Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 55 of 74
Found at i:10998967 original size:58 final size:58
Alignment explanation
Indices: 10998689--10998973 Score: 365
Period size: 58 Copynumber: 4.8 Consensus size: 58
10998679 TGCTTTTATA
* * * **
10998689 CAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATGTTTTTTTCTCTAAAACTTCAATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTT-TAGAAAACTT--ATTTT
* * * * *
10998751 -GAGAAAAATTGATACTTTTAACTTTTCTTCGAAAATATTTTTTCTGAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-AGAAAACTTATTTT
* *
10998809 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTCTAGAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
*
10998867 CAAGAAAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* * * *
10998925 TAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGGAAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAA
10998974 TTTTATTTAG
Statistics
Matches: 197, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
58 117 0.59
59 38 0.19
60 13 0.07
61 29 0.15
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
Found at i:10999012 original size:12 final size:12
Alignment explanation
Indices: 10998997--10999034 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
10998987 AAACCATTTA
10998997 AAAAAATAAAAT
1 AAAAAATAAAAT
10999009 -AAAAATAAAAAT
1 AAAAAAT-AAAAT
10999021 AAAAAATAAAAT
1 AAAAAATAAAAT
10999033 AA
1 AA
10999035 TGAATACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.25
12 12 0.50
13 6 0.25
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:10999013 original size:6 final size:6
Alignment explanation
Indices: 10998998--10999031 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
10998988 AACCATTTAA
10998998 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAA
10999032 TAATGAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:10999017 original size:19 final size:19
Alignment explanation
Indices: 10998995--10999031 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10998985 AAAAACCATT
10998995 TAAAAA-AATAAAATAAAAA
1 TAAAAATAA-AAAATAAAAA
10999014 TAAAAATAAAAAATAAAA
1 TAAAAATAAAAAATAAAA
10999032 TAATGAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (19 bp):
TAAAAATAAAAAATAAAAA
Found at i:10999105 original size:23 final size:23
Alignment explanation
Indices: 10998995--10999092 Score: 80
Period size: 22 Copynumber: 4.4 Consensus size: 23
10998985 AAAAACCATT
* *
10998995 TAAAAAAATAA-AATAAAAATAA
1 TAAATAAATAATAATAATAATAA
*
10999017 -AAATAAAAAATAA-AATAATGAA
1 TAAATAAATAATAATAATAAT-AA
* ** *
10999039 T-ACTAAATAATTCTAAT-CTAA
1 TAAATAAATAATAATAATAATAA
*
10999060 TCAATAAATAATAATAATAATAA
1 TAAATAAATAATAATAATAATAA
10999083 TAAATAAATA
1 TAAATAAATA
10999093 TATATAAATA
Statistics
Matches: 57, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
21 16 0.28
22 26 0.46
23 15 0.26
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (23 bp):
TAAATAAATAATAATAATAATAA
Found at i:10999420 original size:20 final size:20
Alignment explanation
Indices: 10999381--10999421 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10999371 CAAACCGCTT
*
10999381 TTTTTCTCTCTCTTCTTCTC
1 TTTTTCTCTCTATTCTTCTC
10999401 TTTTTCTCTC-ATTCTCTCTC
1 TTTTTCTCTCTATTCT-TCTC
10999421 T
1 T
10999422 AAACAATCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTCTCTCTATTCTTCTC
Found at i:10999522 original size:19 final size:19
Alignment explanation
Indices: 10999495--10999532 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10999485 ATCTGGTCAA
10999495 AAAACTCGTCGAAAAATTT
1 AAAACTCGTCGAAAAATTT
*
10999514 AAAATTCGTCGAAAAATTT
1 AAAACTCGTCGAAAAATTT
10999533 CATTGGATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (19 bp):
AAAACTCGTCGAAAAATTT
Found at i:10999952 original size:34 final size:38
Alignment explanation
Indices: 10999878--10999960 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 38
10999868 GAAAAAAAAA
*
10999878 AGATAAATAATATAAAGAAAACATATATATATATTAAT
1 AGATAAATAATACAAAGAAAACATATATATATATTAAT
* *
10999916 AGATAAATGATACAAA-AAAA-AT-TA-ATATGTTAAT
1 AGATAAATAATACAAAGAAAACATATATATATATTAAT
10999950 AGATAAA-AATA
1 AGATAAATAATA
10999961 AATATATTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 3 0.07
34 16 0.39
35 2 0.05
36 2 0.05
37 4 0.10
38 14 0.34
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (38 bp):
AGATAAATAATACAAAGAAAACATATATATATATTAAT
Found at i:10999964 original size:22 final size:22
Alignment explanation
Indices: 10999932--11000009 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
10999922 ATGATACAAA
* * *
10999932 AAAAATTAATATGTTAATAGAT
1 AAAAATAAATATATTAAAAGAT
**
10999954 AAAAATAAATATATTAGCAGAT
1 AAAAATAAATATATTAAAAGAT
10999976 AAATAATAAATATATTTAAAAGAT
1 AAA-AATAAATATA-TTAAAAGAT
11000000 AAAAAATAAA
1 -AAAAATAAA
11000010 AAAAATAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 21 0.45
23 10 0.21
24 13 0.28
25 3 0.06
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.29
Consensus pattern (22 bp):
AAAAATAAATATATTAAAAGAT
Found at i:11000017 original size:16 final size:16
Alignment explanation
Indices: 10999993--11000024 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10999983 AAATATATTT
*
10999993 AAAAGATAAAAAATAA
1 AAAAAATAAAAAATAA
11000009 AAAAAATAAAAAATAA
1 AAAAAATAAAAAATAA
11000025 TAATACTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAAAATAA
Found at i:11001223 original size:31 final size:31
Alignment explanation
Indices: 11001188--11001260 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
11001178 AAAGAAATGA
* *
11001188 ATAAAATGCAAAAGAAAAATTATAACTAGTC
1 ATAAAATGCAAAAGAAAAATAATAACTAGAC
* *
11001219 ATAAAATGC-AAAGACACATAATAACTAGAC
1 ATAAAATGCAAAAGAAAAATAATAACTAGAC
11001249 A-AAAATGCAAAA
1 ATAAAATGCAAAA
11001261 TGTGCAAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 7 0.19
30 21 0.57
31 9 0.24
ACGTcount: A:0.60, C:0.12, G:0.10, T:0.18
Consensus pattern (31 bp):
ATAAAATGCAAAAGAAAAATAATAACTAGAC
Found at i:11007064 original size:29 final size:30
Alignment explanation
Indices: 11007031--11007106 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 30
11007021 TTATTTCATT
* *
11007031 TTTAAATAAATCATTATATTTTTA-TTGTA
1 TTTAAATAAATCTTTATATTTTAATTTGTA
* * *
11007060 TTTAAATAATTTTTTATCTTTTAATTTGTA
1 TTTAAATAAATCTTTATATTTTAATTTGTA
*
11007090 TATAAATAAATCTTTAT
1 TTTAAATAAATCTTTAT
11007107 TTCAAATGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 19 0.50
30 19 0.50
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.57
Consensus pattern (30 bp):
TTTAAATAAATCTTTATATTTTAATTTGTA
Found at i:11007106 original size:30 final size:29
Alignment explanation
Indices: 11007033--11007106 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
11007023 ATTTCATTTT
* * *
11007033 TAAATAAATCATTATATTTTTATTGTATT
1 TAAATAAATCTTTATATTTTAATTGTATA
* * *
11007062 TAAATAATTTTTTATCTTTTAATTTGTATA
1 TAAATAAATCTTTATATTTTAA-TTGTATA
11007092 TAAATAAATCTTTAT
1 TAAATAAATCTTTAT
11007107 TTCAAATGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 17 0.47
30 19 0.53
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (29 bp):
TAAATAAATCTTTATATTTTAATTGTATA
Found at i:11007165 original size:30 final size:30
Alignment explanation
Indices: 11007129--11007262 Score: 130
Period size: 30 Copynumber: 4.5 Consensus size: 30
11007119 ATTGATTTAT
* *
11007129 GTTAAGAATTTATTTAAGTATAAATTGAAA
1 GTTAAAAATTTATTTAAGTATAAATTAAAA
* *
11007159 GTTAAGAATTTATTCTTA-TATAAATTAAAA
1 GTTAAAAATTTATT-TAAGTATAAATTAAAA
* * *
11007189 TTTAAAAAATTATTTAAGTGTAAATTAAAA
1 GTTAAAAATTTATTTAAGTATAAATTAAAA
* * *
11007219 TTTAAAAACTTATTTAAATAT-AA-TAAAA
1 GTTAAAAATTTATTTAAGTATAAATTAAAA
* *
11007247 ATAAAAAATTTATTTA
1 GTTAAAAATTTATTTA
11007263 GATAAAGTGA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
28 18 0.20
29 4 0.04
30 65 0.73
31 2 0.02
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.41
Consensus pattern (30 bp):
GTTAAAAATTTATTTAAGTATAAATTAAAA
Found at i:11008060 original size:15 final size:15
Alignment explanation
Indices: 11008022--11008069 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
11008012 TAATTATTCT
11008022 AATCTTTTTATGTTAA
1 AATCTTTTTAT-TTAA
11008038 CAAT-TTTTTATTTAA
1 -AATCTTTTTATTTAA
* *
11008053 ATTCTTTTAATTTAA
1 AATCTTTTTATTTAA
11008068 AA
1 AA
11008070 ATATAAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.07
15 15 0.56
16 7 0.26
17 3 0.11
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (15 bp):
AATCTTTTTATTTAA
Found at i:11008277 original size:16 final size:18
Alignment explanation
Indices: 11008241--11008285 Score: 67
Period size: 16 Copynumber: 2.6 Consensus size: 18
11008231 TTATTCTCAC
11008241 TTTTTATGTTAACACTTAT
1 TTTTTAT-TTAACACTTAT
11008260 TTTTTATTTAA-A-TTAT
1 TTTTTATTTAACACTTAT
11008276 TTTTTATTTA
1 TTTTTATTTA
11008286 TAATAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.54
17 1 0.04
18 4 0.15
19 7 0.27
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTATTTAACACTTAT
Found at i:11009237 original size:20 final size:20
Alignment explanation
Indices: 11009207--11009276 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
11009197 GTTTAGAATT
11009207 TTTTTAT-TTATAATAATAA
1 TTTTTATGTTATAATAATAA
*
11009226 TTTTTATGTTATCAAT-TTAA
1 TTTTTATGTTAT-AATAATAA
* *
11009246 TTATTTATATTATATTAA-AA
1 TT-TTTATGTTATAATAATAA
11009266 TTTTTTATGTT
1 -TTTTTATGTT
11009277 TGTTCTTACC
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 7 0.17
20 20 0.49
21 14 0.34
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTTATGTTATAATAATAA
Found at i:11009650 original size:16 final size:16
Alignment explanation
Indices: 11009631--11009663 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11009621 ATGTTAACTC
11009631 TTTTTTTT-TTGTTTAA
1 TTTTTTTTGTT-TTTAA
11009647 TTTTTTTTGTTTTTAA
1 TTTTTTTTGTTTTTAA
11009663 T
1 T
11009664 AATAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (16 bp):
TTTTTTTTGTTTTTAA
Found at i:11012560 original size:22 final size:22
Alignment explanation
Indices: 11012532--11012647 Score: 62
Period size: 22 Copynumber: 5.3 Consensus size: 22
11012522 TTTTTTTGAG
11012532 ATTATGCCCAGAAGTCTTAAAA
1 ATTATGCCCAGAAGTCTTAAAA
*
11012554 ATTATG--CATGAAGGTCTTACAA
1 ATTATGCCCA-GAA-GTCTTAAAA
* * * *
11012576 GTCATGCCCA-AAGATCTTGAGA
1 ATTATGCCCAGAAG-TCTTAAAA
* *
11012598 ATTATGCCCTA-AGGCCTTACAAA
1 ATTATGCCC-AGAAGTCTTA-AAA
* * *
11012621 ATT-TGCCCAGAGGCCTTGAAA
1 ATTATGCCCAGAAGTCTTAAAA
11012642 ATTATG
1 ATTATG
11012648 TCCGGAAGCT
Statistics
Matches: 72, Mismatches: 13, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
20 2 0.03
21 11 0.15
22 49 0.68
23 8 0.11
24 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (22 bp):
ATTATGCCCAGAAGTCTTAAAA
Found at i:11012644 original size:21 final size:22
Alignment explanation
Indices: 11012591--11012647 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11012581 GCCCAAAGAT
*
11012591 CTTGAGAATTATGCCCTAAGGC
1 CTTGAAAATTATGCCCTAAGGC
*
11012613 CTTACAAAATT-TGCCC-AGAGGC
1 CTT-GAAAATTATGCCCTA-AGGC
11012635 CTTGAAAATTATG
1 CTTGAAAATTATG
11012648 TCCGGAAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 7 0.24
22 17 0.59
23 5 0.17
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (22 bp):
CTTGAAAATTATGCCCTAAGGC
Found at i:11012700 original size:22 final size:22
Alignment explanation
Indices: 11012675--11012800 Score: 83
Period size: 22 Copynumber: 5.7 Consensus size: 22
11012665 TTATATCTAG
11012675 AGGTCTTACAAATCATGCTCGA
1 AGGTCTTACAAATCATGCTCGA
* * * * *
11012697 AGGTTTTGA-GAATTAGGCTCGG
1 AGGTCTT-ACAAATCATGCTCGA
* * * *
11012719 AGGCCTTATAAATTATGCCCGA
1 AGGTCTTACAAATCATGCTCGA
* * *
11012741 AAGTCTTATAAATCATGCTCGG
1 AGGTCTTACAAATCATGCTCGA
* * * *
11012763 AGGCCTTACAAATTATGTTTGA
1 AGGTCTTACAAATCATGCTCGA
*
11012785 AAGTCTTACAAATCAT
1 AGGTCTTACAAATCAT
11012801 TTTTTATTTT
Statistics
Matches: 76, Mismatches: 26, Indels: 4
0.72 0.25 0.04
Matches are distributed among these distances:
21 1 0.01
22 74 0.97
23 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (22 bp):
AGGTCTTACAAATCATGCTCGA
Found at i:11012776 original size:44 final size:44
Alignment explanation
Indices: 11012713--11012800 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
11012703 TGAGAATTAG
* *
11012713 GCTCGGAGGCCTTATAAATTATGCCCGAAAGTCTTATAAATCAT
1 GCTCGGAGGCCTTACAAATTATGCCCGAAAGTCTTACAAATCAT
***
11012757 GCTCGGAGGCCTTACAAATTATGTTTGAAAGTCTTACAAATCAT
1 GCTCGGAGGCCTTACAAATTATGCCCGAAAGTCTTACAAATCAT
11012801 TTTTTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (44 bp):
GCTCGGAGGCCTTACAAATTATGCCCGAAAGTCTTACAAATCAT
Found at i:11019114 original size:46 final size:46
Alignment explanation
Indices: 11019064--11019152 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
11019054 TAAGGTTTTC
*
11019064 TTGGTTTTAACCTCCTAATCAAAGTCAAATTTAGATTTTTAATTCA
1 TTGGTTTTAACCTCCCAATCAAAGTCAAATTTAGATTTTTAATTCA
*
11019110 TTGGTTTTAATCTCCCAATCAAAGTCAAATTTAGATTTTTAAT
1 TTGGTTTTAACCTCCCAATCAAAGTCAAATTTAGATTTTTAAT
11019153 CCAAGTCTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.44
Consensus pattern (46 bp):
TTGGTTTTAACCTCCCAATCAAAGTCAAATTTAGATTTTTAATTCA
Found at i:11019841 original size:211 final size:214
Alignment explanation
Indices: 11019380--11019841 Score: 501
Period size: 211 Copynumber: 2.2 Consensus size: 214
11019370 ATGCTTATTC
* * * *
11019380 TTACATTTTATTATATTTAGAATTATTACAATTTTTTCTTAAGGTATTATGACACTTCTAACATA
1 TTACATTTCATTACATTTAGAATTATTA-AAATTTTTCTTAAGGTATAATGACACTTCTAACATA
* *
11019445 TTTAATGTCAAATGATACCAATTTTACGATTATTCTCATTTTTTTATGTTAATACTTATTTTTTG
65 TTTAATGTCAAATAATACCAATTTTACGATTATTCTCATTGTTTTATGTTAATACTTATTTTTTG
* ** * *
11019510 ACTTAGAATTATTTTTTATTTATAATGCTAATTTTTTTATGTTACCGATTTATTACATTTCAATA
130 ACTTAAAATTATTTTTTATTTATAATAATAATTTTTTTATATTACCAATTTATTACATTTCAATA
* * *
11019575 ATATCTTTTTACATTTGTTA
195 ATAACTTTTAACAATTGTTA
* * * *
11019595 TTACTTTTCATTACATTTAGAGTTATTATAATTTTTC-TAAGGTATAATGATACTTCTAAC-TAT
1 TTACATTTCATTACATTTAGAATTATTAAAATTTTTCTTAAGGTATAATGACACTTCTAACATAT
* * * * * *
11019658 TTTATGTTAAATAATACCAATTTTATGGTTATTCTTATTGTTTTATGTT-A-AC-TCTTTTTT-A
66 TTAATGTCAAATAATACCAATTTTACGATTATTCTCATTGTTTTATGTTAATACTTATTTTTTGA
* * * * *
11019719 TTTAAAATTA-TTTTTATTTGTAGTAATAA-TTTTTTATATTGCCAACTAAATTATT-TATGTTA
131 CTTAAAATTATTTTTTATTTATAATAATAATTTTTTTATATTACCAA-T---TTATTACAT-TT-
* *
11019781 CAATAATAACTTTTAATAATTGTTT
190 CAATAATAACTTTTAACAATTGTTA
* *
11019806 TTACCTTTCATTACATTTAGAATTATCAAAATTTTT
1 TTACATTTCATTACATTTAGAATTATTAAAATTTTT
11019842 TGTTAGGGTA
Statistics
Matches: 206, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
206 13 0.06
207 16 0.08
208 9 0.04
209 9 0.04
210 9 0.04
211 53 0.26
212 45 0.22
213 21 0.10
214 7 0.03
215 24 0.12
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (214 bp):
TTACATTTCATTACATTTAGAATTATTAAAATTTTTCTTAAGGTATAATGACACTTCTAACATAT
TTAATGTCAAATAATACCAATTTTACGATTATTCTCATTGTTTTATGTTAATACTTATTTTTTGA
CTTAAAATTATTTTTTATTTATAATAATAATTTTTTTATATTACCAATTTATTACATTTCAATAA
TAACTTTTAACAATTGTTA
Found at i:11021151 original size:14 final size:14
Alignment explanation
Indices: 11021132--11021170 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
11021122 TATATATATG
*
11021132 TGTGTGTGTGTATT
1 TGTGTGTGTGTATA
11021146 TGTGTGTGTGTATA
1 TGTGTGTGTGTATA
*
11021160 TGTATGTGTGT
1 TGTGTGTGTGT
11021171 GTGTGCGTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.10, C:0.00, G:0.36, T:0.54
Consensus pattern (14 bp):
TGTGTGTGTGTATA
Found at i:11021186 original size:2 final size:2
Alignment explanation
Indices: 11021181--11021209 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11021171 GTGTGCGTGC
11021181 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11021210 CTGTCATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11021658 original size:2 final size:2
Alignment explanation
Indices: 11021651--11021703 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
11021641 AGAATGTTAA
11021651 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11021693 TC TC TC TC TC T
1 TC TC TC TC TC T
11021704 TATACTTGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11025952 original size:52 final size:52
Alignment explanation
Indices: 11025867--11026023 Score: 201
Period size: 52 Copynumber: 3.0 Consensus size: 52
11025857 TATAACCATA
* * *
11025867 CAAACTTGCAC-ATTAAGAATCTCTCTCCTCTTAGAATTCTTCTATTGTAAGT
1 CAAACTTGC-CTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTATTGCAAGT
* * *
11025919 CAAACTTGCCTATTAAAAATCCCTTTCCCCTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTATTGCAAGT
* * *
11025971 CAAACTTACCTATTAAGAATCCTCTTT-CTTTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTCTATTGCAAGT
11026023 C
1 C
11026024 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 1 0.01
52 87 0.95
53 4 0.04
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTATTGCAAGT
Found at i:11029228 original size:18 final size:17
Alignment explanation
Indices: 11029195--11029228 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11029185 AATAGTAATA
*
11029195 TGATTTTTTCTTTCATC
1 TGATTTTTTCTATCATC
11029212 TGATTTTTTCTCATCAT
1 TGATTTTTTCT-ATCAT
11029229 TCGTCTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.62
Consensus pattern (17 bp):
TGATTTTTTCTATCATC
Found at i:11030855 original size:16 final size:16
Alignment explanation
Indices: 11030834--11030865 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11030824 ATTATGCATG
11030834 CTGACGATATAAACAA
1 CTGACGATATAAACAA
*
11030850 CTGACGTTATAAACAA
1 CTGACGATATAAACAA
11030866 TAATATATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (16 bp):
CTGACGATATAAACAA
Found at i:11033268 original size:25 final size:25
Alignment explanation
Indices: 11033240--11033322 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
11033230 TGTCCCTGAT
11033240 GCTTATAATGCATTGAAGTGTCAAC
1 GCTTATAATGCATTGAAGTGTCAAC
* * *
11033265 GCTTATAGCAATGC-TTCATTA-TGGCAAT
1 GCTTAT---AATGCATTGA--AGTGTCAAC
11033293 GCTTATAATGCATTGAAGTGTCAAC
1 GCTTATAATGCATTGAAGTGTCAAC
*
11033318 ACTTA
1 GCTTA
11033323 ATAGATATGC
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
24 1 0.02
25 20 0.45
26 3 0.07
27 3 0.07
28 16 0.36
29 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (25 bp):
GCTTATAATGCATTGAAGTGTCAAC
Found at i:11040898 original size:22 final size:19
Alignment explanation
Indices: 11040870--11040912 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
11040860 AGACCACTTC
* *
11040870 TTTTTCTCTCTCTCTTCTCT
1 TTTTTTTCTCTCCCTT-TCT
11040890 TTTTTTTCTCTCCCTTTCT
1 TTTTTTTCTCTCCCTTTCT
11040909 TTTT
1 TTTT
11040913 AAACAATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTTCTCTCCCTTTCT
Found at i:11048991 original size:88 final size:88
Alignment explanation
Indices: 11048842--11049017 Score: 307
Period size: 88 Copynumber: 2.0 Consensus size: 88
11048832 CATATCACTC
* *
11048842 CAAGAACGAATGCAAGTTCTGTTCAATTAGACATACCACTTGGCAGTAGAGCCTGTAAGGCTATC
1 CAAGAACGAATGCAAGTTCTGTCCAACTAGACATACCACTTGGCAGTAGAGCCTGTAAGGCTATC
11048907 TTGAAAAACATGCATTAGTAATT
66 TTGAAAAACATGCATTAGTAATT
** *
11048930 CAAGAACGAATGCGGGTTCTGTCCAACTGGACATACCACTTGGCAGTAGAGCCTGTAAGGCTATC
1 CAAGAACGAATGCAAGTTCTGTCCAACTAGACATACCACTTGGCAGTAGAGCCTGTAAGGCTATC
11048995 TTGAAAAACATGCATTAGTAATT
66 TTGAAAAACATGCATTAGTAATT
11049018 TTTCATTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (88 bp):
CAAGAACGAATGCAAGTTCTGTCCAACTAGACATACCACTTGGCAGTAGAGCCTGTAAGGCTATC
TTGAAAAACATGCATTAGTAATT
Found at i:11052016 original size:108 final size:108
Alignment explanation
Indices: 11051903--11052119 Score: 425
Period size: 108 Copynumber: 2.0 Consensus size: 108
11051893 GCAACTTTAT
*
11051903 GATATGAGCATGAACCAATGCAAAAGAATGAGAGAAAATGTTAGTATGCCCAGAAAAAAAAAGAA
1 GATATGAGCATGAACCAATGCAAAAGAATGAGAAAAAATGTTAGTATGCCCAGAAAAAAAAAGAA
11051968 TAAATAAATAACTAAGTAAATTAAAACATCACATAGAATAAGA
66 TAAATAAATAACTAAGTAAATTAAAACATCACATAGAATAAGA
11052011 GATATGAGCATGAACCAATGCAAAAGAATGAGAAAAAATGTTAGTATGCCCAGAAAAAAAAAGAA
1 GATATGAGCATGAACCAATGCAAAAGAATGAGAAAAAATGTTAGTATGCCCAGAAAAAAAAAGAA
11052076 TAAATAAATAACTAAGTAAATTAAAACATCACATAGAATAAGA
66 TAAATAAATAACTAAGTAAATTAAAACATCACATAGAATAAGA
11052119 G
1 G
11052120 GAATGAACCT
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.56, C:0.10, G:0.16, T:0.18
Consensus pattern (108 bp):
GATATGAGCATGAACCAATGCAAAAGAATGAGAAAAAATGTTAGTATGCCCAGAAAAAAAAAGAA
TAAATAAATAACTAAGTAAATTAAAACATCACATAGAATAAGA
Found at i:11053306 original size:58 final size:58
Alignment explanation
Indices: 11053116--11053387 Score: 348
Period size: 58 Copynumber: 4.6 Consensus size: 58
11053106 TTATACAAGA
* * * ** * ** *
11053116 AAAATTAATACTTTCAACTTTTCCTC-AAAATGTTTTTCCTCTAAAACTTTAATTTCGAGA
1 AAAATTGATATTTTCAACTTTTCCTCAAAAAT-ATTTT-CTAGAAAAC-TTATTTTTAAGG
* ** * *
11053176 AAAATTGATATTTTTAACTTTTCCTTGAAAATATTTTTTCCGAAAACTTATTTTTAAGG
1 AAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTCT-AGAAAACTTATTTTTAAGG
* *
11053235 AAAATTGATATTTTTAACTTTTTCTCAAAAATATTTTCTAGAAAACTTATTTTTAAGG
1 AAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTCTAGAAAACTTATTTTTAAGG
11053293 AAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTCTAGAAAACTTATTTTTAAGG
1 AAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTCTAGAAAACTTATTTTTAAGG
*
11053351 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTT
1 AAAATTGATATTTTCAACTTTTCCTCAAAAATATTTT
11053388 TTTGGAATTT
Statistics
Matches: 191, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
58 110 0.58
59 44 0.23
60 32 0.17
61 5 0.03
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.44
Consensus pattern (58 bp):
AAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTCTAGAAAACTTATTTTTAAGG
Found at i:11053433 original size:11 final size:11
Alignment explanation
Indices: 11053419--11053453 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
11053409 AATCATTTAA
11053419 AAAAATAAAAT
1 AAAAATAAAAT
*
11053430 AAAAATAAAAA
1 AAAAATAAAAT
11053441 AAAAATAAAAT
1 AAAAATAAAAT
11053452 AA
1 AA
11053454 TGAATACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:11053434 original size:6 final size:6
Alignment explanation
Indices: 11053419--11053450 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
11053409 AATCATTTAA
11053419 AAAAAT -AAAAT AAAAAT AAAAA- AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
11053451 TAATGAATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.42
6 14 0.58
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:11053513 original size:24 final size:23
Alignment explanation
Indices: 11053478--11053529 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
11053468 TTCTAATCTA
*
11053478 ATAAATAAAT-AATAATAATAATAA
1 ATAAATAAATAAAT-ATAA-AAAAA
*
11053502 ATAAATATATAAATATAAAAAAA
1 ATAAATAAATAAATATAAAAAAA
11053525 ATAAA
1 ATAAA
11053530 AAAAACCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.36
24 13 0.52
25 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAATAAATAAATATAAAAAAA
Found at i:11053823 original size:18 final size:20
Alignment explanation
Indices: 11053800--11053837 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
11053790 GCTTCTTTCC
11053800 TTTTCTCT-CTTCTC-CTCT
1 TTTTCTCTCCTTCTCTCTCT
11053818 TTTTCTCTCCTTCTCTCTCT
1 TTTTCTCTCCTTCTCTCTCT
11053838 AAATAATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 6 0.33
20 4 0.22
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTCTCTCCTTCTCTCTCT
Found at i:11054359 original size:22 final size:22
Alignment explanation
Indices: 11054327--11054406 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
11054317 AATGATACAA
* *
11054327 AAAAATTAATATGTTAATAGAT
1 AAAAATAAATATATTAATAGAT
*
11054349 AAAAATAAATATATTAGTAGAT
1 AAAAATAAATATATTAATAGAT
*
11054371 AAATAATAAATATATTTAAAAGAT
1 AAA-AATAAATATA-TTAATAGAT
11054395 AAAAAATAAATA
1 -AAAAATAAATA
11054407 AATAATAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
22 22 0.44
23 10 0.20
24 15 0.30
25 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (22 bp):
AAAAATAAATATATTAATAGAT
Found at i:11054414 original size:18 final size:20
Alignment explanation
Indices: 11054393--11054440 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 20
11054383 TATTTAAAAG
11054393 ATAAAAAATAAATAA-A-TA
1 ATAAAAAATAAATAATACTA
11054411 ATAAAAAAT-AATAATACTA
1 ATAAAAAATAAATAATACTA
11054430 AT-AAAAATAAA
1 ATAAAAAATAAA
11054441 AACAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.19
18 16 0.59
19 6 0.22
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
ATAAAAAATAAATAATACTA
Found at i:11054426 original size:24 final size:25
Alignment explanation
Indices: 11054369--11054442 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 25
11054359 ATATTAGTAG
* * *
11054369 ATAAATAATAAATATAT-TTAAAAG
1 ATAAATAATAAATAAATAATAAAAA
*
11054393 ATAAAAAATAAATAAATAATAAAAA
1 ATAAATAATAAATAAATAATAAAAA
11054418 AT-AATAATACTAATAAA-AATAAAAA
1 ATAAATAATA--AATAAATAATAAAAA
11054443 CAAAAATAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
24 21 0.50
25 15 0.36
26 6 0.14
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.26
Consensus pattern (25 bp):
ATAAATAATAAATAAATAATAAAAA
Found at i:11055627 original size:30 final size:30
Alignment explanation
Indices: 11055583--11055654 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
11055573 AAAGAAATGA
* *
11055583 ATAAAATGCAAAAGAAAAATTATAACTAGTC
1 ATAAAATGC-AAAGAAAAATAATAACTAGAC
*
11055614 ATAAAATGCAAAGAAACATAATAACTAGAC
1 ATAAAATGCAAAGAAAAATAATAACTAGAC
11055644 -TAAAATGCAAA
1 ATAAAATGCAAA
11055655 ATGTGCAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 11 0.29
30 18 0.47
31 9 0.24
ACGTcount: A:0.60, C:0.11, G:0.10, T:0.19
Consensus pattern (30 bp):
ATAAAATGCAAAGAAAAATAATAACTAGAC
Found at i:11061569 original size:30 final size:30
Alignment explanation
Indices: 11061533--11061665 Score: 121
Period size: 30 Copynumber: 4.5 Consensus size: 30
11061523 ATTGATTTAT
*
11061533 GTTAAGAATTTATTTAAGTATAAATTGAAA
1 GTTAAGAATTTATTTAAGTATAAATTAAAA
*
11061563 GTTAAGAATTTATTCTTA-TATAAATTAAAA
1 GTTAAGAATTTATT-TAAGTATAAATTAAAA
* * *
11061593 TTTAA-AAATTATTTAAGTGTAAATTAAAA
1 GTTAAGAATTTATTTAAGTATAAATTAAAA
* * * *
11061622 TTTAAAAACTTATTTAAATAT-AA-TAAAA
1 GTTAAGAATTTATTTAAGTATAAATTAAAA
* * *
11061650 ATAAAAAATTTATTTA
1 GTTAAGAATTTATTTA
11061666 GATAAAGTGA
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
28 20 0.23
29 25 0.28
30 41 0.47
31 2 0.02
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (30 bp):
GTTAAGAATTTATTTAAGTATAAATTAAAA
Found at i:11061643 original size:59 final size:58
Alignment explanation
Indices: 11061539--11061665 Score: 141
Period size: 59 Copynumber: 2.2 Consensus size: 58
11061529 TTATGTTAAG
* * * * * *
11061539 AATTTATTTAAGTATAAATTGAAAGTTAAGAATTTATTCTTATATAAATTAAAATTTAAA
1 AATTTATTTAAGTATAAATTAAAAGTTAAAAACTTATTCTAATAT-AA-TAAAAATAAAA
* *
11061599 AA-TTATTTAAGTGTAAATTAAAATTTAAAAACTTATT-TAAATATAATAAAAATAAAA
1 AATTTATTTAAGTATAAATTAAAAGTTAAAAACTTATTCT-AATATAATAAAAATAAAA
11061656 AATTTATTTA
1 AATTTATTTA
11061666 GATAAAGTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
57 11 0.19
58 10 0.18
59 34 0.60
60 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (58 bp):
AATTTATTTAAGTATAAATTAAAAGTTAAAAACTTATTCTAATATAATAAAAATAAAA
Found at i:11062471 original size:15 final size:15
Alignment explanation
Indices: 11062433--11062480 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
11062423 TAATTATTCT
11062433 AATCTTTTTATGTTAA
1 AATCTTTTTAT-TTAA
11062449 CAAT-TTTTTATTTAA
1 -AATCTTTTTATTTAA
* *
11062464 AGTCTTTTAATTTAA
1 AATCTTTTTATTTAA
11062479 AA
1 AA
11062481 ATATAAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.07
15 15 0.56
16 7 0.26
17 3 0.11
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (15 bp):
AATCTTTTTATTTAA
Found at i:11062674 original size:19 final size:17
Alignment explanation
Indices: 11062652--11062698 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
11062642 TTATTCTCAC
*
11062652 TTTTTATGTTAACACTTAT
1 TTTTTAT-TTAA-AATTAT
11062671 TTTTTGATTTAAAATTAT
1 TTTTT-ATTTAAAATTAT
11062689 TTTTTATTTA
1 TTTTTATTTA
11062699 TAATAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 10 0.38
19 9 0.35
20 2 0.08
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTTTATTTAAAATTAT
Found at i:11062755 original size:21 final size:20
Alignment explanation
Indices: 11062696--11062757 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
11062686 TATTTTTTAT
* *
11062696 TTATAATAATAAATTTTGCA
1 TTATAATAATAATTTTTACA
*
11062716 TTATCAAT-TTAATTATTTACA
1 TTAT-AATAATAATT-TTTACA
11062737 TTATAATAATATATTTTTACA
1 TTATAATAATA-ATTTTTACA
11062758 CTTGTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 11 0.32
21 20 0.59
22 3 0.09
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (20 bp):
TTATAATAATAATTTTTACA
Found at i:11063864 original size:17 final size:17
Alignment explanation
Indices: 11063827--11063864 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11063817 TCTTATTGTT
*
11063827 TTTAGAATTATTTTTGG
1 TTTAGAATTATTTTTGA
*
11063844 TTTAGAATTATTTTTTA
1 TTTAGAATTATTTTTGA
11063861 TTTA
1 TTTA
11063865 TACTATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (17 bp):
TTTAGAATTATTTTTGA
Found at i:11064158 original size:216 final size:219
Alignment explanation
Indices: 11063911--11064319 Score: 496
Period size: 216 Copynumber: 1.9 Consensus size: 219
11063901 TTAATAATTA
* * * * * *
11063911 TTTTTACATTTGTTGTTACTTTTTATTACATTGAAAATTATTACAACTTTTTTGTT-AAGGTA-T
1 TTTTTACATTTATTATTACCTTTCATTACATTGAAAATTATTACAA-TTTTTTCTTAAAAGTACT
* * * *
11063974 AACGATACTTCTAA-TCATTTTATGTCAAATAATACTAATTTTACAATTATTCTCATCA-TTTTT
65 -ACGACACTTCTAACT-ATTTTACGTCAAATAATACCAATTTTACAATTACTCTCAT-ATTTTTT
* *
11064037 ATGTT-AACTCT-TTTTTTTGTTT-AAATT-TT-TTTATTTGTAATAATAATTT-TTTTACATTG
127 ATATTAAACT-TATTTTTTTGTTTAAAATTATTATTTATTTCTAATAA-AATTTCTTTTACA-TG
11064096 CCAACTTAATTACTTGTGTTATGATAATATC
189 CCAACTTAATTACTTGTGTTATGATAATATC
* * **
11064127 TTTTTACATTTATTATTACCTTTCATTACATTTAGAATTATTGTAATTTTTTCTTAAAAGTACTA
1 TTTTTACATTTATTATTACCTTTCATTACATTGAAAATTATTACAATTTTTTCTTAAAAGTACTA
* * *
11064192 TGACATTTCTAACTATTTTACGTCAAATAATACCAATTTTACGATTACTCTCATATTTTTTATAT
66 CGACACTTCTAACTATTTTACGTCAAATAATACCAATTTTACAATTACTCTCATATTTTTTATAT
*
11064257 TAAAACTTATTTTTTTGTTTAAAATTATTATTTATTTCTAATAAATTTTCTTTTACATGCCAA
131 T-AAACTTATTTTTTTGTTTAAAATTATTATTTATTTCTAATAAAATTTCTTTTACATGCCAA
11064320 AAATAATATT
Statistics
Matches: 162, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
215 9 0.06
216 98 0.60
217 3 0.02
218 15 0.09
219 5 0.03
220 12 0.07
221 20 0.12
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (219 bp):
TTTTTACATTTATTATTACCTTTCATTACATTGAAAATTATTACAATTTTTTCTTAAAAGTACTA
CGACACTTCTAACTATTTTACGTCAAATAATACCAATTTTACAATTACTCTCATATTTTTTATAT
TAAACTTATTTTTTTGTTTAAAATTATTATTTATTTCTAATAAAATTTCTTTTACATGCCAACTT
AATTACTTGTGTTATGATAATATC
Found at i:11064338 original size:14 final size:14
Alignment explanation
Indices: 11064319--11064346 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11064309 TTACATGCCA
11064319 AAAATAATATTTAT
1 AAAATAATATTTAT
11064333 AAAATAATATTTAT
1 AAAATAATATTTAT
11064347 GTTACAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAATAATATTTAT
Found at i:11064598 original size:18 final size:18
Alignment explanation
Indices: 11064550--11064599 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
11064540 AGTTAACATG
* *
11064550 TATTTTTTGTTTA-AAAT
1 TATTTTTTATTTATAAAA
11064567 TATTTTTTATTTATAATAA
1 TATTTTTTATTTATAA-AA
11064586 TATTTTTT-TTTATA
1 TATTTTTTATTTATA
11064600 TTATCAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 12 0.41
18 8 0.28
19 9 0.31
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TATTTTTTATTTATAAAA
Found at i:11066959 original size:22 final size:21
Alignment explanation
Indices: 11066884--11067005 Score: 73
Period size: 22 Copynumber: 5.6 Consensus size: 21
11066874 GTCCAGAAGT
* *
11066884 CTTAAAAATTATGCATGAAGGT
1 CTTAAAAATTATGCCTG-AGGC
* * * **
11066906 CTTACAAATCATGCCCAGAGAT
1 CTTAAAAATTATG-CCTGAGGC
* *
11066928 CTTGAGAATTATGCCCTGAGGC
1 CTTAAAAATTATG-CCTGAGGC
* *
11066950 CTTACAAATTATGCCTGAAGAC
1 CTTAAAAATTATGCCTG-AGGC
* *
11066972 TTTAAAAATTATGTCCGGAGGC
1 CTTAAAAATTATG-CCTGAGGC
*
11066994 CTTATAAATTAT
1 CTTAAAAATTAT
11067006 ATCTGGAAGT
Statistics
Matches: 75, Mismatches: 22, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
21 4 0.05
22 66 0.88
23 5 0.07
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (21 bp):
CTTAAAAATTATGCCTGAGGC
Found at i:11067004 original size:66 final size:67
Alignment explanation
Indices: 11066934--11067072 Score: 149
Period size: 66 Copynumber: 2.1 Consensus size: 67
11066924 AGATCTTGAG
* * * *
11066934 AATTATGCCCT-GAGGCCTTACAAATTATGCCTGAAGACTTTAAAAATTATG-TCCGGAGGCCTT
1 AATTATGACCTGGAAGCCTTACAAATCATGCCTGAAGACTTTAAAAATTAGGCT-CGGAGGCCTT
11066997 ATA
65 ATA
* * ** * * *
11067000 AATTAT-ATCTGGAAGTCTTACAAATCATGCCTGAAGGTTTTGAGAATTAGGCTTGGAGGCCTTA
1 AATTATGACCTGGAAGCCTTACAAATCATGCCTGAAGACTTTAAAAATTAGGCTCGGAGGCCTTA
11067064 TA
66 TA
11067066 AATTATG
1 AATTATG
11067073 TTCAAAAGTC
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
65 2 0.03
66 56 0.95
67 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (67 bp):
AATTATGACCTGGAAGCCTTACAAATCATGCCTGAAGACTTTAAAAATTAGGCTCGGAGGCCTTA
TA
Found at i:11068979 original size:12 final size:12
Alignment explanation
Indices: 11068949--11068979 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11068939 TTTTTTTATC
11068949 TTTTTTTGTTTT
1 TTTTTTTGTTTT
*
11068961 TGTTTTTGTTTT
1 TTTTTTTGTTTT
11068973 TTTTTTT
1 TTTTTTT
11068980 TTCAACTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (12 bp):
TTTTTTTGTTTT
Found at i:11071501 original size:61 final size:61
Alignment explanation
Indices: 11071431--11071569 Score: 208
Period size: 61 Copynumber: 2.3 Consensus size: 61
11071421 AATAACAATT
* * * *
11071431 TAATGATGCATAGATTG-ACAAATGACTGGATGAATGGATGCATGAGTTAATGTTTGCCTCA
1 TAATGATGCAT-GAATGAACAAATGACTCGATGAATGGATACATGAGCTAATGTTTGCCTCA
* *
11071492 TAATGATGCATGAATGAACAAATGATTCTATGAATGGATACATGAGCTAATGTTTGCCTCA
1 TAATGATGCATGAATGAACAAATGACTCGATGAATGGATACATGAGCTAATGTTTGCCTCA
11071553 TAATGATGCATGAATGA
1 TAATGATGCATGAATGA
11071570 TGAATATGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
60 4 0.06
61 67 0.94
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (61 bp):
TAATGATGCATGAATGAACAAATGACTCGATGAATGGATACATGAGCTAATGTTTGCCTCA
Found at i:11071502 original size:29 final size:29
Alignment explanation
Indices: 11071467--11071565 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
11071457 TGGATGAATG
11071467 GATGCATGAGTTAATGTTTGCCTCATAAT
1 GATGCATGAGTTAATGTTTGCCTCATAAT
* * **** **
11071496 GATGCATGAATGAACAAATGATTCTATGAAT
1 GATGCATGAGTTAATGTTTGCCTC-AT-AAT
* *
11071527 GGATACATGAGCTAATGTTTGCCTCATAAT
1 -GATGCATGAGTTAATGTTTGCCTCATAAT
11071557 GATGCATGA
1 GATGCATGA
11071566 ATGATGAATA
Statistics
Matches: 48, Mismatches: 19, Indels: 6
0.66 0.26 0.08
Matches are distributed among these distances:
29 24 0.50
30 5 0.10
31 5 0.10
32 14 0.29
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.32
Consensus pattern (29 bp):
GATGCATGAGTTAATGTTTGCCTCATAAT
Found at i:11074080 original size:211 final size:214
Alignment explanation
Indices: 11073652--11074104 Score: 508
Period size: 211 Copynumber: 2.1 Consensus size: 214
11073642 CTTACATTGT
* *
11073652 ATTATATTTAGAATTATTACAATTTTTTCTTAAGGTATTATGACACTTCTAACATATTTAATGTC
1 ATTATATTTAGAATTATTA-AAATTTTTCTTAAGGTATAATGACACTTCTAACATATTTAATGTC
* *
11073717 AAATGATACCAATTTTACGATTATTCTCACTTTTTTATGTTAACACTTATTTTTTAACTTAGAAT
65 AAATAATACCAATTTTACGATTATTCTCACTTTTTTATGTTAACACTTATTTTTTAACTTAAAAT
** ** * * * *
11073782 TATTTTTTATTTATAATGCCAATTTTTTTATGTTACTGATTTATTATGTTTCAATAATATCTTTT
130 TATTTTTTATTTATAATAACAATTTTTTTATGCAACTAAATTATTATGTTACAATAATAACTTTT
* * *
11073847 TACATTTGTTATTACTTTTC
195 TACAATTATTATTACCTTTC
* * * *
11073867 ATTATATTTAGAATTATTATAATTTTTC-TAAGGTATAATGATACTTCTAAC-TATTTTATGTTA
1 ATTATATTTAGAATTATTAAAATTTTTCTTAAGGTATAATGACACTTCTAACATATTTAATGTCA
* * * * * *
11073930 AATAATGCCAATTTTATGGTTATTCTTA-TTGTTTTATGTT-A-AC-TCTTTTTT-ATTTAAAAT
66 AATAATACCAATTTTACGATTATTCTCACTT-TTTTATGTTAACACTTATTTTTTAACTTAAAAT
* * *
11073990 TA-TTTTTATTTGTGATAATAATTTTTTATATTGCCAACTAAATTATTTATGTTACAATAATAAC
130 TATTTTTTATTTATAATAACAATTTTTT-TA-TG-CAACTAAATTA-TTATGTTACAATAATAAC
* *
11074054 TTTTTATAATTATTTTTACCTTTC
191 TTTTTACAATTATTATTACCTTTC
* *
11074078 ATTACATTTAGAATTATCAAAATTTTT
1 ATTATATTTAGAATTATTAAAATTTTT
11074105 TGTTAGGGTA
Statistics
Matches: 200, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
207 20 0.10
208 11 0.05
209 9 0.05
210 9 0.05
211 62 0.31
212 42 0.21
213 21 0.10
214 7 0.04
215 19 0.09
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.53
Consensus pattern (214 bp):
ATTATATTTAGAATTATTAAAATTTTTCTTAAGGTATAATGACACTTCTAACATATTTAATGTCA
AATAATACCAATTTTACGATTATTCTCACTTTTTTATGTTAACACTTATTTTTTAACTTAAAATT
ATTTTTTATTTATAATAACAATTTTTTTATGCAACTAAATTATTATGTTACAATAATAACTTTTT
ACAATTATTATTACCTTTC
Found at i:11075402 original size:22 final size:22
Alignment explanation
Indices: 11075377--11075431 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
11075367 CAAATATATA
11075377 TATATATATGTGTGTGCGTGTG
1 TATATATATGTGTGTGCGTGTG
* *
11075399 TATATGTATGTGTGTGTGTGTG
1 TATATATATGTGTGTGCGTGTG
11075421 TGCATATATAT
1 T--ATATATAT
11075432 ATATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 21 0.75
24 7 0.25
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.47
Consensus pattern (22 bp):
TATATATATGTGTGTGCGTGTG
Found at i:11075404 original size:18 final size:18
Alignment explanation
Indices: 11075381--11075417 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11075371 TATATATATA
*
11075381 TATATGTGTGTGCGTGTG
1 TATATGTATGTGCGTGTG
*
11075399 TATATGTATGTGTGTGTG
1 TATATGTATGTGCGTGTG
11075417 T
1 T
11075418 GTGTGCATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.03, G:0.35, T:0.49
Consensus pattern (18 bp):
TATATGTATGTGCGTGTG
Found at i:11089661 original size:2 final size:2
Alignment explanation
Indices: 11089656--11089683 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11089646 CTGTAAGATA
11089656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11089684 TAGATTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11091750 original size:3 final size:3
Alignment explanation
Indices: 11091744--11091789 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
11091734 TTAAAAAAAT
**
11091744 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATTA ACG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
11091789 A
1 A
11091790 ACTTTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:11092080 original size:28 final size:28
Alignment explanation
Indices: 11091996--11092153 Score: 108
Period size: 29 Copynumber: 5.5 Consensus size: 28
11091986 AATCAAAATC
* *
11091996 CTAACTCCTAAACCCTCTAAACTTTAAAA
1 CTAAC-CCTAAACCCTCAAAACCTTAAAA
* *
11092025 TCAAAATCCC-AAACCTTC-AAA-CTATAAAA
1 -C-TAA-CCCTAAACCCTCAAAACCT-TAAAA
* *
11092054 CTAACCTTAAACCCTCCAAACCTTAAAA
1 CTAACCCTAAACCCTCAAAACCTTAAAA
* * *
11092082 TCAAAACCCCAAA-CCTCAAAACCGTAAAA
1 -C-TAACCCTAAACCCTCAAAACCTTAAAA
*
11092111 CTAACCCTAAACCCTCTAAACCTTAAAA
1 CTAACCCTAAACCCTCAAAACCTTAAAA
*
11092139 TCAAAACCCTAAACC
1 -C-TAACCCTAAACC
11092154 TTCCAAATCC
Statistics
Matches: 101, Mismatches: 16, Indels: 22
0.73 0.12 0.16
Matches are distributed among these distances:
26 2 0.02
27 17 0.17
28 25 0.25
29 26 0.26
30 26 0.26
31 4 0.04
32 1 0.01
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.20
Consensus pattern (28 bp):
CTAACCCTAAACCCTCAAAACCTTAAAA
Found at i:11092080 original size:57 final size:57
Alignment explanation
Indices: 11091996--11092156 Score: 227
Period size: 57 Copynumber: 2.8 Consensus size: 57
11091986 AATCAAAATC
* *
11091996 CTAACTCCTAAACCCTCTAAACTTTAAAATCAAAATCCCAAACCTTC-AAACTATAAAA
1 CTAAC-CCTAAACCCTCTAAACCTTAAAATCAAAA-CCCAAACCTTCAAAACCATAAAA
* * *
11092054 CTAACCTTAAACCCTCCAAACCTTAAAATCAAAACCCCAAACC-TCAAAACCGTAAAA
1 CTAACCCTAAACCCTCTAAACCTTAAAATCAAAA-CCCAAACCTTCAAAACCATAAAA
11092111 CTAACCCTAAACCCTCTAAACCTTAAAATCAAAACCCTAAACCTTC
1 CTAACCCTAAACCCTCTAAACCTTAAAATCAAAACCC-AAACCTTC
11092157 CAAATCCTAA
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
56 5 0.05
57 80 0.87
58 7 0.08
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (57 bp):
CTAACCCTAAACCCTCTAAACCTTAAAATCAAAACCCAAACCTTCAAAACCATAAAA
Found at i:11092152 original size:87 final size:86
Alignment explanation
Indices: 11092056--11092256 Score: 246
Period size: 87 Copynumber: 2.3 Consensus size: 86
11092046 CTATAAAACT
* * *
11092056 AACCTTAAACCCTCCAAACCTTAAAAT-CAAAACCCCAAACCTCAAAACCGTAAAACT-AACCCT
1 AACCCTAAACCTTCCAAACC-TAAAATCCAAAACCCCAAACCTCAAAACCCTAAAACTAAACCCT
*
11092119 AAACCCTCTAAAC-CTTAAAATCAA
65 -AACCCGC-AAACAC-TAAAATCAA
* *
11092143 AACCCTAAACCTTCCAAATCCTAAAATCCAAAACCCCAAACCTCCAAACCCTAAAATTAAACCCT
1 AACCCTAAACCTTCCAAA-CCTAAAATCCAAAACCCCAAACCTCAAAACCCTAAAACTAAACCCT
*
11092208 AATCCGCAAACACTAAAATCAA
65 AACCCGCAAACACTAAAATCAA
* *
11092230 AATCCTAAACTTTCCAAACCCTAAAAT
1 AACCCTAAACCTTCCAAA-CCTAAAAT
11092257 TCAAGCCCTA
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
87 59 0.59
88 35 0.35
89 6 0.06
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (86 bp):
AACCCTAAACCTTCCAAACCTAAAATCCAAAACCCCAAACCTCAAAACCCTAAAACTAAACCCTA
ACCCGCAAACACTAAAATCAA
Found at i:11092189 original size:30 final size:29
Alignment explanation
Indices: 11092009--11092256 Score: 163
Period size: 30 Copynumber: 8.6 Consensus size: 29
11091999 ACTCCTAAAC
* * *
11092009 CCTCTAAACTTTAAAATCAAAATCCCAAA
1 CCTCCAAACCTTAAAATCAAAACCCCAAA
* * **
11092038 CCTTCAAA-CTATAAAA-C-TAACCTTAAA
1 CCTCCAAACCT-TAAAATCAAAACCCCAAA
11092065 CCCTCCAAACCTTAAAATCAAAACCCCAAA
1 -CCTCCAAACCTTAAAATCAAAACCCCAAA
* * * *
11092095 CCTCAAAACCGTAAAA-C-TAACCCTAAA
1 CCTCCAAACCTTAAAATCAAAACCCCAAA
* *
11092122 CCCTCTAAACCTTAAAATCAAAACCCTAAA
1 -CCTCCAAACCTTAAAATCAAAACCCCAAA
11092152 CCTTCCAAATCC-TAAAATCCAAAACCCCAAA
1 CC-TCCAAA-CCTTAAAAT-CAAAACCCCAAA
* * * *
11092183 CCTCCAAACCCTAAAAT-TAAACCCTAAT
1 CCTCCAAACCTTAAAATCAAAACCCCAAA
* * *
11092211 CC-GCAAACAC-TAAAATCAAAATCCTAAA
1 CCTCCAAAC-CTTAAAATCAAAACCCCAAA
* *
11092239 CTTTCCAAACCCTAAAAT
1 C-CTCCAAACCTTAAAAT
11092257 TCAAGCCCTA
Statistics
Matches: 173, Mismatches: 29, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
27 25 0.14
28 49 0.28
29 34 0.20
30 50 0.29
31 15 0.09
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.19
Consensus pattern (29 bp):
CCTCCAAACCTTAAAATCAAAACCCCAAA
Found at i:11094981 original size:18 final size:17
Alignment explanation
Indices: 11094948--11094981 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11094938 AACAATAATA
*
11094948 TGATTTTTTCCTTCATC
1 TGATTTTTTCCATCATC
11094965 TGATTTTTTCTCATCAT
1 TGATTTTTTC-CATCAT
11094982 TCATCCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.59
Consensus pattern (17 bp):
TGATTTTTTCCATCATC
Found at i:11098697 original size:52 final size:52
Alignment explanation
Indices: 11098608--11098764 Score: 217
Period size: 52 Copynumber: 3.0 Consensus size: 52
11098598 TGGATAAGAA
* *
11098608 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGAATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAG-ATTCTTAATAGGCAAGTTT
*
11098660 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
* * * * * *
11098712 AACTTGCAAGAGAAAAATTCTAAGAGGAGAGGGATTCTTAGTGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
11098764 G
1 G
11098765 TATGGTTATA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 86 0.92
53 7 0.08
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:11099326 original size:25 final size:25
Alignment explanation
Indices: 11099254--11099365 Score: 95
Period size: 25 Copynumber: 4.5 Consensus size: 25
11099244 AAGTGGTATC
* *
11099254 AGAGCTGAAGGTTCGAAACGT-GACA
1 AGAGCTAAAGGTTCGAGACGTGGA-A
* * * * *
11099279 AGAGTTAAAGATTCAACATGTGGAA
1 AGAGCTAAAGGTTCGAGACGTGGAA
11099304 AGAG-TCAAAGGTTCGAGACGTGG-A
1 AGAGCT-AAAGGTTCGAGACGTGGAA
* * *
11099328 AGAGCTAAAAGTTCGAGATGTGGGA
1 AGAGCTAAAGGTTCGAGACGTGGAA
11099353 AGAGCTAAAGGTT
1 AGAGCTAAAGGTT
11099366 TAAGATGTGG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
24 21 0.30
25 47 0.67
26 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.32, T:0.20
Consensus pattern (25 bp):
AGAGCTAAAGGTTCGAGACGTGGAA
Found at i:11099356 original size:49 final size:50
Alignment explanation
Indices: 11099254--11099365 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 50
11099244 AAGTGGTATC
* *
11099254 AGAGCTGAAGGTTCGAAACGTGACAAGAGTTAAAGATTCAACATGTGGAA
1 AGAGCTAAAGGTTCGAAACGTGACAAGAGTAAAAGATTCAACATGTGGAA
* * * * *
11099304 AGAG-TCAAAGGTTCGAGACGTG-GAAGAGCTAAAAG-TTCGAGATGTGGGA
1 AGAGCT-AAAGGTTCGAAACGTGACAAGAG-TAAAAGATTCAACATGTGGAA
11099353 AGAGCTAAAGGTT
1 AGAGCTAAAGGTT
11099366 TAAGATGTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
49 28 0.54
50 24 0.46
ACGTcount: A:0.38, C:0.11, G:0.32, T:0.20
Consensus pattern (50 bp):
AGAGCTAAAGGTTCGAAACGTGACAAGAGTAAAAGATTCAACATGTGGAA
Found at i:11099371 original size:25 final size:25
Alignment explanation
Indices: 11099285--11099379 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
11099275 GACAAGAGTT
* *
11099285 AAAGATTCAACATGTGGAAAGAG-TCA
1 AAAG-TTCAAGATGTGGGAAGAGCT-A
* * *
11099311 AAGGTTCGAGACGT-GGAAGAGCTA
1 AAAGTTCAAGATGTGGGAAGAGCTA
*
11099335 AAAGTTCGAGATGTGGGAAGAGCTA
1 AAAGTTCAAGATGTGGGAAGAGCTA
* *
11099360 AAGGTTTAAGATGTGGGAAG
1 AAAGTTCAAGATGTGGGAAG
11099380 TGCATGGTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
24 19 0.33
25 35 0.61
26 3 0.05
ACGTcount: A:0.38, C:0.08, G:0.34, T:0.20
Consensus pattern (25 bp):
AAAGTTCAAGATGTGGGAAGAGCTA
Found at i:11099633 original size:11 final size:11
Alignment explanation
Indices: 11099617--11099648 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
11099607 AAATCCCATA
11099617 TGAGATTTGTT
1 TGAGATTTGTT
11099628 TGAGATTTGTT
1 TGAGATTTGTT
11099639 TGAGATTTGT
1 TGAGATTTGT
11099649 CAGATATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (11 bp):
TGAGATTTGTT
Found at i:11099761 original size:52 final size:52
Alignment explanation
Indices: 11099673--11099829 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
11099663 TGGATAAGAA
* * * *
11099673 GACTTGCAAAAGAAAAATTCTAAGA-GAAAGAGGATTCTTAATAGGTACGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGA-GATTCTTAATAGGCAAGTTT
*
11099725 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
* * * * *
11099777 AACTTGCAAGAGAAGAATTTTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
11099829 G
1 G
11099830 TATGGTTATA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 86 0.93
53 6 0.07
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:11102232 original size:2 final size:2
Alignment explanation
Indices: 11102225--11102267 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
11102215 AAATTCTTCC
*
11102225 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11102267 A
1 A
11102268 CAGATATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11102513 original size:6 final size:7
Alignment explanation
Indices: 11102495--11102532 Score: 67
Period size: 7 Copynumber: 5.3 Consensus size: 7
11102485 TTTTATTAAT
11102495 TAAAAAA
1 TAAAAAA
11102502 TAAAAAA
1 TAAAAAA
11102509 TAAAAAA
1 TAAAAAA
11102516 TAAAAAA
1 TAAAAAA
11102523 TGAAAAAA
1 T-AAAAAA
11102531 TA
1 TA
11102533 TGGTTAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:11111507 original size:34 final size:34
Alignment explanation
Indices: 11111469--11111635 Score: 131
Period size: 34 Copynumber: 4.9 Consensus size: 34
11111459 CGTCTTTTAT
* **
11111469 AAAATGCGGCTATATTAGTAGTGTTTGTATCTGA
1 AAAATGCCGCTATATTAGTAGCATTTGTATCTGA
*** * *
11111503 AAAATGCTATTATATTAGCAGCATTTGTATTTGA
1 AAAATGCCGCTATATTAGTAGCATTTGTATCTGA
** * *
11111537 AAAACACCGCTATATTAGTGGCATTTGAATCT-A
1 AAAATGCCGCTATATTAGTAGCATTTGTATCTGA
* ** ***
11111570 GAAAATACCATTATATTAACGGCATTTGTATCTG-
1 -AAAATGCCGCTATATTAGTAGCATTTGTATCTGA
* *
11111604 AAAATGTCGCTATATTAGCAGCATTTGTATCT
1 AAAATGCCGCTATATTAGTAGCATTTGTATCT
11111636 TTAACACATC
Statistics
Matches: 103, Mismatches: 28, Indels: 5
0.76 0.21 0.04
Matches are distributed among these distances:
33 27 0.26
34 76 0.74
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (34 bp):
AAAATGCCGCTATATTAGTAGCATTTGTATCTGA
Found at i:11114710 original size:8 final size:8
Alignment explanation
Indices: 11114651--11114724 Score: 53
Period size: 8 Copynumber: 8.9 Consensus size: 8
11114641 ATCAGCCCCC
11114651 TTTTTTAT
1 TTTTTTAT
11114659 TTTTTCTAT
1 TTTTT-TAT
*
11114668 TTTTGTAT
1 TTTTTTAT
* *
11114676 TGTTGTA-
1 TTTTTTAT
*
11114683 TTTTATAT
1 TTTTTTAT
11114691 TTTTCTCT-T
1 TTTT-T-TAT
11114700 TTTTTTAT
1 TTTTTTAT
11114708 TTTTTATAGT
1 TTTTT-TA-T
11114718 TTTTTTA
1 TTTTTTA
11114725 ATTTAATAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
7 6 0.11
8 25 0.46
9 16 0.30
10 7 0.13
ACGTcount: A:0.14, C:0.04, G:0.05, T:0.77
Consensus pattern (8 bp):
TTTTTTAT
Found at i:11114839 original size:28 final size:27
Alignment explanation
Indices: 11114808--11114868 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
11114798 AAGACTTTAG
* *
11114808 GCCCAGTCGAATTAAAATTAGGCCTGAA
1 GCCCA-TCGAATTAAAATCAGGCCTAAA
* *
11114836 GCCCCATTGAATTGAAATCAGGCCTAAA
1 G-CCCATCGAATTAAAATCAGGCCTAAA
11114864 GCCCA
1 GCCCA
11114869 ATTGAATTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 4 0.14
28 20 0.71
29 4 0.14
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (27 bp):
GCCCATCGAATTAAAATCAGGCCTAAA
Found at i:11114887 original size:28 final size:28
Alignment explanation
Indices: 11114816--11114888 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
11114806 AGGCCCAGTC
* * *
11114816 GAATTAAAATTAGGCCTGAAGCCCCATT
1 GAATTGAAATTAGGCCTAAAGCCCAATT
*
11114844 GAATTGAAATCAGGCCTAAAGCCCAATT
1 GAATTGAAATTAGGCCTAAAGCCCAATT
* *
11114872 GAATTGGAATTGGGCCT
1 GAATTGAAATTAGGCCT
11114889 CCGTCCGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (28 bp):
GAATTGAAATTAGGCCTAAAGCCCAATT
Found at i:11115155 original size:49 final size:50
Alignment explanation
Indices: 11115097--11116002 Score: 909
Period size: 49 Copynumber: 18.4 Consensus size: 50
11115087 TTAAGACTCG
* *
11115097 ACAACTTTTAAAATTC-CATCTTGAAAAAGGCTCATCTCAGTAGAAGCTCA
1 ACAAC-TTTAAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* * * *
11115147 ACAATTTTAAAATT-T-ATTTTGAAAAA-GCTCCTCTCAGCAGAGGCTTA
1 ACAACTTTAAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* * * * * *
11115194 ACAACTTTAAAAATCTCATCTTGAAAAAAGACTCCTATCAGCAGAAGCTTA
1 ACAACTTTAAAATTCTCATCTTG-AAAAAGGCTCCTCTCAGTAGAGGCTCA
* *
11115245 ACAACTTTAAAA-TCTTATCTTGAAAAAGGCTCATCTCAGTAGAGGCTCA
1 ACAACTTTAAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* * *
11115294 ATAACTTTAAAATTCTTATCTTGAGAAA-GCTCCTCTCAGTAGAGGCTCA
1 ACAACTTTAAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* * *
11115343 ACAACTTTAAAA-TC-CATCTTGAAAAA-ACTCCTCTCAGCATAGGCTCA
1 ACAACTTTAAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* * * * * *
11115390 ATAACTTTAAAAATCTCATTTTGAAAAAGAGCTCCTCTTAGTAAAAGCTCA
1 ACAACTTTAAAATTCTCATCTTGAAAAAG-GCTCCTCTCAGTAGAGGCTCA
* * * *
11115441 ACAACTTT-AAA-TCTTATCTTGAAAAA-GCTCATCTCAGCAAAGGCTCA
1 ACAACTTTAAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* * * * * *
11115488 ACAATTTTAAAA-TCTTATCTTGAAAAGGGCTCTTTTCAGCAGAGGCTCA
1 ACAACTTTAAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* *
11115537 ACAACTTTAAAATTCATCATCTTGAAAAA-GCTCATCTAAGTAGAGGCTCA
1 ACAACTTTAAAATTC-TCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* * * * * * *
11115587 ACAACTTTAAAAATTTTCATCTTAAAAAATGCTTCTCTTAGCAGAGGCTTA
1 ACAACTTT-AAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* ** * * *
11115638 GCAGTTTTAAAAATCTCATCTTGAAAAAAGGCTCATATCAGTAGAGGCTCA
1 ACAACTTTAAAATTCTCATCTTG-AAAAAGGCTCCTCTCAGTAGAGGCTCA
* * *
11115689 ACAACTTTAAAATTCTCATCTTGAAAAAGGCTCCTCTTAATAGGGGCTCA
1 ACAACTTTAAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* * * *
11115739 ACAACTTCAAAAATC-CATCTTGAAAAA-GCTTCTCTTAGTAGAGGCTCA
1 ACAACTTTAAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* * * * * * *
11115787 ACAACTTTAAAAATCTTATCTTCAAAAAGACCTCCTCTCAGCAAAAGCTCA
1 ACAACTTTAAAATTCTCATCTTGAAAAAG-GCTCCTCTCAGTAGAGGCTCA
* * *
11115838 ACAACTTTAAAATT-TAATCTTGAAAAA-GCTCCTCTCAATTGAGGCTCA
1 ACAACTTTAAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* * * *
11115886 ACAACTTTAAAA-TCTTATCTTG-AAAAGGACTCATCTCAGCAAAGGCTCA
1 ACAACTTTAAAATTCTCATCTTGAAAAAGG-CTCCTCTCAGTAGAGGCTCA
* *
11115935 ACAACTTTAAAATTCTCATCTTGAAAAA-GCTCCTCTAAGCAGAGGCTCA
1 ACAACTTTAAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
* *
11115984 AAAACTTTAAAAATCTCAT
1 ACAACTTTAAAATTCTCAT
11116003 ATGTTCTTGA
Statistics
Matches: 713, Mismatches: 118, Indels: 51
0.81 0.13 0.06
Matches are distributed among these distances:
47 97 0.14
48 99 0.14
49 213 0.30
50 142 0.20
51 162 0.23
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (50 bp):
ACAACTTTAAAATTCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGGCTCA
Found at i:11129433 original size:15 final size:16
Alignment explanation
Indices: 11129414--11129449 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
11129404 TCTTTTTTTC
11129414 ATTTTTT-TATTTT-T
1 ATTTTTTGTATTTTGT
11129428 ATTTTTTGTATTTTGT
1 ATTTTTTGTATTTTGT
11129444 ATTTTT
1 ATTTTT
11129450 CTCTCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.35
15 6 0.30
16 7 0.35
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.81
Consensus pattern (16 bp):
ATTTTTTGTATTTTGT
Found at i:11129434 original size:55 final size:53
Alignment explanation
Indices: 11129331--11129438 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 53
11129321 TGCTATGCAA
11129331 GGCACCACTGCCATCAGCCCTTTTTTTCATTTTTTAATTTTTATTTTTTTGTAT
1 GGCACCACTGCCATCAGCCCTTTTTTTCATTTTTTAATTTTTA-TTTTTTGTAT
*
11129385 GGCACCACTGCCATCAGCCTCTTTTTTTCATTTTTTTATTTTTATTTTTTGTAT
1 GGCACCACTGCCATCAGCC-CTTTTTTTCATTTTTTAATTTTTATTTTTTGTAT
11129439 TTTGTATTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 29 0.56
55 23 0.44
ACGTcount: A:0.16, C:0.20, G:0.09, T:0.55
Consensus pattern (53 bp):
GGCACCACTGCCATCAGCCCTTTTTTTCATTTTTTAATTTTTATTTTTTGTAT
Found at i:11129597 original size:28 final size:28
Alignment explanation
Indices: 11129566--11129629 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
11129556 GGCCTAGTTG
11129566 AATTGAAATCGA-GCCTGAAGCCCAATTA
1 AATTGAAAT-GAGGCCTGAAGCCCAATTA
* * * *
11129594 AATTAAAATTAGGCTTGAAGCCCAATTG
1 AATTGAAATGAGGCCTGAAGCCCAATTA
11129622 AATTGAAA
1 AATTGAAA
11129630 GTGTGTCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (28 bp):
AATTGAAATGAGGCCTGAAGCCCAATTA
Found at i:11134408 original size:13 final size:13
Alignment explanation
Indices: 11134385--11134424 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
11134375 TTATTGAAAA
11134385 TTTTTAA-TTTAT
1 TTTTTAATTTTAT
11134397 TTTTTAATTTTAT
1 TTTTTAATTTTAT
*
11134410 TATTTAATATTTAT
1 TTTTTAAT-TTTAT
11134424 T
1 T
11134425 ATTCAAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 7 0.28
13 12 0.48
14 6 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATTTTAT
Found at i:11134424 original size:14 final size:14
Alignment explanation
Indices: 11134391--11134427 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
11134381 AAAATTTTTA
*
11134391 ATTTATTTTTTAAT
1 ATTTATTATTTAAT
11134405 -TTTATTATTTAAT
1 ATTTATTATTTAAT
11134418 ATTTATTATT
1 ATTTATTATT
11134428 CAAAGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTATTATTTAAT
Found at i:11149419 original size:8 final size:9
Alignment explanation
Indices: 11149405--11149477 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
11149395 AGGTTGTTCA
11149405 ATTTTTTAT
1 ATTTTTTAT
11149414 -TTTTTTAT
1 ATTTTTTAT
*
11149422 ATTTTTTAG
1 ATTTTTTAT
*
11149431 ATTTTTTCTTT
1 A-TTTTT-TAT
*
11149442 ATTTTTCAT
1 ATTTTTTAT
*
11149451 ATTTTCATTTT
1 ATTTT--TTAT
*
11149462 GTTTTTTAT
1 ATTTTTTAT
11149471 -TTTTTTA
1 ATTTTTTA
11149478 ATTAATGAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
8 15 0.30
9 17 0.34
10 10 0.20
11 8 0.16
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:11149454 original size:20 final size:19
Alignment explanation
Indices: 11149411--11149455 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
11149401 TTCAATTTTT
*
11149411 TATTTTTTTATATTTTTTA
1 TATTTTTTTATATTTTTCA
* *
11149430 GATTTTTTCTTTATTTTTCA
1 TATTTTTT-TATATTTTTCA
11149450 TATTTT
1 TATTTT
11149456 CATTTTGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (19 bp):
TATTTTTTTATATTTTTCA
Found at i:11149475 original size:20 final size:19
Alignment explanation
Indices: 11149406--11149475 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
11149396 GGTTGTTCAA
* *
11149406 TTTTTTATTTTTTTATATT
1 TTTTTTATTTTTTCATTTT
** *
11149425 TTTTAGATTTTTTC-TTTA
1 TTTTTTATTTTTTCATTTT
* *
11149443 TTTTTCATATTTTCATTTT
1 TTTTTTATTTTTTCATTTT
11149462 GTTTTTTATTTTTT
1 -TTTTTTATTTTTT
11149476 TAATTAATGA
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
18 13 0.34
19 14 0.37
20 11 0.29
ACGTcount: A:0.14, C:0.04, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTTATTTTTTCATTTT
Found at i:11149873 original size:22 final size:22
Alignment explanation
Indices: 11149848--11149898 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
11149838 ATATTTTGCT
*
11149848 TGGAATTCTTGGAGATTATGCC
1 TGGAAGTCTTGGAGATTATGCC
* *
11149870 TGGAGGTCTTGGAGATTATGCT
1 TGGAAGTCTTGGAGATTATGCC
11149892 TGGAAGT
1 TGGAAGT
11149899 TTTCCAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.33, T:0.35
Consensus pattern (22 bp):
TGGAAGTCTTGGAGATTATGCC
Found at i:11150204 original size:40 final size:39
Alignment explanation
Indices: 11150146--11150274 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
11150136 AAAGCTAAGG
*
11150146 TTTGCCCAAAAGTCTTTGGAAATCATTTAAAAATTTAAAAT
1 TTTGCCCAGAAG--TTTGGAAATCATTTAAAAATTTAAAAT
* * * * *
11150187 TTTACCCAGAGAGTTTGGATATCATCTAAAGATTTAAGAT
1 TTTGCCCAGA-AGTTTGGAAATCATTTAAAAATTTAAAAT
* * *
11150227 TTTGCCTAGAAGTCTTGGAAATCATTCAAAATTTTAAAAT
1 TTTGCCCAGAAGT-TTGGAAATCATTTAAAAATTTAAAAT
11150267 TTTGCCCA
1 TTTGCCCA
11150275 AATGTCTTAA
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
39 3 0.04
40 58 0.82
41 8 0.11
42 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (39 bp):
TTTGCCCAGAAGTTTGGAAATCATTTAAAAATTTAAAAT
Found at i:11150282 original size:40 final size:39
Alignment explanation
Indices: 11150146--11150291 Score: 136
Period size: 40 Copynumber: 3.6 Consensus size: 39
11150136 AAAGCTAAGG
* *
11150146 TTTGCCCAAAAGTCTTTGGAAATCATTTAAAAATTTAAAAT
1 TTTGCCCAGAAGTC-TTGGAAATCA-TTCAAAATTTAAAAT
* * *
11150187 TTTACCCAGAGAGT-TTGGATATCA-TCTAAAGATTTAAGAT
1 TTTGCCCAGA-AGTCTTGGAAATCATTC-AAA-ATTTAAAAT
*
11150227 TTTGCCTAGAAGTCTTGGAAATCATTCAAAATTTTAAAAT
1 TTTGCCCAGAAGTCTTGGAAATCATTCAAAA-TTTAAAAT
**
11150267 TTTGCCCA-AATGTCTTAAAAATCAT
1 TTTGCCCAGAA-GTCTTGGAAATCAT
11150292 GTAAAAAAAC
Statistics
Matches: 86, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
38 1 0.01
39 9 0.10
40 63 0.73
41 10 0.12
42 3 0.03
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (39 bp):
TTTGCCCAGAAGTCTTGGAAATCATTCAAAATTTAAAAT
Found at i:11150340 original size:41 final size:42
Alignment explanation
Indices: 11150281--11150502 Score: 120
Period size: 41 Copynumber: 5.4 Consensus size: 42
11150271 CCCAAATGTC
* *
11150281 TTAAAAATCATGTAAAAAAACTAAGGTTTTACGTGGAGGTCT
1 TTAAAAATCATGTCAAAAAACTAAGGTTTTACCTGGAGGTCT
** * **
11150323 TTAAAAATCAT-TC-AAAAACTTAAAATTGTACCTGGATATC-
1 TTAAAAATCATGTCAAAAAAC-TAAGGTTTTACCTGGAGGTCT
* * * * **
11150363 TTAAAAATCATGT-AAAAAATTGAAGGTTTTGCTTGAAAATCT
1 TTAAAAATCATGTCAAAAAACT-AAGGTTTTACCTGGAGGTCT
* ** ** * *
11150405 TTAGAAATCAT-TCAAAAATTTAAAATTTTATC-AGAGGTC-
1 TTAAAAATCATGTCAAAAAACTAAGGTTTTACCTGGAGGTCT
* * * **
11150444 TTAAAAATCATAT-AAAAAATCTGAGGTTTTGCCCAGAGGTCT
1 TTAAAAATCATGTCAAAAAA-CTAAGGTTTTACCTGGAGGTCT
*
11150486 TTAGAAATCAT-TCAAAA
1 TTAAAAATCATGTCAAAA
11150503 TTTTAAAATT
Statistics
Matches: 134, Mismatches: 35, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
39 15 0.11
40 29 0.22
41 48 0.36
42 42 0.31
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (42 bp):
TTAAAAATCATGTCAAAAAACTAAGGTTTTACCTGGAGGTCT
Found at i:11150487 original size:81 final size:81
Alignment explanation
Indices: 11150133--11150514 Score: 344
Period size: 81 Copynumber: 4.7 Consensus size: 81
11150123 AATCAAGTAA
* * * * *
11150133 AAAAAAGCTAAGG-TTTGCCCAAAAGTCTTTGGAAATCATTTAAAAATTTAAAATTTTACCCAGA
1 AAAAAATCTAAGGTTTTGCCTAGAAGTCTTTAGAAATCATTCAAAAATTTAAAATTTTA-CCAGA
** * *
11150197 GAGT-TTGGATATCATCT
65 G-GTCTTAAAAATCATGT
* * * * * * *
11150214 -AAAGATTTAAGATTTTGCCTAGAAGTC-TTGGAAATCATTCAAAATTTTAAAATTTTGCCCAAA
1 AAAAAATCTAAGGTTTTGCCTAGAAGTCTTTAGAAATCATTCAAAAATTTAAAATTTT-ACCAGA
*
11150277 TGTCTTAAAAATCATGT
65 GGTCTTAAAAATCATGT
* * * * * * * * *
11150294 AAAAAAACTAAGGTTTTACGTGGAGGTCTTTAAAAATCATTCAAAAACTTAAAATTGTACCTGGA
1 AAAAAATCTAAGGTTTTGCCTAGAAGTCTTTAGAAATCATTCAAAAATTTAAAATTTTACC-AGA
**
11150359 TATCTTAAAAATCATGT
65 GGTCTTAAAAATCATGT
* * *
11150376 AAAAAAT-TGAAGGTTTTG-CTTGAAAATCTTTAGAAATCATTCAAAAATTTAAAATTTTATCAG
1 AAAAAATCT-AAGGTTTTGCCTAG-AAGTCTTTAGAAATCATTCAAAAATTTAAAATTTTACCAG
*
11150439 AGGTCTTAAAAATCATAT
64 AGGTCTTAAAAATCATGT
* * * *
11150457 AAAAAATCTGAGGTTTTGCCCAGAGGTCTTTAGAAATCATTCAAAATTTTAAAATTTT
1 AAAAAATCTAAGGTTTTGCCTAGAAGTCTTTAGAAATCATTCAAAAATTTAAAATTTT
11150515 GCTTAGAAGT
Statistics
Matches: 239, Mismatches: 52, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
79 2 0.01
80 48 0.20
81 99 0.41
82 90 0.38
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (81 bp):
AAAAAATCTAAGGTTTTGCCTAGAAGTCTTTAGAAATCATTCAAAAATTTAAAATTTTACCAGAG
GTCTTAAAAATCATGT
Found at i:11152483 original size:13 final size:13
Alignment explanation
Indices: 11152465--11152495 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11152455 CATTTTCCAT
*
11152465 TTTTTCCTTTTTC
1 TTTTTCCTTTGTC
11152478 TTTTTCCTTTGTC
1 TTTTTCCTTTGTC
11152491 TTTTT
1 TTTTT
11152496 TTCTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTCCTTTGTC
Found at i:11152575 original size:41 final size:40
Alignment explanation
Indices: 11152530--11152639 Score: 107
Period size: 41 Copynumber: 2.7 Consensus size: 40
11152520 ATCTCTATTT
* *
11152530 TTTTTTGCTTTTTT-TTTCTTCTTGTTCTTTTC-ATTTTCTCA
1 TTTTTTCCTTTTTTATTT-TT-TT-TCCTTTTCTATTTTCTCA
*
11152571 TTTTTTCCTTTTTTATTTTTTTTCCTTTTCTTATTTTCTCC
1 TTTTTTCCTTTTTTATTTTTTTTCCTTTTC-TATTTTCTCA
* * *
11152612 TTTTTTCACCTTTCTGTTTTTTTTCCTT
1 TTTTTTC-CTTTTTTATTTTTTTTCCTT
11152640 CAAGTGTATT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
39 7 0.12
40 2 0.03
41 30 0.51
42 20 0.34
ACGTcount: A:0.05, C:0.19, G:0.03, T:0.74
Consensus pattern (40 bp):
TTTTTTCCTTTTTTATTTTTTTTCCTTTTCTATTTTCTCA
Found at i:11152583 original size:17 final size:16
Alignment explanation
Indices: 11152447--11152616 Score: 65
Period size: 16 Copynumber: 10.8 Consensus size: 16
11152437 CTTTTCTTTT
* *
11152447 TTTTTTCCCATTTTCCA
1 TTTTTT-CCTTTTTCTA
11152464 TTTTTTCCTTTTTC--
1 TTTTTTCCTTTTTCTA
*
11152478 -TTTTTCCTTTGTCT-
1 TTTTTTCCTTTTTCTA
*
11152492 TTTTTTCTCTTTTTTTCA
1 TTTTTTC-CTTTTTCT-A
* *
11152510 TTTTTTTCCTATCTCTA
1 -TTTTTTCCTTTTTCTA
* *
11152527 -TTTTT--TTTTGCTT
1 TTTTTTCCTTTTTCTA
* * *
11152540 TTTTTTTCTTCTTGT-
1 TTTTTTCCTTTTTCTA
* *
11152555 TCTTTT-CATTTTCTCA
1 TTTTTTCCTTTTTCT-A
11152571 TTTTTTCCTTTTT-TA
1 TTTTTTCCTTTTTCTA
11152586 TTTTTTTTCC-TTTTCTTA
1 --TTTTTTCCTTTTTC-TA
*
11152604 TTTTCTCCTTTTT
1 TTTTTTCCTTTTT
11152617 TCACCTTTCT
Statistics
Matches: 115, Mismatches: 21, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
13 16 0.14
14 10 0.09
15 17 0.15
16 34 0.30
17 24 0.21
18 7 0.06
19 7 0.06
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTTTTCCTTTTTCTA
Found at i:11152592 original size:18 final size:18
Alignment explanation
Indices: 11152571--11152607 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
11152561 CATTTTCTCA
11152571 TTTTTTCCTTTT-TTATT
1 TTTTTTCCTTTTCTTATT
11152588 TTTTTTCCTTTTCTTATT
1 TTTTTTCCTTTTCTTATT
11152606 TT
1 TT
11152608 CTCCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTCCTTTTCTTATT
Found at i:11152617 original size:42 final size:37
Alignment explanation
Indices: 11152457--11152639 Score: 104
Period size: 41 Copynumber: 4.6 Consensus size: 37
11152447 TTTTTTCCCA
* ** * *
11152457 TTTTCCATTTTTTCCTTTTTCTTTTTCCTTTGTCT-TT
1 TTTTCCTTTTTTTTTTTTTTCCTTTTCATTT-TCTCTT
* *
11152494 TTTTCTCTTTTTTTCATTTTTTTCCTATCTC-TATT-T-TT
1 TTTTC-CTTTTTTT--TTTTTTTCCT-TTTCATTTTCTCTT
* *
11152532 TTTTGCTTTTTTTTTCTTCTTGTTCTTTTCATTTTCTCATT
1 TTTTCCTTTTTTTTT-TT-TT-TCCTTTTCATTTTCTC-TT
11152573 TTTTCCTTTTTTATTTTTTTTCCTTTTCTTATTTTCTCCTT
1 TTTTCCTTTTTT-TTTTTTTTCCTTTTC--ATTTTCT-CTT
* *
11152614 TTTTCACCTTTCTGTTTTTTTTCCTT
1 TTTT--CCTTTTTTTTTTTTTTCCTT
11152640 CAAGTGTATT
Statistics
Matches: 115, Mismatches: 14, Indels: 29
0.73 0.09 0.18
Matches are distributed among these distances:
35 2 0.02
36 2 0.02
37 18 0.16
38 20 0.17
39 9 0.08
40 11 0.10
41 31 0.27
42 16 0.14
43 6 0.05
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (37 bp):
TTTTCCTTTTTTTTTTTTTTCCTTTTCATTTTCTCTT
Found at i:11153805 original size:16 final size:18
Alignment explanation
Indices: 11153784--11153826 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
11153774 AAAAAAATTT
11153784 CTCTTTCT-TTTCT-TCC
1 CTCTTTCTCTTTCTCTCC
*
11153800 CTCTTT-TCTTTCTCTCT
1 CTCTTTCTCTTTCTCTCC
11153817 CTCTTTCTCT
1 CTCTTTCTCT
11153827 CTCTTTTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 1 0.04
16 11 0.48
17 8 0.35
18 3 0.13
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (18 bp):
CTCTTTCTCTTTCTCTCC
Found at i:11153821 original size:12 final size:12
Alignment explanation
Indices: 11153806--11153830 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11153796 TTCCCTCTTT
11153806 TCTTTCTCTCTC
1 TCTTTCTCTCTC
11153818 TCTTTCTCTCTC
1 TCTTTCTCTCTC
11153830 T
1 T
11153831 TTTTGCAAAG
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:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTTTCTCTCTC
Found at i:11153830 original size:27 final size:27
Alignment explanation
Indices: 11153781--11153833 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11153771 AAAAAAAAAA
*
11153781 TTTCTCTTTCTTTTCTTCCCTCTTTTC
1 TTTCTCTCTCTTTTCTTCCCTCTTTTC
*
11153808 TTTCTCTCTCTCTTTC-TCTCTCTTTT
1 TTTCTCTCTCT-TTTCTTCCCTCTTTT
11153834 TGCAAAGCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTCTCTCTCTTTTCTTCCCTCTTTTC
Found at i:11160255 original size:22 final size:20
Alignment explanation
Indices: 11160230--11160274 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
11160220 TTTCTAAGAA
11160230 TATTTAGTTTC-ATTAGCATTAT
1 TATTTA-TTTCTATTA-CATT-T
11160252 TATTTATTTCTATTACATTT
1 TATTTATTTCTATTACATTT
11160272 TAT
1 TAT
11160275 AAAAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.27, C:0.09, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTATTTCTATTACATTT
Found at i:11174604 original size:53 final size:53
Alignment explanation
Indices: 11174547--11174653 Score: 128
Period size: 53 Copynumber: 2.0 Consensus size: 53
11174537 TTATAATTAT
* * *
11174547 ACAGAAGGTCGA-AATCATCTT-AATAGAAGTTTATGTCTGTTAATTTATTATAA
1 ACAGAAGGT-GATAATCAT-TTGAATAGAAATTTATATCTGTTAATTCATTATAA
* * *
11174600 ACAGAAGGTTATAATCATTTGGATAGAAATTTATATCTGTTTATTCATTATAA
1 ACAGAAGGTGATAATCATTTGAATAGAAATTTATATCTGTTAATTCATTATAA
11174653 A
1 A
11174654 TAAATCTTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 3 0.07
53 43 0.93
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.39
Consensus pattern (53 bp):
ACAGAAGGTGATAATCATTTGAATAGAAATTTATATCTGTTAATTCATTATAA
Found at i:11178948 original size:15 final size:16
Alignment explanation
Indices: 11178928--11178961 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11178918 ATTTTTTTCA
11178928 ATTTTTT-ATCCTTTT
1 ATTTTTTAATCCTTTT
*
11178943 ATTTTTTAATCTTTTT
1 ATTTTTTAATCCTTTT
11178959 ATT
1 ATT
11178962 AATAGAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTTAATCCTTTT
Found at i:11179100 original size:11 final size:11
Alignment explanation
Indices: 11179084--11179118 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
11179074 TTTGACATAG
11179084 TTTTTTGTTTT
1 TTTTTTGTTTT
11179095 TTTTTTGTTTT
1 TTTTTTGTTTT
11179106 TTTTTTGTTTT
1 TTTTTTGTTTT
11179117 TT
1 TT
11179119 GAAAAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:11179309 original size:41 final size:42
Alignment explanation
Indices: 11179178--11179309 Score: 151
Period size: 42 Copynumber: 3.2 Consensus size: 42
11179168 AATAAATTAA
* *
11179178 GCTCATCTAAATA-AAGGCACCATAACTTTTGAAAAATAAAAT
1 GCTCCTCTAAATAGAA-GCACCACAACTTTTGAAAAATAAAAT
* * * *
11179220 GCTCTTCTAAATAGATGCACAACAACTTTTGAAAAATAAATT
1 GCTCCTCTAAATAGAAGCACCACAACTTTTGAAAAATAAAAT
* * * *
11179262 ACTCCTCTAAATAGAAGTACCACAATTTTTG-AAAATAAAAG
1 GCTCCTCTAAATAGAAGCACCACAACTTTTGAAAAATAAAAT
11179303 GCTCCTC
1 GCTCCTC
11179310 GACAATCATA
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
41 14 0.19
42 60 0.80
43 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (42 bp):
GCTCCTCTAAATAGAAGCACCACAACTTTTGAAAAATAAAAT
Found at i:11179715 original size:21 final size:21
Alignment explanation
Indices: 11179688--11179798 Score: 78
Period size: 21 Copynumber: 4.9 Consensus size: 21
11179678 TTCAAAATGT
11179688 CTTAAAGATTCTCATTTAAGA
1 CTTAAAGATTCTCATTTAAGA
* * *
11179709 CTAAAAGATTCTTATTTGAATACGT
1 CTTAAAGATTCTCATTT--A-A-GA
*
11179734 CTTAAAGATTCTCATTTAAAA
1 CTTAAAGATTCTCATTTAAGA
* * * *
11179755 CTCAAAGGTTCTTATTTGAATA
1 CTTAAAGATTCTCATTT-AAGA
11179777 CGCTTTAAAGATTCTCATTTAA
1 --C-TTAAAGATTCTCATTTAA
11179799 AACATTTAAG
Statistics
Matches: 68, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
21 29 0.43
22 4 0.06
23 2 0.03
24 4 0.06
25 29 0.43
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
CTTAAAGATTCTCATTTAAGA
Found at i:11179745 original size:25 final size:25
Alignment explanation
Indices: 11179686--11180060 Score: 140
Period size: 25 Copynumber: 15.8 Consensus size: 25
11179676 CTTTCAAAAT
11179686 GTCTTAAAGATTCTCATTT--A-A-
1 GTCTTAAAGATTCTCATTTGAATAC
* * *
11179707 GACTAAAAGATTCTTATTTGAATAC
1 GTCTTAAAGATTCTCATTTGAATAC
*
11179732 GTCTTAAAGATTCTCATTT-AAAAC
1 GTCTTAAAGATTCTCATTTGAATAC
* *
11179756 -TC--AAAGGTTCTTATTTGAATAC
1 GTCTTAAAGATTCTCATTTGAATAC
* *
11179778 G-CTTTAAAGATTCTCATTTAAAACATTTAA
1 GTC-TTAAAGATTCTCATTT--GA-A--TAC
* * * * *
11179808 GACTCAAAGATTTTCATTTGAAAAT
1 GTCTTAAAGATTCTCATTTGAATAC
* * *
11179833 GTCTTAAAGACTCTC-TTTTAAGAC
1 GTCTTAAAGATTCTCATTTGAATAC
* * * * *
11179857 -TC-AAAAG-TTTTTATTTGAAAAT
1 GTCTTAAAGATTCTCATTTGAATAC
* * *
11179879 GTCTTAAA-A-ACTCACTTTTAAGAC
1 GTCTTAAAGATTCTCA-TTTGAATAC
*
11179903 -TC-AAAAG-TTCTCATTTGGAA-AC
1 GTCTTAAAGATTCTCATTT-GAATAC
* *
11179925 AT-TCTAAAGATTCTCATTT-AAGA-
1 GTCT-TAAAGATTCTCATTTGAATAC
* * * *
11179948 -T-TCAAAGATTCTTATTTGAAAAT
1 GTCTTAAAGATTCTCATTTGAATAC
* *
11179971 ATCTTAAAGATTCTCATTT-AAGAC
1 GTCTTAAAGATTCTCATTTGAATAC
*
11179995 -TC--AAAGATTCTCATTTGAAAAC
1 GTCTTAAAGATTCTCATTTGAATAC
* *
11180017 GTCTTAAAGATTCTCATTTGAAAAT
1 GTCTTAAAGATTCTCATTTGAATAC
*
11180042 GTCTTAAGGATTCTCATTT
1 GTCTTAAAGATTCTCATTT
11180061 AAGACTCAAA
Statistics
Matches: 264, Mismatches: 54, Indels: 68
0.68 0.14 0.18
Matches are distributed among these distances:
21 57 0.22
22 32 0.12
23 24 0.09
24 29 0.11
25 100 0.38
27 2 0.01
28 2 0.01
30 17 0.06
31 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (25 bp):
GTCTTAAAGATTCTCATTTGAATAC
Found at i:11179767 original size:46 final size:46
Alignment explanation
Indices: 11179681--11180035 Score: 351
Period size: 46 Copynumber: 7.5 Consensus size: 46
11179671 TTATCCTTTC
* *
11179681 AAAATGTCTTAAAGATTCTCATTTAAGACTAAAAGATTCTTATTTG
1 AAAACGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTG
* * *
11179727 AATACGTCTTAAAGATTCTCATTTAAAACTCAAAGGTTCTTATTTG
1 AAAACGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTG
*
11179773 AATACG-CTTTAAAGATTCTCATTTAAAACATTTAAGACTCAAAGATT-TTCATTTG
1 AAAACGTC-TTAAAGA-T-TC---T----CATTTAAGACTCAAAGATTCTT-ATTTG
* * * *
11179828 AAAATGTCTTAAAGACTCTCTTTTAAGACTCAAA-AGTTTTTATTTG
1 AAAACGTCTTAAAGATTCTCATTTAAGACTCAAAGA-TTCTTATTTG
* * * * * *
11179874 AAAATGTCTTAAAAACTCACTTTTAAGACTCAAA-AGTTCTCATTTG
1 AAAACGTCTTAAAGATTCTCATTTAAGACTCAAAGA-TTCTTATTTG
* * *
11179920 GAAACAT-TCTAAAGATTCTCATTTAAGATTCAAAGATTCTTATTTG
1 AAAACGTCT-TAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTG
** *
11179966 AAAATATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTG
1 AAAACGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTG
11180012 AAAACGTCTTAAAGATTCTCATTT
1 AAAACGTCTTAAAGATTCTCATTT
11180036 GAAAATGTCT
Statistics
Matches: 262, Mismatches: 30, Indels: 34
0.80 0.09 0.10
Matches are distributed among these distances:
45 3 0.01
46 212 0.81
47 5 0.02
48 2 0.01
50 1 0.00
51 1 0.00
53 2 0.01
54 2 0.01
55 33 0.13
56 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (46 bp):
AAAACGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTG
Found at i:11179840 original size:55 final size:55
Alignment explanation
Indices: 11179746--11179853 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 55
11179736 TAAAGATTCT
* * *
11179746 CATTTAAAACTCAAAGGTTCTTATTTGAATACGCTTTAAAGATTCTCATTTAAAA
1 CATTTAAAACTCAAAGATTCTTATTTGAAAACGCTTTAAAGACTCTCATTTAAAA
* * *
11179801 CATTTAAGACTCAAAGATT-TTCATTTGAAAATG-TCTTAAAGACTCTCTTTTAA
1 CATTTAAAACTCAAAGATTCTT-ATTTGAAAACGCT-TTAAAGACTCTCATTTAA
11179854 GACTCAAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 3 0.07
55 42 0.93
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (55 bp):
CATTTAAAACTCAAAGATTCTTATTTGAAAACGCTTTAAAGACTCTCATTTAAAA
Found at i:11180026 original size:71 final size:71
Alignment explanation
Indices: 11179813--11180083 Score: 231
Period size: 71 Copynumber: 3.9 Consensus size: 71
11179803 TTTAAGACTC
* * * * * *
11179813 AAAGATTTTCATTTGAAAATGTCTTAAAGACTCTCTTTTAAGACTCAAA-AGTTTTTATTTGAAA
1 AAAGATTCTCATTTGAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGA-TTCTCATTTGAAA
*
11179877 ATGTCTT
65 ACGTCTT
* * * * *
11179884 AAA-A-ACTCACTTTTAAGA-CTC-AAAAG-TTCTCATTTGGAA-ACATTCTAAAGATTCTCATT
1 AAAGATTCTCA-TTTGAAAATATCTTAAAGATTCTCATTT--AAGAC--TC-AAAGATTCTCATT
* *
11179943 T-AAGA--T-TC
60 TGAAAACGTCTT
*
11179951 AAAGATTCTTATTTGAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAA
1 AAAGATTCTCATTTGAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAA
11180016 CGTCTT
66 CGTCTT
* * * *
11180022 AAAGATTCTCATTTGAAAATGTCTTAAGGATTCTCATTTAAGACTCAAAGGTTTTCATTTGA
1 AAAGATTCTCATTTGAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGA
11180084 GGATTTAGGA
Statistics
Matches: 158, Mismatches: 25, Indels: 34
0.73 0.12 0.16
Matches are distributed among these distances:
67 25 0.16
68 19 0.12
69 14 0.09
70 19 0.12
71 80 0.51
72 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (71 bp):
AAAGATTCTCATTTGAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAA
CGTCTT
Found at i:11181412 original size:8 final size:8
Alignment explanation
Indices: 11181402--11181467 Score: 105
Period size: 8 Copynumber: 8.0 Consensus size: 8
11181392 CTCCTTTTAC
*
11181402 ATTTTTTC
1 ATTTTTTT
11181410 ATTTTTTT
1 ATTTTTTT
11181418 ATTTTTTT
1 ATTTTTTT
11181426 ATTTTTTT
1 ATTTTTTT
11181434 ATTTTTTT
1 ATTTTTTT
11181442 ATTTTTTT
1 ATTTTTTT
11181450 ATTTTTTT
1 ATTTTTTT
11181458 CATCTTTTTT
1 -AT-TTTTTT
11181468 TCTCTTTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
8 47 0.85
9 2 0.04
10 6 0.11
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (8 bp):
ATTTTTTT
Found at i:11181478 original size:24 final size:23
Alignment explanation
Indices: 11181403--11181480 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 23
11181393 TCCTTTTACA
11181403 TTTTTTCATTTTTTTATTTTTTT
1 TTTTTTCATTTTTTTATTTTTTT
*
11181426 ATTTTTTTATTTTTTTATTTTTTTAT
1 -TTTTTTCATTTTTTTA-TTTTTT-T
* * *
11181452 TTTTTTCATCTTTTT-TTCTCTT
1 TTTTTTCATTTTTTTATTTTTTT
11181474 TTTTTTC
1 TTTTTTC
11181481 TCTCCTTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
22 8 0.17
23 4 0.09
24 15 0.32
25 19 0.40
26 1 0.02
ACGTcount: A:0.09, C:0.08, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTTTTCATTTTTTTATTTTTTT
Found at i:11181480 original size:11 final size:11
Alignment explanation
Indices: 11181451--11181483 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
11181441 TATTTTTTTA
11181451 TTTTTTTCATC-
1 TTTTTTTC-TCT
11181462 TTTTTTTCTCT
1 TTTTTTTCTCT
11181473 TTTTTTTCTCT
1 TTTTTTTCTCT
11181484 CCTTTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 2 0.10
11 19 0.90
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:11185874 original size:26 final size:25
Alignment explanation
Indices: 11185820--11185874 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
11185810 TTACTTTAGG
*
11185820 AATTTTATAAAAATTTATCATTTGA
1 AATTTTATAAAAATTTATCATTGGA
*
11185845 AATTTT-TATAAATTTCATCATTGGA
1 AATTTTATAAAAATTT-ATCATTGGA
11185870 TAATT
1 -AATT
11185875 AATATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 8 0.31
25 14 0.54
26 4 0.15
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (25 bp):
AATTTTATAAAAATTTATCATTGGA
Found at i:11186236 original size:21 final size:21
Alignment explanation
Indices: 11186211--11186258 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
11186201 TTCCTTAGAT
11186211 TTCTCCTTCATT-TTCTCTCTC
1 TTCTCCTT-ATTATTCTCTCTC
*
11186232 TTCTCCTTTTTATTCTCTCTC
1 TTCTCCTTATTATTCTCTCTC
11186253 TCTCTC
1 T-TCTC
11186259 TAACTGGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 2 0.08
21 18 0.75
22 4 0.17
ACGTcount: A:0.04, C:0.38, G:0.00, T:0.58
Consensus pattern (21 bp):
TTCTCCTTATTATTCTCTCTC
Found at i:11186530 original size:26 final size:25
Alignment explanation
Indices: 11186487--11186536 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
11186477 AATTTCTAGA
11186487 ACCCAAAAAACTTCAAATTTTTTTT
1 ACCCAAAAAACTTCAAATTTTTTTT
*
11186512 ACCCAAAAAACTTCAAAATTTTTTT
1 ACCCAAAAAACTTCAAATTTTTTTT
11186537 GCTTTCTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (25 bp):
ACCCAAAAAACTTCAAATTTTTTTT
Found at i:11186755 original size:16 final size:16
Alignment explanation
Indices: 11186734--11186767 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11186724 TTTTAGCTTT
* *
11186734 TTTTTTATTTTTTTTA
1 TTTTTTAATCTTTTTA
11186750 TTTTTTAATCTTTTTA
1 TTTTTTAATCTTTTTA
11186766 TT
1 TT
11186768 AACATAATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTAATCTTTTTA
Found at i:11189578 original size:19 final size:19
Alignment explanation
Indices: 11189554--11189593 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
11189544 ATATGTTTTA
*
11189554 TTTTTT-TTGTTTTTCTTTC
1 TTTTTTCTT-TTTTTCCTTC
11189573 TTTTTTCTTTTTTTCCTTC
1 TTTTTTCTTTTTTTCCTTC
11189592 TT
1 TT
11189594 CTGTTTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTTTTCTTTTTTTCCTTC
Found at i:11190422 original size:20 final size:19
Alignment explanation
Indices: 11190397--11190488 Score: 79
Period size: 19 Copynumber: 4.9 Consensus size: 19
11190387 ATTACAGGTT
11190397 TTTTTTTCATTTTCT-TTTTA
1 TTTTTTT-ATTTT-TATTTTA
11190417 TTTTTTTATTTTTATTTTA
1 TTTTTTTATTTTTATTTTA
*
11190436 TTTTATTTA-TTTTA-CTTA
1 TTTT-TTTATTTTTATTTTA
*
11190454 -TATTTTATTTTCTATTTT-
1 TTTTTTTATTTT-TATTTTA
*
11190472 TTTCTTT-TTTTTATTTT
1 TTTTTTTATTTTTATTTT
11190489 TTTAAAAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
16 4 0.07
17 11 0.18
18 10 0.16
19 25 0.41
20 11 0.18
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTATTTTTATTTTA
Done.