Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 29 of 131
Found at i:6863050 original size:17 final size:18
Alignment explanation
Indices: 6863017--6863076 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
6863007 TTTTATTGTG
6863017 ATTATTTTTGTTGTTATT
1 ATTATTTTTGTTGTTATT
6863035 ATTATTTTTAG-T-TTATT
1 ATTATTTTT-GTTGTTATT
* *
6863052 ATTATTTCTTTTTATTA-T
1 ATTATTT-TTGTTGTTATT
6863070 ATTATTT
1 ATTATTT
6863077 AAAATTTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
17 12 0.32
18 21 0.57
19 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.72
Consensus pattern (18 bp):
ATTATTTTTGTTGTTATT
Found at i:6863065 original size:21 final size:20
Alignment explanation
Indices: 6863030--6863075 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
6863020 ATTTTTGTTG
6863030 TTATTATTATTTTTAGTT-TA
1 TTATTATTATTTTTA-TTATA
*
6863050 TTATTATTTCTTTTTATTATA
1 TTATTA-TTATTTTTATTATA
6863071 TTATT
1 TTATT
6863076 TAAAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (20 bp):
TTATTATTATTTTTATTATA
Found at i:6863228 original size:13 final size:13
Alignment explanation
Indices: 6863210--6863240 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6863200 AAAATTTCAA
6863210 TTATTACTATTTT
1 TTATTACTATTTT
*
6863223 TTATTATTATTTT
1 TTATTACTATTTT
6863236 TTATT
1 TTATT
6863241 TTTTATATTG
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:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTACTATTTT
Found at i:6863453 original size:19 final size:20
Alignment explanation
Indices: 6863401--6863442 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
6863391 CATTTAAACA
*
6863401 ATTTATCATTTTTT-ATTTT
1 ATTTATCTTTTTTTAATTTT
6863420 ATTTATCTTTTTTTAATTTT
1 ATTTATCTTTTTTTAATTTT
6863440 ATT
1 ATT
6863443 ATTGTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTATCTTTTTTTAATTTT
Found at i:6863727 original size:19 final size:20
Alignment explanation
Indices: 6863685--6863726 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
6863675 AAACAAAAAC
6863685 AAAAATAAAAATAAAATCTG
1 AAAAATAAAAATAAAATCTG
6863705 -AAAATAAAAAT-AAAT-TG
1 AAAAATAAAAATAAAATCTG
6863722 AAAAA
1 AAAAA
6863727 AGAAAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.10
18 8 0.38
19 11 0.52
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (20 bp):
AAAAATAAAAATAAAATCTG
Found at i:6863732 original size:18 final size:19
Alignment explanation
Indices: 6863685--6863732 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
6863675 AAACAAAAAC
6863685 AAAAATAAAAATAAAATCTG
1 AAAAA-AAAAATAAAATCTG
*
6863705 AAAATAAAAAT-AAAT-TG
1 AAAAAAAAAATAAAATCTG
6863722 AAAAAAGAAAA
1 AAAAAA-AAAA
6863733 ACTTACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 7 0.28
18 8 0.32
19 6 0.24
20 4 0.16
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (19 bp):
AAAAAAAAAATAAAATCTG
Found at i:6864895 original size:39 final size:40
Alignment explanation
Indices: 6864805--6865284 Score: 176
Period size: 40 Copynumber: 11.8 Consensus size: 40
6864795 GGAAAGGTTT
* * *
6864805 CTCTAAATTGAGGCTATGAAAACTTTAAAAATTTAAAAAGGTTT
1 CTCTAACTTGAGGCTATG-AAACTTT--AAATTT-AAAAGGCTC
* *
6864849 TTTTAACTTGAGGCTATGAAAC-TTAAATTTAAAAGGCTC
1 CTCTAACTTGAGGCTATGAAACTTTAAATTTAAAAGGCTC
* *
6864888 CTCTAACTAGAGGCAATGAAACTTTAAATGTGTTAAAAGGCTC
1 CTCTAACTTGAGGCTATGAAACTTTAAA--T-TTAAAAGGCTC
* ** *
6864931 CTTTAACCAGAGG-TA-GCAAAACTTTATATGTTAAAAGGCTC
1 CTCTAACTTGAGGCTATG--AAACTTTAAAT-TTAAAAGGCTC
* * * * * * * *
6864972 TTCTGACTAGAGACAACG-AACTTTAAATGTTGAAAGACTC
1 CTCTAACTTGAGGCTATGAAACTTTAAAT-TTAAAAGGCTC
* ** * * *
6865012 TTCTAAGC-AAAAGCAATGAAACTTTAAATTCAAAAGGCTC
1 CTCTAA-CTTGAGGCTATGAAACTTTAAATTTAAAAGGCTC
* * ** * *
6865052 ATCTGACCAGA-GATAAT-AAACTTTAAATGTTAAAAGACTC
1 CTCTAACTTGAGGCT-ATGAAACTTTAAAT-TTAAAAGGCTC
* *** * *
6865092 TTCTAACCAAAGG-TAATGAAACTTCAAATTCAAAAGGCTC
1 CTCTAACTTGAGGCT-ATGAAACTTTAAATTTAAAAGGCTC
* * * * * * *
6865132 ATCTAA-TCAGACGCAATAAAACCTTAAATTCAAAAGGCTC
1 CTCTAACT-TGAGGCTATGAAACTTTAAATTTAAAAGGCTC
* * *** **
6865172 ATTTAACCAAAGG-TAACAAAACTTTAAATTTAAAAGGCTC
1 CTCTAACTTGAGGCT-ATGAAACTTTAAATTTAAAAGGCTC
* *
6865212 CTCTGAAC-AGAGGCAATG-AACTTTAAATATTAAAAGGCTC
1 CTCT-AACTTGAGGCTATGAAACTTTAAAT-TTAAAAGGCTC
* * **
6865252 TTTTAACCAGAGG-TAATGAAACTTTAAATTTAA
1 CTCTAACTTGAGGCT-ATGAAACTTTAAATTTAA
6865285 TGACCAGAGG
Statistics
Matches: 343, Mismatches: 68, Indels: 54
0.74 0.15 0.12
Matches are distributed among these distances:
39 51 0.15
40 179 0.52
41 57 0.17
42 5 0.01
43 36 0.10
44 15 0.04
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (40 bp):
CTCTAACTTGAGGCTATGAAACTTTAAATTTAAAAGGCTC
Found at i:6864915 original size:40 final size:41
Alignment explanation
Indices: 6864858--6865559 Score: 429
Period size: 40 Copynumber: 17.7 Consensus size: 41
6864848 TTTTTAACTT
* * *
6864858 GAGGCTATGAAAC-TTAAAT-TTAAAAGGCTCCTCTAACTA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
* *
6864897 GAGGCAATGAAACTTTAAATGTGTTAAAAGGCTCCTTTAACCA
1 GAGGCAATGAAACTTTAAA--TGTTAAAAGGCTCATCTAACCA
* *** * * * *
6864940 GAGGTAGCAAAACTTTATATGTTAAAAGGCTCTTCTGACTA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
* * * * * *
6864981 GAGACAACG-AACTTTAAATGTTGAAAGACTCTTCTAAGCA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
* * * *
6865021 AAAGCAATGAAACTTTAAAT-TCAAAAGGCTCATCTGACCA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
** * *
6865061 GAGATAAT-AAACTTTAAATGTTAAAAGACTCTTCTAACCA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
* * * * *
6865101 AAGGTAATGAAACTTCAAAT-TCAAAAGGCTCATCTAATCA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
* * * * *
6865141 GACGCAATAAAACCTTAAAT-TCAAAAGGCTCATTTAACCA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
* * ** *
6865181 AAGGTAACAAAACTTTAAAT-TTAAAAGGCTCCTCTGAA-CA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCT-AACCA
* * *
6865221 GAGGCAATG-AACTTTAAATATTAAAAGGCTCTTTTAACCA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
* *
6865261 GAGGTAATGAAACTTTAAAT-TT---A-----A--TGACCA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
* * *
6865291 GAGGTAACG-AACTTTAAATGTTAAAAGGCTCATCTGACCA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
* * * *
6865331 GAGGCAA-CAAACTTTAAATGTTAAAAGGTTCCTATAACCA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
* * * ** * *
6865371 -AAGCAATGAAACTTTAAATATTAAAAAGCTTTTTTGACCA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
* * * * * *
6865411 GAGGCAACG-AACTTTAAATATGAAAAGGTTTC-TCTGACTA
1 GAGGCAATGAAACTTTAAATGTTAAAAGG-CTCATCTAACCA
* * * ** *
6865451 GAGCCAAT-AAACTTTAAATATTAAAATGCTCATCCGACTA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
* * * *
6865491 GAGGTAATGAAACTTTAAAT-TCAAAAGGCTTC-TTTGACCA
1 GAGGCAATGAAACTTTAAATGTTAAAAGGC-TCATCTAACCA
* * *
6865531 GAGGCAACG-AATTTTATATGTTAAAAGGC
1 GAGGCAATGAAACTTTAAATGTTAAAAGGC
6865560 AATGAACTTT
Statistics
Matches: 518, Mismatches: 114, Indels: 61
0.75 0.16 0.09
Matches are distributed among these distances:
29 10 0.02
30 15 0.03
33 1 0.00
37 1 0.00
38 1 0.00
39 50 0.10
40 332 0.64
41 75 0.14
42 1 0.00
43 32 0.06
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.27
Consensus pattern (41 bp):
GAGGCAATGAAACTTTAAATGTTAAAAGGCTCATCTAACCA
Found at i:6865137 original size:120 final size:118
Alignment explanation
Indices: 6864858--6865559 Score: 477
Period size: 120 Copynumber: 5.9 Consensus size: 118
6864848 TTTTTAACTT
* *
6864858 GAGGCTATGAAAC-TTAAAT-TTAAAAGGCTCCTCTAACTAGAGGCAATGAAACTTTAAATGTGT
1 GAGGCAATG-AACTTTAAATATTAAAAGGCTCTTCTAAC-AGAGGCAATGAAACTTTAAA--T-T
* * * * *
6864921 TAAAAGGCTCCTTTAACCAGAGGTAGCAAAACTTTATATGTTAAAAGGCTCTTCTGACTA
61 CAAAAGGCTCATTTAACCAGAGGTA--AAAACTTTAAATGTTAAAAGGCTCTTCTAACCA
* * * * * * *
6864981 GAGACAACGAACTTTAAATGTTGAAAGACTCTTCTAAGCAAAAGCAATGAAACTTTAAATTCAAA
1 GAGGCAATGAACTTTAAATATTAAAAGGCTCTTCTAA-CAGAGGCAATGAAACTTTAAATTCAAA
* * * *
6865046 AGGCTCATCTGACCAGAGATAATAAACTTTAAATGTTAAAAGACTCTTCTAACCA
65 AGGCTCATTTAACCAGAGGTAA-AAACTTTAAATGTTAAAAGGCTCTTCTAACCA
* * * * * * * *
6865101 AAGGTAATGAAACTTCAAAT-TCAAAAGGCTCATCTAATCAGACGCAATAAAACCTTAAATTCAA
1 GAGGCAATG-AACTTTAAATATTAAAAGGCTCTTCTAA-CAGAGGCAATGAAACTTTAAATTCAA
* *
6865165 AAGGCTCATTTAACCAAAGGTAACAAAACTTTAAAT-TTAAAAGGCTCCTCTGAA-CA
64 AAGGCTCATTTAACCAGAGGT-A-AAAACTTTAAATGTTAAAAGGCTCTTCT-AACCA
* *
6865221 GAGGCAATGAACTTTAAATATTAAAAGGCTCTTTTAACCAGAGGTAATGAAACTTTAAATT----
1 GAGGCAATGAACTTTAAATATTAAAAGGCTCTTCTAA-CAGAGGCAATGAAACTTTAAATTCAAA
* * * * *
6865282 ----T-A-ATGACCAGAGGTAACGAACTTTAAATGTTAAAAGGCTCATCTGACCA
65 AGGCTCATTTAACCAGAGGTAA-AAACTTTAAATGTTAAAAGGCTCTTCTAACCA
** * * * * * *
6865331 GAGGCAACAAACTTTAAATGTTAAAAGGTTCCTATAACCA-AAGCAATGAAACTTTAAATATTAA
1 GAGGCAATGAACTTTAAATATTAAAAGGCTCTTCTAA-CAGAGGCAATGAAACTTTAAAT-TCAA
* ** * * * * * * * *
6865395 AAAGCTTTTTTGACCAGAGGCAACGAACTTTAAATATGAAAAGG-TTTCTCTGACTA
64 AAGGCTCATTTAACCAGAGGTAA-AAACTTTAAATGTTAAAAGGCTCT-TCTAACCA
* * * * ** *
6865451 GAGCCAATAAACTTTAAATATTAAAATGCTCATCCGACTAGAGGTAATGAAACTTTAAATTCAAA
1 GAGGCAATGAACTTTAAATATTAAAAGGCTCTTCTAAC-AGAGGCAATGAAACTTTAAATTCAAA
* * * * *
6865516 AGGCTTC-TTTGACCAGAGGCAACGAATTTTATATGTTAAAAGGC
65 AGGC-TCATTTAACCAGAGGTAA-AAACTTTAAATGTTAAAAGGC
6865560 AATGAACTTT
Statistics
Matches: 463, Mismatches: 88, Indels: 58
0.76 0.14 0.10
Matches are distributed among these distances:
108 1 0.00
109 29 0.06
110 60 0.13
111 1 0.00
112 1 0.00
118 1 0.00
119 12 0.03
120 246 0.53
121 62 0.13
122 5 0.01
123 12 0.03
124 32 0.07
125 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.27
Consensus pattern (118 bp):
GAGGCAATGAACTTTAAATATTAAAAGGCTCTTCTAACAGAGGCAATGAAACTTTAAATTCAAAA
GGCTCATTTAACCAGAGGTAAAAACTTTAAATGTTAAAAGGCTCTTCTAACCA
Found at i:6865282 original size:80 final size:80
Alignment explanation
Indices: 6864864--6865559 Score: 491
Period size: 80 Copynumber: 8.8 Consensus size: 80
6864854 ACTTGAGGCT
6864864 ATGAAAC-TTAAATTTAAAAGGCTCCTCT-AACTAGAGGCAATGAAACTTTAAATGTGTTAAAAG
1 ATGAAACTTTAAATTTAAAAGGCTCCTCTGAAC-AGAGGCAATG-AACTTTAAA--TGTTAAAAG
6864927 GCTCCTT-TAACCAGAGGTA
62 GCT-CTTCTAACCAGAGGTA
*** * * * * * *
6864946 GCAAAACTTTATATGTTAAAAGGCTCTTCTG-ACTAGAGACAACGAACTTTAAATGTTGAAAGAC
1 ATGAAACTTTAAAT-TTAAAAGGCTCCTCTGAAC-AGAGGCAATGAACTTTAAATGTTAAAAGGC
* * * *
6865010 TCTTCTAAGCAAAAGCA
64 TCTTCTAACCAGAGGTA
* * * ** * *
6865027 ATGAAACTTTAAATTCAAAAGGCTCATCTGACCAGAGATAATAAACTTTAAATGTTAAAAGACTC
1 ATGAAACTTTAAATTTAAAAGGCTCCTCTGAACAGAGGCAATGAACTTTAAATGTTAAAAGGCTC
*
6865092 TTCTAACCAAAGGTA
66 TTCTAACCAGAGGTA
* * * * * * *
6865107 ATGAAACTTCAAATTCAAAAGGCTCATCT-AATCAGACGCAATAAAACCTTAAAT-TCAAAAGGC
1 ATGAAACTTTAAATTTAAAAGGCTCCTCTGAA-CAGAGGCAAT-GAACTTTAAATGTTAAAAGGC
*
6865170 TCATT-TAACCAAAGGTA
64 TC-TTCTAACCAGAGGTA
** *
6865187 ACAAAACTTTAAATTTAAAAGGCTCCTCTGAACAGAGGCAATGAACTTTAAATATTAAAAGGCTC
1 ATGAAACTTTAAATTTAAAAGGCTCCTCTGAACAGAGGCAATGAACTTTAAATGTTAAAAGGCTC
*
6865252 TTTTAACCAGAGGTA
66 TTCTAACCAGAGGTA
* * *
6865267 ATGAAACTTTAAATTT--AA--------TGACCAGAGGTAACGAACTTTAAATGTTAAAAGGCTC
1 ATGAAACTTTAAATTTAAAAGGCTCCTCTGAACAGAGGCAATGAACTTTAAATGTTAAAAGGCTC
* * *
6865322 ATCTGACCAGAGGCA
66 TTCTAACCAGAGGTA
* * * * * *
6865337 A-CAAACTTTAAATGTTAAAAGGTTCCTAT-AACCA-AAGCAATGAAACTTTAAATATTAAAAAG
1 ATGAAACTTTAAAT-TTAAAAGGCTCCTCTGAA-CAGAGGCAATG-AACTTTAAATGTTAAAAGG
* * * *
6865399 CTTTTTTGACCAGAGGCA
63 CTCTTCTAACCAGAGGTA
* * * * * * * *
6865417 ACG-AACTTTAAATATGAAAAGGTTTCTCTG-ACTAGAGCCAATAAACTTTAAATATTAAAATGC
1 ATGAAACTTTAAAT-TTAAAAGGCTCCTCTGAAC-AGAGGCAATGAACTTTAAATGTTAAAAGGC
* ** *
6865480 TCATCCGACTAGAGGTA
64 TCTTCTAACCAGAGGTA
* * * * * * *
6865497 ATGAAACTTTAAATTCAAAAGGCTTCTTTGACCAGAGGCAACGAATTTTATATGTTAAAAGGC
1 ATGAAACTTTAAATTTAAAAGGCTCCTCTGAACAGAGGCAATGAACTTTAAATGTTAAAAGGC
6865560 AATGAACTTT
Statistics
Matches: 492, Mismatches: 92, Indels: 62
0.76 0.14 0.10
Matches are distributed among these distances:
69 11 0.02
70 47 0.10
72 2 0.00
78 2 0.00
79 19 0.04
80 309 0.63
81 59 0.12
82 4 0.01
83 14 0.03
84 25 0.05
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.27
Consensus pattern (80 bp):
ATGAAACTTTAAATTTAAAAGGCTCCTCTGAACAGAGGCAATGAACTTTAAATGTTAAAAGGCTC
TTCTAACCAGAGGTA
Found at i:6865291 original size:30 final size:30
Alignment explanation
Indices: 6865257--6865314 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
6865247 GGCTCTTTTA
*
6865257 ACCAGAGGTAATGAAACTTTAAAT-TTAATG
1 ACCAGAGGTAACG-AACTTTAAATGTTAATG
6865287 ACCAGAGGTAACGAACTTTAAATGTTAA
1 ACCAGAGGTAACGAACTTTAAATGTTAA
6865315 AAGGCTCATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (30 bp):
ACCAGAGGTAACGAACTTTAAATGTTAATG
Found at i:6865332 original size:70 final size:70
Alignment explanation
Indices: 6865219--6865354 Score: 184
Period size: 70 Copynumber: 1.9 Consensus size: 70
6865209 CTCCTCTGAA
* * * * *
6865219 CAGAGGCAATGAACTTTAAATATTAAAAGGCTCTTTTAACCAGAGGTAATGAAACTTTAAAT-TT
1 CAGAGGCAACGAACTTTAAATATTAAAAGGCTCATCTAACCAGAGGCAA-CAAACTTTAAATGTT
6865283 AATGAC
65 AATGAC
* * *
6865289 CAGAGGTAACGAACTTTAAATGTTAAAAGGCTCATCTGACCAGAGGCAACAAACTTTAAATGTTA
1 CAGAGGCAACGAACTTTAAATATTAAAAGGCTCATCTAACCAGAGGCAACAAACTTTAAATGTTA
6865354 A
66 A
6865355 AAGGTTCCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 11 0.19
70 46 0.81
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (70 bp):
CAGAGGCAACGAACTTTAAATATTAAAAGGCTCATCTAACCAGAGGCAACAAACTTTAAATGTTA
ATGAC
Found at i:6865415 original size:190 final size:190
Alignment explanation
Indices: 6865097--6865438 Score: 429
Period size: 190 Copynumber: 1.8 Consensus size: 190
6865087 GACTCTTCTA
* *
6865097 ACCAAAGGTAATGAAACTTCAAATTCAAAAGGCTCATCTAATCAGACGCAATAAAACCTTAAATT
1 ACCAAAGGTAACGAAACTTCAAATTCAAAAGGCTCATCTAACCAGACGCAATAAAACCTTAAATT
* * *
6865162 CAAAAGGCTCATTTAACCAAAGGTAACAAAACTTTAAATTTAAAAGGCTCCTCTGAACAGAGGCA
66 CAAAAGGCTCATATAACCAAAGGCAACAAAACTTTAAATTTAAAAAGCTCCTCTGAACAGAGGCA
* *
6865227 ATGAACTTTAAATATTAAAAGGCTCTTTTAACCAGAGGTAATGAAACTTTAAATTTAATG
131 ACGAACTTTAAATATGAAAAGGCTCTTTTAACCAGAGGTAATGAAACTTTAAATTTAATG
* * * * * * *
6865287 ACCAGAGGTAACG-AACTTTAAATGTTAAAAGGCTCATCTGACCAGAGGCAA-CAAACTTTAAAT
1 ACCAAAGGTAACGAAACTTCAAAT-TCAAAAGGCTCATCTAACCAGACGCAATAAAACCTTAAAT
* * * ** ** * *
6865350 GTTAAAAGGTTCCTATAACCAAA-GCAATGAAACTTTAAATATTAAAAAGCTTTTTTGACCAGAG
65 -TCAAAAGGCTCATATAACCAAAGGCAACAAAACTTTAAAT-TTAAAAAGCTCCTCTGAACAGAG
6865414 GCAACGAACTTTAAATATGAAAAGG
128 GCAACGAACTTTAAATATGAAAAGG
6865439 TTTCTCTGAC
Statistics
Matches: 126, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
189 33 0.26
190 93 0.74
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (190 bp):
ACCAAAGGTAACGAAACTTCAAATTCAAAAGGCTCATCTAACCAGACGCAATAAAACCTTAAATT
CAAAAGGCTCATATAACCAAAGGCAACAAAACTTTAAATTTAAAAAGCTCCTCTGAACAGAGGCA
ACGAACTTTAAATATGAAAAGGCTCTTTTAACCAGAGGTAATGAAACTTTAAATTTAATG
Found at i:6865570 original size:24 final size:24
Alignment explanation
Indices: 6865532--6865583 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
6865522 CTTTGACCAG
* * *
6865532 AGGCAACGAATTTTATATGTTAAA
1 AGGCAACGAACTTTAAAAGTTAAA
*
6865556 AGGCAATGAACTTTAAAAGTTAAA
1 AGGCAACGAACTTTAAAAGTTAAA
6865580 AGGC
1 AGGC
6865584 TTATTTGAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (24 bp):
AGGCAACGAACTTTAAAAGTTAAA
Found at i:6865660 original size:41 final size:40
Alignment explanation
Indices: 6865554--6865676 Score: 137
Period size: 40 Copynumber: 3.0 Consensus size: 40
6865544 TTATATGTTA
6865554 AAAGGCAATG-AACTTTAAA-AGTTAAAAGGCTTATTTGAA-C
1 AAAGGCAATGAAACTTTAAATA-TTAAAAGGCTT-TTT-AACC
* * *
6865594 AAAGGCAATAAAAATTTAAAT-TTAAAAAGCTCTTTTAACC
1 AAAGGCAATGAAACTTTAAATATTAAAAGGCT-TTTTAACC
*
6865634 AGAGGCAATGAAACTTTAAATATTAAAAGGCTTTTCTAACC
1 AAAGGCAATGAAACTTTAAATATTAAAAGGCTTTT-TAACC
6865675 AA
1 AA
6865677 TGGTAACGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
39 2 0.03
40 43 0.62
41 24 0.35
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.28
Consensus pattern (40 bp):
AAAGGCAATGAAACTTTAAATATTAAAAGGCTTTTTAACC
Found at i:6866782 original size:18 final size:18
Alignment explanation
Indices: 6866752--6866789 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
6866742 TTTTTTACCC
6866752 TTTTTTTAAGTAT-AATA
1 TTTTTTTAAGTATCAATA
*
6866769 TTTTTTTATTGTATCAATA
1 TTTTTTTA-AGTATCAATA
6866788 TT
1 TT
6866790 GACTAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 4 0.22
19 6 0.33
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTTTTAAGTATCAATA
Found at i:6875635 original size:46 final size:46
Alignment explanation
Indices: 6875555--6875647 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
6875545 TAAGATTTTT
* *
6875555 TTTCTTTTCATTACTTATACTTGCTTATTAATTTATTCATTTGTTA
1 TTTCTTTTCATTACTTATACTTACTTATTAATTTATTCATTTATTA
* * *
6875601 TTTCTTTTCATTGCTTATACTTATTTAATT-ATTTATTTATTTATTA
1 TTTCTTTTCATTACTTATACTTACTT-ATTAATTTATTCATTTATTA
6875647 T
1 T
6875648 ACATATACCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
46 38 0.93
47 3 0.07
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.63
Consensus pattern (46 bp):
TTTCTTTTCATTACTTATACTTACTTATTAATTTATTCATTTATTA
Found at i:6880875 original size:13 final size:13
Alignment explanation
Indices: 6880857--6880886 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6880847 GGCTGTCTAT
6880857 ATATGTTCTTTAG
1 ATATGTTCTTTAG
*
6880870 ATATGTTCTTTAT
1 ATATGTTCTTTAG
6880883 ATAT
1 ATAT
6880887 AGTTGGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (13 bp):
ATATGTTCTTTAG
Found at i:6882565 original size:162 final size:162
Alignment explanation
Indices: 6882101--6883406 Score: 741
Period size: 162 Copynumber: 8.1 Consensus size: 162
6882091 TATTTTTTTG
* * * * ** * * *
6882101 TTTTAACAGTTTAGATAGTTTCAATATATTATATTAAACTTACCCGAATGATTAAACTT-GGTTT
1 TTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTAGTTTT
* ** * * * * * * ** *
6882165 CACGGTTGATATGCATGAAAAAGTTATCGTTTATATCTCTTTAGGACTTTGCTATGTCGTTAAAA
66 CACGATTGATATGTGTGAAAAAATTACCATTTATGTCTATTTAAGACTTTTTTATGCCGTTAAAA
** * *
6882230 GG-CAAAATTTTAATTTTACAATTATATTTATG---
131 GGCCAAAA-TGCAAATTTA-TATT-TA-TTATGCTA
* * * * * * *
6882262 TTTTAACAGTTTAGATAG-TTAAATACATGATATTAAA-TCTATCAGTATAATTGAACTTGGTTT
1 TTTTAACAATTTAGATAGCTTCAATACATGATATTAAACT-TGTCTGAATGATTGAACTTAGTTT
* * * *** * * * * **
6882325 CCATGATT-A-ATGTGTGAAAAAGTTATTGTTTATATTTGTTT-AGCAC-TTTTTGTGCCCATAA
65 TCACGATTGATATGTGTGAAAAAATTACCATTTATGTCTATTTAAG-ACTTTTTTATGCCGTTAA
* * *
6882386 AAGGTCAAAATGCAAATTTGCT-TTTATTATGCCA
129 AAGGCCAAAATGCAAATTT-ATATTTATTATGCTA
* *
6882420 TTTTAACAATTTAGATAGCTTCAATAAATGATATTAAACTTGTTTGAATGATTGAACTTAGTTTG
1 TTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTAGTTT-
* * * * * * *
6882485 T-ACGGTTGATATGTATGAAAAAATTATCGTTTATGTCTATTTAAGATTTTTTTTTGCTGTTAAA
65 TCACGATTGATATGTGTGAAAAAATTACCATTTATGTCTATTTAAGACTTTTTTATGCCGTTAAA
* *
6882549 AGGCCAAAATGCAAATTTATGTTTATTATTCTA
130 AGGCCAAAATGCAAATTTATATTTATTATGCTA
* * * * * * *
6882582 TTTTAATAATTTAGATAGTTTCAATACATAATATTAAACTTATCCGAATAATTTAACTT-GATTT
1 TTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTAG-TTT
* * * * *
6882646 TCACGATTGATATATGCGAAAAAATTACCATTTATG-CATTTTTAAGACTTTGTTATGCCATTAA
65 TCACGATTGATATGTGTGAAAAAATTACCATTTATGTC-TATTTAAGACTTTTTTATGCCGTTAA
** * * * *
6882710 TGGGCAAAAATATC-ATTTTACAGTTATATTTATG---
129 AAGGCCAAAAT-GCAAATTTATA-TT-TA-TTATGCTA
* * * * * * *
6882744 TTTTAACAGTTTAGATAGCTTAAATACATGATATTAAATTTTTTTGAATGATTGTACTTGGTTTT
1 TTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTAGTTTT
* * * *
6882809 CACGATTGATATGTGTGAAAAAATTACCATTTATGTTTGTTTAACACTTTTTTGTGCCGTTAAAA
66 CACGATTGATATGTGTGAAAAAATTACCATTTATGTCTATTTAAGACTTTTTTATGCCGTTAAAA
* * * *
6882874 GGTCAAAATACAAATTTATATTTGTTATTCTA
131 GGCCAAAATGCAAATTTATATTTATTATGCTA
* * *
6882906 TTTCAACATTTTAGATAGCTTCAATACATGATATTAAACTTGTCTAAATGA-TGAAACTTAGTTT
1 TTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTG-AACTTAGTTT
* * * ** * * * * * *
6882970 TCA-TAGCTAATATGTGTGAAAATGTTACCATTTATGTCTTTTTAGGACCTTGTTACGTCGTTAA
65 TCACGA-TTGATATGTGTGAAAAAATTACCATTTATGTCTATTTAAGACTTTTTTATGCCGTTAA
* ** ** * *
6883034 AGGGTAAAAATTTAATTTTGTAGTTATACTTATG-T-
129 AAGGCCAAAATGCAAATTTATA-TT-TA-TTATGCTA
* * * * *
6883069 TTTT-ACAATTTAGATAGCTTTAATACATGATATTAAACTTATCTAAATGATTGAACTTGGTTCT
1 TTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTAGTTTT
** * ** ** * * * * * * **
6883133 -ATAATTTATATGCATGAAAAAGGTACCGTTTATGTCTTTTTAGGACTTTATTGTACCACT-AAA
66 CACGATTGATATGTGTGAAAAAATTACCATTTATGTCTATTTAAGACTTTTTTATGCCGTTAAAA
* * * * *
6883196 TGCAAAAATGTAATTTTACAGTTATATTTATG---
131 GGCCAAAATGCAAATTTATA-TT-TA-TTATGCTA
* * * * * * *
6883228 TTTTAACAGTTTAGGTAGCTTAAATACATTATATAAAATTTGTCTGAATGATTGAATTTAGTTTT
1 TTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTAGTTTT
* * * * * * * * *
6883293 CACGATTTAATATGTATCAATAAGTTACGATTTATGTCTGTTTAGGACTTTTTGTA--ACGTTAA
66 CACGA-TTGATATGTGTGAAAAAATTACCATTTATGTCTATTTAAGACTTTTT-TATGCCGTTAA
* * * * *
6883356 AA-GCTAAAAATGCAAATTTATAATTATTGTTCCA
129 AAGGC-CAAAATGCAAATTTATATTTATTATGCTA
6883390 TTTTAACAATTTAGATA
1 TTTTAACAATTTAGATA
6883407 ACTCCTATTA
Statistics
Matches: 892, Mismatches: 208, Indels: 89
0.75 0.17 0.07
Matches are distributed among these distances:
155 5 0.01
156 2 0.00
157 2 0.00
158 37 0.04
159 85 0.10
160 113 0.13
161 112 0.13
162 512 0.57
163 12 0.01
164 4 0.00
165 8 0.01
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (162 bp):
TTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTAGTTTT
CACGATTGATATGTGTGAAAAAATTACCATTTATGTCTATTTAAGACTTTTTTATGCCGTTAAAA
GGCCAAAATGCAAATTTATATTTATTATGCTA
Found at i:6882821 original size:324 final size:323
Alignment explanation
Indices: 6882420--6883174 Score: 868
Period size: 324 Copynumber: 2.3 Consensus size: 323
6882410 TATTATGCCA
* * * *
6882420 TTTTAACAATTTAGATAGCTTCAATAAATGATATTAAACTTGTTTGAATGATTGAACTTAGTTTG
1 TTTTAACAATTTAGATAGCTTAAATACATGATATTAAACTTATTTGAATGATTGAACTTGGTTT-
* * * * * *
6882485 TACGGTTGATATGTATGAAAAAATTATCGTTTATGTCTATTTAAGATTTTTTTTTGCTGTTAAAA
65 TACGATTGATATGTATGAAAAAATTACCGTTTATGTCTATTTAACACTTTTTTGTGCCGTTAAAA
* * * * *
6882550 GGCCAAAATGCAAATTTATGTTTATTATTCTATTTTAATAATTTAGATAGTTTCAATACATAATA
130 GGCCAAAATACAAATTTATATTTATTATTCTATTTCAACAATTTAGATAGCTTCAATACATAATA
* ** * *
6882615 TTAAACTTATCCGAATAATTTAACTT-GATTTTCACGA-TTGATATATGCGAAAAAATTACCATT
195 TTAAACTTATCCAAATAATGAAACTTAG-TTTTCA-GAGCTAATATATGCGAAAAAATTACCATT
* * * * *
6882678 TATG-CATTTTTAAGACTTTGTTATGCCATTAATGGGCAAAAATATCATTTTACAGTTATATTTA
258 TATGTC-TTTTTAAGACCTTGTTACGCCATTAAAGGGCAAAAATATAATTTTACAGTTATACTTA
6882742 TG
322 TG
* * * *
6882744 TTTTAACAGTTTAGATAGCTTAAATACATGATATTAAATTTTTTTGAATGATTGTACTTGGTTTT
1 TTTTAACAATTTAGATAGCTTAAATACATGATATTAAACTTATTTGAATGATTGAACTTGGTTTT
* * * *
6882809 CACGATTGATATGTGTGAAAAAATTACCATTTATGTTTGTTTAACACTTTTTTGTGCCGTTAAAA
66 -ACGATTGATATGTATGAAAAAATTACCGTTTATGTCTATTTAACACTTTTTTGTGCCGTTAAAA
* * * *
6882874 GGTCAAAATACAAATTTATATTTGTTATTCTATTTCAACATTTTAGATAGCTTCAATACATGATA
130 GGCCAAAATACAAATTTATATTTATTATTCTATTTCAACAATTTAGATAGCTTCAATACATAATA
* * * * * * **
6882939 TTAAACTTGTCTAAATGATGAAACTTAGTTTTCATAGCTAATATGTGTGAAAATGTTACCATTTA
195 TTAAACTTATCCAAATAATGAAACTTAGTTTTCAGAGCTAATATATGCGAAAAAATTACCATTTA
* * * * * **
6883004 TGTCTTTTTAGGACCTTGTTACGTCGTTAAAGGGTAAAAATTTAATTTTGTAGTTATACTTATG
260 TGTCTTTTTAAGACCTTGTTACGCCATTAAAGGGCAAAAATATAATTTTACAGTTATACTTATG
* * * * *
6883068 TTTTTACAATTTAGATAGCTTTAATACATGATATTAAACTTATCTAAATGATTGAACTTGGTTCT
1 TTTTAACAATTTAGATAGCTTAAATACATGATATTAAACTTATTTGAATGATTGAACTTGGTTTT
** * * ** *
6883133 ATAATTTATATGCATGAAAAAGGTACCGTTTATGTCTTTTTA
66 ACGATTGATATGTATGAAAAAATTACCGTTTATGTCTATTTA
6883175 GGACTTTATT
Statistics
Matches: 357, Mismatches: 70, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
323 34 0.10
324 321 0.90
325 2 0.01
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (323 bp):
TTTTAACAATTTAGATAGCTTAAATACATGATATTAAACTTATTTGAATGATTGAACTTGGTTTT
ACGATTGATATGTATGAAAAAATTACCGTTTATGTCTATTTAACACTTTTTTGTGCCGTTAAAAG
GCCAAAATACAAATTTATATTTATTATTCTATTTCAACAATTTAGATAGCTTCAATACATAATAT
TAAACTTATCCAAATAATGAAACTTAGTTTTCAGAGCTAATATATGCGAAAAAATTACCATTTAT
GTCTTTTTAAGACCTTGTTACGCCATTAAAGGGCAAAAATATAATTTTACAGTTATACTTATG
Found at i:6882966 original size:486 final size:481
Alignment explanation
Indices: 6882101--6883406 Score: 1350
Period size: 486 Copynumber: 2.7 Consensus size: 481
6882091 TATTTTTTTG
* * * * *
6882101 TTTTAACAGTTTAGATAGTTTCAATATATTATATTAAACTTACCCGAATGATTAAACTTGGTTTC
1 TTTTAACAATTTAGATAGTTTCAATACATAATATTAAACTTATCCGAATGATTAAACTTGTTTTC
* * * * *
6882166 ACGGTTG-ATATGCATGAAAAAGTTATCGTTTAT--ATCTCTTTAGGACTTTGCTATGTCGTTAA
66 ACGATTGTATATGCA-GAAAAAGTTACCGTTTATGCAT-T-TTTAGGACTTTGTTATGCCATT-A
* * * *
6882228 AAGGCAAAATTTTAATTTTACAATTATATTTATGTTTTAACAGTTTAGATAG-TTAAATACATGA
127 ATGGCAAAAATATAATTTTACAGTTATATTTATGTTTTAACAGTTTAGATAGCTTAAATACATGA
* * * * * * ***
6882292 TATTAAATCTATCAGTATAATTGAACTTGGTTTCCATGATTA-ATGTGTGAAAAAGTTATTGTTT
192 TATTAAATTTATCTGAATGATTGAACTTGGTTTTCACGATTATATGTGTGAAAAAGTTACCATTT
* ** * *
6882356 ATATTTGTTTAGCACTTTTTGTGCCCATAAAAGGTCAAAATGCAAATTTGCT-TTTATTATGCCA
257 ATGTTTGTTTAGCACTTTTTGTGCCGTTAAAAGGTCAAAATGCAAATTT-ATATTTATTATTCCA
* *
6882420 TTTTAACAATTTAGATAGCTTCAATAAATGATATTAAACTTGTTTGAATGATTGAACTTAGTTTG
321 TTTTAACAATTTAGATAGCTTCAATAAATGATATTAAACTTGTCTAAATGATTGAACTTAGTTT-
* * * * * ** * **
6882485 T-ACGGTTGATATGTATGAAAAAATTATCGTTTATGTCTATTTAAGATTTTTTTTTG-CTGTTAA
385 TCACAGCTAATATGTATGAAAAAATTACCATTTATGTCTATTTAAGACCTTGTTACGTC-GTTAA
* *
6882548 AAGGCCAAAATGCAAATTTATGT-TTATTA-TTCTA
449 AAGGCAAAAAT-CAAATTT-TGTATTA-TACTTATA
* * *
6882582 TTTTAATAATTTAGATAGTTTCAATACATAATATTAAACTTATCCGAATAATTTAACTTGATTTT
1 TTTTAACAATTTAGATAGTTTCAATACATAATATTAAACTTATCCGAATGATTAAACTTG-TTTT
* * *
6882647 CACGATTGATATATGC-GAAAAAATTACCATTTATGCATTTTTAAGACTTTGTTATGCCATTAAT
65 CACGATTG-TATATGCAGAAAAAGTTACCGTTTATGCATTTTTAGGACTTTGTTATGCCATTAAT
*
6882711 GGGCAAAAATATCATTTTACAGTTATATTTATGTTTTAACAGTTTAGATAGCTTAAATACATGAT
129 -GGCAAAAATATAATTTTACAGTTATATTTATGTTTTAACAGTTTAGATAGCTTAAATACATGAT
* * * *
6882776 ATTAAATTTTTTTGAATGATTGTACTTGGTTTTCACGATTGATATGTGTGAAAAAATTACCATTT
193 ATTAAATTTATCTGAATGATTGAACTTGGTTTTCACGATT-ATATGTGTGAAAAAGTTACCATTT
* * * *
6882841 ATGTTTGTTTAACACTTTTTTGTGCCGTTAAAAGGTCAAAATACAAATTTATATTTGTTATTCTA
257 ATGTTTGTTTAGCAC-TTTTTGTGCCGTTAAAAGGTCAAAATGCAAATTTATATTTATTATTCCA
* * *
6882906 TTTCAACATTTTAGATAGCTTCAATACATGATATTAAACTTGTCTAAATGA-TGAAACTTAGTTT
321 TTTTAACAATTTAGATAGCTTCAATAAATGATATTAAACTTGTCTAAATGATTG-AACTTAGTTT
* * ** * *
6882970 TCATAGCTAATATGTGTGAAAATGTTACCATTTATGTCTTTTTAGGACCTTGTTACGTCGTTAAA
385 TCACAGCTAATATGTATGAAAAAATTACCATTTATGTCTATTTAAGACCTTGTTACGTCGTTAAA
* * ** *
6883035 GGGTAAAAATTTAATTTTGTAGTTATACTTATG
450 AGGCAAAAATCAAATTTTGTA-TTATACTTATA
* * ** * *
6883068 TTTTTACAATTTAGATAGCTTT-AATACATGATATTAAACTTATCTAAATGATTGAACTTG-GTT
1 TTTTAACAATTTAGATAG-TTTCAATACATAATATTAAACTTATCCGAATGATTAAACTTGTTTT
** * * * * *
6883131 CTATAATT-TATATGCATGAAAAAGGTACCGTTTATGTC-TTTTTAGGACTTTATTGTACCACTA
65 C-ACGATTGTATATGCA-GAAAAAGTTACCGTTTATG-CATTTTTAGGACTTTGTTATGCCA-TT
* * *
6883194 AAT-GCAAAAATGTAATTTTACAGTTATATTTATGTTTTAACAGTTTAGGTAGCTTAAATACATT
126 AATGGCAAAAATATAATTTTACAGTTATATTTATGTTTTAACAGTTTAGATAGCTTAAATACATG
* * * * * * * *
6883258 ATATAAAATTTGTCTGAATGATTGAATTTAGTTTTCACGATTTAATATGTATCAATAAGTTACGA
191 ATATTAAATTTATCTGAATGATTGAACTTGGTTTTCACGA-TT-ATATGTGTGAAAAAGTTACCA
* * ** * * * *
6883323 TTTATGTCTGTTTAGGACTTTTTGTAACGTTAAAAGCTAAAAATGCAAATTTATAATTATTGTTC
254 TTTATGTTTGTTTAGCACTTTTTGTGCCGTTAAAAGGTCAAAATGCAAATTTATATTTATTATTC
6883388 CATTTTAACAATTTAGATA
319 CATTTTAACAATTTAGATA
6883407 ACTCCTATTA
Statistics
Matches: 682, Mismatches: 119, Indels: 45
0.81 0.14 0.05
Matches are distributed among these distances:
481 55 0.08
482 89 0.13
483 52 0.08
484 161 0.24
485 113 0.17
486 208 0.30
487 4 0.01
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (481 bp):
TTTTAACAATTTAGATAGTTTCAATACATAATATTAAACTTATCCGAATGATTAAACTTGTTTTC
ACGATTGTATATGCAGAAAAAGTTACCGTTTATGCATTTTTAGGACTTTGTTATGCCATTAATGG
CAAAAATATAATTTTACAGTTATATTTATGTTTTAACAGTTTAGATAGCTTAAATACATGATATT
AAATTTATCTGAATGATTGAACTTGGTTTTCACGATTATATGTGTGAAAAAGTTACCATTTATGT
TTGTTTAGCACTTTTTGTGCCGTTAAAAGGTCAAAATGCAAATTTATATTTATTATTCCATTTTA
ACAATTTAGATAGCTTCAATAAATGATATTAAACTTGTCTAAATGATTGAACTTAGTTTTCACAG
CTAATATGTATGAAAAAATTACCATTTATGTCTATTTAAGACCTTGTTACGTCGTTAAAAGGCAA
AAATCAAATTTTGTATTATACTTATA
Found at i:6888767 original size:3 final size:3
Alignment explanation
Indices: 6888759--6888802 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6888749 TCTTTGCTGA
6888759 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6888803 AGAAAACAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6893679 original size:32 final size:32
Alignment explanation
Indices: 6893642--6893705 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
6893632 ATTGGATTCG
*
6893642 AACAAAAAAGGCTAAC-AGAATACCTTGCTTCA
1 AACAAAAAAGACTAACTA-AATACCTTGCTTCA
*
6893674 AACAAAAAAGACTAACTAAATGCCTTGCTTCA
1 AACAAAAAAGACTAACTAAATACCTTGCTTCA
6893706 CTTTCCAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (32 bp):
AACAAAAAAGACTAACTAAATACCTTGCTTCA
Found at i:6904181 original size:21 final size:21
Alignment explanation
Indices: 6904155--6904196 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6904145 AGTGACTGTC
6904155 ATCTAATGAAAGGTTTATGAT
1 ATCTAATGAAAGGTTTATGAT
*
6904176 ATCTAATGAAGGGTTTATGAT
1 ATCTAATGAAAGGTTTATGAT
6904197 CAAATCACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (21 bp):
ATCTAATGAAAGGTTTATGAT
Found at i:6905234 original size:15 final size:14
Alignment explanation
Indices: 6905196--6905237 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
6905186 ATTTTAGAAA
6905196 TAATAAAGATAAATC
1 TAATAAA-ATAAATC
*
6905211 TAA-AAAATAAATAG
1 TAATAAAATAAAT-C
6905225 TAATAAAATAAAT
1 TAATAAAATAAAT
6905238 TTGATTATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.25
14 6 0.25
15 12 0.50
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (14 bp):
TAATAAAATAAATC
Found at i:6906817 original size:44 final size:44
Alignment explanation
Indices: 6906746--6906912 Score: 180
Period size: 44 Copynumber: 3.9 Consensus size: 44
6906736 TTATTTAATC
* * *
6906746 ATTTGACTTTGTGCATTTGCATCATTTCAATTGTCATATTGTTT
1 ATTTAACTTTATGCATTTGCATCATTTCAATTATCATATTGTTT
* * * * *
6906790 GTTTAACTTTACGCATTTGTATTATTTC--CTAT--TATTGTTT
1 ATTTAACTTTATGCATTTGCATCATTTCAATTATCATATTGTTT
* * *
6906830 ATTTAACTTTGTGTATTTGCATCATTTCGATTATCATATTGTTT
1 ATTTAACTTTATGCATTTGCATCATTTCAATTATCATATTGTTT
* * *
6906874 ATTTAACCTTATGCATTTGCATCATTCCAATTGTCATAT
1 ATTTAACTTTATGCATTTGCATCATTTCAATTATCATAT
6906913 AGGGAATATA
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
40 30 0.31
42 5 0.05
44 63 0.64
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (44 bp):
ATTTAACTTTATGCATTTGCATCATTTCAATTATCATATTGTTT
Found at i:6909072 original size:26 final size:26
Alignment explanation
Indices: 6909043--6909098 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
6909033 CATCATAATT
* * *
6909043 CTTAATTGTTGTAAAAGCATTAGTAC
1 CTTAATTATGGTAAAAGCATCAGTAC
*
6909069 CTTAATTATGGTAATAGCATCAGTAC
1 CTTAATTATGGTAAAAGCATCAGTAC
6909095 CTTA
1 CTTA
6909099 TCATATGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (26 bp):
CTTAATTATGGTAAAAGCATCAGTAC
Found at i:6910282 original size:83 final size:84
Alignment explanation
Indices: 6910187--6910341 Score: 233
Period size: 84 Copynumber: 1.9 Consensus size: 84
6910177 ATCTTATGTT
* ** ** *
6910187 AATAATGCCTTATGTTAAGGGGGCAAATT-TTAAAAAAAAATGATCTCATTAAAGGCA-TTGAAT
1 AATAATGCCTTATGTTAAGGGAGCAAATTCAAAAAAAAAAAAAATCTCATCAAAGGCATTTG-AT
6910250 CTTATGTTAAAGATTTAAGA
65 CTTATGTTAAAGATTTAAGA
6910270 AATAATGCCTTATGTTAAGGGAGCAAATTCAAAAAAAAAAAAAATCTCATCAAAGGCATTTGATC
1 AATAATGCCTTATGTTAAGGGAGCAAATTCAAAAAAAAAAAAAATCTCATCAAAGGCATTTGATC
6910335 TTATGTT
66 TTATGTT
6910342 GAAGGTTAGC
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
83 28 0.44
84 33 0.52
85 3 0.05
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.31
Consensus pattern (84 bp):
AATAATGCCTTATGTTAAGGGAGCAAATTCAAAAAAAAAAAAAATCTCATCAAAGGCATTTGATC
TTATGTTAAAGATTTAAGA
Found at i:6910414 original size:15 final size:15
Alignment explanation
Indices: 6910390--6910419 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6910380 GAAATCATGC
6910390 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
6910405 AAAAAGAAAAAAAAA
1 AAAAA-AAAAAAAAA
6910420 AGATGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:6910416 original size:17 final size:16
Alignment explanation
Indices: 6910390--6910422 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
6910380 GAAATCATGC
6910390 AAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAGA
6910406 AAAAGAAAAAAAAAAGA
1 AAAA-AAAAAAAAAAGA
6910423 TGAAAATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGA
Found at i:6911903 original size:103 final size:104
Alignment explanation
Indices: 6911715--6911998 Score: 306
Period size: 103 Copynumber: 2.6 Consensus size: 104
6911705 TGTGGAGAAG
* * *
6911715 GTAAGTATAAAGACTCTCTAGTGAAAGAATTTCAAATTCTCGTTTAAGAAGAAAACTTTCAAGGT
1 GTAAGTATAAAGACTCTCCAGTGAAAGAACTTCAAATTCTCGTTTAAGAAGAAAACTTTCAAAGT
*
6911780 AAAATTCTAATCTTTTAAAAA-AGGAA-ATTTCAAGAAAT
66 AAAATTCTAATCTTTGAAAAACA-GAATATTTCAAGAAAT
* *
6911818 GTAAGTATAAAGGCTCTCCGGTGAAAGAACTTCAAATTCTCGTTTAAGAAGAAAACTTTCAAAGT
1 GTAAGTATAAAGACTCTCCAGTGAAAGAACTTCAAATTCTCGTTTAAGAAGAAAACTTTCAAAGT
* *
6911883 AAAATTTTAAT-TCTTGAAAAACAGAATATTTCAAGGATAGCCT
66 AAAATTCTAATCT-TTGAAAAACAGAATATTTCAA-GA-A--AT
* * * * *
6911926 GAACAAGATTACTATAAAAACTCTCCAATGAAAGAACTTCCAATTCTCGTTTGAGAAG-AAACTT
1 G--TAAG-----TATAAAGACTCTCCAGTGAAAGAACTTCAAATTCTCGTTTAAGAAGAAAACTT
6911990 TCAAAGTAA
59 TCAAAGTAA
6911999 GAGTTTAATC
Statistics
Matches: 152, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
102 1 0.01
103 80 0.53
104 8 0.05
105 2 0.01
106 1 0.01
108 2 0.01
110 3 0.02
114 15 0.10
115 40 0.26
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (104 bp):
GTAAGTATAAAGACTCTCCAGTGAAAGAACTTCAAATTCTCGTTTAAGAAGAAAACTTTCAAAGT
AAAATTCTAATCTTTGAAAAACAGAATATTTCAAGAAAT
Found at i:6912277 original size:39 final size:40
Alignment explanation
Indices: 6912212--6912306 Score: 120
Period size: 39 Copynumber: 2.4 Consensus size: 40
6912202 CGGGTGTCAT
* * *
6912212 CTTATTTTTTAAAGTTGTATGCCTCTACTAGGGAAGAACC
1 CTTATTTTTTAAAATTATATGCCTCTACTAGGAAAGAACC
* * **
6912252 CTTA-TTTTTAAAATTATATGTCTCTATTAGGAAAGAGTC
1 CTTATTTTTTAAAATTATATGCCTCTACTAGGAAAGAACC
6912291 CTTATTTTTTAAAATT
1 CTTATTTTTTAAAATT
6912307 GTGTAACTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 32 0.68
40 15 0.32
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (40 bp):
CTTATTTTTTAAAATTATATGCCTCTACTAGGAAAGAACC
Found at i:6912746 original size:33 final size:34
Alignment explanation
Indices: 6912677--6912763 Score: 88
Period size: 33 Copynumber: 2.6 Consensus size: 34
6912667 GTTTAGTCTG
* ** *
6912677 TATATGTTTATTTATTTATTTTTTACTTTTTCTT
1 TATATGTTTACTTATTTATTTTTTACACTTTATT
6912711 TATAT-TTTACTTATTT-TATTTTTACACTTTATT
1 TATATGTTTACTTATTTAT-TTTTTACACTTTATT
* * *
6912744 TATCTGTCTATTTATTTATT
1 TATATGTTTACTTATTTATT
6912764 AATTTATTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
32 1 0.02
33 26 0.60
34 15 0.35
35 1 0.02
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (34 bp):
TATATGTTTACTTATTTATTTTTTACACTTTATT
Found at i:6914029 original size:20 final size:20
Alignment explanation
Indices: 6914006--6914049 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
6913996 CTATTTTAAT
* *
6914006 TTGTTTCATTTATATTTATA
1 TTGTTACATTTATATGTATA
**
6914026 TTGTTAGGTTTATATGTATA
1 TTGTTACATTTATATGTATA
6914046 TTGT
1 TTGT
6914050 CATATTAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.14, T:0.61
Consensus pattern (20 bp):
TTGTTACATTTATATGTATA
Found at i:6914313 original size:24 final size:25
Alignment explanation
Indices: 6914286--6914332 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6914276 AATTTAACCA
6914286 AATG-GTGAAATTCTAGAAATTAAG
1 AATGAGTGAAATTCTAGAAATTAAG
* *
6914310 AATGATTGAATTTCTAGAAATTA
1 AATGAGTGAAATTCTAGAAATTA
6914333 TTTGTAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (25 bp):
AATGAGTGAAATTCTAGAAATTAAG
Found at i:6916145 original size:19 final size:19
Alignment explanation
Indices: 6916103--6916171 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
6916093 GCAAATAATA
6916103 TCATGCAATAATAATATA-
1 TCATGCAATAATAATATAT
*
6916121 TCATGCAATTATAATATAT
1 TCATGCAATAATAATATAT
*
6916140 TCATGCAA-AAGTAATATAG
1 TCATGCAATAA-TAATATAT
6916159 TCATGCAATAATA
1 TCATGCAATAATA
6916172 TAATATATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
18 18 0.40
19 25 0.56
20 2 0.04
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (19 bp):
TCATGCAATAATAATATAT
Found at i:6917217 original size:15 final size:15
Alignment explanation
Indices: 6917180--6917218 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
6917170 ATTTTCTTTT
6917180 ATTTGA-TTTTTGTG
1 ATTTGATTTTTTGTG
* *
6917194 AATTCATTTTTTGTG
1 ATTTGATTTTTTGTG
6917209 ATTTGATTTT
1 ATTTGATTTT
6917219 CTAAGATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.64
Consensus pattern (15 bp):
ATTTGATTTTTTGTG
Found at i:6917383 original size:17 final size:17
Alignment explanation
Indices: 6917361--6917396 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6917351 ATAAAATCAA
*
6917361 AATTAAAAATAAAATTG
1 AATTAAAAACAAAATTG
*
6917378 AATTAAAACCAAAATTG
1 AATTAAAAACAAAATTG
6917395 AA
1 AA
6917397 ATTTTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (17 bp):
AATTAAAAACAAAATTG
Found at i:6917936 original size:17 final size:17
Alignment explanation
Indices: 6917914--6917960 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
6917904 TTTCATAAAA
*
6917914 AAAATTCGCAAAGA-TT
1 AAAATTCACAAAGAGTT
*
6917930 CAAAATTCACAAAAAGTT
1 -AAAATTCACAAAGAGTT
6917948 AAAATTCACAAAG
1 AAAATTCACAAAG
6917961 GTTTACAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 24 0.92
18 2 0.08
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (17 bp):
AAAATTCACAAAGAGTT
Found at i:6918126 original size:17 final size:18
Alignment explanation
Indices: 6918106--6918139 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6918096 TCTAGATTTA
*
6918106 CAAAGGTTTT-AGATTCG
1 CAAAGATTTTCAGATTCG
6918123 CAAAGATTTTCAGATTC
1 CAAAGATTTTCAGATTC
6918140 ATAAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (18 bp):
CAAAGATTTTCAGATTCG
Found at i:6918290 original size:51 final size:50
Alignment explanation
Indices: 6918226--6918326 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
6918216 TTTCAATTGT
* * *
6918226 GCAAGAATGGAAGATTCACAAAAAGTTTAAATTTTTAAGAACTTCAGTTTC
1 GCAAGAATAGAAGATTCACAAAAA-TTCAAATTTGTAAGAACTTCAGTTTC
* * *
6918277 GCAAGAATAGAAGATTTACAAAAATTCAAATTTGTAAGAATTTTAGTTTC
1 GCAAGAATAGAAGATTCACAAAAATTCAAATTTGTAAGAACTTCAGTTTC
6918327 TTCATTACCA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 22 0.50
51 22 0.50
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (50 bp):
GCAAGAATAGAAGATTCACAAAAATTCAAATTTGTAAGAACTTCAGTTTC
Found at i:6918539 original size:22 final size:22
Alignment explanation
Indices: 6918509--6918590 Score: 87
Period size: 22 Copynumber: 3.6 Consensus size: 22
6918499 CACCCACAAG
**
6918509 TTAAAGATTTTCATTTGAAAAT
1 TTAAAGATTCACATTTGAAAAT
*
6918531 TTAAGGATTCACATTT-AAAAT
1 TTAAAGATTCACATTTGAAAAT
6918552 TTCAAAGATTCACATTTGAAAAATT
1 TT-AAAGATTCACATTTG-AAAA-T
6918577 TTAGAA-ATTCACAT
1 TTA-AAGATTCACAT
6918591 CCAAAGTTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
21 7 0.14
22 26 0.51
24 13 0.25
25 5 0.10
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.39
Consensus pattern (22 bp):
TTAAAGATTCACATTTGAAAAT
Found at i:6918670 original size:46 final size:46
Alignment explanation
Indices: 6918541--6918710 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 46
6918531 TTAAGGATTC
* * ** ** *
6918541 ACATTTAAAATTTCAAAGATTCACATTTGAAAAATTTTAGAAATTC
1 ACATCTAAAATTTCAAAGATTCTCATTCAAAAAATTTTAGAGCTTT
* * * **
6918587 ACATCCAAAGTTTCAAA-AGTTCT-TTTTTAAAAATTTTATGA-CTTT
1 ACATCTAAAATTTCAAAGA-TTCTCATTCAAAAAATTTTA-GAGCTTT
*
6918632 ACATCTAAAACTTT-AAAGATTCTCATTCAAAAAATTTTAGAGTTTT
1 ACATCTAAAA-TTTCAAAGATTCTCATTCAAAAAATTTTAGAGCTTT
* *
6918678 GCATCTAAAATTTCAAAGATTCTCATTTAAAAA
1 ACATCTAAAATTTCAAAGATTCTCATTCAAAAA
6918711 GCTCATTTAA
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
45 36 0.36
46 65 0.64
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (46 bp):
ACATCTAAAATTTCAAAGATTCTCATTCAAAAAATTTTAGAGCTTT
Found at i:6918707 original size:91 final size:90
Alignment explanation
Indices: 6918436--6918710 Score: 220
Period size: 91 Copynumber: 3.1 Consensus size: 90
6918426 ATGATTCACA
* * * ** **
6918436 TAAAAGATTTTAGGGTTCACATCCAAAA-TTCAAAGATTCTTATTC-AAAAATTCCA-AAGATTC
1 TAAAA-ATTTAAGGATTCACATCTAAAATTTCAAAGATTCACATTCAAAAAATTTTAGAA-ATTC
* * * *
6918498 ACACCCACAAGTT-AAAGATTTTCATT
64 ACATCCAAAATTTCAAAGATTCTCATT
* * **
6918524 TGAAAATTTAAGGATTCACATTTAAAATTTCAAAGATTCACATTTGAAAAATTTTAGAAATTCAC
1 TAAAAATTTAAGGATTCACATCTAAAATTTCAAAGATTCACATTCAAAAAATTTTAGAAATTCAC
* **
6918589 ATCCAAAGTTTCAAA-AGTTCTTTTT
66 ATCCAAAATTTCAAAGA-TTCTCATT
* * * * ** *
6918614 TAAAAATTTTATGACTTTACATCTAAAACTTT-AAAGATTCTCATTCAAAAAATTTTAGAGTTTT
1 TAAAAATTTAAGGA-TTCACATCTAAAA-TTTCAAAGATTCACATTCAAAAAATTTTAGAAATTC
* *
6918678 GCATCTAAAATTTCAAAGATTCTCATT
64 ACATCCAAAATTTCAAAGATTCTCATT
6918705 TAAAAA
1 TAAAAA
6918711 GCTCATTTAA
Statistics
Matches: 146, Mismatches: 33, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
87 18 0.12
88 18 0.12
89 22 0.15
90 21 0.14
91 63 0.43
92 4 0.03
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.36
Consensus pattern (90 bp):
TAAAAATTTAAGGATTCACATCTAAAATTTCAAAGATTCACATTCAAAAAATTTTAGAAATTCAC
ATCCAAAATTTCAAAGATTCTCATT
Found at i:6918762 original size:14 final size:14
Alignment explanation
Indices: 6918740--6918771 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6918730 CTATAACTTT
6918740 AAAAGTTCAAAAAA
1 AAAAGTTCAAAAAA
*
6918754 AAAATTTCAAAAAA
1 AAAAGTTCAAAAAA
6918768 AAAA
1 AAAA
6918772 AATCTCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.16
Consensus pattern (14 bp):
AAAAGTTCAAAAAA
Found at i:6920005 original size:19 final size:19
Alignment explanation
Indices: 6919981--6920031 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
6919971 TACCCATCAA
6919981 TTTCTTTTACTTTTTTTTC
1 TTTCTTTTACTTTTTTTTC
6920000 TTTC-TTT-CTCTTTTTTTC
1 TTTCTTTTACT-TTTTTTTC
*
6920018 TTT-TTTTAATTTTT
1 TTTCTTTTACTTTTT
6920032 CATCATTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.07
18 21 0.75
19 5 0.18
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTCTTTTACTTTTTTTTC
Found at i:6922837 original size:15 final size:15
Alignment explanation
Indices: 6922819--6922849 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6922809 GCTCACATTT
6922819 TTCATTCATAGCCTC
1 TTCATTCATAGCCTC
*
6922834 TTCATTCTTAGCCTC
1 TTCATTCATAGCCTC
6922849 T
1 T
6922850 ATTTGTGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.32, G:0.06, T:0.45
Consensus pattern (15 bp):
TTCATTCATAGCCTC
Found at i:6924148 original size:59 final size:57
Alignment explanation
Indices: 6924076--6924242 Score: 194
Period size: 59 Copynumber: 2.8 Consensus size: 57
6924066 TTTTTATTAT
6924076 TTTCAAG-GAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAAAAATTTTTA
1 TTTCAAGAG-AAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTT-AAAATTTTTA
* * *
6924134 TTTCCAAGAGAAATTGATACTTTTAACTTTTTCTCAAAAATATATATTTTTAAATTTTTA
1 TTT-CAAGAGAAATTGATACTTTCAACTTTTTCTTAAAAATAT-T-TTTTAAAATTTTTA
* * *
6924194 TGTTCAAAAGAAATTAATACATTCAAC-TTTTCTTCAAAAAATATTTTTT
1 T-TTCAAGAGAAATTGATACTTTCAACTTTTTCTT--AAAAATATTTTTT
6924243 TTCAAATTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
58 3 0.03
59 45 0.48
60 32 0.34
61 14 0.15
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (57 bp):
TTTCAAGAGAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAAAATTTTTA
Found at i:6924156 original size:126 final size:127
Alignment explanation
Indices: 6923944--6924174 Score: 306
Period size: 126 Copynumber: 1.8 Consensus size: 127
6923934 TCTTCAAGTT
* * * *
6923944 TTATTTTTAAGCAAAATTGGTACTTCCAACTTTTCCTCAAGAAATGCTTTTTTTGAAAATTTTAT
1 TTATTTTCAAGCAAAATTGATACTTCCAACTTTTCCTCAAGAAAT-CATTTTTTAAAAATTTTAT
** *
6924009 TTTTAAAGAAAATTGATACTTTTAACTTTTCCTTAAAAATCCGTTCTTGAAATCTTTTTTTTA
65 TTCCAAAGAAAATTGATACTTTTAACTTTTCCTCAAAAATCCGTTCTTGAAATCTTTTTTTTA
* * * *
6924072 TTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTTAA-AAAT-ATTTTTTAAAAATTTTTAT
1 TTATTTTCAAGCAAAATTGATACTTCCAACTTTTCCTCAAGAAATCATTTTTTAAAAA-TTTTAT
*
6924135 TTCC-AAGAGAAATTGATACTTTTAACTTTTTCTCAAAAAT
65 TTCCAAAGA-AAATTGATACTTTTAACTTTTCCTCAAAAAT
6924175 ATATATTTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
125 14 0.16
126 37 0.42
127 4 0.04
128 34 0.38
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (127 bp):
TTATTTTCAAGCAAAATTGATACTTCCAACTTTTCCTCAAGAAATCATTTTTTAAAAATTTTATT
TCCAAAGAAAATTGATACTTTTAACTTTTCCTCAAAAATCCGTTCTTGAAATCTTTTTTTTA
Found at i:6924222 original size:60 final size:59
Alignment explanation
Indices: 6924085--6924257 Score: 199
Period size: 60 Copynumber: 2.9 Consensus size: 59
6924075 TTTTCAAGGA
* * *
6924085 AAATTGATACTTTCAACTTTTTCTTAAAAATAT-TTTTTAAAAATTTTTATTTCCAAGAG
1 AAATTGATACTTTCAACTTTTTCTCAAAAATATATTTTT-TAAATTTTTATTTCCAAAAG
*
6924144 AAATTGATACTTTTAACTTTTTCTCAAAAATATATATTTTTAAATTTTTATGTT-CAAAAG
1 AAATTGATACTTTCAACTTTTTCTCAAAAATATAT-TTTTTAAATTTTTAT-TTCCAAAAG
* * * *
6924204 AAATTAATACATTCAAC-TTTTCTTCAAAAAATATTTTTTTTCAAATTTTCATTT
1 AAATTGATACTTTCAACTTTTTC-TC-AAAAATATATTTTTT-AAATTTTTATTT
6924258 TAAAGAGATC
Statistics
Matches: 99, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
59 36 0.36
60 39 0.39
61 24 0.24
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (59 bp):
AAATTGATACTTTCAACTTTTTCTCAAAAATATATTTTTTAAATTTTTATTTCCAAAAG
Found at i:6925031 original size:5 final size:5
Alignment explanation
Indices: 6925023--6925063 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
6925013 GCTAATATCC
6925023 TAAAA TAAAA TAAATAA TAAGAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA T-AA-AA TAA-AA TAAAA TAAAA TAAAA TAA
6925064 CAAAAACCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
5 21 0.64
6 9 0.27
7 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:6925333 original size:44 final size:44
Alignment explanation
Indices: 6925281--6925574 Score: 229
Period size: 44 Copynumber: 6.6 Consensus size: 44
6925271 TTTGAACAAG
* * * *
6925281 TAAACAAAGC-TCTTTTAAACAGAGGCTTAATGATTTTGGAAAAA
1 TAAACAAAGCTTC-TCTAAACAGAGGCTCAATGACTTTAGAAAAA
* * *
6925325 TAAACAAAGCTCCTCTCATAAC--AGGCTTAATGACTTTAAAAAAAA
1 TAAACAAAGCTTCTCT-A-AACAGAGGCTCAATGACTTT-AGAAAAA
* * *
6925370 TAAACAAGGCTTCTCT-AACTAGAGGGTCAATGACTTTGGAAAAA
1 TAAACAAAGCTTCTCTAAAC-AGAGGCTCAATGACTTTAGAAAAA
* * *
6925414 TAAATAAAGCTTCTCTAATCAGAGGCTCAATGACTTTACAAAAA
1 TAAACAAAGCTTCTCTAAACAGAGGCTCAATGACTTTAGAAAAA
* * * * **
6925458 TAAACAAGGCTGCTCCTTTAACCACAGGCTCAACAACTTT-GAAAAAA
1 TAAACAAAGCT--T-CTCTAAACAGAGGCTCAATGACTTTAG-AAAAA
* * * *
6925505 TAAATAAAGCTTCTCTAATCAGAGGCTCAACGACTTTAAAAAGAA
1 TAAACAAAGCTTCTCTAAACAGAGGCTCAATGACTTTAGAAA-AA
* * *
6925550 TAAACAAGGCTCCTCTAATCAGAGG
1 TAAACAAAGCTTCTCTAAACAGAGG
6925575 TTCACAACTT
Statistics
Matches: 201, Mismatches: 35, Indels: 27
0.76 0.13 0.10
Matches are distributed among these distances:
42 3 0.01
44 99 0.49
45 61 0.30
46 4 0.02
47 34 0.17
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (44 bp):
TAAACAAAGCTTCTCTAAACAGAGGCTCAATGACTTTAGAAAAA
Found at i:6925440 original size:89 final size:89
Alignment explanation
Indices: 6925303--6925567 Score: 325
Period size: 91 Copynumber: 3.0 Consensus size: 89
6925293 TTTTAAACAG
* * * * * * * *
6925303 AGGCTTAATGATTTTGGAAAAATAAACAAAGCTCCTCTCATAACAGGCTTAATGACTTTAAAAAA
1 AGGCTCAATGACTTTGGAAAAATAAATAAAGCTTCTCTAATCAGAGGCTCAATGACTTTAAAAAA
* *
6925368 AATAAACAAGGCTTCTCTAACTAG
66 AATAAACAAGGCTTCTCTAACCAC
* *
6925392 AGGGTCAATGACTTTGGAAAAATAAATAAAGCTTCTCTAATCAGAGGCTCAATGACTTT-ACAAA
1 AGGCTCAATGACTTTGGAAAAATAAATAAAGCTTCTCTAATCAGAGGCTCAATGACTTTAAAAAA
*
6925456 AATAAACAAGGCTGCTCCTTTAACCAC
66 AATAAACAAGGCT--T-CTCTAACCAC
** * * *
6925483 AGGCTCAACAACTTTGAAAAAATAAATAAAGCTTCTCTAATCAGAGGCTCAACGACTTTAAAAAG
1 AGGCTCAATGACTTTGGAAAAATAAATAAAGCTTCTCTAATCAGAGGCTCAATGACTTTAAAAAA
*
6925548 AATAAACAAGGCTCCTCTAA
66 AATAAACAAGGCTTCTCTAA
6925568 TCAGAGGTTC
Statistics
Matches: 150, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
88 17 0.11
89 55 0.37
90 1 0.01
91 61 0.41
92 16 0.11
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (89 bp):
AGGCTCAATGACTTTGGAAAAATAAATAAAGCTTCTCTAATCAGAGGCTCAATGACTTTAAAAAA
AATAAACAAGGCTTCTCTAACCAC
Found at i:6926042 original size:79 final size:80
Alignment explanation
Indices: 6925941--6926266 Score: 435
Period size: 79 Copynumber: 4.1 Consensus size: 80
6925931 CATCTTAAAG
* * * ** *
6925941 ATTCTTATTTGAATTTGAAGATTCACATTCGATAAATTTTTG-GTTTCACATTTCAAATATTCTC
1 ATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTTGAGTTTCACACCTCAAAGATTCTC
6926005 ATTTGAAATTCAAAA
66 ATTTGAAATTCAAAA
* * *
6926020 ATTCTCATTTGAATTCGAAGATTCACATTCGA-AAAATTTTGAGATTCATACCTCAAAGATTCTC
1 ATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTTGAGTTTCACACCTCAAAGATTCTC
*
6926084 ATTTGAAATTCAAAT
66 ATTTGAAATTCAAAA
* * *
6926099 ATTCTAATTTGAATTCGAAGATTCACATTTGACAAA-TTTTGGGTTTCACACCTCAAAGATTCTC
1 ATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTTGAGTTTCACACCTCAAAGATTCTC
6926163 ATTTGAAATTCAAAA
66 ATTTGAAATTCAAAA
* * ** * *
6926178 ATTTTTATTTGAATTTTAAGATTCACATTCGACAAA-TTTTGAGTTTCAAACCTTAAAGATTCTC
1 ATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTTGAGTTTCACACCTCAAAGATTCTC
*
6926242 ATTTGAAATTCAAAG
66 ATTTGAAATTCAAAA
*
6926257 ATTATCATTT
1 ATTCTCATTT
6926267 AACATTAAAA
Statistics
Matches: 219, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
78 8 0.04
79 208 0.95
80 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (80 bp):
ATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTTGAGTTTCACACCTCAAAGATTCTC
ATTTGAAATTCAAAA
Found at i:6926048 original size:20 final size:21
Alignment explanation
Indices: 6925992--6926032 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6925982 GGTTTCACAT
*
6925992 TTCAAATATTCTCATTTGAAA
1 TTCAAAAATTCTCATTTGAAA
6926013 TTCAAAAATTCTCATTTGAA
1 TTCAAAAATTCTCATTTGAA
6926033 TTCGAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (21 bp):
TTCAAAAATTCTCATTTGAAA
Found at i:6926102 original size:21 final size:21
Alignment explanation
Indices: 6926072--6926130 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
6926062 GATTCATACC
6926072 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* *
6926093 TCAAATATTCTAATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
* *
6926113 TCGAAGATTCACATTTGA
1 TCAAAGATTCTCATTTGA
6926131 CAAATTTTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:6926144 original size:158 final size:158
Alignment explanation
Indices: 6925941--6926255 Score: 486
Period size: 158 Copynumber: 2.0 Consensus size: 158
6925931 CATCTTAAAG
* * * * ** *
6925941 ATTCTTATTTGAATTTGAAGATTCACATTCGATAAATTTTTGGTTTCACATTTCAAATATTCTCA
1 ATTCTAATTTGAATTCGAAGATTCACATTCGACAAATTTTGGGTTTCACACCTCAAAGATTCTCA
*
6926006 TTTGAAATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCGAAAAATTTTGAGATTCATAC
66 TTTGAAATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCGAAAAATTTTGAGATTCAAAC
6926071 CTCAAAGATTCTCATTTGAAATTCAAAT
131 CTCAAAGATTCTCATTTGAAATTCAAAT
*
6926099 ATTCTAATTTGAATTCGAAGATTCACATTTGACAAATTTTGGGTTTCACACCTCAAAGATTCTCA
1 ATTCTAATTTGAATTCGAAGATTCACATTCGACAAATTTTGGGTTTCACACCTCAAAGATTCTCA
* * ** * *
6926164 TTTGAAATTCAAAAATTTTTATTTGAATTTTAAGATTCACATTCGACAAATTTTGAGTTTCAAAC
66 TTTGAAATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCGAAAAATTTTGAGATTCAAAC
*
6926229 CTTAAAGATTCTCATTTGAAATTCAAA
131 CTCAAAGATTCTCATTTGAAATTCAAA
6926256 GATTATCATT
Statistics
Matches: 141, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
158 141 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.40
Consensus pattern (158 bp):
ATTCTAATTTGAATTCGAAGATTCACATTCGACAAATTTTGGGTTTCACACCTCAAAGATTCTCA
TTTGAAATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCGAAAAATTTTGAGATTCAAAC
CTCAAAGATTCTCATTTGAAATTCAAAT
Found at i:6926175 original size:21 final size:21
Alignment explanation
Indices: 6926151--6926190 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6926141 GTTTCACACC
*
6926151 TCAAAGATTCTCATTTGAAAT
1 TCAAAAATTCTCATTTGAAAT
* *
6926172 TCAAAAATTTTTATTTGAA
1 TCAAAAATTCTCATTTGAA
6926191 TTTTAAGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (21 bp):
TCAAAAATTCTCATTTGAAAT
Found at i:6926258 original size:21 final size:21
Alignment explanation
Indices: 6926232--6926399 Score: 196
Period size: 21 Copynumber: 8.0 Consensus size: 21
6926222 TTCAAACCTT
6926232 AAAGATTCTCATTTGAA-ATTC
1 AAAGATTCTCATTT-AAGATTC
* * *
6926253 AAAGATTATCATTTAACATTA
1 AAAGATTCTCATTTAAGATTC
*
6926274 AAATATTCTCATTTAAGGATTC
1 AAAGATTCTCATTTAA-GATTC
*
6926296 AAAGATTCTCATTTGAG-TTC
1 AAAGATTCTCATTTAAGATTC
* * * *
6926316 AAAGATTCACATTCAACACTC
1 AAAGATTCTCATTTAAGATTC
*
6926337 AAAAATTCTCATTTAAGATTC
1 AAAGATTCTCATTTAAGATTC
*
6926358 AAAGATTCTCATTTAAAATTC
1 AAAGATTCTCATTTAAGATTC
6926379 AAAGATTCTCATTTGAAGATT
1 AAAGATTCTCATTT-AAGATT
6926400 TCTTAAAGAT
Statistics
Matches: 122, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
20 18 0.15
21 82 0.67
22 22 0.18
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (21 bp):
AAAGATTCTCATTTAAGATTC
Found at i:6926346 original size:63 final size:62
Alignment explanation
Indices: 6926232--6926391 Score: 216
Period size: 63 Copynumber: 2.5 Consensus size: 62
6926222 TTCAAACCTT
* *
6926232 AAAGATTCTCATTTGAAATTCAAAGATT-ATCATTTAACATTAAAATATTCTCATTTAAGGATTC
1 AAAGATTCTCATTTG-AATTCAAAGATTCA-CATTCAACATCAAAATATTCTCATTTAA-GATTC
*
6926296 AAAGATTCTCATTTGAGTTCAAAGATTCACATTCAACACTCAAAA-ATTCTCATTTAAGATTC
1 AAAGATTCTCATTTGAATTCAAAGATTCACATTCAACA-TCAAAATATTCTCATTTAAGATTC
* *
6926358 AAAGATTCTCATTTAAAATTCAAAGATTCTCATT
1 AAAGATTCTCATTT-GAATTCAAAGATTCACATT
6926392 TGAAGATTTC
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
62 19 0.22
63 47 0.54
64 21 0.24
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (62 bp):
AAAGATTCTCATTTGAATTCAAAGATTCACATTCAACATCAAAATATTCTCATTTAAGATTC
Found at i:6926433 original size:46 final size:42
Alignment explanation
Indices: 6926232--6926426 Score: 176
Period size: 42 Copynumber: 4.5 Consensus size: 42
6926222 TTCAAACCTT
* * * * *
6926232 AAAGATTCTCATTTGAAATTCAAAGATTATCATTTAACATTA
1 AAAGATTCTCATTTAAAAATCAAAGATTCTCATTTAAGATTC
* * * *
6926274 AAATATTCTCATTTAAGGATTCAAAGATTCTCATTTGAG-TTC
1 AAAGATTCTCATTTAA-AAATCAAAGATTCTCATTTAAGATTC
* * * * *
6926316 AAAGATTCACATTCAACACTCAAAAATTCTCATTTAAGATTC
1 AAAGATTCTCATTTAAAAATCAAAGATTCTCATTTAAGATTC
*
6926358 AAAGATTCTCATTTAAAATTCAAAGATTCTCATTTGAAGATTTC
1 AAAGATTCTCATTTAAAAATCAAAGATTCTCATTT-AAGA-TTC
* *
6926402 TTAAAGATTTTTATTTAAGAAATCA
1 --AAAGATTCTCATTTAA-AAATCA
6926427 TGATTCTTAT
Statistics
Matches: 124, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
41 18 0.15
42 62 0.50
43 22 0.18
44 3 0.02
46 14 0.11
47 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (42 bp):
AAAGATTCTCATTTAAAAATCAAAGATTCTCATTTAAGATTC
Found at i:6927510 original size:10 final size:10
Alignment explanation
Indices: 6927497--6927607 Score: 60
Period size: 10 Copynumber: 11.8 Consensus size: 10
6927487 TTTTCTCTCA
6927497 TTTTCATCTT
1 TTTTCATCTT
*
6927507 TTTTC--CAT
1 TTTTCATCTT
*
6927515 TTTTCATTTT
1 TTTTCATCTT
6927525 TTTTCA--TT
1 TTTTCATCTT
6927533 TTTTCATCTT
1 TTTTCATCTT
**
6927543 TTTTTTTACTT
1 TTTTCAT-CTT
* *
6927554 TTTT-TTCAT
1 TTTTCATCTT
*
6927563 TTTTCATTTTT
1 TTTTCA-TCTT
6927574 TTTTCAT-TT
1 TTTTCATCTT
*
6927583 TTTT--T-AT
1 TTTTCATCTT
6927590 TTTTCATCTT
1 TTTTCATCTT
*
6927600 TTTCCATC
1 TTTTCATC
6927608 CATTAGTGGT
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
7 6 0.08
8 15 0.19
9 13 0.16
10 30 0.38
11 15 0.19
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTCATCTT
Found at i:6927518 original size:18 final size:19
Alignment explanation
Indices: 6927497--6927546 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
6927487 TTTTCTCTCA
6927497 TTTTCATCTTTTTTCCA-T
1 TTTTCATCTTTTTTCCATT
*
6927515 TTTTCAT-TTTTTTTCATT
1 TTTTCATCTTTTTTCCATT
6927533 TTTTCATCTTTTTT
1 TTTTCATCTTTTTT
6927547 TTTACTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 8 0.28
18 15 0.52
19 6 0.21
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCATCTTTTTTCCATT
Found at i:6927535 original size:11 final size:11
Alignment explanation
Indices: 6927514--6927587 Score: 72
Period size: 11 Copynumber: 7.4 Consensus size: 11
6927504 CTTTTTTCCA
6927514 TTTTTCA-TTT
1 TTTTTCATTTT
6927524 TTTTTCATTTT
1 TTTTTCATTTT
**
6927535 TTCATC-TTTT
1 TTTTTCATTTT
*
6927545 TTTTT-ACTTT
1 TTTTTCATTTT
6927555 TTTTTCA----
1 TTTTTCATTTT
6927562 TTTTTCATTTT
1 TTTTTCATTTT
6927573 TTTTTCATTTT
1 TTTTTCATTTT
6927584 TTTT
1 TTTT
6927588 ATTTTTCATC
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
7 7 0.13
10 22 0.42
11 23 0.44
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTCATTTT
Found at i:6927565 original size:18 final size:17
Alignment explanation
Indices: 6927505--6927602 Score: 73
Period size: 18 Copynumber: 5.9 Consensus size: 17
6927495 CATTTTCATC
* *
6927505 TTTTTTCCATTTTTCAT
1 TTTTTTTCATTTTTTAT
6927522 TTTTTTTCATTTTTTCA-
1 TTTTTTTCATTTTTT-AT
*
6927539 --TCTTT--TTTTTTACT
1 TTTTTTTCATTTTTTA-T
*
6927553 TTTTTTTCATTTTTCATT
1 TTTTTTTCATTTTTTA-T
6927571 TTTTTTTCATTTTTT-T
1 TTTTTTTCATTTTTTAT
*
6927587 TATTTTTCATCTTTTT
1 TTTTTTTCAT-TTTTT
6927603 CCATCCATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
12 1 0.02
13 6 0.09
15 4 0.06
16 14 0.22
17 18 0.28
18 22 0.34
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTTCATTTTTTAT
Found at i:6931504 original size:59 final size:59
Alignment explanation
Indices: 6931381--6931776 Score: 280
Period size: 59 Copynumber: 6.6 Consensus size: 59
6931371 ACTTTTATAC
** **
6931381 AAGAAAAATTGATACTTTCAACTTTTCCTT--AAAGCA-TT-TT-AAGGTTTTTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATTATTTCTTGAA--AATTTTATTTTT
* * * * *
6931437 AAGAAAAATTAATACTTTCAACATTTCTTTAAAAATATATTTCTT-CAAGTTTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAT-TATTTCTTGAAAATTTTATTTTT
* * * *
6931496 AAGCAAAATTGGTACTTGT-AACTTTTCCTCAAGAAATTATTTTTTTGAAAATTTTATTTTT
1 AAGAAAAATTGATACTT-TCAACTTTTCCTTAA-AAATTA-TTTCTTGAAAATTTTATTTTT
6931557 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATCT-TTTCTT-AAAATCTTTTTTTTTTTAA
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAT-TATTTCTTGAAAA---------TTTT-A
*
6931620 TTTTC
55 TTTTT
* * *
6931625 AAGGAAAATTGATACTTTCAACTTTTCCTTAAAAA-TATTT-TTAAAAAATTTTTATTTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATTATTTCTT-GAAAA-TTTTATTTTT
* * * * * * *
6931684 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTAAATTTTTATGTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATTATTTCTTGAAAATTTTATTTTT
*
6931742 AA-AAGAAATTGATACATTCAAC-TTTCCTTCAAAAA
1 AAGAA-AAATTGATACTTTCAACTTTTCCTT-AAAAA
6931777 AATATTTTTT
Statistics
Matches: 283, Mismatches: 30, Indels: 52
0.78 0.08 0.14
Matches are distributed among these distances:
56 27 0.10
57 7 0.02
58 39 0.14
59 90 0.32
60 24 0.08
61 43 0.15
66 3 0.01
67 7 0.02
68 43 0.15
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (59 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATTATTTCTTGAAAATTTTATTTTT
Found at i:6931565 original size:61 final size:59
Alignment explanation
Indices: 6931427--6931783 Score: 289
Period size: 59 Copynumber: 5.9 Consensus size: 59
6931417 TTTTAAGGTT
* * * * * *
6931427 TTTTATTTTTAAGAAAAATTAATACTTTCAACATTTCTTTAAAAATATATTTCTTCAAG
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTCTTAAAA
* * *
6931486 TTTTATTTTTAAGCAAAATTGGTACTTGT-AACTTTTCCTCAAGAAAT-TATTTTTTTGAAAA
1 TTTTATTTTTAAGAAAAATTGATACTT-TCAACTTTTCCTCAA-AAATATA-TTTCTT-AAAA
* *
6931547 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATCT-TTTCTTAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTCTTAAAA
* * *
6931605 TCTTTTTTTTTTTAATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATAT-TTT-TA
1 ---------TTTT-ATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTCT-
*
6931668 AAAAA
55 TAAAA
* * * *
6931673 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTAAAT
1 -TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTCTTAAAA
* * * *
6931732 TTTTATGTTCAA-AAGAAATTGATACATTCAAC-TTTCCTTCAAAAAAATATTT
1 TTTTATTTTTAAGAA-AAATTGATACTTTCAACTTTTCC-TCAAAAATATATTT
6931784 TTTTTCAAAT
Statistics
Matches: 253, Mismatches: 24, Indels: 42
0.79 0.08 0.13
Matches are distributed among these distances:
57 6 0.02
58 40 0.16
59 93 0.37
60 21 0.08
61 40 0.16
67 5 0.02
68 48 0.19
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.47
Consensus pattern (59 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTCTTAAAA
Found at i:6931606 original size:13 final size:15
Alignment explanation
Indices: 6931578--6931610 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
6931568 ATACTTTCAA
6931578 CTTTTCCTTAAAAAT
1 CTTTTCCTTAAAAAT
6931593 CTTTT-CTT-AAAAT
1 CTTTTCCTTAAAAAT
6931606 CTTTT
1 CTTTT
6931611 TTTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (15 bp):
CTTTTCCTTAAAAAT
Found at i:6931693 original size:127 final size:128
Alignment explanation
Indices: 6931486--6931730 Score: 336
Period size: 127 Copynumber: 1.9 Consensus size: 128
6931476 TTTCTTCAAG
* * **
6931486 TTTTATTTTTAAGCAAAATTGGTACTTGTAACTTTTCCTCAAGAAATTATTTTTTTGAAAATTTT
1 TTTTATTTTCAAGCAAAATTGATACTTGTAACTTTTCCTCAAGAAATTATTTTTTAAAAAATTTT
* * *
6931551 ATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATCTTTTCTTAAAATCTTTTTTT
66 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTCTTAAAATCTTTTTTT
* *
6931614 TTTTAATTTTCAAGGAAAATTGATACTT-TCAACTTTTCCTTAA-AAA-TA-TTTTTAAAAAATT
1 TTTT-ATTTTCAAGCAAAATTGATACTTGT-AACTTTTCCTCAAGAAATTATTTTTTAAAAAA-T
* *
6931675 TTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAA
63 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTCTTAAA
6931731 TTTTTATGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
126 9 0.09
127 54 0.52
128 8 0.08
129 32 0.31
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.49
Consensus pattern (128 bp):
TTTTATTTTCAAGCAAAATTGATACTTGTAACTTTTCCTCAAGAAATTATTTTTTAAAAAATTTT
ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTCTTAAAATCTTTTTTT
Found at i:6932193 original size:21 final size:19
Alignment explanation
Indices: 6932176--6932215 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6932166 CTTTTTCTTC
6932176 CCTTCTCTCTCTTTTTTCT
1 CCTTCTCTCTCTTTTTTCT
* *
6932195 CTTTTTCTCTCTTTTTATCT
1 CCTTCTCTCTCTTTTT-TCT
6932215 C
1 C
6932216 TAAAGTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.65
Consensus pattern (19 bp):
CCTTCTCTCTCTTTTTTCT
Found at i:6932205 original size:10 final size:10
Alignment explanation
Indices: 6932181--6932216 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
6932171 TCTTCCCTTC
6932181 TCTCTCTTTT
1 TCTCTCTTTT
6932191 T-TCTCTTTT
1 TCTCTCTTTT
6932200 TCTCTCTTTT
1 TCTCTCTTTT
*
6932210 TATCTCT
1 TCTCTCT
6932217 AAAGTTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (10 bp):
TCTCTCTTTT
Found at i:6934025 original size:72 final size:71
Alignment explanation
Indices: 6933944--6934381 Score: 264
Period size: 72 Copynumber: 5.9 Consensus size: 71
6933934 ATTTTTTTTA
* *
6933944 TTTTTAGAATTCAACAAAAATGATGTTTTAAAGATAAAACATGGTTTTTGTTG-AAATAGGAAAA
1 TTTTTAGAATTCAACAAAAATGAT-TTTTAAAGATAAAA-ATGGTCTTTGTTGAAAATATGAAAA
* *
6934008 AATATTAT
64 AAAAGTAT
* *
6934016 TTTTTAGAATTCAACAAATATAGAATTTTT-AAGATAAAAATGGTCTTTATTGAAAATATGAAAA
1 TTTTTAGAATTCAACAAAAAT-G-ATTTTTAAAGATAAAAATGGTCTTTGTTGAAAATATGAAAA
6934080 AAAAGTAT
64 AAAAGTAT
* * *
6934088 TTTTCAGAATTCAATAAAAACGATATTTTAACA-ATAAAAAAATGGTCTTTGTTGAAAATATGAA
1 TTTTTAGAATTCAACAAAAATGAT-TTTTAA-AGAT--AAAAATGGTCTTTGTTGAAAATATGAA
*
6934152 AAAAAA-AAT
62 AAAAAAGTAT
* * * * * * * * * *
6934161 TATTTTACAAATTTAATAAACGA-CATTTTT-AAGATAAAAAACTTGATTTTTATTTAAAGTATG
1 T-TTTTA-GAATTCAACAAA-AATGATTTTTAAAGAT-AAAAA--TGGTCTTTGTTGAAAATATG
***
6934224 -AAAAATTTTAT
60 AAAAAAAAGTAT
* * * * *
6934235 TTTTCAGAATTCAATAAATATGATGTTTCT-AAGATAAAAAAGTGGTATTTGATGAAAATATGAA
1 TTTTTAGAATTCAACAAAAATGAT-TTT-TAAAGAT-AAAAA-TGGTCTTTGTTGAAAATATG-A
* *
6934299 AAAAAAAATAC
61 AAAAAAAGTAT
* * * * *
6934310 TTTTTAGAATTCTTAACGAAAATGATATTTTTAAA-ATTAAAACTGCCATCTTTATTAAAAATAT
1 TTTTTAGAATTC--AACAAAAATG--ATTTTTAAAGA-TAAAAATG--GTCTTTGTTGAAAATAT
6934374 GAAAAAAA
59 GAAAAAAA
6934382 TTAAATTATG
Statistics
Matches: 287, Mismatches: 51, Indels: 51
0.74 0.13 0.13
Matches are distributed among these distances:
70 2 0.01
71 17 0.06
72 84 0.29
73 38 0.13
74 72 0.25
75 30 0.10
76 3 0.01
77 20 0.07
78 19 0.07
79 2 0.01
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (71 bp):
TTTTTAGAATTCAACAAAAATGATTTTTAAAGATAAAAATGGTCTTTGTTGAAAATATGAAAAAA
AAGTAT
Found at i:6934145 original size:74 final size:73
Alignment explanation
Indices: 6933941--6934321 Score: 300
Period size: 74 Copynumber: 5.2 Consensus size: 73
6933931 TGCATTTTTT
* * * * * *
6933941 TTATTTTT-AGAATTCAACAAAAATGATGTTTTAAAGAT-AAAACATGGTTTTTGTTG-AAATAG
1 TTATTTTTCAGAATTCAATAAAAACGATATTTT-AAGATAAAAAAATGGTCTTTGTTGAAAATAT
*
6934003 GAAAAAATA
65 GAAAAAAAA
* * *
6934012 TTATTTTTTAGAATTCAACAAATATA-GA-ATTTTTAAGAT--AAAAATGGTCTTTATTGAAAAT
1 TTATTTTTCAGAATTCAATAAA-A-ACGATA-TTTTAAGATAAAAAAATGGTCTTTGTTGAAAAT
6934073 ATGAAAAAAAA
63 ATGAAAAAAAA
* *
6934084 GTATTTTTCAGAATTCAATAAAAACGATATTTTAACAATAAAAAAATGGTCTTTGTTGAAAATAT
1 TTATTTTTCAGAATTCAATAAAAACGATATTTTAA-GATAAAAAAATGGTCTTTGTTGAAAATAT
6934149 GAAAAAAAAAA
65 G--AAAAAAAA
* * * * * * * * *
6934160 TTATTTTACA-AATTTAAT--AAACGACATTTTTAAGATAAAAAACTTGATTTTTATTTAAAGTA
1 TTATTTTTCAGAATTCAATAAAAACGATA-TTTTAAGATAAAAAA-ATGGTCTTTGTTGAAAATA
**
6934222 TG-AAAAATT
64 TGAAAAAAAA
* * * * * *
6934231 TTATTTTTCAGAATTCAATAAATATGATGTTTCTAAGATAAAAAAGTGGTATTTGATGAAAATAT
1 TTATTTTTCAGAATTCAATAAAAACGATATTT-TAAGATAAAAAAATGGTCTTTGTTGAAAATAT
6934296 GAAAAAAAAA
65 G-AAAAAAAA
*
6934306 ATACTTTTT-AGAATTC
1 TTA-TTTTTCAGAATTC
6934322 TTAACGAAAA
Statistics
Matches: 249, Mismatches: 40, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
70 1 0.00
71 45 0.18
72 60 0.24
73 39 0.16
74 62 0.25
75 21 0.08
76 21 0.08
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (73 bp):
TTATTTTTCAGAATTCAATAAAAACGATATTTTAAGATAAAAAAATGGTCTTTGTTGAAAATATG
AAAAAAAA
Found at i:6936700 original size:19 final size:19
Alignment explanation
Indices: 6936676--6936725 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
6936666 TAAATAAAAC
* *
6936676 AAGTAAAAGAATGATGGTA
1 AAGTAAAAAAATGATGATA
6936695 AAGTAAAAAAATGATGATA
1 AAGTAAAAAAATGATGATA
*
6936714 AAGCAAAAAAAT
1 AAGTAAAAAAAT
6936726 AAAAATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.62, C:0.02, G:0.18, T:0.18
Consensus pattern (19 bp):
AAGTAAAAAAATGATGATA
Found at i:6937399 original size:15 final size:15
Alignment explanation
Indices: 6937381--6937410 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6937371 AAAATATTTT
6937381 TAAATAAAAAAATTA
1 TAAATAAAAAAATTA
*
6937396 TAAATTAAAAAATTA
1 TAAATAAAAAAATTA
6937411 AAAAGCAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATAAAAAAATTA
Found at i:6949866 original size:26 final size:27
Alignment explanation
Indices: 6949832--6949886 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
6949822 TTCATACTCA
6949832 TTCTGTTAGAGAATGACAATACAGCTT
1 TTCTGTTAGAGAATGACAATACAGCTT
* * *
6949859 TTCT-TTAGAGAATTATAATACAGTTT
1 TTCTGTTAGAGAATGACAATACAGCTT
6949885 TT
1 TT
6949887 TTTTTCATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (27 bp):
TTCTGTTAGAGAATGACAATACAGCTT
Found at i:6953181 original size:47 final size:47
Alignment explanation
Indices: 6953087--6953185 Score: 121
Period size: 47 Copynumber: 2.1 Consensus size: 47
6953077 GTTTTCAAAT
* *
6953087 AAATTTTTAATAAATTAAAAAAAATCAAAATATTTTGAAATACTTTA
1 AAATTTTTAATAAAATAAAAAAAATCAAAATATTTTGAAAAACTTTA
* * *
6953134 AAATTTTATAA-AAAAT-AAAAAAATGAAAATATTTTTTAAAAATTTTA
1 AAATTTT-TAATAAAATAAAAAAAATCAAAATA-TTTTGAAAAACTTTA
6953181 AAATT
1 AAATT
6953186 ATGAAAACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
46 14 0.31
47 28 0.62
48 3 0.07
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (47 bp):
AAATTTTTAATAAAATAAAAAAAATCAAAATATTTTGAAAAACTTTA
Found at i:6953199 original size:46 final size:45
Alignment explanation
Indices: 6953104--6953208 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 45
6953094 TAATAAATTA
*
6953104 AAAAAAATCAAAATATTTTGAAATACTTTAAAATTTTATAAAAAAT
1 AAAAAAATCAAAATATTTTGAAAAACTTTAAAA-TTTATAAAAAAT
* * * **
6953150 AAAAAAATGAAAATATTTTTTAAAAATTTTAAAA-TTATGAAAACTT
1 AAAAAAATCAAAATA-TTTTGAAAAACTTTAAAATTTAT-AAAAAAT
*
6953196 AAAAAACTCAAAA
1 AAAAAAATCAAAA
6953209 AATCTAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
45 4 0.08
46 30 0.61
47 15 0.31
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (45 bp):
AAAAAAATCAAAATATTTTGAAAAACTTTAAAATTTATAAAAAAT
Found at i:6953201 original size:47 final size:46
Alignment explanation
Indices: 6953087--6953201 Score: 117
Period size: 47 Copynumber: 2.5 Consensus size: 46
6953077 GTTTTCAAAT
* *
6953087 AAATTTTTAATAAATTAAAAAAAATCAAAATATTTTGAAATACTTTA
1 AAATTTATAA-AAATTAAAAAAAATCAAAATATTTTGAAAAACTTTA
* * * *
6953134 AAATTTTATAAAAAAT-AAAAAAATGAAAATATTTTTTAAAAATTTTA
1 AAA-TTTATAAAAATTAAAAAAAATCAAAATA-TTTTGAAAAACTTTA
*
6953181 AAA-TTATGAAAACTTAAAAAA
1 AAATTTAT-AAAAATTAAAAAA
6953202 CTCAAAAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
45 4 0.07
46 19 0.34
47 27 0.48
48 6 0.11
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (46 bp):
AAATTTATAAAAATTAAAAAAAATCAAAATATTTTGAAAAACTTTA
Found at i:6953470 original size:19 final size:19
Alignment explanation
Indices: 6953430--6953473 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
6953420 TTTTATTTTT
* **
6953430 ATTTTTTAGAATTTTTTTA
1 ATTTTTTAGAATGTTTCAA
6953449 ATTTTTTAGAATGTTTCAA
1 ATTTTTTAGAATGTTTCAA
6953468 ATTTTT
1 ATTTTT
6953474 GAAAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (19 bp):
ATTTTTTAGAATGTTTCAA
Found at i:6953540 original size:9 final size:9
Alignment explanation
Indices: 6953430--6953545 Score: 56
Period size: 9 Copynumber: 12.6 Consensus size: 9
6953420 TTTTATTTTT
6953430 ATTTTTTAGA
1 ATTTTTTA-A
*
6953440 ATTTTTTTA
1 ATTTTTTAA
6953449 ATTTTTTAGA
1 ATTTTTTA-A
* *
6953459 ATGTTTCAA
1 ATTTTTTAA
*
6953468 ATTTTTGAA
1 ATTTTTTAA
**
6953477 A-AATTTAA
1 ATTTTTTAA
*
6953485 ATTGTTTAGA
1 ATTTTTTA-A
*
6953495 ATTTTTTTA
1 ATTTTTTAA
* *
6953504 A-TTTTCAT
1 ATTTTTTAA
6953512 ATTTTTTCAAA
1 ATTTTTT--AA
**
6953523 AAATTTTAA
1 ATTTTTTAA
6953532 ATTTTTTAA
1 ATTTTTTAA
*
6953541 CTTTT
1 ATTTT
6953546 AGTTTTTTTT
Statistics
Matches: 77, Mismatches: 23, Indels: 13
0.68 0.20 0.12
Matches are distributed among these distances:
8 10 0.13
9 40 0.52
10 21 0.27
11 6 0.08
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:6953627 original size:20 final size:20
Alignment explanation
Indices: 6953604--6953686 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
6953594 GAAAATTTTA
6953604 TTTTTATTAAAATTTTCATT
1 TTTTTATTAAAATTTTCATT
*
6953624 TTTTTATT----TTTTCATAC
1 TTTTTATTAAAATTTTCAT-T
* ***
6953641 TTTTT-TTAAATTTTTTGGGT
1 TTTTTATTAAA-ATTTTCATT
*
6953661 TTTTTATTAAAATTTTAATT
1 TTTTTATTAAAATTTTCATT
6953681 TTTTTA
1 TTTTTA
6953687 AATTTTCATA
Statistics
Matches: 47, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
16 9 0.19
17 5 0.11
20 24 0.51
21 9 0.19
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTTATTAAAATTTTCATT
Found at i:6953692 original size:29 final size:27
Alignment explanation
Indices: 6953599--6953686 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
6953589 TTTAAGAAAA
*
6953599 TTTTA-TTTTTATTAAAATTTTCATTT
1 TTTTATTTTTTATTAAAATTTTAATTT
***
6953625 TTTTATTTTTTCA-TACTTTTTTTAAATTT
1 TTTTATTTTTT-ATTA-AAATTTT-AATTT
**
6953654 TTTGGGTTTTTTATTAAAATTTTAATTT
1 TTT-TATTTTTTATTAAAATTTTAATTT
6953682 TTTTA
1 TTTTA
6953687 AATTTTCATA
Statistics
Matches: 45, Mismatches: 11, Indels: 11
0.67 0.16 0.16
Matches are distributed among these distances:
26 5 0.11
27 7 0.16
28 13 0.29
29 12 0.27
30 8 0.18
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.69
Consensus pattern (27 bp):
TTTTATTTTTTATTAAAATTTTAATTT
Found at i:6953701 original size:18 final size:18
Alignment explanation
Indices: 6953680--6953715 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6953670 AAATTTTAAT
6953680 TTTTTTAAATTTTCATAA
1 TTTTTTAAATTTTCATAA
*
6953698 TTTTTTAAATTTTTATAA
1 TTTTTTAAATTTTCATAA
6953716 AATTTAAAAA
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:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTTAAATTTTCATAA
Found at i:6953704 original size:56 final size:57
Alignment explanation
Indices: 6953604--6953711 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
6953594 GAAAATTTTA
* ** *
6953604 TTTTTATTAAAATTTTCATTTTTTTATTTTTTCATACTTTTTTTAAATTTTTTGGGT
1 TTTTTATTAAAATTTTAATTTTTTTAAATTTTCATACATTTTTTAAATTTTTTGGGT
6953661 TTTTTATTAAAATTTTAATTTTTTTAAATTTTCATA-ATTTTTTAAATTTTT
1 TTTTTATTAAAATTTTAATTTTTTTAAATTTTCATACATTTTTTAAATTTTT
6953712 ATAAAATTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
56 14 0.30
57 33 0.70
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.68
Consensus pattern (57 bp):
TTTTTATTAAAATTTTAATTTTTTTAAATTTTCATACATTTTTTAAATTTTTTGGGT
Found at i:6969708 original size:22 final size:23
Alignment explanation
Indices: 6969660--6969709 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
6969650 CAAAATTTAC
* *
6969660 ATAAAATTTTATAGGTAAAATTT
1 ATAAAATTTTATAGGTAAAAATA
* *
6969683 ATAAAATTTTTTA-TTAAAAATA
1 ATAAAATTTTATAGGTAAAAATA
6969705 ATAAA
1 ATAAA
6969710 TAAAAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
ATAAAATTTTATAGGTAAAAATA
Found at i:6969843 original size:21 final size:22
Alignment explanation
Indices: 6969801--6969844 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
6969791 AAAGGTCTAT
6969801 TTAATAAATATATCAAAATTTA
1 TTAATAAATATATCAAAATTTA
* * *
6969823 TTAA-AAATTTATTAAATTTTA
1 TTAATAAATATATCAAAATTTA
6969844 T
1 T
6969845 ATGTTTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAATAAATATATCAAAATTTA
Found at i:6973429 original size:13 final size:14
Alignment explanation
Indices: 6973411--6973463 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
6973401 TTTATAAAAA
6973411 ATATAAA-ATAAAT
1 ATATAAATATAAAT
*
6973424 ATATAAATTTAAAT
1 ATATAAATATAAAT
6973438 ATTTTATATAATATAAAT
1 A---TATA-AATATAAAT
6973456 ATATAAAT
1 ATATAAAT
6973464 TATCAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
13 7 0.21
14 9 0.27
15 4 0.12
17 4 0.12
18 9 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATAAATATAAAT
Found at i:6973523 original size:31 final size:33
Alignment explanation
Indices: 6973483--6973550 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
6973473 TAATGTTTTA
*
6973483 GCTTATTTTAAAAGT-AT-TAATAAAGCATGCT
1 GCTTATTTTAAAAATAATATAATAAAGCATGCT
*
6973514 GCTTCTTTTAAAAATAATAATAATAAAGCATGCT
1 GCTTATTTTAAAAATAAT-ATAATAAAGCATGCT
6973548 GCT
1 GCT
6973551 GCAGGTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 13 0.41
32 2 0.06
34 17 0.53
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (33 bp):
GCTTATTTTAAAAATAATATAATAAAGCATGCT
Found at i:6975824 original size:21 final size:21
Alignment explanation
Indices: 6975778--6975824 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
6975768 TTACTAATAG
*
6975778 TTATTTATTTTTAATATAAAA
1 TTATATATTTTTAATATAAAA
* *
6975799 ATATATATTATTTATTAT-AAA
1 TTATATATT-TTTAATATAAAA
6975820 TTATA
1 TTATA
6975825 AAAATCTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATATATTTTTAATATAAAA
Found at i:6976758 original size:3 final size:3
Alignment explanation
Indices: 6976752--6976782 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
6976742 AATAATAATA
*
6976752 ATT ATT ATT ATT ATT ATT ATT ATT ATA ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6976783 AATTAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:6986426 original size:23 final size:23
Alignment explanation
Indices: 6986400--6986455 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 23
6986390 ATTTCTATCA
6986400 AAAATTAATAAAATATTATTTTT
1 AAAATTAATAAAATATTATTTTT
*
6986423 AAAAAT-ATAAAATATTATTTTT
1 AAAATTAATAAAATATTATTTTT
*
6986445 TAAATATAATA
1 AAAAT-TAATA
6986456 TTTAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 19 0.68
23 6 0.21
24 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAATTAATAAAATATTATTTTT
Found at i:6986498 original size:12 final size:12
Alignment explanation
Indices: 6986481--6986505 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6986471 ATATAAATAT
6986481 ATAATTAATTAA
1 ATAATTAATTAA
6986493 ATAATTAATTAA
1 ATAATTAATTAA
6986505 A
1 A
6986506 AATAATTTTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATTAATTAA
Found at i:6991501 original size:58 final size:57
Alignment explanation
Indices: 6991431--6991547 Score: 180
Period size: 58 Copynumber: 2.0 Consensus size: 57
6991421 CACGTGGAGG
* * *
6991431 CTCACACTAGAATAGAATTACCGATATATCAATAATAATGGACTCAAAACAACACAAA
1 CTCACACAAGAATAGAATTACCGATATATAAAT-ATAATGGAATCAAAACAACACAAA
* *
6991489 CTCACACAAGAATAGAATTACTGATATATAAATATAATGGAATCAAACCAACACAAA
1 CTCACACAAGAATAGAATTACCGATATATAAATATAATGGAATCAAAACAACACAAA
6991546 CT
1 CT
6991548 TCTGTAAAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 24 0.44
58 30 0.56
ACGTcount: A:0.50, C:0.20, G:0.09, T:0.21
Consensus pattern (57 bp):
CTCACACAAGAATAGAATTACCGATATATAAATATAATGGAATCAAAACAACACAAA
Found at i:6995330 original size:22 final size:22
Alignment explanation
Indices: 6995295--6995337 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6995285 TTTATCATTT
*
6995295 TTTAAACAAAAAATTTTATATA
1 TTTAAACAAAAAATTATATATA
6995317 TTTAAA-AAATAAATTATATAT
1 TTTAAACAAA-AAATTATATAT
6995338 TGAATTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAAACAAAAAATTATATATA
Found at i:6998913 original size:24 final size:24
Alignment explanation
Indices: 6998869--6998915 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6998859 AAAACTAAAA
* *
6998869 TTTATTTTTTTACTTTTTTTAATT
1 TTTATTTTTATACTTTATTTAATT
6998893 TTTATTTTTCATA-TTTATTTAAT
1 TTTATTTTT-ATACTTTATTTAAT
6998916 ATATTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTATTTTTATACTTTATTTAATT
Found at i:6998961 original size:22 final size:22
Alignment explanation
Indices: 6998911--6998955 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6998901 TCATATTTAT
* *
6998911 TTAATATATTTATAAATATATA
1 TTAATATATTTATAAATAAAAA
*
6998933 TTAATATATTTTTAAATAAAAA
1 TTAATATATTTATAAATAAAAA
6998955 T
1 T
6998956 ATATATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAATATATTTATAAATAAAAA
Found at i:6999641 original size:17 final size:19
Alignment explanation
Indices: 6999619--6999658 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
6999609 TTATAATTTA
6999619 AAAATTAA-GAAAACAA-C
1 AAAATTAATGAAAACAACC
*
6999636 AAAATTAATGAAATCAACC
1 AAAATTAATGAAAACAACC
6999655 AAAA
1 AAAA
6999659 ACAACAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 7 0.35
19 5 0.25
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAATTAATGAAAACAACC
Found at i:7000871 original size:24 final size:21
Alignment explanation
Indices: 7000839--7000908 Score: 61
Period size: 24 Copynumber: 3.1 Consensus size: 21
7000829 AAAAGTTAGT
7000839 AAAAT-AAATAAAATAAAAAA
1 AAAATAAAATAAAATAAAAAA
*
7000859 CTCAAAATAAAATGAAACTTAAAATAA
1 ---AAAATAAAAT-AAA-ATAAAA-AA
*
7000886 AAAATAAAAAAAAATAAAAAA
1 AAAATAAAATAAAATAAAAAA
7000907 AA
1 AA
7000909 CTTGCGATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
21 4 0.10
22 5 0.12
23 8 0.20
24 13 0.32
25 3 0.08
26 5 0.12
27 2 0.05
ACGTcount: A:0.79, C:0.04, G:0.01, T:0.16
Consensus pattern (21 bp):
AAAATAAAATAAAATAAAAAA
Found at i:7000899 original size:10 final size:10
Alignment explanation
Indices: 7000884--7000908 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7000874 AACTTAAAAT
7000884 AAAAAATAAA
1 AAAAAATAAA
7000894 AAAAAATAAA
1 AAAAAATAAA
7000904 AAAAA
1 AAAAA
7000909 CTTGCGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:7001711 original size:11 final size:11
Alignment explanation
Indices: 7001692--7001873 Score: 124
Period size: 11 Copynumber: 16.0 Consensus size: 11
7001682 AAAAAAAATG
*
7001692 ATAAAATAA-A
1 ATAATATAATA
7001702 ATAATTATAATA
1 ATAA-TATAATA
7001714 ATAATATAATA
1 ATAATATAATA
*
7001725 ATACTATAAT-
1 ATAATATAATA
*
7001735 ATAATGTAATA
1 ATAATATAATA
*
7001746 ATAATAATAA-G
1 ATAAT-ATAATA
*
7001757 ATACTATAATATA
1 ATAATAT-A-ATA
7001770 ATAATATAATA
1 ATAATATAATA
* * * *
7001781 ACAACAACAACA
1 ATAA-TATAATA
7001793 ATAATATAAT-
1 ATAATATAATA
7001803 ATAATATAAT-
1 ATAATATAATA
*
7001813 ATAATATGAT-
1 ATAATATAATA
7001823 ATGATATGATACGATA
1 AT-A-AT-ATA--ATA
7001839 ATAATATAATA
1 ATAATATAATA
7001850 TGATAATATAATA
1 --ATAATATAATA
7001863 ATAATATAATA
1 ATAATATAATA
7001874 TACCATACTA
Statistics
Matches: 137, Mismatches: 19, Indels: 31
0.73 0.10 0.17
Matches are distributed among these distances:
10 35 0.26
11 54 0.39
12 19 0.14
13 22 0.16
14 2 0.01
15 3 0.02
16 2 0.01
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (11 bp):
ATAATATAATA
Found at i:7001716 original size:3 final size:3
Alignment explanation
Indices: 7001692--7001873 Score: 82
Period size: 3 Copynumber: 67.0 Consensus size: 3
7001682 AAAAAAAATG
* *
7001692 ATA A-A ATA A-A ATA ATT ATA ATA ATA AT- ATA ATA ATA CT- ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
7001735 ATA AT- GTA ATA ATA ATA ATA A-G ATA CT- ATA AT- ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
7001778 ATA ACA ACA ACA ACA ATA AT- ATA AT- ATA AT- ATA AT- ATA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
7001821 AT- ATG AT- ATG ATA CGATA ATA AT- ATA AT- ATG ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7001863 ATA AT- ATA ATA
1 ATA ATA ATA ATA
7001874 TACCATACTA
Statistics
Matches: 142, Mismatches: 14, Indels: 46
0.70 0.07 0.23
Matches are distributed among these distances:
2 38 0.27
3 101 0.71
5 3 0.02
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7001722 original size:5 final size:5
Alignment explanation
Indices: 7001692--7001875 Score: 106
Period size: 5 Copynumber: 35.6 Consensus size: 5
7001682 AAAAAAAATG
* * *
7001692 ATAAA ATAAA ATAATT ATAAT AATAAT ATAAT AATACT ATAAT ATAAT
1 ATAAT ATAAT ATAA-T ATAAT -ATAAT ATAAT -ATAAT ATAAT ATAAT
* * * * *
7001740 GTAAT AATAAT AATAAG ATACT ATAAT AT-A- ATAAT ATAAT AACAACA
1 ATAAT -ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAA-T
* * * * * **
7001787 ACAACA ATAAT ATAAT ATAAT ATAAT ATAAT ATGAT ATGAT ATGAT ACGAT
1 ATAA-T ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
*
7001838 AATAAT ATAAT AT--G ATAAT ATAAT AATAAT ATAAT ATA
1 -ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATA
7001876 CCATACTATA
Statistics
Matches: 148, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
3 4 0.03
4 2 0.01
5 100 0.68
6 42 0.28
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:7001722 original size:27 final size:26
Alignment explanation
Indices: 7001692--7001875 Score: 77
Period size: 29 Copynumber: 6.7 Consensus size: 26
7001682 AAAAAAAATG
7001692 ATAAAATAAAATAATTATAATAATAAT
1 ATAAAATAAAATAA-TATAATAATAAT
**
7001719 ATAATAATACTATAATATAATGTAATAAT
1 ATAA-AATAAAATAATATAA--TAATAAT
* * *
7001748 A-ATAATAAGATACTATAATATAATAAT
1 ATAAAATAAAATAATAT-A-ATAATAAT
* * *
7001775 ATAATAACAACAACAACAATAAT-ATAAT
1 ATAA-AATAA-AATAA-TATAATAATAAT
* * * *
7001803 ATAATATAATATAATATGAT-ATGAT
1 ATAAAATAAAATAATATAATAATAAT
* ** *
7001828 ATGATACGATAATAATATAATATGATAAT
1 AT-AAAATAAAATAATATAATA--ATAAT
*
7001857 ATAATAATAATATAATATA
1 ATAA-AATAAAATAATATA
7001876 CCATACTATA
Statistics
Matches: 111, Mismatches: 32, Indels: 26
0.66 0.19 0.15
Matches are distributed among these distances:
25 10 0.09
26 14 0.13
27 30 0.27
28 21 0.19
29 31 0.28
30 3 0.03
31 2 0.02
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (26 bp):
ATAAAATAAAATAATATAATAATAAT
Found at i:7001724 original size:8 final size:8
Alignment explanation
Indices: 7001696--7001873 Score: 76
Period size: 8 Copynumber: 22.5 Consensus size: 8
7001686 AAAATGATAA
*
7001696 AATAAAAT
1 AATAATAT
*
7001704 AATTATAAT
1 AATAAT-AT
7001713 AATAATAT
1 AATAATAT
7001721 AATAATACT
1 AATAATA-T
7001730 -AT-A-AT
1 AATAATAT
*
7001735 -ATAATGT
1 AATAATAT
7001742 AATAATAAT
1 AATAAT-AT
*
7001751 AATAAGAT
1 AATAATAT
7001759 ACTATAATAT
1 A--ATAATAT
7001769 AATAATAT
1 AATAATAT
*
7001777 AATAACA-
1 AATAATAT
*
7001784 ACA-ACA-AC
1 A-ATA-ATAT
7001792 AATAATAT
1 AATAATAT
7001800 AAT-ATA-
1 AATAATAT
7001806 ATATAATAT
1 A-ATAATAT
7001815 AAT-ATGAT
1 AATAAT-AT
*
7001823 -ATGATAT
1 AATAATAT
* **
7001830 GATACGAT
1 AATAATAT
7001838 AATAATAT
1 AATAATAT
7001846 AAT-ATGAT
1 AATAAT-AT
7001854 AAT-ATAAT
1 AATAAT-AT
7001862 AATAATAT
1 AATAATAT
7001870 AATA
1 AATA
7001874 TACCATACTA
Statistics
Matches: 133, Mismatches: 16, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
5 3 0.02
6 3 0.02
7 20 0.15
8 83 0.62
9 17 0.13
10 7 0.05
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (8 bp):
AATAATAT
Found at i:7004234 original size:27 final size:26
Alignment explanation
Indices: 7004203--7004291 Score: 69
Period size: 27 Copynumber: 3.3 Consensus size: 26
7004193 AGTGTCATAC
7004203 AAATATATTAATTACATGCAATAATA
1 AAATATATTAATTACATGCAATAATA
* *
7004229 ACAATA-ATGTAAATATAT--AATATTATGA
1 A-AATATAT-TAATTACATGCAATA--AT-A
7004257 AAATATATTAATTATCATGCAATAATA
1 AAATATATTAATTA-CATGCAATAATA
7004284 TAAA-ATAT
1 -AAATATAT
7004292 CATGCAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 19
0.68 0.06 0.26
Matches are distributed among these distances:
25 4 0.08
26 3 0.06
27 27 0.55
28 11 0.22
30 4 0.08
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (26 bp):
AAATATATTAATTACATGCAATAATA
Found at i:7004304 original size:20 final size:20
Alignment explanation
Indices: 7004197--7004304 Score: 70
Period size: 20 Copynumber: 5.7 Consensus size: 20
7004187 TGCCAAAGTG
* * *
7004197 TCATACAAATATATTAATTA
1 TCATGCAAATATATAAAATA
7004217 -CATGC-AATA-ATAACAATA
1 TCATGCAAATATATAA-AATA
*
7004235 --ATGTAAATATAT--AATA
1 TCATGCAAATATATAAAATA
* * * *
7004251 TTATGAAAATATATTAATTA
1 TCATGCAAATATATAAAATA
7004271 TCATGC-AATAATATAAAATA
1 TCATGCAAAT-ATATAAAATA
7004291 TCATGCAAATATAT
1 TCATGCAAATATAT
7004305 TAATAATTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
16 4 0.06
17 6 0.09
18 22 0.32
19 9 0.13
20 25 0.36
21 3 0.04
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (20 bp):
TCATGCAAATATATAAAATA
Found at i:7004482 original size:24 final size:24
Alignment explanation
Indices: 7004429--7004484 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
7004419 AATATCATTC
* *
7004429 AAATATAATATTAATCATGCAATG
1 AAATATAATATCAATCATACAATG
* *
7004453 ATATATAATATCATATTATACAAT-
1 AAATATAATATCA-ATCATACAATG
7004477 AAATATAA
1 AAATATAA
7004485 AATCGTGCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATATAATATCAATCATACAATG
Found at i:7004582 original size:20 final size:20
Alignment explanation
Indices: 7004559--7004606 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
7004549 ATAAATAAGT
7004559 AATT-AAATATATAATCATGC
1 AATTAAAATATA-AATCATGC
7004579 AATTAACAATATAAATCATGC
1 AATTAA-AATATAAATCATGC
*
7004600 AAATAAA
1 AATTAAA
7004607 CATGCAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 14 0.56
22 6 0.24
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.29
Consensus pattern (20 bp):
AATTAAAATATAAATCATGC
Found at i:7004608 original size:22 final size:22
Alignment explanation
Indices: 7004564--7004608 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
7004554 TAAGTAATTA
*
7004564 AATATATAATCATGCAATTAAC
1 AATATATAATCATGCAATAAAC
7004586 AATATA-AATCATGCAAATAAAC
1 AATATATAATCATGC-AATAAAC
7004608 A
1 A
7004609 TGCAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.27
Consensus pattern (22 bp):
AATATATAATCATGCAATAAAC
Found at i:7004672 original size:24 final size:22
Alignment explanation
Indices: 7004600--7004673 Score: 55
Period size: 24 Copynumber: 3.3 Consensus size: 22
7004590 TAAATCATGC
* *
7004600 AAATAAACATG-CAAT-TAAAT
1 AAATAATCATGTCAATAAAAAT
*
7004620 AAATAATCATGTCGATAAAAAT
1 AAATAATCATGTCAATAAAAAT
7004642 ATTAATAATCATG-CAATCACACAAAT
1 A--AATAATCATGTCAAT-A-A-AAAT
7004668 AAATAA
1 AAATAA
7004674 ATTAATAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 10 0.23
21 3 0.07
22 5 0.12
23 3 0.07
24 16 0.37
25 1 0.02
26 5 0.12
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.26
Consensus pattern (22 bp):
AAATAATCATGTCAATAAAAAT
Found at i:7004754 original size:55 final size:55
Alignment explanation
Indices: 7004687--7004963 Score: 262
Period size: 55 Copynumber: 4.9 Consensus size: 55
7004677 AATAATCATA
* * *
7004687 CAATTAAATATATAATCATGCAAATAGTAATATATAAACCATGCAAACAAACATG
1 CAATTAAATATATAATCATGCAAATAATAATACATAAATCATGCAAACAAACATG
* * *
7004742 TAATTAAATATATAATCATGTAAATAATAATACATAAATCATGCAAATAAACATG
1 CAATTAAATATATAATCATGCAAATAATAATACATAAATCATGCAAACAAACATG
* *
7004797 CAATTAAATATATAGTCATGCAAATAATAATACATAAATCATG----CAAATATG
1 CAATTAAATATATAATCATGCAAATAATAATACATAAATCATGCAAACAAACATG
** * *
7004848 TGATTAATAATATATAAACCATGCAAAATATGCAATTTAATACAT-AATCATGCAAATAAACATG
1 CAATT-A-AATATAT-AATCATGC--AA-AT--AA--TAATACATAAATCATGCAAACAAACATG
* *
7004912 CAATTAAATATAAAATCATGCAAATAAATATATTA-AT-AATCATGCAATCAAA
1 CAATTAAATATATAATCATGCAAAT-AATA-A-TACATAAATCATGCAAACAAA
7004964 TTAAATATCA
Statistics
Matches: 182, Mismatches: 24, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
51 9 0.05
52 1 0.01
53 7 0.04
54 6 0.03
55 91 0.50
56 18 0.10
57 6 0.03
58 2 0.01
59 4 0.02
60 7 0.04
61 15 0.08
62 6 0.03
63 1 0.01
64 9 0.05
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (55 bp):
CAATTAAATATATAATCATGCAAATAATAATACATAAATCATGCAAACAAACATG
Found at i:7004789 original size:23 final size:23
Alignment explanation
Indices: 7004755--7004845 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 23
7004745 TTAAATATAT
*
7004755 AATCATGTAAATAATAATACATA
1 AATCATGCAAATAATAATACATA
*
7004778 AATCATGCAAATAAACATGCAATTAAATA
1 AATCATGCAAAT--A-AT--AA-TACATA
7004807 TATAGTCATGCAAATAATAATACATA
1 -A-A-TCATGCAAATAATAATACATA
7004833 AATCATGCAAATA
1 AATCATGCAAATA
7004846 TGTGATTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
23 22 0.39
24 1 0.02
25 2 0.04
26 7 0.12
27 2 0.04
28 2 0.04
29 7 0.12
30 2 0.04
31 1 0.02
32 10 0.18
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (23 bp):
AATCATGCAAATAATAATACATA
Found at i:7004809 original size:110 final size:111
Alignment explanation
Indices: 7004677--7004944 Score: 300
Period size: 110 Copynumber: 2.4 Consensus size: 111
7004667 TAAATAAATT
* *
7004677 AATAATCATACAATTAAATATATAATCATGCAAATAGTAATATATAAACCATGCAAACAAACATG
1 AATAAACATGCAATTAAATATATAATCATGCAAATA-TAATATATAAACCATG----CAAACATG
* *
7004742 TAATT-A-AATATAT-AATCATG-TAA-AT-AA-TAATACATAAATCATGCA
61 TAATTAATAATATATAAACCATGAAAATATCAATTAATACAT-AATCATGCA
* * * * *
7004787 AATAAACATGCAATTAAATATATAGTCATGCAAATAATAATACATAAATCATGCAAATATGTGAT
1 AATAAACATGCAATTAAATATATAATCATGCAAAT-ATAATATATAAACCATGCAAACATGTAAT
7004852 TAATAATATATAAACCATGCAAAATATGCAATTTAATACATAATCATGCA
65 TAATAATATATAAACCATG-AAAATAT-CAA-TTAATACATAATCATGCA
*
7004902 AATAAACATGCAATTAAATATAAAATCATGCAAATA-AATATAT
1 AATAAACATGCAATTAAATATATAATCATGCAAATATAATATAT
7004945 TAATAATCAT
Statistics
Matches: 135, Mismatches: 12, Indels: 19
0.81 0.07 0.11
Matches are distributed among these distances:
106 11 0.08
107 1 0.01
108 7 0.05
109 6 0.04
110 46 0.34
111 3 0.02
112 2 0.01
113 6 0.04
114 3 0.02
115 42 0.31
116 8 0.06
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (111 bp):
AATAAACATGCAATTAAATATATAATCATGCAAATATAATATATAAACCATGCAAACATGTAATT
AATAATATATAAACCATGAAAATATCAATTAATACATAATCATGCA
Found at i:7004856 original size:31 final size:31
Alignment explanation
Indices: 7004814--7004905 Score: 109
Period size: 31 Copynumber: 3.0 Consensus size: 31
7004804 ATATATAGTC
*
7004814 ATGCAAATAATAATACATAAATCATGCAAAT
1 ATGCAATTAATAATACATAAATCATGCAAAT
** * *
7004845 ATGTGATTAATAATATATAAACCATGCAAAAT
1 ATGCAATTAATAATACATAAATCATGC-AAAT
7004877 ATGCAATT--TAATACAT-AATCATGCAAAT
1 ATGCAATTAATAATACATAAATCATGCAAAT
7004905 A
1 A
7004906 AACATGCAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
28 5 0.10
29 7 0.14
30 7 0.14
31 22 0.43
32 10 0.20
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (31 bp):
ATGCAATTAATAATACATAAATCATGCAAAT
Found at i:7004916 original size:32 final size:32
Alignment explanation
Indices: 7004877--7004939 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
7004867 CATGCAAAAT
* *
7004877 ATGCAATTTAATACATAATCATGCAAATAAAC
1 ATGCAATTAAATACAAAATCATGCAAATAAAC
*
7004909 ATGCAATTAAATATAAAATCATGCAAATAAA
1 ATGCAATTAAATACAAAATCATGCAAATAAA
7004940 TATATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (32 bp):
ATGCAATTAAATACAAAATCATGCAAATAAAC
Found at i:7004933 original size:20 final size:20
Alignment explanation
Indices: 7004908--7004974 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 20
7004898 TGCAAATAAA
*
7004908 CATGCAATTAAATATAAAAT
1 CATGCAATAAAATATAAAAT
7004928 CATGCAAATAAATATATTAATAAT
1 CATGC-AATAAA-ATA-TAA-AAT
*
7004952 CATGCAATCAAAT-TAAATAT
1 CATGCAATAAAATATAAA-AT
7004972 CAT
1 CAT
7004975 CATACAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 1 0.03
20 13 0.32
21 5 0.12
22 5 0.12
23 8 0.20
24 8 0.20
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.31
Consensus pattern (20 bp):
CATGCAATAAAATATAAAAT
Found at i:7004950 original size:44 final size:46
Alignment explanation
Indices: 7004902--7005042 Score: 141
Period size: 45 Copynumber: 3.1 Consensus size: 46
7004892 TAATCATGCA
* *
7004902 AATAAACATGCAATTAAA-TATAA-A-ATCATGCAAATAAATATATT
1 AATAAACATGCAATCAAATTA-AATACATCATACAAATAAATATATT
*
7004946 AATAATCATGCAATCAAATTAAATATCATCATACAAATAAATATATT
1 AATAAACATGCAATCAAATTAAATA-CATCATACAAATAAATATATT
* * * *
7004993 AATAATCA--CAA-CAAGATATTAATAAATCACACAAATAAATATATT
1 AATAAACATGCAATCAA-AT-TAAATACATCATACAAATAAATATATT
7005038 AATAA
1 AATAA
7005043 TGCAAACAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
44 21 0.25
45 32 0.38
46 5 0.06
47 27 0.32
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (46 bp):
AATAAACATGCAATCAAATTAAATACATCATACAAATAAATATATT
Found at i:7005042 original size:45 final size:45
Alignment explanation
Indices: 7004932--7005056 Score: 157
Period size: 45 Copynumber: 2.7 Consensus size: 45
7004922 TAAAATCATG
* *
7004932 CAAATAAATATATTAATAATCATGCAATCAAAT-TAAATATCATCATA
1 CAAATAAATATATTAATAATCA--CAA-CAAATATAAATATAATCACA
*
7004979 CAAATAAATATATTAATAATCACAACAAGATATTAATA-AATCACA
1 CAAATAAATATATTAATAATCACAACAA-ATATAAATATAATCACA
7005024 CAAATAAATATATTAATAATGCA-AACAAATATA
1 CAAATAAATATATTAATAAT-CACAACAAATATA
7005057 TTAGGCAAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
44 7 0.10
45 35 0.49
46 7 0.10
47 22 0.31
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (45 bp):
CAAATAAATATATTAATAATCACAACAAATATAAATATAATCACA
Found at i:7005051 original size:25 final size:23
Alignment explanation
Indices: 7004932--7005054 Score: 89
Period size: 24 Copynumber: 5.3 Consensus size: 23
7004922 TAAAATCATG
*
7004932 CAAATAAATATATTAATAATCATG
1 CAAATAAATATATTAATAATCA-A
7004956 C-AATCAAAT-TA--AATATCATCATA
1 CAAAT-AAATATATTAATA--ATCA-A
7004979 CAAATAAATATATTAATAATC-A
1 CAAATAAATATATTAATAATCAA
* *
7005001 C-AA-CAAGATATTAATAAATCACA
1 CAAATAAATATATTAAT-AATCA-A
7005024 CAAATAAATATATTAATAATGCAAA
1 CAAATAAATATATTAATAAT-C-AA
7005049 CAAATA
1 CAAATA
7005055 TATTAGGCAA
Statistics
Matches: 80, Mismatches: 5, Indels: 27
0.71 0.04 0.24
Matches are distributed among these distances:
20 10 0.12
21 10 0.12
22 2 0.03
23 17 0.21
24 18 0.22
25 18 0.22
26 5 0.06
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.28
Consensus pattern (23 bp):
CAAATAAATATATTAATAATCAA
Done.