Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 60 of 211
Found at i:16143225 original size:22 final size:22
Alignment explanation
Indices: 16143200--16143259 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
16143190 ATCATAATAG
16143200 GGTTCACATGAAATTATAACAA
1 GGTTCACATGAAATTATAACAA
* * * * *
16143222 GGTTTACATGATATTTTAGCAG
1 GGTTCACATGAAATTATAACAA
* *
16143244 GGTTCGCATGACATTA
1 GGTTCACATGAAATTA
16143260 CCTAGGCTTT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (22 bp):
GGTTCACATGAAATTATAACAA
Found at i:16145169 original size:28 final size:30
Alignment explanation
Indices: 16145137--16145199 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
16145127 ACTTTGTGTA
16145137 TTTCTCAACCTCC-C-TT-ATTCATCTTATG
1 TTTCTCAA-CTCCTCATTGATTCATCTTATG
*
16145165 TTTCTCAACTCCTCATTGTTTCATCTTATG
1 TTTCTCAACTCCTCATTGATTCATCTTATG
16145195 TTTCT
1 TTTCT
16145200 AGAGATTTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 4 0.13
28 9 0.29
29 2 0.06
30 16 0.52
ACGTcount: A:0.16, C:0.29, G:0.05, T:0.51
Consensus pattern (30 bp):
TTTCTCAACTCCTCATTGATTCATCTTATG
Found at i:16148159 original size:68 final size:65
Alignment explanation
Indices: 16148087--16148291 Score: 189
Period size: 63 Copynumber: 3.2 Consensus size: 65
16148077 AATTAATAGC
16148087 ATAAATTATATAAATATATGATGATGTTCGAATGTATAATACAAATTCTTTGAGTTGAACTTAAT
1 ATAAATTATAT-AATATATGATG--GTTCGAATGTATAATACAAATTCTTTGAGTTGAACTTAAT
16148152 GTT
63 GTT
* * * * *
16148155 ATAAATTGTATAA-ATATG-TGGTTCGAATATATGATGC-AATGTCTTTGAATTGAA-TGTAATG
1 ATAAATTATATAATATATGATGGTTCGAATGTATAATACAAAT-TCTTTGAGTTGAACT-TAATG
16148216 TT
64 TT
* *
16148218 ATGAAA-TATAT-ATA-A-GA-GGTTCGAATGTA-AGATACAAGTTTCTTTGAGCTGAACTTAAT
1 AT-AAATTATATAATATATGATGGTTCGAATGTATA-ATACAA-ATTCTTTGAGTTGAACTTAAT
16148277 GTT
63 GTT
16148280 A-ATAATTATATA
1 ATA-AATTATATA
16148292 TAATTATACA
Statistics
Matches: 113, Mismatches: 12, Indels: 29
0.73 0.08 0.19
Matches are distributed among these distances:
60 1 0.01
61 17 0.15
62 31 0.27
63 42 0.37
64 3 0.03
65 2 0.02
66 5 0.04
67 2 0.02
68 10 0.09
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.40
Consensus pattern (65 bp):
ATAAATTATATAATATATGATGGTTCGAATGTATAATACAAATTCTTTGAGTTGAACTTAATGTT
Found at i:16148569 original size:41 final size:41
Alignment explanation
Indices: 16148511--16148600 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
16148501 GTGCCTAATA
* *
16148511 GCTTAATACCAGCGAAATATTTCAGACTTTACT-TCTAGTAG
1 GCTTAATGCCAGCGAAATATTTCAGACTTTA-TGTCTAGCAG
*
16148552 GCTTAATGCCAGTGAAATATTTCAGACTTTATGTCTAGCAG
1 GCTTAATGCCAGCGAAATATTTCAGACTTTATGTCTAGCAG
*
16148593 GTTTAATG
1 GCTTAATG
16148601 TTGGTGTTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 1 0.02
41 43 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (41 bp):
GCTTAATGCCAGCGAAATATTTCAGACTTTATGTCTAGCAG
Found at i:16151731 original size:22 final size:21
Alignment explanation
Indices: 16151680--16151732 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 21
16151670 TTCCCTTCCC
* * *
16151680 TTTCCTTTTTGTTTTATTATT
1 TTTCATTTTTATTTTATTACT
*
16151701 TTTTATTTTTATTATTATTACT
1 TTTCATTTTTATT-TTATTACT
*
16151723 TTTCGTTTTT
1 TTTCATTTTT
16151733 TTTAGTACTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.13, C:0.08, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTCATTTTTATTTTATTACT
Found at i:16152332 original size:22 final size:22
Alignment explanation
Indices: 16152292--16152334 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16152282 AAACATTTTC
**
16152292 TCTCTCAAAATTCTCTTTAAAA
1 TCTCTCAAAATAATCTTTAAAA
*
16152314 TCTCTCAAAATAATTTTTAAA
1 TCTCTCAAAATAATCTTTAAA
16152335 GTTGGGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (22 bp):
TCTCTCAAAATAATCTTTAAAA
Found at i:16157197 original size:5 final size:5
Alignment explanation
Indices: 16157187--16157228 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
16157177 TTTAGTTAGT
*
16157187 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -GTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
16157229 ATTATTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 3 0.09
5 31 0.91
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:16159866 original size:17 final size:18
Alignment explanation
Indices: 16159846--16159918 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 18
16159836 ATAATAAATT
16159846 TAAAAAATATA-TAAAAA
1 TAAAAAATATATTAAAAA
* **
16159863 TAAAAAAAATATTATTAA
1 TAAAAAATATATTAAAAA
* *
16159881 TAATAAATA-ATTTAAAA
1 TAAAAAATATATTAAAAA
**
16159898 TTTAAAATATA-TAAAAA
1 TAAAAAATATATTAAAAA
16159915 TAAA
1 TAAA
16159919 TATTTTTTAA
Statistics
Matches: 40, Mismatches: 14, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
17 28 0.70
18 12 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAAATATATTAAAAA
Found at i:16161057 original size:38 final size:40
Alignment explanation
Indices: 16161010--16161084 Score: 100
Period size: 38 Copynumber: 1.9 Consensus size: 40
16161000 TCCTCAAAAT
16161010 TATTATTTGGAAATTTTTA-AAAAAATTT-AAATTTTTTA
1 TATTATTTGGAAATTTTTATAAAAAATTTGAAATTTTTTA
* * * *
16161048 TATTCTTTGGAATTTTTTATAAATATTTTGAAATTTT
1 TATTATTTGGAAATTTTTATAAAAAATTTGAAATTTT
16161085 GAAAATTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 17 0.55
39 7 0.23
40 7 0.23
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (40 bp):
TATTATTTGGAAATTTTTATAAAAAATTTGAAATTTTTTA
Found at i:16161084 original size:20 final size:19
Alignment explanation
Indices: 16161013--16161105 Score: 64
Period size: 20 Copynumber: 4.8 Consensus size: 19
16161003 TCAAAATTAT
*
16161013 TATTTGGAAATTTTTAAAA
1 TATTTTGAAATTTTTAAAA
* * * *
16161032 AAATTT-AAATTTTTTATA
1 TATTTTGAAATTTTTAAAA
*
16161050 T-TCTTTGGAATTTTTTATAAA
1 TAT-TTT-GAAATTTTTA-AAA
*
16161071 TATTTTGAAATTTTGAAAA
1 TATTTTGAAATTTTTAAAA
*
16161090 TTATTTTGATATTTTT
1 -TATTTTGAAATTTTT
16161106 TTGTTGAGAT
Statistics
Matches: 54, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
18 13 0.24
19 6 0.11
20 28 0.52
21 6 0.11
22 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.08, T:0.56
Consensus pattern (19 bp):
TATTTTGAAATTTTTAAAA
Found at i:16162155 original size:18 final size:19
Alignment explanation
Indices: 16162091--16162158 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
16162081 CTCTCTCAAC
*
16162091 AAAAATTATAAAAAAATTCT
1 AAAAATT-TATAAAAATTCT
*
16162111 AAATAATTT-TTAAAATT-T
1 AAA-AATTTATAAAAATTCT
16162129 AAAATATTTATAAAAATTCT
1 AAAA-ATTTATAAAAATTCT
16162149 -AAAATTTATA
1 AAAAATTTATA
16162159 TTTTAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
17 1 0.02
18 15 0.37
19 16 0.39
20 5 0.12
21 4 0.10
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTTATAAAAATTCT
Found at i:16167733 original size:24 final size:22
Alignment explanation
Indices: 16167706--16167764 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 22
16167696 ATTTTAAGGG
*
16167706 TTAATTTTTTTATTCTAATTTATT
1 TTAATTTTTTTA-TCAAATTTA-T
16167730 TTAATTACTTTTTATCAAATTTAT
1 TTAATT--TTTTTATCAAATTTAT
16167754 TT-ATTTTTTTA
1 TTAATTTTTTTA
16167765 AATTAATAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 6 0.19
23 3 0.09
24 9 0.28
25 8 0.25
26 6 0.19
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (22 bp):
TTAATTTTTTTATCAAATTTAT
Found at i:16168649 original size:20 final size:20
Alignment explanation
Indices: 16168598--16168655 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 20
16168588 AAATCATTGC
16168598 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* *
16168618 AA-A-ATATAAAAAT-TTATT
1 AATATATGTAAAAATAAT-TT
*
16168636 AATATATGTAAAAACAATTT
1 AATATATGTAAAAATAATTT
16168656 TTTCAGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
17 1 0.03
18 13 0.45
19 2 0.07
20 12 0.41
21 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:16168793 original size:34 final size:35
Alignment explanation
Indices: 16168727--16168793 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
16168717 CAAACACCAA
* *
16168727 AAAATATTTTCCAGTAAATCATTTTATAAAAAAGT
1 AAAATATTTTCCAGAAAATCATTTTACAAAAAAGT
* *
16168762 AAAATATTTTCTA-AAAATCATTTTACGAAAAA
1 AAAATATTTTCCAGAAAATCATTTTACAAAAAA
16168794 TATTCCCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (35 bp):
AAAATATTTTCCAGAAAATCATTTTACAAAAAAGT
Found at i:16168793 original size:35 final size:35
Alignment explanation
Indices: 16168727--16168793 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
16168717 CAAACACCAA
* *
16168727 AAAATATTTTCCAGTAAATCATTTTATAAAAAAGT
1 AAAATATTTTCCAGAAAATCATTTTAGAAAAAAGT
*
16168762 AAAATATTTTCTA-AAAATCATTTTACGAAAAA
1 AAAATATTTTCCAGAAAATCATTTTA-GAAAAA
16168794 TATTCCCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 11 0.39
35 17 0.61
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (35 bp):
AAAATATTTTCCAGAAAATCATTTTAGAAAAAAGT
Found at i:16168980 original size:2 final size:2
Alignment explanation
Indices: 16168966--16169000 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
16168956 TTACGTTGTC
*
16168966 AT AT AT A- AA 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 AT AT AT
16169001 TAGATTAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:16170453 original size:10 final size:10
Alignment explanation
Indices: 16170438--16170462 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16170428 GCCCAAAACC
16170438 GTCCAGCCTT
1 GTCCAGCCTT
16170448 GTCCAGCCTT
1 GTCCAGCCTT
16170458 GTCCA
1 GTCCA
16170463 AAATCAGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.40, G:0.20, T:0.28
Consensus pattern (10 bp):
GTCCAGCCTT
Found at i:16174478 original size:9 final size:9
Alignment explanation
Indices: 16174466--16174499 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
16174456 TTTTTTAATT
16174466 TATTAATAA
1 TATTAATAA
16174475 TATTAATAA
1 TATTAATAA
* *
16174484 TATTATTAT
1 TATTAATAA
16174493 TATTAAT
1 TATTAAT
16174500 GTTACTGGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TATTAATAA
Found at i:16175901 original size:3 final size:3
Alignment explanation
Indices: 16175893--16175934 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
16175883 TAATAGTATC
* *
16175893 AAT AAT AAT -AT GAGT AAT AAT AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16175935 GAAAATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.91
4 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16177628 original size:44 final size:44
Alignment explanation
Indices: 16177575--16177838 Score: 447
Period size: 44 Copynumber: 6.0 Consensus size: 44
16177565 CTAGGAAATG
* *
16177575 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTA
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
**
16177619 CAATCTTCCACCTATTCCACTGCTGGTGGGGGAACTAGGGCTTA
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
16177663 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
* *
16177707 CATTCTTCCACCTATTCCAACTGCTGGTCAGGGAACTAGGACTTA
1 CAATCTTCCACCTATTCC-ACTGCTGGTCAGGGAACTAGGGCTTA
*
16177752 CAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
*
16177796 CAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTT
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTT
16177839 GTGATTTCAC
Statistics
Matches: 209, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
44 167 0.80
45 42 0.20
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (44 bp):
CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
Found at i:16177777 original size:133 final size:132
Alignment explanation
Indices: 16177578--16177838 Score: 468
Period size: 133 Copynumber: 2.0 Consensus size: 132
16177568 GGAAATGCAA
*
16177578 TCTTCCACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCCACCTATTCCACTGCT
1 TCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGACTTACAATCTTCCACCTATTCCACTGCT
**
16177643 GGTGGGGGAACTAGGGCTTACAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTAC
66 GGTCAGGGAACTAGGGCTTACAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTAC
16177708 AT
131 AT
*
16177710 TCTTCCACCTATTCCAACTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGC
1 TCTTCCACCTATTCC-ACTGCTGGTCAGGGAACTAGGACTTACAATCTTCCACCTATTCCACTGC
*
16177775 TGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTT
65 TGGTCAGGGAACTAGGGCTTACAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTT
16177839 GTGATTTCAC
Statistics
Matches: 123, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
132 15 0.12
133 108 0.88
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (132 bp):
TCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGACTTACAATCTTCCACCTATTCCACTGCT
GGTCAGGGAACTAGGGCTTACAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTAC
AT
Found at i:16177783 original size:89 final size:88
Alignment explanation
Indices: 16177575--16177834 Score: 439
Period size: 89 Copynumber: 2.9 Consensus size: 88
16177565 CTAGGAAATG
* *
16177575 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCCACCTATTCCACT
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAATCTTCCACCTATTCCACT
** *
16177640 GCTGGTGGGGGAACTAGGGCTTA
66 GCTGGTCAGGGAACTAGGACTTA
*
16177663 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACATTCTTCCACCTATTCCAAC
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAATCTTCCACCTATTCC-AC
16177728 TGCTGGTCAGGGAACTAGGACTTA
65 TGCTGGTCAGGGAACTAGGACTTA
* *
16177752 CAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACT
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAATCTTCCACCTATTCCACT
16177817 GCTGGTCAGGGAACTAGG
66 GCTGGTCAGGGAACTAGG
16177835 GCTTGTGATT
Statistics
Matches: 163, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
88 80 0.49
89 83 0.51
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (88 bp):
CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAATCTTCCACCTATTCCACT
GCTGGTCAGGGAACTAGGACTTA
Found at i:16179206 original size:22 final size:21
Alignment explanation
Indices: 16179154--16179218 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
16179144 ATTTTGATTT
*
16179154 TTTTGATTTTT-TTA-TTCTA
1 TTTTGATTTTTATTATTTTTA
*
16179173 TTTT-ATTATTATTATTATTTA
1 TTTTGATTTTTATTATT-TTTA
*
16179194 TTTTGATTTTTATTATTTTTC
1 TTTTGATTTTTATTATTTTTA
16179215 TTTT
1 TTTT
16179219 TTTGTTCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 5 0.13
19 7 0.18
20 1 0.03
21 14 0.37
22 11 0.29
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTTGATTTTTATTATTTTTA
Found at i:16179219 original size:22 final size:22
Alignment explanation
Indices: 16179153--16179219 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
16179143 CATTTTGATT
16179153 TTTTTGATTTTT-TTA---TTC
1 TTTTTGATTTTTATTATTTTTC
*
16179171 TATTTT-ATTATTATTATTATTT-
1 T-TTTTGATTTTTATTATT-TTTC
*
16179193 ATTTTGATTTTTATTATTTTTC
1 TTTTTGATTTTTATTATTTTTC
16179215 TTTTT
1 TTTTT
16179220 TTGTTCTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
18 6 0.16
19 7 0.19
21 7 0.19
22 15 0.41
23 2 0.05
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (22 bp):
TTTTTGATTTTTATTATTTTTC
Found at i:16179229 original size:25 final size:25
Alignment explanation
Indices: 16179144--16179210 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
16179134 TTTCATTTTC
16179144 ATTTTGATTTTT-TTGATT-TT-TTT
1 ATTTTGATTTTTATT-ATTATTATTT
*
16179167 ATTCT-ATTTTATTATTATTATTATTT
1 ATTTTGA-TTT-TTATTATTATTATTT
16179193 ATTTTGATTTTTATTATT
1 ATTTTGATTTTTATTATT
16179211 TTTCTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
22 1 0.03
23 7 0.19
24 5 0.14
25 12 0.33
26 10 0.28
27 1 0.03
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.73
Consensus pattern (25 bp):
ATTTTGATTTTTATTATTATTATTT
Found at i:16180270 original size:25 final size:25
Alignment explanation
Indices: 16180238--16180297 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
16180228 AAGAAAATCC
*
16180238 AAAAGAATGAAAGAATAATCGTTCA
1 AAAAGAATGAAAGAATAATCGCTCA
* * *
16180263 AAAAGAATAAAAGAATATTGGCTCA
1 AAAAGAATGAAAGAATAATCGCTCA
16180288 AAAATGAATG
1 AAAA-GAATG
16180298 CAAGGATGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATCGCTCA
Found at i:16188991 original size:15 final size:15
Alignment explanation
Indices: 16188971--16189009 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
16188961 CATAACTGTT
16188971 ATAAAATATAATTTA
1 ATAAAATATAATTTA
16188986 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
16189003 ATAAAAT
1 ATAAAAT
16189010 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:16189016 original size:17 final size:17
Alignment explanation
Indices: 16188976--16189009 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16188966 CTGTTATAAA
16188976 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16188993 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16189010 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16189097 original size:26 final size:28
Alignment explanation
Indices: 16189067--16189130 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
16189057 TAATACTATA
*
16189067 AAATATAATTTAA-AATAAT-TATTATT
1 AAATATAATTTAATAATAATATATAATT
16189093 AAATATAATTTAATAATAATATATAATT
1 AAATATAATTTAATAATAATATATAATT
* *
16189121 TAATAAAATT
1 AAATATAATT
16189131 CTTATTCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATATAATTTAATAATAATATATAATT
Found at i:16189163 original size:110 final size:113
Alignment explanation
Indices: 16188969--16189217 Score: 357
Period size: 110 Copynumber: 2.2 Consensus size: 113
16188959 AACATAACTG
*
16188969 TTATAAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAATATTATTATATGA
1 TTATTAAATATAATTTAATAATAATATATAATTTAATAAAA-T-TTAAT--ATATTATTATATGA
16189033 ATTTACTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTA
62 ATTTAC--ATAAAATCATAATATATAATACTATAAAATATAATTT-AAATAATTA
* *
16189088 TTATTAAATATAATTTAATAATAATATATAATTTAATAAAA-TT-CT-TATTCTTATATGAATTT
1 TTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTTAATATATTATTATATGAATTT
16189150 AC-TAAAATCATAATATATAATACTATAAAATATAATTTAAATAATTA
66 ACATAAAATCATAATATATAATACTATAAAATATAATTTAAATAATTA
*
16189197 TTTTTAAATATAATTT-ATAAT
1 TTATTAAATATAATTTAATAAT
16189218 CTACTTTATT
Statistics
Matches: 125, Mismatches: 4, Indels: 13
0.88 0.03 0.09
Matches are distributed among these distances:
108 5 0.04
109 24 0.19
110 36 0.29
113 18 0.14
116 1 0.01
117 2 0.02
119 20 0.16
120 19 0.15
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (113 bp):
TTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTTAATATATTATTATATGAATTT
ACATAAAATCATAATATATAATACTATAAAATATAATTTAAATAATTA
Found at i:16190659 original size:49 final size:49
Alignment explanation
Indices: 16190587--16190690 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
16190577 GAAAAAAAAC
* * ** * *
16190587 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
*
16190636 AAATTAAAATTGAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
16190685 AAATTA
1 AAATTA
16190691 TAACACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
Found at i:16192577 original size:2 final size:2
Alignment explanation
Indices: 16192570--16192622 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
16192560 ATGCATTTGT
16192570 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
16192612 AC AC AC AC AC A
1 AC AC AC AC AC A
16192623 TATCTGTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:16194908 original size:62 final size:63
Alignment explanation
Indices: 16194786--16194918 Score: 146
Period size: 62 Copynumber: 2.1 Consensus size: 63
16194776 TACTTAAAAG
* * * *
16194786 GGATTTTCCATGATCCTCTCATATTACAAAATTAAAGTCAATCTATAATTTTAGACTTTT-AA
1 GGATTTTCCAAGATACTCTAATATTACAAAATTAAAGTCAATCTATAATTGTAGACTTTTAAA
* * **
16194848 GGATTTTCCAAGATACTTTAATATTACAAAATTAAAAG-GAATCTATAAATTGT-GTTTTTTAAA
1 GGATTTTCCAAGATACTCTAATATTACAAAATT-AAAGTCAATCTAT-AATTGTAGACTTTTAAA
*
16194911 AGATTTTC
1 GGATTTTC
16194919 TCATACCCTC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
62 41 0.69
63 18 0.31
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.41
Consensus pattern (63 bp):
GGATTTTCCAAGATACTCTAATATTACAAAATTAAAGTCAATCTATAATTGTAGACTTTTAAA
Found at i:16198851 original size:26 final size:26
Alignment explanation
Indices: 16198822--16198875 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
16198812 AAATAAGTAT
* * *
16198822 TAATAATTTTATTTAATATTTATTTA
1 TAATAATTATAATTAATATTTAATTA
* *
16198848 TAATAGTTATAATTATTATTTAATTA
1 TAATAATTATAATTAATATTTAATTA
16198874 TA
1 TA
16198876 TTTAAATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TAATAATTATAATTAATATTTAATTA
Found at i:16202543 original size:21 final size:21
Alignment explanation
Indices: 16202517--16202557 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16202507 ATCTGCTCAA
* *
16202517 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
16202538 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
16202558 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:16222416 original size:31 final size:31
Alignment explanation
Indices: 16222378--16222439 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
16222368 TACTCCATTA
16222378 AATTCAAAAGATCTAGTCCCTTTACTATTTT
1 AATTCAAAAGATCTAGTCCCTTTACTATTTT
16222409 AATTCAAAAGATCTAGTCCCTTTACTATTTT
1 AATTCAAAAGATCTAGTCCCTTTACTATTTT
16222440 TTATTTAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (31 bp):
AATTCAAAAGATCTAGTCCCTTTACTATTTT
Found at i:16226867 original size:28 final size:28
Alignment explanation
Indices: 16226831--16226885 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
16226821 GAAAAAGTTA
16226831 AATTGTTTTAAAAAAT-AAAAATATAGG
1 AATTGTTTTAAAAAATAAAAAATATAGG
*
16226858 AATTAGTTTTAACAAATAAAAAATATAG
1 AATT-GTTTTAAAAAATAAAAAATATAG
16226886 AAAAAATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.16
28 11 0.44
29 10 0.40
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (28 bp):
AATTGTTTTAAAAAATAAAAAATATAGG
Found at i:16226948 original size:21 final size:21
Alignment explanation
Indices: 16226896--16226957 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
16226886 AAAAAATACA
* *
16226896 TTAAAAGAAATAGAAAAGAGAG
1 TTAAAAG-AATAAAAAAGAAAG
* *
16226918 -GAAAATAATAAAAAAGAAAG
1 TTAAAAGAATAAAAAAGAAAG
*
16226938 TTAAAAGAATATAAAAGAAA
1 TTAAAAGAATAAAAAAGAAA
16226958 AATATTAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 12 0.38
21 20 0.62
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.15
Consensus pattern (21 bp):
TTAAAAGAATAAAAAAGAAAG
Found at i:16227759 original size:11 final size:11
Alignment explanation
Indices: 16227732--16227782 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
16227722 ACTAATCCTT
16227732 TCTCAATTTTCC
1 TCTCAATTTT-C
16227744 TCTCAATTTTC
1 TCTCAATTTTC
*
16227755 TCTCAATTTCC
1 TCTCAATTTTC
*
16227766 T-TCAAAATTTC
1 TCTC-AATTTTC
16227777 TCTCAA
1 TCTCAA
16227783 ATCCATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 2 0.06
11 20 0.59
12 12 0.35
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (11 bp):
TCTCAATTTTC
Found at i:16227776 original size:22 final size:23
Alignment explanation
Indices: 16227732--16227782 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
16227722 ACTAATCCTT
*
16227732 TCTCAATTTTCCTCTCAATTTTC
1 TCTCAATTTTCCTCTCAAATTTC
16227755 TCTCAA-TTTCCT-TCAAAATTTC
1 TCTCAATTTTCCTCTC-AAATTTC
16227777 TCTCAA
1 TCTCAA
16227783 ATCCATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 2 0.08
22 18 0.69
23 6 0.23
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (23 bp):
TCTCAATTTTCCTCTCAAATTTC
Found at i:16227867 original size:15 final size:15
Alignment explanation
Indices: 16227849--16227888 Score: 66
Period size: 14 Copynumber: 2.8 Consensus size: 15
16227839 TATTTTTAAA
16227849 AAAATTTATTTTTTT
1 AAAATTTATTTTTTT
16227864 AAAA-TTATTTTTTT
1 AAAATTTATTTTTTT
16227878 AAAATTT-TTTT
1 AAAATTTATTTT
16227889 ATATCGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
AAAATTTATTTTTTT
Found at i:16229674 original size:18 final size:18
Alignment explanation
Indices: 16229651--16229708 Score: 98
Period size: 18 Copynumber: 3.2 Consensus size: 18
16229641 CAGGTGCGTT
16229651 TCCTAGCACTTATATGTA
1 TCCTAGCACTTATATGTA
16229669 TCCTAGCACTTATATGTA
1 TCCTAGCACTTATATGTA
* *
16229687 TCCTAACCCTTATATGTA
1 TCCTAGCACTTATATGTA
16229705 TCCT
1 TCCT
16229709 TTTCCGAGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (18 bp):
TCCTAGCACTTATATGTA
Found at i:16230228 original size:64 final size:64
Alignment explanation
Indices: 16230160--16230288 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
16230150 TAAAATAGAA
*
16230160 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTAATTTGTACAAAT
1 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACACGAGCTTAATTAATTTGTACAAAT
16230224 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACACGAGCTTAATTAATTTGTACAAAT
1 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACACGAGCTTAATTAATTTGTACAAAT
16230288 A
1 A
16230289 ATTGAAAAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.49
Consensus pattern (64 bp):
ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACACGAGCTTAATTAATTTGTACAAAT
Found at i:16233645 original size:124 final size:125
Alignment explanation
Indices: 16233300--16233646 Score: 554
Period size: 124 Copynumber: 2.8 Consensus size: 125
16233290 CCTAAACATG
* * *
16233300 CTACTGTAGCAAAACCGCGTCCACGAGGGCGCAATTTTACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAACCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
*
16233365 TAGAAGTG-TTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTATTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTATTCCATGAC
* *
16233424 CTACTGTAGCAAAATCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCAGC
1 CTACTGTAGCAAAACCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
* * *
16233489 TAGAAGCGATTTTATACTATTTCCTCAAAAACGTC-AAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTATTCCATGAC
* * * *
16233548 CTACTGTAGCAAAAGCGCATCCACGAGAGCGCGATTTCACAAATTCTTCTCAAATAGCACCCAGC
1 CTACTGTAGCAAAACCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
*
16233613 TAGAAGCGATTTTATACTATTTGATCAGAAACGT
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGT
16233647 TAACTCGAAA
Statistics
Matches: 205, Mismatches: 17, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
124 181 0.88
125 24 0.12
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (125 bp):
CTACTGTAGCAAAACCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTATTCCATGAC
Found at i:16247178 original size:12 final size:12
Alignment explanation
Indices: 16247161--16247185 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16247151 AAAGTCCTCC
16247161 TTTTTGTTATTT
1 TTTTTGTTATTT
16247173 TTTTTGTTATTT
1 TTTTTGTTATTT
16247185 T
1 T
16247186 CTTCTTTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTTGTTATTT
Found at i:16250018 original size:19 final size:20
Alignment explanation
Indices: 16249981--16250020 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
16249971 TCTCAACTCG
16249981 AATAAGTTTAATTATTTAAAA
1 AATAAGTTTAA-TATTTAAAA
16250002 AATAAGTTTAA-ATTTAAAA
1 AATAAGTTTAATATTTAAAA
16250021 TTGTTCTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
AATAAGTTTAATATTTAAAA
Found at i:16257880 original size:26 final size:27
Alignment explanation
Indices: 16257842--16257898 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
16257832 AAAGGTTGTT
*
16257842 AAATGATCGAAAA-ACCCTCGAAGGATA
1 AAATGATCCAAAATA-CCTCGAAGGATA
* *
16257869 AAATGA-CCAAAATACCTCGAGGGGTA
1 AAATGATCCAAAATACCTCGAAGGATA
16257895 AAAT
1 AAAT
16257899 TACCGTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.47, C:0.18, G:0.19, T:0.16
Consensus pattern (27 bp):
AAATGATCCAAAATACCTCGAAGGATA
Found at i:16261083 original size:28 final size:27
Alignment explanation
Indices: 16261032--16261085 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
16261022 TTGATACTAA
*
16261032 TTCTGTAATGGGCTTAGGTCCACCTGG
1 TTCTGTAATGGGCTAAGGTCCACCTGG
16261059 TTCTGTTAATGGGCTAAGG-CTCACCTG
1 TTCTG-TAATGGGCTAAGGTC-CACCTG
16261086 ATATTATGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (27 bp):
TTCTGTAATGGGCTAAGGTCCACCTGG
Found at i:16272968 original size:19 final size:20
Alignment explanation
Indices: 16272944--16272989 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
16272934 ATTCTTGTCG
16272944 AAAAATAATTAAA-TAT-TAT
1 AAAAATAATTAAATTATGT-T
16272963 AAAAATAATTAAATTATGTT
1 AAAAATAATTAAATTATGTT
16272983 AAAAATA
1 AAAAATA
16272990 TGAACATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.52
20 11 0.44
21 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATAATTAAATTATGTT
Found at i:16275972 original size:11 final size:12
Alignment explanation
Indices: 16275952--16275984 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16275942 ATAAAACAAA
16275952 AAAAATGAAAT-G
1 AAAAA-GAAATAG
16275964 AAAAAGAAATAG
1 AAAAAGAAATAG
16275976 AAAAAGAAA
1 AAAAAGAAA
16275985 ATAATTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (12 bp):
AAAAAGAAATAG
Found at i:16275986 original size:13 final size:13
Alignment explanation
Indices: 16275959--16276047 Score: 53
Period size: 13 Copynumber: 6.9 Consensus size: 13
16275949 AAAAAAAATG
16275959 AAAT-GAAAAAG-
1 AAATAGAAAAAGA
16275970 AAATAGAAAAAGA
1 AAATAGAAAAAGA
*
16275983 AAATA-ATTGAAACGA
1 AAATAGA---AAAAGA
* *
16275998 AAACAGAAAAGGA
1 AAATAGAAAAAGA
*
16276011 ACAAAAG-AAAAGA
1 A-AATAGAAAAAGA
*
16276024 AAA-AGAGAAAGA
1 AAATAGAAAAAGA
*
16276036 AAAGAGAAAAAG
1 AAATAGAAAAAG
16276048 CTAGGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
11 6 0.10
12 18 0.29
13 24 0.39
14 4 0.06
15 9 0.15
16 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.19, T:0.06
Consensus pattern (13 bp):
AAATAGAAAAAGA
Found at i:16279601 original size:16 final size:16
Alignment explanation
Indices: 16279567--16279615 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 16
16279557 ATATTATATT
16279567 ATAATAATAAGTAATTGAA
1 ATAATAATAA--AA-TGAA
16279586 ATAATAATAAAATG-A
1 ATAATAATAAAATGAA
16279601 A-AA-AATAAAATGAA
1 ATAATAATAAAATGAA
16279615 A
1 A
16279616 ACGAAATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.31
14 4 0.14
15 2 0.07
16 2 0.07
17 2 0.07
19 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (16 bp):
ATAATAATAAAATGAA
Found at i:16279606 original size:19 final size:19
Alignment explanation
Indices: 16279584--16279621 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16279574 TAAGTAATTG
*
16279584 AAATAATAAT-AAAATGAAA
1 AAATAA-AATGAAAACGAAA
16279603 AAATAAAATGAAAACGAAA
1 AAATAAAATGAAAACGAAA
16279622 TAGAGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.16
Consensus pattern (19 bp):
AAATAAAATGAAAACGAAA
Found at i:16279607 original size:13 final size:13
Alignment explanation
Indices: 16279591--16279616 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16279581 TTGAAATAAT
16279591 AATAAAATGAAAA
1 AATAAAATGAAAA
16279604 AATAAAATGAAAA
1 AATAAAATGAAAA
16279617 CGAAATAGAG
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:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AATAAAATGAAAA
Found at i:16279638 original size:27 final size:27
Alignment explanation
Indices: 16279608--16279686 Score: 67
Period size: 27 Copynumber: 2.9 Consensus size: 27
16279598 TGAAAAAATA
16279608 AAATGAAAACGAAATAGAGAAAGAAAC-
1 AAATGAAAACGAAA-AGAGAAAGAAACG
* * *
16279635 AAATTG-AAACGAAAACAAAAAAGGAACG
1 AAA-TGAAAACGAAAA-GAGAAAGAAACG
16279663 AAA-GAAAA-GAAAAAGAGAAAGAAA
1 AAATGAAAACG-AAAAGAGAAAGAAA
16279687 GGAGAAAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
26 10 0.24
27 26 0.63
28 5 0.12
ACGTcount: A:0.70, C:0.06, G:0.19, T:0.05
Consensus pattern (27 bp):
AAATGAAAACGAAAAGAGAAAGAAACG
Found at i:16279682 original size:17 final size:18
Alignment explanation
Indices: 16279662--16279696 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
16279652 AAAAAGGAAC
16279662 GAAAGAAA-AGAAAAAGA
1 GAAAGAAAGAGAAAAAGA
16279679 GAAAGAAAGGAGAAAAAG
1 GAAAGAAA-GAGAAAAAG
16279697 CTAGGGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAGAAAAAGA
Found at i:16280677 original size:40 final size:40
Alignment explanation
Indices: 16280554--16280692 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
16280544 ACTTTGATTT
* *
16280554 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATT-ATTC
* *
16280595 GATGACG-CACTGGGTG-CCAA-T-TTACTTCGGTTTAGTT-
1 GATGA-GACACTGGGTGTCAAATTATTACTTCGGATTA-TTC
*
16280632 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATTC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATTC
* * * *
16280672 AATGAGGCATTGGGTGCCAAA
1 GATGAGACACTGGGTGTCAAA
16280693 CTGGTGTGTT
Statistics
Matches: 80, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
36 1 0.01
37 15 0.19
38 15 0.19
39 4 0.05
40 30 0.38
41 14 0.17
42 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATTC
Found at i:16284701 original size:14 final size:13
Alignment explanation
Indices: 16284677--16284707 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
16284667 ACCAAAATTT
16284677 GAAAGAAAAGAAA
1 GAAAGAAAAGAAA
16284690 GAAAGAAAAAGAAA
1 GAAAG-AAAAGAAA
16284704 GAAA
1 GAAA
16284708 AGGGAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAGAAA
Found at i:16284823 original size:16 final size:16
Alignment explanation
Indices: 16284802--16284835 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16284792 ATTTGTATGT
16284802 TTTTGGAATTCCGGTG
1 TTTTGGAATTCCGGTG
*
16284818 TTTTGGAATTCTGGTG
1 TTTTGGAATTCCGGTG
16284834 TT
1 TT
16284836 AAGTATTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.09, G:0.29, T:0.50
Consensus pattern (16 bp):
TTTTGGAATTCCGGTG
Found at i:16293507 original size:6 final size:6
Alignment explanation
Indices: 16293507--16293546 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
16293497 GGGCTATGGC
16293507 TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGC
1 TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGC
16293547 AAAATCGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.17, G:0.35, T:0.47
Consensus pattern (6 bp):
TGGCTT
Found at i:16294089 original size:29 final size:29
Alignment explanation
Indices: 16294050--16294114 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
16294040 TTCGACCTTC
* *
16294050 CTTTTCAATTTTTTAATAAATGGCTCAATA
1 CTTTT-AATTTTTGAATAAATGGCGCAATA
*
16294080 CTTTTAATTTTTGAGTAAATGGCGCAATA
1 CTTTTAATTTTTGAATAAATGGCGCAATA
*
16294109 TTTTTA
1 CTTTTA
16294115 TACTTCTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.48
Consensus pattern (29 bp):
CTTTTAATTTTTGAATAAATGGCGCAATA
Found at i:16294501 original size:3 final size:3
Alignment explanation
Indices: 16294493--16294532 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
16294483 TAGTTAACAA
16294493 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
16294533 GGAAATGGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16298368 original size:22 final size:22
Alignment explanation
Indices: 16298312--16298370 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
16298302 TATGCACTAT
16298312 TAAACAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAAAGTGC
* * *
16298334 TATATAGAAAGCAC-AAATGTGC
1 TAAACAGAGAGCACTAAA-GTGC
*
16298356 TAAACGGAGAGCACT
1 TAAACAGAGAGCACT
16298371 TACATACTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (22 bp):
TAAACAGAGAGCACTAAAGTGC
Found at i:16300477 original size:12 final size:11
Alignment explanation
Indices: 16300457--16300487 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
16300447 AGATATCATT
16300457 ATTTAAAATAA
1 ATTTAAAATAA
16300468 ATTATAAAATAA
1 ATT-TAAAATAA
16300480 ATTTAAAA
1 ATTTAAAA
16300488 AATAATGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTTAAAATAA
Found at i:16300555 original size:22 final size:22
Alignment explanation
Indices: 16300524--16300565 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16300514 CTTTATTCCT
* *
16300524 AATTTCTATATATTAATAAAGG
1 AATTTATATAGATTAATAAAGG
16300546 AATTTATATAGATTAATAAA
1 AATTTATATAGATTAATAAA
16300566 TTAGCATGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (22 bp):
AATTTATATAGATTAATAAAGG
Found at i:16303064 original size:17 final size:18
Alignment explanation
Indices: 16303030--16303065 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16303020 AATAATATTT
16303030 TTATTATCAATATAATAA
1 TTATTATCAATATAATAA
*
16303048 TTATTATCACT-TAATAA
1 TTATTATCAATATAATAA
16303065 T
1 T
16303066 AGTTATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (18 bp):
TTATTATCAATATAATAA
Found at i:16303072 original size:38 final size:37
Alignment explanation
Indices: 16303005--16303082 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 37
16302995 GTATTAGTAA
* *
16303005 AATAATTATTTTATTAATAATATTTTTATT-ATCAATAT
1 AATAATTATTTCATTAATAATA-TGTTATTAAT-AATAT
16303043 AATAATTATTATCACTTAATAATA-GTTATTAATAATAT
1 AATAATTATT-TCA-TTAATAATATGTTATTAATAATAT
16303081 AA
1 AA
16303083 AGTATTAGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
38 22 0.63
39 4 0.11
40 9 0.26
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (37 bp):
AATAATTATTTCATTAATAATATGTTATTAATAATAT
Found at i:16313927 original size:11 final size:11
Alignment explanation
Indices: 16313905--16313956 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
16313895 AACTAATCCT
16313905 CTCTCAAATTTC
1 CTCTC-AATTTC
16313917 CTCTCAATTTC
1 CTCTCAATTTC
* *
16313928 TTCTAAATTTC
1 CTCTCAATTTC
*
16313939 CTCTCAATTTG
1 CTCTCAATTTC
16313950 CTCTCAA
1 CTCTCAA
16313957 ACTCCTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
11 30 0.86
12 5 0.14
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:16313962 original size:22 final size:23
Alignment explanation
Indices: 16313905--16313957 Score: 83
Period size: 22 Copynumber: 2.3 Consensus size: 23
16313895 AACTAATCCT
16313905 CTCTCAAATTTCCTCTCAATTT-
1 CTCTCAAATTTCCTCTCAATTTG
16313927 CT-TCTAAATTTCCTCTCAATTTG
1 CTCTC-AAATTTCCTCTCAATTTG
16313950 CTCTCAAA
1 CTCTCAAA
16313958 CTCCTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 2 0.07
22 19 0.68
23 5 0.18
24 2 0.07
ACGTcount: A:0.25, C:0.30, G:0.02, T:0.43
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTG
Found at i:16316188 original size:21 final size:21
Alignment explanation
Indices: 16316164--16316206 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
16316154 AATTGGTCCA
16316164 AACAAC-AATAGTTCTAAACAT
1 AACAACTAATA-TTCTAAACAT
*
16316185 AACAACTGATATTCTAAACAT
1 AACAACTAATATTCTAAACAT
16316206 A
1 A
16316207 GTTGTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.51, C:0.19, G:0.05, T:0.26
Consensus pattern (21 bp):
AACAACTAATATTCTAAACAT
Found at i:16318349 original size:22 final size:22
Alignment explanation
Indices: 16318321--16318368 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
16318311 GCACAGTTAT
16318321 AGGCCCATCCCATGCGTTTTAG
1 AGGCCCATCCCATGCGTTTTAG
16318343 AGGCCCATCCCATGCGTTTTAG
1 AGGCCCATCCCATGCGTTTTAG
16318365 AGGC
1 AGGC
16318369 TGTTTGGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.25
Consensus pattern (22 bp):
AGGCCCATCCCATGCGTTTTAG
Found at i:16321418 original size:33 final size:35
Alignment explanation
Indices: 16321363--16321430 Score: 113
Period size: 33 Copynumber: 2.0 Consensus size: 35
16321353 CGTACAAACA
16321363 CAAACCTCAAAAATAAAACCCTAACTCTCATAGAG
1 CAAACCTCAAAAATAAAACCCTAACTCTCATAGAG
*
16321398 CAAA-CTCAAAAA-CAAACCCTAACTCTCATAGAG
1 CAAACCTCAAAAATAAAACCCTAACTCTCATAGAG
16321431 TTCTTTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 20 0.62
34 8 0.25
35 4 0.12
ACGTcount: A:0.49, C:0.29, G:0.06, T:0.16
Consensus pattern (35 bp):
CAAACCTCAAAAATAAAACCCTAACTCTCATAGAG
Found at i:16323494 original size:18 final size:16
Alignment explanation
Indices: 16323473--16323511 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
16323463 TTCTAAATTA
16323473 TATAATATATAAAAATAT
1 TATAA-ATAT-AAAATAT
16323491 TAT-AATATAAAATAT
1 TATAAATATAAAATAT
16323506 TATAAA
1 TATAAA
16323512 CTTAAAACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.50
16 6 0.30
17 1 0.05
18 3 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAAATATAAAATAT
Found at i:16323502 original size:15 final size:16
Alignment explanation
Indices: 16323479--16323510 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
16323469 ATTATATAAT
16323479 ATATAAAAATATTATA
1 ATATAAAAATATTATA
16323495 ATAT-AAAATATTATA
1 ATATAAAAATATTATA
16323510 A
1 A
16323511 ACTTAAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATATTATA
Found at i:16335239 original size:23 final size:22
Alignment explanation
Indices: 16335212--16335259 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
16335202 TTGGTTCGCT
*
16335212 GTAATAGAATAAAATTGTAATCA
1 GTAATAGAATAAAACTGTAAT-A
* *
16335235 GTAATGGAATAGAACTGTAATA
1 GTAATAGAATAAAACTGTAATA
16335257 GTA
1 GTA
16335260 TTATCATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (22 bp):
GTAATAGAATAAAACTGTAATA
Found at i:16335432 original size:37 final size:37
Alignment explanation
Indices: 16335389--16335459 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
16335379 TTGTTATTAA
16335389 ATTTTAACA-AGATTATTATAAAAAATAATTTAATCAT
1 ATTTTAACATA-ATTATTATAAAAAATAATTTAATCAT
* * *
16335426 ATTTTAATATAATTATTATTAAATATAATTTAAT
1 ATTTTAACATAATTATTATAAAAAATAATTTAAT
16335460 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 29 0.97
38 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (37 bp):
ATTTTAACATAATTATTATAAAAAATAATTTAATCAT
Found at i:16336199 original size:22 final size:22
Alignment explanation
Indices: 16336174--16336229 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
16336164 ATTTCCTCTC
* *
16336174 AATTCCTCTCAATTTCTTTCCAA
1 AATT-CTCTCAATTTCCTTCTAA
*
16336197 ATTTCTCTCAATTTCCTTCTAA
1 AATTCTCTCAATTTCCTTCTAA
16336219 AATTCTCTCAA
1 AATTCTCTCAA
16336230 ACTCATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 26 0.90
23 3 0.10
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCTAA
Found at i:16336211 original size:10 final size:10
Alignment explanation
Indices: 16336164--16336211 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
16336154 CCTCTCTAAT
16336164 ATTTCCTCTCA
1 ATTT-CTCTCA
*
16336175 ATTCCTCTCA
1 ATTTCTCTCA
*
16336185 ATTTCTTTCCAA
1 ATTTCTCT-C-A
16336197 ATTTCTCTCA
1 ATTTCTCTCA
16336207 ATTTC
1 ATTTC
16336212 CTTCTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 18 0.58
11 5 0.16
12 8 0.26
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:16336256 original size:51 final size:50
Alignment explanation
Indices: 16336196--16336314 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 50
16336186 TTTCTTTCCA
* *
16336196 AATTTCTCTCAATTTCCTTCTAAAATTCTCTCAAA-CTCATATTTCATTTC
1 AATTTCTCTCAATTTCCTTCTAAAATTATCTCAAATC-CATATTTAATTTC
*
16336246 AATTTCCTCTCAATTTCCTTCTAAAATTATTTCAAATCCATATTTAATTTC
1 AATTT-CTCTCAATTTCCTTCTAAAATTATCTCAAATCCATATTTAATTTC
*
16336297 AATTTTCTCTAAATTTCC
1 AA-TTTCTCTCAATTTCC
16336315 ATTTTTAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
50 5 0.08
51 53 0.85
52 4 0.06
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (50 bp):
AATTTCTCTCAATTTCCTTCTAAAATTATCTCAAATCCATATTTAATTTC
Found at i:16337468 original size:7 final size:7
Alignment explanation
Indices: 16337456--16337487 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
16337446 AGTCGATTGA
16337456 TATTTAG
1 TATTTAG
16337463 TATTTAG
1 TATTTAG
16337470 TATTTAG
1 TATTTAG
16337477 TATTTAG
1 TATTTAG
16337484 TATT
1 TATT
16337488 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:16338165 original size:18 final size:18
Alignment explanation
Indices: 16338139--16338173 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16338129 AAGTGCATTT
*
16338139 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
16338157 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
16338174 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:16338603 original size:25 final size:25
Alignment explanation
Indices: 16338569--16338686 Score: 113
Period size: 25 Copynumber: 4.9 Consensus size: 25
16338559 TGCCGTATTT
16338569 AAATATTATTTGATGTAATAAAATAG
1 AAAT-TTATTTGATGTAATAAAATAG
* *
16338595 AAGTTTATTTCATGTAATAAAATAG
1 AAATTTATTTGATGTAATAAAATAG
** *
16338620 AAATTT-TTTCGA-GT--T-ATTTTG
1 AAATTTATTT-GATGTAATAAAATAG
* *
16338641 ATA-TTATTTGATGTAGTAAAATAG
1 AAATTTATTTGATGTAATAAAATAG
16338665 AAATTTATTTGATGTAATAAAA
1 AAATTTATTTGATGTAATAAAA
16338687 ACTCTAACCT
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
20 4 0.06
21 10 0.14
22 1 0.01
23 1 0.01
24 10 0.14
25 43 0.60
26 3 0.04
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.43
Consensus pattern (25 bp):
AAATTTATTTGATGTAATAAAATAG
Found at i:16338712 original size:13 final size:13
Alignment explanation
Indices: 16338694--16338834 Score: 70
Period size: 13 Copynumber: 10.4 Consensus size: 13
16338684 AAAACTCTAA
16338694 CCTAATTAAATAC
1 CCTAATTAAATAC
16338707 CCTAATTAAATAC
1 CCTAATTAAATAC
* * *
16338720 CCTAACCCTAACCTAA
1 CCTAA--TTAA-ATAC
** *
16338736 ATTAATTCAAA-AA
1 CCTAATT-AAATAC
16338749 CCTAATTAAATAC
1 CCTAATTAAATAC
*
16338762 CCTAATTAAAAAC
1 CCTAATTAAATAC
* * *
16338775 CCTAACCCTAACCTAA
1 CCTAA--TTAA-ATAC
** *
16338791 ATTAATTCAAA-AA
1 CCTAATT-AAATAC
16338804 CCTAATTAAATAC
1 CCTAATTAAATAC
*
16338817 CCTAATTAAAAAC
1 CCTAATTAAATAC
16338830 CCTAA
1 CCTAA
16338835 CCGTAACCCT
Statistics
Matches: 95, Mismatches: 23, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
12 6 0.06
13 68 0.72
14 2 0.02
15 10 0.11
16 9 0.09
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (13 bp):
CCTAATTAAATAC
Found at i:16338758 original size:55 final size:55
Alignment explanation
Indices: 16338692--16338934 Score: 291
Period size: 55 Copynumber: 4.4 Consensus size: 55
16338682 TAAAAACTCT
*
16338692 AACCTAATTAAATACCCTAATTAAATACCCTAACCCTAACCTAAATTAATTCAAA
1 AACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACCTAAATTAATTCAAA
16338747 AACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACCTAAATTAATTCAAA
1 AACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACCTAAATTAATTCAAA
* **
16338802 AACCTAATTAAATACCCTAATTAAAAACCCTAACCGTAACCCTAACCA-TAA--CCTA
1 AACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAA-CCTAA--ATTAATTCAAA
* *
16338857 AA-TTAATTCAAA-ACCCTAATTAAAACCCTAACCCTAACCTTAACCTAAATTAATTC-AA
1 AACCTAATT-AAATACCCTAATT-AAA----AACCCTAACCCTAACCTAAATTAATTCAAA
* *
16338915 ACCCTAATTAAAAACCCTAA
1 AACCTAATTAAATACCCTAA
16338935 CCCTAACCTA
Statistics
Matches: 165, Mismatches: 9, Indels: 24
0.83 0.05 0.12
Matches are distributed among these distances:
54 14 0.08
55 102 0.62
56 6 0.04
57 6 0.04
58 11 0.07
59 26 0.16
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.25
Consensus pattern (55 bp):
AACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACCTAAATTAATTCAAA
Found at i:16338870 original size:41 final size:41
Alignment explanation
Indices: 16338819--16338963 Score: 148
Period size: 41 Copynumber: 3.4 Consensus size: 41
16338809 TTAAATACCC
* *
16338819 TAATTAAAAACCCTAACCGTAACCCTAACCATAACCTAAAT
1 TAATTCAAAACCCTAACCATAACCCTAACCATAACCTAAAT
* *
16338860 TAATTCAAAACCCTAATTAAAACCCTAACCCTAACCTTAACCTAAAT
1 TAATTCAAAACCC----T--AACCATAACCCTAACCATAACCTAAAT
** * *
16338907 TAATTC-AAACCCTAATTAAAAACCCTAACCCTAACCTAAAT
1 TAATTCAAAACCCTAA-CCATAACCCTAACCATAACCTAAAT
16338948 TAATTCAAAACCCTAA
1 TAATTCAAAACCCTAA
16338964 TTAAAAACCC
Statistics
Matches: 88, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
40 2 0.02
41 38 0.43
42 10 0.11
45 1 0.01
46 6 0.07
47 31 0.35
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (41 bp):
TAATTCAAAACCCTAACCATAACCCTAACCATAACCTAAAT
Found at i:16338891 original size:47 final size:47
Alignment explanation
Indices: 16338833--16339030 Score: 237
Period size: 54 Copynumber: 4.2 Consensus size: 47
16338823 TAAAAACCCT
*
16338833 AACCGTAACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAA
1 AACCCTAACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAA
*
16338880 AACCCTAACCCTAACCTTAACCTAAATTAATTC-AAACCCTAATT-A
1 AACCCTAACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAA
*
16338925 AA----AACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATTAAA
1 AACCCTAACCCTAACCATAACCTAAATTAATTCAAAACCCTAATT-AA
* *
16338969 AACCCTAACCCTAACCCTAACCCTAACTTAAATTAATTCAAAAACCTAATTAA
1 AACCCTAACCCTAA-CC--A---TAACCTAAATTAATTCAAAACCCTAATTAA
16339022 ATACCCTAA
1 A-ACCCTAA
16339031 TTAAAAACTC
Statistics
Matches: 131, Mismatches: 6, Indels: 21
0.83 0.04 0.13
Matches are distributed among these distances:
41 26 0.20
42 11 0.08
44 3 0.02
45 3 0.02
46 11 0.08
47 31 0.24
48 8 0.06
49 2 0.02
53 3 0.02
54 33 0.25
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (47 bp):
AACCCTAACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAA
Found at i:16338973 original size:36 final size:37
Alignment explanation
Indices: 16338892--16338978 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 37
16338882 CCCTAACCCT
*
16338892 AACCTTAACCTAAATTAATTCAAACCCTAATTAAAAACCC
1 AACCCTAACCTAAATTAATTCAAACCCTAATT-AAAA--C
16338932 TAACCCTAACCTAAATTAATTCAAAACCCTAATT-AAA-
1 -AACCCTAACCTAAATTAATTC-AAACCCTAATTAAAAC
16338969 AACCCTAACC
1 AACCCTAACC
16338979 CTAACCCTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
36 10 0.23
40 3 0.07
41 20 0.45
42 11 0.25
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (37 bp):
AACCCTAACCTAAATTAATTCAAACCCTAATTAAAAC
Found at i:16338980 original size:6 final size:6
Alignment explanation
Indices: 16338969--16338995 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16338959 CCTAATTAAA
16338969 AACCCT AACCCT AACCCT AACCCT AAC
1 AACCCT AACCCT AACCCT AACCCT AAC
16338996 TTAAATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:16339071 original size:23 final size:25
Alignment explanation
Indices: 16339042--16339243 Score: 92
Period size: 23 Copynumber: 7.5 Consensus size: 25
16339032 TAAAAACTCT
16339042 AACCCTAACCT--AATTTAATTAAA
1 AACCCTAACCTAAAATTTAATTAAA
16339065 AACCCTAAAAACCCTAATCCTAATTTAATTAAA
1 AACCCT---AA-CCTAA----AATTTAATTAAA
***
16339098 AACCCTAACCTAAACCCTAATTAAA
1 AACCCTAACCTAAAATTTAATTAAA
*
16339123 TACCCTAACCT--AATTTAATTAAA
1 AACCCTAACCTAAAATTTAATTAAA
16339146 AACCCTAAAAACCCTAATCTTAATTTAATTAAA
1 AACCCT---AA-CCTAA----AATTTAATTAAA
* *
16339179 GACCCTAACCCTAACCTAATTTAATTCAA
1 AACCCTAA-CCTAA---AATTTAATTAAA
* *
16339208 AACCTTAACCT-AAA-TTATTTAAA
1 AACCCTAACCTAAAATTTAATTAAA
* *
16339231 AACCATAAACTAA
1 AACCCTAACCTAA
16339244 GTTAACAATA
Statistics
Matches: 141, Mismatches: 17, Indels: 41
0.71 0.09 0.21
Matches are distributed among these distances:
23 36 0.26
24 3 0.02
25 19 0.13
26 4 0.03
27 7 0.05
28 3 0.02
29 24 0.17
30 10 0.07
33 35 0.25
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.28
Consensus pattern (25 bp):
AACCCTAACCTAAAATTTAATTAAA
Found at i:16339087 original size:142 final size:135
Alignment explanation
Indices: 16338806--16339105 Score: 341
Period size: 142 Copynumber: 2.1 Consensus size: 135
16338796 TTCAAAAACC
* *
16338806 TAATTAAATACCCTAATTAAAAACCCTAACCGTAACCCTAACCATAACCTAAATTAATTCAAAAC
1 TAATTAAA-ACCCTAATTAAAAACCCTAACCCTAACCCTAACCATAACCTAAATTAATTCAAAAA
** * *
16338871 CCTAATTAAAACCCTAACCCTAACCTTAACCTAAATTAATTCAAACCCTAATTAAAAACCCTAAC
65 CCTAATTAAAACCCTAACCAAAAACTTAACCTAAACTAATT------CTAATTAAAAACCCTAAC
16338936 CCTAACCTAAAT
124 CCTAACCTAAAT
* *
16338948 TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCCTAACTTAAATTAATTCAAAAA
1 TAATT-AAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCATAACCTAAATTAATTCAAAAA
** *
16339013 CCTAATTAAATACCCTAATTAAAAACTCTAACCCTAACCTAATT-TAATTAAAAACCCTAAAAAC
65 CCTAATTAAA-ACCCTAACCAAAAACT-TAA-CCTAAACTAATTCTAATTAAAAACCCT---AAC
*
16339077 CCTAATCCTAATT
124 CCTAA-CCTAAAT
16339090 TAATTAAAAACCCTAA
1 TAATT-AAAACCCTAA
16339106 CCTAAACCCT
Statistics
Matches: 137, Mismatches: 13, Indels: 16
0.83 0.08 0.10
Matches are distributed among these distances:
138 14 0.10
141 8 0.06
142 88 0.64
143 14 0.10
144 3 0.02
145 10 0.07
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (135 bp):
TAATTAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCATAACCTAAATTAATTCAAAAAC
CTAATTAAAACCCTAACCAAAAACTTAACCTAAACTAATTCTAATTAAAAACCCTAACCCTAACC
TAAAT
Found at i:16339092 original size:33 final size:32
Alignment explanation
Indices: 16339042--16339211 Score: 119
Period size: 33 Copynumber: 5.8 Consensus size: 32
16339032 TAAAAACTCT
16339042 AACCCTAACCTAATTTAATTAAAAACCCTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAAA
16339074 AACCCTAATCCTAATTTAATTAAAAACCCT---
1 AACCCTAA-CCTAATTTAATTAAAAACCCTAAA
* * *
16339104 AA-CCTAAACC----CTAATTAAATACCCTAAC
1 AACCCT-AACCTAATTTAATTAAAAACCCTAAA
16339132 ---------CTAATTTAATTAAAAACCCTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAAA
* *
16339155 AACCCTAATCTTAATTTAATTAAAGACCCT---
1 AACCCTAA-CCTAATTTAATTAAAAACCCTAAA
*
16339185 AACCCTAACCTAATTTAATTCAAAACC
1 AACCCTAACCTAATTTAATTAAAAACC
16339212 TTAACCTAAA
Statistics
Matches: 109, Mismatches: 10, Indels: 41
0.68 0.06 0.26
Matches are distributed among these distances:
19 1 0.01
23 15 0.14
25 13 0.12
29 21 0.19
30 12 0.11
32 8 0.07
33 39 0.36
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.28
Consensus pattern (32 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAAA
Found at i:16339118 original size:25 final size:23
Alignment explanation
Indices: 16339070--16339153 Score: 96
Period size: 23 Copynumber: 3.5 Consensus size: 23
16339060 TTAAAAACCC
**
16339070 TAAAAACCCTAATCCTAATTTAAT
1 TAAAAACCCTAA-CCTAACCTAAT
16339094 TAAAAACCCTAACCTAAACCCTAAT
1 TAAAAACCCTAACCT-AA-CCTAAT
* **
16339119 TAAATACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAACCTAAT
16339142 TAAAAACCCTAA
1 TAAAAACCCTAA
16339154 AAACCCTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
23 18 0.35
24 16 0.31
25 18 0.35
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAAAACCCTAACCTAACCTAAT
Found at i:16339224 original size:81 final size:81
Alignment explanation
Indices: 16339048--16339224 Score: 216
Period size: 81 Copynumber: 2.2 Consensus size: 81
16339038 CTCTAACCCT
* *
16339048 AACCTAATTTAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCCTAACCTAAAC
1 AACCTAACTAAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCCTAACCTAAAC
**
16339113 CCTAATTAAATACCCT
66 CCTAATTAAATACCAA
* * * *
16339129 AACCTAATTTAATTAAAAACCCTAAAAACCCTAATCTTAATTTAATTAAAGACCCTAACCCT-AA
1 AACCTAACTAAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCCTAA-CCTAAA
* *
16339193 -CCTAATTTAAT-TCAA
65 CCCTAATTAAATACCAA
16339208 AACCTTAACCTAAATTA
1 AACC-TAA-CTAAATTA
16339225 TTTAAAAACC
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
79 5 0.06
80 13 0.15
81 64 0.75
82 3 0.04
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (81 bp):
AACCTAACTAAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCCTAACCTAAAC
CCTAATTAAATACCAA
Found at i:16339405 original size:116 final size:116
Alignment explanation
Indices: 16339245--16339469 Score: 335
Period size: 116 Copynumber: 1.9 Consensus size: 116
16339235 ATAAACTAAG
* * *
16339245 TTAACAATATTACATTCACGTAATGTTAGATTTGGAAAAATGTTTTTACTGGTACTAACAATTAA
1 TTAACAATATTACATTCACATAATGTTAGATTAGGAAAAATGTTTTGACTGGTACTAACAATTAA
* *
16339310 TAAATTTACA-TAATTTGATAGTTTTACTAACCATTAACACAATTTTTTGAC
66 TAAATTTACACT-ATTTGATAATTTTACTAACAATTAACACAATTTTTTGAC
* * *
16339361 TTAATAATTTTACATTCACATAATGTTAGATTAGGTAAAATGTTTTGACTGGTACTAACAATTAA
1 TTAACAATATTACATTCACATAATGTTAGATTAGGAAAAATGTTTTGACTGGTACTAACAATTAA
* * *
16339426 TAAATTTATACTATTTGATAATTTTAGTAACAATTAATACAATT
66 TAAATTTACACTATTTGATAATTTTACTAACAATTAACACAATT
16339470 ATCAAATAAT
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
116 96 0.99
117 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.41
Consensus pattern (116 bp):
TTAACAATATTACATTCACATAATGTTAGATTAGGAAAAATGTTTTGACTGGTACTAACAATTAA
TAAATTTACACTATTTGATAATTTTACTAACAATTAACACAATTTTTTGAC
Found at i:16342719 original size:125 final size:125
Alignment explanation
Indices: 16342496--16342858 Score: 530
Period size: 126 Copynumber: 2.9 Consensus size: 125
16342486 AAACATGCTA
* **
16342496 CTGTAGCAAAATCGCGTCCACGACGACT-CGATTTCACAAATTCTTCTCAAATAGCATCCTGCTA
1 CTGTAGCAAAAGCGCGTCCACGA-GGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTA
*
16342560 GAAGCGATTTTACACTATTTGCTCAAAAACGTCAACTCAAAATTATTTCTTCCGGGACCTG
65 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTTCTTCCGGGACCTG
* * *
16342621 TTGTAGCAAAAGCGCGTCCACGAGGGTGCGATATCACAAATTCTTCTCAAATAGCATCCTGCTAC
1 CTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
*** * *
16342686 AAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAATAATTATTTCTTCTGTGACCTG
66 AAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCAA-AATTATTTCTTCCGGGACCTG
* * **
16342747 CTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTTATAAATTCTTCTCAAATAGCATCCTATTAG
1 CTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
* * *
16342812 AAGCAATTTTATACTATTTGATCAGAAACGTCAACTCAAAATTATTT
66 AAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTT
16342859 ATTCTAGGAC
Statistics
Matches: 211, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
124 2 0.01
125 99 0.47
126 110 0.52
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (125 bp):
CTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
AAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTTCTTCCGGGACCTG
Found at i:16342884 original size:126 final size:123
Alignment explanation
Indices: 16342496--16342870 Score: 500
Period size: 125 Copynumber: 3.0 Consensus size: 123
16342486 AAACATGCTA
* **
16342496 CTGTAGCAAAATCGCGTCCACGACGACT-CGATTTCACAAATTCTTCTCAAATAGCATCCTGCTA
1 CTGTA-CAAAAGCGCGTCCACGA-GGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTA
* *
16342560 GAAGCGATTTTACACTATTTGCTCAAAAACGTCAACTCAAAATTATTTCTTCCGGGACCTG
64 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTTCTT-CTGGACCTG
* * *
16342621 TTGTAGCAAAAGCGCGTCCACGAGGGTGCGATATCACAAATTCTTCTCAAATAGCATCCTGCTAC
1 CTGTA-CAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
***
16342686 AAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAATAATTATTTCTTCTGTGACCTG
65 AAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCAA-AATTATTTCTTCTG-GACCTG
* * **
16342747 CTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTTATAAATTCTTCTCAAATAGCATCCTATTAG
1 CTGTA-CAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
* * * *
16342812 AAGCAATTTTATACTATTTGATCAGAAACGTCAACTCAAAATTATTTATTCTAGGACCT
65 AAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTTCTTCT-GGACCT
16342871 AAAACCCTAA
Statistics
Matches: 221, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
124 2 0.01
125 110 0.50
126 109 0.49
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (123 bp):
CTGTACAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
AGCGATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTTCTTCTGGACCTG
Found at i:16352304 original size:25 final size:25
Alignment explanation
Indices: 16352267--16352317 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
16352257 ATAATTGTTT
16352267 TTATATTAGTTTTGT-ATTTTTATAA
1 TTATATTAGTTTTGTAATTTTT-TAA
*
16352292 TTATATATA-TTTTTTAATTTTTTAA
1 TTATAT-TAGTTTTGTAATTTTTTAA
16352317 T
1 T
16352318 ATTAGGACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (25 bp):
TTATATTAGTTTTGTAATTTTTTAA
Found at i:16355508 original size:21 final size:21
Alignment explanation
Indices: 16355484--16355542 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
16355474 TCCTTCTTTC
16355484 TTTTCTTTCTTTTTCTCCGTG
1 TTTTCTTTCTTTTTCTCCGTG
* ** * *
16355505 TTTTGTTTGATTTTCTCTGTT
1 TTTTCTTTCTTTTTCTCCGTG
16355526 TCTTTCTTTCTTTTTCT
1 T-TTTCTTTCTTTTTCT
16355543 ATTTCCTTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.02, C:0.19, G:0.08, T:0.71
Consensus pattern (21 bp):
TTTTCTTTCTTTTTCTCCGTG
Found at i:16356009 original size:59 final size:60
Alignment explanation
Indices: 16355946--16356059 Score: 151
Period size: 59 Copynumber: 1.9 Consensus size: 60
16355936 TTTTTTGTCA
*
16355946 AATTTGGTACTTTAACTTGACACTTTTT-CCTAATTTGGTACCTAAACT-TTTTTAGGCCC
1 AATTTGGTACTTGAACTTGACA-TTTTTCCCTAATTTGGTACCTAAACTATTTTTAGGCCC
** * *
16356005 AATTTGGTACTTGAACTTGGTATTTTTCCCCTAGTTTGGTACCTAAGCTATTTTT
1 AATTTGGTACTTGAACTTGACATTTTT-CCCTAATTTGGTACCTAAACTATTTTT
16356060 TAGGTTCAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 5 0.11
59 19 0.40
60 18 0.38
61 5 0.11
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.46
Consensus pattern (60 bp):
AATTTGGTACTTGAACTTGACATTTTTCCCTAATTTGGTACCTAAACTATTTTTAGGCCC
Found at i:16356579 original size:28 final size:29
Alignment explanation
Indices: 16356540--16356625 Score: 84
Period size: 28 Copynumber: 2.9 Consensus size: 29
16356530 CCAACTTTTA
*
16356540 AAAAATTGTCAAGTTTATGTACCAAATT-
1 AAAAAGTGTCAAGTTTATGTACCAAATTG
* ** *
16356568 AAGAAGTGTCAAGTTTGGGTACTAAATTAGG
1 AAAAAGTGTCAAGTTTATGTACCAAATT--G
* *
16356599 AAAAAGTGTCAAGTTCATATACCAAAT
1 AAAAAGTGTCAAGTTTATGTACCAAAT
16356626 GTTATATTAA
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
28 23 0.52
31 21 0.48
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (29 bp):
AAAAAGTGTCAAGTTTATGTACCAAATTG
Found at i:16358024 original size:26 final size:26
Alignment explanation
Indices: 16357995--16358055 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
16357985 TAGGTTAATT
* *
16357995 TTAAAATAAGTAATATGTAAAATAAC
1 TTAAAATAAATAATATATAAAATAAC
*
16358021 TTAAAATAAATAATATATAAAGTAAC
1 TTAAAATAAATAATATATAAAATAAC
16358047 TTAAAATAA
1 TTAAAATAA
16358056 TTAGTCTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAAATAAC
Found at i:16358182 original size:16 final size:16
Alignment explanation
Indices: 16358163--16358205 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
16358153 TTAAAATAAC
16358163 ATATATAAAGTGATA-T
1 ATATATAAAGT-ATATT
*
16358179 ATATATAAACATATATT
1 ATATATAAA-GTATATT
16358196 ATATATAAAG
1 ATATATAAAG
16358206 GTTTAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (16 bp):
ATATATAAAGTATATT
Found at i:16359466 original size:21 final size:20
Alignment explanation
Indices: 16359433--16359472 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
16359423 AATCGGGTTT
16359433 GGGTTAGGCTAATTTGGGCTG
1 GGGTTAGGCTAA-TTGGGCTG
16359454 GGGTT-GGCTTAATTGGGCT
1 GGGTTAGGC-TAATTGGGCT
16359473 TAGTTCATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.12, C:0.10, G:0.42, T:0.35
Consensus pattern (20 bp):
GGGTTAGGCTAATTGGGCTG
Found at i:16363624 original size:61 final size:60
Alignment explanation
Indices: 16363546--16363957 Score: 213
Period size: 61 Copynumber: 6.9 Consensus size: 60
16363536 TATATTAAGA
*
16363546 ATTTTATTA-AATTATATATATTTTAATTACAATATATTTAATAATAATTATGTTAATTTAT
1 ATTTTA-TAGAATCATATATATTTTAATTA-AATATATTTAATAATAATTATGTTAATTTAT
* *** * * * * *
16363607 ATTTTATAGCATCATATATTATGATTTGGGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGA
1 ATTTTATAGAATCATATA-TAT--TTTAATTAAATAT-ATTTAATAATAATTATGTTAATTTA-T
*
16363668 ATTTTATTA-AAT--TATATATTTTAATTATAATATATTTAATAATAAATATGTTAATTTAT
1 ATTTTA-TAGAATCATATATATTTTAATTA-AATATATTTAATAATAATTATGTTAATTTAT
* * * * * * * *
16363727 ATTTTATAGTATCATATATTATGATTTCAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGA
1 ATTTTATAGAATCATATA-TAT--TTTAATTAAATAT-ATTTAATAATAATTATGTTAATTTA-T
16363788 ATTTTATTA-AAT--TATATATTTTAATTACAATATATTTAATAATAATTATGTTAATTTAT
1 ATTTTA-TAGAATCATATATATTTTAATTA-AATATATTTAATAATAATTATGTTAATTTAT
* * * * * * * *
16363847 ATTTTATAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGA
1 ATTTTATAGAATCATATA-TAT--TTTAATTAAATAT-ATTTAATAATAATTATGTTAATTTA-T
*
16363908 ATTTTAT-TAA--AT-TATATTTTAATTATAATATATTTAATAATAATTATGTT
1 ATTTTATAGAATCATATATATTTTAATTA-AATATATTTAATAATAATTATGTT
16363958 TAAATATGAT
Statistics
Matches: 261, Mismatches: 52, Indels: 80
0.66 0.13 0.20
Matches are distributed among these distances:
54 6 0.02
55 11 0.04
56 19 0.07
57 26 0.10
58 21 0.08
59 28 0.11
60 23 0.09
61 50 0.19
62 27 0.10
63 33 0.13
64 17 0.07
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (60 bp):
ATTTTATAGAATCATATATATTTTAATTAAATATATTTAATAATAATTATGTTAATTTAT
Found at i:16363707 original size:15 final size:15
Alignment explanation
Indices: 16363672--16363723 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
16363662 TTAAGAATTT
*
16363672 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16363686 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16363700 TATTTAATAATAA-A
1 TATTTAATTATAATA
16363714 TATGTTAATT
1 TAT-TTAATT
16363724 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 9 0.28
15 15 0.47
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16363720 original size:120 final size:120
Alignment explanation
Indices: 16363487--16363957 Score: 797
Period size: 120 Copynumber: 3.9 Consensus size: 120
16363477 TTAAATATTT
* * * *
16363487 TTTTATATTATTATATATTATGATTTTAGTAAATTAATATAAGAATAATT-A-TATTAAGAATTT
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAT-ATTAATTATTAAGAATTT
16363550 TATTAAATTATATATATTTTAATTACAATATATTTAATAATAATTATGTTAATTTATA
65 TATTAAA-T-TATATATTTTAATTACAATATATTTAATAATAATTATGTTAATTTATA
* *
16363608 TTTTATAGCATCATATATTATGATTTGGGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
* *
16363673 ATTAAATTATATATTTTAATTATAATATATTTAATAATAAATATGTTAATTTATA
66 ATTAAATTATATATTTTAATTACAATATATTTAATAATAATTATGTTAATTTATA
*
16363728 TTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
16363793 ATTAAATTATATATTTTAATTACAATATATTTAATAATAATTATGTTAATTTATA
66 ATTAAATTATATATTTTAATTACAATATATTTAATAATAATTATGTTAATTTATA
16363848 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
*
16363913 ATTAAA-T-TATATTTTAATTATAATATATTTAATAATAATTATGTT
66 ATTAAATTATATATTTTAATTACAATATATTTAATAATAATTATGTT
16363958 TAAATATGAT
Statistics
Matches: 333, Mismatches: 15, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
118 37 0.11
119 1 0.00
120 234 0.70
121 42 0.13
122 19 0.06
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
ATTAAATTATATATTTTAATTACAATATATTTAATAATAATTATGTTAATTTATA
Found at i:16363744 original size:59 final size:59
Alignment explanation
Indices: 16363561--16363866 Score: 200
Period size: 59 Copynumber: 5.1 Consensus size: 59
16363551 ATTAAATTAT
* * *
16363561 ATATATTTTAATTACAATATATTTAATAATAATTATGTTAATTTATATTTTATAGCATC
1 ATATATTTTAATTATAATATATTTAATAATAAATATGTTAATTTATATTTTATAGAATC
* * ** * * * *
16363620 ATATATTATGATT-TGGGTA-AATTCAT-ATAAGA-ATATTAATTATTAAGAATTTTATTA-AAT
1 ATATATTTTAATTAT-AATATATTTAATAATAA-ATATGTTAA-T-TT-A-TATTTTA-TAGAAT
*
16363680 T
59 C
*
16363681 ATATATTTTAATTATAATATATTTAATAATAAATATGTTAATTTATATTTTATAGTATC
1 ATATATTTTAATTATAATATATTTAATAATAAATATGTTAATTTATATTTTATAGAATC
* * * * * * *
16363740 ATATATTATGATT-TCAGTA-AATTCAT-ATAAGA-ATATTAATTATTAAGAATTTTATTA-AAT
1 ATATATTTTAATTAT-AATATATTTAATAATAA-ATATGTTAA-T-TT-A-TATTTTA-TAGAAT
*
16363800 T
59 C
* * *
16363801 ATATATTTTAATTACAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATC
1 ATATATTTTAATTATAATATATTTAATAATAAATATGTTAATTTATATTTTATAGAATC
16363860 ATATATT
1 ATATATT
16363867 ATGATTTGAG
Statistics
Matches: 181, Mismatches: 42, Indels: 48
0.67 0.15 0.18
Matches are distributed among these distances:
57 20 0.11
58 18 0.10
59 54 0.30
60 4 0.02
61 47 0.26
62 18 0.10
63 20 0.11
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (59 bp):
ATATATTTTAATTATAATATATTTAATAATAAATATGTTAATTTATATTTTATAGAATC
Found at i:16363939 original size:16 final size:16
Alignment explanation
Indices: 16363895--16363960 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 16
16363885 TATAAGAATA
*
16363895 TTAATTATTAAGA-ATT
1 TTAATTA-TAATATATT
16363911 TT-ATTA-AATTATATT
1 TTAATTATAA-TATATT
16363926 TTAATTATAATATA-T
1 TTAATTATAATATATT
*
16363941 TTAATAATAAT-TATGT
1 TTAATTATAATATAT-T
16363957 TTAA
1 TTAA
16363961 ATATGATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
13 2 0.05
14 3 0.07
15 20 0.48
16 15 0.36
17 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAATTATAATATATT
Found at i:16364230 original size:16 final size:16
Alignment explanation
Indices: 16364174--16364238 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
16364164 TTGATTTGCT
* *
16364174 ATTACACCTCTAATCC
1 ATTACGCCTCTATTCC
* *
16364190 ATTACACCTCTATCCC
1 ATTACGCCTCTATTCC
16364206 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
16364222 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
16364238 A
1 A
16364239 ATACAGCGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.25, C:0.37, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:16368180 original size:30 final size:30
Alignment explanation
Indices: 16368131--16368198 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
16368121 ATAGTTGAAC
*
16368131 CTAAATT-TTGGAATTTAAAAAGTA-AAGAAA
1 CTAAATTCTTGGAATGT-AAAAGTATAA-AAA
*
16368161 CTAAATTCTTGGAA-GTAAAAGTATAATAA
1 CTAAATTCTTGGAATGTAAAAGTATAAAAA
16368190 CTAAATTCT
1 CTAAATTCT
16368199 AAATTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 18 0.53
30 10 0.29
31 6 0.18
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (30 bp):
CTAAATTCTTGGAATGTAAAAGTATAAAAA
Found at i:16369840 original size:24 final size:23
Alignment explanation
Indices: 16369801--16369850 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
16369791 AACTTTTTAA
*
16369801 AAATAAAATCTAAAAATATATAAC
1 AAATAAAATCTAAAAAAATAT-AC
16369825 AAATAAAAT-TAAAAAAAATATAC
1 AAATAAAATCT-AAAAAAATATAC
16369848 AAA
1 AAA
16369851 AAAGATAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (23 bp):
AAATAAAATCTAAAAAAATATAC
Found at i:16369849 original size:23 final size:24
Alignment explanation
Indices: 16369801--16369850 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
16369791 AACTTTTTAA
*
16369801 AAATAAAATCTAAAAATATATAAC
1 AAATAAAATCTAAAAAAATATAAC
16369825 AAATAAAAT-TAAAAAAA-ATATAC
1 AAATAAAATCTAAAAAAATATA-AC
16369848 AAA
1 AAA
16369851 AAAGATAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 3 0.12
23 12 0.50
24 9 0.38
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (24 bp):
AAATAAAATCTAAAAAAATATAAC
Found at i:16370160 original size:24 final size:24
Alignment explanation
Indices: 16370132--16370204 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 24
16370122 AAATTTGTTA
16370132 TTTTATTTTCAATTTATATATATT
1 TTTTATTTTCAATTTATATATATT
16370156 CTTTATATTTATTTCAA-TT-T-TATATT
1 -TTT-TA--T-TTTCAATTTATATATATT
*
16370182 TTATATTTTCAATTTATATATAT
1 TTTTATTTTCAATTTATATATAT
16370205 ACATTAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
21 6 0.15
22 3 0.08
23 1 0.03
24 7 0.17
25 5 0.12
26 8 0.20
27 1 0.03
28 3 0.08
29 6 0.15
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTATTTTCAATTTATATATATT
Found at i:16370197 original size:50 final size:52
Alignment explanation
Indices: 16370135--16370241 Score: 148
Period size: 50 Copynumber: 2.1 Consensus size: 52
16370125 TTTGTTATTT
* *
16370135 TATTTTCAATTTATATATATTCTTTATATTTATTTCAA-TTTTAT-ATTT-TA
1 TATTTTCAATTTATATATATACATTA-ATTTATTTCAAGTTTTATGATTTATA
* *
16370185 TATTTTCAATTTATATATATACATTAATTTTTTTGAAGTTTTATGATTTATA
1 TATTTTCAATTTATATATATACATTAATTTATTTCAAGTTTTATGATTTATA
16370237 TATTT
1 TATTT
16370242 CTTATATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
49 9 0.18
50 30 0.60
51 4 0.08
52 7 0.14
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (52 bp):
TATTTTCAATTTATATATATACATTAATTTATTTCAAGTTTTATGATTTATA
Found at i:16382335 original size:12 final size:13
Alignment explanation
Indices: 16382318--16382348 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16382308 AGAAATAGTG
16382318 AAATTGGA-TTTT
1 AAATTGGAGTTTT
16382330 AAATTGGAGTTTT
1 AAATTGGAGTTTT
16382343 AAATTG
1 AAATTG
16382349 AAAGATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (13 bp):
AAATTGGAGTTTT
Found at i:16388216 original size:44 final size:44
Alignment explanation
Indices: 16388153--16388963 Score: 302
Period size: 44 Copynumber: 18.6 Consensus size: 44
16388143 CTTGGGTCTA
* *
16388153 CTCCACTGCAACTTTAGGGAGATAAGATTATCGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* ** ** * * *
16388197 CTCCACTGCATCTTCAGGGAGATAAGATCTGCCATCTTCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
* *** *
16388242 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATCGGCTTTAATCTG
* * * ***
16388286 CTCCACTACAACTTCAGGGAGATAAGACTA---GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * * * * * *
16388327 -TTCTCTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
* *
16388370 CTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* *
16388414 CTCCACTGCAACTTCAGGGAGATAAGATT-T-GCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGC-T-TT-AATCTG
* * *** *
16388459 C-CTCACTGCAACTTTA-GGAGGATAAGACTTGTTTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATCGGCTTTAATCTG
* * * *** *
16388503 CTCCACTGCAACTTCAGGGAGATAAAACTA---GATGCGATATG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * * * * *
16388544 CT-CTCTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
* * * *
16388587 CTCCACTACAACTTCAGGGAAATAGGATTATCAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * *
16388631 CTCCACTGTAACTTCAGGGAGATAAGATT-T-GCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGC-T-TT-AATCTG
* *** *
16388676 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATCGGCTTTAATCTG
* * * *** *
16388720 CTCCACTGCAACTTCAAGGAGATAAGACTA---GATGCGATCAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
*** * * * * * * * *
16388761 CT-TTTTGCATCTTTAGAGAGGTAAGATCCA-AGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
* * * *
16388804 CTCTACTGCAACTTCAGGGAAATAGGATTATCAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * * *
16388848 CTCTACTGCAACTTCAGGGATATAAGATT-T-GCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGC-T-TT-AATCTG
* *** *
16388893 -TCTCACTGCAACTTCA-GGAGGATAAGACTTGTTTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATCGGCTTTAATCTG
* *
16388937 CTCCACTGCAATTTTAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
16388964 CTAGATGCGA
Statistics
Matches: 570, Mismatches: 143, Indels: 108
0.69 0.17 0.13
Matches are distributed among these distances:
40 59 0.10
41 17 0.03
42 4 0.01
43 33 0.06
44 317 0.56
45 127 0.22
46 7 0.01
47 3 0.01
48 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
Found at i:16388535 original size:217 final size:217
Alignment explanation
Indices: 16388153--16389051 Score: 1474
Period size: 217 Copynumber: 4.1 Consensus size: 217
16388143 CTTGGGTCTA
* * * * *
16388153 CTCCACTGCAACTTTAGGGAGATAAGATTATCGGCTTTAATCTACTCCACTGCATCTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
16388218 ATAAGATCTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
* *
16388283 CTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGTTCTCTGCAACTTCAGAGAGA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
16388348 TAAGATCCAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
* *
16388370 CTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
*
16388435 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
* *
16388500 CTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATATGCTCTCTGCAACTTCAGAGAGA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
16388565 TAAGATCCAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
* * *
16388587 CTCCACTACAACTTCAGGGAAATAGGATTATCAGCTTTAATCTGCTCCACTGTAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
16388652 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
* * * * * * *
16388717 CTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCAGCTTTTTGCATCTTTAGAGAGG
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
16388782 TAAGATCCAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
* * * *
16388804 CTCTACTGCAACTTCAGGGAAATAGGATTATCAGCTTTAATCTGCTCTACTGCAACTTCAGGGAT
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
*
16388869 ATAAGATTTGCCATCTTCAGTCTGTCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
* * * * *
16388934 CTGCTCCACTGCAATTTTAGGGAGATAAGACTAGATGCGATTTGCTCTTTGCAACTTCAGAGAGG
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
*
16388999 TAAGATCTAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
*
16389021 CTCCACTGCAACTTAAGGGAGATAGGATTAT
1 CTCCACTGCAACTTCAGGGAGATAGGATTAT
16389052 TGGCCACCGA
Statistics
Matches: 637, Mismatches: 45, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 637 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
TAAGATCCAAGGTTTTAATCCG
Found at i:16388723 original size:89 final size:87
Alignment explanation
Indices: 16388148--16388746 Score: 328
Period size: 89 Copynumber: 6.9 Consensus size: 87
16388138 TATTTCTTGG
* * * ** * * *
16388148 GTCTACTCCACTGCAACTTTAGGGAGATAAGA-TTATCGGCTTTAATCTACTCCACTGCATCTTC
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-TAC-TTAGTCTGCTCCACTGCAACTTC
*
16388212 AGGGAGATAAGATCTGCCATCTTCA
64 AGGGAGATAAGATTTGCCAT-TTCA
* *
16388237 GTTTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTACTTAGTCTGCTCCACTACAACTT
1 GTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TTACTTAGTCTGCTCCACTGCAACTT
* * *
16388300 CAGGGAGATAAGACTAG--A-TGC-
63 CAGGGAGATAAGATTTGCCATTTCA
* * * ** * * *
16388321 GATCTG-TTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTAATCCGCTCCACTGTAACT
1 G-TCTGCTCCACTGCAACTTCAGGGAGATAAGA--C-TTGTTACTTAGTCTGCTCCACTGCAACT
* *
16388383 TCAGGGAGATAGGATTATCGGC-TTT-A
62 TCAGGGAGATAAGATT-T-GCCATTTCA
* * **
16388409 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC-CTCACTGCAACTT
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTA-CTT-AGTCTGCTC-CACTGCAACTT
* * ** *
16388473 TA-GGAGGATAAGACTTGTTTACTT-A
63 CAGGGA-GATAAGATTTG-CCATTTCA
* * * * * * *
16388498 GTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATGC-GA-TATGCT-CTCTGCAACTTCAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTACTTAGTCTGCTCCACTGCAACTTCAG
* *
16388560 AGAGATAAGA--T-CCAAGGTTTTA
66 GGAGATAAGATTTGCC-A--TTTCA
* * * * * * * * *
16388582 ATCCGCTCCACTACAACTTCAGGGAAATAGGA-TTATCAGCTTTAATCTGCTCCACTGTAACTTC
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTA-C-TTAGTCTGCTCCACTGCAACTTC
16388646 AGGGAGATAAGATTTGCCATCTTCA
64 AGGGAGATAAGATTTGCCAT-TTCA
16388671 GTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTACTTAGTCTGCTCCACTGCAACTT
1 GTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TTACTTAGTCTGCTCCACTGCAACTT
*
16388734 CAAGGAGATAAGA
63 CAGGGAGATAAGA
16388747 CTAGATGCGA
Statistics
Matches: 378, Mismatches: 88, Indels: 88
0.68 0.16 0.16
Matches are distributed among these distances:
81 1 0.00
82 1 0.00
83 3 0.01
84 97 0.26
85 14 0.04
86 6 0.02
87 12 0.03
88 62 0.16
89 169 0.45
90 8 0.02
91 5 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (87 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTACTTAGTCTGCTCCACTGCAACTTCAG
GGAGATAAGATTTGCCATTTCA
Found at i:16406187 original size:46 final size:46
Alignment explanation
Indices: 16406087--16406458 Score: 459
Period size: 46 Copynumber: 8.6 Consensus size: 46
16406077 TACATATGAT
*
16406087 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
16406130 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
16406176 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
16406222 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
16406258 CACTTATCACTTTTTCACTTGATCAGATAAGT-TCAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGT-AGCTAAGGCTAC
*
16406304 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
16406340 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
16406386 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
16406432 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
16406459 AGTACTCAAA
Statistics
Matches: 291, Mismatches: 13, Indels: 47
0.83 0.04 0.13
Matches are distributed among these distances:
36 57 0.20
37 1 0.00
38 3 0.01
39 1 0.00
40 4 0.01
41 4 0.01
42 4 0.01
43 11 0.04
44 8 0.03
45 20 0.07
46 178 0.61
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:16406263 original size:36 final size:36
Alignment explanation
Indices: 16406222--16406376 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
16406212 CTAAGGCTAA
16406222 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
16406258 CACTTATCACTTTTTCACTTGATCAGATAAGTTCAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAAG-T-A--T--AG
* *
16406300 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
16406340 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
16406376 C
1 C
16406377 TAATGCTACC
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 65 0.63
37 1 0.01
38 1 0.01
40 3 0.03
42 3 0.03
45 1 0.01
46 29 0.28
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Done.