Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold163
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: 1788591
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.32
Warning! 179834 characters in sequence are not A, C, G, or T
File 11 of 13
Found at i:1333561 original size:18 final size:18
Alignment explanation
Indices: 1333534--1333569 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1333524 AAGTAAAACA
*
1333534 TATTTTTTTAATTTTAAT
1 TATTTATTTAATTTTAAT
*
1333552 TATTTATTTATTTTTAAT
1 TATTTATTTAATTTTAAT
1333570 CAAATTTATT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TATTTATTTAATTTTAAT
Found at i:1335120 original size:22 final size:22
Alignment explanation
Indices: 1335086--1335139 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1335076 AGCCTTTGAC
1335086 CATGCA-TTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
1335107 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
1335129 CATGCATTTTT
1 CATGCATTTTT
1335140 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:1340143 original size:23 final size:22
Alignment explanation
Indices: 1340117--1340164 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1340107 TTAAAAATTA
1340117 TAATAAAAAACTTTTTTATTTTT
1 TAAT-AAAAACTTTTTTATTTTT
** *
1340140 TAATTTAAATTTTTTTATTTTT
1 TAATAAAAACTTTTTTATTTTT
1340162 TAA
1 TAA
1340165 AAATATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TAATAAAAACTTTTTTATTTTT
Found at i:1340146 original size:131 final size:130
Alignment explanation
Indices: 1340001--1340740 Score: 1088
Period size: 131 Copynumber: 5.6 Consensus size: 130
1339991 ATAAAAAAAC
* *
1340001 TATTTGTTTAATTTAAAATTTTTATTTTTAAAAAATATAATAACTAATATTTTAATTTGTTAATG
1 TATTT-TTTAATTTAAAATTTTTATTTTTAAAAAACATAATAATTAATATTTTAATTTGTTAATG
*
1340066 TAATTTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACTTT
65 TAA-ATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACTTT
1340131 TT
129 TT
* * * * *
1340133 TATTTTTTAATTTAAATTTTTTTATTTTTTAAAAATATAATAATTAATATTCTAATTTGTCAATG
1 TATTTTTTAATTTAAA-ATTTTTATTTTTAAAAAACATAATAATTAATATTTTAATTTGTTAATG
1340198 TAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACTATT
65 TAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAAC--TT
1340263 TTT
128 TTT
** *
1340266 TATTTTTTTAATTTTAATTTTTTTATTTTTAAAAAACAGAATAATTAATATTTTAATTTGTTAAT
1 TA-TTTTTTAA-TTTAAAATTTTTATTTTTAAAAAACATAATAATTAATATTTTAATTTGTTAAT
* * *
1340331 GTAAATTGTTTAGACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAATCCT
64 GTAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAA-CTT
1340396 TTT
128 TTT
* * * *
1340399 TA-TTTTTAATTAAAAATATTTATTTTTAAAAATACAGAATAATTAATATTTTAATTTGTTAATA
1 TATTTTTTAATTTAAAATTTTTATTTTTAAAAA-ACATAATAATTAATATTTTAATTTGTTAATG
1340463 TAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACCTTT
65 TAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAA-CTTT
1340528 TT
129 TT
*
1340530 TATTTTTTAATTT-TAATTTTTATTTTTAAAAATACATAATAATTAATATTTTAATTTGTTAATG
1 TATTTTTTAATTTAAAATTTTTATTTTTAAAAA-ACATAATAATTAATATTTTAATTTGTTAATG
* * *
1340594 TAAATTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAGAAATTATAAGAAAAACTATT
65 TAAA-TTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAA--ACT
1340659 TTTT
127 TTTT
** *
1340663 TATTTTTTTAATTTAAAATTCTTTATTTTTTTTAAAATATAATAATTAATATTTTAATTTGTTAA
1 TA-TTTTTTAATTTAAAATT-TTTA-TTTTTAAAAAACATAATAATTAATATTTTAATTTGTTAA
1340728 TGTAAATTTTTTA
63 TGTAAATTTTTTA
1340741 CATGTATTGA
Statistics
Matches: 557, Mismatches: 36, Indels: 27
0.90 0.06 0.04
Matches are distributed among these distances:
130 19 0.03
131 221 0.40
132 113 0.20
133 20 0.04
134 121 0.22
135 17 0.03
136 38 0.07
137 8 0.01
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (130 bp):
TATTTTTTAATTTAAAATTTTTATTTTTAAAAAACATAATAATTAATATTTTAATTTGTTAATGT
AAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACTTTTT
Found at i:1340207 original size:54 final size:55
Alignment explanation
Indices: 1340095--1340207 Score: 133
Period size: 53 Copynumber: 2.1 Consensus size: 55
1340085 TTAAATATTA
* * * * *
1340095 TTTTTTATTTTATTAAAAATTATAATAAAAAACTTTTTTATTTTTTAATTTAAAT
1 TTTTTTATTTTATTAAAAATTATAATAAAAAACTTTCTAATTTGTCAATGTAAAT
**
1340150 TTTTTTATTTT-TTAAAAA-TATAATAATTAA-TATTCTAATTTGTCAATGTAAAT
1 TTTTTTATTTTATTAAAAATTATAATAAAAAACT-TTCTAATTTGTCAATGTAAAT
1340203 TTTTT
1 TTTTT
1340208 AAACTTAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 1 0.02
53 31 0.62
54 7 0.14
55 11 0.22
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (55 bp):
TTTTTTATTTTATTAAAAATTATAATAAAAAACTTTCTAATTTGTCAATGTAAAT
Found at i:1340285 original size:15 final size:15
Alignment explanation
Indices: 1340262--1340297 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1340252 AAAAAACTAT
*
1340262 TTTTTATTTTTTTAA
1 TTTTAATTTTTTTAA
*
1340277 TTTTAATTTTTTTAT
1 TTTTAATTTTTTTAA
1340292 TTTTAA
1 TTTTAA
1340298 AAAACAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTAATTTTTTTAA
Found at i:1340430 original size:396 final size:397
Alignment explanation
Indices: 1340007--1340740 Score: 1192
Period size: 397 Copynumber: 1.8 Consensus size: 397
1339997 AAACTATTTG
* * * * * *
1340007 TTTAATTTAAAATTTTTATTTTTAAAAA-ATATAATAACTAATATTTTAATTTGTTAATGTAATT
1 TTTAATTAAAAATATTTATTTTTAAAAATACAGAATAACTAATATTTTAATTTGTTAATATAA-A
1340071 TTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAA-CTTTTTTA
65 TTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACCTTTTTTA
1340135 TTTTTTAATTTAAATTTTTTTATTTTTTAAAAAT-ATAATAATTAATATTCTAATTTGTCAATGT
130 TTTTTTAATTTAAA--TTTTTA-TTTTTAAAAATAATAATAATTAATATTCTAATTTGTCAATGT
1340199 AAA-TTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACTA-T
192 AAATTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAA-AAAAAACTATT
* * *
1340262 TTTTTATTTTTTTAATTTTAATTTTTTTA-TTTTTAAAAAACAGAATAATTAATATTTTAATTTG
256 TTTTTATTTTTTTAATTTAAAATTCTTTATTTTTTAAAAAACAGAATAATTAATATTTTAATTTG
1340326 TTAATGTAAATTGTTTAGACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAA
321 TTAATGTAAATTGTTTAGACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAA
1340391 ATCCTTTTTATT
386 ATCCTTTTTATT
*
1340403 TTTAATTAAAAATATTTATTTTTAAAAATACAGAATAATTAATATTTTAATTTGTTAATATAAAT
1 TTTAATTAAAAATATTTATTTTTAAAAATACAGAATAACTAATATTTTAATTTGTTAATATAAAT
1340468 TTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACCTTTTTTAT
66 TTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACCTTTTTTAT
* * *
1340533 TTTTTAATTTTAATTTTTATTTTTAAAAATACATAATAATTAATATTTTAATTTGTTAATGTAAA
131 TTTTTAATTTAAATTTTTATTTTTAAAAATA-ATAATAATTAATATTCTAATTTGTCAATGTAAA
* *
1340598 TTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAGAAATTATAAGAAAAACTATTTTTT
195 TTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAAAAAAAACTATTTTTT
** * *
1340663 TATTTTTTTAATTTAAAATTCTTTATTTTTTTTAAAATATAATAATTAATATTTTAATTTGTTAA
260 TATTTTTTTAATTTAAAATTCTTTATTTTTTAAAAAACAGAATAATTAATATTTTAATTTGTTAA
*
1340728 TGTAAATTTTTTA
325 TGTAAATTGTTTA
1340741 CATGTATTGA
Statistics
Matches: 311, Mismatches: 20, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
394 11 0.04
395 6 0.02
396 121 0.39
397 126 0.41
398 47 0.15
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (397 bp):
TTTAATTAAAAATATTTATTTTTAAAAATACAGAATAACTAATATTTTAATTTGTTAATATAAAT
TTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACCTTTTTTAT
TTTTTAATTTAAATTTTTATTTTTAAAAATAATAATAATTAATATTCTAATTTGTCAATGTAAAT
TTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAAAAAAAACTATTTTTTT
ATTTTTTTAATTTAAAATTCTTTATTTTTTAAAAAACAGAATAATTAATATTTTAATTTGTTAAT
GTAAATTGTTTAGACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAATCCT
TTTTATT
Found at i:1340480 original size:265 final size:263
Alignment explanation
Indices: 1340001--1340740 Score: 1132
Period size: 265 Copynumber: 2.8 Consensus size: 263
1339991 ATAAAAAAAC
* * * *
1340001 TATTTGTTTAATTTAAAATTTTTATTTTTAAAAAATATAATAACTAATATTTTAATTTGTTAATG
1 TATTTTTTTAATTT-TAATTTTTATTTTTAAAAAACATAATAATTAATATTTTAATTTGTTAATG
*
1340066 TAATTTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAA-CTT
65 TAA-ATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAATCTT
* * * *
1340130 TTTTATTTTTTAATTTAAATTTTTTTATTTTTTAAAAATATAATAATTAATATTCTAATTTGTCA
129 TTTTATTTTTTAATTTAAAATTATTTATTTTTTAAAAATATAATAATTAATATTTTAATTTGTTA
1340195 ATGTAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACT
194 ATGTAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAAC-
1340260 ATTTTT
258 ATTTTT
*
1340266 TATTTTTTTAATTTTAATTTTTTTATTTTTAAAAAACAGAATAATTAATATTTTAATTTGTTAAT
1 TATTTTTTTAATTTTAA--TTTTTATTTTTAAAAAACATAATAATTAATATTTTAATTTGTTAAT
* * *
1340331 GTAAATTGTTTAGACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAATCCT
64 GTAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAATCTT
* *
1340396 TTTTA-TTTTTAA-TTAAAAATATTTA-TTTTTAAAAATACAGAATAATTAATATTTTAATTTGT
129 TTTTATTTTTTAATTTAAAATTATTTATTTTTTAAAAAT--ATAATAATTAATATTTTAATTTGT
*
1340458 TAATATAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAA
192 TAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAA
*
1340523 CCTTTTT
257 CATTTTT
1340530 TA-TTTTTTAATTTTAATTTTTATTTTTAAAAATACATAATAATTAATATTTTAATTTGTTAATG
1 TATTTTTTTAATTTTAATTTTTATTTTTAAAAA-ACATAATAATTAATATTTTAATTTGTTAATG
* *
1340594 TAAATTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAGAAATTATAAGAAAAACTAT-
65 TAAA-TTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAA--ATC
* *
1340658 TTTTTTATTTTTTTAATTTAAAATTCTTTATTTTTTTTAAAATATAATAATTAATATTTTAATTT
127 TTTTTTA-TTTTTTAATTTAAAATTATTTA-TTTTTTAAAAATATAATAATTAATATTTTAATTT
1340723 GTTAATGTAAATTTTTTA
190 GTTAATGTAAATTTTTTA
1340741 CATGTATTGA
Statistics
Matches: 433, Mismatches: 28, Indels: 26
0.89 0.06 0.05
Matches are distributed among these distances:
261 16 0.04
262 34 0.08
263 76 0.18
264 25 0.06
265 162 0.37
266 61 0.14
267 49 0.11
269 10 0.02
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (263 bp):
TATTTTTTTAATTTTAATTTTTATTTTTAAAAAACATAATAATTAATATTTTAATTTGTTAATGT
AAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAATCTTTT
TTATTTTTTAATTTAAAATTATTTATTTTTTAAAAATATAATAATTAATATTTTAATTTGTTAAT
GTAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACATT
TTT
Found at i:1352307 original size:20 final size:20
Alignment explanation
Indices: 1352279--1352358 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 20
1352269 TTTTACCTAG
1352279 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
1352299 ATATATCGATATATGTATGA
1 ATGTATCGATACATTTTTCA
* *
1352319 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
1352339 ATGTATCGATACATTATTTC
1 ATGTATCGATACATT-TTTC
1352359 TTTTTACCTA
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 44 0.94
21 3 0.06
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1364810 original size:9 final size:9
Alignment explanation
Indices: 1364796--1364857 Score: 56
Period size: 9 Copynumber: 6.7 Consensus size: 9
1364786 CTTTACACAA
1364796 AAAAAAAAC
1 AAAAAAAAC
1364805 AAAAAAAA-
1 AAAAAAAAC
1364813 ATAAAACAAA-
1 A-AAAA-AAAC
1364823 AAAACAAAAC
1 AAAA-AAAAC
*
1364833 AAAAAAAAG
1 AAAAAAAAC
*
1364842 AAAAAATAGC
1 AAAAAA-AAC
1364852 AAAAAA
1 AAAAAA
1364858 TAGAAAGGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
8 1 0.02
9 28 0.62
10 16 0.36
ACGTcount: A:0.85, C:0.08, G:0.03, T:0.03
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1364812 original size:13 final size:14
Alignment explanation
Indices: 1364794--1364845 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
1364784 TCCTTTACAC
1364794 AAAAAA-AAAACAAA
1 AAAAAAGAAAAC-AA
*
1364808 AAAAAATAAAAC-A
1 AAAAAAGAAAACAA
*
1364821 AAAAAACAAAACAA
1 AAAAAAGAAAACAA
1364835 AAAAAAGAAAA
1 AAAAAAGAAAA
1364846 AATAGCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.35
14 17 0.50
15 5 0.15
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (14 bp):
AAAAAAGAAAACAA
Found at i:1364823 original size:23 final size:22
Alignment explanation
Indices: 1364797--1364857 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 22
1364787 TTTACACAAA
1364797 AAAAAAACAAAAAAAAATAAAAC
1 AAAAAAACAAAAAAAAA-AAAAC
* *
1364820 AAAAAAACAAAACAAAAAAAAG
1 AAAAAAACAAAAAAAAAAAAAC
1364842 AAAAAATAGCAAAAAA
1 AAAAAA-A-CAAAAAA
1364858 TAGAAAGGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.30
23 17 0.52
24 6 0.18
ACGTcount: A:0.85, C:0.08, G:0.03, T:0.03
Consensus pattern (22 bp):
AAAAAAACAAAAAAAAAAAAAC
Found at i:1364857 original size:1 final size:1
Alignment explanation
Indices: 1364794--1364847 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
1364784 TCCTTTACAC
* * * * * *
1364794 AAAAAAAAAACAAAAAAAAATAAAACAAAAAAACAAAACAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1364848 TAGCAAAAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.89, C:0.07, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:1366197 original size:28 final size:28
Alignment explanation
Indices: 1366067--1367691 Score: 1858
Period size: 28 Copynumber: 57.0 Consensus size: 28
1366057 GAATGTTCAT
*
1366067 CCCTTTCAAAGCCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
1366095 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
** *
1366124 CTTTTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
1366153 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366182 CCCTTTCAAGGCCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366210 CTCTTTCCAAAGCCCACAAGTCAGTGGCG
1 CCCTTT-CAAAGCCCACAAGTCAGTGGCA
1366239 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366267 CTCTTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366296 CCTTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
1366324 CCCTTTCAAAGCCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
1366352 CCCTTTCAAAGCCCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1366380 CTCTTTTCAAAGCCCACAAATCAGTGGCG
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366409 CTCTTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366438 CTCTTTTCAAAGCCCATAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366467 CCCTTTCAAAGCCCACAAGTTAGTGACA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366495 CCATTTCGAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366523 CCCTTTCGAAGCCCACAATTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1366551 CCCTTGCGAAGCCCACAATTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
**
1366579 CTTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1366607 CCCTTTCAAAGCCCACAAAAGTCAGTGGCA
1 CCCTTTCAAAGCCCAC--AAGTCAGTGGCA
* *
1366637 CTCTTTTTAAAGCCCACACAAGTCAGTGGCA
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGCA
* *
1366668 CCTTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366696 CCCTTTC-AAGCCCACGAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366723 CCTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
1366751 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366779 TCCTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
***
1366807 TTTTTTCAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
1366837 CCCTTTC-AAGCCCACGAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366864 CCTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1366892 CTCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1366920 TCCTTTCAAAGCCCACGAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
***
1366948 TTTTTTCAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
1366978 CCCTTTTAAACCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1367006 CCCTTTCGAAGCCCACAATTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1367034 CCCTTGCGAAGCCCACAATTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
** *
1367062 CTTTTTCAAAGCCTACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1367090 CCCTTTCAAAGCCCACAAAAGTCAGTGGCA
1 CCCTTTCAAAGCCCAC--AAGTCAGTGGCA
* *
1367120 CTCTTTTTAAAGCCCACACAAGTCAGTGGCA
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGCA
*
1367151 CCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1367179 CCCTTTC-AAGCCCACGAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
1367206 -CCTTTCCAAAGCCCACGAGTCAGTGGCA
1 CCCTTT-CAAAGCCCACAAGTCAGTGGCA
* *
1367234 CTCTTTCAAAGCCTACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1367262 TCCTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
**
1367290 TTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1367318 CCCTTT-TAAGCCCACGAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
1367345 CCTTTTCAAAGCCCACGAGTTAGTGTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
1367373 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1367401 TCCTTTCAAAGCTCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
**
1367429 TTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1367457 CCCTTT-TAAGCCCACGAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1367484 CCTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
1367512 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1367540 TCCTTTCAAAGCCCACGAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
***
1367568 TTTTTTCAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * **
1367598 CCCTTTTAAACCCCACGCAAGTCAGTAACA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
1367628 CTCTTTTCAAAGCCCACACGTGTCAGTGGCAA
1 C-CCTTTCAAAGCCCACA--AGTCAGTGGC-A
** *
1367660 CTTTTTTCAAAGCCTACACAAGTTAGTGGCA
1 C-CCTTTCAAAGCC--CACAAGTCAGTGGCA
1367691 C
1 C
1367692 ATTTTTTTTT
Statistics
Matches: 1386, Mismatches: 178, Indels: 63
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.00
27 105 0.08
28 836 0.60
29 226 0.16
30 116 0.08
31 62 0.04
32 26 0.02
33 6 0.00
34 4 0.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:1366995 original size:483 final size:479
Alignment explanation
Indices: 1366075--1367645 Score: 2296
Period size: 483 Copynumber: 3.3 Consensus size: 479
1366065 ATCCCTTTCA
* **
1366075 AAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTTTTTTCAAAGCCCA
1 AAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCA
* * * *
1366140 C-AAA-TCAGTGGCACTCTTTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTCAAGGCCCACAAA
65 CAAAAGTCAGTGGCACTCTTTTTAAAGCCCACACAAGTCAGTGGCACCTTTTCAAAGCCCACAAG
* * ** * *
1366201 TCAGTGGCACTCTTTCCAAAGCCCACAAGTCAGTGGCGCCCTTTCAAAGCCCACAAGTCAGTGGC
130 TCAGTGGCACCCTTT-C-AAGCCCACGAGTCAGTGGTACCTTTTCAAAGCCCACGAGTCAGTGGC
* * * **
1366266 ACTCTTTTCAAAGCCCACAAATCAGTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTT
193 ACTC-TTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACGAGTCAGTGGCATTCTTT
* ** *
1366330 CAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCACTCTTTTCAAAGCCC
256 CAAAGCCCACAAGTCAGTGGCACCCTTTC-AAGCCCACGAGTCAGTGGTAC-CTTTTCAAAGCCC
* * * * * **
1366395 ACAAATCAGTGGCGCTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCATAAGTC
319 ACGAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGAGTC
** * * * *
1366460 AGTGGCACCCTTTCAAAGCCCACAAGTTAGTGACACCATTTCGAAGCCCACAAGTCAGTGGCACC
382 AGTGGCATTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTT-TAAGCCCACAAGTCAGTGGCACC
1366525 CTTTCGAAGCCCACAATTCAGTGGCACCCTTGCG
446 CTTTCGAAGCCCACAATTCAGTGGCACCCTTGCG
1366559 AAGCCCACAATTCAGTGGCACT-TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
1 AAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
1366623 AAAAGTCAGTGGCACTCTTTTTAAAGCCCACACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGT
66 AAAAGTCAGTGGCACTCTTTTTAAAGCCCACACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGT
*
1366688 TAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGTACCTTTTCAAAGCCCACGAGTCAGTGGCACT
131 CAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGTACCTTTTCAAAGCCCACGAGTCAGTGGCACT
*
1366753 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCATTTTTTCAAAG
196 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCATTCTTTCAAAG
1366818 CCCACGCAAGTCAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGTACCTTTTCAAAGCCCACGAG
261 CCCA--CAAGTCAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGTACCTTTTCAAAGCCCACGAG
* *
1366883 TCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTTAGTGGCA
324 TCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCA
* *
1366948 TTTTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTTAAACCCCACAAGTCAGTGGCACCCTTTC
389 TTCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTT-AAGCCCACAAGTCAGTGGCACCCTTTC
1367013 GAAGCCCACAATTCAGTGGCACCCTTGCG
451 GAAGCCCACAATTCAGTGGCACCCTTGCG
*
1367042 AAGCCCACAATTCAGTGGCACT-TTTTCAAAGCCTACAAGTCAGTGGCACCCTTTCAAAGCCCAC
1 AAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
1367106 AAAAGTCAGTGGCACTCTTTTTAAAGCCCACACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGT
66 AAAAGTCAGTGGCACTCTTTTTAAAGCCCACACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGT
*
1367171 CAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGTACCTTTCCAAAGCCCACGAGTCAGTGGCACT
131 CAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGTACCTTTTCAAAGCCCACGAGTCAGTGGCACT
*
1367236 CTTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCATTCTTTCAAAG
196 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCATTCTTTCAAAG
* *
1367301 CCCACAAGTCAGTGGCACCCTTTTAAGCCCACGAGTCAGTGGTACCTTTTCAAAGCCCACGAGTT
261 CCCACAAGTCAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGTACCTTTTCAAAGCCCACGAGTC
* *
1367366 AGTGTCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCTCACGAGTCAGTGGCATT
326 AGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCATT
* * * *
1367431 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAGCCCACGAGTCAGTGGTACCTTTTCAAAGC
391 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAGCCCACAAGTCAGTGGCACCCTTTCGAAGC
* * * * *
1367496 CCACGAGTCAGTGGCACTCTTTCA
456 CCACAATTCAGTGGCACCCTTGCG
* * * * ***
1367520 AAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGAGTTAGTGGCATTTTTTCAAAGCCCAC
1 AAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
** * * * **
1367584 GCAAGTCAGTGGCAC-CCTTTTAAACCCCACGCAAGTCAGTAACACTCTTTTCAAAGCCCACA
66 AAAAGTCAGTGGCACTCTTTTTAAAGCCCACACAAGTCAGTGGCAC-CTTTTCAAAGCCCACA
1367646 CGTGTCAGTG
Statistics
Matches: 997, Mismatches: 78, Indels: 30
0.90 0.07 0.03
Matches are distributed among these distances:
477 26 0.03
478 129 0.13
479 20 0.02
481 168 0.17
482 36 0.04
483 445 0.45
484 107 0.11
485 22 0.02
486 44 0.04
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (479 bp):
AAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
AAAAGTCAGTGGCACTCTTTTTAAAGCCCACACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGT
CAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGTACCTTTTCAAAGCCCACGAGTCAGTGGCACT
CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCATTCTTTCAAAG
CCCACAAGTCAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGTACCTTTTCAAAGCCCACGAGTC
AGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCATT
CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAGCCCACAAGTCAGTGGCACCCTTTCGAAGC
CCACAATTCAGTGGCACCCTTGCG
Found at i:1368280 original size:20 final size:20
Alignment explanation
Indices: 1368252--1368331 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
1368242 TTTTACCCAG
1368252 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1368272 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
1368292 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
1368312 ATGTATCGATACATTATTTC
1 ATGTATCGATACATT-TTTC
1368332 TTTTTACCTA
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 44 0.94
21 3 0.06
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1371806 original size:20 final size:19
Alignment explanation
Indices: 1371754--1371806 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
1371744 TTATTAAATA
1371754 ATTTAATT-T-AAATTATT
1 ATTTAATTATAAAATTATT
* *
1371771 ATTTAATAATAAAAATTTTAT
1 ATTTAATTAT-AAAATTAT-T
1371792 ATTTAATTATAAAAT
1 ATTTAATTATAAAAT
1371807 ATGTAAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 7 0.24
18 1 0.03
20 11 0.38
21 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTAATTATAAAATTATT
Found at i:1372422 original size:19 final size:19
Alignment explanation
Indices: 1372394--1372430 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1372384 AATATATTAA
*
1372394 AATAAATATTTAATTATTT
1 AATAAATATTTAAGTATTT
*
1372413 AATAATTATTTAAGTATT
1 AATAAATATTTAAGTATT
1372431 ATTATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
AATAAATATTTAAGTATTT
Found at i:1372654 original size:16 final size:16
Alignment explanation
Indices: 1372633--1372671 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1372623 ACCCGACATT
*
1372633 ATTTAAATTTAAAATG
1 ATTTAAACTTAAAATG
*
1372649 ATTTAAACTTGAAATG
1 ATTTAAACTTAAAATG
1372665 ACTTTAA
1 A-TTTAA
1372672 GTCTGAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (16 bp):
ATTTAAACTTAAAATG
Found at i:1373515 original size:21 final size:21
Alignment explanation
Indices: 1373438--1373515 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 21
1373428 TTTAAAGTAT
1373438 ATTAAA-AATAATTTTATATTA
1 ATTAAATAATAATTTT-TATTA
* * *
1373459 A-T-ATTTATCATTTTTA-TA
1 ATTAAATAATAATTTTTATTA
1373477 ATTAAATTTAATTAATTTTTATTA
1 ATTAAA--TAA-TAATTTTTATTA
1373501 ATTAAATAATAATTT
1 ATTAAATAATAATTT
1373516 AAATTTAATC
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
18 3 0.07
19 4 0.09
20 9 0.20
21 7 0.16
22 5 0.11
23 8 0.18
24 8 0.18
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTAAATAATAATTTTTATTA
Found at i:1375605 original size:29 final size:30
Alignment explanation
Indices: 1375554--1375613 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
1375544 ATATAAAATT
** *
1375554 ATAAAAATAAATAATTTATAAATTT-TTAA
1 ATAAAAATAAATAACGTAAAAATTTATTAA
*
1375583 ATAAAAATTAATAACGTAAAAATTTATTAA
1 ATAAAAATAAATAACGTAAAAATTTATTAA
1375613 A
1 A
1375614 ACGAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (30 bp):
ATAAAAATAAATAACGTAAAAATTTATTAA
Found at i:1377884 original size:21 final size:20
Alignment explanation
Indices: 1377846--1377886 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1377836 TTTTTATATT
* *
1377846 ATTTATTTAATATATATTTA
1 ATTTATTAAATATTTATTTA
1377866 ATTTGATTAAATATTTATTTA
1 ATTT-ATTAAATATTTATTTA
1377887 GAGAAGAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTATTAAATATTTATTTA
Found at i:1384136 original size:23 final size:23
Alignment explanation
Indices: 1384081--1384190 Score: 58
Period size: 23 Copynumber: 4.9 Consensus size: 23
1384071 TTAAAAATAA
1384081 AAATATAA-TAATAAAATTTAAT
1 AAATATAATTAATAAAATTTAAT
* *
1384103 ATCATAT-ATTAAT-AATTTTGAAT
1 A-AATATAATTAATAAAATTT-AAT
*
1384126 AAATATAATT-ATAAGA--T-AT
1 AAATATAATTAATAAAATTTAAT
*
1384145 AAATATAA-TATATAAAAATATAAT
1 AAATATAATTA-AT-AAAATTTAAT
1384169 ATAA-ATAATTAAATAAATATTT
1 A-AATATAATT-AATAAA-ATTT
1384191 TAAAACTTAC
Statistics
Matches: 66, Mismatches: 7, Indels: 27
0.66 0.07 0.27
Matches are distributed among these distances:
18 1 0.02
19 10 0.15
20 2 0.03
21 4 0.06
22 13 0.20
23 17 0.26
24 10 0.15
25 8 0.12
26 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATATAATTAATAAAATTTAAT
Found at i:1384138 original size:6 final size:6
Alignment explanation
Indices: 1384124--1384188 Score: 60
Period size: 6 Copynumber: 10.3 Consensus size: 6
1384114 ATAATTTTGA
* *
1384124 ATAAAT ATAATT ATAAGAT ATAAAT ATAATAT ATAAAA ATATAAT ATAAAT
1 ATAAAT ATAAAT ATAA-AT ATAAAT ATAA-AT ATAAAT ATA-AAT ATAAAT
*
1384175 AATTAA- ATAAAT AT
1 -ATAAAT ATAAAT AT
1384189 TTTAAAACTT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.08
6 24 0.50
7 20 0.42
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (6 bp):
ATAAAT
Found at i:1384146 original size:13 final size:12
Alignment explanation
Indices: 1384124--1384188 Score: 60
Period size: 13 Copynumber: 5.2 Consensus size: 12
1384114 ATAATTTTGA
*
1384124 ATAAATATAATT
1 ATAAATATAAAT
1384136 ATAAGATATAAAT
1 ATAA-ATATAAAT
*
1384149 ATAATATATAAAA
1 ATAA-ATATAAAT
1384162 ATATAATATAAAT
1 ATA-AATATAAAT
*
1384175 AATTAA-ATAAAT
1 -ATAAATATAAAT
1384187 AT
1 AT
1384189 TTTAAAACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
11 2 0.04
12 10 0.22
13 30 0.67
14 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
ATAAATATAAAT
Found at i:1384186 original size:12 final size:14
Alignment explanation
Indices: 1384146--1384187 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
1384136 ATAAGATATA
*
1384146 AATATAATATATAAA
1 AATATAATATA-AAT
1384161 AATATAATATAAAT
1 AATATAATATAAAT
1384175 AAT-TAA-ATAAAT
1 AATATAATATAAAT
1384187 A
1 A
1384188 TTTTAAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 5 0.19
15 11 0.42
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATATAATATAAAT
Found at i:1384195 original size:34 final size:35
Alignment explanation
Indices: 1384112--1384195 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 35
1384102 TATCATATAT
1384112 TAATAATTTTGAATAAATATAATTATAAGATATAAATA
1 TAAT-ATTTT-AA-AAATATAATTATAAGATATAAATA
*
1384150 TAATA-TATAAAAATATAA-TATAA-ATAATTAAATA
1 TAATATTTTAAAAATATAATTATAAGAT-A-TAAATA
1384184 -AATATTTTAAAA
1 TAATATTTTAAAA
1384196 CTTACGTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
32 2 0.05
33 10 0.24
34 20 0.49
35 2 0.05
36 2 0.05
37 1 0.02
38 4 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (35 bp):
TAATATTTTAAAAATATAATTATAAGATATAAATA
Found at i:1384262 original size:11 final size:11
Alignment explanation
Indices: 1384218--1384265 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
1384208 TTAAATATTT
1384218 TATAAAAAT-A
1 TATAAAAATAA
1384228 TATAAAAATTAAA
1 TATAAAAA-T-AA
**
1384241 TATAATTATAA
1 TATAAAAATAA
1384252 TATAAAAATAA
1 TATAAAAATAA
1384263 TAT
1 TAT
1384266 TTAATATCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 8 0.26
11 15 0.48
12 1 0.03
13 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TATAAAAATAA
Found at i:1390648 original size:42 final size:42
Alignment explanation
Indices: 1390597--1390967 Score: 458
Period size: 42 Copynumber: 9.3 Consensus size: 42
1390587 AACGAGGTTA
* **
1390597 AAAGAGCTTGAGTGCCTCCTCGCTGATTCAAACGGTAGAGTG
1 AAAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAATAGAGTG
* * *
1390639 AAAGAGCTTGAGCGCCTCCTTGCTGATTCAAGCAATGGAGTG
1 AAAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAATAGAGTG
*
1390681 AAAGAGCTTGAGTGCCTTCTTGCTGATTCAAACAATAGAGTG
1 AAAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAATAGAGTG
*
1390723 AAAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAACAGAGTG
1 AAAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAATAGAGTG
1390765 -AA-A----GA--G-CTCCTTGCTGATTCAAACAATAGAGTG
1 AAAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAATAGAGTG
* *
1390798 AAACAGC-T---T---T--TTGCTGACTCAAACAATAGAGTG
1 AAAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAATAGAGTG
* *
1390831 GAAGAGCTAGAGTGCACT-CTTGCTGATTCAAACAATAGAGTG
1 AAAGAGCTTGAGTGC-CTCCTTGCTGATTCAAACAATAGAGTG
1390873 AAAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAAT-GAAGTG
1 AAAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAATAG-AGTG
* *
1390915 AAAGAGCTTGAGTGCTTTCTTGCTGATTCAAACAATAGAGTG
1 AAAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAATAGAGTG
1390957 AAAGAGCTTGA
1 AAAGAGCTTGA
1390968 AGCAAGTTCA
Statistics
Matches: 289, Mismatches: 22, Indels: 36
0.83 0.06 0.10
Matches are distributed among these distances:
33 53 0.18
34 3 0.01
35 2 0.01
36 2 0.01
37 1 0.00
40 1 0.00
41 6 0.02
42 220 0.76
43 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (42 bp):
AAAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAATAGAGTG
Found at i:1390780 original size:33 final size:33
Alignment explanation
Indices: 1390738--1390880 Score: 151
Period size: 33 Copynumber: 4.1 Consensus size: 33
1390728 GCTTGAGTGC
*
1390738 CTCCTTGCTGATTCAAACAACAGAGTGAAAGAG
1 CTCCTTGCTGATTCAAACAATAGAGTGAAAGAG
*
1390771 CTCCTTGCTGATTCAAACAATAGAGTGAAACAG
1 CTCCTTGCTGATTCAAACAATAGAGTGAAAGAG
** *
1390804 CTTTTTGCTGACTCAAACAATAGAGTGGAAGAGCTAGAGTG
1 CTCCTTGCTGATTCAAACAATAGAGT-G-A-A---AGA--G
*
1390845 CACTCTTGCTGATTCAAACAATAGAGTGAAAGAG
1 CTC-CTTGCTGATTCAAACAATAGAGTGAAAGAG
1390879 CT
1 CT
1390881 TGAGTGCCTC
Statistics
Matches: 90, Mismatches: 11, Indels: 17
0.76 0.09 0.14
Matches are distributed among these distances:
33 54 0.60
34 3 0.03
35 1 0.01
36 4 0.04
39 3 0.03
40 1 0.01
41 3 0.03
42 21 0.23
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (33 bp):
CTCCTTGCTGATTCAAACAATAGAGTGAAAGAG
Found at i:1390959 original size:192 final size:192
Alignment explanation
Indices: 1390618--1390964 Score: 554
Period size: 192 Copynumber: 1.8 Consensus size: 192
1390608 GTGCCTCCTC
* ** * * *
1390618 GCTGATTCAAACGGTAGAGTGAAAGAGCTTGAGCGCCTCCTTGCTGATTCAAGCAATGGAGTGAA
1 GCTGACTCAAACAATAGAGTGAAAGAGCTAGAGCGCCTCCTTGCTGATTCAAACAATAGAGTGAA
*
1390683 AGAGCTTGAGTGCCTTCTTGCTGATTCAAACAATAGAGTGAAAGAGCTTGAGTGCCTCCTTGCTG
66 AGAGCTTGAGTGCCTCCTTGCTGATTCAAACAATAGAGTGAAAGAGCTTGAGTGCCTCCTTGCTG
1390748 ATTCAAACAACAGAGTGAAAGAGCTCCTTGCTGATTCAAACAATAGAGTGAAACAGCTTTTT
131 ATTCAAACAACAGAGTGAAAGAGCTCCTTGCTGATTCAAACAATAGAGTGAAACAGCTTTTT
* *
1390810 GCTGACTCAAACAATAGAGTGGAAGAGCTAGAGTGCACT-CTTGCTGATTCAAACAATAGAGTGA
1 GCTGACTCAAACAATAGAGTGAAAGAGCTAGAGCGC-CTCCTTGCTGATTCAAACAATAGAGTGA
* *
1390874 AAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAAT-GAAGTGAAAGAGCTTGAGTGCTTTCTTGC
65 AAGAGCTTGAGTGCCTCCTTGCTGATTCAAACAATAG-AGTGAAAGAGCTTGAGTGCCTCCTTGC
*
1390938 TGATTCAAACAATAGAGTGAAAGAGCT
129 TGATTCAAACAACAGAGTGAAAGAGCT
1390965 TGAAGCAAGT
Statistics
Matches: 141, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
191 1 0.01
192 138 0.98
193 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (192 bp):
GCTGACTCAAACAATAGAGTGAAAGAGCTAGAGCGCCTCCTTGCTGATTCAAACAATAGAGTGAA
AGAGCTTGAGTGCCTCCTTGCTGATTCAAACAATAGAGTGAAAGAGCTTGAGTGCCTCCTTGCTG
ATTCAAACAACAGAGTGAAAGAGCTCCTTGCTGATTCAAACAATAGAGTGAAACAGCTTTTT
Found at i:1397020 original size:21 final size:21
Alignment explanation
Indices: 1396978--1397024 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
1396968 ACTATTTAAA
* *
1396978 ATAATATTAAAATTTTATTTT
1 ATAATATTAAAATTTAAATTT
* *
1396999 ATAATATTTATATTTAAATTT
1 ATAATATTAAAATTTAAATTT
1397020 A-AATA
1 ATAATA
1397025 AAATTATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAATATTAAAATTTAAATTT
Found at i:1398308 original size:11 final size:11
Alignment explanation
Indices: 1398289--1398400 Score: 60
Period size: 11 Copynumber: 10.4 Consensus size: 11
1398279 ATATATAACG
1398289 TAAAAATAAT-
1 TAAAAATAATA
1398299 TAAAATATAATA
1 TAAAA-ATAATA
1398311 TAAATAATAATA
1 TAAA-AATAATA
1398323 TTAATAAA-AATA
1 -TAA-AAATAATA
*
1398335 TAAAAAT--TT
1 TAAAAATAATA
*
1398344 TAAATAT-AT-
1 TAAAAATAATA
*
1398353 TAAAATTAATA
1 TAAAAATAATA
1398364 TAAATAA-AATAA
1 TAAA-AATAAT-A
**
1398376 TTTAAAT-ATA
1 TAAAAATAATA
*
1398386 TAAATATAATA
1 TAAAAATAATA
1398397 TAAA
1 TAAA
1398401 TATATATATT
Statistics
Matches: 79, Mismatches: 10, Indels: 25
0.69 0.09 0.22
Matches are distributed among these distances:
9 12 0.15
10 16 0.20
11 26 0.33
12 18 0.23
13 6 0.08
14 1 0.01
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:1398327 original size:29 final size:29
Alignment explanation
Indices: 1398295--1398410 Score: 86
Period size: 26 Copynumber: 4.0 Consensus size: 29
1398285 AACGTAAAAA
1398295 TAATTAAAATATAATATAAATAATAATAT
1 TAATTAAAATATAATATAAATAATAATAT
* **
1398324 TAA-TAAAA-AT-ATAAAAATTTTAA-A-
1 TAATTAAAATATAATATAAATAATAATAT
1398348 TATATTAAAAT-TAATATAAATAA-AATAATT
1 TA-ATTAAAATATAATATAAATAATAAT-A-T
1398378 TAAATATATAAATATAATATAAAT-ATATATAT
1 T-AAT-TA-AAATATAATATAAATAATA-ATAT
1398410 T
1 T
1398411 TTTCAGCAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 25
0.68 0.06 0.26
Matches are distributed among these distances:
24 2 0.03
25 2 0.03
26 18 0.27
27 9 0.13
28 6 0.09
29 3 0.04
30 3 0.04
31 3 0.04
32 7 0.10
33 12 0.18
34 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
TAATTAAAATATAATATAAATAATAATAT
Found at i:1398371 original size:33 final size:33
Alignment explanation
Indices: 1398305--1398402 Score: 105
Period size: 33 Copynumber: 2.9 Consensus size: 33
1398295 TAATTAAAAT
* *
1398305 ATAATATAAATA-AT-AATATTAATAAAAATATAA
1 ATAATTTAAATATATAAATA-TAATATAAATA-AA
1398338 A-AATTTTAAATATATTAAA-ATTAATATAAATAAA
1 ATAA-TTTAAATATA-TAAATA-TAATATAAATAAA
1398372 ATAATTTAAATATATAAATATAATATAAATA
1 ATAATTTAAATATATAAATATAATATAAATA
1398403 TATATATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
32 2 0.04
33 23 0.40
34 15 0.26
35 15 0.26
36 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (33 bp):
ATAATTTAAATATATAAATATAATATAAATAAA
Found at i:1398394 original size:19 final size:18
Alignment explanation
Indices: 1398305--1398406 Score: 76
Period size: 18 Copynumber: 5.9 Consensus size: 18
1398295 TAATTAAAAT
1398305 ATAATATAAATA-ATAATA
1 ATAATATAAATATATAA-A
*
1398323 TTAATA-AAA-ATATAAA
1 ATAATATAAATATATAAA
* *
1398339 A-ATTTTAAATATATTAAA
1 ATAATATAAATATA-TAAA
1398357 ATTAATAT--A-A-ATAAA
1 A-TAATATAAATATATAAA
*
1398372 ATAATTTAAATATATAAA
1 ATAATATAAATATATAAA
1398390 TATAATATAAATATATA
1 -ATAATATAAATATATA
1398407 TATTTTTCAG
Statistics
Matches: 65, Mismatches: 8, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
14 5 0.08
15 7 0.11
16 7 0.11
17 12 0.18
18 16 0.25
19 15 0.23
20 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATATAAATATATAAA
Found at i:1398401 original size:53 final size:55
Alignment explanation
Indices: 1398268--1398405 Score: 144
Period size: 53 Copynumber: 2.5 Consensus size: 55
1398258 AAAAAACATA
* * *
1398268 TATATATATATATATATAACGTAAAAATA-ATTAAAATATAATATAAATAATAATAT
1 TATAAATATATAAATATAA--TATAAATATATTAAAATATAATATAAATAATAATAT
* * *
1398324 TAATAAAAATATAAA-A-ATTTTAAATATATTAAAAT-TAATATAAATAA-AATAAT
1 T-ATAAATATATAAATATAATATAAATATATTAAAATATAATATAAATAATAAT-AT
1398377 T-TAAATATATAAATATAATATAAATATAT
1 TATAAATATATAAATATAATATAAATATAT
1398406 ATATTTTTCA
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
51 11 0.16
52 4 0.06
53 32 0.47
54 8 0.12
55 1 0.01
56 2 0.03
57 10 0.15
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (55 bp):
TATAAATATATAAATATAATATAAATATATTAAAATATAATATAAATAATAATAT
Found at i:1398829 original size:25 final size:24
Alignment explanation
Indices: 1398797--1398868 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
1398787 ACAAATATAT
1398797 ATTA-ATTAAATTAATATTAAATTA
1 ATTATATTAAA-TAATATTAAATTA
* *
1398821 ATTATATTAAGATATTATTAAAGATA
1 ATTATATTAA-ATAATATTAAA-TTA
* *
1398847 ATCATATTACATAATATTAAAT
1 ATTATATTAAATAATATTAAAT
1398869 ATATTACATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 4 0.10
25 24 0.62
26 11 0.28
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (24 bp):
ATTATATTAAATAATATTAAATTA
Found at i:1398840 original size:20 final size:18
Alignment explanation
Indices: 1398790--1398841 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 18
1398780 AATATCAACA
1398790 AATATATATTAATTAAATT
1 AATAT-TATTAATTAAATT
*
1398809 AATATTAAATTAATTATATT
1 AATATT--ATTAATTAAATT
1398829 AAGATATTATTAA
1 -A-ATATTATTAA
1398842 AGATAATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 5 0.18
20 16 0.57
21 1 0.04
22 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AATATTATTAATTAAATT
Found at i:1400431 original size:8 final size:7
Alignment explanation
Indices: 1400413--1400452 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
1400403 TGTCAAGAAC
1400413 AAAAAAT
1 AAAAAAT
1400420 AAAAAAT
1 AAAAAAT
1400427 AAAAAAT
1 AAAAAAT
*
1400434 AAAAAAC
1 AAAAAAT
1400441 ATAAAAAT
1 A-AAAAAT
1400449 AAAA
1 AAAA
1400453 GATGTCTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:1400431 original size:15 final size:16
Alignment explanation
Indices: 1400413--1400452 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
1400403 TGTCAAGAAC
1400413 AAAAAAT-AAAAA-AT
1 AAAAAATAAAAAACAT
1400427 AAAAAATAAAAAACAT
1 AAAAAATAAAAAACAT
1400443 -AAAAATAAAA
1 AAAAAATAAAA
1400453 GATGTCTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.29
15 15 0.62
16 2 0.08
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAAAACAT
Found at i:1401025 original size:12 final size:13
Alignment explanation
Indices: 1401004--1401034 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
1400994 ATCATCAAAT
1401004 AAATATATTTAATA
1 AAATAT-TTTAATA
1401018 AAATATTTTAATA
1 AAATATTTTAATA
1401031 AAAT
1 AAAT
1401035 TAAAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAATATTTTAATA
Found at i:1401130 original size:40 final size:39
Alignment explanation
Indices: 1401086--1401162 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
1401076 TATAAATTAT
*
1401086 TTATTAT-GTTAATTTTAAAAAAAATAATAAATAAATATGA
1 TTATTATCATTAATTTT-AAAAAAATAAT-AATAAATATGA
* * *
1401126 TTATTTTCATTAGTTTTAAAAAAATAATTATAAATAT
1 TTATTATCATTAATTTTAAAAAAATAATAATAAATAT
1401163 AGATAATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 8 0.25
40 17 0.53
41 7 0.22
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (39 bp):
TTATTATCATTAATTTTAAAAAAATAATAATAAATATGA
Found at i:1401311 original size:17 final size:17
Alignment explanation
Indices: 1401252--1401324 Score: 62
Period size: 17 Copynumber: 4.4 Consensus size: 17
1401242 ATCTTTAACG
*
1401252 TATTTTATA-TAAATTT
1 TATTTTATATTAAATTA
* * *
1401268 TAATTCATTTTAAATTAA
1 TATTTTATATTAAATT-A
* *
1401286 TATTTTAT-TCATATTA
1 TATTTTATATTAAATTA
1401302 T-TTTTATATTAAATTA
1 TATTTTATATTAAATTA
1401318 TATTTTA
1 TATTTTA
1401325 ATTTTTTATA
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
15 6 0.14
16 15 0.35
17 16 0.37
18 6 0.14
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTATATTAAATTA
Found at i:1401735 original size:22 final size:22
Alignment explanation
Indices: 1401704--1401756 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
1401694 TCTACTTTTT
*
1401704 TAAAAA-AATTAAAATATAATA
1 TAAAAATAATTAAAATATAAAA
1401725 TAAAAATAATTAAAATATAAAA
1 TAAAAATAATTAAAATATAAAA
1401747 TATAAAATAA
1 TA-AAAATAA
1401757 ATATATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 6 0.21
22 16 0.55
23 7 0.24
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAAATAATTAAAATATAAAA
Found at i:1401739 original size:29 final size:29
Alignment explanation
Indices: 1401707--1401796 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 29
1401697 ACTTTTTTAA
1401707 AAAAATTAAAATATAATATAAAAATAATT
1 AAAAATTAAAATATAATATAAAAATAATT
* *
1401736 -AAAATATAAAATATAAAATAAATAT-ATT
1 AAAAAT-TAAAATATAATATAAAAATAATT
* * *
1401764 AATATATTAAAATTTATATAATATAAATAATT
1 AA-AAATTAAAATATA-AT-ATAAAAATAATT
1401796 A
1 A
1401797 TTATATTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
28 8 0.17
29 26 0.54
30 4 0.08
31 6 0.12
32 4 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAAATTAAAATATAATATAAAAATAATT
Found at i:1401744 original size:11 final size:11
Alignment explanation
Indices: 1401710--1401744 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
1401700 TTTTTAAAAA
1401710 AATTAAAATAT
1 AATTAAAATAT
1401721 AATATAAAA-AT
1 AAT-TAAAATAT
1401732 AATTAAAATAT
1 AATTAAAATAT
1401743 AA
1 AA
1401745 AATATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 5 0.23
11 12 0.55
12 5 0.23
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AATTAAAATAT
Found at i:1401747 original size:7 final size:7
Alignment explanation
Indices: 1401708--1401755 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
1401698 CTTTTTTAAA
1401708 AAAAT-T
1 AAAATAT
1401714 AAAATAT
1 AAAATAT
*
1401721 AATATA-
1 AAAATAT
1401727 AAAATAATT
1 AAAAT-A-T
1401736 AAAATAT
1 AAAATAT
1401743 AAAATAT
1 AAAATAT
1401750 AAAATA
1 AAAATA
1401756 AATATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
6 9 0.25
7 21 0.58
8 1 0.03
9 5 0.14
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATAT
Found at i:1401787 original size:17 final size:17
Alignment explanation
Indices: 1401767--1401816 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
1401757 ATATATTAAT
1401767 ATATTAAAATTTATATA
1 ATATTAAAATTTATATA
*
1401784 ATA-TAAATAATTAT-T-
1 ATATTAAA-ATTTATATA
1401799 ATATTAAAATTTATATA
1 ATATTAAAATTTATATA
1401816 A
1 A
1401817 ATTTACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 8 0.30
16 10 0.37
17 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATTAAAATTTATATA
Found at i:1401807 original size:32 final size:33
Alignment explanation
Indices: 1401746--1401817 Score: 119
Period size: 32 Copynumber: 2.2 Consensus size: 33
1401736 AAAATATAAA
1401746 ATATAAAATAAATATATTAATATATTAAAATTT
1 ATATAAAATAAATATATTAATATATTAAAATTT
* *
1401779 ATATAATATAAATA-ATTATTATATTAAAATTT
1 ATATAAAATAAATATATTAATATATTAAAATTT
1401811 ATATAAA
1 ATATAAA
1401818 TTTACAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 23 0.64
33 13 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
ATATAAAATAAATATATTAATATATTAAAATTT
Found at i:1402077 original size:11 final size:11
Alignment explanation
Indices: 1402061--1402115 Score: 58
Period size: 11 Copynumber: 4.8 Consensus size: 11
1402051 TTTGGTTAAA
*
1402061 AAAATTACATT
1 AAAATTAAATT
1402072 AAAATTAAATT
1 AAAATTAAATT
1402083 -AAATTAAATTT
1 AAAATTAAA-TT
*
1402094 ATAAATATAAAAT
1 A-AAAT-TAAATT
1402107 AAAATTAAA
1 AAAATTAAA
1402116 AATATTTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 8 0.21
11 16 0.42
12 4 0.11
13 6 0.16
14 4 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATTAAATT
Found at i:1402109 original size:19 final size:19
Alignment explanation
Indices: 1402077--1402120 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
1402067 ACATTAAAAT
* *
1402077 TAAAT-TAAATTAAATTTA
1 TAAATATAAAATAAAATTA
1402095 TAAATATAAAATAAAATTA
1 TAAATATAAAATAAAATTA
*
1402114 AAAATAT
1 TAAATAT
1402121 TTAAGCCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAATATAAAATAAAATTA
Found at i:1402223 original size:82 final size:82
Alignment explanation
Indices: 1402111--1402281 Score: 238
Period size: 82 Copynumber: 2.1 Consensus size: 82
1402101 TAAAATAAAA
* * *
1402111 TTAAAAATATTTAAGCCTTCTAATCCTAAAAATAATTACTAAAAAAAAAAT-ATTCA-CATTTTT
1 TTAAAAATATTTAAACATTCTAATCCTAAAAATAACTACTAAAAAAAAAATAATT-ATCATTTTT
*
1402174 TAAATATATCTTTTAATT
65 TAAATATATATTTTAATT
* * * *
1402192 TTAAAAGATATTTAAACATTCTAATCTTAAAAATAACTACTCAAAAAAAAGTAATTATCTTTTTT
1 TTAAAA-ATATTTAAACATTCTAATCCTAAAAATAACTACTAAAAAAAAAATAATTATCATTTTT
1402257 TAAATATATATTTTAATT
65 TAAATATATATTTTAATT
1402275 TTAAAAA
1 TTAAAAA
1402282 ATAATTCTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
81 6 0.08
82 41 0.52
83 32 0.41
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (82 bp):
TTAAAAATATTTAAACATTCTAATCCTAAAAATAACTACTAAAAAAAAAATAATTATCATTTTTT
AAATATATATTTTAATT
Found at i:1402302 original size:19 final size:20
Alignment explanation
Indices: 1402249--1402302 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
1402239 AAAGTAATTA
*
1402249 TCTTT-TTTTAAATATATAT
1 TCTTTATTTTAAAAATATAT
*
1402268 T-TTAATTTTAAAAA-ATAAT
1 TCTTTATTTTAAAAATAT-AT
1402287 TCTTTATTTTAAAAAT
1 TCTTTATTTTAAAAAT
1402303 CTCTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.14
19 12 0.43
20 12 0.43
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (20 bp):
TCTTTATTTTAAAAATATAT
Found at i:1405014 original size:35 final size:35
Alignment explanation
Indices: 1404975--1405110 Score: 213
Period size: 35 Copynumber: 3.9 Consensus size: 35
1404965 AAAAAATAGA
*
1404975 ATGATGGGCATGGAATAAAAAAATGAAGGTATAAT
1 ATGATGGGCATGGAATAAAAAAATGAAGGCATAAT
* *
1405010 ATGATGGGCATGGAATATAAAAATGAAGGCATGGA-
1 ATGATGGGCATGGAATAAAAAAATGAAGGCAT-AAT
1405045 ATGATGGGCATGGAATAAAAAAATGAAGGCATAAT
1 ATGATGGGCATGGAATAAAAAAATGAAGGCATAAT
*
1405080 ATGATGGGCATGGAAT-AAAAATTGAAGGCAT
1 ATGATGGGCATGGAATAAAAAAATGAAGGCAT
1405111 GGAATGATGG
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
34 15 0.16
35 77 0.83
36 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.28, T:0.21
Consensus pattern (35 bp):
ATGATGGGCATGGAATAAAAAAATGAAGGCATAAT
Found at i:1405119 original size:69 final size:70
Alignment explanation
Indices: 1404973--1405120 Score: 271
Period size: 70 Copynumber: 2.1 Consensus size: 70
1404963 AAAAAAAATA
*
1404973 GAATGATGGGCATGGAATAAAAAAATGAAGGTATAATATGATGGGCATGGAATATAAAAATGAAG
1 GAATGATGGGCATGGAATAAAAAAATGAAGGCATAATATGATGGGCATGGAATATAAAAATGAAG
1405038 GCATG
66 GCATG
*
1405043 GAATGATGGGCATGGAATAAAAAAATGAAGGCATAATATGATGGGCATGGAATA-AAAATTGAAG
1 GAATGATGGGCATGGAATAAAAAAATGAAGGCATAATATGATGGGCATGGAATATAAAAATGAAG
1405107 GCATG
66 GCATG
1405112 GAATGATGG
1 GAATGATGG
1405121 ATAAAAATGA
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
69 23 0.30
70 53 0.70
ACGTcount: A:0.45, C:0.05, G:0.30, T:0.21
Consensus pattern (70 bp):
GAATGATGGGCATGGAATAAAAAAATGAAGGCATAATATGATGGGCATGGAATATAAAAATGAAG
GCATG
Found at i:1406461 original size:79 final size:79
Alignment explanation
Indices: 1406330--1406836 Score: 836
Period size: 79 Copynumber: 6.4 Consensus size: 79
1406320 GTTAAGTTTC
* *
1406330 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
1406395 TTATTTTTAAAACA
66 TTATTTCTAAAACA
* *
1406409 TCAATTTTTCATAATCGGGGATACTCCAGCCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1406474 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
1406488 CCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
1406553 TTATCTCTAAAACA
66 TTATTTCTAAAACA
*
1406567 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
1406632 TTATTTCTAAAATA
66 TTATTTCTAAAACA
* * * *
1406646 TTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCTAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1406711 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * * *
1406725 CCAATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTTCGAGAGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1406790 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
1406804 TCAATTTTTCATAA-CGGGGATACTCTAACCCCG
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCG
1406837 ATTTTATTCT
Statistics
Matches: 396, Mismatches: 32, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
78 17 0.04
79 379 0.96
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Found at i:1406834 original size:50 final size:51
Alignment explanation
Indices: 1406771--1406914 Score: 159
Period size: 51 Copynumber: 2.8 Consensus size: 51
1406761 ATTTTCGAGA
*
1406771 GGATACTCCAACCCCGGTTTTATTTCTAAAACA-TCAATTTTTCATAA-CGG
1 GGATACTCTAACCCCGGTTTTATTTCTAAAACACT-AATTTTTCATAATCGG
* * * **
1406821 GGATACTCTAACCCCGATTTTATTCTTTAGAACACTGTTTTTTCATAATCGG
1 GGATACTCTAACCCCGGTTTTATT-TCTAAAACACTAATTTTTCATAATCGG
* * *
1406873 GGATACTCTAGCCCC-GTTGTTATCTCTAAAATACTAATTTTT
1 GGATACTCTAACCCCGGTT-TTATTTCTAAAACACTAATTTTT
1406915 TTCTCGTCAG
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
50 22 0.29
51 32 0.42
52 22 0.29
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.38
Consensus pattern (51 bp):
GGATACTCTAACCCCGGTTTTATTTCTAAAACACTAATTTTTCATAATCGG
Found at i:1410900 original size:13 final size:13
Alignment explanation
Indices: 1410859--1410912 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
1410849 CCGTTACAAG
1410859 CAATGTATCGATA
1 CAATGTATCGATA
1410872 CAAT-T-TC-AT-
1 CAATGTATCGATA
*
1410881 C-ATGTATCAATA
1 CAATGTATCGATA
1410893 CAATGTATCGATA
1 CAATGTATCGATA
*
1410906 CATTGTA
1 CAATGTA
1410913 CCATGTATCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.12
11 4 0.12
12 2 0.06
13 20 0.59
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1410982 original size:20 final size:20
Alignment explanation
Indices: 1410957--1411016 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
1410947 CTGCCAATCT
1410957 CATGTATCGATACAATTATC
1 CATGTATCGATACAATTATC
* * *
1410977 CATGTATTGATACAATGA-G
1 CATGTATCGATACAATTATC
1410996 CATGTATCGATACAATGTATC
1 CATGTATCGATACAAT-TATC
1411017 GATACAAAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTATC
Found at i:1411001 original size:19 final size:20
Alignment explanation
Indices: 1410957--1411012 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
1410947 CTGCCAATCT
*
1410957 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGATC
* *
1410977 CATGTATTGATACAATGA-G
1 CATGTATCGATACAATGATC
1410996 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1411013 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATGATC
Found at i:1411015 original size:13 final size:13
Alignment explanation
Indices: 1410997--1411023 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1410987 TACAATGAGC
1410997 ATGTATCGATACA
1 ATGTATCGATACA
1411010 ATGTATCGATACA
1 ATGTATCGATACA
1411023 A
1 A
1411024 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1417990 original size:52 final size:52
Alignment explanation
Indices: 1417927--1418096 Score: 148
Period size: 52 Copynumber: 3.3 Consensus size: 52
1417917 ACTTTGACTC
* * *
1417927 TATAAAGCTTGACCTTTTTATATAGGTGCTAACTAATTGTGGATTTAGAGTT
1 TATAAGGCTTGACCTTTCTATATAGGTGCTAACTAATTGTAGATTTAGAGTT
* * * * * * * *
1417979 TGTAAGGCTTGACCTTTCTATACAGATGCCAAATAA-TGTAAACTTAGATTT
1 TATAAGGCTTGACCTTTCTATATAGGTGCTAACTAATTGTAGATTTAGAGTT
* * * *
1418030 TATAAGGCTTAATCTCTCTATATAGGTG-TCAACTAATTGTCGATTTAGA-TT
1 TATAAGGCTTGACCTTTCTATATAGGTGCT-AACTAATTGTAGATTTAGAGTT
* *
1418081 CTATAGGGCTTAACCT
1 -TATAAGGCTTGACCT
1418097 CCTTGTAGAG
Statistics
Matches: 91, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
51 40 0.44
52 51 0.56
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (52 bp):
TATAAGGCTTGACCTTTCTATATAGGTGCTAACTAATTGTAGATTTAGAGTT
Found at i:1427463 original size:44 final size:44
Alignment explanation
Indices: 1427400--1427489 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
1427390 CAAGTTGATG
* *
1427400 AAACTTATTTGCTTAGTTTTGTTACTTCCTTGAAACTCCTTTTT
1 AAACTTATTTACTTAGTTTTGTCACTTCCTTGAAACTCCTTTTT
*
1427444 AAACTTATTTACTTAGTTTTGTCATTTCCTTGAAACTCCTTTTT
1 AAACTTATTTACTTAGTTTTGTCACTTCCTTGAAACTCCTTTTT
1427488 AA
1 AA
1427490 GTTTATCCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (44 bp):
AAACTTATTTACTTAGTTTTGTCACTTCCTTGAAACTCCTTTTT
Found at i:1442424 original size:15 final size:17
Alignment explanation
Indices: 1442401--1442432 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1442391 AAACAAGTTG
1442401 GTAATAAAAAG-ATAAA
1 GTAATAAAAAGAATAAA
1442417 GTAA-AAAAAGAATAAA
1 GTAATAAAAAGAATAAA
1442433 TCATATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (17 bp):
GTAATAAAAAGAATAAA
Found at i:1442665 original size:25 final size:26
Alignment explanation
Indices: 1442637--1442695 Score: 66
Period size: 30 Copynumber: 2.2 Consensus size: 26
1442627 ACCCAATTGG
1442637 ATAAAG-AGAATAAATCATATCAAAA
1 ATAAAGAAGAATAAATCATATCAAAA
*
1442662 ATAAAGTAAAAAGGATAAATCATATCAAAA
1 ATAAAG----AAGAATAAATCATATCAAAA
1442692 ATAA
1 ATAA
1442696 TTTCCAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.21
30 22 0.79
ACGTcount: A:0.64, C:0.07, G:0.08, T:0.20
Consensus pattern (26 bp):
ATAAAGAAGAATAAATCATATCAAAA
Found at i:1444400 original size:22 final size:20
Alignment explanation
Indices: 1444364--1444406 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
1444354 GGTATAGGTA
1444364 AATTCTAATTAAAATTTATTT
1 AATTCTAATTAAAATTT-TTT
*
1444385 AATTCTTAATTTAAATTTTTT
1 AATTC-TAATTAAAATTTTTT
1444406 A
1 A
1444407 TATTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTCTAATTAAAATTTTTT
Found at i:1444830 original size:20 final size:21
Alignment explanation
Indices: 1444807--1444860 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
1444797 TGAGTTAAAT
1444807 TAATTTAAAATTTTAAT-TTA
1 TAATTTAAAATTTTAATATTA
1444827 TAA-TTAAAA--TTAATATTA
1 TAATTTAAAATTTTAATATTA
*
1444845 AAATATTAAAATTTTA
1 TAAT-TTAAAATTTTA
1444861 TTTTTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 5 0.18
18 5 0.18
19 6 0.21
20 9 0.32
22 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATTTAAAATTTTAATATTA
Found at i:1445190 original size:3 final size:3
Alignment explanation
Indices: 1445182--1445219 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1445172 TTTTTCTTTA
1445182 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1445220 AGCATCATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1446031 original size:16 final size:17
Alignment explanation
Indices: 1445991--1446035 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
1445981 TTTTAAAATA
* *
1445991 TATTTCATCATATATTT
1 TATTTTATCATATATTG
1446008 TAATTTTATCAT-TATTG
1 T-ATTTTATCATATATTG
1446025 TATTTTATCAT
1 TATTTTATCAT
1446036 CATCATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 10 0.40
17 6 0.24
18 9 0.36
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTTTATCATATATTG
Found at i:1446430 original size:12 final size:12
Alignment explanation
Indices: 1446415--1446439 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1446405 TTGAAAAAAA
1446415 ATAAAAATTTTT
1 ATAAAAATTTTT
1446427 ATAAAAATTTTT
1 ATAAAAATTTTT
1446439 A
1 A
1446440 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAAAAATTTTT
Found at i:1446518 original size:14 final size:14
Alignment explanation
Indices: 1446464--1446522 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
1446454 ATATTTATCT
* *
1446464 ATTTTAAATAAATA
1 ATTTTTAATATATA
*
1446478 ATTATTTAAAATAT-
1 ATT-TTTAATATATA
* *
1446492 ATTTTT-TTTTATA
1 ATTTTTAATATATA
1446505 ATTTTTAATATATA
1 ATTTTTAATATATA
1446519 ATTT
1 ATTT
1446523 ATTTTTTGCG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
12 3 0.09
13 9 0.26
14 15 0.44
15 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTTTAATATATA
Found at i:1446518 original size:26 final size:29
Alignment explanation
Indices: 1446475--1446529 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
1446465 TTTTAAATAA
1446475 ATAATTATTTAAAATAT-ATTT-TTTTTT
1 ATAATTATTTAAAATATAATTTATTTTTT
*
1446502 ATAATT-TTTAATATATAATTTATTTTTT
1 ATAATTATTTAAAATATAATTTATTTTTT
1446530 GCGCGTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 9 0.36
27 10 0.40
28 6 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
ATAATTATTTAAAATATAATTTATTTTTT
Found at i:1447174 original size:38 final size:37
Alignment explanation
Indices: 1447130--1447222 Score: 93
Period size: 38 Copynumber: 2.5 Consensus size: 37
1447120 ATTTAATCAG
*
1447130 TTTTAAAATTATCTTTAATTATTA-TAAATTTT-AAT-
1 TTTTAAAATTATCTTTAATT-TAAGTAAATTTTAAATA
* *
1447165 TTTAATTAAATTATATTGTAATTTAAGTAAATTTTAAATA
1 TTT--TAAAATTATCTT-TAATTTAAGTAAATTTTAAATA
*
1447205 TTTTAAATTTATCTTTAA
1 TTTTAAAATTATCTTTAA
1447223 ATCAATTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
35 3 0.07
37 15 0.33
38 22 0.48
39 3 0.07
40 3 0.07
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (37 bp):
TTTTAAAATTATCTTTAATTTAAGTAAATTTTAAATA
Found at i:1447534 original size:18 final size:19
Alignment explanation
Indices: 1447511--1447553 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
1447501 AAAAATACCA
*
1447511 TTATTTTATTTA-TTTTTC
1 TTATTTTATATATTTTTTC
1447529 TTATTTT-TATATTTTTTC
1 TTATTTTATATATTTTTTC
1447547 TT-TTTTA
1 TTATTTTA
1447554 ATTCAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (19 bp):
TTATTTTATATATTTTTTC
Found at i:1448163 original size:19 final size:19
Alignment explanation
Indices: 1448135--1448179 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1448125 AAAAAGTTTA
1448135 AAATAAAATAATAAAAAAT
1 AAATAAAATAATAAAAAAT
* *
1448154 AAATACAATAATAAATAAT
1 AAATAAAATAATAAAAAAT
1448173 AAATAAA
1 AAATAAA
1448180 TTTATCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATAAAATAATAAAAAAT
Found at i:1448669 original size:16 final size:15
Alignment explanation
Indices: 1448648--1448677 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1448638 TATAAAAATA
1448648 ATTATTTTATATTATC
1 ATTATTTTAT-TTATC
1448664 ATTATTTTATTTAT
1 ATTATTTTATTTAT
1448678 TCTTATAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTATTTTATTTATC
Found at i:1449003 original size:9 final size:9
Alignment explanation
Indices: 1448989--1449014 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1448979 TTTAAATTTT
1448989 TAAAAAATA
1 TAAAAAATA
1448998 TAAAAAATA
1 TAAAAAATA
1449007 TAAAAAAT
1 TAAAAAAT
1449015 CGTAGTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
TAAAAAATA
Found at i:1450050 original size:20 final size:21
Alignment explanation
Indices: 1450021--1450059 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1450011 TAGTAGTATT
*
1450021 TTTTTGAATTA-TCTTTTCAG
1 TTTTTAAATTAGTCTTTTCAG
1450041 TTTTTAAATTAGTCTTTTC
1 TTTTTAAATTAGTCTTTTC
1450060 CAAATATGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.62
Consensus pattern (21 bp):
TTTTTAAATTAGTCTTTTCAG
Found at i:1450108 original size:13 final size:14
Alignment explanation
Indices: 1450086--1450118 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1450076 GCAATTTTGA
1450086 TTTA-ATTATTA-T
1 TTTATATTATTATT
1450098 TTTATATTATTATT
1 TTTATATTATTATT
1450112 TTTATAT
1 TTTATAT
1450119 ATAGGCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 7 0.37
14 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATATTATTATT
Found at i:1451202 original size:58 final size:58
Alignment explanation
Indices: 1451069--1451222 Score: 150
Period size: 58 Copynumber: 2.7 Consensus size: 58
1451059 CCCTTAGATT
* * ** *
1451069 ATGAAAAATAACCTAAATGACATT-AAAATTCATAAAATTGTATTCAAGTCCCTAAGTC
1 ATGAAAAATAACCTAAATGAC-TTCAAAATTCATAAAATGGCATAAAAGTCCCTAAATC
*** * * **
1451127 ATGGTTAATGACCTAAATGACTTCAAAATTCATGAAATGGCATAAAAGTTTCTAAATC
1 ATGAAAAATAACCTAAATGACTTCAAAATTCATAAAATGGCATAAAAGTCCCTAAATC
* *
1451185 ATGAAAAATAACTTAAAT-AGCATCAAAATTCATAAAAT
1 ATGAAAAATAACCTAAATGA-CTTCAAAATTCATAAAAT
1451223 TACATCAAAA
Statistics
Matches: 75, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
57 3 0.04
58 72 0.96
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (58 bp):
ATGAAAAATAACCTAAATGACTTCAAAATTCATAAAATGGCATAAAAGTCCCTAAATC
Found at i:1453873 original size:25 final size:25
Alignment explanation
Indices: 1453844--1453932 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
1453834 ATTGAAAATA
1453844 TAATTGTTCTTAATATTATCTTGCT
1 TAATTGTTCTTAATATTATCTTGCT
* * *
1453869 TAATTGTTCAATTATTAATTATAATTGAAAAT
1 TAATTGTTC--TTAAT-ATTAT-CTTG---CT
1453901 ATAATTGTTCTTAATATTATCTTGCT
1 -TAATTGTTCTTAATATTATCTTGCT
1453927 TAATTG
1 TAATTG
1453933 AAAATAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
25 15 0.30
26 1 0.02
27 4 0.08
28 5 0.10
29 6 0.12
30 5 0.10
31 4 0.08
32 1 0.02
33 9 0.18
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.52
Consensus pattern (25 bp):
TAATTGTTCTTAATATTATCTTGCT
Found at i:1454514 original size:21 final size:21
Alignment explanation
Indices: 1454488--1454529 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1454478 TTTGTATAAA
1454488 ATTTGTATTAAAGG-GGAGAAC
1 ATTTGTATT-AAGGAGGAGAAC
1454509 ATTTGTATTAAGGAGGAGAAC
1 ATTTGTATTAAGGAGGAGAAC
1454530 TTGAATAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.29, T:0.29
Consensus pattern (21 bp):
ATTTGTATTAAGGAGGAGAAC
Found at i:1454634 original size:17 final size:17
Alignment explanation
Indices: 1454612--1454647 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1454602 AAAGAAAAGA
1454612 GATGTTTCACAAATTGG
1 GATGTTTCACAAATTGG
1454629 GATGTTTCACAAATTGG
1 GATGTTTCACAAATTGG
1454646 GA
1 GA
1454648 GAATTCGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (17 bp):
GATGTTTCACAAATTGG
Found at i:1455444 original size:20 final size:20
Alignment explanation
Indices: 1455396--1455447 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1455386 GTATTGATAC
* *
1455396 ATTGTATCAATACATTATGA
1 ATTGTATCGATACATGATGA
*
1455416 ATTGTATCGATACATGGTGA
1 ATTGTATCGATACATGATGA
1455436 ATTGTATCGATA
1 ATTGTATCGATA
1455448 TATTGGGCCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGATGA
Found at i:1456519 original size:23 final size:23
Alignment explanation
Indices: 1456466--1456549 Score: 65
Period size: 23 Copynumber: 3.9 Consensus size: 23
1456456 TTAACGTAAT
1456466 TATTTTTAAAATATAATATTTAA
1 TATTTTTAAAATATAATATTTAA
** * *
1456489 TAAATTTATAATTTAA-ATTTTAA
1 TATTTTTAAAATATAATA-TTTAA
1456512 TATTTTT--AATAT--T-TTT-A
1 TATTTTTAAAATATAATATTTAA
*
1456529 TATTTTTAAAAAATAATATTT
1 TATTTTTAAAATATAATATTT
1456550 TTAAACTTAG
Statistics
Matches: 46, Mismatches: 8, Indels: 15
0.67 0.12 0.22
Matches are distributed among these distances:
17 8 0.17
18 3 0.07
19 4 0.09
21 5 0.11
22 4 0.09
23 22 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTTTAAAATATAATATTTAA
Found at i:1456520 original size:9 final size:9
Alignment explanation
Indices: 1456506--1456537 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
1456496 ATAATTTAAA
1456506 TTTTAATAT
1 TTTTAATAT
1456515 TTTTAATAT
1 TTTTAATAT
1456524 TTTT-ATAT
1 TTTTAATAT
1456532 TTTTAA
1 TTTTAA
1456538 AAAATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTAATAT
Found at i:1456531 original size:17 final size:16
Alignment explanation
Indices: 1456466--1456554 Score: 67
Period size: 16 Copynumber: 5.6 Consensus size: 16
1456456 TTAACGTAAT
* *
1456466 TATTTTTAAAATATAA
1 TATTTTTAAATTTTAA
*
1456482 TATTTAATAAA-TTT-A
1 TATTT-TTAAATTTTAA
*
1456497 TA-ATTTAAATTTTAA
1 TATTTTTAAATTTTAA
*
1456512 TATTTTTAATATTTTTA
1 TATTTTTAA-ATTTTAA
***
1456529 TATTTTTAAAAAATAA
1 TATTTTTAAATTTTAA
1456545 TATTTTTAAA
1 TATTTTTAAA
1456555 CTTAGAAATA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
13 4 0.07
14 4 0.07
15 6 0.10
16 25 0.43
17 19 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTTTTAAATTTTAA
Found at i:1459041 original size:15 final size:16
Alignment explanation
Indices: 1459021--1459050 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1459011 CAACGACAAC
1459021 AACAACAA-GATGATT
1 AACAACAATGATGATT
1459036 AACAACAATGATGAT
1 AACAACAATGATGAT
1459051 AATGAATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (16 bp):
AACAACAATGATGATT
Found at i:1463045 original size:13 final size:13
Alignment explanation
Indices: 1463027--1463054 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1463017 AAATAGAGTG
1463027 AAAGGTCTTCTCC
1 AAAGGTCTTCTCC
1463040 AAAGGTCTTCTCC
1 AAAGGTCTTCTCC
1463053 AA
1 AA
1463055 TAGTGGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (13 bp):
AAAGGTCTTCTCC
Found at i:1464420 original size:13 final size:13
Alignment explanation
Indices: 1464402--1464427 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1464392 CAATTTTTTG
1464402 TGTATCGATACAT
1 TGTATCGATACAT
1464415 TGTATCGATACAT
1 TGTATCGATACAT
1464428 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1464439 original size:32 final size:33
Alignment explanation
Indices: 1464382--1464445 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1464372 TACAGGCCAA
**
1464382 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1464415 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1464446 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1471320 original size:20 final size:20
Alignment explanation
Indices: 1471295--1471348 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1471285 GTTACAAGTA
**
1471295 ATGTATCGATACAAT-TCATT
1 ATGTATCGATACAATGT-ACC
1471315 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
1471335 ATGTATCGATACAA
1 ATGTATCGATACAA
1471349 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1471421 original size:19 final size:18
Alignment explanation
Indices: 1471376--1471433 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
1471366 ACTGCTAGTT
1471376 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
1471395 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
*
1471414 ATCATGTATTGATACAATG
1 -TCATGTATCGATACAATG
1471433 T
1 T
1471434 ATCGATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
20 16 0.44
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:1474651 original size:11 final size:11
Alignment explanation
Indices: 1474630--1474663 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1474620 CGATTTAATA
1474630 ATTTATATATTT
1 ATTT-TATATTT
1474642 ATTTTATATTT
1 ATTTTATATTT
1474653 ATTTTAT-TTT
1 ATTTTATATTT
1474663 A
1 A
1474664 AAAATATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.18
11 14 0.64
12 4 0.18
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTTATATTT
Found at i:1474658 original size:16 final size:16
Alignment explanation
Indices: 1474633--1474705 Score: 58
Period size: 16 Copynumber: 4.6 Consensus size: 16
1474623 TTTAATAATT
1474633 TATATA-TTTATTTTA
1 TATATATTTTATTTTA
*
1474648 TATTTATTTTATTTTA
1 TATATATTTTATTTTA
* * *
1474664 AAAATATTATATATTTA
1 TATATATTTTAT-TTTA
* * *
1474681 TATAAATTTTAATATA
1 TATATATTTTATTTTA
*
1474697 TATTTATTT
1 TATATATTT
1474706 ATTCATAACG
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
15 5 0.12
16 27 0.63
17 11 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATATTTTATTTTA
Found at i:1474697 original size:27 final size:27
Alignment explanation
Indices: 1474641--1474708 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
1474631 TTTATATATT
* **
1474641 TATTTTATATTTATTTTATTTTAAAAA
1 TATTATATATTTATTAAATTTTAAAAA
*
1474668 TATTATATATTTATATAAATTTT-AATA
1 TATTATATATTTAT-TAAATTTTAAAAA
*
1474695 TA-TATTTATTTATT
1 TATTATATATTTATT
1474709 CATAACGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.03
26 10 0.29
27 18 0.51
28 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTATATATTTATTAAATTTTAAAAA
Found at i:1477816 original size:34 final size:29
Alignment explanation
Indices: 1477752--1477816 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 29
1477742 TCATAATTGA
*
1477752 TATTTATTATAATTAATTATATAATATTT
1 TATTTATTATAATTAAATATATAATATTT
1477781 TATTATATCTATAATTATAATATATAACATATTT
1 TATT-TAT-TATAATTA-AATATAT-A-ATATTT
1477815 TA
1 TA
1477817 AAAAATACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 4 0.13
30 3 0.10
31 8 0.27
32 6 0.20
33 1 0.03
34 8 0.27
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (29 bp):
TATTTATTATAATTAAATATATAATATTT
Found at i:1479196 original size:17 final size:16
Alignment explanation
Indices: 1479174--1479214 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
1479164 TTAAATATAT
1479174 ATAAAAAATTATTAAAA
1 ATAAAAAATT-TTAAAA
*
1479191 ATAAAAAAATTTTAAAT
1 AT-AAAAAATTTTAAAA
1479208 ATAAAAA
1 ATAAAAA
1479215 TAATATGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 9 0.41
18 8 0.36
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAAAAATTTTAAAA
Found at i:1480192 original size:15 final size:15
Alignment explanation
Indices: 1480167--1480200 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1480157 ATAACACTTT
1480167 TTATAATTTAAATTAA
1 TTATAATTTAAATT-A
1480183 TTAT-ATTTAAATTA
1 TTATAATTTAAATTA
1480197 TTAT
1 TTAT
1480201 TTAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 9 0.50
16 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATAATTTAAATTA
Found at i:1480211 original size:18 final size:17
Alignment explanation
Indices: 1480190--1480233 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
1480180 TAATTATATT
1480190 TAAATTATTATTTAATAA
1 TAAATTATTATTTAA-AA
* *
1480208 TAAATTTTTTATTTAAAT
1 TAAA-TTATTATTTAAAA
1480226 TAAATTAT
1 TAAATTAT
1480234 AAAAATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
19 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAAATTATTATTTAAAA
Found at i:1481883 original size:24 final size:24
Alignment explanation
Indices: 1481824--1481892 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
1481814 TTCCTTTGTA
* * *
1481824 TTTGTCAAATATGGTGGTTATTTTTG
1 TTTGTCAAAAATGGTGG--CTTGTTG
* *
1481850 TATGTAAAAAATGGTGGCTTGTTG
1 TTTGTCAAAAATGGTGGCTTGTTG
*
1481874 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAAATGGTGGCT
1481893 AATTTTTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 21 0.60
26 14 0.40
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (24 bp):
TTTGTCAAAAATGGTGGCTTGTTG
Found at i:1485830 original size:257 final size:257
Alignment explanation
Indices: 1485374--1485889 Score: 1032
Period size: 257 Copynumber: 2.0 Consensus size: 257
1485364 AGTTGTGAGT
1485374 AGGTACATGCATGATCCTGGAAAGGAACATTGGCAAGCTATGAAATGGATTCTTCGATACATCTA
1 AGGTACATGCATGATCCTGGAAAGGAACATTGGCAAGCTATGAAATGGATTCTTCGATACATCTA
1485439 TAATATAATAGATGTTGGGTTAATGTTTGAGAAAGAAGAAAGTCAGCATGTAGAGGGATTTTGTG
66 TAATATAATAGATGTTGGGTTAATGTTTGAGAAAGAAGAAAGTCAGCATGTAGAGGGATTTTGTG
1485504 ACTTAGATTATGTTGGTGATTTAGACAAGCGTCGATGAATTACTGGTTATATTTTTACTCTTGCA
131 ACTTAGATTATGTTGGTGATTTAGACAAGCGTCGATGAATTACTGGTTATATTTTTACTCTTGCA
1485569 AAAGCTCCAGTTAGTTGGAAATCCACTTTACAGTCAACAGTGGCTCTGTCTACTACAGAAGC
196 AAAGCTCCAGTTAGTTGGAAATCCACTTTACAGTCAACAGTGGCTCTGTCTACTACAGAAGC
1485631 AGGTACATGCATGATCCTGGAAAGGAACATTGGCAAGCTATGAAATGGATTCTTCGATACATCTA
1 AGGTACATGCATGATCCTGGAAAGGAACATTGGCAAGCTATGAAATGGATTCTTCGATACATCTA
1485696 TAATATAATAGATGTTGGGTTAATGTTTGAGAAAGAAGAAAGTCAGCATGTAGAGGGATTTTGTG
66 TAATATAATAGATGTTGGGTTAATGTTTGAGAAAGAAGAAAGTCAGCATGTAGAGGGATTTTGTG
1485761 ACTTAGATTATGTTGGTGATTTAGACAAGCGTCGATGAATTACTGGTTATATTTTTACTCTTGCA
131 ACTTAGATTATGTTGGTGATTTAGACAAGCGTCGATGAATTACTGGTTATATTTTTACTCTTGCA
1485826 AAAGCTCCAGTTAGTTGGAAATCCACTTTACAGTCAACAGTGGCTCTGTCTACTACAGAAGC
196 AAAGCTCCAGTTAGTTGGAAATCCACTTTACAGTCAACAGTGGCTCTGTCTACTACAGAAGC
1485888 AG
1 AG
1485890 AGTATATGGC
Statistics
Matches: 259, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
257 259 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (257 bp):
AGGTACATGCATGATCCTGGAAAGGAACATTGGCAAGCTATGAAATGGATTCTTCGATACATCTA
TAATATAATAGATGTTGGGTTAATGTTTGAGAAAGAAGAAAGTCAGCATGTAGAGGGATTTTGTG
ACTTAGATTATGTTGGTGATTTAGACAAGCGTCGATGAATTACTGGTTATATTTTTACTCTTGCA
AAAGCTCCAGTTAGTTGGAAATCCACTTTACAGTCAACAGTGGCTCTGTCTACTACAGAAGC
Found at i:1491240 original size:36 final size:36
Alignment explanation
Indices: 1491183--1491272 Score: 112
Period size: 36 Copynumber: 2.5 Consensus size: 36
1491173 GTTTGATTTG
* * *
1491183 TAAAT-AA-ATAAGTTATAAAATATGATGGTTGAAT
1 TAAATAAATATAAATTATAAAATATAATGATTGAAT
1491217 TAAATAAATATAAATTATAAAATATAATGATTGAAT
1 TAAATAAATATAAATTATAAAATATAATGATTGAAT
* *
1491253 TAAAAAAATTATAGATTATA
1 TAAATAAA-TATAAATTATA
1491273 TAAAGAGTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
34 5 0.10
35 2 0.04
36 31 0.65
37 10 0.21
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (36 bp):
TAAATAAATATAAATTATAAAATATAATGATTGAAT
Found at i:1491332 original size:20 final size:19
Alignment explanation
Indices: 1491304--1491408 Score: 85
Period size: 20 Copynumber: 5.5 Consensus size: 19
1491294 ATAAATATTT
1491304 TTAAAAAATAATAATTAAA
1 TTAAAAAATAATAATTAAA
* *
1491323 TTAAATAAATAAAAATTATA
1 TTAAA-AAATAATAATTAAA
1491343 -T-AAAAATATATGAA-TAAA
1 TTAAAAAATA-AT-AATTAAA
1491361 TTATAAAAATAATAATTAAA
1 TTA-AAAAATAATAATTAAA
* *
1491381 TTTAATAAAT-ATAAATTATA
1 -TTAAAAAATAAT-AATTAAA
1491401 -TAAAAAAT
1 TTAAAAAAT
1491409 TACATAGATA
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.07
18 13 0.19
19 13 0.19
20 29 0.41
21 10 0.14
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (19 bp):
TTAAAAAATAATAATTAAA
Found at i:1491342 original size:58 final size:58
Alignment explanation
Indices: 1491280--1491406 Score: 175
Period size: 58 Copynumber: 2.2 Consensus size: 58
1491270 ATATAAAGAG
** * *
1491280 TTATATAAATGTATATAAAT-ATTTTTAAAAAATAATAATTAAATTAAATAAATAAAAA
1 TTATATAAAAATATATAAATAAATTAT-AAAAATAATAATTAAATTAAATAAATAAAAA
* * *
1491338 TTATATAAAAATATATGAATAAATTATAAAAATAATAATTAAATTTAATAAATATAAA
1 TTATATAAAAATATATAAATAAATTATAAAAATAATAATTAAATTAAATAAATAAAAA
1491396 TTATATAAAAA
1 TTATATAAAAA
1491407 ATTACATAGA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 57 0.93
59 4 0.07
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (58 bp):
TTATATAAAAATATATAAATAAATTATAAAAATAATAATTAAATTAAATAAATAAAAA
Found at i:1491347 original size:10 final size:10
Alignment explanation
Indices: 1491325--1491375 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 10
1491315 TAATTAAATT
*
1491325 AAATAAATAA
1 AAATATATAA
1491335 AAATTATATAA
1 AAA-TATATAA
1491346 AAATATATGAA
1 AAATATAT-AA
1491357 TAAAT-TATAA
1 -AAATATATAA
1491367 AAATA-ATAA
1 AAATATATAA
1491376 TTAAATTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
9 8 0.22
10 10 0.28
11 14 0.39
12 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (10 bp):
AAATATATAA
Found at i:1491347 original size:38 final size:38
Alignment explanation
Indices: 1491307--1491378 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
1491297 AATATTTTTA
1491307 AAAAATA-AT-AATTAAATTA-AATAAATAAAAATTATAT
1 AAAAATATATGAA-TAAATTATAA-AAATAAAAATTATAT
*
1491344 AAAAATATATGAATAAATTATAAAAATAATAATTA
1 AAAAATATATGAATAAATTATAAAAATAAAAATTA
1491379 AATTTAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
37 7 0.23
38 20 0.65
39 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (38 bp):
AAAAATATATGAATAAATTATAAAAATAAAAATTATAT
Found at i:1503382 original size:89 final size:89
Alignment explanation
Indices: 1503212--1503390 Score: 234
Period size: 89 Copynumber: 2.0 Consensus size: 89
1503202 TAATAAGTTA
* ** * *
1503212 TTGTTGGCACCATCCGGATTGTGGAAAACCTTTCTAAGATGAGTAGAAAACTGCAAATATGTACC
1 TTGTTGGCACCATCCAGATTGTAAAAAACCTTCCTAAGATGAGTAGAAAACCGCAAATATGTACC
* *
1503277 TTTTGAGAACAGAAGAAA-CTTCT
66 CTTTGAGAACAAAAGAAACCTTCT
* * *
1503300 TTGTTGGCACCATTCAGATTGTAAAAAACCCTTCCTAAGATGATTAGAAATCCGCAAATATGTAC
1 TTGTTGGCACCATCCAGATTGTAAAAAA-CCTTCCTAAGATGAGTAGAAAACCGCAAATATGTAC
**
1503365 CCTTTGAGAGTAAAAGAAACCTTCT
65 CCTTTGAGAACAAAAGAAACCTTCT
1503390 T
1 T
1503391 GGCTTCTGTT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 24 0.31
89 47 0.61
90 6 0.08
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (89 bp):
TTGTTGGCACCATCCAGATTGTAAAAAACCTTCCTAAGATGAGTAGAAAACCGCAAATATGTACC
CTTTGAGAACAAAAGAAACCTTCT
Found at i:1505599 original size:23 final size:23
Alignment explanation
Indices: 1505573--1505616 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1505563 TTATGTATCC
1505573 TTATCATTTTTAT-TTATTTTTAA
1 TTAT-ATTTTTATGTTATTTTTAA
*
1505596 TTATTTTTTTATGTTATTTTT
1 TTATATTTTTATGTTATTTTT
1505617 TTGTGTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (23 bp):
TTATATTTTTATGTTATTTTTAA
Found at i:1506747 original size:22 final size:22
Alignment explanation
Indices: 1506719--1506761 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1506709 AATAATTATT
1506719 AAATATAATAATTAA-TTAATAA
1 AAATAT-ATAATTAATTTAATAA
*
1506741 AAATATATATTTAATTTAATA
1 AAATATATAATTAATTTAATA
1506762 GTTTGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATATATAATTAATTTAATAA
Found at i:1514787 original size:2 final size:2
Alignment explanation
Indices: 1514782--1514806 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1514772 CACGTGTCTC
1514782 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
1514807 ATGTACAACT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1517831 original size:13 final size:13
Alignment explanation
Indices: 1517813--1517838 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1517803 ACCAAAATAC
1517813 AAAGAAAACTGCA
1 AAAGAAAACTGCA
1517826 AAAGAAAACTGCA
1 AAAGAAAACTGCA
1517839 TCAATTCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.15, T:0.08
Consensus pattern (13 bp):
AAAGAAAACTGCA
Found at i:1518040 original size:24 final size:25
Alignment explanation
Indices: 1518008--1518060 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
1517998 ATGAAAGGCC
1518008 TGGATC-TTTTTTGTTAGTTATATT
1 TGGATCTTTTTTTGTTAGTTATATT
*
1518032 TGGATCTTTTTTTTTTTAGTTATATT
1 TGGATC-TTTTTTTGTTAGTTATATT
1518058 TGG
1 TGG
1518061 GATAGCCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 6 0.23
26 20 0.77
ACGTcount: A:0.15, C:0.04, G:0.17, T:0.64
Consensus pattern (25 bp):
TGGATCTTTTTTTGTTAGTTATATT
Found at i:1520864 original size:20 final size:19
Alignment explanation
Indices: 1520830--1520939 Score: 73
Period size: 20 Copynumber: 5.5 Consensus size: 19
1520820 TTATATAATC
1520830 ATATTATAAATATTTAAAT
1 ATATTATAAATATTTAAAT
* *
1520849 ATATTGATACATATTTAATAAA
1 ATATT-ATAAATATTT-A-AAT
1520871 ATATT-TAAA-ATATTATAAT
1 ATATTATAAATAT-TTA-AAT
* *
1520890 ATATCATAAATATATAAAT
1 ATATTATAAATATTTAAAT
**
1520909 ATATCGTAATATATTTATTAAT
1 ATATTATAA-ATATTTA--AAT
1520931 ATATT-TAAA
1 ATATTATAAA
1520940 ACATAATAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
19 26 0.36
20 27 0.37
21 6 0.08
22 14 0.19
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (19 bp):
ATATTATAAATATTTAAAT
Found at i:1520868 original size:19 final size:18
Alignment explanation
Indices: 1520825--1520912 Score: 61
Period size: 19 Copynumber: 4.4 Consensus size: 18
1520815 TATGATTATA
1520825 TAATCATATTATAAATATT
1 TAAT-ATATTATAAATATT
*
1520844 TAAATATATTGATACATATT
1 T-AATATATT-ATAAATATT
1520864 TAATAAAATATT-TAAAATATT
1 TAAT---ATATTAT-AAATATT
*
1520885 ATAATATATCATAAATATAT
1 -TAATATATTATAAATAT-T
*
1520905 AAATATAT
1 TAATATAT
1520913 CGTAATATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
19 26 0.46
20 15 0.27
21 6 0.11
22 9 0.16
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (18 bp):
TAATATATTATAAATATT
Found at i:1520902 original size:60 final size:60
Alignment explanation
Indices: 1520823--1520952 Score: 163
Period size: 60 Copynumber: 2.1 Consensus size: 60
1520813 AATATGATTA
* * * *
1520823 TATAATCATATTATAAATATTTAAATATATTG-ATACATATTTAATAAAATATTTAAAATAT
1 TATAAT-ATATCATAAATATATAAATATATCGTA-ACATATTTAATAAAATATTTAAAACAT
* * *
1520884 TATAATATATCATAAATATATAAATATATCGTAATATATTTATTAATATATTTAAAACAT
1 TATAATATATCATAAATATATAAATATATCGTAACATATTTAATAAAATATTTAAAACAT
*
1520944 AATAATATA
1 TATAATATA
1520953 CATGTAAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
60 53 0.88
61 7 0.12
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (60 bp):
TATAATATATCATAAATATATAAATATATCGTAACATATTTAATAAAATATTTAAAACAT
Found at i:1520934 original size:22 final size:19
Alignment explanation
Indices: 1520886--1520934 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
1520876 TAAAATATTA
1520886 TAATATATCATAAATATAT
1 TAATATATCATAAATATAT
* *
1520905 AAATATATCGTAATATATTTAT
1 TAATATATCATAA-ATA--TAT
1520927 TAATATAT
1 TAATATAT
1520935 TTAAAACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 11 0.46
20 3 0.12
22 10 0.42
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (19 bp):
TAATATATCATAAATATAT
Found at i:1521469 original size:14 final size:15
Alignment explanation
Indices: 1521452--1521493 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
1521442 AAAAAAAAGC
1521452 TTATGTTAAAAAA-A
1 TTATGTTAAAAAATA
*
1521466 TTATGGTAAAAAATA
1 TTATGTTAAAAAATA
*
1521481 TAAT-TTAAAAAAT
1 TTATGTTAAAAAAT
1521494 TTTAAGTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (15 bp):
TTATGTTAAAAAATA
Found at i:1522414 original size:24 final size:24
Alignment explanation
Indices: 1522356--1522444 Score: 60
Period size: 24 Copynumber: 3.8 Consensus size: 24
1522346 TTATAAAATT
* **
1522356 AATTTATTTTATTTTTATATATT-
1 AATTTATTATATTTAAATATATTA
* *
1522379 ATTATTAATATATTTAAATATATTA
1 AAT-TTATTATATTTAAATATATTA
*
1522404 AATTTATTATATAATAAA-AT-TTA
1 AATTTATTATAT-TTAAATATATTA
* *
1522427 AA-ATATTAAATTTAAATA
1 AATTTATTATATTTAAATA
1522445 AATATTTAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
21 4 0.08
22 8 0.16
23 7 0.14
24 26 0.51
25 6 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTTATTATATTTAAATATATTA
Done.