Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 301 of 344
Found at i:99841243 original size:63 final size:63
Alignment explanation
Indices: 99841117--99841244 Score: 150
Period size: 63 Copynumber: 2.0 Consensus size: 63
99841107 CACGATAGCC
* * * * *
99841117 TATATCAGGACGCTCATAAAGAGCTGCATTTGTGTCTACAATATATGCAGGATCACAACCGATCA
1 TATAGCAGGACGCTCATAAAGAGCTGCA--TGTGTCCACAACACATGCAAGATCACAACCGATCA
* * *
99841182 TATAGCAGGGCGCTCATAAAGAGCTGCA-GTAGTCCGCAACACATGCAAGATCACTACCGATCA
1 TATAGCAGGACGCTCATAAAGAGCTGCATGT-GTCCACAACACATGCAAGATCACAACCGATCA
99841245 AGATGCTTGC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
62 2 0.04
63 26 0.48
65 26 0.48
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (63 bp):
TATAGCAGGACGCTCATAAAGAGCTGCATGTGTCCACAACACATGCAAGATCACAACCGATCA
Found at i:99846136 original size:25 final size:24
Alignment explanation
Indices: 99846099--99846149 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
99846089 AGTTCAAGCA
*
99846099 AGCCATATCAGGA-AGCTCACAAAG
1 AGCCATACCAGGACA-CTCACAAAG
*
99846123 AGCCTATACCAGGACACTCATAAAG
1 AGCC-ATACCAGGACACTCACAAAG
99846148 AG
1 AG
99846150 TTGCGTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 18 0.78
26 1 0.04
ACGTcount: A:0.41, C:0.25, G:0.20, T:0.14
Consensus pattern (24 bp):
AGCCATACCAGGACACTCACAAAG
Found at i:99848291 original size:5 final size:5
Alignment explanation
Indices: 99848281--99848305 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
99848271 AAATAAAAAG
99848281 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
99848306 TAACTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:99849076 original size:22 final size:21
Alignment explanation
Indices: 99849051--99849091 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
99849041 TTAAAAAATT
*
99849051 AATTTCCTTCGATTTTTTTTAA
1 AATTCCCTTC-ATTTTTTTTAA
*
99849073 AATTCCCTTCCTTTTTTTT
1 AATTCCCTTCATTTTTTTT
99849092 CCCTGAAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.17, C:0.20, G:0.02, T:0.61
Consensus pattern (21 bp):
AATTCCCTTCATTTTTTTTAA
Found at i:99855177 original size:9 final size:9
Alignment explanation
Indices: 99855163--99855234 Score: 69
Period size: 9 Copynumber: 8.2 Consensus size: 9
99855153 TAAGTATAAT
99855163 TAAGTTATG
1 TAAGTTATG
99855172 TAAGTTATG
1 TAAGTTATG
* * *
99855181 ATATGATATA
1 -TAAGTTATG
*
99855191 T-ATTTATG
1 TAAGTTATG
99855199 T-A-TTATG
1 TAAGTTATG
99855206 TAAGTTATG
1 TAAGTTATG
*
99855215 TAAATTATG
1 TAAGTTATG
99855224 TAAGTTATG
1 TAAGTTATG
99855233 TA
1 TA
99855235 TTATGTACGA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 33 0.65
10 6 0.12
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:99855205 original size:34 final size:34
Alignment explanation
Indices: 99855167--99855241 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
99855157 TATAATTAAG
* *
99855167 TTATGTAAGTTATG-ATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAATGATATA-AGTTATGTA
* *
99855201 TTATGTAAGTTATGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAATGATATAAGTTATGTA
99855235 TTATGTA
1 TTATGTA
99855242 CGACATAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 29 0.81
35 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAATGATATAAGTTATGTA
Found at i:99855381 original size:9 final size:9
Alignment explanation
Indices: 99855367--99855527 Score: 88
Period size: 9 Copynumber: 17.9 Consensus size: 9
99855357 TGTGTTAATT
99855367 TTATGTAAA
1 TTATGTAAA
*
99855376 TTATGTAAG
1 TTATGTAAA
99855385 TTATG-AAA
1 TTATGTAAA
*
99855393 TTTGATCTTTAAA
1 -TT-A--TGTAAA
*
99855406 TTATGTAAG
1 TTATGTAAA
*
99855415 TCATGT--A
1 TTATGTAAA
99855422 TTATGTAAGA
1 TTATGTAA-A
99855432 -TATGT--A
1 TTATGTAAA
*
99855438 TTATGTAAG
1 TTATGTAAA
99855447 TTATGTAAA
1 TTATGTAAA
* *
99855456 TTATATAAG
1 TTATGTAAA
99855465 TTATG-AAA
1 TTATGTAAA
*
99855473 TTCGAACTTTAAA
1 TT---A-TGTAAA
*
99855486 TTATGTAAG
1 TTATGTAAA
99855495 TTATGT--A
1 TTATGTAAA
99855502 TTATGTAAA
1 TTATGTAAA
*
99855511 TTAAGTAAA
1 TTATGTAAA
99855520 TTATGTAA
1 TTATGTAA
99855528 GTTGCTGGTG
Statistics
Matches: 114, Mismatches: 20, Indels: 36
0.67 0.12 0.21
Matches are distributed among these distances:
6 1 0.01
7 16 0.14
8 6 0.05
9 74 0.65
10 3 0.03
11 2 0.02
12 4 0.04
13 8 0.07
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.44
Consensus pattern (9 bp):
TTATGTAAA
Found at i:99855426 original size:16 final size:15
Alignment explanation
Indices: 99855405--99855453 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 15
99855395 TGATCTTTAA
99855405 ATTATGTAAGTCATGT
1 ATTATGTAAGT-ATGT
99855421 ATTATGTAAGATATGT
1 ATTATGTAAG-TATGT
99855437 ATTATGTAAGTTATGT
1 ATTATGTAAG-TATGT
99855453 A
1 A
99855454 AATTATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (15 bp):
ATTATGTAAGTATGT
Found at i:99855943 original size:99 final size:98
Alignment explanation
Indices: 99855635--99856103 Score: 694
Period size: 99 Copynumber: 4.7 Consensus size: 98
99855625 AATAAAATAG
99855635 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
99855700 ATTGAAATTATTTTTCGTGATTCAAAAAAATGA
66 ATTGAAATTATTTTTCGTGATTCAAAAAAATGA
99855733 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTT--AA-AAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
*
99855795 ATTGAAATTATTTTTCGTGATTCAAATTAAATGA
66 ATTGAAATTATTTTTCGTGATTCAAA-AAAATGA
99855829 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
*
99855894 ATTGAAATTATTTTTCGTGATTCAAATTAAATGA
66 ATTGAAATTATTTTTCGTGATTCAAA-AAAATGA
99855928 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATCAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATG-T----TAAAAT-AAA-
* *
99855993 ATTTAAAATCAAATATTAAAATTATTTTTCGTGATTCAAAAAAATAA
59 A--T---A--AAATATTGAAATTATTTTTCGTGATTCAAAAAAATGA
* **
99856040 AATATTTAAAATGAAACTTTAAATGTAATTTAATTTAATTAGGTAAT-TTGAAAATAAAATAAAA
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTT-AAAATAAAATAAAA
99856104 GATAAAAAAA
Statistics
Matches: 345, Mismatches: 7, Indels: 38
0.88 0.02 0.10
Matches are distributed among these distances:
95 36 0.10
96 58 0.17
98 55 0.16
99 92 0.27
100 2 0.01
103 1 0.00
104 6 0.02
105 4 0.01
106 5 0.01
107 5 0.01
108 1 0.00
110 1 0.00
111 1 0.00
112 49 0.14
113 29 0.08
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (98 bp):
AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
ATTGAAATTATTTTTCGTGATTCAAAAAAATGA
Found at i:99855993 original size:62 final size:60
Alignment explanation
Indices: 99855917--99856103 Score: 171
Period size: 62 Copynumber: 3.2 Consensus size: 60
99855907 TTCGTGATTC
* *
99855917 AAATTAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATA-AATTTAATTTAATTAGGTAAT-TTA
* * * * *
99855979 AAATAAAATCAAATATTTAAAATCAAA-TATT--A-AAA-TT-ATTT--TT-CGTGA-TTC
1 AAATAAAATAAAATATTTAAAATAAAACT-TTAAATAAATTTAATTTAATTAGGTAATTTA
* *
99856030 AAA-AAAATAAAATATTTAAAATGAAACTTTAAATGTAATTTAATTTAATTAGGTAATTTGA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAAT-AAATTTAATTTAATTAGGTAATTT-A
99856091 AAATAAAATAAAA
1 AAATAAAATAAAA
99856104 GATAAAAAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
50 23 0.23
51 6 0.06
52 1 0.01
53 3 0.03
54 4 0.04
55 2 0.02
56 8 0.08
57 2 0.02
58 4 0.04
59 4 0.04
60 3 0.03
61 4 0.04
62 35 0.35
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (60 bp):
AAATAAAATAAAATATTTAAAATAAAACTTTAAATAAATTTAATTTAATTAGGTAATTTA
Found at i:99856013 original size:13 final size:14
Alignment explanation
Indices: 99855982--99856014 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
99855972 AATGTTAAAA
99855982 TAAAATCAAATATT
1 TAAAATCAAATATT
99855996 TAAAATCAAATA-T
1 TAAAATCAAATATT
99856009 TAAAAT
1 TAAAAT
99856015 TATTTTTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAATCAAATATT
Found at i:99856081 original size:112 final size:113
Alignment explanation
Indices: 99855883--99856099 Score: 348
Period size: 112 Copynumber: 1.9 Consensus size: 113
99855873 AATGTTAAAA
* * *
99855883 TAAAATAAAATATTGAAATTATTTTTCGTGATTCAAATTAAATGAAATATTTAAAATAAAACTTT
1 TAAAATAAAATATTAAAATTATTTTTCGTGATTCAAATAAAATAAAATATTTAAAATAAAACTTT
99855948 AAATACAATTTAATTTAATTAGGTAATGTT-AAAATAAAATCAAATATT
66 AAATACAATTTAATTTAATTAGGTAAT-TTGAAAATAAAATCAAATATT
* *
99855996 TAAAATCAAATATTAAAATTATTTTTCGTGATTCAAA-AAAATAAAATATTTAAAATGAAACTTT
1 TAAAATAAAATATTAAAATTATTTTTCGTGATTCAAATAAAATAAAATATTTAAAATAAAACTTT
**
99856060 AAATGTAATTTAATTTAATTAGGTAATTTGAAAATAAAAT
66 AAATACAATTTAATTTAATTAGGTAATTTGAAAATAAAAT
99856100 AAAAGATAAA
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
111 2 0.02
112 59 0.61
113 35 0.36
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (113 bp):
TAAAATAAAATATTAAAATTATTTTTCGTGATTCAAATAAAATAAAATATTTAAAATAAAACTTT
AAATACAATTTAATTTAATTAGGTAATTTGAAAATAAAATCAAATATT
Found at i:99859091 original size:12 final size:12
Alignment explanation
Indices: 99859074--99859099 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99859064 CAAGTTAAAT
99859074 TAAGTCACCAAA
1 TAAGTCACCAAA
99859086 TAAGTCACCAAA
1 TAAGTCACCAAA
99859098 TA
1 TA
99859100 TGCAAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.08, T:0.19
Consensus pattern (12 bp):
TAAGTCACCAAA
Found at i:99860859 original size:82 final size:80
Alignment explanation
Indices: 99860756--99860984 Score: 255
Period size: 80 Copynumber: 2.8 Consensus size: 80
99860746 CCCATATTAA
* * * * ** * * *
99860756 TCCCCTACATCTCC-ATATAAAACGATGCCGTTTACGTTATACTTTTTTGCTTTTTGTGGCG-TT
1 TCCCCTAAATATCCAAT-TAAAACGATGCCGTTTTCGTTAAACTGCTATACTTTTTGCGGCGTTT
99860819 TTTCAAAAAACGCCGATAC
65 TTTC-AAAAA--CCGATAC
* * *
99860838 TCCCCTAAATATCCAATTAAAACGACGCCGTTTTCATTAAACTGCTATATTTTTTGCGGCGTTTT
1 TCCCCTAAATATCCAATTAAAACGATGCCGTTTTCGTTAAACTGCTATACTTTTTGCGGCGTTTT
*
99860903 TTCAAAAACCGCTAC
66 TTCAAAAACCGATAC
* ** *
99860918 TCCCCTAAATATCCAATTAAAACGATGTCGTTTTCGTTAAACTGCTATGTTTTTTGCGGTGTTTT
1 TCCCCTAAATATCCAATTAAAACGATGCCGTTTTCGTTAAACTGCTATACTTTTTGCGGCGTTTT
99860983 TT
66 TT
99860985 AAATAAACGC
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 68 0.54
82 51 0.40
83 8 0.06
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (80 bp):
TCCCCTAAATATCCAATTAAAACGATGCCGTTTTCGTTAAACTGCTATACTTTTTGCGGCGTTTT
TTCAAAAACCGATAC
Found at i:99860950 original size:80 final size:82
Alignment explanation
Indices: 99860806--99860992 Score: 265
Period size: 80 Copynumber: 2.3 Consensus size: 82
99860796 ACTTTTTTGC
*
99860806 TTTTTGTGGCG-TTTTTCAAAAAACGCCGATACTCCCCTAAATATCCAATTAAAACGACGCCGTT
1 TTTTTGCGGCGTTTTTTCAAAAAAC-CCGATACTCCCCTAAATATCCAATTAAAACGACGCCGTT
99860870 TTCATTAAACTGCTATAT
65 TTCATTAAACTGCTATAT
* * *
99860888 TTTTTGCGGCGTTTTTTC-AAAAA-CCGCTACTCCCCTAAATATCCAATTAAAACGATGTCGTTT
1 TTTTTGCGGCGTTTTTTCAAAAAACCCGATACTCCCCTAAATATCCAATTAAAACGACGCCGTTT
* *
99860951 TCGTTAAACTGCTATGT
66 TCATTAAACTGCTATAT
*
99860968 TTTTTGCGGTGTTTTTT-AAATAAAC
1 TTTTTGCGGCGTTTTTTCAAA-AAAC
99860993 GCCACTAATC
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
80 70 0.74
81 3 0.03
82 15 0.16
83 6 0.06
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (82 bp):
TTTTTGCGGCGTTTTTTCAAAAAACCCGATACTCCCCTAAATATCCAATTAAAACGACGCCGTTT
TCATTAAACTGCTATAT
Found at i:99861368 original size:28 final size:27
Alignment explanation
Indices: 99861344--99861396 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
99861334 CCCATAAACA
99861344 CTAAA-CTCTAAGCCCTAAATTATAAAGC
1 CTAAATCTCTAA-CCCTAAA-TATAAAGC
*
99861372 CTAAATCTTTAACCCTAAATATAAA
1 CTAAATCTCTAACCCTAAATATAAA
99861397 ATGATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 12 0.52
29 5 0.22
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (27 bp):
CTAAATCTCTAACCCTAAATATAAAGC
Found at i:99862057 original size:40 final size:40
Alignment explanation
Indices: 99862001--99862085 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
99861991 TTTTAAGGTG
* * * *
99862001 ATCTTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGTTCT
1 ATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATCT
*
99862041 ATCTTTAGCGGTGTTTTTCAAAAAGCGCCGCTAAAGATCT
1 ATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATCT
99862081 ATCTT
1 ATCTT
99862086 CTAAACAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (40 bp):
ATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGATCT
Found at i:99862325 original size:41 final size:41
Alignment explanation
Indices: 99862274--99862405 Score: 185
Period size: 41 Copynumber: 3.2 Consensus size: 41
99862264 GCATTTTCTA
* *
99862274 ATAAGCGCCGCTTATTCTCGATCTATTGCGGCGTTTGTTTC
1 ATAAACGCCGCTGATTCTCGATCTATTGCGGCGTTTGTTTC
99862315 ATAAACGCCGCTGATTCTCGATCTATTGCGGCGTTTGTTTC
1 ATAAACGCCGCTGATTCTCGATCTATTGCGGCGTTTGTTTC
* * * *
99862356 ATAAACGCCGCTGATTCTTGACCTTTTGTGGCGTTT-TTGTC
1 ATAAACGCCGCTGATTCTCGATCTATTGCGGCGTTTGTT-TC
*
99862397 ACAAACGCC
1 ATAAACGCC
99862406 ACTATAACTC
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 2 0.02
41 81 0.98
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.36
Consensus pattern (41 bp):
ATAAACGCCGCTGATTCTCGATCTATTGCGGCGTTTGTTTC
Found at i:99864847 original size:17 final size:19
Alignment explanation
Indices: 99864821--99864855 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
99864811 TTCATTCTCT
99864821 TTTTTCAATTTT-ACTTTA
1 TTTTTCAATTTTAACTTTA
99864839 TTTTT-AATTTTAACTTT
1 TTTTTCAATTTTAACTTT
99864856 TAAAAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTCAATTTTAACTTTA
Found at i:99866000 original size:14 final size:14
Alignment explanation
Indices: 99865981--99866009 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
99865971 CCACCAAATA
99865981 GTATGTCACATTAT
1 GTATGTCACATTAT
99865995 GTATGTCACATTAT
1 GTATGTCACATTAT
99866009 G
1 G
99866010 ACATCAGGCC
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:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (14 bp):
GTATGTCACATTAT
Found at i:99866702 original size:116 final size:116
Alignment explanation
Indices: 99866498--99866726 Score: 422
Period size: 116 Copynumber: 2.0 Consensus size: 116
99866488 GTGCTAGGCC
*
99866498 GTGTAACTCATTGACTTGAAACACTAAGAAACTCTCAAATGACACATGGTTGTGTGCACCAAATT
1 GTGTAACTCACTGACTTGAAACACTAAGAAACTCTCAAATGACACATGGTTGTGTGCACCAAATT
*
99866563 TGACCCAAAAACTATGCCATTTTAAAACCAAACCATACCTATTCACCCGCT
66 TGACCCAAAAACCATGCCATTTTAAAACCAAACCATACCTATTCACCCGCT
* *
99866614 GTGTAACTCACTGGCTTGAAACACTAAGAAACTCTCAAATGACATATGGTTGTGTGCACCAAATT
1 GTGTAACTCACTGACTTGAAACACTAAGAAACTCTCAAATGACACATGGTTGTGTGCACCAAATT
99866679 TGACCCAAAAACCATGCCATTTTAAAACCAAACCATACCTATTCACCC
66 TGACCCAAAAACCATGCCATTTTAAAACCAAACCATACCTATTCACCC
99866727 ACTCTAATTA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 109 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.25
Consensus pattern (116 bp):
GTGTAACTCACTGACTTGAAACACTAAGAAACTCTCAAATGACACATGGTTGTGTGCACCAAATT
TGACCCAAAAACCATGCCATTTTAAAACCAAACCATACCTATTCACCCGCT
Found at i:99875691 original size:28 final size:28
Alignment explanation
Indices: 99875646--99875701 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
99875636 TCTATGTCAG
* *
99875646 CTCAGAAATGTGCGAGAAAAGGTTGTGA
1 CTCAAAAATGTGCAAGAAAAGGTTGTGA
*
99875674 CTCAAAAATGTGTAAGAAAAGGTTGTGA
1 CTCAAAAATGTGCAAGAAAAGGTTGTGA
99875702 ACCTTATCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.09, G:0.29, T:0.23
Consensus pattern (28 bp):
CTCAAAAATGTGCAAGAAAAGGTTGTGA
Found at i:99878894 original size:16 final size:16
Alignment explanation
Indices: 99878873--99878904 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
99878863 TATTAATAAA
*
99878873 GGTTAATTAGTAAATT
1 GGTTAATAAGTAAATT
99878889 GGTTAATAAGTAAATT
1 GGTTAATAAGTAAATT
99878905 AAAACAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (16 bp):
GGTTAATAAGTAAATT
Found at i:99883784 original size:45 final size:47
Alignment explanation
Indices: 99883706--99883807 Score: 136
Period size: 45 Copynumber: 2.2 Consensus size: 47
99883696 CACTGTATTG
*
99883706 GTAACAGTAACGGTACACGGAGTACCTCATCGGAACAAATCCAGAATA
1 GTAACAGTAACGGTACAC-GAGTACCTCATCGGAACAAATCCAGAACA
* * * *
99883754 GTAACAGTAA-GGTATA-GAGTACCTCTTCGGAACGAATCCGGAACA
1 GTAACAGTAACGGTACACGAGTACCTCATCGGAACAAATCCAGAACA
99883799 GTAACAGTA
1 GTAACAGTA
99883808 GCTGACACTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 34 0.69
47 5 0.10
48 10 0.20
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (47 bp):
GTAACAGTAACGGTACACGAGTACCTCATCGGAACAAATCCAGAACA
Found at i:99889491 original size:18 final size:17
Alignment explanation
Indices: 99889463--99889497 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99889453 TTTAATTTTT
99889463 TAAAAATTAAAAAGATA
1 TAAAAATTAAAAAGATA
*
99889480 TAAAATATTAAAATGATA
1 TAAAA-ATTAAAAAGATA
99889498 ACATTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAAAAATTAAAAAGATA
Found at i:99889705 original size:30 final size:30
Alignment explanation
Indices: 99889651--99889715 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
99889641 TAGTAATGGT
*
99889651 AAAATTTTACTTTAATCCTCTAAAAATAATA
1 AAAATTTGACTTTAATCCTCT-AAAATAATA
* * *
99889682 AAAATTTGA-TTTAATCTTTTAAAATTATA
1 AAAATTTGACTTTAATCCTCTAAAATAATA
99889711 AAAAT
1 AAAAT
99889716 ATAAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.43
30 9 0.30
31 8 0.27
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (30 bp):
AAAATTTGACTTTAATCCTCTAAAATAATA
Found at i:99892061 original size:20 final size:22
Alignment explanation
Indices: 99892019--99892061 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
99892009 CTTGGAAAAT
*
99892019 TTATTGTGTTGAATAGTAGTGG
1 TTATTGTGTTGAATAATAGTGG
*
99892041 TTATTGT-TTTAATAATA-TGG
1 TTATTGTGTTGAATAATAGTGG
99892061 T
1 T
99892062 ATGATGGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (22 bp):
TTATTGTGTTGAATAATAGTGG
Found at i:99893119 original size:33 final size:33
Alignment explanation
Indices: 99893077--99893142 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
99893067 AAAGTAGCTG
*
99893077 GTGTACTTAGTATTTTGAAAATAATTATGTTAC
1 GTGTACTTAGTATGTTGAAAATAATTATGTTAC
99893110 GTGTACTTAGTATGTTGAAAATAATTATGTTAC
1 GTGTACTTAGTATGTTGAAAATAATTATGTTAC
99893143 TCCAACTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (33 bp):
GTGTACTTAGTATGTTGAAAATAATTATGTTAC
Found at i:99896812 original size:19 final size:20
Alignment explanation
Indices: 99896779--99896817 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
99896769 GTTAATTTCA
*
99896779 ATTTTTAAATATTATTTAAT
1 ATTTTTAAATATTATGTAAT
*
99896799 ATTTTTTAAT-TTATGTAAT
1 ATTTTTAAATATTATGTAAT
99896818 TTTAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTTTTAAATATTATGTAAT
Found at i:99898399 original size:18 final size:18
Alignment explanation
Indices: 99898376--99898418 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
99898366 TGCTAGGTTC
**
99898376 GTATCCTAGCCCTTATAT
1 GTATCCTAAACCTTATAT
99898394 GTATCCTAAACCTTATAT
1 GTATCCTAAACCTTATAT
*
99898412 GTTTCCT
1 GTATCCT
99898419 TTTTCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAAACCTTATAT
Found at i:99902970 original size:18 final size:18
Alignment explanation
Indices: 99902944--99902982 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
99902934 TACAAAAATC
*
99902944 TAAATTTATTTCTCAAT-T
1 TAAACTTATTTC-CAATAT
99902962 TAAACTTATTTCCAATAT
1 TAAACTTATTTCCAATAT
99902980 TAA
1 TAA
99902983 TTAATTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAACTTATTTCCAATAT
Found at i:99908400 original size:13 final size:13
Alignment explanation
Indices: 99908382--99908408 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99908372 TCTAGAAAAT
99908382 TTTTCAAGGTCAA
1 TTTTCAAGGTCAA
99908395 TTTTCAAGGTCAA
1 TTTTCAAGGTCAA
99908408 T
1 T
99908409 AGACAACGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTTTCAAGGTCAA
Found at i:99911540 original size:4 final size:4
Alignment explanation
Indices: 99911533--99911566 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
99911523 TTGCTTGTAC
*
99911533 ATAA ATAA ATAA ATAAA ATGA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA A
99911567 GGCTCAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:99913876 original size:125 final size:126
Alignment explanation
Indices: 99913627--99914268 Score: 807
Period size: 125 Copynumber: 5.1 Consensus size: 126
99913617 AAGGCCAAGC
*
99913627 AGGAACTACTGTAGAAAAAGAGCATCCACGTGTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * * *
99913692 TCCTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTA-ATTTTT
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTT
* * * * ** *
99913752 AGGAACTAGTGTAGAAAAAAAGCGTCCACATGGGAGCTTTTTTTTGTAATTTTGCTGATAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * * * **
99913817 TCCTACTTGAAGCGTTTTTTATATTA-TTTTTCAGAACTATCTTCTCAAAATTATTTTTTT
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTT
* * * *
99913877 AAGAACTACTATAGAAAAAGAGCATCCAC-TAGGAGCTTTTTTCAGTAATTTTGCTAACAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * * *
99913941 TCTTGCTTGAAGCATTTCTT-ATACTATTTTTTCATAACCGTCTTCTCAAAATTATTTTTTT
66 TCCTGCTTGAAGCGTTT-TTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTT
* * * * *
99914002 AAGAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGC-TTTTTCAGTAATTTTGTTGATAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * *
99914066 T-CTGCTTGAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTCTCCAAATTATTTTTTC
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTT
* * *
99914126 AGGAACTATTGTA-AAAAAGAGCATTCACGTGTGG-GCTTTTTTCAGTAATTTTACTGACAGTGC
1 AGGAACTACTGTAGAAAAAGAGCATCCACGTG-GGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * *
99914189 ATCCTGCTTGAAGCGTTTTTGACATTATCTTTTCCGAACCGTCTTCTCAAAATTAATTTTTCT
65 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATT-ATTTTTTT
* *
99914252 -GAAACTATTGTAGAAAA
1 AGGAACTACTGTAGAAAA
99914269 TAAACAAAAT
Statistics
Matches: 444, Mismatches: 63, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
123 20 0.05
124 160 0.36
125 249 0.56
126 15 0.03
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (126 bp):
AGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTT
Found at i:99914111 original size:249 final size:251
Alignment explanation
Indices: 99913629--99914268 Score: 846
Period size: 249 Copynumber: 2.6 Consensus size: 251
99913619 GGCCAAGCAG
99913629 GAACTACTGTAGAAAAAGAGCATCCACGTGTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * *
99913694 CTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTA-ATTTTTAGGAAC
66 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTTAAGAAC
* * **
99913758 TAGTGTAGAAAAAAAGCGTCCACATGGGAGCTTTTTTTTGTAATTTTGCTGATAGTGCATCCTAC
131 TACTGTAGAAAAAAAGCGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCTAC
* * * * *
99913823 TTGAAGCGTTTTTTATATTATTTTTCAGAACTATCTTCTCAAAATTATTTTTTTAA
196 TTGAAGCGTTTTTGACACTATTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAA
* *
99913879 GAACTACTATAGAAAAAGAGCATCCAC-TAG-GAGCTTTTTTCAGTAATTTTGCTAACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCATCCACGT-GTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCAT
* * * *
99913942 CTTGCTTGAAGCATTTCTT-ATACTATTTTTTCATAACCGTCTTCTCAAAATTATTTTTTTAAGA
65 CCTGCTTGAAGCGTTT-TTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTTAAGA
* * *
99914006 ACTACTGTAGAAAAAGAGCGTCCACGTGAGAGC-TTTTTCAGTAATTTTGTTGATAGTGCAT-CT
129 ACTACTGTAGAAAAAAAGCGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCT
* * * * *
99914069 GCTTGAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTCTCCAAATTATTTTTTCAG
194 ACTTGAAGCGTTTTTGACACTA-TTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAA
* * * *
99914128 GAACTATTGTA-AAAAAGAGCATTCACGTGTGGGCTTTTTTCAGTAATTTTACTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * ** * *
99914192 CTGCTTGAAGCGTTTTTGACATTATCTTTTCCGAACCGTCTTCTCAAAATTAATTTTTCTGA-AA
66 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATT-ATTTTTTTAAGAA
*
99914256 CTATTGTAGAAAA
130 CTACTGTAGAAAA
99914269 TAAACAAAAT
Statistics
Matches: 339, Mismatches: 43, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
248 37 0.11
249 228 0.67
250 74 0.22
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (251 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTTAAGAAC
TACTGTAGAAAAAAAGCGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCTAC
TTGAAGCGTTTTTGACACTATTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAA
Found at i:99914442 original size:34 final size:33
Alignment explanation
Indices: 99914353--99914485 Score: 110
Period size: 34 Copynumber: 4.0 Consensus size: 33
99914343 GCTAAACATA
* * *
99914353 AATTT-TTTTTTAAAAAACATAAACCCTAATTT
1 AATTTATTTCTTAAAAACCCTAAACCCTAATTT
* *
99914385 AATTAAATTTCTTAAAAATCCTAAACCCTAATTT
1 AATT-TATTTCTTAAAAACCCTAAACCCTAATTT
* * * *
99914419 AATTTATTTATTTTAAACCCCTAAAACCTAATTT
1 AATTTATTT-CTTAAAAACCCTAAACCCTAATTT
* *
99914453 AA-TTATTT-TAAAAAAAACTCTAAACCCTAATTT
1 AATTTATTTCT--TAAAAACCCTAAACCCTAATTT
99914486 TTTTTAAAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
31 1 0.01
32 4 0.05
33 27 0.33
34 49 0.60
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.41
Consensus pattern (33 bp):
AATTTATTTCTTAAAAACCCTAAACCCTAATTT
Found at i:99914494 original size:28 final size:27
Alignment explanation
Indices: 99914452--99914509 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
99914442 AAACCTAATT
99914452 TAATTATTTTAAAAAAAACTCTAAACCC
1 TAATTATTTTAAAAAAAACT-TAAACCC
* * **
99914480 TAATTTTTTTTAAAAATTCTTAAACCC
1 TAATTATTTTAAAAAAAACTTAAACCC
99914507 TAA
1 TAA
99914510 ATACATAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.40
Consensus pattern (27 bp):
TAATTATTTTAAAAAAAACTTAAACCC
Found at i:99926365 original size:6 final size:6
Alignment explanation
Indices: 99926349--99926387 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
99926339 GGAAACAATC
99926349 TTTCTTT TTTCTT TTTCTT TTTCTT TTTCTT TTT-TT TTT
1 TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
99926388 GGGGGGGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 23 0.72
7 4 0.12
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTCTT
Found at i:99931621 original size:17 final size:18
Alignment explanation
Indices: 99931583--99931627 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
99931573 CCCAGAATCT
99931583 CACACGCCCGTGTAGACC
1 CACACGCCCGTGTAGACC
*
99931601 CACACGTCCGTGTAG-CC
1 CACACGCCCGTGTAGACC
99931618 CACACAGCCC
1 CACAC-GCCC
99931628 AAATCAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.22, C:0.47, G:0.20, T:0.11
Consensus pattern (18 bp):
CACACGCCCGTGTAGACC
Found at i:99937127 original size:22 final size:23
Alignment explanation
Indices: 99937102--99937147 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
99937092 CAAACAAATC
99937102 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
99937124 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
99937147 A
1 A
99937148 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:99937153 original size:23 final size:23
Alignment explanation
Indices: 99937109--99937153 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
99937099 ATCAATTCAA
*
99937109 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
99937132 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
99937154 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:99947146 original size:15 final size:16
Alignment explanation
Indices: 99947126--99947161 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
99947116 CGAGCCTAAA
99947126 ACATGCAAAT-TAACC
1 ACATGCAAATGTAACC
99947141 ACATGCAAATGTAACC
1 ACATGCAAATGTAACC
99947157 -CATGC
1 ACATGC
99947162 TAACTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.42, C:0.28, G:0.11, T:0.19
Consensus pattern (16 bp):
ACATGCAAATGTAACC
Found at i:99951398 original size:16 final size:16
Alignment explanation
Indices: 99951379--99951412 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
99951369 AATTTGATTT
*
99951379 AAAGGAGAGGAAAAGA
1 AAAGGAGAAGAAAAGA
99951395 AAAGGAGAAGAAAAGA
1 AAAGGAGAAGAAAAGA
99951411 AA
1 AA
99951413 TAAAAGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
AAAGGAGAAGAAAAGA
Found at i:99959822 original size:68 final size:71
Alignment explanation
Indices: 99959681--99959825 Score: 181
Period size: 68 Copynumber: 2.1 Consensus size: 71
99959671 TATTAAATTT
*
99959681 TATTAAATTAATAAAATATCTATCTACAAGATAAACATTAAATTTAATTTAATATTAAGATAATT
1 TATTAAAATAATAAAATATCTATCTA-AAGATAAACATTAAATTTAATTTAATATTAAGATAATT
***
99959746 ACTTTAA
65 AAAATAA
** *
99959753 TATTAAAATAATAAAATA-CTAT-T-AAGATAAGTATTAAATTTAATTTAATATTAA-ATCTATT
1 TATTAAAATAATAAAATATCTATCTAAAGATAAACATTAAATTTAATTTAATATTAAGAT-AATT
99959814 AAAATAA
65 AAAATAA
99959821 TATTA
1 TATTA
99959826 TTTTTTAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
67 2 0.03
68 41 0.63
70 1 0.02
71 4 0.06
72 17 0.26
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (71 bp):
TATTAAAATAATAAAATATCTATCTAAAGATAAACATTAAATTTAATTTAATATTAAGATAATTA
AAATAA
Found at i:99964517 original size:18 final size:17
Alignment explanation
Indices: 99964494--99964530 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
99964484 TATCATGCAT
99964494 TTTCATATACATAATCAA
1 TTTCATATACATAAT-AA
*
99964512 TTTCATGTACATAATAA
1 TTTCATATACATAATAA
99964529 TT
1 TT
99964531 GCACAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.43
Consensus pattern (17 bp):
TTTCATATACATAATAA
Found at i:99973229 original size:15 final size:15
Alignment explanation
Indices: 99973209--99973238 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99973199 AAATTTTAAA
99973209 AAATTTAAAAGGGCC
1 AAATTTAAAAGGGCC
*
99973224 AAATTTTAAAGGGCC
1 AAATTTAAAAGGGCC
99973239 GGGGCTCTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.23
Consensus pattern (15 bp):
AAATTTAAAAGGGCC
Found at i:99973893 original size:5 final size:5
Alignment explanation
Indices: 99973875--99973909 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
99973865 TTTTTAAATC
*
99973875 TATAA AATAA -ATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
99973910 CCTAATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
TATAA
Found at i:99974612 original size:12 final size:12
Alignment explanation
Indices: 99974595--99974620 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99974585 AAAATAGGGC
99974595 TTTAGCGGCGTT
1 TTTAGCGGCGTT
99974607 TTTAGCGGCGTT
1 TTTAGCGGCGTT
99974619 TT
1 TT
99974621 GTTAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:99974744 original size:41 final size:41
Alignment explanation
Indices: 99974651--99974811 Score: 209
Period size: 41 Copynumber: 3.9 Consensus size: 41
99974641 TTGTAAAACA
* * * * *
99974651 CAGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAAGAT
1 CAGAGCATTAGCGGCG-CTTTTGGTAAAACGCCACTAAAGAC
*
99974693 C-GAGCTTTAGCGGCGCTTTTGGTAAAACGCCACTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCACTAAAGAC
* * *
99974733 CAGAGCATTAGCGGCGCTTTTGATAAAATGCCGCTACAA-AC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCACTA-AAGAC
99974774 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCACTAAA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCACTAAA
99974812 AGTTATATAA
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
40 24 0.23
41 77 0.74
42 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCACTAAAGAC
Found at i:99974788 original size:82 final size:82
Alignment explanation
Indices: 99974651--99974811 Score: 236
Period size: 82 Copynumber: 2.0 Consensus size: 82
99974641 TTGTAAAACA
* * * *
99974651 CAGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAAGATCGAGCTTTAGCGGCGCTTTTGGT
1 CAGAGCAATAGCGGCGTCTTTTGATAAAACGCCGCTAAAGACCGAGCATTAGCGGCGCTTTTGGT
99974716 AAAACGCCACTAAAGAC
66 AAAACGCCACTAAAGAC
* *
99974733 CAGAGCATTAGCGGCG-CTTTTGATAAAATGCCGCTACAA-ACCAGAGCATTAGCGGCGCTTTTG
1 CAGAGCAATAGCGGCGTCTTTTGATAAAACGCCGCTA-AAGACC-GAGCATTAGCGGCGCTTTTG
99974796 GTAAAACGCCACTAAA
64 GTAAAACGCCACTAAA
99974812 AGTTATATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
81 19 0.27
82 52 0.73
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (82 bp):
CAGAGCAATAGCGGCGTCTTTTGATAAAACGCCGCTAAAGACCGAGCATTAGCGGCGCTTTTGGT
AAAACGCCACTAAAGAC
Found at i:99975401 original size:24 final size:24
Alignment explanation
Indices: 99975374--99975422 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
99975364 CATATATTTA
99975374 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
*
99975398 TTAAAAGTTTATATAAAATTTAAT
1 TTAAAAGTTTATATAAAAATTAAT
99975422 T
1 T
99975423 GTTATTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:99975911 original size:19 final size:22
Alignment explanation
Indices: 99975870--99975924 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 22
99975860 ATGTTAATTT
*
99975870 AAAAATTATAAAAATCTTCAAA
1 AAAAATTATAAAAATCTTAAAA
99975892 AAAAATT-T-AAAAT-TTAAAA
1 AAAAATTATAAAAATCTTAAAA
*
99975911 ATAAAA-AATAAAAA
1 A-AAAATTATAAAAA
99975925 ATAAAAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 5 0.18
22 7 0.25
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAAATTATAAAAATCTTAAAA
Found at i:99975917 original size:7 final size:7
Alignment explanation
Indices: 99975907--99975932 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
99975897 TTTAAAATTT
99975907 AAAAATA
1 AAAAATA
99975914 AAAAATA
1 AAAAATA
99975921 AAAAATA
1 AAAAATA
99975928 AAAAA
1 AAAAA
99975933 CTTAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:99977988 original size:21 final size:21
Alignment explanation
Indices: 99977943--99977988 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
99977933 CATTTCAATG
*
99977943 TGTTTGGAAGAAACAAAGAAG
1 TGTTTGGAAGAAACAAAGAAA
* * *
99977964 TGTTTGGAATAAATAAATAAA
1 TGTTTGGAAGAAACAAAGAAA
99977985 TGTT
1 TGTT
99977989 GTCAGCATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.30
Consensus pattern (21 bp):
TGTTTGGAAGAAACAAAGAAA
Found at i:99980518 original size:28 final size:31
Alignment explanation
Indices: 99980487--99980543 Score: 75
Period size: 28 Copynumber: 1.9 Consensus size: 31
99980477 TAATTTGATA
*
99980487 ATGAATTTTA-AAT-TTTT-TTATATTTTTC
1 ATGAATTTTATAATATTTTGTAATATTTTTC
*
99980515 ATGACTTTTATAATATTTTGTAATATTTT
1 ATGAATTTTATAATATTTTGTAATATTTT
99980544 ATTTTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 3 0.12
30 4 0.17
31 8 0.33
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (31 bp):
ATGAATTTTATAATATTTTGTAATATTTTTC
Found at i:99980712 original size:43 final size:42
Alignment explanation
Indices: 99980589--99980747 Score: 203
Period size: 42 Copynumber: 3.8 Consensus size: 42
99980579 TCTCAAAAAC
* * *
99980589 GCCGTTAAAGGTCG-TGATCTTTAGCGGCGTTTGTAAAAAGGT
1 GCCGCTAAAGGT-GATGGTCTTTAGCGGCGTTTGTAAAAAAGT
* *
99980631 GCCGTTAAAGGTGATGGTCTTTAGTGGCGTTTGTAAAAAAGT
1 GCCGCTAAAGGTGATGGTCTTTAGCGGCGTTTGTAAAAAAGT
* * *
99980673 GCTGCTAAAGGTGATGGCCTTTAGCGGCGTTTGTAAAAAAAGC
1 GCCGCTAAAGGTGATGGTCTTTAGCGGCGTTTGT-AAAAAAGT
* *
99980716 GCCGCTAAAGGTCATGGTCTTTAGCGGTGTTT
1 GCCGCTAAAGGTGATGGTCTTTAGCGGCGTTT
99980748 TTTGTGGCTC
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 67 0.65
43 35 0.34
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (42 bp):
GCCGCTAAAGGTGATGGTCTTTAGCGGCGTTTGTAAAAAAGT
Found at i:99982457 original size:28 final size:29
Alignment explanation
Indices: 99982408--99982462 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
99982398 GATTGTAAAA
* * *
99982408 GGTTTCTAGTTGAGCCACAAAAGCTAGAG
1 GGTTTCTAGTTAAACCACAAAAACTAGAG
*
99982437 GGTTT-TAGTTAAACCATAAAAACTAG
1 GGTTTCTAGTTAAACCACAAAAACTAG
99982463 GGAGAAGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 17 0.77
29 5 0.23
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (29 bp):
GGTTTCTAGTTAAACCACAAAAACTAGAG
Found at i:99986121 original size:14 final size:15
Alignment explanation
Indices: 99986101--99986134 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
99986091 AACTTAACTT
99986101 AAAATAAAT-TTAAA
1 AAAATAAATATTAAA
*
99986115 GAAATAAATATTAAA
1 AAAATAAATATTAAA
99986130 AAAAT
1 AAAAT
99986135 CTTAGAGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAATAAATATTAAA
Found at i:99988267 original size:19 final size:19
Alignment explanation
Indices: 99988243--99988311 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 19
99988233 AGTGCAAAAC
99988243 TAAAAAAATTTAAAATTTA
1 TAAAAAAATTTAAAATTTA
*
99988262 TAAAAAAAACATTTATAA-TTA
1 T--AAAAAA-ATTTAAAATTTA
*
99988283 TTAAAAAAATTCTAAAATATTT
1 -TAAAAAAATT-TAAAAT-TTA
99988305 TAAAAAA
1 TAAAAAA
99988312 TAAAATATAC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
19 4 0.10
20 10 0.25
21 16 0.40
22 10 0.25
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAAAAATTTAAAATTTA
Found at i:99988270 original size:21 final size:21
Alignment explanation
Indices: 99988244--99988311 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 21
99988234 GTGCAAAACT
99988244 AAAAAAATTTAAAATTTATAA
1 AAAAAAATTTAAAATTTATAA
* *
99988265 AAAAAACATTTATAA-TTAT-T
1 AAAAAA-ATTTAAAATTTATAA
*
99988285 AAAAAAATTCTAAAATATTTTAA
1 AAAAAAATT-TAAAAT-TTATAA
99988308 AAAA
1 AAAA
99988312 TAAAATATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 3 0.08
20 10 0.27
21 10 0.27
22 10 0.27
23 4 0.11
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAAATTTAAAATTTATAA
Found at i:99988310 original size:22 final size:20
Alignment explanation
Indices: 99988244--99988311 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 20
99988234 GTGCAAAACT
*
99988244 AAAAAAATTTAAAATTTATAA
1 AAAAAAATTTAAAATTT-TTA
* *
99988265 AAAAAACATTTATAATTATT-
1 AAAAAA-ATTTAAAATTTTTA
99988285 AAAAAAATTCTAAAATATTTTA
1 AAAAAAATT-TAAAAT-TTTTA
99988307 AAAAA
1 AAAAA
99988312 TAAAATATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.08
20 11 0.29
21 10 0.26
22 14 0.37
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAAAATTTAAAATTTTTA
Found at i:99988479 original size:11 final size:10
Alignment explanation
Indices: 99988454--99988491 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
99988444 TAAAATATAT
99988454 TAAAAATGT-A
1 TAAAAAT-TCA
99988464 TAAAAATTCA
1 TAAAAATTCA
99988474 TAAAAATTCA
1 TAAAAATTCA
99988484 TAAAAATT
1 TAAAAATT
99988492 TAAAATGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 1 0.04
10 26 0.96
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (10 bp):
TAAAAATTCA
Found at i:99988516 original size:37 final size:39
Alignment explanation
Indices: 99988438--99988520 Score: 102
Period size: 37 Copynumber: 2.2 Consensus size: 39
99988428 ATAAAAATAG
* *
99988438 AAATTATAAAATATATTAAAAATGTATAAAAATTCATAA
1 AAATTATAAAATATATTAAAAATGTAAAAAAACTCATAA
99988477 AAATTCATAAAA-AT-TT-AAAATGTGAAAAAAACTCA-AA
1 AAATT-ATAAAATATATTAAAAATGT-AAAAAAACTCATAA
99988514 AAATTAT
1 AAATTAT
99988521 TTATATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
36 2 0.05
37 14 0.35
38 11 0.28
39 7 0.17
40 6 0.15
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (39 bp):
AAATTATAAAATATATTAAAAATGTAAAAAAACTCATAA
Found at i:99988566 original size:19 final size:20
Alignment explanation
Indices: 99988523--99988568 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
99988513 AAAATTATTT
*
99988523 ATATTTTTAATAATTTTTAA
1 ATATTTTTAATAATTTATAA
99988543 A-ATTTTT-ATAA-TTATAGA
1 ATATTTTTAATAATTTATA-A
99988561 ATATTTTT
1 ATATTTTT
99988569 TCCATATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 6 0.26
19 12 0.52
20 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATATTTTTAATAATTTATAA
Found at i:99989995 original size:18 final size:20
Alignment explanation
Indices: 99989954--99989998 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
99989944 TATTTTTAAA
*
99989954 ATTATAAATTTATAAAACATT
1 ATTA-AAATTCATAAAACATT
99989975 ATTAAAATTCATAAAA-A-T
1 ATTAAAATTCATAAAACATT
99989993 ATTAAA
1 ATTAAA
99989999 TAAAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 1 0.04
20 11 0.48
21 4 0.17
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTAAAATTCATAAAACATT
Found at i:99990489 original size:21 final size:22
Alignment explanation
Indices: 99990451--99990491 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
99990441 CATTTTGAGC
*
99990451 TTAAATTTTAGATGATTTTTTA
1 TTAAATTTTAGATAATTTTTTA
*
99990473 TTAATTTTTA-ATAATTTTT
1 TTAAATTTTAGATAATTTTT
99990492 AAACTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (22 bp):
TTAAATTTTAGATAATTTTTTA
Found at i:99990928 original size:18 final size:18
Alignment explanation
Indices: 99990905--99990942 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
99990895 AATATATATT
99990905 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
99990923 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
99990941 AA
1 AA
99990943 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:99990935 original size:13 final size:13
Alignment explanation
Indices: 99990919--99990943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99990909 CAAGTACCCA
99990919 ACCCAACCCAATT
1 ACCCAACCCAATT
99990932 ACCCAACCCAAT
1 ACCCAACCCAAT
99990944 AATAAAAATT
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:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:99991009 original size:7 final size:6
Alignment explanation
Indices: 99990968--99991008 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
99990958 ATAATTTAAT
*
99990968 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
99991009 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:99991009 original size:20 final size:20
Alignment explanation
Indices: 99990971--99991010 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
99990961 ATTTAATAAA
**
99990971 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
99990991 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
99991011 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:99991042 original size:9 final size:9
Alignment explanation
Indices: 99991028--99991070 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
99991018 TTTATACAAA
99991028 TAATTCGGT
1 TAATTCGGT
*
99991037 TAATTCAGT
1 TAATTCGGT
*
99991046 TAATTTGGT
1 TAATTCGGT
99991055 TAATTCGGT
1 TAATTCGGT
99991064 TAATTCG
1 TAATTCG
99991071 ATATATTCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:99991055 original size:18 final size:18
Alignment explanation
Indices: 99991028--99991095 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
99991018 TTTATACAAA
*
99991028 TAATTCGGTTAATTCAGT
1 TAATTTGGTTAATTCAGT
*
99991046 TAATTTGGTTAATTCGGT
1 TAATTTGGTTAATTCAGT
* *
99991064 TAA-TTCGATATATTCAGT
1 TAATTTGGTTA-ATTCAGT
* *
99991082 TATTTTGATTAATT
1 TAATTTGGTTAATT
99991096 TTATACTTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 5 0.13
18 30 0.77
19 4 0.10
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (18 bp):
TAATTTGGTTAATTCAGT
Found at i:99991083 original size:27 final size:27
Alignment explanation
Indices: 99991028--99991083 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
99991018 TTTATACAAA
* **
99991028 TAATTCGGTTAATTCAGTTAATTTGGT
1 TAATTCGGTTAATTCAGATAATTCAGT
99991055 TAATTCGGTTAATTC-GATATATTCAGT
1 TAATTCGGTTAATTCAGATA-ATTCAGT
99991082 TA
1 TA
99991084 TTTTGATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (27 bp):
TAATTCGGTTAATTCAGATAATTCAGT
Found at i:99992492 original size:47 final size:46
Alignment explanation
Indices: 99992377--99992646 Score: 200
Period size: 47 Copynumber: 5.5 Consensus size: 46
99992367 TGCACATAGT
* * ** * *
99992377 CACATATTACACACCGAAGCCATAGCCCAGCCATGGTCTTATACGGAT
1 CACATA-T-CACACCGATGCCATATCCCAGATATGGTCTTATACGAAG
* * *
99992425 CACATATCACACTGATGCCATATCCCAGATATAGTCTTATACAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAC-GAAG
99992472 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAC-GAAG
* * * *
99992519 CACATAATCACATCTCTCCGATGCCATAGCCCAGCTATGGTTTTATACGGAAAT
1 CACAT-ATCACA-----CCGATGCCATATCCCAGATATGGTCTTATAC-G-AAG
* * *
99992573 CACATGATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CAC---AT---ATCACACCGATGCCATATCCCAGATATGGTCTTATAC-G-AAG
*
99992627 CACATATCACA-CGTTGCCAT
1 CACATATCACACCGATGCCAT
99992647 GGTCCAACCA
Statistics
Matches: 190, Mismatches: 19, Indels: 27
0.81 0.08 0.11
Matches are distributed among these distances:
46 29 0.15
47 59 0.31
48 18 0.09
51 2 0.01
53 30 0.16
54 44 0.23
57 2 0.01
59 6 0.03
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.24
Consensus pattern (46 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAG
Found at i:99992552 original size:53 final size:51
Alignment explanation
Indices: 99992377--99992637 Score: 238
Period size: 54 Copynumber: 5.2 Consensus size: 51
99992367 TGCACATAGT
* * * ** *
99992377 CACATATTACA-CACCGAAGCCATAGCCCAGCCATGGTCTTATACGG--AT
1 CACATATCACATCCCCGATGCCATAGCCCAGATATGGTCTTATACGGAAAG
* * * * *
99992425 CACATATCACA---CTGATGCCATATCCCAGATATAGTCTTATACAG-TAG
1 CACATATCACATCCCCGATGCCATAGCCCAGATATGGTCTTATACGGAAAG
*
99992472 CACATATCACA---CCGATGCCATATCCCAGATATGGTCTTATACGG-AAG
1 CACATATCACATCCCCGATGCCATAGCCCAGATATGGTCTTATACGGAAAG
* * *
99992519 CACATAATCACATCTCTCCGATGCCATAGCCCAGCTATGGTTTTATACGGAAAT
1 CACAT-ATCACATC-C-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAAG
* *
99992573 CACATGATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACAT-ATCACATC-C-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAAG
99992627 CACATATCACA
1 CACATATCACA
99992638 CGTTGCCATG
Statistics
Matches: 184, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
46 26 0.14
47 49 0.27
48 16 0.09
53 36 0.20
54 57 0.31
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (51 bp):
CACATATCACATCCCCGATGCCATAGCCCAGATATGGTCTTATACGGAAAG
Found at i:99996557 original size:26 final size:26
Alignment explanation
Indices: 99996528--99996654 Score: 89
Period size: 26 Copynumber: 4.9 Consensus size: 26
99996518 AACAGGCATT
* *
99996528 GAGCTGGTGGTTATGTAGTAGGCCTC
1 GAGCTGGTGGTTATTTAGCAGGCCTC
* *
99996554 GAGCCGGTACG-TATTTAGCAGGCCTC
1 GAGCTGGT-GGTTATTTAGCAGGCCTC
* * *
99996580 GAGTTAGTGGTTATTTAGCAGGCCTT
1 GAGCTGGTGGTTATTTAGCAGGCCTC
* * * *
99996606 GAG-TCAGTGTTTATTTAGCAAGCCTT
1 GAGCT-GGTGGTTATTTAGCAGGCCTC
* *
99996632 GAG-TCGGTGTTTATTTAGTAGGC
1 GAGCT-GGTGGTTATTTAGCAGGC
99996655 TTTGATTCAG
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.02
26 81 0.96
27 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (26 bp):
GAGCTGGTGGTTATTTAGCAGGCCTC
Found at i:99996621 original size:52 final size:52
Alignment explanation
Indices: 99996565--99996680 Score: 151
Period size: 52 Copynumber: 2.2 Consensus size: 52
99996555 AGCCGGTACG
* * *
99996565 TATTTAGCAGGCCTCGAGTTAGTGGTTATTTAGCAGGCCTTGAGTCAGTGTT
1 TATTTAGCAAGCCTCGAGTCAGTGGTTATTTAGCAGGCCTTGAGTCAGTGGT
* * * * * *
99996617 TATTTAGCAAGCCTTGAGTCGGTGTTTATTTAGTAGGCTTTGATTCAGTGGT
1 TATTTAGCAAGCCTCGAGTCAGTGGTTATTTAGCAGGCCTTGAGTCAGTGGT
99996669 TATTTAGCAAGC
1 TATTTAGCAAGC
99996681 TTTGAGCCGA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.39
Consensus pattern (52 bp):
TATTTAGCAAGCCTCGAGTCAGTGGTTATTTAGCAGGCCTTGAGTCAGTGGT
Found at i:99996659 original size:26 final size:26
Alignment explanation
Indices: 99996565--99996686 Score: 136
Period size: 26 Copynumber: 4.7 Consensus size: 26
99996555 AGCCGGTACG
* * * *
99996565 TATTTAGCAGGCCTCGAGTTAGTGGT
1 TATTTAGCAAGCCTTGAGTCAGTGTT
*
99996591 TATTTAGCAGGCCTTGAGTCAGTGTT
1 TATTTAGCAAGCCTTGAGTCAGTGTT
*
99996617 TATTTAGCAAGCCTTGAGTCGGTGTT
1 TATTTAGCAAGCCTTGAGTCAGTGTT
* * * * *
99996643 TATTTAGTAGGCTTTGATTCAGTGGT
1 TATTTAGCAAGCCTTGAGTCAGTGTT
*
99996669 TATTTAGCAAGCTTTGAG
1 TATTTAGCAAGCCTTGAG
99996687 CCGATGTACA
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.39
Consensus pattern (26 bp):
TATTTAGCAAGCCTTGAGTCAGTGTT
Found at i:99996700 original size:52 final size:52
Alignment explanation
Indices: 99996592--99996700 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 52
99996582 GTTAGTGGTT
* * * **
99996592 ATTTAGCAGGCCTTGAGTCAGTGTTTATTTAGCAAGCCTTGAGTCGGTGTTT
1 ATTTAGCAGGCCTTGAGTCAGTGGTTATTTAGCAAGCCTTGAGCCGATGTAC
* * * *
99996644 ATTTAGTAGGCTTTGATTCAGTGGTTATTTAGCAAGCTTTGAGCCGATGTAC
1 ATTTAGCAGGCCTTGAGTCAGTGGTTATTTAGCAAGCCTTGAGCCGATGTAC
99996696 ATTTA
1 ATTTA
99996701 TCAAGTATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (52 bp):
ATTTAGCAGGCCTTGAGTCAGTGGTTATTTAGCAAGCCTTGAGCCGATGTAC
Found at i:99997856 original size:29 final size:29
Alignment explanation
Indices: 99997824--99997912 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
99997814 ATAGGCTGTC
* *
99997824 ACATGGTTGTGTGCCACACATAGTCTCCT
1 ACATGGTCGTGTGCCACACACAGTCTCCT
** * *
99997853 ACATGACCGTGTGCCACATACGGTCTCCT
1 ACATGGTCGTGTGCCACACACAGTCTCCT
* *
99997882 ACATGGTCGTGTGCAACACACGGTCT-CT
1 ACATGGTCGTGTGCCACACACAGTCTCCT
99997910 ACA
1 ACA
99997913 CAGTCTTGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 5 0.10
29 45 0.90
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (29 bp):
ACATGGTCGTGTGCCACACACAGTCTCCT
Found at i:100005221 original size:48 final size:47
Alignment explanation
Indices: 100005144--100005280 Score: 166
Period size: 48 Copynumber: 2.9 Consensus size: 47
100005134 GGGAGTCTCA
* * ** *
100005144 CACCCTAAGTGCCAATATCATGGGCCGAAGCCAAATTAATGTAACTTG
1 CACCCGAAGTGCCAATATCAT-GGCCGAAGCCAAATCAATACAACTCG
* *
100005192 CACCCGAAGTACCAATACCATGGCTCGAAGCCAAATCAATACAACTCG
1 CACCCGAAGTGCCAATATCATGGC-CGAAGCCAAATCAATACAACTCG
* *
100005240 CACCTGAAGTGCCAATATCATGGCCCGAAGCAAAATCAATA
1 CACCCGAAGTGCCAATATCATGG-CCGAAGCCAAATCAATA
100005281 TATTCCCTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
47 3 0.04
48 72 0.95
49 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.18
Consensus pattern (47 bp):
CACCCGAAGTGCCAATATCATGGCCGAAGCCAAATCAATACAACTCG
Found at i:100005873 original size:21 final size:20
Alignment explanation
Indices: 100005843--100005881 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
100005833 CCAAACTTGT
100005843 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
100005863 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
100005882 CAAAATACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:100017819 original size:17 final size:17
Alignment explanation
Indices: 100017787--100017820 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100017777 CACAGATATC
*
100017787 CTACTCATGAGACCTAT
1 CTACTCATAAGACCTAT
*
100017804 CTACTCATAAGGCCTAT
1 CTACTCATAAGACCTAT
100017821 AAGAAAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (17 bp):
CTACTCATAAGACCTAT
Found at i:100018914 original size:8 final size:8
Alignment explanation
Indices: 100018901--100018930 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
100018891 GAATTTAGAA
100018901 GAATTGGT
1 GAATTGGT
100018909 GAATTGGT
1 GAATTGGT
100018917 GAATTTGGT
1 GAA-TTGGT
100018926 GAATT
1 GAATT
100018931 AAAAGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (8 bp):
GAATTGGT
Found at i:100033124 original size:26 final size:25
Alignment explanation
Indices: 100033076--100033131 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 25
100033066 TATTTAAGTT
* * *
100033076 TTTAAAATATTTTATGTATATTAAC
1 TTTAAAATAATTTATATAAATTAAC
100033101 TTTACAAATAATTTATATAAATT-A-
1 TTTA-AAATAATTTATATAAATTAAC
100033125 TTTAAAA
1 TTTAAAA
100033132 GGTATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.11
24 4 0.15
25 5 0.19
26 15 0.56
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTAAAATAATTTATATAAATTAAC
Found at i:100035723 original size:13 final size:13
Alignment explanation
Indices: 100035705--100035730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100035695 TGCGTGGCTC
100035705 GGGTTATTTTTAT
1 GGGTTATTTTTAT
100035718 GGGTTATTTTTAT
1 GGGTTATTTTTAT
100035731 TCTTCATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (13 bp):
GGGTTATTTTTAT
Found at i:100054388 original size:16 final size:18
Alignment explanation
Indices: 100054356--100054388 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100054346 GTTAATAGAA
100054356 TAAATTTAGTGTTAATTG
1 TAAATTTAGTGTTAATTG
100054374 TAAATTT-GT-TTAATT
1 TAAATTTAGTGTTAATT
100054389 TATCAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (18 bp):
TAAATTTAGTGTTAATTG
Found at i:100055285 original size:27 final size:27
Alignment explanation
Indices: 100055255--100055309 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
100055245 AAATTATCAC
*
100055255 TAAGGATTTAAATAAATAAAAAATTTA
1 TAAGGATTTAAATAAATAAAAAAATTA
100055282 TAAGGATTTAAATAAATAAAAAAATTA
1 TAAGGATTTAAATAAATAAAAAAATTA
100055309 T
1 T
100055310 TCTTTTTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (27 bp):
TAAGGATTTAAATAAATAAAAAAATTA
Found at i:100057083 original size:9 final size:9
Alignment explanation
Indices: 100057069--100057093 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
100057059 ATTAAAGATA
100057069 AAAAAAAAG
1 AAAAAAAAG
100057078 AAAAAAAAG
1 AAAAAAAAG
100057087 AAAAAAA
1 AAAAAAA
100057094 GAAGTTGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:100058373 original size:31 final size:29
Alignment explanation
Indices: 100058332--100058394 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
100058322 CTCGAATGAT
100058332 TGATTCGTCACTTTTCGTAAACG-TTAGTGAC
1 TGATTCGTCACTTTT-G-AAA-GTTTAGTGAC
*
100058363 TGATTTGTCACTTTTGAAAGTTTAGTGAC
1 TGATTCGTCACTTTTGAAAGTTTAGTGAC
100058392 TGA
1 TGA
100058395 AATGTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 1 0.03
29 14 0.47
30 1 0.03
31 14 0.47
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (29 bp):
TGATTCGTCACTTTTGAAAGTTTAGTGAC
Found at i:100073242 original size:30 final size:31
Alignment explanation
Indices: 100073201--100073258 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
100073191 GTCTATATTT
* *
100073201 TTATAATTTTTAA-AGAATTAAATTAAATTA
1 TTATAATTTTTAAGAGAAATAAAATAAATTA
*
100073231 TTATTATTTTTAAGAGAAATAAAATAAA
1 TTATAATTTTTAAGAGAAATAAAATAAA
100073259 ATTTTACCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (31 bp):
TTATAATTTTTAAGAGAAATAAAATAAATTA
Found at i:100075358 original size:28 final size:28
Alignment explanation
Indices: 100075326--100075383 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
100075316 ATTCAATATT
100075326 GAAGAAGATCCGCTTCTGAAATGAATCC
1 GAAGAAGATCCGCTTCTGAAATGAATCC
100075354 GAAGAAGATCCGCTTCTGAAATGAATCC
1 GAAGAAGATCCGCTTCTGAAATGAATCC
100075382 GA
1 GA
100075384 TGGCATTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (28 bp):
GAAGAAGATCCGCTTCTGAAATGAATCC
Found at i:100075836 original size:28 final size:28
Alignment explanation
Indices: 100075804--100075859 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
100075794 AATATCAGAG
*
100075804 TATTACAAAACTATTTGAATAAATCTAA
1 TATTACAAAACTAATTGAATAAATCTAA
100075832 TATTACAAAACTAATTGAATAAATCTAA
1 TATTACAAAACTAATTGAATAAATCTAA
100075860 CTCCTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.34
Consensus pattern (28 bp):
TATTACAAAACTAATTGAATAAATCTAA
Found at i:100076533 original size:17 final size:17
Alignment explanation
Indices: 100076508--100076541 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100076498 AATAAATAAT
*
100076508 TTAATAATTATAAAATA
1 TTAAAAATTATAAAATA
*
100076525 TTAAAAATTATATAATA
1 TTAAAAATTATAAAATA
100076542 AAATAACTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAATTATAAAATA
Found at i:100076738 original size:24 final size:25
Alignment explanation
Indices: 100076688--100076735 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
100076678 AGACTCTTTC
* *
100076688 TTTTTAAAAGGTTTATGATCAAAAT
1 TTTTTAAAAGGTTGAGGATCAAAAT
*
100076713 TTTTTAAAAGGTTGAGGACCAAA
1 TTTTTAAAAGGTTGAGGATCAAA
100076736 TTTGGCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (25 bp):
TTTTTAAAAGGTTGAGGATCAAAAT
Found at i:100085358 original size:10 final size:9
Alignment explanation
Indices: 100085339--100085368 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
100085329 TTACTAATTT
100085339 AAAATTTAA
1 AAAATTTAA
100085348 AAAATTTTAA
1 AAAA-TTTAA
100085358 AAAATTTAA
1 AAAATTTAA
100085367 AA
1 AA
100085369 GGTCTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATTTAA
Found at i:100086300 original size:16 final size:16
Alignment explanation
Indices: 100086276--100086342 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 16
100086266 GGTTCATTGG
* *
100086276 AATGGAATAGGGTTGT
1 AATGAAATAGAGTTGT
100086292 AATGAAATAGAGTTGT
1 AATGAAATAGAGTTGT
* * *
100086308 AATGAAATAAAGCTAT
1 AATGAAATAGAGTTGT
*
100086324 AATGGAATAGAGTTGT
1 AATGAAATAGAGTTGT
100086340 AAT
1 AAT
100086343 CACTAATTCA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.43, C:0.01, G:0.25, T:0.30
Consensus pattern (16 bp):
AATGAAATAGAGTTGT
Found at i:100086387 original size:46 final size:44
Alignment explanation
Indices: 100086323--100086412 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 44
100086313 AATAAAGCTA
* **
100086323 TAATGGAATAGAGTTGTAATCACTAATTCAAT-TGTTTGGTTGAATG
1 TAATGGAATACAACTGTAAT-ACT-ATTC-ATGTGTTTGGTTGAATG
* *
100086369 TAATGGAATACAACTGTAATAGTATTCTTGTGTTTGGTTGAATG
1 TAATGGAATACAACTGTAATACTATTCATGTGTTTGGTTGAATG
100086413 GAATAGACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
43 1 0.03
44 18 0.47
45 2 0.05
46 17 0.45
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (44 bp):
TAATGGAATACAACTGTAATACTATTCATGTGTTTGGTTGAATG
Found at i:100090270 original size:15 final size:15
Alignment explanation
Indices: 100090252--100090281 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100090242 TATTTTATTT
*
100090252 ATATTAGGATAATTA
1 ATATTAAGATAATTA
100090267 ATATTAAGATAATTA
1 ATATTAAGATAATTA
100090282 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:100096702 original size:23 final size:23
Alignment explanation
Indices: 100096671--100096714 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
100096661 GCAACCCAAT
100096671 CTTTATTTT-TATTTATTATTTTC
1 CTTTATTTTCT-TTTATTATTTTC
*
100096694 CTTTCTTTTCTTTTATTATTT
1 CTTTATTTTCTTTTATTATTT
100096715 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (23 bp):
CTTTATTTTCTTTTATTATTTTC
Found at i:100097888 original size:118 final size:118
Alignment explanation
Indices: 100097680--100097892 Score: 354
Period size: 118 Copynumber: 1.8 Consensus size: 118
100097670 TGTTTTCCAT
* * * *
100097680 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTATCATT
1 GGTTATGAGTACAGCTCAAATCATGACTGACTGAGTAACCAGGGTAGGGTGCTTGGGTTATCATT
*
100097745 CTACTTTGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
** *
100097798 GGTTATGAGTATGGCTCAAATCATGACTGACTGAGTAACCAGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCATGACTGACTGAGTAACCAGGGTAGGGTGCTTGGGTTATCATT
100097863 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
100097893 TTGGGTAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 87 1.00
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCATGACTGACTGAGTAACCAGGGTAGGGTGCTTGGGTTATCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
Found at i:100098688 original size:15 final size:15
Alignment explanation
Indices: 100098670--100098699 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100098660 TATTTTATTT
*
100098670 ATATTAGGATAATTA
1 ATATTAAGATAATTA
100098685 ATATTAAGATAATTA
1 ATATTAAGATAATTA
100098700 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:100102380 original size:43 final size:42
Alignment explanation
Indices: 100102314--100102467 Score: 118
Period size: 43 Copynumber: 3.6 Consensus size: 42
100102304 AGCTCATACA
* ** **
100102314 ATGCCATATCCCAGA-ATGGTCTTACAT-GTTATCACATATTG
1 ATGCCATGTCCCAGACATGGTCTTAC-TCGAAATCACATAACG
* *
100102355 ATGCCATTGTCCCAGACAAGGTCTTACTCGAAATCATATAACG
1 ATGCCA-TGTCCCAGACATGGTCTTACTCGAAATCACATAACG
* *
100102398 ATGCCAATGTCCCAGACATGGTCTTA-TACGTAATCACA-ATACA
1 ATGCC-ATGTCCCAGACATGGTCTTACT-CGAAATCACATA-ACG
* * *
100102441 ATGCCAATGTGCCAAACATGGCCTTAC
1 ATGCC-ATGTCCCAGACATGGTCTTAC
100102468 ATGTAATCAC
Statistics
Matches: 92, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 6 0.07
42 11 0.12
43 74 0.80
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACTCGAAATCACATAACG
Found at i:100102668 original size:35 final size:35
Alignment explanation
Indices: 100102599--100102668 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
100102589 ACATTCATAG
**
100102599 CAATTCAATGATAATGAAACATATATAATTCAATT
1 CAATTCAATGATAATGAAACATATATAACACAATT
* *
100102634 CAATTCAATGATAAAT-AAGCATTTATAACACAATT
1 CAATTCAATGAT-AATGAAACATATATAACACAATT
100102669 TAAATACATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 27 0.90
36 3 0.10
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.33
Consensus pattern (35 bp):
CAATTCAATGATAATGAAACATATATAACACAATT
Found at i:100111010 original size:21 final size:22
Alignment explanation
Indices: 100110966--100111016 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
100110956 GATTTTAATC
100110966 TTACTTTATTTTATAGATTATT
1 TTACTTTATTTTATAGATTATT
100110988 TTA-TTTATTTTATTATGA-T-TT
1 TTACTTTATTTTA-TA-GATTATT
100111009 TTACTTTA
1 TTACTTTA
100111017 AATTTGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 14 0.54
22 10 0.38
23 2 0.08
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (22 bp):
TTACTTTATTTTATAGATTATT
Found at i:100111105 original size:24 final size:24
Alignment explanation
Indices: 100111064--100111113 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
100111054 TCTTTTATAT
* * * *
100111064 TTTATTTTTCTTTGTATTTATTTA
1 TTTATTTATATTTATATTCATTTA
100111088 TTTATTTATATTTATATTCATTTA
1 TTTATTTATATTTATATTCATTTA
100111112 TT
1 TT
100111114 GGTTTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTATTTATATTTATATTCATTTA
Found at i:100111306 original size:12 final size:13
Alignment explanation
Indices: 100111270--100111307 Score: 62
Period size: 12 Copynumber: 3.1 Consensus size: 13
100111260 TATACAAACT
100111270 ATTTTATTTATT-
1 ATTTTATTTATTC
100111282 ATTTTATTTATTC
1 ATTTTATTTATTC
100111295 A-TTTATTTATTC
1 ATTTTATTTATTC
100111307 A
1 A
100111308 ACCTATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 24 0.96
13 1 0.04
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTTATTTATTC
Found at i:100111599 original size:23 final size:22
Alignment explanation
Indices: 100111557--100111599 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
100111547 CGCACACCTA
100111557 CAAATAGACAAGAAAACAACAG
1 CAAATAGACAAGAAAACAACAG
100111579 CAAATAGAAACAA-AAAACAAC
1 CAAATAG--ACAAGAAAACAAC
100111600 GGAATAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.67, C:0.19, G:0.09, T:0.05
Consensus pattern (22 bp):
CAAATAGACAAGAAAACAACAG
Found at i:100111775 original size:26 final size:26
Alignment explanation
Indices: 100111746--100111802 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
100111736 TGACTTTTAG
100111746 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
100111772 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
100111798 TCTTT
1 TCTTT
100111803 CTTCGTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (26 bp):
TCTTTATTCCGACTTGATTTTCATTT
Found at i:100112647 original size:10 final size:10
Alignment explanation
Indices: 100112632--100112672 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
100112622 CGTTTTCTTT
100112632 TTTGTTATTA
1 TTTGTTATTA
*
100112642 TTTGTTATTT
1 TTTGTTATTA
*
100112652 TTTG-TCTTA
1 TTTGTTATTA
100112661 TTTGTT-TTA
1 TTTGTTATTA
100112670 TTT
1 TTT
100112673 ATTTTTTCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 13 0.48
10 14 0.52
ACGTcount: A:0.12, C:0.02, G:0.10, T:0.76
Consensus pattern (10 bp):
TTTGTTATTA
Found at i:100112661 original size:19 final size:20
Alignment explanation
Indices: 100112629--100112666 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
100112619 TCACGTTTTC
100112629 TTTTTTGTTATTATTTGTTA
1 TTTTTTGTTATTATTTGTTA
*
100112649 TTTTTTG-TCTTATTTGTT
1 TTTTTTGTTATTATTTGTT
100112667 TTATTTATTT
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:0.11, C:0.03, G:0.11, T:0.76
Consensus pattern (20 bp):
TTTTTTGTTATTATTTGTTA
Found at i:100115930 original size:104 final size:104
Alignment explanation
Indices: 100115750--100115957 Score: 398
Period size: 104 Copynumber: 2.0 Consensus size: 104
100115740 TCTTCGCATA
100115750 TTGCATCGCATAATTGGTCAATTTTACCCTTTTAAGTGGGAGTGAGAAACTATTGCTTCGCGAGG
1 TTGCATCGCATAATTGGTCAATTTTACCCTTTTAAGTGGGAGTGAGAAACTATTGCTTCGCGAGG
*
100115815 TTTTCACCACCGTAGAGGATAGCGGGTTGCTTTCAGGAT
66 TCTTCACCACCGTAGAGGATAGCGGGTTGCTTTCAGGAT
*
100115854 TTGCATCGCATAATTGGTCAATTTTACCCTTTTAAGTGGGAGTGAGAAACTATTGCTTTGCGAGG
1 TTGCATCGCATAATTGGTCAATTTTACCCTTTTAAGTGGGAGTGAGAAACTATTGCTTCGCGAGG
100115919 TCTTCACCACCGTAGAGGATAGCGGGTTGCTTTCAGGAT
66 TCTTCACCACCGTAGAGGATAGCGGGTTGCTTTCAGGAT
100115958 ACGTCCATAC
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (104 bp):
TTGCATCGCATAATTGGTCAATTTTACCCTTTTAAGTGGGAGTGAGAAACTATTGCTTCGCGAGG
TCTTCACCACCGTAGAGGATAGCGGGTTGCTTTCAGGAT
Found at i:100118506 original size:19 final size:19
Alignment explanation
Indices: 100118482--100118528 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
100118472 ATGCCTTTTT
*
100118482 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
100118501 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
100118520 TATGCATTA
1 TTTGCATTA
100118529 AATATCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:100122870 original size:40 final size:40
Alignment explanation
Indices: 100122813--100123066 Score: 264
Period size: 39 Copynumber: 6.4 Consensus size: 40
100122803 ATATTTGATG
* * *
100122813 TGTATCCGGGCTTAAAGACCCGTAGGCTAT-ATGCTAGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAAT
* *
100122853 TATATCCGGGCTTAAAGACCCGCAGACTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * **
100122893 TGTATCCGGACTT-CAGGTCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
100122932 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * * * *
100122972 TGTATCCGGACTT-AAGATCCGCAGGCTTCGTGCTAGTAC
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * * ** * * *
100123011 TATATCCAGACTT-AAGGTCCGCAGGCTTCGTACTGGTAC
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
*
100123050 TATATCCGGGCTTAAAG
1 TGTATCCGGGCTTAAAG
100123067 TCCTGTAGGC
Statistics
Matches: 184, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
39 102 0.55
40 82 0.45
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.27
Consensus pattern (40 bp):
TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
Found at i:100123025 original size:79 final size:79
Alignment explanation
Indices: 100122813--100123064 Score: 292
Period size: 79 Copynumber: 3.2 Consensus size: 79
100122803 ATATTTGATG
* * * *
100122813 TGTATCCGGGCTTAAAGACCCGTAGGCTAT-ATGCTAGAATTATATCCGGGCTTAAAGACCCGCA
1 TGTATCCGGACTT-AAGATCCGCAGGCT-TCGTGCTAGAATTATATCCGGGCTTAAAGACCCGCA
*
100122877 GACTTCGTGCTGGAAT
64 GGCTTCGTGCTGGAAT
* * * *
100122893 TGTATCCGGACTTCAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGG
1 TGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTAGAATTATATCCGGGCTTAAAGACCCGCAGG
100122958 CTTCGTGCTGGAAT
66 CTTCGTGCTGGAAT
* * * * **
100122972 TGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTAGTACTATATCCAGACTT-AAGGTCCGCAGG
1 TGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTAGAATTATATCCGGGCTTAAAGACCCGCAGG
* * *
100123036 CTTCGTACTGGTAC
66 CTTCGTGCTGGAAT
* *
100123050 TATATCCGGGCTTAA
1 TGTATCCGGACTTAA
100123065 AGTCCTGTAG
Statistics
Matches: 147, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
78 35 0.24
79 100 0.68
80 12 0.08
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.27
Consensus pattern (79 bp):
TGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTAGAATTATATCCGGGCTTAAAGACCCGCAGG
CTTCGTGCTGGAAT
Found at i:100130946 original size:45 final size:45
Alignment explanation
Indices: 100130881--100131059 Score: 175
Period size: 45 Copynumber: 3.8 Consensus size: 45
100130871 AGTTATAATG
*
100130881 GCAAATCTTATCTT-CTTGAAGTTGCAGT-GAAGCAGATTGAAAATA
1 GCAAATCTTAT-TTCCCTGAAGTTGCAGTGGAA-CAGATTGAAAATA
100130926 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACAAATTA
1 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT---G--A-AAA-TA
* * * * ** *
100130978 -TAAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGATA
1 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAAATA
*
100131022 TCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
1 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
100131060 AAGGCTACAA
Statistics
Matches: 110, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
44 4 0.04
45 63 0.57
46 4 0.04
48 2 0.02
50 1 0.01
51 34 0.31
52 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (45 bp):
GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAAATA
Found at i:100131005 original size:51 final size:49
Alignment explanation
Indices: 100130928--100131080 Score: 163
Period size: 51 Copynumber: 3.1 Consensus size: 49
100130918 TGAAAATAGC
100130928 AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACAAATTAT
1 AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT-AAG-CACAAATTAT
* * * ** *
100130979 AAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATT--G-A-AGA-TAT
1 AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGCACAAATTAT
*
100131023 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTAC
1 -AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAA-GC-ACAAATTAT
100131075 AAATCT
1 AAATCT
100131081 GACCTCCCTA
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
44 3 0.04
45 33 0.41
46 1 0.01
48 2 0.02
50 1 0.01
51 39 0.48
52 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (49 bp):
AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGCACAAATTAT
Found at i:100131014 original size:96 final size:96
Alignment explanation
Indices: 100130882--100131147 Score: 327
Period size: 96 Copynumber: 2.8 Consensus size: 96
100130872 GTTATAATGG
* *
100130882 CAAATCTTATCTTCTTGAAGTTGCAGTGAAGCAGATTGAAAATAGCAAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCTTGAAGTTACAGTGAAGCAGATTGAAAATAGCAAATCTTATTTCCCTGAAG
100130947 TTGCAGTGGAACAGATTAAAGCCACAAATTA
66 TTGCAGTGGAACAGATTAAAGCCACAAATTA
* * * * *
100130978 TAAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGATATCAAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCTTGAAGTTACAGTGAAGCAGATTGAAAATAGCAAATCTTATTTCCCTGAAG
* *
100131043 TTGCAGTGGAACAGATTAAGGCTACAAATTA
66 TTGCAGTGGAACAGATTAAAGCCACAAATTA
* * * * ** * * * ** * *
100131074 CAAATCTGACCTCCCTAAAGTTGTAGGGAAACAGATCGAAGTTA-CAAATCATATCTCCCTGAAG
1 CAAATCTTATCTCCTTGAAGTTACAGTGAAGCAGATTGAAAATAGCAAATCTTATTTCCCTGAAG
100131138 TTGCAGTGGA
66 TTGCAGTGGA
100131148 GTAGGTTGAA
Statistics
Matches: 146, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
95 28 0.19
96 118 0.81
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (96 bp):
CAAATCTTATCTCCTTGAAGTTACAGTGAAGCAGATTGAAAATAGCAAATCTTATTTCCCTGAAG
TTGCAGTGGAACAGATTAAAGCCACAAATTA
Found at i:100131159 original size:44 final size:44
Alignment explanation
Indices: 100131106--100131246 Score: 167
Period size: 44 Copynumber: 3.2 Consensus size: 44
100131096 GTAGGGAAAC
* *
100131106 AGATCGAAGTTACAAATC-ATATCTCCCTGAAGTTGCAGTGGAGT
1 AGATTGAAGTTACAAATCTA-ATCTCCTTGAAGTTGCAGTGGAGT
* * * * *
100131150 AGGTTGAAGTTCCAAATTTCATCTCCTTGAAGTTGCAGTGGAGC
1 AGATTGAAGTTACAAATCTAATCTCCTTGAAGTTGCAGTGGAGT
* * * *
100131194 AGATTAAAGTTACAAGTCTAATCTCCTTGAAGTTACAGTGAAGT
1 AGATTGAAGTTACAAATCTAATCTCCTTGAAGTTGCAGTGGAGT
100131238 AGATTGAAG
1 AGATTGAAG
100131247 CATCAATTCC
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 79 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (44 bp):
AGATTGAAGTTACAAATCTAATCTCCTTGAAGTTGCAGTGGAGT
Found at i:100131835 original size:15 final size:15
Alignment explanation
Indices: 100131815--100131843 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
100131805 TGGAAGAGGT
100131815 GATTTTTTTATTTTA
1 GATTTTTTTATTTTA
100131830 GATTTTTTTATTTT
1 GATTTTTTTATTTT
100131844 TTAAATAAAA
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:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (15 bp):
GATTTTTTTATTTTA
Done.