Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 48 of 425
Found at i:12822682 original size:19 final size:18
Alignment explanation
Indices: 12822658--12822724 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
12822648 GGGAGAAAGT
12822658 GAAAGAAAGAGGAAAGAAA
1 GAAAGAAA-AGGAAAGAAA
*
12822677 GAAAGAAAAGAGAAGGAAA
1 GAAAGAAAAG-GAAAGAAA
*
12822696 GAAAGAGAAGGGAAAG-AA
1 GAAAGA-AAAGGAAAGAAA
12822714 G-AAGAAAAGGA
1 GAAAGAAAAGGA
12822725 GAGCAAGGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
16 5 0.12
17 4 0.10
18 5 0.12
19 25 0.60
20 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (18 bp):
GAAAGAAAAGGAAAGAAA
Found at i:12822690 original size:15 final size:15
Alignment explanation
Indices: 12822653--12822722 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
12822643 GAGAGGGGAG
*
12822653 AAAGTGAAAGAAAGA
1 AAAGAGAAAGAAAGA
*
12822668 GGAA-AGAAAGAAAGA
1 -AAAGAGAAAGAAAGA
*
12822683 AAAGAGAAGGAAAG-
1 AAAGAGAAAGAAAGA
*
12822697 AAAGAGAAGGGAAAGA
1 AAAGAGAA-AGAAAGA
12822713 AGAAGA-AAAG
1 A-AAGAGAAAG
12822723 GAGAGCAAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
14 10 0.22
15 26 0.58
16 5 0.11
17 4 0.09
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (15 bp):
AAAGAGAAAGAAAGA
Found at i:12822715 original size:14 final size:14
Alignment explanation
Indices: 12822669--12822713 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
12822659 AAAGAAAGAG
12822669 GAAAGA-AA-GAAA
1 GAAAGAGAAGGAAA
12822681 GAAAAGAGAAGGAAA
1 G-AAAGAGAAGGAAA
12822696 GAAAGAGAAGGGAAA
1 GAAAGAGAA-GGAAA
12822711 GAA
1 GAA
12822714 GAAGAAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.03
13 5 0.17
14 10 0.34
15 13 0.45
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
GAAAGAGAAGGAAA
Found at i:12823825 original size:90 final size:90
Alignment explanation
Indices: 12823672--12823852 Score: 317
Period size: 90 Copynumber: 2.0 Consensus size: 90
12823662 TTTCTTCGTG
* *
12823672 AATCGCTCTGTTTTTGTGACACGGATTAGAATGAGGCTCCATCACGTTCTTCTTAGGGGACTCCT
1 AATCGCTCTGTTTTTGTGACACGAATTAGAATGAGGCTCCATCACGTTCTTCCTAGGGGACTCCT
*
12823737 ATAAAGAAGTTTAAGTTGTAACATT
66 ACAAAGAAGTTTAAGTTGTAACATT
*
12823762 AATCGCTCTGTTTTTGTGACATGAATTAGAATGAGGCTCCATCACGTTCTTCCTAGGGGACTCCT
1 AATCGCTCTGTTTTTGTGACACGAATTAGAATGAGGCTCCATCACGTTCTTCCTAGGGGACTCCT
*
12823827 ACAAAGAAGTTTGAGTTGTAACATT
66 ACAAAGAAGTTTAAGTTGTAACATT
12823852 A
1 A
12823853 CTCAAATTAA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (90 bp):
AATCGCTCTGTTTTTGTGACACGAATTAGAATGAGGCTCCATCACGTTCTTCCTAGGGGACTCCT
ACAAAGAAGTTTAAGTTGTAACATT
Found at i:12827330 original size:30 final size:30
Alignment explanation
Indices: 12827296--12827353 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
12827286 CACGACCGTG
*
12827296 ACACATGGGCATGTGG-TCTACCCGTGTGTC
1 ACACACGGGCATGTGGATC-ACCCGTGTGTC
12827326 ACACACGGGCATGTGGATCACCCGTGTG
1 ACACACGGGCATGTGGATCACCCGTGTG
12827354 GAAGTGCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.22
Consensus pattern (30 bp):
ACACACGGGCATGTGGATCACCCGTGTGTC
Found at i:12827445 original size:60 final size:60
Alignment explanation
Indices: 12827371--12827491 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
12827361 CTAGGCCGTG
*
12827371 TGCCACGCTAAATTAGGCACATTTTGTC-GTTTTTTGGCCCGTTTCTTGCTCTTTTCGCTA
1 TGCCACGCTAAATTAGGCACATTTTGTCTG-TTTTTGGCCCATTTCTTGCTCTTTTCGCTA
* *
12827431 TGCCACGCTGAATTAGGCACATTTTGTCTGTTTTTGGCCCATTTTTTGCTCTTTTCGCTA
1 TGCCACGCTAAATTAGGCACATTTTGTCTGTTTTTGGCCCATTTCTTGCTCTTTTCGCTA
12827491 T
1 T
12827492 CCTAAGCTCT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 56 0.98
61 1 0.02
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (60 bp):
TGCCACGCTAAATTAGGCACATTTTGTCTGTTTTTGGCCCATTTCTTGCTCTTTTCGCTA
Found at i:12838317 original size:46 final size:46
Alignment explanation
Indices: 12838267--12838442 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
12838257 TGGTTGAGCA
* *
12838267 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
12838313 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* * *
12838360 TCCGAACTCGTTGATTTGAGTCCGAGTTCACTCATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
12838406 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12838443 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:12838423 original size:93 final size:93
Alignment explanation
Indices: 12838264--12838435 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
12838254 GGATGGTTGA
* *
12838264 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
12838329 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
12838357 GCATCCGAACTCGTTGATTTGAGTCCGAGTTCACTCATGGATGTGAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
*
12838422 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
12838436 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:12841603 original size:55 final size:55
Alignment explanation
Indices: 12841514--12841649 Score: 146
Period size: 55 Copynumber: 2.5 Consensus size: 55
12841504 TGGCCTTGGG
* * * * * ** * *
12841514 CGAACCTGCCAAAATAGCACGGGCGTGCGGCACGCTCGTGCCTTGAACCCGTGGC
1 CGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGAAACCATGGC
* * *
12841569 CGAACCTGTCAAATTAACACGGGTGTGCGACACGCCCGTTCCAAGAAACCATGGG
1 CGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGAAACCATGGC
* *
12841624 CGAACCTGTTAAATTAACACGAGCGT
1 CGAACCTGTCAAATTAACACGGGCGT
12841650 AGGCCTACAT
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.17
Consensus pattern (55 bp):
CGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGAAACCATGGC
Found at i:12842157 original size:23 final size:23
Alignment explanation
Indices: 12842131--12842176 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
12842121 CATTCTCTTG
*
12842131 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
12842154 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
12842177 CAATGTCACG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.35
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:12845864 original size:21 final size:21
Alignment explanation
Indices: 12845826--12845865 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12845816 AGTGCTCAAG
*
12845826 AGAAGCCGATTGATCCATCTC
1 AGAAGCCGATTCATCCATCTC
12845847 AGAAGCCGAATTCA-CCATC
1 AGAAGCCG-ATTCATCCATC
12845866 AAGATTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (21 bp):
AGAAGCCGATTCATCCATCTC
Found at i:12848395 original size:12 final size:12
Alignment explanation
Indices: 12848378--12848412 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
12848368 TATGAAATTT
12848378 TTATATTTTTAA
1 TTATATTTTTAA
*
12848390 TTATATTTTTAT
1 TTATATTTTTAA
*
12848402 TTTTATTTTTA
1 TTATATTTTTA
12848413 TAATTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTATATTTTTAA
Found at i:12849526 original size:6 final size:6
Alignment explanation
Indices: 12849514--12849559 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
12849504 CGGCTTGGAG
* *
12849514 AGGG-T AGGGGT AGGGGT AGGGAT AGGGAT AGGGAT AGGGAT AGGGA
1 AGGGAT AGGGAT AGGGAT AGGGAT AGGGAT AGGGAT AGGGAT AGGGA
12849560 AAGAAGAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
5 4 0.10
6 35 0.90
ACGTcount: A:0.28, C:0.00, G:0.57, T:0.15
Consensus pattern (6 bp):
AGGGAT
Found at i:12853140 original size:43 final size:42
Alignment explanation
Indices: 12853087--12853236 Score: 167
Period size: 43 Copynumber: 3.5 Consensus size: 42
12853077 GTGCCAGAAA
*
12853087 CGCCACTAAAGGTCATGTTCTTTAGTGGAATTTGTGGGGGAAG
1 CGCCACTAAAGGTCATGTTCTTTAGTGG-ATTTGTGAGGGAAG
* * * *
12853130 CGCCGCTAAAGGTCATGTTATTTAGCGGCATTTGTGAGAGAAG
1 CGCCACTAAAGGTCATGTTCTTTAGTGG-ATTTGTGAGGGAAG
* * *
12853173 CGCTACTAAAGGTCATGTTCTTTAGCTGTGA-TTATGAGGAAAG
1 CGCCACTAAAGGTCATGTTCTTTAG-TG-GATTTGTGAGGGAAG
* *
12853216 CGTCGCTAAAGGTCATGTTCT
1 CGCCACTAAAGGTCATGTTCT
12853237 ATAGCGGCGT
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
43 86 0.97
44 2 0.02
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (42 bp):
CGCCACTAAAGGTCATGTTCTTTAGTGGATTTGTGAGGGAAG
Found at i:12853242 original size:86 final size:86
Alignment explanation
Indices: 12853082--12853244 Score: 222
Period size: 86 Copynumber: 1.9 Consensus size: 86
12853072 CGTTCGTGCC
* * *
12853082 AGAAACGCCACTAAAGGTCATGTTCTTTAGTGGAATTTGTGGGGGAAGCGCCGCTAAAGGTCATG
1 AGAAACGCCACTAAAGGTCATGTTCTTTAGTGGAATTTATGAGGAAAGCGCCGCTAAAGGTCATG
*
12853147 TTATTTAGCGGCATTTGTGAG
66 TTATATAGCGGCATTTGTGAG
* * *
12853168 AGAAGCGCTACTAAAGGTCATGTTCTTTAGCTGTG-A-TTATGAGGAAAGCGTCGCTAAAGGTCA
1 AGAAACGCCACTAAAGGTCATGTTCTTTAG-TG-GAATTTATGAGGAAAGCGCCGCTAAAGGTCA
*
12853231 TGTTCTATAGCGGC
64 TGTTATATAGCGGC
12853245 GTTTTTCCAC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
86 63 0.94
87 3 0.04
88 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (86 bp):
AGAAACGCCACTAAAGGTCATGTTCTTTAGTGGAATTTATGAGGAAAGCGCCGCTAAAGGTCATG
TTATATAGCGGCATTTGTGAG
Found at i:12854246 original size:2 final size:2
Alignment explanation
Indices: 12854239--12854286 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
12854229 AAGAATAATC
*
12854239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12854281 AT AT AT
1 AT AT AT
12854287 GATTCAACCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12856542 original size:33 final size:33
Alignment explanation
Indices: 12856499--12856572 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
12856489 AATAATCTCA
12856499 TACGACCCGATAAATCGTGGACTCAATTTACCTT
1 TACGA-CCGATAAATCGTGGACTCAATTTACCTT
* * *
12856533 TATGACCGATGAATTGTGGACTCAATTTACCTT
1 TACGACCGATAAATCGTGGACTCAATTTACCTT
12856566 TACGACC
1 TACGACC
12856573 AAAACTAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 32 0.89
34 4 0.11
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (33 bp):
TACGACCGATAAATCGTGGACTCAATTTACCTT
Found at i:12865878 original size:38 final size:38
Alignment explanation
Indices: 12865827--12865911 Score: 143
Period size: 38 Copynumber: 2.2 Consensus size: 38
12865817 GTAAAAGAAG
* *
12865827 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTAAATGCTGGAAA
12865865 AAATCCGGACTTAAAGTCCGCAGGCTAAATGCTGGAAA
1 AAATCCGGACTTAAAGTCCGCAGGCTAAATGCTGGAAA
12865903 AATATCCGG
1 AA-ATCCGG
12865912 GTTAAGGACC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 38 0.86
39 6 0.14
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (38 bp):
AAATCCGGACTTAAAGTCCGCAGGCTAAATGCTGGAAA
Found at i:12865925 original size:39 final size:38
Alignment explanation
Indices: 12865827--12865929 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
12865817 GTAAAAGAAG
* * *
12865827 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGCCCGCAGGCTAAATGCTGGAAA
*
12865865 AAATCCGGACTTAAAGTCCGCAGGCTAAATGCTGGAAA
1 AAATCCGGACTTAAAGCCCGCAGGCTAAATGCTGGAAA
* *
12865903 AATATCCGG-GTTAAGGACCCGCAGGCT
1 AA-ATCCGGACTTAAAG-CCCGCAGGCT
12865930 CATGCTAGTA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
38 43 0.74
39 15 0.26
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (38 bp):
AAATCCGGACTTAAAGCCCGCAGGCTAAATGCTGGAAA
Found at i:12870392 original size:20 final size:20
Alignment explanation
Indices: 12870369--12870414 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
12870359 TAAATTAATT
12870369 ATTTTAG-AAATATATTAAAA
1 ATTTTAGAAAATAT-TTAAAA
12870389 ATTTT-GAAAATATTTAAAA
1 ATTTTAGAAAATATTTAAAA
12870408 ACTTTTA
1 A-TTTTA
12870415 AGATTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (20 bp):
ATTTTAGAAAATATTTAAAA
Found at i:12870716 original size:14 final size:14
Alignment explanation
Indices: 12870697--12870730 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
12870687 TATATATATT
*
12870697 AAAAATTATTTTTA
1 AAAAATTAATTTTA
12870711 AAAAATTAATTTTA
1 AAAAATTAATTTTA
12870725 AAAAAT
1 AAAAAT
12870731 CAAGTATAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAAATTAATTTTA
Found at i:12873219 original size:2 final size:2
Alignment explanation
Indices: 12873208--12873241 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
12873198 AAGTCCAAAC
12873208 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12873242 TGTAAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12873765 original size:16 final size:16
Alignment explanation
Indices: 12873744--12873793 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
12873734 ATATCTAATC
12873744 ATATAATAAATTATTA
1 ATATAATAAATTATTA
12873760 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
12873773 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
12873790 ATAT
1 ATAT
12873794 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:12874224 original size:27 final size:27
Alignment explanation
Indices: 12874185--12874262 Score: 124
Period size: 27 Copynumber: 2.9 Consensus size: 27
12874175 TATAAGGACT
12874185 TATGACATATTTTAACTTAGTATAAAAA
1 TATGA-ATATTTTAACTTAGTATAAAAA
*
12874213 TATGAATATTTTAACCTAGTATAAAAA
1 TATGAATATTTTAACTTAGTATAAAAA
12874240 TATGAATATTTTAA-TTA-TATAAA
1 TATGAATATTTTAACTTAGTATAAA
12874263 TATGGGTATT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
25 6 0.12
26 2 0.04
27 35 0.73
28 5 0.10
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.41
Consensus pattern (27 bp):
TATGAATATTTTAACTTAGTATAAAAA
Found at i:12875798 original size:30 final size:30
Alignment explanation
Indices: 12875764--12875826 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
12875754 ACTTAACAAG
**
12875764 CAAATGTCTCTAAAATAATATTAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
12875794 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
12875824 CAA
1 CAA
12875827 TAAAATAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:12876265 original size:41 final size:41
Alignment explanation
Indices: 12876188--12876266 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
12876178 GTTGTTTTTT
* ** *
12876188 GAGAGAGAAATGAAAATACGTCTTACAAGGTGCATTTTTAG
1 GAGAGAGAAATGAAAACACACCTTACAAGGTACATTTTTAG
*
12876229 GAGAGAGAAATGAAAACACACCTTA-TAGGATACATTTT
1 GAGAGAGAAATGAAAACACACCTTACAAGG-TACATTTT
12876267 CAAATTGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.09
41 29 0.91
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (41 bp):
GAGAGAGAAATGAAAACACACCTTACAAGGTACATTTTTAG
Found at i:12883762 original size:26 final size:25
Alignment explanation
Indices: 12883733--12883842 Score: 78
Period size: 25 Copynumber: 4.4 Consensus size: 25
12883723 TTCATATTCA
*
12883733 GGAATGCTCATACGAG-CATGTAAACG
1 GGAA-GCTCATACGAGCCATAT-AACG
* *
12883759 GGAAGCTCTTTCGAGCCATATAACG
1 GGAAGCTCATACGAGCCATATAACG
** **
12883784 GGAAGCTCATGTGAGCTGTATAACG
1 GGAAGCTCATACGAGCCATATAACG
* * * * *
12883809 AGAAGCTCCTGCGAGCCATTTATCG
1 GGAAGCTCATACGAGCCATATAACG
*
12883834 GAAAGCTCA
1 GGAAGCTCA
12883843 AGAGAGCCAA
Statistics
Matches: 65, Mismatches: 18, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
25 57 0.88
26 8 0.12
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (25 bp):
GGAAGCTCATACGAGCCATATAACG
Found at i:12883779 original size:50 final size:50
Alignment explanation
Indices: 12883731--12883827 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
12883721 AATTCATATT
* * *
12883731 CAGGAATGCTCATACGAGCATGTA-AACGGGAAGCTCTTTCGAGCCATATAA
1 CAGGAA-GCTCATACGAGC-TGTATAACGAGAAGCTCCTGCGAGCCATATAA
* **
12883782 CGGGAAGCTCATGTGAGCTGTATAACGAGAAGCTCCTGCGAGCCAT
1 CAGGAAGCTCATACGAGCTGTATAACGAGAAGCTCCTGCGAGCCAT
12883828 TTATCGGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
49 4 0.10
50 30 0.77
51 5 0.13
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.21
Consensus pattern (50 bp):
CAGGAAGCTCATACGAGCTGTATAACGAGAAGCTCCTGCGAGCCATATAA
Found at i:12883824 original size:25 final size:25
Alignment explanation
Indices: 12883733--12883824 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
12883723 TTCATATTCA
*
12883733 GGAATGCTCATACGAGCATGTA-AACG
1 GGAA-GCTCATGCGAGC-TGTATAACG
* * **
12883759 GGAAGCTCTTTCGAGCCATATAACG
1 GGAAGCTCATGCGAGCTGTATAACG
*
12883784 GGAAGCTCATGTGAGCTGTATAACG
1 GGAAGCTCATGCGAGCTGTATAACG
* *
12883809 AGAAGCTCCTGCGAGC
1 GGAAGCTCATGCGAGC
12883825 CATTTATCGG
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 2 0.04
25 47 0.89
26 4 0.08
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (25 bp):
GGAAGCTCATGCGAGCTGTATAACG
Found at i:12883840 original size:50 final size:50
Alignment explanation
Indices: 12883746--12883842 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 50
12883736 ATGCTCATAC
* * * *
12883746 GAGCATGTAAACGGGAAGCTCTTTCGAGCCATATAACGGGAAGCTCATGT
1 GAGCATGTAAACGAGAAGCTCCTGCGAGCCATATAACGGAAAGCTCATGT
* *
12883796 GAGC-TGTATAACGAGAAGCTCCTGCGAGCCATTTATCGGAAAGCTCA
1 GAGCATGTA-AACGAGAAGCTCCTGCGAGCCATATAACGGAAAGCTCA
12883843 AGAGAGCCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
49 4 0.10
50 36 0.90
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
GAGCATGTAAACGAGAAGCTCCTGCGAGCCATATAACGGAAAGCTCATGT
Found at i:12884247 original size:10 final size:10
Alignment explanation
Indices: 12884232--12884275 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
12884222 TATACAAATG
12884232 AATTTAATTC
1 AATTTAATTC
*
12884242 AATTTAATAC
1 AATTTAATTC
*
12884252 AATTCATATTC
1 AATTTA-ATTC
*
12884263 AATTTAATCC
1 AATTTAATTC
12884273 AAT
1 AAT
12884276 ACACATATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
AATTTAATTC
Found at i:12886342 original size:8 final size:8
Alignment explanation
Indices: 12886303--12886352 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
12886293 TTAAATGTGC
12886303 ATTTTTATT
1 ATTTTTA-T
12886312 ATTTTTAT
1 ATTTTTAT
*
12886320 ATATAATTA-
1 AT-T-TTTAT
12886329 ATTTTTAT
1 ATTTTTAT
12886337 ATTTTTAT
1 ATTTTTAT
12886345 ATTTTTAT
1 ATTTTTAT
12886353 TCTAGATATG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
7 3 0.08
8 20 0.56
9 10 0.28
10 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
ATTTTTAT
Found at i:12886427 original size:20 final size:20
Alignment explanation
Indices: 12886397--12886450 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
12886387 ACATATTGGA
*
12886397 AATTTTT-ATATTTTTTAAT
1 AATTTTTAATATTTTTTAAC
*
12886416 AATTTTTAATATTTTTTTAC
1 AATTTTTAATATTTTTTAAC
*
12886436 AATGTTTAAT-TTTTT
1 AATTTTTAATATTTTT
12886451 ATAAGGTTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
AATTTTTAATATTTTTTAAC
Found at i:12886432 original size:10 final size:10
Alignment explanation
Indices: 12886399--12886432 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
12886389 ATATTGGAAA
12886399 TTTTT-ATAT
1 TTTTTAATAT
*
12886408 TTTTTAATAA
1 TTTTTAATAT
12886418 TTTTTAATAT
1 TTTTTAATAT
12886428 TTTTT
1 TTTTT
12886433 TACAATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTAATAT
Found at i:12889130 original size:18 final size:18
Alignment explanation
Indices: 12889100--12889153 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
12889090 ATTTTATATA
*
12889100 TTTAATTTA--TTTACCT
1 TTTAATTTAGTTTTACAT
12889116 TTTAATTTAGTTTTACAT
1 TTTAATTTAGTTTTACAT
12889134 TTTAATTTAGTATTT-CAT
1 TTTAATTTAGT-TTTACAT
12889152 TT
1 TT
12889154 ACTATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 9 0.26
18 22 0.65
19 3 0.09
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTAATTTAGTTTTACAT
Found at i:12893701 original size:11 final size:11
Alignment explanation
Indices: 12893659--12893694 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
12893649 TTTTCACACT
12893659 AAATTTCTCTC
1 AAATTTCTCTC
12893670 AAATTTCTCTC
1 AAATTTCTCTC
12893681 AAATTTCTCTC
1 AAATTTCTCTC
12893692 AAA
1 AAA
12893695 GCTCTCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATTTCTCTC
Found at i:12893708 original size:22 final size:22
Alignment explanation
Indices: 12893659--12893701 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12893649 TTTTCACACT
**
12893659 AAATTTCTCTCAAATTTCTCTC
1 AAATTTCTCTCAAAGCTCTCTC
12893681 AAATTTCTCTCAAAGCTCTCT
1 AAATTTCTCTCAAAGCTCTCT
12893702 TTAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATTTCTCTCAAAGCTCTCTC
Found at i:12895409 original size:30 final size:30
Alignment explanation
Indices: 12895368--12895432 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
12895358 GATGACGACG
12895368 CGGGCCCATCAACAGCACCCACACAATCAC
1 CGGGCCCATCAACAGCACCCACACAATCAC
* * *
12895398 CGGGTCCATCAACAGCGCCCACACAGTCAC
1 CGGGCCCATCAACAGCACCCACACAATCAC
12895428 CGGGC
1 CGGGC
12895433 TCAACGCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.45, G:0.20, T:0.08
Consensus pattern (30 bp):
CGGGCCCATCAACAGCACCCACACAATCAC
Found at i:12896032 original size:9 final size:9
Alignment explanation
Indices: 12896018--12896078 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
12896008 TTAAATAAGG
12896018 TAATATTTT
1 TAATATTTT
12896027 TAATA-TTT
1 TAATATTTT
12896035 T-ATATTTT
1 TAATATTTT
12896043 TAATATATTT
1 TAATAT-TTT
*
12896053 GTACAAAATTTT
1 -T--AATATTTT
*
12896065 TTATATTTT
1 TAATATTTT
12896074 TAATA
1 TAATA
12896079 AAATAAAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
7 3 0.07
8 8 0.19
9 19 0.45
10 3 0.07
11 2 0.05
12 3 0.07
13 4 0.10
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (9 bp):
TAATATTTT
Found at i:12896040 original size:54 final size:55
Alignment explanation
Indices: 12895932--12896047 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 55
12895922 TATTGTTTCA
*** *
12895932 TTTAATAAAATAAAAGTTATTTTTAATATTTTAATTATAATTTACTTTTTATATT
1 TTTAATAAAATAAAAGTTATTTTTAATAAGGTAATTATAATTTAATTTTTATATT
*
12895987 TTTAATAAAATAAAAGTT-TTTTTAAATAAGGTAA-TAT-TTTTAATATTTTATATT
1 TTTAATAAAATAAAAGTTATTTTT-AATAAGGTAATTATAATTTAAT-TTTTATATT
12896041 TTTAATA
1 TTTAATA
12896048 TATTTGTACA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 5 0.09
54 24 0.44
55 25 0.46
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (55 bp):
TTTAATAAAATAAAAGTTATTTTTAATAAGGTAATTATAATTTAATTTTTATATT
Found at i:12896079 original size:85 final size:85
Alignment explanation
Indices: 12895977--12896132 Score: 260
Period size: 85 Copynumber: 1.8 Consensus size: 85
12895967 TATAATTTAC
* * *
12895977 TTTTTATATTTTTAATAAAATAAAAGTTTTTTTAAATAAGGTAATATTTTTAATA-TTTTATATT
1 TTTTTATATTTTTAATAAAATAAAACTTCTTTTAAATAAGGCAATATTTTTAATATTTTTATA-T
12896041 TTTAATATATTTGTACAAAAT
65 TTTAATATATTTGTACAAAAT
*
12896062 TTTTTATATTTTTAATAAAATAAAACTTCTTTTGAATAAGGCAATATTTTTAATATTTTTATATT
1 TTTTTATATTTTTAATAAAATAAAACTTCTTTTAAATAAGGCAATATTTTTAATATTTTTATATT
12896127 TTAATA
66 TTAATA
12896133 AAATATAAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
85 59 0.89
86 7 0.11
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (85 bp):
TTTTTATATTTTTAATAAAATAAAACTTCTTTTAAATAAGGCAATATTTTTAATATTTTTATATT
TTAATATATTTGTACAAAAT
Found at i:12896158 original size:85 final size:85
Alignment explanation
Indices: 12895982--12896159 Score: 200
Period size: 85 Copynumber: 2.1 Consensus size: 85
12895972 TTTACTTTTT
* * *
12895982 ATATTTTTAATAAAATAAAAGTTTTTTTAAATAAGGTAATATTTTTAATATTTTATATTTTTAAT
1 ATATTTTTAATAAAATAAAACTTCTTTTAAATAAGGCAATATTTTTAATATTTTATATTTTTAAT
** * *****
12896047 ATATTTGTACAAAATTTTTT
66 ATAAATATACAAAATGCAAC
*
12896067 ATATTTTTAATAAAATAAAACTTCTTTTGAATAAGGCAATATTTTTAATATTTT-TATATTTTAA
1 ATATTTTTAATAAAATAAAACTTCTTTTAAATAAGGCAATATTTTTAATATTTTATAT-TTTTAA
12896131 TA-AAATATA-AATAATGCAAC
65 TATAAATATACAA-AATGCAAC
*
12896151 ATAATTTTA
1 ATATTTTTA
12896160 TTACAACAAC
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
83 2 0.03
84 18 0.23
85 58 0.74
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (85 bp):
ATATTTTTAATAAAATAAAACTTCTTTTAAATAAGGCAATATTTTTAATATTTTATATTTTTAAT
ATAAATATACAAAATGCAAC
Found at i:12899326 original size:126 final size:126
Alignment explanation
Indices: 12899162--12899919 Score: 999
Period size: 126 Copynumber: 6.1 Consensus size: 126
12899152 CCAAATAGGA
* * *
12899162 ACTACTGTAGAAAAA-AATGTCCACGTGGGAGATCTTTTTCAGTAATTTTGCTGACAGTGCATCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCT-TTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
12899226 TGCTTGAAGCGTTTTGGACACTATTTGTTTAGAAACGTCTTCTTAAAATTATTTTTTCAGAT
65 TGCTTGAAGCGTTTTAGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
* *
12899288 ACTATTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * *
12899353 GCTTGAAGCGTTTTAGACAGTATTTGTTGAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
66 GCTTGAAGCGTTTTAGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
* * *
12899414 ACTACTATAGAAAAAGAGCT-TCCACATGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCC
1 ACTACTGTAGAAAAAGAG-TGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * * *
12899478 TGCTTGAAGTGTTTTAAACACTATTTGTTTAGAAACGTCTTCTCAAAATTATCTTTTCAGAT
65 TGCTTGAAGCGTTTTAGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
* * *
12899540 ACTACTGTAGAAAAAGAGTGTCCACATGGGAGCTTTTTTTAGTAATTTTGTTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* *
12899605 GTTTGAAGC------G-------TTGTTTAGAAAAGTCTTCTCAAAATTATTTTTTCAAAT
66 GCTTGAAGCGTTTTAGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
* *** ** *
12899653 ACTACTGTATAAAAAGAACATCCACGTAAGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * *
12899718 ACCTGAAGCGTTTT-GCACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAAT
66 GCTTGAAGCGTTTTAG-ACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
* ** *
12899779 ACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * *
12899844 GCTTGAAGAGTTTTCGAAACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
66 GCTTGAAGCGTTTTAGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
12899905 ACTACTGTAGAAAAA
1 ACTACTGTAGAAAAA
12899920 AAAATAAAAA
Statistics
Matches: 560, Mismatches: 55, Indels: 34
0.86 0.08 0.05
Matches are distributed among these distances:
113 96 0.17
118 1 0.00
125 1 0.00
126 444 0.79
127 18 0.03
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
GCTTGAAGCGTTTTAGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
Found at i:12899811 original size:239 final size:244
Alignment explanation
Indices: 12899196--12899919 Score: 927
Period size: 239 Copynumber: 2.9 Consensus size: 244
12899186 GTGGGAGATC
* *
12899196 TTTTTCAGTAATTTTGCTGACAGTGCATCTTGCTTGAAGCGTTTTGGACACTATTTGTTTAGAAA
1 TTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTGAACACTATTTGTTTAGAAA
* *
12899261 CGTCTTCTTAAAATTATTTTTTCAGATACTATTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTT
66 CGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTT
* *
12899326 TCAGTAATTTTACTGACAGTGCATCCTGCTTGAAGCGTTTTAGACAGTATTTGTTGAGAAACGTC
131 TCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCG-TTT----AG---TTGTTGAGAAAAGTC
* * * **
12899391 TTCTCAAAATTATTTTTTCAGATACTACTATAGAAAAAGAGCTTCCACATGGGAGCT
188 TTCTCAAAATTATTTTTTCAAATACTACTATAGAAAAAGAACATCCACATAAGAGCT
* * *
12899448 TTTTTCAGTAATTTTACTGACAGTGCATCCTGCTTGAAGTGTTTTAAACACTATTTGTTTAGAAA
1 TTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTGAACACTATTTGTTTAGAAA
* *
12899513 CGTCTTCTCAAAATTATCTTTTCAGATACTACTGTAGAAAAAGAGTGTCCACATGGGAGCTTTTT
66 CGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTT
* * *
12899578 TTAGTAATTTTGTTGACAGTGCATCCTGTTTGAAGCG-TT-G-T-TT-AGAAAAGTCTTCTCAAA
131 TCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTAGTTGTTGAGAAAAGTCTTCTCAAA
* * * *
12899638 ATTATTTTTTCAAATACTACTGTATAAAAAGAACATCCACGTAAGAGTT
196 ATTATTTTTTCAAATACTACTATAGAAAAAGAACATCCACATAAGAGCT
* * * *
12899687 TTTTTCAGTAATTTTGCTGACAGTGCATCCTACCTGAAGCGTTTTGCACACTATTTGTTCAGAAA
1 TTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTGAACACTATTTGTTTAGAAA
* * * **
12899752 CATCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTT
66 CGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTT
* * * * *
12899817 TCAATAATTTTGCTGACAGTGCATCCTGCTTGAAGAGTTTTCGAAACTATTTGTTCAGAAACGTC
131 TCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCG--TT------TAGTTGTTGAGAAAAGTC
*
12899882 TTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAA
188 TTCTCAAAATTATTTTTTCAAATACTACTATAGAAAAA
12899920 AAAATAAAAA
Statistics
Matches: 414, Mismatches: 45, Indels: 26
0.85 0.09 0.05
Matches are distributed among these distances:
239 204 0.49
240 2 0.00
241 1 0.00
242 1 0.00
245 1 0.00
248 1 0.00
250 3 0.01
251 2 0.00
252 199 0.48
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (244 bp):
TTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTGAACACTATTTGTTTAGAAA
CGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTT
TCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTAGTTGTTGAGAAAAGTCTTCTCAAA
ATTATTTTTTCAAATACTACTATAGAAAAAGAACATCCACATAAGAGCT
Found at i:12899845 original size:365 final size:365
Alignment explanation
Indices: 12899250--12899919 Score: 1047
Period size: 365 Copynumber: 1.8 Consensus size: 365
12899240 TGGACACTAT
* * * * ***
12899250 TTGTTTAGAAACGTCTTCTTAAAATTATTTTTTCAGATACTATTGTAGAAAAAGAGTGTCCACGT
1 TTGTTTAGAAAAGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAGAACATCCACGT
** * * *
12899315 GGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTGCTTGAAGCGTTTTAGACAGTATTTGT
66 AAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTACCTGAAGCGTTTTAGACACTATTTGT
* * * * *
12899380 TGAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATAGAAAAAGAGCTTCCACATGGGA
131 TCAGAAACATCTTCTCAAAATTATTTTTTCAAATACTACTATAGAAAAAAAGCATCCACATGGGA
* * *
12899445 GCTTTTTTCAGTAATTTTACTGACAGTGCATCCTGCTTGAAGTGTTTT-AAACACTATTTGTTTA
196 GCTTTTTTCAATAATTTTACTGACAGTGCATCCTGCTTGAAGAGTTTTCAAA-ACTATTTGTTCA
*
12899509 GAAACGTCTTCTCAAAATTATCTTTTCAGATACTACTGTAGAAAAAGAGTGTCCACATGGGAGCT
260 GAAACGTCTTCTCAAAATTATCTTTTCAAATACTACTGTAGAAAAAGAGTGTCCACATGGGAGCT
12899574 TTTTTTAGTAATTTTGTTGACAGTGCATCCTGTTTGAAGCG
325 TTTTTTAGTAATTTTGTTGACAGTGCATCCTGTTTGAAGCG
*
12899615 TTGTTTAGAAAAGTCTTCTCAAAATTATTTTTTCAAATACTACTGTATAAAAAGAACATCCACGT
1 TTGTTTAGAAAAGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAGAACATCCACGT
* *
12899680 AAGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACCTGAAGCGTTTT-GCACACTATTTG
66 AAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTACCTGAAGCGTTTTAG-ACACTATTTG
* *
12899744 TTCAGAAACATCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAAAGCATCCACGTGGG
130 TTCAGAAACATCTTCTCAAAATTATTTTTTCAAATACTACTATAGAAAAAAAGCATCCACATGGG
* *
12899809 AGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTGCTTGAAGAGTTTTCGAAACTATTTGTTCA
195 AGCTTTTTTCAATAATTTTACTGACAGTGCATCCTGCTTGAAGAGTTTTCAAAACTATTTGTTCA
*
12899874 GAAACGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAA
260 GAAACGTCTTCTCAAAATTATCTTTTCAAATACTACTGTAGAAAAA
12899920 AAAATAAAAA
Statistics
Matches: 274, Mismatches: 29, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
364 1 0.00
365 271 0.99
366 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (365 bp):
TTGTTTAGAAAAGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAGAACATCCACGT
AAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTACCTGAAGCGTTTTAGACACTATTTGT
TCAGAAACATCTTCTCAAAATTATTTTTTCAAATACTACTATAGAAAAAAAGCATCCACATGGGA
GCTTTTTTCAATAATTTTACTGACAGTGCATCCTGCTTGAAGAGTTTTCAAAACTATTTGTTCAG
AAACGTCTTCTCAAAATTATCTTTTCAAATACTACTGTAGAAAAAGAGTGTCCACATGGGAGCTT
TTTTTAGTAATTTTGTTGACAGTGCATCCTGTTTGAAGCG
Found at i:12900152 original size:21 final size:21
Alignment explanation
Indices: 12900126--12900177 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
12900116 AAAATCTTAG
*
12900126 AACCCTAAACCTTAACTCTAA
1 AACCCTAAACCTTAACCCTAA
**
12900147 AACCCTAAATGTTAACCCTAA
1 AACCCTAAACCTTAACCCTAA
12900168 AA-CCTAAACC
1 AACCCTAAACC
12900178 AAGCAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (21 bp):
AACCCTAAACCTTAACCCTAA
Found at i:12900661 original size:29 final size:27
Alignment explanation
Indices: 12900629--12900686 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
12900619 TAAACAGTTT
* *
12900629 AAATGATATTACTTTATATTAATTAAAAA
1 AAATGACATTA-TTTA-ATGAATTAAAAA
*
12900658 AAATTACATTATTTAATGAATTAAAAA
1 AAATGACATTATTTAATGAATTAAAAA
12900685 AA
1 AA
12900687 TAAACATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 13 0.50
28 4 0.15
29 9 0.35
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (27 bp):
AAATGACATTATTTAATGAATTAAAAA
Found at i:12905778 original size:25 final size:25
Alignment explanation
Indices: 12905744--12905800 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
12905734 CTTATTTCAT
*
12905744 TAAATAAAAAAATTTAAAAATATAA
1 TAAATAAAAAAATTTAAAAACATAA
* *
12905769 TAAATCAAAATATTTAAAAACATAA
1 TAAATAAAAAAATTTAAAAACATAA
12905794 -AAATAAA
1 TAAATAAA
12905801 TATTAAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (25 bp):
TAAATAAAAAAATTTAAAAACATAA
Found at i:12905801 original size:22 final size:22
Alignment explanation
Indices: 12905755--12905821 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 22
12905745 AAATAAAAAA
*
12905755 ATTTAAAAATATAATAAATCAAAAT
1 ATTTAAAAAAATAA-AAAT--AAAT
*
12905780 ATTTAAAAACATAAAAATAAAT
1 ATTTAAAAAAATAAAAATAAAT
12905802 A-TTAAAACAAATAAAAATAA
1 ATTTAAAA-AAATAAAAATAA
12905822 TACTAAAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.15
22 16 0.41
24 4 0.10
25 13 0.33
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (22 bp):
ATTTAAAAAAATAAAAATAAAT
Found at i:12905817 original size:21 final size:21
Alignment explanation
Indices: 12905745--12905832 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
12905735 TTATTTCATT
*
12905745 AAAT-AAAAAAAT-TTAAAAAT
1 AAATAAAAAAAATATT-AAAAC
*
12905765 ATAATAAATCAAAATATTTAAAA-
1 A-AATAAA-AAAAATA-TTAAAAC
*
12905788 ACATAAAAATAAATATTAAAAC
1 AAATAAAAA-AAATATTAAAAC
* *
12905810 AAATAAAAATAATACTAAAAC
1 AAATAAAAAAAATATTAAAAC
12905831 AA
1 AA
12905833 TTCTTAAAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
20 1 0.02
21 22 0.40
22 20 0.36
23 6 0.11
24 4 0.07
25 2 0.04
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAAAAAAAATATTAAAAC
Found at i:12905909 original size:15 final size:16
Alignment explanation
Indices: 12905879--12905911 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12905869 AAATAGTTAT
12905879 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
12905896 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
12905911 A
1 A
12905912 AAAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:12908208 original size:17 final size:18
Alignment explanation
Indices: 12908177--12908211 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12908167 GTTAATAAAG
12908177 AAAATAAGAAAAAAAACA
1 AAAATAAGAAAAAAAACA
*
12908195 AAAATAA-AATAAAAACA
1 AAAATAAGAAAAAAAACA
12908212 GAATTATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.83, C:0.06, G:0.03, T:0.09
Consensus pattern (18 bp):
AAAATAAGAAAAAAAACA
Found at i:12912248 original size:3 final size:3
Alignment explanation
Indices: 12912240--12912268 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12912230 TATTGAGAGT
12912240 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
12912269 GGGGTTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:12912333 original size:12 final size:11
Alignment explanation
Indices: 12912294--12912332 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
12912284 GTTTCTTATT
12912294 CTTTTTTTCTC
1 CTTTTTTTCTC
*
12912305 CCTTTTTT-T-
1 CTTTTTTTCTC
12912314 CTTTTTTTCTC
1 CTTTTTTTCTC
12912325 CTTTTTTT
1 CTTTTTTT
12912333 TTGGGTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 7 0.29
10 2 0.08
11 15 0.62
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
CTTTTTTTCTC
Found at i:12912333 original size:20 final size:20
Alignment explanation
Indices: 12912292--12912332 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
12912282 TTGTTTCTTA
12912292 TTCTTTTTTTCTCCCTTTTT
1 TTCTTTTTTTCTCCCTTTTT
12912312 TTCTTTTTTTCT-CCTTTTT
1 TTCTTTTTTTCTCCCTTTTT
12912331 TT
1 TT
12912333 TTGGGTTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTCTTTTTTTCTCCCTTTTT
Found at i:12912983 original size:16 final size:17
Alignment explanation
Indices: 12912952--12912984 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12912942 TTCATAAGCA
12912952 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
12912969 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
12912985 GCTCCATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:12913444 original size:46 final size:46
Alignment explanation
Indices: 12913265--12913444 Score: 252
Period size: 46 Copynumber: 3.9 Consensus size: 46
12913255 TTATCTTTGA
* * * * * *
12913265 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* *
12913311 CATGTTGCCATGATATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* * * *
12913357 CACGCTGTCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
12913403 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
12913445 ATATCTTTCA
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 117 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
Found at i:12913452 original size:30 final size:30
Alignment explanation
Indices: 12913416--12913479 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
12913406 GTTGCCATGG
12913416 TATCTTTCAACCATGGTCTTATTCATTTCA
1 TATCTTTCAACCATGGTCTTATTCATTTCA
*
12913446 TATCTTTCAATCATGGTCTTATTCATTTCA
1 TATCTTTCAACCATGGTCTTATTCATTTCA
12913476 TATC
1 TATC
12913480 ATGTTGCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.06, T:0.48
Consensus pattern (30 bp):
TATCTTTCAACCATGGTCTTATTCATTTCA
Found at i:12913461 original size:76 final size:76
Alignment explanation
Indices: 12913370--12913512 Score: 250
Period size: 76 Copynumber: 1.9 Consensus size: 76
12913360 GCTGTCATGG
* *
12913370 TATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTATTCATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTCT
12913435 TATTCATTTCA
66 TATTCATTTCA
* *
12913446 TATCTTTCAATCATGGTCTTATTCATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTATTCATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTCT
12913511 TA
66 TA
12913513 CATGTTTCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 63 1.00
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (76 bp):
TATCTTTCAACCATGGTCTTATTCATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTCT
TATTCATTTCA
Found at i:12913498 original size:46 final size:46
Alignment explanation
Indices: 12913446--12913618 Score: 274
Period size: 46 Copynumber: 3.8 Consensus size: 46
12913436 ATTCATTTCA
* ** *
12913446 TATCTTTCAATCATGGTCTTATTCATTTCATATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
** *
12913492 TATCTTTCAACCATGGTCTTACATGTTTCATATCAGGTTGCCATAG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
12913538 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
*
12913584 TATCTTTCAACCATGTTCTTACACATTTCATATCA
1 TATCTTTCAACCATGGTCTTACACATTTCATATCA
12913619 AAGAGCACAC
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 116 1.00
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
Found at i:12913507 original size:122 final size:121
Alignment explanation
Indices: 12913323--12913571 Score: 356
Period size: 122 Copynumber: 2.0 Consensus size: 121
12913313 TGTTGCCATG
* *
12913323 ATATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGTCATGGTATCTTTCAACCATGGTC
1 ATATCTTTCAACCATGGTCTTATTCATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTC
* * * * **
12913388 TTATTCA-TTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
66 TTA--CAGTTTCACATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTC
* * *
12913445 ATATCTTTCAATCATGGTCTTATTCATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTC
1 ATATCTTTCAACCATGGTCTTATTCATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTC
*
12913510 TTACATGTTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTC
66 TTACA-GTTTCACATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTC
12913567 ATATC
1 ATATC
12913572 AGGTTGCCAT
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
120 2 0.02
122 111 0.98
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.42
Consensus pattern (121 bp):
ATATCTTTCAACCATGGTCTTATTCATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTC
TTACAGTTTCACATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTC
Found at i:12913558 original size:168 final size:167
Alignment explanation
Indices: 12913280--12913617 Score: 457
Period size: 168 Copynumber: 2.0 Consensus size: 167
12913270 TGCCATAGTG
*
12913280 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGATATCTTTCAACCATGGTCTTA
1 TCTTTCAACTATGGTCTTACTCATTTTCTATCATGTTGCCATGATATCTTTCAACCATGGTCTTA
* * * ** * * *
12913345 TTCATTTCATGTCACGCTGTCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTG
66 -TCATTTCATATCACGCTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCACATCAGGTTG
**
12913410 CCATGGTATCTTTCAACCATGGTCTTATTCATTTCATA
130 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
* *
12913448 TCTTTCAA-TCATGGTCTTATTCA-TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCT
1 TCTTTCAACT-ATGGTCTTACTCATTTTC-TATCATGTTGCCATGATATCTTTCAACCATGGTCT
* * *
12913511 TA-CATGTTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
64 TATCA--TTTCATATCACGCTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCACATCAGG
*
12913575 TTGCCATGGTATCTTTCAACCATGTTCTTACACATTTCATA
127 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
12913616 TC
1 TC
12913618 AAAGAGCACA
Statistics
Matches: 149, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
166 2 0.01
167 5 0.03
168 142 0.95
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (167 bp):
TCTTTCAACTATGGTCTTACTCATTTTCTATCATGTTGCCATGATATCTTTCAACCATGGTCTTA
TCATTTCATATCACGCTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCACATCAGGTTGC
CATGGTATCTTTCAACCATGGTCTTACACATTTCATA
Found at i:12921619 original size:8 final size:8
Alignment explanation
Indices: 12921603--12921636 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
12921593 TTGGAATAAC
*
12921603 TTCTCTTT
1 TTCTTTTT
12921611 TTCTTTTT
1 TTCTTTTT
12921619 TTCTTTTT
1 TTCTTTTT
12921627 TTCTTTTT
1 TTCTTTTT
12921635 TT
1 TT
12921637 AAGAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTCTTTTT
Found at i:12922181 original size:20 final size:20
Alignment explanation
Indices: 12922156--12922196 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12922146 TATGAGTAAC
* *
12922156 TTTATAATTCATATATATAA
1 TTTATAAATAATATATATAA
12922176 TTTATAAATAATATATATAA
1 TTTATAAATAATATATATAA
12922196 T
1 T
12922197 CCAAAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTATAAATAATATATATAA
Found at i:12924975 original size:23 final size:23
Alignment explanation
Indices: 12924945--12924990 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12924935 ATGTTAGATT
12924945 GAACTTGGGCAAAGTATAAAATA
1 GAACTTGGGCAAAGTATAAAATA
12924968 GAACTTGGGCAAAGTATAAAATA
1 GAACTTGGGCAAAGTATAAAATA
12924991 TATTAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.22
Consensus pattern (23 bp):
GAACTTGGGCAAAGTATAAAATA
Found at i:12927342 original size:46 final size:46
Alignment explanation
Indices: 12927289--12927380 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
12927279 TTGAAGGAAG
12927289 ATGCATACTTCCTACAAGAGAATATGCAGTTGTAATTATGAATCAT
1 ATGCATACTTCCTACAAGAGAATATGCAGTTGTAATTATGAATCAT
12927335 ATGCATACTTCCTACAAGAGAATATGCAGTTGTAATTATGAATCAT
1 ATGCATACTTCCTACAAGAGAATATGCAGTTGTAATTATGAATCAT
12927381 GTCAACCAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (46 bp):
ATGCATACTTCCTACAAGAGAATATGCAGTTGTAATTATGAATCAT
Found at i:12928695 original size:17 final size:17
Alignment explanation
Indices: 12928653--12928733 Score: 101
Period size: 17 Copynumber: 4.7 Consensus size: 17
12928643 AGCTCTCATG
* *
12928653 TTTGGTAAGCTCGCAAT
1 TTTGGTGAGCTCGCACT
12928670 CTTTGGTGAGCTTCGCACT
1 -TTTGGTGAGC-TCGCACT
*
12928689 TTT-GTGAGCTCGCAGT
1 TTTGGTGAGCTCGCACT
*
12928705 TTTGGTGAGCTCGCAAT
1 TTTGGTGAGCTCGCACT
12928722 TTTGGTGAGCTC
1 TTTGGTGAGCTC
12928734 ATAGTTTACA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
16 9 0.16
17 30 0.53
18 12 0.21
19 6 0.11
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.37
Consensus pattern (17 bp):
TTTGGTGAGCTCGCACT
Found at i:12928714 original size:34 final size:35
Alignment explanation
Indices: 12928653--12928733 Score: 112
Period size: 34 Copynumber: 2.3 Consensus size: 35
12928643 AGCTCTCATG
* *
12928653 TTTGGTAAGCTCGCAATCTTTGGTGAGCTTCGCACT
1 TTTGGTGAGCTCGCAATCTTTGGTGAGC-TCGCAAT
*
12928689 TTT-GTGAGCTCGCAGT-TTTGGTGAGCTCGCAAT
1 TTTGGTGAGCTCGCAATCTTTGGTGAGCTCGCAAT
12928722 TTTGGTGAGCTC
1 TTTGGTGAGCTC
12928734 ATAGTTTACA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 9 0.22
34 18 0.44
35 11 0.27
36 3 0.07
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.37
Consensus pattern (35 bp):
TTTGGTGAGCTCGCAATCTTTGGTGAGCTCGCAAT
Found at i:12932502 original size:46 final size:46
Alignment explanation
Indices: 12932435--12932609 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
12932425 TGTAACCCGC
** *
12932435 CCATAAGCGAACTCGGACTCAACTCAACGAACTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* * *
12932481 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* * * *
12932531 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
*
12932574 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
12932610 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 61 0.58
47 28 0.26
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:12932549 original size:93 final size:93
Alignment explanation
Indices: 12932442--12932613 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
12932432 CGCCCATAAG
* * *
12932442 CGAACTCGGACTCAACTCAACGAACTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
12932507 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
**
12932535 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
12932600 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
12932614 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:12940124 original size:11 final size:10
Alignment explanation
Indices: 12940108--12940155 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
12940098 ATGATAATAA
12940108 ATAATTTAAT
1 ATAATTTAAT
12940118 CATAATTTAAT
1 -ATAATTTAAT
12940129 ATAA--TAAT
1 ATAATTTAAT
*
12940137 -T-ATTAAAT
1 ATAATTTAAT
12940145 ATAATTTAAT
1 ATAATTTAAT
12940155 A
1 A
12940156 ACATTTGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
6 1 0.03
7 1 0.03
8 7 0.23
9 1 0.03
10 11 0.35
11 10 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (10 bp):
ATAATTTAAT
Found at i:12940134 original size:24 final size:22
Alignment explanation
Indices: 12940084--12940172 Score: 65
Period size: 24 Copynumber: 3.7 Consensus size: 22
12940074 ACTATTAAAT
* *
12940084 ATAATTTAATAAAAATGATAATAA
1 ATAATTTAAT-ATAAT-TTAATAA
12940108 ATAATTTAATCATAATTTAATATA
1 ATAATTTAAT-ATAATTTAATA-A
12940132 ATAATTATTAAATATAATTTAATAA
1 ATAA-T-TT-AATATAATTTAATAA
12940157 CAT--TTGTAATATAATT
1 -ATAATT-TAATATAATT
12940173 ATTTTTAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
22 10 0.18
23 7 0.12
24 19 0.34
25 2 0.04
26 15 0.27
27 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
ATAATTTAATATAATTTAATAA
Found at i:12940144 original size:35 final size:35
Alignment explanation
Indices: 12940084--12940182 Score: 85
Period size: 37 Copynumber: 2.7 Consensus size: 35
12940074 ACTATTAAAT
* *
12940084 ATAATTTAATA-AA-AATGATAATAAATAATTTAATC
1 ATAATTTAATATAATAAT--TATTAAATAATTTAATA
12940119 ATAATTTAATATAATAATTATTAAATATAATTTAATA
1 ATAATTTAATATAATAATTATT-AA-ATAATTTAATA
* * * *
12940156 ACATTTGTAATATAATTATTTTTAAAT
1 ATAATT-TAATATAATAATTATTAAAT
12940183 TAAAATATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
35 14 0.26
36 6 0.11
37 19 0.36
38 14 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (35 bp):
ATAATTTAATATAATAATTATTAAATAATTTAATA
Found at i:12940148 original size:26 final size:28
Alignment explanation
Indices: 12940101--12940155 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
12940091 AATAAAAATG
*
12940101 ATAATAAATAATTTAATCATAATTTAAT
1 ATAATAAATAATTAAATCATAATTTAAT
*
12940129 ATAAT-AATTATTAAAT-ATAATTTAAT
1 ATAATAAATAATTAAATCATAATTTAAT
12940155 A
1 A
12940156 ACATTTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.44
27 9 0.36
28 5 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
ATAATAAATAATTAAATCATAATTTAAT
Found at i:12940181 original size:38 final size:37
Alignment explanation
Indices: 12940108--12940182 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
12940098 ATGATAATAA
* *
12940108 ATAATTTAATCATAATTTAATATAATAATTATTAAAT
1 ATAATTTAATAACAATTTAATATAATAATTATTAAAT
* * *
12940145 ATAATTTAATAACATTTGTAATATAATTATTTTTAAAT
1 ATAATTTAATAACAATT-TAATATAATAATTATTAAAT
12940183 TAAAATATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 14 0.44
38 18 0.56
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (37 bp):
ATAATTTAATAACAATTTAATATAATAATTATTAAAT
Found at i:12940234 original size:15 final size:15
Alignment explanation
Indices: 12940211--12940273 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
12940201 TTATATTAAA
12940211 TTATATTAAAATATT
1 TTATATTAAAATATT
*
12940226 TTATTTTAAATTATATT
1 TTATATTAAA--ATATT
*
12940243 TTGA-AATAAAATATT
1 TT-ATATTAAAATATT
12940258 TTATATTAAAATATT
1 TTATATTAAAATATT
12940273 T
1 T
12940274 CAAATATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.03
15 27 0.68
17 11 0.28
18 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TTATATTAAAATATT
Found at i:12940674 original size:1 final size:1
Alignment explanation
Indices: 12940668--12940693 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
12940658 TTTCAATTTC
12940668 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
12940694 AAATACTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:12946672 original size:14 final size:15
Alignment explanation
Indices: 12946653--12946682 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12946643 TAAAAACCTT
12946653 AATCCTAA-TAATAA
1 AATCCTAATTAATAA
12946667 AATCCTAATTAATAA
1 AATCCTAATTAATAA
12946682 A
1 A
12946683 CCCTAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCTAATTAATAA
Found at i:12946839 original size:29 final size:29
Alignment explanation
Indices: 12946807--12946874 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
12946797 CCCATTTCCA
12946807 TCAT-ATTTAAAAAAAAAATTGTCTTATTT
1 TCATAATTTAAAAAAAAAATTG-CTTATTT
* *
12946836 TCATAATTTTAAAAAAAAATTGCTTTTTT
1 TCATAATTTAAAAAAAAAATTGCTTATTT
**
12946865 TGGTAATTTA
1 TCATAATTTA
12946875 GTCAAATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (29 bp):
TCATAATTTAAAAAAAAAATTGCTTATTT
Found at i:12946850 original size:30 final size:28
Alignment explanation
Indices: 12946807--12946865 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
12946797 CCCATTTCCA
12946807 TCATATTTAAAAAAAAAATTGTCTTATTT
1 TCATATTTAAAAAAAAAATTG-CTTATTT
* *
12946836 TCATAATTTTAAAAAAAAATTGCTTTTTT
1 TCAT-ATTTAAAAAAAAAATTGCTTATTT
12946865 T
1 T
12946866 GGTAATTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (28 bp):
TCATATTTAAAAAAAAAATTGCTTATTT
Found at i:12947662 original size:21 final size:22
Alignment explanation
Indices: 12947638--12947678 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
12947628 TTATTATTTT
12947638 TTTAAATATTT-AT-ATTTTTAA
1 TTTAAA-ATTTAATAATTTTTAA
12947659 TTTAAAATTTAATAATTTTT
1 TTTAAAATTTAATAATTTTT
12947679 TCATTTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTAAAATTTAATAATTTTTAA
Found at i:12949807 original size:23 final size:23
Alignment explanation
Indices: 12949781--12949827 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
12949771 AATATCAAGA
12949781 TGAGTACAAACCATTGCATACAT
1 TGAGTACAAACCATTGCATACAT
*
12949804 TGAGTACAAACCATTGTATACAT
1 TGAGTACAAACCATTGCATACAT
12949827 T
1 T
12949828 TGGCTTTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (23 bp):
TGAGTACAAACCATTGCATACAT
Found at i:12952304 original size:53 final size:53
Alignment explanation
Indices: 12952241--12952345 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
12952231 AAACTTCTCA
*
12952241 ATGTTATACCTCATTACTAACTCTGAACGGGTTGAATGCAAAAAATTGAATCG
1 ATGTTATACCTCATTACCAACTCTGAACGGGTTGAATGCAAAAAATTGAATCG
*
12952294 ATGTTATACCTCATTACCAACTCTGAATGGGTTGAATGCAAAAAATTGAATC
1 ATGTTATACCTCATTACCAACTCTGAACGGGTTGAATGCAAAAAATTGAATC
12952346 AAATTCTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (53 bp):
ATGTTATACCTCATTACCAACTCTGAACGGGTTGAATGCAAAAAATTGAATCG
Found at i:12960635 original size:17 final size:17
Alignment explanation
Indices: 12960579--12960638 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
12960569 TCTTATTTAT
12960579 ATATTTAATATTTCACAATA
1 ATATTTAA-A-TT-ACAATA
* * *
12960599 AAATTTATTATTA-AAAA
1 ATATTTA-AATTACAATA
12960616 ATATTTAAATTACAATA
1 ATATTTAAATTACAATA
12960633 ATATTT
1 ATATTT
12960639 CACAATACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
16 4 0.12
17 18 0.56
18 1 0.03
19 2 0.06
20 7 0.22
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATTTAAATTACAATA
Found at i:12961250 original size:9 final size:9
Alignment explanation
Indices: 12961220--12961268 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
12961210 TTGGTTATAC
12961220 TTTAACATTT
1 TTTAA-ATTT
*
12961230 TTTAAAATT
1 TTTAAATTT
12961239 TTTAAATTTT
1 TTTAAA-TTT
*
12961249 TTTAAGTTT
1 TTTAAATTT
12961258 TTTGAAATTT
1 TTT-AAATTT
12961268 T
1 T
12961269 AAATATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 15 0.45
10 18 0.55
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTAAATTT
Found at i:12961629 original size:21 final size:21
Alignment explanation
Indices: 12961605--12961649 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
12961595 ATTAGAATGT
12961605 AATACAGTTTAT-AATAATTAA
1 AATA-AGTTTATAAATAATTAA
**
12961626 AATATTTTTATAAATAATTAA
1 AATAAGTTTATAAATAATTAA
12961647 AAT
1 AAT
12961650 TTTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
AATAAGTTTATAAATAATTAA
Found at i:12961657 original size:21 final size:20
Alignment explanation
Indices: 12961612--12961672 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
12961602 TGTAATACAG
12961612 TTTATAATAATTAAAATATT
1 TTTATAATAATTAAAATATT
12961632 TTTATAAATAATTAAAAT-TT
1 TTTAT-AATAATTAAAATATT
* *
12961652 TATTATTTATAATTGAAATAT
1 T-TTA-TAATAATTAAAATAT
12961673 ATTAAGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 8 0.23
21 25 0.71
22 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTATAATAATTAAAATATT
Found at i:12970934 original size:1 final size:1
Alignment explanation
Indices: 12970928--12970952 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
12970918 TTGTTTCGTC
12970928 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
12970953 ATCTTTGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:12971144 original size:30 final size:30
Alignment explanation
Indices: 12971087--12971144 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
12971077 ATGTATTTTT
*
12971087 TTTTCTTCTTTTACCAATTTTCTTACTTAA
1 TTTTCTTCTTCTACCAATTTTCTTACTTAA
* *
12971117 TTTTGTTCTTCTACCGATGTTTC-TACTT
1 TTTTCTTCTTCTACCAAT-TTTCTTACTT
12971145 TAGTTTGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.16, C:0.21, G:0.05, T:0.59
Consensus pattern (30 bp):
TTTTCTTCTTCTACCAATTTTCTTACTTAA
Found at i:12971817 original size:22 final size:22
Alignment explanation
Indices: 12971789--12971830 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
12971779 TTCGATTAAC
12971789 TAAAGATTTATTAACCACTAAT
1 TAAAGATTTATTAACCACTAAT
*
12971811 TAAAGATTTGTTAACCACTA
1 TAAAGATTTATTAACCACTA
12971831 CACCACTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (22 bp):
TAAAGATTTATTAACCACTAAT
Found at i:12973633 original size:2 final size:2
Alignment explanation
Indices: 12973626--12973657 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12973616 TAAATATAAC
12973626 AT 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 AT
12973658 TATTTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12977945 original size:24 final size:24
Alignment explanation
Indices: 12977917--12977970 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
12977907 GATTGGGGAG
* *
12977917 ATAATTTATCTTGGTTATCTGAGC
1 ATAATTTATCTTGGCTATCAGAGC
12977941 ATAATTTATCTTGGCTATCAGAGC
1 ATAATTTATCTTGGCTATCAGAGC
*
12977965 AGAATT
1 ATAATT
12977971 GGCTTCTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (24 bp):
ATAATTTATCTTGGCTATCAGAGC
Found at i:12983679 original size:15 final size:15
Alignment explanation
Indices: 12983659--12983688 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12983649 AAATGTCATG
12983659 TTAATTTTAATTAAT
1 TTAATTTTAATTAAT
*
12983674 TTAATTTTACTTAAT
1 TTAATTTTAATTAAT
12983689 CAAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTAATTAAT
Found at i:12984862 original size:16 final size:16
Alignment explanation
Indices: 12984841--12984871 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12984831 CTATGCATGC
*
12984841 AAAATATAAAAGACAG
1 AAAATAAAAAAGACAG
12984857 AAAATAAAAAAGACA
1 AAAATAAAAAAGACA
12984872 TAATAGTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAGACAG
Found at i:12990491 original size:19 final size:19
Alignment explanation
Indices: 12990467--12990503 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12990457 AAAGTTAATA
*
12990467 ACAAATTTAATTTCGGTGG
1 ACAAATTTAATTACGGTGG
*
12990486 ACAAATTTGATTACGGTG
1 ACAAATTTAATTACGGTG
12990504 AGTGATAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (19 bp):
ACAAATTTAATTACGGTGG
Found at i:12990844 original size:72 final size:71
Alignment explanation
Indices: 12990742--12990880 Score: 197
Period size: 72 Copynumber: 1.9 Consensus size: 71
12990732 TGGCCGAATG
* *
12990742 TGCCAATAGCATGTTTTGATATGTTAAACTATAAGTGCAATTAGTATGTTCTGATAAGTTTTATT
1 TGCCAATAGCATGTTTTGATATGTTAAACTATAAGTGCAACTAGTACGTTCTGATAAGTTTTATT
12990807 TGACTA
66 TGACTA
* * * * **
12990813 TGCCAATAGCATGTTTTTGATCTGTTAAACTATATGTGGAACTAGTACGTTTTGATCTGTTTTAT
1 TGCCAATAGCATG-TTTTGATATGTTAAACTATAAGTGCAACTAGTACGTTCTGATAAGTTTTAT
12990878 TTG
65 TTG
12990881 CATATGGGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
71 13 0.22
72 46 0.78
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (71 bp):
TGCCAATAGCATGTTTTGATATGTTAAACTATAAGTGCAACTAGTACGTTCTGATAAGTTTTATT
TGACTA
Found at i:12995273 original size:23 final size:23
Alignment explanation
Indices: 12995243--12995296 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
12995233 CTGATGAACA
*
12995243 GTAAGCTCTATTGAGCTTAAACG
1 GTAAGCTCTATTGAGCTAAAACG
12995266 GTAAGCTCTATTGAGCTAAAACG
1 GTAAGCTCTATTGAGCTAAAACG
*
12995289 ATAAGCTC
1 GTAAGCTC
12995297 ATACGAGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTAAAACG
Found at i:12995304 original size:23 final size:22
Alignment explanation
Indices: 12995255--12995363 Score: 89
Period size: 22 Copynumber: 4.8 Consensus size: 22
12995245 AAGCTCTATT
* *
12995255 GAGCTTAAACGGTAAGCTC-TATT
1 GAGC-TAAACGATAAGCTCATA-C
12995278 GAGCTAAAACGATAAGCTCATAC
1 GAGCT-AAACGATAAGCTCATAC
*
12995301 GAGCTGAAC-AGTAAGCTCATAC
1 GAGCTAAACGA-TAAGCTCATAC
*
12995323 GAGCTGAAC-AGTAAGCTCATAC
1 GAGCTAAACGA-TAAGCTCATAC
* *
12995345 GAGCTGAAATGGTAAGCTC
1 GAGCT-AAACGATAAGCTC
12995364 CAATGAGTTG
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.01
22 42 0.56
23 30 0.40
24 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (22 bp):
GAGCTAAACGATAAGCTCATAC
Found at i:12995318 original size:22 final size:22
Alignment explanation
Indices: 12995290--12995423 Score: 128
Period size: 22 Copynumber: 5.8 Consensus size: 22
12995280 GCTAAAACGA
12995290 TAAGCTCATACGAGCTGAACAG
1 TAAGCTCATACGAGCTGAACAG
12995312 TAAGCTCATACGAGCTGAACAG
1 TAAGCTCATACGAGCTGAACAG
12995334 TAAGCTCATACGAGCTGAA-ATGG
1 TAAGCTCATACGAGCTGAACA--G
* * *
12995357 TAAGCTCCA-ATGAGTTGAAAATAG
1 TAAGCT-CATACGAGCTG--AACAG
* *
12995381 TAAGCTCTTTCGAGCTGATACATCGG
1 TAAGCTCATACGAGCTGA-ACA---G
12995407 TAAGCTCATACGAGCTG
1 TAAGCTCATACGAGCTG
12995424 TGGTGAGTCG
Statistics
Matches: 92, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.01
22 42 0.46
23 16 0.17
24 14 0.15
25 2 0.02
26 17 0.18
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (22 bp):
TAAGCTCATACGAGCTGAACAG
Found at i:12998100 original size:25 final size:25
Alignment explanation
Indices: 12998072--12998122 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
12998062 CTAGACCCGA
12998072 CCCATGAAAACCTTTAATAAACATT
1 CCCATGAAAACCTTTAATAAACATT
12998097 CCCATGAAAACCTTTAATAAACATT
1 CCCATGAAAACCTTTAATAAACATT
12998122 C
1 C
12998123 TTTTCTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.25, G:0.04, T:0.27
Consensus pattern (25 bp):
CCCATGAAAACCTTTAATAAACATT
Found at i:13004476 original size:41 final size:42
Alignment explanation
Indices: 13004417--13004542 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
13004407 CTTCGTTTTC
** *
13004417 TCGATGCCATAGTTCAACTATGGT-TTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
13004459 T-GATGCCATAGCCCAACTATGGTGTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
13004500 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
13004541 TC
1 TC
13004543 TCACTGATGC
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
41 30 0.41
42 43 0.58
43 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:13004604 original size:47 final size:46
Alignment explanation
Indices: 13004501--13004624 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
13004491 ATTCATATAT
* * * * *
13004501 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
13004547 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
13004594 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
13004625 GAAATCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:13004685 original size:31 final size:31
Alignment explanation
Indices: 13004649--13004828 Score: 247
Period size: 31 Copynumber: 5.8 Consensus size: 31
13004639 CTTGTCACTT
* *
13004649 GTAGCCGAAGCTACCACTATTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
13004680 ATAGCC-AGAGCTACCATTTTTCACTGATCAT
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
13004711 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
13004742 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
* *
13004773 GTGGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
13004804 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
13004829 TGTCATTTGT
Statistics
Matches: 131, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
30 4 0.03
31 125 0.95
32 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:13004910 original size:50 final size:51
Alignment explanation
Indices: 13004804--13004932 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
13004794 CACTGATCAG
* * *
13004804 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
13004855 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
13004905 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
13004933 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:13013529 original size:34 final size:34
Alignment explanation
Indices: 13013490--13013559 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
13013480 TCTTACATAC
13013490 TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
1 TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
13013524 TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
1 TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
13013558 TG
1 TG
13013560 GTATTGCAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.11, C:0.11, G:0.21, T:0.56
Consensus pattern (34 bp):
TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
Found at i:13022865 original size:11 final size:11
Alignment explanation
Indices: 13022836--13022879 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
13022826 ACTTAATCAT
13022836 TAATAAATATAA
1 TAATAAA-ATAA
*
13022848 AAATAAAATAA
1 TAATAAAATAA
*
13022859 TAGTAAAATAA
1 TAATAAAATAA
13022870 TAATAAAATA
1 TAATAAAATA
13022880 TTTTAACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 22 0.79
12 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:13023825 original size:26 final size:24
Alignment explanation
Indices: 13023785--13023844 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
13023775 TTATTTCATT
* * *
13023785 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
13023809 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
13023835 AAATAAATAT
1 AAATAAATAT
13023845 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:13023856 original size:22 final size:22
Alignment explanation
Indices: 13023815--13023873 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
13023805 ATAATAAATC
* *
13023815 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
13023835 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
13023857 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
13023874 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:13023941 original size:15 final size:14
Alignment explanation
Indices: 13023929--13023959 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
13023919 ATTAAAAATT
13023929 TAAAATAATAAAAAA
1 TAAAATAA-AAAAAA
13023944 TAAAATAAAAAAAA
1 TAAAATAAAAAAAA
13023958 TA
1 TA
13023960 TATTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAAATAAAAAAAA
Found at i:13024967 original size:21 final size:23
Alignment explanation
Indices: 13024932--13024981 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
13024922 AACTCATCAA
13024932 TTTTAATATTATAA-TAGAAA-AT
1 TTTTAATATTATAATTA-AAATAT
*
13024954 TTTTAA-ATTTTAATTAAAATAT
1 TTTTAATATTATAATTAAAATAT
13024976 TTTTAA
1 TTTTAA
13024982 CATCTTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTTAATATTATAATTAAAATAT
Found at i:13030867 original size:4 final size:4
Alignment explanation
Indices: 13030858--13030885 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
13030848 GGATAGATTA
13030858 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
13030886 TTCCGTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:13035769 original size:2 final size:2
Alignment explanation
Indices: 13035762--13035800 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13035752 TTTAATTGTT
13035762 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13035801 CCCTTTAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13036611 original size:16 final size:16
Alignment explanation
Indices: 13036590--13036621 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13036580 ACTTGGTTTG
*
13036590 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
13036606 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
13036622 TAATTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:13055999 original size:18 final size:18
Alignment explanation
Indices: 13055978--13056023 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
13055968 CGATCAAATG
13055978 TTCAGTAACAATT-AGTTA
1 TTCAGTAACAATTGA-TTA
*
13055996 TTCAGTATCAATTGATTA
1 TTCAGTAACAATTGATTA
13056014 TTCAGTAACA
1 TTCAGTAACA
13056024 GTTGGTATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (18 bp):
TTCAGTAACAATTGATTA
Found at i:13056194 original size:18 final size:18
Alignment explanation
Indices: 13056151--13056194 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
13056141 AGTCGAAAAA
*
13056151 TAAAAGTAACAGTGACCG
1 TAAAAGTAACAGTGACAG
*
13056169 TAACAGTAACAGT-ACAG
1 TAAAAGTAACAGTGACAG
13056186 TACAAAGTA
1 TA-AAAGTA
13056195 CTTCATCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (18 bp):
TAAAAGTAACAGTGACAG
Found at i:13057401 original size:16 final size:17
Alignment explanation
Indices: 13057363--13057455 Score: 63
Period size: 16 Copynumber: 5.7 Consensus size: 17
13057353 TACACTTGTC
*
13057363 ATAAT-TAAATTTATTT
1 ATAATATAAATATATTT
*
13057379 ATTATATAAATAT-TTT
1 ATAATATAAATATATTT
*
13057395 ATAATAT-AAT-TACTT
1 ATAATATAAATATATTT
* *
13057410 A-ATTAATAAATATCTTT
1 ATAAT-ATAAATATATTT
* *
13057427 AATAATAAAAATATATTA
1 -ATAATATAAATATATTT
13057445 ATAAT-TAAATA
1 ATAATATAAATA
13057456 CATGTATTAC
Statistics
Matches: 58, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
14 3 0.05
15 8 0.14
16 21 0.36
17 14 0.24
18 10 0.17
19 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATATAAATATATTT
Found at i:13057432 original size:20 final size:18
Alignment explanation
Indices: 13057409--13057453 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
13057399 TATAATTACT
*
13057409 TAATTAATAAATATCTTTAA
1 TAATTAA-AAATAT-ATTAA
13057429 TAA-TAAAAATATATTAA
1 TAATTAAAAATATATTAA
13057446 TAATTAAA
1 TAATTAAA
13057454 TACATGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 7 0.30
18 10 0.43
19 3 0.13
20 3 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATTAAAAATATATTAA
Found at i:13061838 original size:46 final size:46
Alignment explanation
Indices: 13061786--13061909 Score: 212
Period size: 46 Copynumber: 2.7 Consensus size: 46
13061776 GTGTGCTCTT
13061786 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACC
* *
13061832 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACC
*
13061878 TGATATGAAACGTGTAAGACCATGGTATGAAA
1 TGATATGAAATGTGTAAGACCATGGT-TGAAA
13061910 CGTGTAAGAC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 69 0.93
47 5 0.07
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACC
Found at i:13061907 original size:22 final size:22
Alignment explanation
Indices: 13061881--13061930 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
13061871 GGCAGCCTGA
13061881 TATGAAACGTGTAAGACCATGG
1 TATGAAACGTGTAAGACCATGG
13061903 TATGAAACGTGTAAGACCATGG
1 TATGAAACGTGTAAGACCATGG
13061925 T-TGAAA
1 TATGAAA
13061931 GATACCATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (22 bp):
TATGAAACGTGTAAGACCATGG
Found at i:13061916 original size:68 final size:68
Alignment explanation
Indices: 13061835--13061976 Score: 268
Period size: 68 Copynumber: 2.1 Consensus size: 68
13061825 GACAACCTGA
*
13061835 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCA
1 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCA
13061900 TGG
66 TGG
13061903 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCA
1 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCA
13061968 TGG
66 TGG
13061971 T-TGAAA
1 TATGAAA
13061977 GATACCATGG
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 5 0.07
68 68 0.93
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (68 bp):
TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCA
TGG
Done.