Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 58 of 172
Found at i:18898455 original size:47 final size:47
Alignment explanation
Indices: 18898402--18898505 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 47
18898392 CCTAATGGCC
* * ** * *
18898402 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCGAATGGCCAACATGATGAATCTGAAAGTGTATAA
* * *
18898449 ATGTGATAGGGCCGAGTGGCCAACATGATGGATCTGAAAGTGTATAA
1 ATGTGATAAGGCCGAATGGCCAACATGATGAATCTGAAAGTGTATAA
18898496 ATGTGATAAG
1 ATGTGATAAG
18898506 TCCCGAAGGG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATAAGGCCGAATGGCCAACATGATGAATCTGAAAGTGTATAA
Found at i:18899895 original size:13 final size:13
Alignment explanation
Indices: 18899877--18899901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18899867 AGGTTGTGTG
18899877 AGGGACACGGGCT
1 AGGGACACGGGCT
18899890 AGGGACACGGGC
1 AGGGACACGGGC
18899902 GTGTGCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.48, T:0.04
Consensus pattern (13 bp):
AGGGACACGGGCT
Found at i:18901274 original size:50 final size:50
Alignment explanation
Indices: 18901200--18901424 Score: 208
Period size: 50 Copynumber: 4.5 Consensus size: 50
18901190 TGAAGACACG
* *
18901200 TGTGTAGT-CTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * * ** *
18901249 TGTGTAGTATTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * *
18901300 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * * * * *
18901350 TGTGTAGTACTTAGTGTAGGCTACTACGTGTATCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
*
18901399 TGTGTAGTGCTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
18901425 TGCGTATCAG
Statistics
Matches: 144, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 39 0.27
50 62 0.43
51 34 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:18908498 original size:50 final size:51
Alignment explanation
Indices: 18908421--18908650 Score: 233
Period size: 50 Copynumber: 4.6 Consensus size: 51
18908411 ATTGTGAATA
18908421 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAATACTGTTAAGT
* * * * **
18908471 CGCATGTGTAGTACTAAGTTCAGGCTACTATGCGTACTCAATGACT-TCGA-T
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAAT-ACTGTTAAGT
* * * *
18908522 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT--GGTGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-ATACTGTTAAGT
* * *
18908572 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGAT--TGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AATACTGTTAAGT
* *
18908621 CGCATGTGTAGTACTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
18908651 TGCGCATCAG
Statistics
Matches: 151, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
49 32 0.21
50 76 0.50
51 34 0.23
52 6 0.04
53 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAATACTGTTAAGT
Found at i:18916472 original size:46 final size:46
Alignment explanation
Indices: 18916329--18916472 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 46
18916319 CCCGCCCCTA
* * *
18916329 AGTGAACTCGGACTCAACTCAACAAGTTCGGATGC-CTAGTTACATTTC-
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAATCCT
* * *** *
18916377 A-CGAACTCAGACTCAACTCAACGAGTTCGGACATTC-GC-ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAATCC-T
18916421 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAATCCT
18916468 AGTGA
1 AGTGA
18916473 CATGTAACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
42 2 0.03
43 1 0.01
45 1 0.01
46 35 0.47
47 29 0.39
48 6 0.08
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAATCCT
Found at i:18916912 original size:30 final size:30
Alignment explanation
Indices: 18916878--18916937 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
18916868 ATTTACTACG
18916878 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
18916908 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
18916938 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:18921928 original size:22 final size:22
Alignment explanation
Indices: 18921903--18921967 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
18921893 GTAAATACAT
*
18921903 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
18921925 TTGGCACAGAGCCA-GATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
18921947 TTGGCACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
18921968 AATAATTGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.18
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:18922169 original size:41 final size:41
Alignment explanation
Indices: 18922112--18922191 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
18922102 AAGCCACCGA
18922112 TGGATCCACGATAGTCAAGCAACCATGCGATCCTCAATTGG
1 TGGATCCACGATAGTCAAGCAACCATGCGATCCTCAATTGG
*
18922153 TGGATCCACGATAGTCAAGCAACCATGTGATCCTCAATT
1 TGGATCCACGATAGTCAAGCAACCATGCGATCCTCAATT
18922192 TCTTCCTCCG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (41 bp):
TGGATCCACGATAGTCAAGCAACCATGCGATCCTCAATTGG
Found at i:18922570 original size:27 final size:27
Alignment explanation
Indices: 18922449--18922570 Score: 75
Period size: 27 Copynumber: 4.4 Consensus size: 27
18922439 GTTAAATCTA
* * *
18922449 CAAACCAATGGTATTT-TGATAATTTTG
1 CAAATCAAGGGTATTTCTG-TAATTTTC
** * *
18922476 CAAATCAATAGTATTTCTGCAATTTTTT
1 CAAATCAAGGGTATTTCTGTAA-TTTTC
* * * *
18922504 GAAAGTTAAGGATATTTTTGTAATTTTC
1 CAAA-TCAAGGGTATTTCTGTAATTTTC
* * * *
18922532 TAATTTAGGGGTATTTCTGTAATTTTC
1 CAAATCAAGGGTATTTCTGTAATTTTC
18922559 CAAATCAAGGGT
1 CAAATCAAGGGT
18922571 CTTGTAACAC
Statistics
Matches: 71, Mismatches: 21, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
27 44 0.62
28 15 0.21
29 12 0.17
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCTGTAATTTTC
Found at i:18923246 original size:6 final size:6
Alignment explanation
Indices: 18923237--18923408 Score: 111
Period size: 6 Copynumber: 27.8 Consensus size: 6
18923227 AATTAAAATG
* * * *
18923237 AGAATC AGAATT AGAATC AGAATC AG-GTGAC AGAATC AAAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * *
18923286 AGAATC AGAATT AGGTAA-C ACAATC AGAATC AGTATC AGGTAA-C AGAATT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
* * *
18923336 AGAATC AGAACC AGAATT AGAATC AGGTAA-C AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
*
18923385 AGGTAA-C AGAATC GGAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
18923409 GTGAATGCAA
Statistics
Matches: 129, Mismatches: 22, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
5 9 0.07
6 99 0.77
7 14 0.11
8 7 0.05
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:18923310 original size:25 final size:25
Alignment explanation
Indices: 18923282--18923345 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
18923272 TCAAAATCAA
*
18923282 AATCAGAATCAGAATTAGGTAACAC
1 AATCAGAATCAGAATCAGGTAACAC
* *
18923307 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAC
*
18923332 AATTAGAATCAGAA
1 AATCAGAATCAGAA
18923346 CCAGAATTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAC
Found at i:18923324 original size:37 final size:37
Alignment explanation
Indices: 18923237--18923337 Score: 114
Period size: 37 Copynumber: 2.7 Consensus size: 37
18923227 AATTAAAATG
* * * *
18923237 AGAATCAGAATTAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATTAGGTAACACAATC
* *
18923274 AAAATCAAAATCAGAATCAGAATTAGGTAACACAATC
1 AGAATCAGAATCAGAATCAGAATTAGGTAACACAATC
*
18923311 AGAATCAGTATCAGGTAA-CAGAATTAG
1 AGAATCAGAATCA-G-AATCAGAATTAG
18923338 AATCAGAACC
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
37 41 0.77
38 10 0.19
39 2 0.04
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATTAGGTAACACAATC
Found at i:18923351 original size:37 final size:37
Alignment explanation
Indices: 18923310--18923380 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
18923300 GTAACACAAT
* *
18923310 CAGAATCAGTATCAGGTAACAGAATTAGAATCAGAAC
1 CAGAATCAGAATCAGGTAACAGAATCAGAATCAGAAC
*
18923347 CAGAATTAGAATCAGGTAACAGAATCAGAATCAG
1 CAGAATCAGAATCAGGTAACAGAATCAGAATCAG
18923381 TATCAGGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (37 bp):
CAGAATCAGAATCAGGTAACAGAATCAGAATCAGAAC
Found at i:18923370 original size:25 final size:25
Alignment explanation
Indices: 18923341--18923408 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
18923331 GAATTAGAAT
*
18923341 CAGAACCAGAATTAGAATCAGGTAA
1 CAGAACCAGAATCAGAATCAGGTAA
* *
18923366 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAACCAGAATCAGAATCAGGTAA
* *
18923391 CAGAATCGGAATCAGAAT
1 CAGAACCAGAATCAGAAT
18923409 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.18
Consensus pattern (25 bp):
CAGAACCAGAATCAGAATCAGGTAA
Found at i:18923403 original size:62 final size:62
Alignment explanation
Indices: 18923216--18923407 Score: 235
Period size: 62 Copynumber: 3.1 Consensus size: 62
18923206 AAGAAACATT
* * * * * * *
18923216 ATCAGAACTAGAATTAAAATGA-G-AATCAGAATTAGAATCAGAATCAGGTGACAGAATCAAA
1 ATCAGAACCAGAATTAGAATCAGGTAA-CAGAATCAGAATCAGTATCAGGTAACAGAATCAGA
* * * * * *
18923277 ATCAAAATCAGAATCAGAATTAGGTAACACAATCAGAATCAGTATCAGGTAACAGAATTAGA
1 ATCAGAACCAGAATTAGAATCAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGA
*
18923339 ATCAGAACCAGAATTAGAATCAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCGGA
1 ATCAGAACCAGAATTAGAATCAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGA
18923401 ATCAGAA
1 ATCAGAA
18923408 TGTGAATGCA
Statistics
Matches: 110, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
61 16 0.15
62 92 0.84
63 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (62 bp):
ATCAGAACCAGAATTAGAATCAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGA
Found at i:18923405 original size:19 final size:19
Alignment explanation
Indices: 18923249--18923380 Score: 101
Period size: 19 Copynumber: 6.7 Consensus size: 19
18923239 AATCAGAATT
*
18923249 AGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGGTAAC
* *
18923268 AGAATCAAAATCA--AAATC
1 AGAATCAGAATCAGGTAA-C
*
18923286 AGAATCAGAATTAGGTAACACAATC
1 AGAATCAGAATCAGGT-----AA-C
*
18923311 AGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGGTAAC
*
18923330 AGAATTAGAATCA-G-AACC
1 AGAATCAGAATCAGGTAA-C
*
18923348 AGAATTAGAATCAGGTAAC
1 AGAATCAGAATCAGGTAAC
18923367 AGAATCAGAATCAG
1 AGAATCAGAATCAG
18923381 TATCAGGTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
17 3 0.03
18 27 0.30
19 39 0.43
20 4 0.04
25 18 0.20
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (19 bp):
AGAATCAGAATCAGGTAAC
Found at i:18923575 original size:27 final size:26
Alignment explanation
Indices: 18923527--18923586 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
18923517 ATGAGGCTGC
*
18923527 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
18923554 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
18923580 CAGATAT
1 CAGATAT
18923587 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:18923884 original size:27 final size:27
Alignment explanation
Indices: 18923854--18924078 Score: 206
Period size: 27 Copynumber: 8.4 Consensus size: 27
18923844 AGGGTAAAAT
* *
18923854 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
18923881 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
18923908 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
18923935 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
18923962 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
18923989 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
18924016 AGT-ATTTCTACTCTACAAGGGTA-TTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
18924042 GGT-ATTTCTATCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
18924069 AGTAATTTTA
1 GGTAATTTTA
18924079 TAAATTGAGG
Statistics
Matches: 167, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
26 29 0.17
27 131 0.78
28 7 0.04
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:18923982 original size:81 final size:80
Alignment explanation
Indices: 18923858--18924075 Score: 314
Period size: 81 Copynumber: 2.7 Consensus size: 80
18923848 TAAAATGGTA
* * *
18923858 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTTAGTAATTCTACCCT
* *
18923922 ATAGGGGTATTTCGGT
65 ACAGGGGTATTTCAGT
18923938 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC-TACAGGGGTATTTTAGTAATTCTACCCT
18924003 ACAGGGGTATTTCAGT
65 ACAGGGGTATTTCAGT
* * * *
18924019 ATTTCTACTCTACAAGGGTA-TTCGGTATTTCTATCCTACAAGGGTATTTCAGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTTAGTAATT
18924076 TTATAAATTG
Statistics
Matches: 126, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
80 37 0.29
81 89 0.71
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (80 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTACAGGGGTATTTTAGTAATTCTACCCTA
CAGGGGTATTTCAGT
Found at i:18924145 original size:27 final size:27
Alignment explanation
Indices: 18924070--18924142 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
18924060 GGGTATTTCA
* * *
18924070 GTAATTTTATAAATTGAGGGTAAAAAG
1 GTAATTCTGTAAATCGAGGGTAAAAAG
* *
18924097 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAAAG
18924124 GTAATTCTGTAAATC-AGGG
1 GTAATTCTGTAAATCGAGGG
18924143 GTACTTTGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 4 0.10
27 38 0.90
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAAAG
Found at i:18924210 original size:27 final size:27
Alignment explanation
Indices: 18924151--18924432 Score: 112
Period size: 27 Copynumber: 10.4 Consensus size: 27
18924141 GGGTACTTTG
18924151 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
** *
18924178 AAAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
* * * **
18924205 GTAATTTCATAAATC-AGGGGTATTTTG
1 GTAATTTTACAAGTCGA-GGGTATTTCA
* * *
18924232 GTAATTTTACAA-ACTAGGGGTATTT-T
1 GTAATTTTACAAGTCGA-GGGTATTTCA
* * **
18924258 GATAATTTTACAA-ACCAGGGGTATTTTG
1 G-TAATTTTACAAGTCGA-GGGTATTTCA
* * **
18924286 GTAATTTTACAA-ACCAGGGGTATTTTG
1 GTAATTTTACAAGTCGA-GGGTATTTCA
* * **
18924313 GTAATTTTACAA-ACTAAGGGTATTTTG
1 GTAATTTTACAAGTC-GAGGGTATTTCA
* * **
18924340 GTAATTTTACAA-ACTGGGGGTATTTTG
1 GTAATTTTACAAGTC-GAGGGTATTTCA
** * **
18924367 GTAATTTTACAAACCGGGGGTATTTTG
1 GTAATTTTACAAGTCGAGGGTATTTCA
* * * *
18924394 GTAATTTTATAA-ACAAAGGGTATTTTA
1 GTAATTTTACAAGTC-GAGGGTATTTCA
18924421 GTAATTTTACAA
1 GTAATTTTACAA
18924433 ACCAGGGGTA
Statistics
Matches: 221, Mismatches: 27, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
26 4 0.02
27 214 0.97
28 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAGTCGAGGGTATTTCA
Found at i:18924487 original size:108 final size:108
Alignment explanation
Indices: 18924194--18924723 Score: 776
Period size: 108 Copynumber: 4.9 Consensus size: 108
18924184 TTACAGGTCG
* * * * * *
18924194 AGGGTATTTCAGTAATTTCATAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT-
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTA
*
18924258 GATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCA
66 G-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* * * * * ** *
18924302 GGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTGGGGGTATTTTG
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTA
* *
18924367 GTAATTTTACAAACCGGGGGTATTTTGGTAATTTTATAAACAA
66 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
*
18924410 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTA
* *
18924475 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTA
66 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* * *
18924518 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTA
* *
18924583 GTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACCA
66 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* * * *
18924626 AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGT-TTTTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTA
18924690 GTAATTTTACAAACCAGGGGTATTTTGGTAATTT
66 GTAATTTTACAAACCAGGGGTATTTTGGTAATTT
18924724 GGTAAACTAA
Statistics
Matches: 387, Mismatches: 34, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
107 37 0.10
108 349 0.90
109 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (108 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTA
GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
Found at i:18924730 original size:27 final size:27
Alignment explanation
Indices: 18924195--18924723 Score: 691
Period size: 27 Copynumber: 19.6 Consensus size: 27
18924185 TACAGGTCGA
** * * *
18924195 GGGTATTTCAGTAATTTCATAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
18924222 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
18924249 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
18924276 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
18924303 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
**
18924330 GGGTATTTTGGTAATTTTACAAACTGG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
18924357 GGGTATTTTGGTAATTTTACAAACCGG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
18924384 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
18924411 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
18924438 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
18924465 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
18924492 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
18924519 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
18924546 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
18924573 GGGTATTCTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
18924600 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
18924627 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
18924654 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
18924681 GGGT-TTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
18924707 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
18924724 GGTAAACTAA
Statistics
Matches: 434, Mismatches: 67, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
26 22 0.05
27 412 0.95
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:18925611 original size:27 final size:27
Alignment explanation
Indices: 18925581--18925641 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
18925571 GGTCTTTCAA
18925581 TAATTTTCC-ATATC-AGGGGTATTTTGG
1 TAATTTTCCTA-ATCGA-GGGTATTTTGG
*
18925608 TAATTTTTCTAATCGAGGGTATTTTGG
1 TAATTTTCCTAATCGAGGGTATTTTGG
18925635 TAATTTT
1 TAATTTT
18925642 GTAAACCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.20, T:0.49
Consensus pattern (27 bp):
TAATTTTCCTAATCGAGGGTATTTTGG
Found at i:18928605 original size:22 final size:22
Alignment explanation
Indices: 18928580--18928644 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
18928570 GTAAATACGT
* *
18928580 TTGGCACACATCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
18928602 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
18928624 TTGGCACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
18928645 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:18928845 original size:41 final size:41
Alignment explanation
Indices: 18928786--18928908 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
18928776 TAAAAGCCAC
* * *
18928786 CGGTGAATCCACGATCGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
*
18928827 CGGTGGATTCACGGTCGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* * * *
18928868 CCGTGGATCCATGGTCATCAAGCAACTATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
18928909 TTCTTCCTCC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
Found at i:18929198 original size:27 final size:27
Alignment explanation
Indices: 18929146--18929507 Score: 261
Period size: 27 Copynumber: 13.4 Consensus size: 27
18929136 TTTCACCCTA
* * * * *
18929146 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* * *
18929173 CAAGGGTATTTCGATAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTGCAAAT
*
18929200 CAATGGTATTTCT-GTAATTTTTTG-AAAGT
1 CAAGGGTATTT-TGGTAA--TTTTGCAAA-T
* *
18929229 CAAGGGTATTTCT-ATAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTGCAAAT
** *
18929256 CAAGGGTATTTTTATAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* * * *
18929283 CAAGGGTCTTTCGGTTATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* * *
18929310 CATGGATATTTT-GTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* **
18929336 TAAGGGTATTTTGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* * *
18929363 TAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* *
18929389 CTAAAGGTATTTTGGTAATTTT-AAGAAT
1 C-AAGGGTATTTTGGTAATTTTGCA-AAT
*
18929417 CAAGGGTATTTTGGTAATTTTGCTAAT
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* * * *
18929444 CGAGGGTCTTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGCAAAT
** * * *
18929471 CAAGGGTA-TTCAGTAACTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGCAAAT
18929497 CAAGGGTATTT
1 CAAGGGTATTT
18929508 CAGTAATTCT
Statistics
Matches: 275, Mismatches: 48, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
26 46 0.17
27 202 0.73
28 7 0.03
29 20 0.07
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTGCAAAT
Found at i:18929479 original size:81 final size:80
Alignment explanation
Indices: 18929146--18929507 Score: 260
Period size: 80 Copynumber: 4.5 Consensus size: 80
18929136 TTTCACCCTA
* * * * * * * * * *
18929146 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTT
1 CAAGGGTATTTT-GTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTCTTT
** *
18929211 CT-GTAATTTTTTGAAAGT
65 -TGGTAA-TTTTACAAA-C
* ** ** *
18929229 CAAGGGTATTTCTATAATTTTGTAAATCAAGGGTATTTTTATAATTTTCCAAATCAAGGGTCTTT
1 CAAGGGTATTT-TGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTCTTT
* * * *
18929294 CGGTTATTTTCCAAAT
65 TGGTAATTTTACAAAC
* * * * * * *
18929310 CATGGATATTTTGTAATTTTACAAATTAAGGGTATTTTGGTAATTTCACAAATTAGGGGTATTTT
1 CAAGGGTATTTTGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTCTTTT
18929375 GGTAATTTTACAAAC
66 GGTAATTTTACAAAC
* * * * *
18929390 TAAAGGTATTTTGGTAATTTTA-AGAATCAAGGGTATTTTGGTAATTTTGCTAATCGAGGGTCTT
1 CAAGGGTATTTT-GTAATTTTACA-AATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTCTT
**
18929454 TTGGTAATTTTGTAAAC
64 TTGGTAATTTTACAAAC
** * ** *
18929471 CAAGGGTATTCAGTAACTTTGTAAACCAAGGGTATTT
1 CAAGGGTATTTTGTAATTTTACAAATCAAGGGTATTT
18929508 CAGTAATTCT
Statistics
Matches: 219, Mismatches: 55, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
80 83 0.38
81 75 0.34
82 7 0.03
83 53 0.24
84 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (80 bp):
CAAGGGTATTTTGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTCTTTT
GGTAATTTTACAAAC
Found at i:18929492 original size:26 final size:27
Alignment explanation
Indices: 18929457--18929513 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
18929447 GGGTCTTTTG
*
18929457 GTAATTTTGTAAACCAAGGGTA-TTCA
1 GTAACTTTGTAAACCAAGGGTATTTCA
18929483 GTAACTTTGTAAACCAAGGGTATTTCA
1 GTAACTTTGTAAACCAAGGGTATTTCA
18929510 GTAA
1 GTAA
18929514 TTCTACCCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (27 bp):
GTAACTTTGTAAACCAAGGGTATTTCA
Found at i:18935696 original size:42 final size:43
Alignment explanation
Indices: 18935644--18935792 Score: 146
Period size: 42 Copynumber: 3.5 Consensus size: 43
18935634 TATCCCAAAT
* * *
18935644 ATGGTCTTACATGTTATCACATATTGATGCCACTGTCCCA-AC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
* * * *
18935686 AAGGTCTTACA-GAAAATTGA-ATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATG-TAA-TCACATATCGATGCCAATGTCCCAGAC
* *
18935729 ATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAGA-
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGAC
*
18935771 ATGGTCTTACATGTTATCACAT
1 ATGGTCTTACATGTAATCACAT
18935793 CTCGGTAACC
Statistics
Matches: 86, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 50 0.58
43 34 0.40
44 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:18954371 original size:39 final size:40
Alignment explanation
Indices: 18954233--18954394 Score: 222
Period size: 40 Copynumber: 4.1 Consensus size: 40
18954223 GGAATTTAGT
* * *
18954233 CGGATATAGCT-ACTTGCTCAAATGCCTTTGGGACTTAGCC
1 CGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
18954273 CGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCT
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
18954313 CGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
18954352 CGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
1 CGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
18954392 CGG
1 CGG
18954395 TTATCATCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 35 0.32
40 74 0.67
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
Found at i:18954371 original size:79 final size:80
Alignment explanation
Indices: 18954218--18954390 Score: 228
Period size: 79 Copynumber: 2.2 Consensus size: 80
18954208 AAACCAAGTA
* * * * * *
18954218 CCTTCGGAATTTAG-TCGGATATAGCTACTTGCTCAAATGCCTTTGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCTCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
18954282 TAACTCGCACAAATG
66 TAACTAGCACAAATG
18954297 CCTTCGGGACTTAGCTCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGGACTTAGCTCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
18954359 AGTCACTAGCACAAATG
64 AGTAACTAGCACAAATG
18954376 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
18954391 CCGGTTATCA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 54 0.65
80 28 0.34
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAGCTCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:18963628 original size:40 final size:40
Alignment explanation
Indices: 18963556--18963668 Score: 167
Period size: 40 Copynumber: 2.9 Consensus size: 40
18963546 TATCTAGCAC
* *
18963556 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCAGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
*
18963595 AGCCTGCAGATCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCAGCACGA
*
18963635 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
1 AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCA
18963669 CATCAAATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 16 0.24
40 51 0.76
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:18971293 original size:40 final size:38
Alignment explanation
Indices: 18971237--18971382 Score: 168
Period size: 40 Copynumber: 3.7 Consensus size: 38
18971227 CACAGCTTGC
* * *
18971237 AGGTTTTTAA-CCCGGATGACATTCTAGCATGAAGCCTG
1 AGGTCTTTAAGCCCGGAT-ACATTCCAGCACGAAGCCTG
*
18971275 TGGATCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTG
1 AGG-TCTTTAAGCCCGGATAC-ATTCCAGCACGAAGCCTG
* *
18971315 CAGCTCTTTAAGCCCGGATATAATTCCAGCACGAAGCCTG
1 -AGGTCTTTAAGCCCGGATA-CATTCCAGCACGAAGCCTG
18971355 CAGGTCTTTAAGCCCGGATACAATTCCA
1 -AGGTCTTTAAGCCCGGATAC-ATTCCA
18971383 CATCAAATAA
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.02
39 8 0.09
40 82 0.88
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (38 bp):
AGGTCTTTAAGCCCGGATACATTCCAGCACGAAGCCTG
Found at i:18979723 original size:27 final size:26
Alignment explanation
Indices: 18979683--18979845 Score: 168
Period size: 27 Copynumber: 6.1 Consensus size: 26
18979673 GCCGAAATGG
18979683 TGACTGAAATACCTCCATAGGGTAAAA
1 TGACTGAAATACC-CCATAGGGTAAAA
* *
18979710 TAACTGAAATACCTCATAGGGTAAAA
1 TGACTGAAATACCCCATAGGGTAAAA
18979736 TGA-TCGAAATACCCCCATAGGGTAAAA
1 TGACT-GAAATA-CCCCATAGGGTAAAA
* * *
18979763 TGACCGAAATACCCCTACAAGGTAAAA
1 TGACTGAAATACCCC-ATAGGGTAAAA
*
18979790 TGACCGAAATACCCTCATAGGGTAAAA
1 TGACTGAAATACCC-CATAGGGTAAAA
* * * *
18979817 TGTC-GTAATACCCCTGTAAGGTAAAA
1 TGACTGAAATACCCC-ATAGGGTAAAA
18979843 TGA
1 TGA
18979846 TTTATTTCCC
Statistics
Matches: 116, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
25 2 0.02
26 43 0.37
27 70 0.60
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (26 bp):
TGACTGAAATACCCCATAGGGTAAAA
Found at i:18979760 original size:53 final size:54
Alignment explanation
Indices: 18979683--18979845 Score: 186
Period size: 53 Copynumber: 3.1 Consensus size: 54
18979673 GCCGAAATGG
* * * * * *
18979683 TGACTGAAATACCTCCATAGGGTAAAATAACTGAAATACCTC-ATAGGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAATAACCGAAATACCCCTACAAGGTAAAA
* *
18979736 TGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTACAAGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAATAACCGAAATACCCCTACAAGGTAAAA
* ** * **
18979790 TGACCGAAATACCCTCATAGGGTAAAAT-GTCGTAATACCCCTGTAAGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAATAACCGAAATACCCCTACAAGGTAAAA
18979843 TGA
1 TGA
18979846 TTTATTTCCC
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
53 59 0.63
54 35 0.37
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (54 bp):
TGACCGAAATACCCCCATAGGGTAAAATAACCGAAATACCCCTACAAGGTAAAA
Found at i:18979829 original size:26 final size:27
Alignment explanation
Indices: 18979683--18979818 Score: 172
Period size: 27 Copynumber: 5.1 Consensus size: 27
18979673 GCCGAAATGG
*
18979683 TGACTGAAATA-CCTCCATAGGGTAAAA
1 TGACCGAAATACCCT-CATAGGGTAAAA
* *
18979710 TAACTGAAATA-CCTCATAGGGTAAAA
1 TGACCGAAATACCCTCATAGGGTAAAA
* *
18979736 TGATCGAAATACCCCCATAGGGTAAAA
1 TGACCGAAATACCCTCATAGGGTAAAA
18979763 TGACCGAAATACCCCTACA-A-GGTAAAA
1 TGACCGAAATA-CCCT-CATAGGGTAAAA
18979790 TGACCGAAATACCCTCATAGGGTAAAA
1 TGACCGAAATACCCTCATAGGGTAAAA
18979817 TG
1 TG
18979819 TCGTAATACC
Statistics
Matches: 97, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
25 2 0.02
26 25 0.26
27 64 0.66
28 4 0.04
29 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
TGACCGAAATACCCTCATAGGGTAAAA
Found at i:18981503 original size:15 final size:16
Alignment explanation
Indices: 18981475--18981504 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18981465 CGAAGTGCCG
18981475 AAATACTGAAAAATTA
1 AAATACTGAAAAATTA
18981491 AAATACT-AAAAATT
1 AAATACTGAAAAATT
18981505 TGAAAGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (16 bp):
AAATACTGAAAAATTA
Found at i:18981766 original size:29 final size:28
Alignment explanation
Indices: 18981730--18981847 Score: 155
Period size: 28 Copynumber: 4.1 Consensus size: 28
18981720 TAGGCTTAAC
*
18981730 GGGCCATATAAATGTGATTTGGGCCTAAT
1 GGGCCATATAAATATGA-TTGGGCCTAAT
* **
18981759 GGGCCATATATAGGTGATTTGGGCCTAAT
1 GGGCCATATAAATATGA-TTGGGCCTAAT
*
18981788 GGGCCATATAAATATGATTGGGCTTAAT
1 GGGCCATATAAATATGATTGGGCCTAAT
* *
18981816 GGGCCATATGAATATGATTGGGCTTAAT
1 GGGCCATATAAATATGATTGGGCCTAAT
18981844 GGGC
1 GGGC
18981848 TAGATACAGG
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 41 0.50
29 41 0.50
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.31
Consensus pattern (28 bp):
GGGCCATATAAATATGATTGGGCCTAAT
Found at i:18981817 original size:28 final size:29
Alignment explanation
Indices: 18981722--18981847 Score: 166
Period size: 29 Copynumber: 4.4 Consensus size: 29
18981712 AATGGGACTA
* *
18981722 GGCTTAACGGGCCATATAAATGTGATTTG
1 GGCTTAATGGGCCATATAAATATGATTTG
* * **
18981751 GGCCTAATGGGCCATATATAGGTGATTTG
1 GGCTTAATGGGCCATATAAATATGATTTG
*
18981780 GGCCTAATGGGCCATATAAATATGA-TTG
1 GGCTTAATGGGCCATATAAATATGATTTG
*
18981808 GGCTTAATGGGCCATATGAATATGA-TTG
1 GGCTTAATGGGCCATATAAATATGATTTG
18981836 GGCTTAATGGGC
1 GGCTTAATGGGC
18981848 TAGATACAGG
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 41 0.47
29 47 0.53
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.30
Consensus pattern (29 bp):
GGCTTAATGGGCCATATAAATATGATTTG
Found at i:18981834 original size:57 final size:56
Alignment explanation
Indices: 18981730--18981847 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 56
18981720 TAGGCTTAAC
*
18981730 GGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATATAGGTGATTTGGGCCTAAT
1 GGGCCATATAAATATGATTTGGGCCTAATGGGCCATATATA-GTGA-TTGGGCCTAAT
* *
18981788 GGGCCATATAAATATGA-TTGGGCTTAATGGGCCATATGAATA-TGATTGGGCTTAAT
1 GGGCCATATAAATATGATTTGGGCCTAATGGGCCATAT--ATAGTGATTGGGCCTAAT
18981844 GGGC
1 GGGC
18981848 TAGATACAGG
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
56 14 0.25
57 22 0.40
58 16 0.29
59 3 0.05
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.31
Consensus pattern (56 bp):
GGGCCATATAAATATGATTTGGGCCTAATGGGCCATATATAGTGATTGGGCCTAAT
Found at i:18990986 original size:18 final size:18
Alignment explanation
Indices: 18990963--18990999 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
18990953 TAGGACTTGC
18990963 GTACTGTTTACTGATACT
1 GTACTGTTTACTGATACT
*
18990981 GTACTGTTTACTGTTACT
1 GTACTGTTTACTGATACT
18990999 G
1 G
18991000 AATTGGGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (18 bp):
GTACTGTTTACTGATACT
Found at i:18994074 original size:27 final size:26
Alignment explanation
Indices: 18994039--18994231 Score: 183
Period size: 27 Copynumber: 7.2 Consensus size: 26
18994029 GCCGAAATGG
*
18994039 TGACTGAAATACCCCTATATGGTAAAA
1 TGACCGAAATACCCCTATA-GGTAAAA
*
18994066 TGACCGAAATACCTCTATAGGGTAAAA
1 TGACCGAAATACCCCTATA-GGTAAAA
*
18994093 TGACCAAAATA-CCCTCATAGGTTAAAA
1 TGACCGAAATACCCCT-ATAGG-TAAAA
* *
18994120 TGAACAAAATA-CCCTCATAGGTTAAAA
1 TGACCGAAATACCCCT-ATAGG-TAAAA
*
18994147 TGACCGAAATACCCTTATAAGGTAAAA
1 TGACCGAAATACCCCTAT-AGGTAAAA
*
18994174 TGACCGAAATACCCCCATAGGGTAAAA
1 TGACCGAAATACCCCTATA-GGTAAAA
* * * * *
18994201 TGTCTGTAATACCCTTGTGAGGTAAAA
1 TGACCGAAATACCCCTAT-AGGTAAAA
18994228 TGAC
1 TGAC
18994232 GGATTTGCCC
Statistics
Matches: 142, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.04
27 129 0.91
28 7 0.05
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (26 bp):
TGACCGAAATACCCCTATAGGTAAAA
Found at i:18994212 original size:54 final size:54
Alignment explanation
Indices: 18994039--18994231 Score: 226
Period size: 54 Copynumber: 3.6 Consensus size: 54
18994029 GCCGAAATGG
* * * * *
18994039 TGACTGAAATACCCCTATATGGTAAAATGACCGAAATACCTCTATAGGGTAAAA
1 TGACCGAAATACCCTTATAAGGTAAAATGACCGAAATACCCCCATAGGGTAAAA
* * * * * *
18994093 TGACCAAAATACCCTCAT-AGGTTAAAATGAACAAAATACCCTCATAGGTTAAAA
1 TGACCGAAATACCCTTATAAGG-TAAAATGACCGAAATACCCCCATAGGGTAAAA
18994147 TGACCGAAATACCCTTATAAGGTAAAATGACCGAAATACCCCCATAGGGTAAAA
1 TGACCGAAATACCCTTATAAGGTAAAATGACCGAAATACCCCCATAGGGTAAAA
* * * * *
18994201 TGTCTGTAATACCCTTGTGAGGTAAAATGAC
1 TGACCGAAATACCCTTATAAGGTAAAATGAC
18994232 GGATTTGCCC
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
53 2 0.02
54 110 0.96
55 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (54 bp):
TGACCGAAATACCCTTATAAGGTAAAATGACCGAAATACCCCCATAGGGTAAAA
Found at i:18994243 original size:81 final size:81
Alignment explanation
Indices: 18994045--18994202 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
18994035 ATGGTGACTG
*
18994045 AAATACCC-CTATATGG-TAAAATGACCGAAATA-CCTCTATAGGGTAAAATGACCAAAATACCC
1 AAATACCCTC-ATA-GGTTAAAATGACCGAAATACCCT-TATAAGGTAAAATGACCAAAATACCC
* *
18994107 TCATAGGTTAAAATGAACA
63 CCATAGGGTAAAATGAACA
*
18994126 AAATACCCTCATAGGTTAAAATGACCGAAATACCCTTATAAGGTAAAATGACCGAAATACCCCCA
1 AAATACCCTCATAGGTTAAAATGACCGAAATACCCTTATAAGGTAAAATGACCAAAATACCCCCA
18994191 TAGGGTAAAATG
66 TAGGGTAAAATG
18994203 TCTGTAATAC
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
80 2 0.03
81 64 0.91
82 4 0.06
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (81 bp):
AAATACCCTCATAGGTTAAAATGACCGAAATACCCTTATAAGGTAAAATGACCAAAATACCCCCA
TAGGGTAAAATGAACA
Found at i:18994586 original size:23 final size:24
Alignment explanation
Indices: 18994560--18994604 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
18994550 ATATCCCCAC
*
18994560 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
18994583 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
18994605 GTAAGACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:18997170 original size:43 final size:43
Alignment explanation
Indices: 18997105--18997271 Score: 180
Period size: 43 Copynumber: 3.9 Consensus size: 43
18997095 AGCTCATACA
* * *
18997105 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * *
18997147 ATGCCACTGTCCCAGACAAGGTCTTACACT-AAATCGA-ATAGCG
1 ATGCCAATGTCCCAGACATGGTCTTACA-TGTAATC-ACATATCG
* * *
18997190 ATGCCAATGTCTCAGACATGGTCTTACATGCAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
*
18997233 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
18997272 CTTGGTATCC
Statistics
Matches: 102, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
42 8 0.08
43 92 0.90
44 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:18997287 original size:24 final size:22
Alignment explanation
Indices: 18997260--18997305 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
18997250 ATGGTCTTAC
18997260 ATGTAATCACATCTTGGTATCCTA
1 ATGTAATCACAT-TT-GTATCCTA
* *
18997284 ATGTCATGACATTTGTATCCTA
1 ATGTAATCACATTTGTATCCTA
18997306 TACTATTCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 2 0.10
24 10 0.50
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (22 bp):
ATGTAATCACATTTGTATCCTA
Found at i:19005252 original size:18 final size:19
Alignment explanation
Indices: 19005229--19005267 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
19005219 TTTATCTCAA
*
19005229 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
19005247 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
19005266 TT
1 TT
19005268 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:19005295 original size:30 final size:30
Alignment explanation
Indices: 19005261--19005327 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
19005251 TTGTTCACAT
**
19005261 TCTTTTTCTCTCTCAAACTCTTTTTCATTC
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
*** *
19005291 TCTTTTTCAATCTCATTTTCTTTTTCATTT
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
19005321 TCTTTTT
1 TCTTTTT
19005328 GTTTTTCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (30 bp):
TCTTTTTCAATCTCAAACTCTTTTTCATTC
Found at i:19005327 original size:18 final size:18
Alignment explanation
Indices: 19005285--19005336 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
19005275 AAACTCTTTT
*
19005285 TCATTCTCTTTTTCAATC
1 TCATTTTCTTTTTCAATC
* *
19005303 TCATTTTCTTTTTCATTT
1 TCATTTTCTTTTTCAATC
* *
19005321 TCTTTTTGTTTTTCAA
1 TCATTTTCTTTTTCAA
19005337 AGGGTTTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.65
Consensus pattern (18 bp):
TCATTTTCTTTTTCAATC
Found at i:19005334 original size:12 final size:12
Alignment explanation
Indices: 19005303--19005327 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19005293 TTTTTCAATC
19005303 TCATTTTCTTTT
1 TCATTTTCTTTT
19005315 TCATTTTCTTTT
1 TCATTTTCTTTT
19005327 T
1 T
19005328 GTTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:19005382 original size:51 final size:51
Alignment explanation
Indices: 19005315--19005425 Score: 186
Period size: 51 Copynumber: 2.2 Consensus size: 51
19005305 ATTTTCTTTT
** * *
19005315 TCATTTTCTTTTTGTTTTTCAAAGGGTTTTTCAAGTTCTCTGAAGATTCGC
1 TCATTTTCTACTTGTTTTTCAAAGGCTTTTTCAAGTTCTCTCAAGATTCGC
19005366 TCATTTTCTACTTGTTTTTCAAAGGCTTTTTCAAGTTCTCTCAAGATTCGC
1 TCATTTTCTACTTGTTTTTCAAAGGCTTTTTCAAGTTCTCTCAAGATTCGC
19005417 TCATTTTCT
1 TCATTTTCT
19005426 CTCTTACTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.50
Consensus pattern (51 bp):
TCATTTTCTACTTGTTTTTCAAAGGCTTTTTCAAGTTCTCTCAAGATTCGC
Found at i:19005474 original size:21 final size:22
Alignment explanation
Indices: 19005449--19005499 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
19005439 TTTGCCTCTA
19005449 TTTTCTTTTTATTTTG-TTTTC
1 TTTTCTTTTTATTTTGCTTTTC
* *
19005470 TTTTC--CTTCTTTTGCCTTTTC
1 TTTTCTTTTTATTTTG-CTTTTC
19005491 TTTTCTTTT
1 TTTTCTTTT
19005500 CTTTGTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
19 7 0.30
21 15 0.65
23 1 0.04
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTCTTTTTATTTTGCTTTTC
Found at i:19006443 original size:12 final size:12
Alignment explanation
Indices: 19006428--19006459 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
19006418 TCACTTCAAT
19006428 TTTTTTTTCGAA
1 TTTTTTTTCGAA
*
19006440 TTTTTTTCCGAA
1 TTTTTTTTCGAA
19006452 TTTTTTTT
1 TTTTTTTT
19006460 AACTTGTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.72
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:19010257 original size:18 final size:19
Alignment explanation
Indices: 19010234--19010272 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
19010224 TTTACCTCAA
*
19010234 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
19010252 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
19010271 TT
1 TT
19010273 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:19010300 original size:12 final size:12
Alignment explanation
Indices: 19010283--19010340 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
19010273 CTCTCTCAAA
19010283 CTCTTTTTCATT
1 CTCTTTTTCATT
*
19010295 CTCTTTTTCAAT
1 CTCTTTTTCATT
* *
19010307 CTCATTTTCTTT
1 CTCTTTTTCATT
* *
19010319 GTCATTTTCATT
1 CTCTTTTTCATT
* *
19010331 TTGTTTTTCA
1 CTCTTTTTCA
19010341 AAGGCTTTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.12, C:0.21, G:0.03, T:0.64
Consensus pattern (12 bp):
CTCTTTTTCATT
Found at i:19010311 original size:18 final size:18
Alignment explanation
Indices: 19010290--19010341 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
19010280 AAACTCTTTT
*
19010290 TCATTCTCTTTTTCAATC
1 TCATTTTCTTTTTCAATC
* * *
19010308 TCATTTTCTTTGTCATTT
1 TCATTTTCTTTTTCAATC
*
19010326 TCATTTTGTTTTTCAA
1 TCATTTTCTTTTTCAA
19010342 AGGCTTTTTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.04, T:0.62
Consensus pattern (18 bp):
TCATTTTCTTTTTCAATC
Found at i:19010362 original size:13 final size:12
Alignment explanation
Indices: 19010334--19010365 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
19010324 TTTCATTTTG
19010334 TTTTTCAAAGGC
1 TTTTTCAAAGGC
19010346 TTTTTCAAAGGC
1 TTTTTCAAAGGC
19010358 TTTTTCAA
1 TTTTTCAA
19010366 GTTCTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (12 bp):
TTTTTCAAAGGC
Found at i:19010439 original size:15 final size:15
Alignment explanation
Indices: 19010427--19010458 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19010417 TTCTTTTTAT
19010427 TTCGTTTCCTTTTTC
1 TTCGTTTCCTTTTTC
*
19010442 TTCTTTTCCTTTTTC
1 TTCGTTTCCTTTTTC
19010457 TT
1 TT
19010459 TTCTTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (15 bp):
TTCGTTTCCTTTTTC
Found at i:19011411 original size:12 final size:12
Alignment explanation
Indices: 19011389--19011435 Score: 76
Period size: 12 Copynumber: 3.8 Consensus size: 12
19011379 TTTTCACTTC
19011389 AATTTTGTTTTCG
1 AATTTT-TTTTCG
*
19011402 AATTTTTTTTAG
1 AATTTTTTTTCG
19011414 AATTTTTTTTCG
1 AATTTTTTTTCG
19011426 AATTTTTTTT
1 AATTTTTTTT
19011436 AACTTGTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 26 0.81
13 6 0.19
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (12 bp):
AATTTTTTTTCG
Found at i:19011428 original size:24 final size:25
Alignment explanation
Indices: 19011389--19011436 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
19011379 TTTTCACTTC
19011389 AATTTTGTTTTCGAATTTTTTTTAG
1 AATTTTGTTTTCGAATTTTTTTTAG
19011414 AATTTT-TTTTCGAATTTTTTTTA
1 AATTTTGTTTTCGAATTTTTTTTA
19011437 ACTTGTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.21, C:0.04, G:0.08, T:0.67
Consensus pattern (25 bp):
AATTTTGTTTTCGAATTTTTTTTAG
Found at i:19012387 original size:165 final size:165
Alignment explanation
Indices: 19012115--19012443 Score: 640
Period size: 165 Copynumber: 2.0 Consensus size: 165
19012105 TGAAGAACAA
* *
19012115 GGTTGACGCTACTAGGCTTCCTAGATAAGCCAACGAAGTCCTCAACGAAATATGAGAGAAAGAAA
1 GGTTGACGCCACTAGGCTTCCGAGATAAGCCAACGAAGTCCTCAACGAAATATGAGAGAAAGAAA
19012180 TCTCACAAATTCCATGAAAGTTTAACAAAGTTTCATTAAGTGAAAAGTCTAACCTCTTACAAATG
66 TCTCACAAATTCCATGAAAGTTTAACAAAGTTTCATTAAGTGAAAAGTCTAACCTCTTACAAATG
19012245 AAATAACATATATATATAGCCTAAATAAAAGTAGG
131 AAATAACATATATATATAGCCTAAATAAAAGTAGG
19012280 GGTTGACGCCACTAGGCTTCCGAGATAAGCCAACGAAGTCCTCAACGAAATATGAGAGAAAGAAA
1 GGTTGACGCCACTAGGCTTCCGAGATAAGCCAACGAAGTCCTCAACGAAATATGAGAGAAAGAAA
19012345 TCTCACAAATTCCATGAAAGTTTAACAAAGTTTCATTAAGTGAAAAGTCTAACCTCTTACAAATG
66 TCTCACAAATTCCATGAAAGTTTAACAAAGTTTCATTAAGTGAAAAGTCTAACCTCTTACAAATG
19012410 AAATAACATATATATATAGCCTAAATAAAAGTAG
131 AAATAACATATATATATAGCCTAAATAAAAGTAG
19012444 CCGAATGGAA
Statistics
Matches: 162, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 162 1.00
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (165 bp):
GGTTGACGCCACTAGGCTTCCGAGATAAGCCAACGAAGTCCTCAACGAAATATGAGAGAAAGAAA
TCTCACAAATTCCATGAAAGTTTAACAAAGTTTCATTAAGTGAAAAGTCTAACCTCTTACAAATG
AAATAACATATATATATAGCCTAAATAAAAGTAGG
Found at i:19013304 original size:42 final size:42
Alignment explanation
Indices: 19013245--19013331 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
19013235 AAATTTTATT
* *
19013245 TAATCCATTAAATTCAAAAATCGGGTTTAAGCTAAAATGAGC
1 TAATCCATTAAAGTCAAAAATCGAGTTTAAGCTAAAATGAGC
19013287 TAATCCATTAAAGTCAAAAATCGAGTTTAAGCTAAAATGAGC
1 TAATCCATTAAAGTCAAAAATCGAGTTTAAGCTAAAATGAGC
19013329 TAA
1 TAA
19013332 GCTTTAGCCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (42 bp):
TAATCCATTAAAGTCAAAAATCGAGTTTAAGCTAAAATGAGC
Found at i:19015358 original size:18 final size:19
Alignment explanation
Indices: 19015335--19015373 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
19015325 TTTATCTCAA
*
19015335 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
19015353 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
19015372 TT
1 TT
19015374 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:19015401 original size:30 final size:30
Alignment explanation
Indices: 19015367--19015433 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
19015357 TTGTTCACAT
**
19015367 TCTTTTTCTCTCTCAAACTCTTTTTCATTC
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
*** *
19015397 TCTTTTTCAATCTCATTTTCTTTTTCATTT
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
19015427 TCTTTTT
1 TCTTTTT
19015434 GTTTTTCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (30 bp):
TCTTTTTCAATCTCAAACTCTTTTTCATTC
Found at i:19015433 original size:18 final size:18
Alignment explanation
Indices: 19015391--19015442 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
19015381 AAACTCTTTT
*
19015391 TCATTCTCTTTTTCAATC
1 TCATTTTCTTTTTCAATC
* *
19015409 TCATTTTCTTTTTCATTT
1 TCATTTTCTTTTTCAATC
* *
19015427 TCTTTTTGTTTTTCAA
1 TCATTTTCTTTTTCAA
19015443 AGGGTTTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.65
Consensus pattern (18 bp):
TCATTTTCTTTTTCAATC
Found at i:19015440 original size:12 final size:12
Alignment explanation
Indices: 19015409--19015433 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19015399 TTTTTCAATC
19015409 TCATTTTCTTTT
1 TCATTTTCTTTT
19015421 TCATTTTCTTTT
1 TCATTTTCTTTT
19015433 T
1 T
19015434 GTTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:19015512 original size:5 final size:5
Alignment explanation
Indices: 19015502--19015557 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
19015492 CTTTTGCCTC
* *
19015502 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTT TTTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-CTTT TCTTT
19015548 TCTTT TCTTT
1 TCTTT TCTTT
19015558 GTTTTCTCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
4 4 0.10
5 28 0.67
6 9 0.21
7 1 0.02
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:19015562 original size:15 final size:14
Alignment explanation
Indices: 19015502--19015564 Score: 72
Period size: 16 Copynumber: 4.2 Consensus size: 14
19015492 CTTTTGCCTC
19015502 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
19015517 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
19015532 TCTTTTGCTTTTTTTT
1 TCTTTT-C-TTTTTTT
*
19015548 TCTTTTCTTTGTTT
1 TCTTTTCTTTTTTT
19015562 TCT
1 TCT
19015565 CGTTACAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.31
15 7 0.17
16 22 0.52
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.78
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:19016511 original size:11 final size:12
Alignment explanation
Indices: 19016481--19016515 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
19016471 TTTTCACTTC
19016481 AATTTTGTTTTCG
1 AATTTT-TTTTCG
19016494 AATTTTTTTTCG
1 AATTTTTTTTCG
19016506 AATTTTTTTT
1 AATTTTTTTT
19016516 AACTTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.17, C:0.06, G:0.09, T:0.69
Consensus pattern (12 bp):
AATTTTTTTTCG
Found at i:19017275 original size:99 final size:99
Alignment explanation
Indices: 19017145--19017343 Score: 371
Period size: 99 Copynumber: 2.0 Consensus size: 99
19017135 GGTATATGGG
19017145 TGAACGCCACACTATTTGATAGTGATAAGTTCGGGATAGTGAATAATAGGGTTGACGCCACTAGG
1 TGAACGCCACACTATTTGATAGTGATAAGTTCGGGATAGTGAATAATAGGGTTGACGCCACTAGG
19017210 CTTCCGAGATAAGCCAACGAAGTCCTCAATAAAA
66 CTTCCGAGATAAGCCAACGAAGTCCTCAATAAAA
* *
19017244 TGAATGCCACACTATTTGATAGTGATAAGTTCGGGATAGTGAATAATAGGGTTGACGCCATTAGG
1 TGAACGCCACACTATTTGATAGTGATAAGTTCGGGATAGTGAATAATAGGGTTGACGCCACTAGG
*
19017309 CTTCCTAGATAAGCCAACGAAGTCCTCAATAAAA
66 CTTCCGAGATAAGCCAACGAAGTCCTCAATAAAA
19017343 T
1 T
19017344 ATGAGAGAAA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (99 bp):
TGAACGCCACACTATTTGATAGTGATAAGTTCGGGATAGTGAATAATAGGGTTGACGCCACTAGG
CTTCCGAGATAAGCCAACGAAGTCCTCAATAAAA
Found at i:19023321 original size:22 final size:22
Alignment explanation
Indices: 19023287--19023370 Score: 60
Period size: 23 Copynumber: 3.6 Consensus size: 22
19023277 ACTCTTAACA
*
19023287 TACTGTCCATATGATCGTTTCGT
1 TACTTTCC-TATGATCGTTTCGT
* * *
19023310 TACTTTCCTATGAAAATAGATTCAT
1 TACTTTCCTATG---ATCGTTTCGT
** *
19023335 TAAGGTTCATATGATCGTTTCGT
1 T-ACTTTCCTATGATCGTTTCGT
19023358 TACTTTCCTATGA
1 TACTTTCCTATGA
19023371 AAATAGATTC
Statistics
Matches: 44, Mismatches: 13, Indels: 9
0.67 0.20 0.14
Matches are distributed among these distances:
22 13 0.30
23 15 0.34
25 8 0.18
26 8 0.18
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (22 bp):
TACTTTCCTATGATCGTTTCGT
Found at i:19023365 original size:48 final size:48
Alignment explanation
Indices: 19023294--19023390 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
19023284 ACATACTGTC
*
19023294 CATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATTAAGGTT
1 CATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTT
19023342 CATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTT
1 CATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTT
19023390 C
1 C
19023391 GTTTACATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.40
Consensus pattern (48 bp):
CATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTT
Found at i:19026874 original size:20 final size:20
Alignment explanation
Indices: 19026846--19026883 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19026836 CTAGGAACTA
19026846 TGTGATCTGAGATCATGAGT
1 TGTGATCTGAGATCATGAGT
* *
19026866 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGATCATGA
19026884 TATATATTAC
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:0.21, C:0.11, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGATCATGAGT
Found at i:19037053 original size:46 final size:46
Alignment explanation
Indices: 19036994--19037164 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 46
19036984 TGATATGTGT
* * *
19036994 GCTAGTGTAAGACATGTCTGCGACATGAAACGGCCATAATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATAATATGAGA
* * * *
19037040 GCTAGTGTAAGACATGTATGGGATATGCATCGGCCCTGAGATATTTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-A-ATA-TGAGA
* * ** * *
19037088 GCCAGTGTAAGACATGTCTGGGGCATGCATCGGCGTTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATAATATGAGA
* *
19037134 ACTAGTGTAAGACATGTCTAGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
19037165 AGCCTCACGA
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 2 0.02
46 61 0.60
47 1 0.01
48 35 0.35
49 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATAATATGAGA
Found at i:19037189 original size:94 final size:94
Alignment explanation
Indices: 19036994--19037207 Score: 223
Period size: 94 Copynumber: 2.3 Consensus size: 94
19036984 TGATATGTGT
* * *
19036994 GCTAGTGTAAGACATGTCTGCGACATGAAACGGCCATAATATGAGAGCTAGTGTAAGACATGTAT
1 GCTAGTGTAAGACATGTCTGGGACATGAAACGGCCATAAGATGAGAACTAGTGTAAGACATGTAT
* * * * ***
19037059 GGGATATGCATCGGCCCTGAGATATTTAA
66 AGGACATGCATCAGCCCTCAGATAGACAA
* * * * ** * *
19037088 GCCAGTGTAAGACATGTCTGGGGCATGCATCGGCGTTGAGATGAGAACTAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGAAACGGCCATAAGATGAGAACTAGTGTAAGACATGTAT
*
19037153 AGGACATGCATCAG-CCTCACGATGGACAA
66 AGGACATGCATCAGCCCTCA-GATAGACAA
* *
19037182 GCTAGTGTAAGACCTATCTGGGACAT
1 GCTAGTGTAAGACATGTCTGGGACAT
19037208 TGGCTGGGAC
Statistics
Matches: 96, Mismatches: 23, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
93 4 0.04
94 92 0.96
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGAAACGGCCATAAGATGAGAACTAGTGTAAGACATGTAT
AGGACATGCATCAGCCCTCAGATAGACAA
Found at i:19043183 original size:45 final size:45
Alignment explanation
Indices: 19043123--19043289 Score: 226
Period size: 45 Copynumber: 3.7 Consensus size: 45
19043113 TGATATGTGT
* *
19043123 GCTAGTGTAATACATGTCTGGGACATGCATCGCCACAATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGCCACAATACGAGA
*
19043168 GCTAGTGTAAGACATGCCTGGGACATGCATCGCCACAATACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGCCACAATACGAGA
* *******
19043213 GCTAGTGTAAGACATGTCTAGGACATGCATCGGTGTTGCGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCACAATACGAGA
19043259 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
19043290 AGCCTCGCGA
Statistics
Matches: 108, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
45 71 0.66
46 37 0.34
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCCACAATACGAGA
Found at i:19044604 original size:20 final size:21
Alignment explanation
Indices: 19044566--19044604 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19044556 TCTTAGTGAT
19044566 CACACGGGCATGTTGCCCTTC
1 CACACGGGCATGTTGCCCTTC
19044587 CACACGGGCATG-TGCCCT
1 CACACGGGCATGTTGCCCT
19044605 GTTTTAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (21 bp):
CACACGGGCATGTTGCCCTTC
Found at i:19048122 original size:40 final size:39
Alignment explanation
Indices: 19048078--19048182 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
19048068 AGTGACCATA
*
19048078 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
19048118 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
19048156 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
19048183 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19048139 original size:39 final size:40
Alignment explanation
Indices: 19048038--19048201 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
19048028 TTGAATGATG
* *
19048038 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
19048078 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
19048117 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
19048157 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
19048197 TCCGG
1 TCCGG
19048202 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:19048201 original size:79 final size:80
Alignment explanation
Indices: 19048038--19048188 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
19048028 TTGAATGATG
*
19048038 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
19048103 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
19048118 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
19048180 TTGAACGAG
64 TTGAACGAG
19048189 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:19062886 original size:47 final size:47
Alignment explanation
Indices: 19062714--19063066 Score: 553
Period size: 47 Copynumber: 7.4 Consensus size: 47
19062704 ATTGATGTAC
* * * * *
19062714 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
19062761 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
19062810 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
19062859 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
19062906 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
19062953 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * * * * *
19063000 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
19063047 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
19063067 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 197 0.68
49 92 0.32
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:19065890 original size:40 final size:40
Alignment explanation
Indices: 19065846--19065942 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
19065836 GAAATCAGTA
* * *
19065846 GCATGAATATGCCTTTC-GGGTTACCAAAGTACTAATAGGG
1 GCATGAATATG-CATTCAGGGGTACCAAAGTACAAATAGGG
* * *
19065886 GCATGTATGTGCATTCAGGGGTACCGAAGTACAAATAGGG
1 GCATGAATATGCATTCAGGGGTACCAAAGTACAAATAGGG
* *
19065926 GCATGTATGTGCATTCA
1 GCATGAATATGCATTCA
19065943 AACAATAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 4 0.08
40 46 0.92
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (40 bp):
GCATGAATATGCATTCAGGGGTACCAAAGTACAAATAGGG
Found at i:19071393 original size:48 final size:48
Alignment explanation
Indices: 19071322--19071441 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
19071312 ATTACAAACA
19071322 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
*
19071370 TCAATTATTTACCCTATTAACAAATAATCTCCTTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
19071418 TCAATTATTTACCCTATTAACAAA
1 TCAATTATTTACCCTATTAACAAA
19071442 GCTCGGACTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (48 bp):
TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
Found at i:19073521 original size:320 final size:320
Alignment explanation
Indices: 19072939--19073580 Score: 1284
Period size: 320 Copynumber: 2.0 Consensus size: 320
19072929 CAAGCTTCAT
19072939 AAACCCTATTTCCCCTTTTCTTTCTTCTTTCTCCCCTGTTTCTTCTCTGTTTTCATTTTCATTTC
1 AAACCCTATTTCCCCTTTTCTTTCTTCTTTCTCCCCTGTTTCTTCTCTGTTTTCATTTTCATTTC
19073004 CTTTTCTTTTAACTTATTTGTCTCTTTTATATATAATAATAATATAAGAGTGGACAAAAACCCCA
66 CTTTTCTTTTAACTTATTTGTCTCTTTTATATATAATAATAATATAAGAGTGGACAAAAACCCCA
19073069 ATCCAACTTCTACAATCCTTTATGGCGTAATCATCCTAATTTTTCTTGGAGCAACCAAGGAAATG
131 ATCCAACTTCTACAATCCTTTATGGCGTAATCATCCTAATTTTTCTTGGAGCAACCAAGGAAATG
19073134 GACCGAACAACTTATTGTCGCATAAACCAGACCAATCTCAAGGGTTTAATCAGCAAGCTCTAAAA
196 GACCGAACAACTTATTGTCGCATAAACCAGACCAATCTCAAGGGTTTAATCAGCAAGCTCTAAAA
19073199 CCACCTCAAGCTGAGGCATCAAACAGTTTGGAGAACTTGTTGAAAGCATACATGGCAAAC
261 CCACCTCAAGCTGAGGCATCAAACAGTTTGGAGAACTTGTTGAAAGCATACATGGCAAAC
19073259 AAACCCTATTTCCCCTTTTCTTTCTTCTTTCTCCCCTGTTTCTTCTCTGTTTTCATTTTCATTTC
1 AAACCCTATTTCCCCTTTTCTTTCTTCTTTCTCCCCTGTTTCTTCTCTGTTTTCATTTTCATTTC
19073324 CTTTTCTTTTAACTTATTTGTCTCTTTTATATATAATAATAATATAAGAGTGGACAAAAACCCCA
66 CTTTTCTTTTAACTTATTTGTCTCTTTTATATATAATAATAATATAAGAGTGGACAAAAACCCCA
19073389 ATCCAACTTCTACAATCCTTTATGGCGTAATCATCCTAATTTTTCTTGGAGCAACCAAGGAAATG
131 ATCCAACTTCTACAATCCTTTATGGCGTAATCATCCTAATTTTTCTTGGAGCAACCAAGGAAATG
19073454 GACCGAACAACTTATTGTCGCATAAACCAGACCAATCTCAAGGGTTTAATCAGCAAGCTCTAAAA
196 GACCGAACAACTTATTGTCGCATAAACCAGACCAATCTCAAGGGTTTAATCAGCAAGCTCTAAAA
19073519 CCACCTCAAGCTGAGGCATCAAACAGTTTGGAGAACTTGTTGAAAGCATACATGGCAAAC
261 CCACCTCAAGCTGAGGCATCAAACAGTTTGGAGAACTTGTTGAAAGCATACATGGCAAAC
19073579 AA
1 AA
19073581 TGATGCTTTG
Statistics
Matches: 322, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
320 322 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (320 bp):
AAACCCTATTTCCCCTTTTCTTTCTTCTTTCTCCCCTGTTTCTTCTCTGTTTTCATTTTCATTTC
CTTTTCTTTTAACTTATTTGTCTCTTTTATATATAATAATAATATAAGAGTGGACAAAAACCCCA
ATCCAACTTCTACAATCCTTTATGGCGTAATCATCCTAATTTTTCTTGGAGCAACCAAGGAAATG
GACCGAACAACTTATTGTCGCATAAACCAGACCAATCTCAAGGGTTTAATCAGCAAGCTCTAAAA
CCACCTCAAGCTGAGGCATCAAACAGTTTGGAGAACTTGTTGAAAGCATACATGGCAAAC
Found at i:19077403 original size:20 final size:21
Alignment explanation
Indices: 19077370--19077408 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
19077360 AACTCAATGG
19077370 AGCTCAATTCAGCTCAATTCT
1 AGCTCAATTCAGCTCAATTCT
*
19077391 AGCTC-ATTGAGCTCAATT
1 AGCTCAATTCAGCTCAATT
19077409 TTATCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (21 bp):
AGCTCAATTCAGCTCAATTCT
Found at i:19077507 original size:14 final size:14
Alignment explanation
Indices: 19077488--19077517 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19077478 GTTTCAGCTC
19077488 ATAAATATGTGTTA
1 ATAAATATGTGTTA
*
19077502 ATAAATATGTTTTA
1 ATAAATATGTGTTA
19077516 AT
1 AT
19077518 CTGATTCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
ATAAATATGTGTTA
Found at i:19079389 original size:17 final size:19
Alignment explanation
Indices: 19079347--19079390 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19079337 ATGAAATTTT
*
19079347 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
19079366 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
19079384 AA-TATTA
1 AATTATTA
19079391 CTTTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:19085750 original size:13 final size:13
Alignment explanation
Indices: 19085732--19085756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19085722 GAATTAACAT
19085732 GTGTGAAAGTTTC
1 GTGTGAAAGTTTC
19085745 GTGTGAAAGTTT
1 GTGTGAAAGTTT
19085757 GATCATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.32, T:0.40
Consensus pattern (13 bp):
GTGTGAAAGTTTC
Found at i:19086083 original size:911 final size:912
Alignment explanation
Indices: 19084322--19086145 Score: 3398
Period size: 911 Copynumber: 2.0 Consensus size: 912
19084312 CATCCTAAAT
* * *
19084322 TTTGTACGAACAATTCATGTTTATTTGATGCTTGGCCTTTAACTGAGGAAACGAAACTTGAAGAT
1 TTTGTACGAACAATTCATGTTTATTTAATGCTTGGCCTTTAACTAAGGAAACGAAACTTGAAGAC
*
19084387 TCTAATTATAACTTAAAATCACTCCTTGTTCATTCTATGTTGCCGGTTATAAAATTATTGATTCA
66 TCTAATTATAACTTAAAATCACTCCTTGTTCATTCTATGTTGCCAGTTATAAAATTATTGATTCA
19084452 TCATGAAAAGGTAAGACCCATCGATGTTGTTGAATCACGACAATTAATGTTGAATGTTGTTGAGA
131 TCATGAAAAGGTAAGACCCATCGATGTTGTTGAATCACGACAATTAATGTTGAATGTTGTTGAGA
19084517 AAGTTGCTAGTGACATAGTTTTCAAAAGACCTCCTTATTTTGCTTTGGTTTATTGTCATTTTCTC
196 AAGTTGCTAGTGACATAGTTTTCAAAAGACCTCCTTATTTTGCTTTGGTTTATTGTCATTTTCTC
*
19084582 TGGTTTTTTGTTGACAATTTCGTTTTAAGTGGAGGCATGAAGAATTGTTTACTTGATCTGTTTTG
261 TGGTTTTTTGTTGACAATTTCGTTTTAAGTGGAGGCATGAAGAATTGTTTACTTGATCTATTTTG
19084647 TGTGTTGAAAAATGTGTTGGTGACGTTGGATTAATTCAACTTGAGCAAACTTTGGAAGTGCATTG
326 TGTGTTGAAAAATGTGTTGGTGACGTTGGATTAATTCAACTTGAGCAAACTTTGGAAGTGCATTG
19084712 TAACAATCCGGTTTAGACCCTAGTCGAAATAGTGGTTTTAGGACCACAAATCTGAGTCAAAAAAA
391 TAACAATCCGGTTTAGACCCTAGTCGAAATAGTGGTTTTAGGACCACAAATCTGAGTCAAAAAAA
19084777 TATTTAAATATTATTTTCCATGTTTATGATATGTGAATTAACATGTGTAAAAGTTTCGTGTGAAA
456 TATTTAAATATTATTTTCCATGTTTATGATATGTGAATTAACATGTGTAAAAGTTTCGTGTGAAA
*
19084842 GTTTGATCATTTGTGTGCTTAATTCGATAAAAGGACCTAATCGCGTAAAATGTAAAAGTTGCCTG
521 GTTTGATCATTTGTGTGCTTAATTCGATAAAAGGACCTAATCGCGTAAAATGTAAAAGTTGCCAG
*
19084907 CTATATGTTAAAAGTGTCTATTTGATTTGTCTTTGATAATGAGAGGTCCTTATGTGGTTATTATG
586 CTATATGTTAAAAGTGTCTATTTGATTTGTCTTTGATAATGAGAGGTCCTTATATGGTTATTATG
*
19084972 CCATTTATATGTATAATGGACACTAATGGTGTAACATCCCAAAATAGGGCCTAGTCAAAATAGTG
651 CCATTTATATGTATAATGGACACTAATGGTATAACATCCCAAAATAGGGCCTAGTCAAAATAGTG
*
19085037 GTTTCGGGACCATAAATCTGACATCAAAATATTTATTTTACGATTATTATGAGGCATAGAATATG
716 GTTTCGGGACCATAAATCTGACATCAAAATATTTATTTTACGATTATTATAAGGCATAGAATATG
* *
19085102 AGTATATGCATGTGTTAAAGTTGCACGAAGAAATTCTAGGTATAACATGTCCAATTGGAAATTAG
781 AGTATATGCATGTGTTAAAGTTGCACGAAGAAATTATAAGTATAACATGTCCAATTGGAAATTAG
*
19085167 GGACTAAGTTGAATAAATTGCAAAACTTGGATTCTAGAAGCAATTTGTATGAAATTGCTATAGAT
846 GGACTAAGTTGAATAAATTGCAAAACTTGAATTCTAGAAGCAATTTGTATGAAATTGCTATAGAT
19085232 TA
911 TA
19085234 TTTGTACGAACAATTCATGTTTATTTAATGCTTGGCCTTTAACTAAGGAAACGAAACTTGAAGAC
1 TTTGTACGAACAATTCATGTTTATTTAATGCTTGGCCTTTAACTAAGGAAACGAAACTTGAAGAC
19085299 TCTAATTATAACTTAAAATCACTCCTTGTTCATTCTATGTTGCCAGTTATAAAATTATTGATTCA
66 TCTAATTATAACTTAAAATCACTCCTTGTTCATTCTATGTTGCCAGTTATAAAATTATTGATTCA
19085364 TCATGAAAAGGTAAGACCCATCGATGTTGTTGAATCACGACAATTAATGTTGAATGTTGTTGAGA
131 TCATGAAAAGGTAAGACCCATCGATGTTGTTGAATCACGACAATTAATGTTGAATGTTGTTGAGA
*
19085429 AAGTTGCTAGTGGCATAGTTTTCAAAAGACCTCCTTATTTTGCTTTGGTTTATTGTCATTTTCTC
196 AAGTTGCTAGTGACATAGTTTTCAAAAGACCTCCTTATTTTGCTTTGGTTTATTGTCATTTTCTC
* *
19085494 TGGTTTTTTGTTGACAATTTTGTTTTAAGTGGAGGCATGAAGAGTTGTTTACTTGATCTATTTTG
261 TGGTTTTTTGTTGACAATTTCGTTTTAAGTGGAGGCATGAAGAATTGTTTACTTGATCTATTTTG
*
19085559 TGTGTTGAAAAATGTGTTGGTGATGTTGGATTAATTCAACTTGAGCAAACTTTGGAAGTGCATTG
326 TGTGTTGAAAAATGTGTTGGTGACGTTGGATTAATTCAACTTGAGCAAACTTTGGAAGTGCATTG
* * * *
19085624 TAACAGTCCTGTTTAGA-CCTAGTCGGAATAGTGGTTTTAGGACCACAAATCTGAGTCAAAAAAT
391 TAACAATCCGGTTTAGACCCTAGTCGAAATAGTGGTTTTAGGACCACAAATCTGAGTCAAAAAAA
* *
19085688 TATTTAAATATTATTTTCCATGTTTATGATGTGTGAATTAACATGTGTGAAAGTTTCGTGTGAAA
456 TATTTAAATATTATTTTCCATGTTTATGATATGTGAATTAACATGTGTAAAAGTTTCGTGTGAAA
19085753 GTTTGATCATTTGTGTGCTTAATTCGATAAAAGGACCTAATCGCGTAAAATGTAAAAGTTGCCAG
521 GTTTGATCATTTGTGTGCTTAATTCGATAAAAGGACCTAATCGCGTAAAATGTAAAAGTTGCCAG
19085818 CTATATGTTAAAAGTGTCTATTTGATTTGTCTTTGATAATGAGAGGTCCTTATATGGTTATTATG
586 CTATATGTTAAAAGTGTCTATTTGATTTGTCTTTGATAATGAGAGGTCCTTATATGGTTATTATG
19085883 CCATTTATATGTATAATGGACACTAATGGTATAACATCCCAAAATAGGGCCTAGTCAAAATAGTG
651 CCATTTATATGTATAATGGACACTAATGGTATAACATCCCAAAATAGGGCCTAGTCAAAATAGTG
* *
19085948 GTTTCGGGACCATAAATCTGACATCAAAATATTTATTTTATGATTATTATAAGGCCTAGAATATG
716 GTTTCGGGACCATAAATCTGACATCAAAATATTTATTTTACGATTATTATAAGGCATAGAATATG
* *
19086013 AGTATATGCATGTGTTAAAGTTTCATGAAGAAATTATAAGTATAACATGTCCAATTGGAAATTAG
781 AGTATATGCATGTGTTAAAGTTGCACGAAGAAATTATAAGTATAACATGTCCAATTGGAAATTAG
*
19086078 GGACTAAGTTGAATAAATTGCAAAACTTGAATTCTAGAATCAATTTGTATGAAATTGCTATAGAT
846 GGACTAAGTTGAATAAATTGCAAAACTTGAATTCTAGAAGCAATTTGTATGAAATTGCTATAGAT
19086143 TA
911 TA
19086145 T
1 T
19086146 GAATTAGAAG
Statistics
Matches: 885, Mismatches: 27, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
911 489 0.55
912 396 0.45
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (912 bp):
TTTGTACGAACAATTCATGTTTATTTAATGCTTGGCCTTTAACTAAGGAAACGAAACTTGAAGAC
TCTAATTATAACTTAAAATCACTCCTTGTTCATTCTATGTTGCCAGTTATAAAATTATTGATTCA
TCATGAAAAGGTAAGACCCATCGATGTTGTTGAATCACGACAATTAATGTTGAATGTTGTTGAGA
AAGTTGCTAGTGACATAGTTTTCAAAAGACCTCCTTATTTTGCTTTGGTTTATTGTCATTTTCTC
TGGTTTTTTGTTGACAATTTCGTTTTAAGTGGAGGCATGAAGAATTGTTTACTTGATCTATTTTG
TGTGTTGAAAAATGTGTTGGTGACGTTGGATTAATTCAACTTGAGCAAACTTTGGAAGTGCATTG
TAACAATCCGGTTTAGACCCTAGTCGAAATAGTGGTTTTAGGACCACAAATCTGAGTCAAAAAAA
TATTTAAATATTATTTTCCATGTTTATGATATGTGAATTAACATGTGTAAAAGTTTCGTGTGAAA
GTTTGATCATTTGTGTGCTTAATTCGATAAAAGGACCTAATCGCGTAAAATGTAAAAGTTGCCAG
CTATATGTTAAAAGTGTCTATTTGATTTGTCTTTGATAATGAGAGGTCCTTATATGGTTATTATG
CCATTTATATGTATAATGGACACTAATGGTATAACATCCCAAAATAGGGCCTAGTCAAAATAGTG
GTTTCGGGACCATAAATCTGACATCAAAATATTTATTTTACGATTATTATAAGGCATAGAATATG
AGTATATGCATGTGTTAAAGTTGCACGAAGAAATTATAAGTATAACATGTCCAATTGGAAATTAG
GGACTAAGTTGAATAAATTGCAAAACTTGAATTCTAGAAGCAATTTGTATGAAATTGCTATAGAT
TA
Found at i:19093285 original size:34 final size:34
Alignment explanation
Indices: 19093242--19093312 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
19093232 CTGAATTAAA
*
19093242 AGAATTAAAGTCTTAGTTGCAAGAGTTGACCGAT
1 AGAATTAAAGTCCTAGTTGCAAGAGTTGACCGAT
19093276 AGAATTAAAGTCCTAGTTGCAAGAGTTGACCGAT
1 AGAATTAAAGTCCTAGTTGCAAGAGTTGACCGAT
19093310 AGA
1 AGA
19093313 GGGTTTGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (34 bp):
AGAATTAAAGTCCTAGTTGCAAGAGTTGACCGAT
Found at i:19095719 original size:20 final size:20
Alignment explanation
Indices: 19095694--19095732 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
19095684 GAACTAGAAA
19095694 AGATTCATGATGTGTTTCAC
1 AGATTCATGATGTGTTTCAC
19095714 AGATTCATGATGTGTTTCA
1 AGATTCATGATGTGTTTCA
19095733 TGTATCGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.41
Consensus pattern (20 bp):
AGATTCATGATGTGTTTCAC
Found at i:19098244 original size:30 final size:30
Alignment explanation
Indices: 19098210--19098269 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
19098200 GTGTGTCTTA
*
19098210 GCCGTGTGTGACACATGACTATGTTGCACG
1 GCCGTGTGTGACACACGACTATGTTGCACG
*
19098240 GCCGTGTGTGACACACGGCTATGTTGCACG
1 GCCGTGTGTGACACACGACTATGTTGCACG
19098270 ATAGTGTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (30 bp):
GCCGTGTGTGACACACGACTATGTTGCACG
Found at i:19098277 original size:30 final size:30
Alignment explanation
Indices: 19098213--19098278 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
19098203 TGTCTTAGCC
* * *
19098213 GTGTGTGACACATGACTATGTTGCACGGCC
1 GTGTGTGACACACGACTATGTTGCACGACA
* *
19098243 GTGTGTGACACACGGCTATGTTGCACGATA
1 GTGTGTGACACACGACTATGTTGCACGACA
19098273 GTGTGT
1 GTGTGT
19098279 CCCTTGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.29
Consensus pattern (30 bp):
GTGTGTGACACACGACTATGTTGCACGACA
Found at i:19107425 original size:49 final size:49
Alignment explanation
Indices: 19107353--19107544 Score: 172
Period size: 50 Copynumber: 3.9 Consensus size: 49
19107343 CGAAGCTATT
* *
19107353 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTC
* * *
19107402 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAGTC
** ** * * * *
19107452 TAATACATGTAGTAGCCTGCACCTAGTACTATACACGTGATC-ACAGTTTTC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TC
* * * *
19107503 GGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
19107545 TCACAATAGA
Statistics
Matches: 113, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 36 0.32
50 38 0.34
51 36 0.32
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTC
Found at i:19112302 original size:49 final size:49
Alignment explanation
Indices: 19112230--19112424 Score: 192
Period size: 49 Copynumber: 3.9 Consensus size: 49
19112220 AGCCGAAGCT
* *
19112230 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATA
* * * **
19112279 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AATA
** * * * * * *
19112329 ATCTAATACACGTACTAGCCTGCACCTAGTACTACACACGTGATCACAGTT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATA
* * * *
19112380 TTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
19112425 TCACAATAGA
Statistics
Matches: 118, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 42 0.36
50 41 0.35
51 34 0.29
52 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (49 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATA
Found at i:19112360 original size:50 final size:49
Alignment explanation
Indices: 19112245--19112371 Score: 164
Period size: 50 Copynumber: 2.6 Consensus size: 49
19112235 GTACGCATAG
* * * ** *
19112245 TAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCAACAATCTAATACACGTAC
* *
19112294 TAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACGTAC
1 TAGCCTGCACTTAGTACTACACACGTGACC-AACAATCTAATACACGTAC
*
19112344 TAGCCTGCACCTAGTACTACACACGTGA
1 TAGCCTGCACTTAGTACTACACACGTGA
19112372 TCACAGTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 28 0.41
50 40 0.59
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.24
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACACGTGACCAACAATCTAATACACGTAC
Found at i:19112364 original size:26 final size:26
Alignment explanation
Indices: 19112285--19112365 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
19112275 AATAATCTGG
* *
19112285 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTACTAGCCTGCACCTAGTAC
* *
19112311 TACAC--ACGT-GACCT-CACC-ATCTAA
1 TACACGTAC-TAG-CCTGCACCTA-GTAC
19112335 TACACGTACTAGCCTGCACCTAGTAC
1 TACACGTACTAGCCTGCACCTAGTAC
19112361 TACAC
1 TACAC
19112366 ACGTGATCAC
Statistics
Matches: 41, Mismatches: 6, Indels: 16
0.65 0.10 0.25
Matches are distributed among these distances:
23 1 0.02
24 12 0.29
25 8 0.20
26 19 0.46
27 1 0.02
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.23
Consensus pattern (26 bp):
TACACGTACTAGCCTGCACCTAGTAC
Found at i:19121311 original size:46 final size:46
Alignment explanation
Indices: 19121210--19121297 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
19121200 TGTAACCCGC
* * * * *
19121210 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACGCTCCCAT
* *
19121256 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACGCTC
19121298 AACCATCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACGCTCCCAT
Found at i:19128759 original size:46 final size:46
Alignment explanation
Indices: 19128692--19128866 Score: 314
Period size: 46 Copynumber: 3.8 Consensus size: 46
19128682 TGTAACCCGC
* * * *
19128692 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
19128738 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
19128784 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
19128830 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19128867 TGCTCAACCA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:19133361 original size:47 final size:47
Alignment explanation
Indices: 19133298--19134626 Score: 2255
Period size: 47 Copynumber: 28.3 Consensus size: 47
19133288 CCCTTCGGGA
* * * *
19133298 CTTATCACATTTATACACTTTCACA-TCTATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCAAATTC-ATCACATTGACCATTAGGC
** * * * * *
19133345 CTTATCACATATATACACCATCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
* * * *
19133392 CTTATCTCATATATACACTTTCAGATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19133439 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19133486 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19133533 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19133580 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19133627 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19133674 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19133721 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19133768 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19133815 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19133862 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19133909 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19133956 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19134003 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19134050 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19134097 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19134144 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19134191 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19134238 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
* * *
19134285 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
* * *
19134332 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
* * * *
19134379 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
** * * * * *
19134426 CTTATCACATATATACACCATCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
* * * *
19134473 CTTATCTCATATATACACTTTCAGATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
* * *
19134520 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
* * * *
19134567 CTTGTCACATATATACACTTTCACATTCATCACACTGGCCATTAGGC
1 CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
19134614 CTTATCACATATA
1 CTTATCACATATA
19134627 CATATCTTGT
Statistics
Matches: 1231, Mismatches: 50, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
47 1230 1.00
48 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCAAATTCATCACATTGACCATTAGGC
Found at i:19146178 original size:71 final size:71
Alignment explanation
Indices: 19146062--19146197 Score: 245
Period size: 71 Copynumber: 1.9 Consensus size: 71
19146052 NNNNNNNNNN
*
19146062 AGTATCAAGGCGAAGTTGTGTGTGACGTAATGCCTATTCAAGCCTGCCATTTGTTGCTAGGAGAA
1 AGTATCAAGACGAAGTTGTGTGTGACGTAATGCCTATTCAAGCCTGCCATTTGTTGCTAGGAGAA
19146127 TCGGTA
66 TCGGTA
* *
19146133 AGTATCAAGACGAAGTTGTGTGTGACGTAATGCCTATTTAAGCCTGTCATTTGTTGCTAGGAGAA
1 AGTATCAAGACGAAGTTGTGTGTGACGTAATGCCTATTCAAGCCTGCCATTTGTTGCTAGGAGAA
19146198 CCATGGCAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (71 bp):
AGTATCAAGACGAAGTTGTGTGTGACGTAATGCCTATTCAAGCCTGCCATTTGTTGCTAGGAGAA
TCGGTA
Found at i:19154507 original size:51 final size:51
Alignment explanation
Indices: 19154400--19154574 Score: 241
Period size: 51 Copynumber: 3.5 Consensus size: 51
19154390 AGTGACTCAG
*
19154400 GTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGC-TTGGTCACAA
1 GTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCACAA
*
19154449 GTGTGGTACTATGTGAA-GCCACTTTGTGAAGAAAGATGGCTTTGGTCACAA
1 GTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCACAA
* * *
19154500 GTGTGGTACTATGTGAAGGCCACTTTGTGAATAAGGTAGCTTT-GACTACAA
1 GTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-ACAA
* *
19154551 GAGTGGTACTATGTGCAGGCCACT
1 GTGTGGTACTATGTGAAGGCCACT
19154575 GGGTATCCGT
Statistics
Matches: 113, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
48 13 0.12
49 17 0.15
50 8 0.07
51 62 0.55
52 13 0.12
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.29
Consensus pattern (51 bp):
GTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCACAA
Found at i:19166390 original size:22 final size:22
Alignment explanation
Indices: 19166363--19166420 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
19166353 AGTAAGCCGT
*
19166363 TTTAGTATTTTTAGGTTTTTAG
1 TTTAGTATTTTTAGCTTTTTAG
*
19166385 TTTAGT-TTTACTT-TCTTTTTAG
1 TTTAGTATTT--TTAGCTTTTTAG
19166407 TTTAGTCATTTTTA
1 TTTAGT-ATTTTTA
19166421 TTCTTTTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 3 0.10
22 21 0.72
23 2 0.07
24 3 0.10
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.66
Consensus pattern (22 bp):
TTTAGTATTTTTAGCTTTTTAG
Found at i:19180110 original size:26 final size:26
Alignment explanation
Indices: 19180074--19180131 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
19180064 CATATACAAT
* *
19180074 TCTTTTAATTAAATAGAGATTTCGAG
1 TCTTTCAATTAAATAAAGATTTCGAG
19180100 TCTTTCAATTAAATAAAGATTTCGAG
1 TCTTTCAATTAAATAAAGATTTCGAG
*
19180126 ACTTTC
1 TCTTTC
19180132 TAACATAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (26 bp):
TCTTTCAATTAAATAAAGATTTCGAG
Found at i:19184662 original size:16 final size:17
Alignment explanation
Indices: 19184643--19184680 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
19184633 CTAAATCATG
19184643 CAAAAAAATCCAAAAT-
1 CAAAAAAATCCAAAATC
*
19184659 CAAAATAATCCAAAATC
1 CAAAAAAATCCAAAATC
19184676 CAAAA
1 CAAAA
19184681 GAAAATCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.66, C:0.21, G:0.00, T:0.13
Consensus pattern (17 bp):
CAAAAAAATCCAAAATC
Found at i:19184911 original size:14 final size:15
Alignment explanation
Indices: 19184892--19184920 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19184882 TACATATTAA
19184892 CATATCAATC-TCAT
1 CATATCAATCATCAT
19184906 CATATCAATCATCAT
1 CATATCAATCATCAT
19184921 AATAATCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (15 bp):
CATATCAATCATCAT
Found at i:19186529 original size:18 final size:18
Alignment explanation
Indices: 19186506--19186541 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19186496 TGGTCAACTA
19186506 TGACCAAGTTCATTGTAT
1 TGACCAAGTTCATTGTAT
*
19186524 TGACCAGGTTCATTGTAT
1 TGACCAAGTTCATTGTAT
19186542 CACAATCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (18 bp):
TGACCAAGTTCATTGTAT
Found at i:19189066 original size:26 final size:26
Alignment explanation
Indices: 19189027--19189076 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
19189017 TGAGAAGACC
*
19189027 CATTTCTCAACTCGTGTAAGCATACT
1 CATTTCACAACTCGTGTAAGCATACT
* *
19189053 CATTTCACAGCTCGTGTGAGCATA
1 CATTTCACAACTCGTGTAAGCATA
19189077 TATGTGCAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (26 bp):
CATTTCACAACTCGTGTAAGCATACT
Found at i:19205601 original size:40 final size:40
Alignment explanation
Indices: 19205546--19205933 Score: 758
Period size: 40 Copynumber: 9.7 Consensus size: 40
19205536 GAGCATTGGA
19205546 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
19205586 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
19205626 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
19205666 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
19205706 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
19205746 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
19205786 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
19205826 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
19205866 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
19205906 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
19205934 ATGTGTTTGC
Statistics
Matches: 346, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 346 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:19212838 original size:18 final size:18
Alignment explanation
Indices: 19212811--19212859 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
19212801 TTGGGCTTAT
19212811 TGGG-CCACATAGGGGTG
1 TGGGCCCACATAGGGGTG
19212828 TGGGCCCACATAGGGGTG
1 TGGGCCCACATAGGGGTG
19212846 TGGGCCCACATAGG
1 TGGGCCCACATAGG
19212860 CCCACATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 4 0.13
18 27 0.87
ACGTcount: A:0.18, C:0.22, G:0.43, T:0.16
Consensus pattern (18 bp):
TGGGCCCACATAGGGGTG
Found at i:19213008 original size:27 final size:27
Alignment explanation
Indices: 19212965--19213065 Score: 150
Period size: 27 Copynumber: 3.7 Consensus size: 27
19212955 CGTACTTGAA
*
19212965 CCCTTATGAGACT-AAATGACTATTTTG
1 CCCTTATGAGA-TAAAATGACGATTTTG
* *
19212992 CCCTTATGCGATAAAATGACGATTTTT
1 CCCTTATGAGATAAAATGACGATTTTG
*
19213019 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGAGATAAAATGACGATTTTG
19213046 CCCTTATGAGATAAAATGAC
1 CCCTTATGAGATAAAATGAC
19213066 CAAAATATCC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 66 0.99
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (27 bp):
CCCTTATGAGATAAAATGACGATTTTG
Found at i:19219524 original size:6 final size:6
Alignment explanation
Indices: 19219513--19219543 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
19219503 TAGGTTTCCA
19219513 AAAATG AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG A
19219544 TCCTTTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:19227336 original size:29 final size:29
Alignment explanation
Indices: 19227279--19227339 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
19227269 AGCAATTTAA
*
19227279 TTTTTTTCTTTTATGTTTTTTTAACTTCT
1 TTTTTTTCTTTTATGTTTTTTCAACTTCT
*
19227308 TTTTTTTCTTCTTAT-TTATTTTCCA-TTCT
1 TTTTTTTCTT-TTATGTT-TTTTCAACTTCT
19227337 TTT
1 TTT
19227340 CTGCTTCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.10, C:0.13, G:0.02, T:0.75
Consensus pattern (29 bp):
TTTTTTTCTTTTATGTTTTTTCAACTTCT
Found at i:19227741 original size:15 final size:15
Alignment explanation
Indices: 19227702--19227749 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 15
19227692 GAATGGAAAA
19227702 AAAAGAAAAAAA-AT
1 AAAAGAAAAAAATAT
*
19227716 GAAAGTTAAAAAAATAT
1 AAAAG--AAAAAAATAT
19227733 AAAAGAAAAAAAT-T
1 AAAAGAAAAAAATAT
19227747 AAA
1 AAA
19227750 TTGCTCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 8 0.28
15 8 0.28
16 7 0.24
17 6 0.21
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (15 bp):
AAAAGAAAAAAATAT
Found at i:19232769 original size:29 final size:29
Alignment explanation
Indices: 19232737--19232792 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
19232727 AAATACACCA
* * *
19232737 ATTTATTTTTATATTAGATAAATATAATT
1 ATTTATTTATACAATAGATAAATATAATT
*
19232766 ATTTATTTATACAATATATAAATATAA
1 ATTTATTTATACAATAGATAAATATAA
19232793 AAGAATGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
ATTTATTTATACAATAGATAAATATAATT
Found at i:19233327 original size:17 final size:17
Alignment explanation
Indices: 19233305--19233359 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
19233295 ATCTATATAT
19233305 TTATTTAATTAAAAATA
1 TTATTTAATTAAAAATA
* *
19233322 TTATTTAATTTTAAATATTT
1 TTATTTAA--TTAAA-AATA
19233342 TTATTTAATTAAAAATA
1 TTATTTAATTAAAAATA
19233359 T
1 T
19233360 CACATGTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 11 0.35
18 5 0.16
19 5 0.16
20 10 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATTTAATTAAAAATA
Found at i:19233357 original size:20 final size:19
Alignment explanation
Indices: 19233299--19233359 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
19233289 CACATCATCT
19233299 ATATATTTATTTAATTAAAA
1 ATAT-TTTATTTAATTAAAA
**
19233319 ATA--TTATTTAATTTTAA
1 ATATTTTATTTAATTAAAA
19233336 ATATTTTTATTTAATTAAAA
1 ATA-TTTTATTTAATTAAAA
19233356 ATAT
1 ATAT
19233360 CACATGTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
17 15 0.44
19 1 0.03
20 18 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTTATTTAATTAAAA
Found at i:19233693 original size:16 final size:16
Alignment explanation
Indices: 19233672--19233724 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
19233662 TGTATATATA
19233672 AATTTTAATTTTGTGC
1 AATTTTAATTTTGTGC
*** *
19233688 AATTTT-A-TAAATGA
1 AATTTTAATTTTGTGC
19233702 AATTTTAATTTTGTGC
1 AATTTTAATTTTGTGC
19233718 AATTTTA
1 AATTTTA
19233725 TAAATGAAAT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
14 9 0.33
15 2 0.07
16 16 0.59
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (16 bp):
AATTTTAATTTTGTGC
Done.