Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 112 of 313
Found at i:36462466 original size:19 final size:20
Alignment explanation
Indices: 36462430--36462467 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
36462420 CAAGTTGTTC
**
36462430 ACATATTTTTTCGTATTTTA
1 ACATATTTTTTCAAATTTTA
36462450 ACAT-TTTTTTCAAATTTT
1 ACATATTTTTTCAAATTTT
36462468 CTACGATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.61
Consensus pattern (20 bp):
ACATATTTTTTCAAATTTTA
Found at i:36464779 original size:20 final size:21
Alignment explanation
Indices: 36464746--36464785 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
36464736 AAACTTTAAA
36464746 ATAACTTTTATTAAACAATAC
1 ATAACTTTTATTAAACAATAC
* *
36464767 ATAA-TTTTTTTAATCAATA
1 ATAACTTTTATTAAACAATA
36464786 AATATTAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAACTTTTATTAAACAATAC
Found at i:36473653 original size:26 final size:25
Alignment explanation
Indices: 36473617--36473665 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
36473607 ACGAATTTTC
36473617 TCAAAATTTTACCGGAGCTAAAATCA
1 TCAAAATTTTACCGGAG-TAAAATCA
*
36473643 TCAAAATTTTACTGGAGTAAAAT
1 TCAAAATTTTACCGGAGTAAAAT
36473666 TGGGATGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (25 bp):
TCAAAATTTTACCGGAGTAAAATCA
Found at i:36477866 original size:18 final size:20
Alignment explanation
Indices: 36477830--36477870 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
36477820 ATATAATTTT
*
36477830 AAAATATATATAAACCATCA
1 AAAATATATATAAAACATCA
36477850 AAAATAT-TA-AAAACATCA
1 AAAATATATATAAAACATCA
36477868 AAA
1 AAA
36477871 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 2 0.10
20 7 0.35
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATATATATAAAACATCA
Found at i:36477987 original size:30 final size:30
Alignment explanation
Indices: 36477951--36478008 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
36477941 CAACTTAACA
36477951 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAACAAAATT
* * *
36477981 AGCAAATGTCTTTAAAATAATAATAAAA
1 AGCAAATGCCTCTAAAATAATAACAAAA
36478009 ATTAACAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.26
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAACAAAATT
Found at i:36479650 original size:13 final size:13
Alignment explanation
Indices: 36479632--36479658 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36479622 TTCATACTTT
36479632 ACTGGTATAATCA
1 ACTGGTATAATCA
36479645 ACTGGTATAATCA
1 ACTGGTATAATCA
36479658 A
1 A
36479659 TTTGGTTTCT
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):
ACTGGTATAATCA
Found at i:36486320 original size:22 final size:23
Alignment explanation
Indices: 36486295--36486339 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
36486285 TTAAAAAATA
* *
36486295 TTATTTAATTATTTAAA-TATTT
1 TTATTTAAGTAATTAAACTATTT
36486317 TTATTTAAGTAATTAAACTATTT
1 TTATTTAAGTAATTAAACTATTT
36486340 AAAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTTAAGTAATTAAACTATTT
Found at i:36486339 original size:31 final size:31
Alignment explanation
Indices: 36486304--36486362 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
36486294 ATTATTTAAT
* *
36486304 TATTTAAATATTTTTATTTAAGTAATTAAAC
1 TATTTAAAAAATTTTATTTAAGTAATTAAAC
*
36486335 TATTTAAAAAATTTTATTTAAGTTATTA
1 TATTTAAAAAATTTTATTTAAGTAATTA
36486363 GGGTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (31 bp):
TATTTAAAAAATTTTATTTAAGTAATTAAAC
Found at i:36497862 original size:22 final size:22
Alignment explanation
Indices: 36497777--36497862 Score: 56
Period size: 22 Copynumber: 4.0 Consensus size: 22
36497767 ATAATATTTT
*
36497777 ATAATAATAAAAATCATATATA
1 ATAATAATAAATATCATATATA
* *
36497799 A-ACATAATAAAGA--ATATCTA
1 ATA-ATAATAAATATCATATATA
* * **
36497819 AT-TTGAT-AATATTTTATAATA
1 ATAATAATAAATATCATAT-ATA
36497840 ATAATAATAAATATCATATATA
1 ATAATAATAAATATCATATATA
36497862 A
1 A
36497863 ATTTAATAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 14
0.65 0.15 0.20
Matches are distributed among these distances:
18 3 0.07
19 3 0.07
20 10 0.22
21 5 0.11
22 17 0.37
23 8 0.17
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAATAATAAATATCATATATA
Found at i:36500050 original size:23 final size:22
Alignment explanation
Indices: 36500024--36500078 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 22
36500014 TATTTTATAC
36500024 TATAAAATATTTATAAAT-TGTAA
1 TATAAAATATTTA-AAATAT-TAA
* *
36500047 TATATATTA-TTAAAATATTAA
1 TATAAAATATTTAAAATATTAA
36500068 TAT-AAATATTT
1 TATAAAATATTT
36500079 TTCAATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
20 3 0.12
21 12 0.46
22 4 0.15
23 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TATAAAATATTTAAAATATTAA
Found at i:36500066 original size:11 final size:11
Alignment explanation
Indices: 36500050--36500109 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
36500040 ATTGTAATAT
36500050 ATATTATTAAA
1 ATATTATTAAA
*
36500061 ATATTAATATAA
1 ATATTATTA-AA
*
36500073 ATATTTTTCAATA
1 ATATTATT-AA-A
36500086 ATATT-TTAAGA
1 ATATTATTAA-A
*
36500097 ATATTATTTAA
1 ATATTATTAAA
36500108 AT
1 AT
36500110 TTTAAAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
11 19 0.47
12 14 0.35
13 7 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
ATATTATTAAA
Found at i:36500232 original size:14 final size:14
Alignment explanation
Indices: 36500213--36500261 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
36500203 TTATTATATT
36500213 ATTAAATATAAATA
1 ATTAAATATAAATA
**
36500227 ATTAAAT-TTTATCA
1 ATTAAATATAAAT-A
36500241 A--AAATATAAATA
1 ATTAAATATAAATA
36500253 ATTAAATAT
1 ATTAAATAT
36500262 GCATTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
12 6 0.22
13 6 0.22
14 15 0.56
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTAAATATAAATA
Found at i:36501287 original size:18 final size:18
Alignment explanation
Indices: 36501253--36501306 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
36501243 AAAAATTATG
*
36501253 TAAAAAT-ATATTATTTA
1 TAAAAATAATATTTTTTA
*
36501270 -AATCAATAATATTTTTTA
1 TAA-AAATAATATTTTTTA
*
36501288 TAAAAATAATAGTTTTTA
1 TAAAAATAATATTTTTTA
36501306 T
1 T
36501307 TTAAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.07
17 3 0.10
18 23 0.77
19 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
TAAAAATAATATTTTTTA
Found at i:36511918 original size:47 final size:47
Alignment explanation
Indices: 36511847--36511939 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
36511837 CACCTATCGA
*
36511847 GATCTTTTTTTTCTCACAATCTTCACCCAAAAATGAAATAAGTAGTT
1 GATCTTTTTTTTCTCACAAACTTCACCCAAAAATGAAATAAGTAGTT
36511894 GATCTTTTTTTTCTCACAAACTTCACCCAAAAATGAAATAAGTAGT
1 GATCTTTTTTTTCTCACAAACTTCACCCAAAAATGAAATAAGTAGT
36511940 GGCAATATCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (47 bp):
GATCTTTTTTTTCTCACAAACTTCACCCAAAAATGAAATAAGTAGTT
Found at i:36515398 original size:46 final size:46
Alignment explanation
Indices: 36515331--36515422 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
36515321 AGTATATGAA
36515331 ATCGAAGGCCAAGTTGACGAGTCCGTCCCCTTATTAACTGAACAAG
1 ATCGAAGGCCAAGTTGACGAGTCCGTCCCCTTATTAACTGAACAAG
36515377 ATCGAAGGCCAAGTTGACGAGTCCGTCCCCTTATTAACTGAACAAG
1 ATCGAAGGCCAAGTTGACGAGTCCGTCCCCTTATTAACTGAACAAG
36515423 CCACTTGGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (46 bp):
ATCGAAGGCCAAGTTGACGAGTCCGTCCCCTTATTAACTGAACAAG
Found at i:36516282 original size:20 final size:20
Alignment explanation
Indices: 36516257--36516299 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
36516247 TTGAAATAAA
36516257 ACTGACACTAGCATAAGGAT
1 ACTGACACTAGCATAAGGAT
36516277 ACTGACACTAGCATAAGGAT
1 ACTGACACTAGCATAAGGAT
36516297 ACT
1 ACT
36516300 TCTTTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (20 bp):
ACTGACACTAGCATAAGGAT
Found at i:36530021 original size:31 final size:30
Alignment explanation
Indices: 36529987--36530093 Score: 153
Period size: 31 Copynumber: 3.5 Consensus size: 30
36529977 TGAATTATCA
*
36529987 CTACCACTTTTCACTGATCAAGTAGCTGGAA-
1 CTACCACTTTTCACTGATCAGGTA-CT-GAAG
* *
36530018 CTACCACTTTTTACTGATCAGGTACAGAAG
1 CTACCACTTTTCACTGATCAGGTACTGAAG
36530048 CTACCACTTTTCACTGATCAGGTAACTGAAG
1 CTACCACTTTTCACTGATCAGGT-ACTGAAG
36530079 CTACCACTTTTCACT
1 CTACCACTTTTCACT
36530094 TGTGGATCTT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
29 3 0.04
30 23 0.33
31 43 0.62
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (30 bp):
CTACCACTTTTCACTGATCAGGTACTGAAG
Found at i:36530264 original size:42 final size:40
Alignment explanation
Indices: 36530201--36530313 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
36530191 CTTCGTTTTC
** * *
36530201 TCGATGCCATAGTTCAACTATGGTTTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACA--TTCACAT-A
* *
36530244 T-GATGCCGTAGCCCAGCTATGGTCTTACACATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATTCACATA
*
36530283 TCGATGCCATAGCCTAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
36530314 GAATCATATA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.03
40 33 0.54
42 25 0.41
43 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (40 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATTCACATA
Found at i:36530353 original size:46 final size:47
Alignment explanation
Indices: 36530284--36530403 Score: 125
Period size: 47 Copynumber: 2.6 Consensus size: 47
36530274 ATTCATATAT
* * * * * *
36530284 CGATGCCATAGCCTAGCTATGGTCTTACAC-GAATCATATATCTCAT
1 CGATGCCATATCCCAGATATGGTCTTACACTGAAGCATATATCACAC
** * *
36530330 TTATGCCATATCCCAGATATGGTCTTATACTGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACACTGAAGCATATATCACAC
* *
36530377 CGATGACATATCCCAGATATGATCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
36530404 TACGGAAATC
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
46 24 0.41
47 35 0.59
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACACTGAAGCATATATCACAC
Found at i:36530460 original size:31 final size:31
Alignment explanation
Indices: 36530425--36530573 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
36530415 CTTGTCATTT
**
36530425 GTAGCCGAAGCTACCACAATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
36530456 GTAG-CTAGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* * *
36530487 GTAGTCGGAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
36530518 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
36530549 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
36530574 TGTCATTTGT
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
30 2 0.02
31 100 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:36534162 original size:6 final size:7
Alignment explanation
Indices: 36534134--36534164 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
36534124 GTTATATTCT
36534134 AATTTTA
1 AATTTTA
36534141 AATTTTA
1 AATTTTA
36534148 AATTTTA
1 AATTTTA
*
36534155 AATTTAA
1 AATTTTA
36534162 AAT
1 AAT
36534165 ATCAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AATTTTA
Found at i:36537847 original size:46 final size:48
Alignment explanation
Indices: 36537743--36537856 Score: 151
Period size: 48 Copynumber: 2.4 Consensus size: 48
36537733 TGTCGAAGAC
** * *
36537743 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
36537791 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
36537837 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
36537857 TTTGTCCTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 22 0.38
47 1 0.02
48 35 0.60
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:36544785 original size:16 final size:16
Alignment explanation
Indices: 36544766--36544816 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
36544756 TTTCTTTCAG
*
36544766 TTTTTTTTTCTTTTTC
1 TTTTTTATTCTTTTTC
* *
36544782 TTTTTCACTC-TTTTC
1 TTTTTTATTCTTTTTC
*
36544797 TTTTTTATTCTTTTGC
1 TTTTTTATTCTTTTTC
36544813 TTTT
1 TTTT
36544817 AATTTTTCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTTTATTCTTTTTC
Found at i:36546587 original size:31 final size:31
Alignment explanation
Indices: 36546526--36546588 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
36546516 ACTGAAGACT
**
36546526 ACCAAAAAGCTACAATTTTTTTTTTGAAAAA
1 ACCAAAAAGCTACAATTTTTTGGTTGAAAAA
36546557 ACCAAAAAGCTACAATTTGTTTGGTT-AAAAA
1 ACCAAAAAGCTACAATTT-TTTGGTTGAAAAA
36546588 A
1 A
36546589 GGGAATACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.32
Consensus pattern (31 bp):
ACCAAAAAGCTACAATTTTTTGGTTGAAAAA
Found at i:36546970 original size:27 final size:27
Alignment explanation
Indices: 36546932--36546985 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
36546922 ATTTTTATTA
36546932 ATTAAATTTAAAGTTAAAGAAAACTTT
1 ATTAAATTTAAAGTTAAAGAAAACTTT
36546959 ATTAAATTTAAAGTTAAAGAAAACTTT
1 ATTAAATTTAAAGTTAAAGAAAACTTT
36546986 CCATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (27 bp):
ATTAAATTTAAAGTTAAAGAAAACTTT
Found at i:36547769 original size:6 final size:6
Alignment explanation
Indices: 36547758--36547795 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
36547748 CCCAAAAAGT
*
36547758 AAACCA AAACCA AAACCA AAACCA AAACCA AAATCA AA
1 AAACCA AAACCA AAACCA AAACCA AAACCA AAACCA AA
36547796 TCTAATCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.29, G:0.00, T:0.03
Consensus pattern (6 bp):
AAACCA
Found at i:36554893 original size:20 final size:20
Alignment explanation
Indices: 36554868--36554906 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
36554858 TAAACTTAAG
36554868 TAATTTTGTATCAATTATGA
1 TAATTTTGTATCAATTATGA
36554888 TAATTTTGTATCAATTATG
1 TAATTTTGTATCAATTATG
36554907 TCTTGATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
TAATTTTGTATCAATTATGA
Found at i:36562870 original size:1 final size:1
Alignment explanation
Indices: 36562859--36562974 Score: 223
Period size: 1 Copynumber: 116.0 Consensus size: 1
36562849 ATTGCTTTCA
*
36562859 TTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
36562924 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
36562975 CAGTTTTGTT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
1 113 1.00
ACGTcount: A:0.00, C:0.00, G:0.01, T:0.99
Consensus pattern (1 bp):
T
Found at i:36565765 original size:33 final size:33
Alignment explanation
Indices: 36565727--36565842 Score: 123
Period size: 33 Copynumber: 3.5 Consensus size: 33
36565717 AGATTAATTT
*
36565727 ATATTTTATGTACTATTATATTAAATTATTTAA
1 ATATTTTATGTATTATTATATTAAATTATTTAA
* * *
36565760 ATATTTCATGTATTGTTTTATTAAATTATTTAA
1 ATATTTTATGTATTATTATATTAAATTATTTAA
*
36565793 ATATAATTTAT-TATTA-TAT-TTAAAATT-TTAAA
1 ATAT--TTTATGTATTATTATATT-AAATTATTTAA
*
36565825 ATATTTTAAGTATTATTA
1 ATATTTTATGTATTATTA
36565843 ATTTTATAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
30 4 0.06
31 5 0.07
32 12 0.17
33 40 0.58
34 4 0.06
35 4 0.06
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (33 bp):
ATATTTTATGTATTATTATATTAAATTATTTAA
Found at i:36565845 original size:26 final size:26
Alignment explanation
Indices: 36565816--36565871 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
36565806 TTATATTTAA
*
36565816 AATTTTA-AAATATTTTAAGTATT-ATT
1 AATTTTATAAATAATTT-A-TATTAATT
36565842 AATTTTATAAATAATTTATATTAATT
1 AATTTTATAAATAATTTATATTAATT
36565868 AATT
1 AATT
36565872 AAAAGGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 4 0.15
26 15 0.56
27 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
AATTTTATAAATAATTTATATTAATT
Found at i:36579012 original size:58 final size:58
Alignment explanation
Indices: 36578831--36578990 Score: 268
Period size: 59 Copynumber: 2.8 Consensus size: 58
36578821 GACCCAAAAA
* * *
36578831 AAGTTCAGGGACTAACTTGGAAAAAA-ATGTTTAAGCCCCAATGTGAGAGCAATTACC
1 AAGTTAAGGGACTAACTTGGAAAAAACAAGTTCAAGCCCCAATGTGAGAGCAATTACC
*
36578888 AGGTTAAGGGACTAACTTGGAAAAAAACAAGTTCAAGCCCCAATGTGAGAGCAATTACC
1 AAGTTAAGGGACTAACTTGG-AAAAAACAAGTTCAAGCCCCAATGTGAGAGCAATTACC
36578947 AAGTTAAGGGACTAACTTGGAAAAAACAAGTTCAAGCCCCAATG
1 AAGTTAAGGGACTAACTTGGAAAAAACAAGTTCAAGCCCCAATG
36578991 AGGGAATAAT
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
57 18 0.19
58 30 0.31
59 48 0.50
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (58 bp):
AAGTTAAGGGACTAACTTGGAAAAAACAAGTTCAAGCCCCAATGTGAGAGCAATTACC
Found at i:36581301 original size:19 final size:19
Alignment explanation
Indices: 36581276--36581314 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
36581266 TTATAAAGTT
*
36581276 TTTTTTTATAAAAATTATAA
1 TTTTTTTA-AAACATTATAA
36581296 TTTTTTTAAAACATTATAA
1 TTTTTTTAAAACATTATAA
36581315 AAAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTTTTAAAACATTATAA
Found at i:36588863 original size:8 final size:8
Alignment explanation
Indices: 36588850--36588881 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
36588840 CATTCATTTG
*
36588850 GCATTCAA
1 GCATTCAT
36588858 GCATTCAT
1 GCATTCAT
36588866 GCATTCAT
1 GCATTCAT
36588874 GCATTCAT
1 GCATTCAT
36588882 TCATGGCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (8 bp):
GCATTCAT
Found at i:36592491 original size:18 final size:18
Alignment explanation
Indices: 36592423--36592514 Score: 84
Period size: 17 Copynumber: 5.1 Consensus size: 18
36592413 TGTTGTAAAC
* *
36592423 TTTTCGTGTTTCCAAAAT
1 TTTTCGTGTTTTCAAAAA
36592441 TTTTCGTGTTTTTCTAAAAAA
1 TTTTCGTG-TTTTC--AAAAA
**
36592462 AATTCAG-G-TTTCAAAAA
1 TTTTC-GTGTTTTCAAAAA
36592479 TTTTCGTGTTTTC-AAAA
1 TTTTCGTGTTTTCAAAAA
36592496 TTTTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
36592513 TT
1 TT
36592515 CTTATTTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
16 1 0.02
17 31 0.51
18 12 0.20
19 8 0.13
21 8 0.13
22 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:36601767 original size:13 final size:14
Alignment explanation
Indices: 36601749--36601787 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
36601739 AAGGCATCTT
*
36601749 AAAAAAAAAGAAAAG
1 AAAAAGAAA-AAAAG
36601764 -AAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
36601777 AAAAAGAAAAA
1 AAAAAGAAAAA
36601788 GAGAGAGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:36601772 original size:19 final size:19
Alignment explanation
Indices: 36601751--36601786 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36601741 GGCATCTTAA
36601751 AAAAAAAG-AAAAGAAAAG
1 AAAAAAAGAAAAAGAAAAG
36601769 AAAAAAAGAAAAAGAAAA
1 AAAAAAAGAAAAAGAAAA
36601787 AGAGAGAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAAAGAAAAG
Found at i:36601773 original size:6 final size:6
Alignment explanation
Indices: 36601749--36601789 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
36601739 AAGGCATCTT
*
36601749 AAAA-A AAAAG- AAAAGA AAAGAAA AAAAGA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAA-AGA AAAAGA AAAAGA AAAAGA
36601790 GAGAGGGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 9 0.29
6 17 0.55
7 5 0.16
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:36602885 original size:86 final size:87
Alignment explanation
Indices: 36602729--36602897 Score: 225
Period size: 86 Copynumber: 1.9 Consensus size: 87
36602719 TGATTTCCAT
* * ** **
36602729 TTTTCAATTTATGTTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGTACG
1 TTTTCAATTTATG-TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACG
36602794 CTGAGGTATTGTCAATTTTTGTG
65 CTGAGGTATTGTCAATTTTTGTG
*
36602817 TTTT-AATTTATG-TTTCAAAAAATCAACTCATATTACGAGAGGTGGGTTGAGCCTCAAGACACG
1 TTTTCAATTTATGTTTTC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACG
* *
36602880 TTGAGGTATTTTCAATTT
65 CTGAGGTATTGTCAATTT
36602898 CTGTCTTTGA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
85 4 0.06
86 55 0.77
87 8 0.11
88 4 0.06
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (87 bp):
TTTTCAATTTATGTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACGC
TGAGGTATTGTCAATTTTTGTG
Found at i:36603143 original size:58 final size:59
Alignment explanation
Indices: 36603067--36603183 Score: 166
Period size: 58 Copynumber: 2.0 Consensus size: 59
36603057 CAAAAATCAA
**
36603067 CTCATATTGCAAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTCTG
1 CTCATATTGCAAGAGGTGAGTTAAGCCTCAAGACACACTGAGGTAATTTTCAATTTCTG
* * *
36603125 CTCATATTGCGATG-GGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTCTG
1 CTCATATTGC-AAGAGGTGAGTTAAGCCTCAAGACACACTGAGGTAATTTTCAATTTCTG
36603184 TTGTTAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
58 36 0.69
59 16 0.31
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (59 bp):
CTCATATTGCAAGAGGTGAGTTAAGCCTCAAGACACACTGAGGTAATTTTCAATTTCTG
Found at i:36603325 original size:206 final size:207
Alignment explanation
Indices: 36602921--36603534 Score: 672
Period size: 206 Copynumber: 2.9 Consensus size: 207
36602911 AAAAAATCAA
* *
36602921 CTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTAA-TTTCAATTTATGTT-T
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACACTGAGGTAATTTTCAATTTATGTTGT
* * * * *
36602984 GT--CAAAAATCAACTCATATTGCGA-AAGGTGAGTTAAGCCTCAGGGCACGCTGAGGTATTTTC
64 -TAAAAAAAATCAACTCATATTGCGAGAA-ATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
* *
36603046 AATTTAT-TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG
127 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
36603110 TATTTTCAATTTCTG-
192 TATTTTCAATTTCTGT
*
36603125 CTCATATTGCGATG-GGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTCTGTTGTT
1 CTCATATTGCGA-GAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTATGTTGTT
36603189 AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
65 AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
* **
36603254 TTATGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAT
130 TTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
36603319 TTTCAATTTCTGTTTT
195 TTTCAATTTCTG---T
* * *
36603335 CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGT-ATTGTCAA
1 C-------T---C--ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAA
* *
36603399 TTTTTG-TGTTTCAATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCA
54 TTTATGTTG-TT--A---A------AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
* * *
36603463 AGACACGCTGATGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
107 GGACACGCTGAGGTAATTTCAATTTATGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTT
36603528 GAGCCTC
171 GAGCCTC
36603535 GGGGCACACT
Statistics
Matches: 349, Mismatches: 24, Indels: 45
0.83 0.06 0.11
Matches are distributed among these distances:
202 13 0.04
203 14 0.04
204 30 0.09
205 60 0.17
206 69 0.20
210 1 0.00
217 1 0.00
220 3 0.01
221 15 0.04
222 37 0.11
223 1 0.00
226 1 0.00
232 67 0.19
233 37 0.11
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (207 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTATGTTGTTA
AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
TTCAATTTCTGT
Found at i:36603550 original size:159 final size:159
Alignment explanation
Indices: 36603247--36603980 Score: 1364
Period size: 159 Copynumber: 4.6 Consensus size: 159
36603237 GCTGAGGTAA
* * * *
36603247 TTTCAATTTATGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTCAATCTAT-TTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGC
* * *
36603311 TGAGGTATTTTCAATTTCTGTTT-TCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT
65 TGATGTAATTTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
36603375 CGGGGCACACTGAGGTATTGTCAATTTTTGTG
128 CGGGGCACACTGAGGTATTGTCAATTTTTGTG
36603407 TTTCAATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCT
1 TTTCAATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCT
36603472 GATGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
66 GATGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
36603537 GGCACACTGAGGTATTGTCAATTTTTGTG
131 GGCACACTGAGGTATTGTCAATTTTTGTG
36603566 TTTCAATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCT
1 TTTCAATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCT
36603631 GATGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
66 GATGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
36603696 GGCACACTGAGGTATTGTCAATTTTTGTG
131 GGCACACTGAGGTATTGTCAATTTTTGTG
36603725 TTTCAATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCT
1 TTTCAATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCT
36603790 GATGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
66 GATGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
36603855 GGCACACTGAGGTATTGTCAATTTTTGTG
131 GGCACACTGAGGTATTGTCAATTTTTGTG
36603884 TTTCAATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCT
1 TTTCAATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCT
36603949 GATGTAATTTCAATTTCTGTTTGTCAAAAATC
66 GATGTAATTTCAATTTCTGTTTGTCAAAAATC
36603981 GAGGTATTTT
Statistics
Matches: 565, Mismatches: 7, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
159 488 0.86
160 75 0.13
161 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (159 bp):
TTTCAATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCT
GATGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
GGCACACTGAGGTATTGTCAATTTTTGTG
Found at i:36603558 original size:73 final size:73
Alignment explanation
Indices: 36603424--36603560 Score: 186
Period size: 73 Copynumber: 1.9 Consensus size: 73
36603414 CTATTTTTCA
* *
36603424 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCTGATGTAATTTCAATTTC
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
36603489 TGTTTGTC
66 TGTTTGTC
* ** ** *
36603497 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGT-ATTGTCAATTT
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATT-TCAATTT
36603561 TTGTGTTTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 3 0.05
73 52 0.95
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (73 bp):
AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
TGTTTGTC
Found at i:36603717 original size:73 final size:73
Alignment explanation
Indices: 36603583--36603719 Score: 186
Period size: 73 Copynumber: 1.9 Consensus size: 73
36603573 CTATTTTTCA
* *
36603583 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCTGATGTAATTTCAATTTC
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
36603648 TGTTTGTC
66 TGTTTGTC
* ** ** *
36603656 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGT-ATTGTCAATTT
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATT-TCAATTT
36603720 TTGTGTTTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 3 0.05
73 52 0.95
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (73 bp):
AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
TGTTTGTC
Found at i:36603876 original size:73 final size:73
Alignment explanation
Indices: 36603742--36603878 Score: 186
Period size: 73 Copynumber: 1.9 Consensus size: 73
36603732 CTATTTTTCA
* *
36603742 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGCTGATGTAATTTCAATTTC
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
36603807 TGTTTGTC
66 TGTTTGTC
* ** ** *
36603815 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGT-ATTGTCAATTT
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATT-TCAATTT
36603879 TTGTGTTTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 3 0.05
73 52 0.95
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (73 bp):
AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
TGTTTGTC
Found at i:36604154 original size:196 final size:195
Alignment explanation
Indices: 36603815--36604175 Score: 573
Period size: 196 Copynumber: 1.8 Consensus size: 195
36603805 TCTGTTTGTC
* *
36603815 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATGTCAATTTT
*
36603880 TGTGTTTCAATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACA
66 TGTGTTTCAATCTACTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACA
*
36603945 CGCTGATGTAATTTCAATTTCTGTTTGTCAAAAATCGAGGTATTTTCAATTTTTGTTTTTCAAAA
131 CGCTGAGGTAATTTCAATTTCTGTTT-TCAAAAATCGAGGTATTTTCAATTTTTGTTTTTCAAAA
36604010 A
195 A
*
36604011 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATGTCAATTTT
* * ** * **
36604076 TGTGTTT-AATTTCTACTTTTC-CAAAATCAACTCATATTGCGAGAGGTTAGTTGAGCCTCGGGA
66 TGTGTTTCAA--TCTACTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGA
36604139 CACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATC
129 CACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATC
36604176 AACTCATATT
Statistics
Matches: 151, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
195 11 0.07
196 131 0.87
197 9 0.06
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (195 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATGTCAATTTT
TGTGTTTCAATCTACTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACA
CGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCGAGGTATTTTCAATTTTTGTTTTTCAAAAA
Found at i:36604209 original size:72 final size:72
Alignment explanation
Indices: 36604083--36604498 Score: 616
Period size: 72 Copynumber: 5.7 Consensus size: 72
36604073 TTTTGTGTTT
* * *
36604083 AATTTCTACTTTTCCAAAATCAACTCATATTGCGAGAGGTTAGTTGAGCCTCGGGACACGCTGAG
1 AATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
36604148 GTAATTTC
65 GTAATTTC
36604156 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
36604221 TAATTTC
66 TAATTTC
*
36604228 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
36604293 TAATTTC
66 TAATTTC
* * ** ** *
36604300 AATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
*
36604365 TATTTTC
66 TAATTTC
* * *
36604372 AATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCT
1 AATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCT
*
36604437 GAGGTATTTTC
62 GAGGTAATTTC
36604448 AATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
36604499 TTCAGATCAC
Statistics
Matches: 316, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
72 210 0.66
73 7 0.02
74 34 0.11
76 25 0.08
77 40 0.13
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
TAATTTC
Found at i:36610826 original size:39 final size:40
Alignment explanation
Indices: 36610781--36610948 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
36610771 CGGGGTTTAG
* * *
36610781 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
36610820 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
36610860 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
36610900 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
36610941 CCGGATAT
1 CCGGATAT
36610949 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:36610931 original size:41 final size:40
Alignment explanation
Indices: 36610804--36610948 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
36610794 CTCGCACAAG
* * * * *
36610804 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
36610844 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
36610884 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
36610925 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
36610949 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:36612349 original size:56 final size:56
Alignment explanation
Indices: 36612283--36612402 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
36612273 TATTAGTTTA
*
36612283 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
36612339 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
36612395 TTGCCCAT
1 TTGCCCAT
36612403 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:36631593 original size:34 final size:34
Alignment explanation
Indices: 36631550--36631616 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
36631540 ATCTGTTTAG
36631550 ACCCATTCACTAGCATATTGGCTTAACCGAACAA
1 ACCCATTCACTAGCATATTGGCTTAACCGAACAA
*
36631584 ACCCATTCACTAGCATATTGGCTTAATCGAACA
1 ACCCATTCACTAGCATATTGGCTTAACCGAACA
36631617 CACTCATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (34 bp):
ACCCATTCACTAGCATATTGGCTTAACCGAACAA
Found at i:36633766 original size:33 final size:32
Alignment explanation
Indices: 36633711--36633801 Score: 74
Period size: 33 Copynumber: 2.8 Consensus size: 32
36633701 CACATTCCCA
* ** * *
36633711 TTTCAAGTGGTATACATGAAGTGTACATACCCT
1 TTTCAAGT-GTACACACAAAGTGTACATAACAT
* * *
36633744 TTTCAATTTGTACACACAAAGTGCATATAACAT
1 TTTCAA-GTGTACACACAAAGTGTACATAACAT
* *
36633777 TTTCAAGTGTACACATATAGTGTAC
1 TTTCAAGTGTACACACAAAGTGTAC
36633802 CTTTTTCTTT
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
32 14 0.32
33 29 0.66
34 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (32 bp):
TTTCAAGTGTACACACAAAGTGTACATAACAT
Found at i:36635009 original size:13 final size:13
Alignment explanation
Indices: 36634991--36635016 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36634981 CACATAATTG
36634991 ATAAAATTTTTCA
1 ATAAAATTTTTCA
36635004 ATAAAATTTTTCA
1 ATAAAATTTTTCA
36635017 TGCAATATTC
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAAAATTTTTCA
Found at i:36637425 original size:19 final size:18
Alignment explanation
Indices: 36637401--36637436 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36637391 GGCCGATGCT
36637401 CTGATTCGTAGGGTGATGA
1 CTGATTCG-AGGGTGATGA
*
36637420 CTGATTTGAGGGTGATG
1 CTGATTCGAGGGTGATG
36637437 CTCGCTCGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.19, C:0.08, G:0.39, T:0.33
Consensus pattern (18 bp):
CTGATTCGAGGGTGATGA
Found at i:36649959 original size:18 final size:18
Alignment explanation
Indices: 36649938--36649976 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
36649928 TTTCCTTTTC
*
36649938 CTTTTT-TTTTGTTTCTTT
1 CTTTTTATTTT-TTTCCTT
36649956 CTTTTTATTTTTTTCCTT
1 CTTTTTATTTTTTTCCTT
36649974 CTT
1 CTT
36649977 CTAAGTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (18 bp):
CTTTTTATTTTTTTCCTT
Found at i:36654067 original size:7 final size:7
Alignment explanation
Indices: 36654055--36654080 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36654045 CCGGGCCCAA
36654055 AAAAACC
1 AAAAACC
36654062 AAAAACC
1 AAAAACC
36654069 AAAAACC
1 AAAAACC
36654076 AAAAA
1 AAAAA
36654081 TAATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACC
Found at i:36655448 original size:25 final size:24
Alignment explanation
Indices: 36655385--36655448 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
36655375 TATTTTAAAG
*
36655385 TTTTTATAT-TATATTATTTTAATA
1 TTTTTATATATAT-TTATTTAAATA
* *
36655409 TCTTGTATA-ACATTTCATTTAAATA
1 T-TTTTATATATATTT-ATTTAAATA
36655434 TTTTTATATATATTT
1 TTTTTATATATATTT
36655449 GTACCTATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
24 9 0.29
25 22 0.71
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTTATATATATTTATTTAAATA
Found at i:36655599 original size:196 final size:195
Alignment explanation
Indices: 36655297--36655655 Score: 456
Period size: 196 Copynumber: 1.8 Consensus size: 195
36655287 TATAACTTAC
* * * * *
36655297 TATTTTAAAATTCATTTAATATTTTTTTTATATTTGTTGAGGTTACTTTAATAATTTTACTTTGT
1 TATTTTAAAATTCA-TTAATATTTTATATATATGTGTTGAGGCTACTTTAATAACTTTACTTTGT
* * *
36655362 TTTAAAAAATACTTATTTTAAAGTTTTTATATTATATTATTTTAATATCTTGTATAACATTTCAT
65 TTTAAAAAATACTCATTTTAAAGTTTTTATATCATATTATTTTAATATCTTATATAACATTTCAT
* *
36655427 TTAAATATTTTTATATATATTTGTACCTATATTATTTTAATTTAGTTTTCTATTGGTAATACATA
130 TTAAATATTTTTATATATATTGGTACATATATTATTTTAATTTAGTTTTCTATTGGTAATACATA
36655492 T
195 T
* *
36655493 TATTTTAAAGTTC-TTAATA-TTTATATATATGTGTTGA-GCTATTTTAATAACTTTACTTTGTT
1 TATTTTAAAATTCATTAATATTTTATATATATGTGTTGAGGCTACTTTAATAACTTTACTTTG-T
* * * *
36655555 TTTATAAAAT-CATCATTTTGAAGTTCTTTTTATATCATATTATTTTAATATTTTATATAATATT
65 TTTAAAAAATAC-TCATTTTAAAG---TTTTTATATCATATTATTTTAATATCTTATATAACATT
* * * *
36655619 TCGTTTAAATGTTTTTGTATTTATTGGTACATATATT
126 TCATTTAAATATTTTTATATATATTGGTACATATATT
36655656 TGATCCTAGA
Statistics
Matches: 138, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
192 21 0.15
193 34 0.25
194 6 0.04
196 77 0.56
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (195 bp):
TATTTTAAAATTCATTAATATTTTATATATATGTGTTGAGGCTACTTTAATAACTTTACTTTGTT
TTAAAAAATACTCATTTTAAAGTTTTTATATCATATTATTTTAATATCTTATATAACATTTCATT
TAAATATTTTTATATATATTGGTACATATATTATTTTAATTTAGTTTTCTATTGGTAATACATAT
Found at i:36671565 original size:3 final size:3
Alignment explanation
Indices: 36671557--36671890 Score: 125
Period size: 3 Copynumber: 110.7 Consensus size: 3
36671547 CGAATAAATA
* * ** *
36671557 AAT AAT AAT AA- AAT AAT AAAT AAA AAT AAT GAT GGT GAT AA- AA-
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
36671600 AAT GAT AAT AGT GAT ATT AGT AAT AAT AAT AAT AAT AGA- AACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T AAT
* ** *
36671646 AGT ACATT AAT AAT AAT ATAT GTT AAT AAC AAT AAT AAT ATAT AA- AA-
1 AAT A-A-T AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
** * ** * *
36671693 AAT AGGA- AAT AAT AAT -AT GGT AA- AAA AAT AAT -AT GTT AAC AAA
1 AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
36671736 AAT AAT AGT AGT AAT AAT AAT AATT AAT GAT AAT AAA AAT ACAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT A-AT AAT
* * * * * *
36671783 AAT AGT AA- AAC AAT AAT AGT AAT AAT AAT AAT AAT AAT AGT AGT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
36671830 GAT ATT AGT AAT AAT AAT AAT AAT AGAA AAT AAT AGT ACATT GA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A-A-T AAT AAT
36671877 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
36671891 GTAAAATGAT
Statistics
Matches: 250, Mismatches: 57, Indels: 48
0.70 0.16 0.14
Matches are distributed among these distances:
2 21 0.08
3 203 0.81
4 22 0.09
5 4 0.02
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:36671724 original size:16 final size:17
Alignment explanation
Indices: 36671703--36671742 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
36671693 AATAGGAAAT
36671703 AATAATATGGTAA-AAA
1 AATAATATGGTAACAAA
*
36671719 AATAATATGTTAACAAA
1 AATAATATGGTAACAAA
36671736 AATAATA
1 AATAATA
36671743 GTAGTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (17 bp):
AATAATATGGTAACAAA
Found at i:36675719 original size:44 final size:45
Alignment explanation
Indices: 36675654--36675769 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
36675644 ATTTGATCTA
* * * *
36675654 CTCCATTGCAACTTCAAGGAGATAAGATCTTCAA-CTTCAATTTG
1 CTCCACTGCTACTTCAGGGAGATAAGATCTACAATCTTCAATTTG
** *
36675698 CTCCACTGCTACTTCAGGGAGATGGGATCTACAATCTTCATTTTG
1 CTCCACTGCTACTTCAGGGAGATAAGATCTACAATCTTCAATTTG
*
36675743 CTCC-CTTGCTACTTCAGGAAGATAAGA
1 CTCCAC-TGCTACTTCAGGGAGATAAGA
36675770 CTGGTGTCTT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 29 0.48
45 31 0.52
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (45 bp):
CTCCACTGCTACTTCAGGGAGATAAGATCTACAATCTTCAATTTG
Found at i:36680012 original size:19 final size:19
Alignment explanation
Indices: 36679990--36680035 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
36679980 TATGAAATTT
*
36679990 AATGCATACG-ATGAAATG
1 AATGCAAACGCATGAAATG
*
36680008 CAATGCAAATGCATGAAATG
1 -AATGCAAACGCATGAAATG
36680028 AATGCAAA
1 AATGCAAA
36680036 AAAAAGACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.20
Consensus pattern (19 bp):
AATGCAAACGCATGAAATG
Found at i:36680553 original size:6 final size:6
Alignment explanation
Indices: 36680534--36680576 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
36680524 ATGCAATCAT
* *
36680534 AAGCAA AA-CAA AAGCAA AAGTAA AAGAAA AAGCAA AAGCAA AA
1 AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA AA
36680577 ATAGATATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.72, C:0.12, G:0.14, T:0.02
Consensus pattern (6 bp):
AAGCAA
Found at i:36682220 original size:22 final size:21
Alignment explanation
Indices: 36682195--36682266 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 21
36682185 TATGTGAAAA
36682195 ATAAATTTAAAATAATATATAT
1 ATAAATTTAAAATAATA-ATAT
** *
36682217 ATAAGCTTAATATAAGTAATAT
1 ATAAATTTAAAATAA-TAATAT
36682239 ATGAAATCTTAAAATTAATAATA-
1 AT-AAAT-TTAAAA-TAATAATAT
36682262 ATAAA
1 ATAAA
36682267 AGGGTTTACA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
22 21 0.52
23 6 0.15
24 10 0.25
25 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (21 bp):
ATAAATTTAAAATAATAATAT
Found at i:36682260 original size:24 final size:22
Alignment explanation
Indices: 36682195--36682266 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 22
36682185 TATGTGAAAA
36682195 ATAAAT-TTAAAATAAT-ATAT
1 ATAAATCTTAAAATAATAATAT
* *
36682215 ATATAAGCTTAATATAAGTAATAT
1 ATA-AATCTTAAAATAA-TAATAT
36682239 ATGAAATCTTAAAATTAATAATA-
1 AT-AAATCTTAAAA-TAATAATAT
36682262 ATAAA
1 ATAAA
36682267 AGGGTTTACA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 3 0.07
21 2 0.05
22 11 0.26
23 3 0.07
24 19 0.45
25 4 0.10
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (22 bp):
ATAAATCTTAAAATAATAATAT
Found at i:36682390 original size:14 final size:14
Alignment explanation
Indices: 36682371--36682417 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 14
36682361 TATATATATA
36682371 AAATAGTTTAAAAT
1 AAATAGTTTAAAAT
*
36682385 AAATAGCATATAAAA-
1 AAATAG--TTTAAAAT
36682400 AAATA-TTTAAAAT
1 AAATAGTTTAAAAT
36682413 AAATA
1 AAATA
36682418 ATATGTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
12 6 0.21
13 5 0.18
14 6 0.21
15 5 0.18
16 6 0.21
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (14 bp):
AAATAGTTTAAAAT
Found at i:36682396 original size:28 final size:25
Alignment explanation
Indices: 36682172--36682364 Score: 55
Period size: 25 Copynumber: 7.8 Consensus size: 25
36682162 ATATGAAAAG
*
36682172 TTTAAAA-AAATAATATGTGAAAAATAAA
1 TTTAAAATAAATAATATAT--AAAAT--A
* *
36682200 TTTAAAAT-AAT-ATATATATAA-G
1 TTTAAAATAAATAATATATAAAATA
* * * *
36682222 CTTAATATAAGTAATATATGAAAT-
1 TTTAAAATAAATAATATATAAAATA
* * **
36682246 CTTAAAATTAATAATA-ATAAAAGGG
1 TTTAAAATAAATAATATATAAAA-TA
* *
36682271 TTTACAATAAATAATA-A-AAAAGAA
1 TTTAAAATAAATAATATATAAAA-TA
* * *
36682295 TTTAAAA-AAGTTAACATATAAAATCG
1 TTTAAAATAA-ATAATATATAAAAT-A
* * *
36682321 TTT-AAGTAAATAACATATAAAAAA
1 TTTAAAATAAATAATATATAAAATA
* *
36682345 TTTAAAATAGATAAAATATA
1 TTTAAAATAAATAATATATA
36682365 TATATAAAAT
Statistics
Matches: 123, Mismatches: 30, Indels: 27
0.68 0.17 0.15
Matches are distributed among these distances:
22 6 0.05
23 9 0.07
24 39 0.32
25 45 0.37
26 9 0.07
27 5 0.04
28 10 0.08
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.32
Consensus pattern (25 bp):
TTTAAAATAAATAATATATAAAATA
Found at i:36682401 original size:28 final size:25
Alignment explanation
Indices: 36682358--36682578 Score: 137
Period size: 25 Copynumber: 8.5 Consensus size: 25
36682348 AAAATAGATA
*
36682358 AAATATATATATAAAATAGTTTAAAAT
1 AAATA-ATATAAAAAATA-TTTAAAAT
36682385 AAATAGCATATAAAAAAATATTTAAAAT
1 AAATA--ATAT-AAAAAATATTTAAAAT
**
36682413 AAATAATATGTAAAATAATTTAAAAT
1 AAATAATATAAAAAAT-ATTTAAAAT
* *
36682439 AATTAATATATAAAA-ATTTAAAAT
1 AAATAATATAAAAAATATTTAAAAT
** ***
36682463 GGATAATAGTTTGAAATGATTTAAAAT
1 AAATAATA-TAAAAAAT-ATTTAAAAT
* ** * *
36682490 ACATAATATGTGAAAA-ACTTAAAGT
1 AAATAATAT-AAAAAATATTTAAAAT
*
36682515 AAATAATAATAAAACA-ATTTAAAAT
1 AAATAAT-ATAAAAAATATTTAAAAT
36682540 AAATAATGTATGAAAAAA-AGTTTAAAAT
1 AAATAA--TAT-AAAAAATA-TTTAAAAT
36682568 AAATAA-ATAAA
1 AAATAATATAAA
36682579 TAACAAATTT
Statistics
Matches: 158, Mismatches: 24, Indels: 27
0.76 0.11 0.13
Matches are distributed among these distances:
24 17 0.11
25 41 0.26
26 31 0.20
27 31 0.20
28 31 0.20
29 7 0.04
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (25 bp):
AAATAATATAAAAAATATTTAAAAT
Found at i:36682469 original size:50 final size:51
Alignment explanation
Indices: 36682172--36682573 Score: 227
Period size: 50 Copynumber: 7.8 Consensus size: 51
36682162 ATATGAAAAG
* * *
36682172 TTTAAAA-AAATAATATGTGAAAAA--TAAATTTAAAATAATATAT-ATATAA
1 TTTAAAATAAATAATATATGAAAAATTTAAA-AT-AAATAATATATAAAATAA
* * * * ***
36682221 GCTTAATATAAGTAATATATG--AAATCTTAAAATTAATAATA-ATAAAAGGG
1 -TTTAAAATAAATAATATATGAAAAAT-TTAAAATAAATAATATATAAAATAA
* * * * **
36682271 TTTACAATAAATAATA-A-AAAAGAATTTAAAA-AAGTTAACATATAAAATCG
1 TTTAAAATAAATAATATATGAAA-AATTTAAAATAA-ATAATATATAAAATAA
* * * *
36682321 TTT-AAGTAAATAACATATAAAAAATTTAAAATAGATAAAATATATATATAAAATAG
1 TTTAAAATAAATAATATATGAAAAATTT--AA-A-AT-AAATA-ATATATAAAATAA
** *
36682377 TTTAAAATAAATAGCATATAAAAAAATATTTAAAATAAATAATATGTAAAATAA
1 TTTAAAATAAATA--ATATATGAAAA-ATTTAAAATAAATAATATATAAAATAA
* ** * * *
36682431 TTTAAAATAATTAATATAT-AAAAATTTAAAATGGATAATAGTTTGAAATGA
1 TTTAAAATAAATAATATATGAAAAATTTAAAATAAATAATA-TATAAAATAA
* * * * *
36682482 TTTAAAATACATAATATGTGAAAAACTTAAAGTAAATAATA-ATAAAACAA
1 TTTAAAATAAATAATATATGAAAAATTTAAAATAAATAATATATAAAATAA
*
36682532 TTTAAAATAAATAATGTATGAAAAAAAGTTTAAAATAAATAA
1 TTTAAAATAAATAATATATG--AAAAA-TTTAAAATAAATAA
36682574 ATAAATAACA
Statistics
Matches: 270, Mismatches: 54, Indels: 53
0.72 0.14 0.14
Matches are distributed among these distances:
48 2 0.01
49 37 0.14
50 70 0.26
51 42 0.16
52 33 0.12
53 13 0.05
54 24 0.09
55 7 0.03
56 18 0.07
57 9 0.03
58 2 0.01
59 9 0.03
60 4 0.01
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (51 bp):
TTTAAAATAAATAATATATGAAAAATTTAAAATAAATAATATATAAAATAA
Found at i:36682546 original size:77 final size:75
Alignment explanation
Indices: 36682358--36682573 Score: 193
Period size: 77 Copynumber: 2.7 Consensus size: 75
36682348 AAAATAGATA
* **
36682358 AAATATATATATAAAATAGTTTAAAATAAATAGCATATAAAAAAATATTTAAAATAAATAATATG
1 AAATA-ATATATAAAA-A-TTTAAAATAAATA--ATGT-ATGAAATATTTAAAATAAATAATATG
*
36682423 TAAAATAATTTAAAAT
60 TAAAATAACTTAAAAT
* ** * * *
36682439 AATTAATATATAAAAATTTAAAATGGATAATAGTTTGAAATGATTTAAAATACATAATATGTGAA
1 AAATAATATATAAAAATTTAAAATAAATAAT-GTATGAAAT-ATTTAAAATAAATAATATGTAAA
*
36682504 A-AACTTAAAGT
64 ATAACTTAAAAT
*
36682515 AAATAATA-ATAAAACAATTTAAAATAAATAATGTATGAAAAAAAGTTTAAAATAAATAA
1 AAATAATATAT-AAA-AATTTAAAATAAATAATGTATG--AAATA-TTTAAAATAAATAA
36682574 ATAAATAACA
Statistics
Matches: 111, Mismatches: 17, Indels: 17
0.77 0.12 0.12
Matches are distributed among these distances:
75 2 0.02
76 28 0.25
77 39 0.35
78 27 0.24
79 1 0.01
80 10 0.09
81 4 0.04
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (75 bp):
AAATAATATATAAAAATTTAAAATAAATAATGTATGAAATATTTAAAATAAATAATATGTAAAAT
AACTTAAAAT
Found at i:36690091 original size:34 final size:34
Alignment explanation
Indices: 36690048--36690117 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
36690038 GGAACATTGC
36690048 ATTCGAATCTGATCTGAACTATATCTGAATTGGA
1 ATTCGAATCTGATCTGAACTATATCTGAATTGGA
36690082 ATTCGAATCTGATCTGAACTATATCTGAATTGGA
1 ATTCGAATCTGATCTGAACTATATCTGAATTGGA
36690116 AT
1 AT
36690118 AATACATGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (34 bp):
ATTCGAATCTGATCTGAACTATATCTGAATTGGA
Found at i:36693978 original size:21 final size:21
Alignment explanation
Indices: 36693952--36693993 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
36693942 TATCGAAAAC
36693952 CTTAGTTTTTACAATTTTTGT
1 CTTAGTTTTTACAATTTTTGT
36693973 CTTAGTTTTTACAATTTTTGT
1 CTTAGTTTTTACAATTTTTGT
36693994 TACCGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.62
Consensus pattern (21 bp):
CTTAGTTTTTACAATTTTTGT
Found at i:36703313 original size:14 final size:14
Alignment explanation
Indices: 36703278--36703313 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
36703268 ATATGGAAGG
*
36703278 TTTGATGTTTTGTT
1 TTTGATGTTTGGTT
36703292 TTTG-TGTTTGGTT
1 TTTGATGTTTGGTT
36703305 TTTGATGTT
1 TTTGATGTT
36703314 ACTGTTCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.06, C:0.00, G:0.25, T:0.69
Consensus pattern (14 bp):
TTTGATGTTTGGTT
Found at i:36706157 original size:15 final size:15
Alignment explanation
Indices: 36706122--36706173 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
36706112 TTTTTTGGTT
*
36706122 TTTTTTTTGCTGAAA
1 TTTTTTTTGCTGGAA
**
36706137 AATTTTTTGCTGGAA
1 TTTTTTTTGCTGGAA
*
36706152 TTTTTTTTGTTGGAA
1 TTTTTTTTGCTGGAA
36706167 TTTTTTT
1 TTTTTTT
36706174 GCTCTTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.17, C:0.04, G:0.15, T:0.63
Consensus pattern (15 bp):
TTTTTTTTGCTGGAA
Found at i:36706436 original size:29 final size:29
Alignment explanation
Indices: 36706390--36706446 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
36706380 TTCTGGGGCT
*
36706390 AAATGTAATTTTTAGAAAATTTAAGGTTA
1 AAATGTAATTTTAAGAAAATTTAAGGTTA
*
36706419 AAATGTAA-TTTAAGGAAAGTTTAAGGTT
1 AAATGTAATTTTAA-GAAAATTTAAGGTT
36706447 CTAAGTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.39
Consensus pattern (29 bp):
AAATGTAATTTTAAGAAAATTTAAGGTTA
Found at i:36707177 original size:77 final size:77
Alignment explanation
Indices: 36706844--36707209 Score: 366
Period size: 80 Copynumber: 4.7 Consensus size: 77
36706834 AAATTAAAAA
****
36706844 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTAAAAAAAAAACCAGAAATTGAAAATAGCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT-TTTGAAAAA-CAGAAATTGAAAATAGCTC
36706909 AGCACGTGAGCCAAG
63 AGCACGTGAGCCAAG
* * ** *
36706924 GCTCAACTCACTTCTCACAATATGAGTTGA--TTTTTG-AAAACAGATTTTGAAAATACCTC-GA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAGCTCAG-
* * *
36706985 CATGTGACCCGAG
65 CACGTGAGCCAAG
* * * * *
36706998 G-TCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAAATATCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG---AAAATAGCTC
*** * *
36707062 AGTGTGTGATCTGAA-
63 AGCACGTGAGC-CAAG
*
36707077 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAGCTCAGC
*
36707142 GCGTGAGCCAAG
66 ACGTGAGCCAAG
* ***
36707154 GCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGGTAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
36707210 ACGGAAATTG
Statistics
Matches: 237, Mismatches: 38, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
73 26 0.11
74 27 0.11
75 10 0.04
76 11 0.05
77 72 0.30
79 17 0.07
80 74 0.31
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (77 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAGCTCAGC
ACGTGAGCCAAG
Found at i:36707277 original size:91 final size:91
Alignment explanation
Indices: 36707112--36707280 Score: 241
Period size: 91 Copynumber: 1.9 Consensus size: 91
36707102 GTTGATTTTT
* * *
36707112 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAC
36707177 GAGTCGATTTTTTTGAAAGGTAGAAA
66 GAGTCGATTTTTTTGAAAGGTAGAAA
* * * * *
36707203 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
*
36707267 CGAGTTGATTTTTT
65 CGAGTCGATTTTTT
36707281 GACAACAGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
90 2 0.03
91 66 0.97
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (91 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAC
GAGTCGATTTTTTTGAAAGGTAGAAA
Found at i:36707406 original size:66 final size:70
Alignment explanation
Indices: 36707213--36707637 Score: 276
Period size: 68 Copynumber: 5.9 Consensus size: 70
36707203 TTGAAAAACG
* * * *** *
36707213 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
1 GAAA-TGAAAATACCTCAGCATGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
***
36707278 TTTGACAACA
63 TTTG--TTTA
* * * **
36707288 GAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATGAAAA-TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
36707353 T-TTT-
65 TGTTTA
* *
36707357 GAAA-G-ACATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTT
1 GAAATGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTT
36707420 TGTTTGAAAAACA
65 TGTTT-------A
* *
36707433 GAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATGTGAGTTGA-ATTT
1 GAAA-TGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
***
36707497 TGAAAACA
65 TG--TTTA
* * * * *
36707505 GAAATTGAAATTACCTCAACGTGTCTTGAAGCTCAA--C--TTCTCGCAATATGAGTTGA-ATTT
1 GAAA-TGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
***
36707565 TGAAAACA
65 TG--TTTA
* * * * *
36707573 TAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
1 GAAA-TGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
36707638 GAAAACGGAA
Statistics
Matches: 300, Mismatches: 29, Indels: 44
0.80 0.08 0.12
Matches are distributed among these distances:
66 44 0.15
67 8 0.03
68 67 0.22
69 4 0.01
70 2 0.01
72 52 0.17
73 43 0.14
74 5 0.02
75 16 0.05
76 4 0.01
77 5 0.02
78 1 0.00
79 49 0.16
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (70 bp):
GAAATGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
GTTTA
Found at i:36707582 original size:68 final size:70
Alignment explanation
Indices: 36707207--36707643 Score: 368
Period size: 72 Copynumber: 6.1 Consensus size: 70
36707197 TAGAAATTGA
* * ** * ** *
36707207 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAAACAGAAATTGAAATTACCTCAACGTGT--CTTGAGGCTCAAC-C-ATTCTCGCAATATGAGT
*
36707272 TGATTTTTTG
62 TGA-ATTTTG
* * * * *
36707282 ACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC-CA-TTCTCGCAATATGAGTTG
36707347 -ATTTT-
64 AATTTTG
***** * * * *
36707352 -TTTTTGAAA--GACA-TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC-CA-TTCTCGCAATATGAGTTG
*
36707413 ATTTTTTTGTTTG
64 A-----AT-TTTG
* * * *
36707426 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATGTGAGTT
1 -AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC-CA-TTCTCGCAATATGAGTT
36707491 GAATTTTG
63 GAATTTTG
*
36707499 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAAGCTCAA-C-TTCTCGCAATATGAGTTGAA
1 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACCATTCTCGCAATATGAGTTGAA
36707562 TTTTG
66 TTTTG
*
36707567 AAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC-CA-TTCTCGCAATATGAGTTG
36707632 AATTTTG
64 AATTTTG
36707639 AAAAC
1 AAAAC
36707644 GGAAGTAAAA
Statistics
Matches: 307, Mismatches: 37, Indels: 39
0.80 0.10 0.10
Matches are distributed among these distances:
66 43 0.14
67 2 0.01
68 64 0.21
69 4 0.01
70 2 0.01
71 4 0.01
72 69 0.22
73 39 0.13
74 1 0.00
75 25 0.08
76 4 0.01
78 3 0.01
79 47 0.15
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (70 bp):
AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACCATTCTCGCAATATGAGTTGAA
TTTTG
Found at i:36707607 original size:140 final size:140
Alignment explanation
Indices: 36707257--36707643 Score: 435
Period size: 140 Copynumber: 2.7 Consensus size: 140
36707247 TCAACTCGCC
* * * *
36707257 TCTCGCAATACGAGTTGATTTTTTGACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTC
** ***** * * *
36707322 AACTCACCTCTCGCAATATGAGTTG-ATTTT--TTTTTGAAAGACATACCTCAGCATGTCTTGAG
66 AACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAAGAAATACCTCAACATGTCTTGAA
36707384 GCTCAACTCATT
131 GCTCAAC-CA-T
* * *
36707396 TCTCGTAATATGAGTTGATTTTTTTGTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTG
1 TCTCGCAATATGAGTTGA----TTT-TTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTG
* *
36707461 AGGCTCAACTCATTTCTCGCAATGTGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
60 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA--GAAA-TACCTCAACA
36707526 TGTCTTGAAGCTCAA-C-T
122 TGTCTTGAAGCTCAACCAT
* * *
36707543 TCTCGCAATATGAGTTGA-ATTTTGAAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
1 TCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTC
36707607 AACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
66 AACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
36707644 GGAAGTAAAA
Statistics
Matches: 210, Mismatches: 26, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
139 16 0.08
140 72 0.34
141 4 0.02
142 1 0.00
143 3 0.01
144 4 0.02
145 57 0.27
146 5 0.02
147 18 0.09
148 4 0.02
149 1 0.00
150 3 0.01
151 22 0.10
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (140 bp):
TCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTC
AACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAAGAAATACCTCAACATGTCTTGAA
GCTCAACCAT
Found at i:36719466 original size:14 final size:15
Alignment explanation
Indices: 36719421--36719470 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
36719411 TTTTTTGGTT
*
36719421 TTTTTTTGCTGAAAA
1 TTTTTTTGCTGGAAA
*
36719436 ATTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
*
36719451 TTTTTTTGTTGG-AA
1 TTTTTTTGCTGGAAA
36719465 TTTTTT
1 TTTTTT
36719471 GCTCTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.20, C:0.04, G:0.16, T:0.60
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:36719785 original size:30 final size:29
Alignment explanation
Indices: 36719718--36719785 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
36719708 TAGAGTTAAG
* *
36719718 ATGTAATTTAAGGAAGTTTAAGGGTCTAA
1 ATGTAATTTAAGAAAGTTTAAGGGTCAAA
* * *
36719747 GTGAAATTTAAAGAAAGTTTAGGGGTCAAA
1 ATGTAATTT-AAGAAAGTTTAAGGGTCAAA
36719777 ATGTAATTT
1 ATGTAATTT
36719786 TTTTATTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.34
Consensus pattern (29 bp):
ATGTAATTTAAGAAAGTTTAAGGGTCAAA
Found at i:36724934 original size:11 final size:11
Alignment explanation
Indices: 36724918--36724943 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36724908 ACTAATAGAT
36724918 TAACTAACAGC
1 TAACTAACAGC
36724929 TAACTAACAGC
1 TAACTAACAGC
36724940 TAAC
1 TAAC
36724944 AGGTTAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.27, G:0.08, T:0.19
Consensus pattern (11 bp):
TAACTAACAGC
Found at i:36725676 original size:29 final size:30
Alignment explanation
Indices: 36725631--36725697 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
36725621 ATTTAACCTC
* * *
36725631 AATTGAT-TTTTTCAATAGTACATGAACTA
1 AATTGATCTATTTCAATAGTAAAAGAACTA
36725660 AATTGATCTATTT-AATAGTAAAAGAACTA
1 AATTGATCTATTTCAATAGTAAAAGAACTA
*
36725689 ATTTGATCT
1 AATTGATCT
36725698 GATCTTTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 29 0.88
30 4 0.12
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.40
Consensus pattern (30 bp):
AATTGATCTATTTCAATAGTAAAAGAACTA
Found at i:36727323 original size:21 final size:21
Alignment explanation
Indices: 36727294--36727339 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
36727284 ACCCAAACTT
*
36727294 TTTC-TATAAAAATTCAGGTA
1 TTTCGTATAAAAATTCAAGTA
* *
36727314 TTTCGTATAAAATTTCAAGTT
1 TTTCGTATAAAAATTCAAGTA
36727335 TTTCG
1 TTTCG
36727340 CTGTTACAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (21 bp):
TTTCGTATAAAAATTCAAGTA
Found at i:36727467 original size:22 final size:20
Alignment explanation
Indices: 36727442--36727501 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
36727432 GATTTTTCCC
*
36727442 AATTTAAAGAAAACTTAAAATT
1 AATTTAAA-AAAA-TAAAAATT
36727464 AATTCTAAAAAAATAAAAATT
1 AATT-TAAAAAAATAAAAATT
* *
36727485 AAATTAAAAAGATAAAA
1 AATTTAAAAAAATAAAA
36727502 TAAATAACGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.35
21 10 0.29
22 8 0.24
23 4 0.12
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (20 bp):
AATTTAAAAAAATAAAAATT
Found at i:36732202 original size:102 final size:103
Alignment explanation
Indices: 36732016--36732224 Score: 269
Period size: 102 Copynumber: 2.0 Consensus size: 103
36732006 AAATATCGCT
* *
36732016 AATTAAATCAAATTTTATGAAAAATGTCTTCGTATTTTGAGTTAATTGAGAAGAAAATCACGCCT
1 AATTAAATCAAATTTTATG---AATATCTTCATATTTTGAGTTAATTGAGAAGAAAATCACGCCT
*
36732081 TGTAAATTAAGGAACGATGTCTCGAATCCCCGAAAATAAGA
63 CGTAAATTAAGGAACGATGTCTCGAATCCCCGAAAATAAGA
* * *
36732122 AATTAAATCAAATTTTATG-ATATCTTCATATTTTGAGTTAATTGGGAAGAGAATCATGTCC-CG
1 AATTAAATCAAATTTTATGAATATCTTCATATTTTGAGTTAATTGAGAAGAAAATCACG-CCTCG
* * * * *
36732185 TAAGTTAGGGTATGATGTCTCGAATCCCTGAAAATAAGA
65 TAAATTAAGGAACGATGTCTCGAATCCCCGAAAATAAGA
36732224 A
1 A
36732225 TGCTCATTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
102 70 0.77
103 2 0.02
106 19 0.21
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (103 bp):
AATTAAATCAAATTTTATGAATATCTTCATATTTTGAGTTAATTGAGAAGAAAATCACGCCTCGT
AAATTAAGGAACGATGTCTCGAATCCCCGAAAATAAGA
Found at i:36734878 original size:12 final size:11
Alignment explanation
Indices: 36734847--36734891 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
36734837 ATAGATTTCA
36734847 TATATATTATT
1 TATATATTATT
36734858 T-TAT-TTATT
1 TATATATTATT
36734867 TATATATCTATT
1 TATATAT-TATT
*
36734879 TAT-TATTTTT
1 TATATATTATT
36734889 TAT
1 TAT
36734892 CCTTTTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 6 0.20
10 12 0.40
11 5 0.17
12 7 0.23
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (11 bp):
TATATATTATT
Found at i:36738916 original size:19 final size:19
Alignment explanation
Indices: 36738864--36738908 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
36738854 TGTCTCTTTT
*
36738864 TGCATT-TATTTCATTCATC
1 TGCATTATATTTCA-TCATA
36738883 TGCATTATATTTCATCATA
1 TGCATTATATTTCATCATA
36738902 TGCATTA
1 TGCATTA
36738909 AGTTTCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.49
Consensus pattern (19 bp):
TGCATTATATTTCATCATA
Found at i:36740438 original size:12 final size:12
Alignment explanation
Indices: 36740421--36740446 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36740411 TGCATCGCAT
36740421 TTGAAAAGTTCA
1 TTGAAAAGTTCA
36740433 TTGAAAAGTTCA
1 TTGAAAAGTTCA
36740445 TT
1 TT
36740447 AATATGGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (12 bp):
TTGAAAAGTTCA
Found at i:36746682 original size:44 final size:44
Alignment explanation
Indices: 36746585--36746938 Score: 271
Period size: 44 Copynumber: 8.0 Consensus size: 44
36746575 GACTATGGCG
* * * * * ** **
36746585 AATCTTATCTCCTTGAAGTTGCAATGGAGCATATTGAAGCCATT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTACA
*
36746629 AATCTTATCTCCCT-AGAGTTGCAGTGGAGCAGATTAAAGTTACA
1 AATCTTATCTCCCTGA-AGTTGCAGTAGAGCAGATTAAAGTTACA
* * * *
36746673 AATCCTATCTCCCTGAAGATGCAGTGGAGCAGATTAAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTA-CA
* * * * ** ** *
36746718 AATCTTATCTCTCTGAAATTGTAG-AAAGCTTATTAAAACTATA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTACA
* * * * *
36746761 AACCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTACA
* * * * *
36746805 AATCTTATCCCCCTGAAGATGCAGTAGAGCAGATTGAAGATAGGA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTA-CA
* * * * * * *
36746850 AATCTTATCTCTCTAAAATTACAGCAAAGCAGATTAAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTACA
* * * *
36746894 AACCTTATCTCCTTGAAGTTGCAGTAGAGCAGGTTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTACA
36746938 A
1 A
36746939 GTTTTATATC
Statistics
Matches: 240, Mismatches: 65, Indels: 10
0.76 0.21 0.03
Matches are distributed among these distances:
43 22 0.09
44 163 0.68
45 55 0.23
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTACA
Found at i:36746869 original size:132 final size:133
Alignment explanation
Indices: 36746632--36746938 Score: 436
Period size: 132 Copynumber: 2.3 Consensus size: 133
36746622 AGCCATTAAT
* * *
36746632 CTTATCTCCCTAGAGTTGCAGTGGAGCAGATTAAAGTTACAAATCCTATCTCCCTGAAGATGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCCTATCCCCCTGAAGATGCAG
* * ** **
36746697 TGGAGCAGATTAAAGATAGCAAATCTTATCTCTCTGAAATTGTAG-AAAGCTTATTAAAACTATA
66 TAGAGCAGATTAAAGATAGCAAATCTTATCTCTCTAAAATTACAGCAAAGCAGATTAAAACTATA
36746761 AAC
131 AAC
* *
36746764 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGTTACAAATCTTATCCCCCTGAAGATGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCCTATCCCCCTGAAGATGCAG
* * **
36746829 TAGAGCAGATTGAAGATAGGAAATCTTATCTCTCTAAAATTACAGCAAAGCAGATTAAAGTTATA
66 TAGAGCAGATTAAAGATAGCAAATCTTATCTCTCTAAAATTACAGCAAAGCAGATTAAAACTATA
36746894 AAC
131 AAC
* * * *
36746897 CTTATCTCCTTGAAGTTGCAGTAGAGCAGGTTGAAGTTACAA
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTACAA
36746939 GTTTTATATC
Statistics
Matches: 154, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
132 99 0.64
133 55 0.36
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (133 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCCTATCCCCCTGAAGATGCAG
TAGAGCAGATTAAAGATAGCAAATCTTATCTCTCTAAAATTACAGCAAAGCAGATTAAAACTATA
AAC
Found at i:36747024 original size:33 final size:33
Alignment explanation
Indices: 36746985--36747050 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
36746975 CTGAAGTTGT
36746985 AGTGGAGCAGATTGAAGATGTGAATCTTATTTC
1 AGTGGAGCAGATTGAAGATGTGAATCTTATTTC
36747018 AGTGGAGCAGATTGAAGATGTGAATCTTATTTC
1 AGTGGAGCAGATTGAAGATGTGAATCTTATTTC
36747051 CCTGAAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.33
Consensus pattern (33 bp):
AGTGGAGCAGATTGAAGATGTGAATCTTATTTC
Found at i:36747635 original size:13 final size:13
Alignment explanation
Indices: 36747617--36747642 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36747607 GCCCGAGGAC
36747617 TGCCTCCCTTGCA
1 TGCCTCCCTTGCA
36747630 TGCCTCCCTTGCA
1 TGCCTCCCTTGCA
36747643 CCCGAATGGC
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:0.08, C:0.46, G:0.15, T:0.31
Consensus pattern (13 bp):
TGCCTCCCTTGCA
Found at i:36747951 original size:4 final size:4
Alignment explanation
Indices: 36747942--36747977 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
36747932 TCGAATATAG
36747942 CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
36747978 TACATTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:36752525 original size:15 final size:15
Alignment explanation
Indices: 36752505--36752546 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
36752495 CTCTTGGGTT
*
36752505 TCTTTATCCTGGATC
1 TCTTTATTCTGGATC
* *
36752520 TCTTTATTCTGTATT
1 TCTTTATTCTGGATC
36752535 TCTTTATTCTGG
1 TCTTTATTCTGG
36752547 GTGTCTCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.57
Consensus pattern (15 bp):
TCTTTATTCTGGATC
Found at i:36757188 original size:30 final size:30
Alignment explanation
Indices: 36757154--36757213 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
36757144 TATTTTATTA
36757154 TTAATTTTGTTATTATTTTAAAGGAATTTG
1 TTAATTTTGTTATTATTTTAAAGGAATTTG
* *
36757184 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGAATTTG
36757214 CTTATTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGAATTTG
Found at i:36757672 original size:21 final size:21
Alignment explanation
Indices: 36757646--36757687 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
36757636 TTTTCCCATA
36757646 CGGATTGCCACCTCTGAACCT
1 CGGATTGCCACCTCTGAACCT
36757667 CGGATTGCCACCTCTGAACCT
1 CGGATTGCCACCTCTGAACCT
36757688 AATGGAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.24
Consensus pattern (21 bp):
CGGATTGCCACCTCTGAACCT
Found at i:36759414 original size:45 final size:45
Alignment explanation
Indices: 36759350--36759446 Score: 176
Period size: 45 Copynumber: 2.2 Consensus size: 45
36759340 TTCACAATTA
*
36759350 ACCCTTAGTGAACCCCCTTGAGCCTAACAACCCAATTATTGATTT
1 ACCCTTAGTGAACCCCCTTGAGCCTAACAACCCAATCATTGATTT
36759395 ACCCTTAGTGAACCCCCTTGAGCCTAACAACCCAATCATTGATTT
1 ACCCTTAGTGAACCCCCTTGAGCCTAACAACCCAATCATTGATTT
*
36759440 TCCCTTA
1 ACCCTTA
36759447 ACCCATTATT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.29
Consensus pattern (45 bp):
ACCCTTAGTGAACCCCCTTGAGCCTAACAACCCAATCATTGATTT
Found at i:36759578 original size:3 final size:3
Alignment explanation
Indices: 36759570--36759602 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
36759560 ACTTGTTCTA
36759570 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
36759603 CATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:36761066 original size:10 final size:10
Alignment explanation
Indices: 36761051--36761082 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
36761041 TACATACATT
36761051 TAATTAAAGA
1 TAATTAAAGA
36761061 TAATTAAAGA
1 TAATTAAAGA
36761071 TAATTAAA-A
1 TAATTAAAGA
36761080 TAA
1 TAA
36761083 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:36762211 original size:14 final size:14
Alignment explanation
Indices: 36762192--36762218 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36762182 ATATTTGATT
36762192 TGTTCTTAATTATG
1 TGTTCTTAATTATG
36762206 TGTTCTTAATTAT
1 TGTTCTTAATTAT
36762219 TATTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:36766703 original size:13 final size:13
Alignment explanation
Indices: 36766687--36766716 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36766677 TCTTTTATAT
*
36766687 TAAATAAATAAAA
1 TAAATAAAGAAAA
36766700 TAAATAAAGAAAA
1 TAAATAAAGAAAA
36766713 TAAA
1 TAAA
36766717 GAAAAATGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
TAAATAAAGAAAA
Found at i:36766867 original size:16 final size:16
Alignment explanation
Indices: 36766814--36766867 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
36766804 ATTTACTATT
36766814 TATAA-AAGATATTTA
1 TATAATAAGATATTTA
**
36766829 T-TAATTAAG-TAACTA
1 TATAA-TAAGATATTTA
*
36766844 TATTATAAGATATTTA
1 TATAATAAGATATTTA
36766860 TATAATAA
1 TATAATAA
36766868 ATAAATTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
14 3 0.10
15 10 0.34
16 16 0.55
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (16 bp):
TATAATAAGATATTTA
Found at i:36767943 original size:16 final size:16
Alignment explanation
Indices: 36767915--36767975 Score: 63
Period size: 16 Copynumber: 3.7 Consensus size: 16
36767905 TAATATAAAG
36767915 TGAATTG-AAATATAT
1 TGAATTGAAAATATAT
36767930 TGAATTGAAAATATAT
1 TGAATTGAAAATATAT
*
36767946 CTGATAATTGAAATATATAC
1 -TG--AATTGAAA-ATATAT
36767966 TG-ATTGAAAA
1 TGAATTGAAAA
36767976 CTGAAAGTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 8 0.20
16 15 0.38
17 2 0.05
19 10 0.25
20 5 0.12
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.36
Consensus pattern (16 bp):
TGAATTGAAAATATAT
Found at i:36767956 original size:19 final size:18
Alignment explanation
Indices: 36767917--36767969 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
36767907 ATATAAAGTG
36767917 AATTGAAATATAT-TG--
1 AATTGAAATATATCTGAT
36767932 AATTGAAAATATATCTGAT
1 AATTG-AAATATATCTGAT
36767951 AATTGAAATATATACTGAT
1 AATTGAAATATAT-CTGAT
36767970 TGAAAACTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.15
16 8 0.24
17 2 0.06
18 8 0.24
19 10 0.30
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (18 bp):
AATTGAAATATATCTGAT
Found at i:36768329 original size:18 final size:18
Alignment explanation
Indices: 36768306--36768383 Score: 102
Period size: 18 Copynumber: 4.3 Consensus size: 18
36768296 TAAATAAAGG
36768306 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* * *
36768324 TACTGAATAATTGACTGT
1 TACTGAATAACTGATTAT
*
36768342 TACTGAATAAATGATTAT
1 TACTGAATAACTGATTAT
* *
36768360 TATTGAATAACTGATTAA
1 TACTGAATAACTGATTAT
36768378 TACTGA
1 TACTGA
36768384 TGACTGACTG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:36769521 original size:40 final size:40
Alignment explanation
Indices: 36769345--36769507 Score: 173
Period size: 40 Copynumber: 4.1 Consensus size: 40
36769335 TTCGAGAATA
* ** *** **
36769345 TAAAGTGGATAGGATTCGTTCCTGATTCACTAAAATACCT
1 TAAAGTGAATAGGATTTATTCCTGATTCACTACGGTAATT
* * * * *
36769385 CAAAGTGGATAGGTTTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGAATAGGATTTATTCCTGATTCACTACGGTAATT
*
36769425 TAAAGTGAATAGGATTTATTCCTGATTCACTACTGTAATT
1 TAAAGTGAATAGGATTTATTCCTGATTCACTACGGTAATT
* * *
36769465 TAAAGTGAATGGGATTTATTCGTGATTCACTACGGTAACT
1 TAAAGTGAATAGGATTTATTCCTGATTCACTACGGTAATT
36769505 TAA
1 TAA
36769508 GGCAGATAGG
Statistics
Matches: 105, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (40 bp):
TAAAGTGAATAGGATTTATTCCTGATTCACTACGGTAATT
Found at i:36769713 original size:77 final size:79
Alignment explanation
Indices: 36769515--36769714 Score: 255
Period size: 79 Copynumber: 2.6 Consensus size: 79
36769505 TAAGGCAGAT
* * * * *
36769515 AGGATTTTACCTGAAAACAGTAAT-CTAGATTCGCTACGGTTCCATGATATATGATTCATTATTG
1 AGGATTTGACCTGAAAACGGTAATCCT-GATTCGCTACGGTTACACGATACATGATTCATTATTG
*
36769579 TAACCTAAGGTGGAT
65 TAACCTAAGGTGGAC
* *
36769594 AGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTACGGTTACACGATACATGATTCCTTA-TGA
1 AGGATTTGACCTGAAAACGGTAATCCTGATTCGCTACGGTTACACGATACATGATTCATTATTG-
*
36769658 TAACTTAAGGTGG-C
65 TAACCTAAGGTGGAC
* *
36769672 AGGATTTGACCTGAAAA-GGTAATCCTGATTCACTACAGTTACA
1 AGGATTTGACCTGAAAACGGTAATCCTGATTCGCTACGGTTACA
36769715 TAAGATGTGA
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
77 24 0.22
78 19 0.18
79 63 0.58
80 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (79 bp):
AGGATTTGACCTGAAAACGGTAATCCTGATTCGCTACGGTTACACGATACATGATTCATTATTGT
AACCTAAGGTGGAC
Found at i:36778363 original size:49 final size:49
Alignment explanation
Indices: 36778238--36778738 Score: 893
Period size: 49 Copynumber: 10.3 Consensus size: 49
36778228 CCCTTCGGGA
* * * * *
36778238 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36778285 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36778332 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36778381 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36778430 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36778479 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36778528 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36778577 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36778626 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36778675 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36778724 CTTATCTCATATATA
1 CTTATCACATATATA
36778739 CACTTTATCT
Statistics
Matches: 439, Mismatches: 11, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 43 0.10
49 395 0.90
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36784591 original size:21 final size:21
Alignment explanation
Indices: 36784565--36784613 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
36784555 TTTAGTCCTT
*
36784565 TATTTTCATTAATTCGCAAAC
1 TATTTTCATTAATTCACAAAC
*
36784586 TATTTTCATTATTTCACAAAC
1 TATTTTCATTAATTCACAAAC
*
36784607 TACTTTC
1 TATTTTC
36784614 TTCAATATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (21 bp):
TATTTTCATTAATTCACAAAC
Found at i:36785641 original size:13 final size:13
Alignment explanation
Indices: 36785623--36785664 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
36785613 AAAGTGATGG
36785623 AAATAATAAAATA
1 AAATAATAAAATA
36785636 AAATAATAAAATAA
1 AAATAATAAAAT-A
*
36785650 CAAATAAAAAAATA
1 -AAATAATAAAATA
36785664 A
1 A
36785665 GTAGGCAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 13 0.50
14 2 0.08
15 11 0.42
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAATAAAATA
Found at i:36785873 original size:25 final size:24
Alignment explanation
Indices: 36785828--36785874 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
36785818 AAGGTATAAA
*
36785828 TAAATAAAATAATAAATAAATGGT
1 TAAATAAAATAATAAAAAAATGGT
36785852 TAAATTAAAAT-ATAATAAAAATG
1 TAAA-TAAAATAATAA-AAAAATG
36785875 CACTGATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (24 bp):
TAAATAAAATAATAAAAAAATGGT
Found at i:36786014 original size:48 final size:48
Alignment explanation
Indices: 36785943--36786038 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
36785933 ATAGTCTAAG
*
36785943 GACCAAAATGAAAACAACTCAAAATTAAATGACATAATTTTAAAAAGA
1 GACCAAAATGAAAACAAATCAAAATTAAATGACATAATTTTAAAAAGA
36785991 GACCAAAATGAAAACAAATCAAAATTAAATGACATAATTTTAAAAAGA
1 GACCAAAATGAAAACAAATCAAAATTAAATGACATAATTTTAAAAAGA
36786039 AGAAAAACCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.21
Consensus pattern (48 bp):
GACCAAAATGAAAACAAATCAAAATTAAATGACATAATTTTAAAAAGA
Found at i:36787199 original size:17 final size:17
Alignment explanation
Indices: 36787177--36787213 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
36787167 TTCCACTTGA
*
36787177 GGACAAAACTACTCTGT
1 GGACAAAACTACTCTAT
36787194 GGACAAAACTACTCTAT
1 GGACAAAACTACTCTAT
36787211 GGA
1 GGA
36787214 GTGTGTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (17 bp):
GGACAAAACTACTCTAT
Found at i:36791575 original size:22 final size:22
Alignment explanation
Indices: 36791533--36791573 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
36791523 AGTAACAGAC
* *
36791533 AATAAAGGGGTGAGATTAAATA
1 AATAAAGGGCTGAAATTAAATA
36791555 AATAAAGGGCT-AAATTAAA
1 AATAAAGGGCTGAAATTAAA
36791574 ATTTAAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.02, G:0.22, T:0.22
Consensus pattern (22 bp):
AATAAAGGGCTGAAATTAAATA
Found at i:36792859 original size:11 final size:11
Alignment explanation
Indices: 36792843--36792867 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36792833 ACTTTATTTA
36792843 TTTTGTTTTTG
1 TTTTGTTTTTG
36792854 TTTTGTTTTTG
1 TTTTGTTTTTG
36792865 TTT
1 TTT
36792868 GAGCCGGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (11 bp):
TTTTGTTTTTG
Found at i:36793148 original size:39 final size:39
Alignment explanation
Indices: 36793094--36793173 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
36793084 TCAGCAAGGG
36793094 TACAAGAGTTAGCAGAGGTTAAACAAGCTAGGTGAATGT
1 TACAAGAGTTAGCAGAGGTTAAACAAGCTAGGTGAATGT
*
36793133 TACAAGAGTTAGCAGAGGTTAAACTAGCTAGGTGAATGT
1 TACAAGAGTTAGCAGAGGTTAAACAAGCTAGGTGAATGT
36793172 TA
1 TA
36793174 GTGATTGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.10, G:0.28, T:0.25
Consensus pattern (39 bp):
TACAAGAGTTAGCAGAGGTTAAACAAGCTAGGTGAATGT
Found at i:36795267 original size:16 final size:15
Alignment explanation
Indices: 36795219--36795280 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
36795209 ACTCATATGC
*
36795219 TTTAGTTTTTTTATT
1 TTTAATTTTTTTATT
* *
36795234 TATACTTTTTTTAGATT
1 TTTAATTTTTTT--ATT
36795251 TTTAAATTTTTTTATTT
1 TTT-AATTTTTTTA-TT
*
36795268 TTTTATTTTTTTA
1 TTTAATTTTTTTA
36795281 AACTTTAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 10 0.26
16 10 0.26
17 10 0.26
18 8 0.21
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTAATTTTTTTATT
Found at i:36795268 original size:7 final size:8
Alignment explanation
Indices: 36795256--36795280 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36795246 AGATTTTTAA
36795256 ATTTTTTT
1 ATTTTTTT
36795264 ATTTTTTT
1 ATTTTTTT
36795272 ATTTTTTT
1 ATTTTTTT
36795280 A
1 A
36795281 AACTTTAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:36810475 original size:17 final size:16
Alignment explanation
Indices: 36810453--36810488 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
36810443 TTAAGATACC
*
36810453 ATGACCTTCACACTTAT
1 ATGACCTTAACACTT-T
36810470 ATGACCTTAACACTTT
1 ATGACCTTAACACTTT
36810486 ATG
1 ATG
36810489 GCAATGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (16 bp):
ATGACCTTAACACTTT
Done.