Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 198 of 328
Found at i:59225252 original size:94 final size:92
Alignment explanation
Indices: 59225107--59225277 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
59225097 AACTCGTAGT
* * * * *
59225107 CGATGCATGTCTCAGACATGTCTTACATTGGCTTACGTCTCGAGGCTGATGCATGTCCCAGACAT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTATCGAGGCCGATGCATGTCCCAAACAT
59225172 GTCTTACACTAGTTCTCGTATCAATGC
66 GTCTTACACTAGTTCTCGTATCAATGC
*
59225199 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CGTAAT-GTGGCCGATGCATGTCCCAA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGT-ATCGAGGCCGATGCATGTCCCAA
59225262 ACATGTCTTACACTAG
62 ACATGTCTTACACTAG
59225278 CTCACAATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 49 0.71
95 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTATCGAGGCCGATGCATGTCCCAAACAT
GTCTTACACTAGTTCTCGTATCAATGC
Found at i:59228439 original size:10 final size:10
Alignment explanation
Indices: 59228424--59228448 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
59228414 CGGGAGATCC
59228424 TTTTGGTAGA
1 TTTTGGTAGA
59228434 TTTTGGTAGA
1 TTTTGGTAGA
59228444 TTTTG
1 TTTTG
59228449 AATACAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (10 bp):
TTTTGGTAGA
Found at i:59229374 original size:64 final size:64
Alignment explanation
Indices: 59229247--59229374 Score: 141
Period size: 64 Copynumber: 2.0 Consensus size: 64
59229237 GTATAACTCT
* * ** *
59229247 AAATCTAAACTCAAAGAGTTACACGATATGGACAGACGCCCGTGTCCCCTACCTGTGTGACTTC
1 AAATCTAAACTCAAAGAGTTACACGATATGGACACACGCCCGTATCCCCTACCCATGTAACTTC
* * * * **
59229311 AAATCTGAACTCAAGGAGTTACACAGCT-TGGACACACGCTCGTATGTCCTACCCATGTAACTTC
1 AAATCTAAACTCAAAGAGTTACAC-GATATGGACACACGCCCGTATCCCCTACCCATGTAACTTC
59229375 TGCACATCGT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
64 50 0.96
65 2 0.04
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (64 bp):
AAATCTAAACTCAAAGAGTTACACGATATGGACACACGCCCGTATCCCCTACCCATGTAACTTC
Found at i:59232012 original size:43 final size:43
Alignment explanation
Indices: 59231922--59232035 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
59231912 ACACATATCG
* * * *
59231922 ATGCCACTGTCCCAGACAGGGTCTTACACAAAATATATTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATATAATAACA
** *
59231965 ATGCCAATGTCCCAGACATGGTCTTACACTTAATCTCAAT-ACA
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATAT-AATAACA
* *
59232008 ATGCCAATGTCCTAGACATGGTTTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
59232036 TGTAATCACA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 59 0.97
44 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAAATATAATAACA
Found at i:59234379 original size:12 final size:12
Alignment explanation
Indices: 59234362--59234395 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
59234352 TTCACATATT
*
59234362 AGATACATATAC
1 AGATACAAATAC
59234374 AGATACAAATAC
1 AGATACAAATAC
*
59234386 AGACACAAAT
1 AGATACAAAT
59234396 CCTACCCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.18, G:0.09, T:0.18
Consensus pattern (12 bp):
AGATACAAATAC
Found at i:59241140 original size:51 final size:50
Alignment explanation
Indices: 59240982--59241137 Score: 242
Period size: 51 Copynumber: 3.1 Consensus size: 50
59240972 ACTTCTGATC
* *
59240982 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* *
59241033 AGTGACAAATGATAA-TGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
*
59241082 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
59241133 AGTGA
1 AGTGA
59241138 TAAATGTGAT
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
49 38 0.40
50 13 0.14
51 45 0.47
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:59246869 original size:29 final size:29
Alignment explanation
Indices: 59246807--59246879 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
59246797 CCTCCGAACT
** * * *
59246807 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
59246836 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
59246865 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
59246880 GATCTTGTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.34, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:59251971 original size:51 final size:50
Alignment explanation
Indices: 59251812--59251968 Score: 251
Period size: 51 Copynumber: 3.1 Consensus size: 50
59251802 ACTTCTGATC
* *
59251812 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* *
59251863 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
*
59251913 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
59251964 AGTGA
1 AGTGA
59251969 TAAATGTGAT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
50 46 0.47
51 52 0.53
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:59261199 original size:21 final size:21
Alignment explanation
Indices: 59261156--59261199 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
59261146 AAAGAATATG
* *
59261156 AAACTAAAGGAACTCAACAAA
1 AAACTAAAGCAACTAAACAAA
*
59261177 AAACTAAAGCAA-TAAACATA
1 AAACTAAAGCAACTAAACAAA
59261197 AAA
1 AAA
59261200 GGAATAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.66, C:0.16, G:0.07, T:0.11
Consensus pattern (21 bp):
AAACTAAAGCAACTAAACAAA
Found at i:59263559 original size:30 final size:29
Alignment explanation
Indices: 59263523--59263580 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
59263513 CGGAAGTTGT
59263523 GGCACTAAGTGTGCA-ATTTAAACTAGCTTG
1 GGCACTAAGTGTG-AGATTT-AACTAGCTTG
59263553 GGCACTAAGTGTGAGATTTAACTAGCTT
1 GGCACTAAGTGTGAGATTTAACTAGCTT
59263581 CGGCTATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (29 bp):
GGCACTAAGTGTGAGATTTAACTAGCTTG
Found at i:59265873 original size:42 final size:43
Alignment explanation
Indices: 59265744--59265897 Score: 283
Period size: 43 Copynumber: 3.6 Consensus size: 43
59265734 CCAGCATTAC
59265744 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
59265787 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
59265830 GCCTTCTAGGCACGAAGGCCCGAA-ACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
59265872 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
59265898 TAATACCAGC
Statistics
Matches: 106, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
42 40 0.38
43 66 0.62
ACGTcount: A:0.30, C:0.34, G:0.26, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:59265982 original size:37 final size:38
Alignment explanation
Indices: 59265890--59266012 Score: 131
Period size: 38 Copynumber: 3.2 Consensus size: 38
59265880 GGCACGAAGG
* * * *
59265890 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
**
59265928 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
** * *
59265966 CCC-GATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGG-ATTTAA
59266004 GCCCGGATA
1 -CCCGGATA
59266013 CACATCAAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
37 25 0.35
38 40 0.56
39 3 0.04
40 4 0.06
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:59272865 original size:40 final size:40
Alignment explanation
Indices: 59272764--59272957 Score: 187
Period size: 40 Copynumber: 4.8 Consensus size: 40
59272754 TCGAATGGTG
* * * *
59272764 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* *
59272805 TCCGGG-TCAATTCCCGAAGGCATTCGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
59272845 ACCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
59272885 TCCGGGCTAATTCCCGAAGGCAATT-GTGCGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTA-AA
* * * *
59272926 -CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
59272958 CGCTATATCT
Statistics
Matches: 126, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.02
40 94 0.75
41 30 0.24
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:59272899 original size:80 final size:81
Alignment explanation
Indices: 59272765--59272939 Score: 212
Period size: 80 Copynumber: 2.2 Consensus size: 81
59272755 CGAATGGTGT
* * *
59272765 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGC-ATT
1 CCGGGCTAAGTCCCAAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
59272829 CGTGCGAGTTACCAAAA
66 -GTGCGAGTTACCAAAA
* * *
59272846 CCGGGTTAAGTCCCAAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCAAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * * *
59272909 TGTGCGAATCACTATAA
65 TGTGCGAGTTACCAAAA
*
59272926 CCGGGCTATGTCCC
1 CCGGGCTAAGTCCC
59272940 GAAGACAATC
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 52 0.65
81 27 0.34
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (81 bp):
CCGGGCTAAGTCCCAAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAGTTACCAAAA
Found at i:59283572 original size:40 final size:40
Alignment explanation
Indices: 59283517--59283596 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
59283507 CTCTACGTAG
59283517 AGAAAAAACTGTTGTCACCAATTTTCCTTTCATACTCATT
1 AGAAAAAACTGTTGTCACCAATTTTCCTTTCATACTCATT
59283557 AGAAAAAACTGTTGTCACCAATTTTCCTTTCATACTCATT
1 AGAAAAAACTGTTGTCACCAATTTTCCTTTCATACTCATT
59283597 CTCCTCTCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (40 bp):
AGAAAAAACTGTTGTCACCAATTTTCCTTTCATACTCATT
Found at i:59283622 original size:19 final size:20
Alignment explanation
Indices: 59283595--59283632 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
59283585 TTCATACTCA
59283595 TTCTCCTCTCT-CTTTTTTC
1 TTCTCCTCTCTCCTTTTTTC
*
59283614 TTCTTCTCTCTCCTTTTTT
1 TTCTCCTCTCTCCTTTTTT
59283633 TATTGGGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
TTCTCCTCTCTCCTTTTTTC
Found at i:59286666 original size:42 final size:42
Alignment explanation
Indices: 59286635--59286716 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
59286625 AGGAACATGC
*
59286635 CCGTGTAACTGAGATACACGGTCCTATGGTTGAGAGACACAT
1 CCGTGTAACTGACATACACGGTCCTATGGTTGAGAGACACAT
* * * * *
59286677 CCGTGTGACTGACATACATGGTCATGTGGCTGAGAGACAC
1 CCGTGTAACTGACATACACGGTCCTATGGTTGAGAGACAC
59286717 GCCTTGTAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (42 bp):
CCGTGTAACTGACATACACGGTCCTATGGTTGAGAGACACAT
Found at i:59290228 original size:15 final size:15
Alignment explanation
Indices: 59290210--59290245 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
59290200 TGTCACATGG
59290210 GAATTCTTCCAGGCT
1 GAATTCTTCCAGGCT
*
59290225 GAATTCTTCTAGGCT
1 GAATTCTTCCAGGCT
59290240 GAATTC
1 GAATTC
59290246 AGGAAGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (15 bp):
GAATTCTTCCAGGCT
Found at i:59294947 original size:19 final size:20
Alignment explanation
Indices: 59294912--59294955 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
59294902 AAGGACTAAA
*
59294912 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAGTTCTAAAATTTG
*
59294932 ATGAAAA-TTCTAAAATTTT
1 ATGAAAAGTTCTAAAATTTG
59294951 ATGAA
1 ATGAA
59294956 TACATGTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGAAAAGTTCTAAAATTTG
Found at i:59299297 original size:43 final size:42
Alignment explanation
Indices: 59299245--59299330 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 42
59299235 ACATGTTATT
* *
59299245 ATTTACTATCGTGATAGGTTAGCCTAAATTAAAAGTAATCTA
1 ATTTACTATCATGATAGGTTAGCCTAAATTAAAAGTAACCTA
59299287 ATTTGACTATCATGATAGGTTAGCCTAAATTAAAAGTAACCTA
1 ATTT-ACTATCATGATAGGTTAGCCTAAATTAAAAGTAACCTA
59299330 A
1 A
59299331 ATTAAAAGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (42 bp):
ATTTACTATCATGATAGGTTAGCCTAAATTAAAAGTAACCTA
Found at i:59299331 original size:16 final size:16
Alignment explanation
Indices: 59299310--59299346 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
59299300 GATAGGTTAG
59299310 CCTAAATTAAAAGTAA
1 CCTAAATTAAAAGTAA
59299326 CCTAAATTAAAAGTAA
1 CCTAAATTAAAAGTAA
*
59299342 TCTAA
1 CCTAA
59299347 TTTGGTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (16 bp):
CCTAAATTAAAAGTAA
Found at i:59300338 original size:46 final size:46
Alignment explanation
Indices: 59300270--59300364 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
59300260 CTATAAGCTG
59300270 CCAAAGAAAGAACCAATCGAATCGCTGACACAATGCCTAAAATTAC
1 CCAAAGAAAGAACCAATCGAATCGCTGACACAATGCCTAAAATTAC
*
59300316 CCAAAGAAAGAACCAATTGAATCGCTGACACAATGCCTAAAATTAC
1 CCAAAGAAAGAACCAATCGAATCGCTGACACAATGCCTAAAATTAC
59300362 CCA
1 CCA
59300365 TAACCCGTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.45, C:0.26, G:0.13, T:0.16
Consensus pattern (46 bp):
CCAAAGAAAGAACCAATCGAATCGCTGACACAATGCCTAAAATTAC
Found at i:59302277 original size:18 final size:19
Alignment explanation
Indices: 59302256--59302306 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
59302246 TTAAAATAAA
59302256 TTTATATTTTTTGAATT-T
1 TTTATATTTTTTGAATTCT
*
59302274 TTTA-ATTTTTTTAATTCT
1 TTTATATTTTTTGAATTCT
59302292 TTT-TATTTTTATGAA
1 TTTATATTTTT-TGAA
59302307 GTGTAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 11 0.39
18 14 0.50
19 3 0.11
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTATATTTTTTGAATTCT
Found at i:59303343 original size:2 final size:2
Alignment explanation
Indices: 59303336--59303406 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
59303326 TCCACAACTT
*
59303336 TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59303378 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59303407 CACCTTCTAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:59306568 original size:17 final size:18
Alignment explanation
Indices: 59306546--59306591 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
59306536 TTTCTTTTCA
59306546 ATTTTATTTTTA-TCTTT
1 ATTTTATTTTTATTCTTT
*
59306563 ATTTTATTTTTATTTTTT
1 ATTTTATTTTTATTCTTT
59306581 ATTTTTATTTT
1 A-TTTTATTTT
59306592 CTTAGACTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 12 0.46
18 5 0.19
19 9 0.35
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (18 bp):
ATTTTATTTTTATTCTTT
Found at i:59306579 original size:24 final size:23
Alignment explanation
Indices: 59306547--59306591 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
59306537 TTCTTTTCAA
59306547 TTTTATTTTTATCTTTATTTTAT
1 TTTTATTTTTATCTTTATTTTAT
*
59306570 TTTTATTTTTTATTTTTATTTT
1 TTTTA-TTTTTATCTTTATTTT
59306592 CTTAGACTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTATTTTTATCTTTATTTTAT
Found at i:59306581 original size:7 final size:6
Alignment explanation
Indices: 59306547--59306591 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
59306537 TTCTTTTCAA
*
59306547 TTTTAT TTTTAT CTTTA- TTTTAT TTTTATT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTT
59306592 CTTAGACTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 4 0.11
6 25 0.71
7 6 0.17
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:59308696 original size:55 final size:53
Alignment explanation
Indices: 59308442--59308696 Score: 192
Period size: 55 Copynumber: 4.8 Consensus size: 53
59308432 ACACGGGTAC
* **
59308442 CTTACC-ATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TTGAAA
1 CTTACCAATTGCCATGCCTTGGAATGGTCTTACATGGTATCCTTGCCTTGAAA
* * *
59308491 CTTACC-ATTGTCATGTCTT-GACATGGTCTTACATGGTATCCTTACCTT-ATGAA
1 CTTACCAATTGCCATGCCTTGGA-ATGGTCTTACATGGTATCCTTGCCTTGA--AA
* * * *
59308544 CTCACCAA-TGCCATGCCTTGGCAA-GTTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGG-AATGGTCTTACATGGTATCC-TTGCC-T-T-GAAA
* * * * *
59308599 CTTATCAA-TGCCATGTCTT-GATTTGGTCTTACATGATTTCCTTGCCTTGGAAA
1 CTTACCAATTGCCATGCCTTGGA-ATGGTCTTACATGGTATCCTTGCCTT-GAAA
59308652 CCTTACCAATTGCCATGCCTTGGAATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGGAATGGTCTTACATGGTATCCTT
59308697 AAACCCTAAT
Statistics
Matches: 160, Mismatches: 26, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
49 38 0.24
51 1 0.01
52 4 0.03
53 37 0.23
54 13 0.08
55 63 0.39
56 4 0.03
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (53 bp):
CTTACCAATTGCCATGCCTTGGAATGGTCTTACATGGTATCCTTGCCTTGAAA
Found at i:59317034 original size:46 final size:46
Alignment explanation
Indices: 59316919--59317157 Score: 184
Period size: 46 Copynumber: 5.1 Consensus size: 46
59316909 CCTAGATATG
* * * *
59316919 GTCTTACACTGGCTCATATCTC-AAGTCGATGCCATGTCCCAAACAGG
1 GTCTTACACTGGCTTACATCTCGAAGCCGATG-CATGTCCCAAACA-T
* *
59316966 GTCTTACACTGACTATA-ATCTCGTAGCCGATGCATGTCCCAAACAT
1 GTCTTACACTGGCT-TACATCTCGAAGCCGATGCATGTCCCAAACAT
* * * * *
59317012 GTCTTACACTGGCTTACGTCTCGAGGCTGATGCATGTCCTAGACAT
1 GTCTTACACTGGCTTACATCTCGAAGCCGATGCATGTCCCAAACAT
* * * *
59317058 GTCTTACACTAGCACT-CATCTC-AATGCCTATGCCATGTCCCAGACAT
1 GTCTTACACTGGC-TTACATCTCGAA-GCCGATG-CATGTCCCAAACAT
* ** *
59317105 GGTCTTACACTGGCTCT-CATAAT-GTGGCCAATGCATGTCCCAAACAT
1 -GTCTTACACTGGCT-TACAT-CTCGAAGCCGATGCATGTCCCAAACAT
59317152 GTCTTA
1 GTCTTA
59317158 AACTAGCTCA
Statistics
Matches: 156, Mismatches: 26, Indels: 21
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 64 0.41
47 58 0.37
48 30 0.19
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GTCTTACACTGGCTTACATCTCGAAGCCGATGCATGTCCCAAACAT
Found at i:59317156 original size:140 final size:140
Alignment explanation
Indices: 59316904--59317157 Score: 343
Period size: 140 Copynumber: 1.8 Consensus size: 140
59316894 GTGCCTATGT
* * * *
59316904 CATGTCCTAGATATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAAACAGGGTC
1 CATGTCCTAGACATGGTCTTACACTAGCACATATCTCAAGCCGATGCCATGTCCCAAACAGGGTC
* *
59316969 TTACACTGACTATAATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTC
66 TTACACTGACTATAATATCGTAGCCAATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTC
59317034 GAGGCTGATG
131 GAGGCTGATG
* * *
59317044 CATGTCCTAGACAT-GTCTTACACTAGCAC-TCATCTCAATGCCTATGCCATGTCCCAGACATGG
1 CATGTCCTAGACATGGTCTTACACTAGCACAT-ATCTCAA-GCCGATGCCATGTCCCAAACAGGG
* * * *
59317107 TCTTACACTGGCTCTCATAAT-GTGGCCAATGCATGTCCCAAACATGTCTTA
64 TCTTACACTGACTATAAT-ATCGTAGCCAATGCATGTCCCAAACATGTCTTA
59317158 AACTAGCTCA
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
138 1 0.01
139 20 0.20
140 76 0.78
141 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (140 bp):
CATGTCCTAGACATGGTCTTACACTAGCACATATCTCAAGCCGATGCCATGTCCCAAACAGGGTC
TTACACTGACTATAATATCGTAGCCAATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTC
GAGGCTGATG
Found at i:59326221 original size:2 final size:2
Alignment explanation
Indices: 59326214--59326245 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
59326204 AAATCAGCGA
59326214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59326246 TTGCAACCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59326987 original size:2 final size:2
Alignment explanation
Indices: 59326980--59327014 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
59326970 AGAGTCATAA
59326980 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59327015 ACTGAGAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59329183 original size:21 final size:21
Alignment explanation
Indices: 59329159--59329199 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59329149 GTCAATAGTC
*
59329159 GAGAGCTAACCTCATCTCTAT
1 GAGAGCTAACCTCATATCTAT
*
59329180 GAGATCTAACCTCATATCTA
1 GAGAGCTAACCTCATATCTA
59329200 ATTCTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (21 bp):
GAGAGCTAACCTCATATCTAT
Found at i:59331067 original size:33 final size:33
Alignment explanation
Indices: 59331030--59331093 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
59331020 TTTTTGTACA
*
59331030 TAATTAAATAATTTTATTTTGAATTTTTTTAGT
1 TAATTAAATAATTTTATTTTAAATTTTTTTAGT
* *
59331063 TAATTAAGTATTTTTATTTTAAATTTTTTTA
1 TAATTAAATAATTTTATTTTAAATTTTTTTA
59331094 TTTATCTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (33 bp):
TAATTAAATAATTTTATTTTAAATTTTTTTAGT
Found at i:59331091 original size:15 final size:15
Alignment explanation
Indices: 59331041--59331096 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
59331031 AATTAAATAA
*
59331041 TTTTATTTTGAATTT
1 TTTTATTTTAAATTT
* *
59331056 TTTTAGTTAATTAAGTAT
1 TTTTA-TT--TTAAATTT
59331074 TTTTATTTTAAATTT
1 TTTTATTTTAAATTT
59331089 TTTTATTT
1 TTTTATTT
59331097 ATCTTGTTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
15 19 0.58
16 2 0.06
17 2 0.06
18 10 0.30
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (15 bp):
TTTTATTTTAAATTT
Found at i:59332171 original size:17 final size:16
Alignment explanation
Indices: 59332140--59332170 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59332130 AAAATACTTT
59332140 ATTTAAAATTCTTTTA
1 ATTTAAAATTCTTTTA
*
59332156 ATTTTAAATTCTTTT
1 ATTTAAAATTCTTTT
59332171 TTTCATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTAAAATTCTTTTA
Found at i:59358327 original size:27 final size:26
Alignment explanation
Indices: 59358277--59358371 Score: 91
Period size: 28 Copynumber: 3.5 Consensus size: 26
59358267 GTAGTTTTGG
**
59358277 GGATTTCTTGATGCTTTTCTTATTTTT
1 GGATTTCTTGAAACTTTTC-TATTTTT
59358304 GGATTTCTTGAAACATTTTCTATTTTAT
1 GGATTTCTTGAAAC-TTTTCTATTTT-T
**
59358332 GTTTTTCTTGAAACTTTCTCTATTATTT
1 GGATTTCTTGAAACTTT-TCTATT-TTT
* *
59358360 GGGTATCTTGAA
1 GGATTTCTTGAA
59358372 GTTTTATCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
27 21 0.37
28 34 0.60
29 2 0.04
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (26 bp):
GGATTTCTTGAAACTTTTCTATTTTT
Found at i:59359168 original size:69 final size:68
Alignment explanation
Indices: 59359058--59359190 Score: 167
Period size: 69 Copynumber: 1.9 Consensus size: 68
59359048 TTCAGCTCTC
* * * * **
59359058 TTTGTTTTTTATACAACTACCATGTTGATTGTAAGTCTCATATCTATGGAGCTTTGGCTCTCTTC
1 TTTGTTTTTGATACAAATACCATGTTGATTATAAGTATCATATCTATGGAGCTTTACCTCTCTTC
59359123 GTG
66 GTG
* ** *
59359126 TTTGTTTTTAGATGCAAATACCATGTTGATTATGTGTATCATATTTATGGAGCTTTACCTCTCTT
1 TTTGTTTTT-GATACAAATACCATGTTGATTATAAGTATCATATCTATGGAGCTTTACCTCTCTT
59359191 TCAAGTTGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
68 9 0.17
69 45 0.83
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.47
Consensus pattern (68 bp):
TTTGTTTTTGATACAAATACCATGTTGATTATAAGTATCATATCTATGGAGCTTTACCTCTCTTC
GTG
Found at i:59364350 original size:28 final size:30
Alignment explanation
Indices: 59364318--59364393 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 30
59364308 TGTTTAAAAA
* *
59364318 GTATTTAATTCGTTTTTAAA-TTA-TTTTT
1 GTATTTAATTAGTATTTAAATTTATTTTTT
*
59364346 GTATTTATTTAGTATTTAAATTTATTTTTT
1 GTATTTAATTAGTATTTAAATTTATTTTTT
*
59364376 GTCATTTAAGTTAATATT
1 GT-ATTTAA-TTAGTATT
59364394 ATTGCACTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 17 0.44
29 3 0.08
30 7 0.18
31 5 0.13
32 7 0.18
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (30 bp):
GTATTTAATTAGTATTTAAATTTATTTTTT
Found at i:59364574 original size:18 final size:18
Alignment explanation
Indices: 59364553--59364588 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59364543 TTTTTATTAA
59364553 TTTATATATTTT-AAATTT
1 TTTATA-ATTTTGAAATTT
59364571 TTTATAATTTTGAAATTT
1 TTTATAATTTTGAAATTT
59364589 ATATCTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTATAATTTTGAAATTT
Found at i:59377590 original size:13 final size:13
Alignment explanation
Indices: 59377572--59377601 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
59377562 TGATGTTGAC
59377572 AAATTTTATTTAA
1 AAATTTTATTTAA
59377585 AAATTTTATTTAA
1 AAATTTTATTTAA
59377598 AAAT
1 AAAT
59377602 CGAGTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATTTTATTTAA
Found at i:59388241 original size:33 final size:33
Alignment explanation
Indices: 59388201--59388268 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
59388191 TCAATTTACC
* *
59388201 CTTTTATATATGCTATTAACAGTTTTAATTAAT
1 CTTTTATATATGCTATTAAAAATTTTAATTAAT
59388234 CTTTTATATATGCTATTAAAAATTTTAATTAAT
1 CTTTTATATATGCTATTAAAAATTTTAATTAAT
59388267 CT
1 CT
59388269 CAATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.51
Consensus pattern (33 bp):
CTTTTATATATGCTATTAAAAATTTTAATTAAT
Found at i:59390020 original size:40 final size:39
Alignment explanation
Indices: 59389956--59390123 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 39
59389946 TCTTCAGAAT
* **
59389956 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAA-TGCCTTCGGGTC
* * *** *
59389995 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
59390035 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
* * *
59390075 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTC
59390115 TTAGCCCGG
1 TTAGCCCGG
59390124 TATCATTCAA
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 101 0.94
41 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
Found at i:59390104 original size:80 final size:80
Alignment explanation
Indices: 59389956--59390123 Score: 214
Period size: 80 Copynumber: 2.1 Consensus size: 80
59389946 TCTTCAGAAT
* * ** *
59389956 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCAC
*
59390020 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGAC
** * *
59390035 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCA
1 TTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCA
*
59390099 TAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
59390115 TTAGCCCGG
1 TTAGCCCGG
59390124 TATCATTCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
79 4 0.05
80 70 0.92
81 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCAC
AAATGCCTTCGGGAC
Found at i:59398313 original size:40 final size:40
Alignment explanation
Indices: 59398264--59398431 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
59398254 TCTTCGGAAT
* * *
59398264 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
59398303 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
59398343 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
59398383 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
59398423 TTAGCCCGG
1 TTAGCCCGG
59398432 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:59403374 original size:25 final size:24
Alignment explanation
Indices: 59403345--59403411 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
59403335 ATGTTTTCTA
*
59403345 ATTTTAAAAATAAAAA-ATGAAACCT
1 ATTTTAAAAATAAAAATAT-AAA-AT
**
59403370 ATTTTTTAAATAAAAATATAAAAT
1 ATTTTAAAAATAAAAATATAAAAT
*
59403394 ATTTTCAAAAATCAAAAT
1 ATTTT-AAAAATAAAAAT
59403412 TTATATCAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.18
25 26 0.76
26 2 0.06
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.34
Consensus pattern (24 bp):
ATTTTAAAAATAAAAATATAAAAT
Found at i:59408882 original size:17 final size:18
Alignment explanation
Indices: 59408840--59408888 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
59408830 AGTTGAAAAG
59408840 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
59408859 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
59408876 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
59408889 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:59409874 original size:40 final size:39
Alignment explanation
Indices: 59409745--59409875 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
59409735 TATGCTGGAA
* *
59409745 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTG-TAGTG
** * * * *
59409785 GCTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCAAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTG-TAGTG
* *
59409825 AATCTATCCGGGCTAAGACCCGAAGGCATTTGTGTACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGTA-GTG
*
59409865 ATTAAATCCGG
1 ATTATATCCGG
59409876 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGTAGTG
Found at i:59413752 original size:40 final size:40
Alignment explanation
Indices: 59413669--59413780 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
59413659 TCGAATGATG
* *
59413669 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
59413709 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
*
59413749 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
59413781 CTATTATAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 53 0.85
41 8 0.13
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:59413831 original size:78 final size:80
Alignment explanation
Indices: 59413669--59413820 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 80
59413659 TCGAATGATG
*
59413669 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
*
59413734 GTGCGAGTTCCCAAA
66 GAGCGAGTTCCCAAA
* * ** * *
59413749 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGCT-ATTATAACCGG-CTATG-TCCGAAGGCTT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATAACCGGACTAAGATCCGAAGGCAT
59413810 TTGAGCGAGTT
64 TTGAGCGAGTT
59413821 GCTATATCCG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 20 0.32
79 4 0.06
80 30 0.48
81 8 0.13
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAGCGAGTTCCCAAA
Found at i:59417680 original size:48 final size:48
Alignment explanation
Indices: 59417616--59417796 Score: 254
Period size: 48 Copynumber: 3.8 Consensus size: 48
59417606 GTTATGGCAT
* * *
59417616 TGTGATCCCATTTAAGACCCTGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATTTCTGGGACATGGCATTGGCATCGATA
59417664 TGTGATCCCATGTAAGACCATTTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATTTCTGGGACATGGCATTGGCATCGATA
* * * *
59417712 TGTGATCCCATGTAAGACCATATCTGAGATATGGCTTTGGCATCGATA
1 TGTGATCCCATGTAAGACCATTTCTGGGACATGGCATTGGCATCGATA
* ** * *
59417760 TGCGATTTCGTGTAAGACCATTTTTGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATTTCTGGGACATGGCAT
59417797 CGATATGAGA
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 117 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATTTCTGGGACATGGCATTGGCATCGATA
Found at i:59417700 original size:42 final size:42
Alignment explanation
Indices: 59417653--59417822 Score: 126
Period size: 48 Copynumber: 3.8 Consensus size: 42
59417643 GACATGGCAT
59417653 TGGCATCGATATGTGATCCCATGTAAGACCATTTCTGGGACATGGCA
1 TGGCATCGATATGTGATCCCATGTAAGACCATTTCTGGG--A---CA
* * *
59417700 TTGGCATCGATATGTGATCCCATGTAAGACCATATCTGAGATATGGCTT
1 -TGGCATCGATATGTGATCCCATGTAAGACCATTTCTG-G----GAC-A
* ** * *
59417749 TGGCATCGATATGCGATTTCGTGTAAGACCATTTTTGGGACA
1 TGGCATCGATATGTGATCCCATGTAAGACCATTTCTGGGACA
* *
59417791 TGGCATCGATATGAGA-CTTCATGTAAGACCAT
1 TGGCATCGATATGTGATC-CCATGTAAGACCAT
59417823 AGTTGGACTA
Statistics
Matches: 101, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 28 0.28
43 2 0.02
47 1 0.01
48 68 0.67
49 1 0.01
53 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
TGGCATCGATATGTGATCCCATGTAAGACCATTTCTGGGACA
Found at i:59417836 original size:42 final size:42
Alignment explanation
Indices: 59417749--59417839 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
59417739 GATATGGCTT
* * * **
59417749 TGGCATCGATATGCGATTTCGTGTAAGACCATTTTTGGGACA
1 TGGCATCGATATGAGACTTCATGTAAGACCATAGTTGGGACA
59417791 TGGCATCGATATGAGACTTCATGTAAGACCATAGTT-GGACTA
1 TGGCATCGATATGAGACTTCATGTAAGACCATAGTTGGGAC-A
59417833 TGGCATC
1 TGGCATC
59417840 AAGTAAACGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 4 0.09
42 39 0.91
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGGCATCGATATGAGACTTCATGTAAGACCATAGTTGGGACA
Found at i:59418994 original size:15 final size:15
Alignment explanation
Indices: 59418970--59419012 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
59418960 ATTTGTTGAG
*
59418970 ATGTAGTTTGAGTTAT
1 ATGTA-TTTGAGCTAT
59418986 ATGTATTTGAGCTAT
1 ATGTATTTGAGCTAT
59419001 ATGTATTTGAGC
1 ATGTATTTGAGC
59419013 ATGTCCTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.47
Consensus pattern (15 bp):
ATGTATTTGAGCTAT
Found at i:59425448 original size:23 final size:24
Alignment explanation
Indices: 59425422--59425467 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
59425412 ATCTTCTCGA
* *
59425422 TTTGGTCCGTTTTGTC-CCTTTTT
1 TTTGCTCCGTTTTGGCTCCTTTTT
*
59425445 TTTGCTCGGTTTTGGCTCCTTTT
1 TTTGCTCCGTTTTGGCTCCTTTT
59425468 GACTCTTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.00, C:0.22, G:0.20, T:0.59
Consensus pattern (24 bp):
TTTGCTCCGTTTTGGCTCCTTTTT
Found at i:59437897 original size:13 final size:13
Alignment explanation
Indices: 59437881--59437918 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
59437871 ACTCTCGGCC
*
59437881 GCCATTGGCCACT
1 GCCATTGACCACT
*
59437894 GCCATTGACCATT
1 GCCATTGACCACT
59437907 GCCATTGACCAC
1 GCCATTGACCAC
59437919 CACTGCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.24
Consensus pattern (13 bp):
GCCATTGACCACT
Found at i:59438935 original size:37 final size:37
Alignment explanation
Indices: 59438872--59438980 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
59438862 AGCTCAGATG
* * * *
59438872 AAATCTCCACACGAAGTTACCTGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
59438909 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
59438946 TAATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
59438981 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:59439181 original size:48 final size:48
Alignment explanation
Indices: 59439122--59439410 Score: 497
Period size: 48 Copynumber: 6.0 Consensus size: 48
59439112 TATACACACG
* * * *
59439122 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
59439170 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* * *
59439218 TCTCATATATATTTCACATTATCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
59439266 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
59439314 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
59439362 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
59439410 T
1 T
59439411 ATTTATCTTG
Statistics
Matches: 229, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 229 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:59442904 original size:16 final size:15
Alignment explanation
Indices: 59442873--59442913 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
59442863 ATATTTATGA
59442873 AATTAATTTT-AATT
1 AATTAATTTTCAATT
59442887 AATTAATTTTCCAATT
1 AATTAATTTT-CAATT
*
59442903 AAATAATTTTC
1 AATTAATTTTC
59442914 TCAACCAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 10 0.42
15 1 0.04
16 13 0.54
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:59445953 original size:25 final size:25
Alignment explanation
Indices: 59445818--59446021 Score: 175
Period size: 25 Copynumber: 8.3 Consensus size: 25
59445808 TTGCTTTTCG
* * * **
59445818 GAGCTTCCCGATAAATGACTCTTAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * *
59445843 GAGCTTCCCATTA-ATGACTCTCCA-
1 GAGCTTCCCGTTATATGGCTC-ACAT
* * *
59445867 GAGCTTCCTGATAT-TGGCTCACTT
1 GAGCTTCCCGTTATATGGCTCACAT
* * *
59445891 GAACTTACCGTTA-ATGGCTCTCCA-
1 GAGCTTCCCGTTATATGGCTC-ACAT
* *
59445915 GAGCTTCCCTTTATATGCCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
*
59445940 GAGCTTCTCGTTATATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
*
59445965 GAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
* *
59445990 GAGCTTCCCGTTATATGGCTCAAAA
1 GAGCTTCCCGTTATATGGCTCACAT
59446015 GAGCTTC
1 GAGCTTC
59446022 TCGATTTCAT
Statistics
Matches: 143, Mismatches: 29, Indels: 14
0.77 0.16 0.08
Matches are distributed among these distances:
23 1 0.01
24 49 0.34
25 93 0.65
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:59451888 original size:15 final size:16
Alignment explanation
Indices: 59451861--59451897 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
59451851 TTTTTAAATC
59451861 TTTT-TTATCATATAT
1 TTTTATTATCATATAT
59451876 TTTTATTAT-ATATAT
1 TTTTATTATCATATAT
*
59451891 ATTTATT
1 TTTTATT
59451898 CCTTTTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTATCATATAT
Found at i:59451920 original size:13 final size:14
Alignment explanation
Indices: 59451902--59451931 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
59451892 TTTATTCCTT
59451902 TTTATGTTA-TATA
1 TTTATGTTACTATA
59451915 TTTATGTTACTATA
1 TTTATGTTACTATA
59451929 TTT
1 TTT
59451932 TTATATGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTATGTTACTATA
Found at i:59452004 original size:15 final size:15
Alignment explanation
Indices: 59451980--59452119 Score: 51
Period size: 15 Copynumber: 9.3 Consensus size: 15
59451970 ATCCCTTATC
59451980 ATATTATATTTCAT-T
1 ATATTATATTT-ATAT
*
59451995 ATATTCTATTTATAT
1 ATATTATATTTATAT
* *
59452010 ATATT-TGTTACATATT
1 ATATTATATT-TATA-T
* *
59452026 ATGTTTTA-TTATAT
1 ATATTATATTTATAT
* *
59452040 ATCATAATATTTTTTAT
1 AT-ATTATA-TTTATAT
*
59452057 ATATTGTA-TTATAT
1 ATATTATATTTATAT
**
59452071 ACGTTATA-TTATAT
1 ATATTATATTTATAT
* *
59452085 AT-TTTTATATTATAC
1 ATATTATAT-TTATAT
*
59452100 A-ATTTATATTTTTAT
1 ATA-TTATATTTATAT
59452115 ATATT
1 ATATT
59452120 TTAAAAAAAA
Statistics
Matches: 91, Mismatches: 22, Indels: 24
0.66 0.16 0.18
Matches are distributed among these distances:
13 4 0.04
14 25 0.27
15 38 0.42
16 16 0.18
17 8 0.09
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (15 bp):
ATATTATATTTATAT
Found at i:59452054 original size:22 final size:21
Alignment explanation
Indices: 59452020--59452060 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
59452010 ATATTTGTTA
*
59452020 CATATTATGTTTTATTATATAT
1 CATAATATGTTTTA-TATATAT
*
59452042 CATAATATTTTTTATATAT
1 CATAATATGTTTTATATAT
59452061 TGTATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (21 bp):
CATAATATGTTTTATATATAT
Found at i:59455102 original size:29 final size:27
Alignment explanation
Indices: 59455040--59455121 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 27
59455030 TTTTTAAATT
*
59455040 ATTATAAAATTATTAAATAATAATTATAA
1 ATTATAAAA-TATT-ATTAATAATTATAA
59455069 ATTATAAAA-ATTATTAATAATTATAAA
1 ATTATAAAATATTATTAATAATTAT-AA
*
59455096 TAGTTATAAAATATTATCAA-AATTAT
1 -A-TTATAAAATATTATTAATAATTAT
59455122 TAAGAATTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
26 11 0.23
27 5 0.11
28 1 0.02
29 23 0.49
30 7 0.15
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (27 bp):
ATTATAAAATATTATTAATAATTATAA
Found at i:59455112 original size:39 final size:39
Alignment explanation
Indices: 59455069--59455144 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
59455059 ATAATTATAA
* *
59455069 ATTATAAAAATTATTAATAATTATAAATAGTTATAAAAT
1 ATTATAAAAATTATTAAGAATTATAAAAAGTTATAAAAT
* *
59455108 ATTATCAAAATTATTAAGAATTCTAAAAAGTTATAAA
1 ATTATAAAAATTATTAAGAATTATAAAAAGTTATAAA
59455145 TTCTTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (39 bp):
ATTATAAAAATTATTAAGAATTATAAAAAGTTATAAAAT
Found at i:59455144 original size:10 final size:9
Alignment explanation
Indices: 59455040--59455144 Score: 68
Period size: 10 Copynumber: 10.9 Consensus size: 9
59455030 TTTTTAAATT
59455040 ATTAT-AAA
1 ATTATAAAA
59455048 ATTATTAAATA
1 ATTA-TAAA-A
* *
59455059 ATAATTATAA
1 ATTA-TAAAA
59455069 ATTATAAAA
1 ATTATAAAA
*
59455078 ATTATTAATA
1 ATTA-TAAAA
59455088 ATTATAAATA
1 ATTATAAA-A
*
59455098 GTTATAAAA
1 ATTATAAAA
*
59455107 TATTATCAAA
1 -ATTATAAAA
*
59455117 ATTATTAAGA
1 ATTA-TAAAA
*
59455127 ATTCTAAAA
1 ATTATAAAA
59455136 AGTTATAAA
1 A-TTATAAA
59455145 TTCTTTTTAT
Statistics
Matches: 75, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
8 4 0.05
9 22 0.29
10 41 0.55
11 8 0.11
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (9 bp):
ATTATAAAA
Found at i:59456501 original size:2 final size:2
Alignment explanation
Indices: 59456494--59456531 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
59456484 AGTAAACAAG
59456494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59456532 TAAATAAGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59465452 original size:40 final size:39
Alignment explanation
Indices: 59465407--59465614 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
59465397 CGGAATACAA
*
59465407 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
59465447 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
59465487 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
59465527 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
59465567 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
59465607 CCGGATAT
1 CCGGATAT
59465615 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:59465547 original size:80 final size:81
Alignment explanation
Indices: 59465407--59465612 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
59465397 CGGAATACAA
* * *
59465407 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
59465471 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
59465487 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
59465550 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
59465567 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
59465613 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:59469004 original size:43 final size:42
Alignment explanation
Indices: 59468898--59469069 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 42
59468888 ATATAGCTTG
* * * * *
59468898 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCATA
* * * *
59468939 TTATCGATACTAATGTCCCAGACATGGTCTTACACGAAATCATA
1 -TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCATA
* *
59468983 TA-ATGATGTCAATGTCCCAGACATGGTCTTACACGTAATCACAA
1 TACA--ATGCCAATGTCCCAGACATGGTCTTACACGTAATCA-TA
* *
59469027 TACAATGCCAATGTCCCAGAAATGGTCTTACATGTAATCATA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCATA
59469069 T
1 T
59469070 CTCAGTAATC
Statistics
Matches: 105, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
42 4 0.04
43 71 0.68
44 29 0.28
45 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCATA
Found at i:59469066 original size:86 final size:87
Alignment explanation
Indices: 59468910--59469069 Score: 223
Period size: 86 Copynumber: 1.9 Consensus size: 87
59468900 CAATGCCATA
* * * * * * *
59468910 TCCCAGATATGGTCTTACATGTTATCACATTATCGATACTAATGTCCCAGACATGGTCTTACACG
1 TCCCAGACATGGTCTTACACGTAATCACAATATCAATACCAATGTCCCAGAAATGGTCTTACACG
59468975 AAATCATATAATGATGTCAATG
66 AAATCATATAATGATGTCAATG
* *
59468997 TCCCAGACATGGTCTTACACGTAATCACAATA-CAATGCCAATGTCCCAGAAATGGTCTTACATG
1 TCCCAGACATGGTCTTACACGTAATCACAATATCAATACCAATGTCCCAGAAATGGTCTTACACG
*
59469061 TAATCATAT
66 AAATCATAT
59469070 CTCAGTAATC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
86 35 0.56
87 28 0.44
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (87 bp):
TCCCAGACATGGTCTTACACGTAATCACAATATCAATACCAATGTCCCAGAAATGGTCTTACACG
AAATCATATAATGATGTCAATG
Found at i:59471122 original size:11 final size:11
Alignment explanation
Indices: 59471106--59471161 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
59471096 TACGCACTTG
59471106 TTCGACCAA-GA
1 TTCGA-CAATGA
59471117 TTCGACAATGA
1 TTCGACAATGA
* * *
59471128 TTCGATAGTAA
1 TTCGACAATGA
59471139 TTCGA-AATGA
1 TTCGACAATGA
*
59471149 TTCGACTATGA
1 TTCGACAATGA
59471160 TT
1 TT
59471162 TGGTATTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
10 11 0.30
11 26 0.70
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (11 bp):
TTCGACAATGA
Found at i:59471374 original size:47 final size:47
Alignment explanation
Indices: 59471277--59471376 Score: 121
Period size: 47 Copynumber: 2.1 Consensus size: 47
59471267 GCGAGTTATG
* * * * * *
59471277 CCTTGATTTGGCTTCAGGCTATGGTATAGGTACTCTGGGTATAAGTT
1 CCTTGATTTGGCTACAAGCCATGGTATAGGTACTATCGGTATAAGAT
*
59471324 CCTTGATTTGGCTACAAGCCATGGTATAGGTACTTATCGGT-TGAGAT
1 CCTTGATTTGGCTACAAGCCATGGTATAGGTAC-TATCGGTATAAGAT
59471371 CCTTGA
1 CCTTGA
59471377 ATATCTGACT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 40 0.89
48 5 0.11
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (47 bp):
CCTTGATTTGGCTACAAGCCATGGTATAGGTACTATCGGTATAAGAT
Found at i:59473448 original size:42 final size:42
Alignment explanation
Indices: 59473386--59473468 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
59473376 TGTGCGTTTC
* *
59473386 CGGTCTCTATCTCTTAACCAAAGTACTAATGAGTGAGGGATT
1 CGGTCTCTATCTCTTAACCAAAGCACTAACGAGTGAGGGATT
* * * *
59473428 CGGTCTCTGTGTCTTGACCAAAGCACTAACGAGTGGGGGAT
1 CGGTCTCTATCTCTTAACCAAAGCACTAACGAGTGAGGGAT
59473469 CCAATTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (42 bp):
CGGTCTCTATCTCTTAACCAAAGCACTAACGAGTGAGGGATT
Found at i:59477748 original size:11 final size:12
Alignment explanation
Indices: 59477727--59477751 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59477717 CATTACATCC
59477727 AAAAGGAAAAAA
1 AAAAGGAAAAAA
59477739 AAAAGGAAAAAA
1 AAAAGGAAAAAA
59477751 A
1 A
59477752 CAAGACAACC
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAGGAAAAAA
Found at i:59496151 original size:40 final size:40
Alignment explanation
Indices: 59496106--59496272 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
59496096 CGGAATATAA
59496106 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59496146 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59496186 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59496226 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59496265 CCGGATAT
1 CCGGATAT
59496273 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59496256 original size:80 final size:79
Alignment explanation
Indices: 59496122--59496272 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
59496112 ATAATCACGT
*
59496122 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
59496187 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
59496202 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
59496265 CCGGATAT
64 CCGGATAT
59496273 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:59497118 original size:17 final size:19
Alignment explanation
Indices: 59497095--59497140 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
59497085 AAGAAGCATG
59497095 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
59497113 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
59497131 AATCATGCTC
1 AATCATGCTC
59497141 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:59526778 original size:11 final size:11
Alignment explanation
Indices: 59526762--59526804 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
59526752 ATGGCTAATG
59526762 TGAGATATGTA
1 TGAGATATGTA
59526773 TGAGATATG--
1 TGAGATATGTA
*
59526782 TGAAATATGTA
1 TGAGATATGTA
59526793 TGAGATATGTA
1 TGAGATATGTA
59526804 T
1 T
59526805 ATGTGGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.29
11 20 0.71
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (11 bp):
TGAGATATGTA
Found at i:59526784 original size:20 final size:20
Alignment explanation
Indices: 59526759--59526802 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
59526749 CGAATGGCTA
*
59526759 ATGTGAGATATGTATGAGAT
1 ATGTGAAATATGTATGAGAT
59526779 ATGTGAAATATGTATGAGAT
1 ATGTGAAATATGTATGAGAT
59526799 ATGT
1 ATGT
59526803 ATATGTGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (20 bp):
ATGTGAAATATGTATGAGAT
Found at i:59526832 original size:48 final size:48
Alignment explanation
Indices: 59526779--59526898 Score: 213
Period size: 48 Copynumber: 2.5 Consensus size: 48
59526769 TGTATGAGAT
59526779 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
59526827 ATGTGAAATAGGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
59526875 ATGTGAAATATGTATGAGGTATGT
1 ATGTGAAATATGTATGAGATATGT
59526899 GAAATATGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
Found at i:59526869 original size:116 final size:116
Alignment explanation
Indices: 59526727--59527016 Score: 492
Period size: 116 Copynumber: 2.5 Consensus size: 116
59526717 TTGATGCATA
* *
59526727 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAGATATGTATGAGATATGTGAAATATGT
1 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTGAAATATGT
59526792 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAGGTATG
66 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAGGTATG
*
59526843 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGGTATGTGAAATATGT
1 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTGAAATATGT
*
59526908 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
66 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAGGTATG
* *
59526959 AGAGATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGT
1 AGATATGCATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGT
59527017 ATATGTGGTA
Statistics
Matches: 164, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
115 1 0.01
116 146 0.89
117 2 0.01
118 15 0.09
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (116 bp):
AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTGAAATATGT
ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAGGTATG
Found at i:59526899 original size:68 final size:68
Alignment explanation
Indices: 59526827--59526960 Score: 250
Period size: 68 Copynumber: 2.0 Consensus size: 68
59526817 CGAATGGCTA
59526827 ATGTGAAATAGGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATAGGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
59526892 GGT
66 GGT
* *
59526895 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATAGGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
59526960 G
66 G
59526961 AGATGCATAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (68 bp):
ATGTGAAATAGGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
GGT
Found at i:59526900 original size:20 final size:20
Alignment explanation
Indices: 59526875--59526918 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
59526865 CGAATGGCTA
*
59526875 ATGTGAAATATGTATGAGGT
1 ATGTGAAATATGTATGAGAT
59526895 ATGTGAAATATGTATGAGAT
1 ATGTGAAATATGTATGAGAT
59526915 ATGT
1 ATGT
59526919 ATATGTGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (20 bp):
ATGTGAAATATGTATGAGAT
Found at i:59527030 original size:50 final size:48
Alignment explanation
Indices: 59526896--59527200 Score: 495
Period size: 48 Copynumber: 6.3 Consensus size: 48
59526886 GTATGAGGTA
*
59526896 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
* * *
59526944 TGTGAAATATGTATGAGAGATGCATATGTGGTAAAGCCGAATGG-TCAA
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AG
*
59526992 TGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
1 TGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
* *
59527042 TGTGAAATATATATATGAGATACGTATATGTGGTAAAGCCGAATGGCTAG
1 TGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
59527092 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
59527140 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
59527188 TGTGAAATATGTA
1 TGTGAAATATGTA
59527201 GGCAATGTGT
Statistics
Matches: 244, Mismatches: 9, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
47 1 0.00
48 149 0.61
49 4 0.02
50 89 0.36
51 1 0.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
Found at i:59527216 original size:98 final size:96
Alignment explanation
Indices: 59526896--59527200 Score: 495
Period size: 98 Copynumber: 3.1 Consensus size: 96
59526886 GTATGAGGTA
*
59526896 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
59526961 AGATGCATATGTGGTAAAGCCGAATGG-TCAA
66 ATATGTATATGTGGTAAAGCCGAATGGCT-AG
* *
59526992 TGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATA
1 TGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTA
*
59527057 TGAGATACGTATATGTGGTAAAGCCGAATGGCTAG
62 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
59527092 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
59527157 ATATGTATATGTGGTAAAGCCGAATGGCTAG
66 ATATGTATATGTGGTAAAGCCGAATGGCTAG
59527188 TGTGAAATATGTA
1 TGTGAAATATGTA
59527201 GGCAATGTGT
Statistics
Matches: 194, Mismatches: 10, Indels: 10
0.91 0.05 0.05
Matches are distributed among these distances:
96 57 0.29
97 4 0.02
98 89 0.46
99 4 0.02
100 39 0.20
101 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (96 bp):
TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
ATATGTATATGTGGTAAAGCCGAATGGCTAG
Found at i:59527492 original size:37 final size:37
Alignment explanation
Indices: 59527347--59527491 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
59527337 GGAAATATAT
59527347 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
59527384 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
59527421 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
59527458 TCCGGGTAAGACCCGATAACTTCGTGTGTAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
59527492 TCATCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:59538997 original size:27 final size:27
Alignment explanation
Indices: 59538965--59539441 Score: 180
Period size: 27 Copynumber: 17.7 Consensus size: 27
59538955 TTAGTTTACC
* *
59538965 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* **** *
59538992 GAATTACCGTTCTACCCTCAATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ***
59539019 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
**** * *
59539046 AAATTACCGTTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
59539073 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
59539100 AAATTACTAAAATACCCCCTGATTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
**
59539128 AAATTACTGAAATACCCTCGACTTGTA-A
1 AAATTACCAAAATACCCTCGA-TT-TATA
*
59539156 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *** *
59539183 GAATTTCTATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** *
59539210 GAATTACTATTTTACCCT-GATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
*** * *
59539236 AAATTACCATTTTACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTCGATTTATA
** * ***
59539262 AAATTACTGAAATACCC-CTATAGGGTA
1 AAATTACCAAAATACCCTCGAT-TTATA
* * * * *
59539289 GAATTACCAAAACACCC-CTAGCTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
59539316 AAATTACCAAAATACCACTAG-TTTGTG
1 AAATTACCAAAATACC-CTCGATTTATA
* * * *
59539343 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
59539370 AAATTACCAAAATACCC-CTAATTTACA
1 AAATTACCAAAATACCCTC-GATTTATA
* *
59539397 AAATTA-CAGAAATACCCTTGATTTGTA
1 AAATTACCA-AAATACCCTCGATTTATA
* * *
59539424 GATTTACCAAAACACCCT
1 AAATTACCAAAATACCCT
59539442 TGTAGGATGA
Statistics
Matches: 353, Mismatches: 81, Indels: 32
0.76 0.17 0.07
Matches are distributed among these distances:
25 2 0.01
26 45 0.13
27 255 0.72
28 50 0.14
29 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:59539127 original size:28 final size:28
Alignment explanation
Indices: 59539072--59539172 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 28
59539062 CTTGATTTAC
*
59539072 AAAATTACTAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
59539099 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
* * *
59539127 AAAATTACTGAAATACCCTC-GACTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
* *
59539154 AAAAATTACCAAAGTACCC
1 -AAAATTACTAAAATACCC
59539173 TCGATTTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
27 21 0.32
28 44 0.68
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGATTTGT
Found at i:59540269 original size:20 final size:20
Alignment explanation
Indices: 59540244--59540330 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
59540234 GATATGATAT
*
59540244 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
59540264 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
59540284 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
59540304 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
59540324 ACATGAT
1 ACATGAT
59540331 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:59540458 original size:52 final size:51
Alignment explanation
Indices: 59540380--59540515 Score: 215
Period size: 52 Copynumber: 2.7 Consensus size: 51
59540370 GAGGAAGTGC
*
59540380 AAAAGGGCTTATGCCCAAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
59540432 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
59540483 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
59540516 AGGCCTCCAG
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 24 0.30
52 35 0.43
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:59540477 original size:25 final size:26
Alignment explanation
Indices: 59540380--59540515 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
59540370 GAGGAAGTGC
*
59540380 AAAAGGGCTTATGCCCAAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
59540406 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
59540432 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
59540458 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
59540483 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
59540506 AAAAGAGGCT
1 AAAAG-GGCT
59540516 AGGCCTCCAG
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 29 0.30
26 57 0.58
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:59540713 original size:42 final size:42
Alignment explanation
Indices: 59540648--59540739 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
59540638 TAGTCTCCCC
* ** *
59540648 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
* *
59540690 AAATGGGCTTGCATATATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
59540732 AAATGGGC
1 AAATGGGC
59540740 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:59540798 original size:31 final size:31
Alignment explanation
Indices: 59540763--59540841 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
59540753 CGTTTACAGT
59540763 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
59540794 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
59540825 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
59540842 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:59543545 original size:29 final size:29
Alignment explanation
Indices: 59543521--59543621 Score: 175
Period size: 29 Copynumber: 3.5 Consensus size: 29
59543511 CTTGTATCTA
59543521 GCCCATTAGGCCCAAATCACCTGTATATG
1 GCCCATTAGGCCCAAATCACCTGTATATG
59543550 GCCCATTAGGCCCAAATCACCTGTATATG
1 GCCCATTAGGCCCAAATCACCTGTATATG
* *
59543579 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACCTGTATATG
*
59543608 GCCCGTTAGGCCCA
1 GCCCATTAGGCCCA
59543622 GTCACATTCA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACCTGTATATG
Found at i:59545847 original size:27 final size:27
Alignment explanation
Indices: 59545817--59545872 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
59545807 CTCTGAGAAA
**
59545817 ACTCACTCCCTTTGTGGAGCTATCAGT
1 ACTCACTCCCTCCGTGGAGCTATCAGT
*
59545844 ACTCGCTCCCTCCGTGGAGCTATCAGT
1 ACTCACTCCCTCCGTGGAGCTATCAGT
59545871 AC
1 AC
59545873 CCTGAAGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.18, C:0.34, G:0.20, T:0.29
Consensus pattern (27 bp):
ACTCACTCCCTCCGTGGAGCTATCAGT
Found at i:59548138 original size:29 final size:29
Alignment explanation
Indices: 59548104--59548209 Score: 158
Period size: 29 Copynumber: 3.7 Consensus size: 29
59548094 AATCATATTC
*
59548104 ATATGGCCCATTAGGCCCAAATTACCTGT
1 ATATGGCCCATTAGGCCCAAATCACCTGT
*
59548133 ATATGGTCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACCTGT
* * *
59548162 ATATGGTCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACCTGT
*
59548191 ATATCGCCCATTAGGCCCA
1 ATATGGCCCATTAGGCCCA
59548210 GTCACATTCA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTGT
Found at i:59550662 original size:30 final size:30
Alignment explanation
Indices: 59550626--59550687 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
59550616 AGTAAGCTAT
59550626 TAAGCTTAGTAAGCTCGTATGCCTAATAAG
1 TAAGCTTAGTAAGCTCGTATGCCTAATAAG
*
59550656 TAAGCTTAGTAAGCTCGTATGGCTAATAAG
1 TAAGCTTAGTAAGCTCGTATGCCTAATAAG
59550686 TA
1 TA
59550688 CATCTTACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (30 bp):
TAAGCTTAGTAAGCTCGTATGCCTAATAAG
Found at i:59554068 original size:48 final size:47
Alignment explanation
Indices: 59553846--59554070 Score: 142
Period size: 48 Copynumber: 4.8 Consensus size: 47
59553836 TATGTACGAT
* *
59553846 TCTATGTAAGACCATGTCTGGGACATGGCTTTGGCATAGATATGTAA
1 TCTATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATATGTGA
* * *
59553893 TTTCATATAAGACCATAG-CTGGG-CTAT--C---GGAATCGATATGTGA
1 TCT-ATGTAAGACCAT-GTCTGGGAC-ATGGCTTTGGCATCGATATGTGA
* * ** * * * ** **
59553936 TCTCGTGTAAGACCATGTTTATGACATGACATTGGCATTGACCTACGA
1 TCT-ATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATATGTGA
* * *
59553984 TCCTATGTAAGACGATGTTTGGGACATGG-TACTGGCATCGATATGTGA
1 T-CTATGTAAGACCATGTCTGGGACATGGCT-TTGGCATCGATATGTGA
* *
59554032 TCCTATGTAAGACCATATCTGGGATATGGCTTTGGCATC
1 T-CTATGTAAGACCATGTCTGGGACATGGCTTTGGCATC
59554071 CTACCATGTG
Statistics
Matches: 131, Mismatches: 34, Indels: 25
0.69 0.18 0.13
Matches are distributed among these distances:
42 1 0.01
43 29 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 3 0.02
48 91 0.69
49 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (47 bp):
TCTATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATATGTGA
Found at i:59555966 original size:45 final size:45
Alignment explanation
Indices: 59555911--59556056 Score: 265
Period size: 45 Copynumber: 3.2 Consensus size: 45
59555901 ATTAGGATCG
*
59555911 AGGCCCGAATAATATCTCACCGGCATTATAGCTTGCTAGGCTCAA
1 AGGCCCGAATAATATCTCACCGGCATTATAGCCTGCTAGGCTCAA
59555956 AGGCCCGAATAATATCTCACCGGCATTATAGCCTGCTAGGCTCAA
1 AGGCCCGAATAATATCTCACCGGCATTATAGCCTGCTAGGCTCAA
**
59556001 AGGCCCGAATAATATCTCACATGCATTATAGCCTGCTAGGCTCAA
1 AGGCCCGAATAATATCTCACCGGCATTATAGCCTGCTAGGCTCAA
59556046 AGGCCCGAATA
1 AGGCCCGAATA
59556057 GTACTGTACA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
AGGCCCGAATAATATCTCACCGGCATTATAGCCTGCTAGGCTCAA
Found at i:59558241 original size:40 final size:40
Alignment explanation
Indices: 59558179--59558321 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
59558169 ATGATAACCG
* * *
59558179 GGCTAAGTCCCGAGGGCATTTGTGCTAGTGACTAATTCCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCA
* *
59558219 GGCTAAGTCCCGAAGGCGTTTGTGCGAGTTACTATATT-CG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCA
* *
59558259 GGCTAGGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCA
59558299 GGCTAAGTCCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGT
59558322 AACACCCCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.02
40 85 0.94
41 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCA
Found at i:59559726 original size:40 final size:40
Alignment explanation
Indices: 59559681--59559810 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
59559671 CGGAATATAA
59559681 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
59559721 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
59559761 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
59559801 CCGGATATAA
1 CCGGATATAA
59559811 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:59559825 original size:40 final size:39
Alignment explanation
Indices: 59559697--59559847 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
59559687 ATAACCATGT
* * *
59559697 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
59559737 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
59559777 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
59559816 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
59559848 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:59559831 original size:80 final size:79
Alignment explanation
Indices: 59559681--59559847 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
59559671 CGGAATATAA
*
59559681 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
59559746 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
59559761 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
59559823 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
59559840 CCGGATAT
1 CCGGATAT
59559848 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:59566238 original size:33 final size:33
Alignment explanation
Indices: 59566196--59566264 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
59566186 AATTGCATTT
59566196 ATTCCTAGTAATAAACTAAAACCATCATGGAAC
1 ATTCCTAGTAATAAACTAAAACCATCATGGAAC
59566229 ATTCCTAGTAATAAACTAAAACCATCATGGAAC
1 ATTCCTAGTAATAAACTAAAACCATCATGGAAC
59566262 ATT
1 ATT
59566265 TTCCTAACTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (33 bp):
ATTCCTAGTAATAAACTAAAACCATCATGGAAC
Found at i:59569135 original size:40 final size:40
Alignment explanation
Indices: 59569086--59569293 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
59569076 TCTTCGGAAT
* * *
59569086 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
59569125 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
59569165 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTTGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* * * *
59569205 TTAGCTCGGATATAATCACTAGCATAAATGCCTTAGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
59569245 TTAGCCCGAATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
59569285 TTAGCCCGG
1 TTAGCCCGG
59569294 GTATCATTCA
Statistics
Matches: 139, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 3 0.02
40 135 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:59572630 original size:40 final size:40
Alignment explanation
Indices: 59572575--59572782 Score: 242
Period size: 40 Copynumber: 5.2 Consensus size: 40
59572565 TGAATGATAC
* *
59572575 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
59572615 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
*
59572655 CCGGGCTAAGACCCGAAGGCATTCGTG-TGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGATTATAT
* * * ** *
59572695 CCGGGCTAAGACCTGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
59572735 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
59572775 CC-GGCTAA
1 CCGGGCTAA
59572783 ATTCTGAAGA
Statistics
Matches: 143, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 7 0.05
40 134 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:59581688 original size:30 final size:30
Alignment explanation
Indices: 59581633--59581792 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
59581623 ATAGTGAATC
59581633 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
59581662 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
59581692 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
59581721 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
59581749 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
59581779 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59581793 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:59581725 original size:59 final size:57
Alignment explanation
Indices: 59581633--59581792 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
59581623 ATAGTGAATC
*
59581633 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
59581692 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
59581749 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
59581793 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:59589716 original size:29 final size:29
Alignment explanation
Indices: 59589684--59589872 Score: 265
Period size: 29 Copynumber: 6.5 Consensus size: 29
59589674 ATAGTGAATC
59589684 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
59589713 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
59589742 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
59589772 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * *
59589801 CGCACACTTAGTGCTGTATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
59589829 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
59589859 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59589873 CAATCTTGTC
Statistics
Matches: 148, Mismatches: 7, Indels: 9
0.90 0.04 0.05
Matches are distributed among these distances:
27 2 0.01
28 21 0.14
29 78 0.53
30 46 0.31
31 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:59589781 original size:59 final size:59
Alignment explanation
Indices: 59589684--59589872 Score: 269
Period size: 59 Copynumber: 3.2 Consensus size: 59
59589674 ATAGTGAATC
59589684 CGCACACTTAGTGCTATAT-ATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
59589742 CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
* * * * * * *
59589801 CGCACACTTAGTGCTGTATAA---TCAAACTCGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTC-AGCTCGCACACTTAGTGCTATA-TATTTTCAGCT
59589859 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59589873 CAATCTTGTC
Statistics
Matches: 121, Mismatches: 7, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
56 2 0.02
57 20 0.17
58 40 0.33
59 59 0.49
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
Found at i:59592281 original size:56 final size:56
Alignment explanation
Indices: 59592142--59592294 Score: 170
Period size: 56 Copynumber: 2.8 Consensus size: 56
59592132 TGATGACATA
* *
59592142 ATGCATGCTAGGTCCTGGAGCT-TGTGTAG-CCTGTTGAGAGGCATGTAATTATGTG
1 ATGCATGCTAGGTCCGGGAGCTCTTTGTAGCCCTGTTGAGAGGCATG-AATTATGTG
* * * * * *
59592197 GTACATGATATGCCCGGGAGCT-TTTGTAGCCCTGTTGAGAGGCATG-GTTATGTG
1 ATGCATGCTAGGTCCGGGAGCTCTTTGTAGCCCTGTTGAGAGGCATGAATTATGTG
* *
59592251 ATGCATGCTAGGTCCGGGTGCTCTTATGTAGCCTTGTTGAGAGG
1 ATGCATGCTAGGTCCGGGAGCTCTT-TGTAGCCCTGTTGAGAGG
59592295 TGTGCTATAT
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
54 23 0.29
55 24 0.30
56 33 0.41
ACGTcount: A:0.18, C:0.16, G:0.33, T:0.32
Consensus pattern (56 bp):
ATGCATGCTAGGTCCGGGAGCTCTTTGTAGCCCTGTTGAGAGGCATGAATTATGTG
Found at i:59593845 original size:19 final size:21
Alignment explanation
Indices: 59593821--59593870 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
59593811 AGGGTCTAGG
59593821 CACGGGCGTGTCCAT-GT-CA
1 CACGGGCGTGTCCATGGTCCA
* **
59593840 CACGGGTGTGTGTATGGTCCA
1 CACGGGCGTGTCCATGGTCCA
59593861 CACGGGCGTG
1 CACGGGCGTG
59593871 CGACCACTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 12 0.48
20 2 0.08
21 11 0.44
ACGTcount: A:0.14, C:0.26, G:0.38, T:0.22
Consensus pattern (21 bp):
CACGGGCGTGTCCATGGTCCA
Found at i:59598681 original size:20 final size:20
Alignment explanation
Indices: 59598658--59598795 Score: 145
Period size: 20 Copynumber: 7.0 Consensus size: 20
59598648 CACGAATGTG
*
59598658 CAAACAGGGGTACAAAAGTA
1 CAAACAGGGGTACCAAAGTA
* **
59598678 CAAATAGGGGTACTGAAGTA
1 CAAACAGGGGTACCAAAGTA
*
59598698 CAAATA-GGGTACCAAAGTA
1 CAAACAGGGGTACCAAAGTA
*
59598717 CAAACAGGGGTACCGAAGTA
1 CAAACAGGGGTACCAAAGTA
* * **
59598737 CAAATA-CGGTACGGAAGTA
1 CAAACAGGGGTACCAAAGTA
59598756 CAAACAGGGGTACCAAAGTA
1 CAAACAGGGGTACCAAAGTA
* * *
59598776 CATACAGGAGTACCGAAGTA
1 CAAACAGGGGTACCAAAGTA
59598796 AATTCCCATA
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
19 32 0.32
20 67 0.68
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.14
Consensus pattern (20 bp):
CAAACAGGGGTACCAAAGTA
Found at i:59598719 original size:39 final size:39
Alignment explanation
Indices: 59598665--59598795 Score: 163
Period size: 39 Copynumber: 3.3 Consensus size: 39
59598655 GTGCAAACAG
* * *
59598665 GGGTACAAAAGTACAAATAGGGGTACTGAAGTACAAATA
1 GGGTACCAAAGTACAAACAGGGGTACCGAAGTACAAATA
59598704 GGGTACCAAAGTACAAACAGGGGTACCGAAGTACAAATA
1 GGGTACCAAAGTACAAACAGGGGTACCGAAGTACAAATA
* ** * * *
59598743 CGGTACGGAAGTACAAACAGGGGTACCAAAGTACATACA
1 GGGTACCAAAGTACAAACAGGGGTACCGAAGTACAAATA
*
59598782 GGAGTACCGAAGTA
1 GG-GTACCAAAGTA
59598796 AATTCCCATA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 70 0.88
40 10 0.12
ACGTcount: A:0.43, C:0.16, G:0.27, T:0.15
Consensus pattern (39 bp):
GGGTACCAAAGTACAAACAGGGGTACCGAAGTACAAATA
Found at i:59598767 original size:59 final size:59
Alignment explanation
Indices: 59598658--59598795 Score: 197
Period size: 59 Copynumber: 2.3 Consensus size: 59
59598648 CACGAATGTG
** * * *
59598658 CAAACAGGGGTACAAAAGTACAAATAGGGGTACTGAAGTACAAATAGGGTACCAAAGTA
1 CAAACAGGGGTACCGAAGTACAAATAGCGGTACGGAAGTACAAACAGGGTACCAAAGTA
59598717 CAAACAGGGGTACCGAAGTACAAATA-CGGTACGGAAGTACAAACAGGGGTACCAAAGTA
1 CAAACAGGGGTACCGAAGTACAAATAGCGGTACGGAAGTACAAACA-GGGTACCAAAGTA
* *
59598776 CATACAGGAGTACCGAAGTA
1 CAAACAGGGGTACCGAAGTA
59598796 AATTCCCATA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
58 16 0.23
59 55 0.77
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.14
Consensus pattern (59 bp):
CAAACAGGGGTACCGAAGTACAAATAGCGGTACGGAAGTACAAACAGGGTACCAAAGTA
Found at i:59613588 original size:31 final size:31
Alignment explanation
Indices: 59613553--59613614 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
59613543 AGGGGATAAA
59613553 TTAGTAGCTGAATATGAGGTTGAGTTTTTGC
1 TTAGTAGCTGAATATGAGGTTGAGTTTTTGC
59613584 TTAGTAGCTGAATATGAGGTTGAGTTTTTGC
1 TTAGTAGCTGAATATGAGGTTGAGTTTTTGC
59613615 GACGTAGCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.06, G:0.29, T:0.42
Consensus pattern (31 bp):
TTAGTAGCTGAATATGAGGTTGAGTTTTTGC
Found at i:59613622 original size:31 final size:31
Alignment explanation
Indices: 59613555--59613622 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
59613545 GGGATAAATT
*
59613555 AGTAGCTGAATATGAGGTTGAGTTTTTGCTT
1 AGTAGCTGAATATGAGGTTGAGTTTTTGCTG
59613586 AGTAGCTGAATATGAGGTTGAGTTTTTGC-G
1 AGTAGCTGAATATGAGGTTGAGTTTTTGCTG
59613616 ACGTAGC
1 A-GTAGC
59613623 CGCTTTGCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 1 0.03
31 34 0.97
ACGTcount: A:0.24, C:0.09, G:0.31, T:0.37
Consensus pattern (31 bp):
AGTAGCTGAATATGAGGTTGAGTTTTTGCTG
Found at i:59614378 original size:39 final size:39
Alignment explanation
Indices: 59614335--59614410 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
59614325 TTTGAGACTT
* *
59614335 TGGGTATTGTGGTTAAAAGCACTACGAGTGAGGTTACTG
1 TGGGTATTGTGGTTAAAAGCACTACAACTGAGGTTACTG
*
59614374 TGGGTATTGTGGTTGAAAGCACTACAACTGAGGTTAC
1 TGGGTATTGTGGTTAAAAGCACTACAACTGAGGTTAC
59614411 CGTGCTGAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (39 bp):
TGGGTATTGTGGTTAAAAGCACTACAACTGAGGTTACTG
Done.