Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 134 of 189
Found at i:38809160 original size:9 final size:9
Alignment explanation
Indices: 38809134--38809166 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
38809124 AGAAGTTATC
38809134 GATCAGAAT
1 GATCAGAAT
38809143 GATTCAGAAT
1 GA-TCAGAAT
38809153 GATCAGAAT
1 GATCAGAAT
38809162 G-TCAG
1 GATCAG
38809167 CTTTAGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.17
9 10 0.43
10 9 0.39
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (9 bp):
GATCAGAAT
Found at i:38814771 original size:16 final size:18
Alignment explanation
Indices: 38814745--38814777 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
38814735 TTCAATTAAC
38814745 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
38814762 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
38814778 GTCAGTTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:38814917 original size:14 final size:13
Alignment explanation
Indices: 38814874--38814926 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
38814864 TCATAAGGTC
38814874 TAATTAATTTAATT
1 TAATT-ATTTAATT
* *
38814888 TCATTTTTTAACTT
1 TAATTATTTAA-TT
38814902 TAATTATTTAATTT
1 TAATTATTTAA-TT
*
38814916 TAATTAATTAA
1 TAATTATTTAA
38814927 ATAATAATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 5 0.16
14 27 0.84
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (13 bp):
TAATTATTTAATT
Found at i:38816864 original size:30 final size:31
Alignment explanation
Indices: 38816828--38816896 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
38816818 TGCTTTCAAT
*
38816828 TCAGTCACTCAAC-TT-TTGAAAAATAACAAA
1 TCAGTCACT-AACGTTATCGAAAAATAACAAA
* *
38816858 TCAGTCACTAACGTTATCGAAAAGTGACAAA
1 TCAGTCACTAACGTTATCGAAAAATAACAAA
38816889 TCAGTCAC
1 TCAGTCAC
38816897 CCATTAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.32
31 20 0.59
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.25
Consensus pattern (31 bp):
TCAGTCACTAACGTTATCGAAAAATAACAAA
Found at i:38817780 original size:3 final size:3
Alignment explanation
Indices: 38817772--38817861 Score: 157
Period size: 3 Copynumber: 30.3 Consensus size: 3
38817762 ACATCTCAAT
38817772 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
38817820 TTC TTC TTC TTC TTC TTC TTC TTC -TC TT- TCTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC TTC T
38817862 ACAGCCTAGT
Statistics
Matches: 84, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
2 3 0.04
3 80 0.95
4 1 0.01
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:38822826 original size:39 final size:39
Alignment explanation
Indices: 38822772--38822851 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
38822762 GGTACTAGTT
*
38822772 ATATTTCTGTGTTGCACTAGACAACCTTCCTTGCTGTTA
1 ATATTTATGTGTTGCACTAGACAACCTTCCTTGCTGTTA
38822811 ATATTTATGTGTTGCACTAGACAACCTTCCTTGCTGTTA
1 ATATTTATGTGTTGCACTAGACAACCTTCCTTGCTGTTA
38822850 AT
1 AT
38822852 GTGTCTGAAC
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:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (39 bp):
ATATTTATGTGTTGCACTAGACAACCTTCCTTGCTGTTA
Found at i:38838572 original size:120 final size:121
Alignment explanation
Indices: 38838351--38838592 Score: 389
Period size: 120 Copynumber: 2.0 Consensus size: 121
38838341 TTCGTACTAC
* *
38838351 ATGTATTAACTATACCATTTTTCTGATCTTGGTACTTAATTGTTTTTTTTTGTCACAAGTGATAC
1 ATGTATTAACTATACCATTTTTCTCATCTAGGTACTTAATTG--TTTTTTTGTCACAAGTGATAC
* *
38838416 CCTTTTTGCTCTAGTTAGTACCTCCGTTAGTTAAACAATTAAATCTATTTTAAAAAAT
64 CCTTTTTGCTCTAGTTAGCACCTCCGTTAGTCAAACAATTAAATCTATTTTAAAAAAT
38838474 ATGTATTAACTATACCATTTTTCTCATCTAGGTACTTAATTG-TTTTTTGTCACAAGTGATACCC
1 ATGTATTAACTATACCATTTTTCTCATCTAGGTACTTAATTGTTTTTTTGTCACAAGTGATACCC
* *
38838538 TTTTTGC-CGTAGTTGGCACCTCCGTTAGTCAAACAGTTAAATCTATTTTAAAAAA
66 TTTTTGCTC-TAGTTAGCACCTCCGTTAGTCAAACAATTAAATCTATTTTAAAAAA
38838593 GTGTAAATTA
Statistics
Matches: 112, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
119 1 0.01
120 71 0.63
123 40 0.36
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (121 bp):
ATGTATTAACTATACCATTTTTCTCATCTAGGTACTTAATTGTTTTTTTGTCACAAGTGATACCC
TTTTTGCTCTAGTTAGCACCTCCGTTAGTCAAACAATTAAATCTATTTTAAAAAAT
Found at i:38838902 original size:8 final size:7
Alignment explanation
Indices: 38838864--38838912 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
38838854 GTTTTACTTC
38838864 TTAAAAA
1 TTAAAAA
38838871 TTAAAAA
1 TTAAAAA
38838878 TTAAAAA
1 TTAAAAA
*
38838885 TT-TAAA
1 TTAAAAA
38838891 --AAAAA
1 TTAAAAA
*
38838896 TTTAAAA
1 TTAAAAA
*
38838903 CTAAAAA
1 TTAAAAA
38838910 TTA
1 TTA
38838913 TTTAAAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
5 3 0.09
6 3 0.09
7 27 0.82
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:38838907 original size:17 final size:18
Alignment explanation
Indices: 38838873--38838919 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
38838863 CTTAAAAATT
* *
38838873 AAAAATTAAAAATTTAAA
1 AAAAATTTAAAATCTAAA
38838891 AAAAATTTAAAA-CTAAA
1 AAAAATTTAAAATCTAAA
**
38838908 AATTATTTAAAA
1 AAAAATTTAAAA
38838920 ATTATTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATTTAAAATCTAAA
Found at i:38838919 original size:25 final size:25
Alignment explanation
Indices: 38838864--38838923 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
38838854 GTTTTACTTC
*
38838864 TTAAAAATTAAAAATTAAAAATTTA
1 TTAAAAATTAAAAACTAAAAATTTA
** *
38838889 AAAAAAATTTAAAACTAAAAA-TTA
1 TTAAAAATTAAAAACTAAAAATTTA
38838913 TTTAAAAATTA
1 -TTAAAAATTA
38838924 TTTTTATAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
TTAAAAATTAAAAACTAAAAATTTA
Found at i:38839034 original size:19 final size:20
Alignment explanation
Indices: 38839001--38839045 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
38838991 ATTTATTTAT
38839001 TAAAATAATAC-TTTTATAAA
1 TAAAATAATACTTTTTA-AAA
*
38839021 TAAAA-AATATTTTTTAAAA
1 TAAAATAATACTTTTTAAAA
38839040 TAAAAT
1 TAAAAT
38839046 CGCACAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAATAATACTTTTTAAAA
Found at i:38840281 original size:20 final size:21
Alignment explanation
Indices: 38840258--38840303 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
38840248 TATTTATAAA
*
38840258 TATTTTC-AT-AATTTTGTATG
1 TATTTTCTATAAACTTT-TATG
38840278 TA-TTTCTATAAACTTTTATG
1 TATTTTCTATAAACTTTTATG
38840298 TATTTT
1 TATTTT
38840304 TATCGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 4 0.18
20 10 0.45
21 8 0.36
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.61
Consensus pattern (21 bp):
TATTTTCTATAAACTTTTATG
Found at i:38841471 original size:15 final size:15
Alignment explanation
Indices: 38841448--38841498 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
38841438 CAGACATTAT
*
38841448 AAAAGAAGAGAAAAG
1 AAAAAAAGAGAAAAG
38841463 AAAAAAAGAGGAAAA-
1 AAAAAAAGA-GAAAAG
* *
38841478 AAATAAAGA-AATAG
1 AAAAAAAGAGAAAAG
38841492 AAAAAAA
1 AAAAAAA
38841499 AATGGAGAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 3 0.10
14 6 0.20
15 16 0.53
16 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (15 bp):
AAAAAAAGAGAAAAG
Found at i:38841471 original size:18 final size:17
Alignment explanation
Indices: 38841448--38841500 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
38841438 CAGACATTAT
38841448 AAAAGAAGAGAAAAGAAA
1 AAAAGAAGAGAAAA-AAA
38841466 AAAAG-AG-GAAAAAAA
1 AAAAGAAGAGAAAAAAA
* *
38841481 TAAAGAAATAGAAAAAAA
1 AAAAG-AAGAGAAAAAAA
38841499 AA
1 AA
38841501 TGGAGAAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 7 0.24
16 5 0.17
17 3 0.10
18 14 0.48
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (17 bp):
AAAAGAAGAGAAAAAAA
Found at i:38843388 original size:9 final size:9
Alignment explanation
Indices: 38843376--38843462 Score: 59
Period size: 9 Copynumber: 9.7 Consensus size: 9
38843366 TGCAGCACAT
38843376 TGCATGGAA
1 TGCATGGAA
*
38843385 TGCATGG-T
1 TGCATGGAA
*
38843393 TCGCATGAAA
1 T-GCATGGAA
*
38843403 TGCATGGAT
1 TGCATGGAA
*
38843412 TGCATGGGA
1 TGCATGGAA
*
38843421 TGCATGAAA
1 TGCATGGAA
* ***
38843430 TGTATGTTT
1 TGCATGGAA
38843439 TGCATGGAA
1 TGCATGGAA
* *
38843448 CGCATGGAG
1 TGCATGGAA
38843457 TGCATG
1 TGCATG
38843463 CCCAAACTCG
Statistics
Matches: 56, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
8 1 0.02
9 54 0.96
10 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (9 bp):
TGCATGGAA
Found at i:38843423 original size:18 final size:18
Alignment explanation
Indices: 38843374--38843426 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
38843364 CATGCAGCAC
38843374 ATTGCATGGAATGCATGG
1 ATTGCATGGAATGCATGG
*
38843392 -TTCGCATGAAATGCATGG
1 ATT-GCATGGAATGCATGG
*
38843410 ATTGCATGGGATGCATG
1 ATTGCATGGAATGCATG
38843427 AAATGTATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 2 0.07
18 26 0.87
19 2 0.07
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.28
Consensus pattern (18 bp):
ATTGCATGGAATGCATGG
Found at i:38843452 original size:27 final size:27
Alignment explanation
Indices: 38843376--38843462 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
38843366 TGCAGCACAT
* **
38843376 TGCATGGAATGCATGGTTCGCATGAAA
1 TGCATGGATTGCATGGAACGCATGAAA
* *
38843403 TGCATGGATTGCATGGGATGCATGAAA
1 TGCATGGATTGCATGGAACGCATGAAA
* ** * *
38843430 TGTATGTTTTGCATGGAACGCATGGAG
1 TGCATGGATTGCATGGAACGCATGAAA
38843457 TGCATG
1 TGCATG
38843463 CCCAAACTCG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (27 bp):
TGCATGGATTGCATGGAACGCATGAAA
Found at i:38850023 original size:9 final size:9
Alignment explanation
Indices: 38850009--38850053 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
38849999 CATGCAGCAC
38850009 ATTGCATGG
1 ATTGCATGG
*
38850018 AGTGCATGG
1 ATTGCATGG
* *
38850027 TTTGCATGA
1 ATTGCATGG
*
38850036 AATGCATGG
1 ATTGCATGG
38850045 ATTGCATGG
1 ATTGCATGG
38850054 GATGCATGAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.24, C:0.11, G:0.33, T:0.31
Consensus pattern (9 bp):
ATTGCATGG
Found at i:38850033 original size:18 final size:18
Alignment explanation
Indices: 38850009--38850061 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
38849999 CATGCAGCAC
*
38850009 ATTGCATGGAGTGCATGG
1 ATTGCATGGAATGCATGG
* *
38850027 TTTGCATGAAATGCATGG
1 ATTGCATGGAATGCATGG
*
38850045 ATTGCATGGGATGCATG
1 ATTGCATGGAATGCATG
38850062 AAATGCATGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.34, T:0.30
Consensus pattern (18 bp):
ATTGCATGGAATGCATGG
Found at i:38850078 original size:27 final size:27
Alignment explanation
Indices: 38850011--38850070 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
38850001 TGCAGCACAT
* **
38850011 TGCATGGAGTGCATGGTTTGCATGAAA
1 TGCATGGATTGCATGGGATGCATGAAA
38850038 TGCATGGATTGCATGGGATGCATGAAA
1 TGCATGGATTGCATGGGATGCATGAAA
38850065 TGCATG
1 TGCATG
38850071 TTTTGCATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.28
Consensus pattern (27 bp):
TGCATGGATTGCATGGGATGCATGAAA
Found at i:38850087 original size:27 final size:27
Alignment explanation
Indices: 38850030--38850097 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
38850020 TGCATGGTTT
* * *
38850030 GCATGAAATGCATGGATTGCATGGGAT
1 GCATGAAATGCATGGATTGCATAGAAC
**
38850057 GCATGAAATGCATGTTTTGCATAGAAC
1 GCATGAAATGCATGGATTGCATAGAAC
* *
38850084 GCATGGAGTGCATG
1 GCATGAAATGCATG
38850098 CCCAAACTCG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.26
Consensus pattern (27 bp):
GCATGAAATGCATGGATTGCATAGAAC
Found at i:38851577 original size:24 final size:24
Alignment explanation
Indices: 38851546--38851596 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
38851536 AATTAAAGTA
38851546 AAAAAAGTTTAAATACCATTTTGT
1 AAAAAAGTTTAAATACCATTTTGT
38851570 AAAAAAGTTTAAATACCATTTTGT
1 AAAAAAGTTTAAATACCATTTTGT
38851594 AAA
1 AAA
38851597 TTAAACTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (24 bp):
AAAAAAGTTTAAATACCATTTTGT
Found at i:38853512 original size:95 final size:95
Alignment explanation
Indices: 38853349--38853520 Score: 317
Period size: 95 Copynumber: 1.8 Consensus size: 95
38853339 TTCAAATCAA
38853349 ATTATTCTTAAAAAGGGTTTAGTTCAACAAATATAAAATTATATTTCGAAATAGGATTACAATAA
1 ATTATTCTTAAAAAGGGTTTAGTTCAACAAATATAAAATTATATTTCGAAATAGGATTACAATAA
38853414 TATAATATTACATGCGATATCTTATCTTAT
66 TATAATATTACATGCGATATCTTATCTTAT
* * *
38853444 ATTATTCTTAAAAGGGGTTTAGTTCAACAAGTATAAGATTATATTTCGAAATAGGATTACAATAA
1 ATTATTCTTAAAAAGGGTTTAGTTCAACAAATATAAAATTATATTTCGAAATAGGATTACAATAA
38853509 TATAATATTACA
66 TATAATATTACA
38853521 ATAATATAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (95 bp):
ATTATTCTTAAAAAGGGTTTAGTTCAACAAATATAAAATTATATTTCGAAATAGGATTACAATAA
TATAATATTACATGCGATATCTTATCTTAT
Found at i:38853520 original size:16 final size:16
Alignment explanation
Indices: 38853499--38853533 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
38853489 TCGAAATAGG
38853499 ATTACAATAATATAAT
1 ATTACAATAATATAAT
38853515 ATTACAATAATATAAT
1 ATTACAATAATATAAT
38853531 ATT
1 ATT
38853534 TCGAAATAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTACAATAATATAAT
Found at i:38860384 original size:47 final size:47
Alignment explanation
Indices: 38860319--38861095 Score: 1266
Period size: 47 Copynumber: 16.3 Consensus size: 47
38860309 AAAGTATATA
38860319 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38860366 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
38860413 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38860462 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38860509 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
38860556 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
38860605 TATATATGTGATAAGGTCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
38860652 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
38860701 TATATATGTGATAAGGCCGAATGGTCGATGTGATGAATGTGAAAGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
38860748 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38860795 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
38860842 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
38860891 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38860938 TATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38860987 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * * *
38861034 TATATATGTGACAAGCCCGAGTGGCCAACGTGATGGACGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38861081 TATAAATGTGATAAG
1 TATATATGTGATAAG
38861096 TCCCGAAGGG
Statistics
Matches: 686, Mismatches: 34, Indels: 20
0.93 0.05 0.03
Matches are distributed among these distances:
47 459 0.67
49 227 0.33
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:38860428 original size:96 final size:94
Alignment explanation
Indices: 38860319--38861095 Score: 1266
Period size: 96 Copynumber: 8.2 Consensus size: 94
38860309 AAAGTATATA
*
38860319 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
38860384 TAATAGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
*
38860413 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 --TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
*
38860478 CCTAATAGCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
38860509 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
38860574 CCTAATGGCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38860605 TATATATGTGATAAGGTCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
38860670 CCTAATGGCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
38860701 TATATATGTGATAAGGCCGAATGGTCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
38860766 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
38860795 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
38860860 CCTAATGGCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
38860891 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGG
*
38860956 CCTAATGGCCGATGTGATGAATGTGAAGGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
38860987 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGCCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
38861052 GAGTGGCCAACGTGATGGACGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
*
38861081 TATAAATGTGATAAG
1 TATATATGTGATAAG
38861096 TCCCGAAGGG
Statistics
Matches: 646, Mismatches: 29, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
94 188 0.29
96 458 0.71
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:38860563 original size:143 final size:143
Alignment explanation
Indices: 38860319--38861095 Score: 1301
Period size: 143 Copynumber: 5.4 Consensus size: 143
38860309 AAAGTATATA
38860319 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
38860384 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
38860449 GAATGTGAAAGTG
131 GAATGTGAAAGTG
*
38860462 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
38860527 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
38860592 GAATGTGAAAGTG
131 GAATGTGAAAGTG
* *
38860605 TATATATGTGATAAGGTCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
* * *
38860670 CCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGTCGATGTG
64 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
*
38860733 ATGAATGTGAAAGTA
129 ATGAATGTGAAAGTG
38860748 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
38860813 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
38860878 GAATGTGAAAGTG
131 GAATGTGAAAGTG
* *
38860891 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGG
* * *
38860956 CCTAATGGCCGATGTGATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATAGCCGATGTG
64 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
38861019 ATGAATGTGAAAGTG
129 ATGAATGTGAAAGTG
* * * * * * * * *
38861034 TATATATGTGACAAGCCCGAGTGGCCAACGTGATGGACGTGAAAGTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38861096 TCCCGAAGGG
Statistics
Matches: 604, Mismatches: 24, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
141 56 0.09
143 464 0.77
144 3 0.00
145 81 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (143 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTG
Found at i:38864565 original size:20 final size:20
Alignment explanation
Indices: 38864540--38864644 Score: 68
Period size: 20 Copynumber: 5.2 Consensus size: 20
38864530 TACTTCGGTA
38864540 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
* * * *
38864560 CCCCTGATTGTAC-TTCAGTA
1 CCCCTGAATGCACATAC-GTG
*
38864580 CCCCTGAATGCACATATGTG
1 CCCCTGAATGCACATACGTG
* * * ** *
38864600 CCCTTGATTGCACTTTGGTA
1 CCCCTGAATGCACATACGTG
* * *
38864620 TCCCTGAATGCACATGCATG
1 CCCCTGAATGCACATACGTG
38864640 CCCCT
1 CCCCT
38864645 ATTTATACTT
Statistics
Matches: 59, Mismatches: 24, Indels: 4
0.68 0.28 0.05
Matches are distributed among these distances:
19 2 0.03
20 56 0.95
21 1 0.02
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.29
Consensus pattern (20 bp):
CCCCTGAATGCACATACGTG
Found at i:38864659 original size:40 final size:40
Alignment explanation
Indices: 38864504--38864644 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
38864494 TAATTATTAT
*
38864504 CTGAATGCACATACGTACCCC--ATTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGA-TTGTACTTCGGTACCC
*
38864543 CTGAATGCACATACGTGCCCCTGATTGTACTTCAGTACCC
1 CTGAATGCACATACGTGCCCCTGATTGTACTTCGGTACCC
* * * * *
38864583 CTGAATGCACATATGTGCCCTTGATTGCACTTTGGTATCC
1 CTGAATGCACATACGTGCCCCTGATTGTACTTCGGTACCC
* *
38864623 CTGAATGCACATGCATGCCCCT
1 CTGAATGCACATACGTGCCCCT
38864645 ATTTATACTT
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 20 0.23
40 67 0.76
41 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (40 bp):
CTGAATGCACATACGTGCCCCTGATTGTACTTCGGTACCC
Found at i:38867392 original size:27 final size:27
Alignment explanation
Indices: 38867362--38867608 Score: 120
Period size: 27 Copynumber: 9.1 Consensus size: 27
38867352 AATCACAATC
*
38867362 ATTTTATCCTACAGGGGTATTTCGATA
1 ATTTTACCCTACAGGGGTATTTCGATA
*
38867389 ATTTTACCCTATAGGGGTATTTCGATA
1 ATTTTACCCTACAGGGGTATTTCGATA
** * *
38867416 ATTTTACCC-ATTGGGGGTATTTTGGTA
1 ATTTTACCCTA-CAGGGGTATTTCGATA
** * * *
38867443 AAATTACCATTC-GAGGGTATTT-TAGTA
1 ATTTTACCCTACAG-GGGTATTTCGA-TA
* *
38867470 ATTTTACCC-ATCGGGGGTATTTTGATA
1 ATTTTACCCTA-CAGGGGTATTTCGATA
*
38867497 ATTTTACCC-ATC-GAGGATATTTC-AGTA
1 ATTTTACCCTA-CAG-GGGTATTTCGA-TA
** *
38867524 ATTTTACCCT-TTGAGGGTATTTCAATA
1 ATTTTACCCTACAG-GGGTATTTCGATA
* * * *
38867551 ATTTTATCC-ATCAAGGGTATTTTGGTA
1 ATTTTACCCTA-CAGGGGTATTTCGATA
*
38867578 ATTTTACCCTTC-GAGGGTATTTC-AGTA
1 ATTTTACCCTACAG-GGGTATTTCGA-TA
38867605 ATTT
1 ATTT
38867609 GCTCACGAAT
Statistics
Matches: 170, Mismatches: 33, Indels: 34
0.72 0.14 0.14
Matches are distributed among these distances:
26 4 0.02
27 163 0.96
28 3 0.02
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTACAGGGGTATTTCGATA
Found at i:38867434 original size:54 final size:55
Alignment explanation
Indices: 38867375--38867608 Score: 216
Period size: 54 Copynumber: 4.3 Consensus size: 55
38867365 TTATCCTACA
38867375 GGGGTATTTCGATAATTTTACCCTATAG-GGGTATTTCGA-TAATTTTACCCATTG
1 GGGGTATTTCGATAATTTTACCC-ATAGAGGGTATTTCGAGTAATTTTACCCATTG
* * ** * * *
38867429 GGGGTATTTTGGTAAAATTA-CCATTCGAGGGTATTT-TAGTAATTTTACCCATCG
1 GGGGTATTTCGATAATTTTACCCA-TAGAGGGTATTTCGAGTAATTTTACCCATTG
* * * *
38867483 GGGGTATTTTGATAATTTTACCCATCGAGGATATTTC-AGTAATTTTACCCTTTG
1 GGGGTATTTCGATAATTTTACCCATAGAGGGTATTTCGAGTAATTTTACCCATTG
* * * *
38867537 AGGGTATTTCAATAATTTTATCCATCA-AGGGTATTTTG-GTAATTTTACCC-TTCG
1 GGGGTATTTCGATAATTTTACCCAT-AGAGGGTATTTCGAGTAATTTTACCCATT-G
*
38867591 AGGGTATTTC-AGTAATTT
1 GGGGTATTTCGA-TAATTT
38867609 GCTCACGAAT
Statistics
Matches: 151, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
52 1 0.01
53 8 0.05
54 139 0.92
55 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (55 bp):
GGGGTATTTCGATAATTTTACCCATAGAGGGTATTTCGAGTAATTTTACCCATTG
Found at i:38867606 original size:81 final size:81
Alignment explanation
Indices: 38867376--38867608 Score: 281
Period size: 81 Copynumber: 2.9 Consensus size: 81
38867366 TATCCTACAG
* * * *
38867376 GGGTATTTCGATAATTTTACCCTAT-AGGGGTATTTCGATAATTTTACCCATT-GGGGGTATTTT
1 GGGTATTTCAATAATTTTACCC-ATCAGGGGTATTTTGATAATTTTACCC-TTCGAGGGTATTTC
* **
38867439 GGTAAAATTACCATTCGA
64 AGTAATTTTACCATTCGA
* * * * *
38867457 GGGTATTTTAGTAATTTTACCCATCGGGGGTATTTTGATAATTTTACCCATCGAGGATATTTCAG
1 GGGTATTTCAATAATTTTACCCATCAGGGGTATTTTGATAATTTTACCCTTCGAGGGTATTTCAG
* *
38867522 TAATTTTACCCTTTGA
66 TAATTTTACCATTCGA
* * *
38867538 GGGTATTTCAATAATTTTATCCATCAAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCAG
1 GGGTATTTCAATAATTTTACCCATCAGGGGTATTTTGATAATTTTACCCTTCGAGGGTATTTCAG
38867603 TAATTT
66 TAATTT
38867609 GCTCACGAAT
Statistics
Matches: 128, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 3 0.02
81 125 0.98
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (81 bp):
GGGTATTTCAATAATTTTACCCATCAGGGGTATTTTGATAATTTTACCCTTCGAGGGTATTTCAG
TAATTTTACCATTCGA
Found at i:38868891 original size:176 final size:176
Alignment explanation
Indices: 38868597--38868948 Score: 695
Period size: 176 Copynumber: 2.0 Consensus size: 176
38868587 TTGGGCACAA
*
38868597 CTCCTCCTCTCCACAACCCTTGATTTTCTCCACAAATCTTTCTCTTATCACTCCACCGAATTCTC
1 CTCCTCCTCTCCACAACCCTTGATTTTCTCCACAAATCTTTCCCTTATCACTCCACCGAATTCTC
38868662 CTCAACTCCCTCCATGACCAGTTCAAACTTTCTTCGGTAGTATTCCACTCAAACTCTGCTACTTA
66 CTCAACTCCCTCCATGACCAGTTCAAACTTTCTTCGGTAGTATTCCACTCAAACTCTGCTACTTA
38868727 CGTGGCTCAAGCAGCAAAATAACAATCCATTACACAACCCAAGACT
131 CGTGGCTCAAGCAGCAAAATAACAATCCATTACACAACCCAAGACT
38868773 CTCCTCCTCTCCACAACCCTTGATTTTCTCCACAAATCTTTCCCTTATCACTCCACCGAATTCTC
1 CTCCTCCTCTCCACAACCCTTGATTTTCTCCACAAATCTTTCCCTTATCACTCCACCGAATTCTC
38868838 CTCAACTCCCTCCATGACCAGTTCAAACTTTCTTCGGTAGTATTCCACTCAAACTCTGCTACTTA
66 CTCAACTCCCTCCATGACCAGTTCAAACTTTCTTCGGTAGTATTCCACTCAAACTCTGCTACTTA
38868903 CGTGGCTCAAGCAGCAAAATAACAATCCATTACACAACCCAAGACT
131 CGTGGCTCAAGCAGCAAAATAACAATCCATTACACAACCCAAGACT
38868949 TGAACCTTAG
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
176 175 1.00
ACGTcount: A:0.27, C:0.36, G:0.08, T:0.29
Consensus pattern (176 bp):
CTCCTCCTCTCCACAACCCTTGATTTTCTCCACAAATCTTTCCCTTATCACTCCACCGAATTCTC
CTCAACTCCCTCCATGACCAGTTCAAACTTTCTTCGGTAGTATTCCACTCAAACTCTGCTACTTA
CGTGGCTCAAGCAGCAAAATAACAATCCATTACACAACCCAAGACT
Found at i:38870679 original size:37 final size:37
Alignment explanation
Indices: 38870629--38870707 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
38870619 TTATTACGAA
* * * *
38870629 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
*
38870666 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
38870703 GTCTT
1 GTCTT
38870708 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:38870955 original size:47 final size:47
Alignment explanation
Indices: 38870826--38871353 Score: 875
Period size: 47 Copynumber: 11.1 Consensus size: 47
38870816 CCCTTCGGGA
* * * * * *
38870826 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38870873 CCTGTCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38870921 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38870968 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38871014 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38871061 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38871109 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38871156 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38871205 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38871252 CTTATCACATATATATACACTTTCA-ATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38871300 CTTATCACATATATACACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38871347 CTTATCA
1 CTTATCA
38871354 TCATTTCATA
Statistics
Matches: 458, Mismatches: 11, Indels: 24
0.93 0.02 0.05
Matches are distributed among these distances:
46 77 0.17
47 204 0.45
48 100 0.22
49 77 0.17
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38871100 original size:95 final size:96
Alignment explanation
Indices: 38870826--38871353 Score: 933
Period size: 95 Copynumber: 5.6 Consensus size: 96
38870816 CCCTTCGGGA
* * * * * * * *
38870826 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
38870891 AC-TTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38870921 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
38870983 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38871014 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
38871078 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38871109 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
38871174 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38871205 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
38871270 ACTTTCA-ATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
38871300 CTTATCACATATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
38871354 TCATTTCATA
Statistics
Matches: 421, Mismatches: 8, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
92 10 0.02
93 82 0.19
94 5 0.01
95 205 0.49
96 119 0.28
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38871242 original size:191 final size:189
Alignment explanation
Indices: 38870826--38871353 Score: 927
Period size: 191 Copynumber: 2.8 Consensus size: 189
38870816 CCCTTCGGGA
* * * * * * *
38870826 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATATAC
38870891 AC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
38870955 TCGGCCATTAGGCC-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
130 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38871014 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACA
38871079 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
38871144 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38871205 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATATAC
38871270 ACTTTCA-ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
38871334 TGGGCCATTAGGCCTTATCA
130 TCGGCCATTAGGCCTTATCA
38871354 TCATTTCATA
Statistics
Matches: 327, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
187 19 0.06
188 116 0.35
189 6 0.02
191 163 0.50
192 23 0.07
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (189 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38873763 original size:40 final size:40
Alignment explanation
Indices: 38873703--38873913 Score: 251
Period size: 40 Copynumber: 5.2 Consensus size: 40
38873693 TAGGCACGAA
* * * * *
38873703 AGCCCGAATACACGTCACCAGCATGATTGCTCTTCGGGACCT
1 AGCCCGGATACA--TCACTAGCATGAATGCTCTTCGGAACTT
* * * * ***
38873745 AGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTT
1 AGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTT
* * *
38873785 AGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTT
1 AGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTT
*
38873825 AGCCCGGATACATCACTAGCATGAATGCTTTTCGGAACTT
1 AGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTT
*
38873865 AGCCCGGATACATCACTAGCATGAATGCTCTTCAGAACTT
1 AGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTT
38873905 AGCCCGGAT
1 AGCCCGGAT
38873914 TTAGTAACTC
Statistics
Matches: 149, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 139 0.93
42 10 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTT
Found at i:38873938 original size:120 final size:120
Alignment explanation
Indices: 38873703--38873951 Score: 268
Period size: 120 Copynumber: 2.1 Consensus size: 120
38873693 TAGGCACGAA
* * * *
38873703 AGCCCGAATACACGTCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACG
1 AGCCCGGATACAC-TCACCAGCATGAATGCTCTTCGGAACCTAGCCCGGATACAACACCAGCACG
* *** * *
38873768 AATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTT
65 AATGCTCTTCAGAACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGG-ACTT
* * * * * *
38873825 AGCCCGGATACA-TCACTAGCATGAATGCTTTTCGGAACTTAGCCCGGATACATCACTAGCATGA
1 AGCCCGGATACACTCACCAGCATGAATGCTCTTCGGAACCTAGCCCGGATACAACACCAGCACGA
* * * * *
38873889 ATGCTCTTCAGAACTTAGCCCGGATTTAGTAACTCGTACCAATGC-CTTCGGGCTT
66 ATGCTCTTCAGAACTTAGCACGGATATA-TAACTAGCACCAATGCTCTTCGGACTT
38873944 AGCCCGGA
1 AGCCCGGA
38873952 ATTAGTATCT
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
119 11 0.10
120 71 0.68
121 12 0.11
122 11 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AGCCCGGATACACTCACCAGCATGAATGCTCTTCGGAACCTAGCCCGGATACAACACCAGCACGA
ATGCTCTTCAGAACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGACTT
Found at i:38873939 original size:80 final size:79
Alignment explanation
Indices: 38873703--38873951 Score: 205
Period size: 80 Copynumber: 3.1 Consensus size: 79
38873693 TAGGCACGAA
* * * * * * * * *
38873703 AGCCCGAATACACGTCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA-ACACCAGCAC
1 AGCCCGGATACA--TCACTAGCACGAATGCTCTTCAGAACTTAGCCCGGATACATA-ACTAGCAC
* **
38873767 GAATGCTCTTCGGGGTTT
63 CAATGCTCTTC-GGACTT
* * * * **
38873785 AGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCAGAACTTAGCCCGGATACATAACTAGCACCAA
*
38873850 TGCTTTTCGGAACTT
66 TGCTCTTCGG-ACTT
* ** * *
38873865 AGCCCGGATACATCACTAGCATGAATGCTCTTCAGAACTTAGCCCGGATTTAGTAACTCGTACCA
1 AGCCCGGATACATCACTAGCACGAATGCTCTTCAGAACTTAGCCCGGATACA-TAACTAGCACCA
*
38873930 ATGC-CTTCGGGCTT
65 ATGCTCTTCGGACTT
38873944 AGCCCGGA
1 AGCCCGGA
38873952 ATTAGTATCT
Statistics
Matches: 136, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
79 13 0.10
80 103 0.76
81 11 0.08
82 9 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
AGCCCGGATACATCACTAGCACGAATGCTCTTCAGAACTTAGCCCGGATACATAACTAGCACCAA
TGCTCTTCGGACTT
Found at i:38873957 original size:39 final size:38
Alignment explanation
Indices: 38873902--38874029 Score: 116
Period size: 39 Copynumber: 3.3 Consensus size: 38
38873892 CTCTTCAGAA
* *
38873902 CTTAGCCCGGATTTAGTAACTCGTACCAATGCCTTCGGG
1 CTTAGCCCGGAATTAGTAACTCGCA-CAATGCCTTCGGG
* *
38873941 CTTAGCCCGGAATTAGTATCTCGCACAATGCCTTCGGAT
1 CTTAGCCCGGAATTAGTAACTCGCACAATGCCTTCGG-G
* * * * *
38873980 CTTAGTCC-G-ATATGGTCACTTAGCACAAAGCCTTCGGG
1 CTTAGCCCGGAAT-TAGTAAC-TCGCACAATGCCTTCGGG
38874018 ACTTAGCCCGGA
1 -CTTAGCCCGGA
38874030 CATCATTCGA
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
37 2 0.03
38 17 0.24
39 51 0.72
40 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (38 bp):
CTTAGCCCGGAATTAGTAACTCGCACAATGCCTTCGGG
Found at i:38874374 original size:29 final size:29
Alignment explanation
Indices: 38874335--38874413 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
38874325 CTTAATAATC
*
38874335 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
38874365 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
38874394 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38874414 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:38874456 original size:43 final size:43
Alignment explanation
Indices: 38874395--38874531 Score: 211
Period size: 43 Copynumber: 3.4 Consensus size: 43
38874385 TGCATTTCAA
38874395 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38874438 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACAC---TT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38874478 ------ACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38874515 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
38874532 TGAAAACCAA
Statistics
Matches: 85, Mismatches: 0, Indels: 18
0.83 0.00 0.17
Matches are distributed among these distances:
34 32 0.38
37 2 0.02
40 2 0.02
43 49 0.58
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:38874487 original size:34 final size:34
Alignment explanation
Indices: 38874444--38874512 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
38874434 TATTGCCCGC
38874444 ACACTTAGTGCCAATCTCACAACCGTGAACACTT
1 ACACTTAGTGCCAATCTCACAACCGTGAACACTT
38874478 ACACTTAGTGCCAATCTCACAACCGTGAACACTT
1 ACACTTAGTGCCAATCTCACAACCGTGAACACTT
38874512 A
1 A
38874513 TTGCCCGCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.32, G:0.12, T:0.23
Consensus pattern (34 bp):
ACACTTAGTGCCAATCTCACAACCGTGAACACTT
Found at i:38876451 original size:36 final size:36
Alignment explanation
Indices: 38876379--38876455 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 36
38876369 TTATTACGAA
* *
38876379 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATC-G
*
38876416 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
38876451 GTCTT
1 GTCTT
38876456 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 6 0.16
36 13 0.35
37 18 0.49
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (36 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
Found at i:38876935 original size:49 final size:47
Alignment explanation
Indices: 38876574--38877100 Score: 907
Period size: 47 Copynumber: 11.1 Consensus size: 47
38876564 CCCTTCGGGA
* * * * * *
38876574 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38876621 CCTGTCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38876669 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38876716 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38876763 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38876810 C-T-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38876855 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38876902 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38876951 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38876998 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38877047 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38877094 CTTATCA
1 CTTATCA
38877101 TCATTTCATA
Statistics
Matches: 461, Mismatches: 10, Indels: 18
0.94 0.02 0.04
Matches are distributed among these distances:
45 44 0.10
46 12 0.03
47 273 0.59
48 29 0.06
49 103 0.22
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38876980 original size:96 final size:96
Alignment explanation
Indices: 38876574--38877100 Score: 933
Period size: 96 Copynumber: 5.6 Consensus size: 96
38876564 CCCTTCGGGA
* * * * * * * *
38876574 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
38876639 AC-TTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38876669 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
38876732 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38876763 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-T-TCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
38876824 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38876855 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
38876920 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38876951 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
38877016 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38877047 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
38877101 TCATTTCATA
Statistics
Matches: 419, Mismatches: 8, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
92 91 0.22
93 12 0.03
94 80 0.19
95 47 0.11
96 189 0.45
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38883491 original size:51 final size:51
Alignment explanation
Indices: 38883431--38883532 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
38883421 TTTTGTGGTG
38883431 AATGTTGGTTAAACACTCTTCTACACCCTA-GAGTTTTATTTTATGATTCCT
1 AATGTTGGTTAAACACTCTTCTACACCCTAGGA-TTTTATTTTATGATTCCT
* * **
38883482 AATGTTGGTTAAACACTGTTCTGCATGCTAGGATTTTATTTTATGATTCCT
1 AATGTTGGTTAAACACTCTTCTACACCCTAGGATTTTATTTTATGATTCCT
38883533 TTCTTTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 44 0.96
52 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (51 bp):
AATGTTGGTTAAACACTCTTCTACACCCTAGGATTTTATTTTATGATTCCT
Found at i:38891287 original size:50 final size:52
Alignment explanation
Indices: 38891157--38891397 Score: 217
Period size: 50 Copynumber: 4.7 Consensus size: 52
38891147 ATTTGGGTAA
*
38891157 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAT-C--GAGATCA-G
* *
38891213 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCATCGAGA-C-G
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATCAG
* * *
38891263 AGAGCTCCCATCTGAGACCATGTCTGGGACATGGCGTTGGCATCGAGAT--G
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATCAG
* * ** * * * * *
38891313 TGAGGTCCCCCGTAAGACCATGTTTAGGACATGGCATGGGCATCGATAT--G
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATCAG
* * * *
38891363 AGA-ACTCCCATGTAATACCATATCTGCGAGATGGC
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGC
38891398 ATCGGCAGTA
Statistics
Matches: 155, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
50 109 0.70
52 1 0.01
53 4 0.03
55 1 0.01
56 40 0.26
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.23
Consensus pattern (52 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATCAG
Found at i:38891357 original size:100 final size:103
Alignment explanation
Indices: 38891157--38891404 Score: 259
Period size: 100 Copynumber: 2.4 Consensus size: 103
38891147 ATTTGGGTAA
* *
38891157 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGCTCCCATCTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCC
* * ** *
38891222 ATGTAAGACCATGTCTGGGACATGGTGTTGGCATCGAGACG
63 ACGTAAGACCATGTCTAGGACATGGCATGGGCATCGAGACG
* * * *
38891263 AGAGCTCCCATCTGAGACCATGTCTGGGACATGGCGTTGGCAT-C-GAG-ATGTGAGGTCCCCCG
1 AGAGCTCCCATCTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACG
* * *
38891325 TAAGACCATGTTTAGGACATGGCATGGGCATCGATATG
66 TAAGACCATGTCTAGGACATGGCATGGGCATCGAGACG
* * * * * * *
38891363 AGAACTCCCATGTAATACCATATCTGCGAGATGGCATCGGCA
1 AGAGCTCCCATCTAAGACCATGTCTGGGACATGGCATTGGCA
38891405 GTACATGAAA
Statistics
Matches: 119, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
100 76 0.64
103 3 0.03
105 1 0.01
106 39 0.33
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (103 bp):
AGAGCTCCCATCTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACG
TAAGACCATGTCTAGGACATGGCATGGGCATCGAGACG
Found at i:38898794 original size:50 final size:50
Alignment explanation
Indices: 38898673--38898970 Score: 285
Period size: 50 Copynumber: 5.9 Consensus size: 50
38898663 ATTTGGGTAA
* * *
38898673 AGAGATCCCATGTAAGACCATGTCTTGGACATGACATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT-C--GAG---ATG
* * ** *
38898729 AGAGGTGCCAGGTAAGACCATGTCTGGGACATGGTGTTGGCATCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
* * * *
38898779 AGAGGTCCCATGTAAGACCATGCCTGGGACATGGCGTTGGCACCGGGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
** * * *
38898829 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
** * *
38898879 AGAACTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG-AGATG
* ** * *
38898928 AAACATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
38898971 GTTATTATAA
Statistics
Matches: 205, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.00
49 42 0.20
50 122 0.60
53 3 0.01
55 1 0.00
56 36 0.18
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
Found at i:38902996 original size:26 final size:27
Alignment explanation
Indices: 38902967--38903017 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
38902957 TATTGTAATG
*
38902967 CCCCTAAAGGGTAAATGACT-ATTTTA
1 CCCCTAAAGGGTAAATAACTGATTTTA
**
38902993 CCCCTCGAGGGTAAATAACTGATTT
1 CCCCTAAAGGGTAAATAACTGATTT
38903018 GTGCTATGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (27 bp):
CCCCTAAAGGGTAAATAACTGATTTTA
Found at i:38911988 original size:27 final size:27
Alignment explanation
Indices: 38911950--38912048 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
38911940 TTCGTGGGCT
*
38911950 AATGATCGAAATACCCTCGAAGGGTAA
1 AATGACCGAAATACCCTCGAAGGGTAA
*
38911977 AATGACCGAAATACCCCCGAAGGGTAA
1 AATGACCGAAATACCCTCGAAGGGTAA
* *
38912004 AATGACCGAAATACCC-CCACAGGATAA
1 AATGACCGAAATACCCTCGA-AGGGTAA
*
38912031 AATGACTGAAATACCCTC
1 AATGACCGAAATACCCTC
38912049 AAATGATAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 2 0.03
27 62 0.95
28 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.15
Consensus pattern (27 bp):
AATGACCGAAATACCCTCGAAGGGTAA
Found at i:38912056 original size:27 final size:27
Alignment explanation
Indices: 38911950--38912064 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 27
38911940 TTCGTGGGCT
* * * *
38911950 AATGATCGAAATACCCTCGAAGGGTAA
1 AATGACCGAAATACCCCCAAAGGATAA
* *
38911977 AATGACCGAAATACCCCCGAAGGGTAA
1 AATGACCGAAATACCCCCAAAGGATAA
*
38912004 AATGACCGAAATACCCCCACAGGATAA
1 AATGACCGAAATACCCCCAAAGGATAA
* * *
38912031 AATGACTGAAATACCCTCAAATGATAA
1 AATGACCGAAATACCCCCAAAGGATAA
*
38912058 TATGACC
1 AATGACC
38912065 ATTACACCCC
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (27 bp):
AATGACCGAAATACCCCCAAAGGATAA
Found at i:38912433 original size:28 final size:28
Alignment explanation
Indices: 38912402--38912583 Score: 222
Period size: 28 Copynumber: 6.5 Consensus size: 28
38912392 TTCTTTTTTA
*
38912402 GGCTAAGGCCCACACTGTTACTGTAATG
1 GGCTAAGGCCCACATTGTTACTGTAATG
* * * *
38912430 GGCTAAGGCCCACACTATTTCTGTATTG
1 GGCTAAGGCCCACATTGTTACTGTAATG
* **
38912458 GGCTAAGGCCCACATTGTTTCTGTTTTG
1 GGCTAAGGCCCACATTGTTACTGTAATG
*
38912486 GGCTAAGGCCCACATTGTTACTATAATG
1 GGCTAAGGCCCACATTGTTACTGTAATG
* * * *
38912514 GGATAAGGCCCATATTGTTTCTGTATTG
1 GGCTAAGGCCCACATTGTTACTGTAATG
*
38912542 GGCTAAGGCCCACATTGTTACCGT-ATCG
1 GGCTAAGGCCCACATTGTTACTGTAAT-G
38912570 GGCTAAGGCCCACA
1 GGCTAAGGCCCACA
38912584 CTGTACTATT
Statistics
Matches: 133, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 1 0.01
28 132 0.99
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.30
Consensus pattern (28 bp):
GGCTAAGGCCCACATTGTTACTGTAATG
Found at i:38912462 original size:56 final size:56
Alignment explanation
Indices: 38912384--38912587 Score: 237
Period size: 56 Copynumber: 3.6 Consensus size: 56
38912374 GTTACATTAT
* * * * * *
38912384 CACACTGTTTCTTTTTTAGGCTAAGGCCCACACTGTTACTGTAATGGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCCCACACTGTTTCTGTATTGGGCTAAGGCC
* * * *
38912440 CACACTATTTCTGTATTGGGCTAAGGCCCACATTGTTTCTGTTTTGGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCCCACACTGTTTCTGTATTGGGCTAAGGCC
* * * * * *
38912496 CACATTGTTACTATAATGGGATAAGGCCCATATTGTTTCTGTATTGGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCCCACACTGTTTCTGTATTGGGCTAAGGCC
* * *
38912552 CACATTGTTACCGTATCGGGCTAAGGCCCACACTGT
1 CACACTGTTACTGTATTGGGCTAAGGCCCACACTGT
38912588 ACTATTACCG
Statistics
Matches: 125, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 125 1.00
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.32
Consensus pattern (56 bp):
CACACTGTTACTGTATTGGGCTAAGGCCCACACTGTTTCTGTATTGGGCTAAGGCC
Found at i:38912497 original size:84 final size:84
Alignment explanation
Indices: 38912384--38912592 Score: 294
Period size: 84 Copynumber: 2.5 Consensus size: 84
38912374 GTTACATTAT
* * * * *
38912384 CACACTGTTTCTTTTTTAGGCTAAGGCCCACACTGTTACTGTAATGGGCTAAGGCCCACACTATT
1 CACATTGTTTCTGTTTTGGGCTAAGGCCCACACTGTTACTATAATGGGATAAGGCCCACACTATT
38912449 TCTGTATTGGGCTAAGGCC
66 TCTGTATTGGGCTAAGGCC
* * * *
38912468 CACATTGTTTCTGTTTTGGGCTAAGGCCCACATTGTTACTATAATGGGATAAGGCCCATATTGTT
1 CACATTGTTTCTGTTTTGGGCTAAGGCCCACACTGTTACTATAATGGGATAAGGCCCACACTATT
38912533 TCTGTATTGGGCTAAGGCC
66 TCTGTATTGGGCTAAGGCC
* * * *
38912552 CACATTGTTACCGTATCGGGCTAAGGCCCACACTG-TACTAT
1 CACATTGTTTCTGTTTTGGGCTAAGGCCCACACTGTTACTAT
38912593 TACCGCGTTG
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
83 6 0.05
84 105 0.95
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (84 bp):
CACATTGTTTCTGTTTTGGGCTAAGGCCCACACTGTTACTATAATGGGATAAGGCCCACACTATT
TCTGTATTGGGCTAAGGCC
Found at i:38914479 original size:26 final size:26
Alignment explanation
Indices: 38914450--38914500 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
38914440 AACACACCAA
* *
38914450 TAACGCAGCCAAGCTGCCAATAACAG
1 TAACACAGCAAAGCTGCCAATAACAG
*
38914476 TAACACAGCAAAGCTGCCAGTAACA
1 TAACACAGCAAAGCTGCCAATAACA
38914501 TTATATGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.41, C:0.29, G:0.18, T:0.12
Consensus pattern (26 bp):
TAACACAGCAAAGCTGCCAATAACAG
Found at i:38914709 original size:27 final size:26
Alignment explanation
Indices: 38914679--38914786 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
38914669 GGGGTATAAT
*
38914679 AGTCATTTTACCTTATGGAGATATTTC
1 AGTCATTTTACCTT-TGGAGGTATTTC
* *
38914706 AGTCATTTTACCCTTTGGGGGTAATTC
1 AGTCATTTTA-CCTTTGGAGGTATTTC
* *
38914733 AATTATTTTACCTTTCGGAGGTATTTC
1 AGTCATTTTACCTTT-GGAGGTATTTC
* * *
38914760 GGTAATTTTACCCTTTGAAGGTATTTC
1 AGTCATTTTA-CCTTTGGAGGTATTTC
38914787 GGTAATTTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.07
27 53 0.79
28 9 0.13
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (26 bp):
AGTCATTTTACCTTTGGAGGTATTTC
Found at i:38918421 original size:19 final size:19
Alignment explanation
Indices: 38918397--38918438 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
38918387 AGGATTAGAA
38918397 AATATTTATCA-ATCATAAT
1 AATATTTATCACATCAT-AT
*
38918416 AATATTTGTCACATCATAT
1 AATATTTATCACATCATAT
38918435 AATA
1 AATA
38918439 AAAATCAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (19 bp):
AATATTTATCACATCATAT
Found at i:38919104 original size:22 final size:22
Alignment explanation
Indices: 38919078--38919140 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
38919068 TGGTACGGTT
*
38919078 TTGATGTGGTGGTGGTTTGATGG
1 TTGATG-GGTGGTGATTTGATGG
*
38919101 -TGATAGGGTGGTGATTTGGTGG
1 TTGAT-GGGTGGTGATTTGATGG
*
38919123 TTGTTGGGTGGTGATTTG
1 TTGATGGGTGGTGATTTG
38919141 GTTTGCGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 31 0.89
23 4 0.11
ACGTcount: A:0.10, C:0.00, G:0.48, T:0.43
Consensus pattern (22 bp):
TTGATGGGTGGTGATTTGATGG
Found at i:38923228 original size:26 final size:26
Alignment explanation
Indices: 38923191--38923261 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
38923181 CGTTTCGACC
* *
38923191 CACAACTCGTGTGAGCATGCCCATTT
1 CACAGCTCGTGTGAGCATACCCATTT
* * * *
38923217 CACAGCTTGTGTAAGAATACTCATTT
1 CACAGCTCGTGTGAGCATACCCATTT
*
38923243 CATAGCTCGTGTGAGCATA
1 CACAGCTCGTGTGAGCATA
38923262 TATGTACCAA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCATACCCATTT
Found at i:38924012 original size:54 final size:52
Alignment explanation
Indices: 38923949--38924108 Score: 130
Period size: 52 Copynumber: 3.0 Consensus size: 52
38923939 TAATATTATG
38923949 CTTATGGTTTATACTAGCTTACTAAGAATTTATTGTTTATGTGGTTATCTTT
1 CTTATGGTTTATACTAGCTTACTAAGAATTTATTGTTTATGTGGTTATCTTT
* * * * * ** * *
38924001 CTATATAGGTTTATATTTAACCTA-T-A-AATTTCATTATTGAAAT-GTAATATTAT
1 CT-TAT-GGTTTATA-CTAGCTTACTAAGAATTT-ATTGTTTATGTGGTTATCTT-T
* * *
38924054 GCTTATGGTTTATACGAGCTTACTAAGCATTTATTGCTTATGTGGTTATCTTT
1 -CTTATGGTTTATACTAGCTTACTAAGAATTTATTGTTTATGTGGTTATCTTT
38924107 CT
1 CT
38924109 CTTACTTTAC
Statistics
Matches: 77, Mismatches: 21, Indels: 20
0.65 0.18 0.17
Matches are distributed among these distances:
51 4 0.05
52 24 0.31
53 23 0.30
54 21 0.27
55 5 0.06
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (52 bp):
CTTATGGTTTATACTAGCTTACTAAGAATTTATTGTTTATGTGGTTATCTTT
Found at i:38924064 original size:52 final size:51
Alignment explanation
Indices: 38923902--38924067 Score: 149
Period size: 52 Copynumber: 3.2 Consensus size: 51
38923892 CATTGGTGTA
*
38923902 GGTTTATATTTAACCTTTAAATTTAATTATTGAAATGTAATATTATGCTTAT
1 GGTTTATATTTAACCTATAAATTT-ATTATTGAAATGTAATATTATGCTTAT
* * * * * ** * *
38923954 GGTTTATA-CTAGCTTACTAAGAATTTATTGTTTATGTGGTTATCTT-T-CTATAT
1 GGTTTATATTTAACCTA-T-A-AATTTATTATTGAAAT-GTAATATTATGCT-TAT
38924007 AGGTTTATATTTAACCTATAAATTTCATTATTGAAATGTAATATTATGCTTAT
1 -GGTTTATATTTAACCTATAAATTT-ATTATTGAAATGTAATATTATGCTTAT
38924060 GGTTTATA
1 GGTTTATA
38924068 CGAGCTTACT
Statistics
Matches: 85, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
51 4 0.05
52 30 0.35
53 24 0.28
54 22 0.26
55 5 0.06
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.49
Consensus pattern (51 bp):
GGTTTATATTTAACCTATAAATTTATTATTGAAATGTAATATTATGCTTAT
Found at i:38924086 original size:106 final size:106
Alignment explanation
Indices: 38923900--38924108 Score: 373
Period size: 106 Copynumber: 2.0 Consensus size: 106
38923890 GGCATTGGTG
* *
38923900 TAGGTTTATATTTAACCTTTAAATTTAATTATTGAAATGTAATATTATGCTTATGGTTTATACTA
1 TAGGTTTATATTTAACCTATAAATTTAATTATTGAAATGTAATATTATGCTTATGGTTTATACGA
*
38923965 GCTTACTAAGAATTTATTGTTTATGTGGTTATCTTTCTATA
66 GCTTACTAAGAATTTATTGCTTATGTGGTTATCTTTCTATA
*
38924006 TAGGTTTATATTTAACCTATAAATTTCATTATTGAAATGTAATATTATGCTTATGGTTTATACGA
1 TAGGTTTATATTTAACCTATAAATTTAATTATTGAAATGTAATATTATGCTTATGGTTTATACGA
*
38924071 GCTTACTAAGCATTTATTGCTTATGTGGTTATCTTTCT
66 GCTTACTAAGAATTTATTGCTTATGTGGTTATCTTTCT
38924109 CTTACTTTAC
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 98 1.00
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (106 bp):
TAGGTTTATATTTAACCTATAAATTTAATTATTGAAATGTAATATTATGCTTATGGTTTATACGA
GCTTACTAAGAATTTATTGCTTATGTGGTTATCTTTCTATA
Found at i:38933394 original size:34 final size:34
Alignment explanation
Indices: 38933347--38933414 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
38933337 GCACAGTTGA
* *
38933347 ACAGTCTTAGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTAGGCCTAAGCCCATCTCAGTA-CAGTG
* *
38933382 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTAGGCCTAAGCCCATCTCAGTACAGTG
38933415 TAAAAAATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (34 bp):
ACAGTCTTAGGCCTAAGCCCATCTCAGTACAGTG
Found at i:38935725 original size:20 final size:20
Alignment explanation
Indices: 38935679--38935725 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
38935669 AGCTCGTTTC
*
38935679 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
38935699 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
38935719 CAGCTCA
1 CAGCTCA
38935726 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:38938017 original size:32 final size:31
Alignment explanation
Indices: 38937976--38938036 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
38937966 TATCCTTGGT
38937976 TAAACAAGTATCTTATTTAATAAAATTTTTGA
1 TAAACAAGTATCTT-TTTAATAAAATTTTTGA
* *
38938008 TAAACAAGTATCTTTTTGATAAACTTTTT
1 TAAACAAGTATCTTTTTAATAAAATTTTT
38938037 CATACACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (31 bp):
TAAACAAGTATCTTTTTAATAAAATTTTTGA
Found at i:38941021 original size:26 final size:26
Alignment explanation
Indices: 38940989--38941039 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
38940979 TCTAGCAGAA
38940989 TAATTAACATATATAAGACCAATAAG
1 TAATTAACATATATAAGACCAATAAG
*
38941015 TAATTAACATATATAAGACTAATAA
1 TAATTAACATATATAAGACCAATAA
38941040 CAAAAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (26 bp):
TAATTAACATATATAAGACCAATAAG
Found at i:38941342 original size:23 final size:24
Alignment explanation
Indices: 38941312--38941359 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
38941302 CTAACAAATT
*
38941312 AATAGATGG-TTTTTAATGATTTC
1 AATAGATGGCCTTTTAATGATTTC
38941335 AATAGATGGCCTTTTAATGATTTC
1 AATAGATGGCCTTTTAATGATTTC
38941359 A
1 A
38941360 GTACCCGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (24 bp):
AATAGATGGCCTTTTAATGATTTC
Found at i:38951140 original size:28 final size:29
Alignment explanation
Indices: 38951083--38951140 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 29
38951073 TTTAAATAAA
* *
38951083 TATGGACTTTTATTTATGATTTGGATTTT
1 TATGGACTTTTATTGATGATTTGGAATTT
*
38951112 TATGGAC-TTTATTGCT-ATTTGGGAATTT
1 TATGGACTTTTATTGATGATTT-GGAATTT
38951140 T
1 T
38951141 TATGTTAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.16
28 14 0.56
29 7 0.28
ACGTcount: A:0.21, C:0.05, G:0.19, T:0.55
Consensus pattern (29 bp):
TATGGACTTTTATTGATGATTTGGAATTT
Found at i:38958431 original size:34 final size:34
Alignment explanation
Indices: 38958388--38958513 Score: 236
Period size: 34 Copynumber: 3.7 Consensus size: 34
38958378 AACACTTAAC
38958388 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
1 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
38958422 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
1 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
*
38958456 TTATTCCAGCAATTAAACAAACTAAGATAAACAT
1 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
38958490 TTATTCCAGCAATTAAAT-AACTAA
1 TTATTCCAGCAATTAAATAAACTAA
38958514 AATGAGTTAA
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
33 6 0.07
34 84 0.93
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (34 bp):
TTATTCCAGCAATTAAATAAACTAAGATAAACAT
Found at i:38962712 original size:34 final size:34
Alignment explanation
Indices: 38962669--38962760 Score: 177
Period size: 34 Copynumber: 2.7 Consensus size: 34
38962659 AACACTTAAC
38962669 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
1 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
38962703 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
1 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
38962737 TTATTCCAGCAATTAAAT-AACTAA
1 TTATTCCAGCAATTAAATAAACTAA
38962761 AATGAGTTAA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 6 0.10
34 52 0.90
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.30
Consensus pattern (34 bp):
TTATTCCAGCAATTAAATAAACTAAGATAAACAT
Found at i:38968662 original size:85 final size:85
Alignment explanation
Indices: 38968517--38968694 Score: 329
Period size: 85 Copynumber: 2.1 Consensus size: 85
38968507 GCCGGCCATG
*
38968517 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
1 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTATG
38968582 TAAGGATTAATAAAATAAAA
66 TAAGGATTAATAAAATAAAA
38968602 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTATG
1 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTATG
*
38968667 TAAGGATTAATAAAATAAAG
66 TAAGGATTAATAAAATAAAA
*
38968687 GGCATGGG
1 AGCATGGG
38968695 CAATAAAATA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 90 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (85 bp):
AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTATG
TAAGGATTAATAAAATAAAA
Found at i:38970016 original size:47 final size:47
Alignment explanation
Indices: 38969957--38970455 Score: 679
Period size: 47 Copynumber: 10.6 Consensus size: 47
38969947 TATTTGAATA
* **
38969957 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
38970004 AATGCGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
38970053 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
38970100 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38970149 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38970196 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38970243 AATGTGAACA-TGTGTATGTGT-ATAAGGCCGAATGGCCAATGT-ATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38970288 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38970335 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
38970382 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
38970429 GATGTGGAAGCGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
38970456 TCCCGAAGGG
Statistics
Matches: 419, Mismatches: 25, Indels: 16
0.91 0.05 0.03
Matches are distributed among these distances:
45 24 0.06
46 43 0.10
47 262 0.63
49 89 0.21
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:38970065 original size:96 final size:94
Alignment explanation
Indices: 38969957--38970455 Score: 681
Period size: 96 Copynumber: 5.3 Consensus size: 94
38969947 TATTTGAATA
* ** *
38969957 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGCGAAAGTGTATAT
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TAT
* *
38970021 ATATGTGATAAGGCCTAATGGCCGATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
*
38970053 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TAT
38970117 ATATGTGATAAGGCCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
38970149 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATAT
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATAT
*
38970213 ATGAGATAAGGCCGAATGGCCAATGTGATG
65 ATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
38970243 AATGTGAACATGTGTATGTGT-ATAAGGCCGAATGGCCAATGT-ATGAATGTGAACA-TGTGTAT
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATAT
*
38970305 GTGTGATAAGGCCGAATGGCCAATGTGATG
65 ATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38970335 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
38970400 TGTGATAAGGCCGAATGGCCAATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
* *
38970429 GATGTGGAAGC--GTATAAATGTGATAAG
1 AATGT-GAA-CATGTATATATGTGATAAG
38970456 TCCCGAAGGG
Statistics
Matches: 372, Mismatches: 24, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
92 63 0.17
93 43 0.12
94 117 0.31
95 3 0.01
96 144 0.39
97 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (94 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:38970333 original size:22 final size:22
Alignment explanation
Indices: 38970306--38970427 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
38970296 CATGTGTATG
38970306 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
38970328 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
38970353 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
38970375 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
38970400 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
38970422 TGTGAT
1 TGTGAT
38970428 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:38970334 original size:139 final size:141
Alignment explanation
Indices: 38969957--38970434 Score: 732
Period size: 139 Copynumber: 3.4 Consensus size: 141
38969947 TATTTGAATA
* ** * *
38969957 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGCGAA-AGTGTATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGT
* * * * * *
38970021 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTA
63 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCGA
38970085 ATGGCCAATGTGATG
127 ATGGCCAATGTGATG
38970100 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
38970165 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAT
64 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAT
38970230 GGCCAATGTGATG
129 GGCCAATGTGATG
* *
38970243 AATGTGAACA-TGTGTATGTGT-ATAAGGCCGAATGGCCAATGT-ATGAATGTGAACATGTGTAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTAT
38970305 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATG
65 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATG
38970370 GCCAATGTGATG
130 GCCAATGTGATG
*
38970382 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
38970435 GAAGCGTATA
Statistics
Matches: 311, Mismatches: 16, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
138 1 0.00
139 114 0.37
140 42 0.14
141 15 0.05
143 95 0.31
144 2 0.01
145 41 0.13
146 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGG
CCAATGTGATG
Found at i:38970344 original size:186 final size:189
Alignment explanation
Indices: 38969957--38970455 Score: 697
Period size: 186 Copynumber: 2.6 Consensus size: 189
38969947 TATTTGAATA
* ** *
38969957 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGCGAAAGTGTATAT
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TAT
* * *
38970021 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
63 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
38970086 TGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
128 TGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
38970149 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATAT
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATAT
* * *
38970213 ATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATGTGT-ATAAGGCCGAAT
65 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAAT
* *
38970276 GGCCAATGT-ATGAATGTGAACA-TG-TGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
129 GGCCAATGTGATGAATGTGAA-AGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
38970335 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* * * *
38970400 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGCGTATAAATGTGATAAG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38970456 TCCCGAAGGG
Statistics
Matches: 273, Mismatches: 27, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
185 2 0.01
186 132 0.48
187 5 0.02
188 13 0.05
189 21 0.08
190 48 0.18
191 1 0.00
192 49 0.18
193 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (189 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
CCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:38972528 original size:16 final size:16
Alignment explanation
Indices: 38972498--38972528 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38972488 GAGCATTGAA
*
38972498 AAAGAAAATGAAAAAG
1 AAAGAAAATAAAAAAG
38972514 AAAGAAAATAAAAAA
1 AAAGAAAATAAAAAA
38972529 CTAAAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (16 bp):
AAAGAAAATAAAAAAG
Found at i:38987827 original size:23 final size:23
Alignment explanation
Indices: 38987797--38987845 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
38987787 ATAATATGAG
38987797 TAAGAATATATTATTTGGATTTA
1 TAAGAATATATTATTTGGATTTA
38987820 TAAGAATATATTATTTGGATTTA
1 TAAGAATATATTATTTGGATTTA
38987843 TAA
1 TAA
38987846 TGTGGCCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (23 bp):
TAAGAATATATTATTTGGATTTA
Found at i:38990107 original size:25 final size:27
Alignment explanation
Indices: 38990073--38990127 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
38990063 AAAACTCTTC
* * *
38990073 TAAAAGAAAAC-TCAAGAGAA-ATTCT
1 TAAAAAAAAACTTAAAGAGAATATTAT
38990098 TAAAAAAAAACTTAAAGAGAATATTAT
1 TAAAAAAAAACTTAAAGAGAATATTAT
38990125 TAA
1 TAA
38990128 CTCAAACCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.40
26 8 0.32
27 7 0.28
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.24
Consensus pattern (27 bp):
TAAAAAAAAACTTAAAGAGAATATTAT
Found at i:38991291 original size:34 final size:34
Alignment explanation
Indices: 38991217--38991426 Score: 222
Period size: 34 Copynumber: 6.1 Consensus size: 34
38991207 GCCACGACGA
* * * * **
38991217 CAATACCTCATTCACTTAATAGCCTGCCATAACAC
1 CAATA-CTCATTCATTTAACATCCTGCCACAATGC
* * * * *
38991252 TAATACTCATCCATTTGATATCTTGCCACAATGC
1 CAATACTCATTCATTTAACATCCTGCCACAATGC
* **
38991286 CAATACTCATTCATTTAACATCCCGTGACAATGC
1 CAATACTCATTCATTTAACATCCTGCCACAATGC
* *
38991320 CAATACTCATTCATTTAACATCCTACCACAAAGC
1 CAATACTCATTCATTTAACATCCTGCCACAATGC
* * ** *
38991354 CAATACTCATTCATATAATATCCCACCGCAATGC
1 CAATACTCATTCATTTAACATCCTGCCACAATGC
38991388 CAATACTCATTCATTTAACATCCTGCCACAATGC
1 CAATACTCATTCATTTAACATCCTGCCACAATGC
38991422 CAATA
1 CAATA
38991427 TTTCATAACA
Statistics
Matches: 143, Mismatches: 32, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
34 139 0.97
35 4 0.03
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.29
Consensus pattern (34 bp):
CAATACTCATTCATTTAACATCCTGCCACAATGC
Found at i:38991689 original size:15 final size:15
Alignment explanation
Indices: 38991671--38991700 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38991661 AATAATTATT
38991671 AAAAATC-ATATTAA
1 AAAAATCAATATTAA
38991685 AAAAATCAATATTAA
1 AAAAATCAATATTAA
38991700 A
1 A
38991701 GATTAAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATCAATATTAA
Found at i:39002462 original size:9 final size:9
Alignment explanation
Indices: 39002448--39002472 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
39002438 AAACCATTTC
39002448 CATGTAATT
1 CATGTAATT
39002457 CATGTAATT
1 CATGTAATT
39002466 CATGTAA
1 CATGTAA
39002473 ATACCTGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (9 bp):
CATGTAATT
Found at i:39002619 original size:25 final size:25
Alignment explanation
Indices: 39002588--39002655 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
39002578 GTTGTAAACA
*
39002588 GTAAGCTCCTCCGAGCTGAATAATG
1 GTAAGCTCCTCCGAGCTGAATAACG
*
39002613 GTAAGCTCCTCCGAGTTGAATAACG
1 GTAAGCTCCTCCGAGCTGAATAACG
* *
39002638 GTAAGCTCATACGAGCTG
1 GTAAGCTCCTCCGAGCTG
39002656 TAATCGGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (25 bp):
GTAAGCTCCTCCGAGCTGAATAACG
Found at i:39006923 original size:34 final size:34
Alignment explanation
Indices: 39006879--39006954 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
39006869 GAGTTATTTT
*
39006879 ATTAACTTTAGTTCAGCTCAAATAAGTGTTACTA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTACTA
* *
39006913 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTACTA
39006947 ATTAATTT
1 ATTAATTT
39006955 GTTTAAATCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (34 bp):
ATTAATTTTAGTTCAGCTCAAATAAGTGTTACTA
Found at i:39009472 original size:10 final size:10
Alignment explanation
Indices: 39009459--39009507 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
39009449 AGCTCAAATA
39009459 AGCTCATTTG
1 AGCTCATTTG
*
39009469 AGCTCATTTT
1 AGCTCATTTG
*
39009479 AGCTCGTTTG
1 AGCTCATTTG
39009489 AGCTCAATTT-
1 AGCTC-ATTTG
*
39009499 AGCTTATTT
1 AGCTCATTT
39009508 TCAGCTCGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
9 4 0.12
10 26 0.79
11 3 0.09
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:39009499 original size:20 final size:20
Alignment explanation
Indices: 39009447--39009507 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
39009437 TGAACTACAC
* *
39009447 TGAGCTCAAATAAGCTCATT
1 TGAGCTCAATTTAGCTCATT
* *
39009467 TGAGCTCATTTTAGCTCGTT
1 TGAGCTCAATTTAGCTCATT
*
39009487 TGAGCTCAATTTAGCTTATT
1 TGAGCTCAATTTAGCTCATT
39009507 T
1 T
39009508 TCAGCTCGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (20 bp):
TGAGCTCAATTTAGCTCATT
Found at i:39009595 original size:20 final size:20
Alignment explanation
Indices: 39009570--39009617 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
39009560 TCAATTTCAT
39009570 ATAGCTCATGA-CTGAATTTC
1 ATAGCTCATGATC-GAATTTC
39009590 ATAGCTCATGATCGAATTTC
1 ATAGCTCATGATCGAATTTC
*
39009610 CTAGCTCA
1 ATAGCTCA
39009618 AATTAGTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (20 bp):
ATAGCTCATGATCGAATTTC
Found at i:39009737 original size:20 final size:22
Alignment explanation
Indices: 39009694--39009738 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
39009684 TTTAAGTGTT
*
39009694 TTTAATTTGTCCTAACATATTA
1 TTTAATTTGTCCTAACATACTA
*
39009716 TTTAATTTGT-CT-ACATGCTA
1 TTTAATTTGTCCTAACATACTA
39009736 TTT
1 TTT
39009739 TGTTCAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 2 0.10
22 10 0.48
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (22 bp):
TTTAATTTGTCCTAACATACTA
Found at i:39010989 original size:6 final size:6
Alignment explanation
Indices: 39010980--39011033 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
39010970 AACGAAGAGG
** * *
39010980 AAGAAA AAGAAA AAGAAA GTGAAA AAGAAA TAGAAA ACGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
39011028 AAGAAA
1 AAGAAA
39011034 TTGCAAGCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.04
Consensus pattern (6 bp):
AAGAAA
Found at i:39011046 original size:24 final size:24
Alignment explanation
Indices: 39011000--39011051 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
39010990 AAAAGAAAGT
*
39011000 GAAAAAGAAATAGAAAACGAAAAA
1 GAAAAAGAAATAGAAAACAAAAAA
* * *
39011024 GAAAAAGAAATTGCAAGCAAAAAA
1 GAAAAAGAAATAGAAAACAAAAAA
39011048 GAAA
1 GAAA
39011052 TCGAATAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.71, C:0.06, G:0.17, T:0.06
Consensus pattern (24 bp):
GAAAAAGAAATAGAAAACAAAAAA
Found at i:39011133 original size:16 final size:18
Alignment explanation
Indices: 39011112--39011150 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
39011102 ATTGAGATTG
39011112 AGAAAAA-A-ATTGAAAA
1 AGAAAAAGATATTGAAAA
*
39011128 AGAAAAAGATGTTGAAAA
1 AGAAAAAGATATTGAAAA
39011146 AGAAA
1 AGAAA
39011151 CGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (18 bp):
AGAAAAAGATATTGAAAA
Found at i:39013007 original size:34 final size:34
Alignment explanation
Indices: 39012963--39013038 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
39012953 GAGTTAGTTT
*
39012963 ATTAACTTTAGTTCAGCTCAAATAAGTGTTAATA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAATA
* *
39012997 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAATA
39013031 ATTAATTT
1 ATTAATTT
39013039 GTTTAAATCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (34 bp):
ATTAATTTTAGTTCAGCTCAAATAAGTGTTAATA
Found at i:39018028 original size:15 final size:16
Alignment explanation
Indices: 39018008--39018049 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
39017998 TTCTCTTTCC
*
39018008 TTTTTTTTCGAA-TTA
1 TTTTTTTTCAAATTTA
39018023 -TTTTTTTCAAATTTA
1 TTTTTTTTCAAATTTA
39018038 TTTTTTTT-AAAT
1 TTTTTTTTCAAAT
39018050 CTTTTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 10 0.42
15 7 0.29
16 7 0.29
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTTTTTCAAATTTA
Found at i:39018056 original size:15 final size:15
Alignment explanation
Indices: 39018009--39018049 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
39017999 TCTCTTTCCT
*
39018009 TTTTTTTCGAA-TTA
1 TTTTTTTCAAATTTA
39018023 TTTTTTTCAAATTTA
1 TTTTTTTCAAATTTA
*
39018038 TTTTTTTTAAAT
1 TTTTTTTCAAAT
39018050 CTTTTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTTTTTCAAATTTA
Found at i:39018121 original size:12 final size:12
Alignment explanation
Indices: 39018106--39018138 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
39018096 ATTACACCTT
39018106 GAATTTTTTTTC
1 GAATTTTTTTTC
39018118 GAA-TTTTTTTC
1 GAATTTTTTTTC
39018129 -AATTTTTTTT
1 GAATTTTTTTT
39018139 ACAATGACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.10
11 15 0.75
12 3 0.15
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (12 bp):
GAATTTTTTTTC
Found at i:39027265 original size:22 final size:21
Alignment explanation
Indices: 39027240--39027283 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
39027230 TGATAAACTT
39027240 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
39027262 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
39027283 T
1 T
39027284 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:39031853 original size:21 final size:17
Alignment explanation
Indices: 39031814--39031846 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
39031804 AGTGGGAGAT
39031814 GATTTATAGTGAGTGAG
1 GATTTATAGTGAGTGAG
39031831 GATTTATAGTGAGTGA
1 GATTTATAGTGAGTGA
39031847 AAGAGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (17 bp):
GATTTATAGTGAGTGAG
Found at i:39038276 original size:24 final size:24
Alignment explanation
Indices: 39038240--39038288 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
39038230 ATTTTTATTA
*
39038240 AAATTTTTTATTTGCTGCTAAACC
1 AAATTTTTGATTTGCTGCTAAACC
39038264 AAATTTTTGATTTGCTGCTAAACC
1 AAATTTTTGATTTGCTGCTAAACC
39038288 A
1 A
39038289 TCTCATTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (24 bp):
AAATTTTTGATTTGCTGCTAAACC
Found at i:39038604 original size:16 final size:15
Alignment explanation
Indices: 39038583--39038632 Score: 59
Period size: 16 Copynumber: 3.4 Consensus size: 15
39038573 ACAATTTGGT
39038583 TTATTTATTTTTGTTC
1 TTATTTATTTTT-TTC
* *
39038599 TTATTTAATTTATT-
1 TTATTTATTTTTTTC
39038613 TT-TTTATTTTTTTC
1 TTATTTATTTTTTTC
39038627 TTATTT
1 TTATTT
39038633 TCTTCTCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 9 0.32
14 4 0.14
15 5 0.18
16 10 0.36
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (15 bp):
TTATTTATTTTTTTC
Found at i:39040558 original size:34 final size:30
Alignment explanation
Indices: 39040519--39040582 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 30
39040509 TCTCTGTTGG
*
39040519 CCGAATCTCCTTTCTCTTCTCCTCTTTTTTTTGA
1 CCGAATATCC-TTCTCTT-T-CT-TTTTTTTTGA
39040553 CCGAATATCCTTCTCTTTCTTTTTTTTTGA
1 CCGAATATCCTTCTCTTTCTTTTTTTTTGA
39040583 TTTCTACCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 10 0.34
31 2 0.07
32 1 0.03
33 7 0.24
34 9 0.31
ACGTcount: A:0.11, C:0.28, G:0.06, T:0.55
Consensus pattern (30 bp):
CCGAATATCCTTCTCTTTCTTTTTTTTTGA
Found at i:39041532 original size:27 final size:26
Alignment explanation
Indices: 39041501--39041644 Score: 155
Period size: 27 Copynumber: 5.4 Consensus size: 26
39041491 AATAAATAAC
*
39041501 CGAAATACCCTCATAGGTTAAAATGAT
1 CGAAATACCC-CATAGGGTAAAATGAT
* *
39041528 TGAAATAACCCCATAGGGTAAAATGAC
1 CGAAAT-ACCCCATAGGGTAAAATGAT
* *
39041555 CGACATACCCCATAGGGTAAAATGAG
1 CGAAATACCCCATAGGGTAAAATGAT
* *
39041581 AGAAATACCCCCATAAGGTAAAAT-ATT
1 CGAAATA-CCCCATAGGGTAAAATGA-T
* *
39041608 TGAAATACCACCATAGGGTAAAATAAT
1 CGAAATACC-CCATAGGGTAAAATGAT
39041635 CGAAATACCC
1 CGAAATACCC
39041645 GTAGGAGATG
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
26 28 0.28
27 66 0.67
28 5 0.05
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (26 bp):
CGAAATACCCCATAGGGTAAAATGAT
Found at i:39041586 original size:53 final size:52
Alignment explanation
Indices: 39041494--39041631 Score: 159
Period size: 53 Copynumber: 2.6 Consensus size: 52
39041484 AGAGGTCAAT
* ** *
39041494 AAATAACCGAAATACCCTCATAGGTTAAAATGATTGAAATAACCCCATAGGGTA
1 AAAT-ACCGAAATACCC-CATAGGGTAAAATGAGAGAAATAACCCCATAAGGTA
* *
39041548 AAATGACCGACATACCCCATAGGGTAAAATGAGAGAAATACCCCCATAAGGTA
1 AAAT-ACCGAAATACCCCATAGGGTAAAATGAGAGAAATAACCCCATAAGGTA
**
39041601 AAATATTTGAAATACCACCATAGGGTAAAAT
1 AAATA-CCGAAATACC-CCATAGGGTAAAAT
39041632 AATCGAAATA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
52 1 0.01
53 42 0.58
54 29 0.40
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.20
Consensus pattern (52 bp):
AAATACCGAAATACCCCATAGGGTAAAATGAGAGAAATAACCCCATAAGGTA
Found at i:39041840 original size:26 final size:26
Alignment explanation
Indices: 39041797--39041859 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
39041787 TGGAGGTAGT
* * *
39041797 ATACTATTACTGGTAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
*
39041823 ATACTGTTATTGGCAGCTTTACTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
39041849 ATACTGTTACT
1 ATACTGTTACT
39041860 TAAATATTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTACTGCG
Found at i:39041895 original size:26 final size:26
Alignment explanation
Indices: 39041797--39041899 Score: 73
Period size: 26 Copynumber: 4.0 Consensus size: 26
39041787 TGGAGGTAGT
* * *
39041797 ATACTATTACTGGTAGCTTTGCTGCG
1 ATACTATTACTGGCAACTTTGCTACG
* * * * *
39041823 ATACTGTTATTGGCAGCTTTACTGCG
1 ATACTATTACTGGCAACTTTGCTACG
* ** *
39041849 ATACTGTTACT-TAAATATTTGCTACG
1 ATACTATTACTGGCAA-CTTTGCTACG
*
39041875 ATACTATTACTGGCAATTTTGCTAC
1 ATACTATTACTGGCAACTTTGCTAC
39041900 AATATTAGTG
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
25 1 0.02
26 57 0.95
27 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.40
Consensus pattern (26 bp):
ATACTATTACTGGCAACTTTGCTACG
Found at i:39042056 original size:28 final size:27
Alignment explanation
Indices: 39042014--39042071 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
39042004 GTACTGATAT
*
39042014 TGTACTGGGCAAAGGCCCACATTGTTAC
1 TGTACTGGGCAAAGGCCCACACTG-TAC
* * *
39042042 TGTATTGGGCTAAGGCCTACACTGTAC
1 TGTACTGGGCAAAGGCCCACACTGTAC
39042069 TGT
1 TGT
39042072 TACTAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (27 bp):
TGTACTGGGCAAAGGCCCACACTGTAC
Found at i:39050525 original size:27 final size:27
Alignment explanation
Indices: 39050495--39050672 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39050485 ATATTGAGTC
* * * *
39050495 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
39050522 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39050549 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
39050577 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
39050604 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
39050631 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39050658 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39050673 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:39050634 original size:82 final size:81
Alignment explanation
Indices: 39050516--39050671 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39050506 TGCTATATAA
* *
39050516 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
39050581 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39050598 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
39050662 CACTTAGTGC
65 CACTTAGTGC
39050672 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39058783 original size:27 final size:27
Alignment explanation
Indices: 39058753--39058930 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39058743 ATATTGAGTC
* * * *
39058753 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
39058780 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39058807 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
39058835 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
39058862 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
39058889 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39058916 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39058931 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:39058892 original size:82 final size:81
Alignment explanation
Indices: 39058774--39058929 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39058764 TGCTATATAA
* *
39058774 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
39058839 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39058856 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
39058920 CACTTAGTGC
65 CACTTAGTGC
39058930 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39061415 original size:27 final size:27
Alignment explanation
Indices: 39061376--39061489 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 27
39061366 AGAGGTCAAT
* *
39061376 AAATGACCGAAATTCCCCTATAGGGTA
1 AAATGACCAAAATACCCCTATAGGGTA
39061403 AAATGACCAAAATACCCCTATAGGGTA
1 AAATGACCAAAATACCCCTATAGGGTA
* * **
39061430 AAATGACTAAAATACCCCCATAGAATA
1 AAATGACCAAAATACCCCTATAGGGTA
* *
39061457 AAATGACTAAAATACCCC-ATAAGGTA
1 AAATGACCAAAATACCCCTATAGGGTA
39061483 AAATGAC
1 AAATGAC
39061490 TATTATACCC
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 12 0.15
27 66 0.85
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.19
Consensus pattern (27 bp):
AAATGACCAAAATACCCCTATAGGGTA
Found at i:39061490 original size:26 final size:27
Alignment explanation
Indices: 39061376--39061502 Score: 141
Period size: 27 Copynumber: 4.7 Consensus size: 27
39061366 AGAGGTCAAT
** * *
39061376 AAATGACCGAAATTCCCCTATAGGGTA
1 AAATGACTAAAATACCCCTATAAGGTA
* *
39061403 AAATGACCAAAATACCCCTATAGGGTA
1 AAATGACTAAAATACCCCTATAAGGTA
* *
39061430 AAATGACTAAAATACCCCCAT-AGAATA
1 AAATGACTAAAATACCCCTATAAG-GTA
39061457 AAATGACTAAAATACCCC-ATAAGGTA
1 AAATGACTAAAATACCCCTATAAGGTA
**
39061483 AAATGACTATTATACCCCTA
1 AAATGACTAAAATACCCCTA
39061503 GGAGATGAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
26 21 0.24
27 67 0.76
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.21
Consensus pattern (27 bp):
AAATGACTAAAATACCCCTATAAGGTA
Found at i:39063976 original size:26 final size:26
Alignment explanation
Indices: 39063947--39064049 Score: 75
Period size: 26 Copynumber: 4.0 Consensus size: 26
39063937 GGGTTTGGGG
*
39063947 TGTTATAAGCAGCTTTGCTATGATAC
1 TGTTATAAGCAGCTTTGCTACGATAC
** * *
39063973 TGTTATTGGCAGCTTTGTTGCGATAC
1 TGTTATAAGCAGCTTTGCTACGATAC
* * *
39063999 TGTTAT-TGACAGCTTTACTGCGATAC
1 TGTTATAAG-CAGCTTTGCTACGATAC
* * *
39064025 TATTACT-GGCAGCTTTGCTGCGATA
1 TGTTA-TAAGCAGCTTTGCTACGATA
39064050 TTAGTGAGTT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.02
26 61 0.95
27 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.39
Consensus pattern (26 bp):
TGTTATAAGCAGCTTTGCTACGATAC
Found at i:39064115 original size:21 final size:21
Alignment explanation
Indices: 39064089--39064139 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
39064079 ATCCCCACAT
39064089 GGTGTGTTGGTGGTACGGAGA
1 GGTGTGTTGGTGGTACGGAGA
*
39064110 TGTGTGTTGGTGGTACGGAGA
1 GGTGTGTTGGTGGTACGGAGA
39064131 GGTGTGTTG
1 GGTGTGTTG
39064140 CATTATTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.12, C:0.04, G:0.51, T:0.33
Consensus pattern (21 bp):
GGTGTGTTGGTGGTACGGAGA
Found at i:39069687 original size:9 final size:9
Alignment explanation
Indices: 39069673--39069703 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
39069663 GTTAAATGAA
39069673 TCGAGTTAT
1 TCGAGTTAT
*
39069682 TCGAGTTAA
1 TCGAGTTAT
39069691 TCGAGTTAT
1 TCGAGTTAT
39069700 TCGA
1 TCGA
39069704 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:39069781 original size:9 final size:9
Alignment explanation
Indices: 39069757--39069793 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
39069747 TGAGTTTTCG
*
39069757 AATTCAAAT
1 AATTCGAAT
*
39069766 AACTCGAAT
1 AATTCGAAT
39069775 AATTCGAAT
1 AATTCGAAT
39069784 AATTCGAAT
1 AATTCGAAT
39069793 A
1 A
39069794 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:39071827 original size:28 final size:28
Alignment explanation
Indices: 39071792--39071924 Score: 169
Period size: 28 Copynumber: 4.8 Consensus size: 28
39071782 ATAAGGAGTC
**
39071792 CACCACAAAGGCTTATTCTTTTGTAGTT
1 CACCACAAAGGCTTATTCTTTCATAGTT
*
39071820 -AGGCACAAAGGCTTATTCTTTCATAGTT
1 CA-CCACAAAGGCTTATTCTTTCATAGTT
* * * **
39071848 CATCACAAAGGTTTAATCAGTCATAGTT
1 CACCACAAAGGCTTATTCTTTCATAGTT
*
39071876 CTCCACAAAGGCTTATTCTTTCATAGTT
1 CACCACAAAGGCTTATTCTTTCATAGTT
39071904 CACCACAAAGGCTTATTCTTT
1 CACCACAAAGGCTTATTCTTT
39071925 TCTGACATGT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.01
28 86 0.98
29 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (28 bp):
CACCACAAAGGCTTATTCTTTCATAGTT
Found at i:39078456 original size:35 final size:35
Alignment explanation
Indices: 39078400--39078604 Score: 139
Period size: 35 Copynumber: 5.6 Consensus size: 35
39078390 TTTGCCGGTT
* * *
39078400 TATCCGACTAGTGCTGAGCTCAAATATTGTTGGTA
1 TATCCAACTAGAGCTGGGCTCAAATATTGTTGGTA
* * * *
39078435 AATCCAACTAGAGCTGGGCTCACTATATATTCTTTAGTT
1 TATCCAACTAGAGCTGGGCTCA--A-ATATT-GTTGGTA
* * *
39078474 TATCCAGCTAGCA-CTGGGCGCAAATATCGTTGGTA
1 TATCCAACTAG-AGCTGGGCTCAAATATTGTTGGTA
* *
39078509 TATCCAACTAGAGCTGGGCTCACAATTTATTCTTCGGTT
1 TATCCAACTAGAGCTGGGCTCA-AA--TATTGTT-GGTA
* * *
39078548 TAT-CAGACTAGCGCTCGG-TGCAAATATCGTTGGTA
1 TATCCA-ACTAGAGCTGGGCT-CAAATATTGTTGGTA
39078583 TATCCAACTAGAG-TGGGGCTCA
1 TATCCAACTAGAGCT-GGGCTCA
39078605 CTAATTATTC
Statistics
Matches: 129, Mismatches: 26, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
34 2 0.02
35 56 0.43
36 14 0.11
37 2 0.02
38 15 0.12
39 39 0.30
40 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (35 bp):
TATCCAACTAGAGCTGGGCTCAAATATTGTTGGTA
Done.