Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 80 of 193
Found at i:26456536 original size:46 final size:47
Alignment explanation
Indices: 26456483--26456576 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 47
26456473 TGCAAATATG
* *
26456483 AAAATGTCATGACAA-AGAAATAATATCATGGAAAAAT-GAAACTACA
1 AAAATGTCATGACAACA-AAACAATATCATGGAAAAATAAAAACTACA
* *
26456529 AAAATGTCATGACAACAAAACAATATTATGGCAAAATAAAAACTACA
1 AAAATGTCATGACAACAAAACAATATCATGGAAAAATAAAAACTACA
26456576 A
1 A
26456577 CCTAAATGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 32 0.76
47 10 0.24
ACGTcount: A:0.57, C:0.13, G:0.11, T:0.19
Consensus pattern (47 bp):
AAAATGTCATGACAACAAAACAATATCATGGAAAAATAAAAACTACA
Found at i:26480120 original size:21 final size:21
Alignment explanation
Indices: 26480082--26480121 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26480072 ACCTGCTGCT
*
26480082 GAGGAGGAAGTTGATGTTGGA
1 GAGGAGGAAGTTCATGTTGGA
*
26480103 GAGGAGGAAGTTCTTGTTG
1 GAGGAGGAAGTTCATGTTG
26480122 AATATGTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.45, T:0.28
Consensus pattern (21 bp):
GAGGAGGAAGTTCATGTTGGA
Found at i:26480164 original size:15 final size:15
Alignment explanation
Indices: 26480146--26480180 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
26480136 GAGGACGAGG
26480146 AAGAAGATGCTGAGA
1 AAGAAGATGCTGAGA
*
26480161 AAGAAGATGTTGAGA
1 AAGAAGATGCTGAGA
26480176 AAGAA
1 AAGAA
26480181 TTTGCTAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.03, G:0.31, T:0.14
Consensus pattern (15 bp):
AAGAAGATGCTGAGA
Found at i:26494798 original size:6 final size:6
Alignment explanation
Indices: 26494787--26494822 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
26494777 CTCGACAAAG
* *
26494787 AAAGAA AAAGAA AAAGAA AAAGGA AAAGAG AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
26494823 GAACAGACTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:26510761 original size:17 final size:17
Alignment explanation
Indices: 26510734--26510785 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
26510724 TACAATGAAA
*
26510734 AATGGAAATGCAATGAC
1 AATGAAAATGCAATGAC
* * **
26510751 AATGCATATGCAGCGAC
1 AATGAAAATGCAATGAC
*
26510768 AATTAAAATGCAATGAC
1 AATGAAAATGCAATGAC
26510785 A
1 A
26510786 GAGGGAATGT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (17 bp):
AATGAAAATGCAATGAC
Found at i:26510864 original size:13 final size:12
Alignment explanation
Indices: 26510846--26510879 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
26510836 TAGTATGCAT
26510846 TAAAAACTAAAA
1 TAAAAACTAAAA
26510858 CTAAAAACTAAAA
1 -TAAAAACTAAAA
26510871 T-AAAACTAA
1 TAAAAACTAA
26510880 CCAAATTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.38
12 1 0.05
13 12 0.57
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (12 bp):
TAAAAACTAAAA
Found at i:26511256 original size:12 final size:12
Alignment explanation
Indices: 26511239--26511283 Score: 72
Period size: 12 Copynumber: 3.7 Consensus size: 12
26511229 CTCGTCAACT
26511239 TCTTTTCCTTCC
1 TCTTTTCCTTCC
*
26511251 TCTTTTTCTTCC
1 TCTTTTCCTTCC
26511263 TCTTTTCCTTCC
1 TCTTTTCCTTCC
26511275 TCTTCTTCC
1 TCTT-TTCC
26511284 ACTTCTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 26 0.87
13 4 0.13
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTTTTCCTTCC
Found at i:26511290 original size:24 final size:24
Alignment explanation
Indices: 26511236--26511291 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
26511226 ATCCTCGTCA
* *
26511236 ACTTCTTTTCCTTCCTCTTTTTCT
1 ACTTCTTTTCCTTCCTCTTCTTCC
* *
26511260 TCCTCTTTTCCTTCCTCTTCTTCC
1 ACTTCTTTTCCTTCCTCTTCTTCC
26511284 ACTTCTTT
1 ACTTCTTT
26511292 CACTTGTGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.04, C:0.38, G:0.00, T:0.59
Consensus pattern (24 bp):
ACTTCTTTTCCTTCCTCTTCTTCC
Found at i:26518548 original size:6 final size:6
Alignment explanation
Indices: 26518537--26518580 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
26518527 TTTATGGCAA
26518537 TTTTTC TTTTTC TTTTCTC TTTTCTC TTTTTC -TTTTC TTTTTC T
1 TTTTTC TTTTTC TTTT-TC TTTT-TC TTTTTC TTTTTC TTTTTC T
26518581 CATTCAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.14
6 18 0.50
7 13 0.36
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:26518566 original size:20 final size:19
Alignment explanation
Indices: 26518537--26518581 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
26518527 TTTATGGCAA
26518537 TTTT-TCTTTTTCTTTTCT
1 TTTTCTCTTTTTCTTTTCT
26518555 CTTTTCTCTTTTTCTTTTCT
1 -TTTTCTCTTTTTCTTTTCT
26518575 TTTTCTC
1 TTTTCTC
26518582 ATTCAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCTCTTTTTCTTTTCT
Found at i:26520238 original size:13 final size:12
Alignment explanation
Indices: 26520202--26520240 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
26520192 ATCATCCTAT
26520202 TTTTCCTTCTTC
1 TTTTCCTTCTTC
*
26520214 -TTTCCTTTTTC
1 TTTTCCTTCTTC
26520225 TTTGTCCTTCTTC
1 TTT-TCCTTCTTC
26520238 TTT
1 TTT
26520241 AATGCTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 10 0.43
12 2 0.09
13 11 0.48
ACGTcount: A:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (12 bp):
TTTTCCTTCTTC
Found at i:26526774 original size:36 final size:36
Alignment explanation
Indices: 26526727--26526798 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
26526717 GCATAATCAG
26526727 GGACACCATGTTGACTAAGGATGCACAAATAAGCAA
1 GGACACCATGTTGACTAAGGATGCACAAATAAGCAA
26526763 GGACACCATGTTGACTAAGGATGCACAAATAAGCAA
1 GGACACCATGTTGACTAAGGATGCACAAATAAGCAA
26526799 AAATGATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (36 bp):
GGACACCATGTTGACTAAGGATGCACAAATAAGCAA
Found at i:26529302 original size:36 final size:36
Alignment explanation
Indices: 26529255--26529327 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
26529245 GGCAACTTTT
26529255 CAATAATTTCTACCTTCGCTCTATCCACTTCAATGC
1 CAATAATTTCTACCTTCGCTCTATCCACTTCAATGC
26529291 CAATAATTTCTACCTTCGCTCTATCCACTTCAATGC
1 CAATAATTTCTACCTTCGCTCTATCCACTTCAATGC
26529327 C
1 C
26529328 CTGACTAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.36
Consensus pattern (36 bp):
CAATAATTTCTACCTTCGCTCTATCCACTTCAATGC
Found at i:26543697 original size:29 final size:28
Alignment explanation
Indices: 26543613--26543703 Score: 94
Period size: 29 Copynumber: 3.2 Consensus size: 28
26543603 TTCAGATTAT
** *
26543613 GCCACAAAGGCATTCCTTTCCA-AAGATC
1 GCCACAAAGGC-TTCCTTTTAACAAGATA
* *
26543641 GCCACGAAGGCATCCTTTTAACTAAGATA
1 GCCACAAAGGCTTCCTTTTAAC-AAGATA
26543670 GCCACAAAGGCTTCCTTTTAACAGAGATA
1 GCCACAAAGGCTTCCTTTTAACA-AGATA
*
26543699 ACCAC
1 GCCAC
26543704 TGTCATATCC
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 7 0.13
28 11 0.21
29 34 0.65
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (28 bp):
GCCACAAAGGCTTCCTTTTAACAAGATA
Found at i:26547964 original size:27 final size:27
Alignment explanation
Indices: 26547923--26547983 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
26547913 TGACCGTTAA
26547923 AATGTG-ATGTCTTGATACATCGAGAT
1 AATGTGTATGTCTTGATACATCGAGAT
*
26547949 AATGTGTATGTTTTGATACATCGAGAT
1 AATGTGTATGTCTTGATACATCGAGAT
*
26547976 AATTTGTA
1 AATGTGTA
26547984 AATTGCATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
AATGTGTATGTCTTGATACATCGAGAT
Found at i:26548223 original size:20 final size:20
Alignment explanation
Indices: 26548195--26548241 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
26548185 TTATCGACAA
*
26548195 TACTAGTAGGTTGTCTGCAC
1 TACTAGTAGGTTATCTGCAC
* * *
26548215 TACTGGTAGTTTATCTGCAT
1 TACTAGTAGGTTATCTGCAC
26548235 TACTAGT
1 TACTAGT
26548242 GGCTTAACCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (20 bp):
TACTAGTAGGTTATCTGCAC
Found at i:26551845 original size:22 final size:22
Alignment explanation
Indices: 26551820--26551883 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
26551810 AATTAAAAAG
26551820 ATAAAATTATATTTTTAATATC
1 ATAAAATTATATTTTTAATATC
* ** *
26551842 ATAAAAATATACAATTTAATTTC
1 ATAAAATTATA-TTTTTAATATC
26551865 ACTCAAAATTAT-TTTTTAA
1 A-T-AAAATTATATTTTTAA
26551884 CTTCGTCCCT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
22 10 0.31
23 14 0.44
24 1 0.03
25 7 0.22
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAAATTATATTTTTAATATC
Found at i:26552188 original size:29 final size:30
Alignment explanation
Indices: 26552135--26552214 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
26552125 ATATTAAAAT
* *
26552135 TATACATAAATTATGATTTAATGTAAAATTA
1 TATATATAAATTTTGATTT-ATGTAAAATTA
*
26552166 TATATATAAATTTTGATTT-TGTATAATTA
1 TATATATAAATTTTGATTTATGTAAAATTA
*
26552195 TAGATATGAAATTTTGATTT
1 TATATAT-AAATTTTGATTT
26552215 GATTCAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 15 0.34
30 12 0.27
31 17 0.39
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (30 bp):
TATATATAAATTTTGATTTATGTAAAATTA
Found at i:26552215 original size:29 final size:29
Alignment explanation
Indices: 26552140--26552214 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
26552130 AAAATTATAC
* *
26552140 ATAAATTATGATTTAATGTAAAATTATATAT
1 ATAAATTTTGATTT--TGTAAAATTATAGAT
*
26552171 ATAAATTTTGATTTTGTATAATTATAGAT
1 ATAAATTTTGATTTTGTAAAATTATAGAT
26552200 ATGAAATTTTGATTT
1 AT-AAATTTTGATTT
26552215 GATTCAATTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.38
30 12 0.30
31 13 0.32
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.49
Consensus pattern (29 bp):
ATAAATTTTGATTTTGTAAAATTATAGAT
Found at i:26556556 original size:41 final size:41
Alignment explanation
Indices: 26556498--26556732 Score: 226
Period size: 41 Copynumber: 5.8 Consensus size: 41
26556488 GAAAGAAAAT
* * * *
26556498 GCCGCAAAAGGT-AGAGCAATAGCGGCGCTTATGGAAAAGT
1 GCCGCTAAAGGTCGGAGCAACAGCGGCGCTTATGGAAAAGC
* *
26556538 GCCGCTAAAGGTCGGAGCAATAGCGGCGCTTA-CGATAAAGC
1 GCCGCTAAAGGTCGGAGCAACAGCGGCGCTTATGGA-AAAGC
* * ** *
26556579 GCCGCTAAATGTCGGAGCAACAACGGCGCTT-TCCCATAAGC
1 GCCGCTAAAGGTCGGAGCAACAGCGGCGCTTAT-GGAAAAGC
* ** *
26556620 GCTGCTAAAGGTCGGAGCAACAGCGGCGCTTATGGGCAGGC
1 GCCGCTAAAGGTCGGAGCAACAGCGGCGCTTATGGAAAAGC
* *
26556661 GCCGCTAAAGGTCGGAGCAACAGCGACGCTTATGTG-CAAGC
1 GCCGCTAAAGGTCGGAGCAACAGCGGCGCTTATG-GAAAAGC
** * *
26556702 GAAGCTAAAGGTCAGAGCAATAGCGGCGCTT
1 GCCGCTAAAGGTCGGAGCAACAGCGGCGCTT
26556733 TCCCATAAGC
Statistics
Matches: 164, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
40 13 0.08
41 147 0.90
42 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.32, T:0.15
Consensus pattern (41 bp):
GCCGCTAAAGGTCGGAGCAACAGCGGCGCTTATGGAAAAGC
Found at i:26556702 original size:123 final size:124
Alignment explanation
Indices: 26556503--26556756 Score: 318
Period size: 123 Copynumber: 2.1 Consensus size: 124
26556493 AAAATGCCGC
* * * * *
26556503 AAAAGGT-AGAGCAATAGCGGCGCTTATGGAAAAGTGCCGCTAAAGGTCGGAGCAATAGCGGCGC
1 AAAAGGTCGGAGCAACAGCGGCGCTTATGGAAAAGCGCCGCTAAAGGTCGGAGCAACAGCGACGC
** * *
26556567 TTACGATAAAGCGCCGCTAAATGTCGGAGCAACAACGGCGCTTTCCCATAAGCG-CTGCT
66 TTACGATAAAGCGAAGCTAAAGGTCAGAGCAACAACGGCGCTTTCCCATAAGCGTC-GCT
** *
26556626 -AAAGGTCGGAGCAACAGCGGCGCTTATGGGCAGGCGCCGCTAAAGGTCGGAGCAACAGCGACGC
1 AAAAGGTCGGAGCAACAGCGGCGCTTATGGAAAAGCGCCGCTAAAGGTCGGAGCAACAGCGACGC
* * * *
26556690 TTATG-TGCAAGCGAAGCTAAAGGTCAGAGCAATAGCGGCGCTTTCCCATAAGCGTCGCT
66 TTACGAT-AAAGCGAAGCTAAAGGTCAGAGCAACAACGGCGCTTTCCCATAAGCGTCGCT
26556749 AAAAGGTC
1 AAAAGGTC
26556757 TGATTTATTT
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
122 7 0.06
123 96 0.86
124 8 0.07
ACGTcount: A:0.29, C:0.24, G:0.31, T:0.16
Consensus pattern (124 bp):
AAAAGGTCGGAGCAACAGCGGCGCTTATGGAAAAGCGCCGCTAAAGGTCGGAGCAACAGCGACGC
TTACGATAAAGCGAAGCTAAAGGTCAGAGCAACAACGGCGCTTTCCCATAAGCGTCGCT
Found at i:26556743 original size:41 final size:41
Alignment explanation
Indices: 26556538--26556756 Score: 196
Period size: 41 Copynumber: 5.3 Consensus size: 41
26556528 ATGGAAAAGT
* * *
26556538 GCCGCTAAAGGTCGGAGCAATAGCGGCGC-TTACGATAAAGC
1 GCCGCTAAAGGTCGGAGCAACAGCGGCGCTTTCCCAT-AAGC
* *
26556579 GCCGCTAAATGTCGGAGCAACAACGGCGCTTTCCCATAAGC
1 GCCGCTAAAGGTCGGAGCAACAGCGGCGCTTTCCCATAAGC
* ** *
26556620 GCTGCTAAAGGTCGGAGCAACAGCGGCGCTTATGGGC--AGGC
1 GCCGCTAAAGGTCGGAGCAACAGCGGCGCTT-T-CCCATAAGC
* **
26556661 GCCGCTAAAGGTCGGAGCAACAGCGACGCTTATGTGC--AAGC
1 GCCGCTAAAGGTCGGAGCAACAGCGGCGCTT-T-CCCATAAGC
** * *
26556702 GAAGCTAAAGGTCAGAGCAATAGCGGCGCTTTCCCATAAGC
1 GCCGCTAAAGGTCGGAGCAACAGCGGCGCTTTCCCATAAGC
*
26556743 GTCGCTAAAAGGTC
1 GCCGCT-AAAGGTC
26556757 TGATTTATTT
Statistics
Matches: 148, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 132 0.89
42 13 0.09
43 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.31, T:0.16
Consensus pattern (41 bp):
GCCGCTAAAGGTCGGAGCAACAGCGGCGCTTTCCCATAAGC
Found at i:26558183 original size:41 final size:41
Alignment explanation
Indices: 26558136--26558214 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
26558126 TGGAAAAGAG
*
26558136 CATTAGCGGCGCTTATGAAAAAGCGCCGCTAAAAGTCATAT
1 CATTAGCGGCACTTATGAAAAAGCGCCGCTAAAAGTCATAT
* *
26558177 CATTAGCGGCACTTATGTAAAAGCGCTGCTAAAAGTCA
1 CATTAGCGGCACTTATGAAAAAGCGCCGCTAAAAGTCA
26558215 AATAATAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (41 bp):
CATTAGCGGCACTTATGAAAAAGCGCCGCTAAAAGTCATAT
Found at i:26561132 original size:8 final size:8
Alignment explanation
Indices: 26561121--26561203 Score: 51
Period size: 8 Copynumber: 10.1 Consensus size: 8
26561111 TTATTACTAA
26561121 TTAAATAT
1 TTAAATAT
26561129 TTAAATA-
1 TTAAATAT
*
26561136 TTAAAAAT
1 TTAAATAT
*
26561144 TTAATTAT
1 TTAAATAT
* *
26561152 TAAAAAAAT
1 T-TAAATAT
*
26561161 TCAAATAT
1 TTAAATAT
* *
26561169 TTAATTAG
1 TTAAATAT
*
26561177 TTAATTAT
1 TTAAATAT
26561185 TTAATTATAT
1 TTAA--ATAT
*
26561195 TTAATTAT
1 TTAAATAT
26561203 T
1 T
26561204 AAAAATAACC
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
7 6 0.11
8 39 0.68
9 5 0.09
10 7 0.12
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (8 bp):
TTAAATAT
Found at i:26561140 original size:15 final size:15
Alignment explanation
Indices: 26561120--26561157 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
26561110 ATTATTACTA
*
26561120 ATTAAATATTTAAAT
1 ATTAAAAATTTAAAT
*
26561135 ATTAAAAATTTAATT
1 ATTAAAAATTTAAAT
26561150 ATTAAAAA
1 ATTAAAAA
26561158 AATTCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTAAAAATTTAAAT
Found at i:26561251 original size:15 final size:15
Alignment explanation
Indices: 26561231--26561329 Score: 76
Period size: 15 Copynumber: 6.6 Consensus size: 15
26561221 TTAGTTATAT
26561231 ATAATTAAATATTTA
1 ATAATTAAATATTTA
*
26561246 ATAATTAAATATTTT
1 ATAATTAAATATTTA
* * * *
26561261 ATTATTTAGT-TATA
1 ATAATTAAATATTTA
26561275 TATAATTAAATATGTTA
1 -ATAATTAAATAT-TTA
* * ** *
26561292 TTATTTAGTTATAT-
1 ATAATTAAATATTTA
26561306 ATAATTAAATATTTA
1 ATAATTAAATATTTA
26561321 ATAATTAAA
1 ATAATTAAA
26561330 AACAATTCAA
Statistics
Matches: 60, Mismatches: 20, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
14 11 0.18
15 38 0.63
16 9 0.15
17 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
ATAATTAAATATTTA
Found at i:26561282 original size:30 final size:30
Alignment explanation
Indices: 26561246--26561319 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
26561236 TAAATATTTA
26561246 ATAATTAAATATTTTATTATTTAGTTATAT
1 ATAATTAAATATTTTATTATTTAGTTATAT
*
26561276 ATAATTAAATATGTTATTATTTAGTTATAT
1 ATAATTAAATATTTTATTATTTAGTTATAT
26561306 ATAATTAAATATTT
1 ATAATTAAATATTT
26561320 AATAATTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (30 bp):
ATAATTAAATATTTTATTATTTAGTTATAT
Found at i:26561354 original size:4 final size:4
Alignment explanation
Indices: 26561345--26561370 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
26561335 TTCAAATATT
26561345 TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA
26561371 TTAAAATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:26561481 original size:46 final size:42
Alignment explanation
Indices: 26561417--26561504 Score: 106
Period size: 42 Copynumber: 2.0 Consensus size: 42
26561407 TTAGTTAATT
26561417 ATATTTAATTAAAAATTTAATAATTAAAAACAATCC-AAATATTTAA
1 ATATTTAATTAAAAA-TT--T-ATTAAAAACAA-CCGAAATATTTAA
**
26561463 ATATTTAATTAATTATTTATTAAAAACAACCGAAATATTTAA
1 ATATTTAATTAAAAATTTATTAAAAACAACCGAAATATTTAA
26561505 TTAAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
41 2 0.05
42 21 0.54
43 1 0.03
45 2 0.05
46 13 0.33
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (42 bp):
ATATTTAATTAAAAATTTATTAAAAACAACCGAAATATTTAA
Found at i:26561547 original size:112 final size:113
Alignment explanation
Indices: 26561282--26561573 Score: 392
Period size: 115 Copynumber: 2.6 Consensus size: 113
26561272 ATATATAATT
* * *
26561282 AAATATGTTATTATTTAGTTATATATAATTAAATATTTAATAATTAAAAACAATTCAAATATTTA
1 AAATATGTTATTATTTAATTATATTTAATTAAATATTTAATAATTAAAAACAATCCAAATATTTA
*
26561347 AATAAATAAATAAATAAATAAATATTAAAATAACCCAAATATTTAATTAA
66 AAT-AAT-AATAAATAAATAAATATTAAAACAACCCAAATATTTAATTAA
* * *
26561397 AAATATTTTATTAGTTAATTATATTTAATTAAAAATTTAATAATTAAAAACAATCCAAATATTTA
1 AAATATGTTATTATTTAATTATATTTAATTAAATATTTAATAATTAAAAACAATCCAAATATTTA
* * * ** *
26561462 AAT-AT-TTAATTAATTATTTATTAAAAACAACCGAAATATTTAATTAA
66 AATAATAATAAATAAATAAATATT-AAAACAACCCAAATATTTAATTAA
* * *
26561509 AAATATGTTATTATTTAAATACATTTAATTAAATATTTAATTATT-AAAACAATCCAAATATTTA
1 AAATATGTTATTATTTAATTATATTTAATTAAATATTTAATAATTAAAAACAATCCAAATATTTA
26561573 A
66 A
26561574 TTCAAAATAT
Statistics
Matches: 157, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
111 32 0.20
112 61 0.39
113 2 0.01
115 62 0.39
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (113 bp):
AAATATGTTATTATTTAATTATATTTAATTAAATATTTAATAATTAAAAACAATCCAAATATTTA
AATAATAATAAATAAATAAATATTAAAACAACCCAAATATTTAATTAA
Found at i:26561572 original size:69 final size:69
Alignment explanation
Indices: 26561456--26561947 Score: 272
Period size: 69 Copynumber: 6.8 Consensus size: 69
26561446 ACAATCCAAA
*
26561456 TATTTAAAT--ATTTAATTAATTATTT-ATTA--AAAACAA-CCGAAATATTTAATTAAAAATAT
1 TATTTAAATACATTTAATTAAATATTTAATTATTAAAACAATCC-AAATATTTAATTAAAAATAT
26561515 GTTAT
65 GTTAT
* *
26561520 TATTTAAATACATTTAATTAAATATTTAATTATTAAAACAATCCAAATATTTAATTCAAAATATA
1 TATTTAAATACATTTAATTAAATATTTAATTATTAAAACAATCCAAATATTTAATTAAAAATATG
*
26561585 TAAT
66 TTAT
* * * **
26561589 TATTTAATTATATTTAATTTAATATTTAATTATTAAAAACAATTTAAATATTTAATTATTTAGTT
1 TATTTAAATACATTTAATTAAATATTTAATTATT-AAAACAATCCAAATATTTAATTA---A---
*
26561654 TAATAATTAGTTAT
59 AAAT-A-T-GTTAT
* *** * ** * * * ** * *
26561668 T-TATTAAAAACAACCCAAATACTTAATTCAAAATATTTAATTACT-TAATTATATTTAATT--A
1 TAT-TTAAATAC-ATTTAATTAAAT-ATT-TAATTATTAAAACAATCCAA--ATATTTAATTAAA
*
26561729 AATAT-TTAA
60 AATATGTTAT
* * * *
26561738 TAATTAAAAACAATCCAAATATTTAAATATTTAATTAATTATTTATTAAAAACAA-CCGAAATAT
1 TATTTAAATAC-AT----TTAATTAAATA--T--TT-A--A-TTATT-AAAACAATCC-AAATAT
26561802 TTAATTAAAAATATGTTAT
51 TTAATTAAAAATATGTTAT
* *
26561821 TATTTAAATGCATTTAATTAAATATTTAATTATTAAAACAATCCAAATATTTAATTCAAAATAT-
1 TATTTAAATACATTTAATTAAATATTTAATTATTAAAACAATCCAAATATTTAATTAAAAATATG
26561885 TTAAT
66 TT-AT
* * * *
26561890 TATTTAATTATATTTAATTTAATATTTAATTATTAAAAACAATTCAAATATTTAATTA
1 TATTTAAATACATTTAATTAAATATTTAATTATT-AAAACAATCCAAATATTTAATTA
26561948 TTTAGTTTAA
Statistics
Matches: 325, Mismatches: 59, Indels: 82
0.70 0.13 0.18
Matches are distributed among these distances:
64 9 0.03
66 15 0.05
67 4 0.01
68 2 0.01
69 118 0.36
70 64 0.20
71 1 0.00
72 1 0.00
73 4 0.01
74 9 0.03
75 1 0.00
76 4 0.01
77 3 0.01
78 11 0.03
79 10 0.03
80 22 0.07
81 10 0.03
82 26 0.08
83 11 0.03
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (69 bp):
TATTTAAATACATTTAATTAAATATTTAATTATTAAAACAATCCAAATATTTAATTAAAAATATG
TTAT
Found at i:26561575 original size:181 final size:182
Alignment explanation
Indices: 26561381--26561947 Score: 604
Period size: 181 Copynumber: 3.1 Consensus size: 182
26561371 TTAAAATAAC
* *
26561381 CCAAATATTTAATTAAAAATATTTTATTAGTTAATTATATTTAATTAAAAATTTAATAATTAAAA
1 CCAAATATTTAATTAAAAATATTTAATTAATTAATTATATTTAATTAAAAATTTAATAATTAAAA
* *
26561446 ACAATCCAAATATTTAAA-TATTTAATTAATTATTTATTAAAAACAACCGAAATATTTAATTAAA
66 ACAATCTAAATATTTAAATTATTTAATTAATTATTTATTAAAAACAACC-AAATATTTAATTCAA
* *
26561510 AATATGTT-ATTATTTAAATACATTTAATTAAATATTTAATTATT-AAAACAAT
130 AATAT-TTAATTATTTAATTATATTTAATTAAATATTTAATTATTAAAAACAAT
* * * * * *
26561562 CCAAATATTTAATTCAAAATATATAATTATTTAATTATATTTAATTTAATATTTAATTATTAAAA
1 CCAAATATTTAATTAAAAATATTTAATTAATTAATTATATTTAATTAAAAATTTAATAATTAAAA
* * *
26561627 ACAATTTAAATATTTAATTATTTAGTTTAATAATTAGTTATTTATTAAAAACAACCCAAATACTT
66 ACAATCTAAATATTTAA--A-TTA--TT--TAATTAATTATTTATTAAAAACAA-CCAAATATTT
* *
26561692 AATTCAAAATATTTAATTACTTAATTATATTTAATTAAATATTTAATAATTAAAAACAAT
123 AATTCAAAATATTTAATTATTTAATTATATTTAATTAAATATTTAATTATTAAAAACAAT
* **
26561752 CCAAATA--T--TT--AAATATTTAATTAATT-ATT-TATTAAAAACAACCGAAATATT--TAAT
1 CCAAATATTTAATTAAAAATATTTAATTAATTAATTATATT-TAATTAA---AAAT-TTAATAAT
* * * * * *
26561807 TAAAAA-TATGTTATTATTTAAATGCATTTAATTAAATATTTAATTATTAAAACAATCCAAATAT
61 TAAAAACAATCTAAATATTTAAAT-TATTTAATTAATTATTT-ATTA--AAAACAA-CCAAATAT
*
26561871 TTAATTCAAAATATTTAATTATTTAATTATATTTAATTTAATATTTAATTATTAAAAACAAT
121 TTAATTCAAAATATTTAATTATTTAATTATATTTAATTAAATATTTAATTATTAAAAACAAT
*
26561933 TCAAATATTTAATTA
1 CCAAATATTTAATTA
26561948 TTTAGTTTAA
Statistics
Matches: 324, Mismatches: 37, Indels: 45
0.80 0.09 0.11
Matches are distributed among these distances:
178 11 0.03
179 4 0.01
180 2 0.01
181 153 0.47
182 6 0.02
183 8 0.02
184 25 0.08
185 13 0.04
186 5 0.02
187 4 0.01
188 3 0.01
189 73 0.23
190 17 0.05
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (182 bp):
CCAAATATTTAATTAAAAATATTTAATTAATTAATTATATTTAATTAAAAATTTAATAATTAAAA
ACAATCTAAATATTTAAATTATTTAATTAATTATTTATTAAAAACAACCAAATATTTAATTCAAA
ATATTTAATTATTTAATTATATTTAATTAAATATTTAATTATTAAAAACAAT
Found at i:26561738 original size:301 final size:301
Alignment explanation
Indices: 26561282--26562029 Score: 1254
Period size: 301 Copynumber: 2.5 Consensus size: 301
26561272 ATATATAATT
* * * * * *
26561282 AAATATGTTATTATTTAGTTATATATAATTAAATATTTAATAATTAAAAACAATTCAAATATTTA
1 AAATATATAATTATTTAATTATATTTAATTTAATATTTAATTATTAAAAACAATTCAAATATTTA
** * * ** ** * * * *
26561347 A--A--TAAATAAATAAATAAATAAATATT-AAAATAACCCAAATATTTAATTAAAAATATTTTA
66 ATTATTTAGTTTAATAATTAGTTATTTATTAAAAACAACCCAAATACTTAATTCAAAATATTTAA
*
26561407 TTAGTTAATTATATTTAATTAAAAATTTAATAATTAAAAACAATCCAAATATTTAAATATTTAAT
131 TTACTTAATTATATTTAATTAAAAATTTAATAATTAAAAACAATCCAAATATTTAAATATTTAAT
26561472 TAATTATTTATTAAAAACAACCGAAATATTTAATTAAAAATATGTTATTATTTAAATACATTTAA
196 TAATTATTTATTAAAAACAACCGAAATATTTAATTAAAAATATGTTATTATTTAAATACATTTAA
26561537 TTAAATATTTAATTATTAAAACAATCCAAATATTTAATTCA
261 TTAAATATTTAATTATTAAAACAATCCAAATATTTAATTCA
*
26561578 AAATATATAATTATTTAATTATATTTAATTTAATATTTAATTATTAAAAACAATTTAAATATTTA
1 AAATATATAATTATTTAATTATATTTAATTTAATATTTAATTATTAAAAACAATTCAAATATTTA
26561643 ATTATTTAGTTTAATAATTAGTTATTTATTAAAAACAACCCAAATACTTAATTCAAAATATTTAA
66 ATTATTTAGTTTAATAATTAGTTATTTATTAAAAACAACCCAAATACTTAATTCAAAATATTTAA
*
26561708 TTACTTAATTATATTTAATTAAATATTTAATAATTAAAAACAATCCAAATATTTAAATATTTAAT
131 TTACTTAATTATATTTAATTAAAAATTTAATAATTAAAAACAATCCAAATATTTAAATATTTAAT
*
26561773 TAATTATTTATTAAAAACAACCGAAATATTTAATTAAAAATATGTTATTATTTAAATGCATTTAA
196 TAATTATTTATTAAAAACAACCGAAATATTTAATTAAAAATATGTTATTATTTAAATACATTTAA
26561838 TTAAATATTTAATTATTAAAACAATCCAAATATTTAATTCA
261 TTAAATATTTAATTATTAAAACAATCCAAATATTTAATTCA
*
26561879 AAATATTTAATTATTTAATTATATTTAATTTAATATTTAATTATTAAAAACAATTCAAATATTTA
1 AAATATATAATTATTTAATTATATTTAATTTAATATTTAATTATTAAAAACAATTCAAATATTTA
26561944 ATTATTTAGTTTAATAATTAGTTATTTATTAAAAACAACCCAAATACTTAATTCAAAATATTTAA
66 ATTATTTAGTTTAATAATTAGTTATTTATTAAAAACAACCCAAATACTTAATTCAAAATATTTAA
26562009 TTACTTAATTATATTTAATTA
131 TTACTTAATTATATTTAATTA
26562030 TTAAAAATAA
Statistics
Matches: 423, Mismatches: 24, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
296 59 0.14
298 1 0.00
300 16 0.04
301 347 0.82
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (301 bp):
AAATATATAATTATTTAATTATATTTAATTTAATATTTAATTATTAAAAACAATTCAAATATTTA
ATTATTTAGTTTAATAATTAGTTATTTATTAAAAACAACCCAAATACTTAATTCAAAATATTTAA
TTACTTAATTATATTTAATTAAAAATTTAATAATTAAAAACAATCCAAATATTTAAATATTTAAT
TAATTATTTATTAAAAACAACCGAAATATTTAATTAAAAATATGTTATTATTTAAATACATTTAA
TTAAATATTTAATTATTAAAACAATCCAAATATTTAATTCA
Found at i:26561773 original size:46 final size:42
Alignment explanation
Indices: 26561718--26561805 Score: 115
Period size: 42 Copynumber: 2.0 Consensus size: 42
26561708 TTACTTAATT
26561718 ATATTTAATTAAATATTTAATAATTAAAAACAATCC-AAATATTTAA
1 ATATTTAATTAAATA-TT--T-ATTAAAAACAA-CCGAAATATTTAA
*
26561764 ATATTTAATTAATTATTTATTAAAAACAACCGAAATATTTAA
1 ATATTTAATTAAATATTTATTAAAAACAACCGAAATATTTAA
26561806 TTAAAAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
41 2 0.05
42 21 0.52
43 1 0.03
45 2 0.05
46 14 0.35
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (42 bp):
ATATTTAATTAAATATTTATTAAAAACAACCGAAATATTTAA
Found at i:26561773 original size:112 final size:111
Alignment explanation
Indices: 26561657--26561874 Score: 330
Period size: 112 Copynumber: 2.0 Consensus size: 111
26561647 TTTAGTTTAA
* * * *
26561657 TAATTAGTTATTTATTAAAAACAACCCAAATACTTAATTCAAAATAT-TTAATTACTTAATTATA
1 TAATTAATTATTTATTAAAAACAACCCAAATACTTAATTAAAAATATGTT-ATTACTTAAATACA
26561721 TTTAATTAAATATTTAATAATTAAAAACAATCCAAATATTTAAATATT
65 TTTAATTAAATATTTAATAATT-AAAACAATCCAAATATTTAAATATT
* * * *
26561769 TAATTAATTATTTATTAAAAACAACCGAAATATTTAATTAAAAATATGTTATTATTTAAATGCAT
1 TAATTAATTATTTATTAAAAACAACCCAAATACTTAATTAAAAATATGTTATTACTTAAATACAT
*
26561834 TTAATTAAATATTTAATTATTAAAACAATCCAAATATTTAA
66 TTAATTAAATATTTAATAATTAAAACAATCCAAATATTTAA
26561875 TTCAAAATAT
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
111 20 0.21
112 74 0.77
113 2 0.02
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (111 bp):
TAATTAATTATTTATTAAAAACAACCCAAATACTTAATTAAAAATATGTTATTACTTAAATACAT
TTAATTAAATATTTAATAATTAAAACAATCCAAATATTTAAATATT
Found at i:26561957 original size:46 final size:49
Alignment explanation
Indices: 26561890--26561996 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 49
26561880 AATATTTAAT
**
26561890 TATTTAATTATATTTAATTTAAT-A-T-TTAATTATTAAAAACAATTCAAA
1 TATTTAA-T-TATTTAATTTAATAATTATTAATTATTAAAAACAACCCAAA
* *
26561938 TATTTAATTATTTAGTTTAATAATTAGTTATTTATTAAAAACAACCCAAA
1 TATTTAATTATTTAATTTAATAATTA-TTAATTATTAAAAACAACCCAAA
*
26561988 TACTTAATT
1 TATTTAATT
26561997 CAAAATATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
46 12 0.24
47 2 0.04
48 8 0.16
50 28 0.56
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (49 bp):
TATTTAATTATTTAATTTAATAATTATTAATTATTAAAAACAACCCAAA
Found at i:26562008 original size:181 final size:174
Alignment explanation
Indices: 26561668--26562053 Score: 467
Period size: 181 Copynumber: 2.1 Consensus size: 174
26561658 AATTAGTTAT
*
26561668 TTATTAAAAACAACCCAAATACTTAATTCAAAATATTTAATTACTTAATTATATTTAATTAAATA
1 TTATTAAAAACAACCCAAATATTTAATTCAAAATATTTAATTACTTAATTATATTTAATTAAATA
*
26561733 TTTAATAATTAAAAACAATCCAAATATTTAAATATTTAATTAATTATTTATTAAAAACAACCGAA
66 TTTAATAATTAAAAACAATCCAAATATTTAAATATTTAATTAATTATTTATTAAAAACAACCCAA
* *
26561798 ATATTTAATTAAAAATATGTTATTATTTAAATGCATTTAATTAAATATTTAA
131 ATACTTAATT-AAAATA---TATTATTT-AAT-CACTTAATT--ATATTTAA
* * *
26561850 TTATT-AAAACAATCCAAATATTTAATTCAAAATATTTAATTATTTAATTATATTTAATTTAATA
1 TTATTAAAAACAACCCAAATATTTAATTCAAAATATTTAATTACTTAATTATATTTAATTAAATA
* * *
26561914 TTTAATTATTAAAAACAATTCAAATATTTAATTATTTAGTTTAATAATTAGTTATTTATTAAAAA
66 TTTAATAATTAAAAACAATCCAAATATTTAA--A--TA--TT--TAATTAATTATTTATTAAAAA
* *
26561979 CAACCCAAATACTTAATT-CAA-A-A-TATTTAATTACTTAATTATATTTAA
123 CAACCCAAATACTTAATTAAAATATATTATTTAATCACTTAATTATATTTAA
*
26562027 TTATTAAAAATAACCCGAAATATTTAA
1 TTATTAAAAACAACCC-AAATATTTAA
26562054 ATATATAATT
Statistics
Matches: 180, Mismatches: 14, Indels: 23
0.83 0.06 0.11
Matches are distributed among these distances:
177 13 0.07
178 8 0.04
179 17 0.09
180 3 0.02
181 89 0.49
182 6 0.03
183 1 0.01
185 2 0.01
186 1 0.01
187 4 0.02
189 36 0.20
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (174 bp):
TTATTAAAAACAACCCAAATATTTAATTCAAAATATTTAATTACTTAATTATATTTAATTAAATA
TTTAATAATTAAAAACAATCCAAATATTTAAATATTTAATTAATTATTTATTAAAAACAACCCAA
ATACTTAATTAAAATATATTATTTAATCACTTAATTATATTTAA
Found at i:26567885 original size:66 final size:66
Alignment explanation
Indices: 26567779--26567935 Score: 242
Period size: 66 Copynumber: 2.4 Consensus size: 66
26567769 CAAATTGCTC
* * *
26567779 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATCTA
1 AACTTAAAGAGGAGGCTACAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
26567844 A
66 A
* *
26567845 AACTTAAAGAGGAGGCTACAGTGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCACCTA
1 AACTTAAAGAGGAGGCTACAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
*
26567910 C
66 A
* *
26567911 AACTTAAAGTGGAGGCAACAGCGAG
1 AACTTAAAGAGGAGGCTACAGCGAG
26567936 GCAAGCGGAG
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 82 1.00
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (66 bp):
AACTTAAAGAGGAGGCTACAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
A
Found at i:26567947 original size:21 final size:21
Alignment explanation
Indices: 26567921--26567963 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
26567911 AACTTAAAGT
26567921 GGAGGCAACAGCGAGGCAAGC
1 GGAGGCAACAGCGAGGCAAGC
*
26567942 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAACAGCGAGGCAAGC
26567963 G
1 G
26567964 AAGGAAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.47, T:0.00
Consensus pattern (21 bp):
GGAGGCAACAGCGAGGCAAGC
Found at i:26567972 original size:21 final size:21
Alignment explanation
Indices: 26567929--26567973 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
26567919 GTGGAGGCAA
* *
26567929 CAGCGAGGCAAGCGGAGGCAG
1 CAGCGAGGCAAGCGAAGGAAG
26567950 CAGCGAGGCAAGCGAAGGAAG
1 CAGCGAGGCAAGCGAAGGAAG
26567971 CAG
1 CAG
26567974 AGGCTACAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.22, G:0.44, T:0.00
Consensus pattern (21 bp):
CAGCGAGGCAAGCGAAGGAAG
Found at i:26568189 original size:15 final size:15
Alignment explanation
Indices: 26568169--26568197 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26568159 ATCTGAAGTT
26568169 ATTGGTTGGATTTGC
1 ATTGGTTGGATTTGC
26568184 ATTGGTTGGATTTG
1 ATTGGTTGGATTTG
26568198 AATTTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGC
Found at i:26568410 original size:85 final size:85
Alignment explanation
Indices: 26568266--26568533 Score: 421
Period size: 85 Copynumber: 3.1 Consensus size: 85
26568256 ATCTGTTATA
*
26568266 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTGGAAAAGC
1 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTGGTGGAAAAGC
*
26568331 GTCGCTAAAGAACATGGCCT
66 GCCGCTAAAGAACATGGCCT
*
26568351 TTAGCGGCGCTGGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTGGTGGAAAAAG
1 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTGGTGG-AAAAG
26568416 CGCCGCTAAAGAACATGGCCT
65 CGCCGCTAAAGAACATGGCCT
** * * * *
26568437 TTAGCGGCGCTTAAGG-GAAAGCGTCGCTAAAGAACATGGCTTTTAGCGGCGCTTGTTGTAAAAG
1 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGC-TGGTGGAAAAG
*
26568501 AGCCGCTAAAGAACATGGCCT
65 CGCCGCTAAAGAACATGGCCT
26568522 TTAGCGGCGCTT
1 TTAGCGGCGCTT
26568534 TCCCACAAGC
Statistics
Matches: 170, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
85 128 0.75
86 42 0.25
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.20
Consensus pattern (85 bp):
TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTGGTGGAAAAGC
GCCGCTAAAGAACATGGCCT
Found at i:26568506 original size:128 final size:127
Alignment explanation
Indices: 26568266--26568575 Score: 435
Period size: 128 Copynumber: 2.4 Consensus size: 127
26568256 ATCTGTTATA
* **
26568266 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTGGAAAAGC
1 TTAGCGGCGC-TGTGGAAAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTAAGGAAAAGC
*
26568331 GTCGCTAAAGAACATGGCCTTTAGCGGCGCTGGTGGAGAAAGCGCCGCTAAAGAACATGGCCT
65 GTCGCTAAAGAACATGGCCTTTAGCGGCGCTGGTGGAGAAAGAGCCGCTAAAGAACATGGCCT
*
26568394 TTAGCGGCGCTGGTGGAAAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTAAGGGAAAGC
1 TTAGCGGCGCT-GTGGAAAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTAAGGAAAAGC
* * *
26568459 GTCGCTAAAGAACATGGCTTTTAGCGGCGCTTGTTGTA-AAAGAGCCGCTAAAGAACATGGCCT
65 GTCGCTAAAGAACATGGCCTTTAGCGGCGC-TGGTGGAGAAAGAGCCGCTAAAGAACATGGCCT
* *** * **
26568522 TTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGCCAT-GCTCTTTAGCGGCGCTT
1 TTAGCGGCGCTGTGGAAAAAGCGCCGCTAAAGAACATGGC-CTTTAGCGGCGCTT
26568576 TTTCGCATAA
Statistics
Matches: 164, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
126 2 0.01
127 34 0.21
128 123 0.75
129 5 0.03
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (127 bp):
TTAGCGGCGCTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTAAGGAAAAGCG
TCGCTAAAGAACATGGCCTTTAGCGGCGCTGGTGGAGAAAGAGCCGCTAAAGAACATGGCCT
Found at i:26568533 original size:43 final size:42
Alignment explanation
Indices: 26568266--26568575 Score: 417
Period size: 43 Copynumber: 7.3 Consensus size: 42
26568256 ATCTGTTATA
26568266 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGA-AAAGCGCCGCTAAAGAACATGGCCT
*
26568309 TTAGCGGCGCTTGTGGAAAAGCGTCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGAAAAGCGCCGCTAAAGAACATGGCCT
*
26568351 TTAGCGGCGCTGGTGGAGAAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGA-AAAGCGCCGCTAAAGAACATGGCCT
*
26568394 TTAGCGGCGCTGGTGGAAAAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGG-AAAAGCGCCGCTAAAGAACATGGCCT
** * * *
26568437 TTAGCGGCGCTTAAGGGAAAGCGTCGCTAAAGAACATGGCTT
1 TTAGCGGCGCTTGTGGAAAAGCGCCGCTAAAGAACATGGCCT
* *
26568479 TTAGCGGCGCTTGTTGTAAAAGAGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTG-TGGAAAAGCGCCGCTAAAGAACATGGCCT
** * **
26568522 TTAGCGGCGCTT-TCCCACAAGCGCCGCTAAAGGCCAT-GCTCT
1 TTAGCGGCGCTTGT-GGAAAAGCGCCGCTAAAGAACATGGC-CT
26568564 TTAGCGGCGCTT
1 TTAGCGGCGCTT
26568576 TTTCGCATAA
Statistics
Matches: 240, Mismatches: 22, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
41 3 0.01
42 106 0.44
43 130 0.54
44 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (42 bp):
TTAGCGGCGCTTGTGGAAAAGCGCCGCTAAAGAACATGGCCT
Found at i:26568544 original size:85 final size:83
Alignment explanation
Indices: 26568266--26568575 Score: 381
Period size: 85 Copynumber: 3.6 Consensus size: 83
26568256 ATCTGTTATA
*
26568266 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTG-TGGAAAAG
1 TTAGCGGCGCTT-T-G-GAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTTGAAAAAG
*
26568330 CGTCGCTAAAGAACATGGCCT
63 CGCCGCTAAAGAACATGGCCT
* * *
26568351 TTAGCGGCGCTGGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTGGTGGAAAAAG
1 TTAGCGGCGCT--TTG-GAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTTGAAAAAG
26568416 CGCCGCTAAAGAACATGGCCT
63 CGCCGCTAAAGAACATGGCCT
* * * * *
26568437 TTAGCGGCGCTTAAGGGAAAGCGTCGCTAAAGAACATGGCTTTTAGCGGCGCTTGTTGTAAAAGA
1 TTAGCGGCGCTT--TGGAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTTGAAAAAGC
26568502 GCCGCTAAAGAACATGGCCT
64 GCCGCTAAAGAACATGGCCT
** **
26568522 TTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGCCAT-GCTCTTTAGCGGCGCTT
1 TTAGCGGCGCTTT-GGA-AAGCGCCGCTAAAGAACATGGC-CTTTAGCGGCGCTT
26568576 TTTCGCATAA
Statistics
Matches: 199, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
84 4 0.02
85 155 0.78
86 39 0.20
87 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (83 bp):
TTAGCGGCGCTTTGGAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTTGAAAAAGCGC
CGCTAAAGAACATGGCCT
Found at i:26578293 original size:23 final size:23
Alignment explanation
Indices: 26578263--26578389 Score: 103
Period size: 23 Copynumber: 5.4 Consensus size: 23
26578253 ACACTAGCAC
26578263 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTCT-GT
*
26578286 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTCTGT
* * *
26578311 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTCTGT
* * * * * *
26578334 GCTCTTTGATTAGTAATTTGTGT
1 GCTCTCTGTTTAGCACTGTCTGT
* * *
26578357 ACTCTCTGTTTAGCATTGTGTGT
1 GCTCTCTGTTTAGCACTGTCTGT
26578380 GCTCTCTGTT
1 GCTCTCTGTT
26578390 GCCCAGCACT
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
23 67 0.76
24 1 0.01
25 17 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTCTGT
Found at i:26578416 original size:69 final size:67
Alignment explanation
Indices: 26578287--26578435 Score: 169
Period size: 69 Copynumber: 2.1 Consensus size: 67
26578277 ACGTCTCGTG
* *
26578287 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTTTGATTAGTAATT
1 CTCTCTG-T-TTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCT-ATTAGTAATT
26578352 TGTGTA
63 TG-GTA
* *
26578358 CTCTCTGTTTAGCATTGTGTGTGCTCTCTG-TTGCCCAGCAC-TTATGTGCTCTCT-TTAGTACT
1 CTCTCTGTTTAGCACTGTGTGTGCTCTCTGATT----AGCACTTTATGTGCTCTCTATTAGTAAT
26578420 TTGGTA
62 TTGGTA
26578426 CTCTCTGTTT
1 CTCTCTGTTT
26578436 GTTCCGTATA
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
68 15 0.21
69 31 0.44
70 1 0.01
71 18 0.26
72 5 0.07
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.46
Consensus pattern (67 bp):
CTCTCTGTTTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTATTAGTAATTTGG
TA
Found at i:26581394 original size:10 final size:10
Alignment explanation
Indices: 26581369--26581404 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
26581359 TGGTCTTTTA
26581369 TAATTAA-CT
1 TAATTAACCT
26581378 TAATTAACCT
1 TAATTAACCT
*
26581388 TACTTAACCT
1 TAATTAACCT
26581398 TAATTAA
1 TAATTAA
26581405 ATCCACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATTAACCT
Found at i:26595139 original size:21 final size:22
Alignment explanation
Indices: 26595105--26595150 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
26595095 AAATTCTATC
* * *
26595105 AATTTGATCTTTAAGCATATAT
1 AATTTGATATTTAAACACATAT
26595127 AATTT-ATATTTAAACACATAT
1 AATTTGATATTTAAACACATAT
26595148 AAT
1 AAT
26595151 AACATCTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (22 bp):
AATTTGATATTTAAACACATAT
Found at i:26596323 original size:18 final size:17
Alignment explanation
Indices: 26596299--26596354 Score: 76
Period size: 19 Copynumber: 3.1 Consensus size: 17
26596289 TTTTAGTGCT
*
26596299 TTTTTTTGCTGTTTTGA
1 TTTTTTTACTGTTTTGA
26596316 TGTTTTTTACTGTTTTAGTA
1 T-TTTTTTACTGTTTT-G-A
26596336 TTTTTTTACTGTTTTGA
1 TTTTTTTACTGTTTTGA
26596353 TT
1 TT
26596355 ACCGTTTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
17 4 0.11
18 14 0.40
19 15 0.43
20 2 0.06
ACGTcount: A:0.11, C:0.05, G:0.14, T:0.70
Consensus pattern (17 bp):
TTTTTTTACTGTTTTGA
Found at i:26596395 original size:33 final size:34
Alignment explanation
Indices: 26596337--26596406 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
26596327 GTTTTAGTAT
26596337 TTTTTTACTGTTTTGATTACCG-TTTTGATGTTG
1 TTTTTTACTGTTTTGATTACCGTTTTTGATGTTG
* * * *
26596370 TTTTTTACTGTTTTGGTTGCTGTTTTTGTTGTTG
1 TTTTTTACTGTTTTGATTACCGTTTTTGATGTTG
26596404 TTT
1 TTT
26596407 ATTGTTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 19 0.59
34 13 0.41
ACGTcount: A:0.07, C:0.07, G:0.20, T:0.66
Consensus pattern (34 bp):
TTTTTTACTGTTTTGATTACCGTTTTTGATGTTG
Found at i:26597434 original size:13 final size:14
Alignment explanation
Indices: 26597396--26597437 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
26597386 TTGATAAATA
26597396 TATTGTTTTTAAGTT
1 TATTGTTTTTAA-TT
*
26597411 TTTTGTTTTTAATT
1 TATTGTTTTTAATT
26597425 TATT-TTTTTAATT
1 TATTGTTTTTAATT
26597438 AATAACTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 9 0.36
14 5 0.20
15 11 0.44
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (14 bp):
TATTGTTTTTAATT
Found at i:26597819 original size:19 final size:20
Alignment explanation
Indices: 26597772--26597819 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
26597762 TAAAAGAAAA
*
26597772 ATATATTTAAAAAATTAGTT
1 ATATATTTAAAAAATTAATT
*
26597792 -TATGTTTTAAAAAA-TAATT
1 ATAT-ATTTAAAAAATTAATT
26597811 ATATATTTA
1 ATATATTTA
26597820 TTATTTGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
ATATATTTAAAAAATTAATT
Found at i:26597846 original size:13 final size:13
Alignment explanation
Indices: 26597814--26597843 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
26597804 AATAATTATA
26597814 TATTTATTATTTG
1 TATTTATTATTTG
26597827 TATTTATTATTTG
1 TATTTATTATTTG
26597840 -ATTT
1 TATTT
26597844 TATAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TATTTATTATTTG
Found at i:26601768 original size:18 final size:18
Alignment explanation
Indices: 26601741--26601776 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
26601731 ATGCAAAGGT
*
26601741 AAATGTGAAATAGAATAA
1 AAATGGGAAATAGAATAA
*
26601759 AAATGGGAAATAGGATAA
1 AAATGGGAAATAGAATAA
26601777 GGACTCGTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.22, T:0.19
Consensus pattern (18 bp):
AAATGGGAAATAGAATAA
Found at i:26603731 original size:26 final size:26
Alignment explanation
Indices: 26603690--26603758 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 26
26603680 AACCTACTTA
* * *
26603690 TGCAGTGACAACTCTGGACATATTTAC
1 TGCAGCGACAATTCTGGACA-AGTTAC
* * *
26603717 -GCAGCGATAATTCTGAACAAGTTCC
1 TGCAGCGACAATTCTGGACAAGTTAC
26603742 TGCAGCGACAATTCTGG
1 TGCAGCGACAATTCTGG
26603759 GCGCATTGCT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
25 4 0.12
26 29 0.88
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (26 bp):
TGCAGCGACAATTCTGGACAAGTTAC
Found at i:26606279 original size:24 final size:24
Alignment explanation
Indices: 26606228--26606279 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
26606218 TTCGTAGGTC
* *
26606228 AAATAAATTATGCTAATAAATGCA
1 AAATAAATTATACTAATAAATACA
* *
26606252 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACA
26606276 AAAT
1 AAAT
26606280 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:26609487 original size:8 final size:8
Alignment explanation
Indices: 26609474--26609506 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
26609464 TATATTTCAA
26609474 TTTTT-TT
1 TTTTTCTT
26609481 TTTTT-TT
1 TTTTTCTT
26609488 TTTTTCTT
1 TTTTTCTT
26609496 TTTTTCTT
1 TTTTTCTT
26609504 TTT
1 TTT
26609507 CTCATTCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 12 0.48
8 13 0.52
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (8 bp):
TTTTTCTT
Found at i:26609497 original size:14 final size:14
Alignment explanation
Indices: 26609474--26609508 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
26609464 TATATTTCAA
26609474 TTTTTT-TTTTTTT
1 TTTTTTCTTTTTTT
26609487 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
*
26609501 CTTTTTCT
1 TTTTTTCT
26609509 CATTCAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:26610405 original size:3 final size:3
Alignment explanation
Indices: 26610397--26610436 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
26610387 CATCCCAAAA
26610397 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
26610437 GAATAGAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:26611497 original size:7 final size:7
Alignment explanation
Indices: 26611485--26611562 Score: 83
Period size: 7 Copynumber: 11.7 Consensus size: 7
26611475 TTTCGAAAAA
26611485 GTCAACG
1 GTCAACG
26611492 GTCAACG
1 GTCAACG
26611499 GTCAACG
1 GTCAACG
*
26611506 GTC--TG
1 GTCAACG
*
26611511 GTCAA-A
1 GTCAACG
26611517 GTCAACG
1 GTCAACG
26611524 GTCAACG
1 GTCAACG
*
26611531 GTCAACA
1 GTCAACG
*
26611538 GTCAA-A
1 GTCAACG
*
26611544 GTCAACA
1 GTCAACG
26611551 GTCAACG
1 GTCAACG
26611558 GTCAA
1 GTCAA
26611563 TCAACACCGA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
5 4 0.06
6 11 0.18
7 47 0.76
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:26611523 original size:32 final size:33
Alignment explanation
Indices: 26611482--26611562 Score: 119
Period size: 32 Copynumber: 2.5 Consensus size: 33
26611472 GTTTTTCGAA
* **
26611482 AAAGTCAACGGTCAACGGTCAACGGTC-TGGTC
1 AAAGTCAACGGTCAACGGTCAACAGTCAAAGTC
26611514 AAAGTCAACGGTCAACGGTCAACAGTCAAAGTC
1 AAAGTCAACGGTCAACGGTCAACAGTCAAAGTC
26611547 AACAGTCAACGGTCAA
1 AA-AGTCAACGGTCAA
26611563 TCAACACCGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 26 0.59
33 5 0.11
34 13 0.30
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (33 bp):
AAAGTCAACGGTCAACGGTCAACAGTCAAAGTC
Found at i:26611528 original size:13 final size:13
Alignment explanation
Indices: 26611511--26611555 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
26611501 CAACGGTCTG
*
26611511 GTCAAAGTCAACG
1 GTCAAAGTCAACA
*
26611524 GTCAACGGTCAACA
1 GTCAA-AGTCAACA
26611538 GTCAAAGTCAACA
1 GTCAAAGTCAACA
26611551 GTCAA
1 GTCAA
26611556 CGGTCAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (13 bp):
GTCAAAGTCAACA
Found at i:26611549 original size:27 final size:27
Alignment explanation
Indices: 26611492--26611562 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
26611482 AAAGTCAACG
**
26611492 GTCAACGGTCAACGGTC--TGGTCAAA
1 GTCAACGGTCAACGGTCAACAGTCAAA
26611517 GTCAACGGTCAACGGTCAACAGTCAAA
1 GTCAACGGTCAACGGTCAACAGTCAAA
*
26611544 GTCAACAGTCAACGGTCAA
1 GTCAACGGTCAACGGTCAA
26611563 TCAACACCGA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 17 0.41
27 24 0.59
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.17
Consensus pattern (27 bp):
GTCAACGGTCAACGGTCAACAGTCAAA
Found at i:26612098 original size:11 final size:11
Alignment explanation
Indices: 26612065--26612139 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
26612055 AAGTGTGATT
*
26612065 AAAAGAGGAAG
1 AAAAGAGAAAG
*
26612076 AAAATAGAAAAG
1 AAAAGAG-AAAG
26612088 AAAAGAGAAAG
1 AAAAGAGAAAG
26612099 AAATA-AGAAATG
1 AAA-AGAGAAA-G
* *
26612111 AATGAGAAAAAG
1 AA-AAGAGAAAG
26612123 AAAAGAGAAAG
1 AAAAGAGAAAG
*
26612134 GAAAGA
1 AAAAGA
26612140 TGAGAGGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
11 30 0.59
12 17 0.33
13 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.05
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:26612107 original size:23 final size:23
Alignment explanation
Indices: 26612065--26612137 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
26612055 AAGTGTGATT
*
26612065 AAAAGAGGAAGAAAATAGAAAAG
1 AAAAGAGAAAGAAAATAGAAAAG
*
26612088 AAAAGAGAAAG-AAATAAGAAATG
1 AAAAGAGAAAGAAAAT-AGAAAAG
* * * *
26612111 AATGAGAAAAAGAAAAGAGAAAGG
1 AA-AAGAGAAAGAAAATAGAAAAG
26612135 AAA
1 AAA
26612138 GATGAGAGGC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
22 4 0.10
23 18 0.45
24 15 0.38
25 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (23 bp):
AAAAGAGAAAGAAAATAGAAAAG
Found at i:26617510 original size:20 final size:20
Alignment explanation
Indices: 26617468--26617565 Score: 126
Period size: 20 Copynumber: 4.9 Consensus size: 20
26617458 TAATTAAACC
*
26617468 TCAA-AGTCAACGGTCAACGG
1 TCAACAGTCAACGGTCAA-AG
* *
26617488 TCAACGGTCAATGGTCAAAG
1 TCAACAGTCAACGGTCAAAG
* *
26617508 TCAACGGTCAACGATCAAAG
1 TCAACAGTCAACGGTCAAAG
*
26617528 TCAATAGTCAACGGTCAAAG
1 TCAACAGTCAACGGTCAAAG
26617548 TCAACAGTCAACGGTCAA
1 TCAACAGTCAACGGTCAA
26617566 TCAACACCGG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 57 0.84
21 11 0.16
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (20 bp):
TCAACAGTCAACGGTCAAAG
Found at i:26617564 original size:27 final size:28
Alignment explanation
Indices: 26617472--26617565 Score: 104
Period size: 27 Copynumber: 3.5 Consensus size: 28
26617462 TAAACCTCAA
* *
26617472 AGTCAACGGTCAACGGTCAACGGTCAAT
1 AGTCAACAGTCAACGGTCAACGGTCAAC
* *
26617500 GGTCAA-AGTCAACGGTCAACGATCAA-
1 AGTCAACAGTCAACGGTCAACGGTCAAC
* *
26617526 AGTCAATAGTCAACGGTCAA-AGTCAAC
1 AGTCAACAGTCAACGGTCAACGGTCAAC
*
26617553 AGTCAACGGTCAA
1 AGTCAACAGTCAA
26617566 TCAACACCGG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 9 0.16
27 42 0.75
28 5 0.09
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (28 bp):
AGTCAACAGTCAACGGTCAACGGTCAAC
Found at i:26617580 original size:21 final size:20
Alignment explanation
Indices: 26617534--26617600 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 20
26617524 AAAGTCAATA
26617534 GTCAACGGTCAAAGTCAACA--
1 GTCAACGGTC-AA-TCAACACG
26617554 GTCAACGGTCAATCAACACCG
1 GTCAACGGTCAATCAACA-CG
*
26617575 GTCAACGGTCGATCAACATCG
1 GTCAACGGTCAATCAACA-CG
26617596 GTCAA
1 GTCAA
26617601 TGGTTTGACT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 6 0.14
19 2 0.05
20 10 0.24
21 24 0.57
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.16
Consensus pattern (20 bp):
GTCAACGGTCAATCAACACG
Found at i:26617584 original size:7 final size:7
Alignment explanation
Indices: 26617473--26617565 Score: 93
Period size: 7 Copynumber: 13.7 Consensus size: 7
26617463 AAACCTCAAA
26617473 GTCAACG
1 GTCAACG
26617480 GTCAACG
1 GTCAACG
26617487 GTCAACG
1 GTCAACG
*
26617494 GTCAATG
1 GTCAACG
*
26617501 GTCAA-A
1 GTCAACG
26617507 GTCAACG
1 GTCAACG
26617514 GTCAACG
1 GTCAACG
* *
26617521 ATCAA-A
1 GTCAACG
**
26617527 GTCAATA
1 GTCAACG
26617534 GTCAACG
1 GTCAACG
*
26617541 GTCAA-A
1 GTCAACG
*
26617547 GTCAACA
1 GTCAACG
26617554 GTCAACG
1 GTCAACG
26617561 GTCAA
1 GTCAA
26617566 TCAACACCGG
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
6 14 0.19
7 59 0.81
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:26617677 original size:21 final size:21
Alignment explanation
Indices: 26617651--26617714 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
26617641 TGGTTCAAAA
26617651 GGGTTTGGTTTAAATGAATTT
1 GGGTTTGGTTTAAATGAATTT
*
26617672 GGGTTTGGTTTAAATGAATGT
1 GGGTTTGGTTTAAATGAATTT
26617693 GGGTTTGGTTTAAATAGAATTT
1 GGGTTTGGTTTAAAT-GAATTT
26617715 AGGCTTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 35 0.88
22 5 0.12
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (21 bp):
GGGTTTGGTTTAAATGAATTT
Found at i:26618121 original size:11 final size:11
Alignment explanation
Indices: 26618088--26618162 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
26618078 AAGTGTGATT
*
26618088 AAAAGAGGAAG
1 AAAAGAGAAAG
*
26618099 AAAATAGAAAAG
1 AAAAGAG-AAAG
26618111 AAAAGAGAAAG
1 AAAAGAGAAAG
26618122 AAATA-AGAAATG
1 AAA-AGAGAAA-G
* *
26618134 AATGAGAAAAAG
1 AA-AAGAGAAAG
26618146 AAAAGAGAAAG
1 AAAAGAGAAAG
*
26618157 GAAAGA
1 AAAAGA
26618163 TGAGAGGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
11 30 0.59
12 17 0.33
13 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.05
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:26618130 original size:23 final size:23
Alignment explanation
Indices: 26618088--26618160 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
26618078 AAGTGTGATT
*
26618088 AAAAGAGGAAGAAAATAGAAAAG
1 AAAAGAGAAAGAAAATAGAAAAG
*
26618111 AAAAGAGAAAG-AAATAAGAAATG
1 AAAAGAGAAAGAAAAT-AGAAAAG
* * * *
26618134 AATGAGAAAAAGAAAAGAGAAAGG
1 AA-AAGAGAAAGAAAATAGAAAAG
26618158 AAA
1 AAA
26618161 GATGAGAGGC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
22 4 0.10
23 18 0.45
24 15 0.38
25 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (23 bp):
AAAAGAGAAAGAAAATAGAAAAG
Found at i:26632696 original size:21 final size:21
Alignment explanation
Indices: 26632672--26632723 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
26632662 ACCTACTGTT
**
26632672 GAGGAGAAAGTTGATGTTAAA
1 GAGGAGAAAGTCCATGTTAAA
* *
26632693 GAGGAGGAAGTCCTTGTTAAA
1 GAGGAGAAAGTCCATGTTAAA
*
26632714 GAGGTGAAAG
1 GAGGAGAAAG
26632724 AGAAGGATGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.37, T:0.21
Consensus pattern (21 bp):
GAGGAGAAAGTCCATGTTAAA
Found at i:26636150 original size:11 final size:11
Alignment explanation
Indices: 26636131--26636162 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
26636121 GATTTCTAAA
*
26636131 AATGGAAATGG
1 AATGAAAATGG
26636142 AATGAAAATGG
1 AATGAAAATGG
26636153 AATGAAAATG
1 AATGAAAATG
26636163 AAAATGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.19
Consensus pattern (11 bp):
AATGAAAATGG
Found at i:26636151 original size:17 final size:18
Alignment explanation
Indices: 26636129--26636173 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
26636119 TAGATTTCTA
*
26636129 AAAATGGAAATG-GAATG
1 AAAATGGAAATGAAAATG
26636146 AAAATGG-AATGAAAATG
1 AAAATGGAAATGAAAATG
26636163 AAAATGGAAAT
1 AAAATGGAAAT
26636174 AATCCATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 18 0.72
18 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.24, T:0.18
Consensus pattern (18 bp):
AAAATGGAAATGAAAATG
Found at i:26636351 original size:26 final size:26
Alignment explanation
Indices: 26636322--26636380 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
26636312 ATATTTCTAG
26636322 AAATTTTAAT-AGGGGTAAAATCGTCA
1 AAATTTT-ATCAGGGGTAAAATCGTCA
26636348 AAATTTTATCAGGGGTAAAATCGTCA
1 AAATTTTATCAGGGGTAAAATCGTCA
26636374 AAATTTT
1 AAATTTT
26636381 GCTAGGGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 2 0.06
26 30 0.94
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (26 bp):
AAATTTTATCAGGGGTAAAATCGTCA
Found at i:26639378 original size:24 final size:24
Alignment explanation
Indices: 26639251--26639369 Score: 175
Period size: 24 Copynumber: 5.0 Consensus size: 24
26639241 TTTTTATCTA
* *
26639251 AGTGGCTGACGAGCAAAAACATAT
1 AGTGGCTGACGAGCATAAACGTAT
26639275 AGTGGCTGACGAGCATAAACGTAT
1 AGTGGCTGACGAGCATAAACGTAT
**
26639299 AGTGGCTGGTGAGCATAAACGTAT
1 AGTGGCTGACGAGCATAAACGTAT
** *
26639323 AGTGGCTGGTGAGCATAAACGTAC
1 AGTGGCTGACGAGCATAAACGTAT
26639347 AGTGGCTGACGAGCATAAACGTA
1 AGTGGCTGACGAGCATAAACGTA
26639370 CATTAGCTGG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 88 1.00
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (24 bp):
AGTGGCTGACGAGCATAAACGTAT
Found at i:26639379 original size:48 final size:48
Alignment explanation
Indices: 26639251--26639391 Score: 183
Period size: 48 Copynumber: 2.9 Consensus size: 48
26639241 TTTTTATCTA
* * * *
26639251 AGTGGCTGACGAGCAAAAACATATAGTGGCTGACGAGCATAAACGTAT
1 AGTGGCTGACGAGCATAAACGTATAGTGGCTGGCGAGCATAAACGTAC
** *
26639299 AGTGGCTGGTGAGCATAAACGTATAGTGGCTGGTGAGCATAAACGTAC
1 AGTGGCTGACGAGCATAAACGTATAGTGGCTGGCGAGCATAAACGTAC
* * * *
26639347 AGTGGCTGACGAGCATAAACGTACATTAGCTGGCGAGCGTAAACG
1 AGTGGCTGACGAGCATAAACGTATAGTGGCTGGCGAGCATAAACG
26639392 CACTAAACTT
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (48 bp):
AGTGGCTGACGAGCATAAACGTATAGTGGCTGGCGAGCATAAACGTAC
Found at i:26639379 original size:72 final size:72
Alignment explanation
Indices: 26639251--26639391 Score: 192
Period size: 72 Copynumber: 2.0 Consensus size: 72
26639241 TTTTTATCTA
* * * *
26639251 AGTGGCTGACGAGCAAAAACATATAGTGGCTGACGAGCATAAACGTATAGTGGCTGGTGAGCATA
1 AGTGGCTGACGAGCAAAAACATACAGTGGCTGACGAGCATAAACGTACAGTAGCTGGCGAGCATA
26639316 AACGTAT
66 AACGTAT
** * * * *
26639323 AGTGGCTGGTGAGCATAAACGTACAGTGGCTGACGAGCATAAACGTACATTAGCTGGCGAGCGTA
1 AGTGGCTGACGAGCAAAAACATACAGTGGCTGACGAGCATAAACGTACAGTAGCTGGCGAGCATA
26639388 AACG
66 AACG
26639392 CACTAAACTT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (72 bp):
AGTGGCTGACGAGCAAAAACATACAGTGGCTGACGAGCATAAACGTACAGTAGCTGGCGAGCATA
AACGTAT
Found at i:26639383 original size:24 final size:24
Alignment explanation
Indices: 26639251--26639391 Score: 165
Period size: 24 Copynumber: 5.9 Consensus size: 24
26639241 TTTTTATCTA
* * * *
26639251 AGTGGCTGACGAGCAAAAACATAT
1 AGTGGCTGGCGAGCATAAACGTAC
* *
26639275 AGTGGCTGACGAGCATAAACGTAT
1 AGTGGCTGGCGAGCATAAACGTAC
* *
26639299 AGTGGCTGGTGAGCATAAACGTAT
1 AGTGGCTGGCGAGCATAAACGTAC
*
26639323 AGTGGCTGGTGAGCATAAACGTAC
1 AGTGGCTGGCGAGCATAAACGTAC
*
26639347 AGTGGCTGACGAGCATAAACGTAC
1 AGTGGCTGGCGAGCATAAACGTAC
* * *
26639371 ATTAGCTGGCGAGCGTAAACG
1 AGTGGCTGGCGAGCATAAACG
26639392 CACTAAACTT
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 106 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (24 bp):
AGTGGCTGGCGAGCATAAACGTAC
Found at i:26642831 original size:63 final size:67
Alignment explanation
Indices: 26642707--26642832 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 67
26642697 ATTTAATATT
* * *
26642707 GTACATATTTTGAGATTTTGATTCTATTGAATAATCTAACTTAATAATTGAGAACTTTTATATCT
1 GTACATATTTTGAAATTTTGATTCTACTGAAT-ATCTAACTTAATAATTGAGAACTATTATATCT
26642772 TGA
65 TGA
* *
26642775 GTAC-TATTTTGAAATTTTGATTCT-CT-AAT-TTTAACTTAATAATTGAGTACTATTATAT
1 GTACATATTTTGAAATTTTGATTCTACTGAATATCTAACTTAATAATTGAGAACTATTATAT
26642833 ATTTAATTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
63 26 0.49
65 3 0.06
66 1 0.02
67 19 0.36
68 4 0.08
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (67 bp):
GTACATATTTTGAAATTTTGATTCTACTGAATATCTAACTTAATAATTGAGAACTATTATATCTT
GA
Found at i:26643769 original size:20 final size:20
Alignment explanation
Indices: 26643746--26643794 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
26643736 TTTTGGTTAT
*
26643746 TGTTTTGGTG-TTGTTTTTAC
1 TGTTTTGATGCTT-TTTTTAC
26643766 TGTTTTGATGCTTTTTTTAC
1 TGTTTTGATGCTTTTTTTAC
*
26643786 TATTTTGAT
1 TGTTTTGAT
26643795 TGCAGTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.10, C:0.06, G:0.18, T:0.65
Consensus pattern (20 bp):
TGTTTTGATGCTTTTTTTAC
Found at i:26643803 original size:21 final size:20
Alignment explanation
Indices: 26643758--26643803 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
26643748 TTTTGGTGTT
* *
26643758 GTTTTTACTGTTTTGATGCT
1 GTTTTTACTATTTTGATGCA
*
26643778 TTTTTTACTATTTTGATTGCA
1 GTTTTTACTATTTTGA-TGCA
26643799 GTTTT
1 GTTTT
26643804 GGTGCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.13, C:0.09, G:0.15, T:0.63
Consensus pattern (20 bp):
GTTTTTACTATTTTGATGCA
Found at i:26643827 original size:24 final size:24
Alignment explanation
Indices: 26643800--26643845 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
26643790 TTGATTGCAG
*
26643800 TTTTGGTGCTATTTTTGTTGTTAT
1 TTTTAGTGCTATTTTTGTTGTTAT
*
26643824 TTTTATTGCTATTTTTGTTGTT
1 TTTTAGTGCTATTTTTGTTGTT
26643846 TTTGTTATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.09, C:0.04, G:0.17, T:0.70
Consensus pattern (24 bp):
TTTTAGTGCTATTTTTGTTGTTAT
Found at i:26643853 original size:24 final size:24
Alignment explanation
Indices: 26643806--26643874 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 24
26643796 GCAGTTTTGG
26643806 TGCTATTTTTGTTGTTATTT-TTAT
1 TGCTATTTTTGTTGTT-TTTGTTAT
26643830 TGCTATTTTTGTTGTTTTTGTTAT
1 TGCTATTTTTGTTGTTTTTGTTAT
*
26643854 TG-T-TTTATTGTTATTTTTGTT
1 TGCTATTT-TTGTTGTTTTTGTT
26643875 GCTCTTTTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
22 3 0.07
23 17 0.40
24 22 0.52
ACGTcount: A:0.10, C:0.03, G:0.14, T:0.72
Consensus pattern (24 bp):
TGCTATTTTTGTTGTTTTTGTTAT
Found at i:26643901 original size:12 final size:12
Alignment explanation
Indices: 26643809--26643898 Score: 71
Period size: 12 Copynumber: 7.8 Consensus size: 12
26643799 GTTTTGGTGC
26643809 TATTTTTGTTGT
1 TATTTTTGTTGT
* *
26643821 TATTTTTATTGC
1 TATTTTTGTTGT
26643833 TATTTTTGTTG-
1 TATTTTTGTTGT
*
26643844 --TTTTTGTTAT
1 TATTTTTGTTGT
* *
26643854 T-GTTTTATTGT
1 TATTTTTGTTGT
*
26643865 TATTTTTGTTGC
1 TATTTTTGTTGT
* * *
26643877 TCTTTTGGTTAT
1 TATTTTTGTTGT
26643889 TATTTTTGTT
1 TATTTTTGTT
26643899 ATTTGGATGT
Statistics
Matches: 59, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
9 8 0.14
11 8 0.14
12 43 0.73
ACGTcount: A:0.10, C:0.03, G:0.14, T:0.72
Consensus pattern (12 bp):
TATTTTTGTTGT
Found at i:26644745 original size:4 final size:4
Alignment explanation
Indices: 26644736--26644761 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
26644726 TGAAAATGAT
26644736 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
26644762 TAATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:26644779 original size:20 final size:21
Alignment explanation
Indices: 26644729--26644792 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 21
26644719 AATTATTTGA
*
26644729 AAATGATATAAA-TAAATAAAT
1 AAAT-ATATAAATTAATTAAAT
*
26644750 AAATAAATAAATTAATTAAAT
1 AAATATATAAATTAATTAAAT
*
26644771 -TATATAT-AATTAATTTAAAT
1 AAATATATAAATTAA-TTAAAT
26644791 AA
1 AA
26644793 TTCGAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 6 0.17
20 17 0.49
21 12 0.34
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATATATAAATTAATTAAAT
Found at i:26650858 original size:30 final size:30
Alignment explanation
Indices: 26650824--26650893 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
26650814 TATTGTTAAT
26650824 ATTTTAATATATGAAATATTAA-T-TTTAAACA
1 ATTTTAATA-AT-AAATATTAATTATTTAAA-A
* *
26650855 TTTTTAAGTAATTAATATTAATTATTTAAAA
1 ATTTTAA-TAATAAATATTAATTATTTAAAA
26650886 ATTTTAAT
1 ATTTTAAT
26650894 TAGATTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
30 9 0.27
31 16 0.48
32 8 0.24
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (30 bp):
ATTTTAATAATAAATATTAATTATTTAAAA
Found at i:26650954 original size:14 final size:14
Alignment explanation
Indices: 26650917--26650958 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
26650907 CTATATTTTA
26650917 AATATTTAAATA-T
1 AATATTTAAATATT
26650930 AATCA-TTAAATATT
1 AAT-ATTTAAATATT
*
26650944 TATATTTAAATATT
1 AATATTTAAATATT
26650958 A
1 A
26650959 GCACAGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:26652770 original size:72 final size:72
Alignment explanation
Indices: 26652667--26652839 Score: 274
Period size: 72 Copynumber: 2.4 Consensus size: 72
26652657 TTTTATATCC
* * * *
26652667 AAAATCAAATATAAACCACTATTGACAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
*
26652732 ATATCAA
66 ATAACAA
*
26652739 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
*
26652804 ATAACCA
66 ATAACAA
*
26652811 AAAACCAAACATAAACAACCATTGATAAA
1 AAAACCAAACATAAACAACTATTGATAAA
26652840 GCTAGTTTAA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 93 1.00
ACGTcount: A:0.58, C:0.17, G:0.05, T:0.21
Consensus pattern (72 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
ATAACAA
Found at i:26655015 original size:42 final size:42
Alignment explanation
Indices: 26654967--26655053 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
26654957 ACATAGATTT
26654967 TTATCTATAACTCATTGTTGTTACACTGAATATACATATTAA
1 TTATCTATAACTCATTGTTGTTACACTGAATATACATATTAA
* *
26655009 TTATCTATAACTTATTGTTGTTACACTGAATATATATATTAA
1 TTATCTATAACTCATTGTTGTTACACTGAATATACATATTAA
26655051 TTA
1 TTA
26655054 ATGAGTATAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (42 bp):
TTATCTATAACTCATTGTTGTTACACTGAATATACATATTAA
Found at i:26656245 original size:23 final size:23
Alignment explanation
Indices: 26656217--26656262 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
26656207 AAAACACTAA
26656217 AATGATGTTTGTTCAGCATTCCT
1 AATGATGTTTGTTCAGCATTCCT
26656240 AATGATGTTTGTTCAGCATTCCT
1 AATGATGTTTGTTCAGCATTCCT
26656263 TAAAGCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (23 bp):
AATGATGTTTGTTCAGCATTCCT
Found at i:26659142 original size:26 final size:25
Alignment explanation
Indices: 26659097--26659157 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 25
26659087 ACCCTAATGC
*
26659097 GCTCTTCGTTATTTACCACGTATTGT
1 GCTCTCCGTTATTTACCACGT-TTGT
* *
26659123 GCTTTCCGTTATTTAGCACGTTTGT
1 GCTCTCCGTTATTTACCACGTTTGT
26659148 GCTCTCCGTT
1 GCTCTCCGTT
26659158 TAGCACCTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 13 0.42
26 18 0.58
ACGTcount: A:0.11, C:0.25, G:0.18, T:0.46
Consensus pattern (25 bp):
GCTCTCCGTTATTTACCACGTTTGT
Found at i:26659155 original size:25 final size:25
Alignment explanation
Indices: 26659097--26659179 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 25
26659087 ACCCTAATGC
* *
26659097 GCTCTTCGTTATTTACCACGTATTGT
1 GCTCTCCGTTATTTAGCACGT-TTGT
*
26659123 GCTTTCCGTTATTTAGCACGTTTGT
1 GCTCTCCGTTATTTAGCACGTTTGT
* *
26659148 GCTCTCCG---TTTAGCACCTTGGT
1 GCTCTCCGTTATTTAGCACGTTTGT
26659170 GCTCTCCGTT
1 GCTCTCCGTT
26659180 CTTTTGTGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
22 20 0.41
25 11 0.22
26 18 0.37
ACGTcount: A:0.11, C:0.27, G:0.19, T:0.43
Consensus pattern (25 bp):
GCTCTCCGTTATTTAGCACGTTTGT
Found at i:26661176 original size:29 final size:29
Alignment explanation
Indices: 26660768--26661187 Score: 369
Period size: 29 Copynumber: 14.5 Consensus size: 29
26660758 TTCGGAGAGT
*
26660768 TTTGAGGTAAAAATGTAATTTTT-AGAAG
1 TTTGGGGTAAAAATGTAATTTTTGAGAAG
* * *
26660796 TTCAGGAGCAAAAATGTAA-TTTTGAGAAG
1 TT-TGGGGTAAAAATGTAATTTTTGAGAAG
* * * *
26660825 TTCAGAGATAAAAATGTGATTTTTG-GAAG
1 TT-TGGGGTAAAAATGTAATTTTTGAGAAG
* * *
26660854 TTCGAGGG-CAAAATATAATTTTTG-GAAG
1 TTTG-GGGTAAAAATGTAATTTTTGAGAAG
* *
26660882 TTCGGGGGAAAAATGTAATTTTTGAGAAG
1 TTTGGGGTAAAAATGTAATTTTTGAGAAG
* *
26660911 TTTAAGGGTAAAAATGTGATTTTTG-GAAG
1 TTT-GGGGTAAAAATGTAATTTTTGAGAAG
* * *
26660940 TTCGAGGGCAAAAATGTAATTTTT-AAAAG
1 TTTG-GGGTAAAAATGTAATTTTTGAGAAG
* *
26660969 TTTAGGAGCAAAAATGTAATTTTTGAGAAG
1 TTT-GGGGTAAAAATGTAATTTTTGAGAAG
*
26660999 TTTGAGGGTAAAAATGTGATTTTTG-GAAG
1 TTTG-GGGTAAAAATGTAATTTTTGAGAAG
*
26661028 TTT-GGGTAAAAATGTATTTTTTGAGAAG
1 TTTGGGGTAAAAATGTAATTTTTGAGAAG
* * *
26661056 TTTTAGGAGTAAAAATATGATTTTTG-GAAG
1 -TTT-GGGGTAAAAATGTAATTTTTGAGAAG
* * * *
26661086 TTCGGGGGAAAAATGTGATTTTTTA-AAG
1 TTTGGGGTAAAAATGTAATTTTTGAGAAG
26661114 TTTGAGGGTAAAAATGTAA-TTTTGAGAAG
1 TTTG-GGGTAAAAATGTAATTTTTGAGAAG
* *
26661143 TTTGGGGTTAAAATGTAATTTTGGAGAAG
1 TTTGGGGTAAAAATGTAATTTTTGAGAAG
*
26661172 TTTGGGGGTTAAAATG
1 TTT-GGGGTAAAAATG
26661188 GGATTTTTAA
Statistics
Matches: 322, Mismatches: 49, Indels: 40
0.78 0.12 0.10
Matches are distributed among these distances:
27 21 0.07
28 87 0.27
29 134 0.42
30 64 0.20
31 16 0.05
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.35
Consensus pattern (29 bp):
TTTGGGGTAAAAATGTAATTTTTGAGAAG
Found at i:26661199 original size:86 final size:87
Alignment explanation
Indices: 26660768--26661195 Score: 458
Period size: 86 Copynumber: 4.9 Consensus size: 87
26660758 TTCGGAGAGT
* * ** *
26660768 TTTGA-GGTAAAAATGTAATTTTTAGAAGTTCAGGAGCAAAAATGTAA-TTTTGAGAAGTTCAGA
1 TTTGAGGGTAAAAATGTAATTTTGAGAAGTT-TGGAGCAAAAATGTAATTTTTGAGAAGTTTGGG
*
26660831 GATAAAAATGTGATTTTTGGAAG
65 GGTAAAAATGTGATTTTTGGAAG
* * * * * * **
26660854 TTCGAGGG-CAAAATATAATTTTTG-GAAGTTCGGGGGAAAAATGTAATTTTTGAGAAGTTTAAG
1 TTTGAGGGTAAAAATGTAA-TTTTGAGAAGTTTGGAGCAAAAATGTAATTTTTGAGAAGTTTGGG
26660917 GGTAAAAATGTGATTTTTGGAAG
65 GGTAAAAATGTGATTTTTGGAAG
* * * * *
26660940 TTCGAGGGCAAAAATGTAATTTTTAAAAGTTTAGGAGCAAAAATGTAATTTTTGAGAAGTTTGAG
1 TTTGAGGGTAAAAATGTAATTTTGAGAAGTTT-GGAGCAAAAATGTAATTTTTGAGAAGTTTGGG
26661005 GGTAAAAATGTGATTTTTGGAAG
65 GGTAAAAATGTGATTTTTGGAAG
* * * * *
26661028 TTT--GGGTAAAAATGTATTTTTTGAGAAGTTTTAGGAGTAAAAATATGATTTTTG-GAAGTTCG
1 TTTGAGGGTAAAAATGTA-ATTTTGAGAAG-TTT-GGAGCAAAAATGTAATTTTTGAGAAGTTTG
**
26661090 GGGG-AAAAATGTGATTTTTTAAAG
63 GGGGTAAAAATGTGATTTTTGGAAG
* ** *
26661114 TTTGAGGGTAAAAATGTAATTTTGAGAAGTTTGGGGTTAAAATGTAATTTTGGAGAAGTTTGGGG
1 TTTGAGGGTAAAAATGTAATTTTGAGAAGTTTGGAGCAAAAATGTAATTTTTGAGAAGTTTGGGG
* *
26661179 GTTAAAATGGGATTTTT
66 GTAAAAATGTGATTTTT
26661196 AAAGAAAATA
Statistics
Matches: 290, Mismatches: 40, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
85 29 0.10
86 112 0.39
87 60 0.21
88 89 0.31
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.36
Consensus pattern (87 bp):
TTTGAGGGTAAAAATGTAATTTTGAGAAGTTTGGAGCAAAAATGTAATTTTTGAGAAGTTTGGGG
GTAAAAATGTGATTTTTGGAAG
Found at i:26663043 original size:6 final size:6
Alignment explanation
Indices: 26663032--26663108 Score: 67
Period size: 6 Copynumber: 13.7 Consensus size: 6
26663022 AAATTTAAGA
* *
26663032 TAAATT TAAATT TAAA-A TAAATT TAAACT TAAGA-- TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAA-ATT TAAATT TAAATT
* *
26663078 TAAA-A TAAATT TAAACT TAAA-- TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
26663109 AAAAATGGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
4 5 0.09
5 11 0.19
6 41 0.71
7 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (6 bp):
TAAATT
Found at i:26663043 original size:17 final size:17
Alignment explanation
Indices: 26663021--26663108 Score: 133
Period size: 17 Copynumber: 5.2 Consensus size: 17
26663011 TTTTTTAATA
*
26663021 TAAATTTAAGATAAATT
1 TAAATTTAAAATAAATT
26663038 TAAATTTAAAATAAATT
1 TAAATTTAAAATAAATT
* *
26663055 TAAACTTAAGATAAATT
1 TAAATTTAAAATAAATT
26663072 TAAATTTAAAATAAATT
1 TAAATTTAAAATAAATT
*
26663089 TAAACTT-AAATAAATT
1 TAAATTTAAAATAAATT
26663105 TAAA
1 TAAA
26663109 AAAAATGGGT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
16 13 0.20
17 52 0.80
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
TAAATTTAAAATAAATT
Found at i:26663052 original size:11 final size:11
Alignment explanation
Indices: 26663038--26663092 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
26663028 AAGATAAATT
26663038 TAAATTTAAAA
1 TAAATTTAAAA
*
26663049 TAAATTTAAAC
1 TAAATTTAAAA
* ** *
26663060 TTAAGATAAATT
1 TAAATTTAAA-A
26663072 TAAATTTAAAA
1 TAAATTTAAAA
26663083 TAAATTTAAA
1 TAAATTTAAA
26663093 CTTAAATAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 27 0.79
12 7 0.21
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:26663069 original size:34 final size:34
Alignment explanation
Indices: 26663021--26663108 Score: 160
Period size: 34 Copynumber: 2.6 Consensus size: 34
26663011 TTTTTTAATA
*
26663021 TAAATTTAAGATAAATTTAAATTTAAAATAAATT
1 TAAACTTAAGATAAATTTAAATTTAAAATAAATT
26663055 TAAACTTAAGATAAATTTAAATTTAAAATAAATT
1 TAAACTTAAGATAAATTTAAATTTAAAATAAATT
26663089 TAAACTTAA-ATAAATTTAAA
1 TAAACTTAAGATAAATTTAAA
26663109 AAAAATGGGT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 11 0.21
34 42 0.79
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (34 bp):
TAAACTTAAGATAAATTTAAATTTAAAATAAATT
Found at i:26664493 original size:27 final size:26
Alignment explanation
Indices: 26664461--26664519 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
26664451 AATATTAAAT
26664461 TATTTTAAATAATTTTATTATTTATTA
1 TATTTTAAA-AATTTTATTATTTATTA
* *
26664488 TATTTTTAAAATTTTTATTTTTTATTA
1 TA-TTTTAAAAATTTTATTATTTATTA
26664515 T-TTTT
1 TATTTT
26664520 CATGGTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 4 0.14
27 18 0.62
28 7 0.24
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (26 bp):
TATTTTAAAAATTTTATTATTTATTA
Found at i:26670768 original size:15 final size:17
Alignment explanation
Indices: 26670748--26670779 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
26670738 ATTGAAGAGG
26670748 AAGAAG-AGGAA-AGAA
1 AAGAAGAAGGAAGAGAA
26670763 AAGAAGAAGGAAGAGAA
1 AAGAAGAAGGAAGAGAA
26670780 GAAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGGAAGAGAA
Found at i:26670774 original size:25 final size:25
Alignment explanation
Indices: 26670741--26670793 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
26670731 TGTGGGTATT
*
26670741 GAAG-AGGAAGA-AGAGGAAAGAAAA
1 GAAGAAGGAAGAGA-AGAAAAGAAAA
26670765 GAAGAAGGAAGAGAAGAAAAGAAAA
1 GAAGAAGGAAGAGAAGAAAAGAAAA
26670790 -AAGA
1 GAAGA
26670794 CAATGAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 8 0.31
25 17 0.65
26 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (25 bp):
GAAGAAGGAAGAGAAGAAAAGAAAA
Found at i:26670793 original size:17 final size:19
Alignment explanation
Indices: 26670747--26670787 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
26670737 TATTGAAGAG
*
26670747 GAAGAAGAGGA-AAGAAAA
1 GAAGAAGAAGAGAAGAAAA
26670765 GAAGAAGGAAGAGAAGAAAA
1 GAAGAA-GAAGAGAAGAAAA
26670785 GAA
1 GAA
26670788 AAAAGACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 4 0.20
20 10 0.50
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (19 bp):
GAAGAAGAAGAGAAGAAAA
Found at i:26673566 original size:19 final size:19
Alignment explanation
Indices: 26673544--26673581 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
26673534 TCCTAACAAT
26673544 TGACAGTGTCCGCTTGCAC
1 TGACAGTGTCCGCTTGCAC
*
26673563 TGACAGTGTTCGCTTGCAC
1 TGACAGTGTCCGCTTGCAC
26673582 ATAATTGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.29, G:0.26, T:0.29
Consensus pattern (19 bp):
TGACAGTGTCCGCTTGCAC
Found at i:26673727 original size:35 final size:35
Alignment explanation
Indices: 26673645--26673739 Score: 129
Period size: 36 Copynumber: 2.7 Consensus size: 35
26673635 ATATTTGATG
* *
26673645 TTGTCAGTTTATCCGACTAGTGCTGGGCACAAATCT
1 TTGTCGGTTTATCCGACTAGTGCAGGGCAC-AATCT
*
26673681 TTGTCGGTTTATCCAACTAGTGCAGGGCAC-ATCT
1 TTGTCGGTTTATCCGACTAGTGCAGGGCACAATCT
*
26673715 ATTGTCGGTTTATCCGATTAGTGCA
1 -TTGTCGGTTTATCCGACTAGTGCA
26673740 TTGCGCAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
34 4 0.08
35 22 0.42
36 27 0.51
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (35 bp):
TTGTCGGTTTATCCGACTAGTGCAGGGCACAATCT
Found at i:26684025 original size:15 final size:15
Alignment explanation
Indices: 26683997--26684035 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
26683987 GAGAACAGAA
26683997 AAGAAGAAGGAAAAG
1 AAGAAGAAGGAAAAG
*
26684012 AAGAA-AAGGAAAAAT
1 AAGAAGAAGG-AAAAG
26684027 AAGAAGAAG
1 AAGAAGAAG
26684036 AAGTTGTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 14 0.67
16 3 0.14
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (15 bp):
AAGAAGAAGGAAAAG
Found at i:26684487 original size:17 final size:17
Alignment explanation
Indices: 26684440--26684477 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
26684430 TTTTCTCTAG
*
26684440 TTGTCATTACATTTTAA
1 TTGTCACTACATTTTAA
*
26684457 TTGTCACTGCATTTTAA
1 TTGTCACTACATTTTAA
26684474 TTGT
1 TTGT
26684478 TCTCACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.53
Consensus pattern (17 bp):
TTGTCACTACATTTTAA
Found at i:26691634 original size:22 final size:22
Alignment explanation
Indices: 26691606--26691672 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
26691596 ACAAGGCCGT
26691606 GCCCCAGATCGTGTGCATACAC
1 GCCCCAGATCGTGTGCATACAC
26691628 GCCCCAGATCGTGTGCATACAC
1 GCCCCAGATCGTGTGCATACAC
26691650 GCCCCAGATCGTGTGCATACAC
1 GCCCCAGATCGTGTGCATACAC
26691672 G
1 G
26691673 AAATACCCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.22, C:0.36, G:0.24, T:0.18
Consensus pattern (22 bp):
GCCCCAGATCGTGTGCATACAC
Found at i:26692480 original size:26 final size:26
Alignment explanation
Indices: 26692437--26692494 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
26692427 TCAGGTCTTC
* *
26692437 CAGAATTTAGGTCATACGAGCCCAAA
1 CAGAGTTTAGCTCATACGAGCCCAAA
* * *
26692463 CAGAGTTTAGCTCTTACGAGCCTAGA
1 CAGAGTTTAGCTCATACGAGCCCAAA
26692489 CAGAGT
1 CAGAGT
26692495 ATAACCAGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGAGTTTAGCTCATACGAGCCCAAA
Found at i:26692776 original size:80 final size:81
Alignment explanation
Indices: 26692509--26692789 Score: 305
Period size: 81 Copynumber: 3.5 Consensus size: 81
26692499 CCAGTAAACG
* * * * * * * *
26692509 ATGCTGCTCACACAAGCTGTTAGGAAACTAAAACATATGCAAGATCTCAGCCATCGCTACAATCC
1 ATGCTACTCACACAAGCTGTCAAGAAACTACAACATATGCAGGACCTCAGCCATCGATACGATCC
* *
26692574 ATAATACCCTCTCACA
66 ATATTACCCACTCACA
* * * * *
26692590 ACGCTGCTCACACAAGCTGTCAAGAAACTACAACATATGTAGGATCC-CAACCATCGATATGATC
1 ATGCTACTCACACAAGCTGTCAAGAAACTACAACATATGCAGGA-CCTCAGCCATCGATACGATC
*
26692654 CATATTACCCACTCACG
65 CATATTACCCACTCACA
* * * * * *
26692671 ATGCTACTCACACAAGCTATGAAGAATCTGCAACATATGCAGGACCTCAGCCATCG-TAGGGTCC
1 ATGCTACTCACACAAGCTGTCAAGAAACTACAACATATGCAGGACCTCAGCCATCGATACGATCC
* * *
26692735 ATGTTACCCACGCATA
66 ATATTACCCACTCACA
*
26692751 ATGCTACTCACACAAGCTGTCAAGAAACTACAATATATG
1 ATGCTACTCACACAAGCTGTCAAGAAACTACAACATATG
26692790 TAGGGTCTCA
Statistics
Matches: 165, Mismatches: 33, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
80 54 0.33
81 110 0.67
82 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.22
Consensus pattern (81 bp):
ATGCTACTCACACAAGCTGTCAAGAAACTACAACATATGCAGGACCTCAGCCATCGATACGATCC
ATATTACCCACTCACA
Found at i:26697914 original size:81 final size:80
Alignment explanation
Indices: 26697776--26698078 Score: 320
Period size: 81 Copynumber: 3.8 Consensus size: 80
26697766 TAACCAGTAT
* *
26697776 ACAATGCTAG-TCACACAAGCTATCAGGAAACTGTAACATATGCAGGATCCCAGCCATCGCTACG
1 ACAATGCT-GCTCACACAAGCTATCAAGAAACTGCAACATATGCAGGATCCCAGCCATCG-TACG
* * *
26697840 GTCTATAATACCTACTC
64 GTCCATATTACCCACTC
* * * * *
26697857 ACGATGCTGCTCACACAAGCTGTCAGGAAACTACAACATATGCAGGATCCCAGCCATCGATACTG
1 ACAATGCTGCTCACACAAGCTATCAAGAAACTGCAACATATGCAGGATCCCAGCCATCG-TACGG
*
26697922 TCCATATTACCCAGTC
65 TCCATATTACCCACTC
* * * * * * * *
26697938 ACAATGCTTCTCACACAAGCTATCAAGAATCCGCAACATCTGCAAGATCTCAGCAATCGTAGGGT
1 ACAATGCTGCTCACACAAGCTATCAAGAAACTGCAACATATGCAGGATCCCAGCCATCGTACGGT
*
26698003 CCATGTTACCCACTC
66 CCATATTACCCACTC
** * * ** * *
26698018 ACAATGCTGCTCATTCGAGCTGTCAAGAAACTGCAATGTATGTAGGATCTCAGCCATCGTA
1 ACAATGCTGCTCACACAAGCTATCAAGAAACTGCAACATATGCAGGATCCCAGCCATCGTA
26698079 GGGGTCCTTA
Statistics
Matches: 183, Mismatches: 38, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
80 66 0.36
81 117 0.64
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (80 bp):
ACAATGCTGCTCACACAAGCTATCAAGAAACTGCAACATATGCAGGATCCCAGCCATCGTACGGT
CCATATTACCCACTC
Found at i:26698074 original size:161 final size:162
Alignment explanation
Indices: 26697776--26698076 Score: 370
Period size: 161 Copynumber: 1.9 Consensus size: 162
26697766 TAACCAGTAT
* * * * * *
26697776 ACAATGCTAGTCACACAAGCTATCAGGAAACTGTAACATATGCAGGATCCCAGCCATCGCTACGG
1 ACAATGCTACTCACACAAGCTATCAAGAAACCGCAACATATGCAAGATCCCAGCAATCGCTACGG
* * * *
26697841 TCTATAATACCTACTCACGATGCTGCTCACACAAGCTGTCAGGAAACTACAACATATGCAGGATC
66 TCCATAATACCCACTCACAATGCTGCTCACACAAGCTGTCAAGAAACTACAACATATGCAGGATC
26697906 CCAGCCATCGATACTGTCCATATTACCCAGTC
131 CCAGCCATCGATACTGTCCATATTACCCAGTC
* * * * *
26697938 ACAATGCTTCTCACACAAGCTATCAAGAATCCGCAACATCTGCAAGATCTCAGCAATCG-TAGGG
1 ACAATGCTACTCACACAAGCTATCAAGAAACCGCAACATATGCAAGATCCCAGCAATCGCTACGG
** ** * * ** *
26698002 TCCATGTTACCCACTCACAATGCTGCTCATTCGAGCTGTCAAGAAACTGCAATGTATGTAGGATC
66 TCCATAATACCCACTCACAATGCTGCTCACACAAGCTGTCAAGAAACTACAACATATGCAGGATC
*
26698067 TCAGCCATCG
131 CCAGCCATCG
26698077 TAGGGGTCCT
Statistics
Matches: 114, Mismatches: 25, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
161 65 0.57
162 49 0.43
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (162 bp):
ACAATGCTACTCACACAAGCTATCAAGAAACCGCAACATATGCAAGATCCCAGCAATCGCTACGG
TCCATAATACCCACTCACAATGCTGCTCACACAAGCTGTCAAGAAACTACAACATATGCAGGATC
CCAGCCATCGATACTGTCCATATTACCCAGTC
Found at i:26714101 original size:19 final size:20
Alignment explanation
Indices: 26714077--26714131 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
26714067 GAGGCAACCC
26714077 AATTTTTTATTTTCTTTT-T
1 AATTTTTTATTTTCTTTTCT
*
26714096 AATTTTATATTTAT-TTTTCT
1 AATTTTTTATTT-TCTTTTCT
26714116 -ATTTATTTATTTTCTT
1 AATTT-TTTATTTTCTT
26714132 CTTATATGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 20 0.67
20 10 0.33
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (20 bp):
AATTTTTTATTTTCTTTTCT
Found at i:26714121 original size:12 final size:12
Alignment explanation
Indices: 26714082--26714123 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
26714072 AACCCAATTT
*
26714082 TTTA-TTTTCTT
1 TTTATTTTTCTA
* *
26714093 TTTAATTTTATA
1 TTTATTTTTCTA
26714105 TTTATTTTTCTA
1 TTTATTTTTCTA
26714117 TTTATTT
1 TTTATTT
26714124 ATTTTCTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTTTCTA
Found at i:26722244 original size:18 final size:17
Alignment explanation
Indices: 26722221--26722262 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
26722211 AACATATATT
26722221 TCTTTTTTTCTTCTTTTC
1 TCTTTTTTTCTTC-TTTC
**
26722239 TCTTTTCCTCTTCTTTC
1 TCTTTTTTTCTTCTTTC
26722256 T-TTTTTT
1 TCTTTTTT
26722263 ATAAATGACT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 4 0.20
17 5 0.25
18 11 0.55
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTTTTTTCTTCTTTC
Found at i:26739943 original size:80 final size:80
Alignment explanation
Indices: 26739647--26739940 Score: 320
Period size: 81 Copynumber: 3.6 Consensus size: 80
26739637 TACGATGTTG
* * * *
26739647 CTCACACAAGCTGTTAGGAAACTGCAACAAATGCAAGAT-TCCAGCCATCGCTACGGTCCATAAT
1 CTCACACAAGCTATCAAGAAACTGCAACATATGCAAGATCT-CAGCCATCG-TACGGTCCATAAT
* * *
26739711 ACCCACTCTCGATGCTG
64 ACCCACTCACAATGCTA
* * * * * * * *
26739728 CTTACACAAGCTGTCAGGAAACTGCAACATATGCAGGATCCCAACCATCAATACGGTCCATACTA
1 CTCACACAAGCTATCAAGAAACTGCAACATATGCAAGATCTCAGCCATC-GTACGGTCCATAATA
* *
26739793 CCCAGTCACACTGCTA
65 CCCACTCACAATGCTA
* ** * **
26739809 CTCACACAAGCTATCAAGAATCCACAACATATGCAAGATCTCAGCCATCGTAGGGTCCATGTTAC
1 CTCACACAAGCTATCAAGAAACTGCAACATATGCAAGATCTCAGCCATCGTACGGTCCATAATAC
*
26739874 CCACTCGCAATGCTA
66 CCACTCACAATGCTA
* *
26739889 CTCACACAAGCTATCAAGAAACTGCAACGTATGTAAGATCTCAGCCATCGTA
1 CTCACACAAGCTATCAAGAAACTGCAACATATGCAAGATCTCAGCCATCGTA
26739941 GGGGTCCTTA
Statistics
Matches: 177, Mismatches: 34, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
80 71 0.40
81 106 0.60
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.21
Consensus pattern (80 bp):
CTCACACAAGCTATCAAGAAACTGCAACATATGCAAGATCTCAGCCATCGTACGGTCCATAATAC
CCACTCACAATGCTA
Found at i:26744835 original size:26 final size:26
Alignment explanation
Indices: 26744799--26744856 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
26744789 TCGGGTCTTC
* *
26744799 CAGAATTTAGCTCATACAAGCCTAAA
1 CAGAGTTTAGCTCATACAAGCCCAAA
* *
26744825 CAGAGTTTAGCTCTTACGAGCCCAAA
1 CAGAGTTTAGCTCATACAAGCCCAAA
26744851 CAGAGT
1 CAGAGT
26744857 ATAAACAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.22
Consensus pattern (26 bp):
CAGAGTTTAGCTCATACAAGCCCAAA
Done.