Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 187 of 325
Found at i:57542868 original size:40 final size:37
Alignment explanation
Indices: 57542719--57542884 Score: 125
Period size: 40 Copynumber: 4.2 Consensus size: 37
57542709 TTCGGGACGA
* ** *
57542719 AGCCCGGTTATAGCGACTTGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTC-GGA-TT
* * *
57542759 AACCCGGGTTTAGTAACTTGCACAAAGCCTTCGGGATT
1 AGCCCGGATATAGTAACTTGCACAAAGCCTTC-GGATT
* * * *
57542797 AGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTCGGAT--T
* *
57542837 AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTT-GCACAAAGCCTTC-GGA-TT
57542877 AGCCCGGA
1 AGCCCGGA
57542885 CATCATTCGA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 25 0.25
39 20 0.20
40 49 0.48
41 7 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (37 bp):
AGCCCGGATATAGTAACTTGCACAAAGCCTTCGGATT
Found at i:57547074 original size:41 final size:42
Alignment explanation
Indices: 57547023--57547102 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
57547013 AAATATTAAT
*
57547023 AAAAAGCTAAAAGTAGA-AC-CTAAATTCGCAAATCATTAAAA
1 AAAAAACTAAAAGTA-ATACTCTAAATTCGCAAATCATTAAAA
* *
57547064 AAAAAACTAAAAGTAATACTTTAAATTCTCAAATCATTA
1 AAAAAACTAAAAGTAATACTCTAAATTCGCAAATCATTA
57547103 TAATTAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 1 0.03
41 16 0.47
42 17 0.50
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.25
Consensus pattern (42 bp):
AAAAAACTAAAAGTAATACTCTAAATTCGCAAATCATTAAAA
Found at i:57547571 original size:19 final size:20
Alignment explanation
Indices: 57547529--57547597 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
57547519 ATTACAAAAT
57547529 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTTCAAA
*
57547549 AATTCAAAATAATTTT-TAA
1 AATTCAAAATAATTTTCAAA
*
57547568 AATTCAAAAT-ATTTACAAA
1 AATTCAAAATAATTTTCAAA
57547587 AATTCTAAAAT
1 AATTC-AAAAT
57547598 TTATACTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
18 4 0.09
19 19 0.43
20 21 0.48
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTCAAAATAATTTTCAAA
Found at i:57554019 original size:8 final size:8
Alignment explanation
Indices: 57554008--57554044 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
57553998 AAATATTTAA
57554008 AAAATTCT
1 AAAATTCT
*
57554016 AAAATACT
1 AAAATTCT
*
57554024 AAAATTTT
1 AAAATTCT
57554032 AAAATTCT
1 AAAATTCT
57554040 AAAAT
1 AAAAT
57554045 ATATAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAATTCT
Found at i:57554061 original size:30 final size:33
Alignment explanation
Indices: 57554025--57554084 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
57554015 TAAAATACTA
*
57554025 AAATTTT-AAAATTC-TAA-AATATATAAATAT
1 AAATTTTAAAAAATCATAATAATATATAAATAT
57554055 AAATTTTAAAAAATCATAATAATATATAAA
1 AAATTTTAAAAAATCATAATAATATATAAA
57554085 AATTGTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 7 0.27
31 6 0.23
32 3 0.12
33 10 0.38
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (33 bp):
AAATTTTAAAAAATCATAATAATATATAAATAT
Found at i:57554120 original size:27 final size:26
Alignment explanation
Indices: 57554082--57554141 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
57554072 AATAATATAT
*
57554082 AAAAATTGTAAATTTTATAAAATTGAA
1 AAAAATTGTAAATTTTAGAAAATT-AA
57554109 AAAATATT-TAAATTTTAGAAAATTAA
1 AAAA-ATTGTAAATTTTAGAAAATTAA
57554135 AAAAATT
1 AAAAATT
57554142 CCATTTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 3 0.10
26 6 0.19
27 19 0.61
28 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (26 bp):
AAAAATTGTAAATTTTAGAAAATTAA
Found at i:57558035 original size:46 final size:46
Alignment explanation
Indices: 57557985--57558206 Score: 259
Period size: 46 Copynumber: 4.8 Consensus size: 46
57557975 TGGTTGAGCA
*
57557985 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * * * * * *
57558031 TCCGAACTCCTTGAGTTCAGTCTGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
* *
57558078 TCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
57558124 CCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
57558170 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57558207 GCGGGTTACA
Statistics
Matches: 144, Mismatches: 27, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 112 0.78
47 30 0.21
48 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:57558151 original size:93 final size:93
Alignment explanation
Indices: 57557982--57558152 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
57557972 GGATGGTTGA
* * *
57557982 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCCTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCCTTGAGT
*
57558047 TCAGTCTGAGTTCGTGAAATGTAACTAG
66 TCAGTCCGAGTTCGTGAAATGTAACTAG
* *
57558075 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGTGAACGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCCTTGAGT
*
57558140 TGAGTCCGAGTTC
66 TCAGTCCGAGTTC
57558153 ACTTATGGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCCTTGAGT
TCAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:57564652 original size:16 final size:16
Alignment explanation
Indices: 57564631--57564662 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57564621 GTTGTAACGC
57564631 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
57564647 CCCAAAAGTCCCGAAA
1 CCCAAAAATCCCGAAA
57564663 TATTGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.38, G:0.09, T:0.06
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:57566182 original size:29 final size:29
Alignment explanation
Indices: 57566127--57566225 Score: 98
Period size: 29 Copynumber: 3.5 Consensus size: 29
57566117 GTGAGCATGA
* * *
57566127 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
57566155 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
57566184 ATATACAA-GT-AGTTTAGGCC-AATGGGCC
1 ATATA-AATGTGA-TTTGGGCCTAATGGGCC
* *
57566212 ATATGAATATGATT
1 ATATAAATGTGATT
57566226 AGGTTTAATG
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
27 2 0.03
28 27 0.45
29 29 0.48
30 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:57573637 original size:8 final size:8
Alignment explanation
Indices: 57573620--57573654 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
57573610 ATGAATCGGC
57573620 AAAAGCCG
1 AAAAGCCG
*
57573628 AAATGCCG
1 AAAAGCCG
57573636 AAAAGCCG
1 AAAAGCCG
57573644 AAAAGCCG
1 AAAAGCCG
57573652 AAA
1 AAA
57573655 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.51, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:57573917 original size:29 final size:28
Alignment explanation
Indices: 57573865--57573920 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
57573855 GTGAGCATGA
*
57573865 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATAAATGTGACTGGGCCTAATGGGCC
*
57573893 ATATAAATGTGATTTGGGCCTAATGGGC
1 ATATAAATGTGA-CTGGGCCTAATGGGC
57573921 GGTGGTTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGACTGGGCCTAATGGGCC
Found at i:57580582 original size:31 final size:25
Alignment explanation
Indices: 57580523--57580573 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
57580513 ATCAAATAAA
57580523 ATATGATTAAATTAAAACTAATCCT
1 ATATGATTAAATTAAAACTAATCCT
57580548 ATATGATTAAATTAAAACTAATCCT
1 ATATGATTAAATTAAAACTAATCCT
57580573 A
1 A
57580574 CCTCTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATGATTAAATTAAAACTAATCCT
Found at i:57580746 original size:29 final size:30
Alignment explanation
Indices: 57580689--57580746 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
57580679 CTTTTGGAAA
* * *
57580689 TATTTACAAAAAGAGACATCTAATTTTTAT
1 TATTTACAAAAAGAGACAACCAAATTTTAT
57580719 TATTTACAAAAAGAG-CAACCAAATTTTA
1 TATTTACAAAAAGAGACAACCAAATTTTA
57580747 AAAATACTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGACAACCAAATTTTAT
Found at i:57593459 original size:42 final size:42
Alignment explanation
Indices: 57593412--57593494 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
57593402 AAAGTGATAG
57593412 CTTATGCCTCAAGAAAGTTGAAGCCACATGGAAAGAATTACT
1 CTTATGCCTCAAGAAAGTTGAAGCCACATGGAAAGAATTACT
* *
57593454 CTTATGCCTCAAGACAGTTGAAGCCGCATGGAAAGAATTAC
1 CTTATGCCTCAAGAAAGTTGAAGCCACATGGAAAGAATTAC
57593495 CCGACACACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (42 bp):
CTTATGCCTCAAGAAAGTTGAAGCCACATGGAAAGAATTACT
Found at i:57595427 original size:40 final size:40
Alignment explanation
Indices: 57595378--57595585 Score: 251
Period size: 40 Copynumber: 5.2 Consensus size: 40
57595368 TCTTCGGAAT
* * *
57595378 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
57595417 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
57595457 TTAGCCCGGATATAACAACTCA-CACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACT-AGCACAAATGCCTTCGGGTC
* *
57595497 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
57595537 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
*
57595577 TTACCCCGG
1 TTAGCCCGG
57595586 GTATCAATCA
Statistics
Matches: 143, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.02
40 139 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:57601056 original size:12 final size:12
Alignment explanation
Indices: 57601039--57601079 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
57601029 ACAGGTTTGG
57601039 CACGGCCTAGCA
1 CACGGCCTAGCA
57601051 CACGGCCTAGCA
1 CACGGCCTAGCA
*
57601063 CACGGCCTGGCA
1 CACGGCCTAGCA
57601075 CACGG
1 CACGG
57601080 GTGTGTATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.22, C:0.41, G:0.29, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:57605117 original size:19 final size:21
Alignment explanation
Indices: 57605078--57605117 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57605068 GACTTGATGA
*
57605078 ATGAATTTGAATGACTTGTAT
1 ATGAATTTGAATGAATTGTAT
57605099 ATGAATTTG-AT-AATTGTAT
1 ATGAATTTGAATGAATTGTAT
57605118 GAGAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (21 bp):
ATGAATTTGAATGAATTGTAT
Found at i:57623929 original size:84 final size:80
Alignment explanation
Indices: 57623830--57623991 Score: 202
Period size: 84 Copynumber: 2.0 Consensus size: 80
57623820 AGTACCAATA
57623830 ATATAGCTGAAGCTA-TAAAATATCGCACACTTAGTGCCATCATATTA-AACCAAAACTATCTCA
1 ATATAGCTGAAGCTATTAAAAT-TCGCACACTTAGTG-C-T-AT-TTATAACCAAAACTATCTCA
57623893 ATATCGCACACATAGTGCTAC
61 A-ATCGCACACATAGTGCTAC
** * * *
57623914 ATATAGCTGAAGCTATTCCAATTCGCACACTTAGTGCTATTTATAGCCAAAGCTATTTCAAATCG
1 ATATAGCTGAAGCTATTAAAATTCGCACACTTAGTGCTATTTATAACCAAAACTATCTCAAATCG
*
57623979 CACACTTAGTGCT
66 CACACATAGTGCT
57623992 GAACATAGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
80 19 0.27
81 16 0.23
82 1 0.01
83 1 0.01
84 29 0.41
85 4 0.06
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (80 bp):
ATATAGCTGAAGCTATTAAAATTCGCACACTTAGTGCTATTTATAACCAAAACTATCTCAAATCG
CACACATAGTGCTAC
Found at i:57623949 original size:40 final size:40
Alignment explanation
Indices: 57623830--57623991 Score: 139
Period size: 40 Copynumber: 4.0 Consensus size: 40
57623820 AGTACCAATA
** ** *
57623830 ATATAGCTGAAGCTATAAAATATCGCACACTTAGTGCCATC
1 ATATAGCCAAAGCTATCCAATATCGCACACTTAGTGCTA-C
* * *
57623871 ATATTAAACCAAAACTATCTCAATATCGCACACATAGTGCTAC
1 ATA-T-AGCCAAAGCTATC-CAATATCGCACACTTAGTGCTAC
** *
57623914 ATATAGCTGAAGCTATTCCAAT-TCGCACACTTAGTGCTAT
1 ATATAGCCAAAGCTA-TCCAATATCGCACACTTAGTGCTAC
* *
57623954 TTATAGCCAAAGCTATTTCAA-ATCGCACACTTAGTGCT
1 ATATAGCCAAAGCTA-TCCAATATCGCACACTTAGTGCT
57623992 GAACATAGTC
Statistics
Matches: 98, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
40 49 0.50
41 14 0.14
42 4 0.04
43 12 0.12
44 19 0.19
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (40 bp):
ATATAGCCAAAGCTATCCAATATCGCACACTTAGTGCTAC
Found at i:57625914 original size:33 final size:33
Alignment explanation
Indices: 57625872--57625936 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
57625862 AAGGAGAAAA
*
57625872 CTTCATTTCATTTTCTTTGTTTTTCCTTTATTT
1 CTTCATTTCATTTTCATTGTTTTTCCTTTATTT
57625905 CTTCATTTCATTTTCATTGTTTTTCCTTTATT
1 CTTCATTTCATTTTCATTGTTTTTCCTTTATT
57625937 CTTTTCAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.11, C:0.18, G:0.03, T:0.68
Consensus pattern (33 bp):
CTTCATTTCATTTTCATTGTTTTTCCTTTATTT
Found at i:57629116 original size:34 final size:33
Alignment explanation
Indices: 57629070--57629135 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
57629060 TTGTTTGCAT
*
57629070 ACTGTACAGAAATGGGCTAAGGCTCAGACTGCC
1 ACTGTACAGAAATGGGCTAAGGCCCAGACTGCC
* * *
57629103 ACTGTTACTGAAATGGGCTCAGGCCCAGGCTGC
1 ACTG-TACAGAAATGGGCTAAGGCCCAGACTGC
57629136 TATTGCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.20
Consensus pattern (33 bp):
ACTGTACAGAAATGGGCTAAGGCCCAGACTGCC
Found at i:57629149 original size:34 final size:34
Alignment explanation
Indices: 57629070--57629164 Score: 84
Period size: 34 Copynumber: 2.8 Consensus size: 34
57629060 TTGTTTGCAT
* *
57629070 ACTG-TACAGAAATGGGCTAAGGCTCAGACTGCC
1 ACTGCTACTGAAATGGGCTAAGGCCCAGACTGCC
* * * *
57629103 ACTGTTACTGAAATGGGCTCAGGCCCAGGCTGCT
1 ACTGCTACTGAAATGGGCTAAGGCCCAGACTGCC
* * *
57629137 ATTGCTATTGAAAGAGGGGCTAAGGCCC
1 ACTGCTACTG-AA-ATGGGCTAAGGCCC
57629165 TAACTGAAAC
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 4 0.08
34 31 0.63
35 2 0.04
36 12 0.24
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (34 bp):
ACTGCTACTGAAATGGGCTAAGGCCCAGACTGCC
Found at i:57637894 original size:48 final size:46
Alignment explanation
Indices: 57637789--57637963 Score: 134
Period size: 48 Copynumber: 3.7 Consensus size: 46
57637779 TTGCAAAGAA
* ** * * **
57637789 TATGTGAACTGTCAATGGATTGTATGTGTGAATTGTCTCTATGTAG
1 TATGTGAACTGTCAATGTATTGTATGCATGAATTGCCTTTATAAAG
* *
57637835 TATGTACGAACTGTCATTGTATTGTATGCATGAGTTGCCTTTATAAAG
1 TATGT--GAACTGTCAATGTATTGTATGCATGAATTGCCTTTATAAAG
* ** * ***
57637883 AATATGTGAACTGTTAATGTATTGTATGTGTGAACTGCCTTTGCGAAG
1 --TATGTGAACTGTCAATGTATTGTATGCATGAATTGCCTTTATAAAG
* *
57637931 TATGTGCAAATTGTCATTGTATTGTATGCATGA
1 TATGTG--AACTGTCAATGTATTGTATGCATGA
57637964 GCTATCTTTG
Statistics
Matches: 100, Mismatches: 23, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
46 11 0.11
48 84 0.84
50 5 0.05
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.40
Consensus pattern (46 bp):
TATGTGAACTGTCAATGTATTGTATGCATGAATTGCCTTTATAAAG
Found at i:57637979 original size:96 final size:96
Alignment explanation
Indices: 57637776--57638088 Score: 302
Period size: 96 Copynumber: 3.3 Consensus size: 96
57637766 ATATGTGAGT
* * * * * ** * *
57637776 TCTTTGCAAAGAATATGTGAACTGTCAATGGATTGTATGTGTGAATTGTCTCTATGTAGTATGTA
1 TCTTTGCAAAGAATATGCGAACTGTAAATGAATTGTATGTGTGAACTGCCTCTGCGAAGTATGTG
* * *
57637841 CGAACTGTCATTGTATTGTATGCATGAGTTG
66 CAAACTGTCATTGTATTGTATGCATGAGCTA
* ** * * * *
57637872 CCTTTATAAAGAATATGTGAACTGTTAATGTATTGTATGTGTGAACTGCCTTTGCGAAGTATGTG
1 TCTTTGCAAAGAATATGCGAACTGTAAATGAATTGTATGTGTGAACTGCCTCTGCGAAGTATGTG
*
57637937 CAAATTGTCATTGTATTGTATGCATGAGCTA
66 CAAACTGTCATTGTATTGTATGCATGAGCTA
* * * * * * **
57637968 TCTTTGCAAAGAATATGCAAATTGTAAATGAATTGTATATGTCAACTACCTCAGCGAAACATGTG
1 TCTTTGCAAAGAATATGCGAACTGTAAATGAATTGTATGTGTGAACTGCCTCTGCGAAGTATGTG
* * * * *
57638033 CAAACTATCACTATATTGTATACATGAACTA
66 CAAACTGTCATTGTATTGTATGCATGAGCTA
* * *
57638064 TATTTGTACAGAATATGCGAACTGT
1 TCTTTGCAAAGAATATGCGAACTGT
57638089 CATTGTTAAG
Statistics
Matches: 175, Mismatches: 42, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
96 175 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (96 bp):
TCTTTGCAAAGAATATGCGAACTGTAAATGAATTGTATGTGTGAACTGCCTCTGCGAAGTATGTG
CAAACTGTCATTGTATTGTATGCATGAGCTA
Found at i:57638341 original size:14 final size:14
Alignment explanation
Indices: 57638322--57638349 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
57638312 GTACGAGCTG
57638322 TGGTATTGTACGAA
1 TGGTATTGTACGAA
57638336 TGGTATTGTACGAA
1 TGGTATTGTACGAA
57638350 CTGAGGGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TGGTATTGTACGAA
Found at i:57638729 original size:10 final size:11
Alignment explanation
Indices: 57638709--57638733 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
57638699 GAGCCATTCC
57638709 TTTGTTTTTTT
1 TTTGTTTTTTT
57638720 TTTGTTTTTTT
1 TTTGTTTTTTT
57638731 TTT
1 TTT
57638734 TGTAACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTGTTTTTTT
Found at i:57650430 original size:46 final size:46
Alignment explanation
Indices: 57650363--57650537 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
57650353 TGTAACACGC
* *
57650363 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGTAT
* * * *
57650409 CCATAAGTGAACTCGGACTCAACTCAACGTGCT-TGG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGTA--T
* *** * * * *
57650455 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGTAT
*
57650502 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
57650538 ATGCCCAAAT
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
44 5 0.05
45 2 0.02
46 62 0.61
47 28 0.27
48 1 0.01
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGTAT
Found at i:57650540 original size:93 final size:93
Alignment explanation
Indices: 57650370--57650542 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
57650360 CGCCCATAAG
* * * *
57650370 CGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
57650435 ACGTGCTTGGATGCCTAGTTACATCTCT
66 ACGAGCTTGGATGCCTAGTTACATCTCT
*
57650463 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57650528 ACGAG-TTCGGATGCC
66 ACGAGCTT-GGATGCC
57650543 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTTGGATGCCTAGTTACATCTCT
Found at i:57652147 original size:40 final size:40
Alignment explanation
Indices: 57652103--57652270 Score: 300
Period size: 40 Copynumber: 4.2 Consensus size: 40
57652093 AACAACCAGC
57652103 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGT
1 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGT
* *
57652143 ACGAATGCCTTCGGGACTTAACCTGGTTATAATAACCCGC
1 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGT
* *
57652183 ACGAATGCCTTTGGGACTTAACCCGTTTATAATAACCCGT
1 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGT
57652223 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGT
1 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGT
57652263 ACGAATGC
1 ACGAATGC
57652271 TATGCACATA
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGT
Found at i:57660257 original size:40 final size:40
Alignment explanation
Indices: 57660225--57660353 Score: 240
Period size: 40 Copynumber: 3.2 Consensus size: 40
57660215 TAACAACCAT
*
57660225 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCTG
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
*
57660265 TACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
57660305 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
57660345 CACGAATGC
1 CACGAATGC
57660354 TATGCACATA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
Found at i:57666505 original size:26 final size:26
Alignment explanation
Indices: 57666476--57666529 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
57666466 TTATCGGGAG
57666476 TACACATCTTAAACTTAGTTTCATTT
1 TACACATCTTAAACTTAGTTTCATTT
57666502 TACACATCTTAAACTTAGTTTCATTT
1 TACACATCTTAAACTTAGTTTCATTT
57666528 TA
1 TA
57666530 GTCCTTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (26 bp):
TACACATCTTAAACTTAGTTTCATTT
Found at i:57667144 original size:16 final size:16
Alignment explanation
Indices: 57667119--57667151 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
57667109 ACTAACTTAA
57667119 TCATCAAGAATTAGGG
1 TCATCAAGAATTAGGG
*
57667135 TCATCGAGAATTAGGG
1 TCATCAAGAATTAGGG
57667151 T
1 T
57667152 TCTAAAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (16 bp):
TCATCAAGAATTAGGG
Found at i:57671710 original size:6 final size:6
Alignment explanation
Indices: 57671699--57671725 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
57671689 GTTGTGACCA
57671699 TGGTCG TGGTCG TGGTCG TGGTCG TGG
1 TGGTCG TGGTCG TGGTCG TGGTCG TGG
57671726 ACATAGTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
TGGTCG
Found at i:57672204 original size:65 final size:63
Alignment explanation
Indices: 57672093--57672214 Score: 183
Period size: 65 Copynumber: 1.9 Consensus size: 63
57672083 GAGAATCATT
* *
57672093 AGAAAAGTTGGTGTTATTTTAGCATTTTATGTTGTTTTTAAGTATGTTTCATTTTCTTGCATAA
1 AGAAAAGTTGGTGTTATTTTAGCATTTTATGTTGATTTTAAATATGTTT-ATTTTCTTGCATAA
*
57672157 AGAATAAGTTGGTGTTATTTTGGCATTTTTATGTT-ATTTTAAATATGTTTATTTTCTT
1 AGAA-AAGTTGGTGTTATTTTAGCA-TTTTATGTTGATTTTAAATATGTTTATTTTCTT
57672215 AATTCAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
64 12 0.23
65 32 0.60
66 9 0.17
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.54
Consensus pattern (63 bp):
AGAAAAGTTGGTGTTATTTTAGCATTTTATGTTGATTTTAAATATGTTTATTTTCTTGCATAA
Found at i:57683872 original size:29 final size:29
Alignment explanation
Indices: 57683838--57683969 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
57683828 TACTCGATTT
** * *
57683838 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
57683867 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
57683896 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
57683925 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
57683954 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
57683970 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:57688273 original size:14 final size:14
Alignment explanation
Indices: 57688254--57688281 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
57688244 TGCTAAAAGA
57688254 ATGTTGGTCTAGTT
1 ATGTTGGTCTAGTT
57688268 ATGTTGGTCTAGTT
1 ATGTTGGTCTAGTT
57688282 TTTAACTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.29, T:0.50
Consensus pattern (14 bp):
ATGTTGGTCTAGTT
Found at i:57691659 original size:55 final size:55
Alignment explanation
Indices: 57691595--57691698 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 55
57691585 CTGCCAGAAC
* * * *
57691595 AAATAATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGATCCACCAAAACAG
1 AAATAATGTGACAGAGCCACCAGAT-CAAATAATCGTGGCAGAGCCACCAAAACAG
* * *
57691651 AAAT-ATGTGGCAGAGCCACCAGATCAAATAATTGTGGCATAGCCACCA
1 AAATAATGTGACAGAGCCACCAGATCAAATAATCGTGGCAGAGCCACCA
57691699 GGACGCTTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 20 0.49
55 17 0.41
56 4 0.10
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.18
Consensus pattern (55 bp):
AAATAATGTGACAGAGCCACCAGATCAAATAATCGTGGCAGAGCCACCAAAACAG
Found at i:57691699 original size:27 final size:27
Alignment explanation
Indices: 57691607--57691699 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
57691597 ATAATGTGAT
* *
57691607 AGAGTCACCAGATACAGATAATCGTGGC
1 AGAGCCACCAGAT-CAGATAATTGTGGC
* * *
57691635 AGATCCACCAAAACAGA-AATATGTGGC
1 AGAGCCACCAGATCAGATAAT-TGTGGC
*
57691662 AGAGCCACCAGATCAAATAATTGTGGC
1 AGAGCCACCAGATCAGATAATTGTGGC
*
57691689 ATAGCCACCAG
1 AGAGCCACCAG
57691700 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.06
27 38 0.72
28 12 0.23
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.16
Consensus pattern (27 bp):
AGAGCCACCAGATCAGATAATTGTGGC
Found at i:57692909 original size:24 final size:24
Alignment explanation
Indices: 57692882--57692952 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
57692872 CTAGATTTCC
**
57692882 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
57692906 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
57692930 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
57692953 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:57695910 original size:17 final size:19
Alignment explanation
Indices: 57695888--57695925 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
57695878 CAGGGGAAAG
57695888 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
57695905 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
57695924 AA
1 AA
57695926 TTAAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:57695916 original size:12 final size:12
Alignment explanation
Indices: 57695883--57695920 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
57695873 CGAAACAGGG
57695883 GAAAGAAG-AAA
1 GAAAGAAGAAAA
*
57695894 GAAAAAGAGAAAA
1 GAAAGA-AGAAAA
57695907 GAAAGAAGAAAA
1 GAAAGAAGAAAA
57695919 GA
1 GA
57695921 GAAAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 5 0.22
12 10 0.43
13 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
GAAAGAAGAAAA
Found at i:57696545 original size:3 final size:3
Alignment explanation
Indices: 57696537--57696626 Score: 126
Period size: 3 Copynumber: 30.0 Consensus size: 3
57696527 GAACGGTAAG
57696537 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
57696585 TAT TAT TAT TAT TGT TGT TGT TGT TGT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
57696627 GGTATTGAAT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:57697234 original size:18 final size:18
Alignment explanation
Indices: 57697177--57697253 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
57697167 GACTGTCTGC
* *
57697177 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTAT
* * *
57697195 TACAGAATAAACGACTAA
1 TACTGAATAAATGACTAT
*
57697213 TACTGAATAAATGAATAT
1 TACTGAATAAATGACTAT
**
57697231 TACT-AATTAACCGACTAT
1 TACTGAA-TAAATGACTAT
57697249 TACTG
1 TACTG
57697254 TTGACTGACT
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
17 2 0.04
18 43 0.96
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (18 bp):
TACTGAATAAATGACTAT
Found at i:57702082 original size:40 final size:40
Alignment explanation
Indices: 57702001--57702221 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
57701991 AAACCAAGTA
** * *
57702001 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
57702040 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
57702080 CCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
57702120 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
57702160 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
57702200 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
57702222 CAATCCGAAT
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 26 0.15
40 142 0.85
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:57702819 original size:2 final size:2
Alignment explanation
Indices: 57702812--57702841 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
57702802 TTAAAATACC
57702812 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
57702842 TCATAAGTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57707192 original size:30 final size:30
Alignment explanation
Indices: 57707157--57707225 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
57707147 ATGTGCCAAG
57707157 CCGTGTGTCACACATGGTATAGACATACGC
1 CCGTGTGTCACACATGGTATAGACATACGC
57707187 CCGTGTGTCACACATGGTATAGACATACGC
1 CCGTGTGTCACACATGGTATAGACATACGC
57707217 CCGTGTGTC
1 CCGTGTGTC
57707226 TGCCCGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (30 bp):
CCGTGTGTCACACATGGTATAGACATACGC
Found at i:57709770 original size:39 final size:39
Alignment explanation
Indices: 57709723--57709905 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
57709713 AATGTTCGAG
57709723 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
57709762 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
57709801 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
57709840 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
57709880 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
57709906 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:57717202 original size:39 final size:39
Alignment explanation
Indices: 57717155--57717337 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
57717145 AATGTTCGAG
57717155 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
57717194 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
57717233 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
57717272 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
57717312 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
57717338 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:57719361 original size:23 final size:24
Alignment explanation
Indices: 57719335--57719379 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
57719325 GAAAATTAGA
57719335 CTCAATAAGATT-TAATTCAATAT
1 CTCAATAAGATTCTAATTCAATAT
* *
57719358 CTCACTAAGCTTCTAATTCAAT
1 CTCAATAAGATTCTAATTCAAT
57719380 TTATACAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (24 bp):
CTCAATAAGATTCTAATTCAATAT
Found at i:57719986 original size:8 final size:8
Alignment explanation
Indices: 57719944--57719968 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
57719934 ATAGAGACTA
57719944 AATAAAAT
1 AATAAAAT
57719952 AATAAAAT
1 AATAAAAT
57719960 AATAAAAT
1 AATAAAAT
57719968 A
1 A
57719969 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:57720273 original size:30 final size:30
Alignment explanation
Indices: 57720222--57720290 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
57720212 CACCCTTAAA
* *
57720222 ATATTTTCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAATCCTTCAAA-TTTTC
57720253 ATATTTACACT-TTAATCCTTCAAATTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
57720282 AGTATTTAC
1 A-TATTTAC
57720291 TCTTGGGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 6 0.17
30 19 0.54
31 10 0.29
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:57721219 original size:58 final size:57
Alignment explanation
Indices: 57721070--57721219 Score: 151
Period size: 57 Copynumber: 2.6 Consensus size: 57
57721060 ATCGTATAAG
* * * *
57721070 AGGATTACTAGTCCAGGCTAAATCCTTTATATAACGTATGCTCAAAAGAGTTTAATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTCTATAACGTATACTCAAAAGAGTTTAATC
* * * *
57721127 AGGATTACCAGTCCAGGCTAAACCCTAATC-ATAACGTATACTCGAGAG-GTATTATATC
1 AGGATTACCAGTCCAGGCTAAATCCT-TTCTATAACGTATACTCAAAAGAGT-TTA-ATC
* * **
57721185 CGGATTACCCGTCTGGGCTAAATCCTTTCTATAAC
1 AGGATTACCAGTCCAGGCTAAATCCTTTCTATAAC
57721220 AAGGTCAATA
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
56 2 0.03
57 44 0.59
58 29 0.39
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCTTTCTATAACGTATACTCAAAAGAGTTTAATC
Found at i:57724151 original size:17 final size:19
Alignment explanation
Indices: 57724126--57724166 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
57724116 CAATTCAATA
57724126 TTTTTTAG-A-TTT-TATT
1 TTTTTTAGAATTTTCTATT
57724142 TTTTTCTAGAATTTTCTATT
1 TTTTT-TAGAATTTTCTATT
57724162 TTTTT
1 TTTTT
57724167 AATAATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.24
17 3 0.14
18 1 0.05
19 3 0.14
20 9 0.43
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTTTAGAATTTTCTATT
Found at i:57727603 original size:18 final size:18
Alignment explanation
Indices: 57727576--57727616 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
57727566 TCGCATAAAC
57727576 AAAA-TCTTTCATATTCA
1 AAAATTCTTTCATATTCA
57727593 AAAATTCTTTCATATTCA
1 AAAATTCTTTCATATTCA
*
57727611 GAAATT
1 AAAATT
57727617 AAGTACGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (18 bp):
AAAATTCTTTCATATTCA
Found at i:57727875 original size:44 final size:43
Alignment explanation
Indices: 57727739--57727897 Score: 130
Period size: 42 Copynumber: 3.7 Consensus size: 43
57727729 TAATGCCAAC
* * * * *
57727739 GTCCCAGACGTGGTCTTACATGT-AATTCAGTATTGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCA-AATCGATGCCTGT
* * * *
57727782 ATCCCAGACAGGGTCTTATACG-AAA-TCAGATACGATGCC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCCTG-T
*
57727824 GTCCCAGACATGGTCTTACACGTAAATTTCAAATCAATGCCTGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCCTGT
* *
57727868 GTCCCAGACACGGTATTACACG-ATAATTCA
1 GTCCCAGACATGGTCTTACACGTA-AATTCA
57727898 GATTAATACC
Statistics
Matches: 93, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
41 2 0.02
42 29 0.31
43 27 0.29
44 29 0.31
45 6 0.06
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCCTGT
Found at i:57732304 original size:276 final size:276
Alignment explanation
Indices: 57731805--57732362 Score: 834
Period size: 276 Copynumber: 2.0 Consensus size: 276
57731795 TGTTCCTTCT
* * *
57731805 GATCCAAAGCTGCCAACAAATGATGCCAAAAAGTGATTTCCAGTTGTTAGGATCACAAGAAAAAT
1 GATCCTAAGCTGCCAACAAATGATGCCAAAAAGTCATTGCCAGTTGTTAGGATCACAAGAAAAAT
* * * * **
57731870 ATTGAAGGTTAGATAGATTAATCTCGAACCATTTTTCCAACCCAATAGAGAAAGGCTCGCGTCTT
66 ATTGAAGGTTAGAGAGATTAATCTAGAACCACTTTGCCAACCCAATAGAGAAAAACTCGCGTCTT
* * *
57731935 TTTACAGCCTTAATCATTGAATGTCAAGTTGCTACAGTTGGGGTACACATACGCAGCACGTGATG
131 TTTACAGCCTTAATCATTGAATGTCAAGTTGCTACAGCTGGAGTACACATACGCAGCACATGATG
* *
57732000 AACGCTTACAAATAGGGTTCTACATATCTTACAACTTGAATCCGAGGTTAGGTGTCTTCTCACTC
196 AACGCTTACAAATAGGGTTCTACATATCTTACAACTTGAATCAGAGGTTAGGAGTCTTCTCACTC
*
57732065 GGTTCTCATTAGTAAG
261 AGTTCTCATTAGTAAG
** * *
57732081 GATCCTAAGCTGCCTGCAAATGATGCCAAAAGGTCATTGCCAGTT-TGTAGGATCACAAGCAAAA
1 GATCCTAAGCTGCCAACAAATGATGCCAAAAAGTCATTGCCAGTTGT-TAGGATCACAAGAAAAA
* *
57732145 TATTGAGGGTTAGAGAGATTAATCTAGAACCACTTTGCCAACCCAATAGAGAAAAACTCGTGT-T
65 TATTGAAGGTTAGAGAGATTAATCTAGAACCACTTTGCCAACCCAATAGAGAAAAACTCGCGTCT
*
57732209 TCTTTGCAGCCTTAATCATTGAATG-CGAAGTTGCTACAGCTGGAGTACACATACGCAGCACATG
130 T-TTTACAGCCTTAATCATTGAATGTC-AAGTTGCTACAGCTGGAGTACACATACGCAGCACATG
* * *
57732273 ATGGACGCTTACAAATAGGGTTCTACATATCTTACAACTTGCATTAGAGGTTAGGAGTCTTCTCA
193 ATGAACGCTTACAAATAGGGTTCTACATATCTTACAACTTGAATCAGAGGTTAGGAGTCTTCTCA
*
57732338 CTCAGTTCTCATTATTAAG
258 CTCAGTTCTCATTAGTAAG
57732357 GATCCT
1 GATCCT
57732363 GTTTAAAAAA
Statistics
Matches: 253, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
275 4 0.02
276 249 0.98
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (276 bp):
GATCCTAAGCTGCCAACAAATGATGCCAAAAAGTCATTGCCAGTTGTTAGGATCACAAGAAAAAT
ATTGAAGGTTAGAGAGATTAATCTAGAACCACTTTGCCAACCCAATAGAGAAAAACTCGCGTCTT
TTTACAGCCTTAATCATTGAATGTCAAGTTGCTACAGCTGGAGTACACATACGCAGCACATGATG
AACGCTTACAAATAGGGTTCTACATATCTTACAACTTGAATCAGAGGTTAGGAGTCTTCTCACTC
AGTTCTCATTAGTAAG
Found at i:57737018 original size:12 final size:12
Alignment explanation
Indices: 57737003--57737035 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
57736993 AATCGAGCCG
57737003 TAAATATTTTAA
1 TAAATATTTTAA
57737015 TAAATATTTTAA
1 TAAATATTTTAA
*
57737027 TAAAAATTT
1 TAAATATTT
57737036 CATTAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TAAATATTTTAA
Found at i:57741586 original size:19 final size:20
Alignment explanation
Indices: 57741550--57741587 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57741540 CTTTCTTTTG
* *
57741550 TCTTTTTTTTACTTAAATTT
1 TCTTTTATTTACTCAAATTT
57741570 TCTTTTATTTAC-CAAATT
1 TCTTTTATTTACTCAAATT
57741588 ACTACTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (20 bp):
TCTTTTATTTACTCAAATTT
Found at i:57742840 original size:18 final size:19
Alignment explanation
Indices: 57742817--57742863 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
57742807 TATTTTTTTT
57742817 AGCTTTAC-TAAGTTCTTC
1 AGCTTTACGTAAGTTCTTC
57742835 AGCTTTATACGTTAAGTTCTTC
1 AGC-TT-TACG-TAAGTTCTTC
57742857 AGCTTTA
1 AGCTTTA
57742864 TACGTTCGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 2 0.08
20 5 0.20
21 2 0.08
22 13 0.52
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (19 bp):
AGCTTTACGTAAGTTCTTC
Found at i:57742850 original size:22 final size:22
Alignment explanation
Indices: 57742825--57742869 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
57742815 TTAGCTTTAC
57742825 TAAGTTCTTCAGCTTTATACGT
1 TAAGTTCTTCAGCTTTATACGT
57742847 TAAGTTCTTCAGCTTTATACGT
1 TAAGTTCTTCAGCTTTATACGT
57742869 T
1 T
57742870 CGATCTACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (22 bp):
TAAGTTCTTCAGCTTTATACGT
Found at i:57753173 original size:13 final size:13
Alignment explanation
Indices: 57753155--57753179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57753145 AGGCCGTGTG
57753155 AGGGACACGGGCT
1 AGGGACACGGGCT
57753168 AGGGACACGGGC
1 AGGGACACGGGC
57753180 GTGTTCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.48, T:0.04
Consensus pattern (13 bp):
AGGGACACGGGCT
Found at i:57753944 original size:16 final size:16
Alignment explanation
Indices: 57753923--57753954 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57753913 TTTTGAAACA
57753923 AAAATGGAGAATACAT
1 AAAATGGAGAATACAT
57753939 AAAATGGAGAATACAT
1 AAAATGGAGAATACAT
57753955 CTTTCTTTTA
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:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (16 bp):
AAAATGGAGAATACAT
Found at i:57754073 original size:31 final size:31
Alignment explanation
Indices: 57754035--57754096 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
57754025 TAAAAAATTT
57754035 GAATAAAATCTTATTCATAACTATCTACTAA
1 GAATAAAATCTTATTCATAACTATCTACTAA
57754066 GAATAAAATCTTATTCATAACTATCTACTAA
1 GAATAAAATCTTATTCATAACTATCTACTAA
57754097 CTTAATTATA
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:0.45, C:0.16, G:0.03, T:0.35
Consensus pattern (31 bp):
GAATAAAATCTTATTCATAACTATCTACTAA
Found at i:57755289 original size:11 final size:11
Alignment explanation
Indices: 57755273--57755303 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
57755263 GTCTTGGAAA
57755273 AATAATAAAAT
1 AATAATAAAAT
57755284 AATAATAAAAT
1 AATAATAAAAT
57755295 AA-AATAAAA
1 AATAATAAAA
57755304 GCATAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:57756673 original size:15 final size:15
Alignment explanation
Indices: 57756633--57756688 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
57756623 GATAAACTAA
*
57756633 AAAAATTAAGTGATG
1 AAAAATTAAGTGTTG
**
57756648 AAAAAAAAAGTGTTG
1 AAAAATTAAGTGTTG
*
57756663 AAAAATTAAGTATTG
1 AAAAATTAAGTGTTG
*
57756678 AAAATTTAAGT
1 AAAAATTAAGT
57756689 ACATTTCACT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (15 bp):
AAAAATTAAGTGTTG
Found at i:57758786 original size:1 final size:1
Alignment explanation
Indices: 57758780--57758808 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
57758770 ATACGCATAG
57758780 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
57758809 ATAAAAAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:57760184 original size:15 final size:15
Alignment explanation
Indices: 57760164--57760205 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
57760154 CTATTTAAAA
*
57760164 AATGATAGTAATAGT
1 AATGATAATAATAGT
*
57760179 AATGATAATAATATT
1 AATGATAATAATAGT
*
57760194 AATGGTAATAAT
1 AATGATAATAAT
57760206 GCAAGGAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (15 bp):
AATGATAATAATAGT
Found at i:57760347 original size:3 final size:3
Alignment explanation
Indices: 57760328--57760540 Score: 158
Period size: 3 Copynumber: 73.3 Consensus size: 3
57760318 AATAGGTAAA
* * * *
57760328 AAT AAT -AT AAT AGT AAT AAT AAC AAT -AT AAT AAT AAT AGT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
57760374 AGT AAT AA- AAT AAT AGT AAT AA- AAT AGT AAT AAT AGT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
57760419 AAT AAT AAT AAT AAT AAT AA- AAGT AAT AAT AAT TAT ACGT TA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT A-AT AAT AAT
* * * * *
57760464 TAT AAT AGT AA- AAT AAC AAT AAT AGT AAT AAT AAT -AT ATT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * *
57760508 AGT AAT AGT AA- AAT AAT AAT AGT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
57760541 TATTAAATTA
Statistics
Matches: 161, Mismatches: 36, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
2 19 0.12
3 137 0.85
4 5 0.03
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:57760373 original size:26 final size:26
Alignment explanation
Indices: 57760329--57760538 Score: 110
Period size: 26 Copynumber: 7.8 Consensus size: 26
57760319 ATAGGTAAAA
57760329 ATAAT-ATAATAGTAATAATAACAAT
1 ATAATAATAATAGTAATAATAACAAT
* **
57760354 ATAATAATAATAGTAGTAAT-AGTA-
1 ATAATAATAATAGTAATAATAACAAT
* *
57760378 ATAA-AATAATAGTAATAA-AATAGT
1 ATAATAATAATAGTAATAATAACAAT
* * *
57760402 AATAATAGTAA-AATAATAATAATAAT
1 -ATAATAATAATAGTAATAATAACAAT
* **
57760428 AATAATAATAAAAGTAATAATAATTAT
1 -ATAATAATAATAGTAATAATAACAAT
*
57760455 ACGTTAAATTATAATAGTAA-AATAACAAT
1 A---T-AATAATAATAGTAATAATAACAAT
* * **
57760484 AATAGTAATAATAATATATTAGATAGTAAT
1 -ATAATAATAATAGTA-A-TA-ATAACAAT
57760514 AGTAAAATAATAATAGTAATAATAA
1 A-T--AATAATAATAGTAATAATAA
57760539 TATATTAAAT
Statistics
Matches: 141, Mismatches: 25, Indels: 34
0.70 0.12 0.17
Matches are distributed among these distances:
23 14 0.10
24 4 0.03
25 18 0.13
26 43 0.30
27 15 0.11
29 13 0.09
30 22 0.16
31 1 0.01
32 11 0.08
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (26 bp):
ATAATAATAATAGTAATAATAACAAT
Found at i:57763627 original size:18 final size:17
Alignment explanation
Indices: 57763583--57763628 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
57763573 AGAATGACAG
*
57763583 TATAGTAATGGTAATAA
1 TATAGTAATAGTAATAA
*
57763600 TAATATTAATAGTAATAA
1 T-ATAGTAATAGTAATAA
57763618 TATAGGTAATA
1 TATA-GTAATA
57763629 ACTTAGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (17 bp):
TATAGTAATAGTAATAA
Found at i:57763828 original size:2 final size:2
Alignment explanation
Indices: 57763816--57763851 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
57763806 AAGTACCATA
*
57763816 AT AT AT GAT AT AT AT AT AT AT AT TT 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
57763852 AAATAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57765544 original size:38 final size:38
Alignment explanation
Indices: 57765501--57765582 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
57765491 TTGTTTTGTT
57765501 TGGGCTTGGGGGGGTTGTAGAAATGGGTTTTGGTTTAG
1 TGGGCTTGGGGGGGTTGTAGAAATGGGTTTTGGTTTAG
57765539 TGGGCTTGGGGGGGTTGTAGAAATGGGTTTTGGTTTAG
1 TGGGCTTGGGGGGGTTGTAGAAATGGGTTTTGGTTTAG
57765577 TGGGCT
1 TGGGCT
57765583 ATTTGGGCCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.12, C:0.04, G:0.48, T:0.37
Consensus pattern (38 bp):
TGGGCTTGGGGGGGTTGTAGAAATGGGTTTTGGTTTAG
Found at i:57766252 original size:43 final size:45
Alignment explanation
Indices: 57766200--57766444 Score: 186
Period size: 43 Copynumber: 5.6 Consensus size: 45
57766190 AAATTTGGCT
57766200 TGTTACCCTACTGCTTAGGGGTTAAAGCTC-AT-CATCTTCGATC
1 TGTTACCCTACTGCTTAGGGGTTAAAGCTCTATACATCTTCGATC
* * * * * *
57766243 TGTTTCCCTACTGCTTA-GGGTGATAAGATCTGTAGATCTTC-AGCC
1 TGTTACCCTACTGCTTAGGGGTTA-AAGCTCTATACATCTTCGA-TC
* * * * * * * *
57766288 TATTACCCTACTGCTTAGGGATTTAAGGTCTGTAAAT-TTGGCT-
1 TGTTACCCTACTGCTTAGGGGTTAAAGCTCTATACATCTTCGATC
57766331 TGTTACCCTACTGCTTAGGGGTTAAAGCTC-AT-CATCTTCGATC
1 TGTTACCCTACTGCTTAGGGGTTAAAGCTCTATACATCTTCGATC
* * * * * *
57766374 TATTTCCCTACTGCTTA-GGGTGATAAGATCTATAGATCTTC-AGCC
1 TGTTACCCTACTGCTTAGGGGTTA-AAGCTCTATACATCTTCGA-TC
*
57766419 TGTTACCCTACTTCTTAGGGAGTTAA
1 TGTTACCCTACTGCTTAGGG-GTTAA
57766445 GGCTTGGTGG
Statistics
Matches: 154, Mismatches: 34, Indels: 25
0.72 0.16 0.12
Matches are distributed among these distances:
41 2 0.01
42 15 0.10
43 67 0.44
44 7 0.05
45 54 0.35
46 6 0.04
47 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (45 bp):
TGTTACCCTACTGCTTAGGGGTTAAAGCTCTATACATCTTCGATC
Found at i:57766298 original size:45 final size:45
Alignment explanation
Indices: 57766248--57766438 Score: 171
Period size: 45 Copynumber: 4.3 Consensus size: 45
57766238 CGATCTGTTT
57766248 CCCTACTGCTTAGGGTGATAAGATCTGTAGATCTTCAGCCTATTA
1 CCCTACTGCTTAGGGTGATAAGATCTGTAGATCTTCAGCCTATTA
* * * * * *
57766293 CCCTACTGCTTAGGGAT-TTAAGGTCTGTAAAT-TT-GGCTTGTTA
1 CCCTACTGCTTAGGG-TGATAAGATCTGTAGATCTTCAGCCTATTA
* * * * * *
57766336 CCCTACTGCTTAGGG-GTTAA-AGCT-CATCATCTTC-GATCTATTT
1 CCCTACTGCTTAGGGTGATAAGATCTGTA-GATCTTCAG-CCTATTA
* *
57766379 CCCTACTGCTTAGGGTGATAAGATCTATAGATCTTCAGCCTGTTA
1 CCCTACTGCTTAGGGTGATAAGATCTGTAGATCTTCAGCCTATTA
*
57766424 CCCTACTTCTTAGGG
1 CCCTACTGCTTAGGG
57766439 AGTTAAGGCT
Statistics
Matches: 114, Mismatches: 22, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
40 1 0.01
41 4 0.04
42 7 0.06
43 39 0.34
44 6 0.05
45 54 0.47
46 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (45 bp):
CCCTACTGCTTAGGGTGATAAGATCTGTAGATCTTCAGCCTATTA
Found at i:57766339 original size:131 final size:131
Alignment explanation
Indices: 57766126--57766446 Score: 527
Period size: 131 Copynumber: 2.5 Consensus size: 131
57766116 CACTGCAAAT
* * * * * *
57766126 TTAGGGAGACAAGATTTGTA-ATTTTCAGCCTATTACCCTACTGTTTAGGGGGTTAATGGTCTGT
1 TTAGGGTGATAAGATCTGTAGATCTTCAGCCTATTACCCTACTGCTTAGGGAGTTAA-GGTCTGT
*
57766190 AAATTTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCTCATCATCTTCGATCTGTTTCCCTACT
65 AAATTTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCTCATCATCTTCGATCTATTTCCCTACT
57766255 GC
130 GC
*
57766257 TTAGGGTGATAAGATCTGTAGATCTTCAGCCTATTACCCTACTGCTTAGGGATTTAAGGTCTGTA
1 TTAGGGTGATAAGATCTGTAGATCTTCAGCCTATTACCCTACTGCTTAGGGAGTTAAGGTCTGTA
57766322 AATTTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCTCATCATCTTCGATCTATTTCCCTACTG
66 AATTTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCTCATCATCTTCGATCTATTTCCCTACTG
57766387 C
131 C
* * *
57766388 TTAGGGTGATAAGATCTATAGATCTTCAGCCTGTTACCCTACTTCTTAGGGAGTTAAGG
1 TTAGGGTGATAAGATCTGTAGATCTTCAGCCTATTACCCTACTGCTTAGGGAGTTAAGG
57766447 CTTGGTGGTT
Statistics
Matches: 177, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
131 145 0.82
132 32 0.18
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (131 bp):
TTAGGGTGATAAGATCTGTAGATCTTCAGCCTATTACCCTACTGCTTAGGGAGTTAAGGTCTGTA
AATTTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCTCATCATCTTCGATCTATTTCCCTACTG
C
Found at i:57766710 original size:43 final size:42
Alignment explanation
Indices: 57766602--57766715 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 42
57766592 CGATCTGTTT
* *
57766602 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTA
1 CCCTACTGCTTA-GGGGTTAAGGTCTGTAAATTCAACCTGCTA
* * ** *
57766645 CCTTACTACTTAGGGGTTTAAGGTCTGTAAATTCGGCTTGCTA
1 CCCTACTGCTTAGGGG-TTAAGGTCTGTAAATTCAACCTGCTA
*
57766688 CCCTACTGCTTAGAGGGTTAAGGCCTGT
1 CCCTACTGCTTAG-GGGTTAAGGTCTGT
57766716 GAGTTCACCG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 4 0.07
43 52 0.88
44 3 0.05
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (42 bp):
CCCTACTGCTTAGGGGTTAAGGTCTGTAAATTCAACCTGCTA
Found at i:57767306 original size:20 final size:20
Alignment explanation
Indices: 57767281--57767321 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
57767271 ATATCCAGCG
57767281 TGAGTTTCTTTGTACGAACT
1 TGAGTTTCTTTGTACGAACT
57767301 TGAGTTTCTTTGTACGAACT
1 TGAGTTTCTTTGTACGAACT
57767321 T
1 T
57767322 CTTGAGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (20 bp):
TGAGTTTCTTTGTACGAACT
Found at i:57774085 original size:2 final size:2
Alignment explanation
Indices: 57774013--57774073 Score: 72
Period size: 2 Copynumber: 30.5 Consensus size: 2
57774003 AAGTACCATA
*
57774013 AT AT AT GAT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
57774056 AA AT A- AT A- AT ACT AT AT A
1 AT AT AT AT AT AT A-T AT AT A
57774074 AAGAGTATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
1 2 0.04
2 45 0.88
3 4 0.08
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:57774679 original size:22 final size:22
Alignment explanation
Indices: 57774618--57774682 Score: 58
Period size: 25 Copynumber: 2.8 Consensus size: 22
57774608 GAGGGTTAAT
* * *
57774618 AAATAAAAATATAACAATACTA
1 AAATTAAAATAGAATAATACTA
* *
57774640 AAATATAATACTATGAATAATATTA
1 AAAT-TAA-AATA-GAATAATACTA
57774665 AAATTAAAATAGAATAAT
1 AAATTAAAATAGAATAAT
57774683 GAAAAAAAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 11 0.32
23 5 0.15
24 6 0.18
25 12 0.35
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (22 bp):
AAATTAAAATAGAATAATACTA
Found at i:57776727 original size:6 final size:6
Alignment explanation
Indices: 57776716--57776789 Score: 148
Period size: 6 Copynumber: 12.3 Consensus size: 6
57776706 CTTTCTCTCC
57776716 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
57776764 TATACA TATACA TATACA TATACA TA
1 TATACA TATACA TATACA TATACA TA
57776790 AGCTCACTTC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
TATACA
Found at i:57782753 original size:37 final size:38
Alignment explanation
Indices: 57782653--57782754 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
57782643 ATATATTTGG
57782653 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
57782689 TACATATATATATATGCATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
57782731 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
57782755 ATAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:57782839 original size:2 final size:2
Alignment explanation
Indices: 57782832--57782871 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
57782822 ATATGTACAA
*
57782832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57782872 GTACATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:57782876 original size:8 final size:8
Alignment explanation
Indices: 57782836--57782878 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
57782826 GTACAAATAT
*
57782836 ATATATAT
1 ATATATAC
*
57782844 ATATATAT
1 ATATATAC
*
57782852 ATATATAT
1 ATATATAC
57782860 ATATATAC
1 ATATATAC
*
57782868 ATATGTAC
1 ATATATAC
57782876 ATA
1 ATA
57782879 AAATATACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (8 bp):
ATATATAC
Found at i:57783019 original size:33 final size:33
Alignment explanation
Indices: 57782957--57783019 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
57782947 ACACAATATG
* * *
57782957 GTATTTAAAATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATAAGTAAATATAATA
57782990 GTATTTAAGAATATATACATAAG-AAATATA
1 GTATTTAA-AATATATACATAAGTAAATATA
57783020 TAACTAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (33 bp):
GTATTTAAAATATATACATAAGTAAATATAATA
Found at i:57792105 original size:78 final size:75
Alignment explanation
Indices: 57791979--57792211 Score: 238
Period size: 78 Copynumber: 3.0 Consensus size: 75
57791969 GAAACTTAAC
* ** *
57791979 TTGAAAAGCAGATTTTGAAAATACCT-CGATATGTGACTCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCCG-TGTGTGACTCAAGGCTCAACTCACCTCTCGCAATA
57792043 TGAGTTGATTT
65 TGAGTTGATTT
* * *
57792054 TTGAAAAATATAAATTGAAAAAAATACCTCCGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCA
1 TTGAAAAACAGAAATTG---AAAATACCTCCGTGTGTGA-CTCAAGGCTCAACTCACCTCTCGCA
57792118 ATATGAGTTGATTTTTT
62 ATATGAGTTGA---TTT
* * * * * *
57792135 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGC-CAATGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCCGTGTGTGA-CTCAAGGCTCAACTCACCTCTCGCAATA
*
57792199 TGAGTCGATTT
65 TGAGTTGATTT
57792210 TT
1 TT
57792212 TTTTGAAAGG
Statistics
Matches: 132, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
75 17 0.13
77 2 0.02
78 90 0.68
79 6 0.05
81 17 0.13
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCCGTGTGTGACTCAAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTT
Found at i:57792212 original size:78 final size:78
Alignment explanation
Indices: 57792011--57792234 Score: 260
Period size: 78 Copynumber: 2.9 Consensus size: 78
57792001 ACCTCGATAT
* * *
57792011 GTGA-CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAATATAAATTGA
1 GTGAGCTCAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTG-
* * *
57792072 AAAAAATACCTCCGTGT
64 --AAAATACCTCAGCGC
* *
57792089 GTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAA
1 GTGAGCTCAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAA
*
57792154 AATAGCTCAGCGC
66 AATACCTCAGCGC
* *
57792167 GTGAGC-CAATGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTGAAAGGCAGAAATTG
1 GTGAGCTCAA-GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAGACAGAAATTG
57792231 AAAA
64 AAAA
57792235 ACGGAAATTG
Statistics
Matches: 128, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
77 2 0.02
78 79 0.62
79 30 0.23
81 17 0.13
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (78 bp):
GTGAGCTCAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAA
AATACCTCAGCGC
Found at i:57792382 original size:76 final size:75
Alignment explanation
Indices: 57792239--57792380 Score: 198
Period size: 74 Copynumber: 1.9 Consensus size: 75
57792229 TGAAAAACGG
* *
57792239 AAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCATCTCACAATACGAGTTGATTTT
1 AAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACATCTCACAATACGAGTCGATTTT
57792304 TTTGACAACAA
65 TTTGACAACAA
* * * *
57792315 AAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT
1 AAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACATCTCACAATACGAGTCGATTTT
57792378 TTT
65 TTT
57792381 TTTAAAAGGC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
74 38 0.64
75 1 0.02
76 20 0.34
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (75 bp):
AAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACATCTCACAATACGAGTCGATTTTT
TTGACAACAA
Found at i:57792642 original size:168 final size:167
Alignment explanation
Indices: 57792074--57792641 Score: 859
Period size: 168 Copynumber: 3.4 Consensus size: 167
57792064 TAAATTGAAA
* * * * * *
57792074 AAAATACCTCCGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-TTTTTTTGA
* * * * * *
57792139 AAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AATGCTCAACTCACCTCTCGCAATATGAG
65 CA-ACAGAAATTGAAATTACCTCA--GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
57792203 TCGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
126 TCGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
* * *
57792245 AAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCATCTCACAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
*
57792310 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGAT
66 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGA-
*
57792375 TTTTTTTTTAAAAGGCAGAAATTGAAAAACGGAAATTG
130 TTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
* * * *
57792413 AAAATACCTCGGCGTATGACCTGAGGCTCAACTTGCCGCTCGCAATACGAATTGATTTTTTTGAC
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
* *
57792478 AACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGAT
*
57792543 TTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
131 TTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
57792580 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTT
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTT
57792642 TTGAAAATAC
Statistics
Matches: 362, Mismatches: 33, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
166 2 0.01
167 130 0.36
168 156 0.43
169 18 0.05
170 10 0.03
171 46 0.13
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (167 bp):
AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGAT
TTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
Found at i:57792684 original size:63 final size:63
Alignment explanation
Indices: 57792577--57792969 Score: 410
Period size: 63 Copynumber: 6.0 Consensus size: 63
57792567 AAAACGAAAA
* * *
57792577 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * * **
57792642 TTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT----
***
57792707 ACAGAAA
61 ----TTT
* *
57792714 TTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* ***
57792777 TTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATACAAA
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG---AT--TTT
***
57792842 AAA
61 TTT
* *
57792845 TTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
57792907 TTGAAAATACCTTAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTT
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
57792970 GAAAAACAGA
Statistics
Matches: 270, Mismatches: 43, Indels: 32
0.78 0.12 0.09
Matches are distributed among these distances:
62 52 0.19
63 88 0.33
64 5 0.02
65 18 0.07
66 2 0.01
68 52 0.19
71 5 0.02
72 48 0.18
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (63 bp):
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
Found at i:57792811 original size:135 final size:136
Alignment explanation
Indices: 57792563--57793193 Score: 719
Period size: 135 Copynumber: 4.6 Consensus size: 136
57792553 AAGGCAGAAA
* * *
57792563 TTGAAAAAC-GAAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATA
1 TTGAAAAACAG-AAATTGAAAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATA
* * ** * **
57792627 CGAGTTGATTTTTTTTTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
63 TGAGTTGATTTTTTTTTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATG
57792692 AGTTGAATT
128 AGTTGAATT
*
57792701 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
57792765 GTTGATTTTTTTTTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
66 GTTGATTTTTTTTTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
57792830 TGAA-C
131 TGAATT
* * *
57792835 AT--ACAA-A-AAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
*
57792896 GTTGA-TTTTTTTTGAAAATACCTTAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
66 GTTGATTTTTTTTTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
57792960 TGAATTTT
131 TGAA--TT
* * *
57792968 TTGAAAAACAGAAGTTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
* * *
57793033 GAGTTGATTTTTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCC-AAGGCTCAACTT
64 GAGTTGATTTTTTT------------TTG-AAAATACCTCAGCGCGT---CCTGAGGCTCAACTC
*
57793097 ACCTCTCGCAATATGAGTTGATTTT
113 ACCTCTCGCAATATGAGTTGA-ATT
* * * *
57793122 TTGAAAAACAGAAATTGAAAACACCTCAGCATGT---GAGGCTCAACTTACCTCTCGCAACATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
57793184 GTTGATTTTT
66 GTTGATTTTT
57793194 GAAAAACATA
Statistics
Matches: 432, Mismatches: 33, Indels: 45
0.85 0.06 0.09
Matches are distributed among these distances:
130 62 0.14
131 57 0.13
132 1 0.00
133 4 0.01
134 1 0.00
135 94 0.22
136 1 0.00
137 46 0.11
138 4 0.01
139 35 0.08
140 6 0.01
149 36 0.08
152 3 0.01
153 15 0.03
154 34 0.08
155 31 0.07
156 2 0.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (136 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTTTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGAATT
Found at i:57793045 original size:77 final size:76
Alignment explanation
Indices: 57792930--57793373 Score: 421
Period size: 71 Copynumber: 5.8 Consensus size: 76
57792920 AGCGCGTCCT
* *
57792930 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAACAGAAGTTGAAAACACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAAAACAGAAATTGAAAATACCTC
*
57792995 AGCGTGTGACTC
65 AGCATGTGACTC
*
57793007 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTG-AAAATACCT
* *
57793072 CAGCGTGTAAGC-C
64 CAGCATGTGA-CTC
* * *
57793085 AAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCA
57793150 GCA--TG--T-
66 GCATGTGACTC
* *
57793156 GAGGCTCAACTTACCTCTCGCAACATGAGTTGA-TTTTTGAAAAACATAAATTGAGCAGAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG------A-AAA---A-CAGAAATTG
* * *
57793220 AAAATACCTCA--ATGGGTCTT
55 AAAATACCTCAGCATGTGACTC
* * ** * *
57793240 GAGGCTCAACTGACCTCTCGCAATATGAATTGATTTTTTG---ATGATAAATTGAGAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCA
*
57793302 --ATGTGACTT
66 GCATGTGACTC
* *
57793311 GAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAATTAAAACAGAAATTGAAAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-GA--AAAACAGAAATTGAAAATA
57793374 GAAATGGAAA
Statistics
Matches: 309, Mismatches: 31, Indels: 54
0.78 0.08 0.14
Matches are distributed among these distances:
70 6 0.02
71 91 0.29
74 1 0.00
75 1 0.00
76 14 0.05
77 87 0.28
78 49 0.16
79 2 0.01
80 1 0.00
81 20 0.06
83 1 0.00
84 30 0.10
85 6 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (76 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCA
GCATGTGACTC
Found at i:57793101 original size:78 final size:74
Alignment explanation
Indices: 57792931--57793209 Score: 379
Period size: 77 Copynumber: 3.7 Consensus size: 74
57792921 GCGCGTCCTG
*
57792931 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAACAGAAGTTGAAAACACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAAAACAGAAATTGAAAACACCTCA
57792996 GCGTGT-GACTC
65 GCGTGTAG-C-C
* *
57793007 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAATACCT
1 -AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTG-AAAACACCT
57793072 CAGCGTGTAAGCC
63 CAGCGTGT-AGCC
*
57793085 AAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCA
1 -AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCA
*
57793150 GCATGT-G--
65 GCGTGTAGCC
* * *
57793157 AGGCTCAACTTACCTCTCGCAACATGAGTTGA-TTTTTGAAAAACATAAATTGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGA
57793210 GCAGAAATTG
Statistics
Matches: 188, Mismatches: 10, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
70 20 0.11
71 31 0.16
74 1 0.01
76 16 0.09
77 70 0.37
78 48 0.26
79 1 0.01
80 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (74 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCAG
CGTGTAGCC
Found at i:57793245 original size:155 final size:150
Alignment explanation
Indices: 57792907--57793437 Score: 470
Period size: 155 Copynumber: 3.4 Consensus size: 150
57792897 TTGATTTTTT
* *
57792907 TTGAAAATACCTTAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGA
1 TTGAAAATACCTCA--GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGA
* *
57792972 AAAACAGAAGTTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGT
63 AAAACAGAAATTGAAAACACCTCAGC--ATG--T-GAGGCTCAACTCACCTCTCGCAATATGAGT
***
57793037 TGATTTTT-TTGAC--AA---ACAGAAA
123 TGATTTTTAAAAACAAAATTGACAGAAA
* * *
57793059 TTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTT
1 TTG-AAAATACCTCAGCGTCT-TG---AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
57793124 GAAAAACAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTTACCTCTCGCAACATGAGTTGA
61 GAAAAACAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
57793189 TTTTTGAAAAACATAAATTGAGCAGAAA
126 TTTTT-AAAAACA-AAATTGA-CAGAAA
* * *
57793217 TTGAAAATACCTCAATGGGTCTTGAGGCTCAACTGACCTCTCGCAATATGAATTGATTTTTTG--
1 TTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
** * * * * *
57793280 -ATGATAAATTGAGAATACCTCAATGTGACT-TGAGGTTCAACTCACCTCTCGCAATATGAGTTG
64 AAACAGAAATTGAAAACACCTC-A-G-CA-TGTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
57793343 ATTTTTTAAATTAAAACAGAAATTGAAAATAGAAA
125 A-TTTTT--A--AAAACA-AAATTG---ACAGAAA
* * * *
57793378 TGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 TTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
57793438 TTAAACACAT
Statistics
Matches: 316, Mismatches: 36, Indels: 47
0.79 0.09 0.12
Matches are distributed among these distances:
149 36 0.11
150 1 0.00
151 6 0.02
152 22 0.07
153 11 0.03
154 37 0.12
155 99 0.31
156 6 0.02
157 12 0.04
158 11 0.03
159 57 0.18
160 1 0.00
161 16 0.05
162 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (150 bp):
TTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
ACAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
AAAAACAAAATTGACAGAAA
Found at i:57793433 original size:159 final size:155
Alignment explanation
Indices: 57793155--57793437 Score: 372
Period size: 159 Copynumber: 1.8 Consensus size: 155
57793145 CCTCAGCATG
* * * * *
57793155 TGAGGCTCAACTTACCTCTCGCAACATGAGTTGATTTTTGAAAAACATAAATTGAGCAGAAATTG
1 TGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTAAAAAACAGAAATTGAACAGAAATGG
* * * *
57793220 AAAATACCTCAATGGGTCTTGAGGCTCAACTGACCTCTCGCAATATGAATTGATTTTTTGATGAT
66 AAAACACCTCAATGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAACTGATTTTTTGATGAT
57793285 AAATTGAGAATACCTCAATGTGACT
131 AAATTGAGAATACCTCAATGTGACT
* * *
57793310 TGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAATTAAAACAGAAATTGAAAATAG
1 TGAGGCTCAACTCACCTCTCGCAACATGAGTTGA-TTTTT-AA--AAAACAGAAATTG--AACAG
* *
57793375 AAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
60 AAATGGAAAACACCTCAATGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAACTGATTTTTT
57793438 TTAAACACAT
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
155 31 0.29
156 5 0.05
157 1 0.01
159 53 0.49
160 1 0.01
161 17 0.16
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (155 bp):
TGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTAAAAAACAGAAATTGAACAGAAATGG
AAAACACCTCAATGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAACTGATTTTTTGATGAT
AAATTGAGAATACCTCAATGTGACT
Found at i:57793600 original size:75 final size:73
Alignment explanation
Indices: 57793471--57793784 Score: 359
Period size: 76 Copynumber: 4.2 Consensus size: 73
57793461 AAAGAAATTA
* ** *
57793471 AAAACAGAATTTGAAAGGACCTC-GACGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAG-CGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAG
57793535 TTGATTCTTTTG
63 TTGATT-TTTTG
57793547 AAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
57793612 GATTTTTTG
65 GATTTTTTG
* * * * *
57793621 ATAAAAATAGAATTTGAAAATATCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 ---AAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
57793686 TTGA-TTTTTG
63 TTGATTTTTTG
* * ** *
57793696 ACAAACAAAAATTGAAATTACCTCAGC--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
57793759 GATTTTTTTG
65 GA-TTTTTTG
* *
57793769 -AAACATAAATTAAAAA
1 AAAACAGAAATTGAAAA
57793785 AATGAAAATT
Statistics
Matches: 210, Mismatches: 20, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
71 48 0.23
72 1 0.00
73 26 0.12
74 5 0.02
75 43 0.20
76 61 0.29
77 25 0.12
78 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:57793668 original size:76 final size:75
Alignment explanation
Indices: 57793510--57793871 Score: 400
Period size: 76 Copynumber: 4.7 Consensus size: 75
57793500 TGGCCCGAGA
**
57793510 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGA-AAAGCAGAAATTGAAAATACCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGATAAAAAAGAAATTGAAAATACCTCAGC
*
57793574 GTGTCCCGAGG
65 GTGTCCTGAGG
* *
57793585 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATAAAAATAGAATTTGAAAATATCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATAAAAA-AGAAATTGAAAATACCTCAGC
*
57793650 GTGTTCTGAGG
65 GTGTCCTGAGG
* * *
57793661 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAA-AAATTGAAATTACCTCAGC-
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATAAAAAAGAAATTGAAAATACCTCAGCG
*
57793723 -GTCTTGAGG
66 TGTCCTGAGG
* *
57793732 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTAAA-AAAATGAAAATTG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG----ATAAA--AAAGAAATTG--AA---
57793796 AAAATACCTCAGCGTGTCCTGAGG
54 --AATACCTCAGCGTGTCCTGAGG
*
57793820 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGA-AAAACAGAAATT-AAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATAAAAAAGAAATTGAAAA
57793872 GTAGAAATTG
Statistics
Matches: 245, Mismatches: 22, Indels: 43
0.79 0.07 0.14
Matches are distributed among these distances:
71 35 0.14
72 2 0.01
73 22 0.09
74 7 0.03
75 45 0.18
76 57 0.23
77 6 0.02
79 9 0.04
80 4 0.02
81 5 0.02
82 1 0.00
86 16 0.07
88 36 0.15
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (75 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATAAAAAAGAAATTGAAAATACCTCAGCG
TGTCCTGAGG
Found at i:57793829 original size:417 final size:410
Alignment explanation
Indices: 57793089--57794118 Score: 1111
Period size: 417 Copynumber: 2.5 Consensus size: 410
57793079 TAAGCCAAGG
* * *
57793089 CTCAACTTACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCAGCAT
1 CTCAACTTACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGT
* *
57793154 GT--GAGGCTCAACTTACCTCTCGCAACATGAGTTGA-TTTTTGAAAAACATAAATTGAGCAGAA
66 GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AAACATAAATT--G-AGAA
* *
57793216 ATTGAAAATACCTCAATGGGTCTTGAGGCTCAACTGACCTCTCGCAATATGAATTGATTTTTTGA
126 ATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTGA
** * * *
57793281 TGATAAATTGAGAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATT
191 ACAAAAATTGAGAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * *
57793346 TTTTAAATTAAAACAGAAATTGAAAATAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTC
256 TTTT--ATTAAAACAGAAATTAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTC
* * *
57793411 ACCTCTCGCAATATGAGCTGATTTTTTTTAAACACATAAATTAAAAAAAAAAAGAAATT-AAAAA
319 ACCTCTCGCAATATGAGCTGA--TTTTTGAAAAACAGAAATT----AAAAAAAGAAATTGAAAAA
* * * * * *
57793475 CAGAATTTGAAAGGACCTCGACGTGTGGCCCGAGA
378 CAAAAATTAAAAAGACCTCG--GCGTGCCCCGAGA
*
57793510 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
1 CTCAACTTACCTCTCGCAATATGAGTTGATT-TTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
* *
57793575 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATA-A-AAA-T-AGAATTT
65 TGT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATAAATTGAGAAATT
* * * *
57793636 GAAAATATCTCAGCGTGT-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACA
129 GAAAATACCTCAACGGGTCT-TGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTG---
* *
57793699 AACAAAAATTGA-AATTACCTC-A-GCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
190 AACAAAAATTGAGAA-TACCTCAATGCGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * *
57793761 -TTTTT-TTGAAACATAAATTAAAAAAATGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
254 TTTTTTATTAAAACAGAAATTAAAAAAA-G-AAATGGAAAACACCTCAGC--GTCCTGAGGCTCA
* **
57793824 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGTAGAAATTGAAAAACA
315 ACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAACAGAAATTAAAAAAAGAAATTGAAAAACA
* * *
57793889 AAAATTAAAAATACCTTGGCGTGCCCCGAGG
380 AAAATTAAAAAGACCTCGGCGTGCCCCGAGA
* * * *
57793920 CTCAGCTTACCTTTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAATTGAAATTACCTCAGCGT
1 CTCAACTTACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGT
*
57793984 GTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAGCATAAATTGAAAAAA
66 GTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAA-CATAAATTG-----A
* * * * * *
57794049 TGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCACAATATGAGTTGAT
123 --GAAATTGAAAATACCTCAACG-G-GTCTTGAGGCTCAACTCACCTCTCGCAATATGAATTGAT
57794114 TTTTT
184 TTTTT
57794119 TGAAAGACAG
Statistics
Matches: 518, Mismatches: 58, Indels: 63
0.81 0.09 0.10
Matches are distributed among these distances:
407 2 0.00
408 73 0.14
409 3 0.01
410 36 0.07
411 12 0.02
412 22 0.04
413 18 0.03
414 1 0.00
415 33 0.06
416 12 0.02
417 123 0.24
418 3 0.01
419 16 0.03
421 50 0.10
422 36 0.07
423 34 0.07
424 7 0.01
425 31 0.06
426 6 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (410 bp):
CTCAACTTACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGT
GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATAAATTGAGAAATTGA
AAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTGAACAAA
AATTGAGAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTA
TTAAAACAGAAATTAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTCTC
GCAATATGAGCTGATTTTTGAAAAACAGAAATTAAAAAAAGAAATTGAAAAACAAAAATTAAAAA
GACCTCGGCGTGCCCCGAGA
Found at i:57793883 original size:86 final size:86
Alignment explanation
Indices: 57793703--57793871 Score: 257
Period size: 88 Copynumber: 1.9 Consensus size: 86
57793693 TTGACAAACA
* * * **
57793703 AAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTT
1 AAAATTGAAAATACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* *
57793768 GAAACATAAATTAAAAAAATG
66 AAAACAGAAATTAAAAAAATG
57793789 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAAATTGAAAATACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
57793854 GAAAAACAGAAATTAAAA
64 GAAAAACAGAAATTAAAA
57793872 GTAGAAATTG
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
86 19 0.26
88 55 0.74
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (86 bp):
AAAATTGAAAATACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AAAACAGAAATTAAAAAAATG
Found at i:57793898 original size:13 final size:13
Alignment explanation
Indices: 57793855--57793899 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
57793845 TTGATTTTTG
57793855 AAAAACAGAAATT
1 AAAAACAGAAATT
**
57793868 AAAAGTAGAAATT
1 AAAAACAGAAATT
*
57793881 GAAAAACAAAAATT
1 -AAAAACAGAAATT
57793895 AAAAA
1 AAAAA
57793900 TACCTTGGCG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:57794013 original size:73 final size:74
Alignment explanation
Indices: 57793879--57794046 Score: 221
Period size: 73 Copynumber: 2.3 Consensus size: 74
57793869 AAAGTAGAAA
* * * ** * * * *
57793879 TTGAAAAACAAAAATTAAAAATACCTTGGCGTGCCCCGAGGCTCAGCTTACCTTTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
57793944 GTTGA-TTT
66 GTTGATTTT
* * *
57793952 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
57794017 GTTGATTTT
66 GTTGATTTT
57794026 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
57794047 AATGGAAATT
Statistics
Matches: 81, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
73 58 0.72
74 23 0.28
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTT
Found at i:57804155 original size:2 final size:2
Alignment explanation
Indices: 57804148--57804177 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
57804138 ATAAAAATAC
57804148 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
57804178 GCATATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57804656 original size:2 final size:2
Alignment explanation
Indices: 57804644--57804673 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
57804634 TTTTATGTAC
*
57804644 AT AT GT 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
57804674 TTGTACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57804805 original size:2 final size:2
Alignment explanation
Indices: 57804798--57804831 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
57804788 TATTATATGC
57804798 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
57804832 TTTTATGTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57808405 original size:21 final size:21
Alignment explanation
Indices: 57808362--57808405 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
57808352 AAATAGAATT
*
57808362 AAAATATAAATTTAATGATAA
1 AAAATATAAATTTAATGAGAA
*
57808383 AAAATATATAATTT-ATGGGAA
1 AAAATATA-AATTTAATGAGAA
57808404 AA
1 AA
57808406 TTTTTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (21 bp):
AAAATATAAATTTAATGAGAA
Found at i:57812728 original size:22 final size:21
Alignment explanation
Indices: 57812703--57812745 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
57812693 TTTTTTCTCT
*
57812703 CATTTTTTCTCTTGCCAAACAC
1 CATTTTTTCTCTT-CAAAACAC
*
57812725 CATTTTTTTTCTTCAAAACAC
1 CATTTTTTCTCTTCAAAACAC
57812746 ATGGTCTGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (21 bp):
CATTTTTTCTCTTCAAAACAC
Found at i:57813908 original size:66 final size:67
Alignment explanation
Indices: 57813819--57813945 Score: 211
Period size: 66 Copynumber: 1.9 Consensus size: 67
57813809 CTTGTATATG
* * *
57813819 AAATGAGCGAACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGATAAA
1 AAATGAGCAAACCATATATTTTGAAGAAAAAAAATGGTGTTTGGCAAGAGAGAAAATGAGATAAA
57813884 GA
66 GA
*
57813886 AAATG-GCAAACCATGTATTTTGAAGAAAAAAAATGGTGTTTGGCAAGAGAGAAAATGAGA
1 AAATGAGCAAACCATATATTTTGAAGAAAAAAAATGGTGTTTGGCAAGAGAGAAAATGAGA
57813946 GAAAAAATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
66 51 0.91
67 5 0.09
ACGTcount: A:0.46, C:0.06, G:0.26, T:0.21
Consensus pattern (67 bp):
AAATGAGCAAACCATATATTTTGAAGAAAAAAAATGGTGTTTGGCAAGAGAGAAAATGAGATAAA
GA
Found at i:57815136 original size:27 final size:28
Alignment explanation
Indices: 57815106--57815205 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 28
57815096 TTTAGTTTAC
57815106 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* ** *
57815133 TAAAAATATTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
57815160 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
57815187 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
57815206 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:57815220 original size:27 final size:27
Alignment explanation
Indices: 57815190--57815250 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
57815180 CGACTTGTAA
57815190 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
**** *
57815217 AATTACCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
57815244 AATTACC
1 AATTACC
57815251 GTTTTACCCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.30, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:57815248 original size:81 final size:81
Alignment explanation
Indices: 57815147--57815539 Score: 236
Period size: 81 Copynumber: 4.9 Consensus size: 81
57815137 AATATTGAAA
** * * *
57815147 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTACAAAATTACCGAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGATT
57815212 TACAGAATTACCGTTT
66 TACAGAATTACCGTTT
* * *** * ** * * *** * *
57815228 TACCCCCGATTTACATAATTACCGTTTTACC-CCTGATTTACATAATTATCGTTTTACCCTCGAC
1 TACCCTCGATTTACAAAATTACCGAAATACCTTC-GATTTGTAAAATTACCAAATTACCCCCGAT
57815292 TTACAGAATTACCGTTT
65 TTACAGAATTACCGTTT
* * *** * * * * ** **
57815309 TATCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCGAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGATT
*
57815374 TACAGAATTACTGTTT
66 TACAGAATTACCGTTT
** * * * *
57815390 TACCCTCGATTTACAAAATTACTAAAATACCCTTAG-TTTGTAAAATTACCAAAATACCCCTAGT
1 TACCCTCGATTTACAAAATTACCGAAATA-CCTTCGATTTGTAAAATTACCAAATTACCCC-CGA
****
57815454 TTGTA-A-AATTACCAAAA
64 TT-TACAGAATTACCGTTT
* * *** * * * * *
57815471 TACCCTTGGTTTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATT
1 TACCCTCGATTTACAAAATTACCGAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGATT
57815536 TACA
66 TACA
57815540 AAGTTACAGA
Statistics
Matches: 239, Mismatches: 66, Indels: 15
0.75 0.21 0.05
Matches are distributed among these distances:
79 2 0.01
80 8 0.03
81 218 0.91
82 9 0.04
83 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.36
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCGAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGATT
TACAGAATTACCGTTT
Found at i:57815412 original size:27 final size:27
Alignment explanation
Indices: 57815201--57815411 Score: 289
Period size: 27 Copynumber: 7.8 Consensus size: 27
57815191 ATTACCAAAG
*
57815201 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
57815228 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
57815255 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
57815282 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
57815309 TATCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
57815336 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
57815363 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
57815390 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
57815412 TAAAATACCC
Statistics
Matches: 166, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 164 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:57815420 original size:27 final size:27
Alignment explanation
Indices: 57815336--57815612 Score: 134
Period size: 27 Copynumber: 10.2 Consensus size: 27
57815326 ATTACCGTTT
* * ***
57815336 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
57815363 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
57815390 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
57815417 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
57815444 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* * *** *
57815471 TACCCTTGGTTTGTGAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
57815498 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
57815525 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
57815552 TACCCTTGACTTT-CTAAAAATTA-TAAAA
1 TACCCTCGA-TTTAC--AAAATTACTAAAA
* * * *
57815580 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
57815607 TACCCT
1 TACCCT
57815613 TAGTTTGTAG
Statistics
Matches: 203, Mismatches: 35, Indels: 24
0.77 0.13 0.09
Matches are distributed among these distances:
26 10 0.05
27 172 0.85
28 14 0.07
29 7 0.03
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:57815553 original size:81 final size:81
Alignment explanation
Indices: 57815405--57815665 Score: 226
Period size: 81 Copynumber: 3.2 Consensus size: 81
57815395 TCGATTTACA
* * *
57815405 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAA
57815470 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
*
57815486 AAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACCA
* * *
57815548 GAAATACCCTTGACTTTCTAA
64 -AAATACCCTTG-GTTTGT-G
* *** ** ** * * * *
57815569 AAATTA-TAAAATACCATTGGTTTACAAAATTACTGAAATACCCTTAGTTTGTAGATTTACCAAA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAA
* **
57815633 ACACCCTT-GTAGGATG
66 ATACCCTTGGTTTG-TG
*
57815649 AAATGACTAAAATACCC
1 AAATTACTAAAATACCC
57815666 CTATTAGGTA
Statistics
Matches: 142, Mismatches: 28, Indels: 20
0.75 0.15 0.11
Matches are distributed among these distances:
79 2 0.01
80 14 0.10
81 67 0.47
82 45 0.32
83 12 0.08
84 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAA
ATACCCTTGGTTTGTG
Found at i:57815628 original size:27 final size:27
Alignment explanation
Indices: 57815404--57815640 Score: 203
Period size: 27 Copynumber: 8.7 Consensus size: 27
57815394 CTCGATTTAC
57815404 AAAATTACTAAAATACCCTTAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
57815431 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
57815458 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* * * *
57815485 GAAATTACTGAAATACCCTCAATTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* * *
57815512 AAAATTACCAAAATACCCCT-GATT-T
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
57815537 ACAAAGTTAC-AGAAATACCCTTGACTTTCT
1 A-AAA-TTACTA-AAATACCCTT-AGTTTGT
* * **
57815567 AAAAATTA-TAAAATACCATTGGTTTAC
1 -AAAATTACTAAAATACCCTTAGTTTGT
*
57815594 AAAATTACTGAAATACCCTTAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* * * *
57815621 AGATTTACCAAAACACCCTT
1 AAAATTACTAAAATACCCTT
57815641 GTAGGATGAA
Statistics
Matches: 166, Mismatches: 35, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
25 2 0.01
26 13 0.08
27 131 0.79
28 9 0.05
29 6 0.04
30 4 0.02
31 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTAGTTTGT
Found at i:57815736 original size:27 final size:27
Alignment explanation
Indices: 57815659--57815736 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
57815649 AAATGACTAA
* *
57815659 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
57815686 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
57815713 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
57815737 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:57816925 original size:25 final size:25
Alignment explanation
Indices: 57816896--57816943 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57816886 TTATAATATG
* * *
57816896 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
57816921 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
57816944 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:57816994 original size:9 final size:9
Alignment explanation
Indices: 57816982--57817038 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
57816972 TTTGATAAAC
57816982 ATGATATGT
1 ATGATATGT
*
57816991 ATGATATGCAC
1 ATGATATG--T
*
57817002 ATGACATGT
1 ATGATATGT
*
57817011 ATGATATGCAC
1 ATGATATG--T
57817022 ATGATATGT
1 ATGATATGT
57817031 ATGATATG
1 ATGATATG
57817039 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:57817005 original size:20 final size:20
Alignment explanation
Indices: 57816980--57817050 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
57816970 ATTTTGATAA
57816980 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
57817000 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
57817020 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
57817040 ACATGAGATGT
1 ACATGATATGT
57817051 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:57817027 original size:11 final size:11
Alignment explanation
Indices: 57816991--57817045 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
57816981 CATGATATGT
57816991 ATGATATGCAC
1 ATGATATGCAC
* *
57817002 ATGACATG--T
1 ATGATATGCAC
57817011 ATGATATGCAC
1 ATGATATGCAC
*
57817022 ATGATATG--T
1 ATGATATGCAC
57817031 ATGATATGCAC
1 ATGATATGCAC
57817042 ATGA
1 ATGA
57817046 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:57817187 original size:48 final size:47
Alignment explanation
Indices: 57817097--57817213 Score: 182
Period size: 48 Copynumber: 2.4 Consensus size: 47
57817087 AGGAAGTGCA
*
57817097 AAAGGGTTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAT
57817143 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--TAAAGGGCTTATGCCCCAGTTAT-AT
*
57817193 AAAGGGCTTTTGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
57817214 CTATATGATA
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
46 21 0.32
48 23 0.35
50 21 0.32
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAT
Done.