Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 219 of 235
Found at i:74317718 original size:45 final size:45
Alignment explanation
Indices: 74317551--74317719 Score: 194
Period size: 45 Copynumber: 3.7 Consensus size: 45
74317541 TGAATTAAAG
* * * *
74317551 AAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAAAAAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACG--AGAAT
* * * * *
74317598 GAATAAGAACATGGTTGAAAGATACTATGGAATCAAGACAAGAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAGAAT
* * * *
74317643 GAATAAAACCATGGCTGAAAGGCACTATGGCATCAAGACGAGAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAGAAT
*
74317688 AAATAAGACCATGGTTGAAAGACACCATGGCA
1 AAATAAGACCATGGTTGAAAGACACTATGGCA
74317720 CACTCCTATC
Statistics
Matches: 101, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
45 69 0.68
47 32 0.32
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (45 bp):
AAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAGAAT
Found at i:74320359 original size:75 final size:75
Alignment explanation
Indices: 74320235--74320442 Score: 380
Period size: 75 Copynumber: 2.8 Consensus size: 75
74320225 TAACCGTTAT
*
74320235 CGGTGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGGTTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
74320300 ATTTAAGATA
66 ATTTAAGATA
* * *
74320310 TGGTGGGTTCAACACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGGAACCCCTTTCAC
1 CGGTGGGTTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
74320375 ATTTAAGATA
66 ATTTAAGATA
74320385 CGGTGGGTTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCC
1 CGGTGGGTTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCC
74320443 TTCGGGGGAA
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 126 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (75 bp):
CGGTGGGTTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTTAAGATA
Found at i:74320526 original size:102 final size:102
Alignment explanation
Indices: 74320345--74320544 Score: 330
Period size: 102 Copynumber: 2.0 Consensus size: 102
74320335 CCAATGAGTC
* * * *
74320345 GGGGAATCAGCACTTAGGAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACAGTGGATTCAGCACTTAGCAACCA
* *
74320410 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCTTCG
66 CCAATGAATAGGGGAATCAGCACTTAGCAACCCTTCG
74320447 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACAGTGGAATT-AGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACAGTGG-ATTCAGCACTTAGCAACC
74320511 ACCAATGAATAGGGGAATCAGCACTTAGCAACCC
65 ACCAATGAATAGGGGAATCAGCACTTAGCAACCC
74320545 CTTTTTTATT
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 89 0.98
103 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACAGTGGATTCAGCACTTAGCAACCA
CCAATGAATAGGGGAATCAGCACTTAGCAACCCTTCG
Found at i:74327789 original size:33 final size:33
Alignment explanation
Indices: 74327743--74327861 Score: 96
Period size: 33 Copynumber: 3.3 Consensus size: 33
74327733 TTAACCGTTA
*
74327743 TCGGTGGATTCAGCACTTAGCAACCACCAATGAG
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAG
* * *
74327777 TCGGGGAATCAGCACTTAACAACCCCTTTCACATTTAAG
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--TGAG
*
74327816 ATACGTGGG-TTCAGCACTTAGCAACCACCAATGAG
1 -T-CG-GGGAATCAGCACTTAGCAACCACCAATGAG
74327851 TCGGGGAATCA
1 TCGGGGAATCA
74327862 CTAATGAGTC
Statistics
Matches: 66, Mismatches: 9, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
32 3 0.05
33 24 0.36
34 5 0.08
35 3 0.05
36 2 0.03
37 2 0.03
38 2 0.03
39 3 0.05
40 1 0.02
41 18 0.27
42 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAG
Found at i:74327962 original size:33 final size:33
Alignment explanation
Indices: 74327920--74328070 Score: 116
Period size: 33 Copynumber: 4.5 Consensus size: 33
74327910 TACGGTGGGT
74327920 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
*
74327953 TCAGCACTTAGCAACC-CC--T-CG--GGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
* *
74327980 TCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAA
1 TCAGCACTTAGCAA-CCAC--CA-A--TGAG-T-CGG-GGAA
* * *
74328022 TCAGCACTTAGCAACCACCAATGAATAGGAGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
*
74328055 TCAACACTTAGCAACC
1 TCAGCACTTAGCAACC
74328071 CCTTTTTTAT
Statistics
Matches: 95, Mismatches: 8, Indels: 30
0.71 0.06 0.23
Matches are distributed among these distances:
27 20 0.21
28 2 0.02
29 2 0.02
30 1 0.01
31 1 0.01
32 2 0.02
33 34 0.36
34 2 0.02
35 1 0.01
36 3 0.03
37 1 0.01
38 1 0.01
39 2 0.02
41 5 0.05
42 18 0.19
ACGTcount: A:0.34, C:0.29, G:0.19, T:0.18
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
Found at i:74328056 original size:102 final size:102
Alignment explanation
Indices: 74327872--74328073 Score: 332
Period size: 102 Copynumber: 2.0 Consensus size: 102
74327862 CTAATGAGTC
* * **
74327872 GGGGAATCAGCACTTAGGAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* * * *
74327937 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGAATAGGAGAATCAACACTTAGCAACCCCTCG
74327974 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
74328039 CCAATGAATAGGAGAATCAACACTTAGCAACCCCT
66 CCAATGAATAGGAGAATCAACACTTAGCAACCCCT
74328074 TTTTTATTCA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATAGGAGAATCAACACTTAGCAACCCCTCG
Found at i:74328438 original size:30 final size:30
Alignment explanation
Indices: 74328404--74328467 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
74328394 AATCCTCCAT
*
74328404 CCAAATTTTTGAAAAATTACAATTTTGCCC
1 CCAAACTTTTGAAAAATTACAATTTTGCCC
* * * *
74328434 CCAAACTTTTGCATAATTACACTTTTGTCC
1 CCAAACTTTTGAAAAATTACAATTTTGCCC
74328464 CCAA
1 CCAA
74328468 GCTCGGAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (30 bp):
CCAAACTTTTGAAAAATTACAATTTTGCCC
Found at i:74328624 original size:79 final size:78
Alignment explanation
Indices: 74328493--74328639 Score: 276
Period size: 79 Copynumber: 1.9 Consensus size: 78
74328483 TTCATCACTT
*
74328493 GTTCTTATGTTTTATGACATGCTGAACATTTGTCTCTTCTATGGCAACATCAAATTCTCACTCTA
1 GTTCTTATGTTTTATGACATGCTGAACATTTGTCCCTTCTATGGCAACATCAAATTCTCACTCTA
74328558 ACATACACTTATG
66 ACATACACTTATG
74328571 NGTTCTTATGTTTTATGACATGCTGAACATTTGTCCCTTCTATGGCAACATCAAATTCTCACTCT
1 -GTTCTTATGTTTTATGACATGCTGAACATTTGTCCCTTCTATGGCAACATCAAATTCTCACTCT
74328636 AACA
65 AACA
74328640 CATACTTTTG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (78 bp):
GTTCTTATGTTTTATGACATGCTGAACATTTGTCCCTTCTATGGCAACATCAAATTCTCACTCTA
ACATACACTTATG
Found at i:74329843 original size:15 final size:15
Alignment explanation
Indices: 74329807--74329843 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
74329797 AGACACAGGC
* *
74329807 GTGTGTCTCAGTTGT
1 GTGTGTTTCAATTGT
74329822 GTGTGTTTCAATTGT
1 GTGTGTTTCAATTGT
74329837 GTGTGTT
1 GTGTGTT
74329844 CCCTATAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.08, G:0.32, T:0.51
Consensus pattern (15 bp):
GTGTGTTTCAATTGT
Found at i:74331022 original size:24 final size:24
Alignment explanation
Indices: 74330990--74331035 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
74330980 GGGTGTGACA
74330990 TGAAATGTGGCACTTCAATGCATT
1 TGAAATGTGGCACTTCAATGCATT
*
74331014 TGAAATGTGGCACTTCAGTGCA
1 TGAAATGTGGCACTTCAATGCA
74331036 AATGAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (24 bp):
TGAAATGTGGCACTTCAATGCATT
Found at i:74331041 original size:24 final size:24
Alignment explanation
Indices: 74330989--74331042 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
74330979 GGGGTGTGAC
*
74330989 ATGAAATGTGGCACTTCAATGCAT
1 ATGAAATGTGGCACTTCAATGCAA
* *
74331013 TTGAAATGTGGCACTTCAGTGCAA
1 ATGAAATGTGGCACTTCAATGCAA
74331037 ATGAAA
1 ATGAAA
74331043 ATGGAACTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (24 bp):
ATGAAATGTGGCACTTCAATGCAA
Found at i:74332045 original size:29 final size:29
Alignment explanation
Indices: 74332013--74332074 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
74332003 CTTTGGTACC
*
74332013 TGTACTATT-TTTATTATCAGTTTGACCTT
1 TGTACT-TTATTTATTATCAGTTTGACATT
* * *
74332042 TGTAGTTTATTTTTTATTAGTTTGACATT
1 TGTACTTTATTTATTATCAGTTTGACATT
74332071 TGTA
1 TGTA
74332075 TTTTCATTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (29 bp):
TGTACTTTATTTATTATCAGTTTGACATT
Found at i:74332634 original size:20 final size:20
Alignment explanation
Indices: 74332611--74332648 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
74332601 TTTTGGGACT
*
74332611 TTTTTTCGATTTTTTTATGG
1 TTTTTGCGATTTTTTTATGG
*
74332631 TTTTTGGGATTTTTTTAT
1 TTTTTGCGATTTTTTTAT
74332649 ATTTTAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.03, G:0.16, T:0.71
Consensus pattern (20 bp):
TTTTTGCGATTTTTTTATGG
Found at i:74334272 original size:37 final size:37
Alignment explanation
Indices: 74334230--74334300 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
74334220 ATAGTCAGTG
74334230 ATCGAGTTTTAGGTCATCATTTGCGTTATGCTTAGTA
1 ATCGAGTTTTAGGTCATCATTTGCGTTATGCTTAGTA
74334267 ATCGAGTTTTAGGTCATCATTTGCGTTATGCTTA
1 ATCGAGTTTTAGGTCATCATTTGCGTTATGCTTA
74334301 CCATGTGACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (37 bp):
ATCGAGTTTTAGGTCATCATTTGCGTTATGCTTAGTA
Found at i:74338444 original size:21 final size:20
Alignment explanation
Indices: 74338402--74338441 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
74338392 AGTTGATTAG
*
74338402 AAATATTTTGAATTTAAATT
1 AAATAATTTGAATTTAAATT
*
74338422 AAATAATTTGTATTTAAATT
1 AAATAATTTGAATTTAAATT
74338442 TAATTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
AAATAATTTGAATTTAAATT
Found at i:74344163 original size:20 final size:20
Alignment explanation
Indices: 74344134--74344188 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
74344124 TTAGAGGGGT
* * *
74344134 TGTACAGATACATTAGGAGA
1 TGTACTGATACATGAGGACA
*
74344154 TGTACTGATACTATGAGGCCA
1 TGTACTGATAC-ATGAGGACA
*
74344175 TGTATTGATACATG
1 TGTACTGATACATG
74344189 CCTCTCTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.31
Consensus pattern (20 bp):
TGTACTGATACATGAGGACA
Found at i:74345087 original size:16 final size:16
Alignment explanation
Indices: 74345066--74345117 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
74345056 TTTGGTTCGC
74345066 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
74345082 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
74345098 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
74345114 TGTA
1 TGTA
74345118 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:74345203 original size:39 final size:43
Alignment explanation
Indices: 74345098--74345207 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
74345088 GGATTAGAGG
74345098 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
74345143 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
74345183 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
74345208 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:74345374 original size:18 final size:17
Alignment explanation
Indices: 74345353--74345387 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74345343 TTATTATTAA
*
74345353 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
74345371 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
74345388 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:74345453 original size:157 final size:157
Alignment explanation
Indices: 74345240--74345557 Score: 582
Period size: 157 Copynumber: 2.0 Consensus size: 157
74345230 TAGAATACCC
*
74345240 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * *
74345305 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAA
74345370 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
74345397 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
74345462 ATATCAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAA
74345527 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
74345554 TTAG
1 TTAG
74345558 TATTCTTATA
Statistics
Matches: 155, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:74345590 original size:61 final size:61
Alignment explanation
Indices: 74345525--74345712 Score: 167
Period size: 61 Copynumber: 3.1 Consensus size: 61
74345515 TTATAATTAA
*
74345525 AATATATAATTTAATAAAATTCTTAATAATTAGTATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * ** *
74345586 AATATATGATACTATAAAAGATAATT-TGAAATAATTAATATT-AAATAT--ATTT--T--AATT
1 AATATAT-A-A-TTTAATA-A-AATTCT-TAATAATTAATATTCTTATATGAATTTACTCAAATC
*
74345643 AA
60 AT
* * *
74345645 AATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
74345706 AATATAT
1 AATATAT
74345713 GATACTATAA
Statistics
Matches: 95, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
54 15 0.16
55 5 0.05
56 5 0.05
57 5 0.05
58 1 0.01
59 12 0.13
61 19 0.20
62 1 0.01
63 5 0.05
64 5 0.05
65 6 0.06
66 16 0.17
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:74345634 original size:120 final size:119
Alignment explanation
Indices: 74345496--74345782 Score: 461
Period size: 120 Copynumber: 2.4 Consensus size: 119
74345486 ATATTTAAAC
* **
74345496 ATAA-TAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGTA
1 ATAATTAA-TATTAAATATATT-TAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAA
* *
74345560 TTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
64 TTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
74345616 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAAT
1 ATAATTAATATTAAATATA-TTTAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAAT
*
74345681 TCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
65 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
*
74345736 ATAATTAATATTAAATATGATTTAATT-AAATATATGATTTAATAAAA
1 ATAATTAATATTAAATAT-ATTTAATTAAAATATATAATTTAATAAAA
74345783 CATATGTTAT
Statistics
Matches: 157, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
119 19 0.12
120 132 0.84
121 6 0.04
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (119 bp):
ATAATTAATATTAAATATATTTAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAATT
CTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
Found at i:74345641 original size:157 final size:156
Alignment explanation
Indices: 74345291--74345610 Score: 367
Period size: 157 Copynumber: 2.0 Consensus size: 156
74345281 ATTTAAATTT
* * *
74345291 TAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGA-TAATAATATCAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATA
* * * * **
74345356 TATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAAA
65 TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCACAAATATGATTTACTAAA
* * * * * ***
74345421 TTATTATTGTTATTGTTATTTAAATTT
130 TCATTAATGATATTGATATATAAAAGA
*
74345448 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATA
1 TAATAAGA-TAATAATATCAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATA
* **
74345513 TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGTATTCTTATATGAATTTACT
65 TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCA--CAAATATG-ATTTACT
74345578 CAAATCA-TAAT-ATA-TGATACTATAAAAGA
127 -AAATCATTAATGATATTGATA-TATAAAAGA
74345607 TAAT
1 TAAT
74345611 TTGAAATAAT
Statistics
Matches: 139, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
157 108 0.78
158 4 0.03
159 15 0.11
160 7 0.05
161 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (156 bp):
TAATAAGATAATAATATCAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATAT
ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCACAAATATGATTTACTAAAT
CATTAATGATATTGATATATAAAAGA
Found at i:74345657 original size:18 final size:17
Alignment explanation
Indices: 74345630--74345664 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74345620 TTAATATTAA
*
74345630 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
74345648 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
74345665 TCTTAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:74345770 original size:17 final size:17
Alignment explanation
Indices: 74345750--74345788 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
74345740 TTAATATTAA
* *
74345750 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAC
74345767 ATATGATTTAATAAAAC
1 ATATGATTTAATAAAAC
74345784 ATATG
1 ATATG
74345789 TTATATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (17 bp):
ATATGATTTAATAAAAC
Found at i:74349420 original size:23 final size:23
Alignment explanation
Indices: 74349360--74349422 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
74349350 TGTACTGACT
74349360 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAA-AACAATTTCCAGC
* *
74349384 AGAC-AACCAAAACAATTTCTAG-
1 A-ACAAATCAAAACAATTTCCAGC
74349406 AACAAATCAATAACAAT
1 AACAAATCAA-AACAAT
74349423 ATCAAAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 17 0.52
24 6 0.18
25 2 0.06
ACGTcount: A:0.54, C:0.22, G:0.06, T:0.17
Consensus pattern (23 bp):
AACAAATCAAAACAATTTCCAGC
Found at i:74350762 original size:5 final size:5
Alignment explanation
Indices: 74350747--74350776 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
74350737 GACTGGTTGT
74350747 AAAGAA AAAGA AAAGA AAAGA AAAGA AAAG
1 AAAG-A AAAGA AAAGA AAAGA AAAGA AAAG
74350777 GTTGAGAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:74365010 original size:25 final size:25
Alignment explanation
Indices: 74364955--74365015 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
74364945 ACGATAAACA
* *
74364955 GTAAGCTCCTCCGAGCTGAATAACG
1 GTAAGCTCATACGAGCTGAATAACG
* *
74364980 GCAAGCTCATACGAGCT-AAGTATCG
1 GTAAGCTCATACGAGCTGAA-TAACG
74365005 GTAAGCTCATA
1 GTAAGCTCATA
74365016 AAAGCTAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAATAACG
Found at i:74368394 original size:17 final size:17
Alignment explanation
Indices: 74368364--74368396 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
74368354 ATGCGAACAT
74368364 AAAAATAAACTAAAATA
1 AAAAATAAACTAAAATA
74368381 AAAAACTAAA-TAAAAT
1 AAAAA-TAAACTAAAAT
74368397 TGTTTAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAATAAACTAAAATA
Found at i:74377181 original size:70 final size:70
Alignment explanation
Indices: 74377025--74377607 Score: 445
Period size: 70 Copynumber: 8.3 Consensus size: 70
74377015 GGGAACATAA
* * * * * * *
74377025 GCTCACGCTAACTGTTTTGGAGGCTATG-G-CATTGAACCTGCAAGCCTTAAGATACCAACTAGG
1 GCTCGCGCTAACTATTTTGGAGG-T-TGCGATATTGAACCTACAAGCCTTAGGATACCAGCTGGG
74377088 AGCGTAG
64 AGCGTAG
* * * * * * * *
74377095 GCTCGCACTAAATATTTTAGAGGTTGCAATATTAAACCTGCAAGCCTTAGGATACCAGTTGAGAG
1 GCTCGCGCTAACTATTTTGGAGGTTGCGATATTGAACCTACAAGCCTTAGGATACCAGCTGGGAG
*
74377160 CATAG
66 CGTAG
* * * ** *
74377165 GCTCGCGCTAACTATTTTGAAGGCTACGATATTGAACCTATGAGCCTTAAGATACCAGCTGGGAG
1 GCTCGCGCTAACTATTTTGGAGGTTGCGATATTGAACCTACAAGCCTTAGGATACCAGCTGGGAG
** *
74377230 TATAA
66 CGTAG
* * * * * * * * * * * **
74377235 GCTCACGATAACTGTTTTGAAGGTTGCGGTGTTGTACTTACGAGTCTTAGGATATCAATTGGGAG
1 GCTCGCGCTAACTATTTTGGAGGTTGCGATATTGAACCTACAAGCCTTAGGATACCAGCTGGGAG
74377300 CGTAG
66 CGTAG
* * * * * * *
74377305 GCTTGCGCTAACTATTTTAGAGGCTGTGGTATTGAACCTACGAGCCTTAGGACACCAGCTGGGAG
1 GCTCGCGCTAACTATTTTGGAGGTTGCGATATTGAACCTACAAGCCTTAGGATACCAGCTGGGAG
74377370 CGTAG
66 CGTAG
* * * * * * *
74377375 GCTTGCACTAATTATTTTGGAGGTTGTGATATTGAACCTACAAGCCTTAAGATATCAGTTGGGAG
1 GCTCGCGCTAACTATTTTGGAGGTTGCGATATTGAACCTACAAGCCTTAGGATACCAGCTGGGAG
*
74377440 CGTAA
66 CGTAG
* * * * * * * *
74377445 GCTCGTGTTAACTATTTTGGAGGCTATG-G-TATTAAACCTGCGAGTCTTAGGATATCAGCTAGG
1 GCTCGCGCTAACTATTTTGGAGG-T-TGCGATATTGAACCTACAAGCCTTAGGATACCAGCTGGG
74377508 AGCGTAG
64 AGCGTAG
** * * * * * * *
74377515 ATTCGCGCTAACTATTTTGGAGGCTACGATATTAAACCTGCAAGCCTTAGGATATCAACTAGGAG
1 GCTCGCGCTAACTATTTTGGAGGTTGCGATATTGAACCTACAAGCCTTAGGATACCAGCTGGGAG
*
74377580 TGTAG
66 CGTAG
* *
74377585 GTTCGTGCTAACTATTTTGGAGG
1 GCTCGCGCTAACTATTTTGGAGG
74377608 CTGTGTGTAA
Statistics
Matches: 407, Mismatches: 100, Indels: 12
0.78 0.19 0.02
Matches are distributed among these distances:
68 3 0.01
69 2 0.00
70 398 0.98
71 2 0.00
72 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (70 bp):
GCTCGCGCTAACTATTTTGGAGGTTGCGATATTGAACCTACAAGCCTTAGGATACCAGCTGGGAG
CGTAG
Found at i:74377259 original size:140 final size:139
Alignment explanation
Indices: 74377006--74377609 Score: 514
Period size: 140 Copynumber: 4.3 Consensus size: 139
74376996 AGCCTTTATA
* * * * * * * * * *
74377006 ATATCATTTGGGAACATAAGCTCACGCTAACTGTTTTGGAGGCTATGGCATTGAACCTGCAAGCC
1 ATATCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGAAGGCTATGGTATTGAACCTACGAGCC
* * * * * * * *
74377071 TTAAGATACCAACTAGGAGCGTAGGCTCGCAC-TAAATATTTTAGAGGTTGCAATATTAAACCTG
66 TTAGGATACCAGCTGGGAGCGTAAGCT--CACGTAACTATTTTGGAGGTTGCGATATTAAACCTA
74377135 CAAGCCTTAGG
129 CAAGCCTTAGG
* * * * * *
74377146 ATACCAGTTGAGAGCATAGGCTCGCGCTAACTATTTTGAAGGCTACGATATTGAACCTATGAGCC
1 ATATCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGAAGGCTATGGTATTGAACCTACGAGCC
* ** * * * * ** *
74377211 TTAAGATACCAGCTGGGAGTATAAGCTCACGATAACTGTTTTGAAGGTTGCGGTGTTGTACTTAC
66 TTAGGATACCAGCTGGGAGCGTAAGCTCACG-TAACTATTTTGGAGGTTGCGATATTAAACCTAC
* *
74377276 GAGTCTTAGG
130 AAGCCTTAGG
* * *
74377286 ATATCAATTGGGAGCGTAGGCTTGCGCTAACTATTTT-AGAGGCTGTGGTATTGAACCTACGAGC
1 ATATCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGA-AGGCTATGGTATTGAACCTACGAGC
* * * * *
74377350 CTTAGGACACCAGCTGGGAGCGTAGGCTTGCAC-TAATTATTTTGGAGGTTGTGATATTGAACCT
65 CTTAGGATACCAGCTGGGAGCGTAAGC-T-CACGTAACTATTTTGGAGGTTGCGATATTAAACCT
*
74377414 ACAAGCCTTAAG
128 ACAAGCCTTAGG
* * * * * * *
74377426 ATATCAGTTGGGAGCGTAAGCTCGTGTTAACTATTTTGGAGGCTATGGTATTAAACCTGCGAGTC
1 ATATCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGAAGGCTATGGTATTGAACCTACGAGCC
* * * * * * *
74377491 TTAGGATATCAGCTAGGAGCGT-AGATTCGCGCTAACTATTTTGGAGGCTACGATATTAAACCTG
66 TTAGGATACCAGCTGGGAGCGTAAG-CTCACG-TAACTATTTTGGAGGTTGCGATATTAAACCTA
74377555 CAAGCCTTAGG
129 CAAGCCTTAGG
** * * * * *
74377566 ATATCAACTAGGAGTGTAGGTTCGTGCTAACTATTTTGGAGGCT
1 ATATCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGAAGGCT
74377610 GTGTGTAACA
Statistics
Matches: 368, Mismatches: 87, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
138 5 0.01
139 3 0.01
140 356 0.97
141 1 0.00
142 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (139 bp):
ATATCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGAAGGCTATGGTATTGAACCTACGAGCC
TTAGGATACCAGCTGGGAGCGTAAGCTCACGTAACTATTTTGGAGGTTGCGATATTAAACCTACA
AGCCTTAGG
Found at i:74377603 original size:210 final size:209
Alignment explanation
Indices: 74377006--74377612 Score: 615
Period size: 210 Copynumber: 2.9 Consensus size: 209
74376996 AGCCTTTATA
* * * * * *
74377006 ATATCATTTGGGAACATAAGCTCACGCTAACTGTTTTGGAGGCTATGGCATTGAACCTGCAAGCC
1 ATATCAGTTGGGAGCATAAGCTCACGATAACTGTTTTGGAGGCTATGGTATTGAACCTGCGAGTC
* * ** * * * *
74377071 TTAAGATACCAACTAGGAGCGTAGGCTCGCACTAAATATTTTAGAGGTTGCAATATTAAACCTGC
66 TTAGGATATCAACTAGGAGCGTAGATTCGCGCTAACTATTTTAGAGGCTGCGATATTAAACCTGC
* * * * * * **
74377136 AAGCCTTAGGATACCAGTTGAGAGCATAGGCTCGCGCTAACTATTTTGAAGGCTACGATATTGAA
131 AAGCCTTAGGATACAACTAG-GAGCGTAGGTTCGCGCTAACTATTTTGGAGGCTGTGATATTGAA
**
74377201 CCTATGAGCCTTAAG
195 CCTACAAGCCTTAAG
* * * * * ** * * * *
74377216 ATACCAGCTGGGAGTATAAGCTCACGATAACTGTTTTGAAGGTTGCGGTGTTGTACTTACGAGTC
1 ATATCAGTTGGGAGCATAAGCTCACGATAACTGTTTTGGAGGCTATGGTATTGAACCTGCGAGTC
* * * * * * *
74377281 TTAGGATATCAATTGGGAGCGTAGGCTT-GCGCTAACTATTTTAGAGGCTGTGGTATTGAACCTA
66 TTAGGATATCAACTAGGAGCGTA-GATTCGCGCTAACTATTTTAGAGGCTGCGATATTAAACCTG
* * * * * * *
74377345 CGAGCCTTAGGACACCAGCTGGGAGCGTAGGCTT-GCACTAATTATTTTGGAGGTTGTGATATTG
130 CAAGCCTTAGGATA-CAACTAGGAGCGTAGG-TTCGCGCTAACTATTTTGGAGGCTGTGATATTG
74377409 AACCTACAAGCCTTAAG
193 AACCTACAAGCCTTAAG
* ** * * *
74377426 ATATCAGTTGGGAGCGTAAGCTCGTGTTAACTATTTTGGAGGCTATGGTATTAAACCTGCGAGTC
1 ATATCAGTTGGGAGCATAAGCTCACGATAACTGTTTTGGAGGCTATGGTATTGAACCTGCGAGTC
* * *
74377491 TTAGGATATCAGCTAGGAGCGTAGATTCGCGCTAACTATTTTGGAGGCTACGATATTAAACCTGC
66 TTAGGATATCAACTAGGAGCGTAGATTCGCGCTAACTATTTTAGAGGCTGCGATATTAAACCTGC
* *
74377556 AAGCCTTAGGATATCAACTAGGAGTGTAGGTTCGTGCTAACTATTTTGGAGGCTGTG
131 AAGCCTTAGGATA-CAACTAGGAGCGTAGGTTCGCGCTAACTATTTTGGAGGCTGTG
74377613 TGTAACACCT
Statistics
Matches: 308, Mismatches: 84, Indels: 10
0.77 0.21 0.02
Matches are distributed among these distances:
209 5 0.02
210 297 0.96
211 6 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (209 bp):
ATATCAGTTGGGAGCATAAGCTCACGATAACTGTTTTGGAGGCTATGGTATTGAACCTGCGAGTC
TTAGGATATCAACTAGGAGCGTAGATTCGCGCTAACTATTTTAGAGGCTGCGATATTAAACCTGC
AAGCCTTAGGATACAACTAGGAGCGTAGGTTCGCGCTAACTATTTTGGAGGCTGTGATATTGAAC
CTACAAGCCTTAAG
Found at i:74377963 original size:13 final size:13
Alignment explanation
Indices: 74377947--74377976 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
74377937 CCTGTGTAAC
74377947 TCACTAAGTAGGG
1 TCACTAAGTAGGG
*
74377960 TCACTATGTAGGG
1 TCACTAAGTAGGG
74377973 TCAC
1 TCAC
74377977 ACGCCCGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (13 bp):
TCACTAAGTAGGG
Found at i:74378878 original size:40 final size:40
Alignment explanation
Indices: 74378819--74378985 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
74378809 TAAGGAACCA
* **
74378819 AAGTACAAA-AGGGGCATGTAGGTGCAATCAGGGGTACCG
1 AAGTACAAACAAGGGCATGTATATGCAATCAGGGGTACCG
74378858 AAGTACAAACAAGGGCATGTATATGCAATCAGGGGTACCG
1 AAGTACAAACAAGGGCATGTATATGCAATCAGGGGTACCG
* * *
74378898 AAGTACAAAC-AGAGGCACGTATATGCAATCAGGCGTACTG
1 AAGTACAAACAAG-GGCATGTATATGCAATCAGGGGTACCG
* * * * * *
74378938 AAGTACAAAC-AGTGACACGTCTATGCAATCAGAGCTATCG
1 AAGTACAAACAAG-GGCATGTATATGCAATCAGGGGTACCG
74378978 AAGTACAA
1 AAGTACAA
74378986 TAATTTTCTA
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 11 0.10
40 101 0.90
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (40 bp):
AAGTACAAACAAGGGCATGTATATGCAATCAGGGGTACCG
Found at i:74381221 original size:51 final size:51
Alignment explanation
Indices: 74381145--74381254 Score: 193
Period size: 51 Copynumber: 2.2 Consensus size: 51
74381135 CTATGTGCAG
* *
74381145 CAGTAACATTATCCAGTCCATCTGATGTTGCAAAATCACTAGCATATTCAT
1 CAGTAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
74381196 CAGTAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
1 CAGTAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
*
74381247 CAGCAACA
1 CAGTAACA
74381255 ACTTCACTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (51 bp):
CAGTAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
Found at i:74381461 original size:33 final size:32
Alignment explanation
Indices: 74381379--74381492 Score: 102
Period size: 33 Copynumber: 3.5 Consensus size: 32
74381369 CACCTCTCCT
* * * *
74381379 ACATCACCCTTCCCACCAAATTCTACCTTTTTC
1 ACATCACACTCCCCATCAAATTCTACC-CTTTC
* * *
74381412 AAATCACATTCACCATCAAATTCTACCCTTTC
1 ACATCACACTCCCCATCAAATTCTACCCTTTC
* * * *
74381444 ATCATCACCCTCCCCATCAACTTCCACCCCTTTA
1 A-CATCACACTCCCCATCAAATTCTA-CCCTTTC
74381478 ACATCACACTCCCCA
1 ACATCACACTCCCCA
74381493 AAAGTCAACA
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
32 5 0.08
33 52 0.81
34 7 0.11
ACGTcount: A:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (32 bp):
ACATCACACTCCCCATCAAATTCTACCCTTTC
Found at i:74382311 original size:117 final size:117
Alignment explanation
Indices: 74382101--74382311 Score: 332
Period size: 117 Copynumber: 1.8 Consensus size: 117
74382091 GGTAACAGAA
* * * * * * *
74382101 ATCAACATCATCGGGACCATTGTCGCATCACAAATCGACAAAAGAAACCCTATATTGTGGCACTT
1 ATCAACAACATCGGGACCACTGTCACATCAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
**
74382166 AAATTGCAATAATAAATCACAACTAACCATCTACAATTTTGATAACAGTTTT
66 AAATTGCAATAATAAATCACAAAAAACCATCTACAATTTTGATAACAGTTTT
*
74382218 ATCAACAACATTGGGACCACTGTCACATCAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
1 ATCAACAACATCGGGACCACTGTCACATCAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
74382283 AAATTGCAATAATAAATCACAAAAAACCA
66 AAATTGCAATAATAAATCACAAAAAACCA
74382312 ACACATCAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
117 84 1.00
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (117 bp):
ATCAACAACATCGGGACCACTGTCACATCAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
AAATTGCAATAATAAATCACAAAAAACCATCTACAATTTTGATAACAGTTTT
Found at i:74382517 original size:16 final size:16
Alignment explanation
Indices: 74382498--74382534 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
74382488 GAATGCTAAC
*
74382498 GATTTAAGGATTTCAA
1 GATTTAAGGATTTAAA
*
74382514 GATTTAGGGATTTAAA
1 GATTTAAGGATTTAAA
74382530 GATTT
1 GATTT
74382535 TAAAGATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (16 bp):
GATTTAAGGATTTAAA
Found at i:74387302 original size:67 final size:67
Alignment explanation
Indices: 74387207--74387366 Score: 223
Period size: 67 Copynumber: 2.4 Consensus size: 67
74387197 CATAGTTGGG
* *
74387207 CTATGGTCTTACACATCATACCCCATGTTTAATATCCTGGCAGACTCTCTATGTTGTCATAGTC-
1 CTATGGTCTTACACATCATACCCCATGTTTAATAGCCTAGCAGACTCTCTATGTTGTCATAG-CG
74387271 AAA
65 AAA
* * * *
74387274 CTATGGTCTTACACATCATACCCTATGTTTAATGGCCTAGCGGACTCTCTATGTTGTCATAGCGG
1 CTATGGTCTTACACATCATACCCCATGTTTAATAGCCTAGCAGACTCTCTATGTTGTCATAGCGA
*
74387339 AG
66 AA
* *
74387341 CTATGGTCTTACACGTTATACCCCAT
1 CTATGGTCTTACACATCATACCCCAT
74387367 TATAGCTTAT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 1 0.01
67 81 0.99
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (67 bp):
CTATGGTCTTACACATCATACCCCATGTTTAATAGCCTAGCAGACTCTCTATGTTGTCATAGCGA
AA
Found at i:74388172 original size:13 final size:13
Alignment explanation
Indices: 74388122--74388173 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
74388112 AGTTTGGCAA
*
74388122 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
74388135 TGC-TTTGAAAAG
1 TGCTTTTGAAAAG
* *
74388147 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
74388160 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
74388173 T
1 T
74388174 TTGGTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
12 11 0.33
13 22 0.67
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:74395565 original size:40 final size:40
Alignment explanation
Indices: 74395520--74395697 Score: 175
Period size: 40 Copynumber: 4.4 Consensus size: 40
74395510 ACTATGTTTA
*
74395520 GCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATTTATG
1 GCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATATG
* * *
74395560 ACACTTAGTGTGCGA-TTGGGAATAGCTTCAGCTATATATG
1 GCACTTAGTGTGCGATTTGAG-ATAGCTTCGGCTATATATG
* ** * *
74395600 GCACTTAGTGTGTGAGACTGAGATAGCTTCGGCTATGTAAG
1 GCACTTAGTGTGCGA-TTTGAGATAGCTTCGGCTATATATG
74395641 GCACTTAGTGTGCGGGATTAT-A-ATAGCTTCGGCTATGCA-ATG
1 GCACTTAGTGTGC--GATT-TGAGATAGCTTCGGCTAT--ATATG
*
74395683 GCATTTAGTGTGCGA
1 GCACTTAGTGTGCGA
74395698 AACATTAAGT
Statistics
Matches: 113, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
39 4 0.04
40 46 0.41
41 42 0.37
42 18 0.16
43 3 0.03
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.33
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATATG
Found at i:74395635 original size:41 final size:41
Alignment explanation
Indices: 74395520--74395694 Score: 153
Period size: 41 Copynumber: 4.3 Consensus size: 41
74395510 ACTATGTTTA
* * *
74395520 GCACTTAGTGTGCGA-TTTGAGATAGCTTCGGCTATTTATG
1 GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATATG
* * * *
74395560 ACACTTA--GTGTGCGATTGGGAATAGCTTCAGCTATATATG
1 GCACTTAGTGTGTGAGATTGAG-ATAGCTTCGGCTATATATG
* * *
74395600 GCACTTAGTGTGTGAGACTGAGATAGCTTCGGCTATGTAAG
1 GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATATG
* * *
74395641 GCACTTAGTGTGCGGGATT-ATAATAGCTTCGGCTATGCA-ATG
1 GCACTTAGTGTGTGAGATTGA-GATAGCTTCGGCTAT--ATATG
*
74395683 GCATTTAGTGTG
1 GCACTTAGTGTG
74395695 CGAAACATTA
Statistics
Matches: 107, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
38 4 0.04
39 4 0.04
40 30 0.28
41 46 0.43
42 23 0.21
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (41 bp):
GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATATG
Found at i:74395694 original size:81 final size:80
Alignment explanation
Indices: 74395520--74395676 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 80
74395510 ACTATGTTTA
* * * * *
74395520 GCACTTA-GTGTGCGATTTGAGATAGCTTCGGCTATTTATGACACTTAGTGTGCGATTGGGAATA
1 GCACTTAGGTGTGAGA-CTGAGATAGCTTCGGCTATGTAAGACACTTAGTGTGCGATTGAGAATA
74395584 GCTTCAGCTATATATG
65 GCTTCAGCTATATATG
* *
74395600 GCACTTAGTGTGTGAGACTGAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGGGATT-ATAA
1 GCACTTAG-GTGTGAGACTGAGATAGCTTCGGCTATGTAAGACACTTAGTGTGC--GATTGAGAA
*
74395664 TAGCTTCGGCTAT
63 TAGCTTCAGCTAT
74395677 GCAATGGCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 7 0.11
81 33 0.51
82 21 0.32
83 4 0.06
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (80 bp):
GCACTTAGGTGTGAGACTGAGATAGCTTCGGCTATGTAAGACACTTAGTGTGCGATTGAGAATAG
CTTCAGCTATATATG
Found at i:74399349 original size:26 final size:25
Alignment explanation
Indices: 74399304--74399357 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
74399294 TCTTTTTCTT
74399304 TATTTAATTATTATAATATAATATA
1 TATTTAATTATTATAATATAATATA
*
74399329 TATTTAAATT-TTAATATTATAATATA
1 TATTT-AATTATT-ATAATATAATATA
74399355 TAT
1 TAT
74399358 ATTTTAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TATTTAATTATTATAATATAATATA
Found at i:74399381 original size:30 final size:30
Alignment explanation
Indices: 74399313--74399388 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
74399303 TTATTTAATT
* *
74399313 ATTATAATATAATATATATTTAAATTTTAAT
1 ATTATAATAT-ATATATATTTAAATTTAAAA
*
74399344 ATTATAATATATATAT-TTTAACTTTAAAA
1 ATTATAATATATATATATTTAAATTTAAAA
74399373 ATTCATAATATATATA
1 ATT-ATAATATATATA
74399389 CACTTATGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
29 13 0.32
30 18 0.44
31 10 0.24
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTATAATATATATATATTTAAATTTAAAA
Found at i:74411531 original size:97 final size:100
Alignment explanation
Indices: 74411413--74411708 Score: 332
Period size: 97 Copynumber: 2.9 Consensus size: 100
74411403 TTTTGGGTAG
* *
74411413 ATTAAGATAATTAGGAGTTTAAAATAAATTAGGATCATTAGAGTTTTAATTTAGATAAGATAATT
1 ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAAGATAATT
74411478 ACAAATTTAATTAATAGGTTAGATAA-A-T-TTT-A
66 A-AAATTTAATTAATAGGTTAGATAATATTATTTAA
* * ** *
74411510 ATTAAGATAATT-GGGGTTTTAAATTAAATTAGGATAATTAGAGTTCTAATTTATTTAATATAAT
1 ATTAAGATAATTAGGAG-TTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAAGATAAT
**
74411574 TAATAATTTAAATTAATATATTAGATAATATTTTAGATTTAA
65 TAA-AATTT-AATTAATAGGTTAGATAATA--TT--ATTTAA
* * * **
74411616 ATTAAGATATTTAGGAGTTTAAATTAAACTAGGATAATTAGATTTTTAATTTAGATGTGATAATT
1 ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAAGATAATT
* *
74411681 AGGAATTTAATTAATAGGTTGGATAATA
66 A-AAATTTAATTAATAGGTTAGATAATA
74411709 ATTTAGATCT
Statistics
Matches: 163, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
96 4 0.02
97 60 0.37
98 16 0.10
99 1 0.01
102 1 0.01
105 20 0.12
106 58 0.36
107 3 0.02
ACGTcount: A:0.43, C:0.01, G:0.14, T:0.42
Consensus pattern (100 bp):
ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAAGATAATT
AAAATTTAATTAATAGGTTAGATAATATTATTTAA
Found at i:74411592 original size:22 final size:21
Alignment explanation
Indices: 74411556--74411602 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
74411546 ATTAGAGTTC
*
74411556 TAATTTATTTAATATAATTA-A
1 TAATTTAATTAATAT-ATTAGA
74411577 TAATTTAAATTAATATATTAGA
1 TAATTT-AATTAATATATTAGA
74411599 TAAT
1 TAAT
74411603 ATTTTAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TAATTTAATTAATATATTAGA
Found at i:74411679 original size:106 final size:105
Alignment explanation
Indices: 74411504--74411716 Score: 250
Period size: 106 Copynumber: 2.0 Consensus size: 105
74411494 GGTTAGATAA
* * * **
74411504 ATTTTAATTAAGATAATTGGGGTTTTAAATTAAATTAGGATAATTAGAGTTCTAATTTATTTAAT
1 ATTTAAATTAAGATAATTGGAGTTTTAAATTAAACTAGGATAATTAGAGTTCTAATTTAGATAAT
* * *
74411569 ATAATTAATAATTTAAATTAATATATTAGATAATATTTTAG
66 ATAATTAAGAATTT-AATTAATAGATTAGATAATAATTTAG
* * * *
74411610 ATTTAAATTAAGATATTTAGGAG-TTTAAATTAAACTAGGATAATTAGATTTTTAATTTAGAT-G
1 ATTTAAATTAAGATAATT-GGAGTTTTAAATTAAACTAGGATAATTAGAGTTCTAATTTAGATAA
* * *
74411673 TGATAATTAGGAATTTAATTAATAGGTTGGATAATAATTTAG
65 T-ATAATTAAGAATTTAATTAATAGATTAGATAATAATTTAG
74411715 AT
1 AT
74411717 CTGGAAAAAT
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
105 25 0.28
106 62 0.69
107 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.44
Consensus pattern (105 bp):
ATTTAAATTAAGATAATTGGAGTTTTAAATTAAACTAGGATAATTAGAGTTCTAATTTAGATAAT
ATAATTAAGAATTTAATTAATAGATTAGATAATAATTTAG
Found at i:74414692 original size:20 final size:20
Alignment explanation
Indices: 74414658--74414699 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
74414648 AAACATTTAA
** *
74414658 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
74414678 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
74414698 AT
1 AT
74414700 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:74418278 original size:25 final size:24
Alignment explanation
Indices: 74418242--74418291 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 24
74418232 TGTTATTCTT
74418242 AAGATTAAAATAACCCGAGATGAA
1 AAGATTAAAATAACCCGAGATGAA
74418266 AANGATTAAAATAACCCGAGATGAA
1 AA-GATTAAAATAACCCGAGATGAA
74418291 A
1 A
74418292 GCACTATAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.54, C:0.12, G:0.16, T:0.16
Consensus pattern (24 bp):
AAGATTAAAATAACCCGAGATGAA
Found at i:74420733 original size:11 final size:11
Alignment explanation
Indices: 74420697--74420735 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
74420687 ACTGAAAATA
74420697 TATTTATAATC
1 TATTTATAATC
* *
74420708 TATCTATAATA
1 TATTTATAATC
*
74420719 TATTTATATTC
1 TATTTATAATC
74420730 TATTTA
1 TATTTA
74420736 AAAATATGAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTATAATC
Found at i:74428289 original size:23 final size:23
Alignment explanation
Indices: 74428262--74428307 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
74428252 TTATGGCACA
*
74428262 TTTGTGGCGTATTATGTGATGCC
1 TTTGTGGCGTATTATGTAATGCC
* *
74428285 TTTGTGGTGTATTTTGTAATGCC
1 TTTGTGGCGTATTATGTAATGCC
74428308 CTGGAGGCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.11, G:0.28, T:0.48
Consensus pattern (23 bp):
TTTGTGGCGTATTATGTAATGCC
Found at i:74445996 original size:18 final size:18
Alignment explanation
Indices: 74445975--74446009 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
74445965 TGCAATATTA
74445975 ATTTAGCATTGTATTTGT
1 ATTTAGCATTGTATTTGT
*
74445993 ATTTGGCATTGTATTTG
1 ATTTAGCATTGTATTTG
74446010 GCGATACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.06, G:0.20, T:0.54
Consensus pattern (18 bp):
ATTTAGCATTGTATTTGT
Found at i:74451507 original size:228 final size:228
Alignment explanation
Indices: 74451110--74451565 Score: 903
Period size: 228 Copynumber: 2.0 Consensus size: 228
74451100 TGATCACAAG
74451110 TACATACTAGTAGCAGTAGACTATGTGTCTAAGTGGGTTGAGGCTGAGGCATATTCGACAAATGA
1 TACATACTAGTAGCAGTAGACTATGTGTCTAAGTGGGTTGAGGCTGAGGCATATTCGACAAATGA
74451175 CGCTAAGGTTGTGATGAAGTTTCTACAGAAGCATGTGTTCACAAGGTTTGGAACCCCAAGAGCTA
66 CGCTAAGGTTGTGATGAAGTTTCTACAGAAGCATGTGTTCACAAGGTTTGGAACCCCAAGAGCTA
74451240 TCATTAGTGATGAAGGATCCCACTTTGTGAATAAGTGATTAAAATGGCTATTAGACGAGCACGGA
131 TCATTAGTGATGAAGGATCCCACTTTGTGAATAAGTGATTAAAATGGCTATTAGACGAGCACGGA
74451305 GTGAAACACAAGGTTGCAACAGCTTACCATCCA
196 GTGAAACACAAGGTTGCAACAGCTTACCATCCA
74451338 TACATACTAGTAGCAGTAGACTATGTGTCTAAGTGGGTTGAGGCTGAGGCATATTCGACAAATGA
1 TACATACTAGTAGCAGTAGACTATGTGTCTAAGTGGGTTGAGGCTGAGGCATATTCGACAAATGA
*
74451403 TGCTAAGGTTGTGATGAAGTTTCTACAGAAGCATGTGTTCACAAGGTTTGGAACCCCAAGAGCTA
66 CGCTAAGGTTGTGATGAAGTTTCTACAGAAGCATGTGTTCACAAGGTTTGGAACCCCAAGAGCTA
74451468 TCATTAGTGATGAAGGATCCCACTTTGTGAATAAGTGATTAAAATGGCTATTAGACGAGCACGGA
131 TCATTAGTGATGAAGGATCCCACTTTGTGAATAAGTGATTAAAATGGCTATTAGACGAGCACGGA
74451533 GTGAAACACAAGGTTGCAACAGCTTACCATCCA
196 GTGAAACACAAGGTTGCAACAGCTTACCATCCA
74451566 CAGACAAATG
Statistics
Matches: 227, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
228 227 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (228 bp):
TACATACTAGTAGCAGTAGACTATGTGTCTAAGTGGGTTGAGGCTGAGGCATATTCGACAAATGA
CGCTAAGGTTGTGATGAAGTTTCTACAGAAGCATGTGTTCACAAGGTTTGGAACCCCAAGAGCTA
TCATTAGTGATGAAGGATCCCACTTTGTGAATAAGTGATTAAAATGGCTATTAGACGAGCACGGA
GTGAAACACAAGGTTGCAACAGCTTACCATCCA
Found at i:74457370 original size:16 final size:18
Alignment explanation
Indices: 74457344--74457376 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
74457334 TTTAATTAGA
74457344 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
74457361 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
74457377 CCCAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:74461084 original size:22 final size:22
Alignment explanation
Indices: 74461071--74461132 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
74461061 TTTTGACTAG
74461071 ATAGATAATCTATTTAAACATA
1 ATAGATAATCTATTTAAACATA
*
74461093 TTAGATAATCTATTTAAACATA
1 ATAGATAATCTATTTAAACATA
* *
74461115 GTATATAAT-TATGTTAAA
1 ATAGATAATCTAT-TTAAA
74461133 TAAGTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 3 0.08
22 33 0.92
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (22 bp):
ATAGATAATCTATTTAAACATA
Found at i:74461323 original size:15 final size:15
Alignment explanation
Indices: 74461293--74461321 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
74461283 ACTATTAGTA
74461293 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
74461308 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
74461322 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:74467027 original size:247 final size:247
Alignment explanation
Indices: 74466592--74468321 Score: 2962
Period size: 248 Copynumber: 7.0 Consensus size: 247
74466582 AAAACCTTCA
**
74466592 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAAATTTCCTCTCAAAATTCAAGAT-CA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* *
74466656 CCATTAAAGCACCTTAAGCTTTTGAAGAATATGACAGTAATAAAAAATCATGCAATTAT-ATCTC
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA-CTC
* *
74466720 AAATCATGTAAATATGCTTCTAATAATCACAAAAATAAGTTTAGAAATAATAATTACCTTTAATT
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATT
* *
74466785 CGTTCCAAATCCTTTGATTGAAAATCTTGATTCAAAAATCTTGAGAAATTTCT
195 CGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
74466838 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* * *
74466903 TCATTAAAGCACCTTAAGATTTTGAAGAAGATGACACTAATAAAAAATCATGCAATTATCACTCA
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTCA
* *
74466968 AATCATGTAAATATGCTTCTAATCATTATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTC
131 AATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATTC
* * *
74467033 GTTTTAAATTCTTTGATTGAAAATCTTGATTCAAGAATCTTAAGAAATTTCT
196 GTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
74467085 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* *
74467150 CCATTAAAGCACCTTAAGATTTTGAAGAAGATGACATTAATAAAAGATCATGCAATTATCACTCA
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTC-
74467215 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATT
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATT
* *
74467280 CGTTTTAAATCCTTTGATTAAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
195 CGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
*
74467333 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTTAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* *
74467398 CCATTAAAGCACCTTAAGCTTTTGAAAAAGATGACATTAATAAAAAATCATGCAATTATCACTCG
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTCA
*
74467463 AATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTC
131 AATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATTC
* * * *
74467528 TTTCTAAATCCTTTAATTGAAAATCTTGATTCAAGAATCCTAAGAAATTTCT
196 GTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
74467580 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
74467645 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATTCATGCAATTATCACTC
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAA-TCATGCAATTATCACTC
74467710 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGAA-
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTT-AAT
* * * *
74467774 TCTTTCTAAATCCTTTAATTGAAAATCTTGATTCAAGAATCCTAAGAAATTTCT
194 TCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
* * * *
74467828 AATAGATTCATTTTGAGTTGGAACATCCATTGAGTTGTAGATTTCTTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
*
74467893 CCATTAAAGCACCTTAAGATTTTGAAGAAGATGACATTAATAAAAAAATCATGCAATTATCACTC
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAAT-AAAAAATCATGCAATTATCACTC
*
74467958 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATT
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATT
*
74468023 CTTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
195 CGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
*
74468076 AATAGATCCATTTTGAGTTGGAACATCCACTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* *
74468141 CCATTAAAACACCTTAAGCTTTTGAAGAATATGACATTAATAAAAAAATCATGCAATTATCACTC
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAAT-AAAAAATCATGCAATTATCACTC
* * *
74468206 AAATCATGTAAATATGCTTCTAATCAGCATAAAAATAAGTTTAGAAATAATAATTACATTTTATT
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATT
* *
74468271 CGTTCTAAATTCTTTGATTGGAAATCTTGATTCAAGAATCTTGAGAAATTT
195 CGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTT
74468322 TAGAATATTT
Statistics
Matches: 1415, Mismatches: 62, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
246 60 0.04
247 516 0.36
248 832 0.59
249 7 0.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (247 bp):
AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTCA
AATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATTC
GTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
Found at i:74467520 original size:495 final size:494
Alignment explanation
Indices: 74466592--74468321 Score: 3018
Period size: 495 Copynumber: 3.5 Consensus size: 494
74466582 AAAACCTTCA
**
74466592 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAAATTTCCTCTCAAAATTCAAGAT-CA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* *
74466656 CCATTAAAGCACCTTAAGCTTTTGAAGAATATGACAGTAATAAAAAATCATGCAATTAT-ATCTC
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA-CTC
* *
74466720 AAATCATGTAAATATGCTTCTAATAATCACAAAAATAAGTTTAGAAATAATAATTACCTTTAATT
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATT
* *
74466785 CGTTCCAAATCCTTTGATTGAAAATCTTGATTCAAAAATCTTGAGAAATTTCTAATAGATCCATT
195 CGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCTAATAGATCCATT
*
74466850 TTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCATCATTAAAGCAC
260 TTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCACCATTAAAGCAC
*
74466915 CTTAAGATTTTGAAGAAGATGACACTAATAAAAAATCATGCAATTATCACTCAAATCATGTAAAT
325 CTTAAGATTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTCAAATCATGTAAAT
* *
74466980 ATGCTTCTAATCATTATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTCGTTT-TAAATTC
390 ATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTC-TTTCTAAATCC
74467044 TTTGATTGAAAATCTTGATTCAAGAATCTTAAGAAATTTCT
454 TTTGATTGAAAATCTTGATTCAAGAATCTTAAGAAATTTCT
74467085 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* *
74467150 CCATTAAAGCACCTTAAGATTTTGAAGAAGATGACATTAATAAAAGATCATGCAATTATCACTCA
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTC-
74467215 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATT
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATT
* *
74467280 CGTTTTAAATCCTTTGATTAAAAATCTTGATTCAAGAATCTTGAGAAATTTCTAATAGATCCATT
195 CGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCTAATAGATCCATT
*
74467345 TTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTTAAAATTCAAGATCCACCATTAAAGCAC
260 TTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCACCATTAAAGCAC
* * *
74467410 CTTAAGCTTTTGAAAAAGATGACATTAATAAAAAATCATGCAATTATCACTCGAATCATGTAAAT
325 CTTAAGATTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTCAAATCATGTAAAT
74467475 ATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTCTTTCTAAATCCT
390 ATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTCTTTCTAAATCCT
* *
74467540 TTAATTGAAAATCTTGATTCAAGAATCCTAAGAAATTTCT
455 TTGATTGAAAATCTTGATTCAAGAATCTTAAGAAATTTCT
74467580 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
74467645 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATTCATGCAATTATCACTC
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAA-TCATGCAATTATCACTC
74467710 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGAA-
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTT-AAT
* * * * *
74467774 TCTTTCTAAATCCTTTAATTGAAAATCTTGATTCAAGAATCCTAAGAAATTTCTAATAGATTCAT
194 TCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCTAATAGATCCAT
* * *
74467839 TTTGAGTTGGAACATCCATTGAGTTGTAGATTTCTTCTCAAAATTCAAGATCCACCATTAAAGCA
259 TTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCACCATTAAAGCA
74467904 CCTTAAGATTTTGAAGAAGATGACATTAATAAAAAAATCATGCAATTATCACTCAAATCATGTAA
324 CCTTAAGATTTTGAAGAAGATGACATTAAT-AAAAAATCATGCAATTATCACTCAAATCATGTAA
74467969 ATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTCTTTCTAAATC
388 ATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTCTTTCTAAATC
*
74468034 CTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCT
453 CTTTGATTGAAAATCTTGATTCAAGAATCTTAAGAAATTTCT
*
74468076 AATAGATCCATTTTGAGTTGGAACATCCACTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
1 AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
* *
74468141 CCATTAAAACACCTTAAGCTTTTGAAGAATATGACATTAATAAAAAAATCATGCAATTATCACTC
66 CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAAT-AAAAAATCATGCAATTATCACTC
* * *
74468206 AAATCATGTAAATATGCTTCTAATCAGCATAAAAATAAGTTTAGAAATAATAATTACATTTTATT
130 AAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATT
* *
74468271 CGTTCTAAATTCTTTGATTGGAAATCTTGATTCAAGAATCTTGAGAAATTT
195 CGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTT
74468322 TAGAATATTT
Statistics
Matches: 1175, Mismatches: 53, Indels: 15
0.95 0.04 0.01
Matches are distributed among these distances:
493 60 0.05
494 63 0.05
495 665 0.57
496 381 0.32
497 6 0.01
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (494 bp):
AATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCA
CCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTCA
AATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTAATTC
GTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAATTTCTAATAGATCCATTT
TGAGTTGGAACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCACCATTAAAGCACC
TTAAGATTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCACTCAAATCATGTAAATA
TGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTGATTCTTTCTAAATCCTT
TGATTGAAAATCTTGATTCAAGAATCTTAAGAAATTTCT
Found at i:74469054 original size:22 final size:20
Alignment explanation
Indices: 74469026--74469078 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
74469016 ACACACCGTG
*
74469026 TGTTGAGCCATAGCAACTCCTA
1 TGTTGAGCCATAG-AA-GCCTA
* *
74469048 TGTTGAGCCTTAGTAGCCTA
1 TGTTGAGCCATAGAAGCCTA
74469068 TGTTGAGCCAT
1 TGTTGAGCCAT
74469079 GGCCTGAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 14 0.52
21 1 0.04
22 12 0.44
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (20 bp):
TGTTGAGCCATAGAAGCCTA
Found at i:74471287 original size:20 final size:21
Alignment explanation
Indices: 74471262--74471300 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
74471252 GTTATTTGAT
*
74471262 CCATTAAATTG-ATTTTTTAG
1 CCATTAAATCGCATTTTTTAG
74471282 CCATTAAATCGCATTTTTT
1 CCATTAAATCGCATTTTTT
74471301 TAAATAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (21 bp):
CCATTAAATCGCATTTTTTAG
Found at i:74472804 original size:41 final size:41
Alignment explanation
Indices: 74472759--74472841 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
74472749 AATTAAATGT
*
74472759 TAAATTAGTAAAAAGCAAAAAAGAAAGTGTCATCTCTTTCA
1 TAAATTAGTAAAAAGCAAAAAAGAAAGCGTCATCTCTTTCA
74472800 TAAATTAGTAAAAAGCAAAAAAGAAAGCGTCATCTCTTTCA
1 TAAATTAGTAAAAAGCAAAAAAGAAAGCGTCATCTCTTTCA
74472841 T
1 T
74472842 TTTAATTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (41 bp):
TAAATTAGTAAAAAGCAAAAAAGAAAGCGTCATCTCTTTCA
Found at i:74478375 original size:17 final size:17
Alignment explanation
Indices: 74478349--74478386 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
74478339 AATATATTGT
*
74478349 ATATTTAACACAAATAA
1 ATATTCAACACAAATAA
74478366 ATATTCAACACAAATAA
1 ATATTCAACACAAATAA
74478383 ATAT
1 ATAT
74478387 CAAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATTCAACACAAATAA
Found at i:74479071 original size:36 final size:36
Alignment explanation
Indices: 74479031--74479101 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
74479021 ATCAAAGGCT
*
74479031 ACAATTAAAAGTTGTATACAATTAGCACTCTAAGAC
1 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGAC
* * *
74479067 ACAATTAGAAGTTGTATACGATTAGAATTCTAAGA
1 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGA
74479102 TTACATAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.30
Consensus pattern (36 bp):
ACAATTAAAAGTTGTATACAATTAGAACTCTAAGAC
Found at i:74479374 original size:24 final size:24
Alignment explanation
Indices: 74479347--74479393 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
74479337 TACTCATACA
* *
74479347 TTGCTTTGTTCCATCATCTCAACT
1 TTGCCTTGCTCCATCATCTCAACT
* *
74479371 TTGCCTTGCTCTATCATTTCAAC
1 TTGCCTTGCTCCATCATCTCAAC
74479394 CATTTCAACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.09, T:0.45
Consensus pattern (24 bp):
TTGCCTTGCTCCATCATCTCAACT
Found at i:74480022 original size:20 final size:20
Alignment explanation
Indices: 74479960--74480022 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
74479950 CTTGGAAACT
74479960 GAAAATTAGTTAATTACAGG
1 GAAAATTAGTTAATTACAGG
* * * *
74479980 GAAAA--A-CTATAGTCCAAG
1 GAAAATTAGTTA-ATTACAGG
74479998 GAAAATTAGTTAATTACAGG
1 GAAAATTAGTTAATTACAGG
74480018 GAAAA
1 GAAAA
74480023 ACTATAGAGG
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
17 2 0.06
18 11 0.35
20 16 0.52
21 2 0.06
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.24
Consensus pattern (20 bp):
GAAAATTAGTTAATTACAGG
Found at i:74489293 original size:17 final size:17
Alignment explanation
Indices: 74489271--74489402 Score: 62
Period size: 17 Copynumber: 7.8 Consensus size: 17
74489261 AGAGCTCGCA
*
74489271 GGTGAGCTCTCA-TGCTT
1 GGTGAGCTCGCAGTG-TT
74489288 GGTGAGCTCGCAGTGTT
1 GGTGAGCTCGCAGTGTT
74489305 GGTGAGCT---A-T-TCT
1 GGTGAGCTCGCAGTGT-T
**
74489318 GGTGAGCTCGCAGTTCGCA
1 GGTGAGCTCGCAG-T-GTT
* *
74489337 GGTGAGCTCACAGTCTT
1 GGTGAGCTCGCAGTGTT
* * *
74489354 GGTGAGCTTGCATCTTTT
1 GGTGAGCTCGCA-GTGTT
* * *
74489372 AGTGAGCTTGCACAT-TT
1 GGTGAGCTCGCA-GTGTT
74489389 GGTGAGCTCGCAGT
1 GGTGAGCTCGCAGT
74489403 TCACAGTTAG
Statistics
Matches: 88, Mismatches: 17, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
12 1 0.01
13 10 0.11
14 1 0.01
16 2 0.02
17 43 0.49
18 19 0.22
19 12 0.14
ACGTcount: A:0.15, C:0.20, G:0.33, T:0.32
Consensus pattern (17 bp):
GGTGAGCTCGCAGTGTT
Found at i:74489437 original size:17 final size:17
Alignment explanation
Indices: 74489415--74489500 Score: 91
Period size: 17 Copynumber: 4.7 Consensus size: 17
74489405 ACAGTTAGCA
*
74489415 GGTGAGCTCGCACTCTT
1 GGTGAGCTCGCACTTTT
*
74489432 GGTGAGCTCGCTTCTTTT
1 GGTGAGCTCGC-ACTTTT
74489450 GGTGAGCGAGCTCGCATCTTTT
1 GGT----GAGCTCGCA-CTTTT
*
74489472 GGTGAGCTCGCACATTT
1 GGTGAGCTCGCACTTTT
74489489 GGTGAGCTCGCA
1 GGTGAGCTCGCA
74489501 GTTCACAGTT
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
17 27 0.46
18 16 0.27
22 16 0.27
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.31
Consensus pattern (17 bp):
GGTGAGCTCGCACTTTT
Found at i:74489463 original size:22 final size:22
Alignment explanation
Indices: 74489435--74489478 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
74489425 CACTCTTGGT
*
74489435 GAGCTCGCTTCTTTTGGTGAGC
1 GAGCTCGCATCTTTTGGTGAGC
74489457 GAGCTCGCATCTTTTGGTGAGC
1 GAGCTCGCATCTTTTGGTGAGC
74489479 TCGCACATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.23, G:0.32, T:0.34
Consensus pattern (22 bp):
GAGCTCGCATCTTTTGGTGAGC
Found at i:74491995 original size:13 final size:13
Alignment explanation
Indices: 74491977--74492003 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74491967 ACACATTTTC
74491977 TTTTTCATTGCAT
1 TTTTTCATTGCAT
74491990 TTTTTCATTGCAT
1 TTTTTCATTGCAT
74492003 T
1 T
74492004 GGGGAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (13 bp):
TTTTTCATTGCAT
Found at i:74492413 original size:26 final size:26
Alignment explanation
Indices: 74492361--74492413 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
74492351 ATTTTAATAA
*
74492361 TTTTTAATTTAAAAAAAGTTATAAAT
1 TTTTTAATTTAAAAAAAGTAATAAAT
*
74492387 TTTTTGAATTTAAAAAAA-TAATTAAT
1 TTTTT-AATTTAAAAAAAGTAATAAAT
74492413 T
1 T
74492414 GCTAACGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (26 bp):
TTTTTAATTTAAAAAAAGTAATAAAT
Found at i:74501024 original size:40 final size:40
Alignment explanation
Indices: 74500965--74501129 Score: 192
Period size: 40 Copynumber: 4.1 Consensus size: 40
74500955 ATAAAAAAAT
* * * *
74500965 GCCGCTATAGATTGTGCATTAGCAGCGCTTTTTGAAAGAC
1 GCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAGAC
* * *
74501005 GCCGCTATAGATCAAGCATTAGCGACGCTTTTTGAAAA-AT
1 GCCGCTATAGATCGAGCATTAGCGGCGCTTTTT-AAAAGAC
*
74501045 GCCGCTATAGATCGAGCATTAGCGGCG-TTTTTCAAAAGGC
1 GCCGCTATAGATCGAGCATTAGCGGCGCTTTTT-AAAAGAC
* *
74501085 GCCGCTGTAGGTCGAGCATTAGCGGCGCTTCTTTAAAAG-C
1 GCCGCTATAGATCGAGCATTAGCGGCGCTT-TTTAAAAGAC
74501125 GCCGC
1 GCCGC
74501130 AAAAAAATTA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
39 9 0.08
40 85 0.79
41 10 0.09
42 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAGAC
Found at i:74501103 original size:80 final size:80
Alignment explanation
Indices: 74500959--74501122 Score: 215
Period size: 80 Copynumber: 2.0 Consensus size: 80
74500949 GTTTGAATAA
* * *
74500959 AAAAATGCCGCTATAGATTGTGCATTAGCAGCGCTTTTTGAAAGACGCCGCTATAGATCAAGCAT
1 AAAAATGCCGCTATAGATCGAGCATTAGCAGCGCTTTTTAAAAGACGCCGCTATAGATCAAGCAT
74501024 TAGCGACGCTT-TTT
66 TAGCGACGCTTCTTT
* * * * *
74501038 GAAAAATGCCGCTATAGATCGAGCATTAGCGGCG-TTTTTCAAAAGGCGCCGCTGTAGGTCGAGC
1 -AAAAATGCCGCTATAGATCGAGCATTAGCAGCGCTTTTT-AAAAGACGCCGCTATAGATCAAGC
*
74501102 ATTAGCGGCGCTTCTTT
64 ATTAGCGACGCTTCTTT
74501119 AAAA
1 AAAA
74501123 GCGCCGCAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
79 5 0.07
80 65 0.89
81 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (80 bp):
AAAAATGCCGCTATAGATCGAGCATTAGCAGCGCTTTTTAAAAGACGCCGCTATAGATCAAGCAT
TAGCGACGCTTCTTT
Found at i:74501360 original size:142 final size:139
Alignment explanation
Indices: 74501105--74501385 Score: 447
Period size: 142 Copynumber: 2.0 Consensus size: 139
74501095 GTCGAGCATT
*
74501105 AGCGGCGCTTCTTTAAAAGCGCCGCAAAAAAATTAAGCACAACGCCATTTTATGTTGAGCTTTGG
1 AGCGGCGCTTCTTTAAAAACGCCGCAAAAAAATTAAGCACAACGCCATTTTATGTTGAGCTTTGG
* *
74501170 TGGCATTAGCGGCGCTTCTTAGAAAACGCCGCTATAGATCAAGTATTAGTGGCACTTTTTGATAA
66 TGGCATTAGCGGCGCTTCTTAGAAAACGCCACTATAGATCAAGCATTAGTGGCACTTTTTGA-AA
74501235 A-CGCCGCTA
130 ATCGCCGCTA
* *
74501244 AGCGGCGCTTCTTTAAAAATGCCGCAAAAAAATTAAGCACAATGCCATCGTTTTATGTTGAGCTT
1 AGCGGCGCTTCTTTAAAAACGCCGCAAAAAAATTAAGCACAACGCCA---TTTTATGTTGAGCTT
* * *
74501309 TGGTGGCATTAGCGGTGCTTTTTAGAAAACGCCACTATAGATCAAGCATTAGTGGCGCTTTTTGA
63 TGGTGGCATTAGCGGCGCTTCTTAGAAAACGCCACTATAGATCAAGCATTAGTGGCACTTTTTGA
74501374 AAATCGCCGCTA
128 AAATCGCCGCTA
74501386 TAGGTCGAGC
Statistics
Matches: 130, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
139 44 0.34
141 3 0.02
142 83 0.64
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (139 bp):
AGCGGCGCTTCTTTAAAAACGCCGCAAAAAAATTAAGCACAACGCCATTTTATGTTGAGCTTTGG
TGGCATTAGCGGCGCTTCTTAGAAAACGCCACTATAGATCAAGCATTAGTGGCACTTTTTGAAAA
TCGCCGCTA
Found at i:74501369 original size:40 final size:40
Alignment explanation
Indices: 74501314--74501417 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
74501304 AGCTTTGGTG
*
74501314 GCATTAGCGGTGCTTTTTAGAAAA-CGCCACTATAGATCAA
1 GCATTAGCGGCGCTTTTT-GAAAATCGCCACTATAGATCAA
* * * *
74501354 GCATTAGTGGCGCTTTTTGAAAATCGCCGCTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAATCGCCACTATAGATCAA
74501394 GCATTAGCGGCGCTTTTTTGAAAA
1 GCATTAGCGGCGC-TTTTTGAAAA
74501418 ACACCGCAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 5 0.09
40 41 0.73
41 10 0.18
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAATCGCCACTATAGATCAA
Found at i:74501738 original size:7 final size:7
Alignment explanation
Indices: 74501723--74501783 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
74501713 ATCATTATAA
*
74501723 TTTAGGG
1 TTTATGG
74501730 TTTATGG
1 TTTATGG
74501737 TTTATGG
1 TTTATGG
*
74501744 ATTATGTG
1 TTTATG-G
*
74501752 TTTAGGG
1 TTTATGG
*
74501759 ATTATGG
1 TTTATGG
*
74501766 ATTATGG
1 TTTATGG
*
74501773 ATTATGG
1 TTTATGG
74501780 TTTA
1 TTTA
74501784 AGGGTTGGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
7 41 0.89
8 5 0.11
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:74501740 original size:14 final size:14
Alignment explanation
Indices: 74501723--74501783 Score: 77
Period size: 14 Copynumber: 4.3 Consensus size: 14
74501713 ATCATTATAA
*
74501723 TTTAGGGTTTATGG
1 TTTAGGGATTATGG
*
74501737 TTTATGGATTATGTG
1 TTTAGGGATTATG-G
74501752 TTTAGGGATTATGG
1 TTTAGGGATTATGG
* *
74501766 ATTATGGATTATGG
1 TTTAGGGATTATGG
74501780 TTTA
1 TTTA
74501784 AGGGTTGGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
14 27 0.68
15 13 0.32
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TTTAGGGATTATGG
Found at i:74501754 original size:22 final size:21
Alignment explanation
Indices: 74501728--74501783 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
74501718 TATAATTTAG
74501728 GGTTTATGGTTTATGGATTAT
1 GGTTTATGGTTTATGGATTAT
* *
74501749 GTGTTTAGGGATTATGGATTAT
1 G-GTTTATGGTTTATGGATTAT
*
74501771 GGATTATGGTTTA
1 GGTTTATGGTTTA
74501784 AGGGTTGGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.48
Consensus pattern (21 bp):
GGTTTATGGTTTATGGATTAT
Found at i:74501756 original size:29 final size:28
Alignment explanation
Indices: 74501723--74501789 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 28
74501713 ATCATTATAA
*
74501723 TTTAGGGTTTATGGTTTATGGATTATGTG
1 TTTAGGGTTTATGGATTATGGATTATG-G
*
74501752 TTTAGGGATTATGGATTATGGATTATGG
1 TTTAGGGTTTATGGATTATGGATTATGG
74501780 TTTAAGGGTT
1 TTT-AGGGTT
74501790 GGGGGTTAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (28 bp):
TTTAGGGTTTATGGATTATGGATTATGG
Found at i:74501795 original size:7 final size:7
Alignment explanation
Indices: 74501785--74501840 Score: 76
Period size: 7 Copynumber: 7.9 Consensus size: 7
74501775 TATGGTTTAA
*
74501785 GGGTTGG
1 GGGTTAG
74501792 GGGTTAG
1 GGGTTAG
74501799 GGGTTAG
1 GGGTTAG
*
74501806 AGGTTAG
1 GGGTTAG
*
74501813 GGGTTAA
1 GGGTTAG
74501820 GGGTTAG
1 GGGTTAG
74501827 GGGTTTAG
1 GGG-TTAG
74501835 GGGTTA
1 GGGTTA
74501841 AGGTTTATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
7 36 0.84
8 7 0.16
ACGTcount: A:0.16, C:0.00, G:0.54, T:0.30
Consensus pattern (7 bp):
GGGTTAG
Found at i:74501868 original size:7 final size:7
Alignment explanation
Indices: 74501723--74501870 Score: 50
Period size: 7 Copynumber: 20.9 Consensus size: 7
74501713 ATCATTATAA
74501723 TTTAGGG
1 TTTAGGG
*
74501730 TTTATGG
1 TTTAGGG
*
74501737 TTTATGG
1 TTTAGGG
* *
74501744 ATTATGTG
1 TTTA-GGG
74501752 TTTAGGG
1 TTTAGGG
* *
74501759 ATTATGG
1 TTTAGGG
* *
74501766 ATTATGG
1 TTTAGGG
* *
74501773 ATTATGG
1 TTTAGGG
74501780 TTTAAGGG
1 TTT-AGGG
*
74501788 -TTGGGG
1 TTTAGGG
*
74501794 GTTAGGG
1 TTTAGGG
*
74501801 GTTAGAGG
1 TTTAG-GG
74501809 -TTAGGGG
1 TTTA-GGG
*
74501816 TTAAGGG
1 TTTAGGG
74501823 -TTAGGGG
1 TTTA-GGG
74501830 TTTAGGG
1 TTTAGGG
* *
74501837 GTTAAGG
1 TTTAGGG
* *
74501844 TTTATGT
1 TTTAGGG
* *
74501851 TTTATGA
1 TTTAGGG
74501858 TTTAGGG
1 TTTAGGG
74501865 TTTAGG
1 TTTAGG
74501871 AGATAGGGGT
Statistics
Matches: 111, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
6 5 0.05
7 91 0.82
8 15 0.14
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:74504108 original size:31 final size:31
Alignment explanation
Indices: 74504073--74504135 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
74504063 TATTGGGTCT
74504073 AATTATATGTGTTTTTTGGACTTTTAACCCA
1 AATTATATGTGTTTTTTGGACTTTTAACCCA
74504104 AATTATATGTGTTTTTTGGACTTTTAACCCA
1 AATTATATGTGTTTTTTGGACTTTTAACCCA
74504135 A
1 A
74504136 CACTTTATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.48
Consensus pattern (31 bp):
AATTATATGTGTTTTTTGGACTTTTAACCCA
Found at i:74532871 original size:55 final size:56
Alignment explanation
Indices: 74532753--74532966 Score: 225
Period size: 55 Copynumber: 3.9 Consensus size: 56
74532743 TTCATATAGA
* * * * *
74532753 CATTTCATATAATGCCAGGGGTCTTAACCACATGGTTTTACATACATTCTTTCAAT
1 CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATTCATTCAGT
** * *
74532809 CATTTCATATATTGTAATGGGTTTTAACCACATGTTTTTA-ATTCATTCATTCAGT
1 CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATTCATTCAGT
** * * * * * *
74532864 CATTTCATAGCTCGTCATGGGTCTTAACCATATGGTCTTACA-TCATTAATTTAGT
1 CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATTCATTCAGT
* * * *
74532919 CATTTCATATCTTGCCATGGGTTTTAACCACATGGTCTTACATACATT
1 CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATT
74532967 TATGTATCGT
Statistics
Matches: 131, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
55 92 0.70
56 39 0.30
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.41
Consensus pattern (56 bp):
CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATTCATTCAGT
Found at i:74537247 original size:18 final size:18
Alignment explanation
Indices: 74537220--74537254 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
74537210 GAATTTGTCA
*
74537220 TTTATTTTTGTGTCCATC
1 TTTATCTTTGTGTCCATC
*
74537238 TTTATCTTTGTTTCCAT
1 TTTATCTTTGTGTCCAT
74537255 TTCCAACCTT
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:0.11, C:0.17, G:0.09, T:0.63
Consensus pattern (18 bp):
TTTATCTTTGTGTCCATC
Found at i:74539219 original size:27 final size:27
Alignment explanation
Indices: 74539173--74539401 Score: 205
Period size: 27 Copynumber: 8.5 Consensus size: 27
74539163 GGGTATAACA
* * *
74539173 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
74539200 GTCATTTTACCATTTAGGGGAATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * *
74539227 ATCATTTTACCCTTCAGGGGTATTTTG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
74539254 GTCATTTTACCCTTT-GAAGGTATTTCA
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* ** *
74539281 GTTATTTTACCCTTCGGGGGTATTTTG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * *
74539308 ATCATTTTACCC-TTCGAGGGTGTTTCG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* *
74539335 GTTATTTTACCCTTT-GAGGGTATTTTG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* **
74539362 GTCATTTTACCCTTCAAAGGTA-TTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
74539388 GTCATTTTACCCTT
1 GTCATTTTACCCTT
74539402 CGAGGGTGTT
Statistics
Matches: 162, Mismatches: 35, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
26 20 0.12
27 139 0.86
28 3 0.02
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTTAGGGGTATTTCG
Found at i:74539288 original size:81 final size:81
Alignment explanation
Indices: 74539173--74539413 Score: 279
Period size: 81 Copynumber: 3.0 Consensus size: 81
74539163 GGGTATAACA
* * *
74539173 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCATTTAGGGGAATTTCGATCATTTTACC
1 GTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCAGGGGAATTTCGATCATTTTACC
*
74539238 CTTC-AGGGGTATTTTG
66 CTTCGA-GGGTATTTCG
* * * * * *
74539254 GTCATTTTACCCTTTGAAGGTATTTCAGTTATTTTACCCTTCGGGGGTATTTTGATCATTTTACC
1 GTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCAGGGGAATTTCGATCATTTTACC
*
74539319 CTTCGAGGGTGTTTCG
66 CTTCGAGGGTATTTCG
* ** * ** * *
74539335 GTTATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCAAAGGTA-TTCGGTCATTTTACC
1 GTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCAGGGGAATTTCGATCATTTTACC
*
74539399 CTTCGAGGGTGTTTC
66 CTTCGAGGGTATTTC
74539414 AGTTATTTAC
Statistics
Matches: 138, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 28 0.20
81 109 0.79
82 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (81 bp):
GTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCAGGGGAATTTCGATCATTTTACC
CTTCGAGGGTATTTCG
Found at i:74540030 original size:15 final size:16
Alignment explanation
Indices: 74540007--74540039 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
74539997 GCACTAGAAT
74540007 GAAGAGGAGAAGAAGA
1 GAAGAGGAGAAGAAGA
*
74540023 GAAG-GGAGGAGAAGA
1 GAAGAGGAGAAGAAGA
74540038 GA
1 GA
74540040 TGAGAAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (16 bp):
GAAGAGGAGAAGAAGA
Found at i:74540036 original size:10 final size:10
Alignment explanation
Indices: 74540009--74540052 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
74539999 ACTAGAATGA
74540009 AGAGGAGAAG
1 AGAGGAGAAG
74540019 A-A-GAGAAG
1 AGAGGAGAAG
*
74540027 GGAGGAGAAG
1 AGAGGAGAAG
*
74540037 AGATGAGAAG
1 AGAGGAGAAG
74540047 AGAGGA
1 AGAGGA
74540053 TTCGGTAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 6 0.21
9 2 0.07
10 20 0.71
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (10 bp):
AGAGGAGAAG
Found at i:74543393 original size:25 final size:25
Alignment explanation
Indices: 74543332--74543393 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
74543322 ACCTACCGCT
* *
74543332 CCTTCAAAGTTCGCCACACACTGTC
1 CCTTCAGAGTTTGCCACACACTGTC
74543357 CCTTCAGAGTTTGCCACACACTGTC
1 CCTTCAGAGTTTGCCACACACTGTC
74543382 CCTTCAGAGTTT
1 CCTTCAGAGTTT
74543394 ATCACACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.29
Consensus pattern (25 bp):
CCTTCAGAGTTTGCCACACACTGTC
Found at i:74543399 original size:25 final size:25
Alignment explanation
Indices: 74543345--74543401 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
74543335 TCAAAGTTCG
*
74543345 CCACACACTGTCCCTTCAGAGTTTG
1 CCACACACTGTCCCTTCAGAGTTTA
74543370 CCACACACTGTCCCTTCAGAGTTTA
1 CCACACACTGTCCCTTCAGAGTTTA
*
74543395 TCACACA
1 CCACACA
74543402 TTCTAACCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.37, G:0.12, T:0.26
Consensus pattern (25 bp):
CCACACACTGTCCCTTCAGAGTTTA
Found at i:74543575 original size:28 final size:28
Alignment explanation
Indices: 74543534--74543589 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
74543524 TTCATCATTT
74543534 GCCACAAAAGCTTTCCTTTCCTTAGATC
1 GCCACAAAAGCTTTCCTTTCCTTAGATC
74543562 GCCA-AAAAGGCTTTCCTTTCCTTAGATC
1 GCCACAAAA-GCTTTCCTTTCCTTAGATC
74543590 ACTATAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.32
Consensus pattern (28 bp):
GCCACAAAAGCTTTCCTTTCCTTAGATC
Found at i:74543598 original size:28 final size:28
Alignment explanation
Indices: 74543539--74543602 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
74543529 CATTTGCCAC
*
74543539 AAAA-GCTTTCCTTTCCTTAGATCGCCA
1 AAAAGGCTTTCCTTTCCTTAGATCACCA
*
74543566 AAAAGGCTTTCCTTTCCTTAGATCACTA
1 AAAAGGCTTTCCTTTCCTTAGATCACCA
*
74543594 TAAAGGCTT
1 AAAAGGCTT
74543603 CGATTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (28 bp):
AAAAGGCTTTCCTTTCCTTAGATCACCA
Found at i:74548200 original size:39 final size:38
Alignment explanation
Indices: 74548149--74548288 Score: 138
Period size: 39 Copynumber: 3.6 Consensus size: 38
74548139 TGTAATTATA
*
74548149 CCCTGATTGCATATACGTGCCCCTGTTGTACTTCGGTAC
1 CCCTGATTGCATATATGTGCCCCTGTTGTA-TTCGGTAC
* * * *
74548188 CCCTGAATGCATATATGTGGCCCTATTGTAATTCGATAC
1 CCCTGATTGCATATATGTGCCCCTGTTGT-ATTCGGTAC
* * **
74548227 CCTTGATTGCACATATGTGCCTGTGTTGTATTGCGGTAC
1 CCCTGATTGCATATATGTGCCCCTGTTGTATT-CGGTAC
*
74548266 CTCTGATTTGCACT-TATGTGCCC
1 CCCTGA-TTGCA-TATATGTGCCC
74548289 TTCATTACAT
Statistics
Matches: 80, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
38 3 0.04
39 63 0.79
40 14 0.17
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.36
Consensus pattern (38 bp):
CCCTGATTGCATATATGTGCCCCTGTTGTATTCGGTAC
Found at i:74552982 original size:49 final size:49
Alignment explanation
Indices: 74552924--74553038 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 49
74552914 TCATTAGGGA
* * *
74552924 TTACTGATTCTTAGCTCGTATGAGCTTACC-AATTGCAGCTCGTGAGAG
1 TTACTGATTCTTAGCTCATATGAGCATACCGAATTACAGCTCGTGAGAG
* * * * *
74552972 CTTACCGATTCTCAACTCATATGAGCATACCGATTTACAGCTCTTGAGAG
1 -TTACTGATTCTTAGCTCATATGAGCATACCGAATTACAGCTCGTGAGAG
*
74553022 TATACTGATTCATAGCT
1 T-TACTGATTCTTAGCT
74553039 TGTCTAAGCA
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
49 26 0.50
50 26 0.50
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (49 bp):
TTACTGATTCTTAGCTCATATGAGCATACCGAATTACAGCTCGTGAGAG
Found at i:74559354 original size:25 final size:25
Alignment explanation
Indices: 74559266--74559355 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
74559256 CATTAGGGAC
*
74559266 TACCGATTCTCAGCTCAT-ATGAGCT
1 TACCGATTCACAGCTCATGA-GAGCT
* *
74559291 TACCAATT-GCAGCTCATGAGAGCT
1 TACCGATTCACAGCTCATGAGAGCT
* *
74559315 TACCGATTTACAGCTCTTGAGAG-T
1 TACCGATTCACAGCTCATGAGAGCT
*
74559339 ATACCGATTCATAGCTC
1 -TACCGATTCACAGCTC
74559356 GTATAAGCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 21 0.38
25 34 0.62
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (25 bp):
TACCGATTCACAGCTCATGAGAGCT
Found at i:74559555 original size:30 final size:30
Alignment explanation
Indices: 74559516--74559577 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
74559506 TACATGAAAT
74559516 ACATAGAAAT-GAT-ATTACATGATATATTGAA
1 ACATAGAAATGGATGA-TACATG-TATA-TGAA
74559547 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATAGAAATGGATGATACATGTATATGAA
74559576 AC
1 AC
74559578 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (30 bp):
ACATAGAAATGGATGATACATGTATATGAA
Found at i:74567093 original size:27 final size:27
Alignment explanation
Indices: 74567038--74567089 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
74567028 AAATTGCAAA
74567038 AAGGAAAAAGAGCCAAAGAAAAGAAAG
1 AAGGAAAAAGAGCCAAAGAAAAGAAAG
* *
74567065 AAGG-AAAATAGCCAAAGAGAAGAAA
1 AAGGAAAAAGAGCCAAAGAAAAGAAA
74567090 AGAAATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.65, C:0.08, G:0.25, T:0.02
Consensus pattern (27 bp):
AAGGAAAAAGAGCCAAAGAAAAGAAAG
Found at i:74568365 original size:7 final size:7
Alignment explanation
Indices: 74568348--74568377 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
74568338 ATTAACTTTT
74568348 ACTATCTA
1 ACTA-CTA
74568356 ACTACTA
1 ACTACTA
74568363 ACTACTA
1 ACTACTA
74568370 ACTACTA
1 ACTACTA
74568377 A
1 A
74568378 AAGTGCAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (7 bp):
ACTACTA
Found at i:74569410 original size:17 final size:17
Alignment explanation
Indices: 74569388--74569425 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
74569378 TCATGTCTGG
74569388 TTCATCAAGAAAATGGA
1 TTCATCAAGAAAATGGA
*
74569405 TTCATCATGAAAATGGA
1 TTCATCAAGAAAATGGA
74569422 TTCA
1 TTCA
74569426 AACTTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (17 bp):
TTCATCAAGAAAATGGA
Found at i:74577452 original size:250 final size:250
Alignment explanation
Indices: 74577011--74577510 Score: 1000
Period size: 250 Copynumber: 2.0 Consensus size: 250
74577001 GATTTAGGAC
74577011 CACTATCCTATTTCTTGGGTGTTGAAGTTGTGTGGTTCTCGAGTGGCTTGCAGCTTACGCAATCC
1 CACTATCCTATTTCTTGGGTGTTGAAGTTGTGTGGTTCTCGAGTGGCTTGCAGCTTACGCAATCC
74577076 AAATATATCAAAGATTTGCTCCATCGTGCGAATATGCAAGATGCCTCGTCGGTTTCGACTCCTTC
66 AAATATATCAAAGATTTGCTCCATCGTGCGAATATGCAAGATGCCTCGTCGGTTTCGACTCCTTC
74577141 AACGCCGCAAGCCGACCTCACCGGCACTACTTCTTTTACCTTTGATGATCCTAAGCTTTATCGAC
131 AACGCCGCAAGCCGACCTCACCGGCACTACTTCTTTTACCTTTGATGATCCTAAGCTTTATCGAC
74577206 AGGTTGTTGGGTCTCTTCAATATTTGGCACTCACTCGCCCCGACATAACCATGGA
196 AGGTTGTTGGGTCTCTTCAATATTTGGCACTCACTCGCCCCGACATAACCATGGA
74577261 CACTATCCTATTTCTTGGGTGTTGAAGTTGTGTGGTTCTCGAGTGGCTTGCAGCTTACGCAATCC
1 CACTATCCTATTTCTTGGGTGTTGAAGTTGTGTGGTTCTCGAGTGGCTTGCAGCTTACGCAATCC
74577326 AAATATATCAAAGATTTGCTCCATCGTGCGAATATGCAAGATGCCTCGTCGGTTTCGACTCCTTC
66 AAATATATCAAAGATTTGCTCCATCGTGCGAATATGCAAGATGCCTCGTCGGTTTCGACTCCTTC
74577391 AACGCCGCAAGCCGACCTCACCGGCACTACTTCTTTTACCTTTGATGATCCTAAGCTTTATCGAC
131 AACGCCGCAAGCCGACCTCACCGGCACTACTTCTTTTACCTTTGATGATCCTAAGCTTTATCGAC
74577456 AGGTTGTTGGGTCTCTTCAATATTTGGCACTCACTCGCCCCGACATAACCATGGA
196 AGGTTGTTGGGTCTCTTCAATATTTGGCACTCACTCGCCCCGACATAACCATGGA
74577511 AGTGAACAAA
Statistics
Matches: 250, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
250 250 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (250 bp):
CACTATCCTATTTCTTGGGTGTTGAAGTTGTGTGGTTCTCGAGTGGCTTGCAGCTTACGCAATCC
AAATATATCAAAGATTTGCTCCATCGTGCGAATATGCAAGATGCCTCGTCGGTTTCGACTCCTTC
AACGCCGCAAGCCGACCTCACCGGCACTACTTCTTTTACCTTTGATGATCCTAAGCTTTATCGAC
AGGTTGTTGGGTCTCTTCAATATTTGGCACTCACTCGCCCCGACATAACCATGGA
Found at i:74580523 original size:21 final size:19
Alignment explanation
Indices: 74580499--74580548 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 19
74580489 TGAAGTGCAA
74580499 TCTTCATCTTTCCTCAATTG
1 TCTTCATCTTTCCTC-ATTG
74580519 CTCTTCCATACTTTCCTCATTG
1 -TCTT-CAT-CTTTCCTCATTG
74580541 TCTTCATC
1 TCTTCATC
74580549 CACCTCGTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 3 0.11
21 8 0.30
22 7 0.26
23 8 0.30
ACGTcount: A:0.14, C:0.34, G:0.04, T:0.48
Consensus pattern (19 bp):
TCTTCATCTTTCCTCATTG
Found at i:74590709 original size:27 final size:28
Alignment explanation
Indices: 74590663--74590716 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
74590653 AATAAATACC
*
74590663 AAAAATTTATTTTAAAAATAAAAAATAA
1 AAAAAATTATTTTAAAAATAAAAAATAA
*
74590691 AAAAAATTATTTT-AGAATAAAAAATA
1 AAAAAATTATTTTAAAAATAAAAAATA
74590717 TATATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (28 bp):
AAAAAATTATTTTAAAAATAAAAAATAA
Found at i:74591210 original size:16 final size:16
Alignment explanation
Indices: 74591191--74591239 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
74591181 TAATCTTTTG
74591191 AAAATTATAAAAATAT
1 AAAATTATAAAAATAT
*
74591207 AAAA-TATTAAAATATT
1 AAAATTATAAAAATA-T
* *
74591223 AAAATAATAAAATTAT
1 AAAATTATAAAAATAT
74591239 A
1 A
74591240 TTTTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 9 0.33
16 11 0.41
17 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTATAAAAATAT
Found at i:74600058 original size:4 final size:4
Alignment explanation
Indices: 74600049--74600074 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
74600039 AATTTACAAC
74600049 TCTT TCTT TCTT TCTT TCTT TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TCTT TC
74600075 GGTCCCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:74613992 original size:21 final size:20
Alignment explanation
Indices: 74613946--74613994 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
74613936 ATGCCAAAAT
*
74613946 GATATCGAT-ATTTATATGA
1 GATATCGATAATTTATATAA
*
74613965 G-TATCGATAATTTTTCATAA
1 GATATCGATAATTTAT-ATAA
74613985 GATATCGATA
1 GATATCGATA
74613995 CTCTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 7 0.28
19 6 0.24
20 4 0.16
21 8 0.32
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (20 bp):
GATATCGATAATTTATATAA
Found at i:74615178 original size:38 final size:38
Alignment explanation
Indices: 74615127--74615203 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
74615117 GCGTGGTGGG
* *
74615127 GGAGTGTTGGAGTGATTTTAGGAGGAAAATATGATATT
1 GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGAGATT
*
74615165 GGAGTGTTTGAGTGACTTTAGGAGGAAAATATGAGATT
1 GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGAGATT
74615203 G
1 G
74615204 TGGAGTTATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.31, C:0.01, G:0.35, T:0.32
Consensus pattern (38 bp):
GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGAGATT
Found at i:74616024 original size:17 final size:18
Alignment explanation
Indices: 74616002--74616038 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
74615992 TTTTGGGCCG
74616002 TGTGGGCC-ACACGAGCT
1 TGTGGGCCTACACGAGCT
*
74616019 TGTGGGCCTACATGAGCT
1 TGTGGGCCTACACGAGCT
74616037 TG
1 TG
74616039 CAACATGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.16, C:0.24, G:0.35, T:0.24
Consensus pattern (18 bp):
TGTGGGCCTACACGAGCT
Found at i:74622104 original size:38 final size:38
Alignment explanation
Indices: 74622049--74622122 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
74622039 TGGTGGGGGC
* *
74622049 GTGTTGGAGTGATTTTAGGAGGAAAATATGATATTGGA
1 GTGTTGGAGTGACTTTAGGAGGAAAATATGAGATTGGA
74622087 GTGTTGGAGTGACTTTAGGAGGAAAATATGAGATTG
1 GTGTTGGAGTGACTTTAGGAGGAAAATATGAGATTG
74622123 TAGAGTTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.01, G:0.35, T:0.32
Consensus pattern (38 bp):
GTGTTGGAGTGACTTTAGGAGGAAAATATGAGATTGGA
Found at i:74622901 original size:23 final size:23
Alignment explanation
Indices: 74622871--74622926 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
74622861 TTAACCACAC
*
74622871 GAGCGTGTGGGAATATTAGGCCA
1 GAGCGTGTGAGAATATTAGGCCA
*
74622894 GAGCGTGTGAGAATATTAGGGCA
1 GAGCGTGTGAGAATATTAGGCCA
*
74622917 GACCGTGTGA
1 GAGCGTGTGA
74622927 ACCACACGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.27, C:0.12, G:0.39, T:0.21
Consensus pattern (23 bp):
GAGCGTGTGAGAATATTAGGCCA
Found at i:74625254 original size:46 final size:46
Alignment explanation
Indices: 74625191--74625310 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 46
74625181 GCAACTAAAT
* *
74625191 TTGCAGTTAAACTGCCAGATCAGATATATGTGGTCAAGCCACTAT-A
1 TTGCAGTCAAGCTGCCAGAT-AGATATATGTGGTCAAGCCACTATAA
* *
74625237 TTGTAGTCAAGCTGCCAGAGTAGATATATGTGGTCTAGCCACTATAA
1 TTGCAGTCAAGCTGCCAGA-TAGATATATGTGGTCAAGCCACTATAA
*
74625284 TTGCAGTCAAGCCGCCAGAATAGATAT
1 TTGCAGTCAAGCTGCCAG-ATAGATAT
74625311 GTGGTTAGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
46 39 0.60
47 25 0.38
48 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (46 bp):
TTGCAGTCAAGCTGCCAGATAGATATATGTGGTCAAGCCACTATAA
Found at i:74625310 original size:47 final size:46
Alignment explanation
Indices: 74625204--74625325 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
74625194 CAGTTAAACT
* * *
74625204 GCCAG-ATCAGATATATGTGGTCAAGCCACTATATTGTAGTCAAGCT
1 GCCAGAAT-AGATATATGTGGTCTAGCCACTATATTGCAGTCAAGCC
*
74625250 GCCAGAGTAGATATATGTGGTCTAGCCACTATAATTGCAGTCAAGCC
1 GCCAGAATAGATATATGTGGTCTAGCCACTAT-ATTGCAGTCAAGCC
74625297 GCCAGAATAG--ATATGTGGT-TAGACCACTA
1 GCCAGAATAGATATATGTGGTCTAG-CCACTA
74625326 GATAGTTCAG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
44 3 0.04
45 15 0.22
46 28 0.41
47 22 0.32
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (46 bp):
GCCAGAATAGATATATGTGGTCTAGCCACTATATTGCAGTCAAGCC
Found at i:74627779 original size:31 final size:32
Alignment explanation
Indices: 74627743--74627807 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
74627733 CTTAGATAAT
74627743 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
74627774 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
74627806 TT
1 TT
74627808 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:74628381 original size:17 final size:17
Alignment explanation
Indices: 74628361--74628500 Score: 68
Period size: 17 Copynumber: 7.4 Consensus size: 17
74628351 TAAAAGCAAA
* *
74628361 AAAAAAGTAAAAACAGC
1 AAAAAAGCAAAAAAAGC
*
74628378 AAAAAAACAAAAAAAGC
1 AAAAAAGCAAAAAAAGC
*
74628395 AAAAAAGCGCAAAAAAAGAG
1 AAAAAA--GCAAAAAAAG-C
74628415 AGTAAAAAGCGCAAAAAAAAGC
1 A--AAAAA--GC-AAAAAAAGC
74628437 AAAAAAAGCGCAAAAAAAG-
1 -AAAAAA--GCAAAAAAAGC
74628456 AGTAAAAAGCGCAAAAAAAAGC
1 A--AAAAA--GC-AAAAAAAGC
*
74628478 -AAAAAGCAAAAAAGCGC
1 AAAAAAGCAAAAAA-AGC
74628495 AAAAAA
1 AAAAAA
74628501 AAAGTTGCCT
Statistics
Matches: 103, Mismatches: 7, Indels: 25
0.76 0.05 0.19
Matches are distributed among these distances:
16 6 0.06
17 24 0.23
18 6 0.06
19 14 0.14
20 18 0.17
21 17 0.17
22 9 0.09
23 9 0.09
ACGTcount: A:0.71, C:0.12, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAGCAAAAAAAGC
Found at i:74628388 original size:8 final size:9
Alignment explanation
Indices: 74628360--74628501 Score: 78
Period size: 9 Copynumber: 14.8 Consensus size: 9
74628350 ATAAAAGCAA
*
74628360 AAAAAAAGT
1 AAAAAAAGC
*
74628369 AAAAACAGC
1 AAAAAAAGC
74628378 AAAAAAA-C
1 AAAAAAAGC
74628386 AAAAAAAGC
1 AAAAAAAGC
*
74628395 AAAAAAGCGC
1 AAAAAA-AGC
74628405 AAAAAAAG-
1 AAAAAAAGC
74628413 AGAGTAAAAAGCGC
1 A-A--AAAAA--GC
74628427 AAAAAAAAGC
1 -AAAAAAAGC
74628437 AAAAAAAGCGC
1 AAAAAAA--GC
74628448 AAAAAAAG-
1 AAAAAAAGC
*
74628456 AGTAAAAAGCGC
1 A--AAAAA-AGC
74628468 AAAAAAAAGC
1 -AAAAAAAGC
74628478 --AAAAAGC
1 AAAAAAAGC
*
74628485 AAAAAAGCGC
1 AAAAAA-AGC
74628495 AAAAAAA
1 AAAAAAA
74628502 AAGTTGCCTA
Statistics
Matches: 105, Mismatches: 9, Indels: 38
0.69 0.06 0.25
Matches are distributed among these distances:
7 7 0.07
8 10 0.10
9 34 0.32
10 25 0.24
11 20 0.19
12 5 0.05
13 2 0.02
14 1 0.01
15 1 0.01
ACGTcount: A:0.71, C:0.12, G:0.15, T:0.02
Consensus pattern (9 bp):
AAAAAAAGC
Found at i:74628421 original size:22 final size:21
Alignment explanation
Indices: 74628396--74628476 Score: 121
Period size: 21 Copynumber: 3.9 Consensus size: 21
74628386 AAAAAAAGCA
74628396 AAAAAGCGCAAAAAAAGAGAGT
1 AAAAAGCGCAAAAAAA-AGAGT
*
74628418 AAAAAGCGCAAAAAAAAGCA-A
1 AAAAAGCGCAAAAAAAAG-AGT
74628439 AAAAAGCGC-AAAAAAAGAGT
1 AAAAAGCGCAAAAAAAAGAGT
74628459 AAAAAGCGCAAAAAAAAG
1 AAAAAGCGCAAAAAAAAG
74628477 CAAAAAGCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.02
20 17 0.31
21 19 0.35
22 17 0.31
ACGTcount: A:0.68, C:0.11, G:0.19, T:0.02
Consensus pattern (21 bp):
AAAAAGCGCAAAAAAAAGAGT
Found at i:74628452 original size:41 final size:42
Alignment explanation
Indices: 74628386--74628482 Score: 171
Period size: 41 Copynumber: 2.3 Consensus size: 42
74628376 GCAAAAAAAC
74628386 AAAAAAAGC-AAAAAAGCGCAAAAAAAGAGAGTAAAAAGCGCA
1 AAAAAAAGCAAAAAAAGCGCAAAAAAA-AGAGTAAAAAGCGCA
74628428 AAAAAAAGCAAAAAAAGCGC-AAAAAAAGAGTAAAAAGCGCA
1 AAAAAAAGCAAAAAAAGCGCAAAAAAAAGAGTAAAAAGCGCA
74628469 AAAAAAAGCAAAAA
1 AAAAAAAGCAAAAA
74628483 GCAAAAAAGC
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
41 29 0.54
42 15 0.28
43 10 0.19
ACGTcount: A:0.70, C:0.11, G:0.16, T:0.02
Consensus pattern (42 bp):
AAAAAAAGCAAAAAAAGCGCAAAAAAAAGAGTAAAAAGCGCA
Found at i:74628455 original size:11 final size:11
Alignment explanation
Indices: 74628395--74628501 Score: 81
Period size: 11 Copynumber: 10.5 Consensus size: 11
74628385 CAAAAAAAGC
74628395 AAAAAAGCGCA
1 AAAAAAGCGCA
*
74628406 AAAAAAGAG-A
1 AAAAAAGCGCA
*
74628416 GTAAAAAGCGCA
1 -AAAAAAGCGCA
*
74628428 AAAAAA-AGCA
1 AAAAAAGCGCA
74628438 AAAAAAGCGCA
1 AAAAAAGCGCA
*
74628449 AAAAAAGAG--
1 AAAAAAGCGCA
*
74628458 TAAAAAGCGCA
1 AAAAAAGCGCA
*
74628469 AAAAAA-AGC-
1 AAAAAAGCGCA
74628478 -AAAAA--GC-
1 AAAAAAGCGCA
74628485 AAAAAAGCGCA
1 AAAAAAGCGCA
74628496 AAAAAA
1 AAAAAA
74628502 AAGTTGCCTA
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
7 2 0.03
8 10 0.13
9 7 0.09
10 14 0.18
11 42 0.55
12 1 0.01
ACGTcount: A:0.69, C:0.12, G:0.17, T:0.02
Consensus pattern (11 bp):
AAAAAAGCGCA
Found at i:74628504 original size:21 final size:20
Alignment explanation
Indices: 74628386--74628482 Score: 126
Period size: 20 Copynumber: 4.7 Consensus size: 20
74628376 GCAAAAAAAC
74628386 AAAAAAAGCAAAAAAGCGCA
1 AAAAAAAGCAAAAAAGCGCA
74628406 AAAAAAGAG-AGTAAAAAGCGCA
1 AAAAAA-AGCA--AAAAAGCGCA
74628428 AAAAAAAGCAAAAAAAGCGCA
1 AAAAAAAGC-AAAAAAGCGCA
*
74628449 AAAAAAGAG-TAAAAAGCGCA
1 AAAAAA-AGCAAAAAAGCGCA
74628469 AAAAAAAGCAAAAA
1 AAAAAAAGCAAAAA
74628483 GCAAAAAAGC
Statistics
Matches: 68, Mismatches: 2, Indels: 14
0.81 0.02 0.17
Matches are distributed among these distances:
19 2 0.03
20 27 0.40
21 20 0.29
22 18 0.26
23 1 0.01
ACGTcount: A:0.70, C:0.11, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAAAAAGCAAAAAAGCGCA
Found at i:74632053 original size:20 final size:20
Alignment explanation
Indices: 74632019--74632060 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
74632009 AACTATATAA
** *
74632019 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
74632039 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
74632059 AT
1 AT
74632061 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:74640311 original size:23 final size:23
Alignment explanation
Indices: 74640268--74640317 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
74640258 GTATAAGGAC
* * *
74640268 TAAATTGTATATAAGGTAAAAGT
1 TAAATTATATATAAAGTAAAAAT
74640291 TAAATTATATATTAAAG-AAAAAT
1 TAAATTATATA-TAAAGTAAAAAT
74640314 TAAA
1 TAAA
74640318 GGGACTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (23 bp):
TAAATTATATATAAAGTAAAAAT
Done.