Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 27 of 113
Found at i:9269282 original size:15 final size:15
Alignment explanation
Indices: 9269262--9269313 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
9269252 TTTTTTTAAT
*
9269262 AAATAAAAAAATGAA
1 AAATAAAAAAATAAA
9269277 AAATAAAAAAAATCTAAA
1 AAAT-AAAAAAA--TAAA
9269295 AAATAAAAAAATAAA
1 AAATAAAAAAATAAA
9269310 AAAT
1 AAAT
9269314 TTATATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 12 0.36
16 7 0.21
17 7 0.21
18 7 0.21
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (15 bp):
AAATAAAAAAATAAA
Found at i:9269287 original size:9 final size:9
Alignment explanation
Indices: 9269275--9269312 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
9269265 TAAAAAAATG
9269275 AAAAATAAA
1 AAAAATAAA
**
9269284 AAAAATCTA
1 AAAAATAAA
9269293 AAAAAT-AA
1 AAAAATAAA
9269301 AAAAATAAA
1 AAAAATAAA
9269310 AAA
1 AAA
9269313 TTTATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAATAAA
Found at i:9269287 original size:18 final size:18
Alignment explanation
Indices: 9269259--9269305 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
9269249 AAATTTTTTT
*
9269259 AATAAATAAAAAAATGAAA
1 AATAAA-AAAAAAATAAAA
**
9269278 AATAAAAAAAATCTAAAA
1 AATAAAAAAAAAATAAAA
9269296 AATAAAAAAA
1 AATAAAAAAA
9269306 TAAAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (18 bp):
AATAAAAAAAAAATAAAA
Found at i:9269330 original size:26 final size:26
Alignment explanation
Indices: 9269264--9269332 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
9269254 TTTTTAATAA
*
9269264 ATAAAAAAATGAAAAATAAAAAAAAT
1 ATAAAAAATTGAAAAATAAAAAAAAT
* ** **
9269290 CTAAAAAATAAAAAAATAAAAAATTT
1 ATAAAAAATTGAAAAATAAAAAAAAT
*
9269316 ATATAAAATTGAAAAAT
1 ATAAAAAATTGAAAAAT
9269333 TACCCTCAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (26 bp):
ATAAAAAATTGAAAAATAAAAAAAAT
Found at i:9269383 original size:24 final size:26
Alignment explanation
Indices: 9269346--9269393 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
9269336 CCTCAATACA
*
9269346 AAAATTTTTTAAAAAGA-AAAAATTC
1 AAAATTTTTAAAAAAGAGAAAAATTC
9269371 AAAA-TTTTAAAAAAGAGAAAAAT
1 AAAATTTTTAAAAAAGAGAAAAAT
9269394 CTAAAACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (26 bp):
AAAATTTTTAAAAAAGAGAAAAATTC
Found at i:9269477 original size:22 final size:21
Alignment explanation
Indices: 9269441--9269498 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
9269431 AAAAATAATA
** *
9269441 AAAAAAATTAAAAAATATCTTG
1 AAAAAAATTGTAAAATAT-TTC
9269463 AAAAAAATTGTAAAA-ATTTC
1 AAAAAAATTGTAAAATATTTC
* *
9269483 AAAAAAAATGTGAAAT
1 AAAAAAATTGTAAAAT
9269499 TCAATTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 15 0.50
21 2 0.07
22 13 0.43
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAAAAATTGTAAAATATTTC
Found at i:9269713 original size:64 final size:65
Alignment explanation
Indices: 9269587--9269721 Score: 150
Period size: 64 Copynumber: 2.1 Consensus size: 65
9269577 AAGTTTCCTT
* * ** *
9269587 TTTTTTTAATTTTTAAAAAATTGTCAGATTTTTTAATATTTTTACATTTTCTATTTTTTTTTTAG
1 TTTTTTTAATTTTTAAAAAATTGTCAGATTATTTAAAATTTTTACATTTAATATTTTTTTTTTAA
* * * *
9269652 TTTTTTTAATTTTT-AAAAATTTTGAGA-TATTTAAAATTTTTTC-TTATAATTTTTTTATTTTT
1 TTTTTTTAATTTTTAAAAAATTGTCAGATTATTTAAAATTTTTACATT-TAATATTTTT-TTTTT
9269714 AA
64 AA
9269716 TTTTTT
1 TTTTTT
9269722 AAAAGATTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
62 2 0.03
63 20 0.34
64 23 0.39
65 14 0.24
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (65 bp):
TTTTTTTAATTTTTAAAAAATTGTCAGATTATTTAAAATTTTTACATTTAATATTTTTTTTTTAA
Found at i:9269730 original size:27 final size:24
Alignment explanation
Indices: 9269703--9269799 Score: 83
Period size: 24 Copynumber: 3.9 Consensus size: 24
9269693 TCTTATAATT
9269703 TTTTTATTTTTAATTTTTTAAAAGA
1 TTTTTATTTTT-ATTTTTTAAAAGA
*
9269728 TTTTTA-TTTTATTTTTT-TAA-A
1 TTTTTATTTTTATTTTTTAAAAGA
** *
9269749 TTTAGATTTTTGGATTTTTTAAGAGAGT
1 TTTTTATTTTT--ATTTTTTAA-A-AGA
9269777 TTTTTATTTTTTATTTTTTAAAA
1 TTTTTA-TTTTTATTTTTTAAAA
9269800 ATTCTTTCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
21 5 0.09
22 6 0.11
23 7 0.12
24 11 0.19
25 7 0.12
26 2 0.04
27 10 0.18
28 4 0.07
29 5 0.09
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (24 bp):
TTTTTATTTTTATTTTTTAAAAGA
Found at i:9276666 original size:2 final size:2
Alignment explanation
Indices: 9276661--9276693 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9276651 TCCCCTATTT
9276661 TA TA TA TA 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 TA TA TA TA T
9276694 GTATGTATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9277614 original size:2 final size:2
Alignment explanation
Indices: 9277607--9277634 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9277597 GCACAGACAG
9277607 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
9277635 CTTCTAATCT
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:9283169 original size:38 final size:39
Alignment explanation
Indices: 9283127--9283202 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 39
9283117 AAAATAAATA
** *
9283127 AAAAATTAA-TTTAAAATATTTTTAA-AATTTTAATTAAT
1 AAAAA-TAATTTTAAAATATTAGTAATAAATTTAATTAAT
9283165 AAAAATAATTTTAAAATATTAGTAATAAATTTAATTAA
1 AAAAATAATTTTAAAATATTAGTAATAAATTTAATTAA
9283203 AAGTGCAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 3 0.09
38 19 0.58
39 11 0.33
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (39 bp):
AAAAATAATTTTAAAATATTAGTAATAAATTTAATTAAT
Found at i:9283200 original size:26 final size:27
Alignment explanation
Indices: 9283139--9283193 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
9283129 AAATTAATTT
* * *
9283139 AAAATATTTTTAAAATTTTAATTAATA
1 AAAATAATTTTAAAATATTAAGTAATA
9283166 AAAATAATTTTAAAATATT-AGTAATA
1 AAAATAATTTTAAAATATTAAGTAATA
9283192 AA
1 AA
9283194 TTTAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
AAAATAATTTTAAAATATTAAGTAATA
Found at i:9285630 original size:58 final size:57
Alignment explanation
Indices: 9285518--9285651 Score: 153
Period size: 58 Copynumber: 2.3 Consensus size: 57
9285508 AAATTTTTTA
* * *
9285518 TTTTAAAAATTTTATTTTTAAGGAAAATTAATACTTTCAACTTTTCCTTAAAAATAT
1 TTTTTAAAATTTTATTTTCAAGGAAAATTAATACTTTCAACTTTTCCTCAAAAATAT
* * * * *
9285575 TTTTTAAACATTTTATTTTCAA-GAAAATTGATATTTTCAACTTTTTCTCCCAAAATGT
1 TTTTTAAA-ATTTTATTTTCAAGGAAAATTAATACTTTCAACTTTTCCT-CAAAAATAT
*
9285633 TTTTGGAAAATTTTATTTT
1 TTTT-TAAAATTTTATTTT
9285652 AGAAACTTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
57 30 0.46
58 32 0.49
59 3 0.05
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (57 bp):
TTTTTAAAATTTTATTTTCAAGGAAAATTAATACTTTCAACTTTTCCTCAAAAATAT
Found at i:9285636 original size:57 final size:57
Alignment explanation
Indices: 9285518--9285651 Score: 146
Period size: 57 Copynumber: 2.3 Consensus size: 57
9285508 AAATTTTTTA
* * * *
9285518 TTTTAAAAATTTTATTTTTAAGGAAAATTAATACTTTCAACTTTTCCTTAAAAATAT
1 TTTTTAAAATTTTATTTTCAAGGAAAATTAATACTTTCAACTTTTCCTCAAAAATAG
* * * *
9285575 TTTTTAAACATTTTATTTTCAA-GAAAATTGATATTTTCAACTTTTTCTCCCAAAAT-G
1 TTTTTAAA-ATTTTATTTTCAAGGAAAATTAATACTTTCAACTTTTCCT-CAAAAATAG
9285632 TTTTTGGAAAATTTTATTTT
1 TTTTT--AAAATTTTATTTT
9285652 AGAAACTTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
57 35 0.54
58 27 0.42
59 3 0.05
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (57 bp):
TTTTTAAAATTTTATTTTCAAGGAAAATTAATACTTTCAACTTTTCCTCAAAAATAG
Found at i:9285682 original size:130 final size:130
Alignment explanation
Indices: 9285505--9285836 Score: 428
Period size: 130 Copynumber: 2.6 Consensus size: 130
9285495 CTTAAAACAA
* * * * *
9285505 TTGAAATTTTTTATTTTAAAAATTTTATTTTTAAGGAAAATTAATACTTTCAACTTTTCCTTAAA
1 TTGAAATATTTTATTTTAGAAACTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAA
* *
9285570 AATATTTTTTAAAC-ATTTTATTTTCAAGAAAATTGATATTTTCAACTTTTTCTCC-CAAAATGT
66 AATATTTTTTAAACTATTTTATTTTCAAGAAAATTGATACTTTCAAC--TTTCCCCTCAAAATGT
9285633 TT
129 TT
*
9285635 TTGGAAA-ATTTTATTTTAGAAACTTTATTTTTAAGAAAAATTGATACTTTCAACCTTTT-TTTA
1 TT-GAAATATTTTATTTTAGAAACTTTATTTTTAAGAAAAATTGATACTTTCAA-CTTTTCCTT-
* *
9285698 AAAAATATTTTTTAAACTTTTTTATTTTCAAGGAAATTGATACTTTCAACTTTCCCCTCAAAATG
63 AAAAATATTTTTTAAACTATTTTATTTTCAAGAAAATTGATACTTTCAACTTTCCCCTCAAAATG
9285763 TTT
128 TTT
* ** * *
9285766 TTGAAATTTTTTATTTTAGAAACTTT-TTTTT---TTAAATTGATACTTTTAACTTTTCCCTAAA
1 TTGAAATATTTTATTTTAGAAACTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAA
9285827 AATATTTTTT
66 AATATTTTTT
9285837 TTTGAAATTT
Statistics
Matches: 179, Mismatches: 16, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
126 18 0.10
127 16 0.09
130 60 0.34
131 56 0.31
132 29 0.16
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (130 bp):
TTGAAATATTTTATTTTAGAAACTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAA
AATATTTTTTAAACTATTTTATTTTCAAGAAAATTGATACTTTCAACTTTCCCCTCAAAATGTTT
Found at i:9285787 original size:16 final size:16
Alignment explanation
Indices: 9285763--9285799 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9285753 CCTCAAAATG
9285763 TTTTT-GAAA-TTTTT
1 TTTTTAGAAACTTTTT
9285777 TATTTTAGAAACTTTTT
1 T-TTTTAGAAACTTTTT
9285794 TTTTTA
1 TTTTTA
9285800 AATTGATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 4 0.20
16 9 0.45
17 6 0.30
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (16 bp):
TTTTTAGAAACTTTTT
Found at i:9285889 original size:19 final size:19
Alignment explanation
Indices: 9285865--9285908 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9285855 GAAAAATCAT
*
9285865 TAAAAAAAAGAAATAAAAAA
1 TAAAATAAA-AAATAAAAAA
* *
9285885 TAAAATTAAAATTAAAAAA
1 TAAAATAAAAAATAAAAAA
9285904 TAAAA
1 TAAAA
9285909 GAATACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (19 bp):
TAAAATAAAAAATAAAAAA
Found at i:9285894 original size:26 final size:27
Alignment explanation
Indices: 9285863--9285913 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
9285853 TAGAAAAATC
9285863 ATTAAAA-AAAAGAAATAAAA-AATAAA
1 ATTAAAATAAAA-AAATAAAAGAATAAA
*
9285889 ATTAAAATTAAAAAATAAAAGAATA
1 ATTAAAATAAAAAAATAAAAGAATA
9285914 CCAAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (27 bp):
ATTAAAATAAAAAAATAAAAGAATAAA
Found at i:9286990 original size:45 final size:44
Alignment explanation
Indices: 9286841--9287091 Score: 306
Period size: 45 Copynumber: 5.6 Consensus size: 44
9286831 ACAATTCTTG
* *
9286841 AAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTA
1 AAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGA
* * ** *
9286885 AAAAATAAACAAAGCTCTTTTAAGTATAGGCTCAACGACATTTG-
1 AAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTGA
* * *
9286929 AAAAATAAATAAAGCTCCTATAAGCAGAGGCTCAACGACTTTGA
1 AAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGA
*
9286973 AAAACATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGA
1 AAAA-ATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGA
* * * * *
9287018 AAAATATAAACAAAACTCTTCTAATCAGATGCTCAATGACTTTGA
1 AAAA-ATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGA
*
9287063 AAAACATAAACAAAGCTCCTATAAACAGA
1 AAAA-ATAAACAAAGCTCCTCTAAACAGA
9287092 AGCAATAAAA
Statistics
Matches: 179, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
43 4 0.02
44 71 0.40
45 104 0.58
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.23
Consensus pattern (44 bp):
AAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGA
Found at i:9288179 original size:14 final size:15
Alignment explanation
Indices: 9288160--9288193 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9288150 ATTTTTTTCA
9288160 TTTTTC-CTTTCATT
1 TTTTTCTCTTTCATT
*
9288174 TTTTTCTTTTTCATT
1 TTTTTCTCTTTCATT
9288189 TTTTT
1 TTTTT
9288194 TTAAGTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCTCTTTCATT
Found at i:9288195 original size:20 final size:21
Alignment explanation
Indices: 9288128--9288189 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
9288118 AGTCCTCATT
*
9288128 TTTCATTTTTCTC-TTTTT--
1 TTTCATTTTTTTCATTTTTCA
* *
9288146 TTCCATTTTTTTCATTTTTCC
1 TTTCATTTTTTTCATTTTTCA
9288167 TTTCATTTTTTTC-TTTTTCA
1 TTTCATTTTTTTCATTTTTCA
9288187 TTT
1 TTT
9288190 TTTTTTAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.30
19 5 0.14
20 9 0.24
21 12 0.32
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTCATTTTTTTCATTTTTCA
Found at i:9294212 original size:18 final size:18
Alignment explanation
Indices: 9294177--9294230 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
9294167 ATTTAACATT
*
9294177 AAAAAAATTACAAAAAATA
1 AAAAAAAATA-AAAAAATA
*
9294196 AAAAAAAATAAAGAAATA
1 AAAAAAAATAAAAAAATA
*
9294214 AAATAAAATAATAAAAA
1 AAAAAAAATAA-AAAAA
9294231 AGAATAATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (18 bp):
AAAAAAAATAAAAAAATA
Found at i:9294223 original size:10 final size:9
Alignment explanation
Indices: 9294176--9294231 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
9294166 TATTTAACAT
*
9294176 TAAAAAAAT
1 TAAAAAAAA
*
9294185 TACAAAAAA
1 TAAAAAAAA
9294194 TAAAAAAAA
1 TAAAAAAAA
*
9294203 -ATAAAGAAA
1 TA-AAAAAAA
9294212 TAAAATAAAA
1 TAAAA-AAAA
9294222 TAATAAAAAA
1 TAA-AAAAAA
9294232 GAATAATGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 1 0.03
9 24 0.63
10 11 0.29
11 2 0.05
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:9294236 original size:10 final size:10
Alignment explanation
Indices: 9294188--9294237 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
9294178 AAAAAATTAC
9294188 AAAA-AATAA
1 AAAATAATAA
*
9294197 AAAAAAATAA
1 AAAATAATAA
9294207 AGAAATAA-AA
1 A-AAATAATAA
9294217 TAAAATAATAA
1 -AAAATAATAA
*
9294228 AAAAGAATAA
1 AAAATAATAA
9294238 TGATTCACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
9 4 0.11
10 23 0.66
11 8 0.23
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (10 bp):
AAAATAATAA
Found at i:9294467 original size:58 final size:56
Alignment explanation
Indices: 9294350--9294481 Score: 149
Period size: 58 Copynumber: 2.3 Consensus size: 56
9294340 AAAACGTTTA
* * * ** *
9294350 TTTTAAAAATTTTATTTTTAAGAAAATTGATACTTTCAACTTTTTCCTAAAAATAT
1 TTTTGAAATTTTTATTTTCAAGAAAATTGATACTTTCAACTTTACCCCAAAAATAT
* * *
9294406 TTTTTAAACTTTTTTATTTTCAA-AAAATTGATACTTTCAACTTTCACCCCGAAAATGT
1 TTTTGAAA--TTTTTATTTTCAAGAAAATTGATACTTTCAACTTT-ACCCCAAAAATAT
9294464 TTTTGAAATTTTTATTTT
1 TTTTGAAATTTTTATTTT
9294482 AGAAACTTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
56 17 0.27
57 21 0.33
58 26 0.41
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (56 bp):
TTTTGAAATTTTTATTTTCAAGAAAATTGATACTTTCAACTTTACCCCAAAAATAT
Found at i:9294580 original size:9 final size:9
Alignment explanation
Indices: 9294568--9294597 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
9294558 AAATCATTAA
9294568 AAATAAATT
1 AAATAAATT
9294577 AAATAAATT
1 AAATAAATT
9294586 AAATTAAATT
1 AAA-TAAATT
9294596 AA
1 AA
9294598 GAAATATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.60
10 8 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAATAAATT
Found at i:9295709 original size:22 final size:20
Alignment explanation
Indices: 9295655--9295721 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
9295645 TTGAATTCTA
*
9295655 AAAAAATAAAATTAGATTTT
1 AAAAAATAAAAATAGATTTT
*
9295675 ATAAAATTCAAAAATATGATCTTT
1 A-AAAAAT-AAAAATA-GAT-TTT
*
9295699 AAAAAAT-AAAATA-TTTTT
1 AAAAAATAAAAATAGATTTT
9295717 AAAAA
1 AAAAA
9295722 TATTAAGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
18 8 0.21
19 1 0.03
20 1 0.03
21 11 0.28
22 6 0.15
23 8 0.21
24 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAAAATAAAAATAGATTTT
Found at i:9299191 original size:25 final size:25
Alignment explanation
Indices: 9299142--9299191 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
9299132 TTTTATATAC
*
9299142 AAATTATTATCTTTAAATAACATTA
1 AAATTATTATATTTAAATAACATTA
*
9299167 AAATTATTA-ATTTATATAACTATTA
1 AAATTATTATATTTAAATAAC-ATTA
9299192 TGATATGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (25 bp):
AAATTATTATATTTAAATAACATTA
Found at i:9302491 original size:18 final size:19
Alignment explanation
Indices: 9302468--9302503 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9302458 AAAAGAAAAA
9302468 TAATAAA-TGAAAATTTAT
1 TAATAAATTGAAAATTTAT
*
9302486 TAATAAATTGATAATTTA
1 TAATAAATTGAAAATTTA
9302504 ACGGTATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (19 bp):
TAATAAATTGAAAATTTAT
Found at i:9303759 original size:16 final size:16
Alignment explanation
Indices: 9303738--9303786 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
9303728 TATTATTTTT
9303738 AAAATATAAATATTTA
1 AAAATATAAATATTTA
* *
9303754 AAAATATAATTATATA
1 AAAATATAAATATTTA
* *
9303770 AATATATAAATAATTA
1 AAAATATAAATATTTA
9303786 A
1 A
9303787 TTAAAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATATAAATATTTA
Found at i:9303768 original size:8 final size:8
Alignment explanation
Indices: 9303737--9303781 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
9303727 ATATTATTTT
9303737 TAAA-ATA
1 TAAATATA
*
9303744 TAAATATT
1 TAAATATA
*
9303752 TAAAAATA
1 TAAATATA
*
9303760 TAATTATA
1 TAAATATA
9303768 TAAATATA
1 TAAATATA
9303776 TAAATA
1 TAAATA
9303782 ATTAATTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
7 4 0.13
8 27 0.87
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAATATA
Found at i:9303768 original size:24 final size:24
Alignment explanation
Indices: 9303741--9303789 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
9303731 TATTTTTAAA
*
9303741 ATATAAATATTTAAA-AATATAATT
1 ATATAAATATATAAATAAT-TAATT
9303765 ATATAAATATATAAATAATTAATT
1 ATATAAATATATAAATAATTAATT
9303789 A
1 A
9303790 AAAAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATAAATATATAAATAATTAATT
Found at i:9311042 original size:42 final size:42
Alignment explanation
Indices: 9310983--9311068 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
9310973 AAATGGGTGG
9310983 CTTTGATTTATGGACCAAACTTACATGATAAAAAAAAGATAA
1 CTTTGATTTATGGACCAAACTTACATGATAAAAAAAAGATAA
9311025 CTTTGATTTATGGACCAAACTTACATGATAAAAAAAAGATAA
1 CTTTGATTTATGGACCAAACTTACATGATAAAAAAAAGATAA
9311067 CT
1 CT
9311069 AAGTATTTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.29
Consensus pattern (42 bp):
CTTTGATTTATGGACCAAACTTACATGATAAAAAAAAGATAA
Found at i:9313659 original size:2 final size:2
Alignment explanation
Indices: 9313652--9313687 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9313642 TCTTTTTACA
9313652 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9313688 TTGTGTCCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9315436 original size:30 final size:30
Alignment explanation
Indices: 9315400--9315456 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
9315390 ATGAAAAGCA
9315400 ATACTATGATACTAATACAGAAATTTCGTT
1 ATACTATGATACTAATACAGAAATTTCGTT
9315430 ATACTATGATACTAATACAGAAATTTC
1 ATACTATGATACTAATACAGAAATTTC
9315457 ATTTAAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (30 bp):
ATACTATGATACTAATACAGAAATTTCGTT
Found at i:9317800 original size:3 final size:3
Alignment explanation
Indices: 9317792--9317823 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9317782 TAAGTATTTC
9317792 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
9317824 CTCACGCACA
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:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:9339101 original size:27 final size:27
Alignment explanation
Indices: 9339062--9339113 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
9339052 TAATAATTTT
* * *
9339062 AAATTTATTAAATAATTTATTATTTAA
1 AAATTAATAAAATAATTTAATATTTAA
*
9339089 AAATTAATAAAATATTTTAATATTT
1 AAATTAATAAAATAATTTAATATTT
9339114 TAATAAGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
AAATTAATAAAATAATTTAATATTTAA
Found at i:9339138 original size:95 final size:94
Alignment explanation
Indices: 9339039--9339250 Score: 225
Period size: 95 Copynumber: 2.2 Consensus size: 94
9339029 ATTTTATGTT
* *
9339039 ATTTAAAGCTTTATAATAATTT-TAA-ATTTATTAA-ATAATTTATTATTTAAAAAT-TAATAAA
1 ATTTAAATCTTT-TAATAATTTATAAGATTTA--AATATAA-CT-TTATTTAAAAATATAATAAA
* * *
9339100 ATATTTTAATATTTTAATAAGATTTTATTTTGAG
61 ATATTTTAATAATTTAATAAGATTTAATTATGAG
* * * * *
9339134 ATTTAAATCTTTCAATAATTTAATAAGATTTAAATTTAACTTTCTTTAAAAATATAATTAAATTT
1 ATTTAAATCTTTTAATAATTT-ATAAGATTTAAATATAACTTTATTTAAAAATATAATAAAATAT
* *
9339199 TTTAATAATTTGATAATATTTAATTATGAG
65 TTTAATAATTTAATAAGATTTAATTATGAG
*
9339229 ATTTAAATCTTTTAACAATTTA
1 ATTTAAATCTTTTAATAATTTA
9339251 ATAGAATTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
94 20 0.20
95 67 0.68
96 6 0.06
97 5 0.05
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (94 bp):
ATTTAAATCTTTTAATAATTTATAAGATTTAAATATAACTTTATTTAAAAATATAATAAAATATT
TTAATAATTTAATAAGATTTAATTATGAG
Found at i:9339251 original size:95 final size:93
Alignment explanation
Indices: 9339084--9339261 Score: 248
Period size: 95 Copynumber: 1.9 Consensus size: 93
9339074 TAATTTATTA
* * *
9339084 TTTAAAAATTAATAAAATATTTTAATATTTTAATAAGATTTTATTTTGAGATTTAAATCTTTCAA
1 TTTAAAAATTAATAAAATATTTTAATAATTTAATAAGATTTAATTATGAGATTTAAATCTTTCAA
* *
9339149 TAATTTAATAAGATTTAAATTTAACTTTC
66 CAATTTAAT-AGAATTAAATTTAACTTTC
* * * * *
9339178 TTTAAAAATATAATTAAATTTTTTAATAATTTGATAATATTTAATTATGAGATTTAAATCTTTTA
1 TTTAAAAAT-TAATAAAATATTTTAATAATTTAATAAGATTTAATTATGAGATTTAAATCTTTCA
9339243 ACAATTTAATAGAATTAAA
65 ACAATTTAATAGAATTAAA
9339262 AAATATAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 17 0.23
95 56 0.77
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (93 bp):
TTTAAAAATTAATAAAATATTTTAATAATTTAATAAGATTTAATTATGAGATTTAAATCTTTCAA
CAATTTAATAGAATTAAATTTAACTTTC
Found at i:9339349 original size:21 final size:23
Alignment explanation
Indices: 9339305--9339350 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
9339295 AATTAAATCT
9339305 TTTAATAATTTAATAATATTTAA
1 TTTAATAATTTAATAATATTTAA
*
9339328 TTTAA-AATTTAA-AATTTTTAA
1 TTTAATAATTTAATAATATTTAA
9339349 TT
1 TT
9339351 ATTTGATAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
22 7 0.32
23 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAATAATTTAATAATATTTAA
Found at i:9343806 original size:14 final size:15
Alignment explanation
Indices: 9343789--9343821 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9343779 TTTCCAAATT
9343789 ATTTGCTAAACTTG-
1 ATTTGCTAAACTTGC
*
9343803 ATTTTCTAAACTTGC
1 ATTTGCTAAACTTGC
9343818 ATTT
1 ATTT
9343822 AAGCAAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.48
Consensus pattern (15 bp):
ATTTGCTAAACTTGC
Found at i:9349901 original size:2 final size:2
Alignment explanation
Indices: 9349894--9349919 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9349884 TAAATCACAT
9349894 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
9349920 TAGAAGACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9350626 original size:32 final size:32
Alignment explanation
Indices: 9350590--9350655 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
9350580 TATATTAATA
9350590 TATCAAATATAAAACATATTTTTAT-AAAATTT
1 TATCAAATATAAAACA-ATTTTTATCAAAATTT
* * *
9350622 TATCACATTTAGAACAATTTTTATCAAAATTT
1 TATCAAATATAAAACAATTTTTATCAAAATTT
9350654 TA
1 TA
9350656 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 8 0.27
32 22 0.73
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (32 bp):
TATCAAATATAAAACAATTTTTATCAAAATTT
Found at i:9350673 original size:10 final size:10
Alignment explanation
Indices: 9350658--9350692 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
9350648 AAATTTTAAA
9350658 TTATATTATT
1 TTATATTATT
9350668 TTATATT-TT
1 TTATATTATT
9350677 TTATATTATT
1 TTATATTATT
*
9350687 TAATAT
1 TTATAT
9350693 CATATCATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATATTATT
Found at i:9351257 original size:28 final size:29
Alignment explanation
Indices: 9351214--9351288 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 29
9351204 TTTCACTTTA
* *
9351214 TTTAAATAATTTTTATAT-TTTTATTAT-TT
1 TTTAAATAAATTTTAT-TCTTTAATT-TGTT
9351243 TTT-AATAAATTTTATTCTTTAATTTGTT
1 TTTAAATAAATTTTATTCTTTAATTTGTT
9351271 TTTAAATAAAATTTTATT
1 TTTAAAT-AAATTTTATT
9351289 TCATACAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 2 0.05
28 22 0.55
29 6 0.15
30 10 0.25
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTAAATAAATTTTATTCTTTAATTTGTT
Found at i:9358897 original size:2 final size:2
Alignment explanation
Indices: 9358890--9358918 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9358880 AGTTGCTGCC
9358890 TA TA 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 TA TA T
9358919 TATCATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9366250 original size:2 final size:2
Alignment explanation
Indices: 9366243--9366270 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9366233 TAAATAAAAC
9366243 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
9366271 TAATACAACT
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:9372486 original size:217 final size:217
Alignment explanation
Indices: 9372111--9372545 Score: 852
Period size: 217 Copynumber: 2.0 Consensus size: 217
9372101 TCTTCTGAGT
9372111 TTTAAGAGCAGAATGACATTACAAATTGGATGATTAATTTAGATTTCATTTTGTCTGAATATAAA
1 TTTAAGAGCAGAATGACATTACAAATTGGATGATTAATTTAGATTTCATTTTGTCTGAATATAAA
9372176 AAATCTAATGATAATTCTTGAACAGACTGGCACAGTGAAACTTTTTTTTTTAATTTAGGTGTTTG
66 AAATCTAATGATAATTCTTGAACAGACTGGCACAGTGAAACTTTTTTTTTTAATTTAGGTGTTTG
9372241 TTTAATTAGTAGTTAGTTACTCACTTTTCGTTATCTACAACTAGAATTTCCTTTAACATGCATGG
131 TTTAATTAGTAGTTAGTTACTCACTTTTCGTTATCTACAACTAGAATTTCCTTTAACATGCATGG
9372306 ACAGTTGTGGAGAGCTGGACTC
196 ACAGTTGTGGAGAGCTGGACTC
*
9372328 TTTAAGAGCAGAATGACATTACAAATTGGATGATTAATTTAGATTTCATTTTGTCTGAATATCAA
1 TTTAAGAGCAGAATGACATTACAAATTGGATGATTAATTTAGATTTCATTTTGTCTGAATATAAA
*
9372393 ACATCTAATGATAATTCTTGAACAGACTGGCACAGTGAAACTTTTTTTTTTAATTTAGGTGTTTG
66 AAATCTAATGATAATTCTTGAACAGACTGGCACAGTGAAACTTTTTTTTTTAATTTAGGTGTTTG
9372458 TTTAATTAGTAGTTAGTTACTCACTTTTCGTTATCTACAACTAGAATTTCCTTTAACATGCATGG
131 TTTAATTAGTAGTTAGTTACTCACTTTTCGTTATCTACAACTAGAATTTCCTTTAACATGCATGG
9372523 ACAGTTGTGGAGAGCTGGACTC
196 ACAGTTGTGGAGAGCTGGACTC
9372545 T
1 T
9372546 AATTGTGTAT
Statistics
Matches: 216, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
217 216 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (217 bp):
TTTAAGAGCAGAATGACATTACAAATTGGATGATTAATTTAGATTTCATTTTGTCTGAATATAAA
AAATCTAATGATAATTCTTGAACAGACTGGCACAGTGAAACTTTTTTTTTTAATTTAGGTGTTTG
TTTAATTAGTAGTTAGTTACTCACTTTTCGTTATCTACAACTAGAATTTCCTTTAACATGCATGG
ACAGTTGTGGAGAGCTGGACTC
Found at i:9373499 original size:201 final size:202
Alignment explanation
Indices: 9373154--9373557 Score: 792
Period size: 201 Copynumber: 2.0 Consensus size: 202
9373144 ATTTGGATTG
9373154 ACAAGAATCACTATGAGATATTGCCAAGGTTAACATAGAATGCTCTTTAACATTACCTATGCTAC
1 ACAAGAATCACTATGAGATATTGCCAAGGTTAACATAGAATGCTCTTTAACATTACCTATGCTAC
9373219 TATGATAATGTGAAGTCATATTGAAGCTTCAAAAGCCTTGACTTTGACATATATGAAGAGAATCA
66 TATGATAATGTGAAGTCATATTGAAGCTTCAAAAGCCTTGACTTTGACATATATGAAGAGAATCA
9373284 TTTGTCTGGGTCATTATCTGAGAAGGGATATTAACTCAATCAACTTTGAATGCTTAATTTGATGT
131 TTTGTCTGGGTCATTATCTGAGAAGGGATATTAACTCAATCAACTTTGAATGCTTAATTTGATGT
9373349 ATA-TTA
196 ATACTTA
9373355 ACAAGAATCACTATGAGATATTGCCAAGGTTAACATAGAATGCTCTTTAACATTACCTATGCTAC
1 ACAAGAATCACTATGAGATATTGCCAAGGTTAACATAGAATGCTCTTTAACATTACCTATGCTAC
*
9373420 TATGATAATGTGAAGTCATATTGAAGCTTCAAGAGCCTTGACTTTGACATATATGAAGAGAATCA
66 TATGATAATGTGAAGTCATATTGAAGCTTCAAAAGCCTTGACTTTGACATATATGAAGAGAATCA
9373485 TTTGTCTGGGTCATTATCTGAGAAGGGATATTAACTCAATCAACTTTGAATGCTTAATTTGATGT
131 TTTGTCTGGGTCATTATCTGAGAAGGGATATTAACTCAATCAACTTTGAATGCTTAATTTGATGT
9373550 ATACTTA
196 ATACTTA
9373557 A
1 A
9373558 ATAATCAAAT
Statistics
Matches: 201, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
201 197 0.98
202 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (202 bp):
ACAAGAATCACTATGAGATATTGCCAAGGTTAACATAGAATGCTCTTTAACATTACCTATGCTAC
TATGATAATGTGAAGTCATATTGAAGCTTCAAAAGCCTTGACTTTGACATATATGAAGAGAATCA
TTTGTCTGGGTCATTATCTGAGAAGGGATATTAACTCAATCAACTTTGAATGCTTAATTTGATGT
ATACTTA
Found at i:9385530 original size:5 final size:5
Alignment explanation
Indices: 9385516--9385544 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
9385506 TAGCGAAAAC
9385516 ATTTT A-TTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
9385545 TAGGGTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:9385941 original size:17 final size:16
Alignment explanation
Indices: 9385906--9385957 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
9385896 TTAATGTAAA
*
9385906 ATTAA-TTTATATTTAT
1 ATTAATTTTA-ATTTTT
*
9385922 ATTTATTTGTAATTTTT
1 ATTAATTT-TAATTTTT
9385939 ATTAATTTTAATTTATT
1 ATTAATTTTAATTT-TT
9385956 AT
1 AT
9385958 ATTTGATCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 10 0.33
17 18 0.60
18 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
ATTAATTTTAATTTTT
Found at i:9385971 original size:13 final size:13
Alignment explanation
Indices: 9385953--9385977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9385943 ATTTTAATTT
9385953 ATTATATTTGATC
1 ATTATATTTGATC
9385966 ATTATATTTGAT
1 ATTATATTTGAT
9385978 ACTCTATTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTATATTTGATC
Found at i:9387643 original size:2 final size:2
Alignment explanation
Indices: 9387636--9387670 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9387626 GCGTTTGATG
9387636 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9387671 ATCATGTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9390295 original size:2 final size:2
Alignment explanation
Indices: 9390288--9390324 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9390278 TATGATCCCT
9390288 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
9390325 CCTCGCTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9391779 original size:7 final size:7
Alignment explanation
Indices: 9391764--9391794 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
9391754 ATTATGCATA
9391764 TAAAATT
1 TAAAATT
*
9391771 TAAATTT
1 TAAAATT
9391778 TAAAATT
1 TAAAATT
9391785 TAAAATT
1 TAAAATT
9391792 TAA
1 TAA
9391795 TCATAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TAAAATT
Found at i:9397584 original size:16 final size:16
Alignment explanation
Indices: 9397565--9397604 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
9397555 GAATTTATAT
9397565 TTATTTATCAATTAAA
1 TTATTTATCAATTAAA
* * *
9397581 TTATTAATTAATTAAC
1 TTATTTATCAATTAAA
9397597 TTATTTAT
1 TTATTTAT
9397605 TTCAAAAATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTTATCAATTAAA
Found at i:9398659 original size:29 final size:29
Alignment explanation
Indices: 9398627--9398704 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 29
9398617 AATATAATTT
9398627 TTTATTAAATTAAAATAT-TAAATAATAGA
1 TTTATTAAATTAAAATATATAAAT-ATAGA
*
9398656 TTTATT-AA-TATAATATATAAATATAGA
1 TTTATTAAATTAAAATATATAAATATAGA
* *
9398683 TTAAATAAATAATAAAATATAT
1 TTTATTAAAT--TAAAATATAT
9398705 TCTTTAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 16 0.40
28 9 0.22
29 6 0.15
31 9 0.22
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (29 bp):
TTTATTAAATTAAAATATATAAATATAGA
Found at i:9399034 original size:17 final size:16
Alignment explanation
Indices: 9399008--9399049 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
9398998 TAAGGTATTA
9399008 AATAATATATATTTAT
1 AATAATATATATTTAT
*
9399024 AATACATATATTTTTAT
1 AATA-ATATATATTTAT
9399041 -ATAA-ATATA
1 AATAATATATA
9399050 AATTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.17
15 1 0.04
16 7 0.30
17 11 0.48
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAATATATATTTAT
Found at i:9399078 original size:15 final size:16
Alignment explanation
Indices: 9399041--9399079 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
9399031 ATATTTTTAT
9399041 ATAAAT-ATAAATTAA
1 ATAAATAATAAATTAA
9399056 ATAAATAATAAA-TAA
1 ATAAATAATAAATTAA
9399071 ATAAATAAT
1 ATAAATAAT
9399080 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAATAATAAATTAA
Found at i:9399568 original size:16 final size:18
Alignment explanation
Indices: 9399547--9399580 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9399537 TTAATCTAAT
9399547 AAAT-AATAAAAT-TAAA
1 AAATAAATAAAATATAAA
9399563 AAATAAATAAAATATAAA
1 AAATAAATAAAATATAAA
9399581 TTTAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAATAAAATATAAA
Found at i:9399587 original size:16 final size:16
Alignment explanation
Indices: 9399568--9399599 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9399558 TTAAAAAATA
*
9399568 AATAAAATATAAATTT
1 AATAAAAAATAAATTT
9399584 AATAAAAAATAAATTT
1 AATAAAAAATAAATTT
9399600 TTTTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAAAAAATAAATTT
Found at i:9400062 original size:21 final size:21
Alignment explanation
Indices: 9400038--9400095 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
9400028 CATATAAATA
* *
9400038 AATATAAATATATTTATTTTT
1 AATATAAATATATTTAATTGT
9400059 AATATAAATTATAATTTAATTGT
1 AATATAAA-TAT-ATTTAATTGT
9400082 -ATATAAATATATTT
1 AATATAAATATATTT
9400096 TTATTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 4 0.12
21 11 0.33
22 10 0.30
23 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
AATATAAATATATTTAATTGT
Found at i:9400086 original size:37 final size:35
Alignment explanation
Indices: 9400044--9400129 Score: 84
Period size: 39 Copynumber: 2.3 Consensus size: 35
9400034 AATAAATATA
* *
9400044 AATATATTTATTTTTAATATAAATTATAAT-TTAATTGT
1 AATATATTTATTTTT-AT-TAAATTAAAATATTAA--AT
* *
9400082 ATATAAATATATTTTTATTAAATTAAAATATTAAAT
1 A-ATATATTTATTTTTATTAAATTAAAATATTAAAT
9400118 AATATATTTATT
1 AATATATTTATT
9400130 AATATAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
35 9 0.22
36 2 0.05
37 10 0.25
38 7 0.17
39 12 0.30
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (35 bp):
AATATATTTATTTTTATTAAATTAAAATATTAAAT
Found at i:9400098 original size:22 final size:21
Alignment explanation
Indices: 9400038--9400113 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
9400028 CATATAAATA
9400038 AATATAAATATATTTATT-TTT
1 AATATAAATATATTT-TTATTT
* *
9400059 AATATAAATTATAATTTAATTGT
1 AATATAAA-TATATTTTTATT-T
*
9400082 -ATATAAATATATTTTTATTA
1 AATATAAATATATTTTTATTT
9400102 AAT-TAAA-ATATT
1 AATATAAATATATT
9400114 AAATAATATA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
19 5 0.11
20 4 0.09
21 21 0.46
22 15 0.33
23 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (21 bp):
AATATAAATATATTTTTATTT
Found at i:9400755 original size:17 final size:16
Alignment explanation
Indices: 9400703--9400756 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
9400693 ATTGACTTTT
9400703 AAAATTAAAAAAAAAA
1 AAAATTAAAAAAAAAA
* *
9400719 GAAATCTAAAAAAATCAA
1 AAAAT-TAAAAAAA-AAA
*
9400737 AAACTTAAAAAAAAAA
1 AAAATTAAAAAAAAAA
9400753 AAAA
1 AAAA
9400757 GAGTGAAGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 9 0.30
17 16 0.53
18 5 0.17
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.13
Consensus pattern (16 bp):
AAAATTAAAAAAAAAA
Found at i:9404865 original size:68 final size:64
Alignment explanation
Indices: 9404779--9404911 Score: 212
Period size: 68 Copynumber: 2.0 Consensus size: 64
9404769 CGGGACACAG
*
9404779 ATTTGACGACAAAGATGACGAATGGAGAGAGGAATCGAGGGAGAAAGATAGAAGGTAACAAGATT
1 ATTTGACGACAAAGATGACGAATGGAGAGAGAAATCGAGGGAG-AA-A-A-AAGGTAACAAGATT
9404844 TTC
62 TTC
*
9404847 ATTTGACGACAAATATGACGAATGGAGAGAGAAATCGAGGGAGAAAAAAGGTAACAAGATTTTC
1 ATTTGACGACAAAGATGACGAATGGAGAGAGAAATCGAGGGAGAAAAAAGGTAACAAGATTTTC
9404911 A
1 A
9404912 AGGGTTTTAA
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
64 18 0.29
65 1 0.02
66 1 0.02
67 2 0.03
68 41 0.65
ACGTcount: A:0.44, C:0.09, G:0.29, T:0.18
Consensus pattern (64 bp):
ATTTGACGACAAAGATGACGAATGGAGAGAGAAATCGAGGGAGAAAAAAGGTAACAAGATTTTC
Found at i:9405099 original size:18 final size:19
Alignment explanation
Indices: 9405076--9405111 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
9405066 TAATTTTAAA
9405076 TTTTTTAGT-ATTTATTTG
1 TTTTTTAGTAATTTATTTG
9405094 TTTTTTAGTAATTTATTT
1 TTTTTTAGTAATTTATTT
9405112 ATTTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTTTAGTAATTTATTTG
Found at i:9405560 original size:17 final size:18
Alignment explanation
Indices: 9405527--9405591 Score: 75
Period size: 17 Copynumber: 3.8 Consensus size: 18
9405517 GTAATTTATA
9405527 AAATAAAATTATATTAAAT
1 AAAT-AAATTATATTAAAT
9405546 AAATAAATT-TATTAAAT
1 AAATAAATTATATTAAAT
**
9405563 ATTTAAA-T-TATT-AAT
1 AAATAAATTATATTAAAT
9405578 AAATAAATTATATT
1 AAATAAATTATATT
9405592 TAATTTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 8 0.20
16 6 0.15
17 17 0.43
18 5 0.12
19 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATAAATTATATTAAAT
Found at i:9407500 original size:18 final size:19
Alignment explanation
Indices: 9407465--9407517 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 19
9407455 ACTTATTAAT
*
9407465 ATAA-ATATTTATACAAAA
1 ATAATATATTTATAAAAAA
*
9407483 AT-ATATATTAATAAAAAA
1 ATAATATATTTATAAAAAA
*
9407501 ATAATAAATTTATAAAA
1 ATAATATATTTATAAAA
9407518 TTATAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 1 0.03
18 16 0.55
19 12 0.41
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAATATATTTATAAAAAA
Found at i:9411230 original size:25 final size:25
Alignment explanation
Indices: 9411196--9411246 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
9411186 TGTTAATGAG
*
9411196 TAAACGGTTGATTTATTTTATTCCT
1 TAAACGGTTGATTTACTTTATTCCT
9411221 TAAACGGTTGATTTACTTTATTCCT
1 TAAACGGTTGATTTACTTTATTCCT
9411246 T
1 T
9411247 CCTCACCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.51
Consensus pattern (25 bp):
TAAACGGTTGATTTACTTTATTCCT
Found at i:9418967 original size:21 final size:21
Alignment explanation
Indices: 9418943--9418982 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9418933 TCAAAGCTTC
*
9418943 AAACCTTAAACCCTAAAATTG
1 AAACCATAAACCCTAAAATTG
9418964 AAACCATAAACCCTAAAAT
1 AAACCATAAACCCTAAAAT
9418983 CAAAACTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.25, G:0.03, T:0.20
Consensus pattern (21 bp):
AAACCATAAACCCTAAAATTG
Found at i:9418988 original size:21 final size:21
Alignment explanation
Indices: 9418943--9418988 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
9418933 TCAAAGCTTC
* **
9418943 AAACCTTAAACCCTAAAATTG
1 AAACCATAAACCCTAAAATCA
9418964 AAACCATAAACCCTAAAATCA
1 AAACCATAAACCCTAAAATCA
9418985 AAAC
1 AAAC
9418989 TCTAAACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.54, C:0.26, G:0.02, T:0.17
Consensus pattern (21 bp):
AAACCATAAACCCTAAAATCA
Found at i:9418994 original size:21 final size:21
Alignment explanation
Indices: 9418941--9418995 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
9418931 AATCAAAGCT
*
9418941 TCAAACCT-TAAACCCTAAAA
1 TCAAAACTCTAAACCCTAAAA
**
9418961 TTGAAAC-CATAAACCCTAAAA
1 TCAAAACTC-TAAACCCTAAAA
9418982 TCAAAACTCTAAAC
1 TCAAAACTCTAAAC
9418996 TTTTCAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
20 4 0.15
21 22 0.81
22 1 0.04
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (21 bp):
TCAAAACTCTAAACCCTAAAA
Found at i:9419898 original size:12 final size:12
Alignment explanation
Indices: 9419849--9419900 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
9419839 ATATTAAAAT
9419849 TTATATATTTATA
1 TTATA-ATTTATA
* *
9419862 TTATATTTTGTA
1 TTATAATTTATA
* * *
9419874 TAAAAATTAATA
1 TTATAATTTATA
9419886 TTATAATTTATA
1 TTATAATTTATA
9419898 TTA
1 TTA
9419901 ATAAAAAAAT
Statistics
Matches: 29, Mismatches: 10, Indels: 1
0.73 0.25 0.03
Matches are distributed among these distances:
12 24 0.83
13 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TTATAATTTATA
Found at i:9421438 original size:60 final size:58
Alignment explanation
Indices: 9421191--9421668 Score: 511
Period size: 59 Copynumber: 8.1 Consensus size: 58
9421181 TTGTGTAGGG
* * * * *
9421191 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTTTTGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA---TCTTTTTTTGAAA-TTTTATTTTTAAGA
* * *
9421253 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTTTCTTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATCTTTTTTTGAAATTTTATTTTTAAGA
* * *
9421312 AAAATTGATACTTTCAACTTTTTCCT-AAGAAT-ATTTTTTGAAAATTTTGATTTTTAAAA
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATCTTTTTTTG-AAATTTT-ATTTTTAAGA
*
9421371 AAAATTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTTGAAATTTTATTTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TCTTTTTTTGAAATTTTATTTTT-AAGA
* *
9421431 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTTGAAATTTTATTTTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TCTTTTTTTGAAATTTTA--TTTTTAAGA
* * *
9421492 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTGGACATTTTGATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATCTTTTTTTGAAATTTT-ATTTTTAAGA
* * *
9421551 AAAATTGATACTTTCAACTTTTCATCAAAAACCTTTTTTTTGAAATTTTATTTTCAA-A
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATC-TTTTTTTGAAATTTTATTTTTAAGA
* ** * * *
9421609 GAAAATTGATACGTTCAA-TTTTTTTCCAAAAATATTTTTTTG-ATTTTTA-TTTAAAGA
1 -AAAATTGATACTTTCAACTTTTCCT-CAAAAATCTTTTTTTGAAATTTTATTTTTAAGA
9421666 AAA
1 AAA
9421669 TAAAACAAAA
Statistics
Matches: 361, Mismatches: 38, Indels: 40
0.82 0.09 0.09
Matches are distributed among these distances:
56 8 0.02
57 14 0.04
58 32 0.09
59 130 0.36
60 102 0.28
61 40 0.11
62 30 0.08
63 5 0.01
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAATTTTATTTTTAAGA
Found at i:9421501 original size:180 final size:177
Alignment explanation
Indices: 9421191--9421631 Score: 668
Period size: 180 Copynumber: 2.5 Consensus size: 177
9421181 TTGTGTAGGG
* * * *
9421191 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTTTTGAAACTTTGATTTTCAAGGAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--CTCTTTTTTTGAAA-TTTTATTTTCAAGGAAA
9421256 ATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTTTCTTTTTAAGAAAAATTGAT
63 ATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTTTCTTTTTAAGAAAAATTGAT
* *
9421321 ACTTTCAACTTTTTCCTAAGAATATTTTTTGAAAATTTTGATTTTTAAAA
128 ACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTTGATTTTTAAAA
9421371 AAAATTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTTGAAATTTTATTTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTTGAAATTTTA-TTTTCAAGGAAAAT
** *
9421436 TGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTTGAAATTTTATTTTTTTAAGAAAAATTGAT
65 TGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAA-TTT-TCTTTTTAAGAAAAATTGAT
* * *
9421501 ACTTTCAACTTTTCCCTAAAAATATTTTTTGGACATTTTGATTTTTAAGA
128 ACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTTGATTTTTAAAA
* *
9421551 AAAATTGATACTTTCAACTTTTCATCAAAAAC-CTTTTTTTTGAAATTTTATTTTCAAAGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACTC-TTTTTTTGAAATTTTATTTTCAAGGAAAAT
* *
9421615 TGATACGTTCAATTTTT
65 TGATACTTTCAACTTTT
9421632 TTCCAAAAAT
Statistics
Matches: 241, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
177 4 0.02
178 64 0.27
179 32 0.13
180 141 0.59
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (177 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTTGAAATTTTATTTTCAAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTTTCTTTTTAAGAAAAATTGATACT
TTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTTGATTTTTAAAA
Found at i:9421710 original size:18 final size:17
Alignment explanation
Indices: 9421687--9421734 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
9421677 AATAAAAGTG
9421687 AAAATAAATAAAGATAAA
1 AAAATAAATAAA-ATAAA
*
9421705 AAAATAAAGAAAAGTAAA
1 AAAATAAATAAAA-TAAA
*
9421723 ACAA-AAATAAAA
1 AAAATAAATAAAA
9421735 ATAAGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAATAAATAAAATAAA
Found at i:9421751 original size:22 final size:21
Alignment explanation
Indices: 9421666--9421752 Score: 59
Period size: 23 Copynumber: 3.9 Consensus size: 21
9421656 TATTTAAAGA
* *
9421666 AAATAAAACAAAATAAAAGTGA
1 AAATAAAATAAAATAAAAAT-A
*
9421688 AAAT-AAATAAAGATAAAAAAA
1 AAATAAAATAAA-ATAAAAATA
* *
9421709 TAAAGAAAAGTAAAACAAAAATAA
1 -AAATAAAA-TAAAATAAAAAT-A
*
9421733 AAATAAGATAAAGATAAAAA
1 AAATAAAATAAA-ATAAAAA
9421753 ATTTTACATA
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
21 7 0.14
22 17 0.34
23 21 0.42
24 5 0.10
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (21 bp):
AAATAAAATAAAATAAAAATA
Found at i:9422186 original size:11 final size:11
Alignment explanation
Indices: 9422170--9422204 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
9422160 GGGTTTTTCA
9422170 TCGGAAGTTGG
1 TCGGAAGTTGG
9422181 TCGGAAGTTGG
1 TCGGAAGTTGG
*
9422192 TCGGACGTTGG
1 TCGGAAGTTGG
9422203 TC
1 TC
9422205 AATTTCTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.43, T:0.29
Consensus pattern (11 bp):
TCGGAAGTTGG
Found at i:9422299 original size:19 final size:20
Alignment explanation
Indices: 9422267--9422304 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9422257 TTGGCCAGAA
9422267 TTTTCGTCGAAAAATTCAAG
1 TTTTCGTCGAAAAATTCAAG
*
9422287 TTTT-GTCGGAAAATTCAA
1 TTTTCGTCGAAAAATTCAA
9422305 TCGAAAACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (20 bp):
TTTTCGTCGAAAAATTCAAG
Found at i:9422520 original size:19 final size:19
Alignment explanation
Indices: 9422496--9422532 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9422486 AGGTCCCTTT
9422496 TATAAGGATTGATCAGGAA
1 TATAAGGATTGATCAGGAA
9422515 TATAAGGATTGATCAGGA
1 TATAAGGATTGATCAGGA
9422533 GTTCCTGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (19 bp):
TATAAGGATTGATCAGGAA
Found at i:9422824 original size:19 final size:21
Alignment explanation
Indices: 9422800--9422849 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
9422790 AGAAAAAAGA
9422800 ATAATAAATAAAT-TATAA-T
1 ATAATAAATAAATATATAACT
9422819 ATAAT-AATAAATATATAACT
1 ATAATAAATAAATATATAACT
9422839 AT-ATAAATAAA
1 ATAATAAATAAA
9422850 ATACATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.25
19 12 0.43
20 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAATAAATAAATATATAACT
Found at i:9422842 original size:22 final size:22
Alignment explanation
Indices: 9422799--9422933 Score: 59
Period size: 22 Copynumber: 6.0 Consensus size: 22
9422789 AAGAAAAAAG
*
9422799 AATAATAAATAAATTATAATAT
1 AATAATAAATAAATAATAATAT
*
9422821 AATAATAAATATATAACT-ATAT
1 AATAATAAATAAATAA-TAATAT
* *
9422843 AAATAAAATACATATAAATATTAACA-
1 -AAT--AATA-A-ATAAATAATAATAT
*
9422869 AA-AA-AAATAAATAAATAA-AG
1 AATAATAAATAAATAA-TAATAT
* *
9422889 ATATACATATATTAATACATAATAAT
1 A-ATA-ATAAATAAATA-ATAAT-AT
9422915 AATAATAAAT-AATAA-AATA
1 AATAATAAATAAATAATAATA
9422934 CAAAAAATAC
Statistics
Matches: 87, Mismatches: 10, Indels: 34
0.66 0.08 0.26
Matches are distributed among these distances:
19 8 0.09
20 6 0.07
21 5 0.06
22 22 0.25
23 9 0.10
24 15 0.17
25 10 0.11
26 4 0.05
27 8 0.09
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (22 bp):
AATAATAAATAAATAATAATAT
Found at i:9422874 original size:78 final size:78
Alignment explanation
Indices: 9422780--9422973 Score: 179
Period size: 78 Copynumber: 2.5 Consensus size: 78
9422770 ATCTAAAAAA
*
9422780 AAATATTACAAGAAAAAAGAATAATAAATAAA-TTATA-ATATAATAATAAAT-AT-ATAACTAT
1 AAATATTACAAGAAAAAA-AA-AATAAATAAAGATATACATATAATAATAAATAATAATAA-TA-
9422841 ATAAATAAAATACATAT
62 ATAAATAAAATACATAT
* * *
9422858 AAATATTAACAA-AAAAAATAAATAAATAAAGATATACATATATTAATACATAATAATAATAATA
1 AAATATT-ACAAGAAAAAAAAAATAAATAAAGATATACATATAATAATAAATAATAATAATAATA
*
9422922 AATAATAA-A-ATAC
65 AATAA-AATACATAT
* * * *
9422935 AAAAAATACAA-AAAAAGAAAAAAAAATAAAAATAATACA
1 AAATATTACAAGAAAAA-AAAAATAAATAAAGAT-ATACA
9422974 AGATAAAAAT
Statistics
Matches: 98, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
76 19 0.19
77 26 0.27
78 39 0.40
79 10 0.10
80 4 0.04
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (78 bp):
AAATATTACAAGAAAAAAAAAATAAATAAAGATATACATATAATAATAAATAATAATAATAATAA
ATAAAATACATAT
Found at i:9422948 original size:10 final size:10
Alignment explanation
Indices: 9422928--9422974 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
9422918 AATAAATAAT
9422928 AAAATAC-AA
1 AAAATACAAA
9422937 AAAATACAAA
1 AAAATACAAA
* *
9422947 AAAAGAAAAA
1 AAAATACAAA
9422957 AAAATA-AAA
1 AAAATACAAA
*
9422966 ATAATACAA
1 AAAATACAA
9422975 GATAAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 15 0.47
10 17 0.53
ACGTcount: A:0.81, C:0.06, G:0.02, T:0.11
Consensus pattern (10 bp):
AAAATACAAA
Found at i:9435279 original size:2 final size:2
Alignment explanation
Indices: 9435272--9435296 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9435262 TGAATCCTAC
9435272 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
9435297 TATTAACTTG
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:9436148 original size:2 final size:2
Alignment explanation
Indices: 9436143--9436167 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9436133 ATTTTTTTCT
9436143 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
9436168 TGCATAAGTG
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:9436646 original size:15 final size:16
Alignment explanation
Indices: 9436627--9436668 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
9436617 ATCCTTCTTC
9436627 AAAATTTATATAATTT
1 AAAATTTATATAATTT
9436643 -AAA-TTAT-TAATTT
1 AAAATTTATATAATTT
9436656 AAAATTTA-ATAAT
1 AAAATTTATATAAT
9436669 ATAATAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 6 0.26
14 7 0.30
15 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAAATTTATATAATTT
Found at i:9438710 original size:4 final size:4
Alignment explanation
Indices: 9438701--9438782 Score: 51
Period size: 4 Copynumber: 19.2 Consensus size: 4
9438691 TTTTATGTAT
* * * *
9438701 TTTA TTTA TTTA -TTA TTACTA TGTA TTAA TATC TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
9438750 TTTA -TTA TTAATA TTTA TATGTA TTTTA TTTA T
1 TTTA TTTA TT--TA TTTA T-T-TA -TTTA TTTA T
9438783 ATAGTTATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
3 6 0.10
4 41 0.67
5 3 0.05
6 10 0.16
7 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:9439770 original size:4 final size:4
Alignment explanation
Indices: 9439763--9439813 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
9439753 CCAGGTTTTT
* * *
9439763 TTTA TTTA TTTA -TTA TTTA ATTG TTTT TTTA TTTA TTTA -TT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
9439808 TTTA TT
1 TTTA TT
9439814 AGATTAGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
3 7 0.18
4 32 0.82
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:9439796 original size:16 final size:15
Alignment explanation
Indices: 9439758--9439872 Score: 64
Period size: 16 Copynumber: 7.6 Consensus size: 15
9439748 CCGCTCCAGG
9439758 TTTTT-TTT-ATTTA
1 TTTTTATTTAATTTA
*
9439771 TTTATTATTTAATTGTT
1 TTT-TTATTTAATT-TA
9439788 TTTTTATTT-ATTTA
1 TTTTTATTTAATTTA
*
9439802 TTTTTATTT-ATTAGA
1 TTTTTATTTAATT-TA
*
9439817 TTAGGTTTAGTTAATATT-
1 TT---TTTATTTAAT-TTA
*
9439835 TTTTTCTTTAATTTTA
1 TTTTTATTTAA-TTTA
*
9439851 TTTTTATTTTA-TT-
1 TTTTTATTTAATTTA
9439864 TTTTTATTT
1 TTTTTATTT
9439873 TCATTTTTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
13 12 0.15
14 17 0.21
15 18 0.22
16 19 0.23
17 4 0.05
18 8 0.10
19 2 0.02
20 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTTTATTTAATTTA
Found at i:9439855 original size:6 final size:6
Alignment explanation
Indices: 9439831--9439885 Score: 58
Period size: 6 Copynumber: 9.0 Consensus size: 6
9439821 GTTTAGTTAA
* * *
9439831 TATTTT T-TTCTT TAATTT TATTTT TATTTT ATTTTTT TATTTT CATTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT -TATTTT TATTTT TATTTT
9439880 TATTTT
1 TATTTT
9439886 GTTTATATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
5 2 0.05
6 32 0.80
7 6 0.15
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:9439878 original size:14 final size:13
Alignment explanation
Indices: 9439831--9439880 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
9439821 GTTTAGTTAA
9439831 TATTTT-TTTCTTT
1 TATTTTATTT-TTT
*
9439844 AATTTTA--TTTT
1 TATTTTATTTTTT
9439855 TATTTTATTTTTT
1 TATTTTATTTTTT
9439868 TATTTTCATTTTT
1 TATTTT-ATTTTT
9439881 ATTTTGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 9 0.29
12 1 0.03
13 15 0.48
14 6 0.19
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTATTTTTT
Found at i:9439896 original size:21 final size:20
Alignment explanation
Indices: 9439856--9439901 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
9439846 TTTTATTTTT
*
9439856 ATTTTATTTTTTTATTTTCA
1 ATTTTATTTTTTTATATTCA
*
9439876 TTTTTATTTTGTTTATATTCA
1 ATTTTATTTT-TTTATATTCA
9439897 ATTTT
1 ATTTT
9439902 CCTTTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (20 bp):
ATTTTATTTTTTTATATTCA
Found at i:9440066 original size:59 final size:56
Alignment explanation
Indices: 9439894--9440074 Score: 208
Period size: 56 Copynumber: 3.2 Consensus size: 56
9439884 TTGTTTATAT
* * *
9439894 TCAATTTTCCTTTAAATAA-AAA-TAAAAAATATATTTTTGGGGAAAGTTGAAAGTA
1 TCAATTTTCC-TTAAAAAATAAATTAAAAAAAATAATTTTGGGGAAAGTTGAAAGTA
* * * *
9439949 TCAA-TTTCCTT-AAAAATAAAATTTCAAAAAAATATTTTTGAGAAAAGTTGAAAGTA
1 TCAATTTTCCTTAAAAAAT-AAA-TTAAAAAAAATAATTTTGGGGAAAGTTGAAAGTA
*
9440005 TCAATTTTCCTTAAAAAATAAATTAAAAAAAAATCAATTTTGGGGAGAAGTTGAAAATA
1 TCAATTTTCCTTAAAAAATAAATT-AAAAAAAAT-AATTTTGGGGA-AAGTTGAAAGTA
9440064 TCAATTTTCCT
1 TCAATTTTCCT
9440075 GCACAAGAAC
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
52 4 0.04
53 2 0.02
54 8 0.07
55 4 0.04
56 35 0.33
57 18 0.17
58 14 0.13
59 22 0.21
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (56 bp):
TCAATTTTCCTTAAAAAATAAATTAAAAAAAATAATTTTGGGGAAAGTTGAAAGTA
Found at i:9447312 original size:43 final size:42
Alignment explanation
Indices: 9447245--9447326 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 42
9447235 GCCTTTGAAC
* *
9447245 TCAAATGAAAAGCTTTGAATTTTTGGATGTGAATTTCCAAAAT
1 TCAAATGAAAAGCTTTGAACTTTTGGATATGAA-TTCCAAAAT
*
9447288 TCAAATGAAAAGCTTT-AGACTTTTGGGTATGAATTCCAA
1 TCAAATGAAAAGCTTTGA-ACTTTTGGATATGAATTCCAA
9447327 GTTTGCCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 7 0.20
43 28 0.80
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (42 bp):
TCAAATGAAAAGCTTTGAACTTTTGGATATGAATTCCAAAAT
Found at i:9447660 original size:43 final size:43
Alignment explanation
Indices: 9447593--9447907 Score: 361
Period size: 43 Copynumber: 7.1 Consensus size: 43
9447583 TGATTGTCAG
*
9447593 GGAGCAATTTACTTTTTCTAAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTAC-TTTTCCAAAAGTCGTGGTGCCTCTGTTTAGA
* *
9447637 GGAGTAATTTACTTTTCCAAAAGTCGTGGTGCCTTTGTTTAGA
1 GGAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGA
*
9447680 GGAGCAATTTACTTTTTCAAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGA
*
9447723 GGAGCAATTTAC-TTTCC-AAAGTCATGGTGCCTCTGTTTAGAGAAGCAATTAGA
1 GGAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTG--T----------TTAGA
* *
9447776 GGAGCAATTTAC-TTTCC-AAAGTCGAGGTACCTCTGTTTAGA
1 GGAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGA
*
9447817 GGAGCAATTTACTTTTCCAAAAGTCATGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGA
* * * *
9447860 GGAGCAATTTATTTTGTTC-AAAGTCGTTGAGCCTCTGTTTAGA
1 GGAGCAATTTACTTT-TCCAAAAGTCGTGGTGCCTCTGTTTAGA
9447903 GGAGC
1 GGAGC
9447908 TTTGGTAAAA
Statistics
Matches: 237, Mismatches: 19, Indels: 31
0.83 0.07 0.11
Matches are distributed among these distances:
41 34 0.14
42 9 0.04
43 143 0.60
44 13 0.05
51 1 0.00
53 37 0.16
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (43 bp):
GGAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGA
Found at i:9447798 original size:53 final size:53
Alignment explanation
Indices: 9447718--9447825 Score: 182
Period size: 53 Copynumber: 2.0 Consensus size: 53
9447708 GTGCCTCTGT
*
9447718 TTAGAGGAGCAATTTACTTTCCAAAGTC-ATGGTGCCTCTGTTTAGAGAAGCAA
1 TTAGAGGAGCAATTTACTTTCCAAAGTCGA-GGTACCTCTGTTTAGAGAAGCAA
*
9447771 TTAGAGGAGCAATTTACTTTCCAAAGTCGAGGTACCTCTGTTTAGAGGAGCAA
1 TTAGAGGAGCAATTTACTTTCCAAAGTCGAGGTACCTCTGTTTAGAGAAGCAA
9447824 TT
1 TT
9447826 TACTTTTCCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
53 51 0.98
54 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (53 bp):
TTAGAGGAGCAATTTACTTTCCAAAGTCGAGGTACCTCTGTTTAGAGAAGCAA
Found at i:9447838 original size:137 final size:141
Alignment explanation
Indices: 9447632--9447903 Score: 417
Period size: 137 Copynumber: 2.0 Consensus size: 141
9447622 GTGCCTCTGT
* * * * *
9447632 TTAGAGGAGTAATTTACTTTTCCAAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAATTTACTTTTT
1 TTAGAGGAGCAATTTACTTTTCCAAAAGTCGAGGTACCTCTGTTTAGAGGAGCAATTTACTTTTC
* *
9447697 CAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTT-TCCAAAGTCATGGTGCCTCTGTT
66 CAAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATCTTGTCCAAAGTCATGGAGCCTCTGTT
9447760 TAGAGAAGCAA
131 TAGAGAAGCAA
9447771 TTAGAGGAGCAATTTAC-TTTCC-AAAGTCGAGGTACCTCTGTTTAGAGGAGCAATTTACTTTTC
1 TTAGAGGAGCAATTTACTTTTCCAAAAGTCGAGGTACCTCTGTTTAGAGGAGCAATTTACTTTTC
* * * *
9447834 CAAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTGTTCAAAGTCGTTGAGCCTCTGTT
66 CAAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATCTTGTCCAAAGTCATGGAGCCTCTGTT
9447899 TAGAG
131 TAGAG
9447904 GAGCTTTGGT
Statistics
Matches: 120, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
137 73 0.61
138 7 0.06
139 40 0.33
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (141 bp):
TTAGAGGAGCAATTTACTTTTCCAAAAGTCGAGGTACCTCTGTTTAGAGGAGCAATTTACTTTTC
CAAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATCTTGTCCAAAGTCATGGAGCCTCTGTT
TAGAGAAGCAA
Found at i:9447849 original size:96 final size:95
Alignment explanation
Indices: 9447675--9447868 Score: 318
Period size: 96 Copynumber: 2.0 Consensus size: 95
9447665 GTGCCTTTGT
* *
9447675 TTAGAGGAGCAATTTACTTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCC
1 TTAGAGGAGCAATTTAC-TTTTCAAAAGTCGAGGTACCTCTGTTTAGAGGAGCAATTTACTTTCC
9447740 AAAGTCATGGTGCCTCTGTTTAGAGAAGCAA
65 AAAGTCATGGTGCCTCTGTTTAGAGAAGCAA
*
9447771 TTAGAGGAGCAATTTAC-TTTCCAAAGTCGAGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCC
1 TTAGAGGAGCAATTTACTTTTCAAAAGTCGAGGTACCTCTGTTTAGAGGAGCAATTTAC-TTTCC
*
9447835 AAAAGTCATGGTGCCTCTGTTTAGAGGAGCAA
65 -AAAGTCATGGTGCCTCTGTTTAGAGAAGCAA
9447867 TT
1 TT
9447869 TATTTTGTTC
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
94 38 0.41
95 5 0.05
96 49 0.53
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (95 bp):
TTAGAGGAGCAATTTACTTTTCAAAAGTCGAGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCA
AAGTCATGGTGCCTCTGTTTAGAGAAGCAA
Found at i:9447925 original size:6 final size:6
Alignment explanation
Indices: 9447914--9447963 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
9447904 GAGCTTTGGT
* *
9447914 AAAA-A AAAA-A AAAACA AAAACA AAAACA AAAGCA AAAAAA AAAACA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA
9447960 AAAA
1 AAAA
9447964 TGAAAATGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
5 9 0.22
6 31 0.77
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:9448139 original size:25 final size:25
Alignment explanation
Indices: 9448079--9448204 Score: 68
Period size: 25 Copynumber: 5.2 Consensus size: 25
9448069 TTATTTGGGA
* * *
9448079 TTATTT-TTATTTTATTTTTTTTCT
1 TTATTTATTATTTTATGTATTTTAT
*
9448103 TTCTTT-TGTATTTTATGTATTTTAT
1 TTATTTAT-TATTTTATGTATTTTAT
* * *
9448128 TTATTTATTATTACTATGCA-TTAAT
1 TTATTTATTATT-TTATGTATTTTAT
* * *
9448153 ATCTTTATT-TATTTATTTA-TTTA-
1 TTATTTATTAT-TTTATGTATTTTAT
*
9448176 TTA-TTAATATTTATATGTATTTTAT
1 TTATTTATTATTT-TATGTATTTTAT
9448201 TTAT
1 TTAT
9448205 ATAGTTATAT
Statistics
Matches: 75, Mismatches: 18, Indels: 16
0.69 0.17 0.15
Matches are distributed among these distances:
22 6 0.08
23 7 0.09
24 18 0.24
25 38 0.51
26 6 0.08
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (25 bp):
TTATTTATTATTTTATGTATTTTAT
Found at i:9448165 original size:4 final size:4
Alignment explanation
Indices: 9448156--9448246 Score: 62
Period size: 4 Copynumber: 21.8 Consensus size: 4
9448146 CATTAATATC
9448156 TTTA TTTA TTTA TTTA TTTA -TTA TTAATA TTTA TATGTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA T-T-TA -TTTA TTTA
* * * *
9448204 TATA GTTA TATA TTTA -TTA TTATA TTTAA TTTA TGTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TT-TA TTT-A TTTA TTTA TTTA TTT
9448247 TTTTTCTTGT
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
3 8 0.12
4 42 0.61
5 11 0.16
6 7 0.10
7 1 0.01
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:9448317 original size:17 final size:16
Alignment explanation
Indices: 9448295--9448329 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
9448285 TTAATAATTT
9448295 TTTTTCCATTTATCTGA
1 TTTTT-CATTTATCTGA
*
9448312 TTTTTCGTTTATCTGA
1 TTTTTCATTTATCTGA
9448328 TT
1 TT
9448330 ATTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.63
Consensus pattern (16 bp):
TTTTTCATTTATCTGA
Found at i:9449208 original size:16 final size:15
Alignment explanation
Indices: 9449187--9449306 Score: 75
Period size: 16 Copynumber: 7.5 Consensus size: 15
9449177 TTTTTTTGAA
9449187 TTTATTTATTTATTT
1 TTTATTTATTTATTT
9449202 GTTTATTTCATTTATTT
1 -TTTATTT-ATTTATTT
* *
9449219 TTTATTTATTAGATTAGG
1 TTTATTTATT-TATT--T
*
9449237 TTTATTTA-ATATTCT
1 TTTATTTATTTATT-T
9449252 TCTTATCTTTATTTTATTT
1 T-TTA--TTTA-TTTATTT
9449271 TTTA-TT-TTTATTT
1 TTTATTTATTTATTT
**
9449284 TTTATTTATGTTAACT
1 TTTATTTAT-TTATTT
9449300 TTTATTT
1 TTTATTT
9449307 TGTTTTATTA
Statistics
Matches: 83, Mismatches: 9, Indels: 24
0.72 0.08 0.21
Matches are distributed among these distances:
13 11 0.13
14 2 0.02
15 7 0.08
16 34 0.41
17 8 0.10
18 15 0.18
19 2 0.02
20 4 0.05
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (15 bp):
TTTATTTATTTATTT
Found at i:9449244 original size:4 final size:4
Alignment explanation
Indices: 9449186--9449228 Score: 61
Period size: 4 Copynumber: 10.8 Consensus size: 4
9449176 TTTTTTTTGA
*
9449186 ATTT ATTT ATTT ATTT GTTT ATTT CATTT ATTT -TTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT -ATTT ATTT ATTT ATTT ATT
9449229 AGATTAGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 28 0.80
5 4 0.11
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:9449281 original size:13 final size:13
Alignment explanation
Indices: 9449259--9449290 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
9449249 TCTTCTTATC
9449259 TTTA-TTTTATTT
1 TTTATTTTTATTT
9449271 TTTATTTTTATTT
1 TTTATTTTTATTT
9449284 TTTATTT
1 TTTATTT
9449291 ATGTTAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:9449416 original size:61 final size:59
Alignment explanation
Indices: 9449341--9449985 Score: 774
Period size: 60 Copynumber: 10.7 Consensus size: 59
9449331 AATAAAAATT
* *
9449341 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATTAAAGTTTTC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAA-TTTTC
* * *
9449402 AAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTCC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * *
9449461 AAAAAAAATATTTTTAGAGAAAAGTTGAAATTATCAATTTTCCTTAAAAATAAAATTTC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
** * * * * *
9449520 AAAAAAAGGGATGTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
1 AAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
* * * *
9449581 -CAAAAAATATATTTTAGGGAAAAGTTGAAAGCATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAAATAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * *
9449640 AAAAAAAAAAGTTTTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAACAAAATTTC
1 --AAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
9449702 AAAAAAAAATATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 -AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * *
9449762 AAAAAAAAAAGTTTTTTTGGGGAAAAATTGAAAATATCAATTTTCCTTAAAAATAAAATTTC
1 --AAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* *
9449824 AAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAAGTTTCCTTAAAAATAAA-TTT-
1 -AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
9449882 AAAAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
** * *
9449943 AAAAAAGGTTTTTTTTTTGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAA--AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
9449986 TCCTGCACAA
Statistics
Matches: 506, Mismatches: 63, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
57 9 0.02
59 117 0.23
60 171 0.34
61 112 0.22
62 94 0.19
63 3 0.01
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (59 bp):
AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:9449731 original size:122 final size:121
Alignment explanation
Indices: 9449341--9449985 Score: 792
Period size: 122 Copynumber: 5.3 Consensus size: 121
9449331 AATAAAAATT
* *
9449341 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATTAAAGTTTTC--AA
1 AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAA-TTTTCAAAA
* * *
9449404 AAAAAA-TATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAA-TAAATTTCC
63 AAAAAAGTATTTTTGGGGAAAAA-TTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCA
* * *
9449461 AAAAAAAATATTTTTAGAGAAAAGTTGAAATTATCAATTTTCCTTAAAAATAAAATTTC--AAAA
1 AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* * * * * *
9449524 AAAGGGATGTTT-GAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCC
65 AAAAGTATTTTTGGGGAAAAA-TTGAAAGTATCAATTTTCCTT-AAAAACAAAATTTCA
* * * *
9449582 AAAAAATATATTTTAGGGAAAAGTTGAAAGCATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
*
9449647 AAAGTTTTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCA
66 AAAGTATTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCA
* *
9449703 AAAAAAAATATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
1 AAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* * *
9449768 AAAAGTTTTTTTGGGGAAAAATTGAAAATATCAATTTTCCTTAAAAATAAAATTTCA
65 AAAAGTATTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCA
*
9449825 AAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAAGTTTCCTTAAAAATAAA-TTT-AAAAAA
1 AAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* * * * *
9449888 AATCA--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
65 AA-AAGTATTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCA
*** *
9449944 AAAAAGGTTTTTTTTTTGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAA--AAATATTTTTGGGAAAAGTTGAAAGTATCAATTTT
9449986 TCCTGCACAA
Statistics
Matches: 467, Mismatches: 47, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
118 11 0.02
119 92 0.20
120 112 0.24
121 63 0.13
122 182 0.39
123 7 0.01
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (121 bp):
AAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
AAAGTATTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCA
Found at i:9458496 original size:13 final size:14
Alignment explanation
Indices: 9458480--9458614 Score: 57
Period size: 14 Copynumber: 9.2 Consensus size: 14
9458470 CTTCTTTGAT
9458480 TTTATGTATT-TTA
1 TTTATGTATTATTA
*
9458493 TTTATTTATTATTA
1 TTTATGTATTATTA
* *
9458507 -CTATGTATTAATATC
1 TTTATGTATT-AT-TA
*
9458522 TTTATTTATTTATTTA
1 TTTATGTA-TTA-TTA
*
9458538 TTTAT-TATTAATA
1 TTTATGTATTATTA
9458551 TTTATATGTATTTATTA
1 -TT-TATGTA-TTATTA
*
9458568 TATA-GTTATATAGTTA
1 TTTATG-TAT-TA-TTA
*
9458584 -TTAT-TATCTTATAA
1 TTTATGTA--TTATTA
9458598 TTTATGTATTATTA
1 TTTATGTATTATTA
9458612 TTT
1 TTT
9458615 TTTGGTATAT
Statistics
Matches: 91, Mismatches: 13, Indels: 35
0.65 0.09 0.25
Matches are distributed among these distances:
13 18 0.20
14 24 0.26
15 20 0.22
16 21 0.23
17 8 0.09
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (14 bp):
TTTATGTATTATTA
Found at i:9458498 original size:4 final size:4
Alignment explanation
Indices: 9458489--9458566 Score: 52
Period size: 4 Copynumber: 18.5 Consensus size: 4
9458479 TTTTATGTAT
* * * *
9458489 TTTA TTTA TTTA -TTA TTACTA TGTA TTAA TATC TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
9458538 TTTA -TTA TTAATA TTTA TATGTA TTTA TT
1 TTTA TTTA TT--TA TTTA T-T-TA TTTA TT
9458567 ATATAGTTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
3 6 0.10
4 40 0.69
5 2 0.03
6 10 0.17
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:9458562 original size:19 final size:20
Alignment explanation
Indices: 9458478--9458612 Score: 65
Period size: 17 Copynumber: 6.9 Consensus size: 20
9458468 TTCTTCTTTG
*
9458478 ATTT-TATGTATT-TTATTT
1 ATTTATATGTATTATTATAT
* *
9458496 A-TT-TAT-TATTACTATGT
1 ATTTATATGTATTATTATAT
* * *
9458513 ATTAATATCT-TTATTTATTT
1 ATTTATATGTATTA-TTATAT
9458533 ATTTAT-T-TATTATTA-AT
1 ATTTATATGTATTATTATAT
9458550 ATTTATATGTATTTATTATAT
1 ATTTATATGTA-TTATTATAT
*
9458571 AGTTATATAGTTATTATTATCTTAT
1 ATTTATAT-G-TATTATTA---TAT
*
9458596 AATT-TATGTATTATTAT
1 ATTTATATGTATTATTAT
9458613 TTTTTGGTAT
Statistics
Matches: 93, Mismatches: 9, Indels: 29
0.71 0.07 0.22
Matches are distributed among these distances:
16 4 0.04
17 17 0.18
18 7 0.08
19 13 0.14
20 16 0.17
21 9 0.10
22 15 0.16
23 3 0.03
24 3 0.03
25 6 0.06
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
ATTTATATGTATTATTATAT
Found at i:9459557 original size:4 final size:4
Alignment explanation
Indices: 9459548--9459598 Score: 63
Period size: 4 Copynumber: 13.5 Consensus size: 4
9459538 TCCAGGTTTT
* *
9459548 TTTA TTTA TTTA -TTA TTTA TTTG TTTT TTTA TTTA TTTA -TT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
9459593 TTTA TT
1 TTTA TT
9459599 AGATTAGGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
3 7 0.17
4 34 0.83
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:9459565 original size:11 final size:11
Alignment explanation
Indices: 9459549--9459671 Score: 59
Period size: 11 Copynumber: 11.5 Consensus size: 11
9459539 CCAGGTTTTT
9459549 TTATTTATTTA
1 TTATTTATTTA
9459560 TTATTTATTT-
1 TTATTTATTTA
*
9459570 GT-TTT-TTTA
1 TTATTTATTTA
9459579 TTTATTTATTT-
1 -TTATTTATTTA
*
9459590 TTATTTATTAGA
1 TTATTTATT-TA
*
9459602 TTAGGTTTAGTTA
1 TTA--TTTATTTA
* *
9459615 ATATTTTTTTA
1 TTATTTATTTA
*
9459626 -TCTTTATTTTA
1 TTATTTA-TTTA
9459637 TT-TTTATTTTA
1 TTATTTA-TTTA
9459648 TT-TTT-TTTA
1 TTATTTATTTA
*
9459657 TT-TTCATTT-
1 TTATTTATTTA
9459666 TTATTT
1 TTATTT
9459672 TGTTTTATTA
Statistics
Matches: 88, Mismatches: 12, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
8 3 0.03
9 13 0.15
10 20 0.23
11 37 0.42
12 7 0.08
13 3 0.03
14 5 0.06
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:9459581 original size:27 final size:26
Alignment explanation
Indices: 9459543--9459595 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
9459533 GCCGCTCCAG
9459543 GTTTTTTTATTTATTTATTATTTATTT
1 GTTTTTTTATTTATTTATT-TTTATTT
9459570 GTTTTTTTATTTATTTATTTTTATTT
1 GTTTTTTTATTTATTTATTTTTATTT
9459596 ATTAGATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (26 bp):
GTTTTTTTATTTATTTATTTTTATTT
Found at i:9459638 original size:5 final size:5
Alignment explanation
Indices: 9459621--9459680 Score: 68
Period size: 5 Copynumber: 11.4 Consensus size: 5
9459611 GTTAATATTT
9459621 TTTTA TCTTTA TTTTA TTTTTA TTTTA TTTT- TTTTA TTTTCA TTTTTA
1 TTTTA T-TTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA
*
9459669 TTTTG TTTTA TT
1 TTTTA TTTTA TT
9459681 ATTCAATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.08
5 28 0.58
6 12 0.25
7 4 0.08
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:9459641 original size:6 final size:6
Alignment explanation
Indices: 9459620--9459672 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
9459610 AGTTAATATT
* * *
9459620 TTTTTA TCTTTA -TTTTA TTTTTA TTTTATTT TTTTTA TTTTCA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTT-TTA TTTTTA TTTTTA TTTTTA
9459669 TTTT
1 TTTT
9459673 GTTTTATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 4 0.11
6 26 0.68
7 6 0.16
8 2 0.05
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:9459656 original size:31 final size:31
Alignment explanation
Indices: 9459618--9459680 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 31
9459608 TTAGTTAATA
9459618 TTTTTTTATCTTT-A-TTTTATTTTTATTTTAT
1 TTTTTTTAT-TTTCATTTTTA-TTTTATTTTAT
*
9459649 TTTTTTTATTTTCATTTTTATTTTGTTTTAT
1 TTTTTTTATTTTCATTTTTATTTTATTTTAT
9459680 T
1 T
9459681 ATTCAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 3 0.10
31 21 0.72
32 5 0.17
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.81
Consensus pattern (31 bp):
TTTTTTTATTTTCATTTTTATTTTATTTTAT
Found at i:9459677 original size:25 final size:25
Alignment explanation
Indices: 9459628--9459683 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
9459618 TTTTTTTATC
*
9459628 TTTATTTTATTTTTATTTTATTTTT
1 TTTATTTTATTTTTATTTTAGTTTT
9459653 TTTATTTTCATTTTTATTTT-GTTTT
1 TTTATTTT-ATTTTTATTTTAGTTTT
*
9459678 ATTATT
1 TTTATT
9459684 CAATTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (25 bp):
TTTATTTTATTTTTATTTTAGTTTT
Found at i:9459787 original size:60 final size:59
Alignment explanation
Indices: 9459683--9459866 Score: 232
Period size: 60 Copynumber: 3.1 Consensus size: 59
9459673 GTTTTATTAT
* * *
9459683 TCAATTTTCTTTAAATAA-AAA-TAAAAAAATATA-TTTTTGGGGAAAAGTTGAAAGTA
1 TCAATTTTCCTTAAAAAATAAATTAAAAAAAAATATTTTTTGGGGAAAAGTTGAAAGTA
** *
9459739 TCAATTTTCCTT-AAAAATAAAATTTTCAAAAAAATATTTTTTGAGGAAAAGTTGAAAGTA
1 TCAATTTTCCTTAAAAAAT-AAA-TTAAAAAAAAATATTTTTTGGGGAAAAGTTGAAAGTA
* * *
9459799 TCAATTTTCCTTAAAAAATAAATTAAAAAAAAATCAATTTTTGGGGAGAAGTTGAAAATA
1 TCAATTTTCCTTAAAAAATAAATTAAAAAAAAAT-ATTTTTTGGGGAAAAGTTGAAAGTA
9459859 TCAATTTT
1 TCAATTTT
9459867 TCCTGCACAA
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
55 4 0.04
56 11 0.10
57 3 0.03
59 19 0.17
60 66 0.61
61 6 0.06
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (59 bp):
TCAATTTTCCTTAAAAAATAAATTAAAAAAAAATATTTTTTGGGGAAAAGTTGAAAGTA
Done.