Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 48 of 93
Found at i:6037439 original size:15 final size:15
Alignment explanation
Indices: 6037403--6037461 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
6037393 ATGTCTAATT
6037403 AAAAAAAA-AAAACA-
1 AAAAAAAATAAAA-AG
*
6037417 AAACAAAAACAAAAAG
1 AAA-AAAAATAAAAAG
* *
6037433 CAAAAAAATAAAAAT
1 AAAAAAAATAAAAAG
6037448 AAAAAAAATAAAAA
1 AAAAAAAATAAAAA
6037462 ATGAACATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
14 3 0.08
15 29 0.76
16 6 0.16
ACGTcount: A:0.86, C:0.07, G:0.02, T:0.05
Consensus pattern (15 bp):
AAAAAAAATAAAAAG
Found at i:6038376 original size:3 final size:3
Alignment explanation
Indices: 6038370--6038426 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
6038360 CATTATCATC
* * **
6038370 ATT ATT ATT TTT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ACC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6038418 ATT ATT ATT
1 ATT ATT ATT
6038427 GCTTTTTTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:6038383 original size:9 final size:9
Alignment explanation
Indices: 6038371--6038457 Score: 59
Period size: 9 Copynumber: 9.2 Consensus size: 9
6038361 ATTATCATCA
6038371 TTATTATTT
1 TTATTATTT
*
6038380 TTATTATTA
1 TTATTATTT
6038389 TTATTATTACT
1 TTATTATT--T
*
6038400 ATTATTATTA
1 -TTATTATTT
***
6038410 TTATTACCA
1 TTATTATTT
6038419 TTATTATTGCT
1 TTATTATT--T
*
6038430 TTTTTATTT
1 TTATTATTT
6038439 TTATT-TTT
1 TTATTATTT
*
6038447 TTATTCTTT
1 TTATTATTT
6038456 TT
1 TT
6038458 TAGTTCTTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
8 8 0.13
9 39 0.63
11 7 0.11
12 8 0.13
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (9 bp):
TTATTATTT
Found at i:6039307 original size:5 final size:5
Alignment explanation
Indices: 6039297--6039348 Score: 63
Period size: 5 Copynumber: 10.2 Consensus size: 5
6039287 TTCCCTTTTC
6039297 TATTT TATTT T-TATT T-TTT TATTT CTATTT CTATTT TATTT TATTT
1 TATTT TATTT TAT-TT TATTT TATTT -TATTT -TATTT TATTT TATTT
6039343 TATTT T
1 TATTT T
6039349 CAACCTATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 11 0.25
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:6040614 original size:26 final size:25
Alignment explanation
Indices: 6040567--6040619 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
6040557 TGGCAGTGAG
*
6040567 AAAAATTTTTTAGAAAAATTTGGCGA
1 AAAAATTTTCTAGAAAAATTTGG-GA
* **
6040593 AAAAATTTTCTGGAAATTTTTGGGA
1 AAAAATTTTCTAGAAAAATTTGGGA
6040618 AA
1 AA
6040620 TTTCCAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (25 bp):
AAAAATTTTCTAGAAAAATTTGGGA
Found at i:6040699 original size:31 final size:31
Alignment explanation
Indices: 6040628--6040700 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
6040618 AATTTCCAGA
* * * *
6040628 TTCCGGCGAAAATTCCGGCGAATTTTGAATT
1 TTCCGGCGACAATTCCAGCGAACTTTGAAGT
6040659 TTCCGGCGACAATTCCAGCGAACTTTGAAGT
1 TTCCGGCGACAATTCCAGCGAACTTTGAAGT
6040690 TTCCGGCGACA
1 TTCCGGCGACA
6040701 GACCCAGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (31 bp):
TTCCGGCGACAATTCCAGCGAACTTTGAAGT
Found at i:6041036 original size:5 final size:5
Alignment explanation
Indices: 6041026--6041068 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
6041016 TTCAGCCCCT
* *
6041026 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAA CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCG
6041069 CGATCCGAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.23, C:0.42, G:0.35, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:6041111 original size:12 final size:12
Alignment explanation
Indices: 6041094--6041125 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
6041084 CAGGTTTTTT
6041094 TTTTTTTTTGAA
1 TTTTTTTTTGAA
6041106 TTTTTTTTTGAA
1 TTTTTTTTTGAA
6041118 TTTTTTTT
1 TTTTTTTT
6041126 ATTTGACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:6041141 original size:27 final size:27
Alignment explanation
Indices: 6041091--6041143 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6041081 CTCCAGGTTT
* **
6041091 TTTTTTTTTTTTGAATTTTTTTTTGAA
1 TTTTTTTTATTTGAATTTGATTTTGAA
*
6041118 TTTTTTTTATTTGACTTTGATTTTGA
1 TTTTTTTTATTTGAATTTGATTTTGA
6041144 TCTTGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.74
Consensus pattern (27 bp):
TTTTTTTTATTTGAATTTGATTTTGAA
Found at i:6041472 original size:153 final size:153
Alignment explanation
Indices: 6041161--6041759 Score: 949
Period size: 152 Copynumber: 3.9 Consensus size: 153
6041151 TTTTTTTTTC
* *
6041161 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATAC
***
6041226 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGACCGA--T-
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
* *
6041288 -AATTAATTACTTGGCTGATTTTGA
130 CAA-TAATTAATTGGATGATTTTGA
6041312 TTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
1 ---TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
* *
6041377 ACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAATT
63 ACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
6041442 TCCAATAATTAATTGGATGATTTTGA
128 TCCAATAATTAATTGGATGATTTTGA
6041468 -TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
* * *
6041532 CTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAATTTTC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
6041597 AATAATTAATTGGATGATTTTG-
131 AATAATTAATTGGATGATTTTGA
* * *
6041619 TTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTCTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
*
6041684 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATCATTTCC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
* *
6041749 AACAACTAATT
131 AATAATTAATT
6041760 ACTTGGTAAA
Statistics
Matches: 421, Mismatches: 19, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
152 281 0.67
153 79 0.19
154 39 0.09
155 1 0.00
156 19 0.05
157 2 0.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (153 bp):
TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
AATAATTAATTGGATGATTTTGA
Found at i:6044822 original size:11 final size:11
Alignment explanation
Indices: 6044806--6044830 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6044796 TTCTTTTCTC
6044806 TTTTTTTCTTT
1 TTTTTTTCTTT
6044817 TTTTTTTCTTT
1 TTTTTTTCTTT
6044828 TTT
1 TTT
6044831 ATGCATCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:6044826 original size:19 final size:20
Alignment explanation
Indices: 6044791--6044830 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
6044781 GGCAAATATG
6044791 TTCTTTTCTTTTCTCTTTTT
1 TTCTTTTCTTTTCTCTTTTT
*
6044811 TTCTTTT-TTTTTTCTTTTT
1 TTCTTTTCTTTTCTCTTTTT
6044830 T
1 T
6044831 ATGCATCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TTCTTTTCTTTTCTCTTTTT
Found at i:6053048 original size:116 final size:116
Alignment explanation
Indices: 6052818--6053275 Score: 399
Period size: 116 Copynumber: 3.9 Consensus size: 116
6052808 CATTATCCAC
* * ** * * *
6052818 TCATTTGATCTTGACTTAGGTTAAATCATCT-TCAGACCCGCGACATCAATTC-GATCATT-TCT
1 TCATTTGATCTTGACTTAGGTCAAATCAT-TGTCAAATTCACAACATCAGTTCAG-TCATTAT-T
* * * ** ** * * *
6052880 TTTCAACCTCGACTCGGTCCTGATTACTTTATTTTGACTTAC-AGTATTGTCCCAA
63 TTT-AACCTCAACTCGATCCTGGTCGCTTTATTTTGACTCGCGA-CATCGTCCCAG
* * *
6052935 TCATTTGATCTTGACTTAGGTCAGATCATTGTCAAATTCACAACATTAG-TCTGGTCATTATTTT
1 TCATTTGATCTTGACTTAGGTCAAATCATTGTCAAATTCACAACATCAGTTC-AGTCATTATTTT
* * * *
6052999 CAACCTCAACTCCATCCTGGTCGTTTTATTTTGACTCGTGACATCGTCCCAG
65 TAACCTCAACTCGATCCTGGTCGCTTTATTTTGACTCGCGACATCGTCCCAG
* * *
6053051 TCATTTCATCTCGACTTAGGTCAAATCATCGTCAAACTT-ACAACATCAGTTCAGTCATTTATTT
1 TCATTTGATCTTGACTTAGGTCAAATCATTGTCAAA-TTCACAACATCAGTTCAGTCA-TTATTT
* * ** * * * *
6053115 TTAACCTCGACTTGGCCCTGGTCACTTTATTTTGA-TTGCGACATCGTTCTAG
64 TTAACCTCAACTCGATCCTGGTCGCTTTATTTTGACTCGCGACATCGTCCCAG
* * * * *
6053167 TCATTTGATCTTGACTCAGGTCAAATCATTGTCAGACTCGCAACATCAGTTCAATCATTCATTTT
1 TCATTTGATCTTGACTTAGGTCAAATCATTGTCAAATTCACAACATCAGTTCAGTCATT-ATTTT
* * *
6053232 TTACCTCAACTCGATCCTAGTTGCTTTATTTTGACTCGCGACAT
65 TAACCTCAACTCGATCCTGGTCGCTTTATTTTGACTCGCGACAT
6053276 TAGTCTAGTT
Statistics
Matches: 272, Mismatches: 58, Indels: 22
0.77 0.16 0.06
Matches are distributed among these distances:
115 3 0.01
116 175 0.64
117 92 0.34
118 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (116 bp):
TCATTTGATCTTGACTTAGGTCAAATCATTGTCAAATTCACAACATCAGTTCAGTCATTATTTTT
AACCTCAACTCGATCCTGGTCGCTTTATTTTGACTCGCGACATCGTCCCAG
Found at i:6053722 original size:26 final size:26
Alignment explanation
Indices: 6053686--6053768 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 26
6053676 ATGTCCGAGT
6053686 CCATTAAGGTTCGGGCCTAATTAGGC
1 CCATTAAGGTTCGGGCCTAATTAGGC
* * *
6053712 CCATTGAGGTTTGGGCCTAATTGGGC
1 CCATTAAGGTTCGGGCCTAATTAGGC
* * * * *
6053738 CAATCAATGTTCAGGCCCAATTAGGC
1 CCATTAAGGTTCGGGCCTAATTAGGC
6053764 CCATT
1 CCATT
6053769 TGGGTCCAAG
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (26 bp):
CCATTAAGGTTCGGGCCTAATTAGGC
Found at i:6053814 original size:3 final size:3
Alignment explanation
Indices: 6053799--6053889 Score: 78
Period size: 3 Copynumber: 31.0 Consensus size: 3
6053789 AAGCTTGTTC
* * * * *
6053799 ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT GTT GTT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * **
6053847 GTT GTT GTT ATT ACC ATT ATT ATT -TT -TT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6053890 TTGTTCTTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
2 4 0.05
3 75 0.95
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6053878 original size:19 final size:19
Alignment explanation
Indices: 6053854--6053891 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6053844 GTTGTTGTTG
6053854 TTATTACCATTATTATTTT
1 TTATTACCATTATTATTTT
**
6053873 TTATTATTATTATTATTTT
1 TTATTACCATTATTATTTT
6053892 GTTCTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTACCATTATTATTTT
Found at i:6054760 original size:14 final size:13
Alignment explanation
Indices: 6054739--6054782 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
6054729 CATATTTCCA
6054739 TTTTATTTTTATT
1 TTTTATTTTTATT
6054752 TTTTGATTTTTATT
1 TTTT-ATTTTTATT
*
6054766 TTATTTTATTTTATT
1 TT-TTAT-TTTTATT
6054781 TT
1 TT
6054783 CAAGCTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 4 0.15
14 12 0.44
15 11 0.41
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:6058869 original size:22 final size:21
Alignment explanation
Indices: 6058841--6058889 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
6058831 CATGATTTAA
6058841 TTATGATATTGTTGC-ATGATAT
1 TTATGATATT-TT-CTATGATAT
6058863 TTATGAT-TTTTCTATGATAT
1 TTATGATATTTTCTATGATAT
6058883 TT-TGATA
1 TTATGATA
6058890 ACATTTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 5 0.20
20 11 0.44
21 2 0.08
22 7 0.28
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (21 bp):
TTATGATATTTTCTATGATAT
Found at i:6062656 original size:14 final size:13
Alignment explanation
Indices: 6062634--6062693 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 13
6062624 TTTATTACGA
6062634 TTATTTTATTATT
1 TTATTTTATTATT
6062647 TTATTGTTATTA-T
1 TTATT-TTATTATT
6062660 TTACTATTTATTATT
1 TTA-T-TTTATTATT
*
6062675 TTATCTTTTTTATT
1 TTAT-TTTATTATT
*
6062689 ATATT
1 TTATT
6062694 ATTTTAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 10 0.25
14 25 0.62
15 5 0.12
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:6062687 original size:28 final size:29
Alignment explanation
Indices: 6062638--6062697 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
6062628 TTACGATTAT
6062638 TTTATTATTTTATTGTTATTATT-TACTA
1 TTTATTATTTTATTGTTATTATTATACTA
* *
6062666 TTTATTATTTTATCT-TTTTTATTATATTA
1 TTTATTATTTTAT-TGTTATTATTATACTA
6062695 TTT
1 TTT
6062698 TAAAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (29 bp):
TTTATTATTTTATTGTTATTATTATACTA
Found at i:6063052 original size:18 final size:18
Alignment explanation
Indices: 6063016--6063054 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6063006 CAATTTATCA
*
6063016 TTTCTTTTTTATTTTATT
1 TTTCTTTTTTATTTAATT
6063034 TTTCTTTTTT-TATTAATT
1 TTTCTTTTTTAT-TTAATT
6063052 TTT
1 TTT
6063055 AGCAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTCTTTTTTATTTAATT
Found at i:6064577 original size:4 final size:4
Alignment explanation
Indices: 6064568--6064757 Score: 93
Period size: 4 Copynumber: 49.8 Consensus size: 4
6064558 TAGGCCAGTT
*
6064568 TTTA TTTA TTTA TTTA TTTA --TA TTTA TTT- TGTA -TT- TTTA TTT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
6064610 TTTA -TAA CTTA TTTA TTT- TTTA -TTA TTTA TTTA -TTA TTACTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA
* * * * * * * *
6064656 TTAA TGTA TGTT- TTTA TCTG TTAA TATA TTTA TATA TTTA TTTA TCTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
6064704 TTTA --TA TGTTA TTTA TCTA TTAA TTAA TATA -TTA TCTTT TTTA TTTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA
6064751 TTTA TTT
1 TTTA TTT
6064758 TTTTCCTTCA
Statistics
Matches: 138, Mismatches: 29, Indels: 38
0.67 0.14 0.19
Matches are distributed among these distances:
2 4 0.03
3 23 0.17
4 100 0.72
5 7 0.05
6 4 0.03
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:6064593 original size:14 final size:14
Alignment explanation
Indices: 6064574--6064657 Score: 66
Period size: 14 Copynumber: 5.9 Consensus size: 14
6064564 AGTTTTTATT
6064574 TATTTATTTATTTA
1 TATTTATTTATTTA
*
6064588 TATTTATTT-TGTA
1 TATTTATTTATTTA
*
6064601 TTTTTATTT-TTTA
1 TATTTATTTATTTA
*
6064614 TAACTTATTTATTT-
1 T-ATTTATTTATTTA
*
6064628 TTTATTATTTATTTA
1 TAT-TTATTTATTTA
6064643 TTATTACTATTTATT
1 -TATT--TATTTATT
6064658 AATGTATGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
13 15 0.27
14 26 0.47
15 4 0.07
16 2 0.04
17 8 0.15
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.71
Consensus pattern (14 bp):
TATTTATTTATTTA
Found at i:6064623 original size:31 final size:31
Alignment explanation
Indices: 6064573--6064657 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 31
6064563 CAGTTTTTAT
6064573 TTATTTATTTATT-T-A-TATTTATTTTGTA
1 TTATTTATTTATTATAACTATTTATTTTGTA
* *
6064601 TT-TTTATTTTTTATAACTTATTTATTTTTTA
1 TTATTTATTTATTATAAC-TATTTATTTTGTA
*
6064632 TTATTTATTTATTATTACTATTTATT
1 TTATTTATTTATTATAACTATTTATT
6064658 AATGTATGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
27 9 0.19
28 3 0.06
29 1 0.02
31 22 0.46
32 13 0.27
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (31 bp):
TTATTTATTTATTATAACTATTTATTTTGTA
Found at i:6064656 original size:10 final size:9
Alignment explanation
Indices: 6064570--6064725 Score: 53
Period size: 10 Copynumber: 17.0 Consensus size: 9
6064560 GGCCAGTTTT
6064570 TATTTATT-
1 TATTTATTA
6064578 TATTTATTTA
1 TATTTA-TTA
*
6064588 TATTTATTTTG
1 TATTTA--TTA
6064599 TATTT-TTA
1 TATTTATTA
6064607 T-TTT-TTA
1 TATTTATTA
*
6064614 TAACTTATT-
1 T-ATTTATTA
*
6064623 TATTTTTTA
1 TATTTATTA
6064632 TTATTTATT-
1 -TATTTATTA
6064641 TA-TTATTA
1 TATTTATTA
6064649 CTATTTATTAA
1 -TATTTATT-A
*
6064660 TGTATGTTTTTA
1 --TAT-TTATTA
* *
6064672 TCTGTTAATA
1 TAT-TTATTA
6064682 TATTTA-TA
1 TATTTATTA
6064690 TATTTATT-
1 TATTTATTA
*
6064698 TATCTATTTA
1 TATTTA-TTA
6064708 TATGTTATT-
1 TAT-TTATTA
*
6064717 TATCTATTA
1 TATTTATTA
6064726 ATTAATATAT
Statistics
Matches: 114, Mismatches: 15, Indels: 37
0.69 0.09 0.22
Matches are distributed among these distances:
7 12 0.11
8 33 0.29
9 16 0.14
10 34 0.30
11 11 0.10
12 4 0.04
13 4 0.04
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (9 bp):
TATTTATTA
Found at i:6064717 original size:19 final size:20
Alignment explanation
Indices: 6064682--6064724 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
6064672 TCTGTTAATA
*
6064682 TATTTATATATTTATTTATC
1 TATTTATATAGTTATTTATC
6064702 TATTTATAT-GTTATTTATC
1 TATTTATATAGTTATTTATC
6064721 TATT
1 TATT
6064725 AATTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTTATATAGTTATTTATC
Found at i:6064733 original size:23 final size:18
Alignment explanation
Indices: 6064688--6064755 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 18
6064678 AATATATTTA
6064688 TATATTTATTTATCTATT
1 TATATTTATTTATCTATT
6064706 TATATGTTATTTATCTA-T
1 TATAT-TTATTTATCTATT
6064724 TA-ATTAATATATTATCT-TT
1 TATATT--TAT-TTATCTATT
*
6064743 TTTATTTATTTAT
1 TATATTTATTTAT
6064756 TTTTTTCCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
16 1 0.02
17 6 0.14
18 14 0.33
19 19 0.44
20 3 0.07
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TATATTTATTTATCTATT
Found at i:6064747 original size:47 final size:46
Alignment explanation
Indices: 6064662--6064755 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 46
6064652 TTTATTAATG
* *
6064662 TATGTTTTTATCTGTTAATATATTTATATATTTATTTATCTATTTA
1 TATGTTTTTATCTATTAATATATATATATATTTATTTATCTATTTA
* *
6064708 TATGTTATTTATCTATTAAT-TA-ATATATTATCTTTTTTATTTATTTA
1 TATGTT-TTTATCTATTAATATATATATA-TAT-TTATTTATCTATTTA
6064755 T
1 T
6064756 TTTTTTCCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
45 4 0.10
46 11 0.27
47 26 0.63
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (46 bp):
TATGTTTTTATCTATTAATATATATATATATTTATTTATCTATTTA
Found at i:6065038 original size:12 final size:11
Alignment explanation
Indices: 6065021--6065071 Score: 50
Period size: 12 Copynumber: 4.4 Consensus size: 11
6065011 CGGTGAAAAA
6065021 TTTTTGGAGAAT
1 TTTTTGGA-AAT
*
6065033 TTTTTGTGAATT
1 TTTTTG-GAAAT
6065045 TTTTCTGGAAA-
1 TTTT-TGGAAAT
6065056 TTTTTGGAAAAT
1 TTTTTGG-AAAT
6065068 TTTT
1 TTTT
6065072 AGATTTCGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 3 0.09
11 7 0.21
12 19 0.58
13 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.18, T:0.57
Consensus pattern (11 bp):
TTTTTGGAAAT
Found at i:6065662 original size:6 final size:6
Alignment explanation
Indices: 6065647--6065735 Score: 51
Period size: 6 Copynumber: 14.7 Consensus size: 6
6065637 TGTTTAATAC
* * *
6065647 TTTTTA TTTTTC TTTTTG TTTTTA TTTTATT TTCCTTTA TTTTTA -TTTT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TT--TTTA TTTTTA TTTTTA
** *
6065696 CCTTTA TTTTTA TTTTT- TCTTTA -TTTTA TTATTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -T-TTTTA TTTT
6065736 CTTTAAATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
5 15 0.23
6 35 0.55
7 4 0.06
8 8 0.12
9 2 0.03
ACGTcount: A:0.12, C:0.07, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:6065674 original size:5 final size:5
Alignment explanation
Indices: 6065666--6065735 Score: 54
Period size: 5 Copynumber: 13.8 Consensus size: 5
6065656 TTCTTTTTGT
* * * * *
6065666 TTTTA TTTTA TTTTC CTTTA TTTTTA TTTTC CTTTA TTTTTA TTTTT TCTTTA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA -TTTTA TTTTA T-TTTA
6065719 TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
6065736 CTTTAAATAA
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
3 3 0.06
5 35 0.70
6 12 0.24
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:6065690 original size:16 final size:16
Alignment explanation
Indices: 6065667--6065722 Score: 87
Period size: 16 Copynumber: 3.5 Consensus size: 16
6065657 TCTTTTTGTT
6065667 TTTA-TTTTATTTTCC
1 TTTATTTTTATTTTCC
6065682 TTTATTTTTATTTTCC
1 TTTATTTTTATTTTCC
*
6065698 TTTATTTTTATTTTTTC
1 TTTATTTTTA-TTTTCC
6065715 TTTATTTT
1 TTTATTTT
6065723 ATTATTTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
15 4 0.11
16 21 0.55
17 13 0.34
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTTTATTTTCC
Found at i:6065723 original size:22 final size:24
Alignment explanation
Indices: 6065648--6065735 Score: 58
Period size: 22 Copynumber: 3.7 Consensus size: 24
6065638 GTTTAATACT
* * *
6065648 TTTTATT-TTTCTTTTTGTTTTTA
1 TTTTATTCTTTATTTTTATCTTTA
*
6065671 TTTTATTTTCCTTTATTTTTAT-TTTC
1 TTTTA--TT-CTTTATTTTTATCTTTA
*
6065697 CTTTATT-TTTATTTTT-TCTTTA
1 TTTTATTCTTTATTTTTATCTTTA
*
6065719 TTTTATTATTTTATTTT
1 TTTTATT-CTTTATTTT
6065736 CTTTAAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
21 1 0.02
22 18 0.35
23 5 0.10
24 10 0.19
25 2 0.04
26 7 0.13
27 9 0.17
ACGTcount: A:0.12, C:0.07, G:0.01, T:0.80
Consensus pattern (24 bp):
TTTTATTCTTTATTTTTATCTTTA
Found at i:6065730 original size:17 final size:18
Alignment explanation
Indices: 6065673--6065730 Score: 79
Period size: 16 Copynumber: 3.4 Consensus size: 18
6065663 TGTTTTTATT
6065673 TTATTTTCCTTTA-TTT-
1 TTATTTTCCTTTATTTTA
6065689 TTATTTTCCTTTATTTTTA
1 TTATTTTCCTTTA-TTTTA
6065708 TT-TTTT-CTTTATTTTA
1 TTATTTTCCTTTATTTTA
6065724 TTATTTT
1 TTATTTT
6065731 ATTTTCTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
16 20 0.53
17 9 0.24
18 7 0.18
19 2 0.05
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTTTCCTTTATTTTA
Found at i:6065736 original size:22 final size:20
Alignment explanation
Indices: 6065647--6065740 Score: 71
Period size: 18 Copynumber: 5.0 Consensus size: 20
6065637 TGTTTAATAC
* *
6065647 TTTTTATTTT-TCTT-TTTG
1 TTTTTATTTTATTTTCTTTA
6065665 TTTTTATTTTATTTTCCTTTA
1 TTTTTATTTTATTTT-CTTTA
*
6065686 TTTTTA---T-TTTCCTTTA
1 TTTTTATTTTATTTTCTTTA
6065702 TTTTTA--TT-TTTTCTTTA
1 TTTTTATTTTATTTTCTTTA
6065719 TTTTATTATTTTATTTTCTTTA
1 -TTT-TTATTTTATTTTCTTTA
6065741 AATAAAATTC
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
16 11 0.17
17 12 0.19
18 14 0.22
19 6 0.10
21 11 0.17
22 9 0.14
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.79
Consensus pattern (20 bp):
TTTTTATTTTATTTTCTTTA
Found at i:6065823 original size:59 final size:59
Alignment explanation
Indices: 6065748--6066141 Score: 374
Period size: 59 Copynumber: 6.8 Consensus size: 59
6065738 TTAAATAAAA
* * *
6065748 TTCAAAAAAA-A-ATTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATAAATTT
1 TTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAGTT
* *
6065805 TTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAGAAA-CAAGTT
1 TTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAGTT
* *
6065863 TTCAAAAGCGAAT-TTTTT-AGGAAAAGTTAAAAGTATCAATTTTCCTT-GAAA-ATAAGCTT
1 TTCAAAA--AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATA-AAG-TT
* * *
6065922 TCCAGAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAGTT
1 TTCAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAGTT
* * * *
6065980 TTCAAAAATGGAT-TTTTTAAGGGAAAA-TTGATA--ATCAATTTTCCTTAGAAA-CAAGTT
1 TTCAAAAA--AATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAGTT
* * *
6066037 TTCAAAAGTAAATA-TTTTAAGAAAAAGTTGAAAGTATCAATTTTCC-TCGAAATTAAAG-T
1 TTCAAAA--AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAA-TAAAGTT
* * * *
6066096 TTCTAAAAAATATTTTGGA-GAGAAGTTGAAAATATCAATTTTCCTT
1 TTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
6066142 GTACAAAAGC
Statistics
Matches: 280, Mismatches: 31, Indels: 51
0.77 0.09 0.14
Matches are distributed among these distances:
56 5 0.02
57 86 0.31
58 66 0.24
59 106 0.38
60 16 0.06
61 1 0.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (59 bp):
TTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAGTT
Found at i:6065896 original size:117 final size:118
Alignment explanation
Indices: 6065764--6066083 Score: 393
Period size: 117 Copynumber: 2.7 Consensus size: 118
6065754 AAAAAATTTG
*
6065764 AGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATAAATTTTTCAAAAAAATATTTTTGAGGAAA
1 AGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATAAACTTTTCAAAAAAATATTTTTGAGGAAA
* * *
6065829 AGTTGAAAGTATCAATTTTCTTTAGAAACAAGTTTTCAAAAGCGAATTTTTT-
66 AGTTGAAAGTATCAATTTTCCTTAAAAACAAGTTTTCAAAAACGAATTTTTTA
* * * * *
6065881 AGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGCTTTCCAGAAAAATATTTTTG-GAGAA
1 AGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATAAACTTTTCAAAAAAATATTTTTGAG-GAA
* * *
6065945 AAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATGGATTTTTTA
65 AAGTTGAAAGTATCAATTTTCCTTAAAAACAAGTTTTCAAAAACGAATTTTTTA
* * * * * *
6065999 AGGGAAAA-TTGATA--ATCAATTTTCCTTAGAAA-CAAGTTTTCAAAAGTAAATA-TTTTAAGA
1 A-GGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATAAACTTTTCAAAA--AAATATTTTTGAGG
6066059 AAAAGTTGAAAGTATCAATTTTCCT
63 AAAAGTTGAAAGTATCAATTTTCCT
6066084 CGAAATTAAA
Statistics
Matches: 174, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
115 8 0.05
116 46 0.26
117 109 0.63
118 5 0.03
119 6 0.03
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (118 bp):
AGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATAAACTTTTCAAAAAAATATTTTTGAGGAAA
AGTTGAAAGTATCAATTTTCCTTAAAAACAAGTTTTCAAAAACGAATTTTTTA
Found at i:6065904 original size:27 final size:27
Alignment explanation
Indices: 6065816--6065905 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 27
6065806 TCAAAAAAAT
* *
6065816 ATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTTAGGAAAAGTTAAAAGTATCA
*
6065843 ATTTTCTTTAGAAACAAGTTTTCAAAAG---CGA
1 A-TTT-TTTAGGAA-AAG--TT-AAAAGTATC-A
6065874 ATTTTTTAGGAAAAGTTAAAAGTATCA
1 ATTTTTTAGGAAAAGTTAAAAGTATCA
6065901 ATTTT
1 ATTTT
6065906 CCTTGAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 20
0.67 0.05 0.27
Matches are distributed among these distances:
25 5 0.10
26 2 0.04
27 7 0.14
28 7 0.14
29 13 0.27
30 7 0.14
31 2 0.04
32 2 0.04
33 4 0.08
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (27 bp):
ATTTTTTAGGAAAAGTTAAAAGTATCA
Found at i:6066133 original size:116 final size:110
Alignment explanation
Indices: 6065769--6066142 Score: 317
Period size: 117 Copynumber: 3.2 Consensus size: 110
6065759 ATTTGAGGAA
* * * *
6065769 AAGTTGAAAGTATCAATTTTCCTTGGAAATAAATTTTTCAAAAAAATATTTTTGAGGAAAAGTTG
1 AAGTTGAAAATATCAATTTTCCTT-GAAA-AAAGTTTTCAAAAAAATA-TTTTAAGAAAAAGTTG
* * *
6065834 AAAGTATCAATTTTCTTTAGAAACAAGTTTTCAAAAGCGAATTTTTTAGGA-A-
63 AAAGTATCAATTTTC-CTAGAAATAAGTTTT-AAAA---AATATTTT-GGAGAG
* * **
6065886 AAGTT-AAAAGTATCAATTTTCCTTGAAAATAAGCTTTCCAGAAAAATATTTTTGGAGAAAAGTT
1 AAGTTGAAAA-TATCAATTTTCCTTGAAAA-AAG-TTTTCAAAAAAATATTTTAAGA-AAAAGTT
* * ** *
6065950 GAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATGGATTTTTTAAGGG
62 GAAAGTATCAATTTTCC-TAGAAATAAGTTTTAAAAAAT--A-TTTTGGAGAG
* * *
6066003 AAAATTG-ATA-ATCAATTTTCCTTAGAAACAAGTTTTCAAAAGTAAATATTTTAAGAAAAAGTT
1 -AAGTTGAAAATATCAATTTTCCTT-GAAAAAAGTTTTCAAAA--AAATATTTTAAGAAAAAGTT
*
6066066 GAAAGTATCAATTTTCCTCGAAATTAAAGTTTCTAAAAAATATTTTGGAGAG
62 GAAAGTATCAATTTTCCTAGAAA-T-AAGTTT-TAAAAAATATTTTGGAGAG
6066118 AAGTTGAAAATATCAATTTTCCTTG
1 AAGTTGAAAATATCAATTTTCCTTG
6066143 TACAAAAGCG
Statistics
Matches: 207, Mismatches: 30, Indels: 42
0.74 0.11 0.15
Matches are distributed among these distances:
113 3 0.01
114 5 0.02
115 23 0.11
116 76 0.37
117 87 0.42
118 13 0.06
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.36
Consensus pattern (110 bp):
AAGTTGAAAATATCAATTTTCCTTGAAAAAAGTTTTCAAAAAAATATTTTAAGAAAAAGTTGAAA
GTATCAATTTTCCTAGAAATAAGTTTTAAAAAATATTTTGGAGAG
Found at i:6076557 original size:14 final size:14
Alignment explanation
Indices: 6076521--6076550 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6076511 ATGCTTGAAA
6076521 AAAAGAAAAAAATG
1 AAAAGAAAAAAATG
6076535 AAAAGAAAAAAATG
1 AAAAGAAAAAAATG
6076549 AA
1 AA
6076551 TGAAAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (14 bp):
AAAAGAAAAAAATG
Found at i:6077610 original size:44 final size:42
Alignment explanation
Indices: 6077535--6077882 Score: 299
Period size: 44 Copynumber: 8.1 Consensus size: 42
6077525 GATTGTCAAT
6077535 GAGCCATTTA--TTTTTCAAAGTTC-TGATGCCTCTGATTAGAG
1 GAGCCATTTATTTTTTTCAAAG-TCGTGA-GCCTCTGATTAGAG
*
6077576 GAGCCATTTATTTTTTTCAAAAGTTGTGATGCCTCTGATTAGAG
1 GAGCCATTTATTTTTTTC-AAAGTCGTGA-GCCTCTGATTAGAG
* *
6077620 GAGCCATTTATTTTTTTTCAAAAGTCGTTAAGCCTCTGCTTAGAG
1 GAGCCATTTA-TTTTTTTC-AAAGTCG-TGAGCCTCTGATTAGAG
** *
6077665 GAGCTGTTTA--TTTTTCAAACTCGTTGAGCCTCTGATTAGAG
1 GAGCCATTTATTTTTTTCAAAGTCG-TGAGCCTCTGATTAGAG
* *
6077706 AAGCC-TTTATTTATTTTCCAAAGTCGTTAAGCCTCTGATTAGAG
1 GAGCCATTTATTT-TTTT-CAAAGTCG-TGAGCCTCTGATTAGAG
* *
6077750 GAGCCATTTA--TTTTTCAAAGTCGTTGAGCCTCTAATTAGAA
1 GAGCCATTTATTTTTTTCAAAGTCG-TGAGCCTCTGATTAGAG
6077791 GAG-C-TTTATTCATTTTT-AAAGTCGTTGAGCCTCTGATTAGAG
1 GAGCCATTTATT--TTTTTCAAAGTCG-TGAGCCTCTGATTAGAG
* * *
6077833 AAG-CATTGTTTATGTTTTTCAAAGTCGTTGATCCTCT-ACTTAGAG
1 GAGCCA---TTTATTTTTTTCAAAGTCG-TGAGCCTCTGA-TTAGAG
*
6077878 AAGCC
1 GAGCC
6077883 TTGATCAAAT
Statistics
Matches: 263, Mismatches: 22, Indels: 39
0.81 0.07 0.12
Matches are distributed among these distances:
39 4 0.02
40 5 0.02
41 61 0.23
42 37 0.14
43 17 0.06
44 66 0.25
45 65 0.25
46 8 0.03
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (42 bp):
GAGCCATTTATTTTTTTCAAAGTCGTGAGCCTCTGATTAGAG
Found at i:6077627 original size:85 final size:84
Alignment explanation
Indices: 6077535--6077882 Score: 309
Period size: 85 Copynumber: 4.1 Consensus size: 84
6077525 GATTGTCAAT
* * *
6077535 GAGCCATTTATTTTTCAAAGTTC-TGATGCCTCTGATTAGAGGAGCCATTTATTTTTTTCAAAAG
1 GAGCCATTTATTTTTCAAAG-TCGTTAAGCCTCTGATTAGAGGAGCCATTTATTTTTTTC-AAAC
*
6077599 TTG-TGATGCCTCTGATTAGAG
64 TCGTTGA-GCCTCTGATTAGAG
* **
6077620 GAGCCATTTATTTTTTTTCAAAAGTCGTTAAGCCTCTGCTTAGAGGAGCTGTTTA--TTTTTCAA
1 GAGCCATTTA---TTTTTC-AAAGTCGTTAAGCCTCTGATTAGAGGAGCCATTTATTTTTTTCAA
6077683 ACTCGTTGAGCCTCTGATTAGAG
62 ACTCGTTGAGCCTCTGATTAGAG
* *
6077706 AAGCCTTTATTTATTTTCCAAAGTCGTTAAGCCTCTGATTAGAGGAGCCATTTA--TTTTTCAAA
1 GAGCC---ATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGAGGAGCCATTTATTTTTTTCAAA
* * *
6077769 GTCGTTGAGCCTCTAATTAGAA
63 CTCGTTGAGCCTCTGATTAGAG
* * * * *
6077791 GAGCTTTATTCATTTTT-AAAGTCGTTGAGCCTCTGATTAGAGAAG-CATTGTTTATGTTTTTCA
1 GAGC--CATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGAGGAGCCA---TTTATTTTTTTCA
* *
6077854 AAGTCGTTGATCCTCT-ACTTAGAG
61 AACTCGTTGAGCCTCTGA-TTAGAG
*
6077878 AAGCC
1 GAGCC
6077883 TTGATCAAAT
Statistics
Matches: 221, Mismatches: 25, Indels: 34
0.79 0.09 0.12
Matches are distributed among these distances:
82 2 0.01
83 26 0.12
84 8 0.04
85 77 0.35
86 29 0.13
87 39 0.18
88 8 0.04
89 32 0.14
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (84 bp):
GAGCCATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGAGGAGCCATTTATTTTTTTCAAACTC
GTTGAGCCTCTGATTAGAG
Found at i:6077771 original size:41 final size:41
Alignment explanation
Indices: 6077535--6077832 Score: 303
Period size: 41 Copynumber: 7.0 Consensus size: 41
6077525 GATTGTCAAT
* *
6077535 GAGCCATTTATTTTTCAAAGTTC-TGATGCCTCTGATTAGAG
1 GAGCCATTTATTTTTCAAAG-TCGTTAAGCCTCTGATTAGAG
* * *
6077576 GAGCCATTTATTTTTTTCAAAAGTTGTGATGCCTCTGATTAGAG
1 GAGCCATTTA--TTTTTC-AAAGTCGTTAAGCCTCTGATTAGAG
*
6077620 GAGCCATTTATTTTTTTTCAAAAGTCGTTAAGCCTCTGCTTAGAG
1 GAGCCATTTA---TTTTTC-AAAGTCGTTAAGCCTCTGATTAGAG
** * *
6077665 GAGCTGTTTATTTTTCAAACTCGTTGAGCCTCTGATTAGAG
1 GAGCCATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGAG
* *
6077706 AAGCCTTTATTTATTTTCCAAAGTCGTTAAGCCTCTGATTAGAG
1 GAGCC---ATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGAG
* * *
6077750 GAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTAATTAGAA
1 GAGCCATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGAG
* * *
6077791 GAGCTTTATTCATTTTT-AAAGTCGTTGAGCCTCTGATTAGAG
1 GAGC--CATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGAG
6077833 AAGCATTGTT
Statistics
Matches: 222, Mismatches: 25, Indels: 19
0.83 0.09 0.07
Matches are distributed among these distances:
41 71 0.32
42 29 0.13
43 16 0.07
44 68 0.31
45 38 0.17
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (41 bp):
GAGCCATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGAG
Found at i:6078082 original size:6 final size:6
Alignment explanation
Indices: 6078066--6078106 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
6078056 GGTAGGCCAG
6078066 TTTTTA TTTTTTA TTTTTA --TTTA TTTTGTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTT
6078107 TATAACTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
4 4 0.13
6 15 0.48
7 12 0.39
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:6078090 original size:4 final size:4
Alignment explanation
Indices: 6078068--6078283 Score: 95
Period size: 4 Copynumber: 56.8 Consensus size: 4
6078058 TAGGCCAGTT
*
6078068 TTTA TTT- TTTA -TT- TTTA TTTA TTT- TGTA -TT- TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
6078109 -TAA CTTA TTTA TTTA TTTA -TTA TTACTA TTTA TTAA TGTA TGTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA T-TTA TTTA
* * * * * * *
6078157 TCTG TTAA TATA TTTA TATA TTTA TCTA TCTA TTTA --TA TGTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA
* * * * * * * *
6078203 TTTA TCT- GTTA ATTA -TTG TTTA TCTA TTAA TTAA TATA -TTA TCTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA
6078249 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
6078284 TTCCTTCAAT
Statistics
Matches: 158, Mismatches: 33, Indels: 42
0.68 0.14 0.18
Matches are distributed among these distances:
2 2 0.01
3 30 0.19
4 115 0.73
5 7 0.04
6 4 0.03
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:6078123 original size:22 final size:21
Alignment explanation
Indices: 6078098--6078142 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
6078088 ATTTTGTATT
*
6078098 TTTATTTTTTATAACTTATTTA
1 TTTATTTATTATAAC-TATTTA
*
6078120 TTTATTTATTATTACTATTTA
1 TTTATTTATTATAACTATTTA
6078141 TT
1 TT
6078143 AATGTATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTATTTATTATAACTATTTA
Found at i:6078206 original size:14 final size:15
Alignment explanation
Indices: 6078187--6078219 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
6078177 TTTATCTATC
6078187 TATTTATATGTT-AT
1 TATTTATATGTTAAT
*
6078201 TATTTATCTGTTAAT
1 TATTTATATGTTAAT
6078216 TATT
1 TATT
6078220 GTTTATCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (15 bp):
TATTTATATGTTAAT
Found at i:6078224 original size:18 final size:18
Alignment explanation
Indices: 6078113--6078270 Score: 69
Period size: 18 Copynumber: 8.7 Consensus size: 18
6078103 TTTTTATAAC
* *
6078113 TTATTTATTTATTTATTA
1 TTATTTATCTATTAATTA
* *
6078131 TTA-CTATTTATTAATGTA
1 TTATTTATCTATTAAT-TA
* *
6078149 TGTTTTTATCTGTTAA-TA
1 T-TATTTATCTATTAATTA
* *
6078167 -TATTTATATATTTATCTA
1 TTATTTATCTATTAAT-TA
*
6078185 TCTATTTA--TA-T-GTTA
1 T-TATTTATCTATTAATTA
*
6078200 TTATTTATCTGTTAATTA
1 TTATTTATCTATTAATTA
*
6078218 TTGTTTATCTATTAATTA
1 TTATTTATCTATTAATTA
* *
6078236 ATATATTATCTTATTTATTTA
1 TTAT-TTATC-TA-TTAATTA
*
6078257 TTTATTTATTTATT
1 -TTATTTATCTATT
6078271 TATTTATTTA
Statistics
Matches: 105, Mismatches: 20, Indels: 29
0.68 0.13 0.19
Matches are distributed among these distances:
14 6 0.06
15 3 0.03
16 12 0.11
17 12 0.11
18 33 0.31
19 8 0.08
20 18 0.17
21 10 0.10
22 3 0.03
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (18 bp):
TTATTTATCTATTAATTA
Found at i:6079108 original size:13 final size:12
Alignment explanation
Indices: 6079090--6079267 Score: 70
Period size: 15 Copynumber: 12.8 Consensus size: 12
6079080 GTTTCCAGGT
6079090 TTTTTTTTTTTCA
1 TTTTTTTTTTT-A
*
6079103 TTTTTTCATTTTA
1 TTTTTT-TTTTTA
6079116 TTTTTTTATATTTA
1 TTTTTTT-T-TTTA
6079130 TTTATTTTTTAATTA
1 TTT-TTTTTT--TTA
*
6079145 TTATTTATTTATTAGA
1 TT-TTT-TTT-TT-TA
*
6079161 TTATATTTGTTTAATA
1 TT-T-TTT-TTT-TTA
6079177 CTTTTTTATTTTTA
1 -TTTTTT-TTTTTA
*
6079191 TTTTTGTTTTTA
1 TTTTTTTTTTTA
6079203 TTTTATTTTCCTTTA
1 TTTT-TTTT--TTTA
*
6079218 TTTTTATTTTTA
1 TTTTTTTTTTTA
*
6079230 -TTTTTATTTTA
1 TTTTTTTTTTTA
6079241 TTTTCCTTTATTTTA
1 TTTT--TTT-TTTTA
6079256 TTATTTTATTTT
1 TT-TTTT-TTTT
6079268 CTTTAAATAA
Statistics
Matches: 129, Mismatches: 13, Indels: 45
0.69 0.07 0.24
Matches are distributed among these distances:
11 9 0.07
12 17 0.13
13 23 0.18
14 24 0.19
15 34 0.26
16 15 0.12
17 7 0.05
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTTTTTTTTA
Found at i:6079108 original size:14 final size:13
Alignment explanation
Indices: 6079089--6079267 Score: 80
Period size: 14 Copynumber: 12.9 Consensus size: 13
6079079 CGTTTCCAGG
*
6079089 TTTTTTTTTTTTCA
1 TTTTTTTATTTT-A
*
6079103 TTTTTTCATTTTA
1 TTTTTTTATTTTA
6079116 TTTTTTTATATTTA
1 TTTTTTTAT-TTTA
6079130 TTTATTTTTTAATTATTA
1 --T-TTTTTT-ATT-TTA
* **
6079148 TTTATTTATTAGA
1 TTTTTTTATTTTA
* *
6079161 TTATATTTGTTTAATA
1 TT-TTTTTATTT--TA
*
6079177 CTTTTTTATTTTTA
1 TTTTTTTA-TTTTA
*
6079191 TTTTTGT-TTTTA
1 TTTTTTTATTTTA
6079203 TTTTATTT-TCCTTTA
1 TTTT-TTTAT--TTTA
6079218 --TTTTTATTTT-
1 TTTTTTTATTTTA
*
6079228 TATTTTTATTTTA
1 TTTTTTTATTTTA
6079241 TTTTCCTTTATTTTA
1 TTTT--TTTATTTTA
*
6079256 TTATTTTATTTT
1 TTTTTTTATTTT
6079268 CTTTAAATAA
Statistics
Matches: 129, Mismatches: 17, Indels: 39
0.70 0.09 0.21
Matches are distributed among these distances:
11 3 0.02
12 22 0.17
13 29 0.22
14 31 0.24
15 25 0.19
16 7 0.05
17 7 0.05
18 5 0.04
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:6079128 original size:23 final size:22
Alignment explanation
Indices: 6079089--6079157 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 22
6079079 CGTTTCCAGG
6079089 TTTTTTTTTTTTCATTT-TTTCA
1 TTTTTTTTTTTTCATTTATTT-A
6079111 TTTTATTTTTTTAT-ATTTATTTA
1 TTTT-TTTTTTT-TCATTTATTTA
* *
6079134 TTTTTTAATTATT-ATTTATTTA
1 TTTTTT-TTTTTTCATTTATTTA
6079156 TT
1 TT
6079158 AGATTATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 18 0.44
23 19 0.46
24 4 0.10
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTTTTTTTTCATTTATTTA
Found at i:6079133 original size:18 final size:17
Alignment explanation
Indices: 6079112--6079266 Score: 80
Period size: 18 Copynumber: 8.2 Consensus size: 17
6079102 ATTTTTTCAT
6079112 TTTATTTTTTTATATTTA
1 TTTATTTTTTTAT-TTTA
*
6079130 TTTATTTTTTAATTATTA
1 TTTATTTTTTTATT-TTA
*
6079148 TTTATTTATTAGATTATATTTG
1 TTTATTT-TT---TTAT-TTTA
6079170 TTTAATACTTTTTTATTTTTA
1 TTT-AT--TTTTTTA-TTTTA
6079191 TTT-TTGTTTTTATTTTA
1 TTTATT-TTTTTATTTTA
*
6079208 TTTTCCTTTATTTTTATTTTTA
1 -TTT--ATT-TTTTTA-TTTTA
* *
6079230 TTT-TTATTTTATTTTCC
1 TTTATTTTTTTATTTT-A
*
6079247 TTTATTTTATTATTTTA
1 TTTATTTTTTTATTTTA
6079264 TTT
1 TTT
6079267 TCTTTAAATA
Statistics
Matches: 109, Mismatches: 10, Indels: 37
0.70 0.06 0.24
Matches are distributed among these distances:
16 4 0.04
17 18 0.17
18 43 0.39
19 3 0.03
21 20 0.18
22 14 0.13
23 3 0.03
24 2 0.02
25 2 0.02
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTATTTTTTTATTTTA
Found at i:6079145 original size:11 final size:11
Alignment explanation
Indices: 6079113--6079158 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
6079103 TTTTTTCATT
*
6079113 TTATTTTTTTA
1 TTATTTATTTA
6079124 -TATTTATTTA
1 TTATTTATTTA
* *
6079134 TTTTTTAATTA
1 TTATTTATTTA
6079145 TTATTTATTTA
1 TTATTTATTTA
6079156 TTA
1 TTA
6079159 GATTATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:6079190 original size:6 final size:6
Alignment explanation
Indices: 6079179--6079244 Score: 80
Period size: 6 Copynumber: 10.7 Consensus size: 6
6079169 GTTTAATACT
* *
6079179 TTTTTA TTTTTA TTTTTG TTTTTA TTTTATT TTCCTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TT--TTTA TTTTTA TTTTTA
6079230 TTTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTT
6079245 CCTTTATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
5 5 0.10
6 39 0.75
7 3 0.06
8 3 0.06
9 2 0.04
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:6079194 original size:5 final size:5
Alignment explanation
Indices: 6079180--6079267 Score: 63
Period size: 5 Copynumber: 16.8 Consensus size: 5
6079170 TTTAATACTT
* * *
6079180 TTTTA TTTTTA TTTTTG TTTTTA TTTTA TTTTC CTTTA TTTTTA TTTTTA
1 TTTTA -TTTTA -TTTTA T-TTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA
* *
6079230 TTTTTA TTTTA TTTTC CTTTA TTTTA --TTA TTTTA TTTT
1 -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
6079268 CTTTAAATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
3 3 0.04
5 35 0.51
6 30 0.44
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:6079218 original size:33 final size:33
Alignment explanation
Indices: 6079181--6079267 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
6079171 TTAATACTTT
*
6079181 TTTATTTTTATTTTTGTTTTTATTTTATTTTCC
1 TTTATTTTTATTTTTATTTTTATTTTATTTTCC
6079214 TTTATTTTTATTTTTATTTTTATTTTATTTTCC
1 TTTATTTTTATTTTTATTTTTATTTTATTTTCC
6079247 TTTA-TTTTATTATTTTATTTT
1 TTTATTTTTA-T-TTTTATTTT
6079268 CTTTAAATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
32 5 0.10
33 37 0.73
34 9 0.18
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.79
Consensus pattern (33 bp):
TTTATTTTTATTTTTATTTTTATTTTATTTTCC
Found at i:6079268 original size:23 final size:20
Alignment explanation
Indices: 6079187--6079272 Score: 70
Period size: 23 Copynumber: 4.2 Consensus size: 20
6079177 CTTTTTTATT
* *
6079187 TTTATTTTTGTTTTTATTTTA
1 TTTATTTTT-ATTTTATTTTC
* *
6079208 TTT-TCCTTTATTTT-TATT-
1 TTTAT-TTTTATTTTATTTTC
6079226 TTTATTTTTATTTTATTTTCC
1 TTTATTTTTATTTTATTTT-C
6079247 TTTATTTTATTATTTTATTTTC
1 TTTA-TTT-TTATTTTATTTTC
6079269 TTTA
1 TTTA
6079273 AATAAAATTC
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
18 11 0.21
19 7 0.13
20 5 0.09
21 10 0.19
22 8 0.15
23 12 0.23
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (20 bp):
TTTATTTTTATTTTATTTTC
Found at i:6079501 original size:58 final size:58
Alignment explanation
Indices: 6079286--6079500 Score: 258
Period size: 59 Copynumber: 3.7 Consensus size: 58
6079276 AAAATTCAAA
6079286 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
* * *
6079344 AGAAAAATATTTTTG-GAGAAAAGTTGAAAGTCTCAATTTTCCTTAAAAATAAGTTTTCA
1 A-AAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
* ** *
6079403 AAAATGAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTCTCGAAATTAAAG-TTTCT
1 AAAA--AATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTAAAAAT-AAGCTTTCT
* * *
6079463 AAAAAATA-TTTTGGGGAGAAGTTGAAAATATCAATTTT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
6079501 TCCTGTACAA
Statistics
Matches: 137, Mismatches: 12, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
57 4 0.03
58 31 0.23
59 77 0.56
60 22 0.16
61 3 0.02
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
Found at i:6079504 original size:118 final size:119
Alignment explanation
Indices: 6079280--6079500 Score: 306
Period size: 118 Copynumber: 1.9 Consensus size: 119
6079270 TTAAATAAAA
*
6079280 TTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCTA
1 TTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAGCTTTCTA
* *
6079345 GAAAAATATTTTTGGAGAAAAGTTGAAAGTCTCAATTTTCCTTAAAAATAAGTT
66 GAAAAATATTTTTGGAGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAGTT
** * * *
6079399 TTCAAAAATGAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTCTCGAAATTAAAG-TTTC
1 TTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTCAAAAAT-AAGCTTTC
* *
6079462 TA-AAAAATA-TTTTGGGGAGAAGTTGAAAATATCAATTTT
64 TAGAAAAATATTTTTGGAGAAAAGTTGAAAATATCAATTTT
6079501 TCCTGTACAA
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
117 26 0.29
118 34 0.38
119 27 0.30
120 3 0.03
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (119 bp):
TTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAGCTTTCTA
GAAAAATATTTTTGGAGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAGTT
Found at i:6082144 original size:26 final size:24
Alignment explanation
Indices: 6082115--6082183 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 24
6082105 ACATATAGAT
6082115 TTTTTATTAAATAATATAAATTATTA
1 TTTTTATTAAATAATATAAA-TA-TA
* *
6082141 TTTTATATAAAATAAAATAAATATA
1 TTTT-TATTAAATAATATAAATATA
6082166 TTTTTATTGAAA-AATATA
1 TTTTTATT-AAATAATATA
6082184 TATTTATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 8 0.22
25 9 0.24
26 6 0.16
27 14 0.38
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (24 bp):
TTTTTATTAAATAATATAAATATA
Found at i:6082196 original size:18 final size:18
Alignment explanation
Indices: 6082152--6082196 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
6082142 TTTATATAAA
*
6082152 ATAAAATAAATATATTTTT
1 ATAAAA-AAATATATATTT
**
6082171 ATTGAAAAATATATATTT
1 ATAAAAAAATATATATTT
6082189 ATAAAAAA
1 ATAAAAAA
6082197 TTACCTAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAAAAAAATATATATTT
Found at i:6086677 original size:23 final size:20
Alignment explanation
Indices: 6086636--6086682 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 20
6086626 TAACATGTCA
*
6086636 ATTTTAAAAAAAAATTAAAT
1 ATTTTAAAAAAAAAATAAAT
6086656 ATTTTAAAAATAAAAGAATAAAT
1 ATTTT-AAAA-AAAA-AATAAAT
6086679 ATTT
1 ATTT
6086683 AGATATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 4 0.17
22 4 0.17
23 10 0.43
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
ATTTTAAAAAAAAAATAAAT
Found at i:6087421 original size:26 final size:28
Alignment explanation
Indices: 6087359--6087423 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 28
6087349 ATATATCTAA
6087359 TATATATTTTT-TATTAAATAATATAAAT
1 TATATATTTTTATATTAAAT-ATATAAAT
6087387 TAT-TA-TTTTATA-TAAAT-TA-AAAT
1 TATATATTTTTATATTAAATATATAAAT
6087410 TAATATATTTTTAT
1 T-ATATATTTTTAT
6087424 TGAACAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
23 5 0.15
24 4 0.12
25 2 0.06
26 15 0.45
27 4 0.12
28 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TATATATTTTTATATTAAATATATAAAT
Found at i:6087849 original size:2 final size:2
Alignment explanation
Indices: 6087842--6087866 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6087832 TAATCCCTTC
6087842 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6087867 ATCTATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6090047 original size:2 final size:2
Alignment explanation
Indices: 6090042--6090097 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
6090032 TTTGTGTGTG
6090042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6090084 TA TA AA TA TA TA TA
1 TA TA TA TA TA TA TA
6090098 ATCTATTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6092865 original size:32 final size:32
Alignment explanation
Indices: 6092829--6092891 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
6092819 TGTTCTGTGA
*
6092829 ATTTTTGGAATCCGTATAAATTACAATTGTAT
1 ATTTTTGGAATACGTATAAATTACAATTGTAT
* * *
6092861 ATTTTTGGACTACTTATAAATTATAATTGTA
1 ATTTTTGGAATACGTATAAATTACAATTGTA
6092892 CAATTATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (32 bp):
ATTTTTGGAATACGTATAAATTACAATTGTAT
Found at i:6098072 original size:19 final size:19
Alignment explanation
Indices: 6098044--6098119 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 19
6098034 ATAAAATTTT
6098044 TATTAT-AAAAATTTTTAA
1 TATTATAAAAAATTTTTAA
* *
6098062 TCTTATAAAAAATTATTAA
1 TATTATAAAAAATTTTTAA
* * **
6098081 TGTTGTAAATTATTTTTAA
1 TATTATAAAAAATTTTTAA
*
6098100 -ATTATAATAAAATATTTAA
1 TATTATAA-AAAATTTTTAA
6098119 T
1 T
6098120 GTGATATTTA
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
18 10 0.23
19 33 0.77
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (19 bp):
TATTATAAAAAATTTTTAA
Found at i:6100530 original size:27 final size:25
Alignment explanation
Indices: 6100484--6100545 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
6100474 TATTTTCATT
*
6100484 TAAATAAAAAAAAGTTAAATTTTGAA
1 TAAATAAAAAAAAGTAAAATTTT-AA
6100510 TAAATACAAAAAAA-TAAAAATTTTAA
1 TAAATA-AAAAAAAGT-AAAATTTTAA
*
6100536 TAGATAAAAA
1 TAAATAAAAA
6100546 TCTAGAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 4 0.12
26 14 0.44
27 14 0.44
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (25 bp):
TAAATAAAAAAAAGTAAAATTTTAA
Found at i:6100804 original size:19 final size:19
Alignment explanation
Indices: 6100764--6100813 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
6100754 ATCAATTTTT
*
6100764 AATATTTAAAAAAGTTTAA
1 AATATTTTAAAAAGTTTAA
*
6100783 AATATTTTAAATA-TTTATA
1 AATATTTTAAAAAGTTTA-A
*
6100802 AATTTTTTAAAA
1 AATATTTTAAAA
6100814 GTAATTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
AATATTTTAAAAAGTTTAA
Found at i:6101067 original size:20 final size:20
Alignment explanation
Indices: 6101042--6101080 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6101032 GGATAAAAAT
6101042 TTTGAAATTTTGAAATACGA
1 TTTGAAATTTTGAAATACGA
* *
6101062 TTTGAAGTTTTTAAATACG
1 TTTGAAATTTTGAAATACG
6101081 CACAATGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (20 bp):
TTTGAAATTTTGAAATACGA
Found at i:6104733 original size:21 final size:21
Alignment explanation
Indices: 6104687--6104734 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6104677 GAGCTTAATC
*
6104687 AATTTTTTTTATTTAAATATA
1 AATTTTTATTATTTAAATATA
* *
6104708 TATTTTTATTATATTAATTA-A
1 AATTTTTATTAT-TTAAATATA
6104729 AATTTT
1 AATTTT
6104735 ATAATTTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTTTATTATTTAAATATA
Found at i:6104755 original size:2 final size:2
Alignment explanation
Indices: 6104748--6104777 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6104738 ATTTTACCCT
6104748 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6104778 ACCCTAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6106264 original size:22 final size:23
Alignment explanation
Indices: 6106228--6106277 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
6106218 ATATTTATTT
6106228 TAATAAATTAATTAATTATTTT-A
1 TAATAAATTAATTAATT-TTTTAA
6106251 TAATAAA-TAATTAATTTTTTAA
1 TAATAAATTAATTAATTTTTTAA
6106273 TAATA
1 TAATA
6106278 TTATTATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.15
22 15 0.58
23 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATAAATTAATTAATTTTTTAA
Found at i:6106789 original size:12 final size:12
Alignment explanation
Indices: 6106772--6106798 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6106762 TAGTTTATCG
6106772 ATTTTAATTTTT
1 ATTTTAATTTTT
6106784 ATTTTAATTTTT
1 ATTTTAATTTTT
6106796 ATT
1 ATT
6106799 AAATCATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
ATTTTAATTTTT
Found at i:6107177 original size:20 final size:21
Alignment explanation
Indices: 6107152--6107203 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
6107142 TTTAAAAAGC
6107152 TTTTTATAATTTTTCT-AAAA
1 TTTTTATAATTTTTCTCAAAA
*
6107172 TTTTTA-AATTTTTTTCAAAA
1 TTTTTATAATTTTTCTCAAAA
*
6107192 ATTTTAT-ATTTT
1 TTTTTATAATTTT
6107204 CAATTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTATAATTTTTCTCAAAA
Found at i:6107424 original size:20 final size:19
Alignment explanation
Indices: 6107394--6107446 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
6107384 TTATTTTTAA
*
6107394 TAATTTTTTAAAATATTTC
1 TAATTTTTTAAAAAATTTC
6107413 TAATTCTTTTAAAAAATTT-
1 TAATT-TTTTAAAAAATTTC
6107432 TAGAATTTTTTAAAA
1 T--AATTTTTTAAAA
6107447 TTTTTTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.20
20 20 0.67
21 4 0.13
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (19 bp):
TAATTTTTTAAAAAATTTC
Found at i:6107452 original size:20 final size:19
Alignment explanation
Indices: 6107395--6107460 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
6107385 TATTTTTAAT
*
6107395 AATTTTTTAAAATATTTCT-
1 AATTTTTTAAAAT-TTTTTG
* *
6107414 AATTCTTTTAAAAAATTTTAG
1 AATT-TTTT-AAAATTTTTTG
6107435 AATTTTTTAAAATTTTTTTG
1 AATTTTTTAAAA-TTTTTTG
6107455 AATTTT
1 AATTTT
6107461 AAAAAAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 8 0.21
20 22 0.58
21 8 0.21
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (19 bp):
AATTTTTTAAAATTTTTTG
Found at i:6107466 original size:20 final size:20
Alignment explanation
Indices: 6107419--6107471 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
6107409 TTTCTAATTC
6107419 TTTTAAAAAA--TTTTAGAA
1 TTTTAAAAAATTTTTTAGAA
** *
6107437 TTTTTTAAAATTTTTTTGAA
1 TTTTAAAAAATTTTTTAGAA
6107457 TTTTAAAAAAATTTT
1 TTTT-AAAAAATTTT
6107472 CTTTTAATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 8 0.30
20 11 0.41
21 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTTAAAAAATTTTTTAGAA
Found at i:6115648 original size:14 final size:14
Alignment explanation
Indices: 6115629--6115659 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6115619 ATGCTATCCT
6115629 TAATAGAGAAACCA
1 TAATAGAGAAACCA
6115643 TAATAGAGAAACCA
1 TAATAGAGAAACCA
6115657 TAA
1 TAA
6115660 AACAATCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.16
Consensus pattern (14 bp):
TAATAGAGAAACCA
Found at i:6116611 original size:2 final size:2
Alignment explanation
Indices: 6116604--6116633 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6116594 TCAGATGCAA
6116604 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6116634 TCATTACGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6119016 original size:7 final size:7
Alignment explanation
Indices: 6119004--6119059 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
6118994 TAAATGAATC
6119004 TAATTAT
1 TAATTAT
6119011 TAATTAT
1 TAATTAT
6119018 TAATTATT
1 TAATTA-T
* *
6119026 TAATGAA
1 TAATTAT
**
6119033 TAAAAAT
1 TAATTAT
6119040 CTAATTAT
1 -TAATTAT
6119048 TAATTAT
1 TAATTAT
6119055 TAATT
1 TAATT
6119060 TAATTTAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
7 29 0.73
8 11 0.28
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (7 bp):
TAATTAT
Found at i:6119526 original size:20 final size:20
Alignment explanation
Indices: 6119487--6119602 Score: 81
Period size: 20 Copynumber: 5.6 Consensus size: 20
6119477 TACTAATGAT
* * *
6119487 ATATTCAATATTAATTTAATT
1 ATATTAAATATT-TTTTAATA
*
6119508 ATATTAACTATTTTTTAATA
1 ATATTAAATATTTTTTAATA
* *
6119528 ATATTAAATA-TTATTGATCA
1 ATATTAAATATTTTTTAAT-A
* *
6119548 ATATTAAATATTAATTTAATC
1 ATATTAAATATT-TTTTAATA
* * *
6119569 GTATTAAATATTCAATTTCATA
1 ATATTAAATATT--TTTTAATA
6119591 ATATTAAATATT
1 ATATTAAATATT
6119603 AATTATACAA
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
19 6 0.08
20 26 0.34
21 22 0.29
22 22 0.29
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
ATATTAAATATTTTTTAATA
Found at i:6119614 original size:21 final size:20
Alignment explanation
Indices: 6119487--6119615 Score: 86
Period size: 21 Copynumber: 6.2 Consensus size: 20
6119477 TACTAATGAT
*
6119487 ATATTCAATATTAATTTA-A
1 ATATTAAATATTAATTTACA
* * *
6119506 TTATATTAACTATT-TTTTAATA
1 --ATATTAAATATTAATTT-ACA
*
6119528 ATATTAAATATT-ATTGATCA
1 ATATTAAATATTAATTTA-CA
6119548 ATATTAAATATTAATTTA-A
1 ATATTAAATATTAATTTACA
* *
6119567 TCGTATTAAATATTCAATTTCATA
1 --ATATTAAATATT-AATTT-ACA
6119591 ATATTAAATATTAATTATACA
1 ATATTAAATATTAATT-TACA
6119612 ATAT
1 ATAT
6119616 ACCAAATTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
19 2 0.02
20 29 0.33
21 36 0.41
22 18 0.21
23 1 0.01
24 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (20 bp):
ATATTAAATATTAATTTACA
Found at i:6119675 original size:29 final size:29
Alignment explanation
Indices: 6119623--6119762 Score: 135
Period size: 28 Copynumber: 4.9 Consensus size: 29
6119613 TATACCAAAT
6119623 TTTAATAATATTTTACA-A-TAAATATTAA
1 TTTAATAATATTTTA-ATATTAAATATTAA
* *
6119651 TTTAATAATATTTTAATGTTTAATATT-A
1 TTTAATAATATTTTAATATTAAATATTAA
* * *
6119679 TTTAGTAAAATTTTAGTATTAAATATTAA
1 TTTAATAATATTTTAATATTAAATATTAA
* * * *
6119708 TTTAACAATA-TTTCATATAAAATATCAA
1 TTTAATAATATTTTAATATTAAATATTAA
* *
6119736 TTTCATAATATTTAAAATATTAAATAT
1 TTTAATAATATTT-TAATATTAAATAT
6119763 CAATATCTTT
Statistics
Matches: 88, Mismatches: 19, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
27 1 0.01
28 60 0.68
29 17 0.19
30 10 0.11
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTAATAATATTTTAATATTAAATATTAA
Found at i:6119878 original size:10 final size:10
Alignment explanation
Indices: 6119863--6119929 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
6119853 TTCTAATACA
*
6119863 AATATTATTC
1 AATATTATTT
6119873 AATATTAATTT
1 AATATT-ATTT
* *
6119884 AATAATATTC
1 AATATTATTT
* *
6119894 AGTTTTAATTT
1 AATATT-ATTT
6119905 AATATTA-TT
1 AATATTATTT
6119914 AACTATTATTT
1 AA-TATTATTT
6119925 AATAT
1 AATAT
6119930 ATTAAATTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
9 4 0.09
10 21 0.48
11 19 0.43
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (10 bp):
AATATTATTT
Found at i:6119892 original size:14 final size:14
Alignment explanation
Indices: 6119873--6119961 Score: 53
Period size: 14 Copynumber: 6.5 Consensus size: 14
6119863 AATATTATTC
6119873 AATATTAATTTAAT
1 AATATTAATTTAAT
*
6119887 AATATTCAGTTT--T
1 AATATT-AATTTAAT
*
6119900 AAT-TTAATATTATT
1 AATATTAAT-TTAAT
6119914 AACTATT-ATTTAAT
1 AA-TATTAATTTAAT
* **
6119928 -ATATTAAATTGTT
1 AATATTAATTTAAT
*
6119941 GATATTAATTTAAT
1 AATATTAATTTAAT
*
6119955 TATATTA
1 AATATTA
6119962 TATATAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
11 2 0.04
12 8 0.14
13 9 0.16
14 29 0.51
15 7 0.12
16 2 0.04
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (14 bp):
AATATTAATTTAAT
Found at i:6119892 original size:21 final size:21
Alignment explanation
Indices: 6119863--6119932 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
6119853 TTCTAATACA
*
6119863 AATATTATTCAATATTAATTT
1 AATAATATTCAATATTAATTT
* *
6119884 AATAATATTCAGTTTTAATTT
1 AATAATATTCAATATTAATTT
*
6119905 AATATTATT-AACTATT-ATTT
1 AATAATATTCAA-TATTAATTT
6119925 AAT-ATATT
1 AATAATATT
6119933 AAATTGTTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.10
20 8 0.20
21 29 0.71
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.53
Consensus pattern (21 bp):
AATAATATTCAATATTAATTT
Found at i:6120975 original size:5 final size:5
Alignment explanation
Indices: 6120967--6121038 Score: 51
Period size: 5 Copynumber: 13.8 Consensus size: 5
6120957 TTATTTAAAG
*
6120967 AAAAT AAAAT --AAT AAAAT AAAAAT AAAGA- AAAGT AAAAT AAACAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAA-AT AAAAT AAAAT AAA-AT
*
6121012 AAAAAT AGAAT AAAGAT AAAAAT AAAA
1 -AAAAT AAAAT AAA-AT -AAAAT AAAA
6121039 GAATATTAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
3 3 0.06
5 31 0.57
6 14 0.26
7 6 0.11
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:6121023 original size:17 final size:17
Alignment explanation
Indices: 6121003--6121035 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6120993 AGAAAAGTAA
6121003 AATAAACATAAAAATAG
1 AATAAACATAAAAATAG
*
6121020 AATAAAGATAAAAATA
1 AATAAACATAAAAATA
6121036 AAAGAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (17 bp):
AATAAACATAAAAATAG
Found at i:6121952 original size:16 final size:16
Alignment explanation
Indices: 6121931--6121964 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6121921 CAGATAAATC
*
6121931 AAAATATTAACAGATA
1 AAAATAATAACAGATA
*
6121947 AAAATAATAATAGATA
1 AAAATAATAACAGATA
6121963 AA
1 AA
6121965 TTATAATATA
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:0.68, C:0.03, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAATAATAACAGATA
Found at i:6121965 original size:36 final size:40
Alignment explanation
Indices: 6121915--6122030 Score: 118
Period size: 38 Copynumber: 3.0 Consensus size: 40
6121905 AATTAAAGAA
*
6121915 AATAATCAGATAAATCA-AA-ATATTAACAGATAAA-AAT
1 AATAATCAGATAAATCATAATATATAAACAGATAAATAAT
* *
6121952 AATAAT-AGATAAATTATAATATATAAATAGATAAATAAT
1 AATAATCAGATAAATCATAATATATAAACAGATAAATAAT
* * * * *
6121991 AATAA--ATATATATAATAATATATAAATAGTTAAATAAT
1 AATAATCAGATAAATCATAATATATAAACAGATAAATAAT
6122029 AA
1 AA
6122031 ATATATATTA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
36 9 0.13
37 8 0.12
38 44 0.64
39 8 0.12
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (40 bp):
AATAATCAGATAAATCATAATATATAAACAGATAAATAAT
Found at i:6121980 original size:22 final size:22
Alignment explanation
Indices: 6121955--6122117 Score: 92
Period size: 22 Copynumber: 8.1 Consensus size: 22
6121945 TAAAAATAAT
*
6121955 AATAGATAAATTATAATATATA
1 AATAGATAAATAATAATATATA
6121977 AATAGAT--A-AATAATA-ATA
1 AATAGATAAATAATAATATATA
*
6121995 AAT--ATATATAATAATATATA
1 AATAGATAAATAATAATATATA
*
6122015 AATAGTTAAATAATAA-ATAT-
1 AATAGATAAATAATAATATATA
* * *
6122035 -ATA-TTAACATAACAA-AAATA
1 AATAGATAA-ATAATAATATATA
*
6122055 AATAAATAAAT-AT--TA-ATA
1 AATAGATAAATAATAATATATA
*
6122073 AATAG-T-AATAATAAATAAATA
1 AATAGATAAATAAT-AATATATA
*
6122094 AATA-ATAAATACATAAGATATA
1 AATAGATAAATA-ATAATATATA
6122116 AA
1 AA
6122118 GGAAAAAATA
Statistics
Matches: 112, Mismatches: 10, Indels: 38
0.70 0.06 0.24
Matches are distributed among these distances:
16 5 0.04
17 3 0.03
18 18 0.16
19 26 0.23
20 10 0.09
21 17 0.15
22 31 0.28
23 2 0.02
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (22 bp):
AATAGATAAATAATAATATATA
Found at i:6121998 original size:4 final size:4
Alignment explanation
Indices: 6121955--6122109 Score: 81
Period size: 4 Copynumber: 38.2 Consensus size: 4
6121945 TAAAAATAAT
* * * *
6121955 AATA GATA AATTA TAATA TATA AATA GATA AAT- AAT- AATA AATA TATA
1 AATA AATA AA-TA -AATA AATA AATA AATA AATA AATA AATA AATA AATA
* ** * * *
6122003 TAAT- AATA TATA AATA GTTA AAT- AATA AATA TAT- ATTA ACATA ACAAA
1 -AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA A-ATA A-ATA
6122051 AATA AATA AATA AATA TTAATA AATA GTAAT- AATA AATA AATA AAT-
1 AATA AATA AATA AATA --AATA AATA --AATA AATA AATA AATA AATA
*
6122097 AATA AATA CATA A
1 AATA AATA AATA A
6122110 GATATAAAGG
Statistics
Matches: 115, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
3 19 0.17
4 74 0.64
5 13 0.11
6 9 0.08
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (4 bp):
AATA
Found at i:6122116 original size:15 final size:15
Alignment explanation
Indices: 6121948--6122158 Score: 106
Period size: 14 Copynumber: 13.9 Consensus size: 15
6121938 TAACAGATAA
*
6121948 AAAT-AATAATAGAT
1 AAATAAATAATAAAT
6121962 AAATTATAATATATAAAT
1 AAA-TA-AATA-ATAAAT
*
6121980 AGATAAATAAT-AAT
1 AAATAAATAATAAAT
6121994 AAATATATATAAT-AAT
1 AAATA-A-ATAATAAAT
* *
6122010 ATATAAATAGTTAAAT
1 AAATAAATA-ATAAAT
*
6122026 -AATAAAT-ATATATT
1 AAATAAATAATA-AAT
*
6122040 AACATAACAAAAATAAAT
1 AA-AT-A-AATAATAAAT
*
6122058 AAATAAAT-ATTAAT
1 AAATAAATAATAAAT
6122072 AAATAGTAATAATAAAT
1 AAATA--AATAATAAAT
6122089 AAATAAATAATAAAT
1 AAATAAATAATAAAT
* *
6122104 ACATAAGAT-ATAAAGG
1 AAATAA-ATAATAAA-T
6122120 AAA-AAAT-ATAAA-
1 AAATAAATAATAAAT
6122132 ATAA-AAATAA-AAAT
1 A-AATAAATAATAAAT
*
6122146 AAAAAAAT-ATAAA
1 AAATAAATAATAAA
6122159 ATACAAAATA
Statistics
Matches: 157, Mismatches: 16, Indels: 48
0.71 0.07 0.22
Matches are distributed among these distances:
12 1 0.01
13 14 0.09
14 41 0.26
15 37 0.24
16 29 0.18
17 19 0.12
18 13 0.08
19 3 0.02
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (15 bp):
AAATAAATAATAAAT
Found at i:6122140 original size:78 final size:78
Alignment explanation
Indices: 6121974--6122170 Score: 185
Period size: 78 Copynumber: 2.6 Consensus size: 78
6121964 ATTATAATAT
* * * * *
6121974 ATAAATAGATAAATAATAATAAATATATATAATAATATATAAATAGTTAAATAATAAATATATAT
1 ATAAATAAATAAATAATAATAAATATATATAATAATAAATAAATAGATAAATAATAAATATAAAG
* *
6122039 TAACATAACAAAA
66 GAACAAAACAAAA
*
6122052 ATAAATAAATAAATATTAATAAATAGTA-ATAATAAATAAATAAATA-ATAAATACATAAGATAT
1 ATAAATAAATAAATAATAATAAATA-TATATAAT-AATAAATAAATAGATAAATA-ATAA-ATAT
*
6122115 AAAGGAA-AAAATATAAA
62 AAAGGAACAAAACA-AAA
* *
6122132 AT-AA-AAATAAA-AATAA-AAAAATATAAAATACA-AAATAAA
1 ATAAATAAATAAATAATAATAAATATATATAATA-ATAAATAAA
6122171 AAAATAAAGT
Statistics
Matches: 100, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
75 10 0.10
76 9 0.09
77 4 0.04
78 41 0.41
79 23 0.23
80 13 0.13
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (78 bp):
ATAAATAAATAAATAATAATAAATATATATAATAATAAATAAATAGATAAATAATAAATATAAAG
GAACAAAACAAAA
Found at i:6122150 original size:27 final size:28
Alignment explanation
Indices: 6122079--6122172 Score: 102
Period size: 27 Copynumber: 3.3 Consensus size: 28
6122069 AATAAATAGT
*
6122079 AATAATAAATAAATAAATA-ATAAATACATA
1 AATAA-AAATAAAAAAATATA-AAATACA-A
* **
6122109 AGATATAAAGGAAAAAATATAAAATA-AA
1 A-ATAAAAATAAAAAAATATAAAATACAA
6122137 AATAAAAATAAAAAAATATAAAATACAA
1 AATAAAAATAAAAAAATATAAAATACAA
6122165 AATAAAAA
1 AATAAAAA
6122173 AATAAAGTGG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
27 21 0.39
28 12 0.22
29 1 0.02
30 16 0.30
31 4 0.07
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.20
Consensus pattern (28 bp):
AATAAAAATAAAAAAATATAAAATACAA
Found at i:6122166 original size:22 final size:20
Alignment explanation
Indices: 6122129--6122178 Score: 82
Period size: 22 Copynumber: 2.4 Consensus size: 20
6122119 GAAAAAATAT
6122129 AAAATAAAAATAAAAATAAA
1 AAAATAAAAATAAAAATAAA
6122149 AAAATATAAAATACAAAATAAA
1 AAAATA-AAAATA-AAAATAAA
6122171 AAAATAAA
1 AAAATAAA
6122179 GTGGACCTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.21
21 8 0.29
22 14 0.50
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAATAAAAATAAAAATAAA
Found at i:6122173 original size:7 final size:7
Alignment explanation
Indices: 6122048--6122178 Score: 61
Period size: 7 Copynumber: 18.3 Consensus size: 7
6122038 TTAACATAAC
6122048 AAAAATA
1 AAAAATA
6122055 AATAAATA
1 AA-AAATA
* *
6122063 AATATTA
1 AAAAATA
*
6122070 ATAAAT-
1 AAAAATA
**
6122076 AGTAATA
1 AAAAATA
*
6122083 ATAAATA
1 AAAAATA
6122090 AATAAATA
1 AA-AAATA
*
6122098 ATAAATA
1 AAAAATA
*
6122105 CATAAGATA
1 -A-AAAATA
* **
6122114 TAAAGGA
1 AAAAATA
6122121 AAAAATA
1 AAAAATA
*
6122128 TAAAAT-
1 AAAAATA
6122134 AAAAAT-
1 AAAAATA
6122140 AAAAATAA
1 AAAAAT-A
6122148 AAAAATA
1 AAAAATA
*
6122155 TAAAATA
1 AAAAATA
*
6122162 CAAAATAA
1 AAAAAT-A
6122170 AAAAATA
1 AAAAATA
6122177 AA
1 AA
6122179 GTGGACCTAC
Statistics
Matches: 91, Mismatches: 25, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
6 15 0.16
7 46 0.51
8 26 0.29
9 4 0.04
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (7 bp):
AAAAATA
Found at i:6122465 original size:42 final size:42
Alignment explanation
Indices: 6122360--6122565 Score: 193
Period size: 42 Copynumber: 4.8 Consensus size: 42
6122350 TTTGATCAAG
* * * * * * *
6122360 GCTCCTCTAAGCAGAGGCTTAACAACTTTGAAAAACATAAACAAT
1 GCTCATCTAATCAGAGGCTCAACGACTTTG--AAA-ATGAATAAA
* *
6122405 GCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATGAATAAA
1 GCTCATCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAA
* * *
6122447 ACTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA
1 GCTCATCTAATCAGAGGCTCAACGACTTTG-AAAATGAATAAA
* *
6122490 GCTCATCTAATCAGAGACTCAATGACCTTTGAAAA-G--TAAA
1 GCTCATCTAATCAGAGGCTCAACGA-CTTTGAAAATGAATAAA
*
6122530 TGGCTCATCTAATCAGAGGCTCAACAACTTTGAAAA
1 --GCTCATCTAATCAGAGGCTCAACGACTTTGAAAA
6122566 GTAAATGGCT
Statistics
Matches: 139, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
40 4 0.03
41 9 0.06
42 56 0.40
43 39 0.28
44 5 0.04
45 26 0.19
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (42 bp):
GCTCATCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAA
Found at i:6122541 original size:85 final size:85
Alignment explanation
Indices: 6122352--6122571 Score: 275
Period size: 85 Copynumber: 2.6 Consensus size: 85
6122342 GTTTAAGATT
* * * * * *
6122352 TGATCAAGGCTCCTCTAAGCAGAGGCTTAACAACTTTGAAAAACATAAACAATGCTCCTCTAATC
1 TGATAAAGGCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAA-ATAAATAAAGCTCATCTAATC
*
6122417 AGAGGCTCAATGACTTTGAAAA
64 AGAGACTCAATGACTTTGAAAA
* *
6122439 TGAATAAA-ACTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCATCTAATCA
1 TG-ATAAAGGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTCATCTAATCA
6122503 GAGACTCAATGACCTTTGAAAA
65 GAGACTCAATGA-CTTTGAAAA
* *
6122525 -G-TAAATGGCTCATCTAATCAGAGGCTCAACAACTTTGAAAAGTAAAT
1 TGATAAA-GGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAAT
6122572 GGCTCCTTGA
Statistics
Matches: 116, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
83 4 0.03
85 67 0.58
86 13 0.11
87 28 0.24
88 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (85 bp):
TGATAAAGGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTCATCTAATCAG
AGACTCAATGACTTTGAAAA
Found at i:6123600 original size:7 final size:7
Alignment explanation
Indices: 6123590--6123636 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
6123580 TCATTCACTT
6123590 TTTTTCA
1 TTTTTCA
6123597 TTTTTCA
1 TTTTTCA
*
6123604 -TTTTCT
1 TTTTTCA
6123610 TTTTTCA
1 TTTTTCA
*
6123617 TTTTTTA
1 TTTTTCA
6123624 TTTTTTCA
1 -TTTTTCA
6123632 TTTTT
1 TTTTT
6123637 TTTCAAGCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
6 5 0.15
7 23 0.68
8 6 0.18
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTCA
Found at i:6123607 original size:13 final size:13
Alignment explanation
Indices: 6123591--6123635 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
6123581 CATTCACTTT
6123591 TTTTCATTTTTCA
1 TTTTCATTTTTCA
*
6123604 TTTTCTTTTTTCA
1 TTTTCATTTTTCA
*
6123617 TTTTTTATTTTTTCA
1 -TTTTCA-TTTTTCA
6123632 TTTT
1 TTTT
6123636 TTTTCAAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.44
14 8 0.30
15 7 0.26
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:6123626 original size:20 final size:20
Alignment explanation
Indices: 6123573--6123627 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
6123563 CCTTGAGTCC
**
6123573 TCATTTTTCATTCACTTTTTT
1 TCATTTTTCATTTTC-TTTTT
6123594 TCATTTTTCATTTTCTTTTT
1 TCATTTTTCATTTTCTTTTT
*
6123614 TCATTTTTTATTTT
1 TCATTTTTCATTTT
6123628 TTCATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (20 bp):
TCATTTTTCATTTTCTTTTT
Found at i:6123637 original size:15 final size:15
Alignment explanation
Indices: 6123604--6123637 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6123594 TCATTTTTCA
*
6123604 TTTTCTTTTTTCATT
1 TTTTATTTTTTCATT
6123619 TTTTATTTTTTCATT
1 TTTTATTTTTTCATT
6123634 TTTT
1 TTTT
6123638 TTCAAGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTTCATT
Found at i:6132010 original size:28 final size:27
Alignment explanation
Indices: 6131978--6132071 Score: 64
Period size: 28 Copynumber: 3.2 Consensus size: 27
6131968 TTTTGTATAG
6131978 AAAAAATTGATGCTTTCAACTTTTTCTC
1 AAAAAATTGAT-CTTTCAACTTTTTCTC
* * *
6132006 AAAAATATTTATTTTTAGAAAGCTTATTT-TC
1 AAAAA-ATTGATCTTT--CAA-CTT-TTTCTC
*
6132037 AAGAAAAATTGATACTTTCAATTTTTTCTC
1 -A-AAAAATTGAT-CTTTCAACTTTTTCTC
6132067 AAAAA
1 AAAAA
6132072 TATTTTTTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 18
0.67 0.09 0.24
Matches are distributed among these distances:
28 12 0.24
29 9 0.18
30 6 0.12
31 7 0.14
32 9 0.18
33 7 0.14
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (27 bp):
AAAAAATTGATCTTTCAACTTTTTCTC
Found at i:6132100 original size:5 final size:5
Alignment explanation
Indices: 6132092--6132191 Score: 85
Period size: 5 Copynumber: 18.6 Consensus size: 5
6132082 AATTTTATTT
* *
6132092 AAATA AAATA AAATA GAATA AAATA GAATA AAATAA AAATGA AAATAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A AAAT-A AAAT-A
* *
6132140 AAATA AAGA-A AAGTA AAATA AACATAA AAACA AAATA AAGATAA AAATA
1 AAATA AA-ATA AAATA AAATA AA-AT-A AAATA AAATA AA-AT-A AAATA
6132189 AAA
1 AAA
6132192 GAATATTAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
5 49 0.63
6 23 0.29
7 6 0.08
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:6132113 original size:15 final size:15
Alignment explanation
Indices: 6132092--6132191 Score: 85
Period size: 17 Copynumber: 6.2 Consensus size: 15
6132082 AATTTTATTT
6132092 AAATAAAATAAAATA
1 AAATAAAATAAAATA
* *
6132107 GAATAAAATAGAATA
1 AAATAAAATAAAATA
6132122 AAATAAAAATGAAAATAA
1 AAAT-AAAAT-AAAAT-A
*
6132140 AAATAAAGA-AAAGTA
1 AAATAAA-ATAAAATA
*
6132155 AAATAAACATAAAAACA
1 AAATAAA-AT-AAAATA
6132172 AAATAAAGATAAAAATA
1 AAATAAA-AT-AAAATA
6132189 AAA
1 AAA
6132192 GAATATTAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
15 25 0.36
16 9 0.13
17 29 0.42
18 6 0.09
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATAAAATAAAATA
Found at i:6132136 original size:6 final size:6
Alignment explanation
Indices: 6132121--6132191 Score: 63
Period size: 6 Copynumber: 11.5 Consensus size: 6
6132111 AAAATAGAAT
* * * *
6132121 AAAATA AAAATG AAAATA AAAATA AAGAAAA GTAAAATA AACATA AAAA-C
1 AAAATA AAAATA AAAATA AAAATA AA-AATA --AAAATA AAAATA AAAATA
*
6132171 AAAATA AAGATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAA
6132192 GAATATTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
5 4 0.08
6 39 0.76
7 3 0.06
8 3 0.06
9 2 0.04
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:6132771 original size:13 final size:13
Alignment explanation
Indices: 6132753--6132793 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
6132743 AAAATTTTTC
6132753 AAAAATTTCCAAA
1 AAAAATTTCCAAA
6132766 AAAAA-TT-CACAA
1 AAAAATTTCCA-AA
6132778 AAAAATTCTCCAAA
1 AAAAATT-TCCAAA
6132792 AA
1 AA
6132794 TTCCTACTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 2 0.08
12 9 0.38
13 6 0.25
14 5 0.21
15 2 0.08
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAATTTCCAAA
Found at i:6133185 original size:8 final size:7
Alignment explanation
Indices: 6133146--6133303 Score: 84
Period size: 7 Copynumber: 22.3 Consensus size: 7
6133136 TAACAGGTAA
6133146 AAATAAT
1 AAATAAT
6133153 -AATAGAT
1 AAATA-AT
*
6133160 AAATTAT
1 AAATAAT
6133167 AACAT-AT
1 AA-ATAAT
6133174 AAATAGAT
1 AAATA-AT
6133182 AAATAAT
1 AAATAAT
6133189 -AATAAAT
1 AAAT-AAT
6133196 ATATATAAT
1 A-A-ATAAT
6133205 -AATATAT
1 AAATA-AT
*
6133212 AAATAGTT
1 AAATA-AT
6133220 AAATAAT
1 AAATAAT
6133227 AAAT-AT
1 AAATAAT
*
6133233 --ATATT
1 AAATAAT
*
6133238 AACATAAC
1 AA-ATAAT
6133246 AAA-AAT
1 AAATAAT
6133252 AAAT-AT
1 AAATAAT
*
6133258 ATATTAAT
1 A-AATAAT
*
6133266 AAATAGT
1 AAATAAT
6133273 -AATAAT
1 AAATAAT
6133279 AAATAAAT
1 AAAT-AAT
6133287 AAATAAT
1 AAATAAT
6133294 AAATACAT
1 AAATA-AT
6133302 AA
1 AA
6133304 GATATAAAGG
Statistics
Matches: 118, Mismatches: 12, Indels: 41
0.69 0.07 0.24
Matches are distributed among these distances:
4 2 0.02
5 1 0.01
6 27 0.23
7 41 0.35
8 41 0.35
9 4 0.03
10 2 0.02
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (7 bp):
AAATAAT
Found at i:6133196 original size:4 final size:4
Alignment explanation
Indices: 6133172--6133303 Score: 62
Period size: 4 Copynumber: 33.0 Consensus size: 4
6133162 ATTATAACAT
* * * *
6133172 ATAA ATAG ATAA AT-A AT-A ATAA ATAT ATATA AT-A ATAT ATAA ATAG
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA
* * * * *
6133218 TTAA AT-A ATAA ATAT AT-A TTAA CATAA CAAAA ATAA ATATA TATTA
1 ATAA ATAA ATAA ATAA ATAA ATAA -ATAA -ATAA ATAA ATA-A -ATAA
*
6133264 ATAA ATAGTA AT-A ATAA ATAA ATAA AT-A ATAA ATAC ATAA
1 ATAA ATA--A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
6133304 GATATAAAGG
Statistics
Matches: 96, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
3 19 0.20
4 61 0.64
5 11 0.11
6 5 0.05
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (4 bp):
ATAA
Found at i:6133223 original size:38 final size:38
Alignment explanation
Indices: 6133146--6133303 Score: 127
Period size: 38 Copynumber: 4.2 Consensus size: 38
6133136 TAACAGGTAA
* *
6133146 AAATAATAATAGATA-A-ATTATAACATATAAATAGAT
1 AAATAATAATAAATATATATAATAACATATAAATAGAT
* *
6133182 AAATAATAATAAATATATATAATAATATATAAATAGTT
1 AAATAATAATAAATATATATAATAACATATAAATAGAT
* *
6133220 AAATAATAA-ATATATAT-TAACATAACA-A-AAATAAAT
1 AAATAATAATAAATATATAT-A-ATAACATATAAATAGAT
* *
6133256 ATATATTAATAAATAGTA-ATAATAA-ATAAATAAATA-AT
1 AAATAATAATAAATA-TATATAATAACAT--ATAAATAGAT
6133294 AAATACATAA
1 AAATA-ATAA
6133304 GATATAAAGG
Statistics
Matches: 97, Mismatches: 13, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
35 1 0.01
36 32 0.33
37 15 0.15
38 41 0.42
39 8 0.08
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (38 bp):
AAATAATAATAAATATATATAATAACATATAAATAGAT
Found at i:6133252 original size:74 final size:78
Alignment explanation
Indices: 6133165--6133309 Score: 185
Period size: 74 Copynumber: 1.9 Consensus size: 78
6133155 TAGATAAATT
* * *
6133165 ATAACATATAAATAGATAAATAATAATAAATA-TATATAAT-AATATATAAATAGTTAAATA-AT
1 ATAACATATAAATAAATAAATAATAATAAATAGTA-ATAATAAATAAATAAATA-ATAAATACAT
6133227 AA-ATATATATTAAC
64 AAGATATATATTAAC
* *
6133241 ATAACA-A-AAATAAATATATATTAATAAATAGTAATAATAAATAAATAAATAATAAATACATAA
1 ATAACATATAAATAAATAAATAATAATAAATAGTAATAATAAATAAATAAATAATAAATACATAA
6133304 GATATA
66 GATATA
6133310 AAGGAAAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
74 31 0.52
75 18 0.30
76 11 0.18
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (78 bp):
ATAACATATAAATAAATAAATAATAATAAATAGTAATAATAAATAAATAAATAATAAATACATAA
GATATATATTAAC
Found at i:6133310 original size:15 final size:15
Alignment explanation
Indices: 6133172--6133353 Score: 85
Period size: 15 Copynumber: 11.9 Consensus size: 15
6133162 ATTATAACAT
*
6133172 ATAAATAGATAAATA
1 ATAAATAAATAAATA
6133187 AT-AATAAATATATATA
1 ATAAATAAATA-A-ATA
*
6133203 AT-AATATATAAATA
1 ATAAATAAATAAATA
*
6133217 GTTAAAT-AATAAAT-
1 -ATAAATAAATAAATA
* *
6133231 ATATATTAACAT-AACA
1 ATA-AATAA-ATAAATA
*
6133247 A-AAATAAATATAT-
1 ATAAATAAATAAATA
*
6133260 ATTAATAAATAGTAATA
1 ATAAATAAATA--AATA
6133277 ATAAATAAATAAATA
1 ATAAATAAATAAATA
*
6133292 ATAAATACATAAGAT-
1 ATAAATAAATAA-ATA
* *
6133307 ATAAAGGAAAAAAATA
1 ATAAA-TAAATAAATA
6133323 TATAATATAAAATACAA-A
1 -ATAA-AT-AAATA-AATA
*
6133341 ATAAAAAAATAAA
1 ATAAATAAATAAA
6133354 GTGGACATAC
Statistics
Matches: 127, Mismatches: 20, Indels: 41
0.68 0.11 0.22
Matches are distributed among these distances:
13 5 0.04
14 27 0.21
15 42 0.33
16 27 0.21
17 18 0.14
18 6 0.05
19 2 0.02
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (15 bp):
ATAAATAAATAAATA
Found at i:6133499 original size:29 final size:28
Alignment explanation
Indices: 6133436--6133518 Score: 75
Period size: 30 Copynumber: 2.9 Consensus size: 28
6133426 ATTAATTTAG
6133436 TAATA-TATTTTAATA-ATTTTAAATAT
1 TAATATTATTTTAATATATTTTAAATAT
*
6133462 TACATATTATTTTAATAGTATTTT-ATTATT
1 TA-ATATTATTTTAATA-TATTTTAAATA-T
*
6133492 TAATATTAATTTT-ATAATATTTGAAAT
1 TAATATT-ATTTTAAT-ATATTTTAAAT
6133519 TATTTAACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 10 0.22
29 15 0.33
30 16 0.35
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (28 bp):
TAATATTATTTTAATATATTTTAAATAT
Found at i:6133520 original size:21 final size:19
Alignment explanation
Indices: 6133466--6133506 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6133456 AAATATTACA
*
6133466 TATTATTTTAATAGT-ATTT
1 TATTA-TTTAATATTAATTT
6133485 TATTATTTAATATTAATTT
1 TATTATTTAATATTAATTT
6133504 TAT
1 TAT
6133507 AATATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTATTTAATATTAATTT
Found at i:6133654 original size:11 final size:11
Alignment explanation
Indices: 6133638--6133682 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
6133628 TATTAAATAG
6133638 TATTTTAATGA
1 TATTTTAATGA
6133649 TATTTTAAT-A
1 TATTTTAATGA
*
6133659 TTATTTTAATAA
1 -TATTTTAATGA
6133671 TATTTTATATGA
1 TATTTTA-ATGA
6133683 AATAATGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 1 0.03
11 25 0.83
12 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (11 bp):
TATTTTAATGA
Found at i:6133663 original size:22 final size:22
Alignment explanation
Indices: 6133625--6133677 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
6133615 AGTAATATTT
*
6133625 TAATA-TTAAATAGTATTTTAA
1 TAATATTTTAATAGTATTTTAA
* *
6133646 TGATATTTTAATATTATTTTAA
1 TAATATTTTAATAGTATTTTAA
6133668 TAATATTTTA
1 TAATATTTTA
6133678 TATGAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
TAATATTTTAATAGTATTTTAA
Found at i:6143524 original size:29 final size:29
Alignment explanation
Indices: 6143460--6143524 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
6143450 ATCTTAAATT
* *
6143460 ATAAT-AAAATATTTAATGTAATATTTAA
1 ATAATAAAAATATCTAATATAATATTTAA
** *
6143488 ATTTTAAAAATATCTAATATGATATTTAA
1 ATAATAAAAATATCTAATATAATATTTAA
6143517 ATAATAAA
1 ATAATAAA
6143525 TTTATTAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (29 bp):
ATAATAAAAATATCTAATATAATATTTAA
Found at i:6144024 original size:22 final size:21
Alignment explanation
Indices: 6143995--6144041 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
6143985 TTCGTTTTGA
6143995 ATTTAATTAAATTTATAAATT
1 ATTTAATTAAATTTATAAATT
* *
6144016 ATTTAAATTAAATTTATGAGTT
1 ATTT-AATTAAATTTATAAATT
6144038 ATTT
1 ATTT
6144042 GATCCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTTAATTAAATTTATAAATT
Done.