Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 135 of 167
Found at i:45183567 original size:85 final size:87
Alignment explanation
Indices: 45183455--45183626 Score: 321
Period size: 87 Copynumber: 2.0 Consensus size: 87
45183445 AATAAAATAA
45183455 TGATATCTATCTTAATACAACTAAAAAAGT-AAAAAAAAAAA-GGGTTAACTTTTGTTGATGAAC
1 TGATATCTATCTTAATACAACTAAAAAAGTAAAAAAAAAAAAGGGGTTAACTTTTGTTGATGAAC
45183518 ACAAACAAAGTGGGGCATACAT
66 ACAAACAAAGTGGGGCATACAT
*
45183540 TGATATCTATCTTAATACAACTTAAAAAGTAAAAAAAAAAAAGGGGTTAACTTTTGTTGATGAAC
1 TGATATCTATCTTAATACAACTAAAAAAGTAAAAAAAAAAAAGGGGTTAACTTTTGTTGATGAAC
45183605 ACAAACAAAGTGGGGCATACAT
66 ACAAACAAAGTGGGGCATACAT
45183627 ATTGATTCGG
Statistics
Matches: 84, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
85 29 0.35
86 11 0.13
87 44 0.52
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (87 bp):
TGATATCTATCTTAATACAACTAAAAAAGTAAAAAAAAAAAAGGGGTTAACTTTTGTTGATGAAC
ACAAACAAAGTGGGGCATACAT
Found at i:45184066 original size:21 final size:19
Alignment explanation
Indices: 45184042--45184081 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
45184032 TTAATCCTTA
45184042 AATTTCTATTTTTAGAAATTT
1 AATTTCTA-TTTTA-AAATTT
*
45184063 AATTTTTATTTTAAAATTT
1 AATTTCTATTTTAAAATTT
45184082 TAAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 5 0.28
21 7 0.39
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
AATTTCTATTTTAAAATTT
Found at i:45184633 original size:18 final size:20
Alignment explanation
Indices: 45184612--45184651 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
45184602 TTTTATGAAT
45184612 TTTTTAT-A-TTTTAAAATA
1 TTTTTATAATTTTTAAAATA
*
45184630 -TTTTATAATTTTTAAATTA
1 TTTTTATAATTTTTAAAATA
45184649 TTT
1 TTT
45184652 ATTGACGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
17 6 0.33
18 1 0.06
19 9 0.50
20 2 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTATAATTTTTAAAATA
Found at i:45185835 original size:41 final size:44
Alignment explanation
Indices: 45185762--45185843 Score: 116
Period size: 42 Copynumber: 1.9 Consensus size: 44
45185752 CGTGACTATG
*
45185762 TTAAAAGAAAGATGACAAAAAGAGGAT-GGGAAAGAACAATCTA
1 TTAAAAGAAAGATGACAAAAAGAGGATAGGAAAAGAACAATCTA
**
45185805 TTAAAAGAAAGAT-A-GTAAAGAGGATAGGAAAAGAACAAT
1 TTAAAAGAAAGATGACAAAAAGAGGATAGGAAAAGAACAAT
45185844 ATTTTCTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.26
42 13 0.37
43 13 0.37
ACGTcount: A:0.57, C:0.05, G:0.23, T:0.15
Consensus pattern (44 bp):
TTAAAAGAAAGATGACAAAAAGAGGATAGGAAAAGAACAATCTA
Found at i:45186979 original size:15 final size:15
Alignment explanation
Indices: 45186959--45186993 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
45186949 AAGTTTTTAC
45186959 TTCGCAAGCAGAGGG
1 TTCGCAAGCAGAGGG
45186974 TTCGCAAGCAGAGGG
1 TTCGCAAGCAGAGGG
45186989 TTCGC
1 TTCGC
45186994 CAGTGGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.17
Consensus pattern (15 bp):
TTCGCAAGCAGAGGG
Found at i:45187141 original size:27 final size:27
Alignment explanation
Indices: 45187089--45187145 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
45187079 GGTAAGGGGT
*
45187089 GTTTGCCAGTTGGTTTGGTGAACTGGG
1 GTTTGCCAGTTGGTTTGGTCAACTGGG
*
45187116 GTTTGCTAGTTGGTTTGG-CAAGCTGGG
1 GTTTGCCAGTTGGTTTGGTCAA-CTGGG
45187143 GTT
1 GTT
45187146 CAGCAACAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.11, C:0.11, G:0.40, T:0.39
Consensus pattern (27 bp):
GTTTGCCAGTTGGTTTGGTCAACTGGG
Found at i:45187190 original size:27 final size:27
Alignment explanation
Indices: 45187160--45187217 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
45187150 AACAGGTCTA
* *
45187160 GCGAATTGAGGTTTGCTAGTTGGTTTG
1 GCGAACTGAGGTTTGCCAGTTGGTTTG
* * * *
45187187 GCGAGCTAAGGTTCGCCAATTGGTTTG
1 GCGAACTGAGGTTTGCCAGTTGGTTTG
45187214 GCGA
1 GCGA
45187218 GCTGGGGTCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.14, G:0.36, T:0.33
Consensus pattern (27 bp):
GCGAACTGAGGTTTGCCAGTTGGTTTG
Found at i:45187218 original size:27 final size:27
Alignment explanation
Indices: 45187179--45187239 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
45187169 GGTTTGCTAG
*
45187179 TTGGTTTGGCGAGCTAAGGTTCGCCAA
1 TTGGTTTGGCGAGCTAAGGTCCGCCAA
**
45187206 TTGGTTTGGCGAGCTGGGGTCCGCCAA
1 TTGGTTTGGCGAGCTAAGGTCCGCCAA
*
45187233 TAGGTTT
1 TTGGTTT
45187240 AGTGAATTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.15, C:0.18, G:0.36, T:0.31
Consensus pattern (27 bp):
TTGGTTTGGCGAGCTAAGGTCCGCCAA
Found at i:45195540 original size:20 final size:20
Alignment explanation
Indices: 45195497--45195540 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
45195487 CGGACTGCCA
*
45195497 TGGTTTTAATTTATGGTTAT
1 TGGTTTTAATTTATGGTTAC
* **
45195517 TGGTTTTATTTTATTTTTAC
1 TGGTTTTAATTTATGGTTAC
45195537 TGGT
1 TGGT
45195541 CATATTTTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.02, G:0.18, T:0.64
Consensus pattern (20 bp):
TGGTTTTAATTTATGGTTAC
Found at i:45201843 original size:53 final size:52
Alignment explanation
Indices: 45201696--45201851 Score: 174
Period size: 52 Copynumber: 3.0 Consensus size: 52
45201686 TGACGGAAAA
* *
45201696 GATGTGATATGTGCTTCCGTATAAGACCATAGT-TGGGCTATGGCATCGTTAC
1 GATGTGATATGTGATTCCGTATAAGACCATA-TCTGGGCTATGGCATCGGTAC
* * * * **
45201748 AATGTGAT-T-CGAGTTCCCATATAAGACCATAACTGGGCTATGGCATCGGTGT
1 GATGTGATATGTGA-TT-CCGTATAAGACCATATCTGGGCTATGGCATCGGTAC
*
45201800 GATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTA
1 GATGTGAT-ATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTA
45201852 TGTTTTGTGA
Statistics
Matches: 84, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
50 1 0.01
51 3 0.04
52 44 0.52
53 31 0.37
54 3 0.04
55 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAC
Found at i:45204029 original size:58 final size:57
Alignment explanation
Indices: 45203951--45204066 Score: 196
Period size: 58 Copynumber: 2.0 Consensus size: 57
45203941 AGCCACTTCA
45203951 ACACCGAAAAGATCGGGAAAGAGAAGACTAAGACAATCTGATTATAAGGCATCTGAC
1 ACACCGAAAAGATCGGGAAAGAGAAGACTAAGACAATCTGATTATAAGGCATCTGAC
* * *
45204008 ANCACCGAAAATATCGTGAAAGAGTAGACTAAGACAATCTGATTATAAGGCATCTGAC
1 A-CACCGAAAAGATCGGGAAAGAGAAGACTAAGACAATCTGATTATAAGGCATCTGAC
45204066 A
1 A
45204067 GACCTACTGT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 1 0.02
58 54 0.98
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.18
Consensus pattern (57 bp):
ACACCGAAAAGATCGGGAAAGAGAAGACTAAGACAATCTGATTATAAGGCATCTGAC
Found at i:45207640 original size:20 final size:20
Alignment explanation
Indices: 45207615--45207656 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
45207605 CAGTGAAAAT
45207615 ATTAGTAAAAGTGTTATGGC
1 ATTAGTAAAAGTGTTATGGC
45207635 ATTAGTAAAAGTGTTATGGC
1 ATTAGTAAAAGTGTTATGGC
45207655 AT
1 AT
45207657 CGACATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (20 bp):
ATTAGTAAAAGTGTTATGGC
Found at i:45208450 original size:63 final size:63
Alignment explanation
Indices: 45208351--45208469 Score: 211
Period size: 63 Copynumber: 1.9 Consensus size: 63
45208341 TCTATCATAT
*
45208351 TTTTACTACATATTAAGAAAACAAAGTGAATCGTGGAAAGGAGAAAATTCAAGAATTCTCTTA
1 TTTTACTACATATCAAGAAAACAAAGTGAATCGTGGAAAGGAGAAAATTCAAGAATTCTCTTA
* *
45208414 TTTTACTACATATCAAGAAAATAAAGTGAATTGTGGAAAGGAGAAAATTCAAGAAT
1 TTTTACTACATATCAAGAAAACAAAGTGAATCGTGGAAAGGAGAAAATTCAAGAAT
45208470 AGTCCCTGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (63 bp):
TTTTACTACATATCAAGAAAACAAAGTGAATCGTGGAAAGGAGAAAATTCAAGAATTCTCTTA
Found at i:45208763 original size:52 final size:52
Alignment explanation
Indices: 45208692--45208891 Score: 182
Period size: 52 Copynumber: 3.9 Consensus size: 52
45208682 GACAGAAAAG
* *
45208692 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
1 ATGTGATATGCGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* ***
45208744 ATGTGAT-T-CGAGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCAGTGTG
1 ATGTGATATGCGA-TT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * * *
45208796 ATGTGATAATGCGATTCCATATAAGACCATATCTAGGATATGGCATCGGT---
1 ATGTGAT-ATGCGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * * * *
45208846 ATGT--TATGTGA-TCCATATAAGACCATGGCAGGGCTATGGCTTCGGT
1 ATGTGATATGCGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
45208892 GTGTGATGTG
Statistics
Matches: 125, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
46 29 0.23
47 5 0.04
48 1 0.01
50 5 0.04
51 3 0.02
52 47 0.38
53 29 0.23
54 3 0.02
55 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (52 bp):
ATGTGATATGCGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:45208884 original size:46 final size:46
Alignment explanation
Indices: 45208811--45208901 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
45208801 ATAATGCGAT
* *
45208811 TCCATATAAGACCATATCTAGGATATGGCATCGGTATGTTATGTGA
1 TCCATATAAGACCATAGCTAGGATATGGCATCGGTATGTGATGTGA
* * * *
45208857 TCCATATAAGACCATGGC-AGGGCTATGGCTTCGGTGTGTGATGTG
1 TCCATATAAGACCATAGCTA-GGATATGGCATCGGTATGTGATGTG
45208902 TGACAATGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 1 0.03
46 37 0.97
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCATATAAGACCATAGCTAGGATATGGCATCGGTATGTGATGTGA
Found at i:45221141 original size:107 final size:105
Alignment explanation
Indices: 45220980--45221186 Score: 279
Period size: 107 Copynumber: 2.0 Consensus size: 105
45220970 CAAGTCTAAA
* * * * *
45220980 TTTTTTGTGTAATTTTTTTTTGTCATAGTAATTTTACCCGAAATTTCAAAAATTTTGGGTGGAAT
1 TTTTTTGTGTAATTTTCTTTTATCATAATAATTTTACCCGAAACTTCAAAAATTTTGGGTGGAAA
* * *
45221045 TTTTTGGGCAAATAGCTTTGTCCTTAAAGAAGTCTTTAAG
66 TTTTTGGACAAATAGCTTGGTCCTTAAACAAGTCTTTAAG
* * * *
45221085 TTTTTTGTGTAAGCTTTTCTTTTATCATAATATTTTTTCTCGAACCTTCAAAAATTTTGGGTGGA
1 TTTTTTGTGTAA--TTTTCTTTTATCATAATAATTTTACCCGAAACTTCAAAAATTTTGGGTGGA
*
45221150 AATTTTTGGACAAATAGCTTGGTCTTTAAACAAGTCT
64 AATTTTTGGACAAATAGCTTGGTCCTTAAACAAGTCT
45221187 ATTTTTTATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
105 12 0.14
107 75 0.86
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (105 bp):
TTTTTTGTGTAATTTTCTTTTATCATAATAATTTTACCCGAAACTTCAAAAATTTTGGGTGGAAA
TTTTTGGACAAATAGCTTGGTCCTTAAACAAGTCTTTAAG
Found at i:45221449 original size:31 final size:30
Alignment explanation
Indices: 45221410--45221469 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
45221400 ACATGCACTA
45221410 TTTTTTATCAGTTTGGTCAT-TATACTTTAC
1 TTTTTTATCAGTTTGG-CATCTATACTTTAC
*
45221440 TTTTGTTATCAGTTTGGCCTCTATACTTTA
1 TTTT-TTATCAGTTTGGCATCTATACTTTA
45221470 ATTATGCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (30 bp):
TTTTTTATCAGTTTGGCATCTATACTTTAC
Found at i:45221871 original size:21 final size:19
Alignment explanation
Indices: 45221828--45221913 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 19
45221818 TAAAAATATA
* * *
45221828 AAAAAAATCATAAAAATGT
1 AAAAAATTCATAAAATTTT
*
45221847 AAAAGAATTCGTAAAATTTCT
1 AAAA-AATTCATAAAATTT-T
*
45221868 AAAAAAATACCATAAAATTCTTT
1 -AAAAAAT-TCATAAAA-T-TTT
45221891 AAAAAATTCATAAAATTTT
1 AAAAAATTCATAAAATTTT
45221910 AAAA
1 AAAA
45221914 TTTTATAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
19 11 0.20
20 11 0.20
21 11 0.20
22 17 0.31
23 2 0.04
24 2 0.04
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAAAATTCATAAAATTTT
Found at i:45221883 original size:22 final size:21
Alignment explanation
Indices: 45221828--45221913 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 21
45221818 TAAAAATATA
* *
45221828 AAAAAAAT-CATAAAA-ATGT
1 AAAAAAATCCATAAAATTTCT
* * *
45221847 AAAAGAATTCGTAAAATTTCT
1 AAAAAAATCCATAAAATTTCT
45221868 AAAAAAATACCATAAAA-TTCTT
1 AAAAAAAT-CCATAAAATTTC-T
* *
45221890 TAAAAAATTCATAAAATTT-T
1 AAAAAAATCCATAAAATTTCT
45221910 AAAA
1 AAAA
45221914 TTTTATAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
19 7 0.13
20 10 0.19
21 19 0.37
22 16 0.31
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (21 bp):
AAAAAAATCCATAAAATTTCT
Found at i:45224409 original size:40 final size:40
Alignment explanation
Indices: 45224339--45224479 Score: 196
Period size: 40 Copynumber: 3.6 Consensus size: 40
45224329 AAACCAAGTA
** ** *
45224339 CCTTCGGGGTTTAG-CCGGTTATAGCCACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
45224378 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
45224418 CCTTCGGGACTTGGCCCGGTTATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
45224458 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
45224480 CAATCCGAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 25 0.27
40 66 0.73
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:45238416 original size:43 final size:42
Alignment explanation
Indices: 45238355--45238439 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 42
45238345 CTAGTTTGTA
*
45238355 GGGAAATACCTTTTGTGTTTTGCTATATATCCTGGAAACGAT
1 GGGAAAGACCTTTTGTGTTTTGCTATATATCCTGGAAACGAT
45238397 NGGGAAAGACCTTTTGTGTTTTGCTATATATCCTGGAAACGAT
1 -GGGAAAGACCTTTTGTGTTTTGCTATATATCCTGGAAACGAT
45238440 CAATTTTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
GGGAAAGACCTTTTGTGTTTTGCTATATATCCTGGAAACGAT
Found at i:45242426 original size:48 final size:50
Alignment explanation
Indices: 45242314--45242445 Score: 162
Period size: 48 Copynumber: 2.7 Consensus size: 50
45242304 ATAGAGGCCG
* * * * * *
45242314 ATGCCATGTCCCAAACACGGTCTTACACT-AGCTCTTACATATCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CACCTACATATACGTGCCA
*
45242364 ATGCCATGTCCCAGACATGGTCTTACACTGACACCT-C-TATAGGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTACATATACGTGCCA
*
45242412 ATGCCATGTCCCAGATATGGTCTTACACTGACAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGACAC
45242446 ATCTCGTAGT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 41 0.56
49 1 0.01
50 30 0.41
51 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACCTACATATACGTGCCA
Found at i:45242566 original size:47 final size:45
Alignment explanation
Indices: 45242309--45242627 Score: 147
Period size: 48 Copynumber: 6.8 Consensus size: 45
45242299 TTGAAATAGA
* * *
45242309 GGCCGATGCCATGTCCCAAACACGGTCTTACACTAGCTCTTACATATCCGT
1 GGCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTC-T-CATA--AGT
* *
45242360 -GCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACCTCTATAGGT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-C-TCTC-ATAAGT
* * * *
45242408 -GCCAATGCCATGTCCCAGATATGGTCTTACACTGACACATCTCGT-AGT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACT-A-GC-TCTCATAAGT
* * * *
45242456 ---CGATGCATGTCCCAGACATGTCTTATATTGGCT-TACAT-CGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATAAGT
* * *
45242497 GAGGACGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAA-T
1 --GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGT
* * * *
45242546 -GCCGGTGCCATGTCCCAGACACGATCTTACATTGGCTCTCATAATGT
1 GGCCGATG-CATGTCCCAGACATG-TCTTACACTAGCTCTCATAA-GT
*
45242593 GGCCGATGCATGTCCCAGACATGTTTTACACTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
45242628 ATACAAATAA
Statistics
Matches: 209, Mismatches: 36, Indels: 51
0.71 0.12 0.17
Matches are distributed among these distances:
40 1 0.00
41 5 0.02
42 1 0.00
44 8 0.04
45 15 0.07
46 49 0.23
47 29 0.14
48 56 0.27
49 4 0.02
50 40 0.19
51 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGT
Found at i:45249151 original size:50 final size:50
Alignment explanation
Indices: 45249097--45249201 Score: 210
Period size: 50 Copynumber: 2.1 Consensus size: 50
45249087 TAAAAATAAT
45249097 TAAACTCAAATTGTGGCAATTACGAATTCAAAAGTGATTGAAAACAAACA
1 TAAACTCAAATTGTGGCAATTACGAATTCAAAAGTGATTGAAAACAAACA
45249147 TAAACTCAAATTGTGGCAATTACGAATTCAAAAGTGATTGAAAACAAACA
1 TAAACTCAAATTGTGGCAATTACGAATTCAAAAGTGATTGAAAACAAACA
45249197 TAAAC
1 TAAAC
45249202 AACACATAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.24
Consensus pattern (50 bp):
TAAACTCAAATTGTGGCAATTACGAATTCAAAAGTGATTGAAAACAAACA
Found at i:45249492 original size:20 final size:21
Alignment explanation
Indices: 45249455--45249493 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
45249445 ATATCCAAAT
* *
45249455 ATTTTTTTTGTTTCTTTTAGA
1 ATTTTGTTTGTTTATTTTAGA
45249476 ATTTTGTTT-TTTATTTTA
1 ATTTTGTTTGTTTATTTTA
45249494 TTTTTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (21 bp):
ATTTTGTTTGTTTATTTTAGA
Found at i:45253520 original size:14 final size:14
Alignment explanation
Indices: 45253501--45253530 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45253491 TTATATCGAG
45253501 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
45253515 ACCAATCCAATTCA
1 ACCAATCCAAATCA
45253529 AC
1 AC
45253531 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:45274392 original size:11 final size:11
Alignment explanation
Indices: 45274376--45274403 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
45274366 ATTGTAGACC
45274376 ATAAAAATAAA
1 ATAAAAATAAA
45274387 ATAAAAATAAA
1 ATAAAAATAAA
45274398 ATAAAA
1 ATAAAA
45274404 TTTTTTCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:45280064 original size:12 final size:10
Alignment explanation
Indices: 45280041--45280084 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
45280031 TTTATTACTT
45280041 AAAAAATATA
1 AAAAAATATA
*
45280051 AAAAAATATT
1 AAAAAATATA
*
45280061 TAAAAATA-A
1 AAAAAATATA
*
45280070 AAAAAAAATA
1 AAAAAATATA
45280080 AAAAA
1 AAAAA
45280085 GTTCCACACA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 6 0.21
10 22 0.79
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAAATATA
Found at i:45282111 original size:12 final size:12
Alignment explanation
Indices: 45282094--45282132 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
45282084 AAGTTAAGAA
45282094 AGAAAAAGAAAG
1 AGAAAAAGAAAG
45282106 AGAAAAAGAAAG
1 AGAAAAAGAAAG
*
45282118 A-AAGAAGAAATG
1 AGAAAAAGAAA-G
45282130 AGA
1 AGA
45282133 GACACACGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 8 0.33
12 15 0.62
13 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (12 bp):
AGAAAAAGAAAG
Found at i:45282134 original size:26 final size:22
Alignment explanation
Indices: 45282089--45282132 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 22
45282079 ATGCAAAGTT
45282089 AAGAAAGAAAAAGAAAGAGAAA
1 AAGAAAGAAAAAGAAAGAGAAA
45282111 AAGAAAGAAAGAAGAAATGAGA
1 AAGAAAGAAA-AAGAAA-GAGA
45282133 GACACACGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 6 0.30
24 4 0.20
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (22 bp):
AAGAAAGAAAAAGAAAGAGAAA
Found at i:45293806 original size:20 final size:18
Alignment explanation
Indices: 45293759--45293807 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
45293749 CAAGATAAAA
45293759 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
45293776 ATTAAGA-TAATCATTCTAAT
1 ATTAA-ATTAAT-ATT-TAAT
45293796 ATTAAATTAATA
1 ATTAAATTAATA
45293808 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 5 0.19
20 13 0.48
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:45293848 original size:32 final size:30
Alignment explanation
Indices: 45293792--45293861 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 30
45293782 ATAATCATTC
*
45293792 TAATATTAAATTAATAAAATACTATTAAGA
1 TAATATTAAATTAATAAAATACTATTAAAA
*
45293822 TAAGTATTAAATTTAATATTAA-ACTATTAAAA
1 TAA-TATTAAA-TTAATA-AAATACTATTAAAA
45293854 TAATATTA
1 TAATATTA
45293862 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 3 0.09
31 12 0.34
32 18 0.51
33 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (30 bp):
TAATATTAAATTAATAAAATACTATTAAAA
Found at i:45295876 original size:27 final size:27
Alignment explanation
Indices: 45295862--45295937 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 27
45295852 TTGTCCCTGC
* *
45295862 GGACTACCCCATGTTTACTATCTCGAT
1 GGACTACCCCATGTTTACTGTCCCGAT
* *
45295889 GGACTACCCTAT-TTTACTGTTCCGAT
1 GGACTACCCCATGTTTACTGTCCCGAT
*
45295915 GGACTACCCCATGTTTATTGTCC
1 GGACTACCCCATGTTTACTGTCC
45295938 TAGCAGACTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.54
27 19 0.46
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.36
Consensus pattern (27 bp):
GGACTACCCCATGTTTACTGTCCCGAT
Found at i:45301394 original size:23 final size:23
Alignment explanation
Indices: 45301350--45301394 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
45301340 TTTAGTTTGG
* *
45301350 ATTATCCTTCAGAGATCCACAAT
1 ATTATCATTCAGAGATCAACAAT
45301373 ATTATCATTC-GAGATGCAACAA
1 ATTATCATTCAGAGAT-CAACAA
45301395 ATTGAGGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (23 bp):
ATTATCATTCAGAGATCAACAAT
Found at i:45307271 original size:21 final size:21
Alignment explanation
Indices: 45307246--45307294 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
45307236 TGTCTTATAT
45307246 ACTTAATAAATATTTAATTAA
1 ACTTAATAAATATTTAATTAA
* * ** *
45307267 TCTTATTTTATTTTTAATTAA
1 ACTTAATAAATATTTAATTAA
45307288 ACTTAAT
1 ACTTAAT
45307295 TAGATTAATG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (21 bp):
ACTTAATAAATATTTAATTAA
Found at i:45307522 original size:20 final size:20
Alignment explanation
Indices: 45307499--45307538 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
45307489 TTATACTGAC
*
45307499 CTTGTAAATATTAAATAATA
1 CTTGTAAATACTAAATAATA
45307519 CTTGTAAATACTAAATAATA
1 CTTGTAAATACTAAATAATA
45307539 TTTACGGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (20 bp):
CTTGTAAATACTAAATAATA
Found at i:45309895 original size:30 final size:30
Alignment explanation
Indices: 45309861--45310095 Score: 77
Period size: 30 Copynumber: 7.1 Consensus size: 30
45309851 TATATTTGAA
45309861 AATAAACTATATAAAAAGGTTAAATATTAT
1 AATAAACTATATAAAAAGGTTAAATATTAT
** * *
45309891 AATAATA-TATATACTGCATAGAA-AATATATATTTGAA
1 AATAA-ACTATATA----A-A-AAGGTTAAATA-TT-AT
45309928 AATAAACTATATAAAAAGGTTAAATATTAT
1 AATAAACTATATAAAAAGGTTAAATATTAT
** * *
45309958 AATAATA-TATATACTGCATAGAA-AATATATATTTGAA
1 AATAA-ACTATATA----A-A-AAGGTTAAATA-TT-AT
45309995 AATAAACTATATAAAAAGGTTAAATATTAT
1 AATAAACTATATAAAAAGGTTAAATATTAT
** * *
45310025 AATAATA-TATATACTGCATAGAA-AATATATATTTGAA
1 AATAA-ACTATATA----A-A-AAGGTTAAATA-TT-AT
45310062 AATAAACTATATAAAAAGGTTAAATATTAT
1 AATAAACTATATAAAAAGGTTAAATATTAT
45310092 AATA
1 AATA
45310096 TATAAAATAC
Statistics
Matches: 148, Mismatches: 24, Indels: 66
0.62 0.10 0.28
Matches are distributed among these distances:
30 40 0.27
31 15 0.10
32 18 0.12
33 3 0.02
34 3 0.02
35 18 0.12
36 15 0.10
37 36 0.24
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.34
Consensus pattern (30 bp):
AATAAACTATATAAAAAGGTTAAATATTAT
Found at i:45309929 original size:67 final size:67
Alignment explanation
Indices: 45309824--45310099 Score: 536
Period size: 67 Copynumber: 4.1 Consensus size: 67
45309814 AAATGATAAT
45309824 ATAATATATATACATGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATT
1 ATAATATATATAC-TGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATT
45309889 ATA
65 ATA
45309892 ATAATATATATACTGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATTA
1 ATAATATATATACTGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATTA
45309957 TA
66 TA
45309959 ATAATATATATACTGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATTA
1 ATAATATATATACTGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATTA
45310024 TA
66 TA
45310026 ATAATATATATACTGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATTA
1 ATAATATATATACTGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATTA
45310091 TA
66 TA
45310093 AT-ATATA
1 ATAATATA
45310100 AAATACATAA
Statistics
Matches: 208, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
66 5 0.02
67 190 0.91
68 13 0.06
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.34
Consensus pattern (67 bp):
ATAATATATATACTGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATTA
TA
Found at i:45309932 original size:37 final size:37
Alignment explanation
Indices: 45309898--45310074 Score: 120
Period size: 37 Copynumber: 5.2 Consensus size: 37
45309888 TATAATAATA
45309898 TATATACTGCATAGAAAATATATATTTGAAAATAAAC
1 TATATACTGCATAGAAAATATATATTTGAAAATAAAC
** * *
45309935 TATATA----A-A-AAGGT-TAAATATT-ATAATAATA-
1 TATATACTGCATAGAAAATATATAT-TTGAAAATAA-AC
45309965 TATATACTGCATAGAAAATATATATTTGAAAATAAAC
1 TATATACTGCATAGAAAATATATATTTGAAAATAAAC
** * *
45310002 TATATA----A-A-AAGGT-TAAATATT-ATAATAATA-
1 TATATACTGCATAGAAAATATATAT-TTGAAAATAA-AC
45310032 TATATACTGCATAGAAAATATATATTTGAAAATAAAC
1 TATATACTGCATAGAAAATATATATTTGAAAATAAAC
45310069 TATATA
1 TATATA
45310075 AAAAGGTTAA
Statistics
Matches: 102, Mismatches: 16, Indels: 44
0.63 0.10 0.27
Matches are distributed among these distances:
30 32 0.31
31 12 0.12
32 2 0.02
33 2 0.02
34 2 0.02
35 2 0.02
36 12 0.12
37 38 0.37
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.34
Consensus pattern (37 bp):
TATATACTGCATAGAAAATATATATTTGAAAATAAAC
Found at i:45310430 original size:22 final size:21
Alignment explanation
Indices: 45310395--45310452 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
45310385 AAAGGATATC
* * *
45310395 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAAAT
45310416 TACAAAATCATATCTTCTAAAAT
1 TAC-AAATCATATC-TCTAAAAT
* *
45310439 TGCATATCATATCT
1 TACAAATCATATCT
45310453 AAGATTGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAAAT
Found at i:45310459 original size:19 final size:19
Alignment explanation
Indices: 45310431--45310521 Score: 125
Period size: 19 Copynumber: 4.9 Consensus size: 19
45310421 AATCATATCT
*
45310431 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
45310450 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
45310468 TCTAAGATAG--TATCATA
1 TCTAAGATTGCATATCATA
*
45310485 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
*
45310504 ACTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
45310522 TGAAGATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.24
18 15 0.24
19 33 0.52
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:45310482 original size:35 final size:36
Alignment explanation
Indices: 45310443--45310511 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
45310433 TAAAATTGCA
* *
45310443 TATCATATCTAAGATTGCA-ATCATATCTAAGATAG
1 TATCATATCTAAGATTGCATATCACAACTAAGATAG
45310478 TATCATATCTAAGATTGCATATCACAACTAAGAT
1 TATCATATCTAAGATTGCATATCACAACTAAGAT
45310512 TGCATATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCACAACTAAGATAG
Found at i:45314651 original size:32 final size:34
Alignment explanation
Indices: 45314615--45314679 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 34
45314605 TAACAGTGGT
*
45314615 ACTGGGCCAGAGCCC-TT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCATTATTCAGATAACAATAA
**
45314647 ACTGGGCCTTAGCCCATTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCATTATTCAGATAACAATA
45314680 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 13 0.46
33 2 0.07
34 13 0.46
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCATTATTCAGATAACAATAA
Found at i:45315419 original size:75 final size:75
Alignment explanation
Indices: 45315301--45315441 Score: 246
Period size: 75 Copynumber: 1.9 Consensus size: 75
45315291 GCACACTTGT
* *
45315301 AAATCTACAAAATACCGATTTTCGGCATTTTGGATTTTTGACTTTTGCCGATCTAGACTAAGAAA
1 AAATCTACAAAATACCGATTTTCGGCATTTCGGATTTTCGACTTTTGCCGATCTAGACTAAGAAA
45315366 GTACACTCGC
66 GTACACTCGC
* *
45315376 AAATCTACAAAATACCGATTTTTGGCATTTCGGCTTTTCGACTTTTGCCGATCTAGACTAAGAAA
1 AAATCTACAAAATACCGATTTTCGGCATTTCGGATTTTCGACTTTTGCCGATCTAGACTAAGAAA
45315441 G
66 G
45315442 AGGGTGTTAG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 62 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (75 bp):
AAATCTACAAAATACCGATTTTCGGCATTTCGGATTTTCGACTTTTGCCGATCTAGACTAAGAAA
GTACACTCGC
Found at i:45315995 original size:202 final size:202
Alignment explanation
Indices: 45315637--45316040 Score: 718
Period size: 202 Copynumber: 2.0 Consensus size: 202
45315627 CATTAACAAT
* *
45315637 TTTTTGTCAATGTTTACCACATAATCATAATTTCACTGCAAGCTGTCTTCCTGAGCAATAGTTAC
1 TTTTTGTCAATGTTTACCACATAATCATAATTTCACTGCAAGCTGTCTTCCTGAGCAACAGTCAC
* * *
45315702 TAAATTATTTATAACTGGAGCTACGAAACTCCAAATCAAGTTCCGTTAATTTTCCCTGAAAATAG
66 TAAATCATTTATAACTGGAGCTACGAAACTCCAAATCAAGTGCCGTTAATTTTCCCTAAAAATAG
* *
45315767 ACTCATATATCTTCTACCCGTAAAATTTTCAGAATTTTTGGTATGGCCAATCAATACCAGATTTT
131 ACTCATATATATTCTACCCATAAAATTTTCAGAATTTTTGGTATGGCCAATCAATACCAGATTTT
45315832 TCTTAAA
196 TCTTAAA
45315839 TTTTTGTCAATGTTTACCACATAATCATAATTTCACTGCAAGCTGTCTTCCTGAGCAACAGTCAC
1 TTTTTGTCAATGTTTACCACATAATCATAATTTCACTGCAAGCTGTCTTCCTGAGCAACAGTCAC
*
45315904 TAAATCATTTATAACTGGAGCTACGAAACTCCAAATCAAGTGCCGTTAATTTTCCCTAAAAATAT
66 TAAATCATTTATAACTGGAGCTACGAAACTCCAAATCAAGTGCCGTTAATTTTCCCTAAAAATAG
* *
45315969 ACTCATATATATTCTATCCATAAAATTTTCAGAATTTTTGGTTTGGCCAATCAATACCAGATTTT
131 ACTCATATATATTCTACCCATAAAATTTTCAGAATTTTTGGTATGGCCAATCAATACCAGATTTT
45316034 TCTTAAA
196 TCTTAAA
45316041 GTTTCCCATG
Statistics
Matches: 192, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
202 192 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (202 bp):
TTTTTGTCAATGTTTACCACATAATCATAATTTCACTGCAAGCTGTCTTCCTGAGCAACAGTCAC
TAAATCATTTATAACTGGAGCTACGAAACTCCAAATCAAGTGCCGTTAATTTTCCCTAAAAATAG
ACTCATATATATTCTACCCATAAAATTTTCAGAATTTTTGGTATGGCCAATCAATACCAGATTTT
TCTTAAA
Found at i:45316810 original size:26 final size:26
Alignment explanation
Indices: 45316779--45316882 Score: 163
Period size: 26 Copynumber: 4.0 Consensus size: 26
45316769 TGAAATGCCC
*
45316779 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
45316805 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
45316831 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
45316857 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45316883 GTCAATTTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45323317 original size:82 final size:82
Alignment explanation
Indices: 45323206--45323453 Score: 460
Period size: 82 Copynumber: 3.0 Consensus size: 82
45323196 TAAAATCTAC
* *
45323206 TTATATATGGAAACTTATCTTTTTGATTTGATTCCAATAAATCTGATTAAAATTTTAAATCAAAT
1 TTATATATGGAAACTTATCTTATTAATTTGATTCCAATAAATCTGATTAAAATTTTAAATCAAAT
45323271 TGAGTTAATGGTAGATT
66 TGAGTTAATGGTAGATT
45323288 TTATATATGGAAACTTATCTTATTAATTTGATTCCAATAAATCTGATTAAAATTTTAAATCAAAT
1 TTATATATGGAAACTTATCTTATTAATTTGATTCCAATAAATCTGATTAAAATTTTAAATCAAAT
45323353 TGAGTTAATGGTAGATT
66 TGAGTTAATGGTAGATT
*
45323370 TTATATATGGAAACTTATCTTATTAATTTGATTCCAATAAATCTGATTAAAATTTTATATCAAAT
1 TTATATATGGAAACTTATCTTATTAATTTGATTCCAATAAATCTGATTAAAATTTTAAATCAAAT
*
45323435 TGATTTAATGGTAGATT
66 TGAGTTAATGGTAGATT
45323452 TT
1 TT
45323454 GTGTATTTTT
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 162 1.00
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (82 bp):
TTATATATGGAAACTTATCTTATTAATTTGATTCCAATAAATCTGATTAAAATTTTAAATCAAAT
TGAGTTAATGGTAGATT
Found at i:45328306 original size:18 final size:18
Alignment explanation
Indices: 45328283--45328318 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45328273 TTAACTTAAT
45328283 TAAATCCTTAATTTCTAC
1 TAAATCCTTAATTTCTAC
45328301 TAAATCCTTAATTTCTAC
1 TAAATCCTTAATTTCTAC
45328319 CTCCTAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATCCTTAATTTCTAC
Found at i:45330298 original size:35 final size:35
Alignment explanation
Indices: 45330248--45330318 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
45330238 TTATCTTCAG
*
45330248 AGTTTGTTTCTTATAGATCATGTAATATTCCTTAC
1 AGTTTGTTTCGTATAGATCATGTAATATTCCTTAC
45330283 AGTTTGTTTCGTATAGATCATGTAATATTCCTTAC
1 AGTTTGTTTCGTATAGATCATGTAATATTCCTTAC
45330318 A
1 A
45330319 CTTATCTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (35 bp):
AGTTTGTTTCGTATAGATCATGTAATATTCCTTAC
Found at i:45332747 original size:44 final size:44
Alignment explanation
Indices: 45332678--45332841 Score: 144
Period size: 43 Copynumber: 3.8 Consensus size: 44
45332668 CCGATATCTA
* * *
45332678 TTTTGCGTGTAAGACCACGTTTGGGACGTTGGCATCGACT-TCTG
1 TTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TGTATG
* *
45332722 TTTTACGTGTAAGACCATC-TCTGGGACATTGGCTTCG-TGTATG
1 TTTTACGTGTAAGACCA-CGTCTGGGACGTTGGCATCGATGTATG
* * * *
45332765 ATTT-CGTGCAAGACC-CTATCTGGGACAG-TGGCATCGATGTTTG
1 TTTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATGTATG
* *
45332808 -ATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
45332842 TGTATTTACT
Statistics
Matches: 97, Mismatches: 14, Indels: 19
0.75 0.11 0.15
Matches are distributed among these distances:
40 1 0.01
42 29 0.30
43 34 0.35
44 32 0.33
45 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (44 bp):
TTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATGTATG
Found at i:45334955 original size:39 final size:40
Alignment explanation
Indices: 45334911--45335077 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
45334901 CCTTCGGAGT
*
45334911 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGAC
* *
45334950 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* *
45334990 TTAGCCCGGATATAGTAACTCGTACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* * * *
45335029 TTAGTCCGGA-ATTAGTCACTAGCACAAATTCCTTTGGGAC
1 TTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGAC
45335069 TTAGCCCGG
1 TTAGCCCGG
45335078 TTATCAATCC
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 36 0.32
40 75 0.67
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
Found at i:45341052 original size:30 final size:30
Alignment explanation
Indices: 45341018--45341087 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
45341008 GATACAAGGG
45341018 ACACACGG-TCATGCCACTTGGCCATGTGTC
1 ACACACGGCT-ATGCCACTTGGCCATGTGTC
* *
45341048 ACACACGGCTGTGCCACTTGGCCGTGTGTC
1 ACACACGGCTATGCCACTTGGCCATGTGTC
45341078 ACACACGGCT
1 ACACACGGCT
45341088 GAGGCACATG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 36 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (30 bp):
ACACACGGCTATGCCACTTGGCCATGTGTC
Found at i:45341088 original size:30 final size:30
Alignment explanation
Indices: 45341029--45341088 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
45341019 CACACGGTCA
45341029 TGCCACTTGGCCATGTGTCACACACGGCTG
1 TGCCACTTGGCCATGTGTCACACACGGCTG
*
45341059 TGCCACTTGGCCGTGTGTCACACACGGCTG
1 TGCCACTTGGCCATGTGTCACACACGGCTG
45341089 AGGCACATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.15, C:0.33, G:0.28, T:0.23
Consensus pattern (30 bp):
TGCCACTTGGCCATGTGTCACACACGGCTG
Found at i:45341943 original size:21 final size:21
Alignment explanation
Indices: 45341897--45342017 Score: 129
Period size: 21 Copynumber: 5.9 Consensus size: 21
45341887 CAAATGAGCC
* *
45341897 AACATAAGCTCG-AA-AGCTA
1 AACAGAAGCTCGTAAGAGCTG
*
45341916 AATAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* * *
45341937 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTG
* *
45341958 AATAGAAGCTCGTAAAAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* *
45341979 AACAGAAGCTCGAAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTG
*
45342000 AACAAAAGCTCGTAAGAG
1 AACAGAAGCTCGTAAGAG
45342018 ATAAATAGAA
Statistics
Matches: 82, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
19 10 0.12
20 2 0.02
21 70 0.85
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:45342016 original size:63 final size:61
Alignment explanation
Indices: 45341902--45342027 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 61
45341892 GAGCCAACAT
* * * * *
45341902 AAGCTCGAAAGCTAAATAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTGAATAG
1 AAGCTCGAAAGCTAAACAGAAGCTCGAAAGAGCTAAACAGAAACTCATAAGAGATAAATAG
* *
45341963 AAGCTCGTAAAAGCTGAACAGAAGCTCGAAAGAGCTAAACA-AAAGCTCGTAAGAGATAAATAG
1 AAGCTCG--AAAGCTAAACAGAAGCTCGAAAGAGCTAAACAGAAA-CTCATAAGAGATAAATAG
45342026 AA
1 AA
45342028 AGTAAAACAC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
61 7 0.13
62 3 0.05
63 45 0.82
ACGTcount: A:0.47, C:0.15, G:0.22, T:0.16
Consensus pattern (61 bp):
AAGCTCGAAAGCTAAACAGAAGCTCGAAAGAGCTAAACAGAAACTCATAAGAGATAAATAG
Found at i:45343181 original size:44 final size:44
Alignment explanation
Indices: 45343133--45343270 Score: 101
Period size: 44 Copynumber: 3.1 Consensus size: 44
45343123 TTTAGTAGTT
45343133 TTTAATTAATTAACAATCGAAATGTTAAAATTTTTCATCGAAAC
1 TTTAATTAATTAACAATCGAAATGTTAAAATTTTTCATCGAAAC
* * * * ***
45343177 TTTAA-T-ACTACCTCAGT-GACACTCCG-TAAATATTTTT-A--GTAGTT
1 TTTAATTAATTA--ACAATCGA-AAT--GTTAAA-ATTTTTCATCG-AAAC
45343221 TTTAATTAATTAACAATCGAAATGTTAAAATTTTTCATCGAAAC
1 TTTAATTAATTAACAATCGAAATGTTAAAATTTTTCATCGAAAC
45343265 TTTAAT
1 TTTAAT
45343271 ACTACCTCAG
Statistics
Matches: 66, Mismatches: 14, Indels: 28
0.61 0.13 0.26
Matches are distributed among these distances:
42 10 0.15
43 9 0.14
44 28 0.42
45 9 0.14
46 10 0.15
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (44 bp):
TTTAATTAATTAACAATCGAAATGTTAAAATTTTTCATCGAAAC
Found at i:45343239 original size:88 final size:88
Alignment explanation
Indices: 45343123--45343299 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
45343113 CCTTTTTTAA
45343123 TTTAGTAGTTTTTAATTAATTAACAATCGAAATGTTAAAATTTTTCATCGAAACTTTAATACTAC
1 TTTAGTAGTTTTTAATTAATTAACAATCGAAATGTTAAAATTTTTCATCGAAACTTTAATACTAC
45343188 CTCAGTGACACTCCGTAAATATT
66 CTCAGTGACACTCCGTAAATATT
45343211 TTTAGTAGTTTTTAATTAATTAACAATCGAAATGTTAAAATTTTTCATCGAAACTTTAATACTAC
1 TTTAGTAGTTTTTAATTAATTAACAATCGAAATGTTAAAATTTTTCATCGAAACTTTAATACTAC
45343276 CTCAGTGACACTCCGTAAATATT
66 CTCAGTGACACTCCGTAAATATT
45343299 T
1 T
45343300 ATAAAAGTAC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (88 bp):
TTTAGTAGTTTTTAATTAATTAACAATCGAAATGTTAAAATTTTTCATCGAAACTTTAATACTAC
CTCAGTGACACTCCGTAAATATT
Found at i:45345818 original size:53 final size:54
Alignment explanation
Indices: 45345639--45345849 Score: 241
Period size: 55 Copynumber: 3.9 Consensus size: 54
45345629 ATTAGGGTTT
* * * *
45345639 AAGGATACCATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACTATGTAAAACCATGCCAAGACAT-GGCATTGGTAA-GTTTCATAAGGC
* * *
45345694 AAGGATA-TCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACT-ATGTAAAACCATGCCAAGACATGGCATTGGTAAGTTTC-ATAAGGC
* * *
45345749 AAAGG-TCCTATGTAAAACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACTATGTAAAACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
* *
45345802 AAGGATACTATGTAAAACCATGCCAAGACATGGAAATGGTAAGTTTCA
1 AAGGATACTATGTAAAACCATGCCAAGACATGGCATTGGTAAGTTTCA
45345850 AACGGATACC
Statistics
Matches: 133, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
52 4 0.03
53 45 0.34
54 16 0.12
55 63 0.47
56 5 0.04
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (54 bp):
AAGGATACTATGTAAAACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
Found at i:45345845 original size:108 final size:110
Alignment explanation
Indices: 45345648--45345848 Score: 284
Period size: 108 Copynumber: 1.8 Consensus size: 110
45345638 TAAGGATACC
* *
45345648 ATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGACC
1 ATGTAAAACCATGCCAAGGCATGGGAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAAACC
* * *
45345713 ATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTCCT
66 ATGCCAAGACATGGAAATGATAAGTTTCTATAAGGCAAAGGTCCT
* *
45345758 ATGTAAAACCATGCCAAGGCAT-GGCATTGGTGA-G-TTCATAAGGCAAGGATA-CTATGTAAAA
1 ATGTAAAACCATGCCAAGGCATGGGAATTGGTAAGGTTTC-TAAGGCAAGGATATC-ATGTAAAA
*
45345819 CCATGCCAAGACATGGAAATGGTAAGTTTC
64 CCATGCCAAGACATGGAAATGATAAGTTTC
45345849 AAACGGATAC
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
107 4 0.05
108 47 0.58
109 9 0.11
110 21 0.26
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (110 bp):
ATGTAAAACCATGCCAAGGCATGGGAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAAACC
ATGCCAAGACATGGAAATGATAAGTTTCTATAAGGCAAAGGTCCT
Found at i:45356932 original size:55 final size:53
Alignment explanation
Indices: 45356855--45357089 Score: 228
Period size: 55 Copynumber: 4.4 Consensus size: 53
45356845 CATTAGGATT
*
45356855 TAAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTTTAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGGCATGG-CATTGGTAA-GTTTTTAAGG
* * * *
45356910 TAAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTT-T-TAAGG
* * ** *
45356965 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATATGG
1 -TAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTTAAGG
* * * * * * *
45357018 CAAGAATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAG-TTTCAA--
1 TAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTTAAGG
*
45357068 -AAGGATACCACGTAAGACCATG
1 TAAGGATACCATGTAAGACCATG
45357090 AAAAGTCATG
Statistics
Matches: 149, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
49 20 0.13
52 5 0.03
53 41 0.28
54 8 0.05
55 71 0.48
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (53 bp):
TAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTTAAGG
Found at i:45357062 original size:108 final size:110
Alignment explanation
Indices: 45356863--45357065 Score: 302
Period size: 108 Copynumber: 1.9 Consensus size: 110
45356853 TTTAAGGATA
** * * *
45356863 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTTTAAGGTAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGAATACCATGTAAGA
*
45356928 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* *
45356973 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTAA-GTTCATATGGCAAGAATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGAATACCATGTAAGA
* *
45357036 CCATGTCGAGACATGGCAATGGTAAGTTTC
66 CCATGTCAAGACATGGCAATGATAAGTTTC
45357066 AAAAGGATAC
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 49 0.59
109 8 0.10
110 26 0.31
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGAATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:45357208 original size:24 final size:25
Alignment explanation
Indices: 45357181--45357227 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
45357171 GGTAAGGTAA
*
45357181 GGTAAGACGAGTT-ATACTAAAAAG
1 GGTAAGACAAGTTCATACTAAAAAG
*
45357205 GGTAAGACAAGTTCATGCTAAAA
1 GGTAAGACAAGTTCATACTAAAA
45357228 GAGCAAAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (25 bp):
GGTAAGACAAGTTCATACTAAAAAG
Found at i:45357472 original size:51 final size:51
Alignment explanation
Indices: 45357416--45357518 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
45357406 TTCTTATGAA
45357416 TGTTGTTATTTATTTTCATGCAAACTTACTAAGCTTAATGCTTACCCCCTT
1 TGTTGTTATTTATTTTCATGCAAACTTACTAAGCTTAATGCTTACCCCCTT
*
45357467 TGTTGTTATTTGTTTTCATGCAAACTTACTAAGCTTAATGCTTACCCCCTT
1 TGTTGTTATTTATTTTCATGCAAACTTACTAAGCTTAATGCTTACCCCCTT
45357518 T
1 T
45357519 ATTTTCCTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (51 bp):
TGTTGTTATTTATTTTCATGCAAACTTACTAAGCTTAATGCTTACCCCCTT
Found at i:45363281 original size:51 final size:51
Alignment explanation
Indices: 45363216--45363492 Score: 344
Period size: 51 Copynumber: 5.5 Consensus size: 51
45363206 TTAAGTCGCA
45363216 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGATCACG
* * *
45363267 TGTGTAGTACTAAGTGCAGGCTACTA--CATGTAC-CGGATTG--TT-GATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCA--TACTC--AATGACTTCGATCACG
45363316 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGATCACG
* * *
45363367 TGTGTAGTACTAAGTGCAGGCTACTA--CATGTAC-CGGATTG--TT-GATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCA--TACTC--AATGACTTCGATCACG
45363416 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGATCACG
45363467 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
45363493 CATGTACCGG
Statistics
Matches: 194, Mismatches: 12, Indels: 40
0.79 0.05 0.16
Matches are distributed among these distances:
48 6 0.03
49 72 0.37
50 12 0.06
51 98 0.51
52 6 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGATCACG
Found at i:45363560 original size:100 final size:100
Alignment explanation
Indices: 45363165--45363544 Score: 697
Period size: 100 Copynumber: 3.8 Consensus size: 100
45363155 GTGAATACAA
* * * ** *
45363165 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATATTGTTAAGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTTGA-TCGCATGTGTAGTACTAAG
45363230 TGCAGGCTACTATGCATACTCAATGACTTCGATCAC
65 TGCAGGCTACTATGCATACTCAATGACTTCGATCAC
45363266 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTTGATCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTTGATCGCATGTGTAGTACTAAGT
45363331 GCAGGCTACTATGCATACTCAATGACTTCGATCAC
66 GCAGGCTACTATGCATACTCAATGACTTCGATCAC
45363366 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTTGATCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTTGATCGCATGTGTAGTACTAAGT
45363431 GCAGGCTACTATGCATACTCAATGACTTCGATCAC
66 GCAGGCTACTATGCATACTCAATGACTTCGATCAC
45363466 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTTGATCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTTGATCGCATGTGTAGTACTAAGT
45363531 GCAGGCTACTATGC
66 GCAGGCTACTATGC
45363545 GTATCAGATA
Statistics
Matches: 273, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
100 234 0.86
101 39 0.14
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTTGATCGCATGTGTAGTACTAAGT
GCAGGCTACTATGCATACTCAATGACTTCGATCAC
Found at i:45365624 original size:104 final size:104
Alignment explanation
Indices: 45365444--45365657 Score: 419
Period size: 104 Copynumber: 2.1 Consensus size: 104
45365434 CCAGTTTTGC
45365444 AAATGATAGCTACAGAAAAGAGGAAAAGTGATAGAGTAAGCTTATAAAGCTTAGTAAGTTAATAG
1 AAATGATAGCTACAGAAAAGAGGAAAAGTGATAGAGTAAGCTTATAAAGCTTAGTAAGTTAATAG
45365509 GTATTTAAACAAAACTCTTACCTTGGGTTACAATTAAGT
66 GTATTTAAACAAAACTCTTACCTTGGGTTACAATTAAGT
*
45365548 AAATGATAGCTACAGAAAAGAGGAAAAGTGATAGAGTAAGCTTATAAAGCTTAGTAAGTTTATAG
1 AAATGATAGCTACAGAAAAGAGGAAAAGTGATAGAGTAAGCTTATAAAGCTTAGTAAGTTAATAG
45365613 GTATTTAAACAAAACTCTTACCTTGGGTTACAATTAAGT
66 GTATTTAAACAAAACTCTTACCTTGGGTTACAATTAAGT
45365652 AAATGA
1 AAATGA
45365658 ATATAACTAA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 109 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.28
Consensus pattern (104 bp):
AAATGATAGCTACAGAAAAGAGGAAAAGTGATAGAGTAAGCTTATAAAGCTTAGTAAGTTAATAG
GTATTTAAACAAAACTCTTACCTTGGGTTACAATTAAGT
Found at i:45373596 original size:33 final size:33
Alignment explanation
Indices: 45373521--45373621 Score: 105
Period size: 33 Copynumber: 3.0 Consensus size: 33
45373511 ACAGTAACGG
* * * *
45373521 TCTAGGCC-TGAGCCTTATTCAGTAATCAATACAA
1 TCTAGGCCTTG-GCCCTATACAGTAA-CAGTATAA
*
45373555 TCTGGGCCTTGGCCCTATACAGTAACAGTATAA
1 TCTAGGCCTTGGCCCTATACAGTAACAGTATAA
* * *
45373588 TCTAGGCCTTAGCCCTATACAGTAATAGTGTAA
1 TCTAGGCCTTGGCCCTATACAGTAACAGTATAA
45373621 T
1 T
45373622 GCAATAATGC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
33 36 0.63
34 19 0.33
35 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (33 bp):
TCTAGGCCTTGGCCCTATACAGTAACAGTATAA
Found at i:45373661 original size:21 final size:21
Alignment explanation
Indices: 45373635--45373679 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
45373625 ATAATGCAGC
*
45373635 CCACCCAAT-CCAACCAGCACA
1 CCACCC-ATGCCAACCAACACA
*
45373656 CCACCCGTGCCAACCAACACA
1 CCACCCATGCCAACCAACACA
45373677 CCA
1 CCA
45373680 TGTGAGGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.36, C:0.53, G:0.07, T:0.04
Consensus pattern (21 bp):
CCACCCATGCCAACCAACACA
Found at i:45375741 original size:22 final size:25
Alignment explanation
Indices: 45375701--45375760 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 25
45375691 CTTTATCCAT
* *
45375701 TTTTATTTTTATTGCAA-TT-TAA-
1 TTTTGTTTTTATTTCAATTTCTAAC
*
45375723 TTTTGTTTTTATTTTAATTTCTAAC
1 TTTTGTTTTTATTTCAATTTCTAAC
45375748 TTTTG-TTTTATTT
1 TTTTGTTTTTATTT
45375761 ACTTATGGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 14 0.44
23 2 0.06
24 11 0.34
25 5 0.16
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (25 bp):
TTTTGTTTTTATTTCAATTTCTAAC
Found at i:45379965 original size:26 final size:26
Alignment explanation
Indices: 45379936--45380095 Score: 275
Period size: 26 Copynumber: 6.2 Consensus size: 26
45379926 TGGTACAAAT
45379936 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
45379962 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45379988 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
45380014 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45380040 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
45380066 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45380092 TGAT
1 TGAT
45380096 GGGCATTTCA
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 125 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:45397948 original size:20 final size:19
Alignment explanation
Indices: 45397919--45397973 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
45397909 TTGGGCCTTA
45397919 CCCATATCAACACAGTTGGG
1 CCCATATCAACACAGTT-GG
* * *
45397939 CCCATTTCAATATAGTTGG
1 CCCATATCAACACAGTTGG
* *
45397958 CCCATAACAAAACAGT
1 CCCATATCAACACAGT
45397974 CTCATATGAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (19 bp):
CCCATATCAACACAGTTGG
Found at i:45400277 original size:12 final size:12
Alignment explanation
Indices: 45400260--45400284 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45400250 CTGACGATGA
45400260 TTCTACGATAGG
1 TTCTACGATAGG
45400272 TTCTACGATAGG
1 TTCTACGATAGG
45400284 T
1 T
45400285 AAGACAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TTCTACGATAGG
Found at i:45408127 original size:39 final size:40
Alignment explanation
Indices: 45408043--45408130 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 40
45408033 CAAATCCAAT
*
45408043 CACCACCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
* *
45408083 TACCAGCACAAAGCCTGCGGGACTTT-AGCCCGGATATAA
1 CACCAGCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
45408122 CACCAGCAC
1 CACCAGCAC
45408131 GAATGATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 21 0.48
40 23 0.52
ACGTcount: A:0.33, C:0.32, G:0.20, T:0.15
Consensus pattern (40 bp):
CACCAGCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
Found at i:45408249 original size:101 final size:101
Alignment explanation
Indices: 45408136--45408334 Score: 398
Period size: 101 Copynumber: 2.0 Consensus size: 101
45408126 AGCACGAATG
45408136 ATATATATATCATAACACATTAGCATTTCATTTACATTATTTGAACACAAGCACAACATGCTTAT
1 ATATATATATCATAACACATTAGCATTTCATTTACATTATTTGAACACAAGCACAACATGCTTAT
45408201 CAACCATTCCACTTTCGGCTCAATAGCCACATACAT
66 CAACCATTCCACTTTCGGCTCAATAGCCACATACAT
45408237 ATATATATATCATAACACATTAGCATTTCATTTACATTATTTGAACACAAGCACAACATGCTTAT
1 ATATATATATCATAACACATTAGCATTTCATTTACATTATTTGAACACAAGCACAACATGCTTAT
45408302 CAACCATTCCACTTTCGGCTCAATAGCCACATA
66 CAACCATTCCACTTTCGGCTCAATAGCCACATA
45408335 AAAAGAACAC
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.32
Consensus pattern (101 bp):
ATATATATATCATAACACATTAGCATTTCATTTACATTATTTGAACACAAGCACAACATGCTTAT
CAACCATTCCACTTTCGGCTCAATAGCCACATACAT
Found at i:45413643 original size:40 final size:40
Alignment explanation
Indices: 45413588--45413669 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
45413578 TTTGTGAGTT
*
45413588 GAGAATTTTTCTTGAGGACAAGCAAAAGCTTAAGTGTGGG
1 GAGAATTTTGCTTGAGGACAAGCAAAAGCTTAAGTGTGGG
*
45413628 GAGAATTTTGCTTGAGGACAAGCAAATGCTTAAGTGTGGG
1 GAGAATTTTGCTTGAGGACAAGCAAAAGCTTAAGTGTGGG
45413668 GA
1 GA
45413670 TATTTGATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.27
Consensus pattern (40 bp):
GAGAATTTTGCTTGAGGACAAGCAAAAGCTTAAGTGTGGG
Found at i:45414389 original size:16 final size:16
Alignment explanation
Indices: 45414368--45414399 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45414358 TATGTAACGC
45414368 CCCAAAAATCCTGAAA
1 CCCAAAAATCCTGAAA
45414384 CCCAAAAATCCTGAAA
1 CCCAAAAATCCTGAAA
45414400 TCCTGAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
CCCAAAAATCCTGAAA
Found at i:45415701 original size:16 final size:16
Alignment explanation
Indices: 45415682--45415716 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45415672 GCAAAAGCCA
*
45415682 AAATGCCGAAAAGACG
1 AAATGCCAAAAAGACG
*
45415698 AAATGCCAAAAAGCCG
1 AAATGCCAAAAAGACG
45415714 AAA
1 AAA
45415717 GTTTGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.20, G:0.20, T:0.06
Consensus pattern (16 bp):
AAATGCCAAAAAGACG
Found at i:45415982 original size:29 final size:29
Alignment explanation
Indices: 45415932--45416041 Score: 125
Period size: 29 Copynumber: 3.9 Consensus size: 29
45415922 CATGATTATG
* *
45415932 AATGTGA-CTGGGCCTAACGGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCATATA
*
45415960 AATGTGATTTGGTCCTAATGGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCATATA
* * * *
45415989 CAGGTGATTTGGGCCTAATGGACCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATA
* *
45416018 AATATGA-TTGGGCTTAATGGGCCA
1 AATGTGATTTGGGCCTAATGGGCCA
45416042 GATACAGGTA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 22 0.32
29 46 0.68
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATA
Found at i:45420566 original size:28 final size:29
Alignment explanation
Indices: 45420457--45420570 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
45420447 TGAGCATGAT
* *
45420457 TATGAATGTGA-CTGGGCCTAACGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
45420485 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
45420514 TAT-ACAGGTGATTTGGGCCTAATGGGCTA
1 TATGA-ATGTGATTTGGGCCTAATGGGCCA
* *
45420543 TATGAATATGA-TTGGGCTTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
45420571 GATACAGGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.35
29 47 0.64
30 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:45420568 original size:57 final size:58
Alignment explanation
Indices: 45420469--45420579 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 58
45420459 TGAATGTGAC
* *
45420469 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
45420527 TGGGCCTAATGGGCTATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
45420580 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 24 0.51
58 23 0.49
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:45422421 original size:20 final size:18
Alignment explanation
Indices: 45422370--45422423 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
45422360 CGACCATCAG
45422370 GGGCCC-ACGAGCCCATT
1 GGGCCCAACGAGCCCATT
45422387 GGGCCCACACG-GCCCATCT
1 GGGCCCA-ACGAGCCCAT-T
*
45422406 TGGCCCAACGATGCCCAT
1 GGGCCCAACGA-GCCCAT
45422424 AACGGCCCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 6 0.19
18 9 0.29
19 10 0.32
20 6 0.19
ACGTcount: A:0.19, C:0.43, G:0.26, T:0.13
Consensus pattern (18 bp):
GGGCCCAACGAGCCCATT
Found at i:45433667 original size:40 final size:40
Alignment explanation
Indices: 45433607--45434075 Score: 677
Period size: 40 Copynumber: 11.7 Consensus size: 40
45433597 TGAGCATTGG
45433607 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * * *
45433647 AATATGTCCGGGCTATGACCCGAAGGCAATTATGAGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
45433687 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * * *
45433727 AATATGTCCGGGCTATGACCCGAAGGCAATTATGAGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
45433767 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * * *
45433807 AATATGTCCGGGCTATGACCCGAAGGCAATTATGAGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
45433847 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * * *
45433887 AATATGTCCGGGCTATGACCCGAAGGCAATTATGAGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
45433927 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * * *
45433967 AATATGTCCGGGCTATGACCCGAAGGCAATTATGAGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
45434007 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
45434047 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
45434076 AGGTGTTTGC
Statistics
Matches: 377, Mismatches: 52, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 377 1.00
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:45433741 original size:80 final size:80
Alignment explanation
Indices: 45433608--45434075 Score: 900
Period size: 80 Copynumber: 5.8 Consensus size: 80
45433598 GAGCATTGGA
45433608 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
45433673 CAATTATGAGAGATG
66 CAATTATGAGAGATG
45433688 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
45433753 CAATTATGAGAGATG
66 CAATTATGAGAGATG
45433768 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
45433833 CAATTATGAGAGATG
66 CAATTATGAGAGATG
45433848 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
45433913 CAATTATGAGAGATG
66 CAATTATGAGAGATG
45433928 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
45433993 CAATTATGAGAGATG
66 CAATTATGAGAGATG
* * * *
45434008 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATATGTCCGGGTTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
45434073 CAA
66 CAA
45434076 AGGTGTTTGC
Statistics
Matches: 384, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 384 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.22
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
CAATTATGAGAGATG
Found at i:45435988 original size:58 final size:58
Alignment explanation
Indices: 45435918--45436033 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
45435908 ATTGAAACAT
*
45435918 AAAATAAGAAAGAAAAATAAAAAGAATTTAGGGTTGGCCATAGTCAAGCTTGATTAAG
1 AAAATAAGAAAGAAAAAGAAAAAGAATTTAGGGTTGGCCATAGTCAAGCTTGATTAAG
45435976 AAAATAAGAAAGAAAAAGAAAAAGAATTTAGGGTTGGCCATAGTCAAGCTTGATTAAG
1 AAAATAAGAAAGAAAAAGAAAAAGAATTTAGGGTTGGCCATAGTCAAGCTTGATTAAG
45436034 GTATGTGTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.50, C:0.07, G:0.22, T:0.22
Consensus pattern (58 bp):
AAAATAAGAAAGAAAAAGAAAAAGAATTTAGGGTTGGCCATAGTCAAGCTTGATTAAG
Found at i:45436922 original size:56 final size:56
Alignment explanation
Indices: 45436836--45436971 Score: 218
Period size: 56 Copynumber: 2.4 Consensus size: 56
45436826 ACCATGGCAT
*
45436836 CGATATATGTATGAGAGTAAGACCATGTTTTATACGTTGGCAGCGATATGTGACTC
1 CGATATATGTGTGAGAGTAAGACCATGTTTTATACGTTGGCAGCGATATGTGACTC
* * *
45436892 CGATATATGTGTGCGAGTAAGACCATGTTTTATACGTTGGTATCGATATGTGACTC
1 CGATATATGTGTGAGAGTAAGACCATGTTTTATACGTTGGCAGCGATATGTGACTC
* *
45436948 TGATATATGTGTGTGAGTAAGACC
1 CGATATATGTGTGAGAGTAAGACC
45436972 CTGTCTGGGA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (56 bp):
CGATATATGTGTGAGAGTAAGACCATGTTTTATACGTTGGCAGCGATATGTGACTC
Found at i:45436993 original size:56 final size:56
Alignment explanation
Indices: 45436836--45437000 Score: 199
Period size: 56 Copynumber: 2.9 Consensus size: 56
45436826 ACCATGGCAT
* * ** *
45436836 CGATATATGTATGAGAGTAAGACCATGTTTTATACGTTGGCAGCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCATGTTGGATACGTTGGCATCGATATGTGACTC
** *
45436892 CGATATATGTGTGCGAGTAAGACCATGTTTTATACGTTGGTATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCATGTTGGATACGTTGGCATCGATATGTGACTC
* * *
45436948 TGATATATGTGTGTGAGTAAGACCCTGTCTGGGATA-G-TGGCATCGATATGTGA
1 CGATATATGTGTGCGAGTAAGACCATGT-T-GGATACGTTGGCATCGATATGTGA
45437001 TTACATGTAA
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
56 92 0.95
57 2 0.02
58 3 0.03
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.33
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCATGTTGGATACGTTGGCATCGATATGTGACTC
Found at i:45442495 original size:40 final size:39
Alignment explanation
Indices: 45442411--45442832 Score: 524
Period size: 40 Copynumber: 10.6 Consensus size: 39
45442401 TCGAATGATG
* * * *
45442411 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
45442451 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
45442491 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
45442530 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
* * *
45442570 TCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
45442609 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
* * *
45442649 TCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
45442688 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
* * *
45442728 TCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
45442767 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
45442808 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
45442833 AACGAGTAGC
Statistics
Matches: 330, Mismatches: 45, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
39 137 0.42
40 183 0.55
41 10 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45442865 original size:79 final size:79
Alignment explanation
Indices: 45442464--45442830 Score: 673
Period size: 79 Copynumber: 4.6 Consensus size: 79
45442454 GGACTAAGAT
*
45442464 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAA
45442529 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
45442543 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAA
45442608 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
45442622 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAA
45442687 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
45442701 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAA
45442766 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
45442780 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAG-CCCGAACGCATT
45442831 TGAACGAGTA
Statistics
Matches: 282, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
78 2 0.01
79 269 0.95
80 11 0.04
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:45449921 original size:47 final size:47
Alignment explanation
Indices: 45449852--45450574 Score: 1122
Period size: 47 Copynumber: 15.4 Consensus size: 47
45449842 GGTGTACAAG
*
45449852 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
45449899 GTGTGTATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * * *
45449946 GTGTCTATATGTGATAAGGTCGAATGTCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
45449993 GTGTCTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
45450040 GTGTATATATGTGATAAGGTCGAATGTCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
45450087 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
45450134 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
45450181 GTGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
45450228 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
45450275 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
45450322 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
45450369 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
45450416 GTGTGTATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
45450463 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
45450510 GTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
45450557 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
45450575 TCCCGAAGGG
Statistics
Matches: 628, Mismatches: 48, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 628 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
Found at i:45449982 original size:22 final size:22
Alignment explanation
Indices: 45449954--45450076 Score: 79
Period size: 22 Copynumber: 5.3 Consensus size: 22
45449944 AAGTGTCTAT
45449954 ATGTGATAAGGTCGAATGTCCA
1 ATGTGATAAGGTCGAATGTCCA
* *
45449976 ATGTGATGAATGT-GAAAGTGTCTA
1 ATGTGAT-AAGGTCG-AA-TGTCCA
* * * *
45450000 TATGTGATAAGGCCTAATGGCCG
1 -ATGTGATAAGGTCGAATGTCCA
* **
45450023 ATGTGATGAATGT-GAAAGTGTATA
1 ATGTGAT-AAGGTCG-AA-TGTCCA
45450047 TATGTGATAAGGTCGAATGTCCA
1 -ATGTGATAAGGTCGAATGTCCA
45450070 ATGTGAT
1 ATGTGAT
45450077 GAATGTGAAA
Statistics
Matches: 73, Mismatches: 18, Indels: 20
0.66 0.16 0.18
Matches are distributed among these distances:
22 22 0.30
23 18 0.25
24 18 0.25
25 15 0.21
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (22 bp):
ATGTGATAAGGTCGAATGTCCA
Found at i:45450264 original size:22 final size:22
Alignment explanation
Indices: 45450236--45450311 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
45450226 AAGTGTGTAT
45450236 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
45450258 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
45450283 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
45450305 ATGTGAT
1 ATGTGAT
45450312 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:45454553 original size:33 final size:33
Alignment explanation
Indices: 45454510--45454574 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
45454500 AACACACTAT
*
45454510 CAGTACAGTCTAGGCCAAAGCCCTATTCAGTAA
1 CAGTACAGTCTAGGCCAAAGCCCTATACAGTAA
* * **
45454543 CAGTATAGTCTGGGCCTTAGCCCTATACAGTA
1 CAGTACAGTCTAGGCCAAAGCCCTATACAGTA
45454575 GCATTGTGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (33 bp):
CAGTACAGTCTAGGCCAAAGCCCTATACAGTAA
Found at i:45463699 original size:19 final size:19
Alignment explanation
Indices: 45463677--45463715 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
45463667 TTTGATATAT
45463677 TTATGTTACTATATTATTA
1 TTATGTTACTATATTATTA
* **
45463696 TTATTTTTTTATATTATTA
1 TTATGTTACTATATTATTA
45463715 T
1 T
45463716 CACATTTGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
TTATGTTACTATATTATTA
Found at i:45470061 original size:9 final size:9
Alignment explanation
Indices: 45470001--45470054 Score: 54
Period size: 10 Copynumber: 5.6 Consensus size: 9
45469991 ACTTCTATTT
*
45470001 AAAAAAAGG
1 AAAAAAAGA
45470010 AAAAAAAGAA
1 AAAAAAAG-A
45470020 AAGAAAAAGA
1 AA-AAAAAGA
*
45470030 GAAAAAAATTA
1 -AAAAAAA-GA
45470041 AAAAAAAGA
1 AAAAAAAGA
45470050 AAAAA
1 AAAAA
45470055 GAAAAAATGG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 14 0.37
10 15 0.39
11 9 0.24
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:45471508 original size:89 final size:87
Alignment explanation
Indices: 45471379--45471539 Score: 252
Period size: 89 Copynumber: 1.8 Consensus size: 87
45471369 ATTCGATGGA
* * *
45471379 GAGCAGATCGAAGACATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATG
1 GAGCAAATCAAAGACATAGCAGATCTGACCTTTGGATGTTTACAC-T-GAAGCAGATCCAAGATG
45471444 ATTTGGCATTCTTGTGTTTACAAG
64 ATTTGGCATTCTTGTGTTTACAAG
*
45471468 GAGCAAATCAAAGACATAGCAGATCTGATCTTTAGG-TGTTTACACTGAAGCAGATCCAAGATGA
1 GAGCAAATCAAAGACATAGCAGATCTGACCTTT-GGATGTTTACACTGAAGCAGATCCAAGATGA
45471532 TTTGGCAT
65 TTTGGCAT
45471540 CTCTGTATTG
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
87 26 0.39
88 1 0.01
89 38 0.57
90 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (87 bp):
GAGCAAATCAAAGACATAGCAGATCTGACCTTTGGATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATTCTTGTGTTTACAAG
Found at i:45471589 original size:220 final size:220
Alignment explanation
Indices: 45471207--45472026 Score: 1300
Period size: 220 Copynumber: 3.7 Consensus size: 220
45471197 TGTTCATGCT
* *
45471207 GAAGCAGATCCAAGATGAGTTGGTATTCTTGTGTTTACAAGGAGCAAATCAAAGACATAGCAGAT
1 GAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCAAAGACATAGCAGAT
* * * *
45471272 TTGACCTTCAGGTGCTTACACTGAAGCAGATCCAAGATGATTTGGCATATCTGTATTGTCAGAGA
66 CTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTGTCAGAGA
*
45471337 AGAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACATAGCAGA
131 ACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACATAGCAGA
45471402 TCTGACCTTTGGATGTTTTCACATC
196 TCTGACCTTTGGATGTTTTCACATC
45471427 GAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCAAAGACATAGCAGAT
1 GAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCAAAGACATAGCAGAT
* * *
45471492 CTGATCTTTAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 CTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTGTCAGAGA
* * *
45471557 ACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATAGAGAGCAGATCGAACACATAGCAGT
131 ACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACATAGCAGA
45471622 TCTGACCTTTGGATGTTTTCACATC
196 TCTGACCTTTGGATGTTTTCACATC
* **
45471647 AAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGTAGACATAGCAGAT
1 GAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCAAAGACATAGCAGAT
*
45471712 CTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATGTCTGTATTGTCAGAGA
66 CTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTGTCAGAGA
* * * * * *
45471777 ACAAATTGAATAAACAGATTTGGCATCTCCATATTCGACGGAGAGTAGATTGAAGGCATAGCAGA
131 ACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACATAGCAGA
* * *
45471842 TCTGACCTTCGGATATTTTCACATT
196 TCTGACCTTTGGATGTTTTCACATC
* * * *
45471867 GAAGCAGATCCAAGATGATTTAGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGTAGAT
1 GAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCAAAGACATAGCAGAT
*
45471932 CTGACCTTCAGGTGTTTACGCTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTGTCA-AGG
66 CTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTGTCAGA-G
* * * *
45471996 AACGAATCGAAGGTAGCAGATTTGACATCTC
130 AACAAATCGAA-GAAACAGATTTGGCATCTC
45472027 TGTATTTGAC
Statistics
Matches: 555, Mismatches: 43, Indels: 3
0.92 0.07 0.00
Matches are distributed among these distances:
219 1 0.00
220 539 0.97
221 15 0.03
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (220 bp):
GAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCAAAGACATAGCAGAT
CTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTGTCAGAGA
ACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACATAGCAGA
TCTGACCTTTGGATGTTTTCACATC
Found at i:45472425 original size:16 final size:17
Alignment explanation
Indices: 45472375--45472425 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
45472365 ATGGAAATAT
*
45472375 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
45472392 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
45472411 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
45472426 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:45472444 original size:22 final size:21
Alignment explanation
Indices: 45472385--45472427 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
45472375 AATCTTTAAG
45472385 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
45472404 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
45472425 GAT
1 GAT
45472428 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:45475062 original size:28 final size:28
Alignment explanation
Indices: 45475022--45475110 Score: 115
Period size: 28 Copynumber: 3.2 Consensus size: 28
45475012 CCAAAGGTGG
*
45475022 GTGCAAGCCAAAGTGGTGGACAGTCTAA
1 GTGCAAGCCAAAGTGGCGGACAGTCTAA
* *
45475050 GTGCAAGCCAAAGTGGCGGAGATTCTAA
1 GTGCAAGCCAAAGTGGCGGACAGTCTAA
* * * *
45475078 ATGCAAGTCAAAGTGGCAGACAGTTTAA
1 GTGCAAGCCAAAGTGGCGGACAGTCTAA
45475106 GTGCA
1 GTGCA
45475111 CTCCAAAAGT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (28 bp):
GTGCAAGCCAAAGTGGCGGACAGTCTAA
Found at i:45475117 original size:28 final size:28
Alignment explanation
Indices: 45475022--45475122 Score: 89
Period size: 28 Copynumber: 3.6 Consensus size: 28
45475012 CCAAAGGTGG
* * *
45475022 GTGCAAGCCAAAGTGGTGGACAGTCTAA
1 GTGCAATCCAAAGTGGCGGACAGTTTAA
* *
45475050 GTGCAAGCCAAAGTGGCGGAGA-TTCTAA
1 GTGCAATCCAAAGTGGCGGACAGTT-TAA
* *
45475078 ATGCAAGT-CAAAGTGGCAGACAGTTTAA
1 GTGCAA-TCCAAAGTGGCGGACAGTTTAA
*
45475106 GTGCACTCCAAAAGTGG
1 GTGCAATCC-AAAGTGG
45475123 GTGAAAGTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
27 2 0.03
28 48 0.81
29 9 0.15
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.19
Consensus pattern (28 bp):
GTGCAATCCAAAGTGGCGGACAGTTTAA
Found at i:45475172 original size:28 final size:28
Alignment explanation
Indices: 45475131--45475190 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
45475121 GGGTGAAAGT
* * *
45475131 CAAAGTGGCAGATAGTCTAAGTGCAAGC
1 CAAAATGGAAGATAGTCTAAATGCAAGC
*
45475159 CAAAATGGAAGATAGTCTAAATGCAAGT
1 CAAAATGGAAGATAGTCTAAATGCAAGC
45475187 CAAA
1 CAAA
45475191 GTTAGTGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (28 bp):
CAAAATGGAAGATAGTCTAAATGCAAGC
Found at i:45482406 original size:14 final size:14
Alignment explanation
Indices: 45482385--45482425 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
45482375 TTGCAACTTG
45482385 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
45482399 TGCAACTTGCAAAT
1 CACAACTTGCACAT
45482413 CACAACTTGCACA
1 CACAACTTGCACA
45482426 ATTAGGTTAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:45487634 original size:4 final size:4
Alignment explanation
Indices: 45487625--45487659 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
45487615 GAAATCAAAT
* *
45487625 ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATGC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
45487660 TAAATGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:45487831 original size:40 final size:40
Alignment explanation
Indices: 45487785--45487863 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
45487775 AAACAGTAAT
45487785 TAGATAGTAATGAAACAAAGTTAACCTTGGGTTTTTGTAC
1 TAGATAGTAATGAAACAAAGTTAACCTTGGGTTTTTGTAC
45487825 TAGATAGTAATGAAACAAAGTTAACCTTGGGTTTTTGTA
1 TAGATAGTAATGAAACAAAGTTAACCTTGGGTTTTTGTA
45487864 TTTTACTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (40 bp):
TAGATAGTAATGAAACAAAGTTAACCTTGGGTTTTTGTAC
Found at i:45488927 original size:48 final size:48
Alignment explanation
Indices: 45488875--45488983 Score: 110
Period size: 49 Copynumber: 2.2 Consensus size: 48
45488865 ATGACTCGAT
* * *
45488875 AATGATGATTTTACTGTTTGCATATTCTACCATCCCGAGTGGCCCAAC
1 AATGATGATTTTAATATTTGCATATTCTACCATCCCGAGCGGCCCAAC
* * * * ** *
45488923 AATGATGGCTTTGAATATTTGCATGTTCTATCATCTTGAGCGGCCTAAC
1 AATGAT-GATTTTAATATTTGCATATTCTACCATCCCGAGCGGCCCAAC
*
45488972 AATGATGGTTTT
1 AATGATGATTTT
45488984 GAATCATTAT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
48 10 0.21
49 38 0.79
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (48 bp):
AATGATGATTTTAATATTTGCATATTCTACCATCCCGAGCGGCCCAAC
Found at i:45488973 original size:49 final size:49
Alignment explanation
Indices: 45488891--45488987 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
45488881 GATTTTACTG
*
45488891 TTTGCATATTCTACCATCCCGAGTGGCCCAACAATGATGGCTTTGAATA
1 TTTGCATATTCTACCATCCCGAGCGGCCCAACAATGATGGCTTTGAATA
* * ** * *
45488940 TTTGCATGTTCTATCATCTTGAGCGGCCTAACAATGATGGTTTTGAAT
1 TTTGCATATTCTACCATCCCGAGCGGCCCAACAATGATGGCTTTGAAT
45488988 CATTATATCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (49 bp):
TTTGCATATTCTACCATCCCGAGCGGCCCAACAATGATGGCTTTGAATA
Found at i:45489847 original size:20 final size:20
Alignment explanation
Indices: 45489804--45489843 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
45489794 GGTTAACATT
45489804 AGTTAAATATTAATTAATTA
1 AGTTAAATATTAATTAATTA
*
45489824 AGTTAATTA-TAATTAATTA
1 AGTTAAATATTAATTAATTA
45489843 A
1 A
45489844 AGTTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
AGTTAAATATTAATTAATTA
Found at i:45492210 original size:35 final size:35
Alignment explanation
Indices: 45492167--45492331 Score: 215
Period size: 35 Copynumber: 4.7 Consensus size: 35
45492157 TCCATAGAAA
* *
45492167 AGTTGTGAAATGTAGGTATGGTATCATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
* *
45492202 ATTTGTGAAACGTAGGTATGGTATTAACCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
*
45492237 AGTTGTGAAACATAGGTATGGTATTATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
** ** *
45492272 AGTTAAGAAACGTAGGTATGAAATT-TCCCATACCG
1 AGTTGTGAAACGTAGGTATGGTATTAT-CCATACTG
*
45492307 AGTTGTGAAATGTAGGTATGGTATT
1 AGTTGTGAAACGTAGGTATGGTATT
45492332 TCAACGAGGA
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
34 1 0.01
35 110 0.99
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
Found at i:45492731 original size:5 final size:5
Alignment explanation
Indices: 45492721--45492752 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
45492711 TTGTGTGTTC
45492721 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
45492753 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:45492740 original size:14 final size:14
Alignment explanation
Indices: 45492721--45492751 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
45492711 TTGTGTGTTC
45492721 TTTATTTTATTTTA
1 TTTATTTTATTTTA
45492735 TTTATTTTATTTTA
1 TTTATTTTATTTTA
45492749 TTT
1 TTT
45492752 TTCACAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:45496895 original size:35 final size:35
Alignment explanation
Indices: 45496844--45496992 Score: 147
Period size: 35 Copynumber: 4.3 Consensus size: 35
45496834 TTGAGAATTN
* * *
45496844 GTATGGTATCATCCATACTAAGTTGTGAAAGATAG
1 GTATGGTATTATCCATACTGAGTTGTGAAACATAG
* *
45496879 GTATGGTATTAACCATACTGAGTTTTGAAACATAG
1 GTATGGTATTATCCATACTGAGTTGTGAAACATAG
** **
45496914 GTATGGTATTATCCATACTGAGTTAAGAAATGTAG
1 GTATGGTATTATCCATACTGAGTTGTGAAACATAG
** * * * **
45496949 GTATGACATT-CCCATACCGAGTTGTTAAATGTAG
1 GTATGGTATTATCCATACTGAGTTGTGAAACATAG
45496983 GTATGGTATT
1 GTATGGTATT
45496993 TCAATGAGGA
Statistics
Matches: 95, Mismatches: 19, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
34 27 0.28
35 68 0.72
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.34
Consensus pattern (35 bp):
GTATGGTATTATCCATACTGAGTTGTGAAACATAG
Found at i:45509032 original size:56 final size:56
Alignment explanation
Indices: 45508966--45509079 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
45508956 AGAAACAGTA
*
45508966 TAGACATTGTCTAAGCCTTTGTTCCAGTCCATAACAAAGCTTTTATCTATCATGGC
1 TAGAAATTGTCTAAGCCTTTGTTCCAGTCCATAACAAAGCTTTTATCTATCATGGC
*
45509022 TAGAAATTGTCTAAGCCTTTGTTCCAGTCTATAACAAAGCTTTTATCTATCATGGC
1 TAGAAATTGTCTAAGCCTTTGTTCCAGTCCATAACAAAGCTTTTATCTATCATGGC
45509078 TA
1 TA
45509080 CTGTCATGAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (56 bp):
TAGAAATTGTCTAAGCCTTTGTTCCAGTCCATAACAAAGCTTTTATCTATCATGGC
Found at i:45517047 original size:5 final size:4
Alignment explanation
Indices: 45517013--45517054 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
45517003 TAAGGTTAAC
*
45517013 ATTA GTTA ATT- ATTA ATTA ATTA ACTTA ATATA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A-TTA AT-TA ATTA ATTA A
45517055 AGTTTAATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 3 0.09
4 22 0.67
5 8 0.24
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:45518185 original size:23 final size:21
Alignment explanation
Indices: 45518135--45518185 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
45518125 AGCAAGTTAG
*
45518135 ATAGAAGGTCTGAGTAAGAAA
1 ATAGATGGTCTGAGTAAGAAA
* *
45518156 ATTGATGGTTTGAGTAAGAATAA
1 ATAGATGGTCTGAGTAAG-A-AA
45518179 ATAGATG
1 ATAGATG
45518186 AATCCAGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.62
22 1 0.04
23 8 0.33
ACGTcount: A:0.43, C:0.02, G:0.27, T:0.27
Consensus pattern (21 bp):
ATAGATGGTCTGAGTAAGAAA
Found at i:45534307 original size:59 final size:59
Alignment explanation
Indices: 45534230--45534353 Score: 230
Period size: 59 Copynumber: 2.1 Consensus size: 59
45534220 TGAGCAAATT
45534230 ACTTAAACACAAGGCATAAGTCAGGGATTTTCAAATAATCATATAAATAACCTCCCCAC
1 ACTTAAACACAAGGCATAAGTCAGGGATTTTCAAATAATCATATAAATAACCTCCCCAC
*
45534289 ACTTAAACATAAGGCATAAGTCAGGGATTTTCAAATAATCATATAAATAACCTCCCCAC
1 ACTTAAACACAAGGCATAAGTCAGGGATTTTCAAATAATCATATAAATAACCTCCCCAC
*
45534348 ATTTAA
1 ACTTAA
45534354 GATGTACATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.26
Consensus pattern (59 bp):
ACTTAAACACAAGGCATAAGTCAGGGATTTTCAAATAATCATATAAATAACCTCCCCAC
Found at i:45534627 original size:6 final size:6
Alignment explanation
Indices: 45534602--45534712 Score: 98
Period size: 6 Copynumber: 18.5 Consensus size: 6
45534592 AATAAAGTTC
* * * **
45534602 AAAATAT AAAAA- CAAAAT AAACAT AAAAAG AAAAAT AAAAAT AAACCT
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * * **
45534650 AAAAAT AAACAT AAAGAG AAAAAT AAAAAT AAACCT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
45534698 AAACAT AAAGAT AAA
1 AAAAAT AAAAAT AAA
45534713 TGTACTCAAT
Statistics
Matches: 82, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
5 4 0.05
6 74 0.90
7 4 0.05
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:45534656 original size:36 final size:36
Alignment explanation
Indices: 45534615--45534700 Score: 154
Period size: 36 Copynumber: 2.4 Consensus size: 36
45534605 ATATAAAAAC
45534615 AAAATAAACATAAAAAGAAAAATAAAAATAAACCTA
1 AAAATAAACATAAAAAGAAAAATAAAAATAAACCTA
*
45534651 AAAATAAACATAAAGAGAAAAATAAAAATAAACCTA
1 AAAATAAACATAAAAAGAAAAATAAAAATAAACCTA
*
45534687 AAAATAAAAATAAA
1 AAAATAAACATAAA
45534701 CATAAAGATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.14
Consensus pattern (36 bp):
AAAATAAACATAAAAAGAAAAATAAAAATAAACCTA
Found at i:45534701 original size:18 final size:18
Alignment explanation
Indices: 45534615--45534712 Score: 115
Period size: 18 Copynumber: 5.4 Consensus size: 18
45534605 ATATAAAAAC
* * *
45534615 AAAATAAACATAAAAAGA
1 AAAATAAAAATAAACATA
*
45534633 AAAATAAAAATAAACCTA
1 AAAATAAAAATAAACATA
* * *
45534651 AAAATAAACATAAAGAGA
1 AAAATAAAAATAAACATA
*
45534669 AAAATAAAAATAAACCTA
1 AAAATAAAAATAAACATA
45534687 AAAATAAAAATAAACATA
1 AAAATAAAAATAAACATA
*
45534705 AAGATAAA
1 AAAATAAA
45534713 TGTACTCAAT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.14
Consensus pattern (18 bp):
AAAATAAAAATAAACATA
Found at i:45536582 original size:18 final size:17
Alignment explanation
Indices: 45536559--45536600 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
45536549 CCGTGCGGGT
45536559 AAGAGGAAAATGGGGAGA
1 AAGAGGAAAA-GGGGAGA
*
45536577 AAGAGG-AGAGGGGAGA
1 AAGAGGAAAAGGGGAGA
45536593 AAG-GGAAA
1 AAGAGGAAA
45536601 GAAAGGGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 2 0.10
16 11 0.52
17 2 0.10
18 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (17 bp):
AAGAGGAAAAGGGGAGA
Found at i:45536644 original size:11 final size:11
Alignment explanation
Indices: 45536590--45536644 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
45536580 AGGAGAGGGG
45536590 AGAAAG-GGAA
1 AGAAAGAGGAA
*
45536600 AGAAAGGGGAA
1 AGAAAGAGGAA
*
45536611 AGAAAGAAAGAA
1 AGAAAG-AGGAA
45536623 A-AAAGGAAGGAA
1 AGAAA-G-AGGAA
45536635 AGAAAGAGGA
1 AGAAAGAGGA
45536645 TAAGGGGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 6 0.16
11 17 0.45
12 12 0.32
13 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (11 bp):
AGAAAGAGGAA
Done.