Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 305 of 325
Found at i:93257624 original size:46 final size:44
Alignment explanation
Indices: 93257565--93257679 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
93257555 ACAGGACAGA
* *
93257565 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
93257611 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
93257655 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
93257680 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:93257660 original size:44 final size:45
Alignment explanation
Indices: 93257565--93257698 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
93257555 ACAGGACAGA
* *
93257565 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
93257611 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
93257655 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93257699 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:93263759 original size:46 final size:44
Alignment explanation
Indices: 93263700--93263814 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
93263690 ACAGGACAGA
* *
93263700 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
93263746 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
93263790 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
93263815 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:93263795 original size:44 final size:45
Alignment explanation
Indices: 93263700--93263833 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
93263690 ACAGGACAGA
* *
93263700 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
93263746 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
93263790 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93263834 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:93269984 original size:46 final size:44
Alignment explanation
Indices: 93269925--93270039 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
93269915 ACAGGACAGA
* *
93269925 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
93269971 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
93270015 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
93270040 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:93270020 original size:44 final size:45
Alignment explanation
Indices: 93269925--93270058 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
93269915 ACAGGACAGA
* *
93269925 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
93269971 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
93270015 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93270059 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:93271644 original size:21 final size:21
Alignment explanation
Indices: 93271618--93271658 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93271608 ATCTGCTCAA
* *
93271618 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
93271639 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
93271659 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:93284272 original size:14 final size:14
Alignment explanation
Indices: 93284253--93284280 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
93284243 GTCTTGATTA
93284253 TTAAAAATTAAAAT
1 TTAAAAATTAAAAT
93284267 TTAAAAATTAAAAT
1 TTAAAAATTAAAAT
93284281 AAAATTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TTAAAAATTAAAAT
Found at i:93284348 original size:20 final size:20
Alignment explanation
Indices: 93284307--93284352 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
93284297 TCATTTTTCA
**
93284307 ATAAAAATACATAAGATTTT
1 ATAAAAATACATAAGAAATT
93284327 ATAAAAATACATATA-AAATT
1 ATAAAAATACATA-AGAAATT
93284347 ATAAAA
1 ATAAAA
93284353 GAAATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (20 bp):
ATAAAAATACATAAGAAATT
Found at i:93284456 original size:20 final size:20
Alignment explanation
Indices: 93284411--93284457 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
93284401 AAATTTATTT
*
93284411 CTTAAAATAAAAATTTTATA
1 CTTAAAATAAAAATCTTATA
** *
93284431 AATAAAATAATAATCTTATA
1 CTTAAAATAAAAATCTTATA
93284451 CTTAAAA
1 CTTAAAA
93284458 CAATTTAAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (20 bp):
CTTAAAATAAAAATCTTATA
Found at i:93285047 original size:22 final size:22
Alignment explanation
Indices: 93285021--93285068 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
93285011 AAAAATAAGT
93285021 ATGTATTTATTTATAATTTTGA
1 ATGTATTTATTTATAATTTTGA
*
93285043 ATGTATTTATTTATAATTTTGC
1 ATGTATTTATTTATAATTTTGA
93285065 ATGT
1 ATGT
93285069 GTTTTATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.58
Consensus pattern (22 bp):
ATGTATTTATTTATAATTTTGA
Found at i:93289115 original size:24 final size:24
Alignment explanation
Indices: 93289088--93289142 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
93289078 CAATTCTCAT
93289088 AATATAAAT-TTTAAAAAATTATAA
1 AATATAAATATTTAAAAAATT-TAA
* *
93289112 AATAT-ATTATTTAATAAATTTAA
1 AATATAAATATTTAAAAAATTTAA
*
93289135 AAAATAAA
1 AATATAAA
93289143 CAAGTAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATAAATATTTAAAAAATTTAA
Found at i:93291295 original size:110 final size:111
Alignment explanation
Indices: 93291079--93291354 Score: 473
Period size: 110 Copynumber: 2.5 Consensus size: 111
93291069 ATTGGTATAT
93291079 AAAATACGAGTTTTAAAAAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACAACA
1 AAAATACGAGTTTTAAAAAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACAACA
**
93291144 AAAAAAATTTCGAATTTTTTTTCAAAAAAATTTTTTTTGCTCTCTA
66 AAAAAAAAATCGAATTTTTTTTCAAAAAAATTTTTTTTGCTCTCTA
*
93291190 AAAATACGAGTTTTAAAAAAAAAATTTGGGTGCTGGCTTGTCAATGGCTGGCACCCAGTACAACA
1 AAAATACGAGTTTTAAAAAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACAACA
****
93291255 AAAAAAAAATCGAA-TTTTTTTCAAATTTTTTTTTTTTGCTCTCTA
66 AAAAAAAAATCGAATTTTTTTTCAAAAAAATTTTTTTTGCTCTCTA
*
93291300 AAAATACGAGTTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACC
1 AAAATACGAGTTTTAAAAAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGCACC
93291355 AAATTATGAA
Statistics
Matches: 156, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
110 80 0.51
111 76 0.49
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (111 bp):
AAAATACGAGTTTTAAAAAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACAACA
AAAAAAAAATCGAATTTTTTTTCAAAAAAATTTTTTTTGCTCTCTA
Found at i:93294521 original size:114 final size:112
Alignment explanation
Indices: 93294287--93295068 Score: 746
Period size: 115 Copynumber: 7.0 Consensus size: 112
93294277 TATAAGATTT
* * *
93294287 GGTGCCGGCCAATGACAGGGCAGCACTCAAAATTTTTTTTTAAACTCGCATTTTTAGAGAGCAAA
1 GGTGCTGGCCAATGACAGGCCAGCACCCAAAATTTTTTTTTAAACTCGCATTTTTAGAGAGCAAA
* ***
93294352 AAGAAATTTTTTTGAAAAAAAATTCGAATTTTTTTTTTGTTGTACTG
66 AAAAAAAAATTTTGAAAAAAAATTCGAATTTTTTTTTTGTTGTACTG
* *
93294399 GGTGCTGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTTAAAACTCGTATTTTTAGAGAGC
1 GGTGCTGGCCAATGACAGGCCAGCACCCAAAA--TTTTTTTTT-AAACTCGCATTTTTAGAGAGC
93294464 AAAAAAAAAAAATTTTGAAAAAAAATTCGAA-TTTTTTTTTGTTGTACTG
63 AAAAAAAAAAAATTTTGAAAAAAAATTCGAATTTTTTTTTTGTTGTACTG
***** * *
93294513 GGTGCTGGCC-A-G-CA--CTCA--A---AAAA-AAAAATTTAAACTCGTATTTTTAGATAGCAA
1 GGTGCTGGCCAATGACAGGC-CAGCACCCAAAATTTTTTTTTAAACTCGCATTTTTAGAGAGCAA
**** *
93294567 AAAAAATTTTTTTTTG-AAAAAAATTC-AAATTTTTTTTTGTTGTACTG
65 AAAAAA-AAAATTTTGAAAAAAAATTCGAATTTTTTTTTTGTTGTACTG
* * * * *
93294614 GGTGCCGGCCATTGATAGGCCAGCACCCAAAAAAAATTTTTTATTTAAAACTCGTATTTTTAGAT
1 GGTGCTGGCCAATGACAGGCCAGCACCC----AAAATTTTTT-TTT-AAACTCGCATTTTTAGAG
*
93294679 AGC--AAAAAAAAAATTTTGAAAAAAAATTCAAATTTTTTTTTTTGTTGTACTG
60 AGCAAAAAAAAAAAATTTTGAAAAAAAATTCGAA-TTTTTTTTTTGTTGTACTG
* * * *
93294731 GGTGCCGGCCATTGACAGGCCACCACCC-AAATTTTTTTTTAAAACTCGTATTTTTAGAGAGC--
1 GGTGCTGGCCAATGACAGGCCAGCACCCAAAATTTTTTTTT-AAACTCGCATTTTTAGAGAGCAA
93294793 AAAAAAAAAA-TTTGAAAAAAAATTCGAATTTTTTTTTTGTTGTACTG
65 AAAAAAAAAATTTTGAAAAAAAATTCGAATTTTTTTTTTGTTGTACTG
* * * *
93294840 GGTGCCGGCCATTGACAGGCCAGCA-CCAAATTTTTTTTTTTTAAAACTCGTATTTTTAGAGAGC
1 GGTGCTGGCCAATGACAGGCCAGCACCCAAA--ATTTTTTTTT-AAACTCGCATTTTTAGAGAGC
***
93294904 AAAAAAAAATTTTTTTGAAAAAAAATTCGAA-TTTTTTTTTGTTGTACTG
63 AAAAAAAAAAAATTTTGAAAAAAAATTCGAATTTTTTTTTTGTTGTACTG
* * * * * * *
93294953 GGTGCCGGCCATTTATAGGCCAACACCCAAAAATTTTTTTTTTTTAAAACTTGTATTTTTAGAGA
1 GGTGCTGGCCAATGACAGGCCAGCACCC-AAAA---TTTTTTTTT-AAACTCGCATTTTTAGAGA
******
93295018 GC-AAAAATTTTTTTTTTGAAAAAAAATTCGAAATTTTTTTTTTGTTGTACT
61 GCAAAAAAAAAAAATTTTGAAAAAAAATTCG-AATTTTTTTTTTGTTGTACT
93295069 TTTTTTTTTA
Statistics
Matches: 581, Mismatches: 50, Indels: 73
0.83 0.07 0.10
Matches are distributed among these distances:
100 2 0.00
101 65 0.11
102 8 0.01
103 1 0.00
104 1 0.00
105 6 0.01
106 1 0.00
107 1 0.00
108 3 0.01
109 46 0.08
110 19 0.03
111 67 0.12
112 38 0.07
113 47 0.08
114 66 0.11
115 91 0.16
116 37 0.06
117 82 0.14
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (112 bp):
GGTGCTGGCCAATGACAGGCCAGCACCCAAAATTTTTTTTTAAACTCGCATTTTTAGAGAGCAAA
AAAAAAAAATTTTGAAAAAAAATTCGAATTTTTTTTTTGTTGTACTG
Found at i:93294671 original size:117 final size:113
Alignment explanation
Indices: 93294540--93295068 Score: 689
Period size: 117 Copynumber: 4.6 Consensus size: 113
93294530 AAAAAAAAAA
*
93294540 ATTT-AAACTCGTATTTTTAGATAGCAAAAAAAATTTTTTTTTG-AAAAAAATTCAAATTTTTTT
1 ATTTAAAACTCGTATTTTTAGAGAGCAAAAAAAA--TTTTTTTGAAAAAAAATTCAAATTTTTTT
*
93294603 TTGTTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAAAAATTTTTT
64 TTGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC---AAAAATTTTTT
* **
93294656 ATTTAAAACTCGTATTTTTAGATAGCAAAAAAAA-AATTTTGAAAAAAAATTCAAATTTTTTTTT
1 ATTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATTTTTTTGAAAAAAAATTCAAA--TTTTTTT
*
93294720 TTGTTGTACTGGGTGCCGGCCATTGACAGGCCACCACCC--AAATTTTTT
64 TTGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTT
** *
93294768 -TTTAAAACTCGTATTTTTAGAGAGCAAAAAAAA--AATTTGAAAAAAAATTCGAATTTTTTTTT
1 ATTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATTTTTTTGAAAAAAAATTC-AAATTTTTTTT
**
93294830 TGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAATTTTTTTT
65 TGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTT
* *
93294878 TTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAAATTTTTTTGAAAAAAAATTCGAATTTTTTTT
1 ATTTAAAACTCGTATTTTTAGAGAGC-AAAAAAAATTTTTTTGAAAAAAAATTCAAATTTTTTTT
* * *
93294943 TGTTGTACTGGGTGCCGGCCATTTATAGGCCAACACCCAAAAATTTTTTTT
65 TGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA--TTTTTT
* * ***
93294994 TTTTAAAACTTGTATTTTTAGAGAGCAAAAATTTTTTTTTTGAAAAAAAATTCGAAATTTTTTTT
1 ATTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATTTTTTTGAAAAAAAATTC-AAA-TTTTTTT
93295059 TTGTTGTACT
64 TTGTTGTACT
93295069 TTTTTTTTTA
Statistics
Matches: 373, Mismatches: 24, Indels: 31
0.87 0.06 0.07
Matches are distributed among these distances:
108 2 0.01
109 42 0.11
110 23 0.06
111 59 0.16
112 17 0.05
113 41 0.11
114 25 0.07
115 37 0.10
116 37 0.10
117 90 0.24
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (113 bp):
ATTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATTTTTTTGAAAAAAAATTCAAATTTTTTTTT
GTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTT
Found at i:93303067 original size:31 final size:31
Alignment explanation
Indices: 93303029--93303091 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
93303019 CCTAATCTAG
93303029 ACATAATATCTCTCTCTCTATATATATATAA
1 ACATAATATCTCTCTCTCTATATATATATAA
* *
93303060 ACATAATATCTCTCTCTCTCTCTATATATAA
1 ACATAATATCTCTCTCTCTATATATATATAA
93303091 A
1 A
93303092 AGTTATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (31 bp):
ACATAATATCTCTCTCTCTATATATATATAA
Found at i:93303290 original size:18 final size:18
Alignment explanation
Indices: 93303264--93303301 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
93303254 GTTAAAAATA
93303264 TTTACTTTTT-AAATATTT
1 TTTACTTTTTCAAA-ATTT
*
93303282 TTTATTTTTTCAAAATTT
1 TTTACTTTTTCAAAATTT
93303300 TT
1 TT
93303302 AAATTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTACTTTTTCAAAATTT
Found at i:93303769 original size:6 final size:6
Alignment explanation
Indices: 93303751--93303781 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
93303741 GTTTTATCCT
93303751 ATTGTC AATTGTC ATTGTC ATTGTC ATTGTC
1 ATTGTC -ATTGTC ATTGTC ATTGTC ATTGTC
93303782 TCATTGCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTGTC
Found at i:93305083 original size:21 final size:21
Alignment explanation
Indices: 93305039--93305083 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
93305029 GTATTGGTCT
* *
93305039 AAAACATATTTAACTAGTAGA
1 AAAACATATTGAAATAGTAGA
93305060 AAAACCATATTGAAATAGTA-A
1 AAAA-CATATTGAAATAGTAGA
93305081 AAA
1 AAA
93305084 CGAATGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (21 bp):
AAAACATATTGAAATAGTAGA
Found at i:93306619 original size:18 final size:19
Alignment explanation
Indices: 93306593--93306632 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
93306583 TTGATTAAAC
*
93306593 TAAAATTTTAAT-TTTTTT
1 TAAAATTTTAATAGTTTTT
*
93306611 TAAATTTTTAATAGTTTTT
1 TAAAATTTTAATAGTTTTT
93306630 TAA
1 TAA
93306633 TCAAACTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TAAAATTTTAATAGTTTTT
Found at i:93308916 original size:10 final size:9
Alignment explanation
Indices: 93308858--93308908 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 9
93308848 GCTGATGTAC
93308858 TTTAATTAA
1 TTTAATTAA
93308867 CTTATAATTAA
1 -TT-TAATTAA
93308878 TCTTAATTAA
1 T-TTAATTAA
93308888 TTTAA-TAA
1 TTTAATTAA
93308896 CCTTTAATTAA
1 --TTTAATTAA
93308907 TT
1 TT
93308909 AAGTTTAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 3 0.08
9 6 0.17
10 16 0.44
11 11 0.31
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (9 bp):
TTTAATTAA
Found at i:93314174 original size:18 final size:18
Alignment explanation
Indices: 93314140--93314281 Score: 207
Period size: 18 Copynumber: 7.8 Consensus size: 18
93314130 TCATATATTT
*
93314140 TAAGATTGTATATCATATC
1 TAAGATTGCA-ATCATATC
93314159 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
93314177 TAAGATTG-TATCATATC
1 TAAGATTGCAATCATATC
93314194 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
93314212 TAAGATTG-TATCATATC
1 TAAGATTGCAATCATATC
93314229 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
93314247 TAAGATTGCATATCACATC
1 TAAGATTGCA-ATCATATC
93314266 TAAGATTGCATATCAT
1 TAAGATTGCA-ATCAT
93314282 TGAAGATTAT
Statistics
Matches: 113, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
17 32 0.28
18 50 0.44
19 31 0.27
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TAAGATTGCAATCATATC
Found at i:93314195 original size:35 final size:36
Alignment explanation
Indices: 93314140--93314281 Score: 234
Period size: 35 Copynumber: 3.9 Consensus size: 36
93314130 TCATATATTT
93314140 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCAATCATATC
93314177 TAAGATTG-TATCATATCTAAGATTGCAATCATATC
1 TAAGATTGATATCATATCTAAGATTGCAATCATATC
93314212 TAAGATTG-TATCATATCTAAGATTGCAATCATATC
1 TAAGATTGATATCATATCTAAGATTGCAATCATATC
*
93314247 TAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
93314282 TGAAGATTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
35 70 0.69
37 26 0.26
38 5 0.05
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
TAAGATTGATATCATATCTAAGATTGCAATCATATC
Found at i:93315102 original size:207 final size:207
Alignment explanation
Indices: 93314645--93315565 Score: 1502
Period size: 207 Copynumber: 4.5 Consensus size: 207
93314635 AAATCTGCTT
* * *
93314645 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
93314710 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTACTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * * *
93314775 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTGTATGTCTGTCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
93314839 GGAGATGCCAAA
196 GGAGACGCCAAA
* *
93314851 CTTCAATTTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
93314916 GTGAAAGCCAAAACAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
**
93314981 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCTATCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
93315046 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
93315058 CTTCGATTCGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
93315123 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
93315188 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTTTGCCCTCTGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
93315253 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
93315265 CTTCGATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
93315330 GTGAAAGCCAAATCAGTTATGTCTTTGATTTGTTCCTTGTAAGCACAAAGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
93315395 GGATCTTACTTCAGTATAAACATCTGAAGACCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
93315460 GGAGACGCCAAG
196 GGAGACGCCAAA
* * * *
93315472 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
93315537 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
93315566 CTGCTCTCTA
Statistics
Matches: 669, Mismatches: 45, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
206 126 0.19
207 543 0.81
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:93315791 original size:84 final size:83
Alignment explanation
Indices: 93315690--93316143 Score: 615
Period size: 84 Copynumber: 5.5 Consensus size: 83
93315680 TCTGCTATAC
*
93315690 TTTAACCTGTTACCCTACTGCTTAAAGGG-TTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCT
1 TTTAACCTGTTACCCTACTGCTT-AGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCT
*
93315753 TAAGGAGATAAGATCTGCAA
64 TAGGGAGATAAGATCTGCAA
* * *
93315773 TTTTGACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATCGATCTGTTCCGCTACTG
1 -TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTG
93315838 CTTAGGGAGATAAGATCTGC--
62 CTTAGGGAGATAAGATCTGCAA
* * *
93315858 --GAACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
*
93315921 GGGAGAATAAGATCTACAAA
66 GGGAG-ATAAGATCTGC-AA
*
93315941 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-GTCTTCGTCGATCTGCTCCGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
93316005 TTAGGGAGATAAGATCTG---
63 TTAGGGAGATAAGATCTGCAA
*
93316023 -TGAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
*
93316087 GGGAGACAAGATCTGCAAA
66 GGGAGATAAGATCTGC-AA
93316106 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
93316144 TGAATTTTGT
Statistics
Matches: 329, Mismatches: 21, Indels: 40
0.84 0.05 0.10
Matches are distributed among these distances:
79 61 0.19
80 10 0.03
81 37 0.11
82 39 0.12
83 5 0.02
84 71 0.22
85 35 0.11
86 9 0.03
87 62 0.19
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (83 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGCAA
Found at i:93315875 original size:38 final size:38
Alignment explanation
Indices: 93315824--93316102 Score: 108
Period size: 38 Copynumber: 6.9 Consensus size: 38
93315814 CGTCATCGAT
*
93315824 CTGTTCCGCTACTGCTTAGGGAGATAAGATCTGCGAAC
1 CTGTTCCACTACTGCTTAGGGAGATAAGATCTGCGAAC
* * *
93315862 CTGTTACC-CTACTGCTTAAGGGA-TTAAGGCGAGTCTTCG-AT
1 CTGTT-CCACTACTGCTT-AGGGAGATAA---GA-TCTGCGAAC
* * * *
93315903 CTGCTCCACTACTACTTAGGGAGAATAAGATCTACAAATTTAAC
1 CTGTTCCACTACTGCTTAGGGAG-ATAAGATCTGC-----GAAC
* *
93315947 CTGTTACC-CTACTGCTTAGGG-GATTAAGGCGGTCTTCGTCG-AT
1 CTGTT-CCACTACTGCTTAGGGAGA-TAA---GATC-T-G-CGAAC
* * *
93315990 CTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTGAAC
1 CTGTTCCACTACTGCTTAGGGAGATAAGATCTGCGAAC
* *
93316028 CTGTTACC-CTACTGCTTAGGG-GATTAAGGCGAGTCTTCG-AT
1 CTGTT-CCACTACTGCTTAGGGAGA-TAA---GA-TCTGCGAAC
* *
93316069 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGC
1 CTGTTCCACTACTGCTTAGGGAGATAAGATCTGC
93316103 AAATTTAACC
Statistics
Matches: 181, Mismatches: 26, Indels: 69
0.66 0.09 0.25
Matches are distributed among these distances:
37 7 0.04
38 45 0.25
39 12 0.07
40 12 0.07
41 37 0.20
42 17 0.09
43 25 0.14
44 19 0.10
45 2 0.01
46 3 0.02
47 1 0.01
49 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (38 bp):
CTGTTCCACTACTGCTTAGGGAGATAAGATCTGCGAAC
Found at i:93315891 original size:166 final size:166
Alignment explanation
Indices: 93315693--93316143 Score: 755
Period size: 166 Copynumber: 2.7 Consensus size: 166
93315683 GCTATACTTT
*
93315693 AACCTGTTACCCTACTGCTTAAAGGG-TTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCTTAA
1 AACCTGTTACCCTACTGCTT-AAGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTTAG
* *
93315756 GGAGATAAGATCTGCAATTTTGACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATC
64 GGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATC
*
93315821 GATCTGTTCCGCTACTGCTTAGGGAGATAAGATCTGCG
129 GATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCG
*
93315859 AACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTAGGG
1 AACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
* * *
93315924 AGAATAAGATCTACAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-GTCTTCGTCG
66 AG-ATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATCG
*
93315988 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTG
130 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCG
*
93316025 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
*
93316090 AGACAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
66 AGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
93316144 TGAATTTTGT
Statistics
Matches: 268, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
165 55 0.21
166 165 0.62
167 48 0.18
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (166 bp):
AACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATCGA
TCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCG
Found at i:93317078 original size:1 final size:1
Alignment explanation
Indices: 93317068--93317137 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
93317058 GGCCTCTCCA
* * * * * * * * * *
93317068 TTTTTCTTTTTTTTCTCTTTTTTTTCTCTTTTTCTTTTCTTTTTTTCTTTTTTTTTTCTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
93317133 TTTTT
1 TTTTT
93317138 GAAATAGAAG
Statistics
Matches: 49, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:93317088 original size:11 final size:11
Alignment explanation
Indices: 93317068--93317137 Score: 83
Period size: 11 Copynumber: 6.4 Consensus size: 11
93317058 GGCCTCTCCA
93317068 TTTT-TCTTTT
1 TTTTCTCTTTT
93317078 TTTTCTCTTTT
1 TTTTCTCTTTT
93317089 TTTTCTCTTTT
1 TTTTCTCTTTT
93317100 TCTTT-TC-TTT
1 T-TTTCTCTTTT
*
93317110 TTTTCTTTTTT
1 TTTTCTCTTTT
93317121 TTTTCTTTCTTTT
1 TTTTC--TCTTTT
93317134 TTTT
1 TTTT
93317138 GAAATAGAAG
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
9 3 0.06
10 9 0.17
11 28 0.54
12 3 0.06
13 9 0.17
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTCTCTTTT
Found at i:93317090 original size:19 final size:19
Alignment explanation
Indices: 93317068--93317137 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 19
93317058 GGCCTCTCCA
*
93317068 TTTTTCTTTTTTTTCTCTTT
1 TTTTTCTTTTTTTTTTC-TT
93317088 TTTTTCTCTTTTTCTTTTCTT
1 TTTTTCT-TTTTT-TTTTCTT
93317109 TTTTTCTTTTTTTTTTCTT
1 TTTTTCTTTTTTTTTTCTT
93317128 TCTTTT-TTTT
1 T-TTTTCTTTT
93317138 GAAATAGAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
19 12 0.26
20 16 0.35
21 14 0.30
22 4 0.09
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTTCTT
Found at i:93317092 original size:13 final size:12
Alignment explanation
Indices: 93317068--93317137 Score: 70
Period size: 13 Copynumber: 5.4 Consensus size: 12
93317058 GGCCTCTCCA
93317068 TTTTTCTTTTTT
1 TTTTTCTTTTTT
*
93317080 TTCTCTTTTTTTTCT
1 TT-T-TTCTTTTT-T
93317095 CTTTTTCTTTTCTT
1 -TTTTTCTTTT-TT
93317109 TTTTTC-TTTTT
1 TTTTTCTTTTTT
93317120 TTTTTCTTTCTTT
1 TTTTTCTTT-TTT
93317133 TTTTT
1 TTTTT
93317138 GAAATAGAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
11 8 0.16
12 7 0.14
13 15 0.31
14 14 0.29
15 3 0.06
16 2 0.04
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:93322921 original size:18 final size:18
Alignment explanation
Indices: 93322870--93323028 Score: 216
Period size: 18 Copynumber: 8.8 Consensus size: 18
93322860 TCATATCTTT
*
93322870 TAAGATTGTATATCATATC
1 TAAGATTGCA-ATCATATC
*
93322889 TAAGATTG-TATCATATC
1 TAAGATTGCAATCATATC
93322906 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
93322924 TAAGATTG-TATCATATC
1 TAAGATTGCAATCATATC
93322941 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
93322959 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
93322977 TAAGATTG-TATCATATC
1 TAAGATTGCAATCATATC
**
93322994 TAAGATTGCATATCACGTC
1 TAAGATTGCA-ATCATATC
93323013 TAAGATTGCATATCAT
1 TAAGATTGCA-ATCAT
93323029 TGAATATTAT
Statistics
Matches: 127, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
17 48 0.38
18 50 0.39
19 29 0.23
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (18 bp):
TAAGATTGCAATCATATC
Found at i:93322924 original size:35 final size:36
Alignment explanation
Indices: 93322870--93323028 Score: 225
Period size: 35 Copynumber: 4.4 Consensus size: 36
93322860 TCATATCTTT
*
93322870 TAAGATTGTATATCATATCTAAGATTG-TATCATATC
1 TAAGATTGCA-ATCATATCTAAGATTGCTATCATATC
93322906 TAAGATTGCAATCATATCTAAGATTG-TATCATATC
1 TAAGATTGCAATCATATCTAAGATTGCTATCATATC
*
93322941 TAAGATTGCAATCATATCTAAGATTGCAATCATATC
1 TAAGATTGCAATCATATCTAAGATTGCTATCATATC
* **
93322977 TAAGATTG-TATCATATCTAAGATTGCATATCACGTC
1 TAAGATTGCAATCATATCTAAGATTGC-TATCATATC
93323013 TAAGATTGCATATCAT
1 TAAGATTGCA-ATCAT
93323029 TGAATATTAT
Statistics
Matches: 112, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
35 68 0.61
36 39 0.35
38 5 0.04
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (36 bp):
TAAGATTGCAATCATATCTAAGATTGCTATCATATC
Found at i:93322967 original size:53 final size:53
Alignment explanation
Indices: 93322870--93323028 Score: 248
Period size: 53 Copynumber: 2.9 Consensus size: 53
93322860 TCATATCTTT
*
93322870 TAAGATTGTATATCATATCTAAGATTG-TATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATATC
93322924 TAAGATTGTATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATATC
**
93322977 TAAGATTGTATCATATCTAAGATTGCATATCACGTCTAAGATTGCATATCAT
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATCTAAGATTGCA-ATCAT
93323029 TGAATATTAT
Statistics
Matches: 99, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
52 17 0.17
53 53 0.54
54 24 0.24
55 5 0.05
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (53 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATATC
Found at i:93330651 original size:6 final size:6
Alignment explanation
Indices: 93330642--93330685 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
93330632 AATAATTTAT
*
93330642 TAAAAA TAAAAC TAAAAA T-AAAA -AAAAA TAAAAA TAAAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAA
93330686 CCTAATTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 8 0.24
6 26 0.76
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:93330659 original size:12 final size:12
Alignment explanation
Indices: 93330642--93330690 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
93330632 AATAATTTAT
93330642 TAAAAATAAAAC
1 TAAAAATAAAAC
93330654 TAAAAATAAAA-
1 TAAAAATAAAAC
*
93330665 -AAAAATAAAAA
1 TAAAAATAAAAC
*
93330676 TAAAAATAAACC
1 TAAAAATAAAAC
93330688 TAA
1 TAA
93330691 TTTGCATGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 10 0.30
12 23 0.70
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (12 bp):
TAAAAATAAAAC
Found at i:93330671 original size:22 final size:22
Alignment explanation
Indices: 93330643--93330685 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
93330633 ATAATTTATT
*
93330643 AAAAATAAAACTAAAAATAAAA
1 AAAAATAAAAATAAAAATAAAA
93330665 AAAAATAAAAATAAAAATAAA
1 AAAAATAAAAATAAAAATAAA
93330686 CCTAATTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAAATAAAAATAAAAATAAAA
Found at i:93336308 original size:42 final size:42
Alignment explanation
Indices: 93336226--93336308 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
93336216 AGAACGCTTC
* * *
93336226 AAGAAACACAAAAATAAAGATGAAATATGTTGGAAGAACTTT
1 AAGAAACACAAAAATAAAGATCAAATACGCTGGAAGAACTTT
*
93336268 AAGAAAC-CTAAAAATGAAGATCAAATACGCTGAGAA-AACTT
1 AAGAAACAC-AAAAATAAAGATCAAATACGCTG-GAAGAACTT
93336309 AAAACTCCCC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
41 1 0.03
42 31 0.89
43 3 0.09
ACGTcount: A:0.54, C:0.11, G:0.16, T:0.19
Consensus pattern (42 bp):
AAGAAACACAAAAATAAAGATCAAATACGCTGGAAGAACTTT
Found at i:93340493 original size:3 final size:3
Alignment explanation
Indices: 93340485--93340520 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
93340475 ATAAAATCTA
*
93340485 TTC TTC TTC TTC TTC TTC TTC TTA TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
93340521 ATATCGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:93347548 original size:27 final size:27
Alignment explanation
Indices: 93347510--93347561 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
93347500 GGTCTTGCCC
93347510 AGAGTAATGATCCACTATATTTCTCCT
1 AGAGTAATGATCCACTATATTTCTCCT
*
93347537 AGAGTAATGATCCACTATCTTTCTC
1 AGAGTAATGATCCACTATATTTCTC
93347562 GCAGTACAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.37
Consensus pattern (27 bp):
AGAGTAATGATCCACTATATTTCTCCT
Found at i:93349920 original size:17 final size:17
Alignment explanation
Indices: 93349883--93349921 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
93349873 AATTATTAAA
*
93349883 TTATTTTTTATAAATGT
1 TTATTTTTTATAAATGC
93349900 TTATTTTTTA-AATATGC
1 TTATTTTTTATAA-ATGC
93349917 TTATT
1 TTATT
93349922 ATATTAATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (17 bp):
TTATTTTTTATAAATGC
Found at i:93354342 original size:23 final size:23
Alignment explanation
Indices: 93354312--93354363 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
93354302 GTTGGACGAT
93354312 TCAAGTATCCGTTCGAGTCCGAG
1 TCAAGTATCCGTTCGAGTCCGAG
*
93354335 TCAAGTATTCGTTCGAGTCCGAG
1 TCAAGTATCCGTTCGAGTCCGAG
93354358 TCAAGT
1 TCAAGT
93354364 TAATAGGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (23 bp):
TCAAGTATCCGTTCGAGTCCGAG
Found at i:93355929 original size:25 final size:27
Alignment explanation
Indices: 93355881--93355946 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 27
93355871 AATAATTATT
*
93355881 TTAAATTCGATTTTAACTCAAAATAT-AA
1 TTAAATTC-ATTTAAACTCAAAAT-TCAA
93355909 TTAAATT-ATTTAAACTC-AAATTCAA
1 TTAAATTCATTTAAACTCAAAATTCAA
*
93355934 TTAAATTCGTTTA
1 TTAAATTCATTTA
93355947 TTAATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 1 0.03
25 13 0.38
26 13 0.38
28 7 0.21
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (27 bp):
TTAAATTCATTTAAACTCAAAATTCAA
Found at i:93361107 original size:24 final size:25
Alignment explanation
Indices: 93361080--93361128 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
93361070 TTTATATTAG
*
93361080 TATAAAATTAA-ATTTTTATAATTT
1 TATAAAATTAATATTTTAATAATTT
**
93361104 TATATTATTAATATTTTAATAATTT
1 TATAAAATTAATATTTTAATAATTT
93361129 AATTTTCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATAAAATTAATATTTTAATAATTT
Found at i:93361283 original size:16 final size:16
Alignment explanation
Indices: 93361262--93361328 Score: 98
Period size: 16 Copynumber: 4.2 Consensus size: 16
93361252 GGTTCACTGG
93361262 AATGGAATAGGGCTGT
1 AATGGAATAGGGCTGT
* *
93361278 AATGGAATAGAGCTAT
1 AATGGAATAGGGCTGT
93361294 AATGGAATAGGGCTGT
1 AATGGAATAGGGCTGT
* *
93361310 AATAGAATAGGGTTGT
1 AATGGAATAGGGCTGT
93361326 AAT
1 AAT
93361329 AAGTAATTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.37, C:0.04, G:0.31, T:0.27
Consensus pattern (16 bp):
AATGGAATAGGGCTGT
Found at i:93368758 original size:38 final size:38
Alignment explanation
Indices: 93368707--93368782 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
93368697 TCTTTATAAA
93368707 ACCCAAGATAACCTCCTCAAATTCCACCTCCTTCAAAC
1 ACCCAAGATAACCTCCTCAAATTCCACCTCCTTCAAAC
93368745 ACCCAAGATAACCTCCTCAAATTCCACCTCCTTCAAAC
1 ACCCAAGATAACCTCCTCAAATTCCACCTCCTTCAAAC
93368783 CCATCTACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.42, G:0.03, T:0.21
Consensus pattern (38 bp):
ACCCAAGATAACCTCCTCAAATTCCACCTCCTTCAAAC
Found at i:93371236 original size:13 final size:16
Alignment explanation
Indices: 93371201--93371240 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
93371191 AAGATTTTTT
93371201 TAATTAATATTAAAAA
1 TAATTAATATTAAAAA
93371217 TAATTAAT-TT-AAAA
1 TAATTAATATTAAAAA
93371231 -AATTAATATT
1 TAATTAATATT
93371241 TTATAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.30
14 6 0.26
15 2 0.09
16 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATTAATATTAAAAA
Found at i:93371839 original size:15 final size:14
Alignment explanation
Indices: 93371799--93371838 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
93371789 TAGACTTGGA
93371799 TTTTATATTTTAAT
1 TTTTATATTTTAAT
93371813 TTGATTA-ATTTTAAT
1 TT--TTATATTTTAAT
93371828 TTTTATATTTT
1 TTTTATATTTT
93371839 TTTAAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.13
14 7 0.30
15 10 0.43
16 3 0.13
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTATATTTTAAT
Found at i:93377368 original size:23 final size:23
Alignment explanation
Indices: 93377331--93377394 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
93377321 CCCAATTTTT
*
93377331 CCCCATAACCCATTTACACTAAA
1 CCCCAAAACCCATTTACACTAAA
* * **
93377354 TCTCATGACCCATTTACACTAAA
1 CCCCAAAACCCATTTACACTAAA
93377377 CCCCAAAACCCATTTACA
1 CCCCAAAACCCATTTACA
93377395 ACATAAGCCC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.23
Consensus pattern (23 bp):
CCCCAAAACCCATTTACACTAAA
Found at i:93378582 original size:15 final size:15
Alignment explanation
Indices: 93378562--93378595 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
93378552 ATTAATTTTG
*
93378562 ATATTTTCTATTATT
1 ATATTTACTATTATT
93378577 ATATTTACTATTATT
1 ATATTTACTATTATT
93378592 -TATT
1 ATATT
93378596 GTTATTGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
ATATTTACTATTATT
Found at i:93378645 original size:3 final size:3
Alignment explanation
Indices: 93378570--93378633 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
93378560 TGATATTTTC
* * **
93378570 TAT TAT TA- TATT TAC TAT TATT TAT TGT TAT TGG TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
93378616 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
93378634 ATGTTTTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
2 2 0.04
3 43 0.86
4 5 0.10
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:93390610 original size:44 final size:43
Alignment explanation
Indices: 93390502--93390622 Score: 122
Period size: 44 Copynumber: 2.7 Consensus size: 43
93390492 TATGCCTAAA
* *
93390502 AAAAAGAGAATCAAGGTGAAAACTCGAAAAGGGCGTCTTGATAAT
1 AAAAAG-G-ATCAAGGTGAAAACTCGAAAAGGGCATCTTGATAAC
*
93390547 AAAAAGGGATCAAGGTGAAAACTCGAAAAGGGCATCTTTATTAAC
1 AAAAA-GGATCAAGGTGAAAACTCGAAAAGGGCATCTTGA-TAAC
* *
93390592 ACAAAA-GAT-TAGGATGAAAACCCG-AAAGGGC
1 A-AAAAGGATCAAGG-TGAAAACTCGAAAAGGGC
93390623 GTTCTAATGA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
43 10 0.15
44 42 0.63
45 10 0.15
46 5 0.07
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (43 bp):
AAAAAGGATCAAGGTGAAAACTCGAAAAGGGCATCTTGATAAC
Found at i:93392457 original size:19 final size:19
Alignment explanation
Indices: 93392433--93392470 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
93392423 GAAATGAATA
*
93392433 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
93392452 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
93392471 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:93393666 original size:9 final size:8
Alignment explanation
Indices: 93393636--93393680 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
93393626 AGAGGTTAGG
*
93393636 TTTTTTTC
1 TTTTTTTA
93393644 TTTTTCTTCA
1 TTTTT-TT-A
93393654 TTTTTTTA
1 TTTTTTTA
93393662 TTTTTTTA
1 TTTTTTTA
93393670 -TTTTTTA
1 TTTTTTTA
93393677 TTTT
1 TTTT
93393681 GGGTTGTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
7 7 0.21
8 17 0.52
9 4 0.12
10 5 0.15
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTA
Found at i:93394201 original size:75 final size:73
Alignment explanation
Indices: 93393842--93394302 Score: 524
Period size: 75 Copynumber: 6.3 Consensus size: 73
93393832 TACTCTGATG
* * * *
93393842 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGATGAGTTGAGCCT-TGGCTCACA
1 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
*
93393906 CGTTGAGGTAT
63 CGCTGAGGTAT
* *
93393917 TTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTC
1 TTTCAATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
93393982 ACG-TCGAGGTAT
62 ACGCT-GAGGTAT
** * * * * * *
93393994 TTTCAAAATCTG-TTTT---TAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTCAAGACAGGC
1 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
93394055 TGAGGTAA
66 TGAGGTAT
* * *
93394063 TTTCAATTTCTGTTTTTC-AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
93394127 TGAGGTAT
66 TGAGGTAT
* * * *
93394135 TTTCAATTTCTGCTTTTCAAAAAAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTTAGGACAC
1 TTTCAATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
93394200 GCTGAGGTAA
64 GCTGAGGTAT
* *
93394210 TTTCAATTTCTG-TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACA
1 TTTCAATTTCTGCTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
93394274 CTGAGGTAT
65 CTGAGGTAT
*
93394283 TTTCAATTTTTGCTTTTCAA
1 TTTCAATTTCTGCTTTTCAA
93394303 TTTATGTGTT
Statistics
Matches: 334, Mismatches: 39, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
69 19 0.06
70 5 0.01
71 33 0.10
72 63 0.19
73 63 0.19
74 6 0.02
75 80 0.24
76 5 0.01
77 58 0.17
78 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (73 bp):
TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAT
Found at i:93394297 original size:148 final size:145
Alignment explanation
Indices: 93393842--93394302 Score: 594
Period size: 148 Copynumber: 3.1 Consensus size: 145
93393832 TACTCTGATG
* * * * * *
93393842 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGATGAGTTGAGCCTT-GGCTCACA
1 TTTCAATTTCTGCTTTTCAAAAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTTAGG---ACA
* *
93393906 CGTTGAGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
63 CGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
93393971 CCTC-GGGTCTCACGTCGAGGTAT
125 CCTCAGGG-CACAC-T-GAGGTAT
** * * * *
93393994 TTTCAAAATCTG-TTTT---TAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTCAAGACAGGC
1 TTTCAATTTCTGCTTTTCAAAAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTTAGGACACGC
*
93394055 TGAGGTAATTTCAATTTCTGTTTTTC-AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCA
66 TGAGGTAATTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
93394119 GGGCACGCTGAGGTAT
130 GGGCACACTGAGGTAT
93394135 TTTCAATTTCTGCTTTTCAAAAAAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTTAGGACAC
1 TTTCAATTTCTGCTTTTC--AAAAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTTAGGACAC
93394200 GCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
64 GCTGAGGTAATTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
93394265 CAGGGCACACTGAGGTAT
128 CAGGGCACACTGAGGTAT
*
93394283 TTTCAATTTTTGCTTTTCAA
1 TTTCAATTTCTGCTTTTCAA
93394303 TTTATGTGTT
Statistics
Matches: 273, Mismatches: 26, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
141 17 0.06
142 5 0.02
143 39 0.14
144 3 0.01
146 33 0.12
147 63 0.23
148 98 0.36
149 1 0.00
151 4 0.01
152 10 0.04
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (145 bp):
TTTCAATTTCTGCTTTTCAAAAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTTAGGACACGC
TGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GGCACACTGAGGTAT
Found at i:93394361 original size:87 final size:88
Alignment explanation
Indices: 93394210--93394380 Score: 249
Period size: 87 Copynumber: 1.9 Consensus size: 88
93394200 GCTGAGGTAA
* *
93394210 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CACA
1 TTTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGGACACA
* *
93394274 CTGAGGTATTTTCAATTTTTGCT
66 CCGAGGTATTTCCAATTTTTGCT
*
93394297 TTTCAATTTATGTGTT-TTAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGGTCAC
1 TTTCAATTTATGT-TTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGG--AC
93394360 ACACCGAGGTATTTCCAATTT
63 ACACCGAGGTATTTCCAATTT
93394381 CAGTTTTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
86 3 0.04
87 50 0.67
88 2 0.03
89 20 0.27
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (88 bp):
TTTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGGACACA
CCGAGGTATTTCCAATTTTTGCT
Found at i:93395576 original size:22 final size:22
Alignment explanation
Indices: 93395528--93395577 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
93395518 CTTTCGAAAT
*
93395528 TTTTTTATTTCTTTCTTTTTCC
1 TTTTTTATTTCATTCTTTTTCC
*
93395550 GTTTTTATTTCATT-TTTTTCTC
1 TTTTTTATTTCATTCTTTTTC-C
93395572 TTTTTT
1 TTTTTT
93395578 TATGCACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTTATTTCATTCTTTTTCC
Found at i:93396223 original size:3 final size:3
Alignment explanation
Indices: 93396215--93396287 Score: 85
Period size: 3 Copynumber: 24.0 Consensus size: 3
93396205 TGATATTTTC
* * **
93396215 TAT TAT TA- TATT TAC TAT TATT TAT TTT TAT TGG TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
93396261 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
93396288 ATACGTATAG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.03
3 52 0.88
4 5 0.08
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:93396227 original size:15 final size:14
Alignment explanation
Indices: 93396207--93396281 Score: 62
Period size: 15 Copynumber: 5.1 Consensus size: 14
93396197 ATTAATTTTG
93396207 ATATTTTCTATTATT
1 ATATTTT-TATTATT
*
93396222 ATATTTACTATTATT
1 ATATTT-TTATTATT
**
93396237 -TATTTTTATTGGT
1 ATATTTTTATTATT
*
93396250 ATTATTATTATTATT
1 A-TATTTTTATTATT
*
93396265 ATTATTATTATTATT
1 A-TATTTTTATTATT
93396280 AT
1 AT
93396282 TATTATATAC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
13 5 0.10
14 6 0.12
15 39 0.78
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (14 bp):
ATATTTTTATTATT
Found at i:93396635 original size:26 final size:27
Alignment explanation
Indices: 93396606--93396659 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
93396596 ATGTGCTATA
* *
93396606 TATATATTTTTCT-ATTCTATATTATG
1 TATATATATTTCTAATGCTATATTATG
*
93396632 TATATGTATTTCTAATGCTATATTATG
1 TATATATATTTCTAATGCTATATTATG
93396659 T
1 T
93396660 TTTCATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.57
Consensus pattern (27 bp):
TATATATATTTCTAATGCTATATTATG
Found at i:93399235 original size:29 final size:29
Alignment explanation
Indices: 93399203--93399258 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
93399193 AATCCAAAAA
*
93399203 ATAAATTAAATATTAAAATAGATCATTCT
1 ATAAATTAAATATCAAAATAGATCATTCT
* *
93399232 ATAAATTAATTATCGAAATAGATCATT
1 ATAAATTAAATATCAAAATAGATCATT
93399259 TGTTACCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (29 bp):
ATAAATTAAATATCAAAATAGATCATTCT
Found at i:93400033 original size:21 final size:20
Alignment explanation
Indices: 93400009--93400047 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
93399999 ATACACTTTA
93400009 AAAAGTACA-TTATTGAGAGAG
1 AAAAGT-CATTTA-TGAGAGAG
93400030 AAAAGTCATTTATGAGAG
1 AAAAGTCATTTATGAGAG
93400048 GCTCATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.26
Consensus pattern (20 bp):
AAAAGTCATTTATGAGAGAG
Found at i:93400045 original size:20 final size:21
Alignment explanation
Indices: 93400009--93400047 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
93399999 ATACACTTTA
93400009 AAAAGTACATTATTGAGAGAG
1 AAAAGTACATTATTGAGAGAG
93400030 AAAAGT-CATT-TATGAGAG
1 AAAAGTACATTAT-TGAGAG
93400048 GCTCATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 10 0.59
21 6 0.35
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.26
Consensus pattern (21 bp):
AAAAGTACATTATTGAGAGAG
Found at i:93401543 original size:22 final size:20
Alignment explanation
Indices: 93401492--93401543 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 20
93401482 ATATATACAT
*
93401492 TAAAAATATAAAAAATAAAA
1 TAAATATATAAAAAATAAAA
* *
93401512 TAAATGTATAGAAAAATCAGAA
1 TAAATATATA-AAAAAT-AAAA
*
93401534 TATATATATA
1 TAAATATATA
93401544 TAATCTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 8 0.32
21 6 0.24
22 11 0.44
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
TAAATATATAAAAAATAAAA
Found at i:93408344 original size:7 final size:7
Alignment explanation
Indices: 93408332--93408359 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
93408322 GAAATTGGGA
93408332 CTTTTGC
1 CTTTTGC
93408339 CTTTTGC
1 CTTTTGC
93408346 CTTTTGC
1 CTTTTGC
93408353 CTTTTGC
1 CTTTTGC
93408360 ATATAGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.29, G:0.14, T:0.57
Consensus pattern (7 bp):
CTTTTGC
Found at i:93411137 original size:3 final size:3
Alignment explanation
Indices: 93411129--93411161 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
93411119 AAAATTTCCT
93411129 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
93411162 CAAATAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:93413815 original size:30 final size:30
Alignment explanation
Indices: 93413780--93413840 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
93413770 CTTTTGGGGG
93413780 TTTTATGTTTGGAATGACTTTTGATTCATC
1 TTTTATGTTTGGAATGACTTTTGATTCATC
93413810 TTTTATGTTTGGAATGACTTTTGATTCATC
1 TTTTATGTTTGGAATGACTTTTGATTCATC
93413840 T
1 T
93413841 CTAAGTTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.10, G:0.16, T:0.54
Consensus pattern (30 bp):
TTTTATGTTTGGAATGACTTTTGATTCATC
Found at i:93433867 original size:18 final size:17
Alignment explanation
Indices: 93433832--93433883 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
93433822 AATCGAAAAC
*
93433832 AAATTATTATAGTTTTTA
1 AAATTATTATA-TGTTTA
93433850 AAATTATTATATAGTTTA
1 AAATTATTATAT-GTTTA
*
93433868 ATA-TATTATAT-TTTA
1 AAATTATTATATGTTTA
93433883 A
1 A
93433884 TGTTATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 5 0.16
17 9 0.29
18 17 0.55
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (17 bp):
AAATTATTATATGTTTA
Found at i:93433875 original size:35 final size:32
Alignment explanation
Indices: 93433836--93433911 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 32
93433826 GAAAACAAAT
*
93433836 TATTATAGTTTTTAAAATTATTATATAGTTTAATA
1 TATTATAGTTTTTAAAATTATT-T-TA-TATAATA
**
93433871 TATTATA--TTTTAATGTTATTTTATATAATA
1 TATTATAGTTTTTAAAATTATTTTATATAATA
93433901 TATTATAGTTT
1 TATTATAGTTT
93433912 GATATGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
30 13 0.36
31 2 0.06
32 3 0.08
33 11 0.31
35 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (32 bp):
TATTATAGTTTTTAAAATTATTTTATATAATA
Found at i:93433902 original size:30 final size:30
Alignment explanation
Indices: 93433866--93433944 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
93433856 TTATATAGTT
* * *
93433866 TAATATATTATATTTTAATGTTATTTTATA
1 TAATATATTATATTTTAATATGATTTGATA
* *
93433896 TAATATATTATAGTTTGATATGATTTGATA
1 TAATATATTATATTTTAATATGATTTGATA
* **
93433926 TAATTTAAAATATTTTAAT
1 TAATATATTATATTTTAAT
93433945 TAATATATTT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.54
Consensus pattern (30 bp):
TAATATATTATATTTTAATATGATTTGATA
Found at i:93434143 original size:13 final size:13
Alignment explanation
Indices: 93434125--93434149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93434115 AAATTATACT
93434125 AAACATTTTATTG
1 AAACATTTTATTG
93434138 AAACATTTTATT
1 AAACATTTTATT
93434150 ATTTAAAATA
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:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
AAACATTTTATTG
Found at i:93434462 original size:34 final size:34
Alignment explanation
Indices: 93434419--93434487 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
93434409 TATGGACTTA
93434419 ACAGAGAATTTTAAGGGTATTAAAAATTCACATC
1 ACAGAGAATTTTAAGGGTATTAAAAATTCACATC
*
93434453 ACAGAGAATTTTAAGGGTGTTAAAAATTCACATC
1 ACAGAGAATTTTAAGGGTATTAAAAATTCACATC
93434487 A
1 A
93434488 ATCTTTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (34 bp):
ACAGAGAATTTTAAGGGTATTAAAAATTCACATC
Found at i:93434789 original size:26 final size:24
Alignment explanation
Indices: 93434749--93434808 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
93434739 TTATTTCATT
* * *
93434749 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
93434773 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
93434799 AAATAAATAT
1 AAATAAATAT
93434809 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:93434820 original size:22 final size:21
Alignment explanation
Indices: 93434779--93434834 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
93434769 ATAATAAATC
* *
93434779 AAATATAT-TTAAAAACATAA
1 AAATAAATATTAAAAAAATAA
93434799 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAA-AAATAA
*
93434821 AAAT-AATACTAAAA
1 AAATAAATATTAAAA
93434835 TAATTCTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 15 0.48
22 9 0.29
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATAAATATTAAAAAAATAA
Found at i:93435887 original size:16 final size:15
Alignment explanation
Indices: 93435849--93435877 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93435839 ACAAATAATC
93435849 CATTAATTTTCTAAA
1 CATTAATTTTCTAAA
93435864 CATTAATTTTCTAA
1 CATTAATTTTCTAA
93435878 TATTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (15 bp):
CATTAATTTTCTAAA
Found at i:93436109 original size:2 final size:2
Alignment explanation
Indices: 93436104--93436132 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93436094 AAAAAATGTT
93436104 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93436133 TTTGGAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93437587 original size:30 final size:30
Alignment explanation
Indices: 93437551--93437725 Score: 210
Period size: 30 Copynumber: 5.8 Consensus size: 30
93437541 ACTTTTCTCA
*
93437551 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
93437581 ACTAGCCATACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
93437611 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
93437641 ATTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* ** *
93437671 ACTAACCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
93437701 ACTAACCACA-CTTACTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
93437726 CTTGTGCCTA
Statistics
Matches: 127, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
29 3 0.02
30 124 0.98
ACGTcount: A:0.28, C:0.47, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:93438310 original size:29 final size:29
Alignment explanation
Indices: 93438278--93438401 Score: 75
Period size: 27 Copynumber: 4.4 Consensus size: 29
93438268 ATTTTAAATT
93438278 CTATATTACGTATATATATATATTTTATA
1 CTATATTACGTATATATATATATTTTATA
* * *
93438307 CTATTTTATGTATATATCAT-TAATATTATA
1 CTATATTACGTATATAT-ATAT-ATTTTATA
* * *
93438337 TTAT-TTA--TATATATATATTTTTTTTA
1 CTATATTACGTATATATATATATTTTATA
* * *
93438363 C-ATGTTATC-T-TATGTATATATCTTA-A
1 CTATATTA-CGTATATATATATATTTTATA
*
93438389 CTATATTATGTAT
1 CTATATTACGTAT
93438402 GTATTTTTAA
Statistics
Matches: 72, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
25 2 0.03
26 12 0.17
27 25 0.35
28 2 0.03
29 19 0.26
30 12 0.17
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (29 bp):
CTATATTACGTATATATATATATTTTATA
Found at i:93438400 original size:22 final size:24
Alignment explanation
Indices: 93438372--93438430 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
93438362 ACATGTTATC
93438372 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
93438394 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
93438419 TTATGTACATAT
1 TTATGTATATAT
93438431 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:93438420 original size:25 final size:25
Alignment explanation
Indices: 93438388--93438436 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
93438378 ATATATCTTA
**
93438388 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
93438413 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
93438437 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:93438621 original size:24 final size:24
Alignment explanation
Indices: 93438585--93438642 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
93438575 ATATTAATTA
*
93438585 TTAT-TATTCTAATATTTTGATATT
1 TTATATATTTTAATATTTT-ATATT
93438609 TTA-ATATTTTAATATTTTATATT
1 TTATATATTTTAATATTTTATATT
93438632 TTATATATTTT
1 TTATATATTTT
93438643 GTTATTCACA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 8 0.26
24 23 0.74
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (24 bp):
TTATATATTTTAATATTTTATATT
Found at i:93438632 original size:7 final size:8
Alignment explanation
Indices: 93438589--93438642 Score: 74
Period size: 8 Copynumber: 6.8 Consensus size: 8
93438579 TAATTATTAT
*
93438589 TATTCTAA
1 TATTTTAA
*
93438597 TATTTTGA
1 TATTTTAA
93438605 TATTTTAA
1 TATTTTAA
93438613 TATTTTAA
1 TATTTTAA
93438621 TATTTT-A
1 TATTTTAA
93438628 TATTTTATA
1 TATTTTA-A
93438637 TATTTT
1 TATTTT
93438643 GTTATTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
7 7 0.17
8 27 0.66
9 7 0.17
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:93444448 original size:43 final size:43
Alignment explanation
Indices: 93444400--93444488 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 43
93444390 AAATATTATG
*
93444400 CTTAAAAAAAAAGAAAATCAAGATGAAAACCCGAAAAGGGCAT
1 CTTAAAAAAAAAGAAAATCAAGATGAAAACACGAAAAGGGCAT
*** * * *
93444443 CTTAAAAAAAAAGGGGATCAAGGTGAAAACACGAAAATGGCGT
1 CTTAAAAAAAAAGAAAATCAAGATGAAAACACGAAAAGGGCAT
93444486 CTT
1 CTT
93444489 GATTAACACA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.52, C:0.13, G:0.20, T:0.15
Consensus pattern (43 bp):
CTTAAAAAAAAAGAAAATCAAGATGAAAACACGAAAAGGGCAT
Found at i:93445399 original size:74 final size:71
Alignment explanation
Indices: 93445321--93445597 Score: 333
Period size: 73 Copynumber: 3.8 Consensus size: 71
93445311 CTGATTTTCA
*
93445321 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTT-AATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTAAATT
*
93445385 TATGTTCAT
65 TCTGTT--T
* * ** * * *
93445394 AAAAAATTAGCTTGTATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTAAA
93445458 TTTCTGTTT
63 TTTCTGTTT
**
93445467 TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTAAATT
93445532 TCTGTTTTT
65 TCTG--TTT
* * *
93445541 CAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
93445598 GTCAATTTTT
Statistics
Matches: 175, Mismatches: 21, Indels: 16
0.83 0.10 0.08
Matches are distributed among these distances:
71 13 0.07
72 14 0.08
73 67 0.38
74 60 0.34
75 21 0.12
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (71 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATTT
CTGTTT
Found at i:93445650 original size:161 final size:156
Alignment explanation
Indices: 93445452--93446012 Score: 663
Period size: 161 Copynumber: 3.6 Consensus size: 156
93445442 GCTGAGGTAT
* *
93445452 TTTCAATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 TTTCAATTTAT-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
* * *
93445517 AGGTATTTTTAAATTTCTGTTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAG
65 AGGTA-ATTTCAATTTCTGTTTTTCAAAAATCAATTCATATTGCAAGAGGTGAGTTGAGCCTC-G
93445582 GGCACGCTGAGGTATTGTCAATTTTTGTG
128 GGCACGCTGAGGTATTGTCAATTTTTGTG
* * *
93445611 TTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGT
1 TTTCAATTTA--TTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * * * *
93445676 TGAGGTAATTGCAATTTCT-ATTGTCAAAAAAATCAATTCATATTGCAAGAAGTGAGTTAAGCCT
63 TGAGGTAATTTCAATTTCTGTTTTTC--AAAAATCAATTCATATTGCAAGAGGTGAGTTGAGCCT
* * *
93445740 CGGCTCACGTGCTGAGGTATTTTCAA--TTTCTG
126 CGG-GCAC--GCTGAGGTATTGTCAATTTTTGTG
* * *
93445772 TTTC----TATTTGTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACATGCTGA
1 TTTCAATTTATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
93445833 GGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGG
66 GGTAATTTCAATTTCTGTTTTTCAAAAATCAATTCATATTGCAAGAGGTGAGTTGAGCCTC-GGG
*
93445898 CACGCTGAGGAATTGTCAATTTTTGTG
130 CACGCTGAGGTATTGTCAATTTTTGTG
***** * *
93445925 CTTT-AATTTCA-AAAAAATAAATCAACTCATATTGTGAGAGGTGAATTGAGCCTCAGGACACGC
1 -TTTCAATTT-ATTTTTCA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
93445988 TGAGGTATTTTCAATTTCTGTTTTT
63 TGAGGTAATTTCAATTTCTGTTTTT
93446013 TTCCAATTTC
Statistics
Matches: 343, Mismatches: 40, Indels: 39
0.81 0.09 0.09
Matches are distributed among these distances:
151 14 0.04
153 43 0.13
154 66 0.19
155 9 0.03
157 4 0.01
158 66 0.19
159 13 0.04
160 15 0.04
161 98 0.29
163 15 0.04
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (156 bp):
TTTCAATTTATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTAATTTCAATTTCTGTTTTTCAAAAATCAATTCATATTGCAAGAGGTGAGTTGAGCCTCGGGC
ACGCTGAGGTATTGTCAATTTTTGTG
Found at i:93445680 original size:87 final size:87
Alignment explanation
Indices: 93445528--93445692 Score: 262
Period size: 87 Copynumber: 1.9 Consensus size: 87
93445518 GGTATTTTTA
* *
93445528 AATTTCTGTTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
93445593 GT-ATTGTCAATTTTTGTGTTTC
66 GTAATTG-CAATTTTTGTGTTTC
* *
93445615 AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGACATGTTGA
1 AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CACGCTGA
93445679 GGTAATTGCAATTT
65 GGTAATTGCAATTT
93445693 CTATTGTCAA
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
86 3 0.04
87 65 0.90
88 4 0.06
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (87 bp):
AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
GTAATTGCAATTTTTGTGTTTC
Found at i:93445886 original size:73 final size:73
Alignment explanation
Indices: 93445611--93445919 Score: 345
Period size: 73 Copynumber: 4.1 Consensus size: 73
93445601 AATTTTTGTG
* * * *
93445611 TTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGT
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGACATGC
93445676 TGAGGTAA
66 TGAGGTAA
* * * * * *
93445684 TTGCAATTTCT-ATTGTCAAAAAAATCAATTCATATTGCAAGAAGTGAGTTAAGCCTCGGCTCAC
1 TTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGG--GAC
* *
93445748 GTGCTGAGGTAT
62 ATGCTGAGGTAA
* *
93445760 TTTCAATTTCTGTTTCTATTTGTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG
1 TTTCAATTTCTG----T-TTT-TCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGG
93445824 ACATGCTGAGGTAA
60 ACATGCTGAGGTAA
* * *
93445838 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGACATGC
93445903 TGAGG-AA
66 TGAGGTAA
93445910 TTGTCAATTT
1 TT-TCAATTT
93445920 TTGTGCTTTA
Statistics
Matches: 196, Mismatches: 27, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
72 10 0.05
73 65 0.33
74 37 0.19
76 21 0.11
78 24 0.12
80 35 0.18
82 2 0.01
83 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGACATGC
TGAGGTAA
Found at i:93445901 original size:314 final size:306
Alignment explanation
Indices: 93445320--93446006 Score: 913
Period size: 314 Copynumber: 2.2 Consensus size: 306
93445310 TCTGATTTTC
** *
93445320 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAA-T
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * * * * *
93445384 T-TATGTTCATAAAAAATTAGCTTGTATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAG
66 TCTATGTTCATAAAAAATCAGATTATATTGCAAGAAGTGAGTTAAGCCTCGGCTCACACGCTGAG
*
93445448 GTATTTTCAATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
131 GTATTTTCAATTTCTGTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACAC
* * *
93445513 GCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCC
196 GCTGAGGTATATTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
* **
93445578 TCAGGGCACGCTGAGGTATTGTCAATTTTTGTG-TTTCAATTT-ATGTTTT
261 TCAGGGCACGCTGAGGAATTGTCAATTTTTGTGCTTT-AATTTCA----AA
** * * * *
93445627 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGTTGAGGTAATTGCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
**
93445692 TCTAT-TGTCA-AAAAAATCA-ATTCATATTGCAAGAAGTGAGTTAAGCCTCGGCTCACGTGCTG
66 TCTATGT-TCATAAAAAATCAGATT-ATATTGCAAGAAGTGAGTTAAGCCTCGGCTCACACGCTG
93445754 AGGTATTTTCAATTTCTGTTTCTATTTGTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
129 AGGTATTTTCAATTTCTG----T-TTT-T-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
* *
93445819 TCAGGACATGCTGAGGTA-ATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTG
187 TCAGGACACGCTGAGGTATATTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTG
*
93445883 AGTTGAGCCTCGGGGCACGCTGAGGAATTGTCAATTTTTGTGCTTTAATTTCAAA
252 AGTTGAGCCTCAGGGCACGCTGAGGAATTGTCAATTTTTGTGCTTTAATTTCAAA
* * *
93445938 AAAATAAATCAACTCATATTGTGAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
1 AAAA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
93446003 TTCT
65 TTCT
93446007 GTTTTTTTCC
Statistics
Matches: 330, Mismatches: 36, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
307 56 0.17
308 62 0.19
309 6 0.02
311 2 0.01
312 58 0.18
313 3 0.01
314 88 0.27
315 55 0.17
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (306 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TCTATGTTCATAAAAAATCAGATTATATTGCAAGAAGTGAGTTAAGCCTCGGCTCACACGCTGAG
GTATTTTCAATTTCTGTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATATTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
TCAGGGCACGCTGAGGAATTGTCAATTTTTGTGCTTTAATTTCAAA
Found at i:93446021 original size:17 final size:17
Alignment explanation
Indices: 93445995--93446029 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
93445985 CGCTGAGGTA
93445995 TTTTCAATTTCTG-TTT
1 TTTTCAATTTCTGCTTT
93446011 TTTTCCAATTTCTGCTTT
1 TTTT-CAATTTCTGCTTT
93446029 T
1 T
93446030 CAAAATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 9 0.53
18 4 0.24
ACGTcount: A:0.11, C:0.17, G:0.06, T:0.66
Consensus pattern (17 bp):
TTTTCAATTTCTGCTTT
Found at i:93446193 original size:54 final size:54
Alignment explanation
Indices: 93446115--93446218 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
93446105 TCAAACTCTG
* *
93446115 TTTTTAATTTTTACTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTAAAC
1 TTTTTAATTTCTACTTTTCAAAAATCAACTCATATTGAGAGAAGTGAGTTAAAC
** * *
93446169 TTTTTAATTTCTGTTTTTCAAAAATCAACTTATATTGCGAGAAGTGAGTT
1 TTTTTAATTTCTACTTTTCAAAAATCAACTCATATTGAGAGAAGTGAGTT
93446219 GAGCCTTTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (54 bp):
TTTTTAATTTCTACTTTTCAAAAATCAACTCATATTGAGAGAAGTGAGTTAAAC
Found at i:93446299 original size:77 final size:75
Alignment explanation
Indices: 93446169--93446450 Score: 386
Period size: 77 Copynumber: 3.7 Consensus size: 75
93446159 TGAGTTAAAC
* * * *
93446169 TTTTTAATTTCTGTTTTTCAAAAATCAACTTATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACG
1 TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACG
93446234 TGCTGAGCTA
66 TGCTGAGCTA
*
93446244 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTTGCTCA
1 TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
93446309 CGTGCTGAGCTA
64 CGTGCTGAGCTA
* * ** *
93446321 TTTTTAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCA
1 TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
** *
93446386 CACGCTGAGGC-G
64 CGTGCTGA-GCTA
*
93446398 TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAG
1 TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
93446451 TCTCGGGCCA
Statistics
Matches: 187, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
75 46 0.25
76 6 0.03
77 133 0.71
78 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (75 bp):
TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACG
TGCTGAGCTA
Found at i:93446477 original size:75 final size:77
Alignment explanation
Indices: 93446168--93446490 Score: 345
Period size: 77 Copynumber: 4.2 Consensus size: 77
93446158 GTGAGTTAAA
* * * * *
93446168 CTTTTTAATTTCTGTTTTTC-AAA-AATCAACTTATATTGCGAGAAGTGAGTTGAGCCTTTGCTC
1 CTTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
**
93446231 ACGTGCTGAGCT
66 ACACGCTGAGCT
* * *
93446243 ATTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTTGCTC
1 CTTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
**
93446308 ACGTGCTGAGCT
66 ACACGCTGAGCT
* * * *
93446320 ATTTTTAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG-T
1 CTTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT
93446384 CACACGCTGAGGC-
65 CACACGCTGA-GCT
* * * *
93446397 GTTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCGGGC-
1 CTTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT
* * *
93446459 CACACACTAAGGT
65 CACACGCTGAGCT
* *
93446472 CTTTTCAAATTCTGTTTTT
1 CTTTTCAATTTCTGCTTTT
93446491 AATTTCTAAT
Statistics
Matches: 217, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
74 1 0.00
75 75 0.35
76 6 0.03
77 132 0.61
78 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (77 bp):
CTTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
ACACGCTGAGCT
Found at i:93447317 original size:30 final size:30
Alignment explanation
Indices: 93447281--93447455 Score: 219
Period size: 30 Copynumber: 5.8 Consensus size: 30
93447271 ACTTTTCTCA
*
93447281 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
93447311 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
93447341 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* * *
93447371 ATTAGCCACACCTTCTCTACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
93447401 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
93447431 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
93447456 CTTGTGCCTA
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
29 3 0.02
30 125 0.98
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:93448053 original size:30 final size:30
Alignment explanation
Indices: 93448008--93448086 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
93447998 ATTTTAAATT
* *
93448008 CTATATTACGTATATATATAT-ATATTTATA
1 CTATTTTATGTATATATATATAATA-TTATA
* *
93448038 CTATTTTATGTATATATCTTTAATATTATA
1 CTATTTTATGTATATATATATAATATTATA
* * *
93448068 TTATTATATATATATATAT
1 CTATTTTATGTATATATAT
93448087 TTTTTACATG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 37 0.93
31 3 0.08
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (30 bp):
CTATTTTATGTATATATATATAATATTATA
Found at i:93448128 original size:22 final size:24
Alignment explanation
Indices: 93448102--93448160 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
93448092 ACATGTTATC
93448102 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
93448124 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
93448149 TTATGTACATAT
1 TTATGTATATAT
93448161 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:93448150 original size:25 final size:25
Alignment explanation
Indices: 93448118--93448166 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
93448108 ATATATCTTA
**
93448118 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
93448143 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
93448167 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:93448353 original size:24 final size:24
Alignment explanation
Indices: 93448317--93448380 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 24
93448307 ATATTAATTA
*
93448317 TTAT-TATTCTAATATTTTGATATT
1 TTATATATTTTAATATTTT-ATATT
93448341 TTA-ATATTTTAATATTTTATATT
1 TTATATATTTTAATATTTTATATT
*
93448364 TTATATATTTTATTATT
1 TTATATATTTTAATATT
93448381 CACATCATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
23 8 0.22
24 28 0.78
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (24 bp):
TTATATATTTTAATATTTTATATT
Found at i:93448364 original size:7 final size:8
Alignment explanation
Indices: 93448321--93448380 Score: 77
Period size: 8 Copynumber: 7.5 Consensus size: 8
93448311 TAATTATTAT
*
93448321 TATTCTAA
1 TATTTTAA
*
93448329 TATTTTGA
1 TATTTTAA
93448337 TATTTTAA
1 TATTTTAA
93448345 TATTTTAA
1 TATTTTAA
93448353 TATTTT-A
1 TATTTTAA
93448360 TATTTTATA
1 TATTTTA-A
*
93448369 TATTTTAT
1 TATTTTAA
93448377 TATT
1 TATT
93448381 CACATCATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.15
8 31 0.67
9 8 0.17
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:93448988 original size:2 final size:2
Alignment explanation
Indices: 93448981--93449011 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
93448971 AAAATAAATA
93448981 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93449012 AAAGGTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93449449 original size:15 final size:15
Alignment explanation
Indices: 93449416--93449466 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
93449406 GTATTTTATT
* *
93449416 AAAATAGTATATAGT
1 AAAATAATATATAGA
*
93449431 AAAATAATATATGGA
1 AAAATAATATATAGA
93449446 AAAATGAATA-ATA-A
1 AAAAT-AATATATAGA
93449460 AAAATAA
1 AAAATAA
93449467 AATTTAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 2 0.06
14 6 0.19
15 19 0.61
16 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (15 bp):
AAAATAATATATAGA
Found at i:93453490 original size:25 final size:25
Alignment explanation
Indices: 93453456--93453506 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
93453446 GATGAACAGA
*
93453456 TATATATATGAACTATGAAGTCTTG
1 TATATATATGAACAATGAAGTCTTG
93453481 TATATATATGAACAATGAAGTCTTG
1 TATATATATGAACAATGAAGTCTTG
93453506 T
1 T
93453507 TTTCTGTCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (25 bp):
TATATATATGAACAATGAAGTCTTG
Found at i:93458099 original size:6 final size:6
Alignment explanation
Indices: 93458082--93458125 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
93458072 AACATCATAG
*
93458082 TTAAAA TCTAAAT TTAAAAA TTAAAA TTAAAA TTAAAAA TTAAA
1 TTAAAA T-TAAAA TT-AAAA TTAAAA TTAAAA TT-AAAA TTAAA
93458126 TTATTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 17 0.52
7 16 0.48
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (6 bp):
TTAAAA
Found at i:93458100 original size:13 final size:12
Alignment explanation
Indices: 93458082--93458125 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
93458072 AACATCATAG
*
93458082 TTAAAATCTAAAT
1 TTAAAAT-TAAAA
93458095 TTAAAAATTAAAA
1 TT-AAAATTAAAA
93458108 TTAAAATTAAAAA
1 TTAAAATT-AAAA
93458121 TTAAA
1 TTAAA
93458126 TTATTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 6 0.21
13 17 0.61
14 5 0.18
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (12 bp):
TTAAAATTAAAA
Found at i:93459410 original size:30 final size:30
Alignment explanation
Indices: 93459376--93459434 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
93459366 AATATAGTTT
*
93459376 AATATATTAAAATTTAATATTATTTGATAC
1 AATATATTAAAATTTAATATGATTTGATAC
* * *
93459406 AATATATTATAGTTTGATATGATTTGATA
1 AATATATTAAAATTTAATATGATTTGATA
93459435 TAAGTAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.47
Consensus pattern (30 bp):
AATATATTAAAATTTAATATGATTTGATAC
Found at i:93459827 original size:22 final size:22
Alignment explanation
Indices: 93459802--93459844 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
93459792 TTTTTGAGTC
* *
93459802 TTTTTTTACCATCAACTTTTAA
1 TTTTTTTACAAACAACTTTTAA
*
93459824 TTTTTTTTCAAACAACTTTTA
1 TTTTTTTACAAACAACTTTTA
93459845 CTAACATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTTTTACAAACAACTTTTAA
Found at i:93464971 original size:10 final size:9
Alignment explanation
Indices: 93464948--93465129 Score: 68
Period size: 10 Copynumber: 19.2 Consensus size: 9
93464938 AAAAAACTAA
93464948 ATAAAAATT
1 ATAAAAATT
*
93464957 ATAAAAGTT
1 ATAAAAATT
*
93464966 AT-TAAATT
1 ATAAAAATT
*
93464974 ATAATAAAAAT
1 AT-A-AAAATT
* *
93464985 ATTTAAATTT
1 A-TAAAAATT
93464995 ATTAAAAA-T
1 A-TAAAAATT
*
93465004 AGAAAAATAT
1 ATAAAAAT-T
*
93465014 ATAAAAATC
1 ATAAAAATT
93465023 AT-AAAATAT
1 ATAAAAAT-T
*
93465032 ATAGAAATAT
1 ATAAAAAT-T
*
93465042 ATAGAAA-T
1 ATAAAAATT
93465050 ATAAAAATT
1 ATAAAAATT
*
93465059 -TTAAAATT
1 ATAAAAATT
*
93465067 TTAAGAAAATT
1 AT-A-AAAATT
*
93465078 ATAGAAAAAT
1 ATA-AAAATT
*
93465088 ATAAAGAAAT
1 ATAAA-AATT
*
93465098 ATAAAATTTGT
1 ATAAAA-AT-T
*
93465109 AAAAGAAATT
1 ATAA-AAATT
93465119 ATAAAAATT
1 ATAAAAATT
93465128 AT
1 AT
93465130 CACATCAAAA
Statistics
Matches: 132, Mismatches: 25, Indels: 32
0.70 0.13 0.17
Matches are distributed among these distances:
8 30 0.23
9 28 0.21
10 54 0.41
11 17 0.13
12 3 0.02
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:93464990 original size:20 final size:19
Alignment explanation
Indices: 93464967--93465004 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
93464957 ATAAAAGTTA
93464967 TTAAATTATAATAAAAATAT
1 TTAAATT-TAATAAAAATAT
*
93464987 TTAAATTTATTAAAAATA
1 TTAAATTTAATAAAAATA
93465005 GAAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAATTTAATAAAAATAT
Found at i:93465028 original size:19 final size:18
Alignment explanation
Indices: 93464948--93465057 Score: 73
Period size: 18 Copynumber: 6.0 Consensus size: 18
93464938 AAAAAACTAA
*
93464948 ATAAAAAT-TATAAAAGTT
1 ATAAAAATATATAAAA-AT
* *
93464966 ATTAAATTATAATAAAAAT
1 ATAAAAATAT-ATAAAAAT
** *
93464985 ATTTAAATTTATTAAAAAT
1 ATAAAAATATA-TAAAAAT
*
93465004 AGAAAAATATATAAAAAT
1 ATAAAAATATATAAAAAT
*
93465022 CAT-AAAATATATAGAAAT
1 -ATAAAAATATATAAAAAT
*
93465040 ATATAGAA-ATATAAAAAT
1 ATA-AAAATATATAAAAAT
93465058 TTTAAAATTT
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
17 2 0.03
18 37 0.51
19 27 0.38
20 6 0.08
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.33
Consensus pattern (18 bp):
ATAAAAATATATAAAAAT
Found at i:93465074 original size:36 final size:36
Alignment explanation
Indices: 93464977--93465084 Score: 89
Period size: 36 Copynumber: 3.0 Consensus size: 36
93464967 TTAAATTATA
* * *
93464977 ATAAAAATATTTAAATTTATTAA-AAATAGA-AAAATAT
1 ATAAAAAT-TTTAAAATT-TTAAGAAATATATAGAA-AT
** *
93465014 ATAAAAATCATAAAA-TATATAGAAATATATAGAAAT
1 ATAAAAATTTTAAAATTTTA-AGAAATATATAGAAAT
93465050 ATAAAAATTTTAAAATTTTAAGAAA-ATTATAGAAA
1 ATAAAAATTTTAAAATTTTAAGAAATA-TATAGAAA
93465085 AATATAAAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
34 2 0.04
35 3 0.05
36 38 0.67
37 14 0.25
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (36 bp):
ATAAAAATTTTAAAATTTTAAGAAATATATAGAAAT
Found at i:93465161 original size:11 final size:11
Alignment explanation
Indices: 93465145--93465178 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
93465135 CAAAAAAATA
93465145 TTTTATAATTT
1 TTTTATAATTT
*
93465156 TTTTATAA-TA
1 TTTTATAATTT
93465166 TTTTATAATTT
1 TTTTATAATTT
93465177 TT
1 TT
93465179 AATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:93465169 original size:10 final size:10
Alignment explanation
Indices: 93465141--93465179 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
93465131 ACATCAAAAA
93465141 AATATTTTAT
1 AATATTTTAT
*
93465151 AATTTTTTTAT
1 AA-TATTTTAT
93465162 AATATTTTAT
1 AATATTTTAT
93465172 AAT-TTTTA
1 AATATTTTA
93465180 ATATTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 5 0.19
10 12 0.46
11 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
AATATTTTAT
Found at i:93465410 original size:20 final size:21
Alignment explanation
Indices: 93465387--93465426 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93465377 TATTTTATTT
93465387 ATTTGATGA-AAATTTATAAA
1 ATTTGATGATAAATTTATAAA
*
93465407 ATTTTATGATAAATTTATAA
1 ATTTGATGATAAATTTATAA
93465427 CGATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (21 bp):
ATTTGATGATAAATTTATAAA
Found at i:93465502 original size:15 final size:16
Alignment explanation
Indices: 93465477--93465506 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
93465467 TAATTATTTT
93465477 TTTATAACAGATAAAA
1 TTTATAACAGATAAAA
93465493 TTTA-AACAGATAAA
1 TTTATAACAGATAAA
93465507 TGGAATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (16 bp):
TTTATAACAGATAAAA
Found at i:93466900 original size:1 final size:1
Alignment explanation
Indices: 93466894--93466921 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
93466884 CCATCAAAGT
93466894 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
93466922 CAATGCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:93467445 original size:40 final size:39
Alignment explanation
Indices: 93467390--93467466 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 39
93467380 GAATAAAATT
*
93467390 TCATGTTGCAACCCTTTATTTACATAAAAAACCAAAGTCA
1 TCATGTTCCAACCCTTTATTTACAT-AAAAACCAAAGTCA
93467430 TCATGTTCCAACCCTTTATTTACATAAAAACCAAAGT
1 TCATGTTCCAACCCTTTATTTACATAAAAACCAAAGT
93467467 AATATTTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 12 0.33
40 24 0.67
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.31
Consensus pattern (39 bp):
TCATGTTCCAACCCTTTATTTACATAAAAACCAAAGTCA
Found at i:93469275 original size:18 final size:19
Alignment explanation
Indices: 93469252--93469319 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
93469242 AAACGAAAAC
93469252 AAATTATTATAGTTTT-TA
1 AAATTATTATAGTTTTATA
*
93469270 AAATTAATATTA-TTTTATA
1 AAATTATTA-TAGTTTTATA
* *
93469289 TAATATATTATAGTTTGATA
1 AAAT-TATTATAGTTTTATA
* *
93469309 TAATTAATATA
1 AAATTATTATA
93469320 TTTATGTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
18 12 0.29
19 15 0.37
20 14 0.34
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
AAATTATTATAGTTTTATA
Found at i:93470264 original size:23 final size:24
Alignment explanation
Indices: 93470230--93470275 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
93470220 ACTATATAAA
93470230 AAAATTAATAAATA-AAAATATAT
1 AAAATTAATAAATATAAAATATAT
*
93470253 AAAATTATTAAATATTAAAATAT
1 AAAATTAATAAATA-TAAAATAT
93470276 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
25 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATTAATAAATATAAAATATAT
Found at i:93470316 original size:35 final size:37
Alignment explanation
Indices: 93470242--93470317 Score: 86
Period size: 35 Copynumber: 2.1 Consensus size: 37
93470232 AATTAATAAA
* **
93470242 TAAAAATATATAAAATTATTAAATATTAAAATATTTT
1 TAAAAATATATAAAATTATTAAATACTAAAATAAATT
*
93470279 TAAAAA-ATA-AAAATTATATAGAT-CTAAAATAAATT
1 TAAAAATATATAAAATTAT-TAAATACTAAAATAAATT
93470314 TAAA
1 TAAA
93470318 TTAGTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
35 21 0.62
36 7 0.21
37 6 0.18
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (37 bp):
TAAAAATATATAAAATTATTAAATACTAAAATAAATT
Found at i:93470551 original size:27 final size:27
Alignment explanation
Indices: 93470520--93470707 Score: 232
Period size: 27 Copynumber: 7.0 Consensus size: 27
93470510 CGGCAAACTA
93470520 ATTGCAAAGGTTAATATGGGAACTTTG
1 ATTGCAAAGGTTAATATGGGAACTTTG
* ** *
93470547 ATTGCAAAGTTTAATATGTCAACTTGG
1 ATTGCAAAGGTTAATATGGGAACTTTG
* *
93470574 ATTGGAAAGGTTAATATGGGAGCTTTG
1 ATTGCAAAGGTTAATATGGGAACTTTG
* ** *
93470601 ATTGCAAAGTTTAATATGTCAACTTGG
1 ATTGCAAAGGTTAATATGGGAACTTTG
* *
93470628 ATTGGAAAGGTTAATATGGGAGCTTTG
1 ATTGCAAAGGTTAATATGGGAACTTTG
* ***
93470655 ATTGCAAAGTTTAATATCTCAACTTTG
1 ATTGCAAAGGTTAATATGGGAACTTTG
93470682 ATTGCAAAGGTTAATATGGGAACTTT
1 ATTGCAAAGGTTAATATGGGAACTTT
93470708 TATTTATTTA
Statistics
Matches: 129, Mismatches: 32, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTGCAAAGGTTAATATGGGAACTTTG
Done.