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 44 of 131
Found at i:9263281 original size:127 final size:125
Alignment explanation
Indices: 9263122--9263435 Score: 432
Period size: 127 Copynumber: 2.5 Consensus size: 125
9263112 TCAAAGAGTA
* * *
9263122 ATTTATTTTTTCAAAAGTTTTGTTGCCTCTATTTAGAGGAGCTATTTATTTTTCCAAAGTTCTGT
1 ATTTATTTTTT-TAAAGTTCTGTTGCCTCTATTTAGAGGAGC-ATTTATTTTTCCAAAGTTCTAT
* * *
9263187 TGCCTCTATTTAGAGGAGCCATTT-ATTTTTCCAAAAGTTTTGTTGCCTCTATTTAGAAGAGCC
64 TGCCTCTATTTAGAAGAGCCATTTAATTTTT-C-AAAGTTCTGTTACCTCTATTTAGAAGAGCC
* * *
9263250 ATTTATTTTTTTAAAGTTCTATTACCTCTATTTAGATGAGCCATTTATTTTTCCAAAAGTTCTAT
1 ATTTATTTTTTTAAAGTTCTGTTGCCTCTATTTAGAGGAG-CATTTATTTTTCC-AAAGTTCTAT
* * *
9263315 TGCCTCTATTTATAAGAGCCATTTAATTTTTCAATGTTCTGTTACCTCTATTTAGAGGAGCC
64 TGCCTCTATTTAGAAGAGCCATTTAATTTTTCAAAGTTCTGTTACCTCTATTTAGAAGAGCC
* *
9263377 ATTTATTTTTCTAAAGTTCTGTTGCCTCTGTTTAGAGGAGCATTTATTTTTCTCAAAGT
1 ATTTATTTTTTTAAAGTTCTGTTGCCTCTATTTAGAGGAGCATTTATTTTTC-CAAAGT
9263436 CATTGAGCCT
Statistics
Matches: 165, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
126 17 0.10
127 98 0.59
128 44 0.27
129 6 0.04
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (125 bp):
ATTTATTTTTTTAAAGTTCTGTTGCCTCTATTTAGAGGAGCATTTATTTTTCCAAAGTTCTATTG
CCTCTATTTAGAAGAGCCATTTAATTTTTCAAAGTTCTGTTACCTCTATTTAGAAGAGCC
Found at i:9263738 original size:17 final size:18
Alignment explanation
Indices: 9263718--9263751 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9263708 ATTCAGCTGA
9263718 TTAT-TAATTTTATTTTT
1 TTATATAATTTTATTTTT
*
9263735 TTATATATTTTTATTTT
1 TTATATAATTTTATTTT
9263752 ATTAGATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATATAATTTTATTTTT
Found at i:9264079 original size:19 final size:20
Alignment explanation
Indices: 9264038--9264079 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
9264028 GTTAGGAGTT
* * *
9264038 TTTTTTTTTAATTTTTGGTA
1 TTTTTTTTAAATTTCTAGTA
9264058 TTTTTTTTAAATTTCTAG-A
1 TTTTTTTTAAATTTCTAGTA
9264077 TTT
1 TTT
9264080 CGACAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (20 bp):
TTTTTTTTAAATTTCTAGTA
Found at i:9264934 original size:187 final size:186
Alignment explanation
Indices: 9264631--9264971 Score: 424
Period size: 187 Copynumber: 1.8 Consensus size: 186
9264621 AAAATAATAA
* ** * * *
9264631 ATAATAAATTTTGAAAATAAATATTAATTATCCAATGATGAAATTTATAAAAATTTTAAACGGTA
1 ATAAAAAATTTTGAAAATAAATACAAATTACCCAAGGATGAAATTTATAAAAATTTCAAACGGTA
*
9264696 AATTTTTATAAAATTCTTAGGTAAGAAATTTTATCTAAATTTATCCCAAATGACAGAATAATTTA
66 AATTTTTAAAAAATTCTTAGGTAAGAAATTTTATCTAAATTTATCCCAAATGACAGAATAATTTA
9264761 GAT-AAAGTTTCAATAACAA-TAATTAATCTTTATTTTCAAACAAAGAAATAAAAAAT
131 GATGAAA-TTTCAAT-ACAAGTAATTAATCTTTATTTTCAAACAAAGAAATAAAAAAT
* * * * *
9264817 ATAAAAAATTTTGGAATTAAATACAAATTACCCAAGGATGAGATTCT-TAGAAATTTCAAATGGT
1 ATAAAAAATTTTGAAAATAAATACAAATTACCCAAGGATGAAATT-TATAAAAATTTCAAACGGT
* ***
9264881 AAATTTTTTAAAAAA-TCTCTAGGTGAGAAATTTCT-TCTAAATTTGA-CCCAAATGGTGGAATA
65 AAA-TTTTTAAAAAATTCT-TAGGTAAGAAATTT-TATCTAAATTT-ATCCCAAATGACAGAATA
*
9264943 ATTTAGTTGAAATTTCAATACAAGTAATT
126 ATTTAGATGAAATTTCAATACAAGTAATT
9264972 GCATTCTTTT
Statistics
Matches: 131, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
186 61 0.47
187 65 0.50
188 5 0.04
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.36
Consensus pattern (186 bp):
ATAAAAAATTTTGAAAATAAATACAAATTACCCAAGGATGAAATTTATAAAAATTTCAAACGGTA
AATTTTTAAAAAATTCTTAGGTAAGAAATTTTATCTAAATTTATCCCAAATGACAGAATAATTTA
GATGAAATTTCAATACAAGTAATTAATCTTTATTTTCAAACAAAGAAATAAAAAAT
Found at i:9265242 original size:55 final size:54
Alignment explanation
Indices: 9265181--9265352 Score: 188
Period size: 55 Copynumber: 3.1 Consensus size: 54
9265171 AAAAAAAAGA
9265181 ATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTTAGAAAAAA-GAAAAT
1 ATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAA--TTAGAAAAAAGGAAAAT
* * * * * ** *
9265236 ATTTCTAAATTGACCCAAATGGT-AGAAAATGTAGAAATAAAAAAATAATAAAAAGA
1 ATTTCTAAATAGGCCCAAATGGTGA-AAAATTTAGAAATTAGAAAA-AAGGAAAA-T
* *
9265292 ATTTCTAAATAGGCCCAAATGGTGGAAAATTTAAAAATTA-AAAAAAGGAAAAT
1 ATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTAGAAAAAAGGAAAAT
9265345 ATTTCTAA
1 ATTTCTAA
9265353 TTTTGCCCAA
Statistics
Matches: 96, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
53 14 0.15
54 9 0.09
55 40 0.42
56 33 0.34
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (54 bp):
ATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTAGAAAAAAGGAAAAT
Found at i:9265309 original size:56 final size:54
Alignment explanation
Indices: 9265170--9265337 Score: 196
Period size: 56 Copynumber: 3.0 Consensus size: 54
9265160 TCTAAGCAAG
* *
9265170 AAAAAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTTAGAA
1 AAAAAAAAAGAATTTCTAAATAGGCCCAAATGGTG-AAAATTTAGAAA-TTAAAAA
* * * * *
9265226 AAAAGAAAA-TATTTCTAAATTGACCCAAATGGTAGAAAATGTAGAAA-TAAAAA
1 AAAAAAAAAGAATTTCTAAATAGGCCCAAATGGT-GAAAATTTAGAAATTAAAAA
*
9265279 AATAATAAAAAGAATTTCTAAATAGGCCCAAATGGTGGAAAATTTAAAAATTAAAAA
1 AA-AA-AAAAAGAATTTCTAAATAGGCCCAAATGGT-GAAAATTTAGAAATTAAAAA
9265336 AA
1 AA
9265338 GGAAAATATT
Statistics
Matches: 93, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
53 6 0.06
54 2 0.02
55 36 0.39
56 41 0.44
57 8 0.09
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (54 bp):
AAAAAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAATTTAGAAATTAAAAA
Found at i:9265547 original size:11 final size:11
Alignment explanation
Indices: 9265533--9265582 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
9265523 TTCAATGTAT
9265533 TTTTTTTCTCA
1 TTTTTTTCTCA
*
9265544 TTTTTTTCT-T
1 TTTTTTTCTCA
*
9265554 TTTTTTTTTACA
1 TTTTTTTCT-CA
*
9265566 TTTTTTTCACA
1 TTTTTTTCTCA
9265577 TTTTTT
1 TTTTTT
9265583 ATTTTTCATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 8 0.25
11 17 0.53
12 7 0.22
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTTCTCA
Found at i:9265581 original size:26 final size:26
Alignment explanation
Indices: 9265552--9265601 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
9265542 CATTTTTTTC
9265552 TTTTTT-TTTTTACAT-TTTTTTCACA
1 TTTTTTATTTTT-CATATTTTTTCACA
9265577 TTTTTTATTTTTCATATTTTTTCAC
1 TTTTTTATTTTTCATATTTTTTCAC
9265602 TTAATCCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTTTTATTTTTCATATTTTTTCACA
Found at i:9265587 original size:16 final size:16
Alignment explanation
Indices: 9265568--9265598 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9265558 TTTTTACATT
9265568 TTTTTCACATTTTTTA
1 TTTTTCACATTTTTTA
*
9265584 TTTTTCATATTTTTT
1 TTTTTCACATTTTTT
9265599 CACTTAATCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTCACATTTTTTA
Found at i:9269694 original size:59 final size:60
Alignment explanation
Indices: 9269628--9269804 Score: 203
Period size: 61 Copynumber: 2.9 Consensus size: 60
9269618 AATACCTTTA
* * *
9269628 TTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAAGATATCTTTTGAAAATTT-ATC
1 TTCAAGAAAAATTAATACTTTCAACTTTTCCTTAAAAACATTTCTTTTGAAAATTTCATC
* * * ** * *
9269687 TTCAAGAAAAATTGATACTTTCATCTTTTCTTTAAAAATTTTTTTTTTTGAAAATTTCATT
1 TTCAAGAAAAATTAATACTTTCAACTTTTCCTTAAAAA-CATTTCTTTTGAAAATTTCATC
** * *
9269748 TTTGAGGAAAATTTATACTTTCAACTTTTCCTTAAAAACATTTCTTTTGAAATATTT
1 TTCAAGAAAAATTAATACTTTCAACTTTTCCTTAAAAACATTTCTTTTGAAA-ATTT
9269805 TTTTGAAAAA
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
59 34 0.35
60 25 0.26
61 38 0.39
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (60 bp):
TTCAAGAAAAATTAATACTTTCAACTTTTCCTTAAAAACATTTCTTTTGAAAATTTCATC
Found at i:9269768 original size:61 final size:60
Alignment explanation
Indices: 9269628--9269785 Score: 183
Period size: 59 Copynumber: 2.6 Consensus size: 60
9269618 AATACCTTTA
* * ** * *
9269628 TTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAA-GATATCTTTTGAAAATTTATC
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATTTTTTTTTTTGAAAATTTATC
* * *
9269687 TTCAAGAAAAATTGATACTTTCATCTTTTCTTTAAAAATTTTTTTTTTTGAAAATTTCATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATTTTTTTTTTTGAAAATTT-ATC
** * *
9269748 TTTGAGGAAAATTTATACTTTCAACTTTTCCTTAAAAA
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAA
9269786 CATTTCTTTT
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
59 34 0.41
60 14 0.17
61 34 0.41
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.45
Consensus pattern (60 bp):
TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATTTTTTTTTTTGAAAATTTATC
Found at i:9269836 original size:78 final size:76
Alignment explanation
Indices: 9269731--9269960 Score: 258
Period size: 78 Copynumber: 3.1 Consensus size: 76
9269721 AAAATTTTTT
* *
9269731 TTTTTGAAAA-TTTCA-TTTT-TGAGGAAAATTTATACTTTCAACTTTTCCTTAAAAACATTTCT
1 TTTTTGAAAATTTTAATTTTTCTAAGGAAAATTTATACTTTCAACTTTTCCTTAAAAACATTTCT
*
9269793 TTTGAAATATT
66 TTTGAAATATA
* * * * *
9269804 TTTTTGAAAAAAATTTTTA-TTTTCTAATGAAAATTGATACTTTCAACTTTTTCATAAAAACGAT
1 TTTTTG---AAAATTTTAATTTTTCTAAGGAAAATTTATACTTTCAACTTTTCCTTAAAAAC-AT
9269868 TTCTTTTGAAATATA
62 TTCTTTTGAAATATA
* * * *
9269883 TTTTTGAAAATTTTAATTTTTTTAAGGAAAA-TTATACTTTC-ATTTTTCCTT-AAAATATTTTT
1 TTTTTGAAAATTTTAATTTTTCTAAGGAAAATTTATACTTTCAACTTTTCCTTAAAAACATTTCT
*
9269945 TTTGAAATATG
66 TTTGAAATATA
9269956 TTTTT
1 TTTTT
9269961 ATTTTAAGAA
Statistics
Matches: 133, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
73 26 0.20
74 4 0.03
75 7 0.05
76 22 0.17
77 20 0.15
78 32 0.24
79 22 0.17
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (76 bp):
TTTTTGAAAATTTTAATTTTTCTAAGGAAAATTTATACTTTCAACTTTTCCTTAAAAACATTTCT
TTTGAAATATA
Found at i:9274785 original size:2 final size:2
Alignment explanation
Indices: 9274778--9274802 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9274768 CAATTGCTTC
9274778 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9274803 TCAAATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9277275 original size:31 final size:31
Alignment explanation
Indices: 9277240--9277300 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
9277230 ATATTATTAA
*
9277240 TGAATCAGATGATGACA-ATTCATTAATGAGG
1 TGAATCAGATGATAACACATT-ATTAATGAGG
* *
9277271 TGAATCTGATGATAATACATTATTAATGAG
1 TGAATCAGATGATAACACATTATTAATGAG
9277301 TAACTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (31 bp):
TGAATCAGATGATAACACATTATTAATGAGG
Found at i:9280731 original size:15 final size:17
Alignment explanation
Indices: 9280711--9280744 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
9280701 CTATATTTTC
9280711 TAAAATTTT-AA-ATTT
1 TAAAATTTTCAATATTT
9280726 TAAAATTTTCAATATTT
1 TAAAATTTTCAATATTT
9280743 TA
1 TA
9280745 TTTTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 2 0.12
17 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAAATTTTCAATATTT
Found at i:9281131 original size:20 final size:20
Alignment explanation
Indices: 9281105--9281151 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
9281095 ATTTAAATAT
9281105 TAAAAATATAGAAAATTTCTA
1 TAAAAATATAGAAAATTT-TA
*
9281126 -AAAAATATAGATAATTTTA
1 TAAAAATATAGAAAATTTTA
9281145 TAAAAAT
1 TAAAAAT
9281152 TCAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
TAAAAATATAGAAAATTTTA
Found at i:9283716 original size:64 final size:64
Alignment explanation
Indices: 9283644--9283848 Score: 232
Period size: 64 Copynumber: 3.3 Consensus size: 64
9283634 TTAAATTTTG
*
9283644 TTTTGATTTAATTTAAGTTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTTGCTA
1 TTTTGATTTAATTCAAGTTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTTGCTA
* * * **
9283708 TTTTGATTTAATTCAAG-TCTAGTTCATTTAATTCTAGTTTAGTT-TTGCT-C-TA-GCT--TTT
1 TTTTGATTTAATTCAAGTTCAAGCTC-TTTAATT-T--TTTA-TTCTTACTACTTATTTTAATTT
9283766 G---
61 GCTA
*
9283767 TTTTGATTTAATTTAAGTTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTTGCTA
1 TTTTGATTTAATTCAAGTTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTTGCTA
9283831 TTTTGATTTAATTCAAGT
1 TTTTGATTTAATTCAAGT
9283849 CTAGTTCATT
Statistics
Matches: 113, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
55 2 0.02
56 8 0.07
57 1 0.01
58 3 0.03
59 24 0.21
60 6 0.05
61 4 0.04
62 4 0.04
63 6 0.05
64 41 0.36
65 3 0.03
66 1 0.01
67 8 0.07
68 2 0.02
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.57
Consensus pattern (64 bp):
TTTTGATTTAATTCAAGTTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTTGCTA
Found at i:9283717 original size:59 final size:58
Alignment explanation
Indices: 9283654--9283847 Score: 184
Period size: 59 Copynumber: 3.2 Consensus size: 58
9283644 TTTTGATTTA
9283654 ATTTAAGTTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTTGCTATTTTG
1 ATTTAA-TTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTTGCTATTTTG
* **
9283713 ATTTAATTCAAGTCTAGTTCATTTAATTCTAGTTTAGTT-TTGCT-C-TAGCTTTTGTTTTG--A
1 ATTTAATTCAAG-C----TC-TTTAATT-T--TTTA-TTCTTACTACTTA--TTTTAATTTGCTA
*
9283773 -TTTA
54 TTTTG
9283777 ATTTAAGTTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTTGCTATTTTG
1 ATTTAA-TTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTTGCTATTTTG
9283836 ATTTAATTCAAG
1 ATTTAATTCAAG
9283848 TCTAGTTCAT
Statistics
Matches: 108, Mismatches: 8, Indels: 39
0.70 0.05 0.25
Matches are distributed among these distances:
55 2 0.02
56 16 0.15
57 1 0.01
58 16 0.15
59 23 0.21
60 2 0.02
63 2 0.02
64 17 0.16
65 10 0.09
66 1 0.01
67 16 0.15
68 2 0.02
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.56
Consensus pattern (58 bp):
ATTTAATTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTTGCTATTTTG
Found at i:9283738 original size:20 final size:20
Alignment explanation
Indices: 9283713--9283751 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9283703 TGCTATTTTG
9283713 ATTTAATTCAAGTCTAGTTC
1 ATTTAATTCAAGTCTAGTTC
* *
9283733 ATTTAATTCTAGTTTAGTT
1 ATTTAATTCAAGTCTAGTT
9283752 TTGCTCTAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (20 bp):
ATTTAATTCAAGTCTAGTTC
Found at i:9283768 original size:123 final size:123
Alignment explanation
Indices: 9283639--9283886 Score: 496
Period size: 123 Copynumber: 2.0 Consensus size: 123
9283629 GGAATTTAAA
9283639 TTTTGTTTTGATTTAATTTAAGTTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTT
1 TTTTGTTTTGATTTAATTTAAGTTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTT
9283704 GCTATTTTGATTTAATTCAAGTCTAGTTCATTTAATTCTAGTTTAGTTTTGCTCTAGC
66 GCTATTTTGATTTAATTCAAGTCTAGTTCATTTAATTCTAGTTTAGTTTTGCTCTAGC
9283762 TTTTGTTTTGATTTAATTTAAGTTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTT
1 TTTTGTTTTGATTTAATTTAAGTTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTT
9283827 GCTATTTTGATTTAATTCAAGTCTAGTTCATTTAATTCTAGTTTAGTTTTGCTCTAGC
66 GCTATTTTGATTTAATTCAAGTCTAGTTCATTTAATTCTAGTTTAGTTTTGCTCTAGC
9283885 TT
1 TT
9283887 GATTTTAGGT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 125 1.00
ACGTcount: A:0.23, C:0.11, G:0.10, T:0.56
Consensus pattern (123 bp):
TTTTGTTTTGATTTAATTTAAGTTCAAGCTCTTTAATTTTTTATTCTTACTACTTATTTTAATTT
GCTATTTTGATTTAATTCAAGTCTAGTTCATTTAATTCTAGTTTAGTTTTGCTCTAGC
Found at i:9283861 original size:20 final size:20
Alignment explanation
Indices: 9283836--9283874 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9283826 TGCTATTTTG
9283836 ATTTAATTCAAGTCTAGTTC
1 ATTTAATTCAAGTCTAGTTC
* *
9283856 ATTTAATTCTAGTTTAGTT
1 ATTTAATTCAAGTCTAGTT
9283875 TTGCTCTAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (20 bp):
ATTTAATTCAAGTCTAGTTC
Found at i:9287517 original size:153 final size:153
Alignment explanation
Indices: 9287304--9287579 Score: 552
Period size: 153 Copynumber: 1.8 Consensus size: 153
9287294 GAATATTTTG
9287304 CATTAATATGAAATAGATTATTCACACACACATGAAAATTTAAATTGAAATGGAGCTTATTCTTA
1 CATTAATATGAAATAGATTATTCACACACACATGAAAATTTAAATTGAAATGGAGCTTATTCTTA
9287369 AATAAATAAGGTGTTTAATCTACATTTATGATTTTCTTTAATTTGTATTCATTATGTAATAGATT
66 AATAAATAAGGTGTTTAATCTACATTTATGATTTTCTTTAATTTGTATTCATTATGTAATAGATT
9287434 ATTCATTAATATGAATTTGTATT
131 ATTCATTAATATGAATTTGTATT
9287457 CATTAATATGAAATAGATTATTCACACACACATGAAAATTTAAATTGAAATGGAGCTTATTCTTA
1 CATTAATATGAAATAGATTATTCACACACACATGAAAATTTAAATTGAAATGGAGCTTATTCTTA
9287522 AATAAATAAGGTGTTTAATCTACATTTATGATTTTCTTTAATTTGTATTCATTATGTA
66 AATAAATAAGGTGTTTAATCTACATTTATGATTTTCTTTAATTTGTATTCATTATGTA
9287580 GTTTTTTAGA
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 123 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (153 bp):
CATTAATATGAAATAGATTATTCACACACACATGAAAATTTAAATTGAAATGGAGCTTATTCTTA
AATAAATAAGGTGTTTAATCTACATTTATGATTTTCTTTAATTTGTATTCATTATGTAATAGATT
ATTCATTAATATGAATTTGTATT
Found at i:9288880 original size:21 final size:20
Alignment explanation
Indices: 9288827--9288888 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
9288817 TTTCTTAAGT
*
9288827 TTTCAA-TTCAATTCAATTTC
1 TTTCAAGTT-AATTTAATTTC
9288847 TTTCAAGTTAATTTAATTT-
1 TTTCAAGTTAATTTAATTTC
*
9288866 TTTGCAAGTTTAATTTAAGTTC
1 TTT-CAAG-TTAATTTAATTTC
9288888 T
1 T
9288889 CTAGCAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 3 0.08
20 19 0.53
21 13 0.36
22 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.06, T:0.53
Consensus pattern (20 bp):
TTTCAAGTTAATTTAATTTC
Found at i:9289204 original size:22 final size:21
Alignment explanation
Indices: 9289178--9289220 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9289168 GTTTATGTTA
*
9289178 TTGCATATTAGTTAAGTTTAAT
1 TTGCATATT-CTTAAGTTTAAT
*
9289200 TTGCATGTTCTTAAGTTTAAT
1 TTGCATATTCTTAAGTTTAAT
9289221 AAGTTCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (21 bp):
TTGCATATTCTTAAGTTTAAT
Found at i:9304650 original size:26 final size:26
Alignment explanation
Indices: 9304604--9304654 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
9304594 TGTTTGATTA
9304604 TTTGCCTATGTTGTCCTTTTTGGTTG
1 TTTGCCTATGTTGTCCTTTTTGGTTG
*
9304630 TTTGCTTATGTTGT-CTATTTTGGTT
1 TTTGCCTATGTTGTCCT-TTTTGGTT
9304655 TTGGTTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.06, C:0.12, G:0.22, T:0.61
Consensus pattern (26 bp):
TTTGCCTATGTTGTCCTTTTTGGTTG
Found at i:9308215 original size:31 final size:30
Alignment explanation
Indices: 9308172--9308230 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
9308162 TTAGTAAATG
* * *
9308172 ATATTATCTTTTTTAACTAATTTATTTTTT
1 ATATTATCTTTTTAAAATAAATTATTTTTT
*
9308202 ATATTATTGTTTTTAAAATAAATTATTTT
1 ATATTA-TCTTTTTAAAATAAATTATTTT
9308231 ATGGATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (30 bp):
ATATTATCTTTTTAAAATAAATTATTTTTT
Found at i:9309692 original size:7 final size:7
Alignment explanation
Indices: 9309680--9309704 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9309670 TTTTGTTAAT
9309680 AAAAATA
1 AAAAATA
9309687 AAAAATA
1 AAAAATA
9309694 AAAAATA
1 AAAAATA
9309701 AAAA
1 AAAA
9309705 GGAAAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:9310934 original size:42 final size:43
Alignment explanation
Indices: 9310888--9310977 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
9310878 AATAAAGTGG
* *
9310888 AAAAAAA-TTTAAAT-AGACCCAAATGGTAAAAAATTTAGAAAC
1 AAAAAAATTTTAAATGAG-CCCAAATGGTAAAAAACTTAAAAAC
* * *
9310930 AAAAAAATTTTAAATGAGCCTAAATGGTGAAAAACTTAAAAAT
1 AAAAAAATTTTAAATGAGCCCAAATGGTAAAAAACTTAAAAAC
9310973 AAAAA
1 AAAAA
9310978 TAAAAAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 7 0.17
43 32 0.78
44 2 0.05
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.22
Consensus pattern (43 bp):
AAAAAAATTTTAAATGAGCCCAAATGGTAAAAAACTTAAAAAC
Found at i:9311059 original size:161 final size:162
Alignment explanation
Indices: 9310836--9311158 Score: 621
Period size: 161 Copynumber: 2.0 Consensus size: 162
9310826 TCTAAATAGT
9310836 TCTAAATGATGAAAAATTTAGAAATTAAAAAAAAAAATTCTAAATAAAGTGGAAAAAAATTTAAA
1 TCTAAATGATGAAAAATTTAGAAATTAAAAAAAAAAATTCTAAATAAAGTGGAAAAAAATTTAAA
9310901 TAGACCCAAATGGTAAAAAATTTAGAAACAAAAAAATTTTAAATGAGCCTAAATGGTGAAAAACT
66 TAGACCCAAATGGTAAAAAATTTAGAAACAAAAAAATTTTAAATGAGCCTAAATGGTGAAAAACT
9310966 TAAAAATAAAAATAAAAAATAAATTTCAATAA
131 TAAAAATAAAAATAAAAAATAAATTTCAATAA
*
9310998 TCTAAATGATGAAAAATTTAGAAATT-AAAAAAAAATTTCTAAATAAAGTGGAAAAAAATTTAAA
1 TCTAAATGATGAAAAATTTAGAAATTAAAAAAAAAAATTCTAAATAAAGTGGAAAAAAATTTAAA
*
9311062 TAGACCCAAATGGTAAAAACTTTAGAAACAAAAAAATTTTAAATGAGCCTAAATGGTGAAAAACT
66 TAGACCCAAATGGTAAAAAATTTAGAAACAAAAAAATTTTAAATGAGCCTAAATGGTGAAAAACT
9311127 TAAAAATAAAAATAAAAAATAAATTTCAATAA
131 TAAAAATAAAAATAAAAAATAAATTTCAATAA
9311159 AAAAATTTTT
Statistics
Matches: 159, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
161 133 0.84
162 26 0.16
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.25
Consensus pattern (162 bp):
TCTAAATGATGAAAAATTTAGAAATTAAAAAAAAAAATTCTAAATAAAGTGGAAAAAAATTTAAA
TAGACCCAAATGGTAAAAAATTTAGAAACAAAAAAATTTTAAATGAGCCTAAATGGTGAAAAACT
TAAAAATAAAAATAAAAAATAAATTTCAATAA
Found at i:9311138 original size:43 final size:42
Alignment explanation
Indices: 9311049--9311138 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 42
9311039 AATAAAGTGG
*
9311049 AAAAAAATTTAAATAGACCCAAATGGTAAAAACTTTAGAAAC
1 AAAAAAATTTAAATAGACCCAAATGGTAAAAACTTTAAAAAC
* *
9311091 AAAAAAATTTTAAAT-GAGCCTAAATGGTGAAAAAC-TTAAAAAT
1 AAAAAAA-TTTAAATAGA-CCCAAATGGT-AAAAACTTTAAAAAC
9311134 AAAAA
1 AAAAA
9311139 TAAAAAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 9 0.21
43 27 0.64
44 6 0.14
ACGTcount: A:0.59, C:0.09, G:0.10, T:0.22
Consensus pattern (42 bp):
AAAAAAATTTAAATAGACCCAAATGGTAAAAACTTTAAAAAC
Found at i:9316700 original size:16 final size:16
Alignment explanation
Indices: 9316679--9316756 Score: 63
Period size: 16 Copynumber: 4.8 Consensus size: 16
9316669 AAATTTTCAA
9316679 AAAAATAGAAAAATGG
1 AAAAATAGAAAAATGG
9316695 AAAAAT-GAAAAAATGG
1 AAAAATAG-AAAAATGG
* * *
9316711 AAAAAAATGAAAACGTGA
1 AAAAATA-GAAAA-ATGG
*
9316729 AAAAATGAAAAAAAT-G
1 AAAAAT-AGAAAAATGG
9316745 AAAAAT-GAAAAA
1 AAAAATAGAAAAA
9316757 CAAAAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
14 5 0.10
15 1 0.02
16 25 0.51
17 5 0.10
18 12 0.24
19 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.15, T:0.12
Consensus pattern (16 bp):
AAAAATAGAAAAATGG
Found at i:9316715 original size:25 final size:24
Alignment explanation
Indices: 9316678--9316756 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 24
9316668 AAAATTTTCA
*
9316678 AAAAAATAG-AAAAATGGAAAAATG
1 AAAAAATGGAAAAAAT-GAAAAATG
*
9316702 AAAAAATGGAAAAAAATGAAAACGTG
1 AAAAAATGG-AAAAAATGAAAA-ATG
*
9316728 AAAAAATGAAAAAAATGAAAAATG
1 AAAAAATGGAAAAAATGAAAAATG
9316752 AAAAA
1 AAAAA
9316757 CAAAAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
24 15 0.31
25 17 0.35
26 16 0.33
ACGTcount: A:0.72, C:0.01, G:0.15, T:0.11
Consensus pattern (24 bp):
AAAAAATGGAAAAAATGAAAAATG
Found at i:9316739 original size:6 final size:7
Alignment explanation
Indices: 9316679--9316756 Score: 57
Period size: 8 Copynumber: 9.7 Consensus size: 7
9316669 AAATTTTCAA
9316679 AAAAATAG
1 AAAAAT-G
9316687 AAAAATGG
1 AAAAAT-G
9316695 AAAAATG
1 AAAAATG
9316702 AAAAAATGG
1 -AAAAAT-G
9316711 AAAAAAATG
1 --AAAAATG
*
9316720 AAAACGTG
1 AAAA-ATG
9316728 AAAAAATG
1 -AAAAATG
9316736 AAAAAAATG
1 --AAAAATG
9316745 AAAAATG
1 AAAAATG
9316752 AAAAA
1 AAAAA
9316757 CAAAAAAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
7 17 0.28
8 23 0.38
9 14 0.23
10 7 0.11
ACGTcount: A:0.72, C:0.01, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:9316764 original size:16 final size:16
Alignment explanation
Indices: 9316649--9316765 Score: 53
Period size: 16 Copynumber: 6.9 Consensus size: 16
9316639 TAATGGATGA
*
9316649 AAAAAAATAAAAAGTG
1 AAAAAAATAAAAAATG
9316665 AAAAAAATTTTCAAAAAAAT-
1 AAAAAAA---T--AAAAAATG
* *
9316685 AGAAAAATGGAAAAATG
1 AAAAAAAT-AAAAAATG
9316702 -AAAAAATGGAAAAAAATG
1 AAAAAAAT---AAAAAATG
**
9316720 -AAAACGTGAAAAAATG
1 AAAAAAAT-AAAAAATG
*
9316736 AAAAAAATGAAAAATG
1 AAAAAAATAAAAAATG
9316752 AAAAACAA-AAAAAA
1 AAAAA-AATAAAAAA
9316766 AATATTAACA
Statistics
Matches: 77, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
16 44 0.57
17 8 0.10
18 12 0.16
19 1 0.01
20 6 0.08
21 6 0.08
ACGTcount: A:0.73, C:0.03, G:0.12, T:0.13
Consensus pattern (16 bp):
AAAAAAATAAAAAATG
Found at i:9318027 original size:14 final size:14
Alignment explanation
Indices: 9318008--9318038 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9317998 ATCTTTGAAT
9318008 TTTGAATGAAAATC
1 TTTGAATGAAAATC
9318022 TTTGAATGAAAATC
1 TTTGAATGAAAATC
9318036 TTT
1 TTT
9318039 AAGAAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (14 bp):
TTTGAATGAAAATC
Found at i:9318054 original size:38 final size:36
Alignment explanation
Indices: 9317992--9318077 Score: 93
Period size: 38 Copynumber: 2.4 Consensus size: 36
9317982 GTCAAAAATG
* *
9317992 ATGAAAATCTTT-GAATTTTGAATGAAAATCTTTGA
1 ATGAAAATCTTTAGAATTTTAAATGAAAATCTTAGA
* *
9318027 ATGAAAATCTTTAAGAAGTTTTAAATGAGACTCTTAGA
1 ATGAAAATCTTT-AGAA-TTTTAAATGAAAATCTTAGA
* *
9318065 ATGAGAATTTTTA
1 ATGAAAATCTTTA
9318078 TCTTTGAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
35 12 0.29
37 4 0.10
38 26 0.62
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (36 bp):
ATGAAAATCTTTAGAATTTTAAATGAAAATCTTAGA
Found at i:9318850 original size:130 final size:131
Alignment explanation
Indices: 9318668--9318972 Score: 359
Period size: 130 Copynumber: 2.3 Consensus size: 131
9318658 ATTGTCGATA
* *
9318668 AGCCTTATTTATTTTTCAAAAGTTGTTGAACCTCTGTTTAAA-GAAGCTTTATTTATTTTTTTAA
1 AGCCTTATTTATTTTT-AAAAGTTGTTGAACCTCTGTTTAAAGGAAGCCTTATTTA-TTTTTCAA
* * * **
9318732 AGTTGTTGAA-CTTCTGCTTAG-GGAAGCCTTATTTA-TTTTTCAAAATTACTGTACCTCTACTT
64 AGTCGTTAAACCTT-TACTTAGAGG-AGCCTTATTTATTTTTTCAAAATTACTAAACCTCTACTT
9318794 AAAAG
127 AAAAG
* * * *
9318799 ATCTTTATTTATTTTTAAAAGTTGTTAAACCTCTGCTTAAAGGAA-CCTTATTTATTTTTCAAAG
1 AGCCTTATTTATTTTTAAAAGTTGTTGAACCTCTGTTTAAAGGAAGCCTTATTTATTTTTCAAAG
* * ** * *
9318863 TCGTTAAACCTTTATTTAGAGGAGCCTTATTTATTTTTTCAAAGTTGTTAAACCTCTACTTAGAT
66 TCGTTAAACCTTTACTTAGAGGAGCCTTATTTATTTTTTCAAAATTACTAAACCTCTACTTAAAA
9318928 G
131 G
* * *
9318929 AGCCTTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAAAGGA
1 AGCCTTATTTATTTTTAAAAGTTGTTGAACCTCTGTTTAAAGGA
9318973 GTTTTTATGT
Statistics
Matches: 146, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
129 31 0.21
130 98 0.67
131 17 0.12
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (131 bp):
AGCCTTATTTATTTTTAAAAGTTGTTGAACCTCTGTTTAAAGGAAGCCTTATTTATTTTTCAAAG
TCGTTAAACCTTTACTTAGAGGAGCCTTATTTATTTTTTCAAAATTACTAAACCTCTACTTAAAA
G
Found at i:9318938 original size:87 final size:87
Alignment explanation
Indices: 9318668--9318973 Score: 355
Period size: 87 Copynumber: 3.5 Consensus size: 87
9318658 ATTGTCGATA
* * *
9318668 AGCCTTATTTATTTTTCAAAAGTTGTTGAACCTCTGTTTAAAGAAGCTTTATTTATTTTTTTAAA
1 AGCCTTATTTATTTTTC-AAAGTTGTTGAACCTCTATTTAAAGGAGCTTTATTTATTTTTTAAAA
* *
9318733 GTTGTTGAACTTCTGCTTAG-GG
65 GTTGTTAAACCTCTGCTTAGAGG
* ** * * * *
9318755 AAGCCTTATTTATTTTTCAAAATTACTGTACCTCTACTTAAAAGATCTTTATTTA-TTTTTAAAA
1 -AGCCTTATTTATTTTTCAAAGTTGTTGAACCTCTATTTAAAGGAGCTTTATTTATTTTTTAAAA
*
9318819 GTTGTTAAACCTCTGCTTAAAGG
65 GTTGTTAAACCTCTGCTTAGAGG
* * * * * * *
9318842 AACCTTATTTATTTTTCAAAGTCGTTAAACCTTTATTTAGAGGAGCCTTATTTATTTTTTCAAAG
1 AGCCTTATTTATTTTTCAAAGTTGTTGAACCTCTATTTAAAGGAGCTTTATTTATTTTTTAAAAG
* *
9318907 TTGTTAAACCTCTACTTAGATG
66 TTGTTAAACCTCTGCTTAGAGG
* * *
9318929 AGCCTTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAAAGGAG
1 AGCCTTATTTATTTTTCAAAGTTGTTGAACCTCTATTTAAAGGAG
9318974 TTTTTATGTT
Statistics
Matches: 178, Mismatches: 38, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
86 66 0.37
87 95 0.53
88 17 0.10
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (87 bp):
AGCCTTATTTATTTTTCAAAGTTGTTGAACCTCTATTTAAAGGAGCTTTATTTATTTTTTAAAAG
TTGTTAAACCTCTGCTTAGAGG
Found at i:9318962 original size:43 final size:43
Alignment explanation
Indices: 9318668--9318962 Score: 286
Period size: 43 Copynumber: 6.8 Consensus size: 43
9318658 ATTGTCGATA
** * *
9318668 AGCCTTATTTATTTTTCAAAAGTTGTTGAACCTCTGTTTAAAGA
1 AGCCTTATTTATTTTTC-AAAGTTGTTGAACCTCTACTTAGAGG
* * * *
9318712 AGCTTTATTTATTTTTTTAAAGTTGTTGAACTTCTGCTTAG-GG
1 AGCCTTATTTA-TTTTTCAAAGTTGTTGAACCTCTACTTAGAGG
* ** * * *
9318755 AAGCCTTATTTATTTTTCAAAATTACTGTACCTCTACTTAAAAG
1 -AGCCTTATTTATTTTTCAAAGTTGTTGAACCTCTACTTAGAGG
* * * * * *
9318799 ATCTTTATTTATTTTTAAAAGTTGTTAAACCTCTGCTTAAAGG
1 AGCCTTATTTATTTTTCAAAGTTGTTGAACCTCTACTTAGAGG
* * * * *
9318842 AACCTTATTTATTTTTCAAAGTCGTTAAACCTTTATTTAGAGG
1 AGCCTTATTTATTTTTCAAAGTTGTTGAACCTCTACTTAGAGG
* *
9318885 AGCCTTATTTATTTTTTCAAAGTTGTTAAACCTCTACTTAGATG
1 AGCCTTATTTA-TTTTTCAAAGTTGTTGAACCTCTACTTAGAGG
* *
9318929 AGCCTTATTTATTTTTCAAAGTTATTGAGCCTCT
1 AGCCTTATTTATTTTTCAAAGTTGTTGAACCTCT
9318963 GTTTAAAGGA
Statistics
Matches: 205, Mismatches: 42, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
43 120 0.59
44 80 0.39
45 5 0.02
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.45
Consensus pattern (43 bp):
AGCCTTATTTATTTTTCAAAGTTGTTGAACCTCTACTTAGAGG
Found at i:9320387 original size:50 final size:49
Alignment explanation
Indices: 9320294--9320498 Score: 206
Period size: 49 Copynumber: 4.3 Consensus size: 49
9320284 TTTTCTTTTC
* * * *
9320294 AAAAATTAAAAAAAAAAACTTTTAGATAGACCCAAATGGTGAAAAATTT
1 AAAAATTAAAAAAAAAAATTTTTAAATAAACCCAAATGATGAAAAATTT
* *
9320343 AAAAATTAAAAAGAAAAAATTTTTAAATAAATCCAATTGATGAAAAATTT
1 AAAAATTAAAAA-AAAAAATTTTTAAATAAACCCAAATGATGAAAAATTT
* * * *
9320393 AAAAATT-AAAAAGAAAATTTTCTAAAAAAACCCAAATAATGAAAATTTT
1 AAAAATTAAAAAAAAAAATTTT-TAAATAAACCCAAATGATGAAAAATTT
** * *
9320442 AAAAA-T-AAAAAAAAAA---TTAAATAGGCTCAAATGGTGAAAAATTT
1 AAAAATTAAAAAAAAAAATTTTTAAATAAACCCAAATGATGAAAAATTT
* *
9320486 AGAAATGAAAAAA
1 AAAAATTAAAAAA
9320499 TAAATAAATT
Statistics
Matches: 130, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
44 24 0.18
45 1 0.01
46 5 0.04
48 19 0.15
49 43 0.33
50 38 0.29
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.25
Consensus pattern (49 bp):
AAAAATTAAAAAAAAAAATTTTTAAATAAACCCAAATGATGAAAAATTT
Found at i:9332693 original size:18 final size:18
Alignment explanation
Indices: 9332667--9332703 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9332657 ATAAAAATTT
*
9332667 TAAATATATATAAATTAA
1 TAAAAATATATAAATTAA
*
9332685 TAAAAATATATAATTTAA
1 TAAAAATATATAAATTAA
9332703 T
1 T
9332704 TTTTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAAATATATAAATTAA
Found at i:9333589 original size:24 final size:24
Alignment explanation
Indices: 9333540--9333587 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9333530 AATAGTTATA
* **
9333540 AAAGTTAATAATTTTAATTTATTT
1 AAAGATAATAATTTTAAAATATTT
9333564 AAAGATAATAATTTATAAAATATT
1 AAAGATAATAATTT-TAAAATATT
9333588 AATAATATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
AAAGATAATAATTTTAAAATATTT
Found at i:9333787 original size:35 final size:34
Alignment explanation
Indices: 9333711--9333787 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 34
9333701 TATTTGAATT
* *
9333711 AAAAAATAAAATTAATTTATTAAATTTATAATAAA
1 AAAAAATAAAA-TAATTTATTAAATATAAAATAAA
*
9333746 AGAAAAATAAAA-AATTATATTATATATAAAATATAA
1 A-AAAAATAAAATAATT-TATTAAATATAAAATA-AA
9333782 AAAAAA
1 AAAAAA
9333788 ACACTCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
34 4 0.11
35 19 0.53
36 13 0.36
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (34 bp):
AAAAAATAAAATAATTTATTAAATATAAAATAAA
Found at i:9339549 original size:21 final size:22
Alignment explanation
Indices: 9339511--9339562 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
9339501 ACCCGAATTA
9339511 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
9339533 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
9339554 AT-AAATATT
1 ATAAAATATT
9339563 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 11 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATAAAATATTATTTTTTTAAAT
Found at i:9340413 original size:2 final size:2
Alignment explanation
Indices: 9340408--9340435 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9340398 GATTGTTAAA
9340408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9340436 TTATTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9341036 original size:20 final size:21
Alignment explanation
Indices: 9341008--9341063 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
9340998 TCAGCATTAA
9341008 AAGAAAAATTAAAAAAAATCT
1 AAGAAAAATTAAAAAAAATCT
* *
9341029 AA-AAAAATT-TAAAAATTCT
1 AAGAAAAATTAAAAAAAATCT
9341048 AAGAAAATATTAAAAA
1 AAGAAAA-ATTAAAAA
9341064 TTCTAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 10 0.34
20 11 0.38
21 5 0.17
22 3 0.10
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (21 bp):
AAGAAAAATTAAAAAAAATCT
Found at i:9341042 original size:19 final size:20
Alignment explanation
Indices: 9341020--9341072 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
9341010 GAAAAATTAA
*
9341020 AAAAAATCTAAAAAAAT-TT
1 AAAAATTCTAAAAAAATATT
*
9341039 AAAAATTCTAAGAAAATATT
1 AAAAATTCTAAAAAAATATT
9341059 AAAAATTCTAAAAA
1 AAAAATTCTAAAAA
9341073 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAATTCTAAAAAAATATT
Found at i:9341080 original size:20 final size:20
Alignment explanation
Indices: 9341020--9341083 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
9341010 GAAAAATTAA
* *
9341020 AAAAAATCTAA-AAAAATTT
1 AAAAATTCTAAGAAAATTTT
*
9341039 AAAAATTCTAAGAAAATATT
1 AAAAATTCTAAGAAAATTTT
*
9341059 AAAAATTCTAA-AAATTTTTT
1 AAAAATTCTAAGAAA-ATTTT
9341079 AAAAA
1 AAAAA
9341084 ATTCAAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
19 13 0.34
20 25 0.66
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAATTCTAAGAAAATTTT
Found at i:9341136 original size:23 final size:22
Alignment explanation
Indices: 9341092--9341143 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
9341082 AAATTCAAAT
9341092 TTTCAAAAAGTTCTAAAAAAAA
1 TTTCAAAAAGTTCTAAAAAAAA
*
9341114 TTTCTAAAAGTT-TAAAAAGAAA
1 TTTCAAAAAGTTCTAAAAA-AAA
*
9341136 ATTCAAAA
1 TTTCAAAA
9341144 CTTATAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.29
Consensus pattern (22 bp):
TTTCAAAAAGTTCTAAAAAAAA
Found at i:9341143 original size:21 final size:22
Alignment explanation
Indices: 9341097--9341152 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
9341087 CAAATTTTCA
* *
9341097 AAAAGTTCTAAAAAAAATTTCT
1 AAAAGTTATAAAAAAAAATTCT
9341119 AAAAGTT-TAAAAAGAAAATTC-
1 AAAAGTTATAAAAA-AAAATTCT
*
9341140 AAAACTTATAAAA
1 AAAAGTTATAAAA
9341153 GCTAAACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (22 bp):
AAAAGTTATAAAAAAAAATTCT
Found at i:9341151 original size:22 final size:21
Alignment explanation
Indices: 9341105--9341152 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
9341095 CAAAAAGTTC
* *
9341105 TAAAAAAAATTTCTAAAAGTT
1 TAAAAAAAAATTCTAAAACTT
9341126 TAAAAAGAAAATTC-AAAACTT
1 TAAAAA-AAAATTCTAAAACTT
9341147 ATAAAA
1 -TAAAA
9341153 GCTAAACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.27
Consensus pattern (21 bp):
TAAAAAAAAATTCTAAAACTT
Found at i:9341324 original size:19 final size:19
Alignment explanation
Indices: 9341294--9341345 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
9341284 AATTCAAGAA
*
9341294 AAAAATTATAAAAGATTCT
1 AAAAATTATAAAAAATTCT
* * *
9341313 ACAAATTCTAAAAAATTTT
1 AAAAATTATAAAAAATTCT
*
9341332 AAAAATTTTAAAAA
1 AAAAATTATAAAAA
9341346 TAATATAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAATTATAAAAAATTCT
Found at i:9341344 original size:8 final size:9
Alignment explanation
Indices: 9341294--9341346 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
9341284 AATTCAAGAA
*
9341294 AAAAATTAT
1 AAAAATTTT
*
9341303 AAAAGATTCT
1 AAAA-ATTTT
* *
9341313 ACAAATTCTA
1 AAAAATT-TT
9341323 AAAAATTTT
1 AAAAATTTT
9341332 AAAAATTTT
1 AAAAATTTT
9341341 AAAAAT
1 AAAAAT
9341347 AATATAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 23 0.64
10 13 0.36
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAAATTTT
Found at i:9341419 original size:10 final size:10
Alignment explanation
Indices: 9341406--9341484 Score: 56
Period size: 10 Copynumber: 7.7 Consensus size: 10
9341396 CAAAAATCTA
9341406 AAAAATTTTT
1 AAAAATTTTT
* *
9341416 AAAAAAGTTTC
1 -AAAAATTTTT
9341427 AAAAATTTTT
1 AAAAATTTTT
9341437 AAAAATTTAATTT
1 AAAAA-TT--TTT
9341450 AAAAA--TTT
1 AAAAATTTTT
9341458 -AAAATTTTT
1 AAAAATTTTT
* *
9341467 AAAAGATTCTA
1 AAAA-ATTTTT
9341478 AAAAATT
1 AAAAATT
9341485 CTATAGAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
7 4 0.07
8 3 0.05
9 3 0.05
10 19 0.35
11 18 0.33
13 8 0.15
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (10 bp):
AAAAATTTTT
Found at i:9341420 original size:11 final size:11
Alignment explanation
Indices: 9341404--9341441 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9341394 CCCAAAAATC
9341404 TAAAAAATTTT
1 TAAAAAATTTT
*
9341415 TAAAAAA-GTT
1 TAAAAAATTTT
*
9341425 TCAAAAATTTT
1 TAAAAAATTTT
9341436 TAAAAA
1 TAAAAA
9341442 TTTAATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (11 bp):
TAAAAAATTTT
Found at i:9341421 original size:21 final size:21
Alignment explanation
Indices: 9341397--9341441 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9341387 ACATTATCCC
9341397 AAAAATCTAAAAAATTTTTAA
1 AAAAATCTAAAAAATTTTTAA
* * *
9341418 AAAAGTTTCAAAAATTTTTAA
1 AAAAATCTAAAAAATTTTTAA
9341439 AAA
1 AAA
9341442 TTTAATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAATCTAAAAAATTTTTAA
Found at i:9341452 original size:13 final size:13
Alignment explanation
Indices: 9341434--9341459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9341424 TTCAAAAATT
9341434 TTTAAAAATTTAA
1 TTTAAAAATTTAA
9341447 TTTAAAAATTTAA
1 TTTAAAAATTTAA
9341460 AATTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTAAAAATTTAA
Found at i:9342326 original size:40 final size:40
Alignment explanation
Indices: 9342269--9342356 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
9342259 TATAAGTTTG
* *
9342269 AAATTTTTTAATAAAATTTTTAGAATTTTTAAAAGTTTCTA
1 AAATTTTTTAATAAAATTTTTAAAATTTTCAAAA-TTTCTA
* *
9342310 AAATTTTTT-TTAAAATTTTTAAAATTTTCAAAATTTTTA
1 AAATTTTTTAATAAAATTTTTAAAATTTTCAAAATTTCTA
9342349 AAATTTTT
1 AAATTTTT
9342357 AATTTTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 13 0.30
40 21 0.49
41 9 0.21
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (40 bp):
AAATTTTTTAATAAAATTTTTAAAATTTTCAAAATTTCTA
Found at i:9342364 original size:18 final size:19
Alignment explanation
Indices: 9342255--9342375 Score: 79
Period size: 18 Copynumber: 6.3 Consensus size: 19
9342245 AAAAGTTTAG
* * *
9342255 TTTTT-ATAAGTTTGAAAT
1 TTTTTAATAATTTTTAAAA
*
9342273 TTTTTAATAAAATTTTTAGAA
1 TTTTTAAT--AATTTTTAAAA
*
9342294 TTTTTAA-AAGTTTCTAAAA
1 TTTTTAATAA-TTTTTAAAA
9342313 TTTTTTTTAA-AATTTTTAAAA
1 ---TTTTTAATAATTTTTAAAA
*
9342334 TTTTCAA-AATTTTTAAAA
1 TTTTTAATAATTTTTAAAA
** *
9342352 TTTTTAATTTTTTTTAGAA
1 TTTTTAATAATTTTTAAAA
9342371 TTTTT
1 TTTTT
9342376 CTAAAGGAAG
Statistics
Matches: 83, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
18 30 0.36
19 22 0.27
21 22 0.27
22 9 0.11
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (19 bp):
TTTTTAATAATTTTTAAAA
Found at i:9342375 original size:9 final size:9
Alignment explanation
Indices: 9342280--9342358 Score: 95
Period size: 9 Copynumber: 8.3 Consensus size: 9
9342270 AATTTTTTAA
9342280 TAAAATTTT
1 TAAAATTTT
*
9342289 TAGAATTTT
1 TAAAATTTT
*
9342298 TAAAAGTTTC
1 TAAAA-TTTT
9342308 TAAAATTTTTTT
1 TAAAA---TTTT
9342320 TAAAATTTT
1 TAAAATTTT
9342329 TAAAATTTT
1 TAAAATTTT
*
9342338 CAAAATTTT
1 TAAAATTTT
9342347 TAAAATTTT
1 TAAAATTTT
9342356 TAA
1 TAA
9342359 TTTTTTTTAG
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
9 44 0.73
10 8 0.13
12 8 0.13
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (9 bp):
TAAAATTTT
Found at i:9342539 original size:11 final size:9
Alignment explanation
Indices: 9342520--9342568 Score: 53
Period size: 10 Copynumber: 5.0 Consensus size: 9
9342510 TTTTTTGAAT
9342520 TTTTAAAAA
1 TTTTAAAAA
9342529 TATTTAGAAAA
1 T-TTTA-AAAA
*
9342540 TTTTATAGAA
1 TTTTA-AAAA
9342550 TTTTAAAAA
1 TTTTAAAAA
9342559 TTTTTAAAAA
1 -TTTTAAAAA
9342569 AGTTTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 4 0.12
10 25 0.74
11 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:9342563 original size:20 final size:21
Alignment explanation
Indices: 9342517--9342568 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
9342507 AATTTTTTTG
9342517 AATTTTTAAAAATATTTAGAA
1 AATTTTTAAAAATATTTAGAA
*
9342538 AA-TTTTATAGAAT-TTTA-AA
1 AATTTTTA-AAAATATTTAGAA
9342557 AATTTTTAAAAA
1 AATTTTTAAAAA
9342569 AGTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 7 0.26
20 14 0.52
21 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (21 bp):
AATTTTTAAAAATATTTAGAA
Found at i:9357099 original size:20 final size:22
Alignment explanation
Indices: 9357047--9357093 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
9357037 AATTTTTATT
* * *
9357047 TTTATATTTTATTTTAATATAA
1 TTTATAATATATTTAAATATAA
9357069 TTTATAATATATTTAAATA-AA
1 TTTATAATATATTTAAATATAA
9357090 TTTA
1 TTTA
9357094 AGTATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTATAATATATTTAAATATAA
Found at i:9357139 original size:17 final size:18
Alignment explanation
Indices: 9357119--9357158 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
9357109 TTTTTTTAAA
*
9357119 AAAATTTAA-AAATATAT
1 AAAATTTAATAAAAATAT
9357136 AAAA-TTAATAAAAATAT
1 AAAATTTAATAAAAATAT
9357153 AAAATT
1 AAAATT
9357159 CGGTTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 15 0.75
18 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTTAATAAAAATAT
Found at i:9362100 original size:42 final size:42
Alignment explanation
Indices: 9362027--9362145 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 42
9362017 TTGTTGCCTT
* * **
9362027 AGCTACATTTTCATTTTTTATTCC-TTCATTCCCTACTACTTC
1 AGCTACATTTTGATTTTTTA-CCCTTTCATTCCCTACTACCAC
* * *
9362069 AGCTATATTTTGATTTTTTACCCTTTTATTCCCTATTACCAC
1 AGCTACATTTTGATTTTTTACCCTTTCATTCCCTACTACCAC
* * *
9362111 A-CTACATATTGATTTCTTGCCCTTTCATTCCCTAC
1 AGCTACATTTTGATTTTTTACCCTTTCATTCCCTAC
9362146 CACCTCAACT
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 30 0.48
42 33 0.52
ACGTcount: A:0.20, C:0.28, G:0.04, T:0.48
Consensus pattern (42 bp):
AGCTACATTTTGATTTTTTACCCTTTCATTCCCTACTACCAC
Found at i:9363287 original size:57 final size:57
Alignment explanation
Indices: 9363199--9363312 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
9363189 TCTACATTAC
9363199 TACAAGTCTCTAATGTTTAATTATTTTTGTATAAAATAAAACATTTAATTATAAATT
1 TACAAGTCTCTAATGTTTAATTATTTTTGTATAAAATAAAACATTTAATTATAAATT
*
9363256 TACAAGTCTCTAATGTTTAATTATTTTTGTATAAAATAAAACATTTAGTTATAAATT
1 TACAAGTCTCTAATGTTTAATTATTTTTGTATAAAATAAAACATTTAATTATAAATT
9363313 AAGTAACCAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (57 bp):
TACAAGTCTCTAATGTTTAATTATTTTTGTATAAAATAAAACATTTAATTATAAATT
Found at i:9368337 original size:25 final size:25
Alignment explanation
Indices: 9368298--9368346 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
9368288 TTTTTGTTCC
9368298 TTTTATTCTTATTTAATATTCTTTG
1 TTTTATTCTTATTTAATATTCTTTG
*
9368323 TTTTATT-TTATTTTAATTTTCTTT
1 TTTTATTCTTA-TTTAATATTCTTT
9368347 TACCTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTATTCTTATTTAATATTCTTTG
Found at i:9368895 original size:19 final size:20
Alignment explanation
Indices: 9368864--9368901 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9368854 TTACTTATTA
*
9368864 TTATTTTTCATTATTTCTAC
1 TTATTTTTCATTAATTCTAC
9368884 TTATTTTT-ATTAATTCTA
1 TTATTTTTCATTAATTCTA
9368902 AAAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATTTTTCATTAATTCTAC
Found at i:9371045 original size:16 final size:17
Alignment explanation
Indices: 9371020--9371064 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
9371010 GTAGTAAAAA
*
9371020 TTTATGTTTTTA-TGTT
1 TTTATTTTTTTACTGTT
*
9371036 TTTATTTTTTTACCTTTT
1 TTTATTTTTTTA-CTGTT
9371054 TTTATTTTTTT
1 TTTATTTTTTT
9371065 TACAAAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.44
18 14 0.56
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTATTTTTTTACTGTT
Found at i:9371066 original size:9 final size:8
Alignment explanation
Indices: 9371020--9371064 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
9371010 GTAGTAAAAA
*
9371020 TTTATGTT
1 TTTATTTT
*
9371028 TTTATGTT
1 TTTATTTT
9371036 TTTATTTT
1 TTTATTTT
9371044 TTTACCTTTT
1 TTTA--TTTT
9371054 TTTATTTT
1 TTTATTTT
9371062 TTT
1 TTT
9371065 TACAAAAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
8 26 0.76
10 8 0.24
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.80
Consensus pattern (8 bp):
TTTATTTT
Found at i:9371899 original size:17 final size:19
Alignment explanation
Indices: 9371867--9371901 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
9371857 ATCAAAATTT
9371867 AATTTTAGAGTTTAAATCC
1 AATTTTAGAGTTTAAATCC
9371886 AATTTTA-A-TTTAAATC
1 AATTTTAGAGTTTAAATC
9371902 TTTTCCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.46
Consensus pattern (19 bp):
AATTTTAGAGTTTAAATCC
Found at i:9373422 original size:15 final size:15
Alignment explanation
Indices: 9373382--9373432 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
9373372 CTACTTGGTC
9373382 TAGGCCCAAACCAAT
1 TAGGCCCAAACCAAT
* * * *
9373397 CAAGTCTAAACCAAT
1 TAGGCCCAAACCAAT
9373412 TAGGCCCAAACCAAT
1 TAGGCCCAAACCAAT
9373427 TAGGCC
1 TAGGCC
9373433 TCAGACCCAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.39, C:0.31, G:0.14, T:0.16
Consensus pattern (15 bp):
TAGGCCCAAACCAAT
Found at i:9374254 original size:15 final size:17
Alignment explanation
Indices: 9374236--9374267 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
9374226 GAAAGAGAAA
9374236 GAAGAGA-A-AAATGAG
1 GAAGAGATAGAAATGAG
9374251 GAAGAGATAGAAATGAG
1 GAAGAGATAGAAATGAG
9374268 AAGTACGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.34, T:0.09
Consensus pattern (17 bp):
GAAGAGATAGAAATGAG
Found at i:9375116 original size:50 final size:51
Alignment explanation
Indices: 9375006--9375143 Score: 149
Period size: 52 Copynumber: 2.7 Consensus size: 51
9374996 AAGAGGAAAT
*
9375006 ATTGAAATATCAATTTTCTTATTTAAATATTTTTTAAATAATTTAACGAATA
1 ATTGAAATATCAATTTTCTTATTTAAATATTTTTAAAATAATTTAAC-AATA
* * **
9375058 GTTGAAATATCAATTTTCTTGTTTAAATA-TTTTAAAACTTTTTTTAA-AA-A
1 ATTGAAATATCAATTTTCTTATTTAAATATTTTTAAAA--TAATTTAACAATA
* *
9375108 ATTGAAATATTAATTTTAC-TATTTAAATGTTTTTAA
1 ATTGAAATATCAATTTT-CTTATTTAAATATTTTTAA
9375144 GGAAAAAGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
50 24 0.33
51 16 0.22
52 27 0.37
53 6 0.08
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (51 bp):
ATTGAAATATCAATTTTCTTATTTAAATATTTTTAAAATAATTTAACAATA
Found at i:9376505 original size:3 final size:3
Alignment explanation
Indices: 9376445--9376494 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
9376435 TCGCTCTCGT
* * * * *
9376445 AAC AAT AAC AAT AAC AAC AAC AAC AAC AAC ATC AAG AAC AAC ATC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
9376493 AA
1 AA
9376495 TATTAACAAC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.26, G:0.02, T:0.08
Consensus pattern (3 bp):
AAC
Found at i:9379873 original size:12 final size:12
Alignment explanation
Indices: 9379857--9379890 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9379847 TTTTTTTTCT
9379857 TTTTTCATTTTAG
1 TTTTT-ATTTTAG
*
9379870 TTTTTATTTTAT
1 TTTTTATTTTAG
9379882 TTTTTATTT
1 TTTTTATTT
9379891 ATTTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTTATTTTAG
Found at i:9379970 original size:9 final size:9
Alignment explanation
Indices: 9379958--9379993 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
9379948 CATCATCATC
9379958 ATCATTATT
1 ATCATTATT
9379967 ATCATTATT
1 ATCATTATT
9379976 ATCATTATT
1 ATCATTATT
*
9379985 ATTATTATT
1 ATCATTATT
9379994 TATGTCTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (9 bp):
ATCATTATT
Found at i:9382254 original size:20 final size:22
Alignment explanation
Indices: 9382202--9382248 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
9382192 AATTTTTATT
* * *
9382202 TTTATATTTTATTTTAATATAA
1 TTTATAATATATTTAAATATAA
9382224 TTTATAATATATTTAAATA-AA
1 TTTATAATATATTTAAATATAA
9382245 TTTA
1 TTTA
9382249 AGTATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTATAATATATTTAAATATAA
Found at i:9383975 original size:14 final size:14
Alignment explanation
Indices: 9383956--9383988 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9383946 GTTTGTAACT
9383956 AAATAGT-AACATAA
1 AAATAGTGAACA-AA
9383970 AAATAGTGAACAAA
1 AAATAGTGAACAAA
9383984 AAATA
1 AAATA
9383989 AAAACCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.67, C:0.06, G:0.09, T:0.18
Consensus pattern (14 bp):
AAATAGTGAACAAA
Found at i:9387350 original size:42 final size:41
Alignment explanation
Indices: 9387224--9387350 Score: 110
Period size: 42 Copynumber: 3.0 Consensus size: 41
9387214 GTTGCCTTAG
* * * * * *
9387224 CTACATTTTCATTTTTTATTCCTTCATTCCTTACTACTTCAG
1 CTACATATTGATTTTTTA-CCCTTCATTCCCTACTACCTCAA
* * * * * *
9387266 CTACATTTTTATTTTTTACCTTTTATTCCCTATTACCACAA
1 CTACATATTGATTTTTTACCCTTCATTCCCTACTACCTCAA
* *
9387307 CTACATATTGATTTTTTGCCCCTTCATTCCCTACCACCTCAA
1 CTACATATTGATTTTTT-ACCCTTCATTCCCTACTACCTCAA
9387349 CT
1 CT
9387351 TCATCTTCCA
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 30 0.45
42 37 0.55
ACGTcount: A:0.21, C:0.29, G:0.02, T:0.47
Consensus pattern (41 bp):
CTACATATTGATTTTTTACCCTTCATTCCCTACTACCTCAA
Found at i:9388445 original size:57 final size:57
Alignment explanation
Indices: 9388357--9388470 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
9388347 TCTACATTAC
9388357 TACAAGTCTCTAATGTTTAATTGTTTTTGTATAAAATAAAACATTTAGTTATAAATT
1 TACAAGTCTCTAATGTTTAATTGTTTTTGTATAAAATAAAACATTTAGTTATAAATT
9388414 TACAAGTCTCTAATGTTTAATTGTTTTTGTATAAAATAAAACATTTAGTTATAAATT
1 TACAAGTCTCTAATGTTTAATTGTTTTTGTATAAAATAAAACATTTAGTTATAAATT
9388471 AAGTAACCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (57 bp):
TACAAGTCTCTAATGTTTAATTGTTTTTGTATAAAATAAAACATTTAGTTATAAATT
Found at i:9390346 original size:17 final size:18
Alignment explanation
Indices: 9390316--9390357 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9390306 TATGCTATTC
9390316 TTTA-GTTTTATCTGTAA
1 TTTATGTTTTATCTGTAA
* *
9390333 TTT-TGTTTTGTCTGTGA
1 TTTATGTTTTATCTGTAA
9390350 TTTATGTT
1 TTTATGTT
9390358 AGGCTTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.14, C:0.05, G:0.17, T:0.64
Consensus pattern (18 bp):
TTTATGTTTTATCTGTAA
Found at i:9394061 original size:19 final size:20
Alignment explanation
Indices: 9394030--9394067 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9394020 TTACTTATTA
*
9394030 TTATTTTTCATTATTTCTAC
1 TTATTTTTCATTAATTCTAC
9394050 TTATTTTT-ATTAATTCTA
1 TTATTTTTCATTAATTCTA
9394068 AAACTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATTTTTCATTAATTCTAC
Found at i:9397287 original size:22 final size:22
Alignment explanation
Indices: 9397245--9397286 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9397235 TAAATTCATA
9397245 AAAATAACTAGAATAATAAAAT
1 AAAATAACTAGAATAATAAAAT
*
9397267 AAAATAACTATAA-AATAAAA
1 AAAATAACTAGAATAATAAAA
9397287 ACATCATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAACTAGAATAATAAAAT
Found at i:9399413 original size:15 final size:17
Alignment explanation
Indices: 9399395--9399426 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
9399385 GAAAGAGAAA
9399395 GAAGAGA-A-AAATGAG
1 GAAGAGATAGAAATGAG
9399410 GAAGAGATAGAAATGAG
1 GAAGAGATAGAAATGAG
9399427 AAGTAGGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.34, T:0.09
Consensus pattern (17 bp):
GAAGAGATAGAAATGAG
Found at i:9401621 original size:6 final size:6
Alignment explanation
Indices: 9401598--9401700 Score: 68
Period size: 6 Copynumber: 17.3 Consensus size: 6
9401588 TCGCTCTTGT
* * * *
9401598 AACAA- AACAAT AACAAC AAGAAC AACAAC AACATC AACAAC AACATC
1 AACAAC AACAAC AACAAC AACAAC AACAAC AACAAC AACAAC AACAAC
* ** * * *
9401645 AACAAT ATTAAC AACATA- AACAAT AACATA- AACAAT ATCAAC AACAAC
1 AACAAC AACAAC AACA-AC AACAAC AACA-AC AACAAC AACAAC AACAAC
*
9401693 AATAAC AA
1 AACAAC AA
9401701 TAAACTAATT
Statistics
Matches: 76, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
5 7 0.09
6 67 0.88
7 2 0.03
ACGTcount: A:0.64, C:0.23, G:0.01, T:0.12
Consensus pattern (6 bp):
AACAAC
Found at i:9401621 original size:9 final size:9
Alignment explanation
Indices: 9401598--9401700 Score: 68
Period size: 9 Copynumber: 11.6 Consensus size: 9
9401588 TCGCTCTTGT
9401598 AACAA-AAC
1 AACAACAAC
*
9401606 AATAACAAC
1 AACAACAAC
*
9401615 AAGAACAAC
1 AACAACAAC
*
9401624 AACAACATC
1 AACAACAAC
9401633 AACAACAAC
1 AACAACAAC
* *
9401642 ATCAACAAT
1 AACAACAAC
**
9401651 ATTAACAAC
1 AACAACAAC
*
9401660 ATA-AACAAT
1 A-ACAACAAC
9401669 AACATA-AAC
1 AACA-ACAAC
* *
9401678 AATATCAAC
1 AACAACAAC
*
9401687 AACAACAAT
1 AACAACAAC
9401696 AACAA
1 AACAA
9401701 TAAACTAATT
Statistics
Matches: 73, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
8 5 0.07
9 67 0.92
10 1 0.01
ACGTcount: A:0.64, C:0.23, G:0.01, T:0.12
Consensus pattern (9 bp):
AACAACAAC
Found at i:9401702 original size:21 final size:21
Alignment explanation
Indices: 9401620--9401693 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
9401610 ACAACAAGAA
* *
9401620 CAACAACAACATCAACAACAA
1 CAACAACAACATAAACAACAT
* * *
9401641 CATCAACAATATTAACAACAT
1 CAACAACAACATAAACAACAT
* * *
9401662 AAACAATAACATAAACAATAT
1 CAACAACAACATAAACAACAT
9401683 CAACAACAACA
1 CAACAACAACA
9401694 ATAACAATAA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.14
Consensus pattern (21 bp):
CAACAACAACATAAACAACAT
Found at i:9402797 original size:12 final size:13
Alignment explanation
Indices: 9402780--9402808 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9402770 TAATGAGATA
9402780 TAAAGAGTGT-TT
1 TAAAGAGTGTATT
9402792 TAAAGAGTGTATT
1 TAAAGAGTGTATT
9402805 TAAA
1 TAAA
9402809 ATTACCTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (13 bp):
TAAAGAGTGTATT
Found at i:9404085 original size:17 final size:16
Alignment explanation
Indices: 9404038--9404083 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
9404028 TTAATTTTAA
*
9404038 TTTGATTTAACTTAATTT
1 TTTG-TTTAA-TTTATTT
*
9404056 TTGGTTTAATTTATTT
1 TTTGTTTAATTTATTT
9404072 TTTGTTTAATTT
1 TTTGTTTAATTT
9404084 TACTTTCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 17 0.68
17 5 0.20
18 3 0.12
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.67
Consensus pattern (16 bp):
TTTGTTTAATTTATTT
Found at i:9404149 original size:15 final size:13
Alignment explanation
Indices: 9404123--9404157 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
9404113 AAAAGGTCCC
9404123 AAAAAAAGTAAAA
1 AAAAAAAGTAAAA
9404136 AAAAAAAGGTTAAAA
1 AAAAAAA-G-TAAAA
9404151 AAAAAAA
1 AAAAAAA
9404158 AAGGAAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 1 0.05
15 12 0.60
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAAAAAGTAAAA
Found at i:9404152 original size:26 final size:28
Alignment explanation
Indices: 9404096--9404155 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
9404086 CTTTCTTCTC
**
9404096 AAAAAGTTAAAAAAATCAAAAGGTCCCAA
1 AAAAAGTTAAAAAAA-CAAAAGGTCAAAA
*
9404125 AAAAAG-TAAAAAAA-AAAAGGTTAAAA
1 AAAAAGTTAAAAAAACAAAAGGTCAAAA
9404151 AAAAA
1 AAAAA
9404156 AAAAGGAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 14 0.50
28 8 0.29
29 6 0.21
ACGTcount: A:0.72, C:0.07, G:0.10, T:0.12
Consensus pattern (28 bp):
AAAAAGTTAAAAAAACAAAAGGTCAAAA
Found at i:9405051 original size:21 final size:21
Alignment explanation
Indices: 9405026--9405070 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
9405016 GCAAGTATTT
* *
9405026 TTTTTTCTTT-TTTCATTTTA
1 TTTTTTATTTATTTAATTTTA
9405046 TTTTTTATTTATTTAATTTTA
1 TTTTTTATTTATTTAATTTTA
9405067 TTTT
1 TTTT
9405071 AAGATTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTATTTATTTAATTTTA
Found at i:9405138 original size:3 final size:3
Alignment explanation
Indices: 9405132--9405191 Score: 54
Period size: 3 Copynumber: 20.0 Consensus size: 3
9405122 CATCGTCATC
* *
9405132 ATT ATT ATC ATT ATT ATT ATT ATT ACT ATT ATT -TT ATCT -TT AATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT -ATT
9405177 ATT ATT -TT ACTT ATT
1 ATT ATT ATT A-TT ATT
9405192 TTAAATTGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
2 5 0.11
3 36 0.77
4 6 0.13
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:9405466 original size:37 final size:37
Alignment explanation
Indices: 9405378--9405470 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 37
9405368 ATTTGAATCT
*
9405378 TAAA-CTTACCAAACTATTGGAAGATTTAATGAAAAA
1 TAAATCTTACCAAACTATTGGAAGATCTAATGAAAAA
* * * * *
9405414 TAAAATCTCATCAAACTATTGGGAGATCTACAT-CAAAG
1 T-AAATCTTACCAAACTATTGGAAGATCTA-ATGAAAAA
9405452 TAAATCTTACCAAACTATT
1 TAAATCTTACCAAACTATT
9405471 AGAGGATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
36 1 0.02
37 19 0.41
38 24 0.52
39 2 0.04
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (37 bp):
TAAATCTTACCAAACTATTGGAAGATCTAATGAAAAA
Found at i:9409683 original size:12 final size:12
Alignment explanation
Indices: 9409663--9409692 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9409653 GATGAAAAGG
9409663 AAAAA-AGAAAA
1 AAAAAGAGAAAA
9409674 AAAAAGAGAAAA
1 AAAAAGAGAAAA
9409686 AAAAAGA
1 AAAAAGA
9409693 AATTGATGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAA
Found at i:9411107 original size:22 final size:22
Alignment explanation
Indices: 9411082--9411202 Score: 93
Period size: 22 Copynumber: 5.3 Consensus size: 22
9411072 TTCGAATGTG
9411082 AATTTTTGATGTGAATCTTT-A
1 AATTTTTGATGTGAATCTTTGA
9411103 CAATTTTTTGAATGTGAA-CATTTGA
1 -AA-TTTTTG-ATGTGAATC-TTTGA
* * *
9411128 AATTTTGGATGTGAATCTCTAA
1 AATTTTTGATGTGAATCTTTGA
*
9411150 AATTTTTCGAATGTAAATCTTTGA
1 AATTTTT-G-ATGTGAATCTTTGA
* * * * *
9411174 AAATTTGGATGTGAAACCTAGA
1 AATTTTTGATGTGAATCTTTGA
9411196 AATTTTT
1 AATTTTT
9411203 CATATGAGAA
Statistics
Matches: 77, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
22 33 0.43
23 15 0.19
24 28 0.36
25 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (22 bp):
AATTTTTGATGTGAATCTTTGA
Found at i:9411117 original size:24 final size:23
Alignment explanation
Indices: 9411084--9411171 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 23
9411074 CGAATGTGAA
9411084 TTTTTG-ATGTGAATCTTTACAAT
1 TTTTTGAATGTGAATCTTTA-AAT
9411107 TTTTTGAATGTGAA-CATTTGAAA-
1 TTTTTGAATGTGAATC-TTT-AAAT
* *
9411130 -TTTTGGATGTGAATCTCTAAAAT
1 TTTTTGAATGTGAATCT-TTAAAT
* *
9411153 TTTTCGAATGTAAATCTTT
1 TTTTTGAATGTGAATCTTT
9411172 GAAAATTTGG
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
22 16 0.31
23 10 0.19
24 25 0.48
25 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.48
Consensus pattern (23 bp):
TTTTTGAATGTGAATCTTTAAAT
Found at i:9411154 original size:46 final size:46
Alignment explanation
Indices: 9411082--9411356 Score: 174
Period size: 46 Copynumber: 6.2 Consensus size: 46
9411072 TTCGAATGTG
* * * * *
9411082 AATTTTTGATGTGAATCTTTACAATTTTTTGAATGTGAA-CATTTGA
1 AATTTTGGATGTGAATCTCTAAAATTTTTCGAATGTAAATC-TTTGA
9411128 AATTTTGGATGTGAATCTCTAAAATTTTTCGAATGTAAATCTTTGA
1 AATTTTGGATGTGAATCTCTAAAATTTTTCGAATGTAAATCTTTGA
* * *
9411174 AAATTTGGATGTGAAAC-CTAGAAATTTTTC-ATATG-AGAATTTTTGA
1 AATTTTGGATGTGAATCTCTA-AAATTTTTCGA-ATGTA-AATCTTTGA
* * *
9411220 AA-TTTGG-T-TG------TGAAATTTTTTGAATGTGAAAT-TTTAA
1 AATTTTGGATGTGAATCTCTAAAATTTTTCGAATGT-AAATCTTTGA
* ** *
9411257 AAATTTCAATGTGAATCTCT-AAATTTTTCGAAGGTAAATCTTT-A
1 AATTTTGGATGTGAATCTCTAAAATTTTTCGAATGTAAATCTTTGA
* * * *
9411301 ACTTTTGGATGTGATACCT-TGAAATTTTTTGAATG-AGAATCTTTG-
1 AATTTTGGATGTGA-ATCTCTAAAATTTTTCGAATGTA-AATCTTTGA
*
9411346 AAGTTTGGATG
1 AATTTTGGATG
9411357 CGGGCCTTGA
Statistics
Matches: 184, Mismatches: 24, Indels: 43
0.73 0.10 0.17
Matches are distributed among these distances:
37 17 0.09
38 8 0.04
39 2 0.01
40 2 0.01
43 2 0.01
44 18 0.10
45 57 0.31
46 77 0.42
47 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (46 bp):
AATTTTGGATGTGAATCTCTAAAATTTTTCGAATGTAAATCTTTGA
Found at i:9413470 original size:25 final size:25
Alignment explanation
Indices: 9413441--9413488 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
9413431 TGGTATTTCC
9413441 TTTTC-TTTTTTCATTTTATTTTATG
1 TTTTCATTTTTT-ATTTTATTTTATG
9413466 TTTTCATTTTTTATTTTATTTTA
1 TTTTCATTTTTTATTTTATTTTA
9413489 AGATTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTCATTTTTTATTTTATTTTATG
Found at i:9413501 original size:3 final size:3
Alignment explanation
Indices: 9413493--9413524 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9413483 ATTTTAAGAT
9413493 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9413525 TGACTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9417940 original size:52 final size:52
Alignment explanation
Indices: 9417836--9417940 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 52
9417826 TATAACCATA
*
9417836 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTTTTCTCCTGTAAGT
1 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTTTTCTCCTGCAAGT
* * * **
9417888 CAAACTTGCCTATTAAGAAT-CCTCTTTCTCTTGGAATTTTTCTTTTGCAAGT
1 CAAACTTGCCCATTAAGAATCCCTC-TCCTCTTAGAATTTTTCTCCTGCAAGT
9417940 C
1 C
9417941 TTCTTGTCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 4 0.09
52 42 0.91
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (52 bp):
CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTTTTCTCCTGCAAGT
Found at i:9417981 original size:11 final size:11
Alignment explanation
Indices: 9417965--9417995 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9417955 GCAATATCTG
9417965 ACAAATCTCAA
1 ACAAATCTCAA
*
9417976 ACAAATCCCAA
1 ACAAATCTCAA
9417987 ACAAATCTC
1 ACAAATCTC
9417996 TTATGAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:9418984 original size:24 final size:23
Alignment explanation
Indices: 9418957--9419023 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 23
9418947 TATTGTTTTC
9418957 ATAATATATTTATTTAACATATGA
1 ATAATATATTTATTTAAC-TATGA
* **
9418981 ATAACTA-ATTTATTTAATCTTTTT
1 ATAA-TATATTTATTTAA-CTATGA
9419005 ATAATATATTTATTTAACT
1 ATAATATATTTATTTAACT
9419024 TGCGGATGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.11
24 30 0.81
25 3 0.08
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.52
Consensus pattern (23 bp):
ATAATATATTTATTTAACTATGA
Found at i:9423377 original size:64 final size:64
Alignment explanation
Indices: 9423251--9423518 Score: 218
Period size: 64 Copynumber: 4.2 Consensus size: 64
9423241 AAATACAAGT
* * * * * *
9423251 ATCAATTATTGCGTTATACACCAAAATAACACAGT-TTTTA-TTCTTTAAAAGCATATGAACATT
1 ATCAATAATTGCATTATACACCAAAGTAACATAGTATTTGACTGCTTTAAAAGCATAT--ACATT
*
9423314 T
64 G
* * * ** * *
9423315 ATGAATTATTGTGA-TATACACCAAAGTAATGTAGTATTTGACTGTTTTAAATGCATATACATTG
1 ATCAATAATTG-CATTATACACCAAAGTAACATAGTATTTGACTGCTTTAAAAGCATATACATTG
* * *
9423379 ATCAATAATTGCATTATACACCAGAGTAACATAGTATTTGATTGCTTTAAAAGCATATACAATG
1 ATCAATAATTGCATTATACACCAAAGTAACATAGTATTTGACTGCTTTAAAAGCATATACATTG
* * * * * * * * * * *
9423443 ATCAATTACTACATTATATACTAGAGTAAAATAGTATTTGATTGTTTTAATAGCATATACAATG
1 ATCAATAATTGCATTATACACCAAAGTAACATAGTATTTGACTGCTTTAAAAGCATATACATTG
* *
9423507 ACCAATTATTGC
1 ATCAATAATTGC
9423519 GTTACAAAAA
Statistics
Matches: 167, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
63 1 0.01
64 149 0.89
65 4 0.02
66 13 0.08
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.37
Consensus pattern (64 bp):
ATCAATAATTGCATTATACACCAAAGTAACATAGTATTTGACTGCTTTAAAAGCATATACATTG
Found at i:9424228 original size:13 final size:14
Alignment explanation
Indices: 9424199--9424232 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
9424189 TGAAAAGAAT
9424199 TTATATATTTATATG
1 TTATA-ATTTATATG
9424214 TTATAATTTAT-TG
1 TTATAATTTATATG
9424227 TTATAA
1 TTATAA
9424233 AAATAAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 6 0.32
15 5 0.26
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (14 bp):
TTATAATTTATATG
Found at i:9427282 original size:81 final size:80
Alignment explanation
Indices: 9427180--9427413 Score: 197
Period size: 81 Copynumber: 2.9 Consensus size: 80
9427170 TTAGGTTACT
*
9427180 TTTTATTATAACACT-ATAATTGAGTTTTTTATAACAAAAATTAAAAATTTAAAACAAATTTTAA
1 TTTTATTATAACA-TAATAATTGAGTTTTTTATAACAAAAATTGAAAATTTAAAACAAATTTTAA
9427244 TCAAATACTGCGCTA-A
65 TCAAATACTGC-CTACA
* * ** ** * * * * **
9427260 TTTTCATTTTAACGTAATAATTGGGAGCGTTAAATAA-AACAATTGACATTTTAAAA-AAAATAA
1 TTTT-ATTATAACATAATAATT--GAGTTTTTTATAACAAAAATTGAAAATTTAAAACAAATTTT
* * *
9427323 AATAAAATACTGCTTACCC
63 AATCAAATACTGCCTA-CA
* * * *
9427342 TTTTATTATAACATAGTAATTAAATTCTTTATAACAAAAAGTTGAAAATTTAAAACAAATTTTAA
1 TTTTATTATAACATAATAATTGAGTTTTTTATAACAAAAA-TTGAAAATTTAAAACAAATTTTAA
9427407 TCAAATA
65 TCAAATA
9427414 GTATGTTAAT
Statistics
Matches: 112, Mismatches: 33, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
79 6 0.05
80 11 0.10
81 55 0.49
82 31 0.28
83 9 0.08
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (80 bp):
TTTTATTATAACATAATAATTGAGTTTTTTATAACAAAAATTGAAAATTTAAAACAAATTTTAAT
CAAATACTGCCTACA
Found at i:9427441 original size:81 final size:79
Alignment explanation
Indices: 9427342--9428208 Score: 320
Period size: 81 Copynumber: 10.9 Consensus size: 79
9427332 CTGCTTACCC
***
9427342 TTTTATTATAACATAGTAATTAAATTCTTTATAACAAAAAGTTGAAAATTTAAAACAAATTTTAA
1 TTTTATTATAATGCAGTAATTAAATTCTTTATAACAAAAA-TTG-AAATTTAAAA-AAATTTTAA
*
9427407 TCAAATAGTATGTTAAT
63 TCAAATACTATGTTAAT
* ** **
9427424 TTTTATTATAATG-AGTAATTAAGA-GCTTTA-AACAAAATAATTG-ACGTTAAAAAAA-TACAA
1 TTTTATTATAATGCAGTAATTAA-ATTCTTTATAAC-AAA-AATTGAAATTTAAAAAAATTTTAA
* * * *
9427484 TCAGATATTGTGTTACT
63 TCAAATACTATGTTAAT
* * * *
9427501 TTTTATTATAATGTAGCAATTGAGTTCTTTATAACAAAAAATTGAAATTTCAAAATAAATTTTAA
1 TTTTATTATAATGCAGTAATTAAATTCTTTATAAC-AAAAATTGAAATTT-AAAA-AAATTTTAA
* *
9427566 TCAAATACTGTATTAA-
63 TCAAATACTATGTTAAT
* ** * * * * *
9427582 TTTTATTATAATGCAGCAATTGGGA-GCATTAT-ACAAAACAATTGACATTTAACAAAAA-ATAA
1 TTTTATTATAATGCAGTAATT-AAATTCTTTATAAC-AAA-AATTGAAATTTAA-AAAAATTTTA
*
9427644 ATAAAATACTGA-GTT-A-
62 ATCAAATACT-ATGTTAAT
* * * *
9427660 TTTTATTATAAAGCAGTAATTAAATTATTTTTAACAAACAATTTAAAATTTAAAATAAATTTTAA
1 TTTTATTATAATGCAGTAATTAAATTCTTTATAACAAA-AA-TTGAAATTTAAAA-AAATTTTAA
* *
9427725 TCAAATATTGTGTTAAT
63 TCAAATACTATGTTAAT
* * * * * * * * * **
9427742 CTTTACTATAAAGTAGTAATTAGGA-GCCTTATAGA-AAACAATTGACATTTTAAAAAA-TACAA
1 TTTTATTATAATGCAGTAATTA-AATTCTTTATA-ACAAA-AATTGAAATTTAAAAAAATTTTAA
* **
9427804 TCACATACTATGTTTTTTT
63 TCAAATACTATG--TTAAT
** * * *
9427823 TTTTATTATAATGCAGTAA-CGAGTTGTTTAT-A-AAAAATTAAAATTTAAAACAAATTTTAATC
1 TTTTATTATAATGCAGTAATTAAATTCTTTATAACAAAAATTGAAATTTAAAA-AAATTTTAATC
9427885 AAATA-T-TGCATTAAT
65 AAATACTATG--TTAAT
* * * * * * **
9427900 TTTTATTATAACGCAGTAATTAAGAGT-ATTA-CACAAAATAATTGACATTTTAAAAAA-TACAA
1 TTTTATTATAATGCAGTAATTAA-ATTCTTTATAAC-AAA-AATTGAAATTTAAAAAAATTTTAA
* * ** *
9427962 ACAAATAATGCGTTACT
63 TCAAATACTATGTTAAT
* * * * * * * *
9427979 TTTTATTATAACGCAATGATTGATTTTTTTATAACAAAAAATTG-AA---AATAAAATTTAAATC
1 TTTTATTATAATGCAGTAATTAAATTCTTTATAAC-AAAAATTGAAATTTAAAAAAATTTTAATC
* * *
9428040 GAACACTGTGTTAAT
65 AAATACTATGTTAAT
* * ** * * * **
9428055 TTTTATTATAATGTAGCAATTGGGAGTC-TTAT-ACAAAACAATTGACATTTAAAAAAAATACAA
1 TTTTATTATAATGCAGTAATT-AAATTCTTTATAAC-AAA-AATTGAAATTTAAAAAAATTTTAA
* * *
9428118 TAAAATA-T-TGCATCATT
63 TCAAATACTATG--TTAAT
* * * * ** *
9428135 TTTTATTATAACGCATTAATTGAGTTCTTTATAACAAAAAATAAAAAATTTAAAACAAGTTTTAA
1 TTTTATTATAATGCAGTAATTAAATTCTTTATAAC-AAAAAT-TGAAATTTAAAA-AAATTTTAA
9428200 TCAAATACT
63 TCAAATACT
9428209 TAAAGCAGTG
Statistics
Matches: 578, Mismatches: 154, Indels: 105
0.69 0.18 0.13
Matches are distributed among these distances:
75 11 0.02
76 39 0.07
77 68 0.12
78 68 0.12
79 111 0.19
80 91 0.16
81 117 0.20
82 70 0.12
83 3 0.01
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (79 bp):
TTTTATTATAATGCAGTAATTAAATTCTTTATAACAAAAATTGAAATTTAAAAAAATTTTAATCA
AATACTATGTTAAT
Found at i:9427539 original size:159 final size:161
Alignment explanation
Indices: 9427174--9428590 Score: 1145
Period size: 159 Copynumber: 9.0 Consensus size: 161
9427164 CAGTTATTAG
* * *
9427174 GTTACTTTTTATTATAACACTA-TAATTGAGTTTTTTATAACAAAAATTAAAAATTTAAAACAAA
1 GTTACTTTTTATTATAACGC-AGTAATTGAGTTCTTTATAACAAAAATTGAAAATTTAAAACAAA
* * * * * * * * * *
9427238 TTTTAATCAAATACTGCGCTAATTTTCATTTTAACGTAATAATTGGGAGCGTTAAATAAAACAAT
65 TTTTAATCAAATACTGTGTTAATTTTTATTATAATGTAGTAATTAGGAGCTTTATACAAAACAAT
* *
9427303 TGACATTTTAAAAAAAATAAAATAAAATACTGC
130 TGACA-TTTAAAAAAAATACAATAAAATATTGC
* ** * *
9427336 -TTACCCTTTTATTATAACATAGTAATTAAATTCTTTATAACAAAAAGTTGAAAATTTAAAACAA
1 GTTA-CTTTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAAAA-TTGAAAATTTAAAACAA
* * * * *
9427400 ATTTTAATCAAATAGTATGTTAATTTTTATTATAATG-AGTAATTAAGAGCTTTAAACAAAATAA
64 ATTTTAATCAAATACTGTGTTAATTTTTATTATAATGTAGTAATTAGGAGCTTTATACAAAACAA
* * * *
9427464 TTGAC-GTT-AAAAAAATACAATCAGATATTGT
129 TTGACATTTAAAAAAAATACAATAAAATATTGC
* * * *
9427495 GTTACTTTTTATTATAATGTAGCAATTGAGTTCTTTATAACAAAAAATTG-AAATTTCAAAATAA
1 GTTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAAC-AAAAATTGAAAATTT-AAAACAA
* * * * *
9427559 ATTTTAATCAAATACTGTATTAA-TTTTATTATAATGCAGCAATTGGGAGCATTATACAAAACAA
64 ATTTTAATCAAATACTGTGTTAATTTTTATTATAATGTAGTAATTAGGAGCTTTATACAAAACAA
* *
9427623 TTGACATTTAACAAAAAATA-AATAAAATACTGA
129 TTGACATTTAA-AAAAAATACAATAAAATATTGC
* * * * * * *
9427656 GTTA--TTTTATTATAAAGCAGTAATTAAATTATTTTTAACAAACAATTTAAAATTTAAAATAAA
1 GTTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAA-AATTGAAAATTTAAAACAAA
* * * * * *
9427719 TTTTAATCAAATATTGTGTTAATCTTTACTATAAAGTAGTAATTAGGAGCCTTATAGAAAACAAT
65 TTTTAATCAAATACTGTGTTAATTTTTATTATAATGTAGTAATTAGGAGCTTTATACAAAACAAT
* * * *
9427784 TGACATTT-TAAAAAATACAATCACATACTATGT
130 TGACATTTAAAAAAAATACAATAAAATA-T-TGC
* ** * * *
9427817 TTTTTTTTTTATTATAATGCAGTAA-CGAGTTGTTTAT-A-AAAAATT-AAAATTTAAAACAAAT
1 GTTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAAAATTGAAAATTTAAAACAAAT
* ** * * * * *
9427878 TTTAATCAAATATTGCATTAATTTTTATTATAACGCAGTAATTAAGAG-TATTACACAAAATAAT
66 TTTAATCAAATACTGTGTTAATTTTTATTATAATGTAGTAATTAGGAGCT-TTATACAAAACAAT
* *
9427942 TGACATTT-TAAAAAATACAA-ACAAATAATGC
130 TGACATTTAAAAAAAATACAATA-AAATATTGC
* * * *
9427973 GTTACTTTTTATTATAACGCAATGATTGATTTTTTTATAACAAAAAATTGAAAA--T---A-AAA
1 GTTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAAC-AAAAATTGAAAATTTAAAACAAA
* * * * *
9428032 TTTAAATCGAACACTGTGTTAATTTTTATTATAATGTAGCAATTGGGAG-TCTTATACAAAACAA
65 TTTTAATCAAATACTGTGTTAATTTTTATTATAATGTAGTAATTAGGAGCT-TTATACAAAACAA
9428096 TTGACATTTAAAAAAAATACAATAAAATATTGC
129 TTGACATTTAAAAAAAATACAATAAAATATTGC
* * * * ** *
9428129 ATCATTTTTTATTATAACGCATTAATTGAGTTCTTTATAACAAAAAATAAAAAATTTAAAACAAG
1 GTTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAAC-AAAAATTGAAAATTTAAAACAAA
* * *
9428194 TTTTAATCAAATAC--------------TTA-AA-GCAGTGATTAGGAGCCTTATACAAAACAAT
65 TTTTAATCAAATACTGTGTTAATTTTTATTATAATGTAGTAATTAGGAGCTTTATACAAAACAAT
** * * * *
9428243 TGACATTTTTAAAAAATATAATCAAATACTAC
130 TGACATTTAAAAAAAATACAATAAAATATTGC
* ** * *
9428275 GTTATTTTTTATTATAACATAGTAATTGAGTTCTTTATAACAAAAAATTCAAAATTTTTAAA-AA
1 GTTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAAC-AAAAATTGAAAA-TTTAAAACAA
* * * * * *
9428339 A-TTTAATCAAATATTGCGTTAATTTTTATTATAACGTATTAATT-GAAAGCATTATACAAAACA
64 ATTTTAATCAAATACTGTGTTAATTTTTATTATAATGTAGTAATTAG-GAGCTTTATACAAAACA
* ** *
9428402 ATTGATATTTTTAAAAAATACAATCAAATATTGC
128 ATTGACATTTAAAAAAAATACAATAAAATATTGC
* * * * *
9428436 ATTA-TGTTCTATTATAATGCAATAATTGAATTCTTTATAACAAAAATTTG-AAATTTAAAACAA
1 GTTACT-TTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAAAA-TTGAAAATTTAAAACAA
** * * * *
9428499 A--TT--TCAAATACTACGTTAATCTTTATTATAATGTAATAATTGGGAG-TCTTATACAAAATA
64 ATTTTAATCAAATACTGTGTTAATTTTTATTATAATGTAGTAATTAGGAGCT-TTATACAAAACA
* * *
9428559 ATTGACATTTTAAAAAAATAAAATCAAATATT
128 ATTGACATTTAAAAAAAATACAATAAAATATT
9428591 ATAAAGTTTT
Statistics
Matches: 1017, Mismatches: 181, Indels: 119
0.77 0.14 0.09
Matches are distributed among these distances:
145 12 0.01
146 99 0.10
147 8 0.01
148 3 0.00
155 62 0.06
156 86 0.08
157 85 0.08
158 124 0.12
159 187 0.18
160 85 0.08
161 113 0.11
162 89 0.09
163 64 0.06
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (161 bp):
GTTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAAAATTGAAAATTTAAAACAAAT
TTTAATCAAATACTGTGTTAATTTTTATTATAATGTAGTAATTAGGAGCTTTATACAAAACAATT
GACATTTAAAAAAAATACAATAAAATATTGC
Found at i:9428241 original size:146 final size:145
Alignment explanation
Indices: 9428077--9428351 Score: 383
Period size: 146 Copynumber: 1.9 Consensus size: 145
9428067 GTAGCAATTG
* * *
9428077 GGAGTCTTATACAAAACAATTGACATTTAAAAAAAATACAATAAAATATTGCATCATTTTTTATT
1 GGAGCCTTATACAAAACAATTGACATTTAAAAAAAATACAATAAAATACTACATCATTTTTTATT
* *
9428142 ATAACGCATTAATTGAGTTCTTTATAACAAAAAA-T-AAAAAATTTAAAACAAGTTTTAATCAAA
66 ATAACACAGTAATTGAGTTCTTTATAACAAAAAATTCAAAAAATTTAAAA-AA--TTTAATCAAA
9428205 TACTTAAAGCAGTGATTA
128 TACTTAAAGCAGTGATTA
** * * * *
9428223 GGAGCCTTATACAAAACAATTGACATTTTTAAAAAATATAATCAAATACTACGTTATTTTTTATT
1 GGAGCCTTATACAAAACAATTGACATTTAAAAAAAATACAATAAAATACTACATCATTTTTTATT
* **
9428288 ATAACATAGTAATTGAGTTCTTTATAACAAAAAATTCAAAATTTTTAAAAAATTTAATCAAATA
66 ATAACACAGTAATTGAGTTCTTTATAACAAAAAATTCAAAAAATTTAAAAAATTTAATCAAATA
9428352 TTGCGTTAAT
Statistics
Matches: 113, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
145 12 0.11
146 87 0.77
147 3 0.03
148 11 0.10
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (145 bp):
GGAGCCTTATACAAAACAATTGACATTTAAAAAAAATACAATAAAATACTACATCATTTTTTATT
ATAACACAGTAATTGAGTTCTTTATAACAAAAAATTCAAAAAATTTAAAAAATTTAATCAAATAC
TTAAAGCAGTGATTA
Found at i:9428334 original size:81 final size:79
Alignment explanation
Indices: 9428229--9428588 Score: 306
Period size: 80 Copynumber: 4.5 Consensus size: 79
9428219 ATTAGGAGCC
* *
9428229 TTATACAAAACAATTGACATTTTTAAAAAATATAATCAAATACTACGTTATTTTTTATTATAACA
1 TTATACAAAACAATTGAAATTTTTAAAAAATATAATCAAATACTACGTTAATTTTTATTATAACA
*
9428294 TAGTAATTGAGTTCT
66 TA-TAATTGAATTCT
* * * *
9428309 TTATAACAAAA-AATTCAAAATTTTTAAAAAATTTAATCAAATATTGCGTTAATTTTTATTATAA
1 TTAT-ACAAAACAATT-GAAATTTTTAAAAAATATAATCAAATACTACGTTAATTTTTATTATAA
* ** *
9428373 CGTATTAATTGAAAGCA
64 CATA-TAATTGAATTCT
* * * * * *
9428390 TTATACAAAACAATTGATATTTTTAAAAAATACAATCAAATATTGCATT-ATGTTCTATTATAAT
1 TTATACAAAACAATTGAAATTTTTAAAAAATATAATCAAATACTACGTTAAT-TTTTATTATAA-
9428454 GCA-ATAATTGAATTCT
64 -CATATAATTGAATTCT
* * *
9428470 TTATAACAAAA-ATTTGAAA--TTTAAAACAA-AT-TTCAAATACTACGTTAATCTTTATTATAA
1 TTAT-ACAAAACAATTGAAATTTTTAAAA-AATATAATCAAATACTACGTTAATTTTTATTATAA
** * *
9428530 TGTAATAATTGGGAGTC-
64 CAT-ATAATT-GAATTCT
* * * *
9428547 TTATACAAAATAATTGACATTTTAAAAAAATAAAATCAAATA
1 TTATACAAAACAATTGAAATTTTTAAAAAATATAATCAAATA
9428589 TTATAAAGTT
Statistics
Matches: 223, Mismatches: 40, Indels: 34
0.75 0.13 0.11
Matches are distributed among these distances:
76 6 0.03
77 36 0.16
78 16 0.07
79 11 0.05
80 79 0.35
81 74 0.33
82 1 0.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (79 bp):
TTATACAAAACAATTGAAATTTTTAAAAAATATAATCAAATACTACGTTAATTTTTATTATAACA
TATAATTGAATTCT
Found at i:9428782 original size:79 final size:75
Alignment explanation
Indices: 9428665--9428960 Score: 220
Period size: 79 Copynumber: 3.7 Consensus size: 75
9428655 AGCATTAAAC
* * ** * * *
9428665 AAAACAATTGATATTTTAAAA-AAATACAATCAAATATTGCATTATGTTCTATTATTATGCAATA
1 AAAAAAATTGA-AATTTAAAACAAATTTAATCAAATATTGCATTAT-TT-TATTATAACGTAATA
*
9428729 ATTGAACACTTTAT
63 ATTGAA-ATTTTAT
*
9428743 AAAAAAATTGAAATTTAAAACAAAGTTTAATCAAATATTGTATTAATCTTTATTATAACGTAATA
1 AAAAAAATTGAAATTTAAAACAAA-TTTAATCAAATATTGCATT-AT-TTTATTATAACGTAATA
*
9428808 ATTGGAAGTTTTAT
63 ATT-GAAATTTTAT
* ** * * * *
9428822 ACAAAACAATTGACATTTAAAA-AAATAAAATAAAATATTGCGTTACTTTTTATTCTAACGTAGT
1 A-AAAA-AATTGAAATTTAAAACAAATTTAATCAAATATTGCATTA--TTTTATTATAACGTAAT
*
9428886 AATT-AAGTTTTTTAT
62 AATTGAA--ATTTTAT
* *
9428901 AATAAAAATTGAAAATTTAAAACAAAATTTAATCAAATACTACATTAATTTTTATTATAA
1 AA-AAAAATTG-AAATTTAAAAC-AAATTTAATCAAATATTGCATT-A-TTTTATTATAA
9428961 GCAGTAGTTG
Statistics
Matches: 175, Mismatches: 28, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
77 10 0.06
78 20 0.11
79 88 0.50
80 15 0.09
81 41 0.23
82 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (75 bp):
AAAAAAATTGAAATTTAAAACAAATTTAATCAAATATTGCATTATTTTATTATAACGTAATAATT
GAAATTTTAT
Found at i:9429217 original size:80 final size:79
Alignment explanation
Indices: 9428979--9429359 Score: 256
Period size: 82 Copynumber: 4.7 Consensus size: 79
9428969 TGGGAGCGTT
* *
9428979 ACAATTGACATTTTAAAAAAAATACAATCAAATACTGCGTTACTGTTTATTATAATGCAGTAATT
1 ACAATTGACATTTT-AAAAAAATACAATCAAATACTGAGTTACTCTTTATTATAATGCAGTAATT
* *
9429044 GAGTTATTTATA-ACA
65 GAG-TCTTTATACAAA
* * ** *
9429059 ACAAATTGAAAATTTAAAACAAATTTTAATCAAATACT-ATGTTAATCTTTATTATAATGCAGTA
1 AC-AATTGACATTTTAAAA-AAA-TACAATCAAATACTGA-GTTACTCTTTATTATAATGCAGTA
* *
9429123 GTCATGAGAC-TTATACAAA
62 AT--TGAGTCTTTATACAAA
* * *
9429142 ACAATTGACATTTTAAAATAATACAATCAAATACTGAATTACTTTTTATTATAATGCAGTAATTG
1 ACAATTGACATTTTAAAAAAATACAATCAAATACTGAGTTACTCTTTATTATAATGCAGTAATTG
9429207 AGCTCTTTATATCAAA
66 AG-TCTTTATA-CAAA
* * * * ** * * * **
9429223 A-AATTAAAAATTAAAATTAAAATTTAATCAAATACT-ACATTAATTTTTTATTATAACACAGTA
1 ACAATTGACATTTTAAA--AAAATACAATCAAATACTGA-GTT-ACTCTTTATTATAATGCAGTA
*
9429286 ATTAGGAG-CATTATACAAA
62 ATT--GAGTCTTTATACAAA
* * * * *
9429305 ATAATTGGCA-TTTAAGCAAAAGTACAATCAAATA-TTATGTTACTTTTTATTATAA
1 ACAATTGACATTTTAA--AAAAATACAATCAAATACTGA-GTTACTCTTTATTATAA
9429360 ATGATGCCAT
Statistics
Matches: 238, Mismatches: 42, Indels: 41
0.74 0.13 0.13
Matches are distributed among these distances:
78 4 0.02
79 1 0.00
80 56 0.24
81 36 0.15
82 97 0.41
83 36 0.15
84 5 0.02
85 3 0.01
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (79 bp):
ACAATTGACATTTTAAAAAAATACAATCAAATACTGAGTTACTCTTTATTATAATGCAGTAATTG
AGTCTTTATACAAA
Found at i:9429251 original size:162 final size:160
Alignment explanation
Indices: 9428609--9429359 Score: 689
Period size: 162 Copynumber: 4.7 Consensus size: 160
9428599 TTAAAAGAAT
* * *
9428609 TTTAATCAAATACTACGTTAATTTTTATTATAATGCGGTAAT-TG-GAAGCATTAAACAAAACAA
1 TTTAATCAAATACTACATTAATTTTTATTATAA-GCAGTAATATGAG-A-C-TTATACAAAACAA
* * * * * * *
9428672 TTGATATTTTAAAAAAATACAATCAAATATTGCATTA-TGTTCTATTATTATGCAATAATTGAAC
62 TTGACATTTTAAAAAAATACAATCAAATACTGCGTTACT-TTTTATTATAATGCAGTAATTGAGC
* *
9428736 ACTTTATA--AAAAAATTG-AAATTTAAAACAAAG
126 TCTTTATATCAAAAAATTGAAAATTTAAAACAAAA
* ** * **
9428768 TTTAATCAAATATTGTATTAATCTTTATTATAA-C-GTAATAATTGGAAGTTTTATACAAAACAA
1 TTTAATCAAATACTACATTAATTTTTATTATAAGCAGTAAT-A-T-G-AGACTTATACAAAACAA
* * * * * * *
9428831 TTGACA-TTTAAAAAAATAAAATAAAATATTGCGTTACTTTTTATTCTAACGTAGTAATTAAG-T
62 TTGACATTTTAAAAAAATACAATCAAATACTGCGTTACTTTTTATTATAATGCAGTAATTGAGCT
* *
9428894 -TTTTTATAATAAAAATTGAAAATTTAAAACAAAA
127 CTTTATATCA-AAAAATTGAAAATTTAAAACAAAA
* * *
9428928 TTTAATCAAATACTACATTAATTTTTATTATAAGCAGTAGT-TGGGAGCGT-T-----ACAATTG
1 TTTAATCAAATACTACATTAATTTTTATTATAAGCAGTAATATGAGA-CTTATACAAAACAATTG
* * *
9428986 ACATTTTAAAAAAAATACAATCAAATACTGCGTTACTGTTTATTATAATGCAGTAATTGAGTTAT
65 ACATTTT-AAAAAAATACAATCAAATACTGCGTTACTTTTTATTATAATGCAGTAATTGAGCTCT
* * *
9429051 TTATAACAACAAATTGAAAATTTAAAACAAAT
129 TTATATCAAAAAATTGAAAATTTAAAACAAAA
** * *
9429083 TTTAATCAAATACTATGTTAATCTTTATTATAATGCAGTAGTCATGAGACTTATACAAAACAATT
1 TTTAATCAAATACTACATTAATTTTTATTATAA-GCAGTAAT-ATGAGACTTATACAAAACAATT
* **
9429148 GACATTTTAAAATAATACAATCAAATACTGAATTACTTTTTATTATAATGCAGTAATTGAGCTCT
64 GACATTTTAAAAAAATACAATCAAATACTGCGTTACTTTTTATTATAATGCAGTAATTGAGCTCT
* *
9429213 TTATATCAAAAAATT-AAAAATTAAAATTAAAA
129 TTATATCAAAAAATTGAAAATTTAAAA-CAAAA
* * *
9429245 TTTAATCAAATACTACATTAATTTTTTATTATAACACAGTAATTAGGAG-CATTATACAAAATAA
1 TTTAATCAAATACTACATTAA-TTTTTATTATAA-GCAGTAA-TATGAGAC-TTATACAAAACAA
* * * **
9429309 TTGGCA-TTTAAGCAAAAGTACAATCAAATATTATGTTACTTTTTATTATAA
62 TTGACATTTTAA--AAAAATACAATCAAATACTGCGTTACTTTTTATTATAA
9429360 ATGATGCCAT
Statistics
Matches: 483, Mismatches: 76, Indels: 61
0.78 0.12 0.10
Matches are distributed among these distances:
152 10 0.02
153 3 0.01
154 45 0.09
155 53 0.11
156 24 0.05
157 5 0.01
158 51 0.11
159 56 0.12
160 44 0.09
161 11 0.02
162 97 0.20
163 51 0.11
164 33 0.07
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (160 bp):
TTTAATCAAATACTACATTAATTTTTATTATAAGCAGTAATATGAGACTTATACAAAACAATTGA
CATTTTAAAAAAATACAATCAAATACTGCGTTACTTTTTATTATAATGCAGTAATTGAGCTCTTT
ATATCAAAAAATTGAAAATTTAAAACAAAA
Found at i:9431355 original size:162 final size:160
Alignment explanation
Indices: 9431084--9432220 Score: 1216
Period size: 162 Copynumber: 7.1 Consensus size: 160
9431074 CAATTTTATC
* *
9431084 TTACTTTTTATTATAACGCATTAATTGAGTTCTTTATAACAAAAAATTAAAAATTTAAAAAAAAT
1 TTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAAAAATTAAAAATTTAAAACAAAT
* * * *
9431149 TTTAATCAAATATTACGTTAATTGTTATTAT-A-GCATAGTAATTAGGAGCAC-TATACAAAACA
66 TTTAATCAAATACTGCATTAATTTTTATTATAATGC--AGTAATT-GGAGC-CTTATACAAAACA
* *
9431211 ATTGACTTTTTACAAAAATAAAATCAAATACTGTT
127 ATTGACATTTTA-AAAAATACAATCAAATACTGTT
* * * * * *
9431246 TTACTTTTTAGTATAATGCATTAATTGAGTTTTTTATAACAAAAAAATGAAAATTTAAAACAAAT
1 TTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAAAAATTAAAAATTTAAAACAAAT
* *
9431311 TTTAATCAAATACTGCATTAATTTTTATTATAATGCATTAATTAGGAGCATTATACAAAACAATT
66 TTTAATCAAATACTGCATTAATTTTTATTATAATGCAGTAATT-GGAGCCTTATACAAAACAATT
* **
9431376 GACATTTAACAAAAATACAATCAAATACTGCA
130 GACATTTTA-AAAAATACAATCAAATACTGTT
* *
9431408 TTACTTTTTATTATAACACAGTAATTGAGTTCTTTATAACAAAAATATT-AATATTTAAAACAAA
1 TTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAAAA-ATTAAAAATTTAAAACAAA
* * ** * *
9431472 TTTTAATCAAATACTACATTAATCTTTATTATAACACAATAATTAAGAGCCTTATACAAAA-AAT
65 TTTTAATCAAATACTGCATTAATTTTTATTATAATGCAGTAATT-GGAGCCTTATACAAAACAAT
* * * * * *
9431536 T-ATATATAAAAAAACTACTATCAAATATTGCT
129 TGACATTTTAAAAAA-TACAATCAAATACTGTT
* * * * *
9431568 TGACTTTTTATTATAACACTGTAATTGAGTTTTTTATTACAAAAAATT-AAAATTTAAAACAAAT
1 TTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAAAAATTAAAAATTTAAAACAAAT
* * * *
9431632 TTTAATCAAATACTGCATT-ATTTTTATTATAATGTAGTAATTGAAAACGTTATACAAAACAATT
66 TTTAATCAAATACTGCATTAATTTTTATTATAATGCAGTAATTG-GAGCCTTATACAAAACAATT
* *
9431696 -A-ATATTT-AAAAATACAAAT-AAATATTGTG
130 GACAT-TTTAAAAAATAC-AATCAAATACTGTT
* * * *
9431725 TTACTTTTTATTATAACGTAGTAATTGAGTTTTTTATAACAAAAAATT-GAAATTTAAAAGAAAT
1 TTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAAAAATTAAAAATTTAAAACAAAT
* * * * *
9431789 TTTAAT-AAAAAGCTACGTTAA-TTTTATTATGATGTAGTAATTGGGAGCCTTATACAAAACAAT
66 TTTAATCAAATA-CTGCATTAATTTTTATTATAATGCAGTAATT-GGAGCCTTATACAAAACAAT
* *
9431852 TGACATTTTAAAAAAGTACAATCAAATATTGTG
129 TGACATTTTAAAAAA-TACAATCAAATACTGTT
*
9431885 TTAC-TTTTATTATAA--CAGTAATTGAGTTCTTTATAACAAAAAATTAAAAATTTAATACAAAT
1 TTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAAAAATTAAAAATTTAAAACAAAT
* * * *
9431947 TTTAATCAAATATTGCATTAATCTTTATTATAATGCAGTAATTTGAGCCTTATAC-AAATAATTG
66 TTTAATCAAATACTGCATTAATTTTTATTATAATGCAGTAATTGGAGCCTTATACAAAACAATTG
***
9432011 ACATTTTAAAAAATACAATCAAATACCACAT
131 ACATTTTAAAAAATACAATCAAATA-CTGTT
*** * **
9432042 TT-CTTTTTATTATAATATAGTAATTGAGTTCTTTATAGCAAAAAATTAAAAATTTAAAATGAAT
1 TTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAAAAATTAAAAATTTAAAACAAAT
* * ** * * * *
9432106 TTTAATTAAATATTGTGTTAATTTTTTTATTATAACGCAGTAATTGAGAGTCTTATGCAAAATAA
66 TTTAATCAAATACTGCATTAA--TTTTTATTATAATGCAGTAATTG-GAGCCTTATACAAAACAA
* ***
9432171 TTGACATTTTAAAAAAATACAATCAAATATTACA
128 TTGACATTTT-AAAAAATACAATCAAATACTGTT
9432205 TTACTTTTTATTATAA
1 TTACTTTTTATTATAA
9432221 ATGATACCAT
Statistics
Matches: 838, Mismatches: 107, Indels: 58
0.84 0.11 0.06
Matches are distributed among these distances:
156 17 0.02
157 178 0.21
158 81 0.10
159 150 0.18
160 78 0.09
161 24 0.03
162 256 0.31
163 21 0.03
164 33 0.04
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (160 bp):
TTACTTTTTATTATAACGCAGTAATTGAGTTCTTTATAACAAAAAATTAAAAATTTAAAACAAAT
TTTAATCAAATACTGCATTAATTTTTATTATAATGCAGTAATTGGAGCCTTATACAAAACAATTG
ACATTTTAAAAAATACAATCAAATACTGTT
Found at i:9431762 original size:77 final size:78
Alignment explanation
Indices: 9431084--9432220 Score: 458
Period size: 80 Copynumber: 14.2 Consensus size: 78
9431074 CAATTTTATC
* * *
9431084 TTACTTTTTATTATAACGCATTAATTGAGTTCTTTATAACAAAAAATTAAAAATTTAAAAAAAAT
1 TTACTTTTTATTATAACGTAGTAATTGAGTTCTTTAT-ACAAAAAATT-AATATTT--AAAAAAT
*** **
9431149 TTTAATCAAATATTACG
62 ACAAATCAAATATTGTG
* * * * ** * *
9431166 TTAATTGTTATTATAGCATAGTAATTAGGAG--CACTATACAAAACAATTGACTTTTTACAAAAA
1 TTACTTTTTATTATAACGTAGTAATT--GAGTTCTTTATACAAAA-AATT-AATATTTA-AAAAA
* *
9431229 TA-AAATCAAATACTGTT
61 TACAAATCAAATATTGTG
* * * * * * *
9431246 TTACTTTTTAGTATAATGCATTAATTGAGTTTTTTATAACAAAAAAATGAAAATTTAAAACAAAT
1 TTACTTTTTATTATAACGTAGTAATTGAGTTCTTTAT-AC-AAAAAATTAATATTT-AAA-AAAT
*** * **
9431311 TTTAATCAAATACTGCA
62 ACAAATCAAATATTGTG
* * * * * * *
9431328 TTAATTTTTATTATAATGCATTAATTAGGAG--CATTATACAAAACAATTGACATTTAACAAAAA
1 TTACTTTTTATTATAACGTAGTAATT--GAGTTCTTTATACAAAA-AATTAATATTT-A-AAAAA
* **
9431391 TAC-AATCAAATACTGCA
61 TACAAATCAAATATTGTG
**
9431408 TTACTTTTTATTATAACACAGTAATTGAGTTCTTTATAACAAAAATATTAATATTTAAAACAAAT
1 TTACTTTTTATTATAACGTAGTAATTGAGTTCTTTAT-ACAAAAA-ATTAATATTT-AAA-AAAT
*** * ***
9431473 TTTAATCAAATACTACA
62 ACAAATCAAATATTGTG
* * ** * * ** * *
9431490 TTAATCTTTATTATAACACAATAATTAAGAGCCTTATACAAAAAATT-ATATATAAAAAA-ACTA
1 TTACTTTTTATTATAACGTAGTAATTGAGTTCTTTATACAAAAAATTAATATTTAAAAAATAC-A
*
9431553 CTATCAAATATTGCT-
65 -AATCAAATATTG-TG
* * * *
9431568 TGACTTTTTATTATAACACT-GTAATTGAGTTTTTTATTACAAAAAATTAAAATTTAAAACAAAT
1 TTACTTTTTATTATAAC-GTAGTAATTGAGTTCTTTA-TACAAAAAATTAATATTT-AAA-AAAT
*** * **
9431632 TTTAATCAAATACTGCA
62 ACAAATCAAATATTGTG
* *** *
9431649 TTA-TTTTTATTATAATGTAGTAATTGAAAACGTTATACAAAACAATTAATATTT-AAAAATACA
1 TTACTTTTTATTATAACGTAGTAATTGAGTTCTTTATACAAAA-AATTAATATTTAAAAAATACA
9431712 AAT-AAATATTGTG
65 AATCAAATATTGTG
*
9431725 TTACTTTTTATTATAACGTAGTAATTGAGTTTTTTATAACAAAAAATTGAA-ATTTAAAAGAAAT
1 TTACTTTTTATTATAACGTAGTAATTGAGTTCTTTAT-ACAAAAAATT-AATATTT-AAA-AAAT
*** * * **
9431789 TTTAAT-AAAAAGCTACG
62 ACAAATCAAATA-TTGTG
* * * * ** *
9431806 TTA-ATTTTATTATGATGTAGTAATTGGGAGCCTTATACAAAACAATTGACAT-TTTAAAAAAGT
1 TTACTTTTTATTATAACGTAGTAATTGAGTTCTTTATACAAAA-AATT-A-ATATTTAAAAAA-T
9431869 AC-AATCAAATATTGTG
62 ACAAATCAAATATTGTG
*
9431885 TTAC-TTTTATTATAAC--AGTAATTGAGTTCTTTATAACAAAAAATTAAAAATTTAATACAAAT
1 TTACTTTTTATTATAACGTAGTAATTGAGTTCTTTAT-ACAAAAAATT-AATATTTAA-A-AAAT
*** **
9431947 TTTAATCAAATATTGCA
62 ACAAATCAAATATTGTG
* * * * * *
9431964 TTAATCTTTATTATAATGCAGTAATTTGAG--CCTTATACAAATAATTGACAT-TTTAAAAAATA
1 TTACTTTTTATTATAACGTAGTAA-TTGAGTTCTTTATACAAAAAATT-A-ATATTTAAAAAATA
*****
9432026 C-AATCAAATACCACA
63 CAAATCAAATATTGTG
* ** *
9432041 TTTCTTTTTATTATAATATAGTAATTGAGTTCTTTATAGCAAAAAATTAAAAATTTAAAATGAAT
1 TTACTTTTTATTATAACGTAGTAATTGAGTTCTTTATA-CAAAAAATT-AATATTTAAAA--AAT
*** *
9432106 TTTAATTAAATATTGTG
62 ACAAATCAAATATTGTG
* * * *
9432123 TTAATTTTTTTATTATAACGCAGTAATTGAGAGTC-TTATGCAAAATAATTGACAT-TTTAAAAA
1 TT-A-CTTTTTATTATAACGTAGTAATTGAG-TTCTTTATACAAAA-AATT-A-ATATTT-AAAA
***
9432186 AATAC-AATCAAATATTACA
59 AATACAAATCAAATATTGTG
9432205 TTACTTTTTATTATAA
1 TTACTTTTTATTATAA
9432221 ATGATACCAT
Statistics
Matches: 797, Mismatches: 189, Indels: 140
0.71 0.17 0.12
Matches are distributed among these distances:
76 16 0.02
77 99 0.12
78 71 0.09
79 88 0.11
80 213 0.27
81 99 0.12
82 151 0.19
83 13 0.02
84 40 0.05
85 7 0.01
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (78 bp):
TTACTTTTTATTATAACGTAGTAATTGAGTTCTTTATACAAAAAATTAATATTTAAAAAATACAA
ATCAAATATTGTG
Found at i:9433660 original size:17 final size:17
Alignment explanation
Indices: 9433638--9433670 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9433628 TTCTAAAAAC
9433638 AATTTAACACTATTAAT
1 AATTTAACACTATTAAT
9433655 AATTTAACACTATTAA
1 AATTTAACACTATTAA
9433671 CAGTTTGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTTAACACTATTAAT
Found at i:9433984 original size:82 final size:80
Alignment explanation
Indices: 9433884--9434239 Score: 233
Period size: 80 Copynumber: 4.4 Consensus size: 80
9433874 ACTTGGGCAC
* ** *
9433884 TTTTTGTTATAATGTAGTAATTGAGTTTTTTATAATAAAAACTTAAAAATTTAAAACAAAATTTA
1 TTTTTATTATAACATAGTAATTGAGTTATTTATAA-AAAAA-TTAAAAATTTAAAACAAAATTTA
9433949 ATCAAATATTGTGTTAA
64 ATCAAATATTGTGTTAA
* ** * * * * * * * **
9433966 TTATTATTATAACATAGTAATT-AGGAAAGTCACACAAAACAATT-GACATTTTACA-AAAATAC
1 TTTTTATTATAACATAGTAATTGA-GTTATTTATA-AAAA-AATTAAAAATTTAAAACAAAATTT
*
9434028 AATCAAATATTGTGTTAC
63 AATCAAATATTGTGTTAA
* * *
9434046 TTTTTATTATAACATAGTAATTGAGTTCTTTATAACCAAAAGTTAAAAATTTAAAACAAATTTTA
1 TTTTTATTATAACATAGTAATTGAGTTATTTATAA--AAAAATTAAAAATTTAAAACAAAATTTA
* **
9434111 ATCAAATACTACGTTAA
64 ATCAAATATTGTGTTAA
* * * * * * *
9434128 TTTTTATTATAACGTAATGATTAAGAG-T-TTTATACAAAACAATT-GATATTTAAAA-AGAATA
1 TTTTTATTATAACATAGTAATT--GAGTTATTTATA-AAAA-AATTAAAAATTTAAAACAAAATT
* *
9434189 CAATCAAATATTGCT-TTAC
62 TAATCAAATATTG-TGTTAA
** *
9434208 TTTTTATTATAACGCAGTAATTGAGTTCTTTA
1 TTTTTATTATAACATAGTAATTGAGTTATTTA
9434240 CTGTCGTAAC
Statistics
Matches: 206, Mismatches: 53, Indels: 32
0.71 0.18 0.11
Matches are distributed among these distances:
78 3 0.01
79 2 0.01
80 89 0.43
81 31 0.15
82 73 0.35
83 5 0.02
84 3 0.01
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (80 bp):
TTTTTATTATAACATAGTAATTGAGTTATTTATAAAAAAATTAAAAATTTAAAACAAAATTTAAT
CAAATATTGTGTTAA
Found at i:9434167 original size:162 final size:162
Alignment explanation
Indices: 9433882--9434239 Score: 468
Period size: 162 Copynumber: 2.2 Consensus size: 162
9433872 TTACTTGGGC
* * * *
9433882 ACTTTTTGTTATAATGTAGTAATTGAGTTTTTTATAATAAAAACTTAAAAATTTAAAACAAAATT
1 ACTTTTTATTATAACGTAGTAATTGAGTTCTTTATAACAAAAACTTAAAAATTTAAAACAAAATT
* ** * *
9433947 TAATCAAATATTGTGTTAATTATTATTATAACATAGTAATTAGGAAAGTCACACAAAACAATTGA
66 TAATCAAATACTACGTTAATTATTATTATAACATAATAATTAAGAAAGTCACACAAAACAATTGA
*
9434012 CATTTTACAAA-AATACAATCAAATATTG-TGTT
131 CA-TTTAAAAAGAATACAATCAAATATTGCT-TT
* * * *
9434044 ACTTTTTATTATAACATAGTAATTGAGTTCTTTATAACCAAAAGTTAAAAATTTAAAACAAATTT
1 ACTTTTTATTATAACGTAGTAATTGAGTTCTTTATAACAAAAACTTAAAAATTTAAAACAAAATT
* * * *** * *
9434109 TAATCAAATACTACGTTAATTTTTATTATAACGTAATGATTAAGAGTTTTATACAAAACAATTGA
66 TAATCAAATACTACGTTAATTATTATTATAACATAATAATTAAGAAAGTCACACAAAACAATTGA
*
9434174 TATTTAAAAAGAATACAATCAAATATTGCTTT
131 CATTTAAAAAGAATACAATCAAATATTGCTTT
*
9434206 ACTTTTTATTATAACGCAGTAATTGAGTTCTTTA
1 ACTTTTTATTATAACGTAGTAATTGAGTTCTTTA
9434240 CTGTCGTAAC
Statistics
Matches: 169, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
161 7 0.04
162 161 0.95
163 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.39
Consensus pattern (162 bp):
ACTTTTTATTATAACGTAGTAATTGAGTTCTTTATAACAAAAACTTAAAAATTTAAAACAAAATT
TAATCAAATACTACGTTAATTATTATTATAACATAATAATTAAGAAAGTCACACAAAACAATTGA
CATTTAAAAAGAATACAATCAAATATTGCTTT
Found at i:9436362 original size:14 final size:12
Alignment explanation
Indices: 9436347--9436405 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 12
9436337 TGAATCGAAT
9436347 AAAGAAAGAAGAA
1 AAAGAAAGAA-AA
*
9436360 TAATGAAA-AAAA
1 -AAAGAAAGAAAA
*
9436372 ATAGAAAGAAAA
1 AAAGAAAGAAAA
9436384 AAAGAAA-AAAA
1 AAAGAAAGAAAA
*
9436395 ATAGAAA-AAAA
1 AAAGAAAGAAAA
9436406 GAAAAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 19 0.49
12 12 0.31
13 2 0.05
14 6 0.15
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (12 bp):
AAAGAAAGAAAA
Done.