Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 6 of 250
Found at i:1663973 original size:18 final size:17
Alignment explanation
Indices: 1663922--1663975 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 17
1663912 TATTTATCTA
1663922 TTATTTTTGTTTTTATTT-
1 TTATTTTT-TTTTT-TTTG
1663940 TTATTTTTTTTATTTTTG
1 TTATTTTTTTT-TTTTTG
1663958 TTATTTTTTTCTTTTTTG
1 TTATTTTTTT-TTTTTTG
1663976 GATGTTCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.18
18 26 0.79
19 1 0.03
ACGTcount: A:0.09, C:0.02, G:0.06, T:0.83
Consensus pattern (17 bp):
TTATTTTTTTTTTTTTG
Found at i:1663974 original size:9 final size:9
Alignment explanation
Indices: 1663922--1663967 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
1663912 TATTTATCTA
1663922 TTATTTTTGT
1 TTATTTTT-T
*
1663932 TT-TTATTT
1 TTATTTTTT
1663940 TTATTTTTT
1 TTATTTTTT
*
1663949 TTATTTTTG
1 TTATTTTTT
1663958 TTATTTTTT
1 TTATTTTTT
1663967 T
1 T
1663968 CTTTTTTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
8 3 0.10
9 26 0.84
10 2 0.06
ACGTcount: A:0.11, C:0.00, G:0.04, T:0.85
Consensus pattern (9 bp):
TTATTTTTT
Found at i:1664565 original size:21 final size:21
Alignment explanation
Indices: 1664541--1664596 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
1664531 GTGGCTAACC
**
1664541 CACACGGGCGTGTGTTTTGGA
1 CACACGGGCGTGTGTGGTGGA
* * * *
1664562 CACACGGCCATGTCTGGTGGG
1 CACACGGGCGTGTGTGGTGGA
1664583 CACACGGGCGTGTG
1 CACACGGGCGTGTG
1664597 AGACCCTCAT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.14, C:0.25, G:0.39, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTGTGGTGGA
Found at i:1664724 original size:22 final size:22
Alignment explanation
Indices: 1664696--1664738 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1664686 GGTTCACACG
1664696 GGCGTGTGCCTCTCTTTACAGA
1 GGCGTGTGCCTCTCTTTACAGA
*
1664718 GGCGTGTGCCTTTCTTTACAG
1 GGCGTGTGCCTCTCTTTACAG
1664739 GGGCATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.26, G:0.28, T:0.35
Consensus pattern (22 bp):
GGCGTGTGCCTCTCTTTACAGA
Found at i:1669871 original size:58 final size:60
Alignment explanation
Indices: 1669809--1669933 Score: 146
Period size: 58 Copynumber: 2.1 Consensus size: 60
1669799 GAATAGCTGA
* * *
1669809 GTGACTATCTTGTAATTTTTCATAACTAGGTGACC-AAAAA-AAATTTACTAATAGTCAG
1 GTGACTATCTTGTAACTTCTCATAACTAGGTGACCAAAAAACAAATTCACTAATAGTCAG
* * ** * **
1669867 GTGACCATTTTGTAACTTCTCATAGTTGGGTGACCAAAAAACAAATTCACTAATAGTTGG
1 GTGACTATCTTGTAACTTCTCATAACTAGGTGACCAAAAAACAAATTCACTAATAGTCAG
1669927 GTGACTA
1 GTGACTA
1669934 CTAGTGTAGT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 28 0.52
59 5 0.09
60 21 0.39
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (60 bp):
GTGACTATCTTGTAACTTCTCATAACTAGGTGACCAAAAAACAAATTCACTAATAGTCAG
Found at i:1679142 original size:24 final size:25
Alignment explanation
Indices: 1679104--1679189 Score: 65
Period size: 24 Copynumber: 3.5 Consensus size: 25
1679094 AAAAAAATTT
*
1679104 AAATTACACATTTTATAAATATTAA
1 AAATTACAAATTTTATAAATATTAA
*
1679129 AAATTA-AAATTTTA-AAAT-TAAA
1 AAATTACAAATTTTATAAATATTAA
*
1679151 TTAAATTAACATAACTTT-TAAATATTAA
1 --AAATT-ACA-AATTTTATAAATATTAA
*
1679179 ATATTA-AAATT
1 AAATTACAAATT
1679190 ACTATTATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
22 3 0.06
23 7 0.15
24 13 0.27
25 8 0.17
26 5 0.10
27 9 0.19
28 3 0.06
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (25 bp):
AAATTACAAATTTTATAAATATTAA
Found at i:1685848 original size:206 final size:204
Alignment explanation
Indices: 1685494--1685901 Score: 566
Period size: 206 Copynumber: 2.0 Consensus size: 204
1685484 ATTTGATTGG
* * * *
1685494 ATATTTCTCGTTAAAAGTTGTTCTGTGGACAAAAACACTCTTGGCTCATTAATTGGCTTCATCAT
1 ATATTTCTCGTTAAAAGTTGTTCTGTAGACAAAAACACTCTTGGCTCATTAATTGACCTCATCAC
* * * ** *
1685559 ATTAGTGTCGCAACATTAATGGTAGTCTACTAGTCTTAGGCATGTCTTCAAGGTTGTGTTGTGAC
66 ATCAGTGTCGCAACATTAATAGCAGTCTACTAGTCTTAGGCATGTCTTCAAGGTTGTGCCGCGAC
* *
1685624 ACTGAAGGCATACTACTCCTTTTTTGAGTACTCTGTTCACTGTGTTGCGACATCGAAGCTCCGTG
131 ACTAAAGGCAGACTACTCC--TTTTGAGTACTCTGTTCACTGTGTTGCGACATCGAAGCTCCGTG
1685689 TTGCAACATCA
194 TTGCAACATCA
* ** * *
1685700 ATATTTC-CTGTTAAAAGTTGTTGTGTAGATGAAAACACTCTTGGCTTATTAATTGACCTCATTA
1 ATATTTCTC-GTTAAAAGTTGTTCTGTAGACAAAAACACTCTTGGCTCATTAATTGACCTCATCA
* * *
1685764 CGTCAGTGTTGCAACATTGATAGCAGTCTACTAGTCTTAGGCATGTCTTCAAGGTTGTGCCGCGA
65 CATCAGTGTCGCAACATTAATAGCAGTCTACTAGTCTTAGGCATGTCTTCAAGGTTGTGCCGCGA
* * * *
1685829 CACTAAAGGCAGACTACTCCTTTTGAGTACTTTGTTCACTGTGTTGCGATATTGAAGCTCTGTGT
130 CACTAAAGGCAGACTACTCCTTTTGAGTACTCTGTTCACTGTGTTGCGACATCGAAGCTCCGTGT
1685894 TGCAACAT
195 TGCAACAT
1685902 TACAGGTAGT
Statistics
Matches: 177, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
204 49 0.28
205 1 0.01
206 127 0.72
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (204 bp):
ATATTTCTCGTTAAAAGTTGTTCTGTAGACAAAAACACTCTTGGCTCATTAATTGACCTCATCAC
ATCAGTGTCGCAACATTAATAGCAGTCTACTAGTCTTAGGCATGTCTTCAAGGTTGTGCCGCGAC
ACTAAAGGCAGACTACTCCTTTTGAGTACTCTGTTCACTGTGTTGCGACATCGAAGCTCCGTGTT
GCAACATCA
Found at i:1686995 original size:5 final size:5
Alignment explanation
Indices: 1686985--1687028 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
1686975 TTCTGATACG
*
1686985 TATGA TATGA TATGA TACGA TATGA TATGA TATGA TATGA TATG
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATG
1687029 TGGTGATGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (5 bp):
TATGA
Found at i:1698717 original size:25 final size:24
Alignment explanation
Indices: 1698681--1698769 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 24
1698671 TTCTAACGAG
*
1698681 AAGCTCA-TAAGAGCCATAATCAGA
1 AAGCTCACAAAGAGCCAT-ATCAGA
* *
1698705 AAGTTCACAAAGAACCATATC-GA
1 AAGCTCACAAAGAGCCATATCAGA
*
1698728 GAAGCTCACGAAA-AGCC-TATCAGG
1 -AAGCTCAC-AAAGAGCCATATCAGA
1698752 AAGCTCACAAAGAGCCAT
1 AAGCTCACAAAGAGCCAT
1698770 GTAACGGGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
22 3 0.06
23 18 0.34
24 21 0.40
25 11 0.21
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.15
Consensus pattern (24 bp):
AAGCTCACAAAGAGCCATATCAGA
Found at i:1698761 original size:47 final size:48
Alignment explanation
Indices: 1698677--1698769 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 48
1698667 AGCTTTCTAA
* * *
1698677 CGAGAAGCTCATAAGAGCCATAATCAGAAAGTTCACAAAGAACCATAT
1 CGAGAAGCTCAGAAAAGCCATAATCAGAAAGCTCACAAAGAACCATAT
* *
1698725 CGAGAAGCTCACGAAAAGCC-T-ATCAGGAAGCTCACAAAGAGCCAT
1 CGAGAAGCTCA-GAAAAGCCATAATCAGAAAGCTCACAAAGAACCAT
1698770 GTAACGGGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
47 21 0.54
48 12 0.31
49 6 0.15
ACGTcount: A:0.43, C:0.24, G:0.19, T:0.14
Consensus pattern (48 bp):
CGAGAAGCTCAGAAAAGCCATAATCAGAAAGCTCACAAAGAACCATAT
Found at i:1704514 original size:16 final size:16
Alignment explanation
Indices: 1704493--1704523 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1704483 TGTATTTTGT
1704493 ACTTGAATGTGCATGA
1 ACTTGAATGTGCATGA
*
1704509 ACTTGAATTTGCATG
1 ACTTGAATGTGCATG
1704524 CTTTGTGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (16 bp):
ACTTGAATGTGCATGA
Found at i:1705784 original size:12 final size:12
Alignment explanation
Indices: 1705767--1705791 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1705757 TGTGAAAAAT
1705767 AAAATAAAATAA
1 AAAATAAAATAA
1705779 AAAATAAAATAA
1 AAAATAAAATAA
1705791 A
1 A
1705792 GAACACACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:1715500 original size:27 final size:27
Alignment explanation
Indices: 1715457--1715560 Score: 127
Period size: 27 Copynumber: 3.9 Consensus size: 27
1715447 CAAGTTTAGA
* *
1715457 CCTGGTGAGCTGAGGTTCGCCAGTAGG
1 CCTGGTGAGCTGGGGTTCGCCAGTAAG
* * * *
1715484 CCTGGAGAGTTGGGGTTTGCTAGTAAG
1 CCTGGTGAGCTGGGGTTCGCCAGTAAG
* *
1715511 CCTGGTGAGCTGGGGTTCACTAGTAAG
1 CCTGGTGAGCTGGGGTTCGCCAGTAAG
*
1715538 CCTAGTGAGCTGGGGTTCGCCAG
1 CCTGGTGAGCTGGGGTTCGCCAG
1715561 AGGGTCTAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.16, C:0.19, G:0.39, T:0.25
Consensus pattern (27 bp):
CCTGGTGAGCTGGGGTTCGCCAGTAAG
Found at i:1720768 original size:43 final size:43
Alignment explanation
Indices: 1720613--1720769 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
1720603 TGTGTTATCG
***
1720613 TGTAAGACCACGTCTGGGACGTTTTTATCGAT-TTATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGA-TTACA
* * * * * * *
1720657 TGTAAGACCATGTCTGGGACATTGGTATC-TTATATGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
*
1720699 TGTAAGACC-CTGTGTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
*
1720742 TGTAAGACCACGTCTGGCACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
1720770 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
42 27 0.30
43 35 0.39
44 27 0.30
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:1723795 original size:23 final size:23
Alignment explanation
Indices: 1723769--1723889 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
1723759 ATAAGTGCCA
1723769 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
1723792 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
1723815 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
1723837 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
1723860 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
1723883 CACTGAT
1 CACTGAT
1723890 CAATAACACT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
22 20 0.22
23 72 0.78
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:1723834 original size:45 final size:46
Alignment explanation
Indices: 1723769--1723889 Score: 190
Period size: 45 Copynumber: 2.7 Consensus size: 46
1723759 ATAAGTGCCA
* *
1723769 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCAAAGCTAC
* * *
1723815 CACTG-GATGTAGCCAAAGCTACCACTGAAATGTAGCCAAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCAAAGCTAC
1723860 CACTGAAATGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
1723890 CAATAACACT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 41 0.61
46 26 0.39
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCAAAGCTAC
Found at i:1724140 original size:18 final size:17
Alignment explanation
Indices: 1724114--1724152 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
1724104 ATTTTCCTTC
1724114 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
1724131 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
1724149 CACA
1 CACA
1724153 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:1731192 original size:23 final size:23
Alignment explanation
Indices: 1731166--1731285 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
1731156 ATAAGTGCCA
1731166 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
1731189 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
1731212 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
1731234 CACTGAAATGTAGCC-AAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
1731256 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
1731279 CACTGAT
1 CACTGAT
1731286 CAATAACACT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
22 42 0.46
23 49 0.54
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:1731231 original size:45 final size:45
Alignment explanation
Indices: 1731166--1731285 Score: 188
Period size: 45 Copynumber: 2.7 Consensus size: 45
1731156 ATAAGTGCCA
*
1731166 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCC-AAGCTAC
* * *
1731212 CACTG-GATGTAGCCAAAGCTACCACTGAAATGTAGCCAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCAAGCTAC
1731256 CACTGAAATGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
1731286 CAATAACACT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
44 12 0.18
45 50 0.75
46 5 0.07
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (45 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCAAGCTAC
Found at i:1734596 original size:38 final size:37
Alignment explanation
Indices: 1734546--1734623 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 37
1734536 CAATTCTATC
1734546 TGAGAATGTTATGGTAAATTAAAGTTAGTTTGATTGT
1 TGAGAATGTTATGGTAAATTAAAGTTAGTTTGATTGT
1734583 TGAGAAATGTTATGGTAAATTAAAGTTAGTTTGATTGT
1 TGAG-AATGTTATGGTAAATTAAAGTTAGTTTGATTGT
1734621 TGA
1 TGA
1734624 AGTTTTCATA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.10
38 36 0.90
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.42
Consensus pattern (37 bp):
TGAGAATGTTATGGTAAATTAAAGTTAGTTTGATTGT
Found at i:1744855 original size:27 final size:27
Alignment explanation
Indices: 1744807--1744965 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
1744797 GCGAGGCTGC
* *
1744807 CAGATATTGTGACA-ACGTCACCAGATA
1 CAGATATTGTGGCAGA-GCCACCAGATA
*
1744834 CAGATATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
1744860 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
1744887 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
1744914 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
1744941 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
1744966 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:1744966 original size:54 final size:54
Alignment explanation
Indices: 1744825--1744968 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
1744815 GTGACAACGT
* * *
1744825 CACCAGATACAGAT-ATTGTGGTAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1744879 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1744933 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1744969 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:1746594 original size:26 final size:26
Alignment explanation
Indices: 1746563--1746670 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
1746553 TGAAATGCCC
* *
1746563 ATCATGGAACATTTACTTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
1746589 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
1746615 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
1746641 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
1746667 ATCA
1 ATCA
1746671 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:1753683 original size:15 final size:16
Alignment explanation
Indices: 1753655--1753684 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1753645 ATACAAAAAT
1753655 AAATAAATACAATGAC
1 AAATAAATACAATGAC
1753671 AAATAAA-ACAATGA
1 AAATAAATACAATGA
1753685 GATCATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (16 bp):
AAATAAATACAATGAC
Found at i:1763499 original size:56 final size:56
Alignment explanation
Indices: 1763428--1763657 Score: 205
Period size: 55 Copynumber: 4.1 Consensus size: 56
1763418 TAGACGTACT
* *
1763428 ACATAACAATTGATTTAAACATATAAACAATCGATTCAAAATAAAG-CAACATTCCA
1 ACATAACAATCGATTTAAACATATAAACAATCGATTCAAAA-AAAGACAATATTCCA
*
1763484 ACATAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGAAGAAACAATATTCCA
1 ACATAACAATCGATTTAAACATATAAACAATCGATTC-AAA-AA-AAG--ACAATATTCCA
* * * * * * * * * *
1763545 CCATAAGAATCGATTTAAACATGTTAATAGTCAATTCAAAAGAAGTC-TTATTCCA
1 ACATAACAATCGATTTAAACATATAAACAATCGATTCAAAAAAAGACAATATTCCA
* * * * * * *
1763600 ACATGACAATCGATTTAAACATATAGACAATTGATTTAAAAGAAGTC-GTATTCCA
1 ACATAACAATCGATTTAAACATATAAACAATCGATTCAAAAAAAGACAATATTCCA
1763655 ACA
1 ACA
1763658 ATTAAGATGA
Statistics
Matches: 143, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
55 53 0.37
56 36 0.25
57 4 0.03
58 7 0.05
59 1 0.01
60 3 0.02
61 39 0.27
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (56 bp):
ACATAACAATCGATTTAAACATATAAACAATCGATTCAAAAAAAGACAATATTCCA
Found at i:1763504 original size:18 final size:18
Alignment explanation
Indices: 1763428--1763506 Score: 56
Period size: 18 Copynumber: 4.3 Consensus size: 18
1763418 TAGACGTACT
* *
1763428 ACATAACAATTGATTTAA
1 ACATAACAATCGATTCAA
1763446 ACATATAAACAATCGATTCAA
1 AC--AT-AACAATCGATTCAA
*
1763467 A-ATAAAGCAA-C-ATTCCA
1 ACAT-AA-CAATCGATTCAA
*
1763484 ACATAACAATCGATTTAA
1 ACATAACAATCGATTCAA
1763502 ACATA
1 ACATA
1763507 TAAAAAATCG
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
16 3 0.06
17 9 0.18
18 19 0.39
19 3 0.06
20 2 0.04
21 13 0.27
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.25
Consensus pattern (18 bp):
ACATAACAATCGATTCAA
Found at i:1763566 original size:61 final size:58
Alignment explanation
Indices: 1763428--1763644 Score: 201
Period size: 61 Copynumber: 3.8 Consensus size: 58
1763418 TAGACGTACT
* * *
1763428 ACATAACAATTGATTTAAACATATAAACAATCGATTCAAAA-TA-AAGCAACATTCCA
1 ACATAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGAAGCAACATTCCA
*
1763484 ACATAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGAAGAAACAATATTCCA
1 ACATAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGAAG---CAACATTCCA
* * * * * * * * **
1763545 CCATAAGAATCGATTTAAACATGTTAATAGTCAATTCAAAAGAAG--TC-TTATTCCA
1 ACATAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGAAGCAACATTCCA
* * * * *
1763600 ACATGACAATCGATTTAAACATATAGACAATTGATTTAAAAGAAG
1 ACATAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAG
1763645 TCGTATTCCA
Statistics
Matches: 132, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
55 41 0.31
56 40 0.30
57 1 0.01
58 3 0.02
61 47 0.36
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (58 bp):
ACATAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGAAGCAACATTCCA
Found at i:1763917 original size:17 final size:17
Alignment explanation
Indices: 1763895--1763928 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1763885 ACAGAAGATG
1763895 AATTAATCTATTAACAA
1 AATTAATCTATTAACAA
1763912 AATTAATCTATTAACAA
1 AATTAATCTATTAACAA
1763929 GAAAATATAC
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:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTAATCTATTAACAA
Found at i:1779288 original size:23 final size:23
Alignment explanation
Indices: 1779261--1779311 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
1779251 ATTTATCTAC
1779261 AATATAAACATTAAATTTAATTT
1 AATATAAACATTAAATTTAATTT
1779284 AATATAAACATTAAATTTAATTT
1 AATATAAACATTAAATTTAATTT
1779307 AATAT
1 AATAT
1779312 TAAGATAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AATATAAACATTAAATTTAATTT
Found at i:1787622 original size:19 final size:20
Alignment explanation
Indices: 1787586--1787624 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1787576 ATTATTATTC
*
1787586 AATAACTTCTCTTTTGAGTT
1 AATAAATTCTCTTTTGAGTT
1787606 AATAAATTCTC-TTTGAGTT
1 AATAAATTCTCTTTTGAGTT
1787625 TTTCTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (20 bp):
AATAAATTCTCTTTTGAGTT
Found at i:1787883 original size:17 final size:19
Alignment explanation
Indices: 1787845--1787887 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
1787835 TATTTTCTTT
1787845 TTTATTGTTCTAATACTTGA
1 TTTATTGTTCTAATA-TTGA
1787865 TTTATTGTTCT-AT-TTGA
1 TTTATTGTTCTAATATTGA
1787882 TTTATT
1 TTTATT
1787888 TATTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.43
19 2 0.09
20 11 0.48
ACGTcount: A:0.21, C:0.07, G:0.09, T:0.63
Consensus pattern (19 bp):
TTTATTGTTCTAATATTGA
Found at i:1792932 original size:31 final size:31
Alignment explanation
Indices: 1792894--1792956 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
1792884 CACAATACAT
1792894 TAAAAGTTAGATTATATTTTACTTATTTTAC
1 TAAAAGTTAGATTATATTTTACTTATTTTAC
1792925 TAAAAGTTAGATTATATTTTACTTATTTTAC
1 TAAAAGTTAGATTATATTTTACTTATTTTAC
1792956 T
1 T
1792957 CCAAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (31 bp):
TAAAAGTTAGATTATATTTTACTTATTTTAC
Found at i:1804373 original size:17 final size:19
Alignment explanation
Indices: 1804340--1804374 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1804330 ATTATTTGGA
1804340 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
1804359 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
1804375 ACTATTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:1807319 original size:23 final size:23
Alignment explanation
Indices: 1807293--1807339 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1807283 AATTTTACAA
1807293 TCCAACCACAAATACTACATAGT
1 TCCAACCACAAATACTACATAGT
1807316 TCCAACCACAAATACTACATAGT
1 TCCAACCACAAATACTACATAGT
1807339 T
1 T
1807340 ATACATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.30, G:0.04, T:0.23
Consensus pattern (23 bp):
TCCAACCACAAATACTACATAGT
Found at i:1808145 original size:38 final size:38
Alignment explanation
Indices: 1808071--1808145 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
1808061 TGTATATTAC
* * ***
1808071 TATGGATATTATGTATGTTATGTATATTATTGTTTATG
1 TATGCATATGATGTATGTTATGTATATTACAATTTATG
1808109 TATGCATATGATGTATGTTATGTATATTACAATTTAT
1 TATGCATATGATGTATGTTATGTATATTACAATTTAT
1808146 ATTATGTATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (38 bp):
TATGCATATGATGTATGTTATGTATATTACAATTTATG
Found at i:1820331 original size:52 final size:50
Alignment explanation
Indices: 1820269--1820370 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 50
1820259 CAAGTACCAA
* *
1820269 GCAGATAAAACTAATAACATAGAAATATAGTTTAAAAAAAAACAAAAGCTAC
1 GCAGATAAAACTAATAACATAAAAATATAATTT--AAAAAAACAAAAGCTAC
1820321 GCAGATAAAACTAATAACATAAAAATATAATTTAAAAAAACAAAAGCTAC
1 GCAGATAAAACTAATAACATAAAAATATAATTTAAAAAAACAAAAGCTAC
1820371 TAACCAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 17 0.35
52 31 0.65
ACGTcount: A:0.61, C:0.12, G:0.08, T:0.20
Consensus pattern (50 bp):
GCAGATAAAACTAATAACATAAAAATATAATTTAAAAAAACAAAAGCTAC
Found at i:1825169 original size:20 final size:19
Alignment explanation
Indices: 1825123--1825175 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
1825113 TTTAAAACAT
1825123 TTTTAACTTTGATTGAAAAA
1 TTTTAAC-TTGATTGAAAAA
* * *
1825143 GTCTAACTCGATTGAAATAA
1 TTTTAACTTGATTGAAA-AA
1825163 TTTTAACTTGATT
1 TTTTAACTTGATT
1825176 AAAGGTTGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTTAACTTGATTGAAAAA
Found at i:1830720 original size:27 final size:27
Alignment explanation
Indices: 1830687--1830740 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1830677 TTATTTGGCA
1830687 TGCTCAATATGTCCTCAATACTCACAT
1 TGCTCAATATGTCCTCAATACTCACAT
1830714 TGCTCAATATGTCCTCAATACTCACAT
1 TGCTCAATATGTCCTCAATACTCACAT
1830741 ACTTTCAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (27 bp):
TGCTCAATATGTCCTCAATACTCACAT
Found at i:1831793 original size:27 final size:27
Alignment explanation
Indices: 1831747--1831879 Score: 173
Period size: 27 Copynumber: 5.0 Consensus size: 27
1831737 AGTCACCGAT
* *
1831747 ACAGATAT-TGTAGCAGAGCCACTAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
1831773 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
1831800 TCAGATA-ATCGTGGCATAGCCACCAGA
1 ACAGATATAT-GTGGCAGAGCCACCAGA
1831827 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
1831854 TCAGATA-ATTGTGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
1831880 GACGTTTTCT
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
26 11 0.12
27 82 0.86
28 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:1831828 original size:54 final size:54
Alignment explanation
Indices: 1831763--1831879 Score: 216
Period size: 54 Copynumber: 2.2 Consensus size: 54
1831753 ATTGTAGCAG
*
1831763 AGCCACTAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAT
*
1831817 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAT
1831871 AGCCACCAG
1 AGCCACCAG
1831880 GACGTTTTCT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAT
Found at i:1833517 original size:26 final size:26
Alignment explanation
Indices: 1833487--1833542 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
1833477 TGAAATTCCC
*
1833487 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
1833513 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
1833539 ATCA
1 ATCA
1833543 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:1835158 original size:5 final size:6
Alignment explanation
Indices: 1835143--1835174 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1835133 ATCTTGTGGC
1835143 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1835175 GAGATGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1836952 original size:18 final size:17
Alignment explanation
Indices: 1836929--1836964 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1836919 CTTGGCCCAT
*
1836929 TGCAGTAATAGTAATCAG
1 TGCAGTAACAGTAA-CAG
1836947 TGCAGTAACAGTAACAG
1 TGCAGTAACAGTAACAG
1836964 T
1 T
1836965 ACATATATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (17 bp):
TGCAGTAACAGTAACAG
Found at i:1837584 original size:400 final size:395
Alignment explanation
Indices: 1836844--1837630 Score: 1256
Period size: 400 Copynumber: 2.0 Consensus size: 395
1836834 TGGGCCTAAG
* *
1836844 CCTTTTTTAGTAACAGTGACAATATGAGTTTGGGCTTTAGCCCATTTCAATACAGAAACAGTCAT
1 CCTTTTTTAGTAACAGTGACAATATCAGTTTGGGCTTTAGCCCATCTCAATACAGAAACAGTCAT
*
1836909 GTGTTTGGGCCTTGGCCCATTGCAGTAATAGTAATCAGTGCAGTAACAGTAACAGTACATATATG
66 GTGTTTGGGCCTTGGCCCATTGCAGTAACAGTAATCAGTGCAGTAACAGTAACAGTACATATATG
* *
1836974 CAATAAGAAATCCTACCCAACCAGCCTCTATACACCACTCCGTCCAGCCTTACACACCATGTAGG
131 CAATAAGAAATCCTACCCAACCAGCCTCTACACACCACTCCGTCCAGCCCTACACACCATGTAGG
1837039 GATAAAATCAACCCACCAATCCCTACACACCAAAAATAGCACCGGTTACGGCACTAAACAGTATT
196 GATAAAATCAACCCACCAATCCCTACACACCAAAAATAGCACCGGTTACGGCACTAAACAGTATT
**
1837104 TGCAGTAAAACTGCCAGTATAATAGGCTTAAAGCCAACAGTGATTTGCAGCAGAGCTGTTAGTAC
261 TGCAGTAAAACTGCCAGTATAATAGGCTTAAAGCCAACAGTGATTTGCAGCAGAGCTGCCAGTAC
* * *
1837169 AGTACATTTCCTCCAATCATAACAAACCCATCCCCATGCAATGCATCATAGAGTCATATCATGTC
326 AGTACACTTCCTCCAATCATAACAAACCCA-----ATGCAATCCATCATACAGTCATATCATGTC
1837234 ATATTATAGC
386 ATATTATAGC
1837244 CCTTTTTTAGTAACAGTGACAATATCAGTTTGGGCTTTAGCCCATCTCAATACAGAAACAGTCAT
1 CCTTTTTTAGTAACAGTGACAATATCAGTTTGGGCTTTAGCCCATCTCAATACAGAAACAGTCAT
*
1837309 GTGTTTGGGCCTTGGCCCATTGCTGTAACAGTAATCAGTGCAGTAACAGTAACA-TA-ATAGATA
66 GTGTTTGGGCCTTGGCCCATTGCAGTAACAGTAATCAGTGCAGTAACAGTAACAGTACAT--ATA
* * *
1837372 TGTAATCAGAAATCCTACCCAACCAGCCTCTACACACCACTCCGTCCAGCCCTACACACCATGTG
129 TGCAATAAGAAATCCTACCCAACCAGCCTCTACACACCACTCCGTCCAGCCCTACACACCATGTA
* * * *
1837437 GGGATAAAATCAACCCACCCATCCTTACACACCAAAAATAGCAGCGGTTGCGGCACTAAACAGTA
194 GGGATAAAATCAACCCACCAATCCCTACACACCAAAAATAGCACCGGTTACGGCACTAAACAGTA
* * * * *
1837502 TTTGCAGTAGAGA-TGCCAGTATAATAGGCTTAGAGCCATCAGTGATTTGTAGTAGAGCTGCCAG
259 TTTGCAGTA-AAACTGCCAGTATAATAGGCTTAAAGCCAACAGTGATTTGCAGCAGAGCTGCCAG
* *
1837566 TACAGTACACTTCCTCCAATCATAATAAACCCAATGCAATCCATCATACAGTCATGTCATGTCAT
323 TACAGTACACTTCCTCCAATCATAACAAACCCAATGCAATCCATCATACAGTCATATCATGTCAT
1837631 GTCATATCAT
Statistics
Matches: 359, Mismatches: 25, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
395 29 0.08
398 2 0.01
399 2 0.01
400 324 0.90
401 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (395 bp):
CCTTTTTTAGTAACAGTGACAATATCAGTTTGGGCTTTAGCCCATCTCAATACAGAAACAGTCAT
GTGTTTGGGCCTTGGCCCATTGCAGTAACAGTAATCAGTGCAGTAACAGTAACAGTACATATATG
CAATAAGAAATCCTACCCAACCAGCCTCTACACACCACTCCGTCCAGCCCTACACACCATGTAGG
GATAAAATCAACCCACCAATCCCTACACACCAAAAATAGCACCGGTTACGGCACTAAACAGTATT
TGCAGTAAAACTGCCAGTATAATAGGCTTAAAGCCAACAGTGATTTGCAGCAGAGCTGCCAGTAC
AGTACACTTCCTCCAATCATAACAAACCCAATGCAATCCATCATACAGTCATATCATGTCATATT
ATAGC
Found at i:1837787 original size:27 final size:27
Alignment explanation
Indices: 1837723--1837796 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
1837713 ATACCTCACG
1837723 TAAGGGC-AAATCAGTCATTTTACCACA
1 TAAGGGCAAAAT-AGTCATTTTACCACA
* * *
1837750 TAAAGGAAAAATAGTTATTTTACCACA
1 TAAGGGCAAAATAGTCATTTTACCACA
* *
1837777 TAGGGGCAAAACAGTCATTT
1 TAAGGGCAAAATAGTCATTT
1837797 GTCAATTTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 34 0.89
28 4 0.11
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
TAAGGGCAAAATAGTCATTTTACCACA
Found at i:1847890 original size:6 final size:6
Alignment explanation
Indices: 1847881--1847937 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
1847871 AATAAAATTG
* * * *
1847881 AAATAA AAATAA AAATCA AAATCA AAATCA AAATCA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1847929 AAATAA AAA
1 AAATAA AAA
1847938 GATAATTCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:1847937 original size:18 final size:18
Alignment explanation
Indices: 1847881--1847936 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
1847871 AATAAAATTG
1847881 AAATAAAAATAAAAATCA
1 AAATAAAAATAAAAATCA
* *
1847899 AAATCAAAATCAAAATCA
1 AAATAAAAATAAAAATCA
1847917 AAATAAAAATAAAAAT-A
1 AAATAAAAATAAAAATCA
1847934 AAA
1 AAA
1847937 AGATAATTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 4 0.12
18 30 0.88
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (18 bp):
AAATAAAAATAAAAATCA
Found at i:1857166 original size:20 final size:20
Alignment explanation
Indices: 1857141--1857188 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1857131 AGTTGAAGTG
1857141 AATGTGATATTGAGTTATGA
1 AATGTGATATTGAGTTATGA
*
1857161 AATGTGATATTGGGTTATGA
1 AATGTGATATTGAGTTATGA
*
1857181 AATATGAT
1 AATGTGAT
1857189 TTTATGGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (20 bp):
AATGTGATATTGAGTTATGA
Found at i:1857345 original size:76 final size:75
Alignment explanation
Indices: 1857215--1857473 Score: 306
Period size: 76 Copynumber: 3.4 Consensus size: 75
1857205 TGAGTAATTG
* *
1857215 ATAT-TGTCGGTTCATCCAACTAGCTCTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGTTAG
1 ATATCTGTCGGTTCAT-CAACTAGCTCTGGGCGCAACTTCTGTTAGTTTATCTGACTAGTGTTGG
1857279 GCACACTTTCT
65 GCACACTTTCT
* * * * *
1857290 ATATCTGTCGGTTCATCAGACTGGCGCTGGCCGCAACTTCTATTAGTTTATCTGACTAGTGCTGG
1 ATATCTGTCGGTTCATCA-ACTAGCTCTGGGCGCAACTTCTGTTAGTTTATCTGACTAGTGTTGG
1857355 GCACACTTTCT
65 GCACACTTTCT
* * * * *
1857366 ATATCTATCGGTTTATCTAACTAGCTTTGGGCACAACTTCTGTTAGTTTATTTGACTAGTGTTGG
1 ATATCTGTCGGTTCATC-AACTAGCTCTGGGCGCAACTTCTGTTAGTTTATCTGACTAGTGTTGG
*
1857431 GCACACCCTT-T
65 GCACA-CTTTCT
* * * *
1857442 ATATTTGTCAGTTCATCCGACTAGCACTGGGC
1 ATATCTGTCGGTTCAT-CAACTAGCTCTGGGC
1857474 TCAAAGTTTA
Statistics
Matches: 154, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
75 6 0.04
76 143 0.93
77 5 0.03
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (75 bp):
ATATCTGTCGGTTCATCAACTAGCTCTGGGCGCAACTTCTGTTAGTTTATCTGACTAGTGTTGGG
CACACTTTCT
Found at i:1857366 original size:35 final size:34
Alignment explanation
Indices: 1857325--1857436 Score: 100
Period size: 35 Copynumber: 3.1 Consensus size: 34
1857315 GCTGGCCGCA
*
1857325 ACTTCTATTAGTTTATCTGACTAGTGCTGGGCAC
1 ACTTCTATTAGTTTATCTGACTAGTGTTGGGCAC
*
1857359 ACTTTCTATATCTATCGGTTTATCTAACTAGCT-TTGGGCAC
1 AC-TTC--TAT-TA---GTTTATCTGACTAG-TGTTGGGCAC
* *
1857400 AACTTCTGTTAGTTTATTTGACTAGTGTTGGGCAC
1 -ACTTCTATTAGTTTATCTGACTAGTGTTGGGCAC
1857435 AC
1 AC
1857437 CCTTTATATT
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
34 5 0.08
35 23 0.37
37 3 0.05
38 4 0.06
39 2 0.03
41 23 0.37
42 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (34 bp):
ACTTCTATTAGTTTATCTGACTAGTGTTGGGCAC
Found at i:1862893 original size:30 final size:32
Alignment explanation
Indices: 1862836--1862900 Score: 116
Period size: 31 Copynumber: 2.1 Consensus size: 32
1862826 TCCAACAAAG
1862836 TTTGGTTTTGAATTTTATTCTTTTTCAAAT-A
1 TTTGGTTTTGAATTTTATTCTTTTTCAAATCA
1862867 TTTGGTTTTGAATTTTATTC-TTTTCAAATCA
1 TTTGGTTTTGAATTTTATTCTTTTTCAAATCA
1862898 TTT
1 TTT
1862901 TGGAGAAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.22, C:0.08, G:0.09, T:0.62
Consensus pattern (32 bp):
TTTGGTTTTGAATTTTATTCTTTTTCAAATCA
Found at i:1863881 original size:13 final size:13
Alignment explanation
Indices: 1863863--1863890 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1863853 ATAAAATTGG
1863863 AAAGATGATAAAT
1 AAAGATGATAAAT
1863876 AAAGATGATAAAT
1 AAAGATGATAAAT
1863889 AA
1 AA
1863891 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:1864542 original size:26 final size:26
Alignment explanation
Indices: 1864513--1864564 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1864503 GGTAAAGAAA
1864513 AAGTAATGGATTAGTAGTATACGAGT
1 AAGTAATGGATTAGTAGTATACGAGT
1864539 AAGTAATGGATTAGTAGTATACGAGT
1 AAGTAATGGATTAGTAGTATACGAGT
1864565 TCACGAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (26 bp):
AAGTAATGGATTAGTAGTATACGAGT
Found at i:1865165 original size:50 final size:50
Alignment explanation
Indices: 1865109--1865213 Score: 183
Period size: 50 Copynumber: 2.1 Consensus size: 50
1865099 GAGTTTCCTG
*
1865109 TTATACAGCTCGGAAAAGCTTCCCGTTACTTGGCTCATATGAGCTTCCCA
1 TTATACAGCTCGGAAAAGCTTCCCGTTACATGGCTCATATGAGCTTCCCA
* *
1865159 TTATACAGTTCGGATAAGCTTCCCGTTACATGGCTCATATGAGCTTCCCA
1 TTATACAGCTCGGAAAAGCTTCCCGTTACATGGCTCATATGAGCTTCCCA
1865209 TTATA
1 TTATA
1865214 TGGCTTGAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (50 bp):
TTATACAGCTCGGAAAAGCTTCCCGTTACATGGCTCATATGAGCTTCCCA
Found at i:1865216 original size:25 final size:25
Alignment explanation
Indices: 1865125--1865218 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 25
1865115 AGCTCGGAAA
*
1865125 AGCTTCCCGTTACT-TGGCTCATATG
1 AGCTTCCCATTA-TATGGCTCATATG
** * ** *
1865150 AGCTTCCCATTATACAGTTCGGATA
1 AGCTTCCCATTATATGGCTCATATG
* *
1865175 AGCTTCCCGTTACATGGCTCATATG
1 AGCTTCCCATTATATGGCTCATATG
1865200 AGCTTCCCATTATATGGCT
1 AGCTTCCCATTATATGGCT
1865219 TGAGAGAAGG
Statistics
Matches: 51, Mismatches: 17, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
24 1 0.02
25 50 0.98
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
AGCTTCCCATTATATGGCTCATATG
Found at i:1866429 original size:30 final size:30
Alignment explanation
Indices: 1866369--1866434 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
1866359 GTATGGACAT
1866369 GGCCAGGTGCCCAAATATGAATGTCCACAC
1 GGCCAGGTGCCCAAATATGAATGTCCACAC
* * *
1866399 GGCCATGTGCCCAAATTTGAATG-CATACAC
1 GGCCAGGTGCCCAAATATGAATGTC-CACAC
1866429 GGCCAG
1 GGCCAG
1866435 AGACATGGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (30 bp):
GGCCAGGTGCCCAAATATGAATGTCCACAC
Found at i:1872306 original size:20 final size:18
Alignment explanation
Indices: 1872256--1872307 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
1872246 ATACAAGATA
1872256 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
**
1872273 AATATTAAGGTAATCACTTT
1 AATATTAAATTAAT-A-TTT
1872293 AATATTAAATTAATA
1 AATATTAAATTAATA
1872308 AAATACGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 11 0.39
19 2 0.07
20 15 0.54
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:1878326 original size:3 final size:3
Alignment explanation
Indices: 1878314--1878350 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
1878304 GATGATGATG
* *
1878314 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA AGA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1878351 GAAACTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1880551 original size:46 final size:46
Alignment explanation
Indices: 1880491--1880756 Score: 334
Period size: 46 Copynumber: 6.0 Consensus size: 46
1880481 TTTGACATGA
* * * * * *
1880491 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * * *
1880537 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTTATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
1880583 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
1880629 TGCCATGGTATCTTTCAACCATGGGCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1880675 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1880713 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1880757 AGAGCACACT
Statistics
Matches: 194, Mismatches: 17, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 4 0.02
46 148 0.76
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:1880721 original size:38 final size:38
Alignment explanation
Indices: 1880670--1880745 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
1880660 CATTTCATAT
1880670 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1880708 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1880746 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:1883243 original size:30 final size:30
Alignment explanation
Indices: 1883178--1883243 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
1883168 CCCTTAAAAA
* * * *
1883178 ATTTGCACTATTAGTCCTTCAACTTTTTAT
1 ATTTACACTATTAATCCTTCAAATTTTGAT
1883208 ATTTACACT-TTAATCCTTCAAATTTTGAGT
1 ATTTACACTATTAATCCTTCAAATTTTGA-T
1883238 ATTTAC
1 ATTTAC
1883244 TCTTGGGCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.48
Consensus pattern (30 bp):
ATTTACACTATTAATCCTTCAAATTTTGAT
Found at i:1891601 original size:18 final size:18
Alignment explanation
Indices: 1891570--1891605 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1891560 AGGATAATGA
1891570 CTTTTATTTTGAAAAATT
1 CTTTTATTTTGAAAAATT
1891588 CTTTT-TTTTAGAAAAATT
1 CTTTTATTTT-GAAAAATT
1891606 GACGTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
CTTTTATTTTGAAAAATT
Found at i:1893158 original size:23 final size:21
Alignment explanation
Indices: 1893123--1893165 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1893113 GATTTTACAC
1893123 ACAAACGAGATTTTCCTAAAATT
1 ACAAACGAGA-TTT-CTAAAATT
1893146 ACAAATCGA-ATTTCTAAAAT
1 ACAAA-CGAGATTTCTAAAAT
1893166 CTATTGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 6 0.32
24 3 0.16
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (21 bp):
ACAAACGAGATTTCTAAAATT
Found at i:1894473 original size:14 final size:15
Alignment explanation
Indices: 1894454--1894484 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1894444 TGAATATAGG
1894454 AAAAA-TTTTTCAAA
1 AAAAATTTTTTCAAA
1894468 AAAAATTTTTTCAAA
1 AAAAATTTTTTCAAA
1894483 AA
1 AA
1894485 GATGTAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAAATTTTTTCAAA
Found at i:1895605 original size:13 final size:13
Alignment explanation
Indices: 1895567--1895607 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1895557 ACAACACCAA
1895567 GGACAACAAGTTAG
1 GGACAACAAGTT-G
*
1895581 GG-CAAC-ACTTG
1 GGACAACAAGTTG
1895592 GGACAACAAGTTG
1 GGACAACAAGTTG
1895605 GGA
1 GGA
1895608 TAGTCAAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 3 0.13
12 7 0.30
13 11 0.48
14 2 0.09
ACGTcount: A:0.37, C:0.17, G:0.32, T:0.15
Consensus pattern (13 bp):
GGACAACAAGTTG
Found at i:1899996 original size:28 final size:27
Alignment explanation
Indices: 1899948--1900007 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
1899938 CAAAATTATT
1899948 ATTTTAGATTTTTTTAAAATTTTTAAA
1 ATTTTAGATTTTTTTAAAATTTTTAAA
* * *
1899975 ATTTTATATGTTTTTTAGAATTTTTATA
1 ATTTTAGAT-TTTTTTAAAATTTTTAAA
1900003 ATTTT
1 ATTTT
1900008 TTAAAAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (27 bp):
ATTTTAGATTTTTTTAAAATTTTTAAA
Found at i:1900899 original size:15 final size:15
Alignment explanation
Indices: 1900863--1900913 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
1900853 ATAATTTATA
*
1900863 AGACATTTTAGATAT
1 AGACATTTTAGAAAT
*
1900878 AGA-ATTTTTGAAAT
1 AGACATTTTAGAAAT
*
1900892 AGACATTTTA-AATT
1 AGACATTTTAGAAAT
1900906 AGAC-TTTT
1 AGACATTTT
1900914 TTAATTTCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 4 0.13
14 19 0.61
15 8 0.26
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (15 bp):
AGACATTTTAGAAAT
Found at i:1907958 original size:21 final size:21
Alignment explanation
Indices: 1907934--1907985 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
1907924 GATATTTGGC
1907934 TTTGCGTTTAGGAGCTTTTCT
1 TTTGCGTTTAGGAGCTTTTCT
* * *
1907955 TTTG-GCTTAAGGTGGTTTTCT
1 TTTGCG-TTTAGGAGCTTTTCT
1907976 TTTGCTGTTT
1 TTTGC-GTTT
1907986 GGTTTTGGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
20 1 0.04
21 20 0.83
22 2 0.08
23 1 0.04
ACGTcount: A:0.08, C:0.12, G:0.25, T:0.56
Consensus pattern (21 bp):
TTTGCGTTTAGGAGCTTTTCT
Found at i:1910301 original size:21 final size:21
Alignment explanation
Indices: 1910275--1910317 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1910265 GGTTCGCTGT
*
1910275 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
1910296 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
1910317 A
1 A
1910318 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:1910317 original size:16 final size:16
Alignment explanation
Indices: 1910298--1910330 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1910288 TGTATTGGAT
*
1910298 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
1910314 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
1910330 T
1 T
1910331 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:1910375 original size:45 final size:44
Alignment explanation
Indices: 1910309--1910403 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
1910299 GGATTAGAGG
* *
1910309 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
1910354 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
1910398 TGTAAT
1 TGTAAT
1910404 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:1910586 original size:18 final size:17
Alignment explanation
Indices: 1910565--1910599 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1910555 TTATTATTGA
*
1910565 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1910583 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1910600 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1910712 original size:144 final size:147
Alignment explanation
Indices: 1910484--1910755 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
1910474 ATGATTATTG
1910484 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
* *
1910549 ACATAATTATTATTGAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAACTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
1910614 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
1910633 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
1910695 ATAACTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAACTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
1910756 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 91 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAACTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:1910730 original size:18 final size:17
Alignment explanation
Indices: 1910709--1910743 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1910699 CTATTATTAA
*
1910709 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1910727 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1910744 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1910789 original size:61 final size:61
Alignment explanation
Indices: 1910724--1910911 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
1910714 TTTTAATTAA
*
1910724 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
1910785 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
1910844 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1910905 AATATAT
1 AATATAT
1910912 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:1910824 original size:120 final size:120
Alignment explanation
Indices: 1910692--1910914 Score: 410
Period size: 120 Copynumber: 1.9 Consensus size: 120
1910682 ATCATATTTA
* *
1910692 AACATAACTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAACTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1910757 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
*
1910812 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAACTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
1910877 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
1910915 TATAACTAAT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 99 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAACTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:1910850 original size:18 final size:17
Alignment explanation
Indices: 1910829--1910863 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1910819 TTATTATTAA
1910829 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
1910847 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
1910864 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:1910926 original size:17 final size:16
Alignment explanation
Indices: 1910904--1910950 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
1910894 ACTCAAATCA
1910904 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
1910921 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
1910935 TAAATATATGATTTAA
1 T-AATATATGATTTAA
1910951 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:1910951 original size:17 final size:17
Alignment explanation
Indices: 1910923--1910956 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1910913 ATTATAACTA
*
1910923 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
1910940 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
1910957 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:1911099 original size:93 final size:92
Alignment explanation
Indices: 1910989--1911183 Score: 277
Period size: 93 Copynumber: 2.1 Consensus size: 92
1910979 GATTATAGTT
* * *
1910989 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
1911052 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* * *
1911082 TATGAATTTATACAATTTAAAATAATTAATATTAAATGTAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
1911147 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
1911174 TATGAATTTA
1 TATGAATTTA
1911184 CTAAAATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
92 21 0.23
93 67 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:1925988 original size:20 final size:20
Alignment explanation
Indices: 1925963--1926002 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1925953 CCATTACACC
* *
1925963 ATTCAAAATTTGGTATCACT
1 ATTCAAAATATGATATCACT
*
1925983 ATTCAATATATGATATCACT
1 ATTCAAAATATGATATCACT
1926003 TCTGTATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (20 bp):
ATTCAAAATATGATATCACT
Found at i:1926808 original size:31 final size:30
Alignment explanation
Indices: 1926736--1926809 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
1926726 TTAACAAACT
* *
1926736 AATACTTTATATAAAAAATTTTAAATAATTT
1 AATA-TTTAAATAAAAAATTTTAAATAATTC
*
1926767 AATAACTTAAATAAAAAATTTTCAAATAATTC
1 AAT-ATTTAAATAAAAAATTTT-AAATAATTC
1926799 AATATTTAAAT
1 AATATTTAAAT
1926810 TATTAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 25 0.68
32 12 0.32
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (30 bp):
AATATTTAAATAAAAAATTTTAAATAATTC
Found at i:1929983 original size:19 final size:20
Alignment explanation
Indices: 1929959--1930002 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
1929949 AAATTTTTGT
1929959 TAATAA-TTTAACTGTTCAA
1 TAATAACTTTAACTGTTCAA
* *
1929978 TAATAACTTTTAACTTTTGAA
1 TAATAAC-TTTAACTGTTCAA
1929999 TAAT
1 TAAT
1930003 TCGGTGATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
21 15 0.71
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (20 bp):
TAATAACTTTAACTGTTCAA
Found at i:1931079 original size:48 final size:49
Alignment explanation
Indices: 1930973--1931119 Score: 278
Period size: 48 Copynumber: 3.0 Consensus size: 49
1930963 TGTTTACCCC
1930973 AAATGCATTCTTTTATAATTAGTGTCTGAAGTATTTTTAAAAAAAAATAG
1 AAATGCATTCTTTTATAATTAGTGTCTGAAGTA-TTTTAAAAAAAAATAG
1931023 AAATGCATTCTTTTATAATTAGTGTCTGAAGTA-TTTAAAAAAAAATAG
1 AAATGCATTCTTTTATAATTAGTGTCTGAAGTATTTTAAAAAAAAATAG
1931071 AAATGCATTCTTTTATAATTAGTGTCTGAAGTATTTTAAAAAAAAATAG
1 AAATGCATTCTTTTATAATTAGTGTCTGAAGTATTTTAAAAAAAAATAG
1931120 TTAATTGAGT
Statistics
Matches: 96, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
48 48 0.50
49 15 0.16
50 33 0.34
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (49 bp):
AAATGCATTCTTTTATAATTAGTGTCTGAAGTATTTTAAAAAAAAATAG
Found at i:1934954 original size:66 final size:66
Alignment explanation
Indices: 1934848--1934989 Score: 259
Period size: 66 Copynumber: 2.2 Consensus size: 66
1934838 TATTCTATCG
1934848 ATCTCTTTCTCTCATTTCCTTCAACTGGTACTTTGGTTGAATATTAGTAGGGTATCTCTACCTCT
1 ATCTCTTTCTCTCATTTCCTTCAACTGGTACTTTGGTTGAATATTAGTAGGGTATCTCTACCTCT
1934913 C
66 C
*
1934914 ATCTCTTTCTCTC-TATTCCTTCAACTGGTACTTTGGTTGAATATTAGTAGGGTATCTCTACCTG
1 ATCTCTTTCTCTCAT-TTCCTTCAACTGGTACTTTGGTTGAATATTAGTAGGGTATCTCTACCTC
1934978 TC
65 TC
1934980 ATCTCTTTCT
1 ATCTCTTTCT
1934990 TTCCCTACTT
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
65 1 0.01
66 73 0.99
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (66 bp):
ATCTCTTTCTCTCATTTCCTTCAACTGGTACTTTGGTTGAATATTAGTAGGGTATCTCTACCTCT
C
Found at i:1937673 original size:12 final size:12
Alignment explanation
Indices: 1937656--1937699 Score: 79
Period size: 12 Copynumber: 3.7 Consensus size: 12
1937646 CAAGTCACAA
1937656 GCCGTGTGCTAG
1 GCCGTGTGCTAG
1937668 GCCGTGTGCTAG
1 GCCGTGTGCTAG
1937680 GCCGTGTGCTAG
1 GCCGTGTGCTAG
*
1937692 GTCGTGTG
1 GCCGTGTG
1937700 GAGCATACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.07, C:0.23, G:0.43, T:0.27
Consensus pattern (12 bp):
GCCGTGTGCTAG
Found at i:1955639 original size:12 final size:12
Alignment explanation
Indices: 1955622--1955646 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1955612 TATATTCAAA
1955622 ATTAACTTATTT
1 ATTAACTTATTT
1955634 ATTAACTTATTT
1 ATTAACTTATTT
1955646 A
1 A
1955647 ATCATCTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTAACTTATTT
Found at i:1958321 original size:36 final size:36
Alignment explanation
Indices: 1958280--1958352 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
1958270 CGAAAGGGGA
1958280 AAATAAGCTGAAAGGTATTCTGGAAAATATGAAAGC
1 AAATAAGCTGAAAGGTATTCTGGAAAATATGAAAGC
1958316 AAATAAGCTGAAAGGTATTCTGGAAAATATGAAAGC
1 AAATAAGCTGAAAGGTATTCTGGAAAATATGAAAGC
1958352 A
1 A
1958353 TTTCGGGGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.48, C:0.08, G:0.22, T:0.22
Consensus pattern (36 bp):
AAATAAGCTGAAAGGTATTCTGGAAAATATGAAAGC
Found at i:1962697 original size:11 final size:11
Alignment explanation
Indices: 1962681--1962705 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1962671 GTTTTGTCCC
1962681 TTTTTGGCTCA
1 TTTTTGGCTCA
1962692 TTTTTGGCTCA
1 TTTTTGGCTCA
1962703 TTT
1 TTT
1962706 CGCTCTCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (11 bp):
TTTTTGGCTCA
Found at i:1963017 original size:42 final size:42
Alignment explanation
Indices: 1962928--1963053 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 42
1962918 AAGGCTGCAT
* * * * *
1962928 AGAAGCACATAAGTGCTAAACGGAAACCCGTAAGGGTTAAAC
1 AGAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTAAAC
* * * *
1962970 AGAAGCTTATAATAGCTGAACGGAAACCCATAAGGGTTAAAT
1 AGAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTAAAC
* ** * *
1963012 TGAAGCTCAAAAGAGCTGAACTAAAACCTAAAAGGGTTAAAC
1 AGAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTAAAC
1963054 TGAGACTCAT
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.17
Consensus pattern (42 bp):
AGAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTAAAC
Found at i:1970443 original size:14 final size:14
Alignment explanation
Indices: 1970424--1970542 Score: 95
Period size: 14 Copynumber: 8.2 Consensus size: 14
1970414 ATTATACATA
1970424 ATAATAAATAATAT
1 ATAATAAATAATAT
1970438 ATAAT-AA-AATAT
1 ATAATAAATAATAT
* *
1970450 ATAATATATAATAAA
1 ATAATAAATAAT-AT
1970465 ATAA-AAATAATAT
1 ATAATAAATAATAT
1970478 AATAAT-AATAATAT
1 -ATAATAAATAATAT
1970492 AATAA-AATATAAATAAT
1 -ATAATAA-AT-AAT-AT
*
1970509 ATAATAAATAATAC
1 ATAATAAATAATAT
1970523 ATAAATAAAAATAATAT
1 AT-AAT--AAATAATAT
1970540 ATA
1 ATA
1970543 TAATAATTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
12 10 0.12
13 4 0.05
14 35 0.41
15 13 0.15
16 10 0.12
17 14 0.16
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAATAT
Found at i:1970448 original size:19 final size:19
Alignment explanation
Indices: 1970416--1970530 Score: 112
Period size: 19 Copynumber: 5.9 Consensus size: 19
1970406 TTTTTAAAAT
1970416 TATACATAATAATAAATAATA
1 TATA-ATAA-AATAAATAATA
*
1970437 TATAATAAAATATATAATA
1 TATAATAAAATAAATAATA
1970456 TATAATAAAATAAA-AATAA
1 TATAATAAAATAAATAAT-A
1970475 TATAATAATAATAATATAATA
1 TATAATAA-AATAA-ATAATA
1970496 -A-AATATAAATAATATAATA
1 TATAATA-AAATAA-ATAATA
* *
1970515 AATAAT-ACATAAATAA
1 TATAATAAAATAAATAA
1970531 AAATAATATA
Statistics
Matches: 84, Mismatches: 3, Indels: 17
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.08
19 53 0.63
20 12 0.14
21 9 0.11
22 3 0.04
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAATAAAATAAATAATA
Found at i:1970461 original size:33 final size:34
Alignment explanation
Indices: 1970410--1970548 Score: 137
Period size: 33 Copynumber: 4.1 Consensus size: 34
1970400 TACAAATTTT
*
1970410 TAAAAT-TATACATA-ATAAT-AAATAATATATAA
1 TAAAATATATA-ATATATAATAAAATAATAAATAA
1970442 TAAAATATATAATATATAATAAAATAA-AAATAA
1 TAAAATATATAATATATAATAAAATAATAAATAA
*
1970475 TATAATA-ATAATAATATAATAAAAT-ATAAATAA
1 TAAAATATATAAT-ATATAATAAAATAATAAATAA
* * *
1970508 TATAATAAATAATACATAAATAAAAATAATATATATAA
1 TAAAATATATAATATAT-AAT-AAAATAATA-A-ATAA
1970546 TAA
1 TAA
1970549 TTTTTACATA
Statistics
Matches: 92, Mismatches: 4, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
32 15 0.16
33 48 0.52
34 14 0.15
35 5 0.05
36 3 0.03
37 1 0.01
38 6 0.07
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (34 bp):
TAAAATATATAATATATAATAAAATAATAAATAA
Found at i:1970508 original size:66 final size:63
Alignment explanation
Indices: 1970424--1970549 Score: 159
Period size: 62 Copynumber: 2.0 Consensus size: 63
1970414 ATTATACATA
*
1970424 ATAATAAATAATATATAATAAAATATATAATATATA-ATAAAATAAAAATAATATA-ATAATAAT
1 ATAATAAATAATAAATAAT-AAA-ATA-AATA-ATACAT-AAATAAAAATAATATATATAATAAT
1970487 AAT
61 AAT
*
1970490 ATAATAAA-ATATAAATAATATAATAAATAATACATAAATAAAAATAATATATATAATAAT
1 ATAATAAATA-ATAAATAATAAAATAAATAATACATAAATAAAAATAATATATATAATAAT
1970550 TTTTACATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
62 19 0.35
63 14 0.25
64 3 0.05
65 3 0.05
66 16 0.29
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.33
Consensus pattern (63 bp):
ATAATAAATAATAAATAATAAAATAAATAATACATAAATAAAAATAATATATATAATAATAAT
Found at i:1970545 original size:19 final size:20
Alignment explanation
Indices: 1970423--1970549 Score: 106
Period size: 19 Copynumber: 6.3 Consensus size: 20
1970413 AATTATACAT
1970423 AATAATAAATAATATATA-A
1 AATAATAAATAATATATATA
*
1970442 TAA-AATATATAATATATAATAA
1 -AATAATAAATAATATAT-AT-A
1970464 AATAA-AAATAATATA-AT-
1 AATAATAAATAATATATATA
*
1970481 AATAATAATATAATAAAATATA
1 AATAATAA-ATAAT-ATATATA
*
1970503 AATAATATAATAAATAATACATA
1 AATAATA-AAT-AAT-ATATATA
1970526 AATAA-AAATAATATATAT-
1 AATAATAAATAATATATATA
1970544 AATAAT
1 AATAAT
1970550 TTTTACATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 25
0.74 0.05 0.21
Matches are distributed among these distances:
17 5 0.06
18 7 0.08
19 25 0.28
20 8 0.09
21 16 0.18
22 13 0.15
23 15 0.17
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (20 bp):
AATAATAAATAATATATATA
Found at i:1970558 original size:33 final size:30
Alignment explanation
Indices: 1970440--1970550 Score: 106
Period size: 29 Copynumber: 3.6 Consensus size: 30
1970430 AATAATATAT
*
1970440 AATAAAATATATAAT-ATATA-ATAAAATAAA
1 AATAATATATATAATAAT-TACAT-AAATAAA
*
1970470 AATAATATAATAATAATAATATA-ATAAAATATA
1 AATAATAT-AT-ATAATAAT-TACAT-AAATAAA
1970503 AATAATATA-ATAAATAA-TACATAAATAAA
1 AATAATATATAT-AATAATTACATAAATAAA
1970532 AATAATATATATAATAATT
1 AATAATATATATAATAATT
1970551 TTTACATATA
Statistics
Matches: 71, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
29 22 0.31
30 14 0.20
31 7 0.10
32 6 0.08
33 22 0.31
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (30 bp):
AATAATATATATAATAATTACATAAATAAA
Found at i:1970564 original size:33 final size:30
Alignment explanation
Indices: 1970424--1970564 Score: 86
Period size: 33 Copynumber: 4.7 Consensus size: 30
1970414 ATTATACATA
* *
1970424 ATAATAAATA-ATATATAATAA-AATATAT
1 ATAATAATTACATATATAAAAATAATATAT
1970452 AATATATAA-TA-A-A-ATAAAAATAATATA-
1 -ATA-ATAATTACATATATAAAAATAATATAT
1970479 ATAATAA-TA-ATATAATAAAATATAA-ATAAT
1 ATAATAATTACATAT-ATAAAA-ATAATAT-AT
*
1970509 ATAATAAATAATACATAAATAAAAATAATATAT
1 ATAAT-AAT--TACATATATAAAAATAATATAT
1970542 ATAATAATTTTTACATATATAAA
1 ATAATAA---TTACATATATAAA
1970565 TAATGTTTGT
Statistics
Matches: 92, Mismatches: 3, Indels: 30
0.74 0.02 0.24
Matches are distributed among these distances:
25 7 0.08
26 4 0.04
27 6 0.07
28 15 0.16
29 11 0.12
30 9 0.10
31 2 0.02
32 2 0.02
33 22 0.24
34 10 0.11
35 4 0.04
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (30 bp):
ATAATAATTACATATATAAAAATAATATAT
Found at i:1970567 original size:52 final size:51
Alignment explanation
Indices: 1970423--1970567 Score: 147
Period size: 52 Copynumber: 2.8 Consensus size: 51
1970413 AATTATACAT
*
1970423 AATAATAAATAATATATAATAA-AATATATAATATAT-AATAAAATAA-AAATA
1 AATAA-AAATAATATAT-ATAATAATATATAATATATAAAT-AAATAATACATA
* *
1970474 ATATAATAATAATA-ATATAATAAAATATAA-ATAATATAATAAATAATACATA
1 A-ATAAAAATAATATATATAATAATATATAATAT-ATA-AATAAATAATACATA
* *
1970526 AATAAAAATAATATATATAATAATTTTTACATATATAAATAA
1 AATAAAAATAATATATATAATAATATATA-ATATATAAATAA
1970568 TGTTTGTAGT
Statistics
Matches: 78, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
49 6 0.08
50 12 0.15
51 25 0.32
52 29 0.37
53 4 0.05
54 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (51 bp):
AATAAAAATAATATATATAATAATATATAATATATAAATAAATAATACATA
Found at i:1970658 original size:29 final size:29
Alignment explanation
Indices: 1970580--1970636 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
1970570 TTTGTAGTAA
1970580 AAATAAA-TACTATATAAAATATTTAAAAT
1 AAATAAATTA-TATATAAAATATTTAAAAT
1970609 AAATAAATTATATATAAAATATTTAAAA
1 AAATAAATTATATATAAAATATTTAAAA
1970637 AGGATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (29 bp):
AAATAAATTATATATAAAATATTTAAAAT
Found at i:1970827 original size:30 final size:30
Alignment explanation
Indices: 1970791--1970849 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
1970781 TATAATGGAT
* *
1970791 ATTAGGGCTAAAGTGAAACAAAAATAAAAG
1 ATTAGGGCCAAAGTAAAACAAAAATAAAAG
* *
1970821 ATTAGGGCCAAATTAAAATAAAAATAAAA
1 ATTAGGGCCAAAGTAAAACAAAAATAAAA
1970850 TGAAATTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.19
Consensus pattern (30 bp):
ATTAGGGCCAAAGTAAAACAAAAATAAAAG
Found at i:1971869 original size:17 final size:17
Alignment explanation
Indices: 1971830--1971862 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1971820 AACATTTAAT
*
1971830 TATTTTGGTTTTTTGTG
1 TATTTTGGTTTATTGTG
1971847 TATTTTGGTTTATTGT
1 TATTTTGGTTTATTGT
1971863 TTTTTTTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.21, T:0.70
Consensus pattern (17 bp):
TATTTTGGTTTATTGTG
Found at i:1972155 original size:90 final size:90
Alignment explanation
Indices: 1972053--1972499 Score: 723
Period size: 90 Copynumber: 5.0 Consensus size: 90
1972043 ACCTGTTTTT
*
1972053 CGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATTTGCTTCGATGTAAACACACAAATGTCA
1 CGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACAAATGTCA
*
1972118 GATCTGCTATCTTTGATCTGCTCCC
66 GATCTGCTATCTTCGATCTGCTCCC
*
1972143 CGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCAATGTAAACACACAAATGTCA
1 CGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACAAATGTCA
1972208 GATCTGCTATCTTCGATCTGCTCCC
66 GATCTGCTATCTTCGATCTGCTCCC
* * * * * *
1972233 CGTTTAATACAGAGATGCCAACTCTGTCATTTTCGATCTACTTCGATGTAAACACAAAAATGTCA
1 CGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACAAATGTCA
*
1972298 GATCTGCTATCTTCAATCTGCTCCC
66 GATCTGCTATCTTCGATCTGCTCCC
* * * * *
1972323 TGTCTAATATAGAGACGCCAAATCTGTCATCTTCAATCTGTTTCGATGTAAACACACAAATGTCT
1 CGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACAAATGTCA
1972388 GATCTGCTATCTTCGATCTGCTCCC
66 GATCTGCTATCTTCGATCTGCTCCC
* * * *
1972413 CGTTTAATATAGAGATGCCAAATCTGTCATCTTCGATCTGCTTTGATGTAAACACACAAATGTCA
1 CGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACAAATGTCA
1972478 GATCTGCTATCTTCGATCTGCT
66 GATCTGCTATCTTCGATCTGCT
1972500 TTGATGTAAA
Statistics
Matches: 327, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 327 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (90 bp):
CGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACAAATGTCA
GATCTGCTATCTTCGATCTGCTCCC
Found at i:1972570 original size:225 final size:225
Alignment explanation
Indices: 1972264--1972724 Score: 699
Period size: 225 Copynumber: 2.0 Consensus size: 225
1972254 CTCTGTCATT
1972264 TTCGATCTACTTCGATGTAAACACAAAAATGTCAGATCTGCTATCTTCAATCTGCTCCCTGTCTA
1 TTCGATCTACTTCGATGTAAACACAAAAATGTCAGATCTGCTATCTTCAATCTGCTCCCTGTCTA
* ** *
1972329 ATATAGAGACGCCAAATCTGTCATCTTCAATCTGTTTCGATGTAAACACACAAATGTCTGATCTG
66 ATACAGAGACGCCAAATCTGTCATCTTCAATCTACTTCGATGTAAACACACAAATGTCAGATCTG
* * * * * * *
1972394 CTATCTTCGATCTGCTCCCCGTTTAATATAGAGATGCCAAATCTGTCATCTTCGATCTGCTTTGA
131 CTATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCGA
1972459 TGTAAACACACAAATGTCAGATCTGCTATC
196 TGTAAACACACAAATGTCAGATCTGCTATC
* * ** *
1972489 TTCGATCTGCTTTGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCGC-GTCT
1 TTCGATCTACTTCGATGTAAACACAAAAATGTCAGATCTGCTATCTTCAATCTGCTCC-CTGTCT
* * *
1972553 AATACAGAGATGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACACGAATGTCAGATCT
65 AATACAGAGACGCCAAATCTGTCATCTTCAATCTACTTCGATGTAAACACACAAATGTCAGATCT
1972618 GCTATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCG
130 GCTATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCG
** *
1972683 ATGTAAACACATGAATGTCAGATTTGCTATC
195 ATGTAAACACACAAATGTCAGATCTGCTATC
*
1972714 TTTGATCTACT
1 TTCGATCTACT
1972725 CCCCGTCAAA
Statistics
Matches: 211, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
225 210 1.00
226 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (225 bp):
TTCGATCTACTTCGATGTAAACACAAAAATGTCAGATCTGCTATCTTCAATCTGCTCCCTGTCTA
ATACAGAGACGCCAAATCTGTCATCTTCAATCTACTTCGATGTAAACACACAAATGTCAGATCTG
CTATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCGA
TGTAAACACACAAATGTCAGATCTGCTATC
Found at i:1972582 original size:180 final size:178
Alignment explanation
Indices: 1972057--1972586 Score: 618
Period size: 180 Copynumber: 2.9 Consensus size: 178
1972047 GTTTTTCGTC
* * *
1972057 TAATACAGAGACGCCAAATCTGTCATCTTCGATTTGCTTCGATGTAAACACACAAATGTCAGATC
1 TAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACACAAATGTCAGATC
* *
1972122 TGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTC
66 TGCTATCTTCGATCTGCT-CCCGTCTAACACAGAGACGCCAAATCTGTCATCTTCGATCTGC-TC
*** * *
1972187 AATGTAAACACACAAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTT
129 CGCGTAAACACACAAATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTT
* * *
1972237 TAATACAGAGATGCCAACTCTGTCATTTTCGATCTACTTCGATGTAAACACAAAAATGTCAGATC
1 TAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACACAAATGTCAGATC
* * * * * *
1972302 TGCTATCTTCAATCTGCTCCCTGTCTAATATAGAGACGCCAAATCTGTCATCTTCAATCTGTTTC
66 TGCTATCTTCGATCTGCTCCC-GTCTAACACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCC
* * **
1972367 GATGTAAACACACAAATGTCTGATCTGCTATCTTCGATCTGCTCCCCGTT
130 G-CGTAAACACACAAATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTT
* * *
1972417 TAATATAGAGATGCCAAATCTGTCATCTTCGATCTGCTTTGATGTAAACACACAAATGTCAGATC
1 TAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACACAAATGTCAGATC
** * * * *
1972482 TGCTATCTTCGATCTGCT-TTGATGTAAACACACGA-ATGTCAGATCTG-CTATCTTCGATCTGC
66 TGCTATCTTCGATCTGCTCCCG-TCT-AACACA-GAGACGCCAAATCTGTC-ATCTTCGATCTGC
* * * *
1972544 TCCGCGTCTAATACAGAGATGCCAAATCTG-TCATCTTCGATCT
127 TCCGCGT-AAACACACAAATGCCAAATCTGCT-ATCTTCGATCT
1972587 ACTTCGATGT
Statistics
Matches: 301, Mismatches: 41, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
178 1 0.00
179 10 0.03
180 288 0.96
181 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (178 bp):
TAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACACAAATGTCAGATC
TGCTATCTTCGATCTGCTCCCGTCTAACACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCCG
CGTAAACACACAAATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTT
Found at i:1972654 original size:315 final size:315
Alignment explanation
Indices: 1972171--1972811 Score: 1048
Period size: 315 Copynumber: 2.0 Consensus size: 315
1972161 CAAATCTGTC
1972171 ATCTTCGATCTGCTTCAATGTAAACACACAAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGT
1 ATCTTCGATCTGCTTCAATGTAAACACACAAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGT
* * *
1972236 TTAATACAGAGATGCCAACTCTGTCATTTTCGATCTACTTCGATGTAAACACAAAAATGTCAGAT
66 CTAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACAAAAATGTCAGAT
* * * **
1972301 CTGCTATCTTCAATCTGCTCCCTGTCTAATATAGAGACGCCAAATCTGTCATCTTCAATCTGTTT
131 CTGCTATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCAATCTACTT
* * **
1972366 CGATGTAAACACACAAATGTCTGATCTGCTATCTTCGATCTGCTCCCCGTTTAATATAGAGATGC
196 CGATGTAAACACACAAATGTCAGATCTGCTATCTTCGATCTACTCCCCGTCAAATATAGAGATGC
*
1972431 CAAATCTGTCATCTTCGATCTGCTTTGATGTAAACACACAAATGTCAGATCTGCT
261 CAAATCTGTCATCTTCGATCTGCTTTGATGTAAACACACAAATGCCAGATCTGCT
** * *
1972486 ATCTTCGATCTGCTTTGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCGCGT
1 ATCTTCGATCTGCTTCAATGTAAACACACAAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGT
**
1972551 CTAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACACGAATGTCAGAT
66 CTAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACAAAAATGTCAGAT
*
1972616 CTGCTATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTT
131 CTGCTATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCAATCTACTT
** * *
1972681 CGATGTAAACACATGAATGTCAGATTTGCTATCTTTGATCTACTCCCCGTCAAATATAGAGATGC
196 CGATGTAAACACACAAATGTCAGATCTGCTATCTTCGATCTACTCCCCGTCAAATATAGAGATGC
* *
1972746 CAAATTTGTCATCTTCGATCTGCTTTGATGTAAACACACGAATGCCAGATCTGCT
261 CAAATCTGTCATCTTCGATCTGCTTTGATGTAAACACACAAATGCCAGATCTGCT
1972801 ATCTTCGATCT
1 ATCTTCGATCT
1972812 ACTCCCCGTC
Statistics
Matches: 300, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
315 300 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (315 bp):
ATCTTCGATCTGCTTCAATGTAAACACACAAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGT
CTAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACAAAAATGTCAGAT
CTGCTATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCAATCTACTT
CGATGTAAACACACAAATGTCAGATCTGCTATCTTCGATCTACTCCCCGTCAAATATAGAGATGC
CAAATCTGTCATCTTCGATCTGCTTTGATGTAAACACACAAATGCCAGATCTGCT
Found at i:1972856 original size:90 final size:90
Alignment explanation
Indices: 1972486--1972844 Score: 565
Period size: 90 Copynumber: 4.0 Consensus size: 90
1972476 CAGATCTGCT
* * * *
1972486 ATCTTCGATCTGCTTTGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCGCGT
1 ATCTTCGATCTACTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTACTCCCCGT
*
1972551 CTAATACAGAGATGCCAAATCTGTC
66 CTAATACAGAGACGCCAAATCTGTC
*
1972576 ATCTTCGATCTACTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCAATCTACTCCCCGT
1 ATCTTCGATCTACTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTACTCCCCGT
1972641 CTAATACAGAGACGCCAAATCTGTC
66 CTAATACAGAGACGCCAAATCTGTC
* * *
1972666 ATCTTCGATCTACTTCGATGTAAACACATGAATGTCAGATTTGCTATCTTTGATCTACTCCCCGT
1 ATCTTCGATCTACTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTACTCCCCGT
* * * *
1972731 CAAATATAGAGATGCCAAATTTGTC
66 CTAATACAGAGACGCCAAATCTGTC
* * *
1972756 ATCTTCGATCTGCTTTGATGTAAACACACGAATGCCAGATCTGCTATCTTCGATCTACTCCCCGT
1 ATCTTCGATCTACTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTACTCCCCGT
*
1972821 CTAATACAGAGACGTCAAATCTGT
66 CTAATACAGAGACGCCAAATCTGT
1972845 TTCCGGTGAT
Statistics
Matches: 244, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 244 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (90 bp):
ATCTTCGATCTACTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTACTCCCCGT
CTAATACAGAGACGCCAAATCTGTC
Found at i:1993808 original size:23 final size:23
Alignment explanation
Indices: 1993778--1993823 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1993768 TTTAAGCATA
* *
1993778 AATGTATATTTCGTGTATCTGTT
1 AATGTATATTTCATGTACCTGTT
1993801 AATGTATATTTCATGTACCTGTT
1 AATGTATATTTCATGTACCTGTT
1993824 TCAATGGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (23 bp):
AATGTATATTTCATGTACCTGTT
Found at i:1996936 original size:36 final size:34
Alignment explanation
Indices: 1996881--1996953 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
1996871 AATTGAAAGA
1996881 GAAAAGAAAATAACTCAATTCCAAATGGAAATAG
1 GAAAAGAAAATAACTCAATTCCAAATGGAAATAG
* * *
1996915 GAAAAGAGAGAATAA-TCCAATTCTAAATTGAAGTAG
1 GAAAAGA-A-AATAACT-CAATTCCAAATGGAAATAG
1996951 GAA
1 GAA
1996954 TACAAAAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 7 0.21
35 2 0.06
36 24 0.73
ACGTcount: A:0.53, C:0.10, G:0.18, T:0.19
Consensus pattern (34 bp):
GAAAAGAAAATAACTCAATTCCAAATGGAAATAG
Found at i:2003287 original size:21 final size:21
Alignment explanation
Indices: 2003263--2003304 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2003253 TTTTTTAAAG
*
2003263 TTTTAAAACTAATTTTA-ATTT
1 TTTTAAAAAT-ATTTTATATTT
2003284 TTTTAAAAATATTTTATATTT
1 TTTTAAAAATATTTTATATTT
2003305 AATGATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAAAAATATTTTATATTT
Found at i:2004204 original size:15 final size:15
Alignment explanation
Indices: 2004184--2004237 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
2004174 ATACTACAAA
2004184 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
2004199 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
2004216 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
2004233 ATATT
1 ATATT
2004238 AACATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:2004301 original size:16 final size:16
Alignment explanation
Indices: 2004270--2004306 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
2004260 ATGTGAATAA
2004270 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
2004286 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
2004302 TATTA
1 TATTA
2004307 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:2004636 original size:19 final size:19
Alignment explanation
Indices: 2004600--2004637 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2004590 ACCTGTAAGT
*
2004600 TATTTTCTGTTGATCAAAC
1 TATTTTCTGTTGAACAAAC
2004619 TATTTTCTG-TGAAACAAAC
1 TATTTTCTGTTG-AACAAAC
2004638 ACAGGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (19 bp):
TATTTTCTGTTGAACAAAC
Found at i:2005114 original size:17 final size:16
Alignment explanation
Indices: 2005094--2005126 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
2005084 TATTTCATAT
2005094 TAATTAAATAAAATAAA
1 TAATTAAAT-AAATAAA
2005111 TAATTAAATAAATAAA
1 TAATTAAATAAATAAA
2005127 AGAAAGACAA
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATTAAATAAATAAA
Found at i:2005182 original size:24 final size:23
Alignment explanation
Indices: 2005155--2005199 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
2005145 TGATGATGAT
*
2005155 ATACAAATGTAATAATATATATGG
1 ATACAAATGTAA-AATAAATATGG
2005179 ATACAAATGTAAAATAAATAT
1 ATACAAATGTAAAATAAATAT
2005200 TTGTTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (23 bp):
ATACAAATGTAAAATAAATATGG
Found at i:2005217 original size:18 final size:18
Alignment explanation
Indices: 2005190--2005224 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2005180 TACAAATGTA
*
2005190 AAATAAATATTTGTTATT
1 AAATAAATATTTATTATT
*
2005208 AAATAGATATTTATTAT
1 AAATAAATATTTATTAT
2005225 AGTTATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
AAATAAATATTTATTATT
Found at i:2005229 original size:24 final size:24
Alignment explanation
Indices: 2005202--2005255 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
2005192 ATAAATATTT
2005202 GTTATTAAATAGATATTTATTATA
1 GTTATTAAATAGATATTTATTATA
2005226 GTTATTAAATAGATATTTATTATA
1 GTTATTAAATAGATATTTATTATA
2005250 GTTATT
1 GTTATT
2005256 CTTATTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (24 bp):
GTTATTAAATAGATATTTATTATA
Found at i:2005302 original size:14 final size:13
Alignment explanation
Indices: 2005283--2005340 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 13
2005273 ATATATATAT
2005283 AAATAAAGTAAAAG
1 AAATAAAG-AAAAG
*
2005297 AAATAAAAGAAAGG
1 AAAT-AAAGAAAAG
*
2005311 AAA-AAAAAAAGAG
1 AAATAAAGAAA-AG
2005324 AAATAAAGAAAACG
1 AAATAAAGAAAA-G
2005338 AAA
1 AAA
2005341 CAGAGAAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
12 6 0.17
13 5 0.14
14 21 0.58
15 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.07
Consensus pattern (13 bp):
AAATAAAGAAAAG
Found at i:2006229 original size:15 final size:16
Alignment explanation
Indices: 2006209--2006239 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2006199 TAATGTAAAG
2006209 TGAATTG-AAATATAT
1 TGAATTGAAAATATAT
2006224 TGAATTGAAAATATAT
1 TGAATTGAAAATATAT
2006240 ATGATTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (16 bp):
TGAATTGAAAATATAT
Found at i:2008022 original size:21 final size:21
Alignment explanation
Indices: 2007989--2008030 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2007979 TTCTTGAAAT
*
2007989 AAATTCAAAAAATTAGGAAAAA
1 AAATTCAAAAAATCA-GAAAAA
*
2008011 AAATT-AACAAATCAGAAAAA
1 AAATTCAAAAAATCAGAAAAA
2008031 TATGGAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.17
Consensus pattern (21 bp):
AAATTCAAAAAATCAGAAAAA
Found at i:2009152 original size:34 final size:33
Alignment explanation
Indices: 2009100--2009479 Score: 372
Period size: 34 Copynumber: 11.3 Consensus size: 33
2009090 AGAAAGAAAC
* * * *
2009100 ATGCAAACCCTATTTTATATTA-TATGACTTAGT
1 ATGCGAACCCCATGTTATA-TAGTATGACATAGT
*
2009133 ATGTGAACCCCATTGTTATATAGTATGACATAGT
1 ATGCGAACCCCA-TGTTATATAGTATGACATAGT
* *
2009167 ATAC-AACCCCTCATGTTATATAATATGACATAGT
1 ATGCGAA-CCC-CATGTTATATAGTATGACATAGT
* *
2009201 ATGTGAACCCCCATGTTATATAGTATGACATAGC
1 ATGCGAA-CCCCATGTTATATAGTATGACATAGT
* *
2009235 ATG-GAACCCCATGTCATATAGAATGACATAGT
1 ATGCGAACCCCATGTTATATAGTATGACATAGT
* * *
2009267 ATGCAAACCCCCATGTTATACCA-TATGACATAAT
1 ATGCGAA-CCCCATGTTATA-TAGTATGACATAGT
* **
2009301 ATGCAAACCCTCACATTATATAGTATGACATAGT
1 ATGCGAACCC-CATGTTATATAGTATGACATAGT
* * *
2009335 ATGCAAACTCCCATGTTACATAGAATGACATAGT
1 ATGCGAAC-CCCATGTTATATAGTATGACATAGT
* * *
2009369 ATACGAGCCCTCATGTTATATAGTATGACAAAGT
1 ATGCGAACCC-CATGTTATATAGTATGACATAGT
*
2009403 ATGTGAACCCCAATGTTATATAGTATGACATAGT
1 ATGCGAACCCC-ATGTTATATAGTATGACATAGT
** *
2009437 ATGCGAACACCCACATTATATAGTATGACATAAT
1 ATGCGAAC-CCCATGTTATATAGTATGACATAGT
*
2009471 ATGTGAACC
1 ATGCGAACC
2009480 TGATCTTCCA
Statistics
Matches: 290, Mismatches: 43, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
32 26 0.09
33 26 0.09
34 224 0.77
35 14 0.05
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGCGAACCCCATGTTATATAGTATGACATAGT
Done.