Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 20 of 125
Found at i:6182370 original size:18 final size:18
Alignment explanation
Indices: 6182310--6182377 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 18
6182300 CTCACAACAA
* *
6182310 AAAATACAAAATAATTCTCA
1 AAAATTCAAAATAATT-T-T
6182330 AAAATTCAAAATAAATTTT
1 AAAATTCAAAAT-AATTTT
6182349 -AAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTT-T
6182366 AAAATTCCAAAA
1 AAAATT-CAAAA
6182378 ATTAAAGATA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
16 4 0.10
17 1 0.02
18 16 0.38
19 5 0.12
20 12 0.29
21 4 0.10
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATTCAAAATAATTTT
Found at i:6184496 original size:78 final size:77
Alignment explanation
Indices: 6184305--6184548 Score: 341
Period size: 78 Copynumber: 3.2 Consensus size: 77
6184295 TGTTCATTTT
** * * * * *
6184305 TTTTTCATTTTTAGGGTAAATTGTAAATAAGTATATTGTTTATGT-AAAATACAATA-GA-ATAC
1 TTTTTCATTTTTTTGGTAAATTGTAAATAAGTATACTATTGATGTAAAAATTCAATACAATATAC
6184367 AATACAAACAAA
66 AATACAAACAAA
6184379 TTTTTCATTTTTTTGGTAAATTGTAAATAAGTATACTATTGATGTAAAAATTCAATACAATATAC
1 TTTTTCATTTTTTTGGTAAATTGTAAATAAGTATACTATTGATGTAAAAATTCAATACAATATAC
*
6184444 AATATAAACAAA
66 AATACAAACAAA
* *
6184456 TTTTTCATTTTTTTTGGTAAATTGTAAATAAGTATACTATTGATGCAAAACTTCAATACAATATA
1 TTTTTCA-TTTTTTTGGTAAATTGTAAATAAGTATACTATTGATGTAAAAATTCAATACAATATA
*
6184521 CAATACAAACAATT
65 CAATACAAACAA-A
*
6184535 TTTTTCTTTTTTTT
1 TTTTTCATTTTTTT
6184549 ATAAACATAC
Statistics
Matches: 152, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
74 40 0.26
75 10 0.07
76 1 0.01
77 22 0.14
78 73 0.48
79 6 0.04
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.43
Consensus pattern (77 bp):
TTTTTCATTTTTTTGGTAAATTGTAAATAAGTATACTATTGATGTAAAAATTCAATACAATATAC
AATACAAACAAA
Found at i:6189265 original size:23 final size:23
Alignment explanation
Indices: 6189226--6189296 Score: 63
Period size: 24 Copynumber: 3.1 Consensus size: 23
6189216 CAAAGAAATT
* *
6189226 AAAAAAAAT-AAAGAATTGAGAG
1 AAAATAAATGAAAAAATTGAGAG
* *
6189248 AAATTAAATGAAAAAATTGAGAAT
1 AAAATAAATGAAAAAATTGAG-AG
** *
6189272 AAAATAGTTGAGAAAATTGAGAG
1 AAAATAAATGAAAAAATTGAGAG
6189295 AA
1 AA
6189297 TAGAATTGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
22 7 0.18
23 13 0.34
24 18 0.47
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (23 bp):
AAAATAAATGAAAAAATTGAGAG
Found at i:6189350 original size:28 final size:30
Alignment explanation
Indices: 6189284--6189352 Score: 79
Period size: 33 Copynumber: 2.3 Consensus size: 30
6189274 AATAGTTGAG
* *
6189284 AAAATTGAGAGAATAGAATTGAATGAGATTA
1 AAAAATGAGAGAATAGAATAGAATGAGA-TA
6189315 AGAGAAATGAGAGAATAGAATAGAATG-GA-A
1 A-A-AAATGAGAGAATAGAATAGAATGAGATA
6189345 AAAAATGA
1 AAAAATGA
6189353 AGATAAGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
28 6 0.18
29 1 0.03
30 2 0.06
31 1 0.03
32 3 0.09
33 21 0.62
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.19
Consensus pattern (30 bp):
AAAAATGAGAGAATAGAATAGAATGAGATA
Found at i:6199690 original size:16 final size:14
Alignment explanation
Indices: 6199649--6199696 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 14
6199639 AAAATATAAA
6199649 AAAATTATATTTA-
1 AAAATTATATTTAT
*
6199662 AAAATTAAAATTTATT
1 AAAATT-ATATTTA-T
6199678 AAAATTATCATTTAT
1 AAAATTAT-ATTTAT
6199693 AAAA
1 AAAA
6199697 AATAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 6 0.21
16 11 0.38
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTATATTTAT
Found at i:6200751 original size:26 final size:26
Alignment explanation
Indices: 6200698--6200773 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 26
6200688 CCATATTATT
*
6200698 TTTTTAAATATTT-AT-ATTATAT-TA
1 TTTTT-AATATTTAATAATTTTATATA
6200722 -TTTTAATATTTAATAATTTTATATA
1 TTTTTAATATTTAATAATTTTATATA
* * *
6200747 TTTTTTATTTATTAA-AATTTTTTATA
1 TTTTTAATAT-TTAATAATTTTATATA
6200773 T
1 T
6200774 AGTCATCATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 7 0.16
23 6 0.14
24 6 0.14
25 2 0.05
26 18 0.42
27 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTTAATATTTAATAATTTTATATA
Found at i:6206003 original size:25 final size:24
Alignment explanation
Indices: 6205946--6206004 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
6205936 AAAAATAGGT
* *
6205946 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATCA
6205969 TATATTATAATTTTTACTAAT-TCA
1 TATATTATAATTTTT-CTAATATCA
*
6205993 TATTTTAATAAT
1 TATATT-ATAAT
6206005 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATCA
Found at i:6206015 original size:15 final size:15
Alignment explanation
Indices: 6205997--6206088 Score: 57
Period size: 15 Copynumber: 6.2 Consensus size: 15
6205987 AATTCATATT
6205997 TTAATAATAATTATA
1 TTAATAATAATTATA
*
6206012 TTAAAAAT-ATTAT-
1 TTAATAATAATTATA
* *
6206025 TAAATTATATATTAT-
1 TTAATAATA-ATTATA
* * *
6206040 TTTATTA-AATTTTA
1 TTAATAATAATTATA
6206054 TTTAATAATAATTATA
1 -TTAATAATAATTATA
* *
6206070 TTAAAATATAATTAAA
1 TTAATA-ATAATTATA
6206086 TTA
1 TTA
6206089 TATTTAATAA
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
13 9 0.15
14 6 0.10
15 27 0.46
16 17 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATAATAATTATA
Found at i:6206087 original size:37 final size:37
Alignment explanation
Indices: 6206043--6206118 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
6206033 ATATTATTTT
*
6206043 ATTAAATTTTATTTAATAATAAT-TATATTAAAATATA
1 ATTAAATTATATTTAATAATAATCT-TATTAAAATATA
*
6206080 ATTAAATTATATTTAATAATAATCTTATTAAAATTTA
1 ATTAAATTATATTTAATAATAATCTTATTAAAATATA
6206117 AT
1 AT
6206119 AAGAATAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTAAATTATATTTAATAATAATCTTATTAAAATATA
Found at i:6206295 original size:16 final size:16
Alignment explanation
Indices: 6206274--6206313 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
6206264 TGAATTACTG
6206274 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
6206290 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
6206306 ATTACAGC
1 ATTACAGC
6206314 GAACCAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:6214076 original size:35 final size:36
Alignment explanation
Indices: 6214035--6214113 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 36
6214025 TTTTTATTTT
* *
6214035 GAATCTCAAAAT-TTTAAATTTAAATCTCGAATCTC
1 GAATCTCAAAATCTTGAAATTTAAATCTCGAACCTC
* *
6214070 GAATCTC-AAATCTTGAAATTTAAATCTTGAGCCTC
1 GAATCTCAAAATCTTGAAATTTAAATCTCGAACCTC
6214105 GAATC-CAAA
1 GAATCTCAAA
6214114 CTCGAACTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 5 0.13
35 33 0.87
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (36 bp):
GAATCTCAAAATCTTGAAATTTAAATCTCGAACCTC
Found at i:6215255 original size:24 final size:23
Alignment explanation
Indices: 6215228--6215293 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
6215218 TCCAAACTTT
6215228 TTAAACAATAAAGTATTAACTCTG
1 TTAAACAATAAA-TATTAACTCTG
* * * *
6215252 TTAAATAATAAATAAT-ATTCTT
1 TTAAACAATAAATATTAACTCTG
6215274 TTAAACAATAAA-ATTTAACT
1 TTAAACAATAAATA-TTAACT
6215294 TTCATTCTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
21 1 0.03
22 16 0.48
23 5 0.15
24 11 0.33
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (23 bp):
TTAAACAATAAATATTAACTCTG
Found at i:6215592 original size:24 final size:24
Alignment explanation
Indices: 6215565--6215611 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
6215555 ATATTTATAG
6215565 GCTTTTATAATTTCGTAATAATTC
1 GCTTTTATAATTTCGTAATAATTC
*
6215589 GCTTTTATAATTTTGTAATAATT
1 GCTTTTATAATTTCGTAATAATT
6215612 GAACAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.53
Consensus pattern (24 bp):
GCTTTTATAATTTCGTAATAATTC
Found at i:6215917 original size:20 final size:21
Alignment explanation
Indices: 6215892--6215941 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
6215882 CTATTAGAAT
6215892 CTCGAACTT-TAAA-TCTTAAA-
1 CTCGAA-TTCTAAATTC-TAAAC
6215912 CTCGAATTCTAAATTCTAAAC
1 CTCGAATTCTAAATTCTAAAC
6215933 CTCGAATTC
1 CTCGAATTC
6215942 CCTGAGCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.07
20 14 0.52
21 11 0.41
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (21 bp):
CTCGAATTCTAAATTCTAAAC
Found at i:6217083 original size:22 final size:22
Alignment explanation
Indices: 6217058--6217099 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6217048 ATATAATAGC
**
6217058 GAAACAACAGTAAAACAACAAT
1 GAAACAACAACAAAACAACAAT
*
6217080 GAAACGACAACAAAACAACA
1 GAAACAACAACAAAACAACA
6217100 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.21, G:0.10, T:0.05
Consensus pattern (22 bp):
GAAACAACAACAAAACAACAAT
Found at i:6219079 original size:38 final size:34
Alignment explanation
Indices: 6219012--6219092 Score: 81
Period size: 35 Copynumber: 2.2 Consensus size: 34
6219002 TTTGTTGTTG
* *
6219012 TTTTTAATTTATTGTTAATAATTATTATAAATTAT
1 TTTTTAGTTTAATGTTAATAATTATTAT-AATTAT
* *
6219047 TTTTTAGTTTAATGTTTAATATATTTGTTATAATTTT
1 TTTTTAGTTTAATG-TTAATA-A-TTATTATAATTAT
6219084 TTGTTTAGT
1 TT-TTTAGT
6219093 AGGCTAGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
35 12 0.32
36 6 0.16
37 8 0.21
38 12 0.32
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (34 bp):
TTTTTAGTTTAATGTTAATAATTATTATAATTAT
Found at i:6219173 original size:24 final size:23
Alignment explanation
Indices: 6219146--6219228 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 23
6219136 TATTTTGTTG
6219146 TTTTTTAATGTAATTTAAAGTTAT
1 TTTTTTAAT-TAATTTAAAGTTAT
6219170 TTTTTAGTAATT-ATTATAAA-TTAT
1 TTTTT--TAATTAATT-TAAAGTTAT
* * * *
6219194 TTGTTTAATTTAATTTTATGTGAT
1 TTTTTTAA-TTAATTTAAAGTTAT
6219218 TTTTATTAATT
1 TTTT-TTAATT
6219229 TTTTATTTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
22 3 0.06
23 4 0.09
24 27 0.57
25 9 0.19
26 4 0.09
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTTTTAATTAATTTAAAGTTAT
Found at i:6228695 original size:12 final size:12
Alignment explanation
Indices: 6228678--6228703 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6228668 AGAAAACAGT
6228678 TTGTTCACTCTA
1 TTGTTCACTCTA
6228690 TTGTTCACTCTA
1 TTGTTCACTCTA
6228702 TT
1 TT
6228704 ATACCAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.08, T:0.54
Consensus pattern (12 bp):
TTGTTCACTCTA
Found at i:6229716 original size:22 final size:21
Alignment explanation
Indices: 6229686--6229729 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
6229676 TAAGTAAGAT
*
6229686 ATTATTTTTTATTTGATTAATA
1 ATTAATTTTTATTTGA-TAATA
*
6229708 ATTAATTTTTATTTTATAATA
1 ATTAATTTTTATTTGATAATA
6229729 A
1 A
6229730 AAATAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTAATTTTTATTTGATAATA
Found at i:6234575 original size:483 final size:483
Alignment explanation
Indices: 6233669--6234638 Score: 1579
Period size: 483 Copynumber: 2.0 Consensus size: 483
6233659 CACAACTTCA
6233669 TGCAGTTGGGTTCTCTCCTCTTGAGTTGCACTGAGCAGCTGCTCTGCTTCCAGAAACTCATTCTC
1 TGCAGTTGGGTTCTCTCCTCTTGAGTTGCACTGAGCAGCTGCTCTGCTTCCAGAAACTCATTCTC
* * * *
6233734 CTTCTGGCATAGTAGATCCTTTCCCTTCACGACTTCAGCATTTAACTGATCGCAAACAGATCTAA
66 CTTCAGGCATAATAAATCCTTTCCCTTCACAACTTCAGCATTTAACTGATCGCAAACAGATCTAA
* *
6233799 CTGAAACTAGTTCATTCTCCAAGTTCTGCACCGCATCCTTGAGATGTGAGTTTACCATTTGTGTT
131 CTGAAACTAGCTCATTCTCCAAGTTCTGCACCGCATCCTTGAGATGTGAGTTTACCATTTGCGTT
6233864 TCTTCAAACTTGATCCCCATTATCCTCAGCTTTCCCTCAAGATCATCATTGAAACATTTGAGTTT
196 TCTTCAAACTTGATCCCCATTATCCTCAGCTTTCCCTCAAGATCATCATTGAAACATTTGAGTTT
*
6233929 ATCCAGATTGGCACTGAGATGCTTTATTTCAACAAAATTATCAGTAATAATGTCCTTAAGAATAT
261 ATCCAGATTGGCACTGAGATGCTTTATTTCAACAAAATTATCAGTAATAATGTCCTTAAGAATAA
* * * *
6233994 GTGAAATGTTACTTTGAGTTATTGCTTCAGCAAAGACAGCGCAGTTTTCCTCTTCTAGATTGTGT
326 GAGAAATGTTACTTTGAGATATTGCTTCAGCAAAGACAGCACAATTTTCCTCTTCTAGATTGTGT
*
6234059 TTCTCCATGCCCAAGTCTGAAACAAACTTCATCAAAGTCCTTTTCTCATCTAGCACCATGTGGTT
391 TTCTCCATGCCCAAATCTGAAACAAACTTCATCAAAGTCCTTTTCTCATCTAGCACCATGTGGTT
6234124 CTCTTCAACTAAACTTTGATATGCCCTT
456 CTCTTCAACTAAACTTTGATATGCCCTT
* * * *
6234152 TGCAGTTGGTTTCTCTCCTCTTGAGTTGCACTGAGCATCTTCTCTGCTTCCA-AAAGCTCCTTCT
1 TGCAGTTGGGTTCTCTCCTCTTGAGTTGCACTGAGCAGCTGCTCTGCTTCCAGAAA-CTCATTCT
6234216 CCTTCAGGCATAATAAATCCTTTCCCTTCACAACTTC-GTCATTTAACTGATCGCAAACAGATCT
65 CCTTCAGGCATAATAAATCCTTTCCCTTCACAACTTCAG-CATTTAACTGATCGCAAACAGATCT
* *
6234280 AACTGAAACTAGCTCATTCTCCAAGTTCTGCACTGTATCCTTGAGATGTGAGTTTACCATTTGCG
129 AACTGAAACTAGCTCATTCTCCAAGTTCTGCACCGCATCCTTGAGATGTGAGTTTACCATTTGCG
* * * *
6234345 TTTCTTCAAGCTTGATCTCCATTATCCTCAGTTTTCCCTCAAGATCGTCATTGAAACATTTGAGT
194 TTTCTTCAAACTTGATCCCCATTATCCTCAGCTTTCCCTCAAGATCATCATTGAAACATTTGAGT
* * * *
6234410 TTGTCCAGATTGGCACTGAGATGCTTTATTTCCACAAAATTATCAGTAATAATGTTCTTGAGAAT
259 TTATCCAGATTGGCACTGAGATGCTTTATTTCAACAAAATTATCAGTAATAATGTCCTTAAGAAT
*
6234475 AAGAGCAATGTTACTTTGAGATATTGCTTC-GCCAAAGACAGCACAATTTTCCTCTTCTAGATTG
324 AAGAGAAATGTTACTTTGAGATATTGCTTCAG-CAAAGACAGCACAATTTTCCTCTTCTAGATTG
*** *
6234539 TGTTTCT-CATTGCCCAAATCTGAAACTTCCTTCATCAAAGTCCTTTTCTCATCTAGCACCTTGT
388 TGTTTCTCCA-TGCCCAAATCTGAAACAAACTTCATCAAAGTCCTTTTCTCATCTAGCACCATGT
* *
6234603 GGTTCTCTTGAACTGAACTTTGATATGCCCTT
452 GGTTCTCTTCAACTAAACTTTGATATGCCCTT
6234635 TGCA
1 TGCA
6234639 ACTCTGATAG
Statistics
Matches: 450, Mismatches: 33, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
482 7 0.02
483 443 0.98
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (483 bp):
TGCAGTTGGGTTCTCTCCTCTTGAGTTGCACTGAGCAGCTGCTCTGCTTCCAGAAACTCATTCTC
CTTCAGGCATAATAAATCCTTTCCCTTCACAACTTCAGCATTTAACTGATCGCAAACAGATCTAA
CTGAAACTAGCTCATTCTCCAAGTTCTGCACCGCATCCTTGAGATGTGAGTTTACCATTTGCGTT
TCTTCAAACTTGATCCCCATTATCCTCAGCTTTCCCTCAAGATCATCATTGAAACATTTGAGTTT
ATCCAGATTGGCACTGAGATGCTTTATTTCAACAAAATTATCAGTAATAATGTCCTTAAGAATAA
GAGAAATGTTACTTTGAGATATTGCTTCAGCAAAGACAGCACAATTTTCCTCTTCTAGATTGTGT
TTCTCCATGCCCAAATCTGAAACAAACTTCATCAAAGTCCTTTTCTCATCTAGCACCATGTGGTT
CTCTTCAACTAAACTTTGATATGCCCTT
Found at i:6236939 original size:855 final size:858
Alignment explanation
Indices: 6234766--6238260 Score: 3839
Period size: 888 Copynumber: 4.0 Consensus size: 858
6234756 TGTTCTGAAG
* * *
6234766 TTCTGAAAACTGCTCACACTGAACCTTCAACTCCAT-ATGTAGTGAATTA--TTC---T-C-AG-
1 TTCTGAAAACTGCTCAGACTGAACCTTCAACTCC-TGATGCAGTGAGTTATTTTCTGTTGCAAGA
* *
6234822 -TTTCAGCCTCTAGTTTCTGTTGCCTAAG-AATTCCAATAAGAACTGAATTCTCAATTATGAATT
65 TTTTCAGCCTCTAGTTTCAGTTGCCCAAGCAA-TCCAATAAGAACTGAATTCTCAATTATGAATT
* * *
6234885 GTTGATTTTCATCCAGAGACATTAGAAGTGAATTTTGCATCTTTTGGAGCCTGCCAAATATACAG
129 GCTGATTTTCATCCAGAGACTTTA-AAGTGAACTTTGCATCTTTTGGAGCCTGCCAAATATACAG
* *
6234950 TCAAGAACTGATTGGTCTAGTTTGATTGTATCATCATAACCACGGATAGCATCAACT-TCAAGAG
193 TCAAGAACTGATTGGTCTTGTTTGATT-TATCATCATAACCATGGATAGCATCAA-TATCAAGAG
* * * *
6235014 TCCTCAACATCTGATAAATCCCCATCCTCAGTACAG-AATTTTGATCAAATAAGGCTTTTATCTC
256 TCCTCAACATCTGAT-AAGCCCCATCCTCAGTATAGTAA-TTAGATCAAATAAGGATTTTATCTC
** * * * * ** * * *
6235078 TGTCTGTTTTATGGAATTTCCAAGCTCCAATTCTGAGATAAGTTCTTCTGATAATTTAGAGGCTT
319 CATCTGTTTTTTGGAATTTCCGAGCTCCAATTCAGAGATAAGTTTTTAGGA-AAATTGGACGCTT
* ** * * *
6235143 CCAAGAGGTTCCTACACTCAAGCACCAAGGATAAATTCTTCTCTTCCAGATCTTGTGCACATTTT
383 CCAAGAGTTTCCTACACTCAAGCAATAGGGATAAATTCTTCTCTTCCAGATCTTGTGCACATCTC
* * *
6235208 TGCAAGACGAAGGTTTCTACATGAGCATTCATGGCCTTATCTAGCTCCTCTTCATATTCTTTTTT
448 TGCAAAATGAAGGTTTCTACATGAGCATTCA----C----CT-G-----CGTC-----C----TT
* * * * * *
6235273 CATGCGCAGGCTTTCTCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAGC-CTTGGTTTCA
490 -GTGCACA-G-ATTCCCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTC-GGGTTTCA
* * *
6235337 TTCAACTTCACAAAACTAGCATGTTGC-TGCGTTTCAGCATCTAATGACCTTTGTAGTTCTTCTA
551 TTCAACTTCACAAAACTAGCATGTT-CTTGCTTTTCAGCATCTAATGACTTTTGTAGCTCTTCTA
** *
6235401 CTTCATGAAGCATTGATTCTCTCTCTTTCTCCAGGA-CCACATACTTTTCTTCTAATCCCTGATA
615 CTTCATGAAGTGTTGATTCTCTCTCTTTCTCCA-GACCCACATATTTTTCTTCTAATCCCTGATA
* *
6235465 TCTTTTTTCCAAATCTTCCATCCTTTTCTGACTGATATTCAACTCAGAAATCAAACCTTCTCTCT
679 TCTTTTTTCCAAATCTTCCAGCCTTTTCTGACTGACATTCAACTCAGAAATCAAACCTTCTCTCT
* *
6235530 GTGTTAGCAGACCAGACTTCTCATCACCAAGCAGCTGGTATGAAATTTCTAAGCTCTTTAATTTT
744 GTGTTAGCAGACCAGACTTCTCATCACCAAGCAGCAGGCATGAAATTTCTAAGCTCTTTAATTTT
* *
6235595 GTCC-TCAATCCTTCAACTTCAGCATTTGCATCACAAAGATAATTCTT-CAC
809 G-CCTTCAATCCTTCAACTTCAGCATTTGCATCAAAAAGATGATT-TTCCAC
*
6235645 TTCCGAAAACTGCTCAGACTGAACCTTCAACTCCTGATGCAGTGAGTTATTTTCTGTTGCAAGAT
1 TTCTGAAAACTGCTCAGACTGAACCTTCAACTCCTGATGCAGTGAGTTATTTTCTGTTGCAAGAT
* *
6235710 TTTCAGCCTCTAGCTTCAGTTGCCCAAGCAATCTAATAAGAACTGAATTCTCAATTATGAATTGC
66 TTTCAGCCTCTAGTTTCAGTTGCCCAAGCAATCCAATAAGAACTGAATTCTCAATTATGAATTGC
* * * *
6235775 TGATTTTCATCCTGAGACTTCAAAAGTGAATTTTGCATCTTTTGGAGTCTGCCAAATATACAGTC
131 TGATTTTCATCCAGAGACTT-TAAAGTGAACTTTGCATCTTTTGGAGCCTGCCAAATATACAGTC
* * * * **
6235840 AAGAACTGATTGGTCTTGTTTGATCATGTCATCATAACCGTGGATAGCATCGATCCCAAGAGTCC
195 AAGAACTGATTGGTCTTGTTTGAT-TTATCATCATAACCATGGATAGCATCAATATCAAGAGTCC
* *
6235905 TCAACATCTGATTAAGCCCCATCCTCAATATGGTAATTAGATCAAATAAGGATTTTATCTCCATC
259 TCAACATCTGA-TAAGCCCCATCCTCAGTATAGTAATTAGATCAAATAAGGATTTTATCTCCATC
* * * * **
6235970 TGTTTTCTGGAATTTCCTAGCTCCAATTCAGAGATAAGTATTTCA-GACAATTTCAACGCTTCCA
323 TGTTTTTTGGAATTTCCGAGCTCCAATTCAGAGATAAGT-TTTTAGGA-AAATTGGACGCTTCCA
* *
6236034 AGAGCTTCCTACACTCAAGCAATAGGGATAAATTCTTATCTTCCAGATCTTGTGCACATCTCTGC
386 AGAGTTTCCTACACTCAAGCAATAGGGATAAATTCTTCTCTTCCAGATCTTGTGCACATCTCTGC
* *
6236099 AAAACGAAGGTTTCTACATGAGCA-TC-CATG-G-CCTTGT-CA-AG-TTCCCCTTGTAGAAAAT
451 AAAATGAAGGTTTCTACATGAGCATTCACCTGCGTCCTTGTGCACAGATTCCCCTTGTAGAAAAT
*
6236157 GGATCTGAGATACCATAGAAGTAACTCGGGTTTCATTCAACTTCACAAAACTAGCATGTTCTTGC
516 GGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCACAAAACTAGCATGTTCTTGC
* * * * * *
6236222 ATTTCAACATCCAATGACTTTTGTAGCTCTTGTACTCCATGAAGTGCTGATTCTCTCTCTTTCTC
581 TTTTCAGCATCTAATGACTTTTGTAGCTCTTCTACTTCATGAAGTGTTGATTCTCTCTCTTTCTC
* * * *
6236287 CAAACCCACATATTTTTCTTCTAATTCCTGATAT-TGTTTTTCCAAATCTTTCAGCCTTTTCTGG
646 CAGACCCACATATTTTTCTTCTAATCCCTGATATCT-TTTTTCCAAATCTTCCAGCCTTTTCTGA
*
6236351 CTGACATTCAACTCAGAAGTCAAACCTTCTCTCTGTGTTAGCAGACCAGACTTCTCATCACCAAG
710 CTGACATTCAACTCAGAAATCAAACCTTCTCTCTGTGTTAGCAGACCAGACTTCTCATCACCAAG
* *
6236416 CAGCTGGTATGAAATTTCTAAGCTCTTTAATTTTGCCTTCAATCCTTCAACTTCAGCATTTGCAT
775 CAGCAGGCATGAAATTTCTAAGCTCTTTAATTTTGCCTTCAATCCTTCAACTTCAGCATTTGCAT
*
6236481 CACAAAGATGATTTTCCAC
840 CAAAAAGATGATTTTCCAC
* * *
6236500 TTCTGAAAATTGCTCAGACTGAACCTTCAGCTCCTGATGCAGTGAATTATTTTCTGTTGCAAGAT
1 TTCTGAAAACTGCTCAGACTGAACCTTCAACTCCTGATGCAGTGAGTTATTTTCTGTTGCAAGAT
*
6236565 TTTCAGCCTCTAGTTTCAGTTGCCCAAGCAATCCAATAAGAACTGAATTCTCAATTATGAACTGC
66 TTTCAGCCTCTAGTTTCAGTTGCCCAAGCAATCCAATAAGAACTGAATTCTCAATTATGAATTGC
* * *
6236630 TCATTTTCATCCAGAGACTTTAGAAGTGAACTTTGCATCTTTTGGAGCCTGCCAGATATACAGTT
131 TGATTTTCATCCAGAGACTTTA-AAGTGAACTTTGCATCTTTTGGAGCCTGCCAAATATACAGTC
* * *
6236695 AAGAATTGATTGATCTTGTTTGATTGTATCATCATAACCATGGATAGCATCAAAATCAAGAGTCC
195 AAGAACTGATTGGTCTTGTTTGATT-TATCATCATAACCATGGATAGCATCAATATCAAGAGTCC
* * * * *
6236760 TCAACATCTGATAGAGCCCCATCCTCAGTATAGTGATTTGATCAGATAAGGATTCTATCTCCACC
259 TCAACATCTGATA-AGCCCCATCCTCAGTATAGTAATTAGATCAAATAAGGATTTTATCTCCATC
* * * *
6236825 TGTTTTTTGGAATTTCCGAGCTCCAACTCGGAGATAAGTTTTTTGGATAATCTGGACGCTTCCAA
323 TGTTTTTTGGAATTTCCGAGCTCCAATTCAGAGATAAGTTTTTAGGAAAAT-TGGACGCTTCCAA
* * **
6236890 GAGTTTGCTACACTCACGCAATAGGGATAAATTCTTCTCTTTGAGATCTTGTGCACATCTCTGCA
387 GAGTTTCCTACACTCAAGCAATAGGGATAAATTCTTCTCTTCCAGATCTTGTGCACATCTCTGCA
6236955 AAATGAAGGTTTCTACATGAGCATTCATGGTCCTGTCCAGTTCCTCCTCGTATTCTTTCTTCCTG
452 AAATGAAGGTTTCTACATGAGCATTCA----CCTG--C-G-TCCT--T-G-------------TG
* * * * * * *
6237020 CATAGACTTTCTCCTTGTAGAAAATGGATTTGAGATTCCATAGAAGTGACACGGGCTTCATTCGA
493 CACAGA--TTCCCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAA
* * * * *
6237085 CTTCACAAATCTAGCATGTTCTTGCTTTTCCGCATCTAGTGACTTCTGTAGCTCTTCTACTTCAC
556 CTTCACAAAACTAGCATGTTCTTGCTTTTCAGCATCTAATGACTTTTGTAGCTCTTCTACTTCAT
* * * **
6237150 AAAGTGTTGATTCTCTCTCTTTCTCCAGACCCACGTATTTTTCCTCTAATCCCTGATATCTTTCC
621 GAAGTGTTGATTCTCTCTCTTTCTCCAGACCCACATATTTTTCTTCTAATCCCTGATATCTTTTT
* *
6237215 TCCAAATCTTCCAGCCTTTTCTGACTGACATTCAACTCAGATATCAAATCTTCTCTCTGTGTTAG
686 TCCAAATCTTCCAGCCTTTTCTGACTGACATTCAACTCAGAAATCAAACCTTCTCTCTGTGTTAG
* * *
6237280 CA-AGCCAGACTTCTCTTCACCAAGCTGCAGGCATGAACTTTCTAAGCTC-TTAAGTTTTGCTCT
751 CAGA-CCAGACTTCTCATCACCAAGCAGCAGGCATGAAATTTCTAAGCTCTTTAA-TTTTGC-CT
* * * * * * *
6237343 TGATAT--TTCAAGTTCAGCATTTGCATTAAAAAG-GGAAGTCTCCAA
813 TCA-ATCCTTCAACTTCAGCATTTGCATCAAAAAGATG-ATTTTCCAC
* * * * * *
6237388 TTCTGAGAACTGTTC-GAACTGAACCTTCAACTCCTGGTGCAGTGAGTTCTTCTCTGTAGCAAGA
1 TTCTGAAAACTGCTCAG-ACTGAACCTTCAACTCCTGATGCAGTGAGTTATTTTCTGTTGCAAGA
* *
6237452 TTTTCTGCCTCAAGTTTCAGTTGCCCAAGCAATCCAATAAGAACTGAATTCTCAATTATGAATTG
65 TTTTCAGCCTCTAGTTTCAGTTGCCCAAGCAATCCAATAAGAACTGAATTCTCAATTATGAATTG
* * *
6237517 CTGATTATCATCCAGAGACTTTAAATGTG-AGTTCTGCATCTTTTGGATCCCT-CCAAATATACA
130 CTGATTTTCATCCAGAGACTTTAAA-GTGAACTT-TGCATCTTTTGGA-GCCTGCCAAATATACA
* *
6237580 GTCAAGAACTAATTGGTCTTGTTTGATCTTATCATCATAACCATGG--A-CATCAATTTCAAGAG
192 GTCAAGAACTGATTGGTCTTGTTTGAT-TTATCATCATAACCATGGATAGCATCAATATCAAGAG
* * * *
6237642 -CATTCAGCATTTGATAAAGCCCCATCCTCAGTATAGTAATTCGATCAAATAAGGATTTTATCTC
256 TC-CTCAACATCTGAT-AAGCCCCATCCTCAGTATAGTAATTAGATCAAATAAGGATTTTATCTC
* ** * * *
6237706 CATCTCTTTTTCAGAATTTCTGAGCTCCAATTCAGAGATAAGTTTTTCAGAAAAATTGGAGGCTT
319 CATCTGTTTTTTGGAATTTCCGAGCTCCAATTCAGAGATAAGTTTTT-AGGAAAATTGGACGCTT
* * * *
6237771 CCAGGAGTTTCCTACACTCAAGCAGTAGGGATAAATTCTTCTCTTCCATATCTTGTGCACATTTC
383 CCAAGAGTTTCCTACACTCAAGCAATAGGGATAAATTCTTCTCTTCCAGATCTTGTGCACATCTC
*
6237836 TGCAAGATGAAGGTTTCTACATGAGCATTCATAGACCTGTCCAGTTCCTCTTCATATTCTTTCTT
448 TGCAAAATGAAGGTTTCTACATGAGCATTC----ACCTG--C-G-------------TC---C-T
* * *
6237901 TCTGCACAGACTTTCCCCTTGTAGAAAACGGATCTGAGATTCCATAGCAGTAACTCGGGTTTCAT
489 TGTGCACAGA--TTCCCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCAT
* ** * * * * *
6237966 TCAACTGCATGAAACTGGCATATTCTTGCTTTTCCGCGTCTAGTGACTTTTGTAGCTCTTCTACT
552 TCAACTTCACAAAACTAGCATGTTCTTGCTTTTCAGCATCTAATGACTTTTGTAGCTCTTCTACT
* * ** *
6238031 TCACT-AAGTGTTAATTCTCTCTCTTTCTCCAGGCCCATGTATTTTTCTTCTAAACCCTGATATC
617 TCA-TGAAGTGTTGATTCTCTCTCTTTCTCCAGACCCACATATTTTTCTTCTAATCCCTGATATC
* * * * *
6238095 TTTTTTCCAAATCTTCCAACCTTTTCTGACTGATACTCAACTCAGAAATCAAGCCTTCTCTTTGT
681 TTTTTTCCAAATCTTCCAGCCTTTTCTGACTGACATTCAACTCAGAAATCAAACCTTCTCTCTGT
* * * * * ** *
6238160 CTTATCAGGCCAGACTTCTCATCACCAAGCAGCAGGCATGAATTTTCTAAGCTCATTACCTTTAC
746 GTTAGCAGACCAGACTTCTCATCACCAAGCAGCAGGCATGAAATTTCTAAGCTCTTTAATTTTGC
* * *
6238225 CCTCAATCCTCCAAGTTCAGCATTTGCATCAAAAAG
811 CTTCAATCCTTCAACTTCAGCATTTGCATCAAAAAG
6238261 GGAATTCTCC
Statistics
Matches: 2256, Mismatches: 260, Indels: 194
0.83 0.10 0.07
Matches are distributed among these distances:
854 15 0.01
855 741 0.33
856 3 0.00
857 1 0.00
858 1 0.00
859 1 0.00
860 1 0.00
861 5 0.00
865 2 0.00
867 3 0.00
869 1 0.00
870 2 0.00
877 1 0.00
878 2 0.00
879 43 0.02
881 3 0.00
882 1 0.00
883 3 0.00
884 7 0.00
885 512 0.23
886 12 0.01
887 15 0.01
888 855 0.38
889 18 0.01
890 2 0.00
897 3 0.00
899 1 0.00
900 1 0.00
901 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (858 bp):
TTCTGAAAACTGCTCAGACTGAACCTTCAACTCCTGATGCAGTGAGTTATTTTCTGTTGCAAGAT
TTTCAGCCTCTAGTTTCAGTTGCCCAAGCAATCCAATAAGAACTGAATTCTCAATTATGAATTGC
TGATTTTCATCCAGAGACTTTAAAGTGAACTTTGCATCTTTTGGAGCCTGCCAAATATACAGTCA
AGAACTGATTGGTCTTGTTTGATTTATCATCATAACCATGGATAGCATCAATATCAAGAGTCCTC
AACATCTGATAAGCCCCATCCTCAGTATAGTAATTAGATCAAATAAGGATTTTATCTCCATCTGT
TTTTTGGAATTTCCGAGCTCCAATTCAGAGATAAGTTTTTAGGAAAATTGGACGCTTCCAAGAGT
TTCCTACACTCAAGCAATAGGGATAAATTCTTCTCTTCCAGATCTTGTGCACATCTCTGCAAAAT
GAAGGTTTCTACATGAGCATTCACCTGCGTCCTTGTGCACAGATTCCCCTTGTAGAAAATGGATC
TGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCACAAAACTAGCATGTTCTTGCTTTTC
AGCATCTAATGACTTTTGTAGCTCTTCTACTTCATGAAGTGTTGATTCTCTCTCTTTCTCCAGAC
CCACATATTTTTCTTCTAATCCCTGATATCTTTTTTCCAAATCTTCCAGCCTTTTCTGACTGACA
TTCAACTCAGAAATCAAACCTTCTCTCTGTGTTAGCAGACCAGACTTCTCATCACCAAGCAGCAG
GCATGAAATTTCTAAGCTCTTTAATTTTGCCTTCAATCCTTCAACTTCAGCATTTGCATCAAAAA
GATGATTTTCCAC
Found at i:6238058 original size:885 final size:884
Alignment explanation
Indices: 6236140--6238271 Score: 2825
Period size: 885 Copynumber: 2.4 Consensus size: 884
6236130 CCTTGTCAAG
*
6236140 TTCCCCTTGTAGAAAATGGATCTGAGATACCATAGAAGTAACTCGGGTTTCATTCAACTTCACAA
1 TTCCCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCA-AA
* ** * * * * *
6236205 AACTAGCATGTTCTTGCATTTCAACATCCAATGACTTTTGTAGCTCTTGTACTCCA-TGAAGTGC
65 AACTAGCATGTTCTTGCTTTTCCGCATCTAGTGACTTTTGTAGCTCTTCTACTTCACT-AAGTGT
* * *
6236269 TGATTCTCTCTCTTTCTCCAAACCCACATATTTTTCTTCTAATTCCTGATAT-TGTTTTTCCAAA
129 TGATTCTCTCTCTTTCTCCAGACCCACGTATTTTTCTTCTAATCCCTGATATCT-TTTTTCCAAA
* *
6236333 TCTTTCAGCCTTTTCTGGCTGACATTCAACTCAGAAGTCAAACCTTCTCTCTGTGTTAGC-AGAC
193 TCTTCCAGCCTTTTCTGACTGACATTCAACTCAGAA-TCAAACCTTCTCTCTGTGTTAGCAAG-C
* * * **
6236397 CAGACTTCTCATCACCAAGCAGCTGGTATGAAATTTCTAAGCTCTTTAATTTTGCCTTCAATCCT
256 CAGACTTCTCATCACCAAGCAGCAGGCATGAAATTTCTAAGCTCATTAATTTTGCCTT-AATATT
* * * * * *
6236462 TCAACTTCAGCATTTGCATCACAAAGATG-ATTTTCCACTTCTGAAAATTGCTCAGACTGAACCT
320 TCAAGTTCAGCATTTGCATCAAAAAG-GGAATTCTCCAATTCTGAAAACTGCTCAGACTGAACCT
* * * *
6236526 TCAGCTCCTGATGCAGTGAATTATTTTCTGTTGCAAGATTTTCAGCCTCTAGTTTCAGTTGCCCA
384 TCAACTCCTGATGCAGTGAATTATTCTCTGTAGCAAGATTTTCAGCCTCAAGTTTCAGTTGCCCA
*
6236591 AGCAATCCAATAAGAACTGAATTCTCAATTATGAACTGCTCATTTTCATCCAGAGACTTTAGAAG
449 AGCAATCCAATAAGAACTGAATTCTCAATTATGAACTGCTCATTATCATCCAGAGACTTTAGAAG
* * * * *
6236656 TGAACTTTGCATCTTTTGGAGCCTGCCAGATATACAGTTAAGAATTGATTGATCTTGTTTGATTG
514 TGAACTTTGCATCTTTTGGACCCTGCCAAATATACAGTCAAGAACTAATTGATCTTGTTTGATTG
*
6236721 TATCATCATAACCATGGATAGCATCAAAATCAAGAGTCCTCAACATCTGATAGAGCCCCATCCTC
579 TATCATCATAACCATGGA-AGCATCAAAATCAAGAGTCCTCAACATCTGATAAAGCCCCATCCTC
* * * * **
6236786 AGTATAGTGATTTGATCAGATAAGGATTCTATCTCCACCTGTTTTTTGGAATTTCCGAGCTCCAA
643 AGTATAGTAATTCGATCAAATAAGGATTCTATCTCCACCTCTTTTTCAGAATTTCCGAGCTCCAA
* * * * * *
6236851 CTCGGAGATAAGTTTTTTGGATAATCTGGACGCTTCCAAGAGTTTGCTACACTCACGCAATAGGG
708 CTCAGAGATAAGTTTTTAGAAAAATCTGGACGCTTCCAAGAGTTTCCTACACTCAAGCAATAGGG
**
6236916 ATAAATTCTTCTCTTTGAGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAGCATTC
773 ATAAATTCTTCTCTTCCAGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAGCATTC
* * * *
6236981 ATGGTCCTGTCCAGTTCCTCCTCGTATTCTTTCTTCCTGCATAGACT
838 ATAGACCTGTCCAGTTCCTCCTCATATTCTTTCTTCCTGCACAGACT
* * * * * *
6237028 TTCTCCTTGTAGAAAATGGATTTGAGATTCCATAGAAGTGACACGGGCTTCATTCGACTTCACAA
1 TTCCCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCA-AA
* * *
6237093 ATCTAGCATGTTCTTGCTTTTCCGCATCTAGTGACTTCTGTAGCTCTTCTACTTCACAAAGTGTT
65 AACTAGCATGTTCTTGCTTTTCCGCATCTAGTGACTTTTGTAGCTCTTCTACTTCACTAAGTGTT
* **
6237158 GATTCTCTCTCTTTCTCCAGACCCACGTATTTTTCCTCTAATCCCTGATATCTTTCCTCCAAATC
130 GATTCTCTCTCTTTCTCCAGACCCACGTATTTTTCTTCTAATCCCTGATATCTTTTTTCCAAATC
*
6237223 TTCCAGCCTTTTCTGACTGACATTCAACTCAGATATCAAATCTTCTCTCTGTGTTAGCAAGCCAG
195 TTCCAGCCTTTTCTGACTGACATTCAACTCAGA-ATCAAACCTTCTCTCTGTGTTAGCAAGCCAG
* * * *
6237288 ACTTCTCTTCACCAAGCTGCAGGCATGAACTTTCTAAGCTC-TTAAGTTTTGCTCTTGATATTTC
259 ACTTCTCATCACCAAGCAGCAGGCATGAAATTTCTAAGCTCATTAA-TTTTGC-CTTAATATTTC
* * * *
6237352 AAGTTCAGCATTTGCATTAAAAAGGGAAGTCTCCAATTCTGAGAACTGTTC-GAACTGAACCTTC
322 AAGTTCAGCATTTGCATCAAAAAGGGAATTCTCCAATTCTGAAAACTGCTCAG-ACTGAACCTTC
* * * *
6237416 AACTCCTGGTGCAGTGAGTTCTTCTCTGTAGCAAGATTTTCTGCCTCAAGTTTCAGTTGCCCAAG
386 AACTCCTGATGCAGTGAATTATTCTCTGTAGCAAGATTTTCAGCCTCAAGTTTCAGTTGCCCAAG
* *
6237481 CAATCCAATAAGAACTGAATTCTCAATTATGAATTGCTGATTATCATCCAGAGACTTTA-AATGT
451 CAATCCAATAAGAACTGAATTCTCAATTATGAACTGCTCATTATCATCCAGAGACTTTAGAA-GT
* *
6237545 G-AGTTCTGCATCTTTTGGATCCCT-CCAAATATACAGTCAAGAACTAATTGGTCTTGTTTGATC
515 GAACTT-TGCATCTTTTGGA-CCCTGCCAAATATACAGTCAAGAACTAATTGATCTTGTTTGAT-
** * * *
6237608 T-TATCATCATAACCATGG-A-CATCAATTTCAAGAG-CATTCAGCATTTGATAAAGCCCCATCC
577 TGTATCATCATAACCATGGAAGCATCAAAATCAAGAGTC-CTCAACATCTGATAAAGCCCCATCC
* * *
6237669 TCAGTATAGTAATTCGATCAAATAAGGATTTTATCTCCATCTCTTTTTCAGAATTTCTGAGCTCC
641 TCAGTATAGTAATTCGATCAAATAAGGATTCTATCTCCACCTCTTTTTCAGAATTTCCGAGCTCC
* * * *
6237734 AATTCAGAGATAAGTTTTTCAGAAAAAT-TGGAGGCTTCCAGGAGTTTCCTACACTCAAGCAGTA
706 AACTCAGAGATAAGTTTTT-AGAAAAATCTGGACGCTTCCAAGAGTTTCCTACACTCAAGCAATA
* * *
6237798 GGGATAAATTCTTCTCTTCCATATCTTGTGCACATTTCTGCAAGATGAAGGTTTCTACATGAGCA
770 GGGATAAATTCTTCTCTTCCAGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAGCA
* *
6237863 TTCATAGACCTGTCCAGTTCCTCTTCATATTCTTTCTTTCTGCACAGACT
835 TTCATAGACCTGTCCAGTTCCTCCTCATATTCTTTCTTCCTGCACAGACT
* * * *
6237913 TTCCCCTTGTAGAAAACGGATCTGAGATTCCATAGCAGTAACTCGGGTTTCATTCAACTGCATGA
1 TTCCCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCA-AA
* * *
6237978 AACTGGCATATTCTTGCTTTTCCGCGTCTAGTGACTTTTGTAGCTCTTCTACTTCACTAAGTGTT
65 AACTAGCATGTTCTTGCTTTTCCGCATCTAGTGACTTTTGTAGCTCTTCTACTTCACTAAGTGTT
* * * *
6238043 AATTCTCTCTCTTTCTCCAGGCCCATGTATTTTTCTTCTAAACCCTGATATCTTTTTTCCAAATC
130 GATTCTCTCTCTTTCTCCAGACCCACGTATTTTTCTTCTAATCCCTGATATCTTTTTTCCAAATC
* * * * * * * *
6238108 TTCCAACCTTTTCTGACTGATACTCAACTCAGAAATCAAGCCTTCTCTTTGTCTTATCAGGCCAG
195 TTCCAGCCTTTTCTGACTGACATTCAACTCAG-AATCAAACCTTCTCTCTGTGTTAGCAAGCCAG
* * ** * ** *
6238173 ACTTCTCATCACCAAGCAGCAGGCATGAATTTTCTAAGCTCATTACCTTTACCCTCAATCCTCCA
259 ACTTCTCATCACCAAGCAGCAGGCATGAAATTTCTAAGCTCATTA-ATTTTGCCTTAATATTTCA
6238238 AGTTCAGCATTTGCATCAAAAAGGGAATTCTCCA
323 AGTTCAGCATTTGCATCAAAAAGGGAATTCTCCA
6238272 GCACGTTATT
Statistics
Matches: 1082, Mismatches: 145, Indels: 37
0.86 0.11 0.03
Matches are distributed among these distances:
884 1 0.00
885 544 0.50
886 14 0.01
887 11 0.01
888 501 0.46
889 11 0.01
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (884 bp):
TTCCCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCAAAA
ACTAGCATGTTCTTGCTTTTCCGCATCTAGTGACTTTTGTAGCTCTTCTACTTCACTAAGTGTTG
ATTCTCTCTCTTTCTCCAGACCCACGTATTTTTCTTCTAATCCCTGATATCTTTTTTCCAAATCT
TCCAGCCTTTTCTGACTGACATTCAACTCAGAATCAAACCTTCTCTCTGTGTTAGCAAGCCAGAC
TTCTCATCACCAAGCAGCAGGCATGAAATTTCTAAGCTCATTAATTTTGCCTTAATATTTCAAGT
TCAGCATTTGCATCAAAAAGGGAATTCTCCAATTCTGAAAACTGCTCAGACTGAACCTTCAACTC
CTGATGCAGTGAATTATTCTCTGTAGCAAGATTTTCAGCCTCAAGTTTCAGTTGCCCAAGCAATC
CAATAAGAACTGAATTCTCAATTATGAACTGCTCATTATCATCCAGAGACTTTAGAAGTGAACTT
TGCATCTTTTGGACCCTGCCAAATATACAGTCAAGAACTAATTGATCTTGTTTGATTGTATCATC
ATAACCATGGAAGCATCAAAATCAAGAGTCCTCAACATCTGATAAAGCCCCATCCTCAGTATAGT
AATTCGATCAAATAAGGATTCTATCTCCACCTCTTTTTCAGAATTTCCGAGCTCCAACTCAGAGA
TAAGTTTTTAGAAAAATCTGGACGCTTCCAAGAGTTTCCTACACTCAAGCAATAGGGATAAATTC
TTCTCTTCCAGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAGCATTCATAGACCT
GTCCAGTTCCTCCTCATATTCTTTCTTCCTGCACAGACT
Found at i:6245877 original size:22 final size:22
Alignment explanation
Indices: 6245852--6245899 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
6245842 GTTCAAGCCT
6245852 AAAGATCATTTCGAAAAGTAAA
1 AAAGATCATTTCGAAAAGTAAA
**
6245874 AAAGATCATTTTTAAAAGTAAA
1 AAAGATCATTTCGAAAAGTAAA
6245896 AAAG
1 AAAG
6245900 TTACGGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (22 bp):
AAAGATCATTTCGAAAAGTAAA
Found at i:6248415 original size:16 final size:17
Alignment explanation
Indices: 6248394--6248425 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6248384 ATAGTGTAAA
6248394 TTTATTTTTTT-TATTT
1 TTTATTTTTTTGTATTT
6248410 TTTATTTTTTTGTATT
1 TTTATTTTTTTGTATT
6248426 ATTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTATTTTTTTGTATTT
Found at i:6250042 original size:23 final size:24
Alignment explanation
Indices: 6250006--6250053 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
6249996 AAAATAGAGT
*
6250006 TCGTTTTTCAAAATAGGTTAAGTC
1 TCGTTTTTCAAAATAGGTCAAGTC
*
6250030 TCGTTTTT-TAAATAGGTCAAGTC
1 TCGTTTTTCAAAATAGGTCAAGTC
6250053 T
1 T
6250054 AAGTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (24 bp):
TCGTTTTTCAAAATAGGTCAAGTC
Found at i:6251166 original size:15 final size:15
Alignment explanation
Indices: 6251145--6251185 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
6251135 CCAACTTTAA
6251145 AAAATATGTCAAATT
1 AAAATATGTCAAATT
*
6251160 TAAATA--TCAAATT
1 AAAATATGTCAAATT
*
6251173 AAAAAATGTCAAA
1 AAAATATGTCAAA
6251186 ACTCGGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 11 0.52
15 10 0.48
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAATATGTCAAATT
Found at i:6251411 original size:11 final size:11
Alignment explanation
Indices: 6251395--6251419 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6251385 ATTTAATGTC
6251395 TTTTTTACTGT
1 TTTTTTACTGT
6251406 TTTTTTACTGT
1 TTTTTTACTGT
6251417 TTT
1 TTT
6251420 AGAGTGTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTTACTGT
Found at i:6268821 original size:25 final size:25
Alignment explanation
Indices: 6268783--6268841 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
6268773 TGAATGGTCG
*
6268783 TGGATGGTTTCGTGCGAAGGTACCA
1 TGGATGGTTCCGTGCGAAGGTACCA
* * *
6268808 TGGATGGTTCCGTGGGAGGGTATCA
1 TGGATGGTTCCGTGCGAAGGTACCA
6268833 TGGATGGTT
1 TGGATGGTT
6268842 ACCATTAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.17, C:0.12, G:0.41, T:0.31
Consensus pattern (25 bp):
TGGATGGTTCCGTGCGAAGGTACCA
Found at i:6273428 original size:18 final size:18
Alignment explanation
Indices: 6273405--6273453 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 18
6273395 TATGATGATA
6273405 TATATGTGATGAACAATG
1 TATATGTGATGAACAATG
6273423 TATATGTGAAATATGAACAATG
1 TATATGTG----ATGAACAATG
6273445 TATATGTGA
1 TATATGTGA
6273454 AATATTATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
18 9 0.33
22 18 0.67
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (18 bp):
TATATGTGATGAACAATG
Found at i:6273438 original size:22 final size:22
Alignment explanation
Indices: 6273413--6273458 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6273403 TATATATGTG
6273413 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTATATGTGAAAT
6273435 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTATATGTGAAAT
6273457 AT
1 AT
6273459 TATACGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (22 bp):
ATGAACAATGTATATGTGAAAT
Found at i:6273620 original size:6 final size:6
Alignment explanation
Indices: 6273609--6273647 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
6273599 TGATCAAAAT
*
6273609 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
6273648 TATGAATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.31, T:0.21
Consensus pattern (6 bp):
TGAAAG
Found at i:6274646 original size:6 final size:6
Alignment explanation
Indices: 6274626--6274655 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
6274616 AATTATAGAT
6274626 TTTATA TTATATA TTTATA TTTATA TTTAT
1 TTTATA TT-TATA TTTATA TTTATA TTTAT
6274656 GAATGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTATA
Found at i:6274652 original size:12 final size:13
Alignment explanation
Indices: 6274613--6274655 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
6274603 TTATTTTTAT
*
6274613 TTTA-ATTATAGA
1 TTTATATTATATA
6274625 TTTTATATTATATA
1 -TTTATATTATATA
6274639 TTTATATT-TATA
1 TTTATATTATATA
6274651 TTTAT
1 TTTAT
6274656 GAATGATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 9 0.32
13 12 0.43
14 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TTTATATTATATA
Found at i:6275333 original size:36 final size:37
Alignment explanation
Indices: 6275251--6275339 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 37
6275241 AAAATTGCTC
***
6275251 ATTGATGATATAAAA-GGCAAGAAGTGTAAAGTGTTT
1 ATTGATGATATAAAATGGCAAGAAGTGTAAACCATTT
* *
6275287 GTTGACGATATAAAATGG-AAGAAGTGTAAACCATTT
1 ATTGATGATATAAAATGGCAAGAAGTGTAAACCATTT
* *
6275323 ATTGGTGATATGAAATG
1 ATTGATGATATAAAATG
6275340 TAAGCAATGA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
36 41 0.95
37 2 0.05
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.30
Consensus pattern (37 bp):
ATTGATGATATAAAATGGCAAGAAGTGTAAACCATTT
Found at i:6276502 original size:82 final size:80
Alignment explanation
Indices: 6276322--6276595 Score: 241
Period size: 81 Copynumber: 3.4 Consensus size: 80
6276312 CATTTTAAGG
* * * ** * ** * *
6276322 ATATACAAACATGC-AAAGGGTATAACCACATACAAAAACCCTTC-GTGAGCTCCCTTTGCCTCG
1 ATATACAAACATGCAAAAGGGTATAACCACCTGCGAGGATCCTTCACAG-GCTCCCTTTGTCTCA
* *
6276385 CAATATTTATTATACA
65 CAATATTCATTATAGA
*
6276401 GATATACAAACATGCAAAAGGGTATAACCA-GTCGCG-GGAATCCTTCACAGGCTCCCTTTCGTC
1 -ATATACAAACATGCAAAAGGGTATAACCACCT-GCGAGG-ATCCTTCACAGGCTCCCTTT-GTC
6276464 TCACAATATTCATTATATGA
62 TCACAATATTCATTATA-GA
* * ** * *
6276484 ATATACAAACATGGAAAAGGGTATAACCACCTGTGAGGATCCTTCATGGGATCCTTTTGTCTCAC
1 ATATACAAACATGCAAAAGGGTATAACCACCTGCGAGGATCCTTCACAGGCTCCCTTTGTCTCAC
* *
6276549 AATGTTCATTAAACGA
66 AATATTCATTATA-GA
* * *
6276565 ATATACAAACATGTAAATGGATATAACCACC
1 ATATACAAACATGCAAAAGGGTATAACCACC
6276596 CACGGGAACC
Statistics
Matches: 161, Mismatches: 25, Indels: 15
0.80 0.12 0.07
Matches are distributed among these distances:
80 15 0.09
81 78 0.48
82 64 0.40
83 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.27
Consensus pattern (80 bp):
ATATACAAACATGCAAAAGGGTATAACCACCTGCGAGGATCCTTCACAGGCTCCCTTTGTCTCAC
AATATTCATTATAGA
Found at i:6284860 original size:18 final size:19
Alignment explanation
Indices: 6284821--6284861 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
6284811 ATTGTTTGGA
6284821 TATTGTATAATTCTTGTTT
1 TATTGTATAATTCTTGTTT
6284840 TATTGT-TAATT-TTGTTAT
1 TATTGTATAATTCTTGTT-T
6284858 TATT
1 TATT
6284862 TTAGAGACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 10 0.48
19 6 0.29
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.66
Consensus pattern (19 bp):
TATTGTATAATTCTTGTTT
Found at i:6291884 original size:1 final size:1
Alignment explanation
Indices: 6291853--6291877 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
6291843 CTCAACTGTG
6291853 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
6291878 GGTTTTTGGT
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:6297796 original size:16 final size:16
Alignment explanation
Indices: 6297775--6297813 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6297765 AACTTGAAAT
6297775 ATAATTAT-GTTAAAGA
1 ATAATTATAGTTAAA-A
*
6297791 ATAATTATATTTAAAA
1 ATAATTATAGTTAAAA
6297807 ATAATTA
1 ATAATTA
6297814 AAATTATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
ATAATTATAGTTAAAA
Found at i:6297857 original size:17 final size:16
Alignment explanation
Indices: 6297835--6297869 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
6297825 AAATAAATTT
*
6297835 TAATTATTTTTAATAAA
1 TAATTATTATTAA-AAA
6297852 TAATTATTATTAAAAA
1 TAATTATTATTAAAAA
6297868 TA
1 TA
6297870 TTTTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTATTATTAAAAA
Found at i:6303513 original size:13 final size:13
Alignment explanation
Indices: 6303495--6303520 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6303485 CAAGAATATG
6303495 TTTTTAATTAATT
1 TTTTTAATTAATT
6303508 TTTTTAATTAATT
1 TTTTTAATTAATT
6303521 GAAAATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTAATTAATT
Found at i:6304339 original size:7 final size:7
Alignment explanation
Indices: 6304327--6304351 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6304317 CATAAAAAAA
6304327 ATTAAAT
1 ATTAAAT
6304334 ATTAAAT
1 ATTAAAT
6304341 ATTAAAT
1 ATTAAAT
6304348 ATTA
1 ATTA
6304352 TTTCTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTAAAT
Found at i:6304841 original size:21 final size:22
Alignment explanation
Indices: 6304817--6304866 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 22
6304807 TTTTAATATA
*
6304817 TATTTAACA-ATTAAA-AGTTTT
1 TATTTAAAATATTAAACA-TTTT
6304838 TA-TTAAAATATTAAACATTTT
1 TATTTAAAATATTAAACATTTT
6304859 TAATTTAA
1 T-ATTTAA
6304867 TCAAATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 5 0.21
21 13 0.54
22 2 0.08
23 4 0.17
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (22 bp):
TATTTAAAATATTAAACATTTT
Found at i:6317581 original size:25 final size:24
Alignment explanation
Indices: 6317545--6317593 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
6317535 AATTTAAATT
6317545 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAATAAA-ATAA
*
6317570 TTATATTCATATTAAATAAAATAA
1 TTATATTAATATTAAATAAAATAA
6317594 AAATCCCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:6318941 original size:13 final size:13
Alignment explanation
Indices: 6318923--6318962 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
6318913 GGAACATGAA
6318923 TAATTTAAAAAAT
1 TAATTTAAAAAAT
6318936 TAATTTAAAAAAAAT
1 TAATTT--AAAAAAT
*
6318951 TAACTTAAAAAA
1 TAATTTAAAAAA
6318963 ATGACAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
TAATTTAAAAAAT
Found at i:6318949 original size:15 final size:15
Alignment explanation
Indices: 6318929--6318963 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
6318919 TGAATAATTT
*
6318929 AAAAAATTAATTTAA
1 AAAAAATTAACTTAA
6318944 AAAAAATTAACTTAA
1 AAAAAATTAACTTAA
6318959 AAAAA
1 AAAAA
6318964 TGACAAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAAATTAACTTAA
Found at i:6320081 original size:111 final size:111
Alignment explanation
Indices: 6319883--6320176 Score: 419
Period size: 111 Copynumber: 2.6 Consensus size: 111
6319873 ACAAACAAGG
*
6319883 AGAACTTGGCTCAAGTCAACAACTTCAAATGCATAAAGCATTTAAACTAAATTGCTAACTCCCTT
1 AGAACTTGGCTCAAGTCAACAACTTCAAATGCATAGAGCATTTAAACTAAATTGCTAACTCCCTT
* *
6319948 GACATCATGTAACTGCATCGAATCAAACCACACCAACCTGTTCTGA
66 GACATCATGTAACTACACCGAATCAAACCACACCAACCTGTTCTGA
* *
6319994 AGAACTTGGCTCAAGTTAACAACTTCAAATGCATAGAGCATTTAAGCTAAATTGCTAACTCCCTT
1 AGAACTTGGCTCAAGTCAACAACTTCAAATGCATAGAGCATTTAAACTAAATTGCTAACTCCCTT
**
6320059 GACATCATGTAACTACACCGAATCAAACCACACCAATTTGTTCTGA
66 GACATCATGTAACTACACCGAATCAAACCACACCAACCTGTTCTGA
* * * ** * * * * *
6320105 AGAACTTAGCTCAAGTGAACGACTT-AAATTGCACGGATCGTTTAAATTAGATTGCTAACTACCT
1 AGAACTTGGCTCAAGTCAACAACTTCAAA-TGCATAGAGCATTTAAACTAAATTGCTAACTCCCT
6320169 TGACATCA
65 TGACATCA
6320177 CCCAACTGCA
Statistics
Matches: 164, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
110 3 0.02
111 161 0.98
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (111 bp):
AGAACTTGGCTCAAGTCAACAACTTCAAATGCATAGAGCATTTAAACTAAATTGCTAACTCCCTT
GACATCATGTAACTACACCGAATCAAACCACACCAACCTGTTCTGA
Found at i:6321483 original size:20 final size:20
Alignment explanation
Indices: 6321458--6321495 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6321448 AGATGGATGG
6321458 AAATGGATTTAGAGTTTTGA
1 AAATGGATTTAGAGTTTTGA
*
6321478 AAATGGGTTTAGAGTTTT
1 AAATGGATTTAGAGTTTT
6321496 TTCAGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (20 bp):
AAATGGATTTAGAGTTTTGA
Found at i:6323182 original size:11 final size:11
Alignment explanation
Indices: 6323166--6323190 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6323156 TAAAAAAAAC
6323166 AAAATTATATT
1 AAAATTATATT
6323177 AAAATTATATT
1 AAAATTATATT
6323188 AAA
1 AAA
6323191 CAAAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAATTATATT
Found at i:6323240 original size:31 final size:28
Alignment explanation
Indices: 6323151--6323242 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 28
6323141 ATCACACCAG
6323151 TATATTAAAAAAAACAAAATTATATTAAAAT
1 TATATT-AAAAAAACAAAATTATA-T-AAAT
*
6323182 TATATTAAACAAAA-AAAA-CACTA-AAAT
1 TATATTAAA-AAAACAAAATTA-TATAAAT
6323209 TATATTAAAAAAACAAAATTGAGTATCAAAT
1 TATATTAAAAAAACAAAATT-A-TAT-AAAT
6323240 TAT
1 TAT
6323243 CTATTAAGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
26 4 0.08
27 17 0.33
29 4 0.08
30 9 0.18
31 17 0.33
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (28 bp):
TATATTAAAAAAACAAAATTATATAAAT
Found at i:6334536 original size:2 final size:2
Alignment explanation
Indices: 6334529--6334563 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
6334519 TCTCCTTCTT
* *
6334529 TA TA TA TA TA TA GA TA TA TA TT 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
6334564 TGAATTTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6340403 original size:21 final size:21
Alignment explanation
Indices: 6340373--6340427 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
6340363 TCATTAAGCT
6340373 TTAATT-AATCATTTTTA-ATC
1 TTAATTAAATCATTTTTACA-C
*
6340393 TTAATTAAATC-TATTTACAC
1 TTAATTAAATCATTTTTACAC
6340413 TTAATATAAATCATT
1 TTAAT-TAAATCATT
6340428 CCAATCTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 17 0.59
21 11 0.38
22 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATTAAATCATTTTTACAC
Found at i:6344625 original size:16 final size:15
Alignment explanation
Indices: 6344580--6344617 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
6344570 AACCCACCTT
6344580 CATTTAAACCAAACC
1 CATTTAAACCAAACC
6344595 CATTTAAACCAAACC
1 CATTTAAACCAAACC
6344610 CATTTAAA
1 CATTTAAA
6344618 ACCTAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (15 bp):
CATTTAAACCAAACC
Found at i:6344653 original size:14 final size:15
Alignment explanation
Indices: 6344622--6344656 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
6344612 TTTAAAACCT
*
6344622 AACCAAACCCATTTG
1 AACCAAACCCAATTG
6344637 AACCAAA-CCAATTG
1 AACCAAACCCAATTG
6344651 AACCAA
1 AACCAA
6344657 GTCCAACCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.49, C:0.31, G:0.06, T:0.14
Consensus pattern (15 bp):
AACCAAACCCAATTG
Found at i:6344693 original size:10 final size:10
Alignment explanation
Indices: 6344679--6344717 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
6344669 CTAAGTCAAA
6344679 CCGTTGACCG
1 CCGTTGACCG
*
6344689 GCGTTGACCG
1 CCGTTGACCG
*
6344699 CCGTTGATCG
1 CCGTTGACCG
6344709 ACCGTTGAC
1 -CCGTTGAC
6344718 TGACCGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.13, C:0.33, G:0.31, T:0.23
Consensus pattern (10 bp):
CCGTTGACCG
Found at i:6344746 original size:13 final size:13
Alignment explanation
Indices: 6344730--6344827 Score: 90
Period size: 13 Copynumber: 7.3 Consensus size: 13
6344720 ACCGTTAACT
6344730 TTGACTTTGACCG
1 TTGACTTTGACCG
**
6344743 TTGACCACTGACCG
1 TTGA-CTTTGACCG
*
6344757 TTGACTTTGACAG
1 TTGACTTTGACCG
*
6344770 TTGACCGTTT-ACCA
1 TTGA-C-TTTGACCG
* *
6344784 CTGACCGTTGACCG
1 TTGA-CTTTGACCG
6344798 TTGACTTTGACCG
1 TTGACTTTGACCG
*
6344811 TTGACTTTAACCG
1 TTGACTTTGACCG
6344824 TTGA
1 TTGA
6344828 TTTTTTTTTC
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
13 40 0.59
14 25 0.37
15 3 0.04
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (13 bp):
TTGACTTTGACCG
Found at i:6344748 original size:7 final size:7
Alignment explanation
Indices: 6344736--6344815 Score: 74
Period size: 7 Copynumber: 11.7 Consensus size: 7
6344726 AACTTTGACT
6344736 TTGACCG
1 TTGACCG
*
6344743 TTGACCA
1 TTGACCG
*
6344750 CTGACCG
1 TTGACCG
*
6344757 TTGA-CT
1 TTGACCG
*
6344763 TTGACAG
1 TTGACCG
6344770 TTGACCG
1 TTGACCG
* *
6344777 TTTACCA
1 TTGACCG
*
6344784 CTGACCG
1 TTGACCG
6344791 TTGACCG
1 TTGACCG
*
6344798 TTGA-CT
1 TTGACCG
6344804 TTGACCG
1 TTGACCG
6344811 TTGAC
1 TTGAC
6344816 TTTAACCGTT
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
6 10 0.18
7 45 0.82
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.31
Consensus pattern (7 bp):
TTGACCG
Found at i:6344784 original size:34 final size:33
Alignment explanation
Indices: 6344716--6344815 Score: 146
Period size: 34 Copynumber: 3.0 Consensus size: 33
6344706 TCGACCGTTG
*
6344716 ACTGACCGTTAACTTTGACTTTGACCGTTGACC
1 ACTGACCGTTGACTTTGACTTTGACCGTTGACC
* *
6344749 ACTGACCGTTGACTTTGACAGTTGACCGTTTACC
1 ACTGACCGTTGACTTTGAC-TTTGACCGTTGACC
*
6344783 ACTGACCGTTGACCGTTGACTTTGACCGTTGAC
1 ACTGACCGTTGA-CTTTGACTTTGACCGTTGAC
6344816 TTTAACCGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
33 18 0.31
34 35 0.59
35 6 0.10
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (33 bp):
ACTGACCGTTGACTTTGACTTTGACCGTTGACC
Found at i:6351908 original size:15 final size:15
Alignment explanation
Indices: 6351888--6351917 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6351878 AACCCACATT
6351888 CATTTAAACCAAACC
1 CATTTAAACCAAACC
6351903 CATTTAAACCAAACC
1 CATTTAAACCAAACC
6351918 AAACCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (15 bp):
CATTTAAACCAAACC
Found at i:6351938 original size:21 final size:20
Alignment explanation
Indices: 6351893--6351960 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
6351883 ACATTCATTT
6351893 AAACCAAACCCATTTAAACC
1 AAACCAAACCCATTTAAACC
6351913 AAACCAAACCCATTTAAAACC
1 AAACCAAACCCATTT-AAACC
* *
6351934 TAACCAAACCCATTTGAACC
1 AAACCAAACCCATTTAAACC
6351954 AAACCAA
1 AAACCAA
6351961 TTGAACCAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 25 0.57
21 19 0.43
ACGTcount: A:0.50, C:0.34, G:0.01, T:0.15
Consensus pattern (20 bp):
AAACCAAACCCATTTAAACC
Found at i:6351966 original size:14 final size:15
Alignment explanation
Indices: 6351935--6351969 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
6351925 TTTAAAACCT
*
6351935 AACCAAACCCATTTG
1 AACCAAACCCAATTG
6351950 AACCAAA-CCAATTG
1 AACCAAACCCAATTG
6351964 AACCAA
1 AACCAA
6351970 GTCCAACCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.49, C:0.31, G:0.06, T:0.14
Consensus pattern (15 bp):
AACCAAACCCAATTG
Found at i:6352006 original size:10 final size:10
Alignment explanation
Indices: 6351992--6352030 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
6351982 CTAAGTCAAA
6351992 CCGTTGACCG
1 CCGTTGACCG
*
6352002 GCGTTGACCG
1 CCGTTGACCG
*
6352012 CCGTTGACTG
1 CCGTTGACCG
6352022 ACCGTTGAC
1 -CCGTTGAC
6352031 TTTGACTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.13, C:0.33, G:0.31, T:0.23
Consensus pattern (10 bp):
CCGTTGACCG
Found at i:6352037 original size:6 final size:7
Alignment explanation
Indices: 6352020--6352158 Score: 67
Period size: 7 Copynumber: 20.7 Consensus size: 7
6352010 CGCCGTTGAC
*
6352020 TGACCGT
1 TGACTGT
6352027 TGACT-T
1 TGACTGT
6352033 TGACTGT
1 TGACTGT
***
6352040 TGACCAC
1 TGACTGT
* *
6352047 TGACCGC
1 TGACTGT
6352054 TGACT-T
1 TGACTGT
*
6352060 TGACCGT
1 TGACTGT
*
6352067 TGACCGT
1 TGACTGT
6352074 TGACT-T
1 TGACTGT
*
6352080 TGACAGT
1 TGACTGT
*
6352087 TGACCGT
1 TGACTGT
6352094 TGACT-T
1 TGACTGT
*
6352100 TGACCGT
1 TGACTGT
***
6352107 TGACCAC
1 TGACTGT
*
6352114 T-AATCGT
1 TGACT-GT
6352121 TGACT-T
1 TGACTGT
*
6352127 TGACCGT
1 TGACTGT
*
6352134 TGACCGT
1 TGACTGT
6352141 TGACT-T
1 TGACTGT
6352147 TGACTGT
1 TGACTGT
6352154 TGACT
1 TGACT
6352159 TTTTTTCGAA
Statistics
Matches: 102, Mismatches: 22, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
6 32 0.31
7 68 0.67
8 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (7 bp):
TGACTGT
Found at i:6352050 original size:20 final size:20
Alignment explanation
Indices: 6352020--6352157 Score: 107
Period size: 20 Copynumber: 6.5 Consensus size: 20
6352010 CGCCGTTGAC
**
6352020 TGACCGTTGA-CTTTGACTGT
1 TGACCGTTGACCGCTGACT-T
**
6352040 TGACCACTGACCGCTGACTT
1 TGACCGTTGACCGCTGACTT
*
6352060 TGACCGTTGACCGTTGACTT
1 TGACCGTTGACCGCTGACTT
* *
6352080 TGACAGTTGACCGTTGACTT
1 TGACCGTTGACCGCTGACTT
*
6352100 TGACCGTTGACCACTAATCGTTGACTT
1 TGACCGTTG---AC----CGCTGACTT
*
6352127 TGACCGTTGACCGTTGACTT
1 TGACCGTTGACCGCTGACTT
*
6352147 TGACTGTTGAC
1 TGACCGTTGAC
6352158 TTTTTTTCGA
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
20 72 0.72
21 6 0.06
23 2 0.02
24 2 0.02
27 18 0.18
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (20 bp):
TGACCGTTGACCGCTGACTT
Found at i:6352077 original size:27 final size:27
Alignment explanation
Indices: 6352018--6352071 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
6352008 ACCGCCGTTG
* *
6352018 ACTGACCGTTGACTTTGACTGTTGACC
1 ACTGACCGCTGACTTTGACCGTTGACC
6352045 ACTGACCGCTGACTTTGACCGTTGACC
1 ACTGACCGCTGACTTTGACCGTTGACC
6352072 GTTGACTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.30
Consensus pattern (27 bp):
ACTGACCGCTGACTTTGACCGTTGACC
Found at i:6352103 original size:67 final size:67
Alignment explanation
Indices: 6352020--6352157 Score: 231
Period size: 67 Copynumber: 2.1 Consensus size: 67
6352010 CGCCGTTGAC
* *
6352020 TGACCGTTGACTTTGACTGTTGACCACTGACCGCTGACTTTGACCGTTGACCGTTGACTTTGACA
1 TGACCGTTGACTTTGACCGTTGACCACTAACCGCTGACTTTGACCGTTGACCGTTGACTTTGACA
6352085 GT
66 GT
* * *
6352087 TGACCGTTGACTTTGACCGTTGACCACTAATCGTTGACTTTGACCGTTGACCGTTGACTTTGACT
1 TGACCGTTGACTTTGACCGTTGACCACTAACCGCTGACTTTGACCGTTGACCGTTGACTTTGACA
6352152 GT
66 GT
6352154 TGAC
1 TGAC
6352158 TTTTTTTCGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (67 bp):
TGACCGTTGACTTTGACCGTTGACCACTAACCGCTGACTTTGACCGTTGACCGTTGACTTTGACA
GT
Found at i:6352110 original size:47 final size:47
Alignment explanation
Indices: 6352018--6352157 Score: 156
Period size: 47 Copynumber: 3.0 Consensus size: 47
6352008 ACCGCCGTTG
* ** ** *
6352018 ACTGACCGTTGACTTTGACTGTTGACCACTGACCGCTGA-CTTTGACC
1 ACTGACCGTTGACTTTGACAGTTGACCGTTGA-CTTTGACCGTTGACC
**
6352065 GTTGACCGTTGACTTTGACAGTTGACCGTTGACTTTGACCGTTGACC
1 ACTGACCGTTGACTTTGACAGTTGACCGTTGACTTTGACCGTTGACC
* * * *
6352112 ACTAATCGTTGACTTTGACCGTTGACCGTTGACTTTGACTGTTGAC
1 ACTGACCGTTGACTTTGACAGTTGACCGTTGACTTTGACCGTTGAC
6352158 TTTTTTTCGA
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 4 0.05
47 74 0.95
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.34
Consensus pattern (47 bp):
ACTGACCGTTGACTTTGACAGTTGACCGTTGACTTTGACCGTTGACC
Found at i:6357153 original size:20 final size:21
Alignment explanation
Indices: 6357117--6357170 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
6357107 TCATTAACCT
*
6357117 TTAATT-AATCATTTTTA-ATC
1 TTAATTAAATCATATTTACA-C
6357137 TTAATTAAATC-TATTTACAC
1 TTAATTAAATCATATTTACAC
6357157 TTAATATAAATCAT
1 TTAAT-TAAATCAT
6357171 GCCTATCCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 17 0.59
21 11 0.38
22 1 0.03
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAATTAAATCATATTTACAC
Found at i:6359325 original size:23 final size:22
Alignment explanation
Indices: 6359267--6359321 Score: 94
Period size: 23 Copynumber: 2.5 Consensus size: 22
6359257 CATTTCAGTA
6359267 CAAAC-AAATTAAGACCTGATC
1 CAAACTAAATTAAGACCTGATC
6359288 CAAACTAAACTTAAGACCTGATC
1 CAAACTAAA-TTAAGACCTGATC
6359311 CAAACTAAATT
1 CAAACTAAATT
6359322 TAAGTCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.16
22 5 0.16
23 22 0.69
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.22
Consensus pattern (22 bp):
CAAACTAAATTAAGACCTGATC
Found at i:6360009 original size:17 final size:17
Alignment explanation
Indices: 6359987--6360019 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6359977 CCACTGAAAC
6359987 CATATATGATAATATAA
1 CATATATGATAATATAA
*
6360004 CATATATTATAATATA
1 CATATATGATAATATA
6360020 TTAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
CATATATGATAATATAA
Found at i:6361353 original size:14 final size:14
Alignment explanation
Indices: 6361318--6361358 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
6361308 TTTTCTTTAA
* *
6361318 TTAATTTATAAAAT
1 TTAATTAATTAAAT
6361332 TTAATTAATTAAAT
1 TTAATTAATTAAAT
*
6361346 TTATTTAATTAAA
1 TTAATTAATTAAA
6361359 AAATCACGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTAATTAATTAAAT
Found at i:6361497 original size:14 final size:14
Alignment explanation
Indices: 6361468--6361512 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
6361458 TAATAATACA
*
6361468 AATAATTAAAACAT
1 AATAATTAAAATAT
* *
6361482 AATATTTCAAATAT
1 AATAATTAAAATAT
6361496 AAATAATTAAAATAT
1 -AATAATTAAAATAT
6361511 AA
1 AA
6361513 GTTGAAACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAATTAAAATAT
Found at i:6361508 original size:15 final size:15
Alignment explanation
Indices: 6361462--6361512 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
6361452 ATAAAATAAT
*
6361462 AATACAAATAATTAA
1 AATATAAATAATTAA
* * *
6361477 AACAT-AATATTTCA
1 AATATAAATAATTAA
6361491 AATATAAATAATTAA
1 AATATAAATAATTAA
6361506 AATATAA
1 AATATAA
6361513 GTTGAAACAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
AATATAAATAATTAA
Found at i:6372061 original size:6 final size:6
Alignment explanation
Indices: 6372050--6372078 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6372040 TGGGGGTTTT
6372050 AGAGAA AGAGAA AGAGAA AGAGAA AGAGA
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGA
6372079 GAATTGGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:6383487 original size:42 final size:42
Alignment explanation
Indices: 6383420--6383566 Score: 152
Period size: 43 Copynumber: 3.5 Consensus size: 42
6383410 TTATAAGAAA
* ** * * * *
6383420 AAACGCCGCTATAGAATATGGTCTTTAGTAGCCCTTAGATAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCAGCGCTTACATAC
* **
6383462 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTATCCCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCAGCGCTTA-CATAC
* *
6383505 AAACGCCGTTAAAGATCATGTTCTTTAGCAGCGCTTTATCA-AC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCAGCGC-TTA-CATAC
6383548 AAACGCCGCTAAAGACCAT
1 AAACGCCGCTAAAGACCAT
6383567 ACCGCTAAAG
Statistics
Matches: 87, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 30 0.34
43 52 0.60
44 5 0.06
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCATGTTCTTTAGCAGCGCTTACATAC
Found at i:6383518 original size:43 final size:43
Alignment explanation
Indices: 6383460--6383566 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 43
6383450 GCCCTTAGAT
* *
6383460 ACAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGC-TTATCCC
1 ACAAACGCCGCTAAAGACCATGTTCTTTAGCAGCGCTTTAT-CA
* *
6383503 ACAAACGCCGTTAAAGATCATGTTCTTTAGCAGCGCTTTATCA
1 ACAAACGCCGCTAAAGACCATGTTCTTTAGCAGCGCTTTATCA
6383546 ACAAACGCCGCTAAAGACCAT
1 ACAAACGCCGCTAAAGACCAT
6383567 ACCGCTAAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 53 0.93
44 4 0.07
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCATGTTCTTTAGCAGCGCTTTATCA
Found at i:6383753 original size:43 final size:43
Alignment explanation
Indices: 6383656--6383801 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
6383646 CGCTAAAGAT
** * * * *
6383656 AACGCCGCTAAAGAATATGGTCTTTAGTAGC-CCTTA-GATACA
1 AACGCCGCTAAAGACCATGTTCTTTAGCAGCACTTTATCA-ACA
* *
6383698 AACGCCGCTAAAGACCATGTTCTTTAGCGGCAC-TTATCCCACA
1 AACGCCGCTAAAGACCATGTTCTTTAGCAGCACTTTAT-CAACA
* * *
6383741 AACGACGCTAAAGATCATGTTCTTTAGCAGCGCTTTATCAACA
1 AACGCCGCTAAAGACCATGTTCTTTAGCAGCACTTTATCAACA
6383784 AACGCCGCTAAAGACCAT
1 AACGCCGCTAAAGACCAT
6383802 ACCGCTAAAG
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 29 0.34
43 53 0.62
44 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
AACGCCGCTAAAGACCATGTTCTTTAGCAGCACTTTATCAACA
Found at i:6383786 original size:235 final size:235
Alignment explanation
Indices: 6383421--6383862 Score: 848
Period size: 235 Copynumber: 1.9 Consensus size: 235
6383411 TATAAGAAAA
*
6383421 AACGCCGCTATAGAATATGGTCTTTAGTAGCCCTTAGATACAAACGCCGCTAAAGACCATGTTCT
1 AACGCCGCTAAAGAATATGGTCTTTAGTAGCCCTTAGATACAAACGCCGCTAAAGACCATGTTCT
* * *
6383486 TTAGCGGCGCTTATCCCACAAACGCCGTTAAAGATCATGTTCTTTAGCAGCGCTTTATCAACAAA
66 TTAGCGGCACTTATCCCACAAACGACGCTAAAGATCATGTTCTTTAGCAGCGCTTTATCAACAAA
6383551 CGCCGCTAAAGACCATACCGCTAAAGAACATGGTCTTTAGCGGTGCTTACTCCACAAACGCCGCT
131 CGCCGCTAAAGACCATACCGCTAAAGAACATGGTCTTTAGCGGTGCTTACTCCACAAACGCCGCT
6383616 ATAAATAGTGTTAAGCGCCGCAAGAAATGCCGCTAAAGAT
196 ATAAATAGTGTTAAGCGCCGCAAGAAATGCCGCTAAAGAT
6383656 AACGCCGCTAAAGAATATGGTCTTTAGTAGCCCTTAGATACAAACGCCGCTAAAGACCATGTTCT
1 AACGCCGCTAAAGAATATGGTCTTTAGTAGCCCTTAGATACAAACGCCGCTAAAGACCATGTTCT
6383721 TTAGCGGCACTTATCCCACAAACGACGCTAAAGATCATGTTCTTTAGCAGCGCTTTATCAACAAA
66 TTAGCGGCACTTATCCCACAAACGACGCTAAAGATCATGTTCTTTAGCAGCGCTTTATCAACAAA
6383786 CGCCGCTAAAGACCATACCGCTAAAGAACATGGTCTTTAGCGGTGCTTACTCCACAAACGCCGCT
131 CGCCGCTAAAGACCATACCGCTAAAGAACATGGTCTTTAGCGGTGCTTACTCCACAAACGCCGCT
6383851 ATAAATAGTGTT
196 ATAAATAGTGTT
6383863 CTTTAGCGGC
Statistics
Matches: 203, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
235 203 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (235 bp):
AACGCCGCTAAAGAATATGGTCTTTAGTAGCCCTTAGATACAAACGCCGCTAAAGACCATGTTCT
TTAGCGGCACTTATCCCACAAACGACGCTAAAGATCATGTTCTTTAGCAGCGCTTTATCAACAAA
CGCCGCTAAAGACCATACCGCTAAAGAACATGGTCTTTAGCGGTGCTTACTCCACAAACGCCGCT
ATAAATAGTGTTAAGCGCCGCAAGAAATGCCGCTAAAGAT
Found at i:6383841 original size:101 final size:101
Alignment explanation
Indices: 6383702--6383895 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 101
6383692 GATACAAACG
* *
6383702 CCGCTAAAGACCATGTTCTTTAGCGGCACTTATCCCACAAACGACGCTA-AAGATCA-TGTTCTT
1 CCGCTAAAGAACATGGTCTTTAGCGGCACTTATCCCACAAACGACGCTATAA-AT-AGTGTTCTT
6383765 TAGCAGCGCTTTATCAACAAACGCCGCTAAAGACCATA
64 TAGCAGCGCTTTATCAACAAACGCCGCTAAAGACCATA
** *
6383803 CCGCTAAAGAACATGGTCTTTAGCGGTGCTTA-CTCCACAAACGCCGCTATAAATAGTGTTCTTT
1 CCGCTAAAGAACATGGTCTTTAGCGGCACTTATC-CCACAAACGACGCTATAAATAGTGTTCTTT
* * * *
6383867 AGCGGCGTTTTTTCCACAAACGCCGCTAA
65 AGCAGCGCTTTATCAACAAACGCCGCTAA
6383896 TATTATCAGA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
100 2 0.02
101 77 0.95
102 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (101 bp):
CCGCTAAAGAACATGGTCTTTAGCGGCACTTATCCCACAAACGACGCTATAAATAGTGTTCTTTA
GCAGCGCTTTATCAACAAACGCCGCTAAAGACCATA
Found at i:6383851 original size:43 final size:43
Alignment explanation
Indices: 6383803--6383895 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 43
6383793 AAAGACCATA
*
6383803 CCGCTAAAGAACA-TGGTCTTTAGCGGTGCTTACTCCACAAACG
1 CCGCTAAA-AACAGTGGTCTTTAGCGGCGCTTACTCCACAAACG
* * * * **
6383846 CCGCTATAAATAGTGTTCTTTAGCGGCGTTTTTTCCACAAACG
1 CCGCTAAAAACAGTGGTCTTTAGCGGCGCTTACTCCACAAACG
6383889 CCGCTAA
1 CCGCTAA
6383896 TATTATCAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 3 0.07
43 38 0.93
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (43 bp):
CCGCTAAAAACAGTGGTCTTTAGCGGCGCTTACTCCACAAACG
Found at i:6389962 original size:81 final size:81
Alignment explanation
Indices: 6389790--6390370 Score: 498
Period size: 81 Copynumber: 7.2 Consensus size: 81
6389780 AGCCTATAGT
** *
6389790 CTTGAAAGCAAATAC-AAGTTGGGTTATGTAGTGGATGAAGCAGAGGAAAAGAATTCTTCTCCCT
1 CTTGAAAGCAAATACAAACCT-GGTTATGTAGTGGATGGAGCAGAGGAAAAGAATTCTTCTCCCT
*** * *
6389854 CATCCCGTATTGCACAC
65 CATCTTATATTTCACGC
* * * * * *
6389871 CTCGAGAGCAAATACAAACCTGGTTATATAGTGGATGGAGCAAAGGAAAAGAGTTCTTCAT-CAT
1 CTTGAAAGCAAATACAAACCTGGTTATGTAGTGGATGGAGCAGAGGAAAAGAATTCTTC-TCCCT
* * **
6389935 CTTCTTACATTTCACAT
65 CATCTTATATTTCACGC
** * *
6389952 CTTGAAAGCAAATACATGCCGGGTTATGTAGTGGAT-GATGCAGAAGAAAAGAATTCTTCTCCCT
1 CTTGAAAGCAAATACAAACCTGGTTATGTAGTGGATGGA-GCAGAGGAAAAGAATTCTTCTCCCT
** * *
6390016 CATCTCGTATTGCACAC
65 CATCTTATATTTCACGC
* * *
6390033 CTTGAGAGCAAATACAAACCTGGTTATGTAGTGGATGGAGCAGAGGAAAATAATTATTCTCCCTC
1 CTTGAAAGCAAATACAAACCTGGTTATGTAGTGGATGGAGCAGAGGAAAAGAATTCTTCTCCCTC
* *
6390098 ATCTTGTATTGCACGC
66 ATCTTATATTTCACGC
* * * * *
6390114 CTTGAGAGCAAATACAAACCCGATTATGTAGTGGATGGAGCAGAGGAAAA-AGGTTCTTC-CTCG
1 CTTGAAAGCAAATACAAACCTGGTTATGTAGTGGATGGAGCAGAGGAAAAGA-ATTCTTCTC-CC
* * *
6390177 TCTTCTT-TCATGTCACGT
64 TCATCTTAT-ATTTCACGC
* * * * * * *
6390195 TTTGAAAGCAAATACAAACC-GAATTATGGAGCGGATGAAGCAAAGGAAAAGAATTCTTCTCCTT
1 CTTGAAAGCAAATACAAACCTG-GTTATGTAGTGGATGGAGCAGAGGAAAAGAATTCTTCTCCCT
*
6390259 CATCTCATATTTCACGC
65 CATCTTATATTTCACGC
** * ** *
6390276 CTTGGGAGCAAATACAAACC-GGATTATGGAGCAGATGAAGCAGAGGAAAAGAGA-TCTTC-CTC
1 CTTGAAAGCAAATACAAACCTGG-TTATGTAGTGGATGGAGCAGAGGAAAAGA-ATTCTTCTC-C
* * *
6390338 ATCTTCTTATGTTTCACGC
63 CTCATCTTATATTTCACGC
6390357 CTTGAAAGCAAATA
1 CTTGAAAGCAAATA
6390371 TAAGCTGGGT
Statistics
Matches: 411, Mismatches: 74, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
80 8 0.02
81 393 0.96
82 10 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (81 bp):
CTTGAAAGCAAATACAAACCTGGTTATGTAGTGGATGGAGCAGAGGAAAAGAATTCTTCTCCCTC
ATCTTATATTTCACGC
Found at i:6390246 original size:243 final size:242
Alignment explanation
Indices: 6389811--6390327 Score: 696
Period size: 243 Copynumber: 2.1 Consensus size: 242
6389801 ATACAAGTTG
*
6389811 GGTTATGTAGTGGATGAAGCAGAGGAAAAGAATTCTTCTCCCTCATCCCGTATTGCACACCTCGA
1 GGTTATGTAGTGGATGAAGCAGAGGAAAAGAATTATTCTCCCTCATCCCGTATTGCACACCTCGA
* *
6389876 GAGCAAATACAAACCTGGTTATATAGTGGATGGAGCAAAGGAAAAGAGTTCTTCATCATCTTCTT
66 GAGCAAATACAAACCCGATTATATAGTGGATGGAGCAAAGGAAAAGAGTTCTTCATCATCTTCTT
* ** ** * * *
6389941 ACATTTCACATCTTGAAAGCAAATACATGCCGGGTTATGTAGTGGATGATGCAGAAGAAAAGAAT
131 ACATGTCACATCTTGAAAGCAAATACAAACCGAATTATGGAGCGGATGAAGCAGAAGAAAAGAAT
*
6390006 TCTTCTCCCTCATCTCGTATTGCACACCTTGAGAGCAAATACAAACC
196 TCTTCTCCCTCATCTCATATTGCACACCTTGAGAGCAAATACAAACC
* * ** * *
6390053 TGGTTATGTAGTGGATGGAGCAGAGGAAAATAATTATTCTCCCTCATCTTGTATTGCACGCCTTG
1 -GGTTATGTAGTGGATGAAGCAGAGGAAAAGAATTATTCTCCCTCATCCCGTATTGCACACCTCG
* * * *
6390118 AGAGCAAATACAAACCCGATTATGTAGTGGATGGAGCAGAGGAAAA-AGGTTCTTCCTCGTCTTC
65 AGAGCAAATACAAACCCGATTATATAGTGGATGGAGCAAAGGAAAAGA-GTTCTTCATCATCTTC
* * *
6390182 TTTCATGTCACGTTTTGAAAGCAAATACAAACCGAATTATGGAGCGGATGAAGCA-AAGGAAAAG
129 TTACATGTCACATCTTGAAAGCAAATACAAACCGAATTATGGAGCGGATGAAGCAGAA-GAAAAG
* * * *
6390246 AATTCTTCTCCTTCATCTCATATTTCACGCCTTGGGAGCAAATACAAACC
193 AATTCTTCTCCCTCATCTCATATTGCACACCTTGAGAGCAAATACAAACC
* **
6390296 GGATTATGGAGCAGATGAAGCAGAGGAAAAGA
1 GG-TTATGTAGTGGATGAAGCAGAGGAAAAGA
6390328 GATCTTCCTC
Statistics
Matches: 237, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
242 5 0.02
243 232 0.98
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (242 bp):
GGTTATGTAGTGGATGAAGCAGAGGAAAAGAATTATTCTCCCTCATCCCGTATTGCACACCTCGA
GAGCAAATACAAACCCGATTATATAGTGGATGGAGCAAAGGAAAAGAGTTCTTCATCATCTTCTT
ACATGTCACATCTTGAAAGCAAATACAAACCGAATTATGGAGCGGATGAAGCAGAAGAAAAGAAT
TCTTCTCCCTCATCTCATATTGCACACCTTGAGAGCAAATACAAACC
Found at i:6392746 original size:20 final size:21
Alignment explanation
Indices: 6392723--6392780 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
6392713 GAGGTTCAAG
*
6392723 GTTTGAGCTTCAAA-ATTAGA
1 GTTTGAGATTCAAAGATTAGA
* *
6392743 GTTTTAGATTCAAAGATTTGA
1 GTTTGAGATTCAAAGATTAGA
*
6392764 GTTTAAGATTC-AAGATT
1 GTTTGAGATTCAAAGATT
6392781 TATGATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (21 bp):
GTTTGAGATTCAAAGATTAGA
Found at i:6392767 original size:21 final size:21
Alignment explanation
Indices: 6392731--6392781 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
6392721 AGGTTTGAGC
* *
6392731 TTCAAA-ATTAGAGTTTTAGA
1 TTCAAAGATTTGAGTTTAAGA
6392751 TTCAAAGATTTGAGTTTAAGA
1 TTCAAAGATTTGAGTTTAAGA
6392772 TTC-AAGATTT
1 TTCAAAGATTT
6392782 ATGATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (21 bp):
TTCAAAGATTTGAGTTTAAGA
Found at i:6400034 original size:99 final size:99
Alignment explanation
Indices: 6399860--6400057 Score: 333
Period size: 99 Copynumber: 2.0 Consensus size: 99
6399850 TCAGACCCAT
*
6399860 TCTTCCCCAGAAACTTGGGTGGTCTCCCACGCTTCCGCTTTCCCATCTTACCCACCTTACTCTGC
1 TCTTCCCCAGAAACTTGGGCGGTCTCCCACGCTTCCGCTTTCCCATCTTACCCACCTTACTCTGC
*
6399925 ACATCCTTCACTTCACTACGAGACTGATCATTCC
66 ACATCATTCACTTCACTACGAGACTGATCATTCC
* * * *
6399959 TCTTCTCCAGCAACTTGGGCGGTCTCCCACGCTTTCGCTTTCCCATCTTACCCACCTTTCTCTGC
1 TCTTCCCCAGAAACTTGGGCGGTCTCCCACGCTTCCGCTTTCCCATCTTACCCACCTTACTCTGC
*
6400024 ACATCATTCACTTCACTATGAGACTGATCATTCC
66 ACATCATTCACTTCACTACGAGACTGATCATTCC
6400058 GCTCCTTAAC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.18, C:0.38, G:0.12, T:0.32
Consensus pattern (99 bp):
TCTTCCCCAGAAACTTGGGCGGTCTCCCACGCTTCCGCTTTCCCATCTTACCCACCTTACTCTGC
ACATCATTCACTTCACTACGAGACTGATCATTCC
Found at i:6403398 original size:161 final size:160
Alignment explanation
Indices: 6403127--6403573 Score: 687
Period size: 161 Copynumber: 2.8 Consensus size: 160
6403117 GGTCGATAAG
* *
6403127 AAAATTTGAAAATTTCTTGTTTCTGAAGAATTTGCACTTGGTTTTGAACTGTGATTAGATCTTGG
1 AAAATTTGAAAATTTCTTGTTGCTGAAGAATTTGCACTTGGTTTTGAACTGTGATTGGATCTTGG
* * *
6403192 GGAAGGAAAAATTTATGGGTTTATGTTTGAAATTTGAATTATGATAACTCATTTGTTATCTATAC
66 GGAAGGAAAAATTGATGGGTTTGTGTTTGAAATTTGAACTATGATAAC-CATTTGTTATCTATAC
*
6403257 CAATCCTATTTGGTTGACGGGAAAATGTAGA
130 CAATCCTATTTGGTTGACAGGAAAATGTAGA
* *
6403288 AAAATTTGGAAATTTTTTGTTGCTGAAGAATTTGCACTTGGTTTTGAACTGTGATTGGATCTTGG
1 AAAATTTGAAAATTTCTTGTTGCTGAAGAATTTGCACTTGGTTTTGAACTGTGATTGGATCTTGG
*
6403353 GGAAGGAAAAATTGATGGGTTTGTGTTTGAAATTTGAACTATGATAACCCATTTGTTATCTATAT
66 GGAAGGAAAAATTGATGGGTTTGTGTTTGAAATTTGAACTATGATAA-CCATTTGTTATCTATAC
** * * * * *
6403418 CGGTCTTGTTTGGTTGATATGAAAATGTAGG
130 CAATCCTATTTGGTTGACAGGAAAATGTAGA
* * *
6403449 AAAATCTAAAAATTTCTTGTTGCTGAAGAATTTGCACTTGGTTTTGAATTGTGATTGGATCTTGG
1 AAAATTTGAAAATTTCTTGTTGCTGAAGAATTTGCACTTGGTTTTGAACTGTGATTGGATCTTGG
*
6403514 GGAAGGAAAGATTGATGGGTTTGTGTTTGAAATTTGAACTATGATAACCGATTTGTTATC
66 GGAAGGAAAAATTGATGGGTTTGTGTTTGAAATTTGAACTATGATAACC-ATTTGTTATC
6403574 CATGCAAAAA
Statistics
Matches: 262, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
160 2 0.01
161 259 0.99
162 1 0.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (160 bp):
AAAATTTGAAAATTTCTTGTTGCTGAAGAATTTGCACTTGGTTTTGAACTGTGATTGGATCTTGG
GGAAGGAAAAATTGATGGGTTTGTGTTTGAAATTTGAACTATGATAACCATTTGTTATCTATACC
AATCCTATTTGGTTGACAGGAAAATGTAGA
Found at i:6403764 original size:28 final size:29
Alignment explanation
Indices: 6403703--6403802 Score: 148
Period size: 28 Copynumber: 3.4 Consensus size: 29
6403693 ATTAAAATTA
*
6403703 TTTAATAATTTTATTATTTCAAAAAATAAT
1 TTTAATAATTTTA-TATTTTAAAAAATAAT
6403733 TTTAATAATTTTATATTTTAAAAAATAA-
1 TTTAATAATTTTATATTTTAAAAAATAAT
* **
6403761 TTTAAAAAAATTATATTTTAAAAAATAAT
1 TTTAATAATTTTATATTTTAAAAAATAAT
6403790 TTTAATAATTTTA
1 TTTAATAATTTTA
6403803 AAATTATTTG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 25 0.40
29 24 0.39
30 13 0.21
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTAATAATTTTATATTTTAAAAAATAAT
Found at i:6403778 original size:15 final size:15
Alignment explanation
Indices: 6403717--6403794 Score: 69
Period size: 13 Copynumber: 5.5 Consensus size: 15
6403707 ATAATTTTAT
*
6403717 TATTTCAAAAAA-TA
1 TATTTTAAAAAATTA
**
6403731 -ATTTTAATAATTTTA
1 TATTTTAA-AAAATTA
6403746 TATTTTAAAAAA-TA
1 TATTTTAAAAAATTA
*
6403760 -ATTTAAAAAAATTA
1 TATTTTAAAAAATTA
6403774 TATTTTAAAAAA-TA
1 TATTTTAAAAAATTA
6403788 -ATTTTAA
1 TATTTTAA
6403795 TAATTTTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
13 23 0.44
14 8 0.15
15 14 0.27
16 7 0.13
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTTAAAAAATTA
Found at i:6404811 original size:19 final size:18
Alignment explanation
Indices: 6404776--6404820 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
6404766 TTTAGAAAAT
* *
6404776 ATTTTTATCATACTAATA
1 ATTTTTATAATAATAATA
6404794 ATTTGTTATAATAATAATAA
1 ATTT-TTATAATAATAAT-A
6404814 ATTTTTA
1 ATTTTTA
6404821 AAATTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 4 0.17
19 14 0.61
20 5 0.22
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTTTTATAATAATAATA
Found at i:6405252 original size:6 final size:7
Alignment explanation
Indices: 6405233--6405258 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6405223 ATAGAAAATT
6405233 TTAAAAA
1 TTAAAAA
6405240 TTAAAAA
1 TTAAAAA
6405247 TTAAAAA
1 TTAAAAA
6405254 TTAAA
1 TTAAA
6405259 TAAAAGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:6407109 original size:59 final size:58
Alignment explanation
Indices: 6406913--6407109 Score: 180
Period size: 59 Copynumber: 3.4 Consensus size: 58
6406903 TGGGTTTTTA
* * *
6406913 GGGGTAAAATGGTAATTTTT-ATGAAATCGGGGCTAAAAATGGAATTTGGAAAGTTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTGGAAAGTTTG
* * ** * * * * * *
6406970 GGGAATAAAATGGTAAATTTTGGCAAAAACAAGGTCAAAAATGAAATTTTGAAAAGTTCG
1 GGG-GTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAA-TTTGGAAAGTTTG
* * * * * * *
6407030 GAGGCAAAACGATAAGTTTTGGTGAAATCGAGGTTAAAAATGGGATTTAGGGAAGTTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTT-GGAAAGTTTG
6407089 GGGGTAAAATGGTAATTTTTG
1 GGGGTAAAATGGTAATTTTTG
6407110 AAAGTTTTGG
Statistics
Matches: 102, Mismatches: 34, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
57 3 0.03
58 18 0.18
59 68 0.67
60 13 0.13
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.29
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTGGAAAGTTTG
Found at i:6407121 original size:30 final size:30
Alignment explanation
Indices: 6407082--6407271 Score: 224
Period size: 30 Copynumber: 6.4 Consensus size: 30
6407072 GGATTTAGGG
* *
6407082 AAGTTTGGGGGT-AAAATGGTAATTTTTG-A
1 AAGTTTTGGGGTCAAAAT-GTAATTTTGGAA
* * *
6407111 AAGTTTTGGGGTTAAAGTATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
6407141 AAGTTTTGGAGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
6407171 AAGTTTTGGGGTCAAAATGTAATTTT-TAGA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGA-A
* * **
6407201 AAGTTTTAGGGTCAAAATATAATTTTCAAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
6407231 AAGTTTTAGGGTCGAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
6407261 AAGTTTTGGGG
1 AAGTTTTGGGG
6407272 ACTTACTAAG
Statistics
Matches: 139, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
29 20 0.14
30 118 0.85
31 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:6407234 original size:90 final size:89
Alignment explanation
Indices: 6407082--6407271 Score: 276
Period size: 90 Copynumber: 2.1 Consensus size: 89
6407072 GGATTTAGGG
* * * * **
6407082 AAGTTTGGGGGTAAAATGGTAATTTTTGAAAGTTTTGGGGTTAAAGTATAATTTTGGAAAAGTTT
1 AAGTTTTGGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAATATAATTTTCAAAAAGTTT
6407147 T-GGAGTCAAAATGTAATTTTGGAA
66 TAGG-GTCAAAATGTAATTTTGGAA
6407171 AAGTTTTGGGGTCAAAAT-GTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTCAAAAAGT
1 AAGTTTTGGGGT-AAAATGGTAATTTTT-GAAAGTTTTAGGGTCAAAATATAATTTTCAAAAAGT
*
6407235 TTTAGGGTCGAAATGTAATTTTGGAA
64 TTTAGGGTCAAAATGTAATTTTGGAA
6407261 AAGTTTTGGGG
1 AAGTTTTGGGG
6407272 ACTTACTAAG
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
89 20 0.22
90 69 0.76
91 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (89 bp):
AAGTTTTGGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAATATAATTTTCAAAAAGTTT
TAGGGTCAAAATGTAATTTTGGAA
Found at i:6408364 original size:7 final size:7
Alignment explanation
Indices: 6408352--6408421 Score: 67
Period size: 7 Copynumber: 10.3 Consensus size: 7
6408342 ATTTTTTAAT
6408352 ATTATTA
1 ATTATTA
6408359 ATTATTA
1 ATTATTA
6408366 A-TATTA
1 ATTATTA
*
6408372 ACTA-TA
1 ATTATTA
*
6408378 ATCA-TA
1 ATTATTA
*
6408384 AATATTA
1 ATTATTA
6408391 ATTA-TA
1 ATTATTA
6408397 ATTATTA
1 ATTATTA
6408404 ATTATTA
1 ATTATTA
6408411 TGATTATTA
1 --ATTATTA
6408420 AT
1 AT
6408422 AATATTTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
6 20 0.38
7 26 0.49
9 7 0.13
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (7 bp):
ATTATTA
Found at i:6408370 original size:13 final size:13
Alignment explanation
Indices: 6408352--6408436 Score: 56
Period size: 13 Copynumber: 6.7 Consensus size: 13
6408342 ATTTTTTAAT
6408352 ATTATTAATTATTA
1 ATTATTAA-TATTA
6408366 A-TATTAACTA-TA
1 ATTATTAA-TATTA
* *
6408378 ATCATAAATATTA
1 ATTATTAATATTA
6408391 ATTA-TAATTATTA
1 ATTATTAA-TATTA
6408404 ATTATT-ATGATT-
1 ATTATTAAT-ATTA
*
6408416 ATTAATAATATT-
1 ATTATTAATATTA
*
6408428 TTTATTAAT
1 ATTATTAAT
6408437 GATATTGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
12 23 0.40
13 32 0.56
14 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (13 bp):
ATTATTAATATTA
Found at i:6409034 original size:28 final size:28
Alignment explanation
Indices: 6409003--6409061 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
6408993 GGGCTTTTTA
*
6409003 TAATCGGGCCTTTAATTTGAGCTTCTTG
1 TAATCAGGCCTTTAATTTGAGCTTCTTG
* *
6409031 TAATCAGGCCTTTAATTTGGGCTTTTTG
1 TAATCAGGCCTTTAATTTGAGCTTCTTG
6409059 TAA
1 TAA
6409062 ATGGACATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (28 bp):
TAATCAGGCCTTTAATTTGAGCTTCTTG
Found at i:6409120 original size:17 final size:17
Alignment explanation
Indices: 6409100--6409164 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
6409090 TTAATATTAT
* *
6409100 TTTAAATTAAGTTTAAA
1 TTTAAAATAAATTTAAA
6409117 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
6409134 --T-AAGTAAATTTAAA
1 TTTAAAATAAATTTAAA
*
6409148 TTTAAGATAAATTTAAA
1 TTTAAAATAAATTTAAA
6409165 AATGAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 12 0.30
15 1 0.03
16 1 0.03
17 26 0.65
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:6409127 original size:11 final size:11
Alignment explanation
Indices: 6409113--6409183 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
6409103 AAATTAAGTT
6409113 TAAATTTAAAA
1 TAAATTTAAAA
6409124 TAAATTT-AAA
1 TAAATTTAAAA
* *
6409134 T-AA-GTAAATT
1 TAAATTTAAA-A
*
6409144 TAAATTTAAGA
1 TAAATTTAAAA
6409155 TAAATTTAAAAA
1 TAAATTT-AAAA
*
6409167 TGAATTTAAAA
1 TAAATTTAAAA
*
6409178 TTAATT
1 TAAATT
6409184 CAAACTTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 4 0.09
10 5 0.11
11 25 0.53
12 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:6409149 original size:31 final size:29
Alignment explanation
Indices: 6409084--6409181 Score: 99
Period size: 31 Copynumber: 3.3 Consensus size: 29
6409074 TTTTAATTTA
* * * * *
6409084 TTAAATTTAATAT-TATTTTAAATTAAGT
1 TTAAATTTAAAATAAATTTAAAAATAAAT
6409112 TTAAATTTAAAATAAATTTAAATAAGTAAAT
1 TTAAATTTAAAATAAATTTAAA-AA-TAAAT
* *
6409143 TTAAATTTAAGATAAATTTAAAAATGAAT
1 TTAAATTTAAAATAAATTTAAAAATAAAT
*
6409172 TTAAAATTAA
1 TTAAATTTAA
6409182 TTCAAACTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.20
29 19 0.32
30 3 0.05
31 25 0.42
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (29 bp):
TTAAATTTAAAATAAATTTAAAAATAAAT
Found at i:6414559 original size:20 final size:21
Alignment explanation
Indices: 6414519--6414561 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
6414509 TTATTTAATG
6414519 ATCAAATATTAAGGAAAAAAA
1 ATCAAATATTAAGGAAAAAAA
6414540 ATCAAATATTAAGGAAAAAAA
1 ATCAAATATTAAGGAAAAAAA
6414561 A
1 A
6414562 CTACCAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.67, C:0.05, G:0.09, T:0.19
Consensus pattern (21 bp):
ATCAAATATTAAGGAAAAAAA
Found at i:6425655 original size:16 final size:16
Alignment explanation
Indices: 6425617--6425655 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6425607 AAAGTATATT
6425617 TTTTATTTTTTTTAAA
1 TTTTATTTTTTTTAAA
* *
6425633 ATATATTTTTTTTAAA
1 TTTTATTTTTTTTAAA
6425649 TTTTATT
1 TTTTATT
6425656 CAAAGATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTTTTTTTAAA
Found at i:6426104 original size:31 final size:31
Alignment explanation
Indices: 6426067--6426136 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
6426057 AATAAAAATA
*
6426067 TTCATTTTAGGCA-TCGTAG-TAAAAATTTATT
1 TTCATTTTAGGCACT-GTAGTTAAAAA-CTATT
6426098 TTCATTTTAGGCACTGTAGTTAAAAACTATT
1 TTCATTTTAGGCACTGTAGTTAAAAACTATT
*
6426129 CTCATTTT
1 TTCATTTT
6426137 GGTTACCCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 28 0.80
32 7 0.20
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (31 bp):
TTCATTTTAGGCACTGTAGTTAAAAACTATT
Found at i:6426553 original size:18 final size:18
Alignment explanation
Indices: 6426527--6426561 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6426517 ATTAATTCTA
6426527 GAAAATAAAAAAATAAAG
1 GAAAATAAAAAAATAAAG
* *
6426545 GAAATTAAAAAGATAAA
1 GAAAATAAAAAAATAAA
6426562 ATGATTTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (18 bp):
GAAAATAAAAAAATAAAG
Found at i:6428361 original size:11 final size:11
Alignment explanation
Indices: 6428345--6428376 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
6428335 AAAATTAAAA
6428345 GATTAAACTTC
1 GATTAAACTTC
6428356 GATTAAACTTC
1 GATTAAACTTC
*
6428367 AATTAAACTT
1 GATTAAACTT
6428377 TATACTAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (11 bp):
GATTAAACTTC
Found at i:6435749 original size:30 final size:30
Alignment explanation
Indices: 6435710--6435774 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 30
6435700 CACTCAACTC
6435710 TCCTCCTCCTCCTCC-CCCTTCTTCTTCCCTA
1 TCCTCCTCCTCCTCCTCCC--CTTCTTCCCTA
6435741 TCCT-CTCCTCCTCCTTCCCCTTCTTCCCTA
1 TCCTCCTCCTCCTCC-TCCCCTTCTTCCCTA
6435771 TCCT
1 TCCT
6435775 TTCTCTTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 25 0.78
31 4 0.12
32 3 0.09
ACGTcount: A:0.03, C:0.57, G:0.00, T:0.40
Consensus pattern (30 bp):
TCCTCCTCCTCCTCCTCCCCTTCTTCCCTA
Found at i:6445158 original size:25 final size:25
Alignment explanation
Indices: 6445141--6445213 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
6445131 GATTCGATAT
* * *
6445141 GATATGTTATATTATGATTTGATTC
1 GATATGATATGTTATGATATGATTC
* *
6445166 AATATGATATGTTATGATACGATTC
1 GATATGATATGTTATGATATGATTC
*
6445191 GACATGATATGTTATGATATGAT
1 GATATGATATGTTATGATATGAT
6445214 AAGTTATGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (25 bp):
GATATGATATGTTATGATATGATTC
Found at i:6445184 original size:40 final size:40
Alignment explanation
Indices: 6445096--6445173 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
6445086 ATCGGGGTAG
* * ** *
6445096 GATATGATATTTTATGTTATGATTTGATTTGATTTGATTC
1 GATATGATATGTTATATTATGATTTGATTCAATATGATTC
6445136 GATATGATATGTTATATTATGATTTGATTCAATATGAT
1 GATATGATATGTTATATTATGATTTGATTCAATATGAT
6445174 ATGTTATGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (40 bp):
GATATGATATGTTATATTATGATTTGATTCAATATGATTC
Found at i:6447202 original size:22 final size:23
Alignment explanation
Indices: 6447177--6447223 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
6447167 GAGTTCATTC
*
6447177 TATTA-TTCAATTGTTTTTGAAT
1 TATTATTTCAATTATTTTTGAAT
* *
6447199 TATTATTTTATTTATTTTTGAAT
1 TATTATTTCAATTATTTTTGAAT
6447222 TA
1 TA
6447224 ATAACTTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (23 bp):
TATTATTTCAATTATTTTTGAAT
Found at i:6452849 original size:2 final size:2
Alignment explanation
Indices: 6452842--6452867 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6452832 TTACCACGTG
6452842 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6452868 ATGCTTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6455302 original size:29 final size:30
Alignment explanation
Indices: 6455262--6455429 Score: 174
Period size: 29 Copynumber: 5.8 Consensus size: 30
6455252 ATCCGAGGGT
*
6455262 AAAATGGTAA-TTTTGGAAGTGTCGGGGTTA
1 AAAATGGTAATTTTTGGAAGT-TTGGGGTTA
*
6455292 AAAATGG-AATTTTTGGAAGTTTGAGGTTA
1 AAAATGGTAATTTTTGGAAGTTTGGGGTTA
*
6455321 AAAA-GGTAATTTTTGGAAGTTTTGGGG-CA
1 AAAATGGTAATTTTTGGAAG-TTTGGGGTTA
*
6455350 AAAAT-GTAATTTTTGGAAGTTTGGGG--G
1 AAAATGGTAATTTTTGGAAGTTTGGGGTTA
* *
6455377 AAAAT-GTAATTTTTGAAAGTTTTGGGGTCA
1 AAAATGGTAATTTTTGGAAG-TTTGGGGTTA
*
6455407 AAAAT-ATAATTTTTGGATAGTTT
1 AAAATGGTAATTTTTGGA-AGTTT
6455430 AGGAACTTTC
Statistics
Matches: 121, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
27 18 0.15
28 16 0.13
29 44 0.36
30 41 0.34
31 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.38
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAGTTTGGGGTTA
Found at i:6455323 original size:58 final size:59
Alignment explanation
Indices: 6455256--6455429 Score: 230
Period size: 58 Copynumber: 3.0 Consensus size: 59
6455246 TTGAACATCC
* * * *
6455256 GAGGGTAAAATGGTAA-TTTTGGAAGTGTCGGGGTTAAAAATGGAATTTTTGGAAGTTT
1 GAGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGTAATTTTTGGAAGTTT
* *
6455314 GAGGTTAAAAAGGTAATTTTTGGAAGTTTTGGGG-CAAAAATGTAATTTTTGGAAGTTT
1 GAGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGTAATTTTTGGAAGTTT
* * *
6455372 G-GGGGAAAAT-GTAATTTTTGAAAGTTTTGGGGTCAAAAATATAATTTTTGGATAGTTT
1 GAGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGTAATTTTTGGA-AGTTT
6455430 AGGAACTTTC
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
56 21 0.21
57 24 0.24
58 42 0.41
59 15 0.15
ACGTcount: A:0.32, C:0.02, G:0.29, T:0.37
Consensus pattern (59 bp):
GAGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGTAATTTTTGGAAGTTT
Found at i:6456446 original size:16 final size:16
Alignment explanation
Indices: 6456427--6456470 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 16
6456417 CTCTTTGTGT
6456427 ATTAATATTATTAATA
1 ATTAATATTATTAATA
6456443 ATTAATATTATTATTAATA
1 ATT-A-A-TATTATTAATA
6456462 ATTAATATT
1 ATTAATATT
6456471 TCTAACCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.28
17 2 0.08
18 2 0.08
19 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTAATATTATTAATA
Found at i:6456456 original size:19 final size:19
Alignment explanation
Indices: 6456432--6456470 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6456422 TGTGTATTAA
6456432 TATTATTAATAATTAATAT
1 TATTATTAATAATTAATAT
6456451 TATTATTAATAATTAATAT
1 TATTATTAATAATTAATAT
6456470 T
1 T
6456471 TCTAACCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTATTAATAATTAATAT
Found at i:6456543 original size:21 final size:21
Alignment explanation
Indices: 6456506--6456564 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
6456496 TAATAATTAA
6456506 TATTATTATTA-TAAAACGTT
1 TATTATTATTATTAAAACGTT
*
6456526 TATTAATATTATTAAAACGTT
1 TATTATTATTATTAAAACGTT
* *
6456547 TGTTATTATTATCAAAAC
1 TATTATTATTATTAAAAC
6456565 ATTAATGCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (21 bp):
TATTATTATTATTAAAACGTT
Found at i:6457308 original size:13 final size:14
Alignment explanation
Indices: 6457273--6457310 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
6457263 AATTTAGTCC
*
6457273 AATTTGGGCTTGTA
1 AATTTGGACTTGTA
*
6457287 AACTTGGACTTGT-
1 AATTTGGACTTGTA
6457300 AATTTGGACTT
1 AATTTGGACTT
6457311 TTGGATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.42
Consensus pattern (14 bp):
AATTTGGACTTGTA
Found at i:6457353 original size:11 final size:11
Alignment explanation
Indices: 6457338--6457420 Score: 60
Period size: 11 Copynumber: 7.4 Consensus size: 11
6457328 TATAATAATA
6457338 TTAAATTTAAA-
1 TTAAA-TTAAAT
*
6457349 TTAAATTCAAAC
1 TTAAATT-AAAT
*
6457361 CTAAATTAAAT
1 TTAAATTAAAT
* *
6457372 TTAAAATACAT
1 TTAAATTAAAT
* *
6457383 TTAAATTTAAG
1 TTAAATTAAAT
*
6457394 ATAAATTTAAAT
1 TTAAA-TTAAAT
*
6457406 TTAAAATAAAT
1 TTAAATTAAAT
6457417 TTAA
1 TTAA
6457421 TCTCAAAGTA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
10 2 0.04
11 39 0.71
12 14 0.25
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:6457354 original size:28 final size:27
Alignment explanation
Indices: 6457315--6457406 Score: 82
Period size: 28 Copynumber: 3.3 Consensus size: 27
6457305 GGACTTTTGG
6457315 ATTT-AATTAAATTTATAA-TAATATTAA
1 ATTTAAATTAAATTTA-AACTAA-ATTAA
*
6457342 ATTTAAATTAAATTCAAACCTAAATTAA
1 ATTTAAATTAAATTTAAA-CTAAATTAA
* * *
6457370 ATTTAAAATACATTTAAATTTAAGA-TAA
1 ATTTAAATTAAATTTAAA-CTAA-ATTAA
6457398 ATTTAAATT
1 ATTTAAATT
6457407 TAAAATAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
27 6 0.11
28 44 0.81
29 4 0.07
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (27 bp):
ATTTAAATTAAATTTAAACTAAATTAA
Found at i:6457370 original size:45 final size:45
Alignment explanation
Indices: 6457319--6457420 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
6457309 TTTTGGATTT
*
6457319 AATTAAATTTATAATA-ATATTAAATTTAA-ATTAAATTCAAACCTA
1 AATTAAATTTAAAATACAT-TTAAATTTAAGA-TAAATTCAAACCTA
* **
6457364 AATTAAATTTAAAATACATTTAAATTTAAGATAAATTTAAATTTA
1 AATTAAATTTAAAATACATTTAAATTTAAGATAAATTCAAACCTA
*
6457409 AAATAAATTTAA
1 AATTAAATTTAA
6457421 TCTCAAAGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 47 0.94
46 3 0.06
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (45 bp):
AATTAAATTTAAAATACATTTAAATTTAAGATAAATTCAAACCTA
Found at i:6457386 original size:17 final size:17
Alignment explanation
Indices: 6457362--6457420 Score: 93
Period size: 17 Copynumber: 3.5 Consensus size: 17
6457352 AATTCAAACC
6457362 TAAA-TTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
6457378 TACATTTAAATTTAAGA
1 TAAATTTAAATTTAAAA
6457395 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
6457412 TAAATTTAA
1 TAAATTTAA
6457421 TCTCAAAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
16 3 0.08
17 35 0.92
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:6457387 original size:34 final size:32
Alignment explanation
Indices: 6457345--6457437 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 32
6457335 ATATTAAATT
6457345 TAAA-TTAAATTCAAACCTAAATTAAATTTAAAA
1 TAAATTTAAATTCAAA--TAAATTAAATTTAAAA
* *
6457378 TACATTTAAATTTAAGATAAATTTAAATTTAAAA
1 TAAATTTAAATTCAA-ATAAA-TTAAATTTAAAA
6457412 TAAATTT-AATCTCAAAGTAAATTAAA
1 TAAATTTAAAT-TCAAA-TAAATTAAA
6457438 AATGGTTTAG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
33 16 0.31
34 34 0.67
35 1 0.02
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (32 bp):
TAAATTTAAATTCAAATAAATTAAATTTAAAA
Found at i:6458373 original size:92 final size:92
Alignment explanation
Indices: 6458259--6459041 Score: 1298
Period size: 92 Copynumber: 8.5 Consensus size: 92
6458249 ATTTGGTATC
* *
6458259 GAAGCTTCGTCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTGCA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
6458324 ACTTAAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* * * * *
6458351 GGAGCTTCATCTTTCTCTTACTACAACTTTAGAGAGATAAAAATTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
6458416 ACTTCAAAAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* *
6458443 GAAGCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTGCA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
6458508 ACTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
6458535 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
6458600 ACTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* * *
6458627 GGAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGAATTGCTATCTAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
6458692 ACTTCAAGAGGATAAGG-ATTGATGTTT
66 ACTTCAAGAGGAT-AGGAATTGATGTTT
*
6458719 GAAGCTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
6458784 ACTTCAAGAGGATAGGGATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* * *
6458811 GAAGCTTTATCTTGATCTTACTACAACTTCAGAGAGATAAAGGCTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
* ** *
6458876 ACTTCAAAAGGATAAAAATTGATGCTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* *
6458903 GAAACTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
6458968 ACTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* * *
6458995 GAAACTTCATCTTACTCTTACTACAACTTCAAAGAGATAAAGACTTG
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTG
6459042 TTATTTTGAT
Statistics
Matches: 648, Mismatches: 41, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
91 3 0.00
92 642 0.99
93 3 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (92 bp):
GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
ACTTCAAGAGGATAGGAATTGATGTTT
Done.