834949 ATAT ATAT AAAT ATTT ATAA ATAT ATAT AAAT ATAA AT-T AAAT AAAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
*
4834996 A-AT ATAT ATAT ATAT ATAT ATAT ATAT ATAT AGAT AT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT AT
4835033 CAAGTTGGGT
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
3 4 0.06
4 61 0.94
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (4 bp):
ATAT
Found at i:4835026 original size:6 final size:6
Alignment explanation
Indices: 4834949--4835032 Score: 82
Period size: 6 Copynumber: 14.3 Consensus size: 6
4834939 AATTAAATAC
* * * * * * *
4834949 ATATAT ATAAAT ATTTAT AAATAT ATATAA ATATAA AT-TAA ATAAAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
*
4834996 A-ATAT ATATAT ATATAT ATATAT ATATAT ATAGAT AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT AT
4835033 CAAGTTGGGT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
5 9 0.14
6 56 0.86
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:4835117 original size:14 final size:15
Alignment explanation
Indices: 4835100--4835134 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4835090 TACATAATCC
4835100 AAAATTTAA-TTTAA
1 AAAATTTAATTTTAA
*
4835114 AAAAATTAATTTTAA
1 AAAATTTAATTTTAA
4835129 AAAATT
1 AAAATT
4835135 GAGTCGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATTTAATTTTAA
Found at i:4835118 original size:15 final size:15
Alignment explanation
Indices: 4835100--4835134 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
4835090 TACATAATCC
4835100 AAAATTTAATTTAAA
1 AAAATTTAATTTAAA
*
4835115 AAAA-TTAATTTTAA
1 AAAATTTAATTTAAA
4835129 AAAATT
1 AAAATT
4835135 GAGTCGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATTTAATTTAAA
Found at i:4836189 original size:13 final size:12
Alignment explanation
Indices: 4836164--4836204 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
4836154 TTTGATAAAT
*
4836164 TAAAATATGATA
1 TAAAATATAATA
4836176 TAATAATATAATA
1 TAA-AATATAATA
4836189 TAAAA-ATAATA
1 TAAAATATAATA
4836200 TAAAA
1 TAAAA
4836205 AATTTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.41
12 5 0.19
13 11 0.41
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (12 bp):
TAAAATATAATA
Found at i:4851786 original size:1 final size:1
Alignment explanation
Indices: 4851782--4851807 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
4851772 AAAAATAGGC
4851782 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
4851808 CTAATTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4854356 original size:34 final size:34
Alignment explanation
Indices: 4854286--4854360 Score: 118
Period size: 33 Copynumber: 2.2 Consensus size: 34
4854276 CTTTGGTGGT
4854286 GTTTGTA-ACTGAAAATGTCGCTACTTTAGAGAC
1 GTTTGTATACTGAAAATGTCGCTACTTTAGAGAC
*
4854319 GTTTGTATA-TGAAAATGTCGCTACTTTTAGAGGC
1 GTTTGTATACTGAAAATGTCGCTAC-TTTAGAGAC
4854353 GTTTGTAT
1 GTTTGTAT
4854361 CTTTGAGACA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
33 22 0.56
34 17 0.44
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.39
Consensus pattern (34 bp):
GTTTGTATACTGAAAATGTCGCTACTTTAGAGAC
Found at i:4854416 original size:135 final size:134
Alignment explanation
Indices: 4854122--4854469 Score: 348
Period size: 135 Copynumber: 2.6 Consensus size: 134
4854112 TTAGTTACGT
* * ** * * * * *
4854122 TTTTATTAGAAAAACAATGTTGTTTTGGTAGCATTTATAACTGAAAACA-CTGCTACTTTAGAGG
1 TTTTATGAGAAAAGCACCGTTGCTTTGGTGGCATTTGTAAATGAAAACATC-GCTACTTTAGAGA
* * * * * * * * *
4854186 C-ATTGTATTTGAAAACGCCTCTA-TATTAGCA-GCGTTTGTATTTTTAAGATACTGTTAATTTA
65 CGTTTGTATATGAAAATGTCGCTACTTTTAG-AGGCGTTTGTATCTTTAAGACACCGTTAATTTA
4854248 GTGGTA
129 GTGGTA
** * **
4854254 TTTTATGAGAAAAGCACCGTTGCTTTGGTGGTGTTTGTAACTGAAAATGTCGCTACTTTAGAGAC
1 TTTTATGAGAAAAGCACCGTTGCTTTGGTGGCATTTGTAAATGAAAACATCGCTACTTTAGAGAC
*
4854319 GTTTGTATATGAAAATGTCGCTACTTTTAGAGGCGTTTGTATCTTTGAGACACCGTTAATTTAGT
66 GTTTGTATATGAAAATGTCGCTACTTTTAGAGGCGTTTGTATCTTTAAGACACCGTTAATTTAGT
4854384 GGCGT-
131 -G-GTA
* * *
4854389 TTTTATGAGGAAAA-CACCGTTGCTTTGGTGGCATTTGTAAATGAAAACATCGTTATTTTAGAGG
1 TTTTATGA-GAAAAGCACCGTTGCTTTGGTGGCATTTGTAAATGAAAACATCGCTACTTTAGAGA
* *
4854453 TGTTTGTATGTGAAAAT
65 CGTTTGTATATGAAAAT
4854470 ACCTCCATAT
Statistics
Matches: 177, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
132 51 0.29
133 19 0.11
134 34 0.19
135 66 0.37
136 7 0.04
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (134 bp):
TTTTATGAGAAAAGCACCGTTGCTTTGGTGGCATTTGTAAATGAAAACATCGCTACTTTAGAGAC
GTTTGTATATGAAAATGTCGCTACTTTTAGAGGCGTTTGTATCTTTAAGACACCGTTAATTTAGT
GGTA
Found at i:4854557 original size:132 final size:131
Alignment explanation
Indices: 4854121--4854559 Score: 404
Period size: 132 Copynumber: 3.3 Consensus size: 131
4854111 ATTAGTTACG
* ** * * *
4854121 TTTTTATTAGAAAAACAATGTTGTTTTGGTAGCATTTATAACTGAAAACA-CTGCTACTTTAGAG
1 TTTTTATGAGAAAAACACCGTTGCTTTGGTGGCATTTGTAACTGAAAACATC-GCTACTTTAGAG
** * ** * *
4854185 GCATTGTATTTGAAAACGCCTCTATATTAGCAGCGTTTGTATTTTTAAGATACTGTTAATTTAGT
65 GGTTTGTATATGAAAATACCTCCATATTAGCAGCGTTTGTATTTTT--GAGACTGTTAATTTAGT
*
4854250 GGTA
128 GGCA
* ** **
4854254 -TTTTATGAGAAAAGCACCGTTGCTTTGGTGGTGTTTGTAACTGAAAATGTCGCTACTTTAGAGA
1 TTTTTATGAGAAAAACACCGTTGCTTTGGTGGCATTTGTAACTGAAAACATCGCTACTTTAGAG-
* * * * * *
4854318 CGTTTGTATATGAAAATGTCGCTAC-TTTTAG-AGGCGTTTGTATCTTTGAGACACCGTTAATTT
65 GGTTTGTATATGAAAAT-AC-CTCCATATTAGCA-GCGTTTGTATTTTTGAG--ACTGTTAATTT
*
4854381 AGTGGCG
125 AGTGGCA
* * * *
4854388 TTTTTATGAGGAAAACACCGTTGCTTTGGTGGCATTTGTAAATGAAAACATCGTTATTTTAGAGG
1 TTTTTATGAGAAAAACACCGTTGCTTTGGTGGCATTTGTAACTGAAAACATCGCTACTTTAGAGG
* ** *
4854453 TGTTTGTATGTGAAAATACCTCCATATTAGCAGTATTTGTATTTTTGAGACTGCTAATTTCA-TG
66 -GTTTGTATATGAAAATACCTCCATATTAGCAGCGTTTGTATTTTTGAGACTGTTAATTT-AGTG
4854517 GCA
129 GCA
* *
4854520 TTTTTATGAGAAAAACGA-TGTTGTTTTGGTGGCATTTGTA
1 TTTTTATGAGAAAAAC-ACCGTTGCTTTGGTGGCATTTGTA
4854560 TCTAAAATGC
Statistics
Matches: 245, Mismatches: 48, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
132 100 0.41
133 19 0.08
134 54 0.22
135 72 0.29
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (131 bp):
TTTTTATGAGAAAAACACCGTTGCTTTGGTGGCATTTGTAACTGAAAACATCGCTACTTTAGAGG
GTTTGTATATGAAAATACCTCCATATTAGCAGCGTTTGTATTTTTGAGACTGTTAATTTAGTGGC
A
Found at i:4864572 original size:80 final size:79
Alignment explanation
Indices: 4864345--4864744 Score: 426
Period size: 80 Copynumber: 5.0 Consensus size: 79
4864335 CTTAAATATT
** * * * *
4864345 ATGGTTTATTGAACCTTGTTGTCTGAT-TTTTTTTACTGAATGGTATTGTATGATATTGGGGGGC
1 ATGGTTTGCTGAACCTTATTGTATGATATTATTTTGCTGAATGGTATTGTATGATATT-GGGGGC
* *
4864409 TGAATCGTATGTTGA
65 TGAATCATATGCTGA
* * * ** * *
4864424 ATGGTTTACTGAACCTTATT-TATGATATTGTATTGCCAAATGGTATTGTATAATATTGGAAGGC
1 ATGGTTTGCTGAACCTTATTGTATGATATTATTTTGCTGAATGGTATTGTATGATATTGG-GGGC
4864488 TGAATCATATGCTGA
65 TGAATCATATGCTGA
* * * *
4864503 ATGGTTTGCTGAACCTTATTGTTTGATATTATTTTACTGAATGATTTTGTATGATATTGGGGGAC
1 ATGGTTTGCTGAACCTTATTGTATGATATTATTTTGCTGAATGGTATTGTATGATATTGGGGG-C
4864568 TGAATCATATGCTGA
65 TGAATCATATGCTGA
* * * * * * * * * *
4864583 ATGATTTGCTAAACTTTGTTATATGATGTTGTATTGTTGAATGGTATTGTATGATATTGGGAGAC
1 ATGGTTTGCTGAACCTTATTGTATGATATTATTTTGCTGAATGGTATTGTATGATATTGGG-GGC
4864648 TGAATCATATGCTGA
65 TGAATCATATGCTGA
* * * **
4864663 ATGGTTTGCTGAACTTTATTGTCTGATATTATTTTGCTGAATGGTTTTGTATGATATTGTAAGGC
1 ATGGTTTGCTGAACCTTATTGTATGATATTATTTTGCTGAATGGTATTGTATGATATTG-GGGGC
*
4864728 TGAATCGTATGCTGA
65 TGAATCATATGCTGA
4864743 AT
1 AT
4864745 AGTATTTTTG
Statistics
Matches: 264, Mismatches: 51, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
78 7 0.03
79 79 0.30
80 177 0.67
81 1 0.00
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.43
Consensus pattern (79 bp):
ATGGTTTGCTGAACCTTATTGTATGATATTATTTTGCTGAATGGTATTGTATGATATTGGGGGCT
GAATCATATGCTGA
Found at i:4864660 original size:160 final size:158
Alignment explanation
Indices: 4864345--4864744 Score: 532
Period size: 160 Copynumber: 2.5 Consensus size: 158
4864335 CTTAAATATT
** * * *
4864345 ATGGTTTATTGAACCTTGTTGTCTGAT-TTTTTTTACTGAATGGTATTGTATGATATTGGGGGGC
1 ATGGTTTGCTGAACCTTATTGTCTGATATTATTTTACTGAATGGTTTTGTATGATATT-GGGGGC
* * *
4864409 TGAATCGTATGTTGAATGGTTTACTGAACCTTATTTATGATATTGTATTGCCAAATGGTATTGTA
65 TGAATCGTATGCTGAATGATTTACTAAACCTTATTTATGATATTGTATTGCCAAATGGTATTGTA
*
4864474 TAATATTGGAAGGCTGAATCATATGCTGA
130 TAATATTGGAAGACTGAATCATATGCTGA
* *
4864503 ATGGTTTGCTGAACCTTATTGTTTGATATTATTTTACTGAATGATTTTGTATGATATTGGGGGAC
1 ATGGTTTGCTGAACCTTATTGTCTGATATTATTTTACTGAATGGTTTTGTATGATATTGGGGG-C
* * * * * ***
4864568 TGAATCATATGCTGAATGATTTGCTAAACTTTGTTATATGATGTTGTATTGTTGAATGGTATTGT
65 TGAATCGTATGCTGAATGATTTACTAAACCTTATT-TATGATATTGTATTGCCAAATGGTATTGT
* *
4864633 ATGATATTGGGAGACTGAATCATATGCTGA
129 ATAATATTGGAAGACTGAATCATATGCTGA
* * **
4864663 ATGGTTTGCTGAACTTTATTGTCTGATATTATTTTGCTGAATGGTTTTGTATGATATTGTAAGGC
1 ATGGTTTGCTGAACCTTATTGTCTGATATTATTTTACTGAATGGTTTTGTATGATATTG-GGGGC
4864728 TGAATCGTATGCTGAAT
65 TGAATCGTATGCTGAAT
4864745 AGTATTTTTG
Statistics
Matches: 210, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
158 28 0.13
159 56 0.27
160 124 0.59
161 2 0.01
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.43
Consensus pattern (158 bp):
ATGGTTTGCTGAACCTTATTGTCTGATATTATTTTACTGAATGGTTTTGTATGATATTGGGGGCT
GAATCGTATGCTGAATGATTTACTAAACCTTATTTATGATATTGTATTGCCAAATGGTATTGTAT
AATATTGGAAGACTGAATCATATGCTGA
Found at i:4871517 original size:1 final size:1
Alignment explanation
Indices: 4871511--4871548 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
4871501 GTAATGTGAG
4871511 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4871549 CTAGCGAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4879383 original size:13 final size:13
Alignment explanation
Indices: 4879365--4879390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4879355 GACATTATTT
4879365 TGATTTCTGAATA
1 TGATTTCTGAATA
4879378 TGATTTCTGAATA
1 TGATTTCTGAATA
4879391 ATATATTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TGATTTCTGAATA
Found at i:4880043 original size:16 final size:16
Alignment explanation
Indices: 4880024--4880057 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4880014 AAAAAAATTC
4880024 AAGAAACAAAAAGGAA
1 AAGAAACAAAAAGGAA
* *
4880040 AAGAAATAAAATGGAA
1 AAGAAACAAAAAGGAA
4880056 AA
1 AA
4880058 AAAAAAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.06
Consensus pattern (16 bp):
AAGAAACAAAAAGGAA
Found at i:4880257 original size:5 final size:5
Alignment explanation
Indices: 4880247--4880284 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
4880237 AGAAAATCAA
4880247 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AA
4880285 GGAATACTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4880267 original size:15 final size:16
Alignment explanation
Indices: 4880247--4880284 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
4880237 AGAAAATCAA
4880247 AAAATAAAAT-AAAAT
1 AAAATAAAATAAAAAT
4880262 AAAATAAAATAAAAAT
1 AAAATAAAATAAAAAT
4880278 AAAATAA
1 AAAATAA
4880285 GGAATACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:4880324 original size:3 final size:3
Alignment explanation
Indices: 4880316--4880365 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
4880306 CTAATCAATA
*
4880316 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAGA AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
4880361 AAT AA
1 AAT AA
4880366 ATAAGAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
2 2 0.05
3 40 0.91
4 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:4880336 original size:15 final size:15
Alignment explanation
Indices: 4880249--4880365 Score: 77
Period size: 15 Copynumber: 7.9 Consensus size: 15
4880239 AAAATCAAAA
4880249 AATAA-AATAA-AAT
1 AATAATAATAATAAT
*
4880262 AA-AATAA-AATAAA
1 AATAATAATAATAAT
*
4880275 AATAA-AATAAGGAAT
1 AATAATAATAA-TAAT
* **
4880290 ACTAAATAATTCTAAT
1 AAT-AATAATAATAAT
*
4880306 -CTAATCAATAAATAAT
1 AATAAT-AAT-AATAAT
4880322 AATAATAATAATAAT
1 AATAATAATAATAAT
*
4880337 AATAATAA-AAGAAAT
1 AATAATAATAA-TAAT
4880352 AATAATAATAATAA
1 AATAATAATAATAA
4880366 ATAAGAAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
12 4 0.05
13 10 0.12
14 9 0.11
15 36 0.45
16 14 0.17
17 7 0.09
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (15 bp):
AATAATAATAATAAT
Found at i:4880352 original size:24 final size:23
Alignment explanation
Indices: 4880325--4880373 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
4880315 AAATAATAAT
4880325 AATAATAATAATAATAATAAAAGA
1 AATAATAATAATAATAA-AAAAGA
*
4880349 AATAATAATAATAATAAATAAGA
1 AATAATAATAATAATAAAAAAGA
4880372 AA
1 AA
4880374 AAAAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (23 bp):
AATAATAATAATAATAAAAAAGA
Found at i:4881227 original size:27 final size:27
Alignment explanation
Indices: 4881160--4881352 Score: 132
Period size: 27 Copynumber: 7.6 Consensus size: 27
4881150 ATATACATTG
4881160 ATAT-AAAAATAT--ATTAATAGAT-A
1 ATATAAAAAATATAAATTAATAGATAA
* *
4881183 A-AT-AAAAATA-ATAGTAATAGATAA
1 ATATAAAAAATATAAATTAATAGATAA
4881207 ATATAAAAAATATAAATTAATAGATAA
1 ATATAAAAAATATAAATTAATAGATAA
*
4881234 ATAATAAAAAATAT--ATTAATA-A-AT
1 AT-ATAAAAAATATAAATTAATAGATAA
* *
4881258 A-ATAAAACATATATATTAATAGAT-A
1 ATATAAAAAATATAAATTAATAGATAA
* *
4881283 A-ATAAAAAAGATAAA-TAGATAAAT-A
1 ATATAAAAAATATAAATTA-ATAGATAA
* * *
4881308 ATAATAAAAAATATATATTTATAAATAA
1 AT-ATAAAAAATATAAATTAATAGATAA
*
4881336 ATA-AATAAAATAAAAAT
1 ATATAA-AAAATATAAAT
4881353 ACAAATGGGC
Statistics
Matches: 138, Mismatches: 15, Indels: 30
0.75 0.08 0.16
Matches are distributed among these distances:
22 19 0.14
23 10 0.07
24 13 0.09
25 23 0.17
26 16 0.12
27 42 0.30
28 15 0.11
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.30
Consensus pattern (27 bp):
ATATAAAAAATATAAATTAATAGATAA
Found at i:4881235 original size:50 final size:49
Alignment explanation
Indices: 4881164--4881347 Score: 214
Period size: 50 Copynumber: 3.7 Consensus size: 49
4881154 ACATTGATAT
4881164 AAAA-ATATATTAATAGATAAATAAAAATAATAGTAATAGATAAAT-ATAA
1 AAAATATATATTAATAGATAAATAAAAA-AATA-TAATAGATAAATAATAA
* *
4881213 AAAATATAAATTAATAGATAAATAATAAAAAATATATTA-ATAAATAATAA
1 AAAATATATATTAATAGATAAAT-A-AAAAAATATAATAGATAAATAATAA
*
4881263 AACATATATATTAATAGATAAATAAAAAAGATA-AATAGATAAATAATAATAA
1 AAAATATATATTAATAGATAAATAAAAAA-ATATAATAGAT--A-AATAATAA
* *
4881315 AAAATATATATTTATAAATAAATAAATAAAATA
1 AAAATATATATTAATAGATAAATAAA-AAAATA
4881348 AAAATACAAA
Statistics
Matches: 117, Mismatches: 8, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
48 8 0.07
49 16 0.14
50 46 0.39
51 6 0.05
52 38 0.32
53 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (49 bp):
AAAATATATATTAATAGATAAATAAAAAAATATAATAGATAAATAATAA
Found at i:4881325 original size:76 final size:76
Alignment explanation
Indices: 4881164--4881340 Score: 229
Period size: 76 Copynumber: 2.3 Consensus size: 76
4881154 ACATTGATAT
* *
4881164 AAAAATATATTAATAGATAAATAAAAATAATAGTAATAGATAAATATAAAAAATATAAATTAATA
1 AAAAATATATTAATAAATAAATAAAAATAATAGTAATAGATAAATATAAAAAAGATAAATTAATA
*
4881229 GATAAATAATA
66 AATAAATAATA
*
4881240 AAAAATATATTAATAAAT-AATAAAACATATATATTAATAGAT-AA-ATAAAAAAGATAAA-TAG
1 AAAAATATATTAATAAATAAATAAAA-ATA-ATAGTAATAGATAAATATAAAAAAGATAAATTA-
4881301 ATAAAT-AATAATAA
63 ATAAATAAATAAT-A
*
4881315 AAAATATATATTTATAAATAAATAAA
1 AAAA-ATATATTAATAAATAAATAAA
4881341 TAAAATAAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
74 8 0.09
75 30 0.33
76 35 0.39
77 17 0.19
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (76 bp):
AAAAATATATTAATAAATAAATAAAAATAATAGTAATAGATAAATATAAAAAAGATAAATTAATA
AATAAATAATA
Found at i:4881350 original size:5 final size:4
Alignment explanation
Indices: 4881218--4881349 Score: 62
Period size: 4 Copynumber: 33.2 Consensus size: 4
4881208 TATAAAAAAT
* * * *
4881218 ATAA ATTA ATAG ATAA AT-A ATAA A-AA ATAT ATTA ATAA AT-A ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * * * *
4881263 A-ACA TATAT ATTA ATAG ATAA ATAA AAAA GATAA ATAG ATAA AT-A AT-A
1 ATA-A -ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA ATAA
**
4881311 ATAA A-AA ATATA TATTT ATAA ATAA ATAA ATAAA ATAA A
1 ATAA ATAA ATA-A -ATAA ATAA ATAA ATAA AT-AA ATAA A
4881350 AATACAAATG
Statistics
Matches: 94, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
3 19 0.20
4 63 0.67
5 9 0.10
6 3 0.03
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.30
Consensus pattern (4 bp):
ATAA
Found at i:4881510 original size:9 final size:9
Alignment explanation
Indices: 4881504--4881535 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
4881494 GATTTTTTTC
4881504 CTTTTTTAT
1 CTTTTTTAT
4881513 CTTTTTTAT
1 CTTTTTTAT
4881522 -TTTTTTAT
1 CTTTTTTAT
4881530 -TTTTTT
1 CTTTTTT
4881536 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.61
9 9 0.39
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.84
Consensus pattern (9 bp):
CTTTTTTAT
Found at i:4881519 original size:17 final size:16
Alignment explanation
Indices: 4881495--4881535 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
4881485 ACTCAACTGG
*
4881495 ATTTTTTTCCTTTTTT
1 ATTTTTTTACTTTTTT
*
4881511 ATCTTTTTTATTTTTTT
1 AT-TTTTTTACTTTTTT
4881528 ATTTTTTT
1 ATTTTTTT
4881536 TTTAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (16 bp):
ATTTTTTTACTTTTTT
Found at i:4881820 original size:44 final size:44
Alignment explanation
Indices: 4881550--4882093 Score: 586
Period size: 44 Copynumber: 12.5 Consensus size: 44
4881540 AATTTTGATC
* * *
4881550 AAAGCTCCTCTAAGT-AGTGGCTCAATGACTTTGAGAAATATAAAC
1 AAAGCTCCTCTAA-TCAGAGGCTCAATGACTTTG-GAAAAATAAAT
* * * *
4881595 AAAGCTCCTCTAAAT-AGAGGCTCAACGATTTTGAAAAATATAAAC
1 AAAGCTCCTCT-AATCAGAGGCTCAATGACTTTGGAAAA-ATAAAT
* *
4881640 AAAGCTCCTCTAATCAGAGGCTTAATAACTTT-GAAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAAATAAAT
* * * * * * * *
4881683 -TA-CTCCTTTAAACAGAGGCAACCACGACTTTGGAAAAGTAAAC
1 AAAGCTCCTCTAATCAGAGGC-TCAATGACTTTGGAAAAATAAAT
* *
4881726 AAAGTTCCTCTAAACAGAGGCTCAATGACTTT-GAAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAAATAAAT
*
4881769 AAAGCTCCTATAATCAGAGGCTCAATGACTTTGGAAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAAATAAAT
* *
4881813 AAAGCTCCTCTAATCAGAGGCTCAAAGACTTTTGAAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAAATAAAT
** *
4881857 AAAGCTCCTCTAAAT-AGAGGCTCAACAACTTTTGAAAAATAAAT
1 AAAGCTCCTCT-AATCAGAGGCTCAATGACTTTGGAAAAATAAAT
* * *
4881901 AAAGCTCTTCTAATCAGAGGCTCAATAACTTTTGAAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAAATAAAT
* * * * * *
4881945 AAAACACCTCTAATCAAAGGCTCAACGACTTTGAAAAAATAACT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAAATAAAT
* * *
4881989 ---GCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAAATAAAT
* * * *
4882030 AAAGCTCTTATAATCAGAGGATCAATGACTTTGAAAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAAATAAAT
*
4882074 AAAGCTCCTCTAAACAGAGG
1 AAAGCTCCTCTAATCAGAGG
4882094 GACCACAACT
Statistics
Matches: 421, Mismatches: 65, Indels: 27
0.82 0.13 0.05
Matches are distributed among these distances:
41 49 0.12
42 7 0.02
43 55 0.13
44 233 0.55
45 75 0.18
46 2 0.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (44 bp):
AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAAATAAAT
Found at i:4882026 original size:217 final size:218
Alignment explanation
Indices: 4881550--4882117 Score: 627
Period size: 217 Copynumber: 2.6 Consensus size: 218
4881540 AATTTTGATC
** * *
4881550 AAAGCTCCTCTAAGTAGTGGCTCAATGAC-TTTGAGAAATATAAACAAAGCTCCTCTAAAT-AGA
1 AAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGA-AAA-ATAAATAAAGCTCCTCT-AATCAGA
* * * *
4881613 GGCTCAACGA-TTTTGAAAAATATAAACAAAGCTCCTCT-AATCAGAGGCTTAATAAC-TTTGAA
63 GGCTCAAAGACTTTTGAAAAA-ATAAATAAAGCTCCTCTAAAT-AGAGGCTCAACAACTTTTGAA
* * * * ***
4881675 AAATAAATTACTCCTTTAAACAGAGGCAACCACGACTTTGGAAAAGTAAACAAAGTTCCTCTAAA
126 AAATAAATAACTCCTTTAAACAGAGGCAACAACAACTTTGGAAAAATAAACAAAACACCTCTAAA
* *
4881740 CAGAGGCTCAATGACTTTGAAAAATAAAT
191 CAAAGGCTCAACGACTTTG-AAAATAAAT
* * *
4881769 AAAGCTCCTATAATCAGAGGCTCAATGACTTTGGAAAAATAAATAAAGCTCCTCTAATCAGAGGC
1 AAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGC
4881834 TCAAAGACTTTTG-AAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTTGAAAAATA
66 TCAAAGACTTTTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTTGAAAAATA
* * * * * *
4881898 AATAAAGCT-CTTCTAATCAGAGGC-TCAATAACTTTTGAAAAATAAATAAAACACCTCTAATCA
131 AAT-AA-CTCCTT-TAAACAGAGGCAACAACAACTTTGGAAAAATAAACAAAACACCTCTAAACA
4881961 AAGGCTCAACGACTTTG-AAA-AAAT
193 AAGGCTCAACGACTTTGAAAATAAAT
* * * *
4881985 AACTGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAATAAAGCTCTTATAATCAGAGG
1 AA-AGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGG
* * * ** * * *
4882050 ATCAATGAC-TTTGAAAAAATAAATAAAGCTCCTCTAAACAGAGGGACCACAACTTTGGAAAAGT
65 CTCAAAGACTTTTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTTGAAAAAT
4882114 AAAT
130 AAAT
4882118 GTTCCTTGAC
Statistics
Matches: 299, Mismatches: 40, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
216 10 0.03
217 144 0.48
218 49 0.16
219 80 0.27
220 16 0.05
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (218 bp):
AAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGC
TCAAAGACTTTTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTTGAAAAATA
AATAACTCCTTTAAACAGAGGCAACAACAACTTTGGAAAAATAAACAAAACACCTCTAAACAAAG
GCTCAACGACTTTGAAAATAAAT
Found at i:4882061 original size:129 final size:128
Alignment explanation
Indices: 4881554--4882093 Score: 597
Period size: 129 Copynumber: 4.1 Consensus size: 128
4881544 TTGATCAAAG
* * * *
4881554 CTCCTCTAAGT-AGTGGCTCAATGACTTTGAGAAATATAAACAAAGCTCCTCTAAATAGAGGCTC
1 CTCCTCTAA-TCAGAGGCTCAACGACTTTGA-AAAAAT-AAC--AGCTCCTCTAAACAGAGGCTC
* * *
4881618 AACGA-TTTTGAAAAATATAAACAAAGCTCCTCTAATCAGAGGCTTAATAACTTTGAAAAATAAA
61 AACGACTTTTG-AAAA-ATAAATAAAGCTCCTATAATCAGAGGCTCAATAACTTTGAAAAATAAA
*
4881682 T--TA
124 TAAAA
* * * * * * *
4881685 CTCCTTTAAACAGAGGCAACCACGACTTTGGAAAAGTAAACAAAGTTCCTCTAAACAGAGGCTCA
1 CTCCTCTAATCAGAGGC-TCAACGACTTTGAAAAAAT-AAC--AGCTCCTCTAAACAGAGGCTCA
* *
4881750 ATGAC-TTTGAAAAATAAATAAAGCTCCTATAATCAGAGGCTCAATGACTTTGGAAAAATAAATA
62 ACGACTTTTGAAAAATAAATAAAGCTCCTATAATCAGAGGCTCAATAACTTT-GAAAAATAAATA
*
4881814 AAG
126 AAA
* *
4881817 CTCCTCTAATCAGAGGCTCAAAGACTTTTGAAAAATAAATAA-AGCTCCTCTAAATAGAGGCTCA
1 CTCCTCTAATCAGAGGCTCAACGAC-TTTG--AAA-AAATAACAGCTCCTCTAAACAGAGGCTCA
* * *
4881881 ACAACTTTTGAAAAATAAATAAAGCTCTTCTAATCAGAGGCTCAATAACTTTTGAAAAATAAATA
62 ACGACTTTTGAAAAATAAATAAAGCTCCTATAATCAGAGGCTCAATAAC-TTTGAAAAATAAATA
4881946 AAA
126 AAA
* * *
4881949 CACCTCTAATCAAAGGCTCAACGACTTTGAAAAAATAACTGCTCCTCTAAACAGAGGCTCAACGA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAACAGCTCCTCTAAACAGAGGCTCAACGA
* * * *
4882014 CTTTTGAAAAATAAATAAAGCTCTTATAATCAGAGGATCAATGACTTTGAAAAAATAAATAAAG
66 CTTTTGAAAAATAAATAAAGCTCCTATAATCAGAGGCTCAATAACTTTG-AAAAATAAATAAAA
*
4882078 CTCCTCTAAACAGAGG
1 CTCCTCTAATCAGAGG
4882094 GACCACAACT
Statistics
Matches: 349, Mismatches: 46, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
128 10 0.03
129 128 0.37
130 15 0.04
131 82 0.23
132 104 0.30
133 3 0.01
134 4 0.01
135 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (128 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAACAGCTCCTCTAAACAGAGGCTCAACGA
CTTTTGAAAAATAAATAAAGCTCCTATAATCAGAGGCTCAATAACTTTGAAAAATAAATAAAA
Found at i:4889855 original size:48 final size:48
Alignment explanation
Indices: 4889784--4889882 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 48
4889774 TACATCGAGA
4889784 CTAAGCACAGCCTAGTAGTATCAACAGAACCATAAAATCCAATCCCTT
1 CTAAGCACAGCCTAGTAGTATCAACAGAACCATAAAATCCAATCCCTT
* *
4889832 CTAAGCACAGCCTAGTAGTATCAATAGAACCATAAAATTCAATCCCTT
1 CTAAGCACAGCCTAGTAGTATCAACAGAACCATAAAATCCAATCCCTT
4889880 CTA
1 CTA
4889883 TGGCCGTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.23
Consensus pattern (48 bp):
CTAAGCACAGCCTAGTAGTATCAACAGAACCATAAAATCCAATCCCTT
Found at i:4890475 original size:15 final size:15
Alignment explanation
Indices: 4890451--4890481 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4890441 TGTTAAGTGT
*
4890451 AATGAGTGAAAATGC
1 AATGAATGAAAATGC
4890466 AATGAATGAAAATGC
1 AATGAATGAAAATGC
4890481 A
1 A
4890482 TGTATGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (15 bp):
AATGAATGAAAATGC
Found at i:4893775 original size:5 final size:5
Alignment explanation
Indices: 4893765--4893820 Score: 76
Period size: 5 Copynumber: 10.6 Consensus size: 5
4893755 AGAAAATCAA
*
4893765 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAAT AAAAAC AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT -AAAAT AAAAT AAAAT
4893813 AAAAT AAA
1 AAAAT AAA
4893821 GAATACTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 32 0.67
6 16 0.33
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:4893795 original size:28 final size:27
Alignment explanation
Indices: 4893757--4893825 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
4893747 TTATTTAAAG
*
4893757 AAAATCAAAAAATAAAATAAAATAAAAT
1 AAAAT-AAAAAATAAAACAAAATAAAAT
4893785 AAAA-ATAAAAATAAAAACAAAATAAAAT
1 AAAATA-AAAAAT-AAAACAAAATAAAAT
*
4893813 AAAATAAAGAATA
1 AAAATAAAAAATA
4893826 CTAAATAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
26 1 0.03
27 7 0.19
28 27 0.75
29 1 0.03
ACGTcount: A:0.80, C:0.03, G:0.01, T:0.16
Consensus pattern (27 bp):
AAAATAAAAAATAAAACAAAATAAAAT
Found at i:4893863 original size:3 final size:3
Alignment explanation
Indices: 4893855--4893910 Score: 71
Period size: 3 Copynumber: 18.3 Consensus size: 3
4893845 TCAGTAAATT
4893855 ATA ATA ATA AT- ATAA ATA ATA ATA ATA ATA ATA GA-A ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
4893900 ATAA ATA ATA A
1 AT-A ATA ATA A
4893911 AAAAAAACCT
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
2 3 0.06
3 39 0.81
4 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:4893881 original size:21 final size:21
Alignment explanation
Indices: 4893855--4893909 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
4893845 TCAGTAAATT
*
4893855 ATAATAATAATATAAATAATA
1 ATAATAATAATAGAAATAATA
4893876 ATAATAATAATAGAAATAATA
1 ATAATAATAATAGAAATAATA
4893897 ATAATAAATAATA
1 ATAAT-AATAATA
4893910 AAAAAAAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 25 0.78
22 7 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
ATAATAATAATAGAAATAATA
Found at i:4894403 original size:21 final size:21
Alignment explanation
Indices: 4894371--4894415 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4894361 AATTTTCCAG
4894371 AAAAAAACTTCAAAAATT-CT
1 AAAAAAACTTCAAAAATTCCT
* *
4894391 AAAAAACATTTCACAAATTCCT
1 AAAAAA-ACTTCAAAAATTCCT
4894413 AAA
1 AAA
4894416 GTTGTGTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 10 0.48
22 5 0.24
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAAACTTCAAAAATTCCT
Found at i:4894720 original size:20 final size:19
Alignment explanation
Indices: 4894695--4894760 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
4894685 AATAATAGAT
*
4894695 AAATATACATTGATATAAAA
1 AAATATA-ATAGATATAAAA
4894715 AAATATTAATAGATAAATAAAA
1 AAATA-TAATAGAT--ATAAAA
*
4894737 AAA-ATAGATAAATATAAAA
1 AAATATA-ATAGATATAAAA
4894756 AAATA
1 AAATA
4894761 CATTAATAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 9 0.23
20 13 0.33
21 8 0.21
22 9 0.23
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.26
Consensus pattern (19 bp):
AAATATAATAGATATAAAA
Found at i:4894744 original size:17 final size:18
Alignment explanation
Indices: 4894722--4894760 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
4894712 AAAAAATATT
4894722 AATAGATAAATA-AAAAA
1 AATAGATAAATATAAAAA
4894739 AATAGATAAATATAAAAA
1 AATAGATAAATATAAAAA
4894757 AATA
1 AATA
4894761 CATTAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AATAGATAAATATAAAAA
Found at i:4894768 original size:18 final size:18
Alignment explanation
Indices: 4894677--4894768 Score: 53
Period size: 18 Copynumber: 4.9 Consensus size: 18
4894667 TAAACGAACC
*
4894677 AAAAAAATA-A-TAATAG
1 AAAAAAATACATTAATAT
* * *
4894693 ATAAATATACATTGATAT
1 AAAAAAATACATTAATAT
* *
4894711 AAAAAAATATTAATAGATAAAT
1 AAAAAAATA-CATTA-AT--AT
* *
4894733 AAAAAAAATAGATAAATAT
1 -AAAAAAATACATTAATAT
4894752 AAAAAAATACATTAATA
1 AAAAAAATACATTAATA
4894769 GATAAATAAT
Statistics
Matches: 55, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
16 7 0.13
17 1 0.02
18 26 0.47
19 4 0.07
20 2 0.04
21 2 0.04
22 4 0.07
23 9 0.16
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (18 bp):
AAAAAAATACATTAATAT
Found at i:4894780 original size:27 final size:28
Alignment explanation
Indices: 4894739--4894865 Score: 117
Period size: 27 Copynumber: 4.7 Consensus size: 28
4894729 AAATAAAAAA
*
4894739 AATAGATAAAT-ATAAAAAA-ATACATT
1 AATAGATAAATAATAAAAAATATATATT
4894765 AATAGATAAATAATAAAAACGTATATATATT
1 AATAGATAAATAATAAAAA---ATATATATT
*
4894796 AATAGATAAATAA-AAAAGAT-TA-A-T
1 AATAGATAAATAATAAAAAATATATATT
*
4894820 AGATAAAT-AATAATAAAAAATATATATT
1 A-ATAGATAAATAATAAAAAATATATATT
* *
4894848 TATAAATAAATAA-AAAAA
1 AATAGATAAATAATAAAAA
4894866 TTAAAAATAA
Statistics
Matches: 85, Mismatches: 5, Indels: 21
0.77 0.05 0.19
Matches are distributed among these distances:
24 7 0.08
25 12 0.14
26 15 0.18
27 21 0.25
28 6 0.07
30 5 0.06
31 19 0.22
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (28 bp):
AATAGATAAATAATAAAAAATATATATT
Found at i:4894830 original size:52 final size:51
Alignment explanation
Indices: 4894744--4894869 Score: 157
Period size: 52 Copynumber: 2.4 Consensus size: 51
4894734 AAAAAAATAG
**
4894744 ATAAATATAA-AAAAATACATTAATAGATAAATAATAA-AAACGTATATATATTA
1 ATAAATA-AATAAAAA-A-ATTAATAGATAAATAATAATAAA-AAATATATATTA
* *
4894797 ATAGATAAATAAAAAAGATTAATAGATAAATAATAATAAAAAATATATATTT
1 ATAAATAAATAAAAAA-ATTAATAGATAAATAATAATAAAAAATATATATTA
4894849 ATAAATAAATAAAAAAATTAA
1 ATAAATAAATAAAAAAATTAA
4894870 AAATAAAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
51 5 0.08
52 46 0.71
53 14 0.22
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (51 bp):
ATAAATAAATAAAAAAATTAATAGATAAATAATAATAAAAAATATATATTA
Found at i:4894879 original size:25 final size:25
Alignment explanation
Indices: 4894801--4894879 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 25
4894791 ATATTAATAG
*
4894801 ATAAATAAAAAAGATTAATAGATAAATA
1 ATAAATAAAAAA-ATTAA-AAATAAA-A
* ** *
4894829 AT-AAT-AAAAAATATATATTTATAA
1 ATAAATAAAAAAAT-TAAAAATAAAA
4894853 ATAAATAAAAAAATTAAAAATAAAA
1 ATAAATAAAAAAATTAAAAATAAAA
4894878 AT
1 AT
4894880 GCAAATGGAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
24 3 0.08
25 18 0.45
26 14 0.35
27 3 0.08
28 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (25 bp):
ATAAATAAAAAAATTAAAAATAAAA
Found at i:4911346 original size:16 final size:16
Alignment explanation
Indices: 4911233--4911434 Score: 65
Period size: 16 Copynumber: 12.4 Consensus size: 16
4911223 TTAAGAATTT
4911233 GATTCACAAAGATTTTCA
1 GATTCACAAA-ATTTT-A
* * *
4911251 AATTCTCAAAATTTCA
1 GATTCACAAAATTTTA
* * **
4911267 GTTTCACAAGGATTAAA
1 GATTCACAA-AATTTTA
4911284 GATTCACAAGAA-TTT-
1 GATTCACAA-AATTTTA
*
4911299 GATTCTC-AAATTTTCA
1 GATTCACAAAATTTT-A
* * *
4911315 GTTTCATAAGGA-TTTA
1 GATTCACAA-AATTTTA
4911331 GATTCACAAAATTTTA
1 GATTCACAAAATTTTA
* *
4911347 GATTCATAAGATTTTTCA
1 GATTCACAA-AATTTT-A
* *
4911365 -ATTTCACAAGATTTCA
1 GA-TTCACAAAATTTTA
** *
4911381 GATTTGCAAGAA-CTTA
1 GATTCACAA-AATTTTA
** *
4911397 GATTCACAAAAACTCA
1 GATTCACAAAATTTTA
* *
4911413 TATTCATAAAATTTTA
1 GATTCACAAAATTTTA
4911429 GATTCA
1 GATTCA
4911435 TAAGAACTTA
Statistics
Matches: 130, Mismatches: 41, Indels: 28
0.65 0.21 0.14
Matches are distributed among these distances:
13 2 0.02
14 4 0.03
15 9 0.07
16 66 0.51
17 33 0.25
18 16 0.12
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (16 bp):
GATTCACAAAATTTTA
Found at i:4911351 original size:48 final size:48
Alignment explanation
Indices: 4911217--4911351 Score: 159
Period size: 48 Copynumber: 2.8 Consensus size: 48
4911207 AGCAAGGTTT
* * *
4911217 AGTTTCTTAAGAATTT-GATTCACAAAGATTTTCAAATTCTCAAAATTTC
1 AGTTTCATAAGGATTTAGATTCACAAA-ATTTT-AGATTCTCAAAATTTC
* * *
4911266 AGTTTCACAAGGATTAAAGATTCACAAGAA-TTT-GATTCTCAAATTTTC
1 AGTTTCATAAGGATT-TAGATTCACAA-AATTTTAGATTCTCAAAATTTC
4911314 AGTTTCATAAGGATTTAGATTCACAAAATTTTAGATTC
1 AGTTTCATAAGGATTTAGATTCACAAAATTTTAGATTC
4911352 ATAAGATTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
46 2 0.03
47 13 0.18
48 32 0.44
49 12 0.16
50 3 0.04
51 10 0.14
52 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (48 bp):
AGTTTCATAAGGATTTAGATTCACAAAATTTTAGATTCTCAAAATTTC
Found at i:4911353 original size:32 final size:31
Alignment explanation
Indices: 4911283--4911360 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
4911273 CAAGGATTAA
* * *
4911283 AGATTCACAAGAATTTGATTCTCAAATTTTC
1 AGATTCATAAGGATTTGATTCACAAATTTTC
*
4911314 AGTTTCATAAGGATTTAGATTCACAAAATTTT-
1 AGATTCATAAGGATTT-GATTCAC-AAATTTTC
4911346 AGATTCATAA-GATTT
1 AGATTCATAAGGATTT
4911361 TTCAATTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 18 0.45
32 15 0.38
33 7 0.17
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (31 bp):
AGATTCATAAGGATTTGATTCACAAATTTTC
Found at i:4911435 original size:16 final size:16
Alignment explanation
Indices: 4911388--4911452 Score: 69
Period size: 16 Copynumber: 4.1 Consensus size: 16
4911378 TCAGATTTGC
*
4911388 AAGAACTTAGATTCAC
1 AAGAACTTAGATTCAT
* * *
4911404 AAAAACTCATATTCAT
1 AAGAACTTAGATTCAT
*
4911420 AA-AATTTTAGATTCAT
1 AAGAA-CTTAGATTCAT
4911436 AAGAACTTAGATTCAT
1 AAGAACTTAGATTCAT
4911452 A
1 A
4911453 TTTGAGAGAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
15 2 0.05
16 35 0.90
17 2 0.05
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (16 bp):
AAGAACTTAGATTCAT
Found at i:4911862 original size:109 final size:107
Alignment explanation
Indices: 4911616--4912019 Score: 411
Period size: 109 Copynumber: 3.7 Consensus size: 107
4911606 TTTGAAATTT
* * * *
4911616 TCATTCGAGTTCCAAGATTCACATTTGATAAATTTTAT-AGTTTCAAATCTATATTCAAAGGTTC
1 TCATTCGAGTTCAAAGATTCACATTCGATAAATTTT-TGAGTTTCATATCTAAATTCAAAGGTTC
4911680 TCATTAAAAAAAAAAATTAGGGGTTCACATCCAAAAATTTCAAAGCTTC
65 TCATT---AAAAAAAATTA-GGGTTCACAT-C-AAAATTTCAAAGCTTC
* * *
4911729 TTATTCGAGTTCAAAGATTTACATTCAATAAATTTTTGAGTTTCATATCTAAATTCAAAGGTTCT
1 TCATTCGAGTTCAAAGATTCACATTCGATAAATTTTTGAGTTTCATATCTAAATTCAAAGGTTCT
* *
4911794 TATT-AAAAAATTTAGAGGTTCACATACAAAATTTTCAAAGCTTC
66 CATTAAAAAAAATTAG-GGTTCACAT-CAAAA-TTTCAAAGCTTC
* ** * * * * *
4911838 TCATTCGAGTTGAAAGATTCACATTCGATTGATTTTAGAGTTTCACATAT-GATTTAAAGGTTCT
1 TCATTCGAGTTCAAAGATTCACATTCGATAAATTTTTGAGTTTCATATCTAAATTCAAAGGTTCT
* *
4911902 CATTCAAAAAAAATTAGGGTTTACATCTAAAAGTTCAAAGCATT-
66 CATT-AAAAAAAATTAGGGTTCACATC-AAAATTTCAAAGC-TTC
* * * * ** * *
4911946 TTATTTGAGTTTAAAGGTTCACATTCGATTGATTTTTAAGTTTTATATCTAAATTCAAAGGTTCT
1 TCATTCGAGTTCAAAGATTCACATTCGATAAATTTTTGAGTTTCATATCTAAATTCAAAGGTTCT
*
4912011 CATTTAAAA
66 CATTAAAAA
4912020 CTCAAAGATT
Statistics
Matches: 246, Mismatches: 37, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
108 74 0.30
109 102 0.41
110 10 0.04
112 1 0.00
113 59 0.24
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (107 bp):
TCATTCGAGTTCAAAGATTCACATTCGATAAATTTTTGAGTTTCATATCTAAATTCAAAGGTTCT
CATTAAAAAAAATTAGGGTTCACATCAAAATTTCAAAGCTTC
Found at i:4912076 original size:24 final size:23
Alignment explanation
Indices: 4912002--4912104 Score: 106
Period size: 21 Copynumber: 4.6 Consensus size: 23
4911992 ATCTAAATTC
*
4912002 AAAGGTTCTCATTTAAAACTC--
1 AAAGATTCTCATTTAAAACTCTT
*
4912023 AAAGATTCTCACTTAAAA--CTT
1 AAAGATTCTCATTTAAAACTCTT
*
4912044 AAAGTTTCTCATTTAAAACTTCTT
1 AAAGATTCTCATTTAAAAC-TCTT
*
4912068 AAAGATTCTAATTTAAAACTCTTT
1 AAAGATTCTCATTTAAAACTC-TT
* *
4912092 AAAGTTTTTCATT
1 AAAGATTCTCATT
4912105 ATTTTTAACT
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.01
21 32 0.48
23 2 0.03
24 32 0.48
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (23 bp):
AAAGATTCTCATTTAAAACTCTT
Found at i:4913228 original size:6 final size:6
Alignment explanation
Indices: 4913195--4913239 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
4913185 ATGAGTCTTT
4913195 ATTTTC -TTTT- ATTTTAC ATTTT- -TTTTC ATTTTC ATTTTC ATTTTC
1 ATTTTC ATTTTC ATTTT-C ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
4913240 TCTTTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
4 4 0.12
5 8 0.24
6 17 0.50
7 5 0.15
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (6 bp):
ATTTTC
Found at i:4913228 original size:46 final size:45
Alignment explanation
Indices: 4913177--4913271 Score: 102
Period size: 46 Copynumber: 2.1 Consensus size: 45
4913167 TCCTTTCAGG
*
4913177 TTTTCAATATGAGTCTT-TATTTTCTTTTATTTTACATTTTTTTTCA
1 TTTTCAATATCA-TCTTCTATTTTCTTTTATTTTACA-TTTTTTTCA
* * * * * *
4913223 TTTTCATTTTCATTTTCTCTTTTTTTTTATTTTTCATTTTTTTCA
1 TTTTCAATATCATCTTCTATTTTCTTTTATTTTACATTTTTTTCA
4913268 TTTT
1 TTTT
4913272 TTAATTTCTC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
45 16 0.39
46 25 0.61
ACGTcount: A:0.15, C:0.12, G:0.02, T:0.72
Consensus pattern (45 bp):
TTTTCAATATCATCTTCTATTTTCTTTTATTTTACATTTTTTTCA
Found at i:4913230 original size:16 final size:16
Alignment explanation
Indices: 4913195--4913322 Score: 70
Period size: 16 Copynumber: 7.8 Consensus size: 16
4913185 ATGAGTCTTT
4913195 ATTTTCTTTT-ATTTTAC
1 ATTTT-TTTTCATTTT-C
4913212 ATTTTTTTTCATTTTC
1 ATTTTTTTTCATTTTC
* *
4913228 ATTTTCATTTTCTCTTTTT
1 ATTTT--TTTTC-ATTTTC
*
4913247 TTTTATTTTTCATTTT-
1 ATTT-TTTTTCATTTTC
* *
4913263 TTTCATTTTTTAATTTCTC
1 ATT--TTTTTTCATTT-TC
4913282 A-TTTTTTTCATTTTTC
1 ATTTTTTTTCA-TTTTC
4913298 A-TTTTTTTC-TTTTC
1 ATTTTTTTTCATTTTC
*
4913312 -TTATTTTTCAT
1 ATTTTTTTTCAT
4913323 CCATTATTAA
Statistics
Matches: 91, Mismatches: 8, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
14 12 0.13
15 1 0.01
16 31 0.34
17 26 0.29
18 13 0.14
19 7 0.08
20 1 0.01
ACGTcount: A:0.13, C:0.12, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTTTTCATTTTC
Found at i:4913232 original size:12 final size:11
Alignment explanation
Indices: 4913192--4913271 Score: 69
Period size: 12 Copynumber: 7.3 Consensus size: 11
4913182 AATATGAGTC
4913192 TTTATTTTC-T
1 TTTATTTTCAT
4913202 TTTATTTTACAT
1 TTTATTTT-CAT
4913214 TTT-TTTTCAT
1 TTTATTTTCAT
4913224 TTTCATTTTCAT
1 TTT-ATTTTCAT
* **
4913236 TTTCTCTTTTTT
1 TTTAT-TTTCAT
4913248 TTTATTTTTCA-
1 TTTA-TTTTCAT
4913259 TTT-TTTTCAT
1 TTTATTTTCAT
4913269 TTT
1 TTT
4913272 TTAATTTCTC
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
9 6 0.11
10 17 0.30
11 9 0.16
12 24 0.42
13 1 0.02
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTTCAT
Found at i:4913271 original size:24 final size:24
Alignment explanation
Indices: 4913201--4913296 Score: 94
Period size: 24 Copynumber: 4.1 Consensus size: 24
4913191 CTTTATTTTC
*
4913201 TTTTATTTTACATTTTTTTTCA--T
1 TTTTATTTTTCA-TTTTTTTCATTT
*
4913224 TTTCA-TTTTCATTTTCTCTT--TTT
1 TTTTATTTTTCATTTT-T-TTCATTT
4913247 TTTTATTTTTCATTTTTTTCATTT
1 TTTTATTTTTCATTTTTTTCATTT
* *
4913271 TTTAATTTCTCATTTTTTTCATTT
1 TTTTATTTTTCATTTTTTTCATTT
4913295 TT
1 TT
4913297 CATTTTTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
21 4 0.07
22 8 0.13
23 12 0.20
24 37 0.61
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTATTTTTCATTTTTTTCATTT
Found at i:4913295 original size:40 final size:40
Alignment explanation
Indices: 4913223--4913310 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
4913213 TTTTTTTTCA
* * *
4913223 TTTTCA-TTTTCATTTTCTCTTTTTTTTTATTTTTCATTT
1 TTTTCATTTTTCAATTTCTCATTTTTTTCATTTTTCATTT
*
4913262 TTTTCATTTTTTAATTTCTCATTTTTTTCATTTTTCATTT
1 TTTTCATTTTTCAATTTCTCATTTTTTTCATTTTTCATTT
4913302 TTTTC-TTTT
1 TTTTCATTTT
4913311 CTTATTTTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 10 0.23
40 34 0.77
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.76
Consensus pattern (40 bp):
TTTTCATTTTTCAATTTCTCATTTTTTTCATTTTTCATTT
Found at i:4913302 original size:6 final size:7
Alignment explanation
Indices: 4913216--4913303 Score: 55
Period size: 6 Copynumber: 12.7 Consensus size: 7
4913206 TTTTACATTT
4913216 TTTTTCA
1 TTTTTCA
4913223 -TTTTCA
1 TTTTTCA
4913229 -TTTTCA
1 TTTTTCA
4913235 -TTTTC-
1 TTTTTCA
4913240 TCTTTT--
1 T-TTTTCA
4913246 TTTTT-A
1 TTTTTCA
4913252 TTTTTCA
1 TTTTTCA
4913259 TTTTTTTCA
1 --TTTTTCA
*
4913268 TTTTTTAA
1 -TTTTTCA
*
4913276 TTTCTCA
1 TTTTTCA
4913283 TTTTTTTCA
1 --TTTTTCA
4913292 TTTTTCA
1 TTTTTCA
4913299 TTTTT
1 TTTTT
4913304 TTCTTTTCTT
Statistics
Matches: 69, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
5 4 0.06
6 23 0.33
7 22 0.32
8 7 0.10
9 13 0.19
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTCA
Found at i:4918022 original size:194 final size:193
Alignment explanation
Indices: 4917663--4918019 Score: 443
Period size: 194 Copynumber: 1.8 Consensus size: 193
4917653 ACAATTACTT
* *
4917663 TTATTAAAATTTTATCTAAATTATTCCACAATTTGGGACAAATTTAGAGAAATTTCTCACCTAAA
1 TTATTAAAACTTTATCTAAATTATTCCACAATTTGGGACAAATTTAGAAAAATTTCTCACCTAAA
** * * * *
4917728 AATTTCTTGGAGAATTTACTATTTCAATTTTGTAAGAATCTCATCCTTAGATAATTAGTATTTAA
66 AATTTCTAAGAGAATTTACCATTTCAATTTTCTAAAAATCTCATCATTAGATAATTAGTATTTAA
***
4917793 TTCAAAATTTTTATTAAAATTTTTATATTTTTTATTTTGAATTGAAAATAAATATTAATTGTCA
131 TTCAAAAAAATTATT-AAATTTTTATATTTTTTATTTTGAATTGAAAATAAATATTAATTGTCA
* *
4917857 TTATTGAAACTTTATCTAAATTATTCCACAATTTGGGAGAAATTTAGAAAAAAAATTTCTCACCT
1 TTATTAAAACTTTATCTAAATTATTCCACAATTTGGGACAAATTTAG---AAAAATTTCTCACCT
** * * *
4917922 AGGAATTT-TAA-AGGAATTTACCATTTACAA-TTTCTAAAAATTTCATCATTGGATAATTATTA
63 AAAAATTTCTAAGA-GAATTTACCATTT-CAATTTTCTAAAAATCTCATCATTAGATAATTAGTA
* *
4917984 TTTATTCTCAAAAAAATTATT-AATTTTTTTATTTTT
126 TTTAAT-TCAAAAAAATTATTAAATTTTTATATTTTT
4918020 ATTATTTTTT
Statistics
Matches: 137, Mismatches: 20, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
194 44 0.32
195 15 0.11
196 44 0.32
197 34 0.25
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.45
Consensus pattern (193 bp):
TTATTAAAACTTTATCTAAATTATTCCACAATTTGGGACAAATTTAGAAAAATTTCTCACCTAAA
AATTTCTAAGAGAATTTACCATTTCAATTTTCTAAAAATCTCATCATTAGATAATTAGTATTTAA
TTCAAAAAAATTATTAAATTTTTATATTTTTTATTTTGAATTGAAAATAAATATTAATTGTCA
Found at i:4918567 original size:19 final size:20
Alignment explanation
Indices: 4918538--4918578 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
4918528 TATGGCCATT
*
4918538 CATTCTTTTTTTCAATTATC
1 CATTCTTTTTTTCAAATATC
*
4918558 CATT-TTTTTTTGAAATATC
1 CATTCTTTTTTTCAAATATC
4918577 CA
1 CA
4918579 GAGAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.56
Consensus pattern (20 bp):
CATTCTTTTTTTCAAATATC
Found at i:4918671 original size:31 final size:31
Alignment explanation
Indices: 4918626--4918685 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
4918616 ACAATTAAAG
4918626 ATAAAAAACAAATAAACAA-GATAAAATAAATA
1 ATAAAAAACAAATAAA-AATGAT-AAATAAATA
*
4918658 ATAAAATA-AAATAAAAATGATAAATAAA
1 ATAAAAAACAAATAAAAATGATAAATAAA
4918686 AAGATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 9 0.35
31 10 0.38
32 7 0.27
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (31 bp):
ATAAAAAACAAATAAAAATGATAAATAAATA
Found at i:4918687 original size:19 final size:17
Alignment explanation
Indices: 4918646--4918686 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
4918636 AATAAACAAG
4918646 ATAAAATAAATAATAAA
1 ATAAAATAAATAATAAA
4918663 ATAAAATAAA-AATGATAA
1 ATAAAATAAATAAT-A-AA
4918681 ATAAAA
1 ATAAAA
4918687 AGATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 11 0.50
18 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (17 bp):
ATAAAATAAATAATAAA
Found at i:4919712 original size:60 final size:59
Alignment explanation
Indices: 4919644--4919822 Score: 188
Period size: 60 Copynumber: 3.0 Consensus size: 59
4919634 GCTTCTGTAC
*
4919644 AAGGAAAATTGATACTTTAAACTTTTTCTT-AAAATGTTTTTCTTGATAATTTTTATTTTT
1 AAGGAAAATTGATACTTTAAACTTTTTCTTCAAAATGTTTTTCTTGA-AA-TTTTAATTTT
* *
4919704 AAGGAAAATT-AGTA-TTTCCAAC-TTTTCTTCAAAATGTTTTTTTTGAAATTTTAATTTT
1 AAGGAAAATTGA-TACTTT-AAACTTTTTCTTCAAAATGTTTTTCTTGAAATTTTAATTTT
* ** * * *
4919762 AAGGAAAATTGATACTTTTAAC-TTTTCCCCAAAAAATTTTTTTTTTGAAATTTTTATTTT
1 AAGGAAAATTGATACTTTAAACTTTTTCTTC--AAAATGTTTTTCTTGAAATTTTAATTTT
4919822 A
1 A
4919823 GAAAAATCAT
Statistics
Matches: 104, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
58 30 0.29
59 17 0.16
60 57 0.55
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (59 bp):
AAGGAAAATTGATACTTTAAACTTTTTCTTCAAAATGTTTTTCTTGAAATTTTAATTTT
Found at i:4920694 original size:4 final size:4
Alignment explanation
Indices: 4920687--4920772 Score: 54
Period size: 4 Copynumber: 21.5 Consensus size: 4
4920677 ATAGATAGTT
* * * *
4920687 AATA AATA AATA AAT- ATTT AATA GATA AAT- AATA AA-A AATCTT AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA--TA AATA
* *
4920734 GATA AAT- AATA AAAA AATA TTAATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA --AATA AATA AATA AATA AA
4920773 AATAAAAATA
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
3 11 0.17
4 46 0.73
6 6 0.10
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:4920748 original size:25 final size:24
Alignment explanation
Indices: 4920691--4920774 Score: 107
Period size: 25 Copynumber: 3.3 Consensus size: 24
4920681 ATAGTTAATA
4920691 AATAAATAAATATTTAATAGATAAAT
1 AATAAA-AAA-ATTTAATAGATAAAT
4920717 AAT-AAAAAATCTTAATAGATAAAT
1 AATAAAAAAAT-TTAATAGATAAAT
*
4920741 AATAAAAAAATATTAATAAATAAAT
1 AATAAAAAAAT-TTAATAGATAAAT
4920766 AAATAAAAA
1 -AATAAAAA
4920775 TAAAAATACA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.04
24 19 0.36
25 21 0.40
26 11 0.21
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (24 bp):
AATAAAAAAATTTAATAGATAAAT
Found at i:4920776 original size:18 final size:18
Alignment explanation
Indices: 4920737--4920778 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
4920727 CTTAATAGAT
*
4920737 AAAT-AATAAAAAAATAT
1 AAATAAATAAAAAAATAA
* *
4920754 TAATAAATAAATAAATAA
1 AAATAAATAAAAAAATAA
4920772 AAATAAA
1 AAATAAA
4920779 AATACAAATG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAATAAAAAAATAA
Found at i:4920782 original size:24 final size:24
Alignment explanation
Indices: 4920687--4920776 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
4920677 ATAGATAGTT
*
4920687 AATAAATAAATAAATAT-TTAATA
1 AATAAATAAATAAAAATATTAATA
* *
4920710 GATAAAT-AATAAAAAATCTTAATA
1 AATAAATAAAT-AAAAATATTAATA
* *
4920734 GATAAATAATAAAAAAATATTAATA
1 AATAAATAA-ATAAAAATATTAATA
4920759 AATAAATAAATAAAAATA
1 AATAAATAAATAAAAATA
4920777 AAAATACAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
22 3 0.05
23 11 0.19
24 21 0.37
25 21 0.37
26 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (24 bp):
AATAAATAAATAAAAATATTAATA
Found at i:4921073 original size:43 final size:43
Alignment explanation
Indices: 4920963--4921118 Score: 165
Period size: 43 Copynumber: 3.6 Consensus size: 43
4920953 AAATTTTGAT
* * * *
4920963 CAAAGCTCCTCTAAGTAAAGGCTCAATG-CTTTTGAGAAACATAAA
1 CAAAGCTCCTCTAAGTAGAGGCTCAATGAC--TT-AAAAAAATAGA
*
4921008 CAAAGCTCCTCTAAGTATAGGCTCAATGACTTAAAAAAATAGA
1 CAAAGCTCCTCTAAGTAGAGGCTCAATGACTTAAAAAAATAGA
* * *
4921051 CATAGCTCCTCTAATTAGAGGCTCAACGACTT-AAAAAAT-GAA
1 CAAAGCTCCTCTAAGTAGAGGCTCAATGACTTAAAAAAATAG-A
**
4921093 CAAAGCTCCTCTAAACAGAGGCTCAA
1 CAAAGCTCCTCTAAGTAGAGGCTCAA
4921119 CAACTTTGGA
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 31 0.32
43 36 0.37
44 2 0.02
45 27 0.28
46 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (43 bp):
CAAAGCTCCTCTAAGTAGAGGCTCAATGACTTAAAAAAATAGA
Found at i:4921150 original size:44 final size:44
Alignment explanation
Indices: 4920993--4921309 Score: 286
Period size: 44 Copynumber: 7.3 Consensus size: 44
4920983 GCTCAATGCT
* * * ** * *
4920993 TTTGAGAAACATAAACAAAGCTCCTCTAAGTATAGGCTCAATGAC
1 TTTGA-AAAAATAAATAAAGCTTCTCTAAACAGAGGCTCAACGAC
* * * * * **
4921038 -TTAAAAAAATAGACATAGCTCCTCTAATTAGAGGCTCAACGAC
1 TTTGAAAAAATAAATAAAGCTTCTCTAAACAGAGGCTCAACGAC
* * * *
4921081 -TT-AAAAAATGAACAAAGCTCCTCTAAACAGAGGCTCAACAAC
1 TTTGAAAAAATAAATAAAGCTTCTCTAAACAGAGGCTCAACGAC
* * * *
4921123 TTTGGAGAAATAAATAAAGCTTTTCTAAATAGAGGCTCAACGAC
1 TTTGAAAAAATAAATAAAGCTTCTCTAAACAGAGGCTCAACGAC
* * * *
4921167 TTTGAAAAAATAAAT--TGCTTCTCTAAACAGAAGCTCAACAAT
1 TTTGAAAAAATAAATAAAGCTTCTCTAAACAGAGGCTCAACGAC
* * * *
4921209 TTTGAAAAAAAAAATAAAGCTCCTATAAACAGAAGCTCAACGAC
1 TTTGAAAAAATAAATAAAGCTTCTCTAAACAGAGGCTCAACGAC
* *
4921253 TTTGGAGAAATAAATAAAGCTTCTCTAAACCA-AGGCTCAACGAC
1 TTTGAAAAAATAAATAAAGCTTCTCTAAA-CAGAGGCTCAACGAC
4921297 TTTGAAAAAATAA
1 TTTGAAAAAATAA
4921310 TTTGCTCCTC
Statistics
Matches: 224, Mismatches: 43, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
42 69 0.31
43 37 0.17
44 116 0.52
45 2 0.01
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (44 bp):
TTTGAAAAAATAAATAAAGCTTCTCTAAACAGAGGCTCAACGAC
Found at i:4921165 original size:86 final size:86
Alignment explanation
Indices: 4920964--4921330 Score: 307
Period size: 86 Copynumber: 4.2 Consensus size: 86
4920954 AATTTTGATC
* * * * * ** *
4920964 AAAGCTCCTCTAAGTAAAGGCTCAATG-CTTTTGAGAAACATAAACAAAGCTCCTCTAAGTATAG
1 AAAGCTCCTCTAAATAGAGGCTCAACGAC-TTTGA-AAAAAT-AA-AAAGCTTCTCTAAACAGAG
** * * *
4921028 GCTCAATGAC-TTAAAAAAATAGAC
62 GCTCAACAACTTTGAAAAAATAAAT
* * *
4921052 ATAGCTCCTCTAATTAGAGGCTCAACGAC-TT-AAAAAATGAACAAAGCTCCTCTAAACAGAGGC
1 AAAGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAAAT-AA-AAAGCTTCTCTAAACAGAGGC
* *
4921115 TCAACAACTTTGGAGAAATAAAT
64 TCAACAACTTTGAAAAAATAAAT
** ** *
4921138 AAAGCTTTTCTAAATAGAGGCTCAACGACTTTGAAAAAATAAATTGCTTCTCTAAACAGAAGCTC
1 AAAGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAAATAAAAAGCTTCTCTAAACAGAGGCTC
* *
4921203 AACAATTTTGAAAAAAAAAAT
66 AACAACTTTGAAAAAATAAAT
* * * * *
4921224 AAAGCTCCTATAAACAGAAGCTCAACGACTTTGGAGAAATAAATAAAGCTTCTCTAAACCA-AGG
1 AAAGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAAAT-AA-AAAGCTTCTCTAAA-CAGAGG
*
4921288 CTCAACGACTTTGAAAAAAT-AAT
63 CTCAACAACTTTGAAAAAATAAAT
**
4921311 -TTGCTCCTCTAAATAGAGGC
1 AAAGCTCCTCTAAATAGAGGC
4921331 AATAAAACTT
Statistics
Matches: 226, Mismatches: 46, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
85 32 0.14
86 119 0.53
87 11 0.05
88 61 0.27
89 3 0.01
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (86 bp):
AAAGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAAATAAAAAGCTTCTCTAAACAGAGGCTC
AACAACTTTGAAAAAATAAAT
Found at i:4921384 original size:43 final size:41
Alignment explanation
Indices: 4921097--4921371 Score: 176
Period size: 44 Copynumber: 6.4 Consensus size: 41
4921087 AATGAACAAA
* * * *
4921097 GCTCCTCTAAACAGAGGCTCAACAACTTTGGAGAAATAAATAAA
1 GCTCCTCTAAACA-AAGCTCAACAACTTTGAAAAAATAAAT--T
** * * *
4921141 GCTTTTCTAAATAGAGGCTCAACGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACA-AAGCTCAACAACTTTGAAAAAATAAATT
* * * *
4921183 GCTTCTCTAAACAGAAGCTCAACAATTTTGAAAAAAAAAATAAA
1 GCTCCTCTAAACA-AAGCTCAACAACTTTGAAAAAATAAAT--T
* * * * *
4921227 GCTCCTATAAACAGAAGCTCAACGACTTTGGAGAAATAAATAAA
1 GCTCCTCTAAACA-AAGCTCAACAACTTTGAAAAAATAAAT--T
* * * *
4921271 GCTTCTCTAAACCAAGGCTCAACGACTTTGAAAAAATAATTT
1 GCTCCTCTAAA-CAAAGCTCAACAACTTTGAAAAAATAAATT
* * *
4921313 GCTCCTCTAAATAGAGGCAAT-AA-AACTTTGGAGAAAATAAATT
1 GCTCCTCTAAACA-AAGC--TCAACAACTTT-GAAAAAATAAATT
4921356 GCTCCTCTAAACAAAG
1 GCTCCTCTAAACAAAG
4921372 ACACCACAAC
Statistics
Matches: 189, Mismatches: 35, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 56 0.30
43 25 0.13
44 105 0.56
45 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAAAGCTCAACAACTTTGAAAAAATAAATT
Found at i:4930885 original size:59 final size:58
Alignment explanation
Indices: 4930808--4930978 Score: 174
Period size: 58 Copynumber: 3.0 Consensus size: 58
4930798 TTGTACAAGG
* * *
4930808 AAAATTGCTACTTTCAACTTTTCCTTAAAA-ATTTTTCTTGATAATTTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTCTTGA-AA-ATTTAATTTTAAGA
* * *
4930867 AAAATTGGTA-TTTCCAACTTTT-CTTCAAAATGTTTTTTTTGAAAATTTAATTTTAAGA
1 AAAATTGATACTTT-CAACTTTTCCTT-AAAATATTTTTCTTGAAAATTTAATTTTAAGA
* * *
4930925 AAAATTGATACTTTCAATTTTTCCTCAAAATA-CTTT-TTGAAAAATTT-ATTTTAA
1 AAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTCTTG-AAAATTTAATTTTAA
4930979 AAATTTTACT
Statistics
Matches: 96, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
56 10 0.10
57 10 0.10
58 39 0.41
59 28 0.29
60 9 0.09
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.49
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTCTTGAAAATTTAATTTTAAGA
Found at i:4931097 original size:60 final size:61
Alignment explanation
Indices: 4930969--4931120 Score: 173
Period size: 60 Copynumber: 2.5 Consensus size: 61
4930959 TTTTGAAAAA
** * ** *
4930969 TTTATTTTAAAAATTTTACTTCCAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATA-
1 TTTATTTTTGAAATTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATAT
* *
4931029 TTTATTTTTGAAATTTTAATTTTAAGAAAAATTGATACTTTCAAC-TTTTCTCCAACAAGTCT
1 TTTATTTTTGAAATTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTTC-CCAA-AAATAT
* * *
4931091 TTTTTTTTTGAAATTTTTATTTTAGGAAAA
1 TTTATTTTTGAAATTTTAATTTTAAGAAAA
4931121 TCATTAAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
59 5 0.06
60 43 0.55
61 3 0.04
62 27 0.35
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (61 bp):
TTTATTTTTGAAATTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATAT
Found at i:4931187 original size:3 final size:3
Alignment explanation
Indices: 4931179--4931213 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
4931169 CTATTTTTAA
4931179 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
4931214 ATAAACCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:4931983 original size:4 final size:4
Alignment explanation
Indices: 4931974--4932042 Score: 63
Period size: 4 Copynumber: 17.5 Consensus size: 4
4931964 ACTAATAGAT
* * *
4931974 AATA AATA AATA AATA TATT AATA GATA AAT- AATA AA-A AATA TTAATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA --AATA
*
4932022 GATA AAT- AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AA
4932043 AATAAAAATG
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
3 9 0.17
4 39 0.75
6 4 0.08
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:4931990 original size:27 final size:26
Alignment explanation
Indices: 4931950--4932040 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
4931940 AAAAAAGTAG
*
4931950 ATAA-AAATACATATACTAATAGAT-A
1 ATAATAAATAAATATA-TAATAGATAA
4931975 ATAAATAAATAAATATATTAATAGATAA
1 AT-AATAAATAAATATA-TAATAGATAA
4932003 ATAATAAA-AAATAT-TAATAGATAA
1 ATAATAAATAAATATATAATAGATAA
4932027 ATAATAAATAAATA
1 ATAATAAATAAATA
4932041 AAAATAAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
24 18 0.30
25 7 0.12
26 8 0.13
27 24 0.40
28 3 0.05
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (26 bp):
ATAATAAATAAATATATAATAGATAA
Found at i:4932016 original size:24 final size:24
Alignment explanation
Indices: 4931975--4932040 Score: 98
Period size: 24 Copynumber: 2.7 Consensus size: 24
4931965 CTAATAGATA
*
4931975 ATAAATAA-ATAAATATATTAATAG
1 ATAAATAATA-AAAAATATTAATAG
4931999 ATAAATAATAAAAAATATTAATAG
1 ATAAATAATAAAAAATATTAATAG
4932023 ATAAATAATAAATAAATA
1 ATAAATAATAAA-AAATA
4932041 AAAATAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
24 33 0.85
25 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (24 bp):
ATAAATAATAAAAAATATTAATAG
Found at i:4936607 original size:43 final size:42
Alignment explanation
Indices: 4936483--4936615 Score: 149
Period size: 43 Copynumber: 3.1 Consensus size: 42
4936473 AGGACTCTAG
* * * *
4936483 TTTAAAGTTATTTAACCTCTGTATAAAGGAGCCTATTTCTTAG
1 TTTAAAGTTATTTAGCCTCTGTATAGA-GAGCTTATTTCTTAA
* * ** *
4936526 TTTAAAGTTGTTTAGTCTCTAAATAGAGAAGCTCATTTCTTAA
1 TTTAAAGTTATTTAGCCTCTGTATAGAG-AGCTTATTTCTTAA
*
4936569 TTTAAAGTTATTTAGCCTCTGTGTAGATGAGCTTATTTCTTAA
1 TTTAAAGTTATTTAGCCTCTGTATAGA-GAGCTTATTTCTTAA
4936612 TTTA
1 TTTA
4936616 TTAGCCTATG
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 71 0.97
44 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.44
Consensus pattern (42 bp):
TTTAAAGTTATTTAGCCTCTGTATAGAGAGCTTATTTCTTAA
Found at i:4936659 original size:25 final size:24
Alignment explanation
Indices: 4936612--4936662 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
4936602 TATTTCTTAA
4936612 TTTATTAGCCTATGTATAAAGGAG
1 TTTATTAGCCTATGTATAAAGGAG
* * *
4936636 TTTATTATGCCTCTGTTTAGAGGAG
1 TTTATTA-GCCTATGTATAAAGGAG
4936661 TT
1 TT
4936663 CGTTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (24 bp):
TTTATTAGCCTATGTATAAAGGAG
Found at i:4937387 original size:3 final size:3
Alignment explanation
Indices: 4937379--4937585 Score: 71
Period size: 3 Copynumber: 75.0 Consensus size: 3
4937369 GTTACCACAC
* * * *
4937379 TAT TAT TA- TAT TAC TAC TA- TAC TAT TAT TA- TAT TAT TA- TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
4937423 TA- TAT TA- TAT TAT TA- TAG TAT GT-T GA- TAT TA- TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * *
4937463 TAT TA- TAT CAG TAT TA- TAT TA- TAT TA- TAG TA- AAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** *
4937505 TA- TAT TAGGT TAT CA- TAT TAT GGT TAT TAT TAT TAT TAA TAT TAT
1 TAT TAT TA--T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
4937550 TA- TAT T-T GA- TAT TAT TAT TACT T-T TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
4937586 CAGATTTTTT
Statistics
Matches: 152, Mismatches: 26, Indels: 52
0.66 0.11 0.23
Matches are distributed among these distances:
2 37 0.24
3 109 0.72
4 3 0.02
5 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:4937390 original size:5 final size:5
Alignment explanation
Indices: 4937382--4937511 Score: 85
Period size: 5 Copynumber: 26.0 Consensus size: 5
4937372 ACCACACTAT
* *
4937382 TATTA TATTA CTACTA TACTA TTATTA TATTA T-TATA GTATTA TATTA
1 TATTA TATTA -TATTA TATTA -TATTA TATTA TAT-TA -TATTA TATTA
* * *
4937430 TA-T- TATTA TAGTA TGTTGA TATTA TATTA CTA-T- TATTA TATCA GTATTA
1 TATTA TATTA TATTA TATT-A TATTA TATTA -TATTA TATTA TATTA -TATTA
* *
4937479 TATTA TATTA TAGTA -AAT- TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA
4937512 GGTTATCATA
Statistics
Matches: 100, Mismatches: 11, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
3 4 0.04
4 8 0.08
5 66 0.66
6 21 0.21
7 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (5 bp):
TATTA
Found at i:4937523 original size:23 final size:23
Alignment explanation
Indices: 4937449--4937525 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
4937439 AGTATGTTGA
*
4937449 TATTATATTACTATTATTATATCAG
1 TATTATATTA-TATTAGT-TATCAG
* *
4937474 TATTATATTATATTA--TAGTAAAT
1 TATTATATTATATTAGTTA-T-CAG
4937497 TATTATATTATATTAGGTTATCA-
1 TATTATATTATATTA-GTTATCAG
4937520 TATTAT
1 TATTAT
4937526 GGTTATTATT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
21 2 0.05
22 1 0.02
23 22 0.50
24 6 0.14
25 11 0.25
26 2 0.05
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (23 bp):
TATTATATTATATTAGTTATCAG
Found at i:4949433 original size:60 final size:60
Alignment explanation
Indices: 4949369--4949498 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 60
4949359 ATCATATCAT
* * *
4949369 TTTTAGATTTGCAGTATCATTCCAGTCATTAATCTATGA-TCTCGAATTAGTCTTGGTCAC
1 TTTTAGACTTGCAGCATCATTCCAGTCATTAATCTATGACT-TCGAATCAGTCTTGGTCAC
* ** * * *
4949429 TTTTAGACTTGCAGCATCGTTTTAGTCATTAATCTATGACTTTGACTCAGTCTTGGTCAT
1 TTTTAGACTTGCAGCATCATTCCAGTCATTAATCTATGACTTCGAATCAGTCTTGGTCAC
*
4949489 TTTTAAACTT
1 TTTTAGACTT
4949499 ACGACATTGT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 58 0.98
61 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.44
Consensus pattern (60 bp):
TTTTAGACTTGCAGCATCATTCCAGTCATTAATCTATGACTTCGAATCAGTCTTGGTCAC
Found at i:4949761 original size:131 final size:131
Alignment explanation
Indices: 4949527--4949778 Score: 299
Period size: 131 Copynumber: 1.9 Consensus size: 131
4949517 TCCGATCTCA
** **
4949527 ATTCAGGCCAAATCATTTTAAGACTCATAGCATCATCTCAATCATTAATCTACGACCTTGACTTG
1 ATTCAGGCCAAATCATTTTAAGACTCATAGCATCATCTCAATCATTAATCTACGACCTCAACTCA
** * ** *
4949592 ATCTTGATCGGTCCCAGACTCATGACATCATCATAGTCATTTGATCTCGATTCAGGCCAAATTTT
66 ATCTTGATCACTCCCAGACTCACGACATCATCATAGTCATCCGATCTCAATTCAGGCCAAATTTT
4949657 G
131 G
* * * *
4949658 ATTCAGGCCAAATCATTTTAAGACTCAT-GACATCGTCTTAGTCATTAATCTATGACCTCAACTC
1 ATTCAGGCCAAATCATTTTAAGACTCATAG-CATCATCTCAATCATTAATCTACGACCTCAACTC
* * ** * * *
4949722 AATTTTGGTCACTCTTAGACTTACGGCATCATCTTAGTCATCCGATCTCAATTCAGG
65 AATCTTGATCACTCCCAGACTCACGACATCATCATAGTCATCCGATCTCAATTCAGG
4949779 TGAAATCATT
Statistics
Matches: 99, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
130 1 0.01
131 98 0.99
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (131 bp):
ATTCAGGCCAAATCATTTTAAGACTCATAGCATCATCTCAATCATTAATCTACGACCTCAACTCA
ATCTTGATCACTCCCAGACTCACGACATCATCATAGTCATCCGATCTCAATTCAGGCCAAATTTT
G
Found at i:4949865 original size:114 final size:114
Alignment explanation
Indices: 4949658--4949906 Score: 329
Period size: 114 Copynumber: 2.2 Consensus size: 114
4949648 CCAAATTTTG
* * * *
4949658 ATTCAGGCCAAATCATTTTAAGACTCATGACATCGTCTTAGTCATTAATCTATGACCTCAACTCA
1 ATTCAGGCAAAATCATTTTAAGACTCATGACATCATCTCAATCATTAATCTATGACCTCAACTCA
* * * *
4949723 ATTTTGGTCACTCTTAGACTTACGGCATCATCTTAGTCATCCGATCTCA
66 ATCTTGGTCACTCTTAGACTTACAGCATCATCTCAGTCATCCAATCTCA
** **
4949772 ATTCAGGTGAAATCATTTTAAGACTCATGACATCATCTCAATCATTAATCTATGACCTCAACTTG
1 ATTCAGGCAAAATCATTTTAAGACTCATGACATCATCTCAATCATTAATCTATGACCTCAACTCA
* * * *
4949837 ATCTTGGTCGCT-TTCAGACTTGCAGCATCATCTCAGTTATTCAATCTCA
66 ATCTTGGTCACTCTT-AGACTTACAGCATCATCTCAGTCATCCAATCTCA
*
4949886 ACTCAGGCAAAATCATTTTAA
1 ATTCAGGCAAAATCATTTTAA
4949907 AACTTGCAAC
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
113 2 0.02
114 114 0.98
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (114 bp):
ATTCAGGCAAAATCATTTTAAGACTCATGACATCATCTCAATCATTAATCTATGACCTCAACTCA
ATCTTGGTCACTCTTAGACTTACAGCATCATCTCAGTCATCCAATCTCA
Found at i:4950304 original size:19 final size:20
Alignment explanation
Indices: 4950280--4950337 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 20
4950270 ATTTTTTACC
*
4950280 ACTATTGTTACATTAT-TAT
1 ACTATTATTACATTATATAT
4950299 ACTATTATTACATTACTACTAT
1 ACTATTATTACATTA-TA-TAT
*
4950321 ACTATTATTATATTATA
1 ACTATTATTACATTATA
4950338 GTATTATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.41
20 1 0.03
21 2 0.06
22 17 0.50
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (20 bp):
ACTATTATTACATTATATAT
Found at i:4950329 original size:3 final size:3
Alignment explanation
Indices: 4950323--4950469 Score: 69
Period size: 3 Copynumber: 54.0 Consensus size: 3
4950313 ACTACTATAC
* *
4950323 TAT TAT TA- TAT TA- TAG TAT TA- TAT TA- TAT TA- TCT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
4950365 TAG TAT GT-T GA- TAT TA- TAT TAC TA- TAT TA- TAT TAG TAT TA-
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
4950405 TAT TA- TAT TA- TAG TA- TAT TAT TA- TAT TA- TAT TAGGT TAT CA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA--T TAT TAT
4950446 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
4950470 AATATTTGAT
Statistics
Matches: 112, Mismatches: 11, Indels: 42
0.68 0.07 0.25
Matches are distributed among these distances:
2 31 0.28
3 77 0.69
4 1 0.01
5 3 0.03
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:4950334 original size:5 final size:5
Alignment explanation
Indices: 4950293--4950489 Score: 111
Period size: 5 Copynumber: 38.0 Consensus size: 5
4950283 ATTGTTACAT
* * * * *
4950293 TATTA TACTA TTATTA CATTA CTACTA TACTA TTATTA TATTA TA--G
1 TATTA TATTA -TATTA TATTA -TATTA TATTA -TATTA TATTA TATTA
* * * *
4950339 TATTA TATTA TATTA TCTTA TTATTA TAGTA TGTTGA TATTA TA-T- TACTA
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATT-A TATTA TATTA TATTA
*
4950389 TATTA TATTA GTATTA TATTA TATTA TAGTA TA-T- TATTA TATTA TATTA
1 TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* *
4950438 GGTTATCA TATTA TTATTA TTATTA TTATTA TAATA T-TTGA TATTA TCATTA
1 ---TATTA TATTA -TATTA -TATTA -TATTA TATTA TATT-A TATTA T-ATTA
4950490 CTTTTATTAT
Statistics
Matches: 153, Mismatches: 20, Indels: 37
0.73 0.10 0.18
Matches are distributed among these distances:
3 6 0.04
4 5 0.03
5 91 0.59
6 47 0.31
8 4 0.03
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:4950390 original size:24 final size:24
Alignment explanation
Indices: 4950326--4950424 Score: 69
Period size: 26 Copynumber: 4.0 Consensus size: 24
4950316 ACTATACTAT
*
4950326 TATTATATTA-TAGTATTATATTA-
1 TATTATATTACTA-TAGTATATTAG
* *
4950349 TATTATCTTATTATTATAGTATGTT-G
1 TATTA---TATTACTATAGTATATTAG
*
4950375 ATATTATATTACTATATTATATTAG
1 -TATTATATTACTATAGTATATTAG
*
4950400 TATTATATTATATTATAGTATATTA
1 TATTATA-T-TACTATAGTATATTA
4950425 TTATATTATA
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
23 5 0.08
24 21 0.35
25 2 0.03
26 25 0.42
27 7 0.12
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (24 bp):
TATTATATTACTATAGTATATTAG
Found at i:4950392 original size:8 final size:7
Alignment explanation
Indices: 4950379--4950484 Score: 60
Period size: 8 Copynumber: 14.1 Consensus size: 7
4950369 ATGTTGATAT
4950379 TATATTA
1 TATATTA
4950386 CTATATTA
1 -TATATTA
*
4950394 TATTAGTA
1 TA-TATTA
4950402 TTATATTA
1 -TATATTA
4950410 TAT-TATA
1 TATAT-TA
4950417 GTATATTA
1 -TATATTA
4950425 TTATATTA
1 -TATATTA
4950433 TATTAGGTTA
1 TA-TA--TTA
4950443 TCATATTA
1 T-ATATTA
4950451 T-TATTA
1 TATATTA
4950457 T-TATTA
1 TATATTA
4950463 T-TATTA
1 TATATTA
4950469 TAATATT-
1 T-ATATTA
4950476 TGATATTA
1 T-ATATTA
4950484 T
1 T
4950485 CATTACTTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 24
0.75 0.04 0.22
Matches are distributed among these distances:
6 19 0.23
7 15 0.18
8 38 0.46
9 3 0.04
10 6 0.07
11 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (7 bp):
TATATTA
Found at i:4950443 original size:18 final size:16
Alignment explanation
Indices: 4950293--4950489 Score: 125
Period size: 16 Copynumber: 11.6 Consensus size: 16
4950283 ATTGTTACAT
*
4950293 TATTATACTATTATTA
1 TATTATATTATTATTA
* * *
4950309 CATTACTACTA-TACTA
1 TATTA-TATTATTATTA
4950325 TTATTATATTATAGTATTA
1 -TATTATATTAT--TATTA
*
4950344 TATTATATTA-TCTTA
1 TATTATATTATTATTA
* *
4950359 TTATTATAGTATGT-TGA
1 -TATTATATTAT-TATTA
4950376 TATTATATTACTATATTA
1 TATTATATTA-T-TATTA
4950394 TATTAGTATTA-TATTA
1 TATTA-TATTATTATTA
4950410 TATTATAGTATATTATTA
1 TATTATA-T-TATTATTA
*
4950428 TATTATATTAGGTTATCA
1 TATTATATTA--TTATTA
4950446 TATTATTATTATTATTA
1 TATTA-TATTATTATTA
* *
4950463 TTATTATAATATT-TGA
1 -TATTATATTATTATTA
4950479 TATTATCATTA
1 TATTAT-ATTA
4950490 CTTTTATTAT
Statistics
Matches: 146, Mismatches: 16, Indels: 38
0.73 0.08 0.19
Matches are distributed among these distances:
15 12 0.08
16 48 0.33
17 27 0.18
18 45 0.31
19 14 0.10
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (16 bp):
TATTATATTATTATTA
Found at i:4952769 original size:4 final size:4
Alignment explanation
Indices: 4952755--4952816 Score: 70
Period size: 4 Copynumber: 15.0 Consensus size: 4
4952745 TTTTATATGC
* *
4952755 TTAT CTTAT TTAT TTGTT TTAT TTAC TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT -TTAT TTAT TT-AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* *
4952805 TCAT CTAT TTAT
1 TTAT TTAT TTAT
4952817 CTACTTGTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
4 41 0.85
5 7 0.15
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:4953077 original size:5 final size:5
Alignment explanation
Indices: 4953067--4953099 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
4953057 TATAATTTTG
4953067 AATAA AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AATAA AAT
4953100 TTATTTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:4955120 original size:12 final size:12
Alignment explanation
Indices: 4955100--4955134 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
4955090 CTGAGGAATT
*
4955100 GGCAGAGCTTGA
1 GGCAAAGCTTGA
4955112 GGCAAAGCTTGA
1 GGCAAAGCTTGA
4955124 GGCAAAGCTTG
1 GGCAAAGCTTG
4955135 GTTTGATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.37, T:0.17
Consensus pattern (12 bp):
GGCAAAGCTTGA
Found at i:4962021 original size:57 final size:57
Alignment explanation
Indices: 4961934--4962048 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
4961924 TTTTATAGAC
* * * *
4961934 TTGAGATTTTGTAGAGCATAGTTTAGAGATTATTGAAGATTTTAATTTAGTTTGGTA
1 TTGAGATTTTGTAAAGCATAATTTACAGATTATTGAAGATTTTAATTTAATTTGGTA
*
4961991 TTGAGATTTTGTAAAGTATAATTTACAGATTATTGAAGATTTTAATTTAATTTGGTA
1 TTGAGATTTTGTAAAGCATAATTTACAGATTATTGAAGATTTTAATTTAATTTGGTA
4962048 T
1 T
4962049 CTATTGCCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (57 bp):
TTGAGATTTTGTAAAGCATAATTTACAGATTATTGAAGATTTTAATTTAATTTGGTA
Found at i:4971359 original size:15 final size:16
Alignment explanation
Indices: 4971323--4971360 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4971313 CAAATCCTTG
*
4971323 TGAGTTATTTTCTTTA
1 TGAGTTATTTTATTTA
*
4971339 TGAGTTTTTTTATTTA
1 TGAGTTATTTTATTTA
4971355 T-AGTTA
1 TGAGTTA
4971361 ATCTCCACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.21, C:0.03, G:0.13, T:0.63
Consensus pattern (16 bp):
TGAGTTATTTTATTTA
Found at i:4973025 original size:17 final size:17
Alignment explanation
Indices: 4973000--4973036 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
4972990 TAGTATTGAT
4973000 TGAGAAGAATAAGATAG
1 TGAGAAGAATAAGATAG
*
4973017 TGAGGAGAATAAGATAG
1 TGAGAAGAATAAGATAG
4973034 TGA
1 TGA
4973037 AGAGCCCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.32, T:0.19
Consensus pattern (17 bp):
TGAGAAGAATAAGATAG
Found at i:4978521 original size:13 final size:13
Alignment explanation
Indices: 4978503--4978537 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
4978493 AAAATGCTTT
4978503 CAAAATAAATAAA
1 CAAAATAAATAAA
4978516 CAAAATAAATAAA
1 CAAAATAAATAAA
*
4978529 TAAAATAAA
1 CAAAATAAA
4978538 AACAGCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (13 bp):
CAAAATAAATAAA
Done.