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 185 of 344
Found at i:61791736 original size:82 final size:81
Alignment explanation
Indices: 61791618--61791773 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61791608 TGCTATATAA
* *
61791618 TCAATTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61791683 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* ** *
61791700 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCG
1 TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61791764 CACTTAGTGC
65 CACTTAGTGC
61791774 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61799678 original size:27 final size:27
Alignment explanation
Indices: 61799648--61799825 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61799638 ATATTGAGTC
* * * *
61799648 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61799675 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61799702 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61799730 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61799757 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61799784 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61799811 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61799826 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61799787 original size:82 final size:81
Alignment explanation
Indices: 61799669--61799824 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61799659 TGCTATATAA
* *
61799669 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61799734 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61799751 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61799815 CACTTAGTGC
65 CACTTAGTGC
61799825 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61805875 original size:31 final size:34
Alignment explanation
Indices: 61805837--61805959 Score: 123
Period size: 37 Copynumber: 3.6 Consensus size: 34
61805827 AGACTCGCAC
61805837 AATGCCTTCGGGACTTA-CC-G-TAGTAACTC-AA
1 AATGCCTTCGGGACTTACCCGGATAGT-ACTCGAA
*
61805868 AATGCCTTC-GGACTTACCCGGATAGTACTCGCA
1 AATGCCTTCGGGACTTACCCGGATAGTACTCGAA
* *
61805901 AATGCCTTCGGGACTTAGCCCGAATAGTCACTAGCGCA
1 AATGCCTTCGGGACTTA-CCCGGATAGT-ACT--CGAA
61805939 AATG-CTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTA-CCCG
61805960 TTATTCCAAT
Statistics
Matches: 81, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
30 7 0.09
31 11 0.14
32 5 0.06
33 14 0.17
34 7 0.09
35 9 0.11
36 3 0.04
37 17 0.21
38 8 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (34 bp):
AATGCCTTCGGGACTTACCCGGATAGTACTCGAA
Found at i:61805904 original size:33 final size:36
Alignment explanation
Indices: 61805829--61805959 Score: 145
Period size: 33 Copynumber: 3.8 Consensus size: 36
61805819 CGGAATATAG
61805829 ACTCGCACAATGCCTTCGGGACTTA--CC-G-TAGTA
1 ACTCGCA-AATGCCTTCGGGACTTAGCCCGGATAGTA
*
61805862 ACTC-AAAATGCCTTC-GGACTTA-CCCGGATAGT-
1 ACTCGCAAATGCCTTCGGGACTTAGCCCGGATAGTA
* *
61805894 ACTCGCAAATGCCTTCGGGACTTAGCCCGAATAGTC
1 ACTCGCAAATGCCTTCGGGACTTAGCCCGGATAGTA
61805930 ACTAGCGCAAATG-CTTCGGGACTTAGCCCG
1 ACT--CGCAAATGCCTTCGGGACTTAGCCCG
61805960 TTATTCCAAT
Statistics
Matches: 86, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.08
31 11 0.13
32 6 0.07
33 18 0.21
34 7 0.08
35 9 0.10
36 3 0.03
37 17 0.20
38 8 0.09
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (36 bp):
ACTCGCAAATGCCTTCGGGACTTAGCCCGGATAGTA
Found at i:61813969 original size:40 final size:39
Alignment explanation
Indices: 61813921--61814130 Score: 228
Period size: 40 Copynumber: 5.3 Consensus size: 39
61813911 TCTTCGGAAT
*
61813921 TTAG-CCGGATATCACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ACCACTAGCACAAATGCCTTCGGGTC
* *
61813960 TTAGCCCGGATATATCAACTCGCAC-AATGCCTTC-GGTC
1 TTAGCCCGGATATA-CCACTAGCACAAATGCCTTCGGGTC
* * *
61813998 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATACCACTAGCACAAATGCCTTCGGGTC
* * * *
61814038 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATA-CCACTAGCACAAATGCCTTCGGGTC
* * * *
61814078 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATACCACTAGCACAAATGCCTTCGGGTC
61814118 TTAGCCCGGATAT
1 TTAGCCCGGATAT
61814131 CATTCAATGC
Statistics
Matches: 140, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.16
39 27 0.19
40 89 0.64
41 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATACCACTAGCACAAATGCCTTCGGGTC
Found at i:61814046 original size:78 final size:80
Alignment explanation
Indices: 61813940--61814130 Score: 323
Period size: 80 Copynumber: 2.4 Consensus size: 80
61813930 TATCACCACA
* *
61813940 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC-AATGCCTTC-GGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
61814003 CCGGATAAAATCACT
66 CCGGATAAAATCACT
* *
61814018 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
61814083 CCGGATAAAATCACT
66 CCGGATAAAATCACT
*
61814098 AGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
61814131 CATTCAATGC
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
78 41 0.39
79 9 0.09
80 54 0.52
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATAAAATCACT
Found at i:61830148 original size:9 final size:9
Alignment explanation
Indices: 61830134--61830205 Score: 69
Period size: 9 Copynumber: 8.2 Consensus size: 9
61830124 TAAGTATAAT
61830134 TAAGTTATG
1 TAAGTTATG
61830143 TAAGTTATG
1 TAAGTTATG
* * *
61830152 ATATGATATA
1 -TAAGTTATG
*
61830162 T-ATTTATG
1 TAAGTTATG
61830170 T-A-TTATG
1 TAAGTTATG
61830177 TAAGTTATG
1 TAAGTTATG
*
61830186 TAAATTATG
1 TAAGTTATG
61830195 TAAGTTATG
1 TAAGTTATG
61830204 TA
1 TA
61830206 TTATGTATGG
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:61830176 original size:34 final size:34
Alignment explanation
Indices: 61830138--61830212 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
61830128 TATAATTAAG
* *
61830138 TTATGTAAGTTATG-ATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAATGATATA-AGTTATGTA
* *
61830172 TTATGTAAGTTATGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAATGATATAAGTTATGTA
61830206 TTATGTA
1 TTATGTA
61830213 TGGCATAAAG
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:61830354 original size:16 final size:16
Alignment explanation
Indices: 61830333--61830445 Score: 104
Period size: 16 Copynumber: 7.1 Consensus size: 16
61830323 TGATCTTTAA
*
61830333 ATTATGTAAGTCATGT
1 ATTATGTAAGTTATGT
61830349 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
61830365 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
61830381 AAATTATGTAAGTTATGA
1 --ATTATGTAAGTTATGT
* ** * **
61830399 AAT-TCAAACTT-TAA
1 ATTATGTAAGTTATGT
61830413 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
* *
61830429 ATTATGCAAATTATGT
1 ATTATGTAAGTTATGT
61830445 A
1 A
61830446 AATTATGTGA
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
14 4 0.05
15 10 0.13
16 49 0.63
18 15 0.19
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:61830362 original size:9 final size:9
Alignment explanation
Indices: 61830334--61830458 Score: 84
Period size: 9 Copynumber: 14.2 Consensus size: 9
61830324 GATCTTTAAA
61830334 TTATGTAAG
1 TTATGTAAG
*
61830343 TCATGT-A-
1 TTATGTAAG
61830350 TTATGTAAG
1 TTATGTAAG
61830359 TTATGT-A-
1 TTATGTAAG
61830366 TTATGTAAG
1 TTATGTAAG
*
61830375 TTATGTAAA
1 TTATGTAAG
61830384 TTATGTAAG
1 TTATGTAAG
*
61830393 TTATG-AAA
1 TTATGTAAG
* *
61830401 TTCAAACTTTAAA
1 TT---A-TGTAAG
61830414 TTATGTAAG
1 TTATGTAAG
61830423 TTATGT-A-
1 TTATGTAAG
* *
61830430 TTATGCAAA
1 TTATGTAAG
*
61830439 TTATGTAAA
1 TTATGTAAG
*
61830448 TTATGTGAG
1 TTATGTAAG
61830457 TT
1 TT
61830459 GCTGGTGAAC
Statistics
Matches: 93, Mismatches: 12, Indels: 22
0.73 0.09 0.17
Matches are distributed among these distances:
7 16 0.17
8 10 0.11
9 59 0.63
10 1 0.01
11 1 0.01
12 1 0.01
13 5 0.05
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:61830386 original size:80 final size:80
Alignment explanation
Indices: 61830295--61830445 Score: 239
Period size: 80 Copynumber: 1.9 Consensus size: 80
61830285 TGTGTTAATT
** * * *
61830295 TTATGTAAATTATATAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTATTATGTAAGT
1 TTATGTAAATTATATAAGTTATGAAATTCAAACTTTAAATTATGTAAGTCATGTATTATGCAAAT
61830360 TATGTATTATGTAAG
66 TATGTATTATGTAAG
* *
61830375 TTATGTAAATTATGTAAGTTATGAAATTCAAACTTTAAATTATGTAAGTTATGTATTATGCAAAT
1 TTATGTAAATTATATAAGTTATGAAATTCAAACTTTAAATTATGTAAGTCATGTATTATGCAAAT
61830440 TATGTA
66 TATGTA
61830446 AATTATGTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.45
Consensus pattern (80 bp):
TTATGTAAATTATATAAGTTATGAAATTCAAACTTTAAATTATGTAAGTCATGTATTATGCAAAT
TATGTATTATGTAAG
Found at i:61830445 original size:25 final size:27
Alignment explanation
Indices: 61830295--61830458 Score: 117
Period size: 25 Copynumber: 6.1 Consensus size: 27
61830285 TGTGTTAATT
* * *
61830295 TTATGTAAATTATATAAGTTATGAAAT
1 TTATGTAAATTATGTAAGTTATGTAAG
* *
61830322 TTGATCTTTAAATTATGTAAGTCATGT-A-
1 TT-A--TGTAAATTATGTAAGTTATGTAAG
*
61830350 TTATGTAAGTTATGT-A-TTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
*
61830375 TTATGTAAATTATGTAAGTTATG-AAA
1 TTATGTAAATTATGTAAGTTATGTAAG
*
61830401 TTCAAACTTTAAATTATGTAAGTTATGT-A-
1 TT---A-TGTAAATTATGTAAGTTATGTAAG
* * *
61830430 TTATGCAAATTATGTAAATTATGTGAG
1 TTATGTAAATTATGTAAGTTATGTAAG
61830457 TT
1 TT
61830459 GCTGGTGAAC
Statistics
Matches: 110, Mismatches: 13, Indels: 28
0.73 0.09 0.19
Matches are distributed among these distances:
23 5 0.05
24 2 0.02
25 42 0.38
26 7 0.06
27 10 0.09
28 3 0.03
29 4 0.04
30 37 0.34
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (27 bp):
TTATGTAAATTATGTAAGTTATGTAAG
Found at i:61830800 original size:99 final size:98
Alignment explanation
Indices: 61830563--61830901 Score: 594
Period size: 99 Copynumber: 3.5 Consensus size: 98
61830553 AATAAAATAG
* *
61830563 AATATTTAAAATAAAACTTTAAATACAATTTATTTTAATTATGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
*
61830628 ATTTAAATTATTTTTCGTGATTCAAAAAAATGA
66 ATTAAAATTATTTTTCGTGATTCAAAAAAATGA
61830661 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
61830726 ATTAAAATTATTTTTCGTGATTCAAACAAAATGA
66 ATTAAAATTATTTTTCGTGATTCAAA-AAAATGA
61830760 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
*
61830825 ATTAAAATTAGTTTTCGTGATTC-AAAAAA--A
66 ATTAAAATTATTTTTCGTGATTCAAAAAAATGA
* *
61830855 AATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAAT
61830902 TTGATATACT
Statistics
Matches: 234, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
95 46 0.20
97 4 0.02
98 90 0.38
99 94 0.40
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (98 bp):
AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
ATTAAAATTATTTTTCGTGATTCAAAAAAATGA
Found at i:61834928 original size:21 final size:21
Alignment explanation
Indices: 61834899--61834938 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
61834889 ACAAACAACA
*
61834899 AAATTTAAAA-AACTAAACCCC
1 AAATCTAAAATAAC-AAACCCC
61834920 AAATCTAAAATAACAAACC
1 AAATCTAAAATAACAAACC
61834939 ATAAACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (21 bp):
AAATCTAAAATAACAAACCCC
Found at i:61835418 original size:18 final size:17
Alignment explanation
Indices: 61835395--61835429 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
61835385 AAAGTTAGTT
*
61835395 TCAAATATCAAAATAAAA
1 TCAAAT-TCAAAACAAAA
61835413 TCAAATTCAAAACAAAA
1 TCAAATTCAAAACAAAA
61835430 ATAAGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (17 bp):
TCAAATTCAAAACAAAA
Found at i:61835691 original size:12 final size:12
Alignment explanation
Indices: 61835676--61835700 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61835666 TTTTTTGTCT
61835676 AAACGCCACTAA
1 AAACGCCACTAA
61835688 AAACGCCACTAA
1 AAACGCCACTAA
61835700 A
1 A
61835701 GCCCTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.32, G:0.08, T:0.08
Consensus pattern (12 bp):
AAACGCCACTAA
Found at i:61838935 original size:40 final size:40
Alignment explanation
Indices: 61838875--61839099 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
61838865 TATTCGGATG
*
61838875 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
61838915 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* ** *
61838955 ATATCAGGGAGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
61838998 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
61839038 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
61839078 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
61839100 TACTTGGGTT
Statistics
Matches: 155, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 14 0.09
40 109 0.70
43 32 0.21
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:61839118 original size:83 final size:79
Alignment explanation
Indices: 61838875--61839099 Score: 315
Period size: 83 Copynumber: 2.8 Consensus size: 79
61838865 TATTCGGATG
* * *
61838875 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATTCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATA-TCCGGCTAAGTCCCGAAGGCA
61838940 TTTGTGCTAGTGAAT
65 TTTGTGCTAGTGAAT
* ** *
61838955 ATATCAGGGAGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTGCTATATCC-GGCTAAGTCCCGAAG
*
61839020 GCATTTGTGCTAGTGACT
62 GCATTTGTGCTAGTGAAT
* *
61839038 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCTATATCCGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATATCCGGCTAAGTCCCGAAGG
61839100 TACTTGGGTT
Statistics
Matches: 127, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 15 0.12
80 41 0.32
82 2 0.02
83 69 0.54
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCTAGTGAAT
Found at i:61841525 original size:27 final size:26
Alignment explanation
Indices: 61841486--61841603 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 26
61841476 ATATACTGGT
61841486 GAACCCCAGCTCACCAATCCAATTGGC
1 GAACCCCAGCTCACCAA-CCAATTGGC
* * * *
61841513 GAACCCTAACTCACCAAACCTATAGGC
1 GAACCCCAGCTCACC-AACCAATTGGC
*
61841540 GAACCCCCAGCTCACCAGACCAACTGGC
1 GAA-CCCCAGCTCACCA-ACCAATTGGC
* ** *
61841568 GAACCCTAGCTTGCCAAACCAACTGGC
1 GAACCCCAGCTCACC-AACCAATTGGC
*
61841595 GAGCCCCAG
1 GAACCCCAG
61841604 TTCGCTAAAC
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
27 50 0.68
28 23 0.32
ACGTcount: A:0.31, C:0.41, G:0.17, T:0.12
Consensus pattern (26 bp):
GAACCCCAGCTCACCAACCAATTGGC
Found at i:61841596 original size:55 final size:55
Alignment explanation
Indices: 61841480--61841601 Score: 142
Period size: 55 Copynumber: 2.2 Consensus size: 55
61841470 CTCGACATAT
* * *
61841480 ACTGGTGAA-CCCCAGCTCACCAATCCAATTGGCGAACCCTAACTCACCAAACCT
1 ACTGGCGAACCCCCAGCTCACCAATCCAACTGGCGAACCCTAACTCACCAAACCA
* **
61841534 A-TAGGCGAACCCCCAGCTCACCAGA-CCAACTGGCGAACCCTAGCTTGCCAAACCA
1 ACT-GGCGAACCCCCAGCTCACCA-ATCCAACTGGCGAACCCTAACTCACCAAACCA
*
61841589 ACTGGCGAGCCCC
1 ACTGGCGAACCCC
61841602 AGTTCGCTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
53 1 0.02
54 6 0.11
55 48 0.84
56 2 0.04
ACGTcount: A:0.30, C:0.40, G:0.17, T:0.13
Consensus pattern (55 bp):
ACTGGCGAACCCCCAGCTCACCAATCCAACTGGCGAACCCTAACTCACCAAACCA
Found at i:61858957 original size:745 final size:748
Alignment explanation
Indices: 61855312--61858957 Score: 1819
Period size: 743 Copynumber: 4.9 Consensus size: 748
61855302 GATAGGCCGT
* * * * * *
61855312 AGCCCTTACCCAACATCTTTTTTACTCTCATTGTCAATATGGCATTAGACATAAATTAAGGTCAC
1 AGCCCTTACCCAACATCTTTTCTACTATCATTGTCAATATGGCAATAGACATAAATTGAGCTCGC
* * * * * * * * * * *
61855377 TCACCTGCCACTACAATTTC-CTGGTCTTCACTATTTTACAAAGGGACTC-TTTTCAATTTGAAG
66 TCACCTACAACTACAACTTCAC-AGCCTTCAATATTTCACAAAGTGACTCGTTTT-AGTTCGAAA
* * * * *
61855440 TCAATCTTCGCTTTATGCTCAGCCAACCAATTCATCCCCAAGATTACATCAAACACATAGAATGG
129 TCAATCTTGGCTATATGCTCAGCCAACCAATCCATCCCAAAGATTACATCAAACACATAAAATGG
* * * * * * * *
61855505 AAACTTC-TAAAACTTTGCGTAGAAAACTTGGCCTTGGATTAGTAAA-G-AACACTTGTGGTACA
194 AAACTCCAT-CAA-GTT-CGCAGAAAACTTGCCCTTGGATCACTAAAGGAAAC-CTT-TGCTACA
* * ** *
61855567 CTTTGTTGACCAATATATTGTCTC-CAAATGAACTAGTGACTCTCACACCCTTATCTAT-GATTT
254 CTTTATTGACCAATA-ACTGTC-CACAAACAAACTAGTGACTGTCACACCCTTATCTATAG-TTT
* * * *
61855630 CTAC-ATGAATTCCC-AACTCA-CAGGCTAGTTCACTCAAAGCATACAAGTGCATGGAACTAGAT
316 CTACTA-GAA-TCCCAAACTGACCA-GCTAGTTCACTCAAAACATACTAGTGCGTGGAACTAGAT
* * * * * * * * *
61855692 TCAATGAAGGAAAA-AATGGAATAATTCATAGTGTTAAAGTAGTTGGGATAACATTGGTCGAGCC
378 TCAATGAAGGAAAACAATAGAATAGTTCAAAGAGTGAAGGTAGTTGTGATAACATCGGTCAAGCC
* * * ** * *
61855756 CTGATCTTGTGGTTCCCTTACAACATAGA-T-TTGTACAAGGCCTCCTAACTCATCTTGGGTAGC
443 CTGATCTTGTGGTTCCCTTACAACAAAGACTCGTGT-GAA-GCCTCCCGACTCATCTTAGCTAGC
* * * *
61855819 AACAACT-TGAGATAAAGTTTGCTACCCAACTTGCATTGCATCCTAGCCTT-TTCCTCGACCTCA
506 AA-AAATGTGAGATAAAG-TT-CT--GC--C-T--A--GC-TCGT--CCTTCTT-CTCGACCTCG
** * ** * *
61855882 TCCATGAGCCCCAACTCGTAC-TCGG-AGGGGGTCACATT-TGGCA-TCTGTGA-GTT--T-TC-
555 TCCATGAGTACCAGCTCACACTTGGGTA-GGGGTCACATTCT--CACT-TGTGATTTTCATGTCT
* * * * * *
61855938 --CT-G---TC---TAT--T-TGGGCAATCTTTTCTC-ATTTGGAAAAATATTATGAAAG-TCCT
616 ATCTAGCATTCATTTATCATATGGGAAATCTTTT-TCGA-CTAGAAACACATTA-GGAAGTTCC-
* ** *** * *
61855989 TGACAATACGT-ATCTCGTGGACCCTTATAACCTTGTCC-ATTAAACCCATAAAAAATGCGAGAT
677 TCACAA-AAATAATCTCGCAAACCCCTATAACCTTGTCCTA-CAAACCCATAAAAAATGCGAGAT
*
61856052 AGACTTTC-C
740 AGGC-TTCAC
** * * * * * * *** *
61856061 AGCTATTACCCAACATCTTTACTGCTTTCAATGTTAAGACCACAATAGAAATAAATTGAGCTCGC
1 AGCCCTTACCCAACATCTTTTCTACTATCATTGTCAATATGGCAATAGACATAAATTGAGCTCGC
* * * * * * * ** * *
61856126 ACACCTACCACTACAATTTC-CTTA-TCTTTATTTTTTTTTGCAAAATGACTC-TATTTCAATTC
66 TCACCTACAACTACAACTTCAC--AGCCTTCA--ATATTTCACAAAGTGACTCGT-TTT-AGTTC
* * * * ** *
61856188 CAAGTCAATCTTGGCTTTATGCTCAGCCAACCAATCCATTCC------TA-AT--ATTACATAGA
125 GAAATCAATCTTGGCTATATGCTCAGCCAACCAATCCATCCCAAAGATTACATCAAACACATAAA
* * * * *
61856244 ATGGCAACTCCCA-AAACTTCACATAGAAAACTTGCCCTTGGATCACTAAA-G-AACACTTATGG
190 ATGGAAACT-CCATCAAGTTCGC--AGAAAACTTGCCCTTGGATCACTAAAGGAAAC-CTT-TGC
* * * * *
61856306 TA-ACTTTATTGACTAATATATTATATC-CAAACAAACTAGTGA-TAGTCACGCCCTTAT-TAAT
250 TACACTTTATTGACCAATA-ACTGT-CCACAAACAAACTAGTGACT-GTCACACCCTTATCT-AT
* * * * * * *
61856367 GGTTTCTACTGGAATTCCC-AATTCA-CATGCTAGTTCGCTCAAAACATACAAGTGTGTGGAACT
311 AGTTTCTACTAGAA-TCCCAAACTGACCA-GCTAGTTCACTCAAAACATACTAGTGCGTGGAACT
* * * * * * * **
61856430 AGATTCAACGAAGGAAAAGAATGGAATAGTTCATAGAGTAAAGGTAGTTGTAATAACATCAGTTG
374 AGATTCAATGAAGGAAAACAATAGAATAGTTCAAAGAGTGAAGGTAGTTGTGATAACATCGGTCA
* * * * ** * *
61856495 AGCCATGGTCTTGTGGTTCCCTTACAACATAGACTCGTG-CAAGGCCTCCTAACTCATCTTGGGT
439 AGCCCTGATCTTGTGGTTCCCTTACAACAAAGACTCGTGTGAA-GCCTCCCGACTCATCTTAGCT
* * * * * * * *
61856559 AGCAACAATTTGAGATAAATTTTGCTCCCCAACTTACCTTGTATCATTGCGTCTTCCTCGACCCC
503 AGCAAAAATGTGAGATAAA-GTT-CT--GC--C-TAGCTCG--TC----CTTCTT-CTCGACCTC
* * * * * * *
61856624 ATTCATGAG-CCCTAGCTCGCACTCGGG--GGGGTTCACATT-TGGCACATGCGA---T--T-TC
554 GTCCATGAGTACC-AGCTCACACTTGGGTAGGGG-TCACATTCT--CACTTGTGATTTTCATGTC
* * * *
61856679 --TC---C--T-ATTTAT--T-TGGGAAATCTTTTCTCGTCTGGAAAAACATTAGGAAAGTCCCT
615 TATCTAGCATTCATTTATCATATGGGAAATCTTTT-TCGACTAGAAACACATTAGG-AAGTTCCT
* * * ** * * * * * * *
61856733 GATAGTACGT-ATCTC-AAGAACCCCTATAGCCTTGTCC-ATCGAACCCATCAGAAATACAAGAT
678 CACA-AAAATAATCTCGCA-AACCCCTATAACCTTGTCCTA-CAAACCCATAAAAAATGCGAGAT
*
61856795 AGGCTTCGC
740 AGGCTTCAC
* ** * * * * * ***
61856804 AACTGTTACCCAACATCTTTACTACTTTCAATGTCGAGACCACAATAGACATAAATTGAGCTCGC
1 AGCCCTTACCCAACATCTTTTCTACTATCATTGTCAATATGGCAATAGACATAAATTGAGCTCGC
* * * ** * ** * * * * *
61856869 TCACCTACCACTACAATTTC-CTTGCCTTCGCTGTTTCGTAAAATGACTCTTTTTCTGTTCCAAG
66 TCACCTACAACTACAACTTCAC-AGCCTTCAATATTTCACAAAGTGACTCGTTTT-AGTTCGAAA
* * * *
61856933 TCAATCTTGGCTTTATGCTCAGCCAACCAATCCATCCCCAAGATTACATCAAACACATAGAATGA
129 TCAATCTTGGCTATATGCTCAGCCAACCAATCCATCCCAAAGATTACATCAAACACATAAAATGG
* * * * * * *
61856998 AAAGTTCATCATGTTCAAGTCA-AAAACTTGCCCTTGGATAATTAACGGACA-C----CTACACT
194 AAACTCCATCAAGTTC--G-CAGAAAACTTGCCCTTGGATCACTAAAGGAAACCTTTGCTACACT
* * * * *
61857057 TTATTGACCAATATAGTGTCCCCAAACGAACTAGTGA-TAGTCACGCCCTTATCTATGGTTTCTA
256 TTATTGACCAATA-ACTGTCCACAAACAAACTAGTGACT-GTCACACCCTTATCTATAGTTTCTA
* * * * * *
61857121 CTAGAATTCCC-AACTCA-CACGTTAGTTCACTCAAAACATACGAGTGTGTGTAAAC-ATATTCA
319 CTAGAA-TCCCAAACTGACCA-GCTAGTTCACTCAAAACATACTAGTGCGTG-GAACTAGATTCA
* * * * * * *
61857183 ATCAAGGAAAAAGAAT-GAATAGTTCACAA-AGTGAATGTACTTGTGATAAAATCGGTCAAACCT
381 ATGAAGG-AAAACAATAGAATAGTTCA-AAGAGTGAAGGTAGTTGTGATAACATCGGTCAAGCCC
* * * * * * * * * *
61857246 TGATTTTGTGGTTCCCGTACAATATAGACTCATGCGAGGCCT-CCTAATACATCTTGAG-TAGTA
444 TGATCTTGTGGTTCCCTTACAACAAAGACTCGTGTGAAGCCTCCCGACT-CATCTT-AGCTAGCA
* * ** * * * * * *
61857309 ACAATGTAAGATTTAGTACATTGCCCAACTTGCCTTGTATTATTGCATCTTCATCAACCTCGTCC
507 AAAATGTGAGATAAAGTTC--TG--C--CTAG-CTCG------TCCTTCTTC-TCGACCTCGTCC
* * * * * * *
61857374 ACGAGTACCAACTCACACTTGGGT-GGGGTCATATTCTGCACTTGGGATTTTTCTTATCTCTCTA
558 ATGAGTACCAGCTCACACTTGGGTAGGGGTCACATTCT-CACTTGTGA-TTTTCATGTCTATCTA
* * *
61857438 GGCAATCATTTATCATATGGGAAATCTTCTTTCGTCTAGAAGCACATTAGGAAAGTTCCTCACAA
621 -GCATTCATTTATCATATGGGAAATCTT-TTTCGACTAGAAACACATTAGG-AAGTTCCTCACAA
* *
61857503 AAATAGATCTCGCAAACCCCTATAGCCTTGTCCTACAAACCCATAAAAAATGCGAGATAGGCTTT
683 AAATA-ATCTCGCAAACCCCTATAACCTTGTCCTACAAACCCATAAAAAATGCGAGATAGGCTTC
**
61857568 GT
747 AC
* * *
61857570 AGCCCTTACCCAACATCTTTTCTACTATCATTGTCATTATGGCATTAGACATAAATTGAGGTCGC
1 AGCCCTTACCCAACATCTTTTCTACTATCATTGTCAATATGGCAATAGACATAAATTGAGCTCGC
* * * * *** ** *
61857635 TCACCTACAACTATAATTTCCCAGCCTTCAATGTTTTGTAAAGTGACTTTTTTTAGTTTGAAATC
66 TCACCTACAACTACAACTTCACAGCCTTCAATATTTCACAAAGTGACTCGTTTTAGTTCGAAATC
* ** *
61857700 AATTTTGGCTATATGCTCAGCCAACCAATCTGTCCCAAAGATTACATCGAACACATAAAATGGAA
131 AATCTTGGCTATATGCTCAGCCAACCAATCCATCCCAAAGATTACATCAAACACATAAAATGGAA
** * * * *
61857765 ACTTTATCAAGTTCGCAGATAACTTGCCCTTGTATCACTAACGGAAACCTTTGCTATACTTTATT
196 ACTCCATCAAGTTCGCAGAAAACTTGCCCTTGGATCACTAAAGGAAACCTTTGCTACACTTTATT
*
61857830 GACCAATAACTGTCCCCAAACAAACTAGTGACTGTCACACCCTTATCTATAGTTTCTACTAGAAT
261 GACCAATAACTGTCCACAAACAAACTAGTGACTGTCACACCCTTATCTATAGTTTCTACTAGAAT
* *
61857895 TCCAAACTGACTAGCTAGTTCACTCAAAACATACTAGTGCGTGGAACTAGATTCAATGAAGGAAA
326 CCCAAACTGACCAGCTAGTTCACTCAAAACATACTAGTGCGTGGAACTAGATTCAATGAAGGAAA
** * * *
61857960 ACAATAGAATAGTTCGTAGAGTGAAGGTAGTTGTGATCACATTGGTCAAGCCCTGGTCTTGTGGT
391 ACAATAGAATAGTTCAAAGAGTGAAGGTAGTTGTGATAACATCGGTCAAGCCCTGATCTTGTGGT
* * ** *
61858025 TCCCTTACAACAAAGACTCGTGTGAGGTCTCCCGACTCATCTTAGCTAGCAACTATTTGAGATAA
456 TCCCTTACAACAAAGACTCGTGTGAAGCCTCCCGACTCATCTTAGCTAGCAAAAATGTGAGATAA
*
61858090 AGTTCACTGCCCAACTAGCATTGTATCGTGCCTTCTTCTCGACCTTGTCCATGAGTACCAGCTCA
521 AGTT--CTG--C--CTAGC------TCGT-CCTTCTTCTCGACCTCGTCCATGAGTACCAGCTCA
** ** * *
61858155 CAC--CCG-AGGGGATCACA-T-T---TTGTG-----CATGTC-AT-TTCCCTT-ATCTATC---
573 CACTTGGGTAGGGG-TCACATTCTCACTTGTGATTTTCATGTCTATCTAGCATTCATTTATCATA
* * * * * **
61858201 TGGGCAATCTTTTCTCGACTTGAAACACATTAGG-AGTGTCCTTGACAGTACAT-ATCTCGTGAA
637 TGGGAAATCTTTT-TCGACTAGAAACACATTAGGAAGT-TCC-TCACA-AAAATAATCTCGCAAA
* * * *
61858264 CCCCTATAACCTTGTCCTCCGAACCCATCAGAAATGC-AGGATAGGCTTCAC
698 CCCCTATAACCTTGTCCTACAAACCCATAAAAAATGCGA-GATAGGCTTCAC
* * ** *
61858315 AGCCCTTACCCAACGTCTTTTC-ACTTTTGTTGTCAATATGGCAATAGACATAAATTGAGCTTGC
1 AGCCCTTACCCAACATCTTTTCTACTATCATTGTCAATATGGCAATAGACATAAATTGAGCTCGC
* * * *
61858379 TCACCTACCACTACAACTTCACTGCCTTCACTATTTCACAAAGTGACTCGTTTTAGTTCGAAGTC
66 TCACCTACAACTACAACTTCACAGCCTTCAATATTTCACAAAGTGACTCGTTTTAGTTCGAAATC
* *
61858444 AATCTTGGCTTTATGCTCAGCCAACCAATCCATCCC-AA-ATTACATCAAACACATAGAAT-GAC
131 AATCTTGGCTATATGCTCAGCCAACCAATCCATCCCAAAGATTACATCAAACACATAAAATGGA-
* * *
61858506 AACTCCATCAAGTTCACGTAGAAAACTTTCCCTTGGATCACTAAAGGACACCTATT-CTACACTT
195 AACTCCATCAAGTT--CGCAGAAAACTTGCCCTTGGATCACTAAAGGAAACCT-TTGCTACACTT
* * ** *
61858570 TATTGACCAATATATTGTCCACAAACGAACTAGTGA-TAGTCATGCCCTTATCTATGGTTTCTAC
257 TATTGACCAATA-ACTGTCCACAAACAAACTAGTGACT-GTCACACCCTTATCTATAGTTTCTAC
* * ** *
61858634 TAGAATCCCCAACTGACCGGCTAGTTCGTTGAAAACATACTAGTGCGTGGAACTAGATTCAATGA
320 TAGAATCCCAAACTGACCAGCTAGTTCACTCAAAACATACTAGTGCGTGGAACTAGATTCAATGA
* * *
61858699 AGGAAAACAATGGAATAGTTCAAAGAGTGAAGTTATTTGTGATAACATCGGTCAAGCCCTGATCT
385 AGGAAAACAATAGAATAGTTCAAAGAGTGAAGGTAGTTGTGATAACATCGGTCAAGCCCTGATCT
* * * * * * *
61858764 TGTGGTTGCTTTACAACATAGACTCTTGTGAAGCCTCCTGACTCATCTTCGGTAGCAAAAATGTG
450 TGTGGTTCCCTTACAACAAAGACTCGTGTGAAGCCTCCCGACTCATCTTAGCTAGCAAAAATGTG
*
61858829 AGATAAAGTT-TG-CT-GC-C-T-C-T-TTCTCGACCTCGTCCATGAGTACCAGCTCGCACTTGG
515 AGATAAAGTTCTGCCTAGCTCGTCCTTCTTCTCGACCTCGTCCATGAGTACCAGCTCACACTTGG
* *
61858886 GTAGGGGTCACATTCTACACTTGTGATTTCTCCTGTCTATCTAGACATTCTTTTATCATATGGGA
580 GTAGGGGTCACATTCT-CACTTGTGATTT-TCATGTCTATCTAG-CATTCATTTATCATATGGGA
61858951 AATCTTT
642 AATCTTT
61858958 CTGGGCAATC
Statistics
Matches: 2315, Mismatches: 420, Indels: 328
0.76 0.14 0.11
Matches are distributed among these distances:
724 31 0.01
725 1 0.00
726 7 0.00
727 6 0.00
728 2 0.00
729 1 0.00
732 5 0.00
736 2 0.00
737 2 0.00
738 7 0.00
739 3 0.00
740 2 0.00
741 77 0.03
742 174 0.08
743 388 0.17
744 180 0.08
745 322 0.14
746 285 0.12
747 27 0.01
748 2 0.00
749 80 0.03
750 45 0.02
751 18 0.01
752 49 0.02
753 7 0.00
755 2 0.00
759 5 0.00
761 1 0.00
762 8 0.00
763 26 0.01
764 10 0.00
765 117 0.05
766 190 0.08
767 205 0.09
768 25 0.01
769 1 0.00
772 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (748 bp):
AGCCCTTACCCAACATCTTTTCTACTATCATTGTCAATATGGCAATAGACATAAATTGAGCTCGC
TCACCTACAACTACAACTTCACAGCCTTCAATATTTCACAAAGTGACTCGTTTTAGTTCGAAATC
AATCTTGGCTATATGCTCAGCCAACCAATCCATCCCAAAGATTACATCAAACACATAAAATGGAA
ACTCCATCAAGTTCGCAGAAAACTTGCCCTTGGATCACTAAAGGAAACCTTTGCTACACTTTATT
GACCAATAACTGTCCACAAACAAACTAGTGACTGTCACACCCTTATCTATAGTTTCTACTAGAAT
CCCAAACTGACCAGCTAGTTCACTCAAAACATACTAGTGCGTGGAACTAGATTCAATGAAGGAAA
ACAATAGAATAGTTCAAAGAGTGAAGGTAGTTGTGATAACATCGGTCAAGCCCTGATCTTGTGGT
TCCCTTACAACAAAGACTCGTGTGAAGCCTCCCGACTCATCTTAGCTAGCAAAAATGTGAGATAA
AGTTCTGCCTAGCTCGTCCTTCTTCTCGACCTCGTCCATGAGTACCAGCTCACACTTGGGTAGGG
GTCACATTCTCACTTGTGATTTTCATGTCTATCTAGCATTCATTTATCATATGGGAAATCTTTTT
CGACTAGAAACACATTAGGAAGTTCCTCACAAAAATAATCTCGCAAACCCCTATAACCTTGTCCT
ACAAACCCATAAAAAATGCGAGATAGGCTTCAC
Found at i:61864599 original size:47 final size:47
Alignment explanation
Indices: 61864456--61864622 Score: 173
Period size: 47 Copynumber: 3.6 Consensus size: 47
61864446 CCATAAGTGG
*
61864456 ACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACAA
1 ACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGA
* * * * * *
61864503 ACTCAGACTCAACTCCACGAGTTC--A-GAC--GTTCACATCCATAAGTGA
1 ACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-CGA
* *
61864549 ACTCGGACTCCACTCAAAGAGCTCGGATGCCTAGTTACATCTCACGA
1 ACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGA
*
61864596 ACTCGGACTCAACTCAACGAGTTCGGA
1 ACTCGGACTCAACTCAACGAGCTCGGA
61864623 CGTTCGAATC
Statistics
Matches: 93, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 3 0.03
45 3 0.03
46 20 0.22
47 47 0.51
48 3 0.03
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (47 bp):
ACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGA
Found at i:61864605 original size:93 final size:93
Alignment explanation
Indices: 61864446--61864672 Score: 357
Period size: 93 Copynumber: 2.4 Consensus size: 93
61864436 TGTTACCCAC
*
61864446 CCATAAGTGGACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACAAACTCAGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACAAACTCAGAC
*
61864511 TCAACTCCACGAGTTCAGACGTTC-ACAT
66 TCAACTCAACGAGTTCAGACGTTCGA-AT
* * * *
61864539 CCATAAGTGAACTCGGACTCCACTCAAAGAGCTCGGATGCCTAGTTACATCTCACGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACAAACTCAGAC
*
61864604 TCAACTCAACGAGTTCGGACGTTCGAAT
66 TCAACTCAACGAGTTCAGACGTTCGAAT
* *
61864632 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC
61864673 CAAATATCCG
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
93 121 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACAAACTCAGAC
TCAACTCAACGAGTTCAGACGTTCGAAT
Found at i:61864652 original size:46 final size:47
Alignment explanation
Indices: 61864502--61864668 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 47
61864492 ACATCTCACA
* *
61864502 AACTCAGACTCAACTCCACGAGTTCAGACGTTC-ACATCCATAAGTG
1 AACTCAGACTCAACTCAACGAGTTCGGACGTTCGACATCCATAAGTG
* * * * * * * * *
61864548 AACTCGGACTCCACTCAAAGAGCTCGGATGCCTAGTTACAT-C-TCA-CG
1 AACTCAGACTCAACTCAACGAGTTCGGACG-TTCG--ACATCCATAAGTG
*
61864595 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGA-ATCCATAAGTG
1 AACTCAGACTCAACTCAACGAGTTCGGACGTTCGACATCCATAAGTG
61864641 AACTCAGACTCAACTCAACGAGTTCGGA
1 AACTCAGACTCAACTCAACGAGTTCGGA
61864669 TGCCCAAATA
Statistics
Matches: 94, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 2 0.02
46 53 0.56
47 28 0.30
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (47 bp):
AACTCAGACTCAACTCAACGAGTTCGGACGTTCGACATCCATAAGTG
Found at i:61867155 original size:15 final size:15
Alignment explanation
Indices: 61867093--61867156 Score: 71
Period size: 14 Copynumber: 4.4 Consensus size: 15
61867083 TAAAGATAAC
*
61867093 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
61867107 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
61867122 GAGAAACCCAGAA-A
1 AAGAAATCCAGAATA
61867136 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
61867151 AAGAAA
1 AAGAAA
61867157 CCCAAGATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
14 21 0.51
15 19 0.46
16 1 0.02
ACGTcount: A:0.62, C:0.14, G:0.16, T:0.08
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:61868602 original size:21 final size:19
Alignment explanation
Indices: 61868567--61868604 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
61868557 TCATCTCACG
61868567 TGTTATCACATATATATAT
1 TGTTATCACATATATATAT
61868586 TGTTATCACATATATATAT
1 TGTTATCACATATATATAT
61868605 CATAAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (19 bp):
TGTTATCACATATATATAT
Found at i:61870268 original size:47 final size:47
Alignment explanation
Indices: 61870200--61870368 Score: 166
Period size: 47 Copynumber: 3.6 Consensus size: 47
61870190 ATCCATAAGT
* *
61870200 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTATATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAATCTCAC
* * * * ** * *
61870247 GAACTCGGACTCAACTGAACGAGTTCAGA--CGT--TTGCATGCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAAT-C-TCA-C
* *
61870293 GAACTCGGACTCCACTCAATGAGCTCGGATGCCTAGTTAAATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAATCTCAC
*
61870340 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
61870369 CGTTCGCATC
Statistics
Matches: 93, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 4 0.04
46 24 0.26
47 51 0.55
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAATCTCAC
Found at i:61870324 original size:93 final size:93
Alignment explanation
Indices: 61870185--61870420 Score: 375
Period size: 93 Copynumber: 2.5 Consensus size: 93
61870175 AGCTCGGGCA
* * * *
61870185 TTCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTATATCTCACGAA
1 TTCGCATCCATAAGTGAACTCGGACTCCACTCAATGAGCTCGGATGCCTAGTTAAATCTCACGAA
*
61870250 CTCGGACTCAACTGAACGAGTTCAGACG
66 CTCGGACTCAACTCAACGAGTTCAGACG
* *
61870278 TTTGCATGCATAAGTGAACTCGGACTCCACTCAATGAGCTCGGATGCCTAGTTAAATCTCACGAA
1 TTCGCATCCATAAGTGAACTCGGACTCCACTCAATGAGCTCGGATGCCTAGTTAAATCTCACGAA
*
61870343 CTCGGACTCAACTCAACGAGTTCGGACG
66 CTCGGACTCAACTCAACGAGTTCAGACG
*
61870371 TTCGCATCCATAAGTGAACTCGAACTCCACTCAATGAG-TCCGGATGCCTA
1 TTCGCATCCATAAGTGAACTCGGACTCCACTCAATGAGCT-CGGATGCCTA
61870421 AATATCCGAA
Statistics
Matches: 131, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
92 1 0.01
93 130 0.99
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
TTCGCATCCATAAGTGAACTCGGACTCCACTCAATGAGCTCGGATGCCTAGTTAAATCTCACGAA
CTCGGACTCAACTCAACGAGTTCAGACG
Found at i:61872902 original size:15 final size:15
Alignment explanation
Indices: 61872837--61872905 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
61872827 TAAAGATAAC
*
61872837 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
61872851 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
61872866 GAGAAACCCAGAAAA
1 AAGAAATCCAGAATA
61872881 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
61872896 AAGAAATCCA
1 AAGAAATCCA
61872906 AGATATGATA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
14 9 0.20
15 35 0.78
16 1 0.02
ACGTcount: A:0.61, C:0.16, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:61875955 original size:47 final size:47
Alignment explanation
Indices: 61875886--61876059 Score: 196
Period size: 47 Copynumber: 3.7 Consensus size: 47
61875876 CGCCCATAAG
61875886 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
* * * * *
61875933 CGAACTCAGACTCAACTCAACGAGTTC--A-GAC--GTTCGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA
* *
61875978 GTGAACTCGGACTCCACTCAACGAGCTCGGATGCCTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
* *
61876026 CGAACTCGGACTCAACTCAACGAGTTTGGATGCC
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGCC
61876060 CAAATATCTG
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 3 0.03
45 3 0.03
46 23 0.23
47 55 0.54
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (47 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:61876038 original size:93 final size:93
Alignment explanation
Indices: 61875879--61876051 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
61875869 TGTAACCCGC
61875879 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCAGAC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCAGAC
61875944 TCAACTCAACGAGTTCAGACGTTCGCAT
66 TCAACTCAACGAGTTCAGACGTTCGCAT
* * *
61875972 CCATAAGTGAACTCGGACTCCACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCGGAC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCAGAC
61876037 TCAACTCAACGAGTT
66 TCAACTCAACGAGTT
61876052 TGGATGCCCA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.21
Consensus pattern (93 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCAGAC
TCAACTCAACGAGTTCAGACGTTCGCAT
Found at i:61877996 original size:15 final size:15
Alignment explanation
Indices: 61877968--61878002 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
61877958 TCCATTTTCT
61877968 TTATTCTTTCTTTTA
1 TTATTCTTTCTTTTA
61877983 TTATT-TTTCATTTTA
1 TTATTCTTTC-TTTTA
61877998 TTATT
1 TTATT
61878003 ATAACATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTCTTTCTTTTA
Found at i:61886318 original size:17 final size:19
Alignment explanation
Indices: 61886297--61886413 Score: 70
Period size: 19 Copynumber: 6.2 Consensus size: 19
61886287 ATTATATAAC
61886297 ATTTATTATATT-TTTATT
1 ATTTATTATATTATTTATT
61886315 -TTTATTCTATATTATTTATT
1 ATTTA-T-TATATTATTTATT
*
61886335 ATTT-TTATAGGTTATATA-T
1 ATTTATTATA--TTATTTATT
* *
61886354 A-TCA-TATATTATCTATT
1 ATTTATTATATTATTTATT
61886371 ATATTATT-TATGT-TTATATT
1 AT-TTATTATAT-TATT-TATT
* *
61886391 ATTCATTATATTATTTATA
1 ATTTATTATATTATTTATT
61886410 ATTT
1 ATTT
61886414 TAAAATTTGT
Statistics
Matches: 76, Mismatches: 8, Indels: 29
0.67 0.07 0.26
Matches are distributed among these distances:
16 6 0.08
17 6 0.08
18 10 0.13
19 26 0.34
20 25 0.33
21 3 0.04
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
ATTTATTATATTATTTATT
Found at i:61886319 original size:31 final size:30
Alignment explanation
Indices: 61886283--61886340 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
61886273 TTAAAATATA
61886283 TTTTATTATATAACATTTATTATATTTTTAT
1 TTTTATTATATAACATTTATTAT-TTTTTAT
* **
61886314 TTTTATTCTATATTATTTATTATTTTT
1 TTTTATTATATAACATTTATTATTTTT
61886341 ATAGGTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTTATTATATAACATTTATTATTTTTTAT
Found at i:61909818 original size:53 final size:53
Alignment explanation
Indices: 61909619--61909825 Score: 180
Period size: 53 Copynumber: 3.8 Consensus size: 53
61909609 ATTAGGGTTT
* * * * *
61909619 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTAACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAG-TTCATAAGGC
* * ** * * * * *
61909673 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGT-AAGTTC-ATAAGGC
* * * * * *
61909728 AAAGATCCCATGTAAGACCGTGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCATAAGGC
* * *
61909781 AAGGATACCACGTAAGACTATGTCAAGACATGACAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTT
61909826 TAAAAAGGAA
Statistics
Matches: 117, Mismatches: 34, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
53 43 0.37
54 36 0.31
55 38 0.32
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCATAAGGC
Found at i:61915168 original size:8 final size:8
Alignment explanation
Indices: 61915155--61915206 Score: 79
Period size: 8 Copynumber: 6.6 Consensus size: 8
61915145 CTATTTCAAA
61915155 AAAAAAAG
1 AAAAAAAG
61915163 AAAAAAAG
1 AAAAAAAG
61915171 AAAAAAA-
1 AAAAAAAG
*
61915178 AAGAAAAG
1 AAAAAAAG
*
61915186 AAAAAGAG
1 AAAAAAAG
61915194 AAAAAAAG
1 AAAAAAAG
61915202 AAAAA
1 AAAAA
61915207 TGGAGAGGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
7 6 0.15
8 33 0.85
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:61915184 original size:23 final size:22
Alignment explanation
Indices: 61915152--61915206 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 22
61915142 CTTCTATTTC
61915152 AAAAAAAAAAGAAAAAAAGAAA
1 AAAAAAAAAAGAAAAAAAGAAA
*
61915174 AAAAAAGAAAAGAAAAAGAGAAA
1 AAAAAA-AAAAGAAAAAAAGAAA
*
61915197 AAAAGAAAAA
1 AAAAAAAAAA
61915207 TGGAGAGGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 10 0.33
23 20 0.67
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAGAAAAAAAGAAA
Found at i:61916192 original size:43 final size:43
Alignment explanation
Indices: 61916145--61916287 Score: 137
Period size: 43 Copynumber: 3.3 Consensus size: 43
61916135 CGCCTTAATC
61916145 CCCTAAGCAGTAGAGTAACAGG-CTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGAGTAACAGGTC-AAAATTACAGATCTTATCT
* * * * * ** *
61916188 CCCTAAGCAGTAGCGGAACAGATCAACGATGACTCACCTTAATC-
1 CCCTAAGCAGTAGAGTAACAGGTCAA-AATTACAGATCTT-ATCT
* * * *
61916232 CCCTAAGCAATAGGGTAACAGGTCAAAATTGCGGATCTTATCT
1 CCCTAAGCAGTAGAGTAACAGGTCAAAATTACAGATCTTATCT
61916275 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
61916288 TGGAGCAGAT
Statistics
Matches: 77, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
42 3 0.04
43 40 0.52
44 31 0.40
45 3 0.04
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (43 bp):
CCCTAAGCAGTAGAGTAACAGGTCAAAATTACAGATCTTATCT
Found at i:61916283 original size:87 final size:85
Alignment explanation
Indices: 61916137--61916342 Score: 285
Period size: 87 Copynumber: 2.4 Consensus size: 85
61916127 AAATTCAGCG
*
61916137 CCTTAATCCCCTAAGCAGTAGAGTAACAGG-CTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
61916201 CGGAACAGATC-AACGATGACTCA
66 CGGAACAGATCGAA-GATG---CA
* * *
61916224 CCTTAATCCCCTAAGCAATAGGGTAACAGGTC-AAAATTGCGGATCTTATCTCCCTAAGCAGTAG
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* *
61916288 TGGAGCAGATCGAAGATGCA
66 CGGAACAGATCGAAGATGCA
*
61916308 CCTTAAACCCCTAAGCAGTAGGGTAACAGGT-TAAA
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAA
61916343 GTATAGCAGA
Statistics
Matches: 108, Mismatches: 8, Indels: 9
0.86 0.06 0.07
Matches are distributed among these distances:
84 34 0.31
87 71 0.66
88 3 0.03
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (85 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
CGGAACAGATCGAAGATGCA
Found at i:61916873 original size:289 final size:289
Alignment explanation
Indices: 61916374--61917027 Score: 1085
Period size: 289 Copynumber: 2.3 Consensus size: 289
61916364 GGTGCTCACG
* * * *
61916374 CTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGAACATAACAT
1 CTGAAGTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAG
*
61916439 ATTTGACTCTCAGATGTTCTCAAACAAATCCAAGATGATTTGGTATCCTTGTGTTTGCAAGGAAC
66 ATTTGACTCTCAGATGTTCACAAACAAATCCAAGATGATTTGGTATCCTTGTGTTTGCAAGGAAC
*
61916504 AAATCAGACACAGAGCTGATTTGGCTTTCAAGTGTTTACACTGAAGCAAATCTAAGATTATTTGG
131 AAATCAGACACAGAGCTGATTTGGCTTTCAAGTGTTTACACTGAAGCAAATCTAAGATGATTTGG
* * * *
61916569 CATCTCTGCATTGTTAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAAACGC
196 CATCTATGCATTGTTAGAGAACAAATCAAAGTTTGGCGTCTCCATATCCGACAGAGAGCAAACGC
61916634 ATGGCAGATCTAACCTTCAGATGTTTATA
261 ATGGCAGATCTAACCTTCAGATGTTTATA
*
61916663 CTGAAGTAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAG
1 CTGAAGTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAG
61916728 ATTTGACTCTCAGATGTTCACAAACAAATCCAAGATGATTTGGTATCCTTGTGTTTGCAAGGAAC
66 ATTTGACTCTCAGATGTTCACAAACAAATCCAAGATGATTTGGTATCCTTGTGTTTGCAAGGAAC
** *
61916793 AAATC-GAACACATTGCTGATTTGGCTTTCACGTGTTTACACTGAAGCAAATCTAAGATGATTTG
131 AAATCAG-ACACAGAGCTGATTTGGCTTTCAAGTGTTTACACTGAAGCAAATCTAAGATGATTTG
* * * *
61916857 GCATCTATGTATTGTTAGATAACAAATCGAAGTTTGGCGTCTCCATATCCGACAGAGAGCAGACG
195 GCATCTATGCATTGTTAGAGAACAAATCAAAGTTTGGCGTCTCCATATCCGACAGAGAGCAAACG
61916922 CATGGCAGATCTAACCTTCAGATGTTTATA
260 CATGGCAGATCTAACCTTCAGATGTTTATA
* * * * *
61916952 CTGAAGTAGATCCTAGATGATTTGGCATTCTTATGTTAACAAGGAACAAATCAAAGACATAGCAG
1 CTGAAGTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAG
61917017 ATTTGACTCTC
66 ATTTGACTCTC
61917028 GAGGTCCTCA
Statistics
Matches: 340, Mismatches: 24, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
288 1 0.00
289 339 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (289 bp):
CTGAAGTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAG
ATTTGACTCTCAGATGTTCACAAACAAATCCAAGATGATTTGGTATCCTTGTGTTTGCAAGGAAC
AAATCAGACACAGAGCTGATTTGGCTTTCAAGTGTTTACACTGAAGCAAATCTAAGATGATTTGG
CATCTATGCATTGTTAGAGAACAAATCAAAGTTTGGCGTCTCCATATCCGACAGAGAGCAAACGC
ATGGCAGATCTAACCTTCAGATGTTTATA
Found at i:61918823 original size:12 final size:11
Alignment explanation
Indices: 61918797--61918865 Score: 56
Period size: 12 Copynumber: 6.4 Consensus size: 11
61918787 CAATCCTGTA
61918797 ATATTA-TATTT
1 ATATTATTA-TT
61918808 ATATTATTCATT
1 ATATTATT-ATT
61918820 ATATTATTATT
1 ATATTATTATT
61918831 ATA-TATT-TT
1 ATATTATTATT
* **
61918840 ATCTATAAAATT
1 ATAT-TATTATT
61918852 ATATT-TTATT
1 ATATTATTATT
61918862 ATAT
1 ATAT
61918866 ATTTCCTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
9 4 0.09
10 11 0.23
11 15 0.32
12 16 0.34
13 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTATTATT
Found at i:61918856 original size:44 final size:44
Alignment explanation
Indices: 61918806--61918912 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 44
61918796 AATATTATAT
61918806 TTATATTATTCATTATATTA-TT-ATTATA-TATTTTATCTATAAAA
1 TTATATTATTCATTATATTATTTCATTATATTATTTTA--T-TAAAA
*
61918850 TTATATT-TT-ATTATA-TATTTCCTTATATTATTTTATTAAAA
1 TTATATTATTCATTATATTATTTCATTATATTATTTTATTAAAA
61918891 TTATGCATTATTCATTAATATT
1 TTAT--ATTATTCATT-ATATT
61918913 GTAAATATTT
Statistics
Matches: 53, Mismatches: 1, Indels: 15
0.77 0.01 0.22
Matches are distributed among these distances:
41 11 0.21
42 9 0.17
43 10 0.19
44 16 0.30
45 3 0.06
46 3 0.06
47 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.58
Consensus pattern (44 bp):
TTATATTATTCATTATATTATTTCATTATATTATTTTATTAAAA
Found at i:61925033 original size:1 final size:1
Alignment explanation
Indices: 61925027--61925076 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
61925017 TTCTATTTCG
* * * * *
61925027 AAAAAAAAGAAAAAAAAGAAAAAAAGAAAAAAAAAAGAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
61925077 TGGAGAGGCC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (1 bp):
A
Found at i:61925040 original size:9 final size:9
Alignment explanation
Indices: 61925026--61925076 Score: 77
Period size: 9 Copynumber: 5.7 Consensus size: 9
61925016 CTTCTATTTC
61925026 GAAAAAAAA
1 GAAAAAAAA
61925035 GAAAAAAAA
1 GAAAAAAAA
61925044 G-AAAAAAA
1 GAAAAAAAA
61925052 GAAAAAAAA
1 GAAAAAAAA
*
61925061 AAGAAAAAAA
1 GA-AAAAAAA
61925071 GAAAAA
1 GAAAAA
61925077 TGGAGAGGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
8 8 0.21
9 22 0.58
10 8 0.21
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:61925041 original size:8 final size:8
Alignment explanation
Indices: 61925028--61925076 Score: 62
Period size: 8 Copynumber: 5.6 Consensus size: 8
61925018 TCTATTTCGA
61925028 AAAAAAAG
1 AAAAAAAG
61925036 AAAAAAAAG
1 -AAAAAAAG
61925045 AAAAAAAG
1 AAAAAAAG
61925053 AAAAAAAAAAG
1 ---AAAAAAAG
61925064 AAAAAAAG
1 AAAAAAAG
61925072 AAAAA
1 AAAAA
61925077 TGGAGAGGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
8 21 0.57
9 8 0.22
11 8 0.22
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:61925071 original size:19 final size:19
Alignment explanation
Indices: 61925026--61925076 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
61925016 CTTCTATTTC
*
61925026 GAAAAAAA-AGAAAAAAAA
1 GAAAAAAAGAAAAAAAAAA
61925044 GAAAAAAAGAAAAAAAAAA
1 GAAAAAAAGAAAAAAAAAA
61925063 GAAAAAAAGAAAAA
1 GAAAAAAAGAAAAA
61925077 TGGAGAGGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 8 0.26
19 23 0.74
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (19 bp):
GAAAAAAAGAAAAAAAAAA
Found at i:61926064 original size:43 final size:42
Alignment explanation
Indices: 61926017--61926158 Score: 119
Period size: 44 Copynumber: 3.3 Consensus size: 42
61926007 CGCCTTAATC
61926017 CCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGG-TAAAATTACAGATCTTATCT
* * * * * *
61926060 CCCTAAACAGTAGCGG-AACAGATCAACGATGACTTG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-AA-AATTAC-AGATCTT-ATCT
* * * *
61926104 CCTTAAGCAGTAGGGTAACAGGTCAAATTGCGGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTAAAATTACAGATCTTATCT
61926146 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
61926159 TGGAGCAGAT
Statistics
Matches: 75, Mismatches: 16, Indels: 17
0.69 0.15 0.16
Matches are distributed among these distances:
41 4 0.05
42 19 0.25
43 22 0.29
44 26 0.35
45 4 0.05
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGTAAAATTACAGATCTTATCT
Found at i:61926226 original size:86 final size:84
Alignment explanation
Indices: 61926006--61926226 Score: 277
Period size: 86 Copynumber: 2.6 Consensus size: 84
61925996 ACAAAATTCA
*
61926006 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAATTA-CAGATCTTATCTCCCTAAACAG
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-TTAAATTAGCAGATCTTATCTCCCTAAACAG
61926070 TAGCGGAACAGATCAACGAT
65 TAGCGGAACAGATCAACGAT
* * * *
61926090 GACTTGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTCAAATT-GCGGATCTTATCTCCCTAAGC
1 G-C--GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTAGCAGATCTTATCTCCCTAAAC
* *
61926154 AGTAGTGGAGCAGATCGAA-GAT
63 AGTAGCGGAACAGATC-AACGAT
* *
61926176 GCGCCTTAACCCCCTAAGTAGTAGGGTAACAGGTTAAAGTATAGCAGATCT
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA-T-TAGCAGATCT
61926227 GGCCTTCAGG
Statistics
Matches: 118, Mismatches: 11, Indels: 14
0.83 0.08 0.10
Matches are distributed among these distances:
83 32 0.27
84 2 0.02
85 3 0.03
86 49 0.42
87 32 0.27
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (84 bp):
GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTAGCAGATCTTATCTCCCTAAACAGT
AGCGGAACAGATCAACGAT
Found at i:61928543 original size:12 final size:12
Alignment explanation
Indices: 61928521--61928601 Score: 66
Period size: 12 Copynumber: 7.0 Consensus size: 12
61928511 TATTATCCAT
61928521 TATATTATTATTA
1 TATATT-TTATTA
61928534 TATATTTTATCTA
1 TATATTTTAT-TA
*
61928547 TA-A---AATTA
1 TATATTTTATTA
61928555 T--ATTTTATTA
1 TATATTTTATTA
61928565 TATATTTTATTA
1 TATATTTTATTA
**
61928577 TATATTTCCTTA
1 TATATTTTATTA
61928589 TATTATTTTATTA
1 TA-TATTTTATTA
61928602 AAATTATGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
7 1 0.02
8 3 0.05
9 2 0.04
10 5 0.09
12 26 0.47
13 18 0.33
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:61928563 original size:31 final size:31
Alignment explanation
Indices: 61928519--61928578 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
61928509 TATATTATCC
61928519 ATTATATTATTATTATATATTTTATCTATAAA
1 ATTATATTATTATTATATATTTTAT-TATAAA
61928551 ATTATATT-TTATTATATATTTTATTATA
1 ATTATATTATTATTATATATTTTATTATA
61928579 TATTTCCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 4 0.14
31 16 0.57
32 8 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (31 bp):
ATTATATTATTATTATATATTTTATTATAAA
Found at i:61928574 original size:19 final size:19
Alignment explanation
Indices: 61928523--61928574 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
61928513 TTATCCATTA
*
61928523 TATTAT-TATTATATATTT
1 TATTATATATTTTATATTT
**
61928541 TATCTATA-AAATTATATTT
1 TAT-TATATATTTTATATTT
61928560 TATTATATATTTTAT
1 TATTATATATTTTAT
61928575 TATATATTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTATATATTTTATATTT
Found at i:61928590 original size:34 final size:35
Alignment explanation
Indices: 61928499--61928599 Score: 99
Period size: 31 Copynumber: 3.0 Consensus size: 35
61928489 CAATCATGTA
*
61928499 ATATTATATT-TATATTATCCATTATATTATTATTAT
1 ATATTTTATTATATATT-TCC-TTATATTATTATTAT
**
61928535 ATATTTTATCTATA-A---AATTATATT-TTATTAT
1 ATATTTTAT-TATATATTTCCTTATATTATTATTAT
61928566 ATATTTTATTATATATTTCCTTATATTATT-TTAT
1 ATATTTTATTATATATTTCCTTATATTATTATTAT
61928600 TAAAATTATG
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
30 4 0.08
31 17 0.32
32 7 0.13
34 11 0.21
35 2 0.04
36 8 0.15
37 2 0.04
38 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (35 bp):
ATATTTTATTATATATTTCCTTATATTATTATTAT
Found at i:61928719 original size:16 final size:15
Alignment explanation
Indices: 61928698--61928732 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
61928688 TTATAGTATC
61928698 TATATTACATTTATAT
1 TATATTACATTTA-AT
*
61928714 TATATTATATTTAAT
1 TATATTACATTTAAT
61928729 TATA
1 TATA
61928733 AATTATTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATTACATTTAAT
Found at i:61931961 original size:40 final size:40
Alignment explanation
Indices: 61931917--61932178 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
61931907 GCTCCTCGTT
* *
61931917 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
61931957 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61931997 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
61932036 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61932075 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
61932114 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
61932155 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61932179 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 64 0.32
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:61937065 original size:53 final size:53
Alignment explanation
Indices: 61936869--61937075 Score: 198
Period size: 53 Copynumber: 3.8 Consensus size: 53
61936859 ATTAGGGTTT
* * * * * *
61936869 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * *
61936923 AAGGAAATCATGTAAGACCATGCCAAGACATTGCATTGATAAACTACTATAACGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
61936978 AAAGATCCCATGTAAGACCGTGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
61937031 AAGGATACCATGTAAGATCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
61937076 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 32, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 44 0.37
54 37 0.31
55 38 0.32
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:61942515 original size:90 final size:89
Alignment explanation
Indices: 61942347--61942518 Score: 195
Period size: 90 Copynumber: 1.9 Consensus size: 89
61942337 TTTTACGCTT
* * * ** *
61942347 AATTGGGTACTTAAATTTTCAAACTGTATCGAAAAGACCCTCAACTTTTTAAAAAAAAAGTTAAG
1 AATTAGGTACTTAAACTTTCAAAATGTATAAAAAAGACCCTCAACTTTTCAAAAAAAAAGTTAAG
** *
61942412 CTTTTATTCTTTTTTTTTTGAACTC
66 CCATTA-TATTTTTTTTTTGAACTC
* *
61942437 AATTAGGTATTTAAACTTTCAAAATGTATAAAAAAGACCCTCAAACATTTTCAAAAAAGGAA-TT
1 AATTAGGTACTTAAACTTTCAAAATGTATAAAAAAGACCCTC-AAC-TTTTCAAAAAA-AAAGTT
61942501 AAGCCATTA-ATTTTTTTT
63 AAGCCATTATATTTTTTTT
61942519 CACTTAATTG
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
90 44 0.65
91 3 0.04
92 19 0.28
93 2 0.03
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.38
Consensus pattern (89 bp):
AATTAGGTACTTAAACTTTCAAAATGTATAAAAAAGACCCTCAACTTTTCAAAAAAAAAGTTAAG
CCATTATATTTTTTTTTTGAACTC
Found at i:61943025 original size:9 final size:9
Alignment explanation
Indices: 61942985--61943186 Score: 72
Period size: 9 Copynumber: 21.6 Consensus size: 9
61942975 CGATAATTTT
61942985 TTTTTATAA
1 TTTTTATAA
* *
61942994 ATTTTATAT
1 TTTTTATAA
* *
61943003 TTCTTTACAT
1 TT-TTTATAA
61943013 TTTTTATAA
1 TTTTTATAA
*
61943022 TTTTCTTATGA
1 -TTT-TTATAA
61943033 -TTTTATAAA
1 TTTTTAT-AA
*
61943042 ATTTTATAA
1 TTTTTATAA
*
61943051 TTTTTTTCTATA
1 --TTTTTATA-A
*
61943063 TTTCTAT-A
1 TTTTTATAA
*
61943071 TATTTTATAT
1 T-TTTTATAA
**
61943081 TTTTTACGA
1 TTTTTATAA
*
61943090 TTTTTCTAA
1 TTTTTATAA
61943099 TTTTTAATAA
1 TTTTT-ATAA
**
61943109 AATTTA-AA
1 TTTTTATAA
*
61943117 TATTTTAT-T
1 T-TTTTATAA
61943126 TTTTTATTAAA
1 TTTTTA-T-AA
* *
61943137 ATTTAATAA
1 TTTTTATAA
61943146 TTTTTATAA
1 TTTTTATAA
*
61943155 TTTTTATTGA
1 TTTTTA-TAA
*
61943165 TTTTTAT-T
1 TTTTTATAA
*
61943173 TTTTTATCA
1 TTTTTATAA
61943182 TTTTT
1 TTTTT
61943187 TGACACATGT
Statistics
Matches: 141, Mismatches: 34, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
8 20 0.14
9 67 0.48
10 38 0.27
11 15 0.11
12 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:61948801 original size:24 final size:23
Alignment explanation
Indices: 61948748--61948809 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
61948738 GAAAATCCAA
61948748 TGCACTATGTGTGCGGTCTACTAT
1 TGCACTATGTGTGCGGTCTAC-AT
* *
61948772 TCCACTATGTGTGCGAGTGTA-AT
1 TGCACTATGTGTGCG-GTCTACAT
61948795 TAGCACTATGTGTGC
1 T-GCACTATGTGTGC
61948810 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 3 0.09
24 26 0.79
25 4 0.12
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (23 bp):
TGCACTATGTGTGCGGTCTACAT
Found at i:61956777 original size:24 final size:23
Alignment explanation
Indices: 61956723--61956785 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
61956713 AGAAAATCCA
*
61956723 ATGCACTATGTGTGCGGTTTACT
1 ATGCACTATGTGTGCGGTTAACT
*
61956746 ATGCCACTATGTGTGCGAGTGTAATT
1 ATG-CACTATGTGTGCG-GT-TAACT
61956772 A-GCACTATGTGTGC
1 ATGCACTATGTGTGC
61956786 AAATACGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 3 0.09
24 25 0.71
25 3 0.09
26 4 0.11
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (23 bp):
ATGCACTATGTGTGCGGTTAACT
Found at i:61958722 original size:24 final size:24
Alignment explanation
Indices: 61958695--61958840 Score: 107
Period size: 24 Copynumber: 6.1 Consensus size: 24
61958685 AGGCACCCTC
*
61958695 GAATACACCACAAAGACATTTACA
1 GAATACACCACAAAGACACTTACA
* *
61958719 GAATACACCAGAAAGACACTTATA
1 GAATACACCACAAAGACACTTACA
* *
61958743 GAATACACCACAAAGGCAGTTACA
1 GAATACACCACAAAGACACTTACA
** * *
61958767 -AATTATGCCACAAAGGCACTAACA
1 GAA-TACACCACAAAGACACTTACA
* ** * * *
61958791 TAATATGCCATAAA-ACAATTATA
1 GAATACACCACAAAGACACTTACA
* *
61958814 GAGTACACCACAAAGGGCACTTACA
1 GAATACACCACAAA-GACACTTACA
61958839 GA
1 GA
61958841 GTATGCCATG
Statistics
Matches: 94, Mismatches: 24, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
23 16 0.17
24 68 0.72
25 10 0.11
ACGTcount: A:0.47, C:0.23, G:0.13, T:0.17
Consensus pattern (24 bp):
GAATACACCACAAAGACACTTACA
Found at i:61963393 original size:12 final size:12
Alignment explanation
Indices: 61963377--61963676 Score: 81
Period size: 12 Copynumber: 25.4 Consensus size: 12
61963367 TCATATATTT
61963377 TTATTATATATA
1 TTATTATATATA
61963389 TTATT-TAT-T-
1 TTATTATATATA
* * *
61963398 CTGTTATATTTA
1 TTATTATATATA
61963410 -TATT-TATATTA
1 TTATTATATA-TA
* *
61963421 TATGTTATATATTT
1 T-TATTATATA-TA
61963435 TTATTATATATTA
1 TTATTATATA-TA
*
61963448 TTTATTTTACTATA
1 -TTATTATA-TATA
*
61963462 TTTTTATAT-TA
1 TTATTATATATA
61963473 TTATTAT-TATTA
1 TTATTATATA-TA
*
61963485 TTATTTTATATA
1 TTATTATATATA
*
61963497 TTCCTTAT-TATA
1 TT-ATTATATATA
*
61963509 TTATATTTCATTATA
1 TTAT-TAT-A-TATA
*
61963524 TT-TTATCTACATA
1 TTATTA--TATATA
* *
61963537 TTTTTAT-TACA
1 TTATTATATATA
61963548 -TATTATAT-T-
1 TTATTATATATA
61963557 TTATTATATATTA
1 TTATTATATA-TA
61963570 TTCATTATA-ATA
1 TT-ATTATATATA
* *
61963582 TCT-TTCT-T-TC
1 T-TATTATATATA
61963592 TT-TTATATATA
1 TTATTATATATA
*
61963603 TTATATCATATACA
1 TTAT-T-ATATATA
61963617 TT-TTAT-TATA
1 TTATTATATATA
*
61963627 TATATT-TTTATA
1 T-TATTATATATA
61963639 TTATT-TAT-TA
1 TTATTATATATA
* *
61963649 -TATGATTTATA
1 TTATTATATATA
*
61963660 TTATTATATATT
1 TTATTATATATA
61963672 TTATT
1 TTATT
61963677 TGTAAATTAT
Statistics
Matches: 214, Mismatches: 35, Indels: 78
0.65 0.11 0.24
Matches are distributed among these distances:
9 10 0.05
10 32 0.15
11 39 0.18
12 53 0.25
13 36 0.17
14 35 0.16
15 9 0.04
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.63
Consensus pattern (12 bp):
TTATTATATATA
Found at i:61963416 original size:36 final size:36
Alignment explanation
Indices: 61963361--61963571 Score: 124
Period size: 36 Copynumber: 5.9 Consensus size: 36
61963351 TTTTTAAAAT
*
61963361 TTTTTATCATATATT-TTTATTATATATATTATTTA
1 TTTTTATTATATATTATTTATTATATATATTATTTA
* * *
61963396 TTCTGTTA-TATTTA-TATTTA-TATTATATGTTATATA
1 TT-T-TTATTATATATTATTTATTA-TATATATTATTTA
*
61963432 TTTTTATTATATATTATTTATTTTACTATATT-TTTA
1 TTTTTATTATATATTATTTATTATA-TATATTATTTA
* **
61963468 TATTATTATTAT-TATTA-TTATTTTATATATTCCTTA
1 T-TT-TTATTATATATTATTTATTATATATATTATTTA
* * **
61963504 -TTATATTATAT-TTCATTATATT-T-TAT-CTACATA
1 TTTTTATTATATATT-ATT-TATTATATATATTATTTA
*
61963537 TTTTTATTACATATTATATT-TTATTATATATTATT
1 TTTTTATTATATATTAT-TTATTA-TATATATTATT
61963572 CATTATAATA
Statistics
Matches: 136, Mismatches: 18, Indels: 42
0.69 0.09 0.21
Matches are distributed among these distances:
33 14 0.10
34 22 0.16
35 23 0.17
36 52 0.38
37 18 0.13
38 7 0.05
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (36 bp):
TTTTTATTATATATTATTTATTATATATATTATTTA
Found at i:61963431 original size:20 final size:18
Alignment explanation
Indices: 61963369--61963570 Score: 100
Period size: 17 Copynumber: 11.1 Consensus size: 18
61963359 ATTTTTTATC
61963369 ATATATTTTTATTATATATATT
1 ATATA-TTTTA-T-TATAT-TT
* * *
61963391 ATTTATTCTGTTATATTT
1 ATATATTTTATTATATTT
*
61963409 ATAT-TTATATTATATGTT
1 ATATATTTTATTATAT-TT
61963427 ATATATTTTTATTATATATT
1 ATATA-TTTTATTATAT-TT
* *
61963447 ATTTATTTTACTATATTT
1 ATATATTTTATTATATTT
*
61963465 TTATATTATTATTAT-TATT
1 ATATATT-TTATTATAT-TT
*
61963484 AT-TATTTTA-TATATTC
1 ATATATTTTATTATATTT
* *
61963500 CT-TATTATATTATATTT
1 ATATATTTTATTATATTT
* *
61963517 CATTATATTTTA-TCTA--C
1 -A-TATATTTTATTATATTT
* *
61963534 ATAT-TTTTATTACATAT
1 ATATATTTTATTATATTT
61963551 -TATATTTTATTATATATT
1 ATATATTTTATTATAT-TT
61963569 AT
1 AT
61963571 TCATTATAAT
Statistics
Matches: 137, Mismatches: 27, Indels: 35
0.69 0.14 0.18
Matches are distributed among these distances:
14 5 0.04
15 5 0.04
16 15 0.11
17 29 0.21
18 24 0.18
19 29 0.21
20 23 0.17
21 3 0.02
22 4 0.03
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (18 bp):
ATATATTTTATTATATTT
Found at i:61963462 original size:56 final size:55
Alignment explanation
Indices: 61963369--61963677 Score: 179
Period size: 52 Copynumber: 5.5 Consensus size: 55
61963359 ATTTTTTATC
* *
61963369 ATATATTTTTATTATATATATTATTTATTCTGTTATATTTATATTTATATTATATGTT
1 ATATATTTTTA-T-TATATATTATTTATTTTATTATATTTATATTTATATTATAT-TT
* * *
61963427 ATATATTTTTATTATATATTATTTATTTTACTATATTTTTATAT-TATTAT-TATT
1 ATATATTTTTATTATATATTATTTATTTTATTATATTTATATTTATATTATAT-TT
* ** * * * *
61963481 AT-TATTATT-TTATATATTCCTTATTATATTATATTT-CA-TTATATTTTATCT
1 ATATATTTTTATTATATATTATTTATTTTATTATATTTATATTTATATTATATTT
* * * *
61963532 ACATATTTTTATTACATATTA--TATTTTATTATATATTAT-TCATTATAATATCTTT
1 ATATATTTTTATTATATATTATTTATTTTATTATAT-TTATAT--TTATATTATATTT
* * * ** * * *
61963587 CTTTCTTTTATATATATTATATCATATACATTTTATTATATATATTTTTATATTATTTATT
1 ATATATTTT-TAT-TA-TATAT--TATTTATTTTATTATATTTATATTTATATTATAT-TT
*
61963648 ATATGATTTATATTAT-TATATATTTTATTT
1 ATAT-ATTTTTATTATATAT-TA-TTTATTT
61963678 GTAAATTATG
Statistics
Matches: 191, Mismatches: 40, Indels: 40
0.70 0.15 0.15
Matches are distributed among these distances:
50 1 0.01
51 20 0.10
52 32 0.17
53 14 0.07
54 5 0.03
55 20 0.10
56 30 0.16
57 6 0.03
58 23 0.12
59 1 0.01
60 13 0.07
61 10 0.05
62 16 0.08
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.63
Consensus pattern (55 bp):
ATATATTTTTATTATATATTATTTATTTTATTATATTTATATTTATATTATATTT
Found at i:61963468 original size:58 final size:57
Alignment explanation
Indices: 61963364--61963491 Score: 147
Period size: 58 Copynumber: 2.2 Consensus size: 57
61963354 TTAAAATTTT
* * *
61963364 TTATCATATATTTTTATTATATATATTATTTATTCTGTTATATTTATATT-TATATTA
1 TTATTATATATTTTTATTATATATATTATTTATACTGATATATTTATATTAT-TATTA
* *
61963421 TATGTTATATATTTTTATTATATATTATTTATTT-TACT-ATATTTTTATATTATTATTA
1 T-TATTATATATTTTTATTATATA-TA-TTATTTATACTGATATATTTATATTATTATTA
61963479 TTATTAT-TATTTT
1 TTATTATATATTTT
61963492 ATATATTCCT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
56 6 0.10
57 6 0.10
58 37 0.61
59 6 0.10
60 6 0.10
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (57 bp):
TTATTATATATTTTTATTATATATATTATTTATACTGATATATTTATATTATTATTA
Found at i:61963494 original size:52 final size:53
Alignment explanation
Indices: 61963364--61963529 Score: 149
Period size: 56 Copynumber: 3.1 Consensus size: 53
61963354 TTAAAATTTT
* * * * * *
61963364 TTATCATA-TATTTTTATTATATATATTATTTATTCTGTTATATTTATATTTATA
1 TTAT-ATATTATTATTATTTTATATATTATTTATTATATTATATTTTTATAT-TA
* * * *
61963418 TTATATGTTATATATTTTTATTATATATTATTTATTTTACTATATTTTTATATTA
1 TTATATATTAT-TATTATT-TTATATATTATTTATTATATTATATTTTTATATTA
**
61963473 TTAT-TATTATTATTATTTTATATATTCCTTATTATATTATATTTCATTATATT-
1 TTATATATTATTATTATTTTATATATTATTTATTATATTATATTT--TTATATTA
61963526 TTAT
1 TTAT
61963530 CTACATATTT
Statistics
Matches: 92, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
52 23 0.25
53 12 0.13
54 19 0.21
55 11 0.12
56 27 0.29
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (53 bp):
TTATATATTATTATTATTTTATATATTATTTATTATATTATATTTTTATATTA
Found at i:61963495 original size:108 final size:103
Alignment explanation
Indices: 61963372--61963565 Score: 235
Period size: 108 Copynumber: 1.8 Consensus size: 103
61963362 TTTTATCATA
* * * * * * *
61963372 TATTTTTATTATATATATTATTTATTCTGTTATATTTATATTTATATTATATGTTATATATTTTT
1 TATTATTATTATATATATTACTTATTATATTATATTT-CA-TTATATTATAT-CTACATATTTTT
*
61963437 ATTATATATTATTTATTTTACTATATTTTTATATTATTATTAT
63 ATTACATATTA--TATTTTACTATATTTTTATATTATTATTAT
* * *
61963480 TATTATTATTTTATATATTCCTTATTATATTATATTTCATTATATTTTATCTACATATTTTTATT
1 TATTATTATTATATATATTACTTATTATATTATATTTCATTATATTATATCTACATATTTTTATT
*
61963545 ACATATTATATTTTATTATAT
66 ACATATTATATTTTACTATAT
61963566 ATTATTCATT
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
103 12 0.16
105 20 0.27
106 10 0.14
107 1 0.01
108 31 0.42
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (103 bp):
TATTATTATTATATATATTACTTATTATATTATATTTCATTATATTATATCTACATATTTTTATT
ACATATTATATTTTACTATATTTTTATATTATTATTAT
Found at i:61963646 original size:21 final size:21
Alignment explanation
Indices: 61963619--61963670 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
61963609 CATATACATT
*
61963619 TTATTATATATAT-TTTTATA
1 TTATTATATATATGATTTATA
61963639 TTATT-TATTATATGATTTATA
1 TTATTATA-TATATGATTTATA
61963660 TTATTATATAT
1 TTATTATATAT
61963671 TTTATTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 10 0.36
21 14 0.50
22 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTATATATATGATTTATA
Found at i:61963674 original size:17 final size:17
Alignment explanation
Indices: 61963364--61963675 Score: 95
Period size: 17 Copynumber: 17.9 Consensus size: 17
61963354 TTAAAATTTT
*
61963364 TTATCATATATTTT-TA
1 TTATTATATATTTTATA
61963380 TTA-TATATATTATT-TA
1 TTATTATATATT-TTATA
* *
61963396 TTCTGT-TATATTTATATT
1 TTAT-TATATATTT-TATA
* *
61963414 TATATTATATGTTATATATTT
1 T-TATTATATATT-T-TA-TA
61963435 TTATTATATATTATT-TA
1 TTATTATATATT-TTATA
61963452 TT-TTACTATATTTTTATA
1 TTATTA-TATA-TTTTATA
61963470 TTATTAT-TATTATTATTA
1 TTATTATATATT-TTA-TA
61963488 TT-TTATATATTCCTTAT-
1 TTATTATATATT--TTATA
61963505 TATATTATAT-TTCATTATA
1 T-TATTATATATT--TTATA
* *
61963524 TT-TTATCTACATATT-T-
1 TTATTA--TATATTTTATA
* * *
61963540 TTATTACATATTATATT
1 TTATTATATATTTTATA
*
61963557 TTATTATATATTATT-CA
1 TTATTATATATT-TTATA
* * * *
61963574 TTATAATATCTTTCTTTC
1 TTATTATATATTT-TATA
*
61963592 TT-TTATATATATTATA
1 TTATTATATATTTTATA
* *
61963608 TCA-TATACA-TTT-TA
1 TTATTATATATTTTATA
61963622 TTA-TATATATTTTTATA
1 TTATTATATA-TTTTATA
61963639 TTATTTATTATATGATTTATA
1 TTA-TTA-TATAT--TTTATA
61963660 TTATTATATATTTTAT
1 TTATTATATATTTTAT
61963676 TTGTAAATTA
Statistics
Matches: 225, Mismatches: 33, Indels: 75
0.68 0.10 0.23
Matches are distributed among these distances:
14 9 0.04
15 13 0.06
16 30 0.13
17 72 0.32
18 34 0.15
19 31 0.14
20 24 0.11
21 12 0.05
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (17 bp):
TTATTATATATTTTATA
Found at i:61965450 original size:18 final size:19
Alignment explanation
Indices: 61965412--61965454 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
61965402 AAAAATGATT
**
61965412 TAAAATGTTCATAAAGTTC
1 TAAAATGTTCATAAAAATC
61965431 TAAAATGTTC-TAAAAATC
1 TAAAATGTTCATAAAAATC
61965449 TAAAAT
1 TAAAAT
61965455 TTGAAACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (19 bp):
TAAAATGTTCATAAAAATC
Found at i:61967308 original size:7 final size:7
Alignment explanation
Indices: 61967296--61967325 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
61967286 GAAAATAATT
61967296 ATAAAAA
1 ATAAAAA
61967303 ATAAAAA
1 ATAAAAA
61967310 ATAAAAAA
1 AT-AAAAA
61967318 ATAAAAA
1 ATAAAAA
61967325 A
1 A
61967326 ATATTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
ATAAAAA
Found at i:61967317 original size:9 final size:8
Alignment explanation
Indices: 61967298--61967328 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
61967288 AAATAATTAT
61967298 AAAAAAT-
1 AAAAAATA
61967305 AAAAAATA
1 AAAAAATA
61967313 AAAAAATA
1 AAAAAATA
61967321 AAAAAATA
1 AAAAAATA
61967329 TTTAATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAATA
Found at i:61970776 original size:38 final size:38
Alignment explanation
Indices: 61970720--61970799 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
61970710 GATGTGTATT
* * *
61970720 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
61970758 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
61970796 CGGG
1 CGGG
61970800 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:61970846 original size:43 final size:43
Alignment explanation
Indices: 61970771--61970955 Score: 284
Period size: 43 Copynumber: 4.3 Consensus size: 43
61970761 GATAAATCCC
* * *
61970771 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
61970812 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
61970855 GCAGGCTTTGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
61970898 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
61970941 GCAGGCGTAATGCCG
1 GCAGGCTTAGTGCCG
61970956 ATGAAATGAT
Statistics
Matches: 132, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 15 0.11
42 2 0.02
43 115 0.87
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:61971343 original size:45 final size:42
Alignment explanation
Indices: 61971276--61971383 Score: 110
Period size: 45 Copynumber: 2.5 Consensus size: 42
61971266 TTGACTTGAT
* * * *
61971276 TATTCGGACCTTTGAGCTTAGCAAACTATAATGCTGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
61971321 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
61971363 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
61971384 ACAGGCAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.24
44 7 0.13
45 32 0.58
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:61972639 original size:21 final size:21
Alignment explanation
Indices: 61972598--61972639 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
61972588 TTCGATCAAA
* *
61972598 TCGAATTGATTGAGATGGAAT
1 TCGAATTGATCGAGATCGAAT
61972619 TCGAATTGAATCGA-ATCGAAT
1 TCGAATTG-ATCGAGATCGAAT
61972640 ATATTTGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (21 bp):
TCGAATTGATCGAGATCGAAT
Found at i:61975746 original size:97 final size:93
Alignment explanation
Indices: 61975457--61975748 Score: 387
Period size: 90 Copynumber: 3.1 Consensus size: 93
61975447 ATTAAAAATT
* ** *
61975457 AATTAATATAATAGTACAGGTACAGCAACATAAATTAAGCAAAAAAAGTATGTTAAATTACATTT
1 AATTAATATAATAGTACAAGTACAGCAA-ATAAATTAAAAAAAAAAAGTATGTTAAACTACATTT
61975522 CAAACTTTAAAGTTAGTTAATTGAAGCCTA
65 -AAACTTTAAAGTTAGTTAATTGAAGCCTA
* *
61975552 AATTAATATAATAGTACAA-T--AGC--ATAAATTAAACAAAAAAAAGTTTGTTAAGCTACCATT
1 AATTAATATAATAGTACAAGTACAGCAAATAAATTAAA-AAAAAAAAGTATGTTAAACTA-CATT
*
61975612 TAAAATTTAAAGTTAGTTAATTGAAGCCTA
64 TAAACTTTAAAGTTAGTTAATTGAAGCCTA
* *
61975642 AATTAATATAATAGTACAAGTACAACAAGATAAATTAGAAAAAAAAACAGTATGTTAAACTATAG
1 AATTAATATAATAGTACAAGTACAGCAA-ATAAATTA-AAAAAAAAA-AGTATGTTAAACTACA-
*
61975707 TTTAAACTTTAAAGTTAGTTAATTGAAGGCTA
62 TTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
61975739 AATTAATATA
1 AATTAATATA
61975749 CAACAGCATA
Statistics
Matches: 173, Mismatches: 13, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
89 9 0.05
90 64 0.37
91 6 0.03
92 3 0.02
93 2 0.01
94 1 0.01
95 18 0.10
96 16 0.09
97 54 0.31
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (93 bp):
AATTAATATAATAGTACAAGTACAGCAAATAAATTAAAAAAAAAAAGTATGTTAAACTACATTTA
AACTTTAAAGTTAGTTAATTGAAGCCTA
Found at i:61975972 original size:17 final size:17
Alignment explanation
Indices: 61975950--61975998 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
61975940 TTTTCTCTAT
*
61975950 TAATATTACGTTATTAC
1 TAATATTACATTATTAC
* *
61975967 TAATATTATATTATTAT
1 TAATATTACATTATTAC
61975984 TAATATTACATTATT
1 TAATATTACATTATT
61975999 GCTTTGGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:61977828 original size:269 final size:269
Alignment explanation
Indices: 61977337--61977877 Score: 839
Period size: 269 Copynumber: 2.0 Consensus size: 269
61977327 CTAGGTTGTC
* * *
61977337 TTATATTGTGACTAATCAAGTCCTTGACCGGTTAGGTTATTAGACAAACATTGCTAGATAGCCGT
1 TTATATTGTGACTAATCAAGTCCTTGACCGATTAGGTCATTAGACAAACATTGCTAAATAGCCGT
* * * *
61977402 TGAAACACCCCGATACTCAACTCGATCGTCGGGTACGAGCTACAGGGATAAACGTTCATTTTCAG
66 TGAAACACCCCGATACTCAACCCGATCATCAGGTACGAGCTACAGGGATAAACATTCATTTTCAG
61977467 AGCAACTATGATAAAATTATATTCGATTTAAAATCATTGAACATTCAAACATAAGTAAAACATGT
131 AGCAACTATGATAAAATTATATTCGATTTAAAATCATTGAACATTCAAACATAAGTAAAACATGT
* * *
61977532 GTGTAATACAATACATAATCTTTTTCAGGTTTTATACGACCTTACGAAAGATCTAATGCTAACCC
196 GTATAATACAATACATAATCATTTTCAGGTTTTATACAACCTTACGAAAGATCTAATGCTAACCC
61977597 GAGGTCGAA
261 GAGGTCGAA
*
61977606 TTATATTGTGACTAATCAAGTCCTTGACCGATTAGGTCGTTAGACAAACATTGCTAAATAGCCGT
1 TTATATTGTGACTAATCAAGTCCTTGACCGATTAGGTCATTAGACAAACATTGCTAAATAGCCGT
** * * * * *
61977671 TGAAACACCTTGATATTCGACCCGATCATCAGGTCCGAGCTATAGGGATCAACATTCATTTTCAG
66 TGAAACACCCCGATACTCAACCCGATCATCAGGTACGAGCTACAGGGATAAACATTCATTTTCAG
* * * **
61977736 AGCAACTATGATCAAATTATATTTGATTTAAAATCATTGAACATTCAAATATAAGTAAAATGTGT
131 AGCAACTATGATAAAATTATATTCGATTTAAAATCATTGAACATTCAAACATAAGTAAAACATGT
* * * *
61977801 GTATAATGCAATACGTAATCATTTTCAGGTTTTATACAACCTTACGAAAGCTCTAATGCTAACCT
196 GTATAATACAATACATAATCATTTTCAGGTTTTATACAACCTTACGAAAGATCTAATGCTAACCC
61977866 GAGGTCGAA
261 GAGGTCGAA
61977875 TTA
1 TTA
61977878 AGACCAAATT
Statistics
Matches: 245, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
269 245 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (269 bp):
TTATATTGTGACTAATCAAGTCCTTGACCGATTAGGTCATTAGACAAACATTGCTAAATAGCCGT
TGAAACACCCCGATACTCAACCCGATCATCAGGTACGAGCTACAGGGATAAACATTCATTTTCAG
AGCAACTATGATAAAATTATATTCGATTTAAAATCATTGAACATTCAAACATAAGTAAAACATGT
GTATAATACAATACATAATCATTTTCAGGTTTTATACAACCTTACGAAAGATCTAATGCTAACCC
GAGGTCGAA
Found at i:61980717 original size:44 final size:41
Alignment explanation
Indices: 61980662--61980769 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 41
61980652 ATCTGAGATA
*
61980662 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCG-ATTTGAGATT
1 TCGTGTAAGACC-TGTCTGGGACACAGGCATCGTATTT--GATT
* *
61980705 TATGTGTAAGACCATGTCTGGGACATAGGCATCGTATTTGATT
1 T-CGTGTAAGACC-TGTCTGGGACACAGGCATCGTATTTGATT
61980748 TCGTGTAAGATCCTGTCTGGGA
1 TCGTGTAAGA-CCTGTCTGGGA
61980770 TAGAGACATC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
42 17 0.30
43 8 0.14
44 28 0.49
45 4 0.07
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (41 bp):
TCGTGTAAGACCTGTCTGGGACACAGGCATCGTATTTGATT
Found at i:61980765 original size:42 final size:41
Alignment explanation
Indices: 61980662--61980813 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 41
61980652 ATCTGAGATA
* *
61980662 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTT--GATT
* *
61980705 TATGTGTAAGACCATGTCTGGGACATAGGCATCGTATTTGATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCG-ATTTGATT
* * *
61980748 TCGTGTAAGATCC-TGTCTGGGATAGAGACATCGATATTGAATT
1 TCGTGTAAGA-CCATGTCTGGGACACAGGCATCGAT-TTG-ATT
* * * *
61980791 ACATGTAAGATCACGTCTGGGAC
1 TCGTGTAAGACCATGTCTGGGAC
61980814 GTCAACATTG
Statistics
Matches: 90, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 27 0.30
44 28 0.31
45 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTTGATT
Found at i:61984918 original size:20 final size:20
Alignment explanation
Indices: 61984895--61984961 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
61984885 TGCACTTCAA
*
61984895 TGCCTCTATTTTCACTTTGG
1 TGCCTCTATTTACACTTTGG
*
61984915 TGCCTCTGA-TTGCACATTT-G
1 TGCCTCT-ATTTACAC-TTTGG
* * *
61984935 TGCCTCTGTCTACACTTCGG
1 TGCCTCTATTTACACTTTGG
61984955 TGCCTCT
1 TGCCTCT
61984962 GTTACTCATC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
19 2 0.05
20 32 0.84
21 4 0.11
ACGTcount: A:0.10, C:0.30, G:0.18, T:0.42
Consensus pattern (20 bp):
TGCCTCTATTTACACTTTGG
Found at i:61985441 original size:13 final size:13
Alignment explanation
Indices: 61985415--61985488 Score: 67
Period size: 13 Copynumber: 5.6 Consensus size: 13
61985405 AAATATTTAG
*
61985415 ATGAAATTGTTAT
1 ATGAAATGGTTAT
*
61985428 ATGAAATGGATAT
1 ATGAAATGGTTAT
*
61985441 ATGAAATGCTTAT
1 ATGAAATGGTTAT
* * *
61985454 TTGGAAATAGATAT
1 AT-GAAATGGTTAT
**
61985468 ATGAACCGGTTAT
1 ATGAAATGGTTAT
61985481 ATGAAATG
1 ATGAAATG
61985489 TTTAAACGAA
Statistics
Matches: 45, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
13 36 0.80
14 9 0.20
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:61998892 original size:43 final size:43
Alignment explanation
Indices: 61998844--61998950 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 43
61998834 ACTTCCGAGG
* * **
61998844 TGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATT
1 TGTGATTACGTGTAAGACCATGTCTGAGACAAAGGCATCGATT
* *
61998887 TGTGATTACGTGTAAGACCCTGTCTGAGACAAAGGCATCGGTT
1 TGTGATTACGTGTAAGACCATGTCTGAGACAAAGGCATCGATT
* *
61998930 TGTGATAACATGTAAGACCAT
1 TGTGATTACGTGTAAGACCAT
61998951 ATTTGGGATA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCATGTCTGAGACAAAGGCATCGATT
Found at i:62001764 original size:43 final size:42
Alignment explanation
Indices: 62001716--62001861 Score: 157
Period size: 43 Copynumber: 3.4 Consensus size: 42
62001706 ATCAGATATA
* * * * *
62001716 GTCTTACATGTTATCACGTATCGATGCCACTATCCCAGACAGG
1 GTCTTACACGTAATCAC-TATCGATGCCAATGTCCCAGACATG
** * *
62001759 GTCTTACACAAAATCGATTAACGATGCCAATGTCCCAGACATG
1 GTCTTACACGTAATC-ACTATCGATGCCAATGTCCCAGACATG
* *
62001802 GTCTTACACGTAATCACAATACAATGCCAATGTCCCAGACATG
1 GTCTTACACGTAATCACTAT-CGATGCCAATGTCCCAGACATG
*
62001845 GTCTTACATGTAATCAC
1 GTCTTACACGTAATCAC
62001862 ATCTCAATAA
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.02
43 82 0.96
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (42 bp):
GTCTTACACGTAATCACTATCGATGCCAATGTCCCAGACATG
Found at i:62003476 original size:26 final size:26
Alignment explanation
Indices: 62003404--62003477 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 26
62003394 GGAGGACATG
*
62003404 TTAGTTGTTAACCACTTTGTGGCCAC
1 TTAGTTGTTAACCAGTTTGTGGCCAC
62003430 TAGTAGGGTATGTTAACCAGTTTGGTGGCCA-
1 T--TA--GT-TGTTAACCAGTTT-GTGGCCAC
62003461 TTAGTTGTTAACCAGTT
1 TTAGTTGTTAACCAGTT
62003478 GGCGAGAGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
26 13 0.32
27 2 0.05
28 2 0.05
29 2 0.05
30 2 0.05
31 13 0.32
32 7 0.17
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (26 bp):
TTAGTTGTTAACCAGTTTGTGGCCAC
Found at i:62005743 original size:43 final size:42
Alignment explanation
Indices: 62005677--62005829 Score: 180
Period size: 42 Copynumber: 3.6 Consensus size: 42
62005667 TAACATACCA
* ** * *
62005677 ATGCCATATCCCAGTTATGGTCTTACATGGGATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * *
62005719 ATGCCAATAGCCCAGCTATTGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * *
62005762 ATGCCATATCTCAGATATGGTCTTACATGAAGTCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*
62005804 ATGCCATATCCCAAATATGGTCTTAC
1 ATGCCATATCCCAGATATGGTCTTAC
62005830 GCATAGTCTT
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 59 0.63
43 34 0.37
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:62009164 original size:27 final size:27
Alignment explanation
Indices: 62009088--62009169 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
62009078 AGAATTTGCT
* * *
62009088 ACAAAGGCTCTTCTTTCAGAGTCCT-CC
1 ACAAAGGATTTTCTTTCAGAG-CTTACC
*
62009115 ATAAAGGATTTTCTTTCAGAGCTTACC
1 ACAAAGGATTTTCTTTCAGAGCTTACC
* *
62009142 ACAAAGGGTTTTCTTTCAGAGCTCACC
1 ACAAAGGATTTTCTTTCAGAGCTTACC
62009169 A
1 A
62009170 TAAATGTAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.04
27 45 0.96
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (27 bp):
ACAAAGGATTTTCTTTCAGAGCTTACC
Found at i:62016139 original size:16 final size:16
Alignment explanation
Indices: 62016118--62016157 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
62016108 TCATTGTTTT
*
62016118 TTTTGTACTAAAACTG
1 TTTTGTACTAAAACTA
62016134 TTTTGTACTAAAACTA
1 TTTTGTACTAAAACTA
62016150 TTTTGTAC
1 TTTTGTAC
62016158 AGTAGCTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (16 bp):
TTTTGTACTAAAACTA
Found at i:62028241 original size:40 final size:39
Alignment explanation
Indices: 62028197--62028501 Score: 362
Period size: 40 Copynumber: 7.7 Consensus size: 39
62028187 TTTGATGTGT
* * * *
62028197 GTATCTGGGCTTAAAGACCCCCAAGCTTCGTGCTGGAATG
1 GTATCCGGGTTTAAAGACCCGCAGGCTT-GTGCTGGAATG
* * *
62028237 GTATCCGGGTTTAAAGACCCGCAGGCTATATACTGGAATT
1 GTATCCGGGTTTAAAGACCCGCAGGCT-TGTGCTGGAATG
*
62028277 GTATCCGGGTTTAAAGA-CCGCAGGCTTCGTGCTGGAATA
1 GTATCCGGGTTTAAAGACCCGCAGGCTT-GTGCTGGAATG
* *
62028316 GTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATT
1 GTATCCGGGTTTAAAGACCCGCAGGCT-TGTGCTGGAATG
*
62028356 GTATCCGGGTTTAAAGACCCGTAGGCTTTGTGCTGGAATG
1 GTATCCGGGTTTAAAGACCCGCAGGC-TTGTGCTGGAATG
* * *
62028396 GAATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATT
1 GTATCCGGGTTTAAAGACCCGCAGGCT-TGTGCTGGAATG
*
62028436 GTATCCGGGGTTAAAGACCCGCAGGCTTCGTGCTGGAATG
1 GTATCCGGGTTTAAAGACCCGCAGGCTT-GTGCTGGAATG
** * *
62028476 AAATCTGGG-TTAAAGACCCGTAGGCT
1 GTATCCGGGTTTAAAGACCCGCAGGCT
62028502 CGTGTTAGAA
Statistics
Matches: 231, Mismatches: 27, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.00
39 52 0.23
40 175 0.76
41 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
GTATCCGGGTTTAAAGACCCGCAGGCTTGTGCTGGAATG
Found at i:62028425 original size:80 final size:80
Alignment explanation
Indices: 62028196--62028501 Score: 472
Period size: 80 Copynumber: 3.9 Consensus size: 80
62028186 ATTTGATGTG
* * * * *
62028196 TGTATCTGGGCTTAAAGACCCCCAAGCTTCGTGCTGGAATGGTATCCGGGTTTAAAGACCCGCAG
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
*
62028261 GCTATATACTGGAAT
66 GCTATATGCTGGAAT
* *
62028276 TGTATCCGGGTTTAAAGA-CCGCAGGCTTCGTGCTGGAATAGTATCCGGGTTTAAAGACCCGCAG
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
62028340 GCTATATGCTGGAAT
66 GCTATATGCTGGAAT
* *
62028355 TGTATCCGGGTTTAAAGACCCGTAGGCTTTGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
62028420 GCTATATGCTGGAAT
66 GCTATATGCTGGAAT
* * * *
62028435 TGTATCCGGGGTTAAAGACCCGCAGGCTTCGTGCTGGAATGAAATCTGGG-TTAAAGACCCGTAG
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
62028499 GCT
66 GCT
62028502 CGTGTTAGAA
Statistics
Matches: 209, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
79 91 0.44
80 118 0.56
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
TGTATCCGGGTTTAAAGACCCGCAGGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
GCTATATGCTGGAAT
Found at i:62028489 original size:159 final size:159
Alignment explanation
Indices: 62028196--62028501 Score: 472
Period size: 159 Copynumber: 1.9 Consensus size: 159
62028186 ATTTGATGTG
* *
62028196 TGTATCTGGGCTTAAAGACCCCCAAGCTTCGTGCTGGAATGGTATCCGGGTTTAAAGACCCGCAG
1 TGTATCCGGGCTTAAAGACCCCCAAGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
* *
62028261 GCTATATACTGGAATTGTATCCGGGTTTAAAGACCGCAGGCTTCGTGCTGGAATAGTATCCGGGT
66 GCTATATACTGGAATTGTATCCGGGGTTAAAGACCGCAGGCTTCGTGCTGGAATAGAATCCGGGT
62028326 TTAAAGACCCGCAGGCTATATGCTGGAAT
131 TTAAAGACCCGCAGGCTATATGCTGGAAT
* ** * *
62028355 TGTATCCGGGTTTAAAGACCCGTAGGCTTTGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
1 TGTATCCGGGCTTAAAGACCCCCAAGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
* *
62028420 GCTATATGCTGGAATTGTATCCGGGGTTAAAGACCCGCAGGCTTCGTGCTGGAAT-GAAATCTGG
66 GCTATATACTGGAATTGTATCCGGGGTTAAAGA-CCGCAGGCTTCGTGCTGGAATAG-AATCCGG
*
62028484 G-TTAAAGACCCGTAGGCT
129 GTTTAAAGACCCGCAGGCT
62028502 CGTGTTAGAA
Statistics
Matches: 133, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
159 106 0.80
160 27 0.20
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (159 bp):
TGTATCCGGGCTTAAAGACCCCCAAGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
GCTATATACTGGAATTGTATCCGGGGTTAAAGACCGCAGGCTTCGTGCTGGAATAGAATCCGGGT
TTAAAGACCCGCAGGCTATATGCTGGAAT
Found at i:62040145 original size:39 final size:39
Alignment explanation
Indices: 62040091--62040181 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 39
62040081 CGTTTGAATG
62040091 AAAAACGCCGCTAAAGAAAGAGCATTAGCGGTGCTTTCT
1 AAAAACGCCGCTAAAGAAAGAGCATTAGCGGTGCTTTCT
** * *
62040130 AAAAACGCCGCTAAAGATCGAGTATTAGCGGTGCTTTTT
1 AAAAACGCCGCTAAAGAAAGAGCATTAGCGGTGCTTTCT
62040169 AAAAACGCCGCTA
1 AAAAACGCCGCTA
62040182 TATGTACACC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (39 bp):
AAAAACGCCGCTAAAGAAAGAGCATTAGCGGTGCTTTCT
Found at i:62040630 original size:15 final size:14
Alignment explanation
Indices: 62040610--62040644 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
62040600 ACAATTTTAA
*
62040610 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
62040624 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
62040639 GGTTTA
1 GGTTTA
62040645 AAGGTTGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:62040874 original size:14 final size:14
Alignment explanation
Indices: 62040855--62040894 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
62040845 TTATCATATA
62040855 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
*
62040869 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
*
62040883 GTTTAAGGTTTA
1 GTTTAGGGTTTA
62040895 AAGTGTATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:62040903 original size:21 final size:21
Alignment explanation
Indices: 62040861--62040903 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
62040851 TATAGTTTAG
* **
62040861 GGTTTATGGTTTAGGGTATAT
1 GGTTTAAGGTTTAAAGTATAT
*
62040882 GGTTTAAGGTTTAAAGTGTAT
1 GGTTTAAGGTTTAAAGTATAT
62040903 G
1 G
62040904 AGTTACTATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (21 bp):
GGTTTAAGGTTTAAAGTATAT
Found at i:62041183 original size:16 final size:16
Alignment explanation
Indices: 62041164--62041208 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
62041154 ATATTAAATA
62041164 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTAAAG
*
62041180 ATTTCAAATTTTCAAG
1 ATTTCAAATTTTAAAG
62041196 ATTTCAAATTTTA
1 ATTTCAAATTTTA
62041209 TCTAATTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (16 bp):
ATTTCAAATTTTAAAG
Found at i:62041337 original size:15 final size:15
Alignment explanation
Indices: 62041317--62041346 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
62041307 TAGCTGATTT
62041317 TTTTAATTTATATTA
1 TTTTAATTTATATTA
62041332 TTTTAATTTATATTA
1 TTTTAATTTATATTA
62041347 AATAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAATTTATATTA
Found at i:62041672 original size:25 final size:25
Alignment explanation
Indices: 62041634--62041701 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
62041624 CAAAATCCCA
62041634 ACCATCT-CTGCATCGCCGAACCCG
1 ACCATCTGCTGCATCGCCGAACCCG
*
62041658 ACCATCTGCTGCATCGCCGGACCCG
1 ACCATCTGCTGCATCGCCGAACCCG
*
62041683 ACCGTCTGCTGCATCGCCG
1 ACCATCTGCTGCATCGCCG
62041702 TCGACTTGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 7 0.17
25 34 0.83
ACGTcount: A:0.16, C:0.44, G:0.22, T:0.18
Consensus pattern (25 bp):
ACCATCTGCTGCATCGCCGAACCCG
Found at i:62041721 original size:27 final size:27
Alignment explanation
Indices: 62041634--62041731 Score: 107
Period size: 25 Copynumber: 3.8 Consensus size: 27
62041624 CAAAATCCCA
*
62041634 ACCATCT-CTGCATCGCCG--AACCCG
1 ACCATCTGCTGCATCGCCGTCGACCCG
62041658 ACCATCTGCTGCATCGCCG--GACCCG
1 ACCATCTGCTGCATCGCCGTCGACCCG
* **
62041683 ACCGTCTGCTGCATCGCCGTCGACTTG
1 ACCATCTGCTGCATCGCCGTCGACCCG
* *
62041710 ACCATCTTCTGCGTCGCCGTCG
1 ACCATCTGCTGCATCGCCGTCG
62041732 CACTGCTCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
24 7 0.11
25 34 0.53
27 23 0.36
ACGTcount: A:0.14, C:0.42, G:0.22, T:0.21
Consensus pattern (27 bp):
ACCATCTGCTGCATCGCCGTCGACCCG
Found at i:62045889 original size:47 final size:47
Alignment explanation
Indices: 62045824--62046492 Score: 897
Period size: 47 Copynumber: 14.4 Consensus size: 47
62045814 CAGCCAAGAG
*
62045824 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
62045871 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
62045918 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
62045967 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
62046018 AGTGTATATGTGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
62046064 AGTGTATATGTGT-ATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
62046110 A--GTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
62046155 AGTGTATAT-TGTG---A----TAATAG-CGA-GTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
62046192 A-TG--TATATGTGATAAGG-CTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
62046235 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
62046286 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
62046333 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
62046380 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * * *
62046427 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
62046474 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
62046493 TCCCGAAAGG
Statistics
Matches: 569, Mismatches: 26, Indels: 54
0.88 0.04 0.08
Matches are distributed among these distances:
34 3 0.01
35 4 0.01
36 2 0.00
37 15 0.03
38 4 0.01
39 6 0.01
41 6 0.01
42 3 0.01
43 16 0.03
44 10 0.02
45 46 0.08
46 58 0.10
47 265 0.47
48 2 0.00
49 43 0.08
50 13 0.02
51 69 0.12
53 4 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:62046667 original size:37 final size:37
Alignment explanation
Indices: 62046614--62046689 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
62046604 AGCTCTAAAA
* * *
62046614 ACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAG
1 ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAAG
*
62046651 ACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAG
1 ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAAG
62046688 AC
1 AC
62046690 TTCGTAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (37 bp):
ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAAG
Found at i:62049392 original size:37 final size:37
Alignment explanation
Indices: 62049342--62049420 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
62049332 TTATTACGAA
* * *
62049342 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAACTCATCGG
*
62049379 GTCTTACCCGGACAAAATTCCCACACGTACTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAACTCATCGG
62049416 GTCTT
1 GTCTT
62049421 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAACTCATCGG
Found at i:62049608 original size:47 final size:47
Alignment explanation
Indices: 62049539--62049745 Score: 369
Period size: 47 Copynumber: 4.4 Consensus size: 47
62049529 CCCTTCGGGA
*
62049539 CTTATCACATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62049586 CTTATCACATATATACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62049633 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62049680 CTTATCACACATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62049727 CTTATCACATATATACACT
1 CTTATCACATATATACACT
62049746 GTCTTGGCTG
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 153 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62053615 original size:27 final size:27
Alignment explanation
Indices: 62053580--62053648 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
62053570 TTGTTACAAT
* **
62053580 AAAAGCTTTTCTTTCAGGGTTTGCCAC
1 AAAAGCTTTTCTTTCAGAGTTCACCAC
*
62053607 AAAGGCTTTTCTTTCAGAGTTCACCAC
1 AAAAGCTTTTCTTTCAGAGTTCACCAC
62053634 AAAAGCTTTTCTTTC
1 AAAAGCTTTTCTTTC
62053649 CTAACGTCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (27 bp):
AAAAGCTTTTCTTTCAGAGTTCACCAC
Found at i:62057352 original size:29 final size:29
Alignment explanation
Indices: 62057314--62057370 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
62057304 ATAAAATTTC
*
62057314 TTAACGAAATTTTCACACAATTATTCTAA
1 TTAACAAAATTTTCACACAATTATTCTAA
62057343 TTAACAAAATTTTCACACAATTATTCTA
1 TTAACAAAATTTTCACACAATTATTCTA
62057371 TCATGCTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.39
Consensus pattern (29 bp):
TTAACAAAATTTTCACACAATTATTCTAA
Found at i:62084131 original size:39 final size:39
Alignment explanation
Indices: 62084087--62084210 Score: 203
Period size: 39 Copynumber: 3.2 Consensus size: 39
62084077 TATGAGATTG
62084087 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
*
62084126 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
62084165 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
62084204 AAAATAT
1 AAAATAT
62084211 TCGGGTTAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:62084228 original size:78 final size:76
Alignment explanation
Indices: 62084086--62084240 Score: 186
Period size: 78 Copynumber: 2.0 Consensus size: 76
62084076 GTATGAGATT
* * **
62084086 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGGTCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
*
62084151 GGCTATATGCTA
66 GGCT-TACGCTA
* * * **
62084163 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATTCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
62084227 CAGGCTTACGCTA
64 CAGGCTTACGCTA
62084240 G
1 G
62084241 TGATGTATTC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
77 12 0.18
78 54 0.82
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:62093651 original size:27 final size:26
Alignment explanation
Indices: 62093553--62093674 Score: 88
Period size: 27 Copynumber: 4.5 Consensus size: 26
62093543 TTCCCATCAT
* * *
62093553 CCTTTATGGCCTACTCT-ATATGAATA
1 CCTTTGTGGCATACTCTGATA-GATTA
*
62093579 GCCTTTGTGGCGTACTCTGTATAGA-TA
1 -CCTTTGTGGCATACTCTG-ATAGATTA
* *
62093606 GTCTTTGTGGCAAACTCTGACTAGATTA
1 -CCTTTGTGGCATACTCTGA-TAGATTA
*
62093634 CCTTTGTGGCATACTCTGAATGGATT-
1 CCTTTGTGGCATACTCTG-ATAGATTA
*
62093660 GCTTTGGTGGCATAC
1 CCTTT-GTGGCATAC
62093675 CTTACATGAT
Statistics
Matches: 80, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
26 5 0.06
27 67 0.84
28 5 0.06
29 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
CCTTTGTGGCATACTCTGATAGATTA
Found at i:62093687 original size:26 final size:26
Alignment explanation
Indices: 62093581--62093674 Score: 89
Period size: 27 Copynumber: 3.5 Consensus size: 26
62093571 TATGAATAGC
* * * *
62093581 CTTTGTGGCGTACTCTGTATAGATAG
1 CTTTGTGGCATACTCTGAATGGATTG
* * * *
62093607 TCTTTGTGGCAAACTCTGACTAGATTAC
1 -CTTTGTGGCATACTCTGAATGGATT-G
62093635 CTTTGTGGCATACTCTGAATGGATTG
1 CTTTGTGGCATACTCTGAATGGATTG
62093661 CTTTGGTGGCATAC
1 CTTT-GTGGCATAC
62093675 CTTACATGAT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (26 bp):
CTTTGTGGCATACTCTGAATGGATTG
Found at i:62100373 original size:21 final size:21
Alignment explanation
Indices: 62100326--62100389 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
62100316 TATGTAGCTG
* ***
62100326 TTCACACAAGCATGTGCCCCC
1 TTCACACGAGCATGTGAGGCC
* *
62100347 TCCACACGGGCATGTGAGGCC
1 TTCACACGAGCATGTGAGGCC
*
62100368 TTCACACGAGCATGTGTGGCC
1 TTCACACGAGCATGTGAGGCC
62100389 T
1 T
62100390 CTACATAGGT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.20, C:0.34, G:0.25, T:0.20
Consensus pattern (21 bp):
TTCACACGAGCATGTGAGGCC
Found at i:62103708 original size:40 final size:40
Alignment explanation
Indices: 62103642--62103848 Score: 179
Period size: 40 Copynumber: 5.2 Consensus size: 40
62103632 GGGATTTAGT
* *
62103642 CGGATATAA-CTACTTGCAC-AAGGCCTTCAGGTCTTAGCC
1 CGGATATAATC-ACTAGCACAAATGCCTTCAGGTCTTAGCC
* ** * * *
62103681 CGGATGTGGTCACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAATCACTAGCACAAATGCCTTCAGGTCTTAGCC
*
62103721 CGGATATAATCGCTAGCACAAATGCCTTCAGGTCTTAGCC
1 CGGATATAATCACTAGCACAAATGCCTTCAGGTCTTAGCC
* ** * *
62103761 CGGATAT-AGCAACTCTCACGAATGCCTTC-GGATCTTAGTC
1 CGGATATAATC-ACTAGCACAAATGCCTTCAGG-TCTTAGCC
* * * * *
62103801 CGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCC
1 CGGATATAATCA-CTAGCACAAATGCCTTCAGGTCTTAGCC
62103842 CGGATAT
1 CGGATAT
62103849 CATTCGAATA
Statistics
Matches: 130, Mismatches: 31, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
39 16 0.12
40 86 0.66
41 26 0.20
42 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CGGATATAATCACTAGCACAAATGCCTTCAGGTCTTAGCC
Found at i:62103759 original size:80 final size:81
Alignment explanation
Indices: 62103664--62103848 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 81
62103654 CTTGCACAAG
* * *
62103664 GCCTTCAGGTCTTAGCCCGGATGTGGTC-ACTAGCATAAATGCCTTCGGGA-CTTAGCCCGGATA
1 GCCTTCAGGTCTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTC-GGATCTTAGCCCGGATA
* *
62103727 TAATC-GCTAGCACAAAT
64 TAATCACCTAGCACAAAA
** * * *
62103744 GCCTTCAGGTCTTAGCCCGGATATAGCAACTCTCACGAATGCCTTCGGATCTTAGTCCGGTTATA
1 GCCTTCAGGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATA
*
62103809 GTCACCTAGCACAAAA
66 ATCACCTAGCACAAAA
* *
62103825 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCAGGTCTTAGCCCGGATAT
62103849 CATTCGAATA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 4 0.04
80 53 0.60
81 32 0.36
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
GCCTTCAGGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATA
ATCACCTAGCACAAAA
Found at i:62113582 original size:47 final size:47
Alignment explanation
Indices: 62113513--62113887 Score: 669
Period size: 47 Copynumber: 8.0 Consensus size: 47
62113503 GAAATGATAG
*
62113513 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
62113560 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
62113607 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
62113654 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62113701 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
62113748 TAAGGCCTAATAGCCGATGTGATGAATGTGAAGGTGTATATAGGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62113795 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
62113842 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTG
62113888 TATATATGTG
Statistics
Matches: 316, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 316 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:62113898 original size:57 final size:57
Alignment explanation
Indices: 62113828--62113944 Score: 153
Period size: 57 Copynumber: 2.1 Consensus size: 57
62113818 GAATGTGAAA
* * * * * *
62113828 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATAAAT
* * *
62113885 GTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAAT
1 GTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATAAAT
62113942 GTG
1 GTG
62113945 ATAAGTCCCG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.29
Consensus pattern (57 bp):
GTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATAAAT
Found at i:62116008 original size:43 final size:43
Alignment explanation
Indices: 62115961--62116106 Score: 292
Period size: 43 Copynumber: 3.4 Consensus size: 43
62115951 TTGGTTTTCA
62115961 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
62116004 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
62116047 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
62116090 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
62116107 TTGAAATGCA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:62116123 original size:29 final size:29
Alignment explanation
Indices: 62116088--62116161 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
62116078 GTTGTGAGAT
* *
62116088 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
62116117 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
62116146 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
62116162 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:62116593 original size:40 final size:40
Alignment explanation
Indices: 62116470--62116626 Score: 140
Period size: 40 Copynumber: 3.9 Consensus size: 40
62116460 TTGAATGATG
* *
62116470 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCT-AGTGACTATA
* * * * *
62116510 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCTAGTGACTATA
*
62116550 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TATA
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGACTATA
* * * * *
62116590 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGAC
62116627 GTGTATTCGG
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 74 0.78
41 20 0.21
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGACTATA
Found at i:62117951 original size:40 final size:40
Alignment explanation
Indices: 62117905--62118089 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
62117895 CTTGCACAAG
* ** *
62117905 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGAATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCACTAGAACAAAT
* * *
62117945 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCACTAGAACAAAT
* * * *
62117985 GCCTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGAACAAAT
* * * * *
62118025 GCCTTCGGATCTTAGTCC-GATTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGA-TATAATCA-CTAGAACAAAT
*
62118066 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
62118090 CATTCGAATA
Statistics
Matches: 118, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
39 4 0.03
40 85 0.72
41 27 0.23
42 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAATCACTAGAACAAAT
Done.