Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 186 of 208
Found at i:58292600 original size:21 final size:23
Alignment explanation
Indices: 58292562--58292609 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
58292552 TAGAAATAAT
* *
58292562 CAAAAAGAATTTATTCAAAAA-A
1 CAAAAAGAAATCATTCAAAAAGA
58292584 CAAAAAGAAATCA-TCAAAAAGA
1 CAAAAAGAAATCATTCAAAAAGA
58292606 CAAA
1 CAAA
58292610 CATGTCTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.67, C:0.12, G:0.06, T:0.15
Consensus pattern (23 bp):
CAAAAAGAAATCATTCAAAAAGA
Found at i:58305964 original size:12 final size:12
Alignment explanation
Indices: 58305947--58305980 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
58305937 TTATTTTTCT
58305947 TTACTTTATTTA
1 TTACTTTATTTA
58305959 TTACTTTATTTTA
1 TTACTTTA-TTTA
58305972 TTA-TTTATT
1 TTACTTTATT
58305981 ACTTATTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 12 0.57
13 7 0.33
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:58305968 original size:8 final size:7
Alignment explanation
Indices: 58305907--58305987 Score: 50
Period size: 7 Copynumber: 12.0 Consensus size: 7
58305897 AGGCAACCCA
58305907 ATTT-TT
1 ATTTATT
58305913 ATTT-TT
1 ATTTATT
*
58305919 ATTTTTT
1 ATTTATT
58305926 A-TTAGTT
1 ATTTA-TT
58305933 A-TTATT
1 ATTTATT
58305939 ATTT-TT
1 ATTTATT
*
58305945 CTTTACTTT
1 ATTTA--TT
58305954 ATTTATT
1 ATTTATT
58305961 ACTTTA-T
1 A-TTTATT
58305968 -TTTATT
1 ATTTATT
58305974 ATTTATT
1 ATTTATT
*
58305981 ACTTATT
1 ATTTATT
58305988 TGGATATTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
5 4 0.06
6 21 0.34
7 27 0.44
8 4 0.06
9 6 0.10
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.72
Consensus pattern (7 bp):
ATTTATT
Found at i:58322529 original size:42 final size:43
Alignment explanation
Indices: 58322480--58322661 Score: 235
Period size: 43 Copynumber: 4.3 Consensus size: 43
58322470 TTTCAGCAAT
*
58322480 AAACGCCGCTAAAGACCATGAGTTTTAGCGGCGC-TTTCCTAC
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCTAC
* * *
58322522 AAACGCCGCTAAAGACCACGACTTTTAGCGGCACTTTTACTAC
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCTAC
* * * **
58322565 AAACGCCACTATAGACCATGACCTTTAGCGGCG-TTTTGTTGGA-
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCT--AC
*
58322608 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCTAC
58322651 AAACGCCGCTA
1 AAACGCCGCTA
58322662 TAGCTGAAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
42 37 0.31
43 76 0.64
44 5 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCTAC
Found at i:58322631 original size:86 final size:86
Alignment explanation
Indices: 58322522--58322687 Score: 244
Period size: 86 Copynumber: 1.9 Consensus size: 86
58322512 GCTTTCCTAC
* **
58322522 AAACGCCGCTAAAGACCACGACTTTTAGCGGCACTTTTACTACAAACGCCACTATAGAC-CATGA
1 AAACGCCGCTAAAGACCACGACTTTTAGCGGCACTTTTACCACAAACGCCACTATAG-CTCAAAA
58322586 CCTTTAGCGGCGTTTTGTTGGA
65 CCTTTAGCGGCGTTTTGTTGGA
* * * * *
58322608 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTGAAAAC
1 AAACGCCGCTAAAGACCACGACTTTTAGCGGCACTTTTACCACAAACGCCACTATAGCTCAAAAC
58322673 CTTTAGCGGCGTTTT
66 CTTTAGCGGCGTTTT
58322688 TACCACAAAC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 1 0.01
86 70 0.99
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCACGACTTTTAGCGGCACTTTTACCACAAACGCCACTATAGCTCAAAAC
CTTTAGCGGCGTTTTGTTGGA
Found at i:58322678 original size:43 final size:42
Alignment explanation
Indices: 58322503--58322746 Score: 156
Period size: 43 Copynumber: 5.7 Consensus size: 42
58322493 GACCATGAGT
* * * * *
58322503 TTTAGCGGCGC-TTT-CCTACAAACGCCGCTAAAGACCACGACT
1 TTTAGCGGCGCTTTTACC-ACAAACGCCACTATAGAACA-AACC
* * * *
58322545 TTTAGCGGCACTTTTACTACAAACGCCACTATAGACCATGACC
1 TTTAGCGGCGCTTTTACCACAAACGCCACTATAGAACA-AACC
* *** * * * * *
58322588 TTTAGCGGCGTTTTGTTGGA-AAACGCCGCTAAAGACCATGACT
1 TTTAGCGGCGCTTT-TACCACAAACGCCACTATAGAACA-AACC
* * *
58322631 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTGA-AAACC
1 TTTAGCGGCGCTTTTACCACAAACGCCACTATAG--AACAAACC
*
58322674 TTTAGCGGCGTTTTTACCACAAACGCCACTATAGAACAAACC
1 TTTAGCGGCGCTTTTACCACAAACGCCACTATAGAACAAACC
* * *
58322716 TTTAGCGACGCTTCTT-GCAAAAACGCCACTA
1 TTTAGCGGCGCTT-TTACCACAAACGCCACTA
58322747 AAAACATAAC
Statistics
Matches: 163, Mismatches: 31, Indels: 16
0.78 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 41 0.25
43 117 0.72
44 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (42 bp):
TTTAGCGGCGCTTTTACCACAAACGCCACTATAGAACAAACC
Found at i:58322689 original size:129 final size:127
Alignment explanation
Indices: 58322480--58322722 Score: 344
Period size: 129 Copynumber: 1.9 Consensus size: 127
58322470 TTTCAGCAAT
* * ** *
58322480 AAACGCCGCTAAAGACCATGAGTTTTAGCGGCGCTTTCCTACAAACGCCGCTAAAGACCACGACT
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGACCAAAACC
* * *
58322545 TTTAGCGGCACTTTTACTACAAACGCCACTATAGACCATGACCTTTAGCGGCGTTTTGTTGGA
66 TTTAGCGGCACTTTTACCACAAACGCCACTATAGAACA-AACCTTTAGCGGCGTTTTGTTGGA
* *
58322608 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAG-CTGAAAA
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGAC-CAAAA
**
58322672 CCTTTAGCGGCGTTTTTACCACAAACGCCACTATAGAACAAACCTTTAGCG
64 CCTTTAGCGGCACTTTTACCACAAACGCCACTATAGAACAAACCTTTAGCG
58322723 ACGCTTCTTG
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
128 44 0.44
129 57 0.56
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (127 bp):
AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGACCAAAACC
TTTAGCGGCACTTTTACCACAAACGCCACTATAGAACAAACCTTTAGCGGCGTTTTGTTGGA
Found at i:58322698 original size:86 final size:85
Alignment explanation
Indices: 58322503--58322700 Score: 231
Period size: 86 Copynumber: 2.3 Consensus size: 85
58322493 GACCATGAGT
* *
58322503 TTTAGCGGCG-CTTTCCTACAAACGCCGCTAAAGACCACGACTTTTAGCGGCACTTTTACTACAA
1 TTTAGCGGCGTTTTTCC-ACAAACGCCGCTAAAGACCACGACTTTTAGCGGCACTTTTACCACAA
**
58322567 ACGCCACTATAGACCATGACC
65 ACGCCACTATAGACCAAAACC
** * * *
58322588 TTTAGCGGCGTTTTGTTGGA-AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCCACA
1 TTTAGCGGCG-TTT-TTCCACAAACGCCGCTAAAGACCACGACTTTTAGCGGCACTTTTACCACA
* *
58322652 AACGCCGCTATAG-CTGAAAACC
64 AACGCCACTATAGAC-CAAAACC
58322674 TTTAGCGGCGTTTTTACCACAAACGCC
1 TTTAGCGGCGTTTTT-CCACAAACGCC
58322701 ACTATAGAAC
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
84 2 0.02
85 15 0.16
86 73 0.78
87 2 0.02
88 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (85 bp):
TTTAGCGGCGTTTTTCCACAAACGCCGCTAAAGACCACGACTTTTAGCGGCACTTTTACCACAAA
CGCCACTATAGACCAAAACC
Found at i:58327740 original size:15 final size:15
Alignment explanation
Indices: 58327717--58327746 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58327707 CCCTAACTCG
58327717 ACCCCAAATCTCTAA
1 ACCCCAAATCTCTAA
*
58327732 ACCCTAAATCTCTAA
1 ACCCCAAATCTCTAA
58327747 TTCTAAACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (15 bp):
ACCCCAAATCTCTAA
Found at i:58327988 original size:14 final size:13
Alignment explanation
Indices: 58327937--58327985 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
58327927 TAAAACCCTA
*
58327937 AACCCATAACGCAT
1 AACCC-TAACCCAT
* *
58327951 AACCCCAACCCCT
1 AACCCTAACCCAT
58327964 AACCTCTAACCCAT
1 AACC-CTAACCCAT
58327978 AACCCTAA
1 AACCCTAA
58327986 ACCTTATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 13 0.45
14 16 0.55
ACGTcount: A:0.39, C:0.45, G:0.02, T:0.14
Consensus pattern (13 bp):
AACCCTAACCCAT
Found at i:58328948 original size:41 final size:41
Alignment explanation
Indices: 58328624--58328946 Score: 405
Period size: 41 Copynumber: 7.9 Consensus size: 41
58328614 TTTTTTTATT
* ** *
58328624 ATTAGCGGCGCTT-TTCAAAAACGCCGCTAAAGACTGGAAC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * * * *
58328664 ATTAGCGGTGCTTCCTCAAAAACACCGCTAAAGACCGGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
58328705 ATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
58328746 ATTAGCGGCGCTTCGTCAAAAACGCCGCTAAAGGCCCGAGA
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
58328787 ATTAGCGGCGCTTCTTCAGAAACGCCGCTAAAGTCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * ** *
58328828 ATTAGAGGCACTTAGTCAAAAACGCCGCTAAATGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
58328869 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCCAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
58328910 ATTAGCGGCACTTTTTCTAAAACGCCGCTAAAGGCCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
58328947 CAAAAACTTA
Statistics
Matches: 244, Mismatches: 38, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
40 12 0.05
41 232 0.95
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:58329059 original size:12 final size:12
Alignment explanation
Indices: 58329042--58329069 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
58329032 TTTTTTATCC
58329042 AAACGCCGCTAA
1 AAACGCCGCTAA
58329054 AAACGCCGCTAA
1 AAACGCCGCTAA
58329066 AAAC
1 AAAC
58329070 CTGTTTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.32, G:0.14, T:0.07
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:58336203 original size:98 final size:98
Alignment explanation
Indices: 58336029--58336225 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
58336019 GTACAATAAA
* *
58336029 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCTAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* * *
58336094 TCTTTAGAATCCCAAACTTGAAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
*
58336127 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
58336192 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
58336225 A
1 A
58336226 TTATTTTTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
Found at i:58336950 original size:16 final size:16
Alignment explanation
Indices: 58336918--58336951 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58336908 AAAATATAGG
* *
58336918 AAAATATTAGTTTAAA
1 AAAATATTAGCTGAAA
58336934 AAAATATTAGCTGAAA
1 AAAATATTAGCTGAAA
58336950 AA
1 AA
58336952 TAAGTATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (16 bp):
AAAATATTAGCTGAAA
Found at i:58337590 original size:19 final size:19
Alignment explanation
Indices: 58337566--58337678 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
58337556 AATCATATAT
58337566 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
58337585 TCTAAGATTATATGTCATA
1 TCTAAGATTGCATATCATA
58337604 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
58337623 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
58337644 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
58337663 TCTAAAATTTCATATC
1 TCTAAGATTGCATATC
58337679 CTCAAAAATT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
19 63 0.79
21 17 0.21
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:58337654 original size:40 final size:39
Alignment explanation
Indices: 58337566--58337677 Score: 163
Period size: 40 Copynumber: 2.8 Consensus size: 39
58337556 AATCATATAT
*
58337566 TCTAAGATTGCATATCATATCTAAGATT-ATATGTCATA
1 TCTAAGATTGCATATCATATCTAAGATTCATATATCATA
58337604 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATT-CATATATCATA
** *
58337644 TCTTGGATTGCATATCATATCTAAAATTTCATAT
1 TCTAAGATTGCATATCATATCTAAGA-TTCATAT
58337678 CCTCAAAAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
38 28 0.42
40 37 0.55
41 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (39 bp):
TCTAAGATTGCATATCATATCTAAGATTCATATATCATA
Found at i:58338219 original size:44 final size:42
Alignment explanation
Indices: 58337866--58338228 Score: 225
Period size: 44 Copynumber: 8.4 Consensus size: 42
58337856 TCTGCCTCAT
* * *
58337866 TGCAACTTCA-GGAGGATAAGACTTGCTTATTTAGTCTGCTCCAC
1 TGCAACTTCAGGGA-GATAAGACTAG-GT-TTTAATCTGCTCCAC
* * *** *
58337910 TGTAACTTCAGGGAGATAAGACTA-GATGCGATCTGCT-CTC
1 TGCAACTTCAGGGAGATAAGACTAGGTTTTAATCTGCTCCAC
* * * * * *
58337950 TGTAACTTTAGAGAGATAAGATCTGAAGTTTTAATCCGCTCCAA
1 TGCAACTTCAGGGAGATAAGA-CT-AGGTTTTAATCTGCTCCAC
* * *
58337994 TGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGACTA--GGTTTTAATCTGCTCCAC
* * * * *
58338038 TGTAACTTCAGGGAGATAAGACTTGCCATCTTTAGTCTGCCCCAC
1 TGCAACTTCAGGGAGATAAGACTAG--GT-TTTAATCTGCTCCAC
* * *
58338083 TGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCCAC
1 TGCAACTTCAGGGA-GATAAGACTAGGTT--TTAATCTGCTCCAC
* *** * ***
58338127 TGCAACTTCAGGGAGATAAGACTA-GATGCGATCTACT-TTT
1 TGCAACTTCAGGGAGATAAGACTAGGTTTTAATCTGCTCCAC
* *
58338167 TGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGA-CT-AGGTTTTAATCTGCTCCAC
58338211 TGCAACTTCAGGGAGATA
1 TGCAACTTCAGGGAGATA
58338229 GGATTTACAA
Statistics
Matches: 241, Mismatches: 60, Indels: 36
0.72 0.18 0.11
Matches are distributed among these distances:
40 41 0.17
41 16 0.07
42 5 0.02
43 18 0.07
44 122 0.51
45 39 0.16
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (42 bp):
TGCAACTTCAGGGAGATAAGACTAGGTTTTAATCTGCTCCAC
Found at i:58338362 original size:44 final size:43
Alignment explanation
Indices: 58338311--58338496 Score: 110
Period size: 44 Copynumber: 4.2 Consensus size: 43
58338301 CTATCTTGGA
*
58338311 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 AAGATAAGATTCGCCGTCTTCAATCTGCTCCACTACT-CTTAGG
* * ** * * * *
58338355 GAGATAAGA-TCTACAATCTTCAACCTTCTCCGCTGCTCTTGAGG
1 AAGATAAGATTC-GCCGTCTTCAATCTGCTCCACTACTCTT-AGG
* * ** * *
58338399 AAGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-TCTT-GG
1 AAGATAA-GATTCGCCGTCTTCAATCTGC-T-CCACTACTCTTAGG
* *
58338442 AAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 -AAGATAAGATTCGCCGTCTTCAATCTGCTCCACTACT-CTTAGG
*
58338487 GAGATAAGAT
1 AAGATAAGAT
58338497 CTACAATCTT
Statistics
Matches: 101, Mismatches: 30, Indels: 22
0.66 0.20 0.14
Matches are distributed among these distances:
42 6 0.06
43 12 0.12
44 70 0.69
45 8 0.08
46 5 0.05
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (43 bp):
AAGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTCTTAGG
Found at i:58338375 original size:132 final size:132
Alignment explanation
Indices: 58338220--58338608 Score: 681
Period size: 132 Copynumber: 2.9 Consensus size: 132
58338210 CTGCAACTTC
* *
58338220 AGGGAGATAGGATTTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* *
58338285 TTAAATTTGCTTCCTACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
58338350 TT
131 TT
* *
58338352 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCT-CTTGAGGAAGACAAGGCTTGGTGG
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGC-TCAGGGAGACAAGGCTTGGTGG
*
58338416 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTG
65 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTG
58338481 CTT
130 CTT
* *
58338484 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGTCTTGGTGAC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
58338549 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
58338609 GTCAATGCAG
Statistics
Matches: 243, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
131 1 0.00
132 241 0.99
133 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:58338507 original size:44 final size:43
Alignment explanation
Indices: 58338327--58338534 Score: 104
Period size: 44 Copynumber: 4.7 Consensus size: 43
58338317 AGATTCGCCG
*
58338327 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-CAA
* * * * * * * ***
58338371 TCTTCAACCTTCTCCGCTGCT-CTTGAGGAAGACAAG-GCTTGG
1 TCTTCAATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTCAA
* * *
58338413 TGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCGTC-G
1 T--CTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGA-TC-TCAA
*
58338459 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-CAA
* * * * *
58338503 TCTTCAACCTTCTCCGCTGCTGCTCAGGGAGA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGA
58338535 CAAGTCTTGG
Statistics
Matches: 121, Mismatches: 29, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
42 8 0.07
43 12 0.10
44 86 0.71
45 7 0.06
46 7 0.06
47 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (43 bp):
TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTCAA
Found at i:58344125 original size:98 final size:98
Alignment explanation
Indices: 58343951--58344147 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
58343941 GTACAATAAA
* * *
58343951 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATATGTTATAGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGAGCACAATT
* *
58344016 CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
* *
58344049 ACTTTAAAAGAACATCCACTTATCTAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGAGCACAATT
58344114 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
58344147 A
1 A
58344148 TTATTTTTAA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGAGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:58344871 original size:16 final size:16
Alignment explanation
Indices: 58344839--58344873 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
58344829 AAAATATAGG
* *
58344839 AAAATATTAGTTTAAA
1 AAAATATTAGCTGAAA
58344855 AAAATATTAGCTGAAA
1 AAAATATTAGCTGAAA
58344871 AAA
1 AAA
58344874 TAAGTATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.29
Consensus pattern (16 bp):
AAAATATTAGCTGAAA
Found at i:58352935 original size:22 final size:22
Alignment explanation
Indices: 58352907--58352959 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
58352897 AACCAAAATT
58352907 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
*
58352929 ATCTCCTAAACTTTAGCATTTA
1 ATCTCCTAAACTTTAGCATCTA
58352951 ATCTCCTAA
1 ATCTCCTAA
58352960 TTAAAAGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:58355014 original size:18 final size:18
Alignment explanation
Indices: 58354987--58355080 Score: 125
Period size: 18 Copynumber: 5.2 Consensus size: 18
58354977 TACGACCGTT
*
58354987 TACGGTACTATTCATGTA
1 TACGGTACTATTCACGTA
* *
58355005 TACGGCACTATTTTACGTA
1 TACGGTACTA-TTCACGTA
58355024 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
58355042 TACGGCACTATTCACATA
1 TACGGTACTATTCACGTA
*
58355060 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
58355078 TAC
1 TAC
58355081 AGTAGTTGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
18 50 0.77
19 15 0.23
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:58355074 original size:36 final size:37
Alignment explanation
Indices: 58354987--58355080 Score: 145
Period size: 37 Copynumber: 2.6 Consensus size: 37
58354977 TACGACCGTT
* * *
58354987 TACGGTACTATTCATGTATACGGCACTATTTTACGTA
1 TACGGTACTATTCACGTATACGGCACTATTTCACATA
58355024 TACGGTACTATTCACGTATACGGCACTA-TTCACATA
1 TACGGTACTATTCACGTATACGGCACTATTTCACATA
*
58355060 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
58355081 AGTAGTTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 26 0.49
37 27 0.51
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (37 bp):
TACGGTACTATTCACGTATACGGCACTATTTCACATA
Found at i:58369900 original size:20 final size:20
Alignment explanation
Indices: 58369864--58369923 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
58369854 ACATACGCAC
*
58369864 ATATAATGTAAGT-ATAATGA
1 ATATAATATAAGTAATAAT-A
58369884 ATATAATATAA-TAATAACTA
1 ATATAATATAAGTAATAA-TA
* *
58369904 ATATAATAAAATTAATAATA
1 ATATAATATAAGTAATAATA
58369924 TAAAAAAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 1 0.03
20 27 0.77
21 7 0.20
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (20 bp):
ATATAATATAAGTAATAATA
Found at i:58369924 original size:17 final size:17
Alignment explanation
Indices: 58369877--58369931 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 17
58369867 TAATGTAAGT
58369877 ATAATGAATATAATATAATA
1 ATAAT-AATATAATA-AA-A
58369897 ATAACTAATATAATAAAA
1 ATAA-TAATATAATAAAA
*
58369915 TTAATAATATAA-AAAA
1 ATAATAATATAATAAAA
58369931 A
1 A
58369932 CTAAAACAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 4 0.12
17 8 0.25
18 4 0.12
19 2 0.06
20 13 0.41
21 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
ATAATAATATAATAAAA
Found at i:58371489 original size:50 final size:50
Alignment explanation
Indices: 58371419--58372191 Score: 353
Period size: 50 Copynumber: 15.5 Consensus size: 50
58371409 TCGAGGAAAC
* * * *
58371419 AAGATCCACCGTCGTAGCTTCAATCTGTTCAACTGCACTGCTAAGGAGGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAAGGAAGT
* * * * * **
58371469 AAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTG-TCGAGGAAAC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AAGGAAGT
* * * ** * * * * * *
58371519 CAGATCTGTCACTGTGACTTCAATCTGTTCCACTACACCGC-CAGAAAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAAG-GAAGT
* * * ** **
58371569 AAGATCTGCCGTTGTGGCTTCAATCT-TTTAA-TAGCACTGTTGGGGAAAC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACT-GCACTGCTAAGGAAGT
* * * * * *
58371618 CAGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCACTGCCAAGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAAGGAAGT
* * * * * * ** **
58371668 AAGATCTGTCGTTGTGGCTTCAATCT-TTTAATTGCGCTGTTGGGGAAAC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAAGGAAGT
* * * * * * *
58371717 CAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAAGGAAGT
* * * * * * ** **
58371767 AAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCGCTG-TCGGGGAAAC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AAGGAAGT
* * * * * **
58371817 CAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCGAGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAAGGAAGT
* * * ** **
58371867 AAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG-TCGGGGAAAC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AAGGAAGT
* * * * ** *
58371917 CAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCACTAGGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAAGGAAGT
* * * * ** **
58371967 AAGATCTGCCGTTGTGGCTTCAATCT-TTTAATTGCGCTG-TCGGGGAAAC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AAGGAAGT
* * * * * * * *
58372016 CAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGTACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAAGGAAGT
* * * * * * ** **
58372066 AAGATCCGCCATTGTGGCTTCAATATTTTTAATTGCGCTG-TCGGGGAAAC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AAGGAAGT
* * * * * * *
58372116 CATATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCG-TCGAGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AAGGAAGT
58372166 AAGATCCGCCGTTGTGGCTTCAATCT
1 AAGATCCGCCGTTGTGGCTTCAATCT
58372192 TTTTAATTGC
Statistics
Matches: 508, Mismatches: 199, Indels: 32
0.69 0.27 0.04
Matches are distributed among these distances:
48 2 0.00
49 104 0.20
50 400 0.79
51 2 0.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (50 bp):
AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAAGGAAGT
Found at i:58371571 original size:100 final size:100
Alignment explanation
Indices: 58371407--58372267 Score: 1207
Period size: 100 Copynumber: 8.6 Consensus size: 100
58371397 CCAATTACAA
* * * * * * * * *
58371407 TGTCGAGGAAACAAGATCCACCGTCGT-AGCTTCAATCTGTTCAACTGCACTGCTA-AGGAGGTA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGA-CTTCAATCTGCTCCACTGCACCGCCAGA-GAAGTA
58371470 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
64 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * * ** * * *
58371507 TGTCGAGGAAACCAGATCTGTCACTGTGACTTCAATCTGTTCCACTACACCGCCAGAAAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGAGAAGTAAG
* * *
58371572 ATCTGCCGTTGTGGCTTCAATC-TTTTAATAGCAC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * *
58371606 TGTTGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCACTGCCA-AGGAAGTAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGA-GAAGTAA
* *
58371670 GATCTGTCGTTGTGGCTTCAATC-TTTTAATTGCGC
65 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* *
58371705 TGTTGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGAGAAGTAAG
* *
58371770 ATTCGCCGTTGTGGCTTCAATATTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
58371805 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCC-GAGGAAGTAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGA-GAAGTAA
*
58371869 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAC
65 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * *
58371905 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCACTAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGAGAAGTAAG
*
58371970 ATCTGCCGTTGTGGCTTCAATC-TTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* *
58372004 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGTACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGAGAAGTAAG
* *
58372069 ATCCGCCATTGTGGCTTCAATATTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* *
58372104 TGTCGGGGAAACCATATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGTC-GAGGAAGTAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGA-GAAGTAA
58372168 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
65 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* ** * * *
58372204 TATCGAAGAAACCAGATCCACCGTTGTGACTTCAATCTGCTCCACTACACCGCCAGGGAAGTAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGAGAAGTAA
58372268 AAAATCTGCT
Statistics
Matches: 684, Mismatches: 67, Indels: 20
0.89 0.09 0.03
Matches are distributed among these distances:
98 1 0.00
99 266 0.39
100 413 0.60
101 4 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (100 bp):
TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGAGAAGTAAG
ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
Found at i:58371815 original size:199 final size:199
Alignment explanation
Indices: 58371407--58372267 Score: 1253
Period size: 199 Copynumber: 4.3 Consensus size: 199
58371397 CCAATTACAA
* * * * * * * * *
58371407 TGTCGAGGAAACAAGATCCACCGTCGT-AGCTTCAATCTGTTCAACTGCACTGCTAAGGAGGTAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGA-CTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAA
* * * **
58371471 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGAGGAAACCAGATCTGTCACTGTGA
65 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGA
* * **
58371536 CTTCAATCTGTTCCACTACACCGCCAGAAAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTAAT
130 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTAAT
* *
58371601 AGCAC
195 TGCGC
* * *
58371606 TGTTGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCACTGCCAAGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
* * *
58371671 ATCTGTCGTTGTGGCTTCAATC-TTTTAATTGCGCTGTTGGGGAAACCAGATCCGCCGTTGTGAC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGAC
*
58371735 TTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGAT-TCGCCGTTGTGGCTTCAATATTTTTAA
131 TTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCT-GCCGTTGTGGCTTCAAT-CTTTTAA
58371799 TTGCGC
194 TTGCGC
*
58371805 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCGAGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
*
58371870 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGTCGGGGAAACCAGATCCGCCGTTGTGAC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGAC
* *
58371935 TTCAATCTGCTCCACTGCACCACTAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTAATT
131 TTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTAATT
58372000 GCGC
196 GCGC
* *
58372004 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGTACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
* * *
58372069 ATCCGCCATTGTGGCTTCAATATTTTTAATTGCGCTGTCGGGGAAACCATATCCGCCGTTGTGAC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGAC
* *
58372134 TTCAATCTGCTCCACTGCACCGTC-GAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
131 TTCAATCTGCTCCACTGCACCGCCAG-GGAAGTAAGATCTGCCGTTGTGGCTTCAATC-TTTTAA
58372198 TTGCGC
194 TTGCGC
* ** * * *
58372204 TATCGAAGAAACCAGATCCACCGTTGTGACTTCAATCTGCTCCACTACACCGCCAGGGAAGTAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAA
58372268 AAAATCTGCT
Statistics
Matches: 602, Mismatches: 53, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
197 1 0.00
198 87 0.14
199 350 0.58
200 163 0.27
201 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (199 bp):
TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGAC
TTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTAATT
GCGC
Found at i:58372034 original size:299 final size:299
Alignment explanation
Indices: 58371407--58372267 Score: 1323
Period size: 299 Copynumber: 2.9 Consensus size: 299
58371397 CCAATTACAA
* * * * * * * * * *
58371407 TGTCGAGGAAACAAGATCCACCGTCGT-AGCTTCAATCTGTTCAACTGCACTGCTAAGGAGGTAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGA-CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAA
* * * * **
58371471 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGAGGAAACCAGATCTGTCACTGTGA
65 GATCCGCCGTTGTGGCTTCAATATTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGA
* * * *
58371536 CTTCAATCTGTTCCACTACACCGCC-AGAAAAGTAAGATCTGCCGTTGTGGCTTCAATC-TTTTA
130 CTTCAATCTGCTCCACTGCACCGCCGAG-GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
* * * * *
58371599 ATAGCACTGTTGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCACTGCCAAGG
194 ATTGCACTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGG
*
58371664 AAGTAAGATCTGTCGTTGTGGCTTCAATCTTTTAATTGCGC
259 AAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTAATTGCGC
*
58371705 TGTTGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
*
58371770 ATTCGCCGTTGTGGCTTCAATATTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGAC
66 ATCCGCCGTTGTGGCTTCAATATTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGAC
58371835 TTCAATCTGCTCCACTGCACCGCCGAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
131 TTCAATCTGCTCCACTGCACCGCCGAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
58371900 TGCACTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCACTAGGGAA
196 TGCACTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAA
58371965 GTAAGATCTGCCGTTGTGGCTTCAATCTTTTAATTGCGC
261 GTAAGATCTGCCGTTGTGGCTTCAATCTTTTAATTGCGC
*
58372004 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGTACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
* *
58372069 ATCCGCCATTGTGGCTTCAATATTTTTAATTGCGCTGTCGGGGAAACCATATCCGCCGTTGTGAC
66 ATCCGCCGTTGTGGCTTCAATATTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGAC
*
58372134 TTCAATCTGCTCCACTGCACCGTCGAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
131 TTCAATCTGCTCCACTGCACCGCCGAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * ** * *
58372199 TGCGCTATCGAAGAAACCAGATCCACCGTTGTGACTTCAATCTGCTCCACTACACCGCCAGGGAA
196 TGCACTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAA
58372264 GTAA
261 GTAA
58372268 AAAATCTGCT
Statistics
Matches: 516, Mismatches: 44, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
298 160 0.31
299 356 0.69
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (299 bp):
TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
ATCCGCCGTTGTGGCTTCAATATTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGAC
TTCAATCTGCTCCACTGCACCGCCGAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
TGCACTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAA
GTAAGATCTGCCGTTGTGGCTTCAATCTTTTAATTGCGC
Found at i:58374100 original size:1 final size:1
Alignment explanation
Indices: 58374094--58374166 Score: 56
Period size: 1 Copynumber: 73.0 Consensus size: 1
58374084 CCAGTAAAGG
* * * * * * * * * *
58374094 TTTTTTTTTGTTTCTTTGTTTTTGTTTTTTTGTTCTTTTTTGTTCTTTTTTTTTTCTTTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
58374159 TTTTTTTT
1 TTTTTTTT
58374167 GCATTGAATC
Statistics
Matches: 52, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (1 bp):
T
Found at i:58374116 original size:18 final size:18
Alignment explanation
Indices: 58374093--58374166 Score: 63
Period size: 18 Copynumber: 4.4 Consensus size: 18
58374083 CCCAGTAAAG
58374093 GTTTTTTTTTGTTTCTTT
1 GTTTTTTTTTGTTTCTTT
*
58374111 G----TTTTTGTTTTTTT
1 GTTTTTTTTTGTTTCTTT
*
58374125 GTTCTTTTTTG-TTCTTT
1 GTTTTTTTTTGTTTCTTT
*
58374142 -TTTTTTTCTTTTTTCTTT
1 GTTTTTTT-TTGTTTCTTT
58374160 -TTTTTTT
1 GTTTTTTT
58374167 GCATTGAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
14 13 0.28
16 6 0.13
17 7 0.15
18 20 0.43
ACGTcount: A:0.00, C:0.07, G:0.08, T:0.85
Consensus pattern (18 bp):
GTTTTTTTTTGTTTCTTT
Found at i:58374165 original size:10 final size:10
Alignment explanation
Indices: 58374097--58374165 Score: 70
Period size: 10 Copynumber: 6.9 Consensus size: 10
58374087 GTAAAGGTTT
58374097 TTTTTTGTTTC
1 TTTTTT-TTTC
* *
58374108 TTTGTTTTTG
1 TTTTTTTTTC
58374118 TTTTTTTGTTC
1 TTTTTTT-TTC
*
58374129 TTTTTTGTTC
1 TTTTTTTTTC
58374139 -TTTTTTTT-
1 TTTTTTTTTC
*
58374147 TTCTTTTTTC
1 TTTTTTTTTC
58374157 TTTTTTTTT
1 TTTTTTTTT
58374166 TGCATTGAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
9 14 0.30
10 20 0.43
11 13 0.28
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:58374165 original size:21 final size:20
Alignment explanation
Indices: 58374094--58374166 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 20
58374084 CCAGTAAAGG
*
58374094 TTTTTTTTTGTTTCTTTGTTT
1 TTTTTTTTTTTTTCTTT-TTT
* *
58374115 TTGTTTTTTTGTTCTTTTTT
1 TTTTTTTTTTTTTCTTTTTT
*
58374135 GTTCTTTTTTTTTTCTTTTTT
1 -TTTTTTTTTTTTTCTTTTTT
58374156 CTTTTTTTTTT
1 -TTTTTTTTTT
58374167 GCATTGAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 3 0.07
21 41 0.93
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (20 bp):
TTTTTTTTTTTTTCTTTTTT
Found at i:58374167 original size:32 final size:32
Alignment explanation
Indices: 58374093--58374165 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
58374083 CCCAGTAAAG
58374093 GTTTTTTTTTGTTTCTTTGTTTTTGTTTTTTT
1 GTTTTTTTTTGTTTCTTTGTTTTTGTTTTTTT
* *
58374125 GTTCTTTTTTG-TTCTTT-TTTTTTTCTTTTTT
1 GTTTTTTTTTGTTTCTTTGTTTTTGT-TTTTTT
*
58374156 CTTTTTTTTT
1 GTTTTTTTTT
58374166 TGCATTGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 6 0.17
31 20 0.56
32 10 0.28
ACGTcount: A:0.00, C:0.07, G:0.08, T:0.85
Consensus pattern (32 bp):
GTTTTTTTTTGTTTCTTTGTTTTTGTTTTTTT
Found at i:58380236 original size:20 final size:21
Alignment explanation
Indices: 58380213--58380251 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
58380203 AAGTACAATG
*
58380213 AATATAATATAA-TAATAACT
1 AATATAATAAAATTAATAACT
58380233 AATATAATAAAATTAATAA
1 AATATAATAAAATTAATAA
58380252 TATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
AATATAATAAAATTAATAACT
Found at i:58385025 original size:27 final size:24
Alignment explanation
Indices: 58385006--58385052 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
58384996 AATCAAATTT
58385006 AATAAAAATAA-ATAACAAATAAAA
1 AATAAAAATAATA-AACAAATAAAA
58385030 AATAAAAATAATAAACAAA-AAAA
1 AATAAAAATAATAAACAAATAAAA
58385053 GAGACTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.18
24 17 0.77
25 1 0.05
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (24 bp):
AATAAAAATAATAAACAAATAAAA
Found at i:58387405 original size:25 final size:26
Alignment explanation
Indices: 58387363--58387413 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
58387353 AGACCAAAAA
58387363 CGCCACTAAAAATCAAGCATTAGCGG
1 CGCCACTAAAAATCAAGCATTAGCGG
*
58387389 CGCCGCTAAAAAT-AAGCATTAGCGG
1 CGCCACTAAAAATCAAGCATTAGCGG
58387414 TGTTTTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (26 bp):
CGCCACTAAAAATCAAGCATTAGCGG
Found at i:58387539 original size:41 final size:41
Alignment explanation
Indices: 58387477--58387673 Score: 252
Period size: 41 Copynumber: 4.8 Consensus size: 41
58387467 GTTTTTGGGA
58387477 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGG
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGG
* * * *
58387518 CCTTTAGCGGCGCTCTAGAAAAAGCGCCGCTAATGCTCTGG
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGG
* * ***
58387559 CCTTTAGCAGCGTTTTTGAAAAAGCGCTGCTAATGCTCTTT
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGG
* * * *
58387600 CCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTCGAG
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGG
* *
58387641 -CATTAGCGGCGTTTTTGAAAAAGTGCCGCTAAT
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
58387674 AATAATAAAA
Statistics
Matches: 133, Mismatches: 23, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
40 29 0.22
41 104 0.78
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGG
Found at i:58388720 original size:33 final size:33
Alignment explanation
Indices: 58388670--58388741 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
58388660 TTAAATAATA
* **
58388670 TTTAGGGGTTAGAGATTCAGGGTTGGGTTAGGG
1 TTTAGGGATTAGAGATTCAGGGTCAGGTTAGGG
* *
58388703 TTTAGGGATTAGGGATTCAGGGTCAGGTTTGGG
1 TTTAGGGATTAGAGATTCAGGGTCAGGTTAGGG
58388736 TTTAGG
1 TTTAGG
58388742 ATTTAGATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.04, G:0.43, T:0.35
Consensus pattern (33 bp):
TTTAGGGATTAGAGATTCAGGGTCAGGTTAGGG
Found at i:58388758 original size:115 final size:116
Alignment explanation
Indices: 58388626--58388900 Score: 342
Period size: 115 Copynumber: 2.4 Consensus size: 116
58388616 GTCAGGTTAT
*
58388626 GGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATATTTAGGGGTTAGAGATTCAGG
1 GGTTTAGATTAATTAGTGT-TTTTAATTTATATATTAAATAAGATTTAGGGGTTAGAGATTCAGG
* * * * *
58388691 GTT-GGGTTAG-GGTTTAGGGATTAGGGATTCAGGGTC-AGGTTTGGGTTT-A
65 GTTAGAGTTAGTGATTTAAGGATTAGAGATTCAGGGTCGA-GTTAGGGTTTAA
* * * **
58388740 GGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGGGTTTGG
1 GG-TTTAGATTAATTAGTG-TTTTTAATTTATATATTAAATAAGATTTAGGGGTTAGAGATTCAG
* *
58388805 GGTTAAGAGTTAGTGATTTAAGGTTTAGAGATTCGGGGTCGAGTTAGGGTTTAA
64 GGTT-AGAGTTAGTGATTTAAGGATTAGAGATTCAGGGTCGAGTTAGGGTTTAA
* *
58388859 GGTTTAGATTAATTAGTATTTTTAATTTATATACTAAATAAG
1 GGTTTAGATTAATTAGTGTTTTTAATTTATATATTAAATAAG
58388901 TTCTTATATA
Statistics
Matches: 139, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
114 2 0.01
115 58 0.42
116 1 0.01
117 29 0.21
118 45 0.32
119 4 0.03
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.42
Consensus pattern (116 bp):
GGTTTAGATTAATTAGTGTTTTTAATTTATATATTAAATAAGATTTAGGGGTTAGAGATTCAGGG
TTAGAGTTAGTGATTTAAGGATTAGAGATTCAGGGTCGAGTTAGGGTTTAA
Found at i:58389930 original size:16 final size:15
Alignment explanation
Indices: 58389909--58389941 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
58389899 CGCCATTTAT
*
58389909 AAAT-TTTCCCCCTG
1 AAATATTTCCCCCTA
58389923 AAATATTTCCCCCTA
1 AAATATTTCCCCCTA
58389938 AAAT
1 AAAT
58389942 CCCTAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.33
Consensus pattern (15 bp):
AAATATTTCCCCCTA
Found at i:58393791 original size:43 final size:43
Alignment explanation
Indices: 58393743--58394051 Score: 322
Period size: 43 Copynumber: 7.3 Consensus size: 43
58393733 ATGGCACTTT
* * **
58393743 TAGCGGTGTTTGTGAAAAAAGCGCCGCTAAAAGTTATGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
* * * * *
58393786 TAGCGGCGTTCGTGAGAGAAGCGTCGTTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
* ** *
58393829 TAGCAGCGTTTGTGGGAAAAGCGACGCTAAAGGT-C-GATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
* * ** **
58393870 TAGCGGCGTTTGTGCGAAAAA-TGCTACTAAAGGTTTTGATCTA
1 TAGCGGCGTTTGTG-AAAAAAGCGCCGCTAAAGGTCCTGATCTA
** *
58393913 TAGCGGCGTTTGT-ATAAAAAGCATCGCTAAAGGTCCTTATCTA
1 TAGCGGCGTTTGTGA-AAAAAGCGCCGCTAAAGGTCCTGATCTA
**
58393956 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
58393999 TAGCGGCGTTTGTG-AGAAAGCGCCGCTAAAGATCCTGATCTT
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
58394041 TAGCGGCGTTT
1 TAGCGGCGTTT
58394052 TAGCGACGCT
Statistics
Matches: 220, Mismatches: 40, Indels: 13
0.81 0.15 0.05
Matches are distributed among these distances:
41 28 0.13
42 46 0.21
43 146 0.66
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:58393969 original size:127 final size:129
Alignment explanation
Indices: 58393743--58394017 Score: 369
Period size: 127 Copynumber: 2.1 Consensus size: 129
58393733 ATGGCACTTT
* * ** * *
58393743 TAGCGGTGTTTGTGA-AAAAAGCGCCGCTAAAAGTTATGATCTATAGCGGCGTTCGTGAGAGAAG
1 TAGCGGCGTTTGTGAGAAAAA-TGCTACTAAAAGTTATGATCTATAGCGGCGTTCGTGAAAAAAG
* *
58393807 CGTCGTTAAAGGTCCTGATCTATAGCAGCGTTTGTGGGAAAAGCGACGCTAAAGGT-C-GATCTA
65 CATCGCTAAAGGTCCTGATCTATAGCAGCGTTTGTGGGAAAAGCGACGCTAAAGGTCCTGATCTA
* * * *
58393870 TAGCGGCGTTTGTGCGAAAAATGCTACTAAAGGTTTTGATCTATAGCGGCGTTTGT-ATAAAAAG
1 TAGCGGCGTTTGTGAGAAAAATGCTACTAAAAGTTATGATCTATAGCGGCGTTCGTGA-AAAAAG
* * *
58393934 CATCGCTAAAGGTCCTTATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
65 CATCGCTAAAGGTCCTGATCTATAGCAGCGTTTGTGGGAAAAGCGACGCTAAAGGTCCTGATCTA
58393999 TAGCGGCGTTTGTGAGAAA
1 TAGCGGCGTTTGTGAGAAA
58394018 GCGCCGCTAA
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
126 1 0.01
127 97 0.76
128 6 0.05
129 24 0.19
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (129 bp):
TAGCGGCGTTTGTGAGAAAAATGCTACTAAAAGTTATGATCTATAGCGGCGTTCGTGAAAAAAGC
ATCGCTAAAGGTCCTGATCTATAGCAGCGTTTGTGGGAAAAGCGACGCTAAAGGTCCTGATCTA
Found at i:58401625 original size:20 final size:19
Alignment explanation
Indices: 58401605--58401653 Score: 82
Period size: 18 Copynumber: 2.6 Consensus size: 19
58401595 GATGAATTAT
58401605 TTTTTTTTTCCAATCAATA
1 TTTTTTTTTCCAATCAATA
58401624 -TTTTTTTTCCAATCAATA
1 TTTTTTTTTCCAATCAATA
58401642 TATTTTTTTTCC
1 T-TTTTTTTTCC
58401654 CTTTTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.64
20 10 0.36
ACGTcount: A:0.22, C:0.16, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTTTTTCCAATCAATA
Found at i:58413130 original size:110 final size:110
Alignment explanation
Indices: 58412937--58413156 Score: 440
Period size: 110 Copynumber: 2.0 Consensus size: 110
58412927 TCTGTTCTGC
58412937 TGATTCACCAAGTGAGAGGATAGACATAATTGATGTTGTTTCCAAGCTTTGTTCTATTAGATGCA
1 TGATTCACCAAGTGAGAGGATAGACATAATTGATGTTGTTTCCAAGCTTTGTTCTATTAGATGCA
58413002 AGCTTCTTACCCAACGTTATATGATGCTAAATCCGCAGGTATATA
66 AGCTTCTTACCCAACGTTATATGATGCTAAATCCGCAGGTATATA
58413047 TGATTCACCAAGTGAGAGGATAGACATAATTGATGTTGTTTCCAAGCTTTGTTCTATTAGATGCA
1 TGATTCACCAAGTGAGAGGATAGACATAATTGATGTTGTTTCCAAGCTTTGTTCTATTAGATGCA
58413112 AGCTTCTTACCCAACGTTATATGATGCTAAATCCGCAGGTATATA
66 AGCTTCTTACCCAACGTTATATGATGCTAAATCCGCAGGTATATA
58413157 ATAATGTCTT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (110 bp):
TGATTCACCAAGTGAGAGGATAGACATAATTGATGTTGTTTCCAAGCTTTGTTCTATTAGATGCA
AGCTTCTTACCCAACGTTATATGATGCTAAATCCGCAGGTATATA
Found at i:58414623 original size:74 final size:74
Alignment explanation
Indices: 58414544--58414698 Score: 296
Period size: 74 Copynumber: 2.1 Consensus size: 74
58414534 CAAAAACAGA
58414544 GATGCTTTAAAATTAGAAAAAAAACTTTTTATGGTATTCATATATTTATTTCCTATCTTTATAGA
1 GATGCTTTAAAATTAGAAAAAAAACTTTTTATGGTATTCATATATTTATTTCCTATCTTTATAGA
58414609 AATATTTCT
66 AATATTTCT
58414618 GATGCTTTAAAATTAGAAAAAAAACTTTTTATGGTATTCATATATTTATTTCCTATCTTTATAGA
1 GATGCTTTAAAATTAGAAAAAAAACTTTTTATGGTATTCATATATTTATTTCCTATCTTTATAGA
58414683 AATATTTCT
66 AATATTTCT
58414692 -AT-CTTTA
1 GATGCTTTA
58414699 TTTCCTAAGA
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
72 5 0.06
73 2 0.02
74 74 0.91
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (74 bp):
GATGCTTTAAAATTAGAAAAAAAACTTTTTATGGTATTCATATATTTATTTCCTATCTTTATAGA
AATATTTCT
Found at i:58422187 original size:21 final size:21
Alignment explanation
Indices: 58422161--58422203 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
58422151 ACAATATATA
*
58422161 TAATGGTTTTGCCTTTTAACT
1 TAATGGTTTTGACTTTTAACT
*
58422182 TAATGGTTTTGATTTTTAACT
1 TAATGGTTTTGACTTTTAACT
58422203 T
1 T
58422204 TAGAAAGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.09, G:0.14, T:0.56
Consensus pattern (21 bp):
TAATGGTTTTGACTTTTAACT
Found at i:58427807 original size:30 final size:31
Alignment explanation
Indices: 58427773--58427830 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
58427763 GGAATGTAAT
58427773 TTGGGACTAAATAGAAGAAA-AAG-GAAACAA
1 TTGGG-CTAAATAGAAGAAAGAAGCGAAACAA
* *
58427803 TTGGGCTGAATTGAAGAAAGAAGCGAAA
1 TTGGGCTAAATAGAAGAAAGAAGCGAAA
58427831 AAGGAGGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.50
30 8 0.33
31 4 0.17
ACGTcount: A:0.50, C:0.07, G:0.28, T:0.16
Consensus pattern (31 bp):
TTGGGCTAAATAGAAGAAAGAAGCGAAACAA
Found at i:58434815 original size:22 final size:21
Alignment explanation
Indices: 58434790--58434831 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
58434780 AAAAAAACAT
*
58434790 TTTAATTTTCCTATTATTATTA
1 TTTAATTTTACTATT-TTATTA
*
58434812 TTTATTTTTACTATTTTATT
1 TTTAATTTTACTATTTTATT
58434832 TTTGCAGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTAATTTTACTATTTTATTA
Found at i:58462093 original size:18 final size:18
Alignment explanation
Indices: 58462070--58462158 Score: 124
Period size: 18 Copynumber: 4.9 Consensus size: 18
58462060 CGTTTACGGT
58462070 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
* *
58462088 ACTATTCACGTATACGGT
1 ACTATTCACGTATACAGC
*
58462106 ACTATTTACGTATACAGC
1 ACTATTCACGTATACAGC
* *
58462124 ACTATTCACGTATACGGT
1 ACTATTCACGTATACAGC
*
58462142 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
58462159 TAGTTGGGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:58462111 original size:36 final size:36
Alignment explanation
Indices: 58462064--58462158 Score: 172
Period size: 36 Copynumber: 2.6 Consensus size: 36
58462054 TACGACCGTT
58462064 TACGGTACTATTCACGTATACAGCACTATTCACGTA
1 TACGGTACTATTCACGTATACAGCACTATTCACGTA
*
58462100 TACGGTACTATTTACGTATACAGCACTATTCACGTA
1 TACGGTACTATTCACGTATACAGCACTATTCACGTA
*
58462136 TACGGTACTGTTCACGTATACAG
1 TACGGTACTATTCACGTATACAG
58462159 TAGTTGGGAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACAGCACTATTCACGTA
Found at i:58467651 original size:22 final size:20
Alignment explanation
Indices: 58467606--58467652 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
58467596 TTAATTAACT
* *
58467606 TATTTTCAGCAAAAGTTTCT
1 TATTTTCAGAAAAAGTTTCA
58467626 TATTTTCAGAAAAATGGTTTCA
1 TATTTTCAGAAAAA--GTTTCA
58467648 TATTT
1 TATTT
58467653 AATACATGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
22 10 0.43
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (20 bp):
TATTTTCAGAAAAAGTTTCA
Found at i:58470433 original size:24 final size:25
Alignment explanation
Indices: 58470371--58470433 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 25
58470361 AATAACATGT
58470371 TAAATTTGAAAACAA-AAGTATATAA
1 TAAATTT-AAAACAATAAGTATATAA
** *
58470396 TGGATTT-AAA-AATAA-TGTATAA
1 TAAATTTAAAACAATAAGTATATAA
58470418 TAAATTTAAAACAATA
1 TAAATTTAAAACAATA
58470434 TTATTTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
22 13 0.43
23 8 0.27
24 4 0.13
25 5 0.17
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (25 bp):
TAAATTTAAAACAATAAGTATATAA
Found at i:58470571 original size:18 final size:19
Alignment explanation
Indices: 58470535--58470571 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
58470525 GTTAAAATTG
58470535 AAACGAAATTAAAAGAAAA
1 AAACGAAATTAAAAGAAAA
*
58470554 AAACGAAA-TAAAATAAAA
1 AAACGAAATTAAAAGAAAA
58470572 TAATGGGACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (19 bp):
AAACGAAATTAAAAGAAAA
Found at i:58475640 original size:29 final size:29
Alignment explanation
Indices: 58475607--58475704 Score: 74
Period size: 32 Copynumber: 3.2 Consensus size: 29
58475597 TAAGAACATG
58475607 TCAAAGTTAATTATATACCATCTTTAACA
1 TCAAAGTTAATTATATACCATCTTTAACA
* * **
58475636 TCAAA-TTCAA-CATCATCCAACCACCTAGATACA
1 TCAAAGTT-AATTAT-AT---ACCATCTTTA-ACA
58475669 TGCCAAAGTTAATTATATACCATCTTTAACA
1 T--CAAAGTTAATTATATACCATCTTTAACA
58475700 TCAAA
1 TCAAA
58475705 TTCAACATCA
Statistics
Matches: 51, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
28 4 0.08
29 13 0.25
31 4 0.08
32 14 0.27
33 4 0.08
35 8 0.16
36 4 0.08
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.31
Consensus pattern (29 bp):
TCAAAGTTAATTATATACCATCTTTAACA
Found at i:58475703 original size:64 final size:64
Alignment explanation
Indices: 58475602--58475742 Score: 266
Period size: 64 Copynumber: 2.2 Consensus size: 64
58475592 ACACATAAGA
*
58475602 ACATGTCAAAGTTAATTATATACCATCTTTAACATCAAATTCAACATCATCCAACCACCTAGAT
1 ACATGCCAAAGTTAATTATATACCATCTTTAACATCAAATTCAACATCATCCAACCACCTAGAT
58475666 ACATGCCAAAGTTAATTATATACCATCTTTAACATCAAATTCAACATCATCCAACCACCTAGAT
1 ACATGCCAAAGTTAATTATATACCATCTTTAACATCAAATTCAACATCATCCAACCACCTAGAT
58475730 ACATGCC-AAGTTA
1 ACATGCCAAAGTTA
58475743 TATAAAAAAA
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
63 6 0.08
64 70 0.92
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.28
Consensus pattern (64 bp):
ACATGCCAAAGTTAATTATATACCATCTTTAACATCAAATTCAACATCATCCAACCACCTAGAT
Found at i:58484695 original size:20 final size:22
Alignment explanation
Indices: 58484656--58484695 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
58484646 AGTGAAGGGC
*
58484656 TAATTGTACCTGCTACAACCCA
1 TAATTGTACCTGCTAAAACCCA
58484678 TAATTG-ACC-GCTAAAACC
1 TAATTGTACCTGCTAAAACC
58484696 GAGCATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (22 bp):
TAATTGTACCTGCTAAAACCCA
Found at i:58486793 original size:20 final size:20
Alignment explanation
Indices: 58486768--58486805 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
58486758 CGGTTTTAGC
58486768 CTTCTGGTAAGCTACTCTTT
1 CTTCTGGTAAGCTACTCTTT
*
58486788 CTTCTGTTAAGCTACTCT
1 CTTCTGGTAAGCTACTCT
58486806 ATTGATGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (20 bp):
CTTCTGGTAAGCTACTCTTT
Found at i:58488526 original size:20 final size:21
Alignment explanation
Indices: 58488488--58488526 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
58488478 TTAAATTCCC
* *
58488488 AAAAGATAAATACATTTAATT
1 AAAAGATAAATAAAATTAATT
58488509 AAAA-ATAAATAAAATTAA
1 AAAAGATAAATAAAATTAA
58488527 ATCCTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAAGATAAATAAAATTAATT
Found at i:58488571 original size:15 final size:14
Alignment explanation
Indices: 58488550--58488585 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
58488540 ATAATCCTTA
*
58488550 ATAATTATCTTAAT
1 ATAATTATCCTAAT
58488564 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
58488579 ATAATTA
1 ATAATTA
58488586 AAATAGAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:58489295 original size:20 final size:20
Alignment explanation
Indices: 58489270--58489313 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
58489260 CTGTATTATT
* *
58489270 CATATTGCCTTAGTTCTTTA
1 CATATTACCATAGTTCTTTA
58489290 CATATTACCATAGTTCTTTA
1 CATATTACCATAGTTCTTTA
58489310 CATA
1 CATA
58489314 ATATTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.45
Consensus pattern (20 bp):
CATATTACCATAGTTCTTTA
Found at i:58496233 original size:27 final size:27
Alignment explanation
Indices: 58496201--58496260 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
58496191 TGCCTCATCA
* *
58496201 ACATACCTGACATCAATCAACGAACTC
1 ACATACATAACATCAATCAACGAACTC
58496228 ACATACATAACATCAATCAACGAACTC
1 ACATACATAACATCAATCAACGAACTC
58496255 ACATAC
1 ACATAC
58496261 TGTTGATCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.45, C:0.32, G:0.05, T:0.18
Consensus pattern (27 bp):
ACATACATAACATCAATCAACGAACTC
Found at i:58504360 original size:91 final size:91
Alignment explanation
Indices: 58504205--58504380 Score: 334
Period size: 91 Copynumber: 1.9 Consensus size: 91
58504195 CTTGCAGGTT
58504205 AAGGAAGTAGGACATTTGTCCTAAATCAGACATCTCAAACTTTTTCTCCATTTTGCCTTTGAAAC
1 AAGGAAGTAGGACATTTGTCCTAAATCAGACATCTCAAACTTTTTCTCCATTTTGCCTTTGAAAC
58504270 CAGCCAGCAATTCATAACTTGCCTGG
66 CAGCCAGCAATTCATAACTTGCCTGG
* *
58504296 AAGGAAGTAGGACATTTGTCCTAAATCAGACATCTTAAACTTTTTCTCCATTTTTCCTTTGAAAC
1 AAGGAAGTAGGACATTTGTCCTAAATCAGACATCTCAAACTTTTTCTCCATTTTGCCTTTGAAAC
58504361 CAGCCAGCAATTCATAACTT
66 CAGCCAGCAATTCATAACTT
58504381 TCTTCTGTCA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (91 bp):
AAGGAAGTAGGACATTTGTCCTAAATCAGACATCTCAAACTTTTTCTCCATTTTGCCTTTGAAAC
CAGCCAGCAATTCATAACTTGCCTGG
Found at i:58507950 original size:27 final size:27
Alignment explanation
Indices: 58507920--58507976 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
58507910 TTATACACTA
58507920 TATGTAAACATAAATCGATACTATATC
1 TATGTAAACATAAATCGATACTATATC
58507947 TATGTAAACATAAATCGATACTATATC
1 TATGTAAACATAAATCGATACTATATC
58507974 TAT
1 TAT
58507977 AATTATGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (27 bp):
TATGTAAACATAAATCGATACTATATC
Found at i:58508658 original size:20 final size:20
Alignment explanation
Indices: 58508633--58508670 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
58508623 TGGTTTTAGC
*
58508633 CTTCTGGTAAGCTACTCTTT
1 CTTCTGCTAAGCTACTCTTT
58508653 CTTCTGCTAAGCTACTCT
1 CTTCTGCTAAGCTACTCT
58508671 ATTGATGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.29, G:0.13, T:0.42
Consensus pattern (20 bp):
CTTCTGCTAAGCTACTCTTT
Found at i:58514835 original size:22 final size:21
Alignment explanation
Indices: 58514799--58514844 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
58514789 GTATTGTTAA
58514799 ATTTTTAAAAATATATATAAAT
1 ATTTTTAAAAATATAT-TAAAT
* * *
58514821 ATTTTTAATACTATATTATAT
1 ATTTTTAAAAATATATTAAAT
58514842 ATT
1 ATT
58514845 AGAAATAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTTTAAAAATATATTAAAT
Found at i:58524969 original size:22 final size:22
Alignment explanation
Indices: 58524941--58524989 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
58524931 TAGAAATCAT
* *
58524941 CAAAAAGAATTTATTCAAAAA-A
1 CAAAAAGAAATCA-TCAAAAAGA
58524963 CAAAAAGAAATCATCAAAAAGA
1 CAAAAAGAAATCATCAAAAAGA
58524985 CAAAA
1 CAAAA
58524990 CATGCCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.67, C:0.12, G:0.06, T:0.14
Consensus pattern (22 bp):
CAAAAAGAAATCATCAAAAAGA
Found at i:58526201 original size:17 final size:18
Alignment explanation
Indices: 58526175--58526213 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
58526165 ATTTTTGTGG
58526175 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
58526191 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
58526209 AAAAT
1 AAAAT
58526214 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:58526390 original size:15 final size:15
Alignment explanation
Indices: 58526370--58526400 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
58526360 AAAACAATAT
58526370 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
58526385 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
58526400 A
1 A
58526401 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:58529955 original size:75 final size:74
Alignment explanation
Indices: 58529866--58530005 Score: 271
Period size: 75 Copynumber: 1.9 Consensus size: 74
58529856 TAGTTTTGTT
58529866 CTTGATTTATTCTTGATGACCTCACATGATAGATTCTGGTTTGTTAAGTTTTAAGTTAGATTCTT
1 CTTGATTTATTCTTGATGACCTCACATGATAGATTCTGGTTTGTTAAGTTTTAAGTTAGA-TCTT
58529931 GATGACCTCA
65 GATGACCTCA
58529941 CTTGATTTATTCTTGATGACCTCACATGATAGATTCTGGTTTGTTAAGTTTTAAGTTAGATCTTG
1 CTTGATTTATTCTTGATGACCTCACATGATAGATTCTGGTTTGTTAAGTTTTAAGTTAGATCTTG
58530006 TTTTATGGTT
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
74 5 0.08
75 60 0.92
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.45
Consensus pattern (74 bp):
CTTGATTTATTCTTGATGACCTCACATGATAGATTCTGGTTTGTTAAGTTTTAAGTTAGATCTTG
ATGACCTCA
Found at i:58529976 original size:24 final size:24
Alignment explanation
Indices: 58529922--58529977 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
58529912 AGTTTTAAGT
*
58529922 TAGATTCTTGATGACCTCACTTGA
1 TAGATTCTTGATGACCTCACATGA
**
58529946 TTTATTCTTGATGACCTCACATGA
1 TAGATTCTTGATGACCTCACATGA
58529970 TAGATTCT
1 TAGATTCT
58529978 GGTTTGTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (24 bp):
TAGATTCTTGATGACCTCACATGA
Found at i:58539528 original size:26 final size:23
Alignment explanation
Indices: 58539480--58539527 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
58539470 CATTATATAT
58539480 AATTATGATAATAATAAATAAAA
1 AATTATGATAATAATAAATAAAA
58539503 AATTATGATAATAATAAATAAAA
1 AATTATGATAATAATAAATAAAA
58539526 AA
1 AA
58539528 AGAACATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (23 bp):
AATTATGATAATAATAAATAAAA
Found at i:58543012 original size:21 final size:23
Alignment explanation
Indices: 58542974--58543021 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
58542964 TAGAAATAAT
* *
58542974 CAAAAAGAATTTATTCAAAAA-A
1 CAAAAAGAAATCATTCAAAAAGA
58542996 CAAAAAGAAATCA-TCAAAAAGA
1 CAAAAAGAAATCATTCAAAAAGA
58543018 CAAA
1 CAAA
58543022 CATGTCTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.67, C:0.12, G:0.06, T:0.15
Consensus pattern (23 bp):
CAAAAAGAAATCATTCAAAAAGA
Found at i:58557839 original size:20 final size:21
Alignment explanation
Indices: 58557816--58557855 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
58557806 TAAATTCAAC
58557816 ATAA-TAATTTTAA-ATAATAT
1 ATAATTAA-TTTAATATAATAT
58557836 ATAATTAATTTAATATAATA
1 ATAATTAATTTAATATAATA
58557856 GATTATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAATTAATTTAATATAATAT
Found at i:58570512 original size:3 final size:3
Alignment explanation
Indices: 58570494--58570557 Score: 55
Period size: 3 Copynumber: 21.7 Consensus size: 3
58570484 TATATGTATC
*
58570494 TAT TCAT TAT TA- TAT TAT TA- TAT TA- TAT TA- TAT TAT TAGT TTT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
*
58570537 GTAT TAT TAT TAT CAT TAT TA
1 -TAT TAT TAT TAT TAT TAT TA
58570558 GTATCTCATT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
2 8 0.16
3 35 0.70
4 7 0.14
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:58570512 original size:8 final size:8
Alignment explanation
Indices: 58570499--58570557 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 8
58570489 GTATCTATTC
58570499 ATTATTAT
1 ATTATTAT
58570507 ATTATTAT
1 ATTATTAT
58570515 ATTATATTAT
1 A-T-TATTAT
58570525 ATTATTAGT
1 ATTATTA-T
58570534 -TT-TGTATT
1 ATTAT-TA-T
58570542 ATTATTAT
1 ATTATTAT
58570550 CATTATTA
1 -ATTATTA
58570558 GTATCTCATT
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
7 1 0.02
8 20 0.47
9 14 0.33
10 8 0.19
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (8 bp):
ATTATTAT
Found at i:58570724 original size:23 final size:25
Alignment explanation
Indices: 58570680--58570729 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 25
58570670 ATATACATAT
* *
58570680 ATTTTTAATATATATATCAATATAC
1 ATTTTTAATATATATATAAATACAC
*
58570705 ATTTTTAAT-T-TTTATAAATACAC
1 ATTTTTAATATATATATAAATACAC
58570728 AT
1 AT
58570730 ATATATGCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 12 0.55
24 1 0.05
25 9 0.41
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTTTTAATATATATATAAATACAC
Found at i:58575204 original size:12 final size:12
Alignment explanation
Indices: 58575187--58575232 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
58575177 TCACTTGAAA
*
58575187 AAAAAAGAAACT
1 AAAAAAGAAACG
*
58575199 AAAAAAGAAAAG
1 AAAAAAGAAACG
* *
58575211 AAAATAGGAACG
1 AAAAAAGAAACG
58575223 AAAAAAGAAA
1 AAAAAAGAAA
58575233 AAGGAGAGGC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.76, C:0.04, G:0.15, T:0.04
Consensus pattern (12 bp):
AAAAAAGAAACG
Found at i:58575226 original size:24 final size:22
Alignment explanation
Indices: 58575183--58575234 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 22
58575173 TACTTCACTT
*
58575183 GAAAAAAAAAGAAACTAAAAAA
1 GAAAAAAAAAGAAACGAAAAAA
*
58575205 GAAAAGAAAATAGGAACGAAAAAA
1 GAAAA-AAAA-AGAAACGAAAAAA
58575229 GAAAAA
1 GAAAAA
58575235 GGAGAGGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.19
23 5 0.19
24 16 0.62
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (22 bp):
GAAAAAAAAAGAAACGAAAAAA
Found at i:58575576 original size:45 final size:45
Alignment explanation
Indices: 58575514--58575600 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
58575504 TTTATTCATT
* *
58575514 TTTTGTATTTTGACAAAATACGTCATCTTGATTAATTTATTCTCA
1 TTTTGTATTTAGACAAAATACGTCATCTTGATTAATTAATTCTCA
** *
58575559 TTTTGTATTCTAG-CAAAATTTGTTATCTTGATTAATTAATTC
1 TTTTGTATT-TAGACAAAATACGTCATCTTGATTAATTAATTC
58575601 ATTTCAAGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 34 0.94
46 2 0.06
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (45 bp):
TTTTGTATTTAGACAAAATACGTCATCTTGATTAATTAATTCTCA
Found at i:58576249 original size:44 final size:44
Alignment explanation
Indices: 58576201--58576446 Score: 216
Period size: 44 Copynumber: 5.6 Consensus size: 44
58576191 CATTAAGCCC
* * * * * *
58576201 TATCTCCTTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATCT
* * *
58576245 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-A--GCACCAGCCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTA-GA-TCT
* * * *
58576288 TATCTCCCTAAGCAGCAGTAGAGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATCT
* * *
58576332 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-A--GCACCAGCCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTA-GA-TCT
* * * * *
58576375 TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATCT
*
58576419 TATCTCCTTAAGCAGTAGTGGAGCAGAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGAT
58576447 TGAAAACCAA
Statistics
Matches: 155, Mismatches: 37, Indels: 20
0.73 0.17 0.09
Matches are distributed among these distances:
41 4 0.03
42 2 0.01
43 61 0.39
44 82 0.53
45 2 0.01
46 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATCT
Found at i:58576295 original size:43 final size:44
Alignment explanation
Indices: 58576243--58576451 Score: 187
Period size: 43 Copynumber: 4.8 Consensus size: 44
58576233 GATTGTAGAT
58576243 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCA-CCAG-C
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAG-ATCCAGAC
* * * * ** *
58576286 CTTATCTCCCTAAGCAGCAGTAGAGTAGGTCG-AAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGA-TCCAGAC
58576330 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCA-CCAG-C
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAG-ATCCAGAC
* * * * * ** *
58576373 CTTATCTCCCTGAGCAGCAGCGGAGTAGGTCG-AAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGA-TCCAGAC
* *
58576417 CTTATCTCCTTAAGCAGTAGTGGAGCAGATTGAAA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
58576452 ACCAAAGATC
Statistics
Matches: 128, Mismatches: 29, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
41 2 0.02
42 6 0.05
43 59 0.46
44 55 0.43
45 5 0.04
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGATCCAGAC
Found at i:58576302 original size:87 final size:87
Alignment explanation
Indices: 58576196--58576451 Score: 431
Period size: 87 Copynumber: 2.9 Consensus size: 87
58576186 GAAGCCATTA
* * * *
58576196 AGCCCTATCTCCTTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGT
58576261 AGTGGAGCAGATCGAAAGCACC
66 AGTGGAGCAGATCGAAAGCACC
* **
58576283 AGCCTTATCTCCCTAAGCAGCAGTAGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGT
58576348 AGTGGAGCAGATCGAAAGCACC
66 AGTGGAGCAGATCGAAAGCACC
*
58576370 AGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCTTAAGCAGT
1 AGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGT
*
58576435 AGTGGAGCAGATTGAAA
66 AGTGGAGCAGATCGAAA
58576452 ACCAAAGATC
Statistics
Matches: 157, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 157 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (87 bp):
AGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAAGCACC
Found at i:58576461 original size:44 final size:42
Alignment explanation
Indices: 58576239--58576683 Score: 239
Period size: 44 Copynumber: 10.4 Consensus size: 42
58576229 TGAAGATTGT
58576239 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA--ACC
* * * * * ***
58576283 AG-CCTTATCTCCCTAAGCAGCAGTAGAGTAGGTCGAAGATTGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-A-ACC
58576326 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA--ACC
* * * * * * ***
58576370 AG-CCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-A-ACC
* *
58576413 AGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATTGAAAACC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACC
* ** * * * *
58576455 AAAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCG-TATCC
1 --AGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAAACC
* *
58576499 AG-TCTTATCTCCCTGAGAAGTAGTGGAGCAGA-CAGAAGAAACC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-G-A-AAACC
* * * * **
58576542 A-ATCATATCTCCCTGAAGTAGCAGTGGAGAAGATTAAAAACAC
1 AGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAAAC-C
* * * ***
58576585 AGATCTTATCTCTCTAA--AGTTACAATAGAGCAGATC-ATGTCC
1 AGATCTTATCTCCCTAAGCAG-T--AGTGGAGCAGATCGAAAACC
58576627 AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAACC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-G-A-AAACC
*
58576670 A-ATCCTATCTCCCT
1 AGATCTTATCTCCCT
58576684 GAAGTTGCTG
Statistics
Matches: 294, Mismatches: 80, Indels: 55
0.69 0.19 0.13
Matches are distributed among these distances:
39 2 0.01
40 23 0.08
41 26 0.09
42 11 0.04
43 103 0.35
44 113 0.38
45 16 0.05
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACC
Found at i:58576618 original size:128 final size:129
Alignment explanation
Indices: 58576435--58576697 Score: 402
Period size: 128 Copynumber: 2.0 Consensus size: 129
58576425 CTTAAGCAGT
* * * * * *
58576435 AGTGGAGCAGATTGAAAACCAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATCCA
1 AGTGGAGAAGATTGAAAAACAAAGATCTTATCTCTCTAAAGTTACAATAGAGCAGATCATATCCA
*
58576500 GTCTTATCTCCCTGAGAAGTAGTGGAGCAGACAGAAGAAACCAATCATATCTCCCTGAAGTAGC
66 GTCTTATCTCCCTAAGAAGTAGTGGAGCAGACAGAAGAAACCAATCATATCTCCCTGAAGTAGC
* *
58576564 AGTGGAGAAGATT-AAAAACACAGATCTTATCTCTCTAAAGTTACAATAGAGCAGATCATGTCCA
1 AGTGGAGAAGATTGAAAAACAAAGATCTTATCTCTCTAAAGTTACAATAGAGCAGATCATATCCA
* * *
58576628 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
66 GTCTTATCTCCCTAAGAAGTAGTGGAGCAGACAGAAGAAACCAATCATATCTCCCTGAAGTAGC
*
58576692 TGTGGA
1 AGTGGA
58576698 ACGGTAATGA
Statistics
Matches: 121, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
128 109 0.90
129 12 0.10
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (129 bp):
AGTGGAGAAGATTGAAAAACAAAGATCTTATCTCTCTAAAGTTACAATAGAGCAGATCATATCCA
GTCTTATCTCCCTAAGAAGTAGTGGAGCAGACAGAAGAAACCAATCATATCTCCCTGAAGTAGC
Found at i:58578492 original size:3 final size:3
Alignment explanation
Indices: 58578469--58578536 Score: 61
Period size: 3 Copynumber: 22.3 Consensus size: 3
58578459 CTTTTTATAT
*
58578469 TTA TCTA TTCA TTA TTA -TA TTA TTA -TA TTA -TA TTA TTA GTTT TGTA
1 TTA T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA
*
58578515 TTA TTA TTA TCA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
58578537 CTCATTTATA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
2 6 0.11
3 38 0.70
4 10 0.19
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:58578506 original size:8 final size:8
Alignment explanation
Indices: 58578409--58578499 Score: 57
Period size: 8 Copynumber: 11.1 Consensus size: 8
58578399 CCATCTGTGC
*
58578409 TTATATTG
1 TTATATTA
58578417 TTATATTA
1 TTATATTA
58578425 TTA-ATTAA
1 TTATATT-A
58578433 TCTAT-TTA
1 T-TATATTA
*
58578441 TTATCTTA
1 TTATATTA
58578449 TTTATATT-
1 -TTATATTA
*
58578457 TTCT-TT-
1 TTATATTA
58578463 TTATATTTA
1 TTATA-TTA
58578472 TCTATTCATTA
1 T-TA-T-ATTA
58578483 TTATATTA
1 TTATATTA
58578491 TTATATTA
1 TTATATTA
58578499 T
1 T
58578500 ATTATTAGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 22
0.72 0.04 0.23
Matches are distributed among these distances:
6 5 0.07
7 9 0.13
8 32 0.47
9 12 0.18
10 4 0.06
11 5 0.07
12 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (8 bp):
TTATATTA
Found at i:58578682 original size:21 final size:22
Alignment explanation
Indices: 58578633--58578682 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 22
58578623 TTATGTATTT
*
58578633 TCAATATTTTATAATTCATATA
1 TCAATATTTTACAATTCATATA
58578655 -CATATATTTT-CAATAT-ATATA
1 TCA-ATATTTTACAAT-TCATATA
58578676 TCAATAT
1 TCAATAT
58578683 ACATTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (22 bp):
TCAATATTTTACAATTCATATA
Found at i:58581140 original size:17 final size:17
Alignment explanation
Indices: 58581108--58581432 Score: 214
Period size: 17 Copynumber: 18.6 Consensus size: 17
58581098 CATGAGAATT
58581108 TTTTTAAAACAC-AAAA
1 TTTTTAAAACACGAAAA
*
58581124 ATTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* * *
58581141 TTTGTGAAACACGAGAAG
1 TTTTTAAAACACGA-AAA
*
58581159 TTTTTGAAAACATGAAAA
1 TTTTT-AAAACACGAAAA
58581177 TTTTTGAAAACACG-AAA
1 TTTTT-AAAACACGAAAA
* *
58581194 TTTTTGAAACACGACAA
1 TTTTTAAAACACGAAAA
* *
58581211 TTTTTGAAACACGATAA
1 TTTTTAAAACACGAAAA
*
58581228 TTTTGTCAAAC-C-AAATTA
1 TTTT-TAAAACACGAAA--A
*
58581246 TTTTTTAAAACACAAAAA
1 -TTTTTAAAACACGAAAA
*** *
58581264 TTTGCGAAACACGAGAA
1 TTTTTAAAACACGAAAA
*
58581281 TTGTTGAAAACACGAAAA
1 TT-TTTAAAACACGAAAA
*
58581299 TTTTTGAAACAC-AGAAA
1 TTTTTAAAACACGA-AAA
58581316 TTTTTAGAAAACACGAAAA
1 TTTTT--AAAACACGAAAA
** * *
58581335 -TTTTGGATCACCG-GAA
1 TTTTTAAAACA-CGAAAA
58581351 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
* * *
58581369 TTTTTGAAACACCAAGA
1 TTTTTAAAACACGAAAA
**
58581386 TTTTTGAAAACACGAGGA
1 TTTTT-AAAACACGAAAA
*
58581404 TTTTTGAAAACATGAAAA
1 TTTTT-AAAACACGAAAA
58581422 TTTTTGAAAAC
1 TTTTT-AAAAC
58581433 GTGGAAAGAT
Statistics
Matches: 244, Mismatches: 45, Indels: 38
0.75 0.14 0.12
Matches are distributed among these distances:
16 26 0.11
17 98 0.40
18 95 0.39
19 21 0.09
20 4 0.02
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.30
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:58581150 original size:52 final size:53
Alignment explanation
Indices: 58581093--58581432 Score: 161
Period size: 53 Copynumber: 6.5 Consensus size: 53
58581083 GTGATCCAAT
* *
58581093 TGAAACATGAGAATTTTTTTAAAACA-CAAAAATTTT-AAAACACGAAAATTTG
1 TGAAACACGAGAATTTTTTGAAAACATCAAAAATTTTGAAAACACG-AAATTTG
* * * *
58581145 TGAAACACGAGAAGTTTTTGAAAACATGAAAATTTTTGAAAACACGAAATTTT
1 TGAAACACGAGAATTTTTTGAAAACATCAAAAATTTTGAAAACACGAAATTTG
* * * * * *
58581198 TGAAACACGACAA-TTTTTG-AAACA-CGATAATTTTGTCAAAC-CAAATTATTTTT
1 TGAAACACGAGAATTTTTTGAAAACATCAAAAATTTTG-AAAACACGAA--A-TTTG
* * * ** * * *
58581251 TAAAACAC-AAAAATTTGCG-AAACA-CGAGAATTGTTGAAAACACGAAAATTTT
1 TGAAACACGAGAATTTTTTGAAAACATCAAAAATT-TTGAAAACACG-AAATTTG
* * * * * *
58581303 TGAAACAC-AGAAATTTTTAGAAAACA-CGAAAATTTTG-GATCACCGGAATTTT
1 TGAAACACGAG-AATTTTTTGAAAACATCAAAAATTTTGAAAACA-CGAAATTTG
* * * * * *
58581355 TGAAAACACGA-AAATTTTTG-AAACACCAAGATTTTTGAAAACACGAGGATTTT
1 TG-AAACACGAGAATTTTTTGAAAACATCAAAAATTTTGAAAACACGA-AATTTG
* *
58581408 TGAAAACATGA-AAATTTTTGAAAAC
1 TG-AAACACGAGAATTTTTTGAAAAC
58581433 GTGGAAAGAT
Statistics
Matches: 230, Mismatches: 39, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
50 10 0.04
51 14 0.06
52 73 0.32
53 102 0.44
54 29 0.13
55 2 0.01
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (53 bp):
TGAAACACGAGAATTTTTTGAAAACATCAAAAATTTTGAAAACACGAAATTTG
Found at i:58581180 original size:18 final size:18
Alignment explanation
Indices: 58581107--58581432 Score: 286
Period size: 18 Copynumber: 18.6 Consensus size: 18
58581097 ACATGAGAAT
*
58581107 TTTTTTAAAACAC-AAAA
1 TTTTTGAAAACACGAAAA
*
58581124 ATTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
58581141 TTTGTG-AAACACGAGAAG
1 TTTTTGAAAACACGA-AAA
*
58581159 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
58581177 TTTTTGAAAACACG-AAA
1 TTTTTGAAAACACGAAAA
*
58581194 TTTTTG-AAACACGACAA
1 TTTTTGAAAACACGAAAA
*
58581211 TTTTTG-AAACACGATAA
1 TTTTTGAAAACACGAAAA
*
58581228 -TTTTGTCAAAC-C-AAATTA
1 TTTTTG-AAAACACGAAA--A
* *
58581246 TTTTTTAAAACACAAAAA
1 TTTTTGAAAACACGAAAA
** *
58581264 TTTGCG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
58581281 TTGTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
58581299 TTTTTG-AAACAC-AGAAA
1 TTTTTGAAAACACGA-AAA
58581316 TTTTTAGAAAACACGAAAA
1 TTTTT-GAAAACACGAAAA
* ** *
58581335 TTTTGGATCAC-CG-GAA
1 TTTTTGAAAACACGAAAA
58581351 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
58581369 TTTTTG-AAACACCAAGA
1 TTTTTGAAAACACGAAAA
**
58581386 TTTTTGAAAACACGAGGA
1 TTTTTGAAAACACGAAAA
*
58581404 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
58581422 TTTTTGAAAAC
1 TTTTTGAAAAC
58581433 GTGGAAAGAT
Statistics
Matches: 251, Mismatches: 38, Indels: 39
0.77 0.12 0.12
Matches are distributed among these distances:
16 32 0.13
17 92 0.37
18 98 0.39
19 25 0.10
20 4 0.02
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:58581187 original size:70 final size:68
Alignment explanation
Indices: 58581107--58581430 Score: 278
Period size: 70 Copynumber: 4.6 Consensus size: 68
58581097 ACATGAGAAT
* * * *
58581107 TTTTTTAAAACACAAAAATTTTAAAACACGAAAATTTGTGAAACACGAGAAGTTTTTGAAAACAT
1 TTTTTGAAAACACAAAAATTTTGAAACACGAAAATTTTTGAAACACGA-AAATTTTTGAAAACA-
58581172 GAAAA
64 GAAAA
* * * * * *
58581177 TTTTTGAAAACACGAAATTTTTGAAACACGACAATTTTTGAAACACGATAATTTTGTCAAACCA-
1 TTTTTGAAAACACAAAAATTTTGAAACACGAAAATTTTTGAAACACGAAAATTTT-TGAAAACAG
*
58581241 AATTA
65 AA-AA
* * * *
58581246 TTTTTTAAAACACAAAAATTTGCGAAACACGAGAATTGTTGAAAACACGAAAATTTTTGAAACAC
1 TTTTTGAAAACACAAAAATTT-TGAAACACGAAAATTTTTG-AAACACGAAAATTTTTGAAA-AC
58581311 AG-AAA
63 AGAAAA
* * * *
58581316 TTTTTAGAAAACACGAAAATTTTGGATCACCG-GAATTTTTGAAAACACGAAAATTTTTG-AAAC
1 TTTTT-GAAAACACAAAAATTTTGAAACA-CGAAAATTTTTG-AAACACGAAAATTTTTGAAAAC
* *
58581379 ACCAAGA
63 A-GAAAA
** * *
58581386 TTTTTGAAAACACGAGGATTTTTGAAAACATGAAAATTTTTGAAA
1 TTTTTGAAAACAC-AAAAATTTTG-AAACACGAAAATTTTTGAAA
58581431 ACGTGGAAAG
Statistics
Matches: 204, Mismatches: 37, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
68 5 0.02
69 34 0.17
70 121 0.59
71 44 0.22
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (68 bp):
TTTTTGAAAACACAAAAATTTTGAAACACGAAAATTTTTGAAACACGAAAATTTTTGAAAACAGA
AAA
Found at i:58581299 original size:35 final size:35
Alignment explanation
Indices: 58581093--58581432 Score: 250
Period size: 35 Copynumber: 9.7 Consensus size: 35
58581083 GTGATCCAAT
* * *
58581093 TGAAACATGAGAATTTTTTTAAAACACAAAAATTT-
1 TGAAACACGAGAA-TTTTTGAAAACACGAAAATTTG
* * * * *
58581128 TAAAACACGAAAATTTGTG-AAACACGAGAAGTTTT
1 TGAAACACGAGAATTTTTGAAAACACGA-AAATTTG
* * *
58581163 TGAAAACATGAAAATTTTTGAAAACACG-AAATTTT
1 TG-AAACACGAGAATTTTTGAAAACACGAAAATTTG
* *
58581198 TGAAACACGACAATTTTTG-AAACACGATAATTTTG
1 TGAAACACGAGAATTTTTGAAAACACGA-AAATTTG
* * * *
58581233 TCAAAC-C-AAATTATTTTTTAAAACACAAAAATTTG
1 TGAAACACGAGA--ATTTTTGAAAACACGAAAATTTG
* * *
58581268 CGAAACACGAGAATTGTTGAAAACACGAAAATTTT
1 TGAAACACGAGAATTTTTGAAAACACGAAAATTTG
58581303 TGAAACAC-AGAAATTTTTAGAAAACACGAAAATTT-
1 TGAAACACGAG-AATTTTT-GAAAACACGAAAATTTG
* * *
58581338 TGGATCACCG-GAATTTTTGAAAACACGAAAATTTT
1 TGAAACA-CGAGAATTTTTGAAAACACGAAAATTTG
* ** *
58581373 TGAAACACCA-AGATTTTTGAAAACACGAGGATTTT
1 TGAAACACGAGA-ATTTTTGAAAACACGAAAATTTG
* *
58581408 TGAAAACATGAAAATTTTTGAAAAC
1 TG-AAACACGAGAATTTTTGAAAAC
58581433 GTGGAAAGAT
Statistics
Matches: 247, Mismatches: 38, Indels: 39
0.76 0.12 0.12
Matches are distributed among these distances:
33 16 0.06
34 45 0.18
35 117 0.47
36 59 0.24
37 10 0.04
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (35 bp):
TGAAACACGAGAATTTTTGAAAACACGAAAATTTG
Found at i:58581608 original size:19 final size:18
Alignment explanation
Indices: 58581566--58581631 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 18
58581556 TTGCCTTATT
* *
58581566 TTTTTGAAAACACGAATAT
1 TTTTTG-AAACACGAAAAA
58581585 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACAC--GAAAAA
*
58581605 TTTTTGAAGACTCGAAAAA
1 TTTTTGAA-ACACGAAAAA
58581624 -TTTTGAAA
1 TTTTTGAAA
58581632 AATATATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.02
18 13 0.32
19 12 0.29
20 12 0.29
21 3 0.07
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (18 bp):
TTTTTGAAACACGAAAAA
Found at i:58581802 original size:11 final size:11
Alignment explanation
Indices: 58581786--58581835 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
58581776 TTAAAAGTAT
58581786 TTAAAATAAAA
1 TTAAAATAAAA
58581797 TTAAAATTAAAA
1 TTAAAA-TAAAA
*
58581809 TT-AAATTAAA
1 TTAAAATAAAA
*
58581819 TTAAATTAAAA
1 TTAAAATAAAA
58581830 TATAAA
1 T-TAAA
58581836 TGTCAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 6 0.18
11 16 0.48
12 11 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TTAAAATAAAA
Found at i:58581803 original size:6 final size:6
Alignment explanation
Indices: 58581786--58581835 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 6
58581776 TTAAAAGTAT
58581786 TTAAAA -TAAAA TTAAAA TTAAAA TT-AAA TT-AAA TT-AAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
58581830 TATAAA
1 T-TAAA
58581836 TGTCAAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 20 0.49
6 17 0.41
7 4 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TTAAAA
Found at i:58581985 original size:7 final size:7
Alignment explanation
Indices: 58581973--58582040 Score: 75
Period size: 7 Copynumber: 9.0 Consensus size: 7
58581963 AAATTGGAGC
58581973 CTTTTTT
1 CTTTTTT
58581980 CTTTTTTT
1 C-TTTTTT
58581988 CTTCTTTT
1 CTT-TTTT
58581996 -TTTTTCT
1 CTTTTT-T
58582003 CTTTTTCTCT
1 C-TTTT-T-T
58582013 CTTTTTT
1 CTTTTTT
58582020 CTTTTTT
1 CTTTTTT
58582027 CTTTTTT
1 CTTTTTT
58582034 CTTTTTT
1 CTTTTTT
58582041 TTCTGGCTGG
Statistics
Matches: 55, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
6 3 0.05
7 28 0.51
8 12 0.22
9 8 0.15
10 4 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
CTTTTTT
Found at i:58581987 original size:8 final size:8
Alignment explanation
Indices: 58581974--58582041 Score: 79
Period size: 8 Copynumber: 8.8 Consensus size: 8
58581964 AATTGGAGCC
58581974 TTTTTTCT
1 TTTTTTCT
58581982 TTTTTTCT
1 TTTTTTCT
*
58581990 TCTTTT-T
1 TTTTTTCT
*
58581997 TTTTCTCT
1 TTTTTTCT
*
58582005 TTTTCTCT
1 TTTTTTCT
58582013 CTTTTTTC-
1 -TTTTTTCT
58582021 TTTTTTC-
1 TTTTTTCT
58582028 TTTTTTCT
1 TTTTTTCT
58582036 TTTTTT
1 TTTTTT
58582042 TCTGGCTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
7 19 0.36
8 28 0.53
9 6 0.11
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTCT
Found at i:58582018 original size:33 final size:33
Alignment explanation
Indices: 58581973--58582041 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
58581963 AAATTGGAGC
58581973 CTTTTT-TCT-TTTTTTCTTCTTT-TTTTTTCT
1 CTTTTTCTCTCTTTTTTCTTCTTTCTTTTTTCT
*
58582003 CTTTTTCTCTCTTTTTTCTTTTTTCTTTTTTCT
1 CTTTTTCTCTCTTTTTTCTTCTTTCTTTTTTCT
*
58582036 TTTTTT
1 CTTTTT
58582042 TCTGGCTGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 6 0.18
31 3 0.09
32 12 0.35
33 13 0.38
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (33 bp):
CTTTTTCTCTCTTTTTTCTTCTTTCTTTTTTCT
Found at i:58582043 original size:23 final size:23
Alignment explanation
Indices: 58581973--58582044 Score: 92
Period size: 23 Copynumber: 3.1 Consensus size: 23
58581963 AAATTGGAGC
*
58581973 CTTTTTTCTTTTTTTCTTCTTTTT
1 CTTTTTTC-TTTTTTCTTTTTTTT
* *
58581997 -TTTTCTCTTTTTCTCTCTTTTTT
1 CTTTTTTCTTTTT-TCTTTTTTTT
58582020 CTTTTTTCTTTTTTCTTTTTTTT
1 CTTTTTTCTTTTTTCTTTTTTTT
58582043 CT
1 CT
58582045 GGCTGGGCTG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 5 0.12
23 25 0.61
24 11 0.27
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
CTTTTTTCTTTTTTCTTTTTTTT
Found at i:58582252 original size:17 final size:18
Alignment explanation
Indices: 58582230--58582270 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
58582220 TGTTGTGGCC
58582230 TTTTTTTGCTT-TTTCTT
1 TTTTTTTGCTTATTTCTT
58582247 TTTTTTTGCTTAATTTCTT
1 TTTTTTTGCTT-ATTTCTT
58582266 TTTTT
1 TTTTT
58582271 GGGCTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 11 0.50
19 11 0.50
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.80
Consensus pattern (18 bp):
TTTTTTTGCTTATTTCTT
Found at i:58582412 original size:3 final size:3
Alignment explanation
Indices: 58582406--58582459 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
58582396 TTCTTTTTTT
*
58582406 TTC TTC TTTC TTC TTC CTC TT- TTC TTC TTTC TTTC TTC TTTC TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC -TTC TTC TTC
58582454 TTC TTC
1 TTC TTC
58582460 CTTGAACCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 2 0.04
3 30 0.67
4 13 0.29
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:58582428 original size:32 final size:33
Alignment explanation
Indices: 58582392--58582458 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 33
58582382 AAATTATTTC
*
58582392 CTTTTTCTT-TTTTTTTCTTCTTTCTTCTTCCT
1 CTTTTTCTTCTTTCTTTCTTCTTTCTTCTTCCT
*
58582424 C-TTTTCTTCTTTCTTTCTTCTTTCTTCTTCTT
1 CTTTTTCTTCTTTCTTTCTTCTTTCTTCTTCCT
58582456 CTT
1 CTT
58582459 CCTTGAACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 7 0.23
32 23 0.74
33 1 0.03
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (33 bp):
CTTTTTCTTCTTTCTTTCTTCTTTCTTCTTCCT
Found at i:58582838 original size:30 final size:28
Alignment explanation
Indices: 58582799--58582915 Score: 108
Period size: 30 Copynumber: 4.0 Consensus size: 28
58582789 CTTCTAGGGC
*
58582799 CAAAGTGTAATTTTGAGAAAATTTAGGGGT
1 CAAAATGTAATTTT-AG-AAATTTAGGGGT
* *
58582829 CAAAATGTAATTTTAAGAAATCTAGGTGT
1 CAAAATGTAATTTT-AGAAATTTAGGGGT
** *
58582858 CAAAACATAATTTTAGGTAAATTTGGGGGT
1 CAAAATGTAATTTTA-G-AAATTTAGGGGT
* *
58582888 CAAAATGTAATTTCAAAAATGTTAGGGG
1 CAAAATGTAATTTTAGAAAT-TTAGGGG
58582916 CTGAAATATA
Statistics
Matches: 70, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
28 5 0.07
29 29 0.41
30 36 0.51
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.32
Consensus pattern (28 bp):
CAAAATGTAATTTTAGAAATTTAGGGGT
Found at i:58582849 original size:29 final size:30
Alignment explanation
Indices: 58582799--58582900 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
58582789 CTTCTAGGGC
* *
58582799 CAAAGTGTAATTTTGAGAAAATTTAGGGGT
1 CAAAATGTAATTTTAAGAAAATTTAGGGGT
* *
58582829 CAAAATGTAATTTTAAG-AAATCTAGGTGT
1 CAAAATGTAATTTTAAGAAAATTTAGGGGT
** * * *
58582858 CAAAACATAATTTTAGGTAAATTTGGGGGT
1 CAAAATGTAATTTTAAGAAAATTTAGGGGT
58582888 CAAAATGTAATTT
1 CAAAATGTAATTT
58582901 CAAAAATGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 24 0.41
30 35 0.59
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (30 bp):
CAAAATGTAATTTTAAGAAAATTTAGGGGT
Found at i:58586027 original size:15 final size:15
Alignment explanation
Indices: 58586007--58586037 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
58585997 GTCATGTAAG
58586007 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
58586022 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
58586037 T
1 T
58586038 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:58586227 original size:17 final size:17
Alignment explanation
Indices: 58586194--58586232 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
58586184 TAAGCTTTTG
58586194 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
58586211 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
58586228 ATTTT
1 ATTTT
58586233 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:58586998 original size:15 final size:15
Alignment explanation
Indices: 58586974--58587003 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58586964 TGGAGATCGA
*
58586974 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
58586989 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
58587004 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:58590385 original size:15 final size:15
Alignment explanation
Indices: 58590365--58590395 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
58590355 GTCATGTAAG
58590365 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
58590380 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
58590395 T
1 T
58590396 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:58590585 original size:17 final size:17
Alignment explanation
Indices: 58590552--58590590 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
58590542 TAAGCTTTTG
58590552 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
58590569 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
58590586 ATTTT
1 ATTTT
58590591 CCACAGGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:58593847 original size:15 final size:15
Alignment explanation
Indices: 58593829--58593872 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
58593819 CCCTAAATCT
58593829 CTAAACCTTAAATTC
1 CTAAACCTTAAATTC
**
58593844 CT-AACTCTTAAACCC
1 CTAAAC-CTTAAATTC
58593859 CTAAACCTTAAATT
1 CTAAACCTTAAATT
58593873 GGGCATTGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
14 3 0.13
15 17 0.74
16 3 0.13
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.32
Consensus pattern (15 bp):
CTAAACCTTAAATTC
Found at i:58594422 original size:15 final size:15
Alignment explanation
Indices: 58594399--58594428 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58594389 CCCTAACTCG
58594399 ACCCCAAATCTCTAA
1 ACCCCAAATCTCTAA
*
58594414 ACCCTAAATCTCTAA
1 ACCCCAAATCTCTAA
58594429 TTCTAAACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (15 bp):
ACCCCAAATCTCTAA
Found at i:58594636 original size:36 final size:36
Alignment explanation
Indices: 58594568--58594636 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
58594558 CCCGACCATT
* * *
58594568 AACCCTTAAATCCTAAACCCTGAACTCTTAACCTTG
1 AACCCTTAAACCCTAAACCCTGAACGCATAACCTTG
*
58594604 AACCTTTAAACCCTAAACCCAT-AACGCATAACC
1 AACCCTTAAACCCTAAACCC-TGAACGCATAACC
58594637 CCCAACCCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 27 0.96
37 1 0.04
ACGTcount: A:0.38, C:0.35, G:0.04, T:0.23
Consensus pattern (36 bp):
AACCCTTAAACCCTAAACCCTGAACGCATAACCTTG
Found at i:58594669 original size:14 final size:14
Alignment explanation
Indices: 58594632--58594669 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
58594622 CCATAACGCA
*
58594632 TAACCCCCAACCCC
1 TAACCCCTAACCCC
*
58594646 TAACCTCTAACCCC
1 TAACCCCTAACCCC
58594660 TAACCCCTAA
1 TAACCCCTAA
58594670 ACCTTATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.32, C:0.53, G:0.00, T:0.16
Consensus pattern (14 bp):
TAACCCCTAACCCC
Found at i:58595632 original size:41 final size:41
Alignment explanation
Indices: 58595308--58595630 Score: 450
Period size: 41 Copynumber: 7.9 Consensus size: 41
58595298 TTTTATTATT
* * *
58595308 ATTAGCGGCGCTT-TTCAAAAACGCCGCTAAAGACCGGAAC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
58595348 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGACCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
58595389 ATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
58595430 ATTAGCGGCGCTTCGTCAAAAACGCCGCTAAAGGCCCGAGA
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
*
58595471 ATTAGCGGCGCTTCTTCAGAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* **
58595512 ATTAGAGGCGCTTAGTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
58595553 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCCAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * * *
58595594 ATTAGCGGCACTTTTTCTAAAACGCTGCTAAAGGCCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
58595631 CAAAAACTTA
Statistics
Matches: 254, Mismatches: 28, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
40 13 0.05
41 241 0.95
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:58599375 original size:13 final size:12
Alignment explanation
Indices: 58599337--58599386 Score: 59
Period size: 13 Copynumber: 4.2 Consensus size: 12
58599327 ATATTTTTGT
58599337 AATTAATTT-TA
1 AATTAATTTATA
*
58599348 AA-TAATATATCA
1 AATTAATTTAT-A
58599360 AATTAATTTAATA
1 AATTAATTT-ATA
58599373 AATTAATTTATA
1 AATTAATTTATA
58599385 AA
1 AA
58599387 AAAATAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 5 0.15
11 3 0.09
12 8 0.24
13 15 0.45
14 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (12 bp):
AATTAATTTATA
Found at i:58604822 original size:91 final size:91
Alignment explanation
Indices: 58604667--58604842 Score: 271
Period size: 91 Copynumber: 1.9 Consensus size: 91
58604657 CTTCCAGGCC
** *
58604667 AAGGAAATAGGAAATTTGTTTTAAATCAGACATCTCAAACTTTTTTTCCATTTTGCCTTTGAAAC
1 AAGGAAATAGGAAATTTGTCCTAAATCAGACATCTCAAACTTTTTCTCCATTTTGCCTTTGAAAC
58604732 CAGCCAGCAATTCATAACTTGCCTAG
66 CAGCCAGCAATTCATAACTTGCCTAG
* * * * *
58604758 AAGGAAGTAGGACATTTGTCCTAAATCAGATATCTTAAACTTTTTCTCCATTTTTCCTTTGAAAC
1 AAGGAAATAGGAAATTTGTCCTAAATCAGACATCTCAAACTTTTTCTCCATTTTGCCTTTGAAAC
*
58604823 CAGTCAGCAATTCATAACTT
66 CAGCCAGCAATTCATAACTT
58604843 TCTCCTGTCA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 76 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (91 bp):
AAGGAAATAGGAAATTTGTCCTAAATCAGACATCTCAAACTTTTTCTCCATTTTGCCTTTGAAAC
CAGCCAGCAATTCATAACTTGCCTAG
Found at i:58613820 original size:23 final size:23
Alignment explanation
Indices: 58613790--58613841 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
58613780 TGCAACTTGG
58613790 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
58613813 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
58613836 TTTCAT
1 TTTCAT
58613842 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Done.