Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold35
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: 4812169
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17994 characters in sequence are not A, C, G, or T
File 30 of 30
Found at i:4714699 original size:50 final size:50
Alignment explanation
Indices: 4714627--4714879 Score: 285
Period size: 50 Copynumber: 5.1 Consensus size: 50
4714617 GCCATTATTA
* * * * *
4714627 ACTATTCTTCACCAACCTTTGACAATCGAGAGAAATGGTCGTAATTGTTA
1 ACTATTTTTCACCAACCTTTGACAATAGAGAGAGATGATCGTAATTGTTG
* *
4714677 ACTATTTTTCACCAACTTTTGACAATAGAGAGAGATGACCGTAATTGTTG
1 ACTATTTTTCACCAACCTTTGACAATAGAGAGAGATGATCGTAATTGTTG
* * * *
4714727 ATTATTCTTT-ACCAACTTTTGACAATAGAGAGAGATGGTCTTAATTGTTG
1 ACTATT-TTTCACCAACCTTTGACAATAGAGAGAGATGATCGTAATTGTTG
* * * *
4714777 ACTATTCTTCACCGACCTTTGACAATAAAGAGATG-TGATCGTAATTATTG
1 ACTATTTTTCACCAACCTTTGACAATAGAGAGA-GATGATCGTAATTGTTG
* * * * * *
4714827 ACTACTTTTCACCAACCTTTGACAATAAAGAGAGGTGGTCATAATAGTTG
1 ACTATTTTTCACCAACCTTTGACAATAGAGAGAGATGATCGTAATTGTTG
4714877 ACT
1 ACT
4714880 CTAAGCAACT
Statistics
Matches: 173, Mismatches: 26, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
49 3 0.02
50 166 0.96
51 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (50 bp):
ACTATTTTTCACCAACCTTTGACAATAGAGAGAGATGATCGTAATTGTTG
Found at i:4714802 original size:100 final size:100
Alignment explanation
Indices: 4714620--4714879 Score: 326
Period size: 100 Copynumber: 2.6 Consensus size: 100
4714610 AAGTGTTGCC
* * * * * *
4714620 ATTATTAACTATTCTTCACCAACCTTTGACAATCGAGAGAAATGGTCGTAATTGTTAACTATTTT
1 ATTATTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGATGGTCATAATTGTTGACTATTCT
* *
4714685 TCACCAACTTTTGACAATAGAGAGA-GATGACCGTA
66 TCACCAACCTTTGACAATAAAGAGATG-TGACCGTA
* * * * *
4714720 ATTGTTGATTATTCTTTACCAACTTTTGACAATAGAGAGAGATGGTCTTAATTGTTGACTATTCT
1 ATTATTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGATGGTCATAATTGTTGACTATTCT
* *
4714785 TCACCGACCTTTGACAATAAAGAGATGTGATCGTA
66 TCACCAACCTTTGACAATAAAGAGATGTGACCGTA
* * *
4714820 ATTATTGACTACTT-TTCACCAACCTTTGACAATAAAGAGAGGTGGTCATAATAGTTGACT
1 ATTATTGACTA-TTCTTCACCAACCTTTGACAATAGAGAGAGATGGTCATAATTGTTGACT
4714880 CTAAGCAACT
Statistics
Matches: 136, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
100 133 0.98
101 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (100 bp):
ATTATTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGATGGTCATAATTGTTGACTATTCT
TCACCAACCTTTGACAATAAAGAGATGTGACCGTA
Found at i:4719344 original size:50 final size:50
Alignment explanation
Indices: 4719262--4719521 Score: 342
Period size: 50 Copynumber: 5.2 Consensus size: 50
4719252 AGTTGTTGCC
* * * * * *
4719262 ATTGTTGACTATTCTTCACTAATCTTTTACAATCGAGAGAGGTGGCCATA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCGTA
* * *
4719312 ATTATTGACTATTCTTCACCAACCTTTAACAATAGAGAGAGAT-GTCCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGT-CGTA
* * *
4719362 ATTGTTGACTATTCTTCACCAACCTTTGACAATAAAGGGAGGTGGTTGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCGTA
* * *
4719412 ATTGTTGACTACTCTTCACCAACCTTTGACAATAGAAAGAAGTGGTCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCGTA
* * *
4719462 ATTGTTGACTATTCTTCACCAACCTTTGATAATAGAGAGAAGTGGTCATA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCGTA
4719512 ATTGTTGACT
1 ATTGTTGACT
4719522 CTAAGCAACT
Statistics
Matches: 184, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 1 0.01
50 181 0.98
51 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (50 bp):
ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCGTA
Found at i:4726067 original size:28 final size:28
Alignment explanation
Indices: 4725921--4727039 Score: 1296
Period size: 28 Copynumber: 39.0 Consensus size: 28
4725911 AAAAAAAAAT
*
4725921 GTGCCACT-AGCTTGTGTAGGCTTTGAAAAAA
1 GTGCCACTGA-CTTGTG--GGCTTTG-AAAGA
*
4725952 GTTGCCACTGACACATGTGGGCTTTGAAAAGA
1 G-TGCCACTG--ACTTGTGGGCTTTG-AAAGA
** * *
4725984 GTGTTACTGACTTGCGTGGGCTTTAAAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAGA
*
4726014 GTGCCATTGACTTGCGTGGGCTTTGAAAGA
1 GTGCCACTGACTT--GTGGGCTTTGAAAGA
* *
4726044 GTACCACTGACTTATGGGCTTTGAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
4726071 GTGCCACTGACTCGTGGGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
4726098 GGTGCCACTGACTCGTGGGC-TTGAAA-A
1 -GTGCCACTGACTTGTGGGCTTTGAAAGA
4726125 GGTGCCACTGACTTGTGGGCTTTGAAAGA
1 -GTGCCACTGACTTGTGGGCTTTGAAAGA
*
4726154 GTGCCACTGACTCGTGGGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
4726181 GGTGCCATTGACTTGCGTGGGCTTTGAAAGGA
1 -GTGCCACTGACTT--GTGGGCTTTGAAA-GA
*
4726213 GTGCCACTGACTTGTGTGGGCTTTGAAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGA
4726243 GTGCCACTGACTTGTGGGCTTTGAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
4726270 GATGCCACTGACTCGTGGGCTTTGAAAGA
1 G-TGCCACTGACTTGTGGGCTTTGAAAGA
4726299 GTGCCACTGACTTGTGGGCTTTGAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
4726326 GTGCCACTGA-TTCGTGGGCTTTGAAA-A
1 GTGCCACTGACTT-GTGGGCTTTGAAAGA
* * *
4726353 GGTACCACTGACTCGTGGGC-TTGAAAGG
1 -GTGCCACTGACTTGTGGGCTTTGAAAGA
4726381 GTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
4726409 GTGCCACTGACTCGTGGGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
4726436 TGTGCCACTAACTTGCGTGGGCTTTAAAAGGA
1 -GTGCCACTGACTT--GTGGGCTTTGAAA-GA
*
4726468 GTGCCACTGACTTGTGTGGGCTTTGAAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGA
*
4726498 GAGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * *
4726526 GTGCCACTGACTTGTGGGCTTCGCAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * * *
4726554 GTGCCATTGACTTGTGTGCTTCGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
4726582 GTGCCACTGACTTGTGGGCTTTGAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
4726609 GTGCCACTGACTCGTGGGC-TTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
4726636 GTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
4726664 GTGCCACTGACTCGTGGGCTTT-AAAAA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * *
4726691 GGTGCCATTAACTTGCGTGGGCTTTAAAAGGA
1 -GTGCCACTGACTT--GTGGGCTTTGAAA-GA
*
4726723 GTGCCACTGACTTGTGTGGGCTTTGAAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGA
* *
4726753 GAGCCACTAACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * *
4726781 GTGCCACTGACTTGTGGGCTTCGCAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
4726809 GTGCCACTGACTTGTGGGCTTCGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
4726837 GTGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
4726866 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
4726895 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
4726924 GTGCCACTGACTTGTGGGCTTTAAAAAGA
1 GTGCCACTGACTTGTGGGCTTT-GAAAGA
* *
4726953 GTGCCACTGATTTTGTGGGCTTTGAAAATA
1 GTGCCACTGA-CTTGTGGGCTTTG-AAAGA
4726983 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAA-GA
4727012 GTGCCACTGACTTTGTGGGCTTTGAAAG
1 GTGCCACTGAC-TTGTGGGCTTTGAAAG
4727040 GGATGAACAT
Statistics
Matches: 956, Mismatches: 85, Indels: 96
0.84 0.07 0.08
Matches are distributed among these distances:
26 9 0.01
27 138 0.14
28 412 0.43
29 130 0.14
30 147 0.15
31 85 0.09
32 26 0.03
33 3 0.00
34 5 0.01
35 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGA
Found at i:4726443 original size:283 final size:284
Alignment explanation
Indices: 4725989--4727038 Score: 1360
Period size: 283 Copynumber: 3.7 Consensus size: 284
4725979 AAAGAGTGTT
* * * *
4725989 ACTGACTTGCGTGGGCTTTAAAAGGGTGCCATTGACTTGCGTGGGCTTTGAAAGAGTACCACTGA
1 ACTGAC-T-CGTGGGCTTTGAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGAGTGCCACTGA
*
4726054 CTT-ATGGGCTTTG-AAAGGTGCCACTGACTCGTGGGCTTTGAAA-AGGTGCCACTGACTCGTGG
62 -TTCGTGGGCTTTGAAAAGGTGCCACTGACTCGTGGGCTTTGAAAGA-GTGCCACTGACTCGTGG
*
4726116 GC-TTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAC-T-CGTGGGCTTTGA
125 GCTTTGAAAAGGTGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTTGCGTGGGCTTTGA
*
4726178 AAAGGTGCCATTGACTTGCGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGG
190 AAAGGTGCCACTGACTTG-GTGGGCTTTGAAAGGAGTGCCACTGAC-T-TGTGGGCTTTGAAAGG
*
4726243 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCC
252 GTGCCACTGACTTGTGGGCTTCGAAAGGATGCC
4726276 ACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG-GTGCCACTGATTCG
1 ACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGATTCG
* * *
4726340 TGGGCTTTGAAAAGGTACCACTGACTCGTGGGC-TTGAAAGGGTGCCACTGACTTGTGGGCTTTG
66 TGGGCTTTGAAAAGGTGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTG
*
4726404 -AAAGAGTGCCACTGACTCGTGGGCTTTGAAA-ATGTGCCACTAACTTGCGTGGGCTTT-AAAAG
131 AAAAG-GTGCCACTGACTCGTGGGCTTTGAAAGA-GTGCCACTGACTTGCGTGGGCTTTGAAAA-
* *
4726466 GAGTGCCACTGACTTGTGTGGGCTTTGAAAGG-GAGCCACTGACTTGTGGGCTTTGAAAGAGTGC
193 G-GTGCCACTGACTTG-GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGC
* *
4726530 CACTGACTTGTGGGCTTCGCAAGGGTGCC
256 CACTGACTTGTGGGCTTCGAAAGGATGCC
* * * * * *
4726559 ATTGACTTGTGTGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG-GTGCCACTGACTCG
1 ACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGATTCG
* * *
4726623 TGGGC-TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTA
66 TGGGCTTTGAAAAGGTGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTG
* * * * *
4726687 AAAAGGTGCCATTAACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAG
131 AAAAGGTGCCACTGAC-T-CGTGGGCTTTGAAA-GAGTGCCACTGACTTGCGTGGGCTTTGAAAA
* * * *
4726752 GGAGCCACTAACTT-GTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTCGCAAGGGTGCCA
193 GGTGCCACTGACTTGGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA
*
4726815 CTGACTTGTGGGCTTCGAAAGGGTGCC
258 CTGACTTGTGGGCTTCGAAAGGATGCC
* *
4726842 ACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATT
1 ACTGACTCGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGATT
* * * * *
4726907 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTAAAAAGAGTGCCACTGATTTTGTGGG
64 CGTGGGCTTTGAAAAG-GTGCCACTGACTCGTGGGCTTT-GAAAGAGTGCCACTGA-CTCGTGGG
* * *
4726972 CTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTT-TGTGGGCTTTG
126 CTTTGAAAA-GGTGCCACTGACTCGTGGGCTTTGAAA-GAGTGCCACTGACTTGCGTGGGCTTTG
4727036 AAA
189 AAA
4727039 GGGATGAACA
Statistics
Matches: 678, Mismatches: 59, Indels: 51
0.86 0.07 0.06
Matches are distributed among these distances:
281 2 0.00
282 72 0.11
283 302 0.45
284 38 0.06
285 75 0.11
286 69 0.10
287 17 0.03
288 36 0.05
289 43 0.06
290 15 0.02
291 9 0.01
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (284 bp):
ACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGATTCG
TGGGCTTTGAAAAGGTGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTG
AAAAGGTGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTTGCGTGGGCTTTGAAAAGGT
GCCACTGACTTGGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
ACTTGTGGGCTTCGAAAGGATGCC
Found at i:4726479 original size:255 final size:257
Alignment explanation
Indices: 4725915--4727040 Score: 1576
Period size: 255 Copynumber: 4.4 Consensus size: 257
4725905 TTTTTTAAAA
* * * * * ***
4725915 AAAAATGTGCCACTAGCTTGTGTAGGCTTTGAAAA-AAGTTGCCACTGACACATGTGGGCTTTGA
1 AAAAAGGTGCCACTAACTTGCGTGGGCTTT-AAAAGGAG-TGCCACTGACTTGTGTGGGCTTTG-
* ** * * *
4725979 AAAGAGTGTTACTGACTTGCGTGGGCTTTAAAAGG-GTGCCATTGACTTGCGTGGGCTTTGAAAG
63 AAAGGGTGCCACTGACTT--GTGGGCTTTGAAAGGAGTGCCACTGAC-T-CGTGGGCTTCGAAAG
* * * *
4726043 AGTACCACTGACTTATGGGCTTTGAAA-GGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACT
124 AGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACT
*
4726107 GACTCGTGGGCTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGG
189 GACTCGTGGGCTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGG
4726172 CTTT
254 CTTT
* * * *
4726176 GAAAAGGTGCCATTGACTTGCGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAA
1 AAAAAGGTGCCACTAACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAA
*
4726241 GGGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTCGTGGGCTTTGAAAGAGTGCCA
66 GGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTCGTGGGCTTCGAAAGAGTGCCA
* *
4726305 CTGACTTGTGGGCTTTGAAA-GGTGCCACTGA-TTCGTGGGCTTTGAAAAGGTACCACTGACTCG
131 CTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTT-GTGGGCTTTGAAAAGGTGCCACTGACTCG
4726368 TGGGCTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTT
195 TGGGCTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTT
* *
4726431 GAAAATGTGCCACTAACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAA
1 AAAAAGGTGCCACTAACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAA
* * * *
4726496 GGGAGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTCGCAAGGGTGCCA
66 GGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTCGTGGGCTTCGAAAGAGTGCCA
* *
4726560 TTGACTTGTGTGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGTGCCACTGACTCGT
131 CTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTCGT
4726624 GGGCTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTT
196 GGGCTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTT
*
4726686 AAAAAGGTGCCATTAACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAA
1 AAAAAGGTGCCACTAACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAA
* * * * *
4726751 GGGAGCCACTAACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTCGCAAGGGTGCCA
66 GGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTCGTGGGCTTCGAAAGAGTGCCA
* *
4726815 CTGACTTGTGGGCTTCGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTG
131 CTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTCG
* * *
4726880 TGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
195 TGGGC-TTG-AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTCGTGGGCTT
4726945 T
257 T
* ** *
4726946 AAAAAGAGTGCCACTGA-TTTTGTGGGCTTTGAAAA-TAGTGCCACTGAC-T-TGTGGGCTTTGA
1 AAAAAG-GTGCCACTAACTTGCGTGGGCTTT-AAAAGGAGTGCCACTGACTTGTGTGGGCTTTGA
4727007 AAGGAGTGCCACTGACTTTGTGGGCTTTGAAAGG
64 AAGG-GTGCCACTGAC-TTGTGGGCTTTGAAAGG
4727041 GATGAACATT
Statistics
Matches: 796, Mismatches: 53, Indels: 32
0.90 0.06 0.04
Matches are distributed among these distances:
254 3 0.00
255 522 0.66
256 26 0.03
257 43 0.05
258 19 0.02
259 51 0.06
260 94 0.12
261 38 0.05
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (257 bp):
AAAAAGGTGCCACTAACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAA
GGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTCGTGGGCTTCGAAAGAGTGCCA
CTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTCGT
GGGCTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTT
Found at i:4728267 original size:1 final size:1
Alignment explanation
Indices: 4728261--4728320 Score: 66
Period size: 1 Copynumber: 60.0 Consensus size: 1
4728251 GACCATTCTA
* * * * * *
4728261 TTTTTTTTCTATTTTTTTTTTTTTGTTTTTTTTTGTTTTGTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4728321 GGTGTAAAGG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.90
Consensus pattern (1 bp):
T
Found at i:4728281 original size:15 final size:14
Alignment explanation
Indices: 4728261--4728320 Score: 77
Period size: 14 Copynumber: 4.2 Consensus size: 14
4728251 GACCATTCTA
* *
4728261 TTTTTTTTCTATTT
1 TTTTTTTTTTGTTT
4728275 TTTTTTTTTTGTTT
1 TTTTTTTTTTGTTT
4728289 TTTTTTGTTTTGTTT
1 TTTTTT-TTTTGTTT
4728304 TTTTTGTTTTT-TTT
1 TTTTT-TTTTTGTTT
4728318 TTT
1 TTT
4728321 GGTGTAAAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
14 24 0.57
15 17 0.40
16 1 0.02
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.90
Consensus pattern (14 bp):
TTTTTTTTTTGTTT
Found at i:4728317 original size:24 final size:24
Alignment explanation
Indices: 4728261--4728318 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
4728251 GACCATTCTA
*
4728261 TTTTTTTTCTATTTTTTTTTTTTTG
1 TTTTTTTT-TATTTTGTTTTTTTTG
*
4728286 TTTTTTTTTGTTTTGTTTTTTTTG
1 TTTTTTTTTATTTTGTTTTTTTTG
4728310 TTTTTTTTT
1 TTTTTTTTT
4728319 TTGGTGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.90
Consensus pattern (24 bp):
TTTTTTTTTATTTTGTTTTTTTTG
Found at i:4733127 original size:52 final size:52
Alignment explanation
Indices: 4733042--4733166 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
4733032 ATATGAAAAG
* *
4733042 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
4733094 TTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATT-TAATAATGTATCGATACATCTGGGCAAAT
4733146 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
4733167 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 67 0.96
53 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:4733179 original size:52 final size:50
Alignment explanation
Indices: 4733042--4733186 Score: 193
Period size: 52 Copynumber: 2.8 Consensus size: 50
4733032 ATATGAAAAG
* *
4733042 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
*
4733094 TTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--A-AATAGTGTATCGATACATCTGGGCAAAT
4733146 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
4733187 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
52 80 0.94
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:4733193 original size:13 final size:13
Alignment explanation
Indices: 4733175--4733199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4733165 CAAAGATCAG
4733175 TGTATCGATACAA
1 TGTATCGATACAA
4733188 TGTATCGATACA
1 TGTATCGATACA
4733200 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4733283 original size:13 final size:13
Alignment explanation
Indices: 4733265--4733289 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4733255 CAAAAAAATA
4733265 TGTATCGATACAT
1 TGTATCGATACAT
4733278 TGTATCGATACA
1 TGTATCGATACA
4733290 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4733285 original size:33 final size:33
Alignment explanation
Indices: 4733243--4733309 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4733233 AGTAGCTTAA
4733243 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
4733276 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
4733309 A
1 A
4733310 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:4744745 original size:15 final size:16
Alignment explanation
Indices: 4744725--4744754 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4744715 TAAATCACTT
4744725 GAAAAAA-ATTAAATA
1 GAAAAAATATTAAATA
4744740 GAAAAAATATTAAAT
1 GAAAAAATATTAAAT
4744755 CTTTATTCTT
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:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (16 bp):
GAAAAAATATTAAATA
Found at i:4746223 original size:2 final size:2
Alignment explanation
Indices: 4746216--4746245 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4746206 ATGAATATGC
4746216 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4746246 TTTTAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4746778 original size:2 final size:2
Alignment explanation
Indices: 4746771--4746795 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4746761 TACATCATGT
4746771 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
4746796 TATATATGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4750102 original size:3 final size:3
Alignment explanation
Indices: 4750094--4750124 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
4750084 ATTGTAACTA
4750094 AAT AAT AAT AAT AAT AAT AAT AAT ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
4750125 TATTGTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:4751026 original size:18 final size:17
Alignment explanation
Indices: 4751003--4751036 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4750993 CTGACATAAA
4751003 TATATAAATATTAAAAAT
1 TATATAAA-ATTAAAAAT
*
4751021 TATATATAATTAAAAA
1 TATATAAAATTAAAAA
4751037 AATTAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATATAAAATTAAAAAT
Found at i:4751457 original size:24 final size:25
Alignment explanation
Indices: 4751430--4751483 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
4751420 TAATGATACT
*
4751430 ATATATTAT-ATTATT-AAAATATAA
1 ATAT-TTATGATTATTCAAAATAGAA
*
4751454 ATATTTATGCTTATTCAAAATAGAA
1 ATATTTATGATTATTCAAAATAGAA
4751479 ATATT
1 ATATT
4751484 AAAAATGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 9 0.35
25 13 0.50
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (25 bp):
ATATTTATGATTATTCAAAATAGAA
Found at i:4753730 original size:22 final size:22
Alignment explanation
Indices: 4753689--4753730 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4753679 CATTTTATTA
**
4753689 TAATTTAAATTATTTTTAAAAT
1 TAATTTAAATTATTAATAAAAT
4753711 TAATTTAAATTATTAATAAA
1 TAATTTAAATTATTAATAAA
4753731 TTATTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATTTAAATTATTAATAAAAT
Found at i:4753781 original size:15 final size:16
Alignment explanation
Indices: 4753763--4753795 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4753753 TTATAAAGCA
4753763 AATTAA-TATATTTTT
1 AATTAATTATATTTTT
4753778 AATTAATTATATTTTT
1 AATTAATTATATTTTT
4753794 AA
1 AA
4753796 AAATTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTAATTATATTTTT
Found at i:4753800 original size:15 final size:16
Alignment explanation
Indices: 4753769--4753805 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4753759 AGCAAATTAA
*
4753769 TATATTTTTAATTAAT
1 TATATTTTTAATAAAT
4753785 TATATTTTTAA-AAAT
1 TATATTTTTAATAAAT
4753800 TA-ATTT
1 TATATTT
4753806 AATTAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 4 0.20
15 5 0.25
16 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATTTTTAATAAAT
Found at i:4754094 original size:50 final size:50
Alignment explanation
Indices: 4754040--4754151 Score: 145
Period size: 50 Copynumber: 2.2 Consensus size: 50
4754030 TCACCAAAAT
* * * * * *
4754040 TAATTGTTGATTATTTTTCACTAACCTTTTACAATCGAGAGAGGT-GACCG
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAAGTAG-CCG
*
4754090 TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGATAGAAGTAGCCG
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAAGTAGCCG
4754140 TAATTGTTGACT
1 TAATTGTTGACT
4754152 CTAAACAACT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 53 0.98
51 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (50 bp):
TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAAGTAGCCG
Found at i:4756443 original size:218 final size:217
Alignment explanation
Indices: 4755957--4757237 Score: 1722
Period size: 218 Copynumber: 5.9 Consensus size: 217
4755947 GTCATTTTCT
* * * * * * *
4755957 TTATATTAGACACTAGCTGATCCTAATAAATAGA-TTTT-TTTTTTTAATTTGGGTTTTATTTTT
1 TTATATCAGACACTAGATAATCCTAATAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATT
* * * **
4756020 TATAAGGTATATATATTTTAAAAATAAAATTATTAATATATGATAAGTAAATGTAAGGAAGTGTC
66 TATAAGGTACATATA-TTTAAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAACGTC
* * *
4756085 TTCATAAAATTAT-TTAAGAAAAAGATTTAAATTATT-AAACAAAATCTAAAAAATAATCTTTAC
130 TTCATAAAATTATATGAA-AAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATC-TTAA
4756148 ACATAT-TTTTTTATAAGATTTAAG
193 ACATATATTTTTTATAAGATTTAAG
* *
4756172 TTATATCAGACACTAGATAATCTTAGTAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATT
1 TTATATCAGACACTAGATAATCCTAATAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATT
4756237 TATAAGGTACATATACTTTAAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAACGTC
66 TATAAGGTACATATA-TTTAAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAACGTC
*
4756302 TTCATAAAATTATATGAAAAAAAGATTTAAGTTATTCAAATAAAATCTAAAAAATAATCTTAAAC
130 TTCATAAAATTATATGAAAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAAC
4756367 ATATATTTTTTATAAGATTTAAG
195 ATATATTTTTTATAAGATTTAAG
* * *
4756390 TTATATCATACACTAGATAATCCTAGTAAATAAAGTTTTCTTTTCTCAATTTGGGTTTGATTATT
1 TTATATCAGACACTAGATAATCCTAATAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATT
* *
4756455 TATAAGGTACATATATTTTAAAAATAAAATTATTAATATATGATGAGTGAATGTAAAGAAATGTC
66 TATAAGGTACATATA-TTTAAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAACGTC
4756520 TTCATAAAATTATATGAAAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAAC
130 TTCATAAAATTATATGAAAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAAC
4756585 ATATATTTTTTATAAGATTTAAG
195 ATATATTTTTTATAAGATTTAAG
* * *
4756608 TTATATCATACACTAGATAATCCTAATAAATAAAGTTTTCTTTTCTCAATTTGGGTTTGATTTTT
1 TTATATCAGACACTAGATAATCCTAATAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATT
* * *
4756673 TATAAAGTACATATATTTCAAAAATAAAATTATTAATACATGATAAGTGAATATAAAGAAACTGT
66 TATAAGGTACATATATTT-AAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAAC-GT
* * *
4756738 CTTCATAAAATTATATGAGAACAAGATTCAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAA
129 CTTCATAAAATTATATGAAAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAA
** *
4756803 TGTATATTTTTTTATAAAATTTAAG
194 CATATA-TTTTTTATAAGATTTAAG
* * *
4756828 TTATATTAGACATTAGATAATCCTAGTAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATT
1 TTATATCAGACACTAGATAATCCTAATAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATT
*
4756893 TATAAGGTACATATATTTCAAAAATAAAATTATTAATATATGATAAGTGAA--T--ATAAA----
66 TATAAGGTACATATATTT-AAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAACGTC
* * * * * *
4756950 ---A-AAAAGTCT-TGAGAAAAATATTTAAGTTATTAAAATAAAATCTAAAAAATAATCTTAAAT
130 TTCATAAAATTATATGAAAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATC-----T
* *
4757010 ATATATATATATATTTTTTATAAAATTTAAG
190 -TA-A-ACATATATTTTTTATAAGATTTAAG
* * * *
4757041 TTATACCAGATATTAGAGAATCCTAATAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATT-TT
1 TTATATCAGACACTAGATAATCCTAATAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATT
* * * * *
4757105 TATAAGGT-CATATAATTCAAAAATAAAATTATTAATTTATAATAAGTGAATGTAAAGAAGCATC
66 TATAAGGTACATAT-ATTTAAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAACGTC
* *
4757169 TTCATAAAATTATCTGAGAAAAAA-ATTTAAGTTATTTAAACAAAATCTAAAAAATAATCTTAAA
130 TTCATAAAATTATATGA-AAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAA
4757233 CATAT
194 CATAT
4757238 TACCAATAAA
Statistics
Matches: 963, Mismatches: 72, Indels: 61
0.88 0.07 0.06
Matches are distributed among these distances:
206 40 0.04
207 6 0.01
208 1 0.00
211 36 0.04
212 15 0.02
213 77 0.08
214 6 0.01
215 32 0.03
216 13 0.01
217 123 0.13
218 372 0.39
219 69 0.07
220 125 0.13
222 1 0.00
223 6 0.01
224 36 0.04
225 5 0.01
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (217 bp):
TTATATCAGACACTAGATAATCCTAATAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATT
TATAAGGTACATATATTTAAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAACGTCT
TCATAAAATTATATGAAAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAACA
TATATTTTTTATAAGATTTAAG
Found at i:4757664 original size:26 final size:26
Alignment explanation
Indices: 4757602--4757664 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 26
4757592 ACTTTTGGCT
*
4757602 TATTTAATGAA-TGTAATGTAAAAAA
1 TATTTAATAAATTGTAATGTAAAAAA
* *
4757627 TATTT-TTAAATTAGTAAT-TAAATAA
1 TATTTAATAAATT-GTAATGTAAAAAA
*
4757652 TATTTAATCAATT
1 TATTTAATAAATT
4757665 CAATGTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
24 3 0.10
25 17 0.57
26 10 0.33
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (26 bp):
TATTTAATAAATTGTAATGTAAAAAA
Found at i:4758221 original size:26 final size:27
Alignment explanation
Indices: 4758177--4758228 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
4758167 TTAAATATAA
* **
4758177 AATATTTCAATATTTTAT-AATTTTAT
1 AATATTTAAATATGCTATAAATTTTAT
4758203 AATATTTAAATATGCTATAAATTTTA
1 AATATTTAAATATGCTATAAATTTTA
4758229 ATTTAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (27 bp):
AATATTTAAATATGCTATAAATTTTAT
Found at i:4759555 original size:4 final size:4
Alignment explanation
Indices: 4759546--4759606 Score: 59
Period size: 4 Copynumber: 14.2 Consensus size: 4
4759536 TGAATTATTG
* * *
4759546 TTTC TTTC TTTC TTTC TTTC TTTC TTTTCC TTTC ATTC TCTCC TTTC TATC
1 TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC T-TTC TTTC TTTC
4759597 TTTTC TTTC T
1 -TTTC TTTC T
4759607 CTTTTCCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 34 0.72
5 12 0.26
6 1 0.02
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:4759604 original size:13 final size:13
Alignment explanation
Indices: 4759546--4759606 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
4759536 TGAATTATTG
*
4759546 TTTCTTTCTTTC-
1 TTTCTTTCTATCT
*
4759558 TTTCTTTCTTTCT
1 TTTCTTTCTATCT
4759571 TTTCCTTTC-ATTCT
1 TTT-CTTTCTA-TCT
* *
4759585 CTCCTTTCTATCT
1 TTTCTTTCTATCT
4759598 TTTCTTTCT
1 TTTCTTTCT
4759607 CTTTTCCATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 12 0.30
13 18 0.45
14 10 0.25
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCTTTCTATCT
Found at i:4760025 original size:27 final size:25
Alignment explanation
Indices: 4759994--4760043 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
4759984 AAATAAAAAC
*
4759994 AAATATAATCAATTATATATATAATTG
1 AAATACAATCAA-TATATAT-TAATTG
*
4760021 AAATACAATTAATATATATTAAT
1 AAATACAATCAATATATATTAAT
4760044 ATTAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 7 0.33
27 10 0.48
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (25 bp):
AAATACAATCAATATATATTAATTG
Found at i:4761077 original size:17 final size:18
Alignment explanation
Indices: 4761042--4761081 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4761032 AGGATACTTT
* *
4761042 ATTAATATTTTTGATAAA
1 ATTAAAATTTTTGAAAAA
4761060 ATTAAAATTTTT-AAAAA
1 ATTAAAATTTTTGAAAAA
4761077 ATTAA
1 ATTAA
4761082 GATAATGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
ATTAAAATTTTTGAAAAA
Found at i:4764395 original size:51 final size:51
Alignment explanation
Indices: 4764333--4764503 Score: 186
Period size: 51 Copynumber: 3.6 Consensus size: 51
4764323 TTAACTAGAC
* *
4764333 GTATCGATACATTGAAAAATGTATCGATATATCCTGGTAAAAAGACAGAAT
1 GTATCGATACATTGAAGAATGTATCGATATATCATGGTAAAAAGACAGAAT
* * *
4764384 GTATTGATACATTGAAGAATGTATCG--ATA-CAT--T---CATAC---AT
1 GTATCGATACATTGAAGAATGTATCGATATATCATGGTAAAAAGACAGAAT
* *
4764424 GTATCGATACATTGAAGAATGTATCGATACAT-TTGGGTAAAAAGACAGAAT
1 GTATCGATACATTGAAGAATGTATCGATATATCAT-GGTAAAAAGACAGAAT
4764475 GTATCGATACATTGAAGAATGTATCGATA
1 GTATCGATACATTGAAGAATGTATCGATA
4764504 CATTCATACA
Statistics
Matches: 98, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
40 27 0.28
42 3 0.03
43 3 0.03
45 1 0.01
46 1 0.01
48 5 0.05
49 3 0.03
51 55 0.56
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (51 bp):
GTATCGATACATTGAAGAATGTATCGATATATCATGGTAAAAAGACAGAAT
Found at i:4764404 original size:20 final size:20
Alignment explanation
Indices: 4764379--4764546 Score: 160
Period size: 20 Copynumber: 7.8 Consensus size: 20
4764369 GTAAAAAGAC
*
4764379 AGAATGTATTGATACATTGA
1 AGAATGTATCGATACATTGA
*
4764399 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
4764419 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
4764439 AGAATGTATCGATACATTTGGGTAAAAAGA
1 AGAATGTATCGATACA--T---T-----GA
4764469 CAGAATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
4764490 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
4764510 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
4764530 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
4764547 CTGGGTACTT
Statistics
Matches: 124, Mismatches: 9, Indels: 30
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.02
20 96 0.77
21 4 0.03
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 2 0.02
31 16 0.13
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:4764439 original size:91 final size:91
Alignment explanation
Indices: 4764333--4764553 Score: 390
Period size: 91 Copynumber: 2.4 Consensus size: 91
4764323 TTAACTAGAC
* * *
4764333 GTATCGATACATTGAAAAATGTATCGATATATCCT-GGTAAAAAGACAGAATGTATTGATACATT
1 GTATCGATACATTGAAGAATGTATCGATACAT-CTGGGTAAAAAGACAGAATGTATCGATACATT
4764397 GAAGAATGTATCGATACATTCATACAT
65 GAAGAATGTATCGATACATTCATACAT
*
4764424 GTATCGATACATTGAAGAATGTATCGATACATTTGGGTAAAAAGACAGAATGTATCGATACATTG
1 GTATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACATTG
4764489 AAGAATGTATCGATACATTCATACAT
66 AAGAATGTATCGATACATTCATACAT
4764515 GTATCGATACATTGAAGAATGTATCGATACATCTGGGTA
1 GTATCGATACATTGAAGAATGTATCGATACATCTGGGTA
4764554 CTTTTCCATA
Statistics
Matches: 124, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
90 1 0.01
91 123 0.99
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (91 bp):
GTATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACATTG
AAGAATGTATCGATACATTCATACAT
Found at i:4765519 original size:28 final size:28
Alignment explanation
Indices: 4765438--4766278 Score: 1000
Period size: 28 Copynumber: 29.5 Consensus size: 28
4765428 CATCGACTCG
* *
4765438 TGTGGGCTTTGAAAAGAGTTACCACT-AGCT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGA-CT
*
4765468 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
4765497 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
4765525 TGTGAGCTTTAAAAAGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
4765553 TGTGCGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
4765581 TGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * *
4765610 TGTGGGATTTGAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
4765638 TGTGGGCTTCGAAAAGGGTGCCATTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * ** *
4765667 TATGGGCATTGAAAGAATGTCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* **
4765695 TGTGAGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
4765724 TGTGGGTTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
4765752 TGTGGGCTTTGAAAGGGTACCACTGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * **
4765780 TGCGGGCTTTGAAAAGAGTGCCACTGGTT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
4765809 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
4765837 TGTAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** *
4765865 TGTGGGCTTTGAAAAAAGTGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * *
4765894 TGTGGGCTTTGAAAGGATACCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* **
4765922 TGTGGGTTTTGAAAAGAATGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
4765951 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** *
4765979 TGTGGGCTTTGAAAAGAATGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
4766008 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
4766036 TGCATGGGCTTTGAAAGGGTGCCATTGACT
1 TG--TGGGCTTTGAAAGGGTGCCACTGACT
*
4766066 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
**
4766094 TGTGGGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
4766123 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
4766151 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
*
4766180 TGTGGGCTTTGAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
4766208 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * * *
4766238 CGTGGGCTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
4766266 TATGGGCTTTGAA
1 TGTGGGCTTTGAA
4766279 GAGATGAACG
Statistics
Matches: 698, Mismatches: 99, Indels: 30
0.84 0.12 0.04
Matches are distributed among these distances:
28 389 0.56
29 245 0.35
30 64 0.09
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:4765534 original size:57 final size:57
Alignment explanation
Indices: 4765409--4766278 Score: 1113
Period size: 57 Copynumber: 15.2 Consensus size: 57
4765399 TAACTTGTGC
* *
4765409 GGGCTTTGAAAAGAGTTGCCA-TCGACTCGTGTGGGCTTTGAAAAGAGTTACCACT-AGCTTGT
1 GGGCTTTGAAAAGAG-TGCCACT-GACT--TGTGGGCTTTG-AAAG-GGTGCCACTGA-CTTGT
*
4765471 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
* * * * * *
4765528 GAGCTTTAAAAAG-GTGCCATTGACTTGTGCGCTTTGAAAGGATGCCACTAACTTGT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
* * * *
4765584 GGGCTTTGAAAAGAGTGCCATTGACTTGTGGGATTTGAAAGAGTGCCACTAACTTGT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
* * * * * ** *
4765641 GGGCTTCGAAAAGGGTGCCATTGACTTATGGGCATTGAAAGAATGTCACTGACTTGT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
* * * *
4765698 GAGCTTTGAAAAAAGTGCCACTGACTTGTGGGTTTTGAAAGGGTGCCACTGATTTGT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
* * * * * **
4765755 GGGCTTTG-AAAGGGTACCACTGGCTTGCGGGCTTTGAAAAGAGTGCCACTGGTTTGT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGT
* *
4765812 GGGCTTTG-AAAGGGTGCCACTGACTTGTAGGCTTTGAAAGGGTGCCACTGACTTGT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
* * * * *
4765868 GGGCTTTGAAAAAAGTGCCACTGATTTGTGGGCTTTGAAAGGATACCACTAACTTGT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
* *
4765925 GGGTTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
* *
4765982 GGGCTTTGAAAAGAATGCCACTGATTTGTGGGCTTTGAAAGGGTGCCACTGACTTGCAT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG--T
* * *
4766041 GGGCTTTG-AAAGGGTGCCATTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
*
4766097 GGGCTTTGAAAAAAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
* *
4766154 GGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTGACTTGT
1 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
* * * * *
4766211 GGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTAAAAGGATGCCACTAACTTAT
1 GGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
4766269 GGGCTTTGAA
1 GGGCTTTGAA
4766279 GAGATGAACG
Statistics
Matches: 712, Mismatches: 87, Indels: 22
0.87 0.11 0.03
Matches are distributed among these distances:
56 105 0.15
57 470 0.66
58 93 0.13
59 19 0.03
61 9 0.01
62 16 0.02
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (57 bp):
GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
Found at i:4765563 original size:85 final size:85
Alignment explanation
Indices: 4765438--4766278 Score: 944
Period size: 85 Copynumber: 9.8 Consensus size: 85
4765428 CATCGACTCG
* *
4765438 TGTGGGCTTTGAAAAGAGTTACCACT-AGCTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
1 TGTGGGCTTT-AAAA-AGGTGCCACTGA-CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
*
4765502 GCTTTAAAAGGGTGCCACTGACT
63 GCTTTGAAAGGGTGCCACTGACT
* * * * *
4765525 TGTGAGCTTTAAAAAGGTGCCATTGACTTGTGCGCTTTGAAAGGA-TGCCACTAACTTGTGGGCT
1 TGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* *
4765589 TTGAAAAGAGTGCCATTGACT
66 TTG-AAAGGGTGCCACTGACT
* * * * * * *
4765610 TGTGGGATTT-GAAAGAGTGCCACTAACTTGTGGGCTTCGAAAAGGGTGCCATTGACTTATGGGC
1 TGTGGGCTTTAAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* ** *
4765674 ATTGAAAGAATGTCACTGACT
65 TTTGAAAGGGTGCCACTGACT
* * * * *
4765695 TGTGAGCTTTGAAAAAAGTGCCACTGACTTGTGGGTTTTG-AAAGGGTGCCACTGATTTGTGGGC
1 TGTGGGCTTT-AAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
4765759 TTTGAAAGGGTACCACTGGCT
65 TTTGAAAGGGTGCCACTGACT
* * ** * *
4765780 TGCGGGCTTTGAAAAGAGTGCCACTGGTTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTAGGC
1 TGTGGGCTTTAAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
4765844 TTTGAAAGGGTGCCACTGACT
65 TTTGAAAGGGTGCCACTGACT
* * * * * *
4765865 TGTGGGCTTTGAAAAAAGTGCCACTGATTTGTGGGCTTTGAAAGGA-TACCACTAACTTGTGGGT
1 TGTGGGCTTT-AAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
**
4765929 TTTGAAAAGAATGCCACTGACT
65 TTTG-AAAGGGTGCCACTGACT
* * * *
4765951 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGATTTGTGGGCT
1 TGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
4766016 TTGAAAGGGTGCCACTGACT
66 TTGAAAGGGTGCCACTGACT
* * * *
4766036 TGCATGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGG
1 TG--TGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
**
4766100 CTTTGAAAAAAGTGCCACTGACT
64 CTTTG-AAAGGGTGCCACTGACT
* * *
4766123 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
4766188 TTGAAAGGGTGTCACTGACT
66 TTGAAAGGGTGCCACTGACT
* * * *
4766208 TGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTT-AAAAG-GATGCCACTAACTTATGG
1 TGTGGGCTTT-AAAA-AGGTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGG
4766271 GCTTTGAA
63 GCTTTGAA
4766279 GAGATGAACG
Statistics
Matches: 644, Mismatches: 92, Indels: 37
0.83 0.12 0.05
Matches are distributed among these distances:
84 28 0.04
85 360 0.56
86 165 0.26
87 91 0.14
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (85 bp):
TGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
TTGAAAGGGTGCCACTGACT
Found at i:4767566 original size:8 final size:8
Alignment explanation
Indices: 4767526--4767592 Score: 57
Period size: 8 Copynumber: 8.4 Consensus size: 8
4767516 ATCTAGACAC
*
4767526 TTTTATGT
1 TTTTTTGT
*
4767534 TTTTTTGC
1 TTTTTTGT
*
4767542 TATTTT-T
1 TTTTTTGT
* *
4767549 TTCTTGGT
1 TTTTTTGT
4767557 TTTTTTGTTT
1 TTTTTTG--T
4767567 TTTTTTGT
1 TTTTTTGT
4767575 TTTTTTGT
1 TTTTTTGT
4767583 TTTTTT-T
1 TTTTTTGT
4767590 TTT
1 TTT
4767593 GGTGCAAAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
7 7 0.15
8 32 0.68
10 8 0.17
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.84
Consensus pattern (8 bp):
TTTTTTGT
Found at i:4767576 original size:18 final size:19
Alignment explanation
Indices: 4767544--4767590 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
4767534 TTTTTTGCTA
4767544 TTTTTTTCTTGGTTTTTTTG
1 TTTTTTT-TTGGTTTTTTTG
4767564 TTTTTTTTT-GTTTTTTTG
1 TTTTTTTTTGGTTTTTTTG
4767582 TTTTTTTTT
1 TTTTTTTTT
4767591 TTGGTGCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 18 0.67
19 2 0.07
20 7 0.26
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (19 bp):
TTTTTTTTTGGTTTTTTTG
Found at i:4777297 original size:19 final size:19
Alignment explanation
Indices: 4777273--4777312 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4777263 AAATAATGAG
*
4777273 AATGAATAGCAAGAAAAAA
1 AATGAACAGCAAGAAAAAA
* *
4777292 AATGAACATCAATAAAAAA
1 AATGAACAGCAAGAAAAAA
4777311 AA
1 AA
4777313 AGTGGCTCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (19 bp):
AATGAACAGCAAGAAAAAA
Found at i:4781579 original size:20 final size:20
Alignment explanation
Indices: 4781551--4781718 Score: 115
Period size: 20 Copynumber: 7.8 Consensus size: 20
4781541 GTAAAAAGAC
4781551 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
4781571 AGAACGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* * *
4781591 TA-CATGTATTGATATATTGA
1 -AGAATGTATCGATACATTGA
4781611 AGAATGTATCGATACATCTGGGTAAAAAGA
1 AGAATGTATCGATACA--T---T-----GA
*
4781641 CAGAATGTATCGATACATTAA
1 -AGAATGTATCGATACATTGA
*
4781662 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
4781682 TA-CATGTATTGATACATTGA
1 -AGAATGTATCGATACATTGA
*
4781702 AGAAGGTATCGATACAT
1 AGAATGTATCGATACAT
4781719 CTGGGTACTT
Statistics
Matches: 115, Mismatches: 18, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
19 2 0.02
20 88 0.77
21 3 0.03
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 2 0.02
31 16 0.14
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:4781658 original size:91 final size:91
Alignment explanation
Indices: 4781503--4781725 Score: 356
Period size: 91 Copynumber: 2.5 Consensus size: 91
4781493 TTTTAACTAG
* * * * *
4781503 ATGTATCGATACATTGAAAAAAATATCGATACATCCGAGTAAAAAGACAGAATGTATCGATACAT
1 ATGTATTGATACATTGAAGAAAGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
*
4781568 TGAAGAACGTATCGATACATTCATAC
66 TAAAGAACGTATCGATACATTCATAC
* *
4781594 ATGTATTGATATATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
1 ATGTATTGATACATTGAAGAAAGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
*
4781659 TAAAGAATGTATCGATACATTCATAC
66 TAAAGAACGTATCGATACATTCATAC
*
4781685 ATGTATTGATACATTGAAGAAGGTATCGATACATCTGGGTA
1 ATGTATTGATACATTGAAGAAAGTATCGATACATCTGGGTA
4781726 CTTTTCCATA
Statistics
Matches: 121, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 121 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.29
Consensus pattern (91 bp):
ATGTATTGATACATTGAAGAAAGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
TAAAGAACGTATCGATACATTCATAC
Found at i:4783370 original size:21 final size:21
Alignment explanation
Indices: 4783329--4783372 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4783319 CTTTCTATCT
* *
4783329 AACAAGTTCATCCTTACATCC
1 AACAAGTGCATCATTACATCC
4783350 AACAAGTGCATCTATTA-ATCC
1 AACAAGTGCATC-ATTACATCC
4783371 AA
1 AA
4783373 ATAAATATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.39, C:0.27, G:0.07, T:0.27
Consensus pattern (21 bp):
AACAAGTGCATCATTACATCC
Found at i:4789034 original size:33 final size:32
Alignment explanation
Indices: 4788955--4789046 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 32
4788945 GCAAAGTATT
*
4788955 TGAAGAAGCAAGAGAAGAAGAAAGAAGAAGAA
1 TGAAGAAACAAGAGAAGAAGAAAGAAGAAGAA
** * *
4788987 ACAGGGAAAAAAGAGAAGAAGATAA-AAGAAGATA
1 TGA-AGAAACAAGAGAAGAAGA-AAGAAGAAGA-A
*
4789021 TGAAGAAACAAGAGAAGAAAAAAGAA
1 TGAAGAAACAAGAGAAGAAGAAAGAA
4789047 AATATAAGCA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
32 3 0.07
33 39 0.85
34 4 0.09
ACGTcount: A:0.65, C:0.03, G:0.27, T:0.04
Consensus pattern (32 bp):
TGAAGAAACAAGAGAAGAAGAAAGAAGAAGAA
Found at i:4790792 original size:13 final size:13
Alignment explanation
Indices: 4790774--4790798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4790764 ATTTGTCCAT
4790774 GTATCGATACAAC
1 GTATCGATACAAC
4790787 GTATCGATACAA
1 GTATCGATACAA
4790799 AGCAACATGT
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:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (13 bp):
GTATCGATACAAC
Found at i:4791635 original size:254 final size:254
Alignment explanation
Indices: 4791186--4791698 Score: 958
Period size: 254 Copynumber: 2.0 Consensus size: 254
4791176 AGGAAATTTC
4791186 AAATTTTCAGTTTCGGGCAGCATATATGATCTTACCGAATTGTTCAAGCTTATAATCGATCATTC
1 AAATTTTCAGTTTCGGGCAGCATATATGATCTTACCGAATTGTTCAAGCTTATAATCGATCATTC
*
4791251 TCTTGTATCAACATAGTTCAAAACCTGTAATCTGATATACATCTTCAAGAAACACATTAGAAAGT
66 TCTTGTATCAACATAGTTCAAAACCTGTAATCTGATACACATCTTCAAGAAACACATTAGAAAGT
*
4791316 TCAAATATCAAAGTTTCGGTTTTTCTCCCCCTTAAACGATTATTTCCTCCTTTATAAAAAATTTT
131 TCAAATATCAAAGTTTCGATTTTTCTCCCCCTTAAACGATTATTTCCTCCTTTATAAAAAATTTT
*
4791381 CCCTTTTAACAATTACCTTAAAATTTTGCCCC-TTTAATAATTATCTTCTCCTCCTTAAA
196 CCCTTTTAACAATTACCTTAAAATTTT-CCCCATTTAATAATTATCTTCTCCCCCTTAAA
*
4791440 AAATTTTCA-TTTCCGGGTAGCATATATGATCTTACCGAATTGTTCAAGCTTATAATCGATCATT
1 AAATTTTCAGTTT-CGGGCAGCATATATGATCTTACCGAATTGTTCAAGCTTATAATCGATCATT
4791504 CTCTTGTATCAACATAGTTCAAAACCTGTAATCTGATACACATCTTCAAGAAACACATTAGAAAG
65 CTCTTGTATCAACATAGTTCAAAACCTGTAATCTGATACACATCTTCAAGAAACACATTAGAAAG
4791569 TTCAAATATCAAAGTTTCGATTTTTCTCCCCCTTAAACGATTATTTCCTCCTTTATAAAAAATTT
130 TTCAAATATCAAAGTTTCGATTTTTCTCCCCCTTAAACGATTATTTCCTCCTTTATAAAAAATTT
4791634 TCCCTTTTAACAATTACCTTAAAATTTTCCCCATTTAATAATTATCTTCTCCCCCTTAAA
195 TCCCTTTTAACAATTACCTTAAAATTTTCCCCATTTAATAATTATCTTCTCCCCCTTAAA
4791694 AAATT
1 AAATT
4791699 CTCCCCCTTT
Statistics
Matches: 253, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
253 7 0.03
254 246 0.97
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (254 bp):
AAATTTTCAGTTTCGGGCAGCATATATGATCTTACCGAATTGTTCAAGCTTATAATCGATCATTC
TCTTGTATCAACATAGTTCAAAACCTGTAATCTGATACACATCTTCAAGAAACACATTAGAAAGT
TCAAATATCAAAGTTTCGATTTTTCTCCCCCTTAAACGATTATTTCCTCCTTTATAAAAAATTTT
CCCTTTTAACAATTACCTTAAAATTTTCCCCATTTAATAATTATCTTCTCCCCCTTAAA
Found at i:4792962 original size:13 final size:13
Alignment explanation
Indices: 4792944--4792969 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4792934 CAATTTGGTC
4792944 ATGTATCGATACA
1 ATGTATCGATACA
4792957 ATGTATCGATACA
1 ATGTATCGATACA
4792970 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4792969 original size:34 final size:32
Alignment explanation
Indices: 4792921--4792989 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
4792911 CGTTACAAGC
4792921 CAATGTATCAATACAAT-TTGGTCATGTATCGATA
1 CAATGTATCAATAC-ATCTT-GT-ATGTATCGATA
*
4792955 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCAATACATCTTGTATGTATCGATA
4792987 CAA
1 CAA
4792990 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 14 0.42
33 4 0.12
34 15 0.45
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (32 bp):
CAATGTATCAATACATCTTGTATGTATCGATA
Found at i:4793087 original size:13 final size:13
Alignment explanation
Indices: 4793069--4793093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4793059 TACAGTGGTC
4793069 ATGTATCGATACA
1 ATGTATCGATACA
4793082 ATGTATCGATAC
1 ATGTATCGATAC
4793094 TGTGCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4795578 original size:13 final size:13
Alignment explanation
Indices: 4795548--4795586 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4795538 TATAATTGCC
* *
4795548 ATGTATCAATATA
1 ATGTATCGATACA
*
4795561 GTGTATCGATACA
1 ATGTATCGATACA
4795574 ATGTATCGATACA
1 ATGTATCGATACA
4795587 GAGAATGCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4800067 original size:79 final size:79
Alignment explanation
Indices: 4799991--4800495 Score: 629
Period size: 79 Copynumber: 6.4 Consensus size: 79
4799981 AAAGGTGTTC
* * * * **
4799991 TAGAAATAAAATCGAGGTTGGAGTATCCCCTTGGAAATAACAGGGTTGGATTATCCCTAATTAT-
1 TAGAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATG
*** *
4800055 AGAAAATTGGTGTTT
66 AG-AAATCAATATTT
* * * * *
4800070 T-GAAAATAAAATC-AGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGTAGTATCCCCGATTG
1 TAG-AAATAAAACCGA-GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTA
4800133 TGAGAAATCAATATTT
64 TGAGAAATCAATATTT
* * * * *
4800149 TAGGAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCTCCGATTGTG
1 TAGAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATG
4800214 AGAAATCAATATTT
66 AGAAATCAATATTT
* * * * *
4800228 TAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATG
1 TAGAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATG
4800293 AGAAATCAATATTT
66 AGAAATCAATATTT
* *
4800307 TAGAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAATGGGATTGGAGTATCCCCGATTATG
1 TAGAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATG
4800372 AGAAATCAATATTT
66 AGAAATCAATATTT
* * * *
4800386 TAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTG
1 TAGAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATG
* * *
4800451 AAAAATTAATGTTTT
66 AGAAATCAAT-ATTT
* *
4800466 TAGAAATAAAATCGAAGTTGGAGTATCCCC
1 TAGAAATAAAACCGAGGTTGGAGTATCCCC
4800496 GATTATAGAA
Statistics
Matches: 372, Mismatches: 48, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
78 2 0.01
79 339 0.91
80 31 0.08
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
TAGAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATG
AGAAATCAATATTT
Found at i:4800106 original size:26 final size:27
Alignment explanation
Indices: 4800077--4800128 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
4800067 TTTTGAAAAT
4800077 AAAAT-CAGGGTTGGAGTATCCCCGCG
1 AAAATACAGGGTTGGAGTATCCCCGCG
* *
4800103 AAAATAACGGGGTTGTAGTATCCCCG
1 AAAAT-ACAGGGTTGGAGTATCCCCG
4800129 ATTGTGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
28 17 0.77
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (27 bp):
AAAATACAGGGTTGGAGTATCCCCGCG
Found at i:4800425 original size:237 final size:238
Alignment explanation
Indices: 4799991--4800495 Score: 703
Period size: 237 Copynumber: 2.1 Consensus size: 238
4799981 AAAGGTGTTC
* * * * *
4799991 TAGAAATAAAATCGAGGTTGGAGTATCCCCTTGGAAATAACAGGGTTGGATTATCCCTAATTATA
1 TAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATA
*** * * * *
4800056 GAAAATTGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGTAG
66 GAAAATCAATATTTTGAAAATAAAACCAGGGTTGGAGTATCCCCGCGAAAATAACGGGATTGGAG
*
4800121 TATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAACCGGGGTTGGAGTATCCCCTCAGAAA
131 TATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAACCGGGGTTGGAGTATCCCCTCAGAAA
* *
4800186 TAACGGGGTTGGAGTATCTCCGATTGTGAGAAATCAAT-ATTT
196 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGATTT
* * * *
4800228 TAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTAT-
1 TAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATA
* * *
4800292 GAGAAATCAATATTTT-AGAAATAAAACC-GAGGTTGGAGTATCCCCTCGGAAATAATGGGATTG
66 GA-AAATCAATATTTTGA-AAATAAAACCAG-GGTTGGAGTATCCCCGCGAAAATAACGGGATTG
* *
4800355 GAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGG
128 GAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAACCGGGGTTGGAGTATCCCCTCAG
* *
4800420 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTT
193 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGATTT
* *
4800466 TAGAAATAAAATCGAAGTTGGAGTATCCCC
1 TAGAAATAAAACCGAGGTTGGAGTATCCCC
4800496 GATTATAGAA
Statistics
Matches: 233, Mismatches: 31, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
236 4 0.02
237 201 0.86
238 28 0.12
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (238 bp):
TAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATA
GAAAATCAATATTTTGAAAATAAAACCAGGGTTGGAGTATCCCCGCGAAAATAACGGGATTGGAG
TATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAACCGGGGTTGGAGTATCCCCTCAGAAA
TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGATTT
Found at i:4800609 original size:102 final size:102
Alignment explanation
Indices: 4800424--4800664 Score: 308
Period size: 102 Copynumber: 2.4 Consensus size: 102
4800414 CCTCGGAAAT
* * ** *
4800424 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTTAGAAATAAAATCGAAGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTCGAGAAATAAAATCGAAGTTGGAA
*
4800489 TATCCCCGATTATAGAAAATTGGTATTTT-GAAAATAA
66 TATCCCCGATTATAGAAAATTAGTATTTTAG-AAATAA
* * * *
4800526 AATCGGGGTTGGAGTATCCCCGATTTTGGAAAATTGGTGTTTCGA-AAATAAAATCGGAGTTGGA
1 AA-CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTCGAGAAATAAAATCGAAGTTGGA
* * *
4800590 ATATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAA
65 ATATCCCCGATTATAGAAAATTAGTATTTTAGAAATAA
4800628 AACAGGGGTTGGAGTA-CCCTCGATTATGAAAAATTGA
1 AAC-GGGGTTGGAGTATCCC-CGATTATGAAAAATTGA
4800665 GAAACTTAAC
Statistics
Matches: 120, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
101 4 0.03
102 79 0.66
103 37 0.31
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (102 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTCGAGAAATAAAATCGAAGTTGGAA
TATCCCCGATTATAGAAAATTAGTATTTTAGAAATAA
Found at i:4800661 original size:51 final size:52
Alignment explanation
Indices: 4800426--4800662 Score: 263
Period size: 51 Copynumber: 4.6 Consensus size: 52
4800416 TCGGAAATAA
* *
4800426 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTTAG-AAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTAGAAAATAAAAT
** * *
4800478 CGAAGTTGGAGTATCCCCGATTAT-AGAAAATTGGTATTTT-GAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTAGAAAATAAAAT
* * * *
4800529 CGGGGTTGGAGTATCCCCGATTTTGGAAAATTGGTG-TTTCGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAAATAAAAT
* * * *
4800580 CGGAGTTGGAATATCCCCGATTGTGGAAAATTAGTGTTTTAG-AAATAAAA-
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAAATAAAAT
4800630 CAGGGGTTGGAGTA-CCCTCGATTATGAAAAATT
1 C-GGGGTTGGAGTATCCC-CGATTATGAAAAATT
4800663 GAGAAACTTA
Statistics
Matches: 158, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
50 8 0.05
51 118 0.75
52 32 0.20
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAAATAAAAT
Found at i:4803002 original size:13 final size:13
Alignment explanation
Indices: 4802986--4803016 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4802976 ATACAATGAG
*
4802986 CAATTTATCGATA
1 CAATGTATCGATA
4802999 CAATGTATCGATA
1 CAATGTATCGATA
4803012 CAATG
1 CAATG
4803017 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:4803009 original size:33 final size:33
Alignment explanation
Indices: 4802964--4803038 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
4802954 CGATACCTTG
*
4802964 TAAAATGTATCGATACAATGAGCAATTTATCGA
1 TAAAATGTATCGATACAATGAGCAATGTATCGA
*
4802997 TACAATGTATCGATACAATGAGCAATGTATCGA
1 TAAAATGTATCGATACAATGAGCAATGTATCGA
4803030 TAAAATGTA
1 TAAAATGTA
4803039 AAATGTATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (33 bp):
TAAAATGTATCGATACAATGAGCAATGTATCGA
Found at i:4803022 original size:20 final size:19
Alignment explanation
Indices: 4802947--4803053 Score: 82
Period size: 20 Copynumber: 5.7 Consensus size: 19
4802937 AAAATGCCTG
** *
4802947 AATGTATCGATACCTTGTAA
1 AATGTATCGATACAATG-AC
4802967 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
*
4802987 AAT-T-T--AT-CGAT-AC
1 AATGTATCGATACAATGAC
4803000 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
* *
4803020 AATGTATCGATAAAATGTAA
1 AATGTATCGATACAATG-AC
4803040 AATGTATCGATACA
1 AATGTATCGATACA
4803054 TCTGGGTAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
13 4 0.06
14 2 0.03
15 4 0.06
16 2 0.03
17 2 0.03
18 4 0.06
19 3 0.04
20 48 0.69
21 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:4803110 original size:13 final size:13
Alignment explanation
Indices: 4803092--4803117 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4803082 ACAAAGATCG
4803092 ATGTATCGATACA
1 ATGTATCGATACA
4803105 ATGTATCGATACA
1 ATGTATCGATACA
4803118 TTTAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4805031 original size:13 final size:13
Alignment explanation
Indices: 4805013--4805037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4805003 CATAAAGTGT
4805013 TGTATCGATACAA
1 TGTATCGATACAA
4805026 TGTATCGATACA
1 TGTATCGATACA
4805038 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4805035 original size:33 final size:33
Alignment explanation
Indices: 4804993--4805059 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4804983 TTCAACGATT
4804993 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
4805026 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
4805059 T
1 T
4805060 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:4805118 original size:13 final size:13
Alignment explanation
Indices: 4805100--4805124 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4805090 ATCACTTAAA
4805100 TGTATCGATACAT
1 TGTATCGATACAT
4805113 TGTATCGATACA
1 TGTATCGATACA
4805125 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4805176 original size:65 final size:67
Alignment explanation
Indices: 4805099--4805226 Score: 190
Period size: 69 Copynumber: 1.9 Consensus size: 67
4805089 CATCACTTAA
**
4805099 ATGTATCGATACA-T-TGTATCGATACACTGA-TCTTTGTATCGATACATGCAGGCAAATTTGCC
1 ATGTATCGATACATTATGTATCGATACACT-ATTCAATGTATCGATACATGCAGGCAAATTTGCC
4805161 TGC
65 TGC
4805164 ATGTATCGATACATTTTATGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACA--TTATGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
4805227 TCATATTTCG
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
65 13 0.23
68 2 0.04
69 41 0.73
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (67 bp):
ATGTATCGATACATTATGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTGCCT
GC
Found at i:4805186 original size:17 final size:19
Alignment explanation
Indices: 4805164--4805214 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 19
4805154 ATTTGCCTGC
*
4805164 ATGTATCGATACAT-TT-T
1 ATGTATCGATACATATTCA
4805181 ATGTATCGATACACTATTCA
1 ATGTATCGATACA-TATTCA
4805201 ATGTATCGATACAT
1 ATGTATCGATACAT
4805215 GCAGGCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 13 0.43
18 1 0.03
19 3 0.10
20 13 0.43
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (19 bp):
ATGTATCGATACATATTCA
Found at i:4809757 original size:13 final size:13
Alignment explanation
Indices: 4809716--4809764 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
4809706 CGTTACAAGC
4809716 CAATGTATCGATA
1 CAATGTATCGATA
*
4809729 CAAT-T-T-GGT-
1 CAATGTATCGATA
4809738 C-ATGTATCGATA
1 CAATGTATCGATA
4809750 CAATGTATCGATA
1 CAATGTATCGATA
4809763 CA
1 CA
4809765 TCTTGTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 3 0.10
11 3 0.10
12 2 0.07
13 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:4809759 original size:34 final size:32
Alignment explanation
Indices: 4809716--4809784 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
4809706 CGTTACAAGC
4809716 CAATGTATCGATACAAT-TTGGTCATGTATCGATA
1 CAATGTATCGATAC-ATCTT-GT-ATGTATCGATA
4809750 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
4809782 CAA
1 CAA
4809785 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 14 0.41
33 4 0.12
34 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:4809882 original size:13 final size:13
Alignment explanation
Indices: 4809864--4809888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4809854 TATAGTGGTC
4809864 ATGTATCGATACA
1 ATGTATCGATACA
4809877 ATGTATCGATAC
1 ATGTATCGATAC
4809889 TGTGCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4810915 original size:15 final size:15
Alignment explanation
Indices: 4810895--4810924 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4810885 CGAGGGATGA
4810895 ACCCCTCTTTGGTTT
1 ACCCCTCTTTGGTTT
4810910 ACCCCTCTTTGGTTT
1 ACCCCTCTTTGGTTT
4810925 CTCCCCACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.33, G:0.13, T:0.47
Consensus pattern (15 bp):
ACCCCTCTTTGGTTT
Found at i:4811898 original size:13 final size:13
Alignment explanation
Indices: 4811880--4811921 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
4811870 AAATAGTACC
4811880 CAATGTATCGATA
1 CAATGTATCGATA
*
4811893 CAATGTATCGAAA
1 CAATGTATCGATA
*
4811906 CAATGTATCAATA
1 CAATGTATCGATA
4811919 CAA
1 CAA
4811922 GGAATGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (13 bp):
CAATGTATCGATA
Done.