Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 279 of 345
Found at i:83174622 original size:18 final size:18
Alignment explanation
Indices: 83174573--83174630 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
83174563 GGCTAAGAGA
*
83174573 ATTGAGAGAGGAGAGAATG
1 ATTGAGAGATGAG-GAATG
83174592 A-TGA-ATGAGTGAGGAATG
1 ATTGAGA-GA-TGAGGAATG
*
83174610 ATTGAGAGATGAGGGATG
1 ATTGAGAGATGAGGAATG
83174628 ATT
1 ATT
83174631 AGAAAAGTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 1 0.03
18 22 0.67
19 9 0.27
20 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (18 bp):
ATTGAGAGATGAGGAATG
Found at i:83187747 original size:40 final size:39
Alignment explanation
Indices: 83187702--83187811 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 39
83187692 CTGGAAATTA
* *
83187702 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT--CATAC
*
83187743 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCATAC
83187782 TATCCGGGCTAAGACCCGAAGGCATTGTGC
1 TATCCGGGCTAAGACCCGAAGGCATTGTGC
83187812 ACGTGGTTAT
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
38 1 0.02
39 9 0.14
40 53 0.84
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCATAC
Found at i:83195865 original size:40 final size:40
Alignment explanation
Indices: 83195738--83195867 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
83195728 ATGCTGGAAA
* *
83195738 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
83195778 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
83195818 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
83195858 TTATATCCGG
1 TTATATCCGG
83195868 TTGTATTCGA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:83197432 original size:38 final size:38
Alignment explanation
Indices: 83197385--83197622 Score: 404
Period size: 38 Copynumber: 6.3 Consensus size: 38
83197375 GGCTCAAAGG
* * *
83197385 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
83197423 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
83197461 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
83197499 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTTA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
83197537 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
83197575 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
83197613 CCCAGATATA
1 CCCGGATATA
83197623 CATCGAATAT
Statistics
Matches: 191, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 191 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:83199948 original size:40 final size:39
Alignment explanation
Indices: 83199903--83200110 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
83199893 CGGAATACAA
*
83199903 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
83199943 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
83199983 CCGGATTTAACAACTTGCACGAATGCCTTCAGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
83200023 CCGGATGTAGTCGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
83200063 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
83200103 CCGGATAT
1 CCGGATAT
83200111 CATTCAATTG
Statistics
Matches: 138, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:83200043 original size:80 final size:80
Alignment explanation
Indices: 83199903--83200072 Score: 227
Period size: 80 Copynumber: 2.1 Consensus size: 80
83199893 CGGAATACAA
* * *
83199903 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCAGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
*
83199968 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
83199983 CCGGATTTAACAACTTGCACGAATGCCTTCAGGTCTTAGCCCGGAT-GTAGTCG-CTAGCACAAT
1 CCGGATATAACAACATGCACGAATGCCTTCAGGTCTTAGCCCGGATAG-A-ACGACTAGCACAAA
*
83200046 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
83200063 CCGGATATAA
1 CCGGATATAA
83200073 TTACTAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 75 0.96
81 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCAGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:83200101 original size:80 final size:81
Alignment explanation
Indices: 83199903--83200108 Score: 222
Period size: 80 Copynumber: 2.6 Consensus size: 81
83199893 CGGAATACAA
* * *
83199903 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAA
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAA
*
83199966 TGCCTTCGGGTATTAGC
65 TGCCTTCGGGTATTAAC
* * * * * *
83199983 CCGGATTTAACAACTTGCACGAATGCCTTCAGGTCTTAGCCCGGATGTAG-TCG-CTAGCACAAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
83200046 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * * *
83200063 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT
83200109 ATCATTCAAT
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 100 0.95
81 2 0.02
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:83209937 original size:21 final size:20
Alignment explanation
Indices: 83209904--83209945 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
83209894 ACATCTTTAA
83209904 TAATATAGAAATAAAACAAAT
1 TAATATAGAAATAAAA-AAAT
83209925 TAATCATAG-AATAAAAAAAT
1 TAAT-ATAGAAATAAAAAAAT
83209945 T
1 T
83209946 TCAATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 11 0.55
22 4 0.20
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
TAATATAGAAATAAAAAAAT
Found at i:83225824 original size:12 final size:12
Alignment explanation
Indices: 83225807--83225838 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
83225797 CTAATATGGG
83225807 AAGCCTTTGGTC
1 AAGCCTTTGGTC
*
83225819 AAGCCTTGGGTC
1 AAGCCTTTGGTC
83225831 AAGCCTTT
1 AAGCCTTT
83225839 TTGGTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (12 bp):
AAGCCTTTGGTC
Found at i:83226518 original size:13 final size:12
Alignment explanation
Indices: 83226499--83226528 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
83226489 GTTCATTCAC
83226499 AAAAAAGAAAAA
1 AAAAAAGAAAAA
83226511 AGAAAAAGAAAAA
1 A-AAAAAGAAAAA
83226524 AAAAA
1 AAAAA
83226529 GGTTATTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:83228352 original size:20 final size:19
Alignment explanation
Indices: 83228327--83228390 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 19
83228317 TCAATAAAAT
83228327 AATTCAAAATAATTTTTTAA
1 AATTCAAAAT-ATTTTTTAA
*
83228347 AATTCAAAATATTTATATAA
1 AATTCAAAATATTT-TTTAA
*
83228367 ATTTCAAAATTTATATTTTTAA
1 AATTCAAAA--TAT-TTTTTAA
83228389 AA
1 AA
83228391 AAGTTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 4 0.11
20 22 0.61
22 8 0.22
23 2 0.06
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTCAAAATATTTTTTAA
Found at i:83228368 original size:19 final size:20
Alignment explanation
Indices: 83228327--83228376 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
83228317 TCAATAAAAT
*
83228327 AATTCAAAATAATTTTTTAA
1 AATTCAAAATAATTTTATAA
83228347 AATTCAAAAT-ATTTATATAA
1 AATTCAAAATAATTT-TATAA
*
83228367 ATTTCAAAAT
1 AATTCAAAAT
83228377 TTATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTCAAAATAATTTTATAA
Found at i:83230571 original size:14 final size:14
Alignment explanation
Indices: 83230550--83230590 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
83230540 CTTACCTAAT
83230550 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* **
83230564 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTGA
83230578 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
83230591 CAAGTTGCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.37
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:83236201 original size:53 final size:53
Alignment explanation
Indices: 83236138--83236244 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
83236128 ATCTAATAGT
83236138 TCTGGTTGTTTTGTTTCCATAGTTTATTCTGGATTCTAGGGATAAGCCTATCC
1 TCTGGTTGTTTTGTTTCCATAGTTTATTCTGGATTCTAGGGATAAGCCTATCC
83236191 TCTGGTTGTTTTGTTTCCATAGTTTATTCTGGATTCTAGGGATAAGCCTATCC
1 TCTGGTTGTTTTGTTTCCATAGTTTATTCTGGATTCTAGGGATAAGCCTATCC
83236244 T
1 T
83236245 GGCATTGATG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.46
Consensus pattern (53 bp):
TCTGGTTGTTTTGTTTCCATAGTTTATTCTGGATTCTAGGGATAAGCCTATCC
Found at i:83237263 original size:10 final size:10
Alignment explanation
Indices: 83237234--83237292 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
83237224 TTTAAGTTAA
83237234 GTGTTT-AAT
1 GTGTTTAAAT
*
83237243 GTGTTT-TAT
1 GTGTTTAAAT
83237252 GTGTTTAAAT
1 GTGTTTAAAT
*
83237262 GTGATTAATAT
1 GTGTTTAA-AT
*
83237273 GTCTGTTTTAAT
1 G--TGTTTAAAT
83237285 GTGTTTAA
1 GTGTTTAA
83237293 TTGCATGTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 14 0.35
10 15 0.38
11 3 0.08
12 3 0.08
13 5 0.12
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.54
Consensus pattern (10 bp):
GTGTTTAAAT
Found at i:83239915 original size:46 final size:45
Alignment explanation
Indices: 83239848--83240022 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
83239838 TGTAACCCGC
*
83239848 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
83239894 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * *
83239940 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
83239987 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
83240023 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 67 0.61
47 32 0.29
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:83239970 original size:93 final size:93
Alignment explanation
Indices: 83239856--83240026 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
83239846 GCCCATAAGT
*
83239856 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
83239920 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
83239949 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
83240014 CGAGTTCGGATGC
66 CGAGCTCGGATGC
83240027 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:83240042 original size:46 final size:46
Alignment explanation
Indices: 83239853--83240042 Score: 130
Period size: 46 Copynumber: 4.1 Consensus size: 46
83239843 CCCGCCCATA
* * *
83239853 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTC-GGATGCTCAACCATCC-T
83239898 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * *
83239948 --CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCT-CAACCATCCT
*
83239992 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
83240038 AGTGA
1 AGTGA
83240043 CATGTCACTT
Statistics
Matches: 115, Mismatches: 11, Indels: 36
0.71 0.07 0.22
Matches are distributed among these distances:
44 8 0.07
45 4 0.03
46 63 0.55
47 30 0.26
49 3 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:83243341 original size:40 final size:40
Alignment explanation
Indices: 83243247--83243391 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
83243237 TACTCGAATG
* *
83243247 ATATCCGGGCTAAGTCCCGAACGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
83243288 ACATCTGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
83243328 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
83243368 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
83243392 TTGTGCGAGT
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.69
41 26 0.29
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:83251359 original size:40 final size:40
Alignment explanation
Indices: 83251265--83251409 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
83251255 TACTCGAATG
* *
83251265 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
83251306 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
83251346 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
83251386 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
83251410 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 27 0.29
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:83253441 original size:40 final size:40
Alignment explanation
Indices: 83253396--83253562 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
83253386 CGGAATATAA
83253396 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
83253436 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
83253476 CCGGATAT-AGCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
83253515 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
83253555 CCGGATAT
1 CCGGATAT
83253563 CATTCAATTT
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 34 0.32
40 73 0.68
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:83253518 original size:39 final size:38
Alignment explanation
Indices: 83253412--83253523 Score: 143
Period size: 39 Copynumber: 2.8 Consensus size: 38
83253402 ATAATCACGT
* * *
83253412 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TAGAACTA
*
83253452 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGAACTA
*
83253491 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
83253524 ATTTCCAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.03
39 33 0.51
40 30 0.46
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAGAACTA
Found at i:83253545 original size:79 final size:79
Alignment explanation
Indices: 83253412--83253562 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 79
83253402 ATAATCACGT
* *
83253412 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
83253477 CGGATATAGCACTA
66 CGGATATAGCACTA
* * ** * *
83253491 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGGCTTAG
83253554 CCCGGATAT
64 CCCGGATAT
83253563 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCACTA
Found at i:83257663 original size:28 final size:29
Alignment explanation
Indices: 83257605--83257664 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
83257595 ATTGAAATTG
***
83257605 AAAGAAAAAGTACAAGAAAAAAGATTGAA
1 AAAGAAAAAGTACAAGAAAAAAGAAAAAA
* *
83257634 AAAGAGAAAG-ACAAGAAAAATGAAAAAA
1 AAAGAAAAAGTACAAGAAAAAAGAAAAAA
83257662 AAA
1 AAA
83257665 AAGGGAAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (29 bp):
AAAGAAAAAGTACAAGAAAAAAGAAAAAA
Found at i:83262547 original size:2 final size:2
Alignment explanation
Indices: 83262540--83262575 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
83262530 GTATACATGA
*
83262540 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83262576 TTAAGAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:83268823 original size:23 final size:22
Alignment explanation
Indices: 83268781--83268825 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
83268771 ACATACAACG
*
83268781 AGGAGTATTATTCTTCATTAAA
1 AGGAGTATTATTCATCATTAAA
83268803 AGGAGCTATTA-TCATCAATTAAA
1 AGGAG-TATTATTCATC-ATTAAA
83268826 GGGAACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (22 bp):
AGGAGTATTATTCATCATTAAA
Found at i:83271754 original size:26 final size:26
Alignment explanation
Indices: 83271705--83271754 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
83271695 AATTATCATT
* *
83271705 TTAAACCCTAAATATTAAATTAAACA
1 TTAAACCCTAAATATAAAACTAAACA
83271731 TTAAACCCTAAAT-TAAAACCTAAA
1 TTAAACCCTAAATATAAAA-CTAAA
83271755 TCAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (26 bp):
TTAAACCCTAAATATAAAACTAAACA
Found at i:83273794 original size:43 final size:43
Alignment explanation
Indices: 83273623--83273795 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 43
83273613 ACATAGGATT
* * * * * *
83273623 TCGATATATGATTTCGTGTAAGACCACGTTTGGGACATTGGCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGGAACATTGGCA
* * * **
83273666 TCGAT-TTGAGATTTACATGTAAGACCATGCCTGGGACATCAGCA
1 TCGATATT-TGA-TTACATGTAAGACCATGTCTGGAACATTGGCA
*** * * *
83273710 TCG-TATTTGATTTTGTGTAAGACCCTGTCTGGAATAGTGGCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGGAACATTGGCA
*
83273752 TCGATATTTGATTACATGTAAGACCATGTCTGGAACGTTGGCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGGAACATTGGCA
83273795 T
1 T
83273796 TGTACGAGTT
Statistics
Matches: 99, Mismatches: 27, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
42 26 0.26
43 43 0.43
44 30 0.30
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTACATGTAAGACCATGTCTGGAACATTGGCA
Found at i:83292445 original size:39 final size:39
Alignment explanation
Indices: 83292391--83292470 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
83292381 TTGAGATTTT
83292391 TGTTGAATGAGTTTCTGGGTGAGAAACCAAAGAGTTCAA
1 TGTTGAATGAGTTTCTGGGTGAGAAACCAAAGAGTTCAA
83292430 TGTTGAATGAGTTTCTGGGTGAGAAACCAAAGAGTTCAA
1 TGTTGAATGAGTTTCTGGGTGAGAAACCAAAGAGTTCAA
83292469 TG
1 TG
83292471 ATAGAATGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (39 bp):
TGTTGAATGAGTTTCTGGGTGAGAAACCAAAGAGTTCAA
Found at i:83293215 original size:15 final size:15
Alignment explanation
Indices: 83293195--83293237 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
83293185 TCTTGTAAAT
*
83293195 TGGATTTCCTTATCA
1 TGGATTTCTTTATCA
* *
83293210 TGGATTTATTTATCT
1 TGGATTTCTTTATCA
83293225 TGGATTTCTTTAT
1 TGGATTTCTTTAT
83293238 TCTAGGCTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:83302442 original size:42 final size:43
Alignment explanation
Indices: 83302330--83302486 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
83302320 TTCCGATATA
* ** *
83302330 TGATTT-TGTATAAGACCACATCTGGGA-TGTTGGCATCG-ATT
1 TGATTTATGTGTAAGACCATGTCTGGGACAG-TGGCATCGTATT
*
83302371 TGAGATTTATGTGTAAGACCATGTTTGGGACA-TCGGCATCGTATT
1 T--GATTTATGTGTAAGACCATGTCTGGGACAGT-GGCATCGTATT
*
83302416 TGATTT-TGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATT
1 TGATTTATGTGTAAGACCATGTCTGGGACAGTGGCATCG-TATT
** * *
83302459 TGA-TTACATGTAAGACCACGTCTAGGAC
1 TGATTTATGTGTAAGACCATGTCTGGGAC
83302487 GTTGGTGTTG
Statistics
Matches: 95, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 36 0.38
44 24 0.25
45 4 0.04
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TGATTTATGTGTAAGACCATGTCTGGGACAGTGGCATCGTATT
Found at i:83304916 original size:61 final size:61
Alignment explanation
Indices: 83304780--83304916 Score: 186
Period size: 61 Copynumber: 2.2 Consensus size: 61
83304770 GCTTCTTTTG
* *
83304780 AATCGATTGTTATGGTAGAATACTACTTCTTATTCTTTTGAATCAATTGTTTATATTTTTA
1 AATCGATTGTTATGTTAGAATACTACTTCTTATTCTTTTGAATCAATTGTTTATATGTTTA
* * * * * *
83304841 AATTGATTGTTATGTTGGAATATTGCTTCTTCTTCTTTTGGATCAATTGTTTATATGTTTA
1 AATCGATTGTTATGTTAGAATACTACTTCTTATTCTTTTGAATCAATTGTTTATATGTTTA
83304902 AATCG-TCTGTTATGT
1 AATCGAT-TGTTATGT
83304917 AGCATGTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
60 1 0.02
61 65 0.98
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (61 bp):
AATCGATTGTTATGTTAGAATACTACTTCTTATTCTTTTGAATCAATTGTTTATATGTTTA
Found at i:83306518 original size:26 final size:26
Alignment explanation
Indices: 83306489--83306577 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 26
83306479 AAATTACAAG
*
83306489 TTATTAGCAATTAATATTAATTTATA
1 TTATTAGTAATTAATATTAATTTATA
* * **
83306515 TTATTTGTTATTAATATTAA-GAATA
1 TTATTAGTAATTAATATTAATTTATA
*
83306540 TTA--AGTAATTAATAAT-ATTTATA
1 TTATTAGTAATTAATATTAATTTATA
83306563 TTATTA-T-ATTAATAT
1 TTATTAGTAATTAATAT
83306578 ATTTCGATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
22 1 0.02
23 23 0.47
24 1 0.02
25 7 0.14
26 17 0.35
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (26 bp):
TTATTAGTAATTAATATTAATTTATA
Found at i:83314354 original size:21 final size:19
Alignment explanation
Indices: 83314338--83314374 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
83314328 TGCAAAAGTA
*
83314338 ATATTTTTTATTTCAAAAT
1 ATATTTTTTATGTCAAAAT
*
83314357 TTATTTTTTATGTCAAAA
1 ATATTTTTTATGTCAAAA
83314375 ACATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (19 bp):
ATATTTTTTATGTCAAAAT
Found at i:83315916 original size:53 final size:50
Alignment explanation
Indices: 83315848--83315974 Score: 148
Period size: 53 Copynumber: 2.5 Consensus size: 50
83315838 GTCCTGAGAA
** * *
83315848 TTTTTTGGGGACACTGATGGTTGGCACCACCTTTTTCTAG-TCCCAAATTTTTT
1 TTTTTTGGGGACACTGATGGCCGGCACCAACTTTAT-TAGAT---AAATTTTTT
*
83315901 TTTTTTGGGGACACTGATGGCCGGCACCAACTTTATTAGATTAATTTTTT
1 TTTTTTGGGGACACTGATGGCCGGCACCAACTTTATTAGATAAATTTTTT
*
83315951 TTTATTTTGGGACACTGATGGCCG
1 TTT-TTTGGGGACACTGATGGCCG
83315975 AAACCAAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
50 11 0.17
51 19 0.29
52 3 0.05
53 33 0.50
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (50 bp):
TTTTTTGGGGACACTGATGGCCGGCACCAACTTTATTAGATAAATTTTTT
Found at i:83316143 original size:28 final size:27
Alignment explanation
Indices: 83316110--83316186 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
83316100 AGAGCCATCA
*
83316110 AAATGAGAGTGTTTTGTAGTGTATCTTC
1 AAATGAGAGTGTTTTGTAGTGTAT-TGC
* * *
83316138 AAATGAG-TTTTTTTGTAGTGGATTGC
1 AAATGAGAGTGTTTTGTAGTGTATTGC
* *
83316164 AGATGGGAGTGTTTTGTAGTGTA
1 AAATGAGAGTGTTTTGTAGTGTA
83316187 CAACCGAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
26 7 0.18
27 25 0.64
28 7 0.18
ACGTcount: A:0.23, C:0.04, G:0.30, T:0.43
Consensus pattern (27 bp):
AAATGAGAGTGTTTTGTAGTGTATTGC
Found at i:83316614 original size:88 final size:89
Alignment explanation
Indices: 83316453--83316683 Score: 338
Period size: 88 Copynumber: 2.6 Consensus size: 89
83316443 TTTAAAAAAA
** *
83316453 TTGTATTATTTTTGTATCTGTAAATCAAATTTAGTCTGTATTATTTGTTGTTCGAATTTTATATT
1 TTGTATT-TTTTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTGTTGTTTGAATTTTATATT
* ** *
83316518 TTCGTGTATTAATTTTTTAGAATGT
65 TTCATGTATTAAAATTTTAGAATAT
*
83316543 TTGTATTTTTTTGTATCTGTAAATTTAA-TTAGTTTGTATTATTTGTTGTTTGAATTTTATATTT
1 TTGTATTTTTTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTGTTGTTTGAATTTTATATTT
83316607 TCATGTATTAAAATTTTAGAATAT
66 TCATGTATTAAAATTTTAGAATAT
** * *
83316631 TTGTATTTTTTTGGGTCTGTAAATTTAATTTAGTCCGTATTATTTGTTATTTG
1 TTGTATTTTTTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTGTTGTTTG
83316684 TGTCGAAACC
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
88 80 0.63
89 40 0.31
90 7 0.06
ACGTcount: A:0.24, C:0.04, G:0.13, T:0.58
Consensus pattern (89 bp):
TTGTATTTTTTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTGTTGTTTGAATTTTATATTT
TCATGTATTAAAATTTTAGAATAT
Found at i:83317639 original size:19 final size:19
Alignment explanation
Indices: 83317615--83317703 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
83317605 TCATATCTTT
*
83317615 TAAGATTGTATATCATATC
1 TAAGATTGCATATCATATC
83317634 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
83317652 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
*
83317669 TAAGATTGCATATCACATC
1 TAAGATTGCATATCATATC
83317688 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
83317704 TGAAGATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 32 0.50
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:83317670 original size:35 final size:37
Alignment explanation
Indices: 83317615--83317703 Score: 137
Period size: 35 Copynumber: 2.4 Consensus size: 37
83317605 TCATATCTTT
*
83317615 TAAGATTGTATATCATATCTAAGATTGCA-ATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCATATCACATC
83317652 TAAGATTG-TATCATATCTAAGATTGCATATCACATC
1 TAAGATTGATATCATATCTAAGATTGCATATCACATC
83317688 TAAGATTGCATATCAT
1 TAAGATTG-ATATCAT
83317704 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.40
36 15 0.31
37 8 0.17
38 6 0.12
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TAAGATTGATATCATATCTAAGATTGCATATCACATC
Found at i:83317682 original size:14 final size:15
Alignment explanation
Indices: 83317627--83317682 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
83317617 AGATTGTATA
83317627 TCATATCTAAGATTG
1 TCATATCTAAGATTG
83317642 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
83317660 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
83317677 -CATATC
1 TCATATC
83317683 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:83317858 original size:19 final size:20
Alignment explanation
Indices: 83317822--83317859 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
83317812 TTGGACTTCG
**
83317822 TTTTTTTTTGGGGTTTATTA
1 TTTTTTTTTGGGACTTATTA
83317842 TTTTTTTTT-GGACTTATT
1 TTTTTTTTTGGGACTTATT
83317860 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.11, C:0.03, G:0.16, T:0.71
Consensus pattern (20 bp):
TTTTTTTTTGGGACTTATTA
Found at i:83318554 original size:207 final size:207
Alignment explanation
Indices: 83318097--83319637 Score: 2575
Period size: 207 Copynumber: 7.5 Consensus size: 207
83318087 AAATCTGCTT
* * * *
83318097 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
83318162 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATATT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * *
83318227 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGCCCTCCGTCAAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
83318291 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
83318303 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
83318368 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
83318433 GAATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCAAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
**
83318498 GGAGACGGTAAA
196 GGAGACGCCAAA
*
83318510 CTTCGATTTGTTCTCTGACATTACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
83318575 GTGAAAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAACGG-TGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAA-GGATGCCAAACCATCT
*
83318639 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTGTGCCCTCCGTCGAATA
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
83318704 TGGAGACGCCAAA
195 TGGAGACGCCAAA
*
83318717 CTTCGATTTGTTCTCTGATAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
83318782 GTGAAAGCCAAATCAGCAATGTCTTTGATTTTTTCCTTGTAAGCACAAGGATGCCAAACTATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
83318847 AGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
83318912 GGATACGCCAAA
196 GGAGACGCCAAA
* *
83318924 CTTCTATTTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
83318989 GTGAAAGCCAAATCAGCCATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
83319054 AGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTACCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
83319119 GGAGATGCCAAA
196 GGAGACGCCAAA
* * * *
83319131 CTTTGATTTGTTCTCTGACAATACAGAGATACCAAATCATCTTACACTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
83319196 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
83319261 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
83319326 GGAGGCGCCAAA
196 GGAGACGCCAAA
83319338 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
83319403 GTGAAAGCCAAATCAACTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGACGCC-AACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
83319467 GGATCTTGCTTTAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
83319532 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * * *
83319544 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCAGCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
83319609 GTGAAAGCCAAATCAGCTATATCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
83319638 CTGCTCTCTG
Statistics
Matches: 1253, Mismatches: 79, Indels: 6
0.94 0.06 0.00
Matches are distributed among these distances:
206 296 0.24
207 955 0.76
208 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:83319914 original size:87 final size:81
Alignment explanation
Indices: 83319766--83319968 Score: 253
Period size: 87 Copynumber: 2.4 Consensus size: 81
83319756 CTATACTTTA
* * *
83319766 ACCTGTTACCCTACTGCTTAGAGGTTAAGGCCCATCTTCGATCTGCTCCACTACTGCTTAGGGAG
1 ACCTGTTACCCTACTGCTTAGGGGTTAAGG-CGATCTTCGATCTGCTCCACTACTACTTAGGGAG
83319831 ATAAGATCCGCAATTTT
65 ATAAGATCCGCAATTTT
* *
83319848 GACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTTGATCTGTTCCACTACTACTTA
1 -ACCTGTTACCCTACTGCTTAGGGG-TTAAGGCGA-TC-T--TCGATCTGCTCCACTACTACTTA
* *
83319913 GGGAGATAAGATCTGTAATTTT
60 GGGAGATAAGATCCGCAATTTT
*
83319935 AGCCTGTTACCCTACTGTTTAGGGGGTTAAGGCG
1 A-CCTGTTACCCTACTGCTTA-GGGGTTAAGGCG
83319969 CTGAATTTTG
Statistics
Matches: 105, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
83 25 0.24
84 8 0.08
85 1 0.01
86 1 0.01
87 66 0.63
88 4 0.04
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.32
Consensus pattern (81 bp):
ACCTGTTACCCTACTGCTTAGGGGTTAAGGCGATCTTCGATCTGCTCCACTACTACTTAGGGAGA
TAAGATCCGCAATTTT
Found at i:83320917 original size:8 final size:7
Alignment explanation
Indices: 83320898--83320975 Score: 61
Period size: 7 Copynumber: 10.7 Consensus size: 7
83320888 GCCTCTTCAC
83320898 TTTTTCT
1 TTTTTCT
*
83320905 TTTTCCTT
1 TTTTTC-T
83320913 TTTTCTCT
1 TTTT-TCT
83320921 TTTTTCT
1 TTTTTCT
*
83320928 TTTTATTT
1 TTTT-TCT
83320936 TTTTTCTT
1 TTTTTC-T
83320944 TTTTTCT
1 TTTTTCT
83320951 TTTATT-T
1 TTT-TTCT
**
83320958 TTTGCCT
1 TTTTTCT
83320965 TTTTT-T
1 TTTTTCT
83320971 TTTTT
1 TTTTT
83320976 GAAATAGAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
6 6 0.11
7 25 0.44
8 25 0.44
9 1 0.02
ACGTcount: A:0.03, C:0.13, G:0.01, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:83320922 original size:9 final size:8
Alignment explanation
Indices: 83320904--83320953 Score: 66
Period size: 8 Copynumber: 6.2 Consensus size: 8
83320894 TCACTTTTTC
*
83320904 TTTTTCCT
1 TTTTTCTT
83320912 TTTTTCTCT
1 TTTTTCT-T
83320921 TTTTTCTT
1 TTTTTCTT
*
83320929 TTTAT-TT
1 TTTTTCTT
83320936 TTTTTCTT
1 TTTTTCTT
83320944 TTTTTCTT
1 TTTTTCTT
83320952 TT
1 TT
83320954 ATTTTTTGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
7 6 0.16
8 23 0.62
9 8 0.22
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:83320922 original size:22 final size:23
Alignment explanation
Indices: 83320897--83320953 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
83320887 GGCCTCTTCA
83320897 CTTTTTCTTTTT-CCTTTTTTCT
1 CTTTTTCTTTTTACCTTTTTTCT
**
83320919 CTTTTTTCTTTTTATTTTTTTTCT
1 C-TTTTTCTTTTTACCTTTTTTCT
*
83320943 TTTTTTCTTTT
1 CTTTTTCTTTT
83320954 ATTTTTTGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.03
23 21 0.70
24 8 0.27
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (23 bp):
CTTTTTCTTTTTACCTTTTTTCT
Found at i:83320926 original size:23 final size:23
Alignment explanation
Indices: 83320898--83320975 Score: 92
Period size: 22 Copynumber: 3.5 Consensus size: 23
83320888 GCCTCTTCAC
*
83320898 TTTTTCTTTTTCCTTTTTTCTC-T
1 TTTTTCTTTTT-ATTTTTTCTCTT
*
83320921 TTTTTCTTTTTATTTTTTTTCTT
1 TTTTTCTTTTTATTTTTTCTCTT
83320944 TTTTTC-TTTTATTTTTTGC-CTT
1 TTTTTCTTTTTATTTTTT-CTCTT
83320966 TTTTT-TTTTT
1 TTTTTCTTTTT
83320976 GAAATAGAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
22 31 0.63
23 18 0.37
ACGTcount: A:0.03, C:0.13, G:0.01, T:0.83
Consensus pattern (23 bp):
TTTTTCTTTTTATTTTTTCTCTT
Found at i:83326736 original size:18 final size:18
Alignment explanation
Indices: 83326702--83326825 Score: 180
Period size: 17 Copynumber: 6.8 Consensus size: 18
83326692 TCATATCTTT
*
83326702 TAAGATTGTATATCATATC
1 TAAGATTGCA-ATCATATC
83326721 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
83326739 TAAGATTG-TATCATATC
1 TAAGATTGCAATCATATC
83326756 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
83326774 TAAGATTGC-ATCATATC
1 TAAGATTGCAATCATATC
*
83326791 TAAGATTGCATATCACATC
1 TAAGATTGCA-ATCATATC
83326810 TAAGATTGCATATCAT
1 TAAGATTGCA-ATCAT
83326826 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
17 33 0.34
18 33 0.34
19 31 0.32
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TAAGATTGCAATCATATC
Found at i:83326757 original size:35 final size:35
Alignment explanation
Indices: 83326702--83326817 Score: 187
Period size: 35 Copynumber: 3.2 Consensus size: 35
83326692 TCATATCTTT
83326702 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
83326739 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
* *
83326774 TAAGATTGCATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
83326810 TAAGATTG
1 TAAGATTG
83326818 CATATCATTG
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 53 0.70
36 15 0.20
37 8 0.11
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:83326833 original size:17 final size:17
Alignment explanation
Indices: 83326702--83326825 Score: 112
Period size: 18 Copynumber: 6.9 Consensus size: 17
83326692 TCATATCTTT
*
83326702 TAAGATTGTATATCATATC
1 TAAGATTGCATATC--ATC
83326721 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATC--ATC
*
83326739 TAAGATTGTATCAT-ATC
1 TAAGATTGCAT-ATCATC
83326756 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATC--ATC
83326774 TAAGATTGCATCAT-ATC
1 TAAGATTGCAT-ATCATC
83326791 TAAGATTGCATATCACATC
1 TAAGATTGCATAT--CATC
83326810 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
83326826 TGAAGATTAT
Statistics
Matches: 92, Mismatches: 3, Indels: 22
0.79 0.03 0.19
Matches are distributed among these distances:
15 2 0.02
16 2 0.02
17 29 0.32
18 30 0.33
19 25 0.27
20 4 0.04
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (17 bp):
TAAGATTGCATATCATC
Found at i:83328785 original size:12 final size:11
Alignment explanation
Indices: 83328756--83328797 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
83328746 TAATTTTCCT
83328756 TTTCATTT-AA
1 TTTCATTTAAA
83328766 TATTCATTTCAAA
1 T-TTCATTT-AAA
83328779 TTTCATTTAAA
1 TTTCATTTAAA
83328790 TTTCATTT
1 TTTCATTT
83328798 TTTTCTCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.03
11 18 0.62
12 7 0.24
13 3 0.10
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTCATTTAAA
Found at i:83328902 original size:18 final size:19
Alignment explanation
Indices: 83328876--83328915 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
83328866 ATTTCGAATG
83328876 TCAATTTTATTTTTAAATT
1 TCAATTTTATTTTTAAATT
83328895 TCAA-TTTATTTTTAAATT
1 TCAATTTTATTTTTAAATT
83328913 TCA
1 TCA
83328916 TTTGAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TCAATTTTATTTTTAAATT
Found at i:83329120 original size:116 final size:114
Alignment explanation
Indices: 83328845--83329128 Score: 322
Period size: 117 Copynumber: 2.4 Consensus size: 114
83328835 TTCATTTCAC
*
83328845 TTTTTTTTTAATTAAAACTTTATTTCGAATGTCAATTTTATTTTTAAATTTCAATTTATTTTTAA
1 TTTTTTTTTAATTAAAAC-TTATTTCGAATGTCAA-TTT-TTTTT-CATTTCAATTTATTTTTAA
* *
83328910 ATTTCATTTGAATTTAATTTTTTTCTCATGTTATTTGAATTTCATTTTATTTT
62 ATTTCATTTGAATTCAATTTTTTTCTCATGTTATTTAAATTTCATTTTATTTT
* * ** * *
83328963 TTTATTTTTAATTAAAAAATTCATTTTCTCATGTCGA-TTTTTTTCATTTCAATTTCTTTTTAAA
1 TTTTTTTTTAATT-AAAACTT-A-TTTCGAATGTCAATTTTTTTTCATTTCAATTTATTTTTAAA
* * *
83329027 TTTCATTTGAAGTTCATTTTTTTTCTCATTTTCTTTAAATTTCATTTTACTTTT
63 TTTCATTTGAA-TTCAATTTTTTTCTCATGTTATTTAAATTTCATTTTA-TTTT
*
83329081 TTTCTTTTTTAATTAAAACTTAGTTT-GAATTTC-ATTTTTTTCTCATTT
1 TTT-TTTTTTAATTAAAACTTA-TTTCGAATGTCAATTTTTTT-TCATTT
83329129 TATTTGAATT
Statistics
Matches: 140, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
115 1 0.01
116 39 0.28
117 47 0.34
118 29 0.21
119 14 0.10
120 10 0.07
ACGTcount: A:0.25, C:0.10, G:0.04, T:0.62
Consensus pattern (114 bp):
TTTTTTTTTAATTAAAACTTATTTCGAATGTCAATTTTTTTTCATTTCAATTTATTTTTAAATTT
CATTTGAATTCAATTTTTTTCTCATGTTATTTAAATTTCATTTTATTTT
Found at i:83329150 original size:38 final size:38
Alignment explanation
Indices: 83329021--83329150 Score: 112
Period size: 38 Copynumber: 3.5 Consensus size: 38
83329011 TCAATTTCTT
* *
83329021 TTTAAATTTCATTTGAAGTTCATTTTTTTTCTCATTTTC
1 TTTAAATTTCATTTGAATTTCA-TTTTTTTCTCATTTTA
* *
83329060 TTTAAATTTCA-TT---TTAC-TTTTTTTCT-TTTTTAA
1 TTTAAATTTCATTTGAATTTCATTTTTTTCTCATTTT-A
* *
83329093 TTAAAACTT-AGTTTGAATTTCATTTTTTTCTCATTTTA
1 TTTAAATTTCA-TTTGAATTTCATTTTTTTCTCATTTTA
* *
83329131 TTTGAATTTCATTTCAATTT
1 TTTAAATTTCATTTGAATTT
83329151 GAACTTCATT
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
32 5 0.07
33 16 0.23
34 2 0.03
35 2 0.03
37 3 0.04
38 26 0.37
39 16 0.23
ACGTcount: A:0.23, C:0.11, G:0.04, T:0.62
Consensus pattern (38 bp):
TTTAAATTTCATTTGAATTTCATTTTTTTCTCATTTTA
Found at i:83329152 original size:17 final size:17
Alignment explanation
Indices: 83329130--83329163 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
83329120 TTCTCATTTT
*
83329130 ATTTGAATTTCATTTCA
1 ATTTGAACTTCATTTCA
83329147 ATTTGAACTTCATTTCA
1 ATTTGAACTTCATTTCA
83329164 CCTTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (17 bp):
ATTTGAACTTCATTTCA
Found at i:83329295 original size:29 final size:30
Alignment explanation
Indices: 83329229--83329311 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 30
83329219 CTCTTTTTAA
83329229 ATTTCATTTGAATTTCATTT--TTTTTTCT
1 ATTTCATTTGAATTTCATTTACTTTTTTCT
*
83329257 CATTTGATTTGAATTTCATTTCACTTTTTT-T
1 -ATTTCATTTGAATTTCATTT-ACTTTTTTCT
* *
83329288 -TTTCATTTTAATCTCATTTTACTT
1 ATTTCATTTGAATTTCA-TTTACTT
83329312 GAATTTCAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
29 36 0.78
30 3 0.07
31 1 0.02
32 6 0.13
ACGTcount: A:0.19, C:0.13, G:0.04, T:0.64
Consensus pattern (30 bp):
ATTTCATTTGAATTTCATTTACTTTTTTCT
Found at i:83329575 original size:22 final size:22
Alignment explanation
Indices: 83329533--83329601 Score: 88
Period size: 22 Copynumber: 3.1 Consensus size: 22
83329523 TTAATTATAT
83329533 TTTC-ATTTCAATTTCTA-TTCAA
1 TTTCAATTTC-ATTT-TATTTCAA
*
83329555 TTTGAATTTCATTTTATTTCAA
1 TTTCAATTTCATTTTATTTCAA
*
83329577 TTTCAATTTTATTTTATTTCAA
1 TTTCAATTTCATTTTATTTCAA
83329599 TTT
1 TTT
83329602 ATTTTTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 2 0.05
22 35 0.83
23 5 0.12
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.61
Consensus pattern (22 bp):
TTTCAATTTCATTTTATTTCAA
Found at i:83329578 original size:16 final size:17
Alignment explanation
Indices: 83329531--83329605 Score: 75
Period size: 16 Copynumber: 4.5 Consensus size: 17
83329521 CTTTAATTAT
*
83329531 ATTTTCATTTCAATTTCT
1 ATTTT-ATTTCAATTTCA
** *
83329549 ATTCAATTTGAATTTC-
1 ATTTTATTTCAATTTCA
83329565 ATTTTATTTCAATTTCA
1 ATTTTATTTCAATTTCA
*
83329582 ATTTTATTT-TATTTCA
1 ATTTTATTTCAATTTCA
83329598 A-TTTATTT
1 ATTTTATTT
83329606 TTAAATATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
15 7 0.14
16 20 0.41
17 19 0.39
18 3 0.06
ACGTcount: A:0.27, C:0.11, G:0.01, T:0.61
Consensus pattern (17 bp):
ATTTTATTTCAATTTCA
Found at i:83329601 original size:6 final size:6
Alignment explanation
Indices: 83329533--83329585 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
83329523 TTAATTATAT
* * *
83329533 TTTC-A TTTCAA TTTCTA -TTCAA TTTGAA TTTC-A TTT-TA TTTCAA
1 TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
83329577 TTTCAA TTT
1 TTTCAA TTT
83329586 TATTTTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
5 16 0.41
6 23 0.59
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.58
Consensus pattern (6 bp):
TTTCAA
Found at i:83329759 original size:23 final size:22
Alignment explanation
Indices: 83329729--83329777 Score: 89
Period size: 23 Copynumber: 2.2 Consensus size: 22
83329719 ATATAATTAC
83329729 ATTTTAATTTCATTTCATTTCCA
1 ATTTTAATTTCATTTCATTT-CA
83329752 ATTTTAATTTCATTTCATTTCA
1 ATTTTAATTTCATTTCATTTCA
83329774 ATTT
1 ATTT
83329778 CTTTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTAATTTCATTTCATTTCA
Found at i:83331501 original size:44 final size:44
Alignment explanation
Indices: 83331437--83331520 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
83331427 TTAATTGGGT
* *
83331437 ACTTAGTGTGCGAAATTGAGATAGCTTATG-TTACATATATTTGC
1 ACTTAGTATGCGAAACTGAGATAGCTT-TGATTACATATATTTGC
* *
83331481 ACTTAGTATGCGAGACTGAGATAGCTTTGATTATATATAT
1 ACTTAGTATGCGAAACTGAGATAGCTTTGATTACATATAT
83331521 ACATTGGCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (44 bp):
ACTTAGTATGCGAAACTGAGATAGCTTTGATTACATATATTTGC
Found at i:83339399 original size:2 final size:2
Alignment explanation
Indices: 83339392--83339430 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
83339382 TTTTTCAACT
83339392 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
83339431 TATGTGATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:83341562 original size:24 final size:25
Alignment explanation
Indices: 83341513--83341575 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
83341503 TATAGAGTTT
*
83341513 TTCCTTTTTCTTTCTTTTCTCTTCC
1 TTCCTTTTTCTTTCTATTCTCTTCC
*
83341538 TTCCTTTTTTTTTC-ATTCGTC-TCC
1 TTCCTTTTTCTTTCTATTC-TCTTCC
*
83341562 TTCCTCTTCTCTTT
1 TTCCT-TTTTCTTT
83341576 TCTCCACTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.34
25 21 0.66
ACGTcount: A:0.02, C:0.32, G:0.02, T:0.65
Consensus pattern (25 bp):
TTCCTTTTTCTTTCTATTCTCTTCC
Found at i:83342418 original size:37 final size:36
Alignment explanation
Indices: 83342279--83342425 Score: 129
Period size: 36 Copynumber: 4.1 Consensus size: 36
83342269 TAGAAAAAAA
* *
83342279 TTACCTTAGAC--GTGTCTATCCTAACCTTTTTAAGG
1 TTACCTTAGACAAG-GTTTATCCCAACCTTTTTAAGG
* * * * *
83342314 ATGCCTTAGACAAGGCTTATCTCAACTTTTTTAAGG
1 TTACCTTAGACAAGGTTTATCCCAACCTTTTTAAGG
* * * * *
83342350 TTACCTTAGACGA-GTCTATTCTAATCTTTTTTAAAGG
1 TTACCTTAGACAAGGTTTATCCCAA-CCTTTTT-AAGG
*
83342387 TTACTTTAGACAAGGTTTATCCCAACCTTTTTAAGG
1 TTACCTTAGACAAGGTTTATCCCAACCTTTTTAAGG
83342423 TTA
1 TTA
83342426 TTGTGAAAAA
Statistics
Matches: 86, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
35 15 0.17
36 41 0.48
37 22 0.26
38 8 0.09
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (36 bp):
TTACCTTAGACAAGGTTTATCCCAACCTTTTTAAGG
Found at i:83342422 original size:73 final size:71
Alignment explanation
Indices: 83342279--83342425 Score: 195
Period size: 73 Copynumber: 2.0 Consensus size: 71
83342269 TAGAAAAAAA
* * * *
83342279 TTACCTTAGACGTGTCTATCCTAACCTTTTTAAGGATGCCTTAGACAAGGCTTATCTCAACTTTT
1 TTACCTTAGACGAGTCTATCCTAACCTTTTTAAGGATACCTTAGACAAGGCTTATCCCAACCTTT
83342344 TTAAGG
66 TTAAGG
* * * * *
83342350 TTACCTTAGACGAGTCTATTCTAATCTTTTTTAAAGGTTACTTTAGACAAGGTTTATCCCAACCT
1 TTACCTTAGACGAGTCTATCCTAA-CCTTTTT-AAGGATACCTTAGACAAGGCTTATCCCAACCT
83342415 TTTTAAGG
64 TTTTAAGG
83342423 TTA
1 TTA
83342426 TTGTGAAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
71 22 0.34
72 6 0.09
73 37 0.57
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (71 bp):
TTACCTTAGACGAGTCTATCCTAACCTTTTTAAGGATACCTTAGACAAGGCTTATCCCAACCTTT
TTAAGG
Found at i:83349267 original size:2 final size:2
Alignment explanation
Indices: 83349260--83349294 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
83349250 ATCATTTAAC
83349260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
83349295 CATGACTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:83349813 original size:29 final size:27
Alignment explanation
Indices: 83349766--83349858 Score: 91
Period size: 27 Copynumber: 3.3 Consensus size: 27
83349756 ATCCAACCCA
*
83349766 AACACACCCAGAATAATATAAATCCTCCAT
1 AACACA-CCAGTATAATAT-AATCCTCC-T
* *
83349796 AACACACTAGTATAATAT-AGCCTCCT
1 AACACACCAGTATAATATAATCCTCCT
*
83349822 AAACACACCAGTATATTAT-ATCCTCCCT
1 -AACACACCAGTATAATATAATCCT-CCT
83349850 AACACACCA
1 AACACACCA
83349859 ATAAGGCATT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
26 1 0.02
27 35 0.64
28 3 0.05
29 10 0.18
30 6 0.11
ACGTcount: A:0.42, C:0.31, G:0.04, T:0.23
Consensus pattern (27 bp):
AACACACCAGTATAATATAATCCTCCT
Found at i:83350251 original size:13 final size:13
Alignment explanation
Indices: 83350233--83350259 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
83350223 ACGCGTTTAC
83350233 TCCTCAACGATCT
1 TCCTCAACGATCT
83350246 TCCTCAACGATCT
1 TCCTCAACGATCT
83350259 T
1 T
83350260 TTCTTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.37, G:0.07, T:0.33
Consensus pattern (13 bp):
TCCTCAACGATCT
Found at i:83350402 original size:17 final size:18
Alignment explanation
Indices: 83350372--83350405 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83350362 AATTTTTATT
*
83350372 CAATTTATTCCCTAATTC
1 CAATTTAATCCCTAATTC
83350390 CAATTTAAT-CCTAATT
1 CAATTTAATCCCTAATT
83350406 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTAATCCCTAATTC
Found at i:83351231 original size:3 final size:3
Alignment explanation
Indices: 83351223--83351267 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
83351213 ATCAAATAGA
* *
83351223 AAT AAT AAT AAT AAT AAC AAT AAT AAC AAT AAT AAT AATT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AA
83351268 AATCTAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:83357090 original size:27 final size:27
Alignment explanation
Indices: 83357060--83357271 Score: 176
Period size: 27 Copynumber: 7.9 Consensus size: 27
83357050 CGATATTTAT
* ** *
83357060 TTATGTCAGTTATGTAAAAAATGTAAG
1 TTATGTAAGTTATGTAAATTATGTAAA
* * *
83357087 TTATGAAAATTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGTAAATTATGTAAA
*** *
83357114 TTATGTAAAAAATGTAAGTTATG-ACAA
1 TTATGTAAGTTATGTAAATTATGTA-AA
*
83357141 TTATGTAAGTTATGTAAATTATATAAA
1 TTATGTAAGTTATGTAAATTATGTAAA
*
83357168 TTATGTAAGTTATGTAAATTATGTAAG
1 TTATGTAAGTTATGTAAATTATGTAAA
* * * *
83357195 TTATGTAAGTTATG-ATATGATATATAT
1 TTATGTAAGTTATGTAAATTATGTA-AA
* * **
83357222 TTATATAAGTTATGTAAGTTATGTATG
1 TTATGTAAGTTATGTAAATTATGTAAA
* * *
83357249 TTATGTGAGGTATGTAAGTTATG
1 TTATGTAAGTTATGTAAATTATG
83357272 ATATGATATA
Statistics
Matches: 150, Mismatches: 31, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
26 8 0.05
27 135 0.90
28 7 0.05
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.42
Consensus pattern (27 bp):
TTATGTAAGTTATGTAAATTATGTAAA
Found at i:83357099 original size:9 final size:9
Alignment explanation
Indices: 83357069--83357208 Score: 147
Period size: 9 Copynumber: 15.6 Consensus size: 9
83357059 TTTATGTCAG
83357069 TTATGTAAA
1 TTATGTAAA
** *
83357078 AAATGTAAG
1 TTATGTAAA
*
83357087 TTATGAAAA
1 TTATGTAAA
*
83357096 TTATGTAAG
1 TTATGTAAA
83357105 TTATGTAAA
1 TTATGTAAA
83357114 TTATGTAAA
1 TTATGTAAA
** *
83357123 AAATGTAAG
1 TTATGTAAA
83357132 TTATG-ACAA
1 TTATGTA-AA
*
83357141 TTATGTAAG
1 TTATGTAAA
83357150 TTATGTAAA
1 TTATGTAAA
*
83357159 TTATATAAA
1 TTATGTAAA
*
83357168 TTATGTAAG
1 TTATGTAAA
83357177 TTATGTAAA
1 TTATGTAAA
*
83357186 TTATGTAAG
1 TTATGTAAA
*
83357195 TTATGTAAG
1 TTATGTAAA
83357204 TTATG
1 TTATG
83357209 ATATGATATA
Statistics
Matches: 106, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
8 1 0.01
9 104 0.98
10 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.16, T:0.41
Consensus pattern (9 bp):
TTATGTAAA
Found at i:83357118 original size:45 final size:45
Alignment explanation
Indices: 83357060--83357208 Score: 226
Period size: 45 Copynumber: 3.3 Consensus size: 45
83357050 CGATATTTAT
* *
83357060 TTATGTCAGTTATGTAAAAAATGTAAGTTATGAAAATTATGTAAG
1 TTATGTAAATTATGTAAAAAATGTAAGTTATGAAAATTATGTAAG
*
83357105 TTATGTAAATTATGTAAAAAATGTAAGTTATGACAATTATGTAAG
1 TTATGTAAATTATGTAAAAAATGTAAGTTATGAAAATTATGTAAG
* ** *
83357150 TTATGTAAATTATATAAATTATGTAAGTTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAAAAATGTAAGTTATGAAAATTATGTAAG
*
83357195 TTATGTAAGTTATG
1 TTATGTAAATTATG
83357209 ATATGATATA
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 94 1.00
ACGTcount: A:0.42, C:0.01, G:0.16, T:0.41
Consensus pattern (45 bp):
TTATGTAAATTATGTAAAAAATGTAAGTTATGAAAATTATGTAAG
Found at i:83357231 original size:36 final size:36
Alignment explanation
Indices: 83357186--83357307 Score: 145
Period size: 36 Copynumber: 3.6 Consensus size: 36
83357176 GTTATGTAAA
*
83357186 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGGTATGTAAGTTATGATATGATATATAT
* *
83357222 TTATATAAGTTATGTAAGTTATG-TATG--------
1 TTATGTAAGGTATGTAAGTTATGATATGATATATAT
*
83357249 TTATGTGAGGTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGGTATGTAAGTTATGATATGATATATAT
83357285 TTATGTAAGGTATGTAAGTTATG
1 TTATGTAAGGTATGTAAGTTATG
83357308 TAATTTTAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
27 20 0.28
28 4 0.06
35 4 0.06
36 44 0.61
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (36 bp):
TTATGTAAGGTATGTAAGTTATGATATGATATATAT
Found at i:83357234 original size:9 final size:9
Alignment explanation
Indices: 83357222--83357310 Score: 81
Period size: 9 Copynumber: 9.9 Consensus size: 9
83357212 TGATATATAT
*
83357222 TTATATAAG
1 TTATGTAAG
83357231 TTATGTAAG
1 TTATGTAAG
*
83357240 TTATGTATG
1 TTATGTAAG
*
83357249 TTATGTGAG
1 TTATGTAAG
*
83357258 GTATGTAAG
1 TTATGTAAG
*
83357267 TTATGATATG
1 TTATG-TAAG
* * *
83357277 ATATAT-AT
1 TTATGTAAG
83357285 TTATGTAAG
1 TTATGTAAG
*
83357294 GTATGTAAG
1 TTATGTAAG
83357303 TTATGTAA
1 TTATGTAA
83357311 TTTTAAAGAA
Statistics
Matches: 61, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
8 4 0.07
9 51 0.84
10 6 0.10
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:83357272 original size:63 final size:63
Alignment explanation
Indices: 83357096--83357310 Score: 245
Period size: 63 Copynumber: 3.4 Consensus size: 63
83357086 GTTATGAAAA
* * ** * * * * * *
83357096 TTATGTAAGTTATGTAAATTATGTAAAAAATGTAAGTTATG-ACAATTATG-TAAGTTATGTAAA
1 TTATATAAGTTATGTAAGTTATGTAAATTATGTAAGGTATGTA-AGTTATGATATGATATAT-AT
* *
83357159 TTATATAAATTATGTAAGTTATGTAAATTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTATATAAGTTATGTAAGTTATGTAAATTATGTAAGGTATGTAAGTTATGATATGATATATAT
** *
83357222 TTATATAAGTTATGTAAGTTATGTATGTTATGTGAGGTATGTAAGTTATGATATGATATATAT
1 TTATATAAGTTATGTAAGTTATGTAAATTATGTAAGGTATGTAAGTTATGATATGATATATAT
* *
83357285 TTATGTAAGGTATGTAAGTTATGTAA
1 TTATATAAGTTATGTAAGTTATGTAA
83357311 TTTTAAAGAA
Statistics
Matches: 132, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
63 124 0.94
64 8 0.06
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (63 bp):
TTATATAAGTTATGTAAGTTATGTAAATTATGTAAGGTATGTAAGTTATGATATGATATATAT
Found at i:83357313 original size:27 final size:27
Alignment explanation
Indices: 83357081--83357310 Score: 164
Period size: 27 Copynumber: 8.5 Consensus size: 27
83357071 ATGTAAAAAA
* * *
83357081 TGTAAGTTATGAAAATTATGTAAGTTA
1 TGTAATTTATGTAAGTTATGTAAGTTA
* ***
83357108 TGTAAATTATGTAAAAAATGTAAGTTA
1 TGTAATTTATGTAAGTTATGTAAGTTA
* *
83357135 TGACAA-TTATGTAAGTTATGTAAATTA
1 TG-TAATTTATGTAAGTTATGTAAGTTA
* * *
83357162 TATAAATTATGTAAGTTATGTAAATTA
1 TGTAATTTATGTAAGTTATGTAAGTTA
* * *
83357189 TGTAAGTTATGTAAGTTATGATATGATA
1 TGTAATTTATGTAAGTTATG-TAAGTTA
* *
83357217 TAT-ATTTATATAAGTTATGTAAGTTA
1 TGTAATTTATGTAAGTTATGTAAGTTA
* *
83357243 TGT-ATGTTATGTGAGGTATGTAAGTTA
1 TGTAAT-TTATGTAAGTTATGTAAGTTA
* * * *
83357270 TG--ATATGATATATATTTATGTAAGGTA
1 TGTAAT-TTATGTA-AGTTATGTAAGTTA
*
83357297 TGTAAGTTATGTAA
1 TGTAATTTATGTAA
83357311 TTTTAAAGAA
Statistics
Matches: 161, Mismatches: 35, Indels: 14
0.77 0.17 0.07
Matches are distributed among these distances:
26 17 0.11
27 130 0.81
28 13 0.08
29 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (27 bp):
TGTAATTTATGTAAGTTATGTAAGTTA
Found at i:83357910 original size:4 final size:4
Alignment explanation
Indices: 83357901--83357929 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
83357891 TGAAGGAATA
83357901 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
83357930 ACATATGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:83359235 original size:19 final size:19
Alignment explanation
Indices: 83359210--83359256 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
83359200 GATTTTGATA
*
83359210 TGGGGAAAATTTAG-GGAT
1 TGGGGAAAATTTAGAGAAT
83359228 TAGGGG-AAATTTAGAGAAT
1 T-GGGGAAAATTTAGAGAAT
83359247 TGGGGAAAAT
1 TGGGGAAAAT
83359257 GTGTTGGGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (19 bp):
TGGGGAAAATTTAGAGAAT
Found at i:83361611 original size:35 final size:35
Alignment explanation
Indices: 83361567--83361732 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
83361557 TCCTCATTGA
** *
83361567 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
83361602 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
83361641 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
83361676 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
83361711 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
83361733 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:83361652 original size:74 final size:73
Alignment explanation
Indices: 83361562--83361732 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
83361552 GGTTTTCCTC
** * * **
83361562 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
83361625 TCAGTATGG
65 TCAGTATGG
*
83361634 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
83361699 CTCAGTATGG
64 CTCAGTATGG
83361709 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
83361733 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:83363232 original size:21 final size:20
Alignment explanation
Indices: 83363208--83363253 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
83363198 CACTAAGACC
83363208 CTAACCATAAATCTTAAAACA
1 CTAACCATAAATC-TAAAACA
*
83363229 CTAAACCATAAATCTAAAATA
1 CT-AACCATAAATCTAAAACA
83363250 CTAA
1 CTAA
83363254 ACATTAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 10 0.43
22 11 0.48
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (20 bp):
CTAACCATAAATCTAAAACA
Found at i:83363240 original size:7 final size:7
Alignment explanation
Indices: 83363210--83363312 Score: 66
Period size: 7 Copynumber: 14.4 Consensus size: 7
83363200 CTAAGACCCT
83363210 AACCATA
1 AACCATA
* *
83363217 AATCTTA
1 AACCATA
*
83363224 AAACACTA
1 AACCA-TA
83363232 AACCATA
1 AACCATA
*
83363239 AATC-TA
1 AACCATA
**
83363245 AAATACTA
1 AACCA-TA
83363253 AA-CATTA
1 AACCA-TA
83363260 AACCATA
1 AACCATA
83363267 AACCATA
1 AACCATA
*
83363274 AACCCTAA
1 AACCAT-A
83363282 AACCATA
1 AACCATA
83363289 AACCATA
1 AACCATA
* *
83363296 GACCTTA
1 AACCATA
*
83363303 AACCTTA
1 AACCATA
83363310 AAC
1 AAC
83363313 ATTAAATCTT
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
6 4 0.05
7 54 0.71
8 18 0.24
ACGTcount: A:0.53, C:0.25, G:0.01, T:0.20
Consensus pattern (7 bp):
AACCATA
Found at i:83363261 original size:21 final size:22
Alignment explanation
Indices: 83363210--83363255 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
83363200 CTAAGACCCT
83363210 AACCATAAATCTTAAAACACTA
1 AACCATAAATCTTAAAACACTA
*
83363232 AACCATAAATC-TAAAATACTA
1 AACCATAAATCTTAAAACACTA
83363253 AAC
1 AAC
83363256 ATTAAACCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (22 bp):
AACCATAAATCTTAAAACACTA
Found at i:83363284 original size:22 final size:21
Alignment explanation
Indices: 83363259--83363339 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 21
83363249 ACTAAACATT
83363259 AAACCATAAACCATAAACCCTA
1 AAACCATAAACCATAAA-CCTA
* *
83363281 AAACCATAAACCATAGACCTT
1 AAACCATAAACCATAAACCTA
* *
83363302 AAACCTTAAA-CATTAAATCTTA
1 AAACCATAAACCA-TAAA-CCTA
*
83363324 AAACC-TAAACCCTAAA
1 AAACCATAAACCATAAA
83363340 ATAAAATTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.04
21 23 0.47
22 24 0.49
ACGTcount: A:0.52, C:0.27, G:0.01, T:0.20
Consensus pattern (21 bp):
AAACCATAAACCATAAACCTA
Found at i:83363339 original size:14 final size:15
Alignment explanation
Indices: 83363266--83363340 Score: 59
Period size: 14 Copynumber: 5.2 Consensus size: 15
83363256 ATTAAACCAT
83363266 AAACCATAAACCCTA
1 AAACCATAAACCCTA
*
83363281 AAACCATAAACCAT-
1 AAACCATAAACCCTA
* * *
83363295 AGACCTTAAA-CCTT
1 AAACCATAAACCCTA
* *
83363309 AAA-CATTAAATCTTA
1 AAACCA-TAAACCCTA
83363324 AAACC-TAAACCCTA
1 AAACCATAAACCCTA
83363338 AAA
1 AAA
83363341 TAAAATTATT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
13 3 0.07
14 24 0.52
15 18 0.39
16 1 0.02
ACGTcount: A:0.52, C:0.27, G:0.01, T:0.20
Consensus pattern (15 bp):
AAACCATAAACCCTA
Found at i:83363414 original size:41 final size:41
Alignment explanation
Indices: 83363369--83363512 Score: 191
Period size: 41 Copynumber: 3.5 Consensus size: 41
83363359 CGGCCACTAC
* * * *
83363369 TGCTTGGCCTTTTGTGGTGTTTTTACCATAAACGCCCCTAA
1 TGCTTGACCTTTTGTGGCGTTTTTATCATAAACGCCGCTAA
*
83363410 TGCTTGACCTTTTGTGGAG-TTTTATCATAAACGCCGCTAA
1 TGCTTGACCTTTTGTGGCGTTTTTATCATAAACGCCGCTAA
* * * * *
83363450 TGCTTGACATTTTGCGGCATTTTTATCATAAACGCAGTTAA
1 TGCTTGACCTTTTGTGGCGTTTTTATCATAAACGCCGCTAA
83363491 TGCTTGACCTTTTGTGGCGTTT
1 TGCTTGACCTTTTGTGGCGTTT
83363513 CCGCTATAGC
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 34 0.38
41 55 0.62
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.40
Consensus pattern (41 bp):
TGCTTGACCTTTTGTGGCGTTTTTATCATAAACGCCGCTAA
Found at i:83367880 original size:21 final size:21
Alignment explanation
Indices: 83367854--83367908 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
83367844 CTTACACCAT
83367854 GTTGTGGATAAACCACTCATC
1 GTTGTGGATAAACCACTCATC
*
83367875 GTTGTGGATGAAA-CACTCGTC
1 GTTGTGGAT-AAACCACTCATC
*
83367896 GTTGTAGATAAAC
1 GTTGTGGATAAAC
83367909 TGCTCATCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.10
21 24 0.80
22 3 0.10
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (21 bp):
GTTGTGGATAAACCACTCATC
Found at i:83369069 original size:5 final size:5
Alignment explanation
Indices: 83369046--83369097 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
83369036 CAAATATGAT
* *
83369046 AGAAA AGAAGA TGACA AGAAA AGATAA A-AACA AGAAA AGAAA AGAAA
1 AGAAA AGAA-A AGAAA AGAAA AGA-AA AGAA-A AGAAA AGAAA AGAAA
83369093 AGAAA
1 AGAAA
83369098 TATAGGATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 1 0.03
5 30 0.77
6 8 0.21
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (5 bp):
AGAAA
Found at i:83369078 original size:16 final size:16
Alignment explanation
Indices: 83369046--83369097 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
83369036 CAAATATGAT
*
83369046 AGAAAAGAAGATG-ACA
1 AGAAAAGAA-AAGAACA
83369062 AGAAAAGATAAA-AACA
1 AGAAAAGA-AAAGAACA
83369078 AGAAAAGAAAAGAA-A
1 AGAAAAGAAAAGAACA
83369093 AGAAA
1 AGAAA
83369098 TATAGGATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 9 0.28
16 22 0.69
17 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (16 bp):
AGAAAAGAAAAGAACA
Found at i:83370096 original size:18 final size:19
Alignment explanation
Indices: 83370056--83370096 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
83370046 AAGACTAATT
*
83370056 AAAT-ATAAATTATTTTTA
1 AAATAATAAATTATTATTA
83370074 AAATAATAAA-TATTATTA
1 AAATAATAAATTATTATTA
*
83370092 TAATA
1 AAATA
83370097 TTATTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATAATAAATTATTATTA
Found at i:83371979 original size:8 final size:8
Alignment explanation
Indices: 83371957--83371990 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
83371947 GTACAAAGAA
83371957 ATTTTGTG
1 ATTTTGTG
83371965 TATTTTGTG
1 -ATTTTGTG
83371974 ATTTTGTG
1 ATTTTGTG
83371982 ATTTTGTG
1 ATTTTGTG
83371990 A
1 A
83371991 ATTAGGGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:83380387 original size:25 final size:25
Alignment explanation
Indices: 83380328--83380377 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
83380318 TGTCATCGAG
83380328 TAAGAAAGATGCAAACTGGGTTGTT
1 TAAGAAAGATGCAAACTGGGTTGTT
*
83380353 TAAGAAAGATGCAATCTGGGTTGTT
1 TAAGAAAGATGCAAACTGGGTTGTT
83380378 GTCGATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (25 bp):
TAAGAAAGATGCAAACTGGGTTGTT
Found at i:83388068 original size:18 final size:19
Alignment explanation
Indices: 83388042--83388079 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
83388032 CACCGTATCG
83388042 GTAACAGTAACGGTA-ACA
1 GTAACAGTAACGGTACACA
* *
83388060 GTAATAGTAGCGGTACACA
1 GTAACAGTAACGGTACACA
83388079 G
1 G
83388080 AGTACCTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.18
Consensus pattern (19 bp):
GTAACAGTAACGGTACACA
Found at i:83396676 original size:24 final size:25
Alignment explanation
Indices: 83396649--83396702 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
83396639 ATAAAATTTT
*
83396649 ATTTTAACTCTTA-T-AAAAAATATA
1 ATTTTAA-TCTTACTCAAAAAATACA
*
83396673 A-TTTAATTTTACTCAAAAAATACA
1 ATTTTAATCTTACTCAAAAAATACA
83396697 ATTTTA
1 ATTTTA
83396703 TTTTATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 4 0.16
23 6 0.24
24 11 0.44
25 4 0.16
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTTTAATCTTACTCAAAAAATACA
Found at i:83397649 original size:33 final size:32
Alignment explanation
Indices: 83397607--83397669 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
83397597 ATATAAATTT
* *
83397607 TATAAATATATAAAAGCTTATAATATTTATATA
1 TATAAATATAAAAAAGCATATAA-ATTTATATA
*
83397640 TATAAATATAAAAAAGCATGTAAATTTATA
1 TATAAATATAAAAAAGCATATAAATTTATA
83397670 AAAATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (32 bp):
TATAAATATAAAAAAGCATATAAATTTATATA
Found at i:83397682 original size:18 final size:18
Alignment explanation
Indices: 83397661--83397712 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
83397651 AAAAGCATGT
83397661 AAATTTATAAAAATATAA
1 AAATTTATAAAAATATAA
83397679 AAATTTATAAAAA-A-AA
1 AAATTTATAAAAATATAA
* *
83397695 AGATTCATAAAATATATA
1 AAATTTATAAAA-ATATA
83397713 TTATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 12 0.41
17 2 0.07
18 14 0.48
19 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
AAATTTATAAAAATATAA
Found at i:83397687 original size:59 final size:57
Alignment explanation
Indices: 83397578--83397688 Score: 143
Period size: 59 Copynumber: 1.9 Consensus size: 57
83397568 ATTTTGAAAA
* * *
83397578 ATATATATAAAATATAAAAATATAAATTTTATAAATATATAAAAGCTTATAATATTT
1 ATATATATAAAATAAAAAAATATAAATTTTATAAAAATATAAAAACTTATAATATTT
* *
83397635 ATATATATAAATATAAAAAAGCATGTAAA-TTTATAAAAATATAAAAATTTATAA
1 ATATATATAAA-ATAAAAAA--ATATAAATTTTATAAAAATATAAAAACTTATAA
83397689 AAAAAAAGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 11 0.24
58 7 0.15
59 22 0.48
60 6 0.13
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.37
Consensus pattern (57 bp):
ATATATATAAAATAAAAAAATATAAATTTTATAAAAATATAAAAACTTATAATATTT
Found at i:83400049 original size:6 final size:6
Alignment explanation
Indices: 83400038--83400063 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
83400028 TATTAACACA
83400038 ACTCAG ACTCAG ACTCAG ACTCAG AC
1 ACTCAG ACTCAG ACTCAG ACTCAG AC
83400064 GGATACACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (6 bp):
ACTCAG
Found at i:83400590 original size:25 final size:25
Alignment explanation
Indices: 83400562--83400614 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
83400552 AATAAAACAA
*
83400562 TTAA-ATCACATTAATATTACACATT
1 TTAATATCACATTAA-ATTACAAATT
* *
83400587 TTAATTTCACATTAAATTTCAAATT
1 TTAATATCACATTAAATTACAAATT
83400612 TTA
1 TTA
83400615 CACTATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (25 bp):
TTAATATCACATTAAATTACAAATT
Found at i:83409445 original size:19 final size:21
Alignment explanation
Indices: 83409406--83409445 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
83409396 TAAAAGGGAA
83409406 AAAAATATAATAATATATTAT
1 AAAAATATAATAATATATTAT
*
83409427 AAAAAT-TAAT-ATATTTTAT
1 AAAAATATAATAATATATTAT
83409446 GTTTAAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAATATAATAATATATTAT
Found at i:83409772 original size:17 final size:17
Alignment explanation
Indices: 83409746--83409779 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
83409736 CTTTTCAAGT
*
83409746 CAAACTCCAATAACTTA
1 CAAACACCAATAACTTA
*
83409763 CAAACACCAATATCTTA
1 CAAACACCAATAACTTA
83409780 TTTACATCCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (17 bp):
CAAACACCAATAACTTA
Found at i:83410080 original size:2 final size:2
Alignment explanation
Indices: 83410073--83410097 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
83410063 CTAACCGTAT
83410073 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
83410098 TAACTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:83415824 original size:40 final size:40
Alignment explanation
Indices: 83415711--83415810 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
83415701 GGATATAACG
* * * *
83415711 ACTCGCTCAAATGCCTTCGGGAC-AAAGCCCGG-TTATAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TATTA
*
83415751 ACTCGCATGAATGCCTTCGGGACTTAACCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTATTA
83415791 ACTCGCACGAATGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
83415811 ATCTTAGTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 48 0.92
41 4 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTATTA
Found at i:83415857 original size:40 final size:40
Alignment explanation
Indices: 83415723--83415863 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
83415713 TCGCTCAAAT
** * * * *
83415723 GCCTTCGGGACAAAGCCCGGTTATAGTAACTCGCATGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACGAAA
* * * * *
83415763 GCCTTCGGGACTTAACCCGGATTTATTAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACGAAA
* *
83415803 GCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCAC-AAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCACGAAA
*
83415843 GCCTTCGGGACTTAGCTCGGA
1 GCCTTCGGGACTTAGCCCGGA
83415864 CATCATTCAA
Statistics
Matches: 82, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.04
40 71 0.87
41 8 0.10
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACGAAA
Found at i:83422600 original size:18 final size:18
Alignment explanation
Indices: 83422577--83422614 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
83422567 ACATGGCTCA
83422577 CTTGAACTCCCTGTTATG
1 CTTGAACTCCCTGTTATG
*
83422595 CTTGAACTCCTTGTTATG
1 CTTGAACTCCCTGTTATG
83422613 CT
1 CT
83422615 ATCTAGAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (18 bp):
CTTGAACTCCCTGTTATG
Found at i:83422913 original size:82 final size:82
Alignment explanation
Indices: 83422776--83422942 Score: 289
Period size: 82 Copynumber: 2.0 Consensus size: 82
83422766 CTTCCTAATT
*
83422776 ATGTGCCCTATTTGGGTACCCCTGGATATGAATTGATGGATTTCAGTTTTGTACACTTTAAATGT
1 ATGTGCCCTATTTGGGTACCCCTAGATATGAATTGATGGATTTCAGTTTTGTACACTTTAAATGT
*
83422841 ACTACTTGAACGTATCC
66 ACTACTTGAACATATCC
* *
83422858 ATGTGCCCTATTTGGGTGCCCCTAGATATGAATTGATGGATTTCAGTTTTGTACACTTTAAGTGT
1 ATGTGCCCTATTTGGGTACCCCTAGATATGAATTGATGGATTTCAGTTTTGTACACTTTAAATGT
*
83422923 ACTACTTGAACATGTCC
66 ACTACTTGAACATATCC
83422940 ATG
1 ATG
83422943 GGTGAAGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (82 bp):
ATGTGCCCTATTTGGGTACCCCTAGATATGAATTGATGGATTTCAGTTTTGTACACTTTAAATGT
ACTACTTGAACATATCC
Found at i:83426090 original size:49 final size:48
Alignment explanation
Indices: 83426033--83426217 Score: 144
Period size: 49 Copynumber: 3.8 Consensus size: 48
83426023 TCTGGTACAT
83426033 ATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGG-CAC
1 ATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGACAC
* * ** ** *
83426080 ATGTAGTAGCCTAC-CTTAGTACTACACACGTGACCTAACCAT-CTGATCAC
1 A--TAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCCGGA-CAC
* *** * *
83426130 GTAGTAGCCTGCACTTAGTACTACACACGTG-ATTGAAGTTATCGGGTACGC
1 ATAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATCCGG-ACAC
*
83426181 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 ATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
83426218 AATCATAGCC
Statistics
Matches: 102, Mismatches: 24, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
47 1 0.01
48 30 0.29
49 33 0.32
50 7 0.07
51 30 0.29
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (48 bp):
ATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGACAC
Found at i:83428904 original size:128 final size:127
Alignment explanation
Indices: 83428679--83428939 Score: 287
Period size: 128 Copynumber: 2.0 Consensus size: 127
83428669 TGGGAACTCA
* * *
83428679 AGGAATCATGCCCAACCGTGCTGGGTTTCAATTTTTTGTTTGTCCAAATAATCAAATATTCCTTG
1 AGGAATCATGCCCAACCGTGCTGGGTTACAATTTTTCGTTTGTCAAAATAATCAAATATTCCTTG
* * * * * * * *
83428744 AAATTTCATCTGTACTTTGAAAATTCCTTAAAATGAAGGCAATGTTCGATGTTTGGAAATTCG
66 AAATTTCATCTGCACTTTCAAAACTCCTTAAAA-CAAGGCAACGCTCAATGTTTAGAAATTCG
* * * * *
83428807 GGGAATCGTGCCCTATCGTGCTGGGTTACAATTTTTCGTTTGTTCAAAATAATCGAATATTCCTT
1 AGGAATCATGCCCAACCGTGCTGGGTTACAATTTTTCGTTTG-TCAAAATAATCAAATATTCCTT
* *
83428872 TAGAATTTCA-CT-CACTTTTTCTAAACT-C-TAAAACAAGGCAACGCTCAATGTTTAGAAATTC
65 GA-AATTTCATCTGCAC--TTTCAAAACTCCTTAAAACAAGGCAACGCTCAATGTTTAGAAATTC
83428933 G
127 G
83428934 AGGAAT
1 AGGAAT
83428940 ATACACACTT
Statistics
Matches: 110, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
127 29 0.26
128 43 0.39
129 24 0.22
130 14 0.13
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (127 bp):
AGGAATCATGCCCAACCGTGCTGGGTTACAATTTTTCGTTTGTCAAAATAATCAAATATTCCTTG
AAATTTCATCTGCACTTTCAAAACTCCTTAAAACAAGGCAACGCTCAATGTTTAGAAATTCG
Found at i:83429008 original size:49 final size:49
Alignment explanation
Indices: 83428938--83429040 Score: 197
Period size: 49 Copynumber: 2.1 Consensus size: 49
83428928 AATTCGAGGA
83428938 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
83428987 ATATACACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
83429036 ATATA
1 ATATA
83429041 TATCTCATAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (49 bp):
ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:83434263 original size:39 final size:39
Alignment explanation
Indices: 83434218--83434297 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
83434208 GGTATAATTT
**
83434218 TTGTGGAAATGACTTGGATAAGAAAGTTTATGAAAGGAA
1 TTGTGGAAATGACTCAGATAAGAAAGTTTATGAAAGGAA
83434257 TTGTGGAAATGACTCAGATAAGAAAGTTTATGAAAGGAA
1 TTGTGGAAATGACTCAGATAAGAAAGTTTATGAAAGGAA
83434296 TT
1 TT
83434298 TGATATTGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.29
Consensus pattern (39 bp):
TTGTGGAAATGACTCAGATAAGAAAGTTTATGAAAGGAA
Found at i:83436249 original size:24 final size:24
Alignment explanation
Indices: 83436166--83436254 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 24
83436156 AGCTATCCAT
*
83436166 AGCTTCCCGTTATATGGCTCTTTGTG
1 AGCTTCCCG--ATATGGTTCTTTGTG
* *
83436192 AGCTTTCCGATA--GTCTCTTTATG
1 AGCTTCCCGATATGGT-TCTTTGTG
**
83436215 AGCTTATCGATATGGTTCTTTGTG
1 AGCTTCCCGATATGGTTCTTTGTG
*
83436239 AACTTCCCGATTATGG
1 AGCTTCCCGA-TATGG
83436255 CTCCTATGAG
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
22 1 0.02
23 17 0.34
24 17 0.34
25 7 0.14
26 8 0.16
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (24 bp):
AGCTTCCCGATATGGTTCTTTGTG
Found at i:83445736 original size:15 final size:16
Alignment explanation
Indices: 83445709--83445738 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
83445699 TTAATTAACT
83445709 AACAAACACAAAAAAG
1 AACAAACACAAAAAAG
83445725 AACAAA-ACAAAAAA
1 AACAAACACAAAAAA
83445739 ATAACCGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.80, C:0.17, G:0.03, T:0.00
Consensus pattern (16 bp):
AACAAACACAAAAAAG
Found at i:83465184 original size:13 final size:13
Alignment explanation
Indices: 83465166--83465209 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
83465156 AATGTGTGCC
83465166 ACACACGGCCTAG
1 ACACACGGCCTAG
83465179 ACACACGGGCC---
1 ACACAC-GGCCTAG
83465190 ACACACGGCCTAG
1 ACACACGGCCTAG
83465203 ACACACG
1 ACACACG
83465210 CCTGTGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 4 0.15
11 6 0.22
13 13 0.48
14 4 0.15
ACGTcount: A:0.32, C:0.41, G:0.23, T:0.05
Consensus pattern (13 bp):
ACACACGGCCTAG
Found at i:83465194 original size:24 final size:24
Alignment explanation
Indices: 83465163--83465209 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
83465153 CTGAATGTGT
83465163 GCCACACACGGCCTAGACACACGG
1 GCCACACACGGCCTAGACACACGG
83465187 GCCACACACGGCCTAGACACACG
1 GCCACACACGGCCTAGACACACG
83465210 CCTGTGTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.43, G:0.23, T:0.04
Consensus pattern (24 bp):
GCCACACACGGCCTAGACACACGG
Found at i:83472021 original size:50 final size:49
Alignment explanation
Indices: 83471894--83472135 Score: 209
Period size: 50 Copynumber: 4.8 Consensus size: 49
83471884 AGCCGAAGCT
* * * * * *
83471894 ATCTGATACGCATAGTTGCCTGCACTTAGTACTATACATGCGACC-AACA
1 ATCTGATAC-AATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
83471943 ATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACA-ATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
83471993 ATCTGATACAAGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACAA-TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * * * * *
83472044 AT-TGAGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACTTAACT
1 ATCTGA-TAC-AATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * *
83472094 GTATGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTG
1 ATCTGATACA-ATAGTAGCCTGCACTTAGTACTACACACGTG
83472136 TATTCACAAT
Statistics
Matches: 154, Mismatches: 31, Indels: 15
0.77 0.16 0.08
Matches are distributed among these distances:
49 38 0.25
50 77 0.50
51 38 0.25
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
ATCTGATACAATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:83472080 original size:101 final size:101
Alignment explanation
Indices: 83471948--83472135 Score: 277
Period size: 101 Copynumber: 1.9 Consensus size: 101
83471938 CAACAATCCG
* * * *
83471948 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACAAGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAATACTACACACGCGACCTAACCATATGATACAAGTAGTAGCC
83472013 TGCACTTAGTACTACACACGTGATCGAAGTCATTGA
66 TGCACTTAGTACTACACACGTGATCGAAGTCATTGA
* * * ** * *
83472049 GTACGCATAGTAGCCTGCACTTAATACTACACATGCGACTTAACTGTATGGTACATGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAATACTACACACGCGACCTAACCATATGATACAAGTAGTAGCC
83472114 TGCACTTAGTACTACACACGTG
66 TGCACTTAGTACTACACACGTG
83472136 TATTCACAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (101 bp):
GTACACATAGTAGCCTGCACTTAATACTACACACGCGACCTAACCATATGATACAAGTAGTAGCC
TGCACTTAGTACTACACACGTGATCGAAGTCATTGA
Found at i:83475548 original size:20 final size:20
Alignment explanation
Indices: 83475523--83475568 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
83475513 ATGAAAATCC
83475523 ATAAAATGGTGAAATTGGCT
1 ATAAAATGGTGAAATTGGCT
83475543 ATAAAATGGTGAAATTGGCT
1 ATAAAATGGTGAAATTGGCT
83475563 ATAAAA
1 ATAAAA
83475569 CAGAATCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (20 bp):
ATAAAATGGTGAAATTGGCT
Found at i:83482835 original size:40 final size:40
Alignment explanation
Indices: 83482699--83482852 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
83482689 GTGTGCATGA
* *
83482699 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * *
83482739 GCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
83482779 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
83482819 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
83482853 CTTGGTGCGG
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 90 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:83487639 original size:30 final size:30
Alignment explanation
Indices: 83487605--83487665 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
83487595 AGAATACATG
83487605 TTGAGAAATTTACGTAGTAAAGACTTTCGT
1 TTGAGAAATTTACGTAGTAAAGACTTTCGT
*
83487635 TTGAGAAATTTACGTTGTAAAGACTTTCGT
1 TTGAGAAATTTACGTAGTAAAGACTTTCGT
83487665 T
1 T
83487666 GAACATTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (30 bp):
TTGAGAAATTTACGTAGTAAAGACTTTCGT
Done.