Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 148 of 433
Found at i:45922360 original size:44 final size:44
Alignment explanation
Indices: 45922301--45922391 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
45922291 ATTGACATAA
* * * * * *
45922301 AATAGAAATTGTGATAATTATATATTTAAAATTAATTATAATTT
1 AATAAAAATTGTGATAATTACACAATTAAAAATAAGTATAATTT
*
45922345 AATAAAAATTTTGATAATTACACAATTAAAAATAAGTATAATTT
1 AATAAAAATTGTGATAATTACACAATTAAAAATAAGTATAATTT
45922389 AAT
1 AAT
45922392 TTACAACTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (44 bp):
AATAAAAATTGTGATAATTACACAATTAAAAATAAGTATAATTT
Found at i:45923756 original size:14 final size:14
Alignment explanation
Indices: 45923737--45923766 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45923727 AAGAAGGTTT
45923737 AAATTTAAGCTAAA
1 AAATTTAAGCTAAA
45923751 AAATTTAAGCTAAA
1 AAATTTAAGCTAAA
45923765 AA
1 AA
45923767 CTTGGGAATG
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:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (14 bp):
AAATTTAAGCTAAA
Found at i:45928837 original size:5 final size:6
Alignment explanation
Indices: 45928824--45928876 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
45928814 ATAATTTAAT
* * *
45928824 AAATAA AAATAA AATTCTAA AACTAA AACTAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AA--ATAA AAATAA AAATAA AAATAA AAATAA AAATAA
45928874 AAA
1 AAA
45928877 AACATATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 38 0.88
8 5 0.12
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:45928911 original size:9 final size:9
Alignment explanation
Indices: 45928897--45928973 Score: 82
Period size: 9 Copynumber: 8.6 Consensus size: 9
45928887 TTTATAAAAA
45928897 TAATTCGGT
1 TAATTCGGT
*
45928906 TAATTCAGT
1 TAATTCGGT
*
45928915 TAATTCGAT
1 TAATTCGGT
* *
45928924 TAATTTGGG
1 TAATTCGGT
* *
45928933 CAATTCGGG
1 TAATTCGGT
*
45928942 TAATACGGT
1 TAATTCGGT
*
45928951 TAATTCGAT
1 TAATTCGGT
45928960 TAATTCGGT
1 TAATTCGGT
45928969 TAATT
1 TAATT
45928974 TTATACTTAT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (9 bp):
TAATTCGGT
Found at i:45933402 original size:45 final size:45
Alignment explanation
Indices: 45933342--45933429 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
45933332 GAACTATGTG
** *
45933342 ATCTGAACTTGTTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTGAC
** *
45933387 ATCTGAACTCATTGAGTTATGGTCTGGGTTCATGATGTATGTG
1 ATCTGAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTG
45933430 GCACATGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTGAC
Found at i:45940431 original size:27 final size:28
Alignment explanation
Indices: 45940374--45940443 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
45940364 AAATTTGTAC
**
45940374 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
45940402 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
45940429 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
45940444 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:45940452 original size:27 final size:27
Alignment explanation
Indices: 45940374--45940455 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
45940364 AAATTTGTAC
* *
45940374 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
45940402 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
45940429 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
45940456 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:45948354 original size:27 final size:28
Alignment explanation
Indices: 45948297--45948366 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
45948287 AAATTTGTAC
**
45948297 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
45948325 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
45948352 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
45948367 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:45948375 original size:27 final size:27
Alignment explanation
Indices: 45948297--45948378 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
45948287 AAATTTGTAC
* *
45948297 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
45948325 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
45948352 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
45948379 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:45953722 original size:49 final size:48
Alignment explanation
Indices: 45953652--45953991 Score: 481
Period size: 47 Copynumber: 7.1 Consensus size: 48
45953642 TATCACAGTT
* * *
45953652 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCA-ATATAC
* *
45953701 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATC-ACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAATATAC
* *
45953748 ATACACTTGCACATTCATCACATTGGCCATTCAGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA-ATATAC
** *
45953797 ATACACCATCACATTCATCACATTGGCCATTCGGCCTTATC-ATATAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAATATAC
*
45953844 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA-ATATAC
* *
45953893 ATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATC-ACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAATATAC
*
45953940 ATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA-ATATAC
45953989 ATA
1 ATA
45953992 TCTTGTACAT
Statistics
Matches: 260, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
47 129 0.50
49 129 0.50
50 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (48 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAATATAC
Found at i:45953809 original size:96 final size:96
Alignment explanation
Indices: 45953652--45953991 Score: 547
Period size: 96 Copynumber: 3.5 Consensus size: 96
45953642 TATCACAGTT
* * * * * *
45953652 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATATATATATACTTTCACATT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATT
45953716 CATCACATTGGCCATTCGGCCTTATCACATAC
65 CATCACATTGGCCATTCGGCCTTATCACATAC
* * *
45953748 ATACACTTGCACATTCATCACATTGGCCATTCAGCCTTATCACATATACATACACCATCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATTC
* *
45953813 ATCACATTGGCCATTCGGCCTTATCATATAT
66 ATCACATTGGCCATTCGGCCTTATCACATAC
*
45953844 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATTC
45953909 ATCACATTGGCCATTCGGCCTTATCACATAC
66 ATCACATTGGCCATTCGGCCTTATCACATAC
*
45953940 ATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACATATACATA
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATA
45953992 TCTTGTACAT
Statistics
Matches: 225, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
96 223 0.99
97 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATTC
ATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:45956653 original size:39 final size:39
Alignment explanation
Indices: 45956599--45956761 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
45956589 TGTGTATGAA
*
45956599 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
45956638 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
45956677 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
45956716 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
45956756 TGTGCG
1 TGTGCG
45956762 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:45956777 original size:40 final size:39
Alignment explanation
Indices: 45956599--45956791 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
45956589 TGTGTATGAA
* *
45956599 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
45956638 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
45956677 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
45956716 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
45956756 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
45956792 AGTTTGAACG
Statistics
Matches: 137, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:45959912 original size:25 final size:25
Alignment explanation
Indices: 45959870--45959918 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
45959860 CTTTATTATT
* *
45959870 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
45959895 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
45959919 GGTCCTCTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:45965524 original size:23 final size:23
Alignment explanation
Indices: 45965507--45965584 Score: 129
Period size: 23 Copynumber: 3.4 Consensus size: 23
45965497 ACAGCGTAGT
45965507 TGCTAATAGTAACGCAGCAAAGC
1 TGCTAATAGTAACGCAGCAAAGC
* *
45965530 TGCTAGTAGTAACGCAGCAAAGT
1 TGCTAATAGTAACGCAGCAAAGC
*
45965553 TGCTAGTAGTAACGCAGCAAAGC
1 TGCTAATAGTAACGCAGCAAAGC
45965576 TGCTAATAG
1 TGCTAATAG
45965585 CTCAAAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (23 bp):
TGCTAATAGTAACGCAGCAAAGC
Found at i:45966398 original size:22 final size:22
Alignment explanation
Indices: 45966367--45966421 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
45966357 ATTTTAATTT
45966367 ATTT-CACATTTTAACCACTAA
1 ATTTACACATTTTAACCACTAA
45966388 ATTTACACATTTTAACCACTAA
1 ATTTACACATTTTAACCACTAA
45966410 ATTTACACATTT
1 ATTTACACATTT
45966422 CACAATTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.12
22 29 0.88
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTTACACATTTTAACCACTAA
Found at i:45966517 original size:20 final size:21
Alignment explanation
Indices: 45966478--45966519 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
45966468 AAACTTGTAT
*
45966478 AACTATCATCAAACATTCAAA
1 AACTATCAACAAACATTCAAA
*
45966499 AACTATCAAGAAA-ATTCAAA
1 AACTATCAACAAACATTCAAA
45966519 A
1 A
45966520 TACATGCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.57, C:0.19, G:0.02, T:0.21
Consensus pattern (21 bp):
AACTATCAACAAACATTCAAA
Found at i:45967003 original size:17 final size:17
Alignment explanation
Indices: 45966981--45967016 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
45966971 TAAAATTTCT
45966981 AAACGAAACTTTCAAAC
1 AAACGAAACTTTCAAAC
45966998 AAACGAAACTTTCAAAC
1 AAACGAAACTTTCAAAC
45967015 AA
1 AA
45967017 TCATTAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.22, G:0.06, T:0.17
Consensus pattern (17 bp):
AAACGAAACTTTCAAAC
Found at i:45970186 original size:40 final size:40
Alignment explanation
Indices: 45970141--45970348 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
45970131 CGGAATACAA
*
45970141 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
45970181 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
45970221 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
45970261 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAAT-GCCTTCGGGTCTTAGC
** * ** * * *
45970301 CCGGATATAATTACTAGCATAAATGTCTTCGAGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
45970341 CCGGATAT
1 CCGGATAT
45970349 CATTCAATTG
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:45974919 original size:40 final size:40
Alignment explanation
Indices: 45974862--45975028 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
45974852 AATTGAATGT
* *
45974862 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTTA
*
45974902 TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TTA
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTTA
* * *
45974942 TATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TTA
** *
45974982 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTTA
45975022 TATCCGG
1 TATCCGG
45975029 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTTA
Found at i:45974999 original size:80 final size:79
Alignment explanation
Indices: 45974862--45975028 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
45974852 AATTGAATGT
* * *
45974862 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCAT
*
45974927 TCGTGCAAGTTGTTA
65 TCGTGCAAGTGGTTA
* *
45974942 TATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGCA
**
45975006 TTCGTGCGTGTGGTTA
64 TTCGTGCAAGTGGTTA
45975022 TATCCGG
1 TATCCGG
45975029 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 74 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGTTA
Found at i:45975063 original size:25 final size:25
Alignment explanation
Indices: 45975034--45975083 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
45975024 TCCGGTTGTA
45975034 TTCCGAAGAAGCTTGGGTTGAAGGT
1 TTCCGAAGAAGCTTGGGTTGAAGGT
45975059 TTCCGAAGAAGCTTGGGTTGAAGGT
1 TTCCGAAGAAGCTTGGGTTGAAGGT
45975084 GAGCGTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.28
Consensus pattern (25 bp):
TTCCGAAGAAGCTTGGGTTGAAGGT
Found at i:45981666 original size:40 final size:40
Alignment explanation
Indices: 45981621--45981824 Score: 212
Period size: 40 Copynumber: 5.1 Consensus size: 40
45981611 CGGAATACAA
*
45981621 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
45981661 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
45981701 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
45981741 CCGGATGTAGTCACTAGCAC-AATGGCCTTTGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAAT-GCCTTCGGGTCTTAGC
** * ** * *
45981781 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
45981821 CCGG
1 CCGG
45981825 GTATCATTCA
Statistics
Matches: 137, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 131 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:45986724 original size:36 final size:34
Alignment explanation
Indices: 45986669--45986741 Score: 101
Period size: 36 Copynumber: 2.1 Consensus size: 34
45986659 AATTGAAAGA
*
45986669 GAAAAGAAAATAATTCAATTCCAAATGGAAATAG
1 GAAAAGAAAATAATCCAATTCCAAATGGAAATAG
* *
45986703 GAAAAGAGAGAATAATCCAATTCCAAATTGAAGTAG
1 GAAAAGA-A-AATAATCCAATTCCAAATGGAAATAG
45986739 GAA
1 GAA
45986742 TACAAAAGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 7 0.21
35 1 0.03
36 26 0.76
ACGTcount: A:0.53, C:0.10, G:0.18, T:0.19
Consensus pattern (34 bp):
GAAAAGAAAATAATCCAATTCCAAATGGAAATAG
Found at i:45997368 original size:38 final size:38
Alignment explanation
Indices: 45997309--45997394 Score: 138
Period size: 38 Copynumber: 2.3 Consensus size: 38
45997299 ATAGAAACGT
45997309 GGTGATATTCGGGTTCCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATTCGGGTTCCGTGCCTAGCAGGCTTTGTGCC
* *
45997347 GGTGATATTTGGGCTT-TGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATTCGGG-TTCCGTGCCTAGCAGGCTTTGTGCC
45997385 GGTGATATTC
1 GGTGATATTC
45997395 AAGCTCCATG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 42 0.95
39 2 0.05
ACGTcount: A:0.12, C:0.20, G:0.34, T:0.35
Consensus pattern (38 bp):
GGTGATATTCGGGTTCCGTGCCTAGCAGGCTTTGTGCC
Found at i:45998743 original size:17 final size:15
Alignment explanation
Indices: 45998719--45998765 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
45998709 TCCTTATAAA
45998719 CATATATCATTCATTT
1 CATATATCA-TCATTT
45998735 CATTATATCAAT-ATTT
1 CA-TATATC-ATCATTT
*
45998751 CATATACCATCATTT
1 CATATATCATCATTT
45998766 TCATGAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 2 0.07
15 9 0.33
16 8 0.30
17 7 0.26
18 1 0.04
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (15 bp):
CATATATCATCATTT
Found at i:45999288 original size:24 final size:25
Alignment explanation
Indices: 45999251--45999298 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
45999241 CAAGCGAGCC
*
45999251 ATATCAGGAAGCTCAT-AAGAGCTT
1 ATATCAAGAAGCTCATGAAGAGCTT
*
45999275 ATATCAAGACGCTCATGAAGAGCT
1 ATATCAAGAAGCTCATGAAGAGCT
45999299 ACGTTTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (25 bp):
ATATCAAGAAGCTCATGAAGAGCTT
Found at i:46001457 original size:43 final size:43
Alignment explanation
Indices: 46001394--46001564 Score: 211
Period size: 43 Copynumber: 4.0 Consensus size: 43
46001384 TATTGACATG
* * *
46001394 TGATATACGGGCTTCGGGCCTAGCCGGCTATAATGCCAGTGAAA
1 TGATAT-CGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAA
* *
46001438 TGATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGGGAGA
1 TGATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
46001481 TAATATCGGGCCTC-GAGCCTAGCAGACTATAATGCCGGTGAAA
1 TGATATCGGGCTTCAG-GCCTAGCAGGCTATAATGCCGGTGAAA
* * *
46001524 TGATATCGGGCTTTAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAA
46001565 TGAATTCAGA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 13 0.12
43 90 0.83
44 6 0.06
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (43 bp):
TGATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:46001546 original size:86 final size:86
Alignment explanation
Indices: 46001396--46001560 Score: 242
Period size: 86 Copynumber: 1.9 Consensus size: 86
46001386 TTGACATGTG
* * * * *
46001396 ATATACGGGCTTCGGGCCTAGCCGGCTATAATGCCAGTGAAATGATATCGGGCTTCAGGCCTAGC
1 ATATACGGGCCTCGAGCCTAGCAGACTATAATGCCAGTGAAATGATATCGGGCTTCAAGCCTAGC
*
46001461 AGGCTATAATGCCGGGGAGATA
66 AGGCGA-AATGCCGGGGAGATA
* *
46001483 ATAT-CGGGCCTCGAGCCTAGCAGACTATAATGCCGGTGAAATGATATCGGGCTTTAAGCCTAGC
1 ATATACGGGCCTCGAGCCTAGCAGACTATAATGCCAGTGAAATGATATCGGGCTTCAAGCCTAGC
46001547 AGGCGAAATGCCGG
66 AGGCGAAATGCCGG
46001561 TGAATGAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
85 8 0.11
86 58 0.83
87 4 0.06
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.21
Consensus pattern (86 bp):
ATATACGGGCCTCGAGCCTAGCAGACTATAATGCCAGTGAAATGATATCGGGCTTCAAGCCTAGC
AGGCGAAATGCCGGGGAGATA
Found at i:46005946 original size:41 final size:41
Alignment explanation
Indices: 46005874--46005963 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
46005864 GTATTACACC
* *
46005874 GTGCCTAGTAGGCTTTATGCCAGTGTATTATATCAAGCTTT
1 GTGCCTAGCAGGCTTCATGCCAGTGTATTATATCAAGCTTT
* * * *
46005915 GTGCTTAGCAGGCTTCATGCCGGTGTGTTATATCAGGCTTT
1 GTGCCTAGCAGGCTTCATGCCAGTGTATTATATCAAGCTTT
*
46005956 GGGCCTAG
1 GTGCCTAG
46005964 TAGTCTTTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.36
Consensus pattern (41 bp):
GTGCCTAGCAGGCTTCATGCCAGTGTATTATATCAAGCTTT
Found at i:46006415 original size:21 final size:21
Alignment explanation
Indices: 46006389--46006429 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46006379 ATATGCGAGA
46006389 AATTTA-CTTAAGTTATGGATG
1 AATTTATCTT-AGTTATGGATG
*
46006410 AATTTATCTTGGTTATGGAT
1 AATTTATCTTAGTTATGGAT
46006430 AAATACACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.46
Consensus pattern (21 bp):
AATTTATCTTAGTTATGGATG
Found at i:46018386 original size:26 final size:25
Alignment explanation
Indices: 46018357--46018434 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 25
46018347 ACTTTTGTTA
46018357 AGGGACT-TTGGATGAAAATGTGAAAT
1 AGGGACTATTGG-TGAAAA-GTGAAAT
*
46018383 AGGGACTAATTTGTGAAAAGTGAAAT
1 AGGGACT-ATTGGTGAAAAGTGAAAT
* *
46018409 AGGGACTAATTTGTGAAATGTGAAAT
1 AGGGACT-ATTGGTGAAAAGTGAAAT
46018435 TTATGCGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
26 39 0.81
27 6 0.12
28 3 0.06
ACGTcount: A:0.40, C:0.04, G:0.28, T:0.28
Consensus pattern (25 bp):
AGGGACTATTGGTGAAAAGTGAAAT
Found at i:46019923 original size:37 final size:37
Alignment explanation
Indices: 46019873--46019947 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
46019863 AACGAGTAAG
46019873 TAGAAATCATGAGAATTAATACAATTTGTATTAATAA
1 TAGAAATCATGAGAATTAATACAATTTGTATTAATAA
46019910 TAGAAATCATGAGAATTAATACAATTTGTATTAATAA
1 TAGAAATCATGAGAATTAATACAATTTGTATTAATAA
46019947 T
1 T
46019948 GTTCTTATGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (37 bp):
TAGAAATCATGAGAATTAATACAATTTGTATTAATAA
Found at i:46022083 original size:42 final size:42
Alignment explanation
Indices: 46022022--46022146 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 42
46022012 ATTGATATAT
** *
46022022 ATATGTGATCCCGTATAAGACCATATCTGGGATATGGCATCG
1 ATATGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCG
* * * * *
46022064 GTATGTGATTTCGTGTAAGACCATGTCTAGAACATGGCATCG
1 ATATGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCG
* *
46022106 ATATGAGACTTT-GTGTAAGACCATAGT-TGGGCTATGGCATC
1 ATATGTGA-TTTCGTGTAAGACCATA-TCTGGGATATGGCATC
46022147 ATGATGACAT
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
ATATGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCG
Found at i:46023181 original size:18 final size:18
Alignment explanation
Indices: 46023156--46023205 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
46023146 TAGCAGTGCT
46023156 AGTAATCAGTGCAGTAAGC
1 AGTAATCAGTGCAGTAA-C
* * *
46023175 -GTGATCAATACAGTAAC
1 AGTAATCAGTGCAGTAAC
46023192 AGTAATCAGTGCAG
1 AGTAATCAGTGCAG
46023206 AATGCAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (18 bp):
AGTAATCAGTGCAGTAAC
Found at i:46023578 original size:26 final size:27
Alignment explanation
Indices: 46023549--46023606 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
46023539 TACAAATTGT
*
46023549 AGGGAAAATA-AGTCATTTTACCTTAC
1 AGGGAAAATACAGTCATTTTACCCTAC
** *
46023575 AGGGGTATTACAGTCATTTTACCCTAC
1 AGGGAAAATACAGTCATTTTACCCTAC
46023602 AGGGA
1 AGGGA
46023607 TATTTTGGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (27 bp):
AGGGAAAATACAGTCATTTTACCCTAC
Found at i:46023668 original size:25 final size:27
Alignment explanation
Indices: 46023559--46023674 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
46023549 AGGGAAAATA
* *
46023559 AGTCATTTTACCTTACAGGGGTATTAC
1 AGTCATTTTACCCTACAGGGGTATTTC
* *
46023586 AGTCATTTTACCCTACAGGGATATTTT
1 AGTCATTTTACCCTACAGGGGTATTTC
* * * *
46023613 GGTCATTCTACCCTA-TGGTGGTATTTT
1 AGTCATTTTACCCTACAGG-GGTATTTC
*
46023640 AGTCATTTTACCCT-GA-GGGTATTTC
1 AGTCATTTTACCCTACAGGGGTATTTC
46023665 AGTCATTTTA
1 AGTCATTTTA
46023675 TCACATAAAG
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
25 17 0.23
26 3 0.04
27 55 0.73
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (27 bp):
AGTCATTTTACCCTACAGGGGTATTTC
Found at i:46023707 original size:27 final size:27
Alignment explanation
Indices: 46023666--46024077 Score: 528
Period size: 27 Copynumber: 15.4 Consensus size: 27
46023656 GGGTATTTCA
*
46023666 GTCATTTTATCACATAAAGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
46023693 GTCATTTTATAACATAAGGG-AAATATC
1 GTCATTTTATCACATAAGGGCAAA-ATC
* * * *
46023720 GCCATTTTATCACATGAGGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
46023747 GTCATTTTATCAAATAAGGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
* *
46023774 GTCATTTTATTACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
46023801 GTCATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
46023828 ATCGTTTTATCACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
46023855 GCCATTTTATCACATGAGGGAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
46023882 GTTATTTTATCACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
46023909 ATCATTTTATCACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
46023936 GTCATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
46023963 GTCATTTTATCACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
46023990 GTCATTTTATCAC--AAGGGTAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
46024015 ATCATTTTATCACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
46024042 GTCATTTTATCAC--AAGGGTAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
46024067 GTCATTTTATC
1 GTCATTTTATC
46024078 GTCATTTTAT
Statistics
Matches: 334, Mismatches: 47, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
25 43 0.13
26 3 0.01
27 285 0.85
28 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:46023730 original size:54 final size:54
Alignment explanation
Indices: 46023666--46024151 Score: 541
Period size: 54 Copynumber: 8.9 Consensus size: 54
46023656 GGGTATTTCA
* *
46023666 GTCATTTTATCACATAAAGGCAAAATCGTCATTTTATAACATAAGGGAAATATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAATATC
* * * * * *
46023720 GCCATTTTATCACATGAGGGTAAAATTGTCATTTTATCAAATAAGGGTAAA-ATT
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGG-AAATATC
* *
46023774 GTCATTTTATTACATAAGGGCAATATCGTCATTTTATCACATAAGGGTAAA-ATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGG-AAATATC
* * * * * *
46023828 ATCGTTTTATCACATAAGGGCAATATCGCCATTTTATCACATGAGGGAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAATATC
* * * *
46023882 GTTATTTTATCACATAAGGGCAATATCATCATTTTATCACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAATATC
* *
46023936 GTCATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAATATC
* * *
46023990 GTCATTTTATCAC--AAGGGTAAAATCATCATTTTATCACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAATATC
* * ** *
46024042 GTCATTTTATCACAAGGGTAAAATCGTCATTTTATCGTCATTTTATCACATCAGGGTAAA-ATC
1 GTCATTTTATCAC-A---T--AA-GGGCA--AAATCGTCATTTTATCACATAAGGG-AAATATC
* *
46024105 GTTATTTTATCACATAAGGGCAATATCGTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGG
46024152 TAAACTCGAA
Statistics
Matches: 371, Mismatches: 47, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
52 51 0.14
53 3 0.01
54 265 0.71
55 3 0.01
56 3 0.01
57 2 0.01
59 1 0.00
60 2 0.01
61 2 0.01
62 1 0.00
63 36 0.10
64 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (54 bp):
GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAATATC
Found at i:46023754 original size:81 final size:81
Alignment explanation
Indices: 46023666--46024155 Score: 567
Period size: 81 Copynumber: 6.0 Consensus size: 81
46023656 GGGTATTTCA
* * *
46023666 GTCATTTTATCACATAAAGGCAAAATCGTCATTTTATAACATAAGGGAAATATCGCCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAATATCGTCATTTTATC
* *
46023731 ACATGAGGGTAAAATT
66 ACATAAGGGTAAAATC
* * * * *
46023747 GTCATTTTATCAAATAAGGGTAAAATTGTCATTTTATTACATAAGGGCAATATCGTCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAATATCGTCATTTTATC
46023812 ACATAAGGGTAAAATC
66 ACATAAGGGTAAAATC
* * * * * * *
46023828 ATCGTTTTATCACATAAGGGCAATATCGCCATTTTATCACATGAGGGAAAAATCGTTATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAATATCGTCATTTTATC
* *
46023893 ACATAAGGGCAATATC
66 ACATAAGGGTAAAATC
* *
46023909 ATCATTTTATCACATAAGGGCAATATCGTCATTTTATCACATAAGGGTAAA-ATCGTCATTTTAT
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGG-AAATATCGTCATTTTAT
* *
46023973 CACATAAGGGCAATATC
65 CACATAAGGGTAAAATC
* * *
46023990 GTCATTTTATCAC--AAGGGTAAAATCATCATTTTATCACATAAGGGCAATATCGTCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAATATCGTCATTTTATC
46024053 AC--AAGGGTAAAATCGTCATTTTATC
66 ACATAAGGGT--AA-----A----ATC
* * * *
46024078 GTCATTTTATCACATCAGGGTAAAATCGTTATTTTATCACATAAGGGCAATATCGTCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAATATCGTCATTTTATC
46024143 ACATAAGGGTAAA
66 ACATAAGGGTAAA
46024156 CTCGAAAAGA
Statistics
Matches: 355, Mismatches: 37, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
77 5 0.01
78 2 0.01
79 47 0.13
81 224 0.63
82 3 0.01
85 1 0.00
88 16 0.05
90 51 0.14
92 6 0.02
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (81 bp):
GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAATATCGTCATTTTATC
ACATAAGGGTAAAATC
Found at i:46024080 original size:11 final size:11
Alignment explanation
Indices: 46024064--46024088 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46024054 CAAGGGTAAA
46024064 ATCGTCATTTT
1 ATCGTCATTTT
46024075 ATCGTCATTTT
1 ATCGTCATTTT
46024086 ATC
1 ATC
46024089 ACATCAGGGT
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:0.20, C:0.20, G:0.08, T:0.52
Consensus pattern (11 bp):
ATCGTCATTTT
Found at i:46024085 original size:36 final size:37
Alignment explanation
Indices: 46024038--46024115 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 37
46024028 ATAAGGGCAA
46024038 TATCGTCATTTTATCACA-AGGGTAAAATCGTCATTT
1 TATCGTCATTTTATCACACAGGGTAAAATCGTCATTT
*
46024074 TATCGTCATTTTATCACATCAGGGTAAAATCGTTATTT
1 TATCGTCATTTTATCACA-CAGGGTAAAATCGTCATTT
46024112 TATC
1 TATC
46024116 ACATAAGGGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 18 0.46
38 21 0.54
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (37 bp):
TATCGTCATTTTATCACACAGGGTAAAATCGTCATTT
Found at i:46024113 original size:27 final size:27
Alignment explanation
Indices: 46024075--46024155 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
46024065 TCGTCATTTT
*
46024075 ATCGTCATTTTATCACATCAGGGTAAA
1 ATCGTCATTTTATCACATAAGGGTAAA
* * *
46024102 ATCGTTATTTTATCACATAAGGGCAAT
1 ATCGTCATTTTATCACATAAGGGTAAA
46024129 ATCGTCATTTTATCACATAAGGGTAAA
1 ATCGTCATTTTATCACATAAGGGTAAA
46024156 CTCGAAAAGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (27 bp):
ATCGTCATTTTATCACATAAGGGTAAA
Found at i:46024115 original size:63 final size:64
Alignment explanation
Indices: 46024016--46024142 Score: 184
Period size: 63 Copynumber: 2.0 Consensus size: 64
46024006 GGTAAAATCA
* *
46024016 TCATTTTATCACATAAGGGCAATATCGTCATTTTATCAC-AAGGGTAAAATCGTCATTTTATCG
1 TCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACAAAGGGCAAAATCGTCATTTTATCG
* * * *
46024079 TCATTTTATCACATCAGGGTAAAATCGTTATTTTATCACATAAGGGCAATATCGTCATTTTATC
1 TCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACA-AAGGGCAAAATCGTCATTTTATC
46024143 ACATAAGGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 35 0.62
65 21 0.38
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (64 bp):
TCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACAAAGGGCAAAATCGTCATTTTATCG
Found at i:46024137 original size:90 final size:89
Alignment explanation
Indices: 46023986--46024155 Score: 288
Period size: 90 Copynumber: 1.9 Consensus size: 89
46023976 ATAAGGGCAA
46023986 TATCGTCATTTTATCACAAGGGTAAAATCATCATTTTATCACATAAGGGCAATATCGTCATTTTA
1 TATCGTCATTTTATCACAAGGGTAAAATCATCATTTTATCACATAAGGGCAATATCGTCATTTTA
46024051 TCAC-AAGGGTAAAATCGTCATTT
66 TCACAAAGGGTAAAATCGTCATTT
* *
46024074 TATCGTCATTTTATCACATCAGGGTAAAATCGTTATTTTATCACATAAGGGCAATATCGTCATTT
1 TATCGTCATTTTATCACA--AGGGTAAAATCATCATTTTATCACATAAGGGCAATATCGTCATTT
46024139 TATCACATAAGGGTAAA
64 TATCACA-AAGGGTAAA
46024156 CTCGAAAAGA
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
88 18 0.24
90 49 0.64
92 9 0.12
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (89 bp):
TATCGTCATTTTATCACAAGGGTAAAATCATCATTTTATCACATAAGGGCAATATCGTCATTTTA
TCACAAAGGGTAAAATCGTCATTT
Found at i:46026153 original size:39 final size:39
Alignment explanation
Indices: 46026106--46026288 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
46026096 AATGTTCGAG
46026106 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
46026145 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
46026184 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
46026223 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
46026263 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
46026289 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:46034171 original size:39 final size:39
Alignment explanation
Indices: 46034124--46034344 Score: 318
Period size: 39 Copynumber: 5.6 Consensus size: 39
46034114 AATGTTCGAG
46034124 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
46034163 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
46034202 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
46034240 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
46034279 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
46034319 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
46034345 GTTTGAACGA
Statistics
Matches: 165, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 38 0.23
39 89 0.54
40 38 0.23
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:46034256 original size:116 final size:118
Alignment explanation
Indices: 46034124--46034344 Score: 329
Period size: 116 Copynumber: 1.9 Consensus size: 118
46034114 AATGTTCGAG
* *
46034124 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGTCCCGAAGGC
** *
46034188 AATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAATTGGCGAGTTA
66 AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGGCGAGTTA
* *
46034240 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGTCCCGAAGGC
** * *
46034305 CTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
66 AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGC
46034345 GTTTGAACGA
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
116 51 0.55
117 32 0.35
118 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (118 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGGCGAGTTA
Found at i:46034261 original size:77 final size:78
Alignment explanation
Indices: 46034124--46034344 Score: 318
Period size: 77 Copynumber: 2.8 Consensus size: 78
46034114 AATGTTCGAG
46034124 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
* *
46034189 ATTGTGCGAGTTA
66 ATTGTGCAAATTA
46034202 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
*
46034266 ATTGTGCAAATTG
66 ATTGTGCAAATTA
* ** * ** * *
46034279 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
46034344 C
64 C
46034345 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
77 59 0.46
78 42 0.33
79 19 0.15
80 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (78 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
ATTGTGCAAATTA
Found at i:46038684 original size:13 final size:13
Alignment explanation
Indices: 46038666--46038690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46038656 AGGCCATGTG
46038666 AAGGACACGGGCC
1 AAGGACACGGGCC
46038679 AAGGACACGGGC
1 AAGGACACGGGC
46038691 ATGTGGTTGG
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:0.32, C:0.28, G:0.40, T:0.00
Consensus pattern (13 bp):
AAGGACACGGGCC
Found at i:46042984 original size:30 final size:30
Alignment explanation
Indices: 46042950--46043010 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46042940 TCCTTAAATC
46042950 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
46042980 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
46043010 A
1 A
46043011 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:46055348 original size:50 final size:50
Alignment explanation
Indices: 46055276--46055712 Score: 569
Period size: 50 Copynumber: 8.8 Consensus size: 50
46055266 TGCTAGAGAT
* *
46055276 ATATGAGAGCTAGCGTAAGACCATGTCTCGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
*
46055326 ATATGAGAGCTATTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
* * * * * *
46055376 AAATAAGAGCTAGTCTAAGATCATGTCTGGGACATTGTATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
* * * *
46055426 ATATGAGAGCTAGTGTAAGACCATGTTTAGGACATGGTATCAGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
* * *
46055476 ATATGAGAGTTAATGTAAGACCATGTCTGGGACATGGCATTGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
*
46055526 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
* * * **
46055576 ATATAAAAGCTAGTGTAAGACCATGTCTGGGACATGGTATCGG-CT-TTG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
* * * *
46055624 ATATGTG-TC-AGTGTAAGGCCATGTCTGGGACATGGCATCGGCCTCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
* **
46055672 ATACGAGAG-TCAGTGTAAGACCATGTCTAAGACATGGCATC
1 ATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATC
46055713 AACTCTGATG
Statistics
Matches: 332, Mismatches: 50, Indels: 10
0.85 0.13 0.03
Matches are distributed among these distances:
46 30 0.09
47 3 0.01
48 10 0.03
49 2 0.01
50 287 0.86
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
Found at i:46063548 original size:50 final size:50
Alignment explanation
Indices: 46063470--46063656 Score: 241
Period size: 50 Copynumber: 3.7 Consensus size: 50
46063460 GGGGATATAT
* * *
46063470 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCAAGATAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCTCGAGATAC
* * * *
46063520 GAAAGCTAGTGTAAGACCATGTCTGGGACATGACGTCGGCTTCGAGAAATC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCTCGAGATA-C
* * *
46063571 -AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGAGATAT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCTCGAGATAC
* * *
46063620 GAGAGCTAATGTAAGACTATGTCTTGGACATGACATC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGACATC
46063657 AGCTTGATAT
Statistics
Matches: 117, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
50 116 0.99
51 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (50 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCTCGAGATAC
Found at i:46063649 original size:100 final size:96
Alignment explanation
Indices: 46063471--46063704 Score: 292
Period size: 100 Copynumber: 2.4 Consensus size: 96
46063461 GGGATATATG
* * *
46063471 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCAAGATACGAAAGCTAGTGTAAGA
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAAGATACGAAAGCTAATGTAAGA
* *
46063536 CCATGTCTGGGACATGACGTCGGCTTCGAGAAAT
66 CCATGTCTGGGACATGACATCAGCTT---GAAAT
* * *
46063570 CAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGAGATATGAGAGCTAATGTAAG
1 -AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAAGATACGAAAGCTAATGTAAG
* * *
46063635 ACTATGTCTTGGACATGACATCAGCTTGATAT
65 ACCATGTCTGGGACATGACATCAGCTTGAAAT
* *
46063667 -GTG-TCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC
46063705 ACTGTAACAC
Statistics
Matches: 120, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
94 1 0.01
95 34 0.28
97 4 0.03
100 81 0.68
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (96 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAAGATACGAAAGCTAATGTAAGA
CCATGTCTGGGACATGACATCAGCTTGAAAT
Found at i:46066655 original size:14 final size:14
Alignment explanation
Indices: 46066636--46066664 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46066626 GATTTAATTT
46066636 TGGGTTTTAAGTTG
1 TGGGTTTTAAGTTG
46066650 TGGGTTTTAAGTTG
1 TGGGTTTTAAGTTG
46066664 T
1 T
46066665 AATAAGGCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (14 bp):
TGGGTTTTAAGTTG
Found at i:46070929 original size:39 final size:39
Alignment explanation
Indices: 46070862--46070974 Score: 163
Period size: 39 Copynumber: 2.9 Consensus size: 39
46070852 GTGTGAATTG
46070862 TGATATCCGGGCTAAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCT-AAGCCCGAAGGCAATTGTGCGAGCTA
* *
46070902 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * **
46070941 TGATATCCGGGTTAAGTCCGAAGGCGTTTGTGCG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCG
46070975 GGTTACCATA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 54 0.81
40 13 0.19
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:46070990 original size:78 final size:80
Alignment explanation
Indices: 46070859--46071004 Score: 188
Period size: 78 Copynumber: 1.9 Consensus size: 80
46070849 AATGTGTGAA
** *
46070859 TTGTGATATCCGGGCTAAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAG-CCCGA
1 TTGTGATATCCGGGCTAAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGTCCCGA
46070923 AGGCAATTGTGCGAG
66 AGGCAATTGTGCGAG
* * ** * * *
46070938 TTGTGATATCCGGG-TTAAGTCCGAAGGCGTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGA
1 TTGTGATATCCGGGCTAAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGTCCCGA
46071002 AGG
66 AGG
46071005 TGTTTTGAAC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
78 34 0.61
79 22 0.39
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (80 bp):
TTGTGATATCCGGGCTAAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGTCCCGA
AGGCAATTGTGCGAG
Found at i:46074394 original size:50 final size:50
Alignment explanation
Indices: 46074336--46074436 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
46074326 CTTCAGAAGT
* *
46074336 TAGCCAAATTGTATGTGGCAAAAATAGTGTGACTTCACGGAGTGCCAGTG
1 TAGCCAAATCGTATGTGGCAAAAATAGTGTGACTTCACAGAGTGCCAGTG
* *
46074386 TAGCCAAATCGTATGTGGCGAAAATAGTGTGACTTCATAGAGTGCCAGTG
1 TAGCCAAATCGTATGTGGCAAAAATAGTGTGACTTCACAGAGTGCCAGTG
46074436 T
1 T
46074437 CGATTATTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (50 bp):
TAGCCAAATCGTATGTGGCAAAAATAGTGTGACTTCACAGAGTGCCAGTG
Found at i:46078772 original size:39 final size:40
Alignment explanation
Indices: 46078600--46078776 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
46078590 CCAAGGCCAA
* * * * * *
46078600 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
46078639 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
46078679 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
46078719 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
46078758 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
46078777 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:46086683 original size:40 final size:40
Alignment explanation
Indices: 46086624--46086792 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
46086614 CGGGACTTTA
* * *
46086624 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
46086664 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
46086704 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
46086744 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
46086784 CCCGGATAT
1 CCCGGATAT
46086793 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:46087641 original size:17 final size:19
Alignment explanation
Indices: 46087618--46087663 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
46087608 AAGAAGCATG
46087618 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
46087636 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
46087654 AATCATGCTC
1 AATCATGCTC
46087664 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:46096866 original size:23 final size:23
Alignment explanation
Indices: 46096840--46096920 Score: 103
Period size: 23 Copynumber: 3.5 Consensus size: 23
46096830 ACGTTTACCG
46096840 CTATTAGCAGCTTTGCTTCATTA
1 CTATTAGCAGCTTTGCTTCATTA
*
46096863 CTATTAGCAGCTTTGCTAT-GTTA
1 CTATTAGCAGCTTTGCT-TCATTA
* *
46096886 CTACTAGTAGCTTTG-TTGCATTA
1 CTATTAGCAGCTTTGCTT-CATTA
46096909 CTATTAGCAGCT
1 CTATTAGCAGCT
46096921 ACGCTGCGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 46 0.94
24 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (23 bp):
CTATTAGCAGCTTTGCTTCATTA
Found at i:46100725 original size:40 final size:40
Alignment explanation
Indices: 46100597--46100727 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
46100587 TATGCTGGAA
* * * *
46100597 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
46100637 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
46100677 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
46100717 ATTATATCCGG
1 ATTATATCCGG
46100728 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:46112104 original size:28 final size:28
Alignment explanation
Indices: 46112058--46112126 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
46112048 TTTAAAACCC
*
46112058 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
46112085 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
46112113 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
46112127 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:46113778 original size:20 final size:20
Alignment explanation
Indices: 46113755--46113792 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46113745 CACATCCAAA
*
46113755 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
46113775 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
46113793 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:46120107 original size:28 final size:28
Alignment explanation
Indices: 46120061--46120129 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
46120051 TTTAAAACCC
*
46120061 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
46120088 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
46120116 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
46120130 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:46127591 original size:40 final size:39
Alignment explanation
Indices: 46127470--46127624 Score: 193
Period size: 39 Copynumber: 3.9 Consensus size: 39
46127460 TGTGAATGAA
* *
46127470 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
46127509 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
46127548 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
46127588 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
46127625 GTTTGAACGA
Statistics
Matches: 101, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 60 0.59
40 41 0.41
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:46127609 original size:79 final size:79
Alignment explanation
Indices: 46127470--46127624 Score: 213
Period size: 79 Copynumber: 2.0 Consensus size: 79
46127460 TGTGAATGAA
** *
46127470 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
46127535 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * * *
46127548 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTA
*
46127613 TGTCCCGAAGGC
65 AGTCCCGAAGGC
46127625 GTTTGAACGA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 25 0.38
79 32 0.48
80 9 0.14
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.24
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:46127651 original size:79 final size:78
Alignment explanation
Indices: 46127480--46127662 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 78
46127470 TGTGCGAATT
* ** *
46127480 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGCCCGAAGGC
** *
46127545 AATTGTGCGAGTT
66 AATTGAACGAGTA
* * * *
46127558 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAG
1 GTGATATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAG-CCCGAAG
**
46127623 GCGTTTGAACGAGTA
64 GCAATTGAACGAGTA
*
46127638 GCT-ATATCC-GGTTAAACTCCGAAGG
1 G-TGATATCCGGGTTAAGC-CCGAAGG
46127663 TATGTGATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
78 17 0.20
79 45 0.52
80 24 0.28
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
GTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGCCCGAAGGC
AATTGAACGAGTA
Found at i:46135515 original size:39 final size:39
Alignment explanation
Indices: 46135461--46135623 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
46135451 TGTGAATGAA
46135461 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
46135500 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
46135539 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
46135578 TGTGTGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
46135618 TGTGCG
1 TGTGCG
46135624 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 98 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:46135639 original size:40 final size:39
Alignment explanation
Indices: 46135461--46135654 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
46135451 TGTGAATGAA
* *
46135461 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
46135500 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
46135539 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
46135578 TGTGTGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
46135618 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
46135655 GTTTGAAGGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 98 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:46148736 original size:24 final size:24
Alignment explanation
Indices: 46148709--46148754 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
46148699 TTAAGTCGGA
46148709 GATAAGGTATTTTTGAAAGTGTGC
1 GATAAGGTATTTTTGAAAGTGTGC
46148733 GATAAGGTATTTTTGAAAGTGT
1 GATAAGGTATTTTTGAAAGTGT
46148755 CTCCATGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.28, T:0.39
Consensus pattern (24 bp):
GATAAGGTATTTTTGAAAGTGTGC
Found at i:46154552 original size:12 final size:12
Alignment explanation
Indices: 46154504--46154553 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
46154494 ATGGCCATGA
*
46154504 AGGGATTTTAGG
1 AGGGATTTGAGG
*
46154516 AGGGAGTTGAGG
1 AGGGATTTGAGG
* *
46154528 AGAGATATGAGG
1 AGGGATTTGAGG
*
46154540 AGGGATTTTAGG
1 AGGGATTTGAGG
46154552 AG
1 AG
46154554 AAAATCAAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.46, T:0.24
Consensus pattern (12 bp):
AGGGATTTGAGG
Found at i:46156001 original size:26 final size:27
Alignment explanation
Indices: 46155886--46156012 Score: 202
Period size: 27 Copynumber: 4.7 Consensus size: 27
46155876 CGTACCTGAA
* *
46155886 CCCTTATATGATAAAATGGCGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTT
*
46155913 CCCTTATGTGATAAAATGACAATTTTT
1 CCCTTATGTGATAAAATGACGATTTTT
46155940 CCCTTATGTGATAAAATGACGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTT
46155967 CCCTTATGTGATAAAATGACGA-TTTT
1 CCCTTATGTGATAAAATGACGATTTTT
* *
46155993 CCCTAATGTGATAAGATGAC
1 CCCTTATGTGATAAAATGAC
46156013 CGAAATACCT
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
26 22 0.23
27 72 0.77
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATTTTT
Found at i:46159937 original size:40 final size:41
Alignment explanation
Indices: 46159883--46159979 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
46159873 TAACTCGGTA
* *
46159883 TCGCACACTTAGTGCC-TTATATAGCCGAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCATT-TATAGCCAAAGCTATTTCAAAC
* *
46159923 TCGCACAGTTAGTGCCATTTGTAGCCAAAGCTATTTCAAAC
1 TCGCACACTTAGTGCCATTTATAGCCAAAGCTATTTCAAAC
46159964 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
46159980 AACATAATCG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 42 0.84
41 8 0.16
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTTATAGCCAAAGCTATTTCAAAC
Found at i:46169429 original size:10 final size:10
Alignment explanation
Indices: 46169405--46169464 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
46169395 ATATTAATAT
*
46169405 TTTAA-ATAT
1 TTTAATATAA
46169414 TTTAATATAA
1 TTTAATATAA
46169424 TTTAATATAAA
1 TTTAATAT-AA
* * * **
46169435 ATAAAAATCT
1 TTTAATATAA
46169445 TTTAATATAA
1 TTTAATATAA
46169455 TTTAATATAA
1 TTTAATATAA
46169465 AATATTATTT
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
9 5 0.13
10 26 0.68
11 7 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTAATATAA
Found at i:46169450 original size:31 final size:31
Alignment explanation
Indices: 46169408--46169654 Score: 115
Period size: 30 Copynumber: 8.0 Consensus size: 31
46169398 TTAATATTTT
46169408 AAATATTTTAATATAATTTAATATAAAATAA
1 AAATATTTTAATATAATTTAATATAAAATAA
*
46169439 AAATCTTTTAATATAATTTAATATAAAAT--
1 AAATATTTTAATATAATTTAATATAAAATAA
* * * ***
46169468 -ATTATTTCTAAATTTTAGAAAATATAAAA-ATA
1 AAATATTT-T-AATATAATTTAATATAAAATA-A
* *
46169500 AAATATTTTAA-ATATTTTATTATAACTTAATATA
1 AAATATTTTAATATAATTTAATATAA---AATA-A
** * *
46169534 AAATA-TAAAAT-TAATTT-GTATAAAATATGTT
1 AAATATTTTAATATAATTTAATATAAAATA---A
46169565 AAATATTTTAATATAATTTAATATAAAAT--
1 AAATATTTTAATATAATTTAATATAAAATAA
* * * * *
46169594 -ATTATTTCCAAATTTCAA-ATAATATAGAAT-A
1 AAATATTT--TAATAT-AATTTAATATAAAATAA
*
46169625 AAATATTTTAATATAATTTATTATAAAATA
1 AAATATTTTAATATAATTTAATATAAAATA
46169655 TTAAATTAAA
Statistics
Matches: 158, Mismatches: 35, Indels: 46
0.66 0.15 0.19
Matches are distributed among these distances:
28 11 0.07
29 7 0.04
30 48 0.30
31 38 0.24
32 16 0.10
33 22 0.14
34 16 0.10
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (31 bp):
AAATATTTTAATATAATTTAATATAAAATAA
Found at i:46173936 original size:15 final size:15
Alignment explanation
Indices: 46173916--46173961 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
46173906 ATGCATAACA
46173916 ATACTAAATATATAC
1 ATACTAAATATATAC
*
46173931 ATACTAAATATATAT
1 ATACTAAATATATAC
46173946 ATACATAATATATATA
1 ATAC-TAA-ATATATA
46173962 AAATGAACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 18 0.64
16 3 0.11
17 7 0.25
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (15 bp):
ATACTAAATATATAC
Found at i:46173960 original size:19 final size:19
Alignment explanation
Indices: 46173923--46173961 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
46173913 ACAATACTAA
*
46173923 ATATATACATACTAAATAT
1 ATATATACATAATAAATAT
*
46173942 ATATATACATAATATATAT
1 ATATATACATAATAAATAT
46173961 A
1 A
46173962 AAATGAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATATACATAATAAATAT
Found at i:46174036 original size:3 final size:3
Alignment explanation
Indices: 46174028--46174057 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
46174018 ATATATATAC
*
46174028 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46174058 AAGGATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46174257 original size:21 final size:21
Alignment explanation
Indices: 46174218--46174257 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46174208 TAACATTAAT
* *
46174218 AATAAATATAATAGGAATAAA
1 AATAAATAAAATAAGAATAAA
*
46174239 AATAAATAAAATAATAATA
1 AATAAATAAAATAAGAATA
46174258 TATACATAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (21 bp):
AATAAATAAAATAAGAATAAA
Found at i:46174387 original size:23 final size:22
Alignment explanation
Indices: 46174254--46174397 Score: 76
Period size: 23 Copynumber: 6.0 Consensus size: 22
46174244 ATAAAATAAT
*
46174254 AATATATACATAGTATGGTATTAAA
1 AATATATACATA--ATAG-ATTAAA
* *
46174279 AATATATATATAATAGTATTTAAG
1 AATATATACATAATAG-A-TTAAA
*
46174303 AATATATACATAAGATGA-TATAA
1 AATATATACATAATA-GATTA-AA
* * *
46174326 AATACATACGTGGAATAGAATAAGA
1 AATATATACAT--AATAGATTAA-A
*
46174351 AATATATA-ACTAATGGCATTAAA
1 AATATATACA-TAATAG-ATTAAA
*
46174374 AATATATACATAATATATATAAA
1 AATATATACATAATAGAT-TAAA
46174397 A
1 A
46174398 TACATATAAT
Statistics
Matches: 93, Mismatches: 15, Indels: 24
0.70 0.11 0.18
Matches are distributed among these distances:
22 4 0.04
23 37 0.40
24 26 0.28
25 26 0.28
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (22 bp):
AATATATACATAATAGATTAAA
Found at i:46174587 original size:17 final size:17
Alignment explanation
Indices: 46174565--46174598 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46174555 AAAATTAAAT
*
46174565 ATAATATAACAATAATA
1 ATAATATAAAAATAATA
46174582 ATAATATAAAAATAATA
1 ATAATATAAAAATAATA
46174599 GTGATAACAG
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAATATAAAAATAATA
Found at i:46175283 original size:17 final size:18
Alignment explanation
Indices: 46175257--46175291 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46175247 ATTTTTTCCT
*
46175257 TTTTTATTATTTGTTTTA
1 TTTTTATTATATGTTTTA
46175275 TTTTT-TTATATGTTTTA
1 TTTTTATTATATGTTTTA
46175292 GTATATGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTTTATTATATGTTTTA
Found at i:46180000 original size:27 final size:28
Alignment explanation
Indices: 46179944--46180011 Score: 120
Period size: 27 Copynumber: 2.5 Consensus size: 28
46179934 AAATTTGTAC
46179944 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
46179972 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
46179999 AGCACTAAGTGTG
1 AGCACTAAGTGTG
46180012 AGGACTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:46180022 original size:27 final size:27
Alignment explanation
Indices: 46179944--46180025 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
46179934 AAATTTGTAC
* * *
46179944 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAG-CTCATTATAT
* *
46179972 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCATTATAT
*
46179999 AGCACTAAGTGTGAG-GACTCATTATAT
1 AGCACTAAGTGTGCGAG-CTCATTATAT
46180026 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.02
27 31 0.63
28 17 0.35
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCATTATAT
Found at i:46187434 original size:13 final size:13
Alignment explanation
Indices: 46187395--46187434 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
46187385 TAAGCAATCG
*
46187395 CACACGAGTGTGT
1 CACACGAGCGTGT
*
46187408 CACACGAGCATGT
1 CACACGAGCGTGT
*
46187421 CACACGGGCGTGT
1 CACACGAGCGTGT
46187434 C
1 C
46187435 CCTGCCGAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (13 bp):
CACACGAGCGTGT
Found at i:46189620 original size:29 final size:29
Alignment explanation
Indices: 46189588--46189718 Score: 235
Period size: 29 Copynumber: 4.5 Consensus size: 29
46189578 ATAGTGAATC
46189588 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
46189617 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
46189647 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
46189676 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
46189705 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46189719 CAATCTTGTC
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 71 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:46189680 original size:59 final size:58
Alignment explanation
Indices: 46189588--46189718 Score: 235
Period size: 59 Copynumber: 2.2 Consensus size: 58
46189578 ATAGTGAATC
46189588 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGCT
* *
46189647 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
46189705 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46189719 CAATCTTGTC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.33
59 47 0.67
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (58 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
Found at i:46197440 original size:29 final size:29
Alignment explanation
Indices: 46197408--46197538 Score: 235
Period size: 29 Copynumber: 4.5 Consensus size: 29
46197398 ATAGTGAATC
46197408 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
46197437 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
46197467 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
46197496 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
46197525 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46197539 CAATCTTGTC
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 71 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:46197500 original size:59 final size:58
Alignment explanation
Indices: 46197408--46197538 Score: 235
Period size: 59 Copynumber: 2.2 Consensus size: 58
46197398 ATAGTGAATC
46197408 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGCT
* *
46197467 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
46197525 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46197539 CAATCTTGTC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.33
59 47 0.67
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (58 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
Found at i:46200881 original size:40 final size:40
Alignment explanation
Indices: 46200815--46200981 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
46200805 AAATTGAATG
* * *
46200815 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
46200854 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
46200894 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
46200934 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
46200974 ATATCCGG
1 ATATCCGG
46200982 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46209264 original size:40 final size:39
Alignment explanation
Indices: 46209104--46209266 Score: 272
Period size: 39 Copynumber: 4.2 Consensus size: 39
46209094 TGTGTATGAA
*
46209104 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
46209143 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
46209182 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
46209221 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
46209261 TGTGCG
1 TGTGCG
46209267 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:46209282 original size:40 final size:39
Alignment explanation
Indices: 46209104--46209297 Score: 262
Period size: 39 Copynumber: 4.9 Consensus size: 39
46209094 TGTGTATGAA
* *
46209104 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
46209143 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
46209182 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
46209221 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
46209261 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
46209298 GTTTGAACGA
Statistics
Matches: 140, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 41 0.29
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:46217231 original size:40 final size:39
Alignment explanation
Indices: 46217072--46217233 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
46217062 TGTGTATGAA
*
46217072 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
46217111 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAA-
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
46217149 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
46217188 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
46217228 TGTGCG
1 TGTGCG
46217234 GGTTACCATA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.32
39 61 0.54
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:46217249 original size:40 final size:39
Alignment explanation
Indices: 46217072--46217264 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
46217062 TGTGTATGAA
* *
46217072 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
46217111 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAA-
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
46217149 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
46217188 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
46217228 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
46217265 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 36 0.26
39 61 0.44
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:46221136 original size:13 final size:14
Alignment explanation
Indices: 46221120--46221149 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46221110 TAATAAAACA
46221120 TATTAAA-ATAAAT
1 TATTAAATATAAAT
46221133 TATTAAATATAAAT
1 TATTAAATATAAAT
46221147 TAT
1 TAT
46221150 ATTTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TATTAAATATAAAT
Found at i:46222002 original size:2 final size:2
Alignment explanation
Indices: 46221997--46222049 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
46221987 ATATTTGATA
*
46221997 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
46222039 TG TG TG TG TG T
1 TG TG TG TG TG T
46222050 CTGTAGAACA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:46222122 original size:44 final size:44
Alignment explanation
Indices: 46222059--46222146 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
46222049 TCTGTAGAAC
46222059 AACATGCAATAGGATTACCCGCAAAATAGTTCATCGGGTATCTT
1 AACATGCAATAGGATTACCCGCAAAATAGTTCATCGGGTATCTT
*
46222103 AACATG-AAGTAGGATTACCCGCAAAATAGTTCTTCGGGTATCTT
1 AACATGCAA-TAGGATTACCCGCAAAATAGTTCATCGGGTATCTT
46222147 TTCACAAAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (44 bp):
AACATGCAATAGGATTACCCGCAAAATAGTTCATCGGGTATCTT
Found at i:46226865 original size:30 final size:31
Alignment explanation
Indices: 46226818--46226886 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 31
46226808 TTATCTTGTA
46226818 CTCAACATTTAAAATTGTACCCAAATAAGTT
1 CTCAACATTTAAAATTGTACCCAAATAAGTT
46226849 CTCAACATTT-AAATTGTACCCAAATAAGTT
1 CTCAACATTTAAAATTGTACCCAAATAAGTT
46226879 CTCAACAT
1 CTCAACAT
46226887 GAAGTAAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 28 0.74
31 10 0.26
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.32
Consensus pattern (31 bp):
CTCAACATTTAAAATTGTACCCAAATAAGTT
Found at i:46227561 original size:29 final size:29
Alignment explanation
Indices: 46227519--46227577 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
46227509 TGCTTGATGC
46227519 AGAACTCAACTACTATCTTCTCGTGTTCA
1 AGAACTCAACTACTATCTTCTCGTGTTCA
46227548 AGAACTCAACTACTATCTTCTCGTGTTCA
1 AGAACTCAACTACTATCTTCTCGTGTTCA
46227577 A
1 A
46227578 TCTCTAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (29 bp):
AGAACTCAACTACTATCTTCTCGTGTTCA
Found at i:46228556 original size:3 final size:3
Alignment explanation
Indices: 46228548--46228594 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
46228538 TCTAACACCA
46228548 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46228595 AATCTACGGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:46229520 original size:28 final size:28
Alignment explanation
Indices: 46229471--46229530 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
46229461 CATACTAATG
*
46229471 GGGTATAGGAAAAGTCTCATAATTTATC
1 GGGTATAGGAAAAGTCTCATAACTTATC
* * * *
46229499 GGGTATAGGAAGAGTTTTATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATC
46229527 GGGT
1 GGGT
46229531 TGATAATGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.33
Consensus pattern (28 bp):
GGGTATAGGAAAAGTCTCATAACTTATC
Found at i:46231536 original size:39 final size:40
Alignment explanation
Indices: 46231439--46231619 Score: 194
Period size: 39 Copynumber: 4.6 Consensus size: 40
46231429 AATGATGTCT
* * *
46231439 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCC
* *
46231479 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
46231519 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
46231558 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
46231598 -GGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
46231620 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
39 55 0.46
40 55 0.46
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:46231572 original size:79 final size:80
Alignment explanation
Indices: 46231436--46231592 Score: 212
Period size: 79 Copynumber: 2.0 Consensus size: 80
46231426 TCGAATGATG
* *
46231436 TCTGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCTGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
46231501 GTGCGAGTTACTAAT
66 GTGCGAGTTACTAAT
* * * **
46231516 TCTGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCTGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
46231578 TTGTGCGAGTTACTA
64 TTGTGCGAGTTACTA
46231593 TAACCGGCTA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 50 0.74
80 17 0.25
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCTGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAT
Found at i:46231626 original size:39 final size:40
Alignment explanation
Indices: 46231439--46231619 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
46231429 AATGATGTCT
* * * *
46231439 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * *
46231479 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
46231519 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
46231558 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
46231598 -GGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
46231620 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
39 54 0.45
40 57 0.47
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:46231626 original size:79 final size:78
Alignment explanation
Indices: 46231489--46231652 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 78
46231479 GGACTAAGAT
* * **
46231489 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGTTACTAATACTCGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTA
*
46231553 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* *
46231568 CCGAAGGCATTTGTGCGAGTTACT-ATAAC-CGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACTCGGCTAAG-CCCGAAGGCATTGGAACGAGTAGCT
* *
46231631 ATATCCGGTTAAATT
64 AAATCCGGTTAAATC
46231646 CCGAAGG
1 CCGAAGG
46231653 TACGTGATTC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
78 24 0.33
79 49 0.67
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACTCGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:46231650 original size:39 final size:39
Alignment explanation
Indices: 46231443--46231652 Score: 187
Period size: 39 Copynumber: 5.3 Consensus size: 39
46231433 ATGTCTGGGC
* * * *
46231443 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGG-T
* *
46231483 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCTGGGC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TC-CGGT
* *
46231523 TAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGT
* *
46231562 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGT
* **
46231601 TATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGT
* *
46231640 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
46231653 TACGTGATTC
Statistics
Matches: 142, Mismatches: 19, Indels: 19
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.01
39 76 0.54
40 54 0.38
41 10 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGT
Found at i:46239607 original size:39 final size:40
Alignment explanation
Indices: 46239507--46239691 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
46239497 TCGAATGATG
* * *
46239507 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
46239546 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
46239587 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
46239626 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
46239665 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
46239692 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:46239713 original size:79 final size:79
Alignment explanation
Indices: 46239560--46239724 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
46239550 GGACTAAGAT
* * **
46239560 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
46239625 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
46239639 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
46239702 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
46239718 CCGAAGG
1 CCGAAGG
46239725 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:46241557 original size:147 final size:147
Alignment explanation
Indices: 46241290--46241581 Score: 557
Period size: 147 Copynumber: 2.0 Consensus size: 147
46241280 TCTGGAGGTC
46241290 ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
1 ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
46241355 GCTGATCAATGCATGCTGTGTTGTCTTCAAACAAGACAGTTGTAGCTTCCTTTCCAGATGATAAA
66 GCTGATCAATGCATGCTGTGTTGTCTTCAAACAAGACAGTTGTAGCTTCCTTTCCAGATGATAAA
* *
46241420 CTACGATTATTCCTTTG
131 CCACAATTATTCCTTTG
46241437 ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
1 ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
*
46241502 GCTGATCAATGCATGCTGTGTTGTCTTCAAAGAAGACAGTTGTAGCTTCCTTTCCAGATGATAAA
66 GCTGATCAATGCATGCTGTGTTGTCTTCAAACAAGACAGTTGTAGCTTCCTTTCCAGATGATAAA
46241567 CCACAATTATTCCTT
131 CCACAATTATTCCTT
46241582 ATATGCTGGA
Statistics
Matches: 142, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 142 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (147 bp):
ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
GCTGATCAATGCATGCTGTGTTGTCTTCAAACAAGACAGTTGTAGCTTCCTTTCCAGATGATAAA
CCACAATTATTCCTTTG
Found at i:46242365 original size:33 final size:33
Alignment explanation
Indices: 46242323--46242393 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
46242313 AGATCCAAAC
*
46242323 TTCTTAATGAAAATGCATGGGCAATTTGGATCA
1 TTCTTAATGAAAATGCATGGGCAAATTGGATCA
46242356 TTCTTAATGAAAATGCATGGGCAAATTGGATCA
1 TTCTTAATGAAAATGCATGGGCAAATTGGATCA
46242389 TTCTT
1 TTCTT
46242394 GTATCATTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (33 bp):
TTCTTAATGAAAATGCATGGGCAAATTGGATCA
Found at i:46244883 original size:27 final size:28
Alignment explanation
Indices: 46244826--46244895 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
46244816 AAACTTGTAC
*
46244826 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
46244854 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
46244881 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
46244896 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:46244906 original size:27 final size:27
Alignment explanation
Indices: 46244826--46244907 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
46244816 AAACTTGTAC
* * *
46244826 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
46244854 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
46244881 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
46244908 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:46253579 original size:79 final size:79
Alignment explanation
Indices: 46253483--46253637 Score: 204
Period size: 79 Copynumber: 2.0 Consensus size: 79
46253473 TCGTTCAAAC
* **
46253483 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCAGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAATGCCTTCGGG-CTTAACCCAGATATC
46253548 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* * * * * *
46253563 GCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGCTTAACCCAGATATCA
*
46253627 CAATTCGCACA
66 CAACTCGCACA
46253638 TTCATTCACA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 24 0.37
79 32 0.49
80 9 0.14
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (79 bp):
GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGCTTAACCCAGATATCA
CAACTCGCACAATT
Found at i:46253596 original size:39 final size:39
Alignment explanation
Indices: 46253514--46253637 Score: 185
Period size: 39 Copynumber: 3.2 Consensus size: 39
46253504 TATGGTAACC
* * *
46253514 CGCACAAATGCCTTCGGGACTTAACCCAGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
46253554 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
46253593 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
46253632 CGCACA
1 CGCACA
46253638 TTCATTCACA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
39 59 0.78
40 17 0.22
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:46260979 original size:29 final size:29
Alignment explanation
Indices: 46260940--46261019 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
46260930 CTTAATAATC
*
46260940 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
46260970 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
46260999 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
46261020 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:46262904 original size:27 final size:27
Alignment explanation
Indices: 46262874--46263364 Score: 585
Period size: 27 Copynumber: 18.2 Consensus size: 27
46262864 AAAGTACTCC
* *
46262874 CGATTTATAGAATTACCGTTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCT
46262901 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
46262928 CGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
46262955 TGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
46262982 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
46263009 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
46263036 CTATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
46263063 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
46263090 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
46263117 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
46263144 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
46263171 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
46263198 -TAGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
46263225 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** ** *
46263252 TAATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
46263279 TGGTTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
46263306 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
46263333 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
46263360 TGATT
1 CGATT
46263365 GTGAAATTAC
Statistics
Matches: 400, Mismatches: 56, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
26 3 0.01
27 393 0.98
28 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:46263513 original size:27 final size:27
Alignment explanation
Indices: 46263369--46263513 Score: 191
Period size: 27 Copynumber: 5.4 Consensus size: 27
46263359 TTGATTGTGA
*
46263369 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
46263396 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
46263423 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46263450 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
46263477 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46263504 AAATACCGAA
1 AATTACCGAA
46263514 TGTGACAGCC
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:46265284 original size:40 final size:40
Alignment explanation
Indices: 46265199--46265349 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
46265189 AATTGAATGA
* * *
46265199 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
46265239 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
46265280 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
46265319 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
46265350 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Done.