Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 140 of 253
Found at i:44765765 original size:34 final size:34
Alignment explanation
Indices: 44765712--44765778 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
44765702 TAGTCAAATG
44765712 CAGTCTGGGCCTAAGCCCATTTCAGTTTCAGTAA
1 CAGTCTGGGCCTAAGCCCATTTCAGTTTCAGTAA
* * *
44765746 CAGTTTGGGCCTTATCCCATTTCAGTTTCAGTA
1 CAGTCTGGGCCTAAGCCCATTTCAGTTTCAGTA
44765779 TCAGATAGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.34
Consensus pattern (34 bp):
CAGTCTGGGCCTAAGCCCATTTCAGTTTCAGTAA
Found at i:44774971 original size:38 final size:37
Alignment explanation
Indices: 44774922--44775047 Score: 135
Period size: 38 Copynumber: 3.3 Consensus size: 37
44774912 ATGTGTGTAC
* *
44774922 GTGTAATACCATAGCTGGGTTATGGCATCGTAATTAAA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGTAA-TAAA
* * *
44774960 GTGTAAGACCATAGCTGAGCTATGGCATTGTGATAAA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGTAATAAA
* * * *
44774997 GTGTAAAGACCATAGCTGGGCTCTGGTATTGTGATAAA
1 GTGT-AAGACCATAGCTGGGCTATGGCATCGTAATAAA
*
44775035 ATGTAAAGACCAT
1 GTGT-AAGACCAT
44775048 GGCAGGTCCA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
37 8 0.10
38 70 0.90
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (37 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGTAATAAA
Found at i:44776747 original size:19 final size:18
Alignment explanation
Indices: 44776702--44776750 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
44776692 AAAGTATATC
* *
44776702 TTTTAATTTTAAAAATTA
1 TTTTAATTTTTAAAATAA
*
44776720 TTATGAATTTTTAAAATCAA
1 TT-TTAATTTTTAAAAT-AA
44776740 TTTTAATTTTT
1 TTTTAATTTTT
44776751 TTTGTAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 2 0.08
19 20 0.80
20 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTAATTTTTAAAATAA
Found at i:44783935 original size:24 final size:24
Alignment explanation
Indices: 44783907--44783959 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
44783897 AAGGCAATTA
* *
44783907 AAGGAAGCTATAAGAGAATGAGGC
1 AAGGAAGCAATAAGAGAATAAGGC
*
44783931 AAGGAAGCAATAAGAGAATAAGGT
1 AAGGAAGCAATAAGAGAATAAGGC
44783955 AAGGA
1 AAGGA
44783960 GAGAGATAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.51, C:0.06, G:0.32, T:0.11
Consensus pattern (24 bp):
AAGGAAGCAATAAGAGAATAAGGC
Found at i:44785097 original size:14 final size:16
Alignment explanation
Indices: 44785067--44785102 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
44785057 AATAAAGAGA
44785067 AATAAAAAGAGTAAAG
1 AATAAAAAGAGTAAAG
44785083 AATAAAAA-A-TAAAG
1 AATAAAAAGAGTAAAG
44785097 AA-AAAA
1 AATAAAA
44785103 TGAGAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 7 0.35
15 1 0.05
16 8 0.40
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AATAAAAAGAGTAAAG
Found at i:44785813 original size:96 final size:96
Alignment explanation
Indices: 44785699--44785888 Score: 317
Period size: 96 Copynumber: 2.0 Consensus size: 96
44785689 TGATGCATGG
* * *
44785699 ACATGTACACATCCACTTCATTTGGACGACAAGACCGTGAAAAATTGGGTCATAAGGATGTTAAT
1 ACATGTACACATCAACTTCATTTGGACGACAAGACCGTGAAAAACTAGGTCATAAGGATGTTAAT
* *
44785764 TTGACCCAGTAAAAGATGTGATAAAAGATGT
66 TTAACCCAATAAAAGATGTGATAAAAGATGT
*
44785795 ACATGTACACATCAACTTCATTTGGACGACAAGACCGTGTAAAACTAGGTCATAAGGATGTTAAT
1 ACATGTACACATCAACTTCATTTGGACGACAAGACCGTGAAAAACTAGGTCATAAGGATGTTAAT
*
44785860 TTAACCTAATAAAAGATGTGATAAAAGAT
66 TTAACCCAATAAAAGATGTGATAAAAGAT
44785889 AAACATGTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.26
Consensus pattern (96 bp):
ACATGTACACATCAACTTCATTTGGACGACAAGACCGTGAAAAACTAGGTCATAAGGATGTTAAT
TTAACCCAATAAAAGATGTGATAAAAGATGT
Found at i:44790463 original size:31 final size:31
Alignment explanation
Indices: 44790398--44790479 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
44790388 ATGTAAAAAA
* ** * *
44790398 AAAAGAATGAAAGAACAAAGGTAAGTTTGTTC
1 AAAAGAAT-AAAAAACAAAGAAAAATTTGCTC
44790430 AAAAGAATAAAAAACAAAGAAAAATTTGCTC
1 AAAAGAATAAAAAACAAAGAAAAATTTGCTC
** *
44790461 AAAAGTCTAAAAAATAAAG
1 AAAAGAATAAAAAACAAAG
44790480 GTTGAGCATG
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 34 0.81
32 8 0.19
ACGTcount: A:0.60, C:0.07, G:0.15, T:0.18
Consensus pattern (31 bp):
AAAAGAATAAAAAACAAAGAAAAATTTGCTC
Found at i:44792096 original size:39 final size:39
Alignment explanation
Indices: 44791961--44792081 Score: 208
Period size: 39 Copynumber: 3.1 Consensus size: 39
44791951 CGCGTACCTA
* *
44791961 GAAAAAAATTAAAAAAAAATAGAATTAAAAGTTTTGATCT
1 GAAAAAAA-TAAAATAAAACAGAATTAAAAGTTTTGATCT
44792001 GAAAAAAATAAAATAAAACAGAATTAAAAGTTTTGATCT
1 GAAAAAAATAAAATAAAACAGAATTAAAAGTTTTGATCT
44792040 GAAAAAAATAAAATAAAACAGAATTAAAAGTTTTGAT-T
1 GAAAAAAATAAAATAAAACAGAATTAAAAGTTTTGATCT
44792078 GAAA
1 GAAA
44792082 TTTCAAAAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
38 5 0.06
39 66 0.84
40 8 0.10
ACGTcount: A:0.60, C:0.03, G:0.11, T:0.26
Consensus pattern (39 bp):
GAAAAAAATAAAATAAAACAGAATTAAAAGTTTTGATCT
Found at i:44792832 original size:10 final size:10
Alignment explanation
Indices: 44792805--44792852 Score: 71
Period size: 10 Copynumber: 4.8 Consensus size: 10
44792795 TTAAATTCTA
*
44792805 AAAGATAAAT
1 AAAGATAATT
44792815 ATAA-ATAATT
1 A-AAGATAATT
44792825 AAAGATAATT
1 AAAGATAATT
44792835 AAAGATAATT
1 AAAGATAATT
44792845 AAAGATAA
1 AAAGATAA
44792853 ATGAAAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (10 bp):
AAAGATAATT
Found at i:44792862 original size:20 final size:19
Alignment explanation
Indices: 44792805--44792862 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 19
44792795 TTAAATTCTA
44792805 AAAGATAAATATAAATAATT
1 AAAGATAAATA-AAATAATT
*
44792825 AAAGATAATTAAAGATAATT
1 AAAGATAAATAAA-ATAATT
44792845 AAAGATAAATGAAAATAA
1 AAAGATAAAT-AAAATAA
44792863 ATCCTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.85
21 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (19 bp):
AAAGATAAATAAAATAATT
Found at i:44793688 original size:99 final size:99
Alignment explanation
Indices: 44793508--44793697 Score: 276
Period size: 99 Copynumber: 1.9 Consensus size: 99
44793498 TTAATTTATT
**
44793508 ATTTATTTATTTTTGCTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCA
1 ATTTATTTATTTTTGCTTAAGAATATATCAAACCTTTTGACGCGAAGAGAGATGACAACCAAGCA
44793573 CCCCAACTCGGCTACTCAGCCCAACATACTCCTA
66 CCCCAACTCGGCTACTCAGCCCAACATACTCCTA
* * * *
44793607 ATTTATTATATTTTT-CTTAAGAATATATCAAACCTTTTGACGCGAAGAGATATGATAGCTAAGC
1 ATTTATT-TATTTTTGCTTAAGAATATATCAAACCTTTTGACGCGAAGAGAGATGACAACCAAGC
* *
44793671 ACCTC-ACTCCGGTTACTCAGCCCAACA
65 ACCCCAACT-CGGCTACTCAGCCCAACA
44793698 CATTCTTAAG
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 3 0.04
99 71 0.88
100 7 0.09
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.30
Consensus pattern (99 bp):
ATTTATTTATTTTTGCTTAAGAATATATCAAACCTTTTGACGCGAAGAGAGATGACAACCAAGCA
CCCCAACTCGGCTACTCAGCCCAACATACTCCTA
Found at i:44794728 original size:6 final size:6
Alignment explanation
Indices: 44794679--44794763 Score: 104
Period size: 6 Copynumber: 13.8 Consensus size: 6
44794669 ATATCCAAAC
44794679 AAAATA AATTAATA AATAAT- AAAATA AAGTAAT- AAAAT- AAAATA AAAATA
1 AAAATA AA--AATA AA-AATA AAAATA AA--AATA AAAATA AAAATA AAAATA
44794729 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
44794764 TTGGTTGCCT
Statistics
Matches: 73, Mismatches: 0, Indels: 12
0.86 0.00 0.14
Matches are distributed among these distances:
5 11 0.15
6 47 0.64
7 6 0.08
8 9 0.12
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:44797309 original size:49 final size:49
Alignment explanation
Indices: 44797071--44797311 Score: 243
Period size: 49 Copynumber: 4.9 Consensus size: 49
44797061 TGAGGTCACG
* * * * *
44797071 TGTGTAGCACTAAGTGCAGGGTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTGGTCGTA
* * * *
44797120 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACT--TCGATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTGGTCG-T-A
* *** * *
44797169 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCTTG
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACT-GGTCGTA
* * *
44797221 TGTGTAGTACTAAGTACAAGCTACTACGTGTACCGGATAACTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTGGTCGTA
**
44797270 TGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATAACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACT
44797312 TTGGCTACAA
Statistics
Matches: 153, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
47 3 0.02
49 78 0.51
50 35 0.23
51 34 0.22
53 1 0.01
54 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTGGTCGTA
Found at i:44800124 original size:15 final size:15
Alignment explanation
Indices: 44800095--44800139 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
44800085 AATGCTGTAA
44800095 ATGGTATTTCCTTATC
1 ATGG-ATTTCCTTATC
*
44800111 ATGGATTTCTTTATC
1 ATGGATTTCCTTATC
*
44800126 TTGGATTTCCTTAT
1 ATGGATTTCCTTAT
44800140 TCTGGGCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (15 bp):
ATGGATTTCCTTATC
Found at i:44805874 original size:49 final size:50
Alignment explanation
Indices: 44805792--44805987 Score: 245
Period size: 49 Copynumber: 4.0 Consensus size: 50
44805782 ATCTATTGTG
* *
44805792 AGGTCACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
44805842 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
44805892 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGT--CAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
44805940 AGGTCACATGTGTAGTACTAAGTGCAGACTACTATGCGTACCAGATAA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
44805988 CTTTGGCTAC
Statistics
Matches: 122, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
48 35 0.29
49 46 0.38
50 7 0.06
51 34 0.28
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:44805987 original size:99 final size:99
Alignment explanation
Indices: 44805795--44805990 Score: 304
Period size: 99 Copynumber: 2.0 Consensus size: 99
44805785 TATTGTGAGG
* *
44805795 TCACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGATAATTGGTCACATGTGTAGTACT
* * *
44805860 AAGTGCAGGCTACTATGTGTACCCGATAACTTCGA
65 AAGTGCAGACTACTATGCGTACCAGATAACTTCGA
**
44805895 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGT-CAGATGGTTAGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGATAATT-GGTCACATGTGTAGTACT
44805959 AAGTGCAGACTACTATGCGTACCAGATAACTT
65 AAGTGCAGACTACTATGCGTACCAGATAACTT
44805991 TGGCTACAAG
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
98 7 0.08
99 46 0.52
100 35 0.40
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGATAATTGGTCACATGTGTAGTACTA
AGTGCAGACTACTATGCGTACCAGATAACTTCGA
Found at i:44807896 original size:37 final size:39
Alignment explanation
Indices: 44807855--44807928 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
44807845 TGCGTACCTA
*
44807855 GAAAAAAAT-AAA-AAAACAGTATTAAAAATTTTGATCT
1 GAAAAAAATAAAATAAAACAGAATTAAAAATTTTGATCT
* *
44807892 GAAAAAAATAAAATAAAATAGAATTAAAAGTTTTGAT
1 GAAAAAAATAAAATAAAACAGAATTAAAAATTTTGAT
44807929 TGGAATTTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 9 0.28
38 3 0.09
39 20 0.62
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.27
Consensus pattern (39 bp):
GAAAAAAATAAAATAAAACAGAATTAAAAATTTTGATCT
Found at i:44817321 original size:288 final size:287
Alignment explanation
Indices: 44816768--44817322 Score: 799
Period size: 287 Copynumber: 1.9 Consensus size: 287
44816758 TGGGATCCAA
*
44816768 GGGTCAATAACTAAACTACTCCGATCCAACAGTGCTGAGCTGTTTAGGGGTGTTACTGGGGTCGC
1 GGGTCAATAACTAAACTACTCCGATCCAACAGTGCTGAGCTGTTTAGGGGTGTTACTAGGGTCGC
*
44816833 CCCGATTGTGGCCGAATATTGGTTGGAGGTCACAGAGAAAATTATGAATGATATCGACTACACTC
66 CCCGATTGTGGCCGAATATTGGTTGGAGGCCACAGAGAAAATTATGAATGATATCGACTACACTC
* * ** * * **
44816898 CTGAGCAGAATTAAAGGGTGCAGTGTCGTTGCTGTGTGATGAAGCTTACTTGTGGTGGCTGACAA
131 CTAAGAAGAATTAAAAAGTGCAATGTCGTTGCTGTGCGATGAAGCTTACCAGTGGTGGCTGACAA
* * * *
44816963 TTGAGGAGGGTACTCAGCCTGATTAGGTCATTTGGGAATATTTTAAGAATGTCTTCCAGAGCAAG
196 TTGAGGAGGGTACTAAGCCTGATTAGATCACTTGGGAATATTTTAAGAACGTCTTCCAGAGCAAG
44817028 TATATGGGGGGTGTTACTGGGAGCCGT
261 TATATGGGGGGTGTTACTGGGAGCCGT
* * * *
44817055 GGGTCGATAACTAAA-TAACTTCGGTCCAACGGTGCTGAGCTGTTTAGGGGTGTTACTAGGGTCG
1 GGGTCAATAACTAAACT-ACTCCGATCCAACAGTGCTGAGCTGTTTAGGGGTGTTACTAGGGTCG
* * ** **
44817119 CCTCGATTGTGGCTGAATATTGGTTGGAGGCCACAGAGAGGATTATGAATGATATCGACTGTACT
65 CCCCGATTGTGGCCGAATATTGGTTGGAGGCCACAGAGAAAATTATGAATGATATCGACTACACT
** *
44817184 TTTAAGAAGAAATTAAAAAGTGCAATGTCGTTGCTTTGCGATGAAGCTTACCAGTGGTGGCTGAC
130 CCTAAGAAG-AATTAAAAAGTGCAATGTCGTTGCTGTGCGATGAAGCTTACCAGTGGTGGCTGAC
* * *
44817249 CATTGAGGAGGGTATTAAGCTTGATTAGATCACTTGGGAATATTTT-AGTAACGTCTTCCAGAGC
194 AATTGAGGAGGGTACTAAGCCTGATTAGATCACTTGGGAATATTTTAAG-AACGTCTTCCAGAGC
44817313 AAGTATATGG
258 AAGTATATGG
44817323 AGTGGAGGCT
Statistics
Matches: 235, Mismatches: 30, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
286 1 0.00
287 122 0.52
288 112 0.48
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (287 bp):
GGGTCAATAACTAAACTACTCCGATCCAACAGTGCTGAGCTGTTTAGGGGTGTTACTAGGGTCGC
CCCGATTGTGGCCGAATATTGGTTGGAGGCCACAGAGAAAATTATGAATGATATCGACTACACTC
CTAAGAAGAATTAAAAAGTGCAATGTCGTTGCTGTGCGATGAAGCTTACCAGTGGTGGCTGACAA
TTGAGGAGGGTACTAAGCCTGATTAGATCACTTGGGAATATTTTAAGAACGTCTTCCAGAGCAAG
TATATGGGGGGTGTTACTGGGAGCCGT
Found at i:44824486 original size:46 final size:46
Alignment explanation
Indices: 44824439--44824666 Score: 280
Period size: 46 Copynumber: 5.0 Consensus size: 46
44824429 GCTCTCTGAT
* * *
44824439 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
44824485 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
44824531 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-AGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA-TGAC
* * * * *
44824577 ACGTAATGTGTAAGACCATGGTTGAAAAATACCACGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
44824623 A-GAAAGTGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAA-TGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
44824667 TCAAAGATAA
Statistics
Matches: 158, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
45 4 0.03
46 153 0.97
47 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:44824967 original size:16 final size:17
Alignment explanation
Indices: 44824946--44824978 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44824936 ATGATGATGC
44824946 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
44824962 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
44824979 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:44830771 original size:19 final size:20
Alignment explanation
Indices: 44830747--44830784 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44830737 TGGTACACCA
44830747 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
44830766 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
44830785 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:44831138 original size:91 final size:92
Alignment explanation
Indices: 44831012--44831180 Score: 286
Period size: 91 Copynumber: 1.8 Consensus size: 92
44831002 GCCCCTAAGT
* * *
44831012 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-ACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGACTCAACTCAAC
44831076 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
*
44831103 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTC-GACTCAACTCAA
44831168 CGAGTTCGGATGC
65 CGAGTTCGGATGC
44831181 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 48 0.67
93 24 0.33
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:44831169 original size:46 final size:46
Alignment explanation
Indices: 44831007--44831177 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
44830997 AACCCGCCCC
* * * *
44831007 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
44831053 TAAGTGAACTC--ACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
44831099 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
44831144 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44831178 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 19 0.19
45 8 0.08
46 42 0.41
47 22 0.22
48 3 0.03
49 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:44838294 original size:19 final size:20
Alignment explanation
Indices: 44838270--44838307 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44838260 TGGTACACCA
44838270 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
44838289 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
44838308 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:44838641 original size:93 final size:93
Alignment explanation
Indices: 44838534--44838704 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
44838524 CGCCCTAAGT
* *
44838534 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
44838599 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
44838627 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
44838692 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44838705 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44838701 original size:46 final size:46
Alignment explanation
Indices: 44838529--44838701 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
44838519 TAACCCGCCC
* * *
44838529 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
44838575 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* * *
44838623 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
44838668 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44838702 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:44847771 original size:43 final size:43
Alignment explanation
Indices: 44847717--44847844 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
44847707 ACTGGTGAAT
* *
44847717 AATATTATCGGGCTTCGGGCCTAACAGGCTATAATGCTGGTGA
1 AATAATATCGGGCTTCGGGCCTAACAGGCTATAATGCCGGTGA
* *
44847760 GATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAACAGGCTATAATGCCGGTGA
* ** * * *
44847803 AATGATATCGGG-TTCAAGCCTAATAGGCGA-AATGTCGGTGA
1 AATAATATCGGGCTTCGGGCCTAACAGGCTATAATGCCGGTGA
44847844 A
1 A
44847845 TGAGTTCAGA
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 11 0.15
42 13 0.18
43 49 0.67
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAACAGGCTATAATGCCGGTGA
Found at i:44852275 original size:14 final size:15
Alignment explanation
Indices: 44852256--44852285 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44852246 GGTTATTATA
44852256 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
44852270 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
44852285 T
1 T
44852286 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:44854035 original size:43 final size:43
Alignment explanation
Indices: 44853983--44854097 Score: 158
Period size: 43 Copynumber: 2.7 Consensus size: 43
44853973 GCTGGTGAAT
* *
44853983 AATATTATCGGGCTTCGGGCCTAGTAGGCTATAATACCGGTGA
1 AATAATATCGGGCTTCAGGCCTAGTAGGCTATAATACCGGTGA
* * * *
44854026 GATAATATCGGGCTCCAGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCAGGCCTAGTAGGCTATAATACCGGTGA
* *
44854069 AATGATATCGGGCTTCAAGCCTAGTAGGC
1 AATAATATCGGGCTTCAGGCCTAGTAGGC
44854098 GAAATGCCAG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (43 bp):
AATAATATCGGGCTTCAGGCCTAGTAGGCTATAATACCGGTGA
Found at i:44857675 original size:21 final size:21
Alignment explanation
Indices: 44857650--44857700 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
44857640 GACATCATCG
44857650 TCGCAGCCACCAGTGCCGCCA
1 TCGCAGCCACCAGTGCCGCCA
* *
44857671 TCGCAGCTACCAGTGTCGCCA
1 TCGCAGCCACCAGTGCCGCCA
44857692 TCGCAGCCA
1 TCGCAGCCA
44857701 TTAGCACTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.43, G:0.24, T:0.14
Consensus pattern (21 bp):
TCGCAGCCACCAGTGCCGCCA
Found at i:44858001 original size:23 final size:24
Alignment explanation
Indices: 44857973--44858030 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
44857963 CCAAAAATAT
44857973 CAAATTAATTTTAATT-GATTTTC
1 CAAATTAATTTTAATTAGATTTTC
* * * *
44857996 CAAATT-GTCTGACTTAGATTTTC
1 CAAATTAATTTTAATTAGATTTTC
44858019 CAAATTAATTTT
1 CAAATTAATTTT
44858031 TCAAGAAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
22 5 0.19
23 19 0.73
24 2 0.08
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (24 bp):
CAAATTAATTTTAATTAGATTTTC
Found at i:44860875 original size:29 final size:29
Alignment explanation
Indices: 44860833--44860941 Score: 173
Period size: 29 Copynumber: 3.8 Consensus size: 29
44860823 CACACAACCA
44860833 AGCACACGGGTGTGTGGCATGGTCGGCCT
1 AGCACACGGGTGTGTGGCATGGTCGGCCT
*
44860862 AGCACACGGGTGTGTGGCATGGCCGGCCT
1 AGCACACGGGTGTGTGGCATGGTCGGCCT
*
44860891 AGCACATGGGTGTGTGGCATGGTCGGCCT
1 AGCACACGGGTGTGTGGCATGGTCGGCCT
** *
44860920 AGCACACAAGAGTGTGGCATGG
1 AGCACACGGGTGTGTGGCATGG
44860942 CCGTGTGTAC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.17, C:0.23, G:0.40, T:0.19
Consensus pattern (29 bp):
AGCACACGGGTGTGTGGCATGGTCGGCCT
Found at i:44866035 original size:18 final size:18
Alignment explanation
Indices: 44866012--44866047 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44866002 ATTTTATCAT
*
44866012 TTTAATCATATTTTTTTA
1 TTTAATCAAATTTTTTTA
*
44866030 TTTAATTAAATTTTTTTA
1 TTTAATCAAATTTTTTTA
44866048 CATCATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTAATCAAATTTTTTTA
Found at i:44898504 original size:40 final size:40
Alignment explanation
Indices: 44898421--44898683 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
44898411 TTGAATGCTG
* * * * * *
44898421 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
44898461 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
44898501 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
44898541 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
44898581 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44898621 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44898660 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44898684 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:44898703 original size:79 final size:80
Alignment explanation
Indices: 44898460--44898718 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
44898450 AAGTGAATAT
* * * * * * *
44898460 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
44898524 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
44898540 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
44898605 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
44898620 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
44898684 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
44898699 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
44898719 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:44904822 original size:47 final size:47
Alignment explanation
Indices: 44904753--44905019 Score: 498
Period size: 47 Copynumber: 5.6 Consensus size: 47
44904743 GTTTTAACCC
44904753 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
*
44904800 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
44904847 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
44904894 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
*
44904941 GGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTA
1 GGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
44904990 GGCCTTATCACATATATACACTTTCACATT
1 GGCCTTATCACATATATACACTTTCACATT
44905020 TATTCAAATA
Statistics
Matches: 215, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
47 169 0.79
49 46 0.21
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
Found at i:44913819 original size:25 final size:24
Alignment explanation
Indices: 44913797--44913844 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
44913787 GTATGCTCTC
44913797 ACGAATTGTAAGTCGGTAAGCTCAT
1 ACGAATTGTAA-TCGGTAAGCTCAT
*
44913822 ACGAGTTGTAATCGGTAAGCTCA
1 ACGAATTGTAATCGGTAAGCTCA
44913845 CATGAGCTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (24 bp):
ACGAATTGTAATCGGTAAGCTCAT
Found at i:44913841 original size:24 final size:25
Alignment explanation
Indices: 44913775--44913844 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
44913765 TGCTCTTTCA
* *
44913775 AGTTGTAAATCAGTATGCTC-TCACG
1 AGTTGT-AATCGGTAAGCTCATCACG
*
44913800 AATTGTAAGTCGGTAAGCTCAT-ACG
1 AGTTGTAA-TCGGTAAGCTCATCACG
44913825 AGTTGTAATCGGTAAGCTCA
1 AGTTGTAATCGGTAAGCTCA
44913845 CATGAGCTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 14 0.36
25 24 0.62
26 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (25 bp):
AGTTGTAATCGGTAAGCTCATCACG
Found at i:44918748 original size:23 final size:23
Alignment explanation
Indices: 44918718--44918767 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
44918708 CTCAAGGTTA
44918718 GGACGCAAGCACAATATCCGAAG
1 GGACGCAAGCACAATATCCGAAG
44918741 GGACGCAAGCACAATATCCGAAG
1 GGACGCAAGCACAATATCCGAAG
44918764 GGAC
1 GGAC
44918768 TCAGATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.26, G:0.28, T:0.08
Consensus pattern (23 bp):
GGACGCAAGCACAATATCCGAAG
Found at i:44923659 original size:28 final size:29
Alignment explanation
Indices: 44923620--44923697 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
44923610 AAAATAGAGG
* *
44923620 AAAATTGTAAAATCTGAAAAACTT-TGGC
1 AAAACTGTAAAATCTGAAAAAATTATGGC
*
44923648 CAAACTGTAAAATCT-AAAAAATTATGGC
1 AAAACTGTAAAATCTGAAAAAATTATGGC
* *
44923676 AAAACTGAAAAATTTTGAAAAA
1 AAAACTGTAAAA-TCTGAAAAA
44923698 TAGTGGTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 7 0.17
28 27 0.66
29 2 0.05
30 5 0.12
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.26
Consensus pattern (29 bp):
AAAACTGTAAAATCTGAAAAAATTATGGC
Found at i:44925131 original size:22 final size:21
Alignment explanation
Indices: 44925096--44925137 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
44925086 ACATTCACTA
* *
44925096 TTTTAATTATAAAATATTTAT
1 TTTTAATCATAAAAAATTTAT
44925117 TTTTACATCATAAAAAATTTA
1 TTTTA-ATCATAAAAAATTTA
44925138 AACTAATTAT
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:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTAATCATAAAAAATTTAT
Found at i:44928606 original size:22 final size:21
Alignment explanation
Indices: 44928580--44928630 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
44928570 TTTGTACTTA
44928580 AATTATTAACATAATGAATTTT
1 AATTATT-ACATAATGAATTTT
** *
44928602 AATTAATTTTATAATTAATTTT
1 AATT-ATTACATAATGAATTTT
44928624 AATTATT
1 AATTATT
44928631 TTTTATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
AATTATTACATAATGAATTTT
Found at i:44928609 original size:10 final size:10
Alignment explanation
Indices: 44928591--44928642 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
44928581 ATTATTAACA
*
44928591 TAATGAATTT
1 TAATTAATTT
44928601 TAATTAATTTT
1 TAATTAA-TTT
44928612 ATAATTAATTT
1 -TAATTAATTT
*
44928623 TAATTATTTT
1 TAATTAATTT
*
44928633 TTATT-ATTT
1 TAATTAATTT
44928642 T
1 T
44928643 TGACAGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 4 0.11
10 19 0.53
11 6 0.17
12 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TAATTAATTT
Found at i:44928633 original size:22 final size:22
Alignment explanation
Indices: 44928590--44928633 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
44928580 AATTATTAAC
44928590 ATAATGAATTTTAATTAATTTT
1 ATAATGAATTTTAATTAATTTT
* *
44928612 ATAATTAATTTTAATTATTTTT
1 ATAATGAATTTTAATTAATTTT
44928634 TATTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATAATGAATTTTAATTAATTTT
Found at i:44928643 original size:11 final size:10
Alignment explanation
Indices: 44928598--44928643 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
44928588 ACATAATGAA
44928598 TTTTAATTAAT
1 TTTTAATT-AT
*
44928609 TTTATAATTAA
1 TTT-TAATTAT
44928620 TTTTAATTAT
1 TTTTAATTAT
*
44928630 TTTTTATTAT
1 TTTTAATTAT
44928640 TTTT
1 TTTT
44928644 GACAGATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
10 19 0.61
11 7 0.23
12 5 0.16
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTAATTAT
Found at i:44933677 original size:22 final size:22
Alignment explanation
Indices: 44933649--44933694 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
44933639 GGGATGTTAC
44933649 ACTCTCTCTTTCAGAAAAACTA
1 ACTCTCTCTTTCAGAAAAACTA
44933671 ACTCTCTCTTTCAGAAAAACTA
1 ACTCTCTCTTTCAGAAAAACTA
44933693 AC
1 AC
44933695 GTCTGTTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.30
Consensus pattern (22 bp):
ACTCTCTCTTTCAGAAAAACTA
Found at i:44937861 original size:18 final size:18
Alignment explanation
Indices: 44937827--44937864 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
44937817 AACATTACAA
44937827 AAAAATTCAAAGTATTTAT
1 AAAAATTCAAAG-ATTTAT
44937846 AAAAATTCTAAA-ATTTAT
1 AAAAATTC-AAAGATTTAT
44937864 A
1 A
44937865 TTTTAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 8 0.44
20 3 0.17
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (18 bp):
AAAAATTCAAAGATTTAT
Found at i:44937885 original size:7 final size:7
Alignment explanation
Indices: 44937847--44937896 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
44937837 AGTATTTATA
44937847 AAAATTCT
1 AAAATT-T
44937855 AAAATTT
1 AAAATTT
* *
44937862 ATATTTT
1 AAAATTT
* *
44937869 AATATAT
1 AAAATTT
44937876 AAAATTT
1 AAAATTT
44937883 AAAATTT
1 AAAATTT
44937890 AAAATTT
1 AAAATTT
44937897 CTAAAGAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (7 bp):
AAAATTT
Found at i:44938868 original size:13 final size:13
Alignment explanation
Indices: 44938852--44938893 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
44938842 TTATTATTAA
44938852 TAAATATTTAAAT
1 TAAATATTTAAAT
*
44938865 TAAAT-TTTTAAT
1 TAAATATTTAAAT
*
44938877 AAAAATATTTAAAT
1 -TAAATATTTAAAT
44938891 TAA
1 TAA
44938894 TCCACAAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 6 0.26
13 11 0.48
14 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATATTTAAAT
Found at i:44947216 original size:16 final size:16
Alignment explanation
Indices: 44947192--44947226 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
44947182 CCATGTCAAC
44947192 AAATATTAAAAATAAA
1 AAATATTAAAAATAAA
*
44947208 AAATCTTAAAAATAAA
1 AAATATTAAAAATAAA
44947224 AAA
1 AAA
44947227 AGCTTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATATTAAAAATAAA
Found at i:44947937 original size:22 final size:21
Alignment explanation
Indices: 44947898--44947938 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
44947888 TTTATTGGTA
**
44947898 ATTTTGTTATTATTTTAGAGG
1 ATTTTGTTATTAAGTTAGAGG
44947919 ATTTTGCTTATTAAGTTAGA
1 ATTTTG-TTATTAAGTTAGA
44947939 TCTACCTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.54
Consensus pattern (21 bp):
ATTTTGTTATTAAGTTAGAGG
Found at i:44949681 original size:21 final size:20
Alignment explanation
Indices: 44949633--44949681 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
44949623 ATAAATTATT
44949633 AAAAATAATTATTTAAAAAA
1 AAAAATAATTATTTAAAAAA
*
44949653 ACACAATAATT-TTTGAAATAAA
1 A-AAAATAATTATTT-AAA-AAA
44949675 AAAAATA
1 AAAAATA
44949682 CATTGTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 4 0.17
21 16 0.67
22 4 0.17
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATAATTATTTAAAAAA
Found at i:44953802 original size:40 final size:39
Alignment explanation
Indices: 44953758--44953845 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
44953748 AAAAAGGAAG
* * *
44953758 AAATATTTGTGCTTAGAAGTAGGGGAGAAAACAGAAAAAA
1 AAATATTTATGCTCAGAAGAAGGGGAGAAAACA-AAAAAA
** * *
44953798 AAATATCAATGCTCAGTAGAATGGGAGAAAACAAAAAAA
1 AAATATTTATGCTCAGAAGAAGGGGAGAAAACAAAAAAA
44953837 AAATTATTT
1 AAA-TATTT
44953846 TTTATGGGTG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
39 9 0.24
40 29 0.76
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (39 bp):
AAATATTTATGCTCAGAAGAAGGGGAGAAAACAAAAAAA
Found at i:44955948 original size:40 final size:40
Alignment explanation
Indices: 44955787--44955935 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
44955777 GATGATAACG
* *
44955787 GGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
*
44955827 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
* *
44955867 GGGCTAAGTCTCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAT-TCC
*
44955907 GGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG
44955936 TAGTTATATC
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.02
40 97 0.98
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
Found at i:44958739 original size:17 final size:17
Alignment explanation
Indices: 44958717--44958749 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44958707 TAACTTTAAT
44958717 ATTAAATTTAATATTAG
1 ATTAAATTTAATATTAG
44958734 ATTAAATTTAATATTA
1 ATTAAATTTAATATTA
44958750 AATCTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
ATTAAATTTAATATTAG
Found at i:44971312 original size:14 final size:14
Alignment explanation
Indices: 44971293--44971322 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
44971283 TCTGTAGTCG
44971293 GACAAATAAATTCA
1 GACAAATAAATTCA
44971307 GACAAATAAATTCA
1 GACAAATAAATTCA
44971321 GA
1 GA
44971323 AGAGTTGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (14 bp):
GACAAATAAATTCA
Found at i:44972181 original size:9 final size:9
Alignment explanation
Indices: 44972167--44972192 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
44972157 CCCCCCCAAA
44972167 AAAAAAAAG
1 AAAAAAAAG
44972176 AAAAAAAAG
1 AAAAAAAAG
44972185 AAAAAAAA
1 AAAAAAAA
44972193 AGGAAGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:44972181 original size:10 final size:10
Alignment explanation
Indices: 44972166--44972194 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
44972156 CCCCCCCCAA
44972166 AAAAAAAAAG
1 AAAAAAAAAG
44972176 -AAAAAAAAG
1 AAAAAAAAAG
44972185 AAAAAAAAAG
1 AAAAAAAAAG
44972195 GAAGAATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:44975091 original size:16 final size:17
Alignment explanation
Indices: 44975060--44975092 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44975050 TTCATAAGTA
44975060 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
44975077 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
44975093 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:44975442 original size:46 final size:46
Alignment explanation
Indices: 44975388--44975605 Score: 337
Period size: 46 Copynumber: 4.7 Consensus size: 46
44975378 TGCCGTAGTG
* ** * *
44975388 TCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
* * *
44975434 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
44975480 TCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
44975526 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
44975572 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAG
44975606 AGAGCACACT
Statistics
Matches: 163, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 163 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
Found at i:44980168 original size:19 final size:20
Alignment explanation
Indices: 44980140--44980177 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
44980130 GAGTATTAGC
*
44980140 ATTGTGATATTGA-ATTGAT
1 ATTGTAATATTGATATTGAT
44980159 ATTGTAATATTGATATTGA
1 ATTGTAATATTGATATTGA
44980178 ATTAAGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
ATTGTAATATTGATATTGAT
Found at i:44982424 original size:46 final size:45
Alignment explanation
Indices: 44982371--44982546 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
44982361 TTTTTGGGCA
*
44982371 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
44982417 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAAAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
44982464 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
44982510 -CTCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44982547 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 66 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:44982526 original size:93 final size:93
Alignment explanation
Indices: 44982367--44982538 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
44982357 AGGATTTTTG
*
44982367 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
44982432 TTGAGTCCGAGTTCGAAAGATGTAACTA
66 TTGAGTCCGAGTTCGAAAGATGTAACTA
* * *
44982460 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGA
*
44982524 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
44982539 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAAAGATGTAACTA
Found at i:44987159 original size:17 final size:16
Alignment explanation
Indices: 44987128--44987158 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44987118 TCCATGTTAA
44987128 TAATTTTATTTTTTTC
1 TAATTTTATTTTTTTC
44987144 TAATTTTATTTTTTT
1 TAATTTTATTTTTTT
44987159 TATTTTAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TAATTTTATTTTTTTC
Found at i:44988843 original size:40 final size:40
Alignment explanation
Indices: 44988782--44988876 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
44988772 ATCTCTGTCT
* *
44988782 AACCCAACACACC-A-TGTGGGGATAAAATCAACCCACCC
1 AACCCTACACACCAAGTATGGGGATAAAATCAACCCACCC
* * * *
44988820 AGCCCTACACACGAAGTATGGGGATAGAATCAACCCATCC
1 AACCCTACACACCAAGTATGGGGATAAAATCAACCCACCC
44988860 AACCCTACACACCAAGT
1 AACCCTACACACCAAGT
44988877 GGTACTATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 10 0.21
39 1 0.02
40 36 0.77
ACGTcount: A:0.38, C:0.35, G:0.15, T:0.13
Consensus pattern (40 bp):
AACCCTACACACCAAGTATGGGGATAAAATCAACCCACCC
Found at i:44994933 original size:40 final size:40
Alignment explanation
Indices: 44994871--44994965 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
44994861 CCATCTTCGT
* *
44994871 CCAACCCAACACACC--ATATGGGGATAAAATCGACCCAC
1 CCAACCCTACACACCAAATATGGGGATAAAATCAACCCAC
* * *
44994909 CCAGCCCTACACACCAAATATGGGGATAGAATCAACCCAT
1 CCAACCCTACACACCAAATATGGGGATAAAATCAACCCAC
*
44994949 CCAACCTTACACACCAA
1 CCAACCCTACACACCAA
44994966 GTGGTACCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 13 0.27
40 35 0.73
ACGTcount: A:0.39, C:0.37, G:0.12, T:0.13
Consensus pattern (40 bp):
CCAACCCTACACACCAAATATGGGGATAAAATCAACCCAC
Found at i:44998374 original size:10 final size:12
Alignment explanation
Indices: 44998354--44998387 Score: 54
Period size: 10 Copynumber: 3.0 Consensus size: 12
44998344 ATTGAGAACA
44998354 AATTAATTTTTT
1 AATTAATTTTTT
44998366 -ATT-ATTTTTT
1 AATTAATTTTTT
44998376 AATTAATTTTTT
1 AATTAATTTTTT
44998388 TTTCAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.35
11 6 0.30
12 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
AATTAATTTTTT
Found at i:45001518 original size:29 final size:28
Alignment explanation
Indices: 45001465--45001519 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
45001455 CATGGGCGAT
45001465 GACACGGGCATGTCTAGGCCGTGTGAGA
1 GACACGGGCATGTCTAGGCCGTGTGAGA
* *
45001493 GACACGGGCGTGTGCTCGGCCGTGTGA
1 GACACGGGCATGT-CTAGGCCGTGTGA
45001520 AAACCCCTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.16, C:0.24, G:0.42, T:0.18
Consensus pattern (28 bp):
GACACGGGCATGTCTAGGCCGTGTGAGA
Found at i:45011177 original size:13 final size:13
Alignment explanation
Indices: 45011159--45011183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45011149 AGGCCGTGTG
45011159 AGGGACACGGGCC
1 AGGGACACGGGCC
45011172 AGGGACACGGGC
1 AGGGACACGGGC
45011184 GTGTGCTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:45025653 original size:25 final size:25
Alignment explanation
Indices: 45025619--45025670 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
45025609 ATTAAAGAAC
45025619 ATTGAAATTTATCTTTGCATCAATG
1 ATTGAAATTTATCTTTGCATCAATG
45025644 ATTGAAATTTATCTTTGCATCAATG
1 ATTGAAATTTATCTTTGCATCAATG
45025669 AT
1 AT
45025671 CAAACCCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (25 bp):
ATTGAAATTTATCTTTGCATCAATG
Found at i:45030160 original size:47 final size:47
Alignment explanation
Indices: 45030094--45030858 Score: 1253
Period size: 47 Copynumber: 16.1 Consensus size: 47
45030084 GAAATGATAG
*
45030094 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
45030141 TAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
45030190 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
45030237 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
45030284 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT--GTGA
*
45030333 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
45030380 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
45030429 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
45030477 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
45030524 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTCTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
45030571 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
45030618 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
45030665 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
45030714 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
45030761 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
45030808 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
45030855 TAAG
1 TAAG
45030859 TCCCGAAGGG
Statistics
Matches: 676, Mismatches: 33, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
47 447 0.66
48 48 0.07
49 181 0.27
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:45030258 original size:96 final size:94
Alignment explanation
Indices: 45030094--45030858 Score: 1253
Period size: 96 Copynumber: 8.0 Consensus size: 94
45030084 GAAATGATAG
* *
45030094 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
45030159 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTG--TATATATGTGA
*
45030190 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
45030255 GTGATGAATGTGAAAGTGTATATATGAGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
45030284 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT--GTGATAAGGCCTAATGGCCG
*
45030349 ATGTGATGAATGTGAAAGTGTATATATGAGA
64 ATGTGATGAATGTGAAAGTGTATATATGTGA
45030380 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
45030444 ATGTGATGAATGTGAAAGTGTATATATATGTGA
64 ATGTGATGAATGTGAAAGTG--TATATATGTGA
*
45030477 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
45030542 GTGATGAATGTGAAAGTCTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* *
45030571 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
45030636 GTGATGAATGTGAAAGTGTATATATGAGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
*
45030665 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
45030730 ATGTGATGAATGTGAAAGTGTATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
45030761 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
45030826 GTGATGGATGTGAAAGTGTATAAATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
45030855 TAAG
1 TAAG
45030859 TCCCGAAGGG
Statistics
Matches: 635, Mismatches: 25, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
94 242 0.38
95 46 0.07
96 295 0.46
97 45 0.07
98 7 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:45030352 original size:143 final size:143
Alignment explanation
Indices: 45030094--45030858 Score: 1270
Period size: 143 Copynumber: 5.4 Consensus size: 143
45030084 GAAATGATAG
* *
45030094 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
45030159 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
45030224 TGTATATACGTGA
131 TGTATATATGTGA
*
45030237 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
45030302 GTGATGAATGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
45030367 TGTATATATGAGA
131 TGTATATATGTGA
45030380 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
45030444 ATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAA
64 ATGTGATGAATGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
45030509 AGTGTATATATGTGA
129 AGTGTATATATGTGA
*
45030524 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTCTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
45030589 GTGATGAATGTGAAAGCG--TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
45030652 TGTATATATGAGA
131 TGTATATATGTGA
*
45030665 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
45030730 ATGTGATGAATGTGAAAGTGTATATAT--GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
64 ATGTGATGAATGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
45030793 AGTATATATATGTGA
129 AGTGTATATATGTGA
* * * * * * * *
45030808 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
45030859 TCCCGAAGGG
Statistics
Matches: 586, Mismatches: 29, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
141 103 0.18
142 12 0.02
143 329 0.56
144 126 0.22
145 16 0.03
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGA
Found at i:45031033 original size:37 final size:37
Alignment explanation
Indices: 45030977--45031055 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
45030967 CTGAGCTCTA
* * * *
45030977 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
45031014 AAGACCCGATAACTTCGTGTGGAGATTATGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
45031051 AAGAC
1 AAGAC
45031056 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:45037397 original size:14 final size:14
Alignment explanation
Indices: 45037378--45037404 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45037368 GAGCGTTAGA
45037378 ATTATTTGACTAAG
1 ATTATTTGACTAAG
45037392 ATTATTTGACTAA
1 ATTATTTGACTAA
45037405 TATGATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (14 bp):
ATTATTTGACTAAG
Found at i:45042909 original size:13 final size:13
Alignment explanation
Indices: 45042893--45042937 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
45042883 AAAGAGAAAA
45042893 TATAATCAGAACT
1 TATAATCAGAACT
* **
45042906 TATAATGAGAAGA
1 TATAATCAGAACT
*
45042919 TATGATCAGAACT
1 TATAATCAGAACT
45042932 TATAAT
1 TATAAT
45042938 GAGATTATTA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (13 bp):
TATAATCAGAACT
Found at i:45042926 original size:26 final size:26
Alignment explanation
Indices: 45042886--45042941 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
45042876 ATCTCAAAAA
45042886 GAGAAAATATAATCAGAACTTATAAT
1 GAGAAAATATAATCAGAACTTATAAT
* *
45042912 GAGAAGATATGATCAGAACTTATAAT
1 GAGAAAATATAATCAGAACTTATAAT
45042938 GAGA
1 GAGA
45042942 TTATTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (26 bp):
GAGAAAATATAATCAGAACTTATAAT
Found at i:45043045 original size:69 final size:71
Alignment explanation
Indices: 45042926--45043063 Score: 235
Period size: 69 Copynumber: 2.0 Consensus size: 71
45042916 AGATATGATC
45042926 AGAACTTATAATGAGATTATTAAAAATAAAAAAACTTTACAAGTAATGTATGAAAAGGAAATTTT
1 AGAACTTATAATGAGATTATT-AAAATAAAAAAACTTTACAAGTAATGTATGAAAAGGAAATTTT
45042991 TTTTATT
65 TTTTATT
* *
45042998 AGAATTTATAATGAGATTATT-AAA-AAAAAAACTTTACAAGTAATGTATGAAAAGGAATTTTTT
1 AGAACTTATAATGAGATTATTAAAATAAAAAAACTTTACAAGTAATGTATGAAAAGGAAATTTTT
45043061 TTT
66 TTT
45043064 GACAAAATGA
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
69 41 0.64
70 3 0.05
72 20 0.31
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.37
Consensus pattern (71 bp):
AGAACTTATAATGAGATTATTAAAATAAAAAAACTTTACAAGTAATGTATGAAAAGGAAATTTTT
TTTATT
Found at i:45043213 original size:2 final size:2
Alignment explanation
Indices: 45043206--45043232 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45043196 CACATTGTAT
45043206 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
45043233 GAGTAATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45051261 original size:40 final size:40
Alignment explanation
Indices: 45051199--45051382 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
45051189 TATTCGAATG
*
45051199 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
45051239 ATATCCGGACTAAGATCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* *
45051279 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
45051319 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
45051359 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
45051383 CTTGTGCAAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 121 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:45051332 original size:80 final size:79
Alignment explanation
Indices: 45051199--45051418 Score: 275
Period size: 80 Copynumber: 2.8 Consensus size: 79
45051189 TATTCGAATG
* * * *
45051199 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGACTATATCCGGGCTAAG-TCCCGAAGGC
* *
45051263 ATTTGTGCGAGTTG-CT
64 ATTTATGCGAG-TGACC
45051279 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
*
45051344 TTTATGCTAGTGACC
65 TTTATGCGAGTGACC
* * ** *
45051359 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTGGTTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAG
45051419 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
78 14 0.11
79 20 0.16
80 91 0.73
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCGAGTGACC
Found at i:45055249 original size:17 final size:17
Alignment explanation
Indices: 45055224--45055257 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45055214 AGTTAATCAA
*
45055224 AATATATCTCATAAATT
1 AATACATCTCATAAATT
*
45055241 AATACATCTCTTAAATT
1 AATACATCTCATAAATT
45055258 TGAACATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (17 bp):
AATACATCTCATAAATT
Found at i:45072741 original size:20 final size:17
Alignment explanation
Indices: 45072702--45072735 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
45072692 AGAAGGAGTA
45072702 AGAGTTTGTTGTACTGG
1 AGAGTTTGTTGTACTGG
45072719 AGAGTTTGTTGTACTGG
1 AGAGTTTGTTGTACTGG
45072736 TCGAGAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.35, T:0.41
Consensus pattern (17 bp):
AGAGTTTGTTGTACTGG
Found at i:45094265 original size:21 final size:21
Alignment explanation
Indices: 45094239--45094281 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
45094229 AGAAGAGGGA
45094239 TTCCCAAGTACAATCCTAAAT
1 TTCCCAAGTACAATCCTAAAT
45094260 TTCCCAAGTACAATCCTAAAT
1 TTCCCAAGTACAATCCTAAAT
45094281 T
1 T
45094282 GTGAACCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.28, G:0.05, T:0.30
Consensus pattern (21 bp):
TTCCCAAGTACAATCCTAAAT
Found at i:45102927 original size:28 final size:29
Alignment explanation
Indices: 45102871--45102948 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 29
45102861 ATGTACCATA
* *
45102871 CTCGATAC-CTCGCACGCTAAGTGCTATT
1 CTCGATACTTTCGCACACTAAGTGCTATT
* *
45102899 CTGGAT-GTTTCGCACACTAAGTG-TCATT
1 CTCGATACTTTCGCACACTAAGTGCT-ATT
45102927 CTCGATACTTT-GCACACTAAGT
1 CTCGATACTTTCGCACACTAAGT
45102949 TCCATTTATA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
27 1 0.02
28 37 0.90
29 3 0.07
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (29 bp):
CTCGATACTTTCGCACACTAAGTGCTATT
Found at i:45102954 original size:28 final size:28
Alignment explanation
Indices: 45102866--45102954 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
45102856 ACCATATGTA
* * * * *
45102866 CCATACTCGATACCTCGCACGCTAAGTG
1 CCATTCTCGATACTTTGCACACTAAGTT
* * *
45102894 CTATTCTGGAT-GTTTCGCACACTAAGTGT
1 CCATTCTCGATACTTT-GCACACTAAGT-T
45102923 -CATTCTCGATACTTTGCACACTAAGTT
1 CCATTCTCGATACTTTGCACACTAAGTT
45102950 CCATT
1 CCATT
45102955 TATATATATA
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
27 2 0.04
28 41 0.89
29 3 0.07
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (28 bp):
CCATTCTCGATACTTTGCACACTAAGTT
Found at i:45107033 original size:43 final size:44
Alignment explanation
Indices: 45106985--45107093 Score: 132
Period size: 43 Copynumber: 2.5 Consensus size: 44
45106975 TCCTAGATAT
* * * *
45106985 GGTCTTACATGTTATCACATAT-CGATGCCACTGTCTCACACAG
1 GGTCTTACATGTAATCACATATACAATGCCAATGTCCCACACAG
* * * *
45107028 GGTCTTACATGAAATCACA-ATACAATGTCAATGTCCCAGACAT
1 GGTCTTACATGTAATCACATATACAATGCCAATGTCCCACACAG
45107071 GGTCTTACATGTAATCACATATA
1 GGTCTTACATGTAATCACATATA
45107094 GAGTCGATGC
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
42 2 0.04
43 50 0.91
44 3 0.05
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (44 bp):
GGTCTTACATGTAATCACATATACAATGCCAATGTCCCACACAG
Found at i:45107207 original size:45 final size:47
Alignment explanation
Indices: 45107098--45107223 Score: 132
Period size: 50 Copynumber: 2.6 Consensus size: 47
45107088 CATATAGAGT
*
45107098 CGATGCCATGTCCCATAAATGGTCTTACACTGACTCTCTTATATCAAGGC
1 CGATGCCATGTCCCA-AAATGGTCTTACACTGAC-CAC-TATATCAAGGC
* * *
45107148 CGAAGCCATATCCCAAATATGCTCTTACACTGA-CAC-ATATCAA-GC
1 CGATGCCATGTCCCAAA-ATGGTCTTACACTGACCACTATATCAAGGC
* *
45107193 TGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCA-AAATGGTCTTACACT
45107224 AGTTCACATG
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
45 26 0.40
46 8 0.12
48 2 0.03
49 2 0.03
50 27 0.42
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAAAATGGTCTTACACTGACCACTATATCAAGGC
Found at i:45110020 original size:40 final size:39
Alignment explanation
Indices: 45109960--45110041 Score: 110
Period size: 40 Copynumber: 2.1 Consensus size: 39
45109950 TATATATAGT
*
45109960 CGAAGCTATCTCAAATTGCACACCAAGTGCCACTTTTAAC
1 CGAAGCTATCTCAAACTGCACACCAAGTGCCA-TTTTAAC
* * * *
45110000 CGAAGCTATTTCGAACTGCACACTAAGTGCCATTTTAGC
1 CGAAGCTATCTCAAACTGCACACCAAGTGCCATTTTAAC
45110039 CGA
1 CGA
45110042 TAAGTCGTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 9 0.24
40 28 0.76
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (39 bp):
CGAAGCTATCTCAAACTGCACACCAAGTGCCATTTTAAC
Found at i:45113099 original size:13 final size:13
Alignment explanation
Indices: 45113061--45113126 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
45113051 GGAGTTTGGA
45113061 GTTTATGGTTTAAG
1 GTTTA-GGTTTAAG
* * *
45113075 ATTCATGGTTTAAT
1 GTTTA-GGTTTAAG
45113089 GTTTAGGTTTAAG
1 GTTTAGGTTTAAG
* *
45113102 GTTTAAGTTTAGG
1 GTTTAGGTTTAAG
45113115 GTTTAGAGTTTA
1 GTTTAG-GTTTA
45113127 TTGGTAAGGT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
13 23 0.55
14 19 0.45
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (13 bp):
GTTTAGGTTTAAG
Found at i:45113126 original size:20 final size:20
Alignment explanation
Indices: 45113081--45113119 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
45113071 TAAGATTCAT
45113081 GGTTTAATGTTTAGGTTTAA
1 GGTTTAATGTTTAGGTTTAA
45113101 GGTTTAA-GTTTAGGGTTTA
1 GGTTTAATGTTTA-GGTTTA
45113120 GAGTTTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (20 bp):
GGTTTAATGTTTAGGTTTAA
Found at i:45113444 original size:26 final size:27
Alignment explanation
Indices: 45113382--45113444 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
45113372 ATTTAGGAAC
45113382 TAATTATTTAATTTTTGAAAATTTTTAA
1 TAATT-TTTAATTTTTGAAAATTTTTAA
**
45113410 TAA-AATTAA-TTTTGAAAATATTTT-A
1 TAATTTTTAATTTTTGAAAAT-TTTTAA
45113435 TAATTTTTAA
1 TAATTTTTAA
45113445 AATTTTTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
25 14 0.48
26 12 0.41
28 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (27 bp):
TAATTTTTAATTTTTGAAAATTTTTAA
Found at i:45113452 original size:19 final size:19
Alignment explanation
Indices: 45113416--45113451 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45113406 TTAATAAAAT
45113416 TAATTTTGAAAATATTTTA
1 TAATTTTGAAAATATTTTA
*
45113435 TAATTTTTAAAAT-TTTT
1 TAATTTTGAAAATATTTT
45113452 TGAGGTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TAATTTTGAAAATATTTTA
Found at i:45117194 original size:46 final size:46
Alignment explanation
Indices: 45117127--45117252 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
45117117 AACCCGCCCC
* * * *
45117127 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
45117173 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
45117219 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45117253 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:45117271 original size:46 final size:46
Alignment explanation
Indices: 45117129--45117271 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
45117119 CCCGCCCCTA
* * *
45117129 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGT-TTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-TCATCCATCC-T
* * *
45117174 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCATCCATCCT
*
45117221 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATCCATCCT
45117267 AGTGA
1 AGTGA
45117272 CATGTCACTT
Statistics
Matches: 80, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
44 9 0.11
46 66 0.82
50 5 0.06
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATCCATCCT
Found at i:45119973 original size:27 final size:27
Alignment explanation
Indices: 45119873--45119954 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
45119863 ATCCTATTAA
* * * **
45119873 CCTTTGTGGCGTACTATGTATGAATCA
1 CCTTTGTGGCATACTCTGTATGGATTG
*
45119900 CCTTTGTGGCATACTTTGTATGGATTG
1 CCTTTGTGGCATACTCTGTATGGATTG
45119927 CCTTTGTGGCATACTCTGTATGGATTG
1 CCTTTGTGGCATACTCTGTATGGATTG
45119954 C
1 C
45119955 TTTTTTGGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.40
Consensus pattern (27 bp):
CCTTTGTGGCATACTCTGTATGGATTG
Found at i:45121495 original size:43 final size:42
Alignment explanation
Indices: 45121448--45121585 Score: 152
Period size: 44 Copynumber: 3.2 Consensus size: 42
45121438 TCCCAGATGT
*
45121448 GGTCTTACATGTAATCAAATATAGATGCCATTGTCCCAGACAA
1 GGTCTTACATGTAATCAAATA-AGATGCCAATGTCCCAGACAA
* * * *
45121491 GGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATAAGATGCCAATGTCCCAGACAA
* * **
45121533 GGTCTTACATGTAAATCATAAGT-CGATGCCAACGTCCCAGACGT
1 GGTCTTACATGT-AATCA-AA-TAAGATGCCAATGTCCCAGACAA
45121577 GGTCTTACA
1 GGTCTTACA
45121586 CAAAAACACA
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
42 28 0.34
43 24 0.29
44 30 0.36
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATAAGATGCCAATGTCCCAGACAA
Found at i:45121530 original size:42 final size:42
Alignment explanation
Indices: 45121429--45121586 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 42
45121419 AGCTCGTACA
** ** * * *
45121429 ATGCCAACCTCCCAGATGTGGTCTTACATGTAATCAAATATAG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
* *
45121472 ATGCCATTGTCCCAGACAAGGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
*
45121514 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCATAAGT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-AA-TACG
* *
45121558 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
45121587 AAAAACACAT
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 28 0.29
43 38 0.39
44 30 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:45121584 original size:86 final size:85
Alignment explanation
Indices: 45121429--45121586 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
45121419 AGCTCGTACA
** **
45121429 ATGCCAACCTCCCAGATGTGGTCTTACATGTAATCAAATATAGATGCCATTGTCCCAGACAAGGT
1 ATGCCAACCTCCCAGACATGGTCTTACATGTAATCAAATATAGATGCCAACGTCCCAGACAAGGT
45121494 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
** * * **
45121514 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCATAA-GTCGATGCCAACGTCCCAGACGTG
1 ATGCCAACCTCCCAGACATGGTCTTACATGT-AATCA-AATATAGATGCCAACGTCCCAGACAAG
45121578 GTCTTACAC
64 GTCTTACAC
45121587 AAAAACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 27 0.44
86 32 0.52
87 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAACCTCCCAGACATGGTCTTACATGTAATCAAATATAGATGCCAACGTCCCAGACAAGGT
CTTACACGAAATCAAATACG
Found at i:45127230 original size:21 final size:21
Alignment explanation
Indices: 45127206--45127254 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
45127196 GGCCACAAGT
45127206 CCGTGTGAAAGGGCGACACGC
1 CCGTGTGAAAGGGCGACACGC
45127227 CCGTGTGAAAGGGCGACACGC
1 CCGTGTGAAAGGGCGACACGC
45127248 CCGTGTG
1 CCGTGTG
45127255 TCTTCCTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.29, G:0.39, T:0.12
Consensus pattern (21 bp):
CCGTGTGAAAGGGCGACACGC
Found at i:45128505 original size:48 final size:48
Alignment explanation
Indices: 45128450--45128685 Score: 242
Period size: 48 Copynumber: 4.9 Consensus size: 48
45128440 GGTGAATTGT
* *
45128450 CGATGCCATGTTCCAAACATGGTCTTACACTGGCT-TACATGTCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATATCGAGGC
* * * * *
45128498 CGATGCCAGGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAGGC
* * * * * * **
45128546 CTATGCATATGTCCCAGACATGGTTTTACACTGGCTCTCACAAC-ATCAC
1 CGATGC-CATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGA-GGC
* * *
45128595 CAATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAGGC
* * *
45128643 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
45128686 ACCCAAATGG
Statistics
Matches: 152, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
48 116 0.76
49 36 0.24
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAGGC
Found at i:45128632 original size:97 final size:96
Alignment explanation
Indices: 45128450--45128676 Score: 264
Period size: 97 Copynumber: 2.4 Consensus size: 96
45128440 GGTGAATTGT
* * ** *
45128450 CGATGCCATGTTCCAAACATGGTCTTACACTGGCT-T-AC-ATGTCGAGGCCGATGCCAGGTCCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATC-A--CCAATGCCAGGTCCC
*
45128512 AAACATGGTCTTACACTAGCTCTCATCTCAAT-GC
63 AAACATGGTCTTACACTAGCTCTCATATC-ATGGC
* * * * *
45128546 CTATGCATATGTCCCAGACATGGTTTTACACTGGCTCTCACAACATCACCAATGCCATGTTCCAA
1 CGATGC-CATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATCACCAATGCCAGGTCCCAA
* *
45128611 ACATGGTCTTACACTGGCTCTCATATCGTGGC
65 ACATGGTCTTACACTAGCTCTCATATCATGGC
45128643 CGATGCCATGTCCCAGACATGGTCTTACACTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC
45128677 ACACATATCA
Statistics
Matches: 110, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
96 32 0.29
97 71 0.65
98 1 0.01
99 3 0.03
100 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATCACCAATGCCAGGTCCCAAA
CATGGTCTTACACTAGCTCTCATATCATGGC
Found at i:45138302 original size:27 final size:27
Alignment explanation
Indices: 45138254--45138412 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
45138244 CCGAGGCTGC
* *
45138254 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
45138281 CAGATATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
45138307 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
45138334 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
45138361 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
45138388 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
45138413 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:45138354 original size:54 final size:54
Alignment explanation
Indices: 45138272--45138412 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
45138262 GTGACGAAGT
* *
45138272 CACCAGATACAGAT-ATTGTGGTAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
45138326 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
45138380 CACCAAATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
45138413 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:45140032 original size:26 final size:26
Alignment explanation
Indices: 45139976--45140082 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
45139966 TGAAATTCCC
45139976 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
45140001 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
45140027 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
45140053 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45140079 ATCA
1 ATCA
45140083 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 20 0.26
26 57 0.74
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45145358 original size:27 final size:28
Alignment explanation
Indices: 45145328--45145468 Score: 195
Period size: 27 Copynumber: 5.2 Consensus size: 28
45145318 GTGACGAAGT
* *
45145328 CACCACATACAGATAT-TGTGGTAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
45145355 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
*
45145382 CACCAGAT-CAGATATATGTGGCATAGC
1 CACCAGATACAGATATATGTGGCAGAGC
45145409 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
*
45145436 CACCAGAT-CAGATA-ATTGTGGCATAGC
1 CACCAGATACAGATATA-TGTGGCAGAGC
45145463 CACCAG
1 CACCAG
45145469 GACGCTTCCT
Statistics
Matches: 104, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
26 9 0.09
27 95 0.91
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (28 bp):
CACCAGATACAGATATATGTGGCAGAGC
Found at i:45145410 original size:54 final size:54
Alignment explanation
Indices: 45145328--45145468 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 54
45145318 GTGACGAAGT
* * *
45145328 CACCACATACAGATAT-TGTGGTAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATATATGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
45145382 CACCAGATCAGATATATGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATATATGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
45145436 CACCAGATCAGATA-ATTGTGGCATAGCCACCAG
1 CACCAGATCAGATATA-TGTGGCATAGCCACCAG
45145469 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
53 8 0.10
54 74 0.90
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATATATGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:45145601 original size:26 final size:27
Alignment explanation
Indices: 45145572--45145647 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
45145562 CAAAATTAAC
* *
45145572 CCTAGGGGTATAACGGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTCCAA
45145598 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTTCCA-A
* *
45145626 CATAGGGGTATTACAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
45145648 AGCTGTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 23 0.52
28 21 0.48
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCCAA
Found at i:45146756 original size:26 final size:26
Alignment explanation
Indices: 45146727--45146834 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
45146717 TGAAATTCCC
*
45146727 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
45146753 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
45146779 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
45146805 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45146831 ATCA
1 ATCA
45146835 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45150227 original size:31 final size:31
Alignment explanation
Indices: 45150166--45150227 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
45150156 ATTTAAAACA
*
45150166 AAACCAAATCCAAAATTGAAAACCAAACAGT
1 AAACCAAATCCAAAATTGAAAACAAAACAGT
45150197 AAACCAAATCCAAAATTGAAAACAAAACAGT
1 AAACCAAATCCAAAATTGAAAACAAAACAGT
45150228 CTAGAAAGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.21, G:0.06, T:0.13
Consensus pattern (31 bp):
AAACCAAATCCAAAATTGAAAACAAAACAGT
Found at i:45155912 original size:25 final size:25
Alignment explanation
Indices: 45155884--45155935 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
45155874 TATGACTATG
*
45155884 GATAAAGGACACACTCATGAAGAAC
1 GATAAAGGACACACTCACGAAGAAC
*
45155909 GATAGAGGACACACTCACGAAGAAC
1 GATAAAGGACACACTCACGAAGAAC
45155934 GA
1 GA
45155936 AGGCTACGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (25 bp):
GATAAAGGACACACTCACGAAGAAC
Found at i:45158535 original size:11 final size:11
Alignment explanation
Indices: 45158519--45158549 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
45158509 CCTTCTATCT
45158519 TTTTATTTTTA
1 TTTTATTTTTA
45158530 TTTTATTTTTA
1 TTTTATTTTTA
45158541 TTTTCATTT
1 TTTT-ATTT
45158550 CAATTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:45161438 original size:13 final size:13
Alignment explanation
Indices: 45161420--45161448 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
45161410 TTTAGTTTAA
45161420 TTAGTTAATTAGT
1 TTAGTTAATTAGT
45161433 TTAGTTAATTAGT
1 TTAGTTAATTAGT
45161446 TTA
1 TTA
45161449 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:45162286 original size:10 final size:10
Alignment explanation
Indices: 45162271--45162302 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
45162261 TAAATACATT
45162271 TAATTAAAGA
1 TAATTAAAGA
45162281 TAATTAAAGA
1 TAATTAAAGA
45162291 TAATTAAA-A
1 TAATTAAAGA
45162300 TAA
1 TAA
45162303 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:45162328 original size:27 final size:26
Alignment explanation
Indices: 45162298--45162360 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
45162288 AGATAATTAA
45162298 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
45162325 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
45162352 AATATAAAT
1 AATA-AAAT
45162361 AAAATAGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:45162347 original size:15 final size:15
Alignment explanation
Indices: 45162327--45162356 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45162317 ATAATCCTAA
*
45162327 TAATTATCTTAATAT
1 TAATTATCCTAATAT
45162342 TAATTATCCTAATAT
1 TAATTATCCTAATAT
45162357 AAATAAAATA
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:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:45163958 original size:13 final size:14
Alignment explanation
Indices: 45163942--45163975 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
45163932 TTAATATCTG
45163942 AATAAAATAAAAT-
1 AATAAAATAAAATA
*
45163955 AATAAGATAAAATA
1 AATAAAATAAAATA
45163969 AATAAAA
1 AATAAAA
45163976 ATTGGGTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:45170154 original size:10 final size:10
Alignment explanation
Indices: 45170139--45170170 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
45170129 TAAATACATT
45170139 TAATTAAAGA
1 TAATTAAAGA
45170149 TAATTAAAGA
1 TAATTAAAGA
45170159 TAATTAAA-A
1 TAATTAAAGA
45170168 TAA
1 TAA
45170171 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:45170196 original size:27 final size:26
Alignment explanation
Indices: 45170166--45170228 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
45170156 AGATAATTAA
*
45170166 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCATAAAATT-AATAATCCT
* * *
45170193 AATAATTATCATAATATTAATTATCCT
1 AATAA-AATCATAAAATTAATAATCCT
45170220 AATATAAAT
1 AATA-AAAT
45170229 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCATAAAATTAATAATCCT
Found at i:45170215 original size:15 final size:15
Alignment explanation
Indices: 45170195--45170224 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45170185 ATAATCCTAA
45170195 TAATTATCATAATAT
1 TAATTATCATAATAT
*
45170210 TAATTATCCTAATAT
1 TAATTATCATAATAT
45170225 AAATAAAATG
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:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTATCATAATAT
Done.