Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 203 of 208
Found at i:61707371 original size:19 final size:19
Alignment explanation
Indices: 61707326--61707373 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
61707316 GAAAAAAAGG
*
61707326 CCAGCAAGCCTGTCCAAGC
1 CCAGCAAGCCTGACCAAGC
* * *
61707345 CCAACAAGCCTGACCCAGT
1 CCAGCAAGCCTGACCAAGC
61707364 CCAGCAAGCC
1 CCAGCAAGCC
61707374 CAGAACAGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.29, C:0.44, G:0.19, T:0.08
Consensus pattern (19 bp):
CCAGCAAGCCTGACCAAGC
Found at i:61707966 original size:17 final size:17
Alignment explanation
Indices: 61707939--61707984 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
61707929 AAAAGAATCG
61707939 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
*
61707956 TGTCTTCAAAATTTCTCG
1 TGT-TTCAAAATTTCTCA
61707974 TGTTTCAAAAT
1 TGTTTCAAAAT
61707985 AATAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:61708247 original size:44 final size:46
Alignment explanation
Indices: 61708169--61708258 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
61708159 TTGATGTTAT
*
61708169 CGTGTTTTCAAAAAAAAATTCCCGTGTTTGAAAAATTTTCATGTTTC
1 CGTGTTTTCAAAAAAAAATT-CCGTGTTTCAAAAATTTTCATGTTTC
*
61708216 CGTGTTTT-AAAAAAAAATT-CGTGTTTCAAAAATTTTCGTGTTT
1 CGTGTTTTCAAAAAAAAATTCCGTGTTTCAAAAATTTTCATGTTT
61708259 TCAAAAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
44 22 0.54
46 11 0.27
47 8 0.20
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.42
Consensus pattern (46 bp):
CGTGTTTTCAAAAAAAAATTCCGTGTTTCAAAAATTTTCATGTTTC
Found at i:61708253 original size:17 final size:17
Alignment explanation
Indices: 61708233--61708302 Score: 77
Period size: 17 Copynumber: 3.9 Consensus size: 17
61708223 TAAAAAAAAA
61708233 TTCGTGTTTCAAAAATT
1 TTCGTGTTTCAAAAATT
61708250 TTCGTGTTTTCAAAAAAATT
1 TTCGTG-TTTC--AAAAATT
** *
61708270 GACCGTGTTTCATAAATT
1 -TTCGTGTTTCAAAAATT
61708288 TTCGTGTTTCAAAAA
1 TTCGTGTTTCAAAAA
61708303 ATCCTCGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
17 18 0.42
18 10 0.23
20 11 0.26
21 4 0.09
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (17 bp):
TTCGTGTTTCAAAAATT
Found at i:61708304 original size:18 final size:18
Alignment explanation
Indices: 61708233--61708421 Score: 84
Period size: 20 Copynumber: 9.8 Consensus size: 18
61708223 TAAAAAAAAA
61708233 TTCGTGTTTC-AAAAATT
1 TTCGTGTTTCAAAAAATT
61708250 TTCGTGTTTTCAAAAAAATT
1 TTCGTG-TTTC-AAAAAATT
** *
61708270 GACCGTGTTTC-ATAAATT
1 -TTCGTGTTTCAAAAAATT
61708288 TTCGTGTTTCAAAAAATCCTCGTGT
1 TTCGTGTTTCAAAAAA------T-T
*
61708313 TTCGTATTTTATCAAAAAATT
1 TTCG--TGTT-TCAAAAAATT
61708334 TAT-GT-TTTCAAAAAAATT
1 T-TCGTGTTTC-AAAAAATT
*
61708352 TT-GTGTTT-TAAAAATT
1 TTCGTGTTTCAAAAAATT
**
61708368 TTCGTGTTTCAAAAAGAAAA
1 TTCGTGTTTC-AAAA-AATT
*
61708388 TTCGTGTTTCCTAAAAAAAT
1 TTCGTGTTT-C-AAAAAATT
*
61708408 CTCGTGTTTCAAAA
1 TTCGTGTTTCAAAA
61708422 TTTTTGTTTT
Statistics
Matches: 135, Mismatches: 14, Indels: 45
0.70 0.07 0.23
Matches are distributed among these distances:
16 9 0.07
17 25 0.19
18 32 0.24
19 5 0.04
20 33 0.24
21 12 0.09
22 2 0.01
24 1 0.01
25 5 0.04
27 3 0.02
28 8 0.06
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (18 bp):
TTCGTGTTTCAAAAAATT
Found at i:61708346 original size:17 final size:17
Alignment explanation
Indices: 61708324--61708382 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
61708314 TCGTATTTTA
61708324 TCAAAAAATTTATGT-TT
1 TCAAAAAATTT-TGTGTT
61708341 TCAAAAAAATTTTGTGTT
1 TC-AAAAAATTTTGTGTT
*
61708359 T-TAAAAATTTTCGTGTT
1 TCAAAAAATTTT-GTGTT
61708376 TCAAAAA
1 TCAAAAA
61708383 GAAAATTCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 9 0.25
17 11 0.31
18 16 0.44
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (17 bp):
TCAAAAAATTTTGTGTT
Found at i:61708364 original size:16 final size:17
Alignment explanation
Indices: 61708345--61708382 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
61708335 ATGTTTTCAA
*
61708345 AAAAATTTT-GTGTTTT
1 AAAAATTTTCGTGTTTC
61708361 AAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
61708378 AAAAA
1 AAAAA
61708383 GAAAATTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:61708479 original size:19 final size:19
Alignment explanation
Indices: 61708457--61708498 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
61708447 TCGCGTTTCT
61708457 AAAATGCTTGTATTTT-AAA
1 AAAAT-CTTGTATTTTCAAA
* *
61708476 AAAATTTTGTGTTTTCAAA
1 AAAATCTTGTATTTTCAAA
61708495 AAAA
1 AAAA
61708499 AAAGGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (19 bp):
AAAATCTTGTATTTTCAAA
Found at i:61711558 original size:22 final size:23
Alignment explanation
Indices: 61711516--61711558 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
61711506 TAAATTGATG
* *
61711516 AAATTACATTTTTATTATTGTAA
1 AAATTACAATTTAATTATTGTAA
61711539 AAATTACAATTTAATT-TTGT
1 AAATTACAATTTAATTATTGT
61711559 TCTTTCTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (23 bp):
AAATTACAATTTAATTATTGTAA
Found at i:61711814 original size:12 final size:12
Alignment explanation
Indices: 61711797--61711822 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61711787 AATTTTTTTT
61711797 ATTTTAGAAATA
1 ATTTTAGAAATA
61711809 ATTTTAGAAATA
1 ATTTTAGAAATA
61711821 AT
1 AT
61711823 AGATATGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
ATTTTAGAAATA
Found at i:61713223 original size:9 final size:9
Alignment explanation
Indices: 61713178--61713244 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
61713168 TATGTCAATC
*
61713178 TTAATTCTT
1 TTAATTTTT
*
61713187 TTAATATTT
1 TTAATTTTT
*
61713196 ATAATTTTT
1 TTAATTTTT
61713205 TTACAATTTTT
1 TT--AATTTTT
*
61713216 CT-ATTTTT
1 TTAATTTTT
61713224 TTAATTTTT
1 TTAATTTTT
*
61713233 TTAATTATT
1 TTAATTTTT
61713242 TTA
1 TTA
61713245 TTGGAAATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
8 7 0.15
9 32 0.68
11 8 0.17
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (9 bp):
TTAATTTTT
Found at i:61723826 original size:2 final size:2
Alignment explanation
Indices: 61723819--61723858 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
61723809 GAACTAGATA
61723819 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61723859 GTGATTCTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61734825 original size:2 final size:2
Alignment explanation
Indices: 61734818--61734851 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
61734808 CCTCACTTAA
*
61734818 AT AT AT AT AT AT AT AT AT AT AT A- AT AT CT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61734852 AATTTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:61739840 original size:58 final size:58
Alignment explanation
Indices: 61739750--61739862 Score: 217
Period size: 58 Copynumber: 1.9 Consensus size: 58
61739740 ACTATAGCGA
*
61739750 TACTGTAGTGTGAGACAAAAAGTAAACTAAACGCACCGCACCGCACCCAATCGCCTAT
1 TACTGTAGCGTGAGACAAAAAGTAAACTAAACGCACCGCACCGCACCCAATCGCCTAT
61739808 TACTGTAGCGTGAGACAAAAAGTAAACTAAACGCACCGCACCGCACCCAATCGCC
1 TACTGTAGCGTGAGACAAAAAGTAAACTAAACGCACCGCACCGCACCCAATCGCC
61739863 CATCCAAACC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.36, C:0.31, G:0.18, T:0.15
Consensus pattern (58 bp):
TACTGTAGCGTGAGACAAAAAGTAAACTAAACGCACCGCACCGCACCCAATCGCCTAT
Found at i:61740134 original size:22 final size:20
Alignment explanation
Indices: 61740102--61740143 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
61740092 TTTTGTTTTG
61740102 TTGTTTTATTT-TCTTTGGGC
1 TTGTTTTATTTAT-TTTGGGC
61740122 TTGTTTCTCATTTATTTTGGGC
1 TTGTTT-T-ATTTATTTTGGGC
61740144 CTTTGAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 11 0.58
23 1 0.05
ACGTcount: A:0.07, C:0.12, G:0.19, T:0.62
Consensus pattern (20 bp):
TTGTTTTATTTATTTTGGGC
Found at i:61740566 original size:80 final size:80
Alignment explanation
Indices: 61740434--61741177 Score: 1276
Period size: 80 Copynumber: 9.3 Consensus size: 80
61740424 TAATCTTTTT
* * *
61740434 ACTCTATCAAGTAAAATCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAATT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
* *
61740499 CTAAAACTCCTTAAT
66 CTAAAACTCTTTAAC
61740514 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
*
61740579 TTAAAACTCTTTAAC
66 CTAAAACTCTTTAAC
*
61740594 ACTCTATCTAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
61740659 CTAAAACTCTTTAAC
66 CTAAAACTCTTTAAC
* * *
61740674 ACTCTATCTAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAATT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
* *
61740739 CTAAAACTCCTTAAT
66 CTAAAACTCTTTAAC
61740754 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
61740819 CTAAAACTCTTTAAC
66 CTAAAACTCTTTAAC
*
61740834 ACTCTATCTAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
61740899 CTAAAACTCTTTAAC
66 CTAAAACTCTTTAAC
* * *
61740914 ACTCTATCTAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAATT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
* *
61740979 CTAAAACTCCTTAAT
66 CTAAAACTCTTTAAC
61740994 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
61741059 CTAAAACTCTTTAAC
66 CTAAAACTCTTTAAC
*
61741074 ACTCTATCTAGTAAAACCTAAATATCATACACACCT-TCCTCCGCCGCCAACACTT-ACACCAAT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCT-CTCCGCCGCCAACACTTAACACCAAT
* *
61741137 ACTAAAACTCCTTAAC
65 CCTAAAACTCTTTAAC
61741153 ACTCTATCAAGTAAAACCTAAATAT
1 ACTCTATCAAGTAAAACCTAAATAT
61741178 TCCTTGATAC
Statistics
Matches: 632, Mismatches: 31, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
79 47 0.07
80 585 0.93
ACGTcount: A:0.37, C:0.34, G:0.04, T:0.25
Consensus pattern (80 bp):
ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
CTAAAACTCTTTAAC
Found at i:61740857 original size:240 final size:240
Alignment explanation
Indices: 61740434--61741177 Score: 1411
Period size: 240 Copynumber: 3.1 Consensus size: 240
61740424 TAATCTTTTT
*
61740434 ACTCTATCAAGTAAAATCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAATT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAATT
61740499 CTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAA
66 CTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAA
*
61740564 CACTTAACACCAATCTTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACC
131 CACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACC
61740629 TCTCTCCGCCGCCAACACTTAACACCAATCCTAAAACTCTTTAAC
196 TCTCTCCGCCGCCAACACTTAACACCAATCCTAAAACTCTTTAAC
*
61740674 ACTCTATCTAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAATT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAATT
61740739 CTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAA
66 CTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAA
61740804 CACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACC
131 CACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACC
61740869 TCTCTCCGCCGCCAACACTTAACACCAATCCTAAAACTCTTTAAC
196 TCTCTCCGCCGCCAACACTTAACACCAATCCTAAAACTCTTTAAC
*
61740914 ACTCTATCTAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAATT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAATT
61740979 CTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAA
66 CTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAA
61741044 CACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACC
131 CACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACC
* *
61741109 T-TCCTCCGCCGCCAACACTT-ACACCAATACTAAAACTCCTTAAC
196 TCT-CTCCGCCGCCAACACTTAACACCAATCCTAAAACTCTTTAAC
61741153 ACTCTATCAAGTAAAACCTAAATAT
1 ACTCTATCAAGTAAAACCTAAATAT
61741178 TCCTTGATAC
Statistics
Matches: 497, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
239 47 0.09
240 450 0.91
ACGTcount: A:0.37, C:0.34, G:0.04, T:0.25
Consensus pattern (240 bp):
ACTCTATCAAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAATT
CTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAA
CACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACC
TCTCTCCGCCGCCAACACTTAACACCAATCCTAAAACTCTTTAAC
Found at i:61741182 original size:33 final size:33
Alignment explanation
Indices: 61741145--61741207 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
61741135 ATACTAAAAC
61741145 TCCTTAACACTCTATCAAGTAAAACCTAAATAT
1 TCCTTAACACTCTATCAAGTAAAACCTAAATAT
* * *
61741178 TCCTTGATACTCTATTAAGTAAAACCTAAA
1 TCCTTAACACTCTATCAAGTAAAACCTAAA
61741208 GATCATTCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (33 bp):
TCCTTAACACTCTATCAAGTAAAACCTAAATAT
Found at i:61741205 original size:112 final size:113
Alignment explanation
Indices: 61741074--61741290 Score: 305
Period size: 112 Copynumber: 1.9 Consensus size: 113
61741064 ACTCTTTAAC
* * * * *
61741074 ACTCTATCTAGTAAAACCTAAATATCATACACACCTTCCTCCGCCGCCAACACTT-ACACCAATA
1 ACTCTATCTAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAAAAACAAT-
61741138 C-TAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATATTCCTTGAT
65 CGTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATATTCCTTGAT
* *
61741186 ACTCTAT-TAAGTAAAACCTAAAGATCATTCACACCTCCCTCAGCCGTCAACACTTAAAAACAAT
1 ACTCTATCT-AGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAAAAACAAT
* * *
61741250 CGTAAAACTCCTTAATACTTTATCAAGTGAAACCTAAATAT
65 CGTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATAT
61741291 CATGCGAACC
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
111 1 0.01
112 49 0.53
113 42 0.46
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.27
Consensus pattern (113 bp):
ACTCTATCTAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAAAAACAATC
GTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATATTCCTTGAT
Found at i:61741317 original size:80 final size:80
Alignment explanation
Indices: 61741169--61741346 Score: 205
Period size: 80 Copynumber: 2.2 Consensus size: 80
61741159 TCAAGTAAAA
* * * * *
61741169 CCTAAATATTCCTTGATACTCTATTAAGTAAAACCTAAAGATCATTCACACCTCCCTCAGCCGTC
1 CCTAAA-ACTCCTTAATACTCTATCAAGTAAAACCTAAAGATCATGCACACCTCCCTCAGCCGCC
61741234 AACACTTAAAAACAAT
65 AACACTTAAAAACAAT
* * * * * *
61741250 CGTAAAACTCCTTAATACTTTATCAAGTGAAACCTAAATATCATGCGA-ACCTTCCTCCGCCGCC
1 CCTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAAGATCATGC-ACACCTCCCTCAGCCGCC
* *
61741314 AACACTTAACACCAAT
65 AACACTTAAAAACAAT
*
61741330 CCTCAAACTCCTTAATA
1 CCTAAAACTCCTTAATA
61741347 ACATAAGACA
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 75 0.93
81 6 0.07
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (80 bp):
CCTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAAGATCATGCACACCTCCCTCAGCCGCCA
ACACTTAAAAACAAT
Found at i:61741319 original size:192 final size:193
Alignment explanation
Indices: 61740986--61741344 Score: 533
Period size: 192 Copynumber: 1.9 Consensus size: 193
61740976 ATTCTAAAAC
* * *
61740986 TCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAA
1 TCCTTAATACTCTATCAAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAA
* * * *
61741051 CACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACCTTCCTCC
66 AAACAATCCTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATATCATACACACCTTCCTCC
61741116 GCCGCCAACACTT-ACACCAATACTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATAT
131 GCCGCCAACACTTAACACCAATACTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATAT
* * * *
61741178 TCCTTGATACTCTATTAAGTAAAACCTAAAGATCATTCACACCTCCCTCAGCCGTCAACACTTAA
1 TCCTTAATACTCTATCAAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAA
* * * * *
61741243 AAACAATCGTAAAACTCCTTAATACTTTATCAAGTGAAACCTAAATATCATGCGA-ACCTTCCTC
66 AAACAATCCTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATATCATAC-ACACCTTCCTC
* *
61741307 CGCCGCCAACACTTAACACCAATCCTCAAACTCCTTAA
130 CGCCGCCAACACTTAACACCAATACTAAAACTCCTTAA
61741345 TAACATAAGA
Statistics
Matches: 147, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
192 125 0.85
193 22 0.15
ACGTcount: A:0.37, C:0.32, G:0.05, T:0.26
Consensus pattern (193 bp):
TCCTTAATACTCTATCAAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAA
AAACAATCCTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATATCATACACACCTTCCTCC
GCCGCCAACACTTAACACCAATACTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATAT
Found at i:61744537 original size:23 final size:26
Alignment explanation
Indices: 61744511--61744564 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 26
61744501 CTTTAATTTT
61744511 TTTATTCGAAAAATAA-AATA-TT-A
1 TTTATTCGAAAAATAAGAATAGTTAA
*
61744534 TTTA-T-GATAAATAAGAATAGTTAA
1 TTTATTCGAAAAATAAGAATAGTTAA
61744558 TTTATTC
1 TTTATTC
61744565 ATGAGGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 8 0.32
22 5 0.20
23 6 0.24
24 5 0.20
25 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (26 bp):
TTTATTCGAAAAATAAGAATAGTTAA
Found at i:61756220 original size:142 final size:142
Alignment explanation
Indices: 61755964--61756243 Score: 533
Period size: 142 Copynumber: 2.0 Consensus size: 142
61755954 CAGCAATGAA
61755964 TGTCCACTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
1 TGTCCACTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
* *
61756029 TCAATGCACTTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATGCTCTTAACCGCAC
66 TCAATGCACCTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATACTCTTAACCGCAC
61756094 TCAAATTCACGT
131 TCAAATTCACGT
*
61756106 TGTCCGCTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
1 TGTCCACTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
61756171 TCAATGCACCTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATACTCTTAACCGCAC
66 TCAATGCACCTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATACTCTTAACCGCAC
61756236 TCAAATTC
131 TCAAATTC
61756244 TCAAGCTCGG
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 135 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (142 bp):
TGTCCACTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
TCAATGCACCTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATACTCTTAACCGCAC
TCAAATTCACGT
Found at i:61763148 original size:2 final size:2
Alignment explanation
Indices: 61763141--61763175 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
61763131 TAACCTCTGC
61763141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61763176 AAACAAATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:61764293 original size:29 final size:29
Alignment explanation
Indices: 61764260--61764328 Score: 97
Period size: 28 Copynumber: 2.4 Consensus size: 29
61764250 ATATATTTAT
*
61764260 TTTTTTAATTTTAAAATATTTTTTACATAC
1 TTTTTTAATTTTAAAATA-TTTTTAAATAC
*
61764290 --TTTTAAATTTAAAATATTTTTAAATAC
1 TTTTTTAATTTTAAAATATTTTTAAATAC
61764317 TTTTTTAATTTT
1 TTTTTTAATTTT
61764329 TTAATTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 10 0.29
28 15 0.44
29 9 0.26
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTTTAATTTTAAAATATTTTTAAATAC
Found at i:61764345 original size:36 final size:37
Alignment explanation
Indices: 61764266--61764351 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 37
61764256 TTATTTTTTT
61764266 AATTTTAAAATATTTTTTACATACTTTTAAATTTAAA
1 AATTTTAAAATATTTTTTACATACTTTTAAATTTAAA
* * *
61764303 ATATTTTTAAATACTTTTTTA-AT-TTTTTAATTTTAAA
1 A-ATTTTAAAATA-TTTTTTACATACTTTTAAATTTAAA
61764340 AATTTTAAAATA
1 AATTTTAAAATA
61764352 AAAATGGGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
36 10 0.23
37 14 0.33
38 12 0.28
39 7 0.16
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (37 bp):
AATTTTAAAATATTTTTTACATACTTTTAAATTTAAA
Found at i:61764725 original size:9 final size:9
Alignment explanation
Indices: 61764711--61764756 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
61764701 TTTGGTTAAA
61764711 AATTACCCG
1 AATTACCCG
61764720 AATTACCCG
1 AATTACCCG
*
61764729 -ATTAACCG
1 AATTACCCG
*
61764737 AATTAACCG
1 AATTACCCG
61764746 AATTACCCG
1 AATTACCCG
61764755 AA
1 AA
61764757 AATTACCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
8 7 0.21
9 27 0.79
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:61764737 original size:17 final size:18
Alignment explanation
Indices: 61764711--61764756 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
61764701 TTTGGTTAAA
*
61764711 AATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
*
61764729 -ATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
61764746 AATTACCCGAA
1 AATTACCCGAA
61764757 AATTACCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:61765593 original size:29 final size:30
Alignment explanation
Indices: 61765561--61765633 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
61765551 ATATTTACTA
*
61765561 AAAAATTAAAATTTTAT-AAAATAATA-TCC
1 AAAAATCAAAATTTTATCAAAATAA-AGTCC
* * *
61765590 AAAACTCATAATTTTCTCAAAATAAAGTCC
1 AAAAATCAAAATTTTATCAAAATAAAGTCC
61765620 AAAAATCCAAAATT
1 AAAAAT-CAAAATT
61765634 AATATGAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 14 0.40
30 15 0.43
31 6 0.17
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (30 bp):
AAAAATCAAAATTTTATCAAAATAAAGTCC
Found at i:61770982 original size:3 final size:3
Alignment explanation
Indices: 61770976--61771000 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
61770966 ATATATATCC
61770976 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
61771001 AGGGTACGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:61776867 original size:18 final size:19
Alignment explanation
Indices: 61776839--61776880 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
61776829 AGGATACTCT
* *
61776839 CTACTAAACCAAGTAACTA
1 CTACTAAACCAAATAACAA
61776858 CTAC-AAACCAAATAACAA
1 CTACTAAACCAAATAACAA
61776876 CTACT
1 CTACT
61776881 TGACTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (19 bp):
CTACTAAACCAAATAACAA
Found at i:61789004 original size:21 final size:21
Alignment explanation
Indices: 61788964--61789004 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61788954 AGGGTAATAG
*
61788964 GGTGGAGGAGGGTAAGCGCCT
1 GGTGGAGGAGGGTAACCGCCT
*
61788985 GGTGGAGGAGGGTATCCGCC
1 GGTGGAGGAGGGTAACCGCC
61789005 ATATGGGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.51, T:0.15
Consensus pattern (21 bp):
GGTGGAGGAGGGTAACCGCCT
Found at i:61794447 original size:18 final size:18
Alignment explanation
Indices: 61794424--61794459 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
61794414 AGGAGGAACC
61794424 GGCTCTTCCAACAAATTA
1 GGCTCTTCCAACAAATTA
*
61794442 GGCTCTTCCTACAAATTA
1 GGCTCTTCCAACAAATTA
61794460 TCCTCTGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.31
Consensus pattern (18 bp):
GGCTCTTCCAACAAATTA
Found at i:61794465 original size:18 final size:18
Alignment explanation
Indices: 61794426--61794465 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
61794416 GAGGAACCGG
*
61794426 CTCTTCCAACAAATTAGG
1 CTCTTCCAACAAATTAGC
* *
61794444 CTCTTCCTACAAATTATC
1 CTCTTCCAACAAATTAGC
61794462 CTCT
1 CTCT
61794466 GCCAGCAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.35
Consensus pattern (18 bp):
CTCTTCCAACAAATTAGC
Found at i:61801795 original size:2 final size:2
Alignment explanation
Indices: 61801788--61801824 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
61801778 CCGCCTTAGT
61801788 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61801825 GAGATAAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:61806375 original size:6 final size:6
Alignment explanation
Indices: 61806367--61806413 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
61806357 ACTTCCCCCA
* *
61806367 CCTCCA CCTCCA CCTCCG CCTCCG CCTCCG CCTCCG CCTCCG CCTCC
1 CCTCCG CCTCCG CCTCCG CCTCCG CCTCCG CCTCCG CCTCCG CCTCC
61806414 TGTACCAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.04, C:0.68, G:0.11, T:0.17
Consensus pattern (6 bp):
CCTCCG
Found at i:61806421 original size:72 final size:72
Alignment explanation
Indices: 61806331--61806486 Score: 249
Period size: 72 Copynumber: 2.2 Consensus size: 72
61806321 GCCTCCACCT
* * *
61806331 CCTCCCCCTCCTGTACCAAAATGTACACTTCCCCCACCTCCACCTCCACCTCCGCCTCCGCCTCC
1 CCTCCGCCTCCTGTACCAAAATGTACACTTCCCCCACCTCCACCTCCACCTCCGCCACCACCTCC
*
61806396 GCCTCCG
66 ACCTCCG
* *
61806403 CCTCCGCCTCCTGTACCAAAATGTACATTTCCCCCACCTCCACCTCCTCCTCCGCCACCACCTCC
1 CCTCCGCCTCCTGTACCAAAATGTACACTTCCCCCACCTCCACCTCCACCTCCGCCACCACCTCC
*
61806468 ACCTCCT
66 ACCTCCG
61806475 CCTCCGCCTCCT
1 CCTCCGCCTCCT
61806487 TGTAAGTTCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 77 1.00
ACGTcount: A:0.14, C:0.58, G:0.07, T:0.21
Consensus pattern (72 bp):
CCTCCGCCTCCTGTACCAAAATGTACACTTCCCCCACCTCCACCTCCACCTCCGCCACCACCTCC
ACCTCCG
Found at i:61806447 original size:6 final size:6
Alignment explanation
Indices: 61806436--61806485 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
61806426 TACATTTCCC
* * * * *
61806436 CCACCT CCACCT CCTCCT CCGCCA CCACCT CCACCT CCTCCT CCGCCT
1 CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT
61806484 CC
1 CC
61806486 TTGTAAGTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.10, C:0.68, G:0.04, T:0.18
Consensus pattern (6 bp):
CCACCT
Found at i:61806465 original size:24 final size:24
Alignment explanation
Indices: 61806436--61806482 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
61806426 TACATTTCCC
61806436 CCACCTCCACCTCCTCCTCCGCCA
1 CCACCTCCACCTCCTCCTCCGCCA
61806460 CCACCTCCACCTCCTCCTCCGCC
1 CCACCTCCACCTCCTCCTCCGCC
61806483 TCCTTGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.11, C:0.68, G:0.04, T:0.17
Consensus pattern (24 bp):
CCACCTCCACCTCCTCCTCCGCCA
Found at i:61808919 original size:27 final size:27
Alignment explanation
Indices: 61808880--61808951 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
61808870 ACTTACCACT
* *
61808880 AAACTGTGGCTAAAATGTTACAACACGA
1 AAAC-GTGACTAAAACGTTACAACACGA
*
61808908 AAACGTGACTAAAACGTTATAACACGA
1 AAACGTGACTAAAACGTTACAACACGA
*
61808935 AAACATGACTAAAACGT
1 AAACGTGACTAAAACGT
61808952 AAGATTTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 36 0.90
28 4 0.10
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.19
Consensus pattern (27 bp):
AAACGTGACTAAAACGTTACAACACGA
Found at i:61812151 original size:11 final size:11
Alignment explanation
Indices: 61812135--61812191 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
61812125 ATATATACTG
61812135 AATAAAATAAT
1 AATAAAATAAT
61812146 AATAAAATAAT
1 AATAAAATAAT
*
61812157 ATTTAAAATCAA-
1 A-ATAAAAT-AAT
* *
61812169 ATTAAAATATT
1 AATAAAATAAT
*
61812180 AATAAACTAAT
1 AATAAAATAAT
61812191 A
1 A
61812192 TTTATTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 28 0.74
12 7 0.18
13 2 0.05
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:61812665 original size:23 final size:23
Alignment explanation
Indices: 61812639--61812685 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
61812629 TTTCTTACTG
*
61812639 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCGGGATATTACAA
*
61812662 TAGTAATTTTTGGGATATTACAA
1 TAGTAATTTTCGGGATATTACAA
61812685 T
1 T
61812686 TAGGGTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAA
Found at i:61813661 original size:14 final size:14
Alignment explanation
Indices: 61813642--61813668 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61813632 AAGAAAGACG
61813642 TATGAAAATTTTAT
1 TATGAAAATTTTAT
61813656 TATGAAAATTTTA
1 TATGAAAATTTTA
61813669 CCAATTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
TATGAAAATTTTAT
Found at i:61815139 original size:25 final size:25
Alignment explanation
Indices: 61815079--61815142 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
61815069 TTACGGCTCT
* *
61815079 CATGAGCTTCCCGTTATATGACCCA
1 CATGAGCTTCCCGTAACATGACCCA
* * * * *
61815104 GATAAGTTTCCTGTAACATGACTCA
1 CATGAGCTTCCCGTAACATGACCCA
61815129 CATGAGCTTCCCGT
1 CATGAGCTTCCCGT
61815143 TATATGGCTT
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (25 bp):
CATGAGCTTCCCGTAACATGACCCA
Found at i:61826253 original size:23 final size:22
Alignment explanation
Indices: 61826223--61826325 Score: 81
Period size: 23 Copynumber: 4.7 Consensus size: 22
61826213 AATTTTAATA
61826223 TATATTTATATTATATTATTTT
1 TATATTTATATTATATTATTTT
*
61826245 TAATATTTAATAATTTTA-TACTTTT
1 T-ATATTT-AT-ATTATATTA-TTTT
*
61826270 T-TA-TT-TATTAAATT-TTTT
1 TATATTTATATTATATTATTTT
* *
61826288 TATATTTATCTTAACATTATTTT
1 TATATTTATATT-ATATTATTTT
*
61826311 AATATTTATATTATA
1 TATATTTATATTATA
61826326 AAGTATTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
18 5 0.08
19 6 0.10
20 4 0.06
21 3 0.05
22 9 0.14
23 22 0.35
24 4 0.06
25 10 0.16
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (22 bp):
TATATTTATATTATATTATTTT
Found at i:61826261 original size:16 final size:16
Alignment explanation
Indices: 61826208--61826262 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
61826198 TCCTATATTT
61826208 ATTTTAAT-TTTAATA
1 ATTTTAATATTTAATA
*
61826223 TATATTT-ATATTATATTA
1 -AT-TTTAATATT-TAATA
*
61826241 TTTTTAATATTTAATA
1 ATTTTAATATTTAATA
61826257 ATTTTA
1 ATTTTA
61826263 TACTTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
16 16 0.52
17 11 0.35
18 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTAATATTTAATA
Found at i:61826263 original size:27 final size:27
Alignment explanation
Indices: 61826205--61826272 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
61826195 ACCTCCTATA
* * * *
61826205 TTTATTTTAATTTTAATATATATTTAT
1 TTTATATTATTTTTAATATATAATAAT
* *
61826232 ATTATATTATTTTTAATATTTAATAAT
1 TTTATATTATTTTTAATATATAATAAT
*
61826259 TTTATACT-TTTTTA
1 TTTATATTATTTTTA
61826273 TTTATTAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTATATTATTTTTAATATATAATAAT
Found at i:61826274 original size:32 final size:34
Alignment explanation
Indices: 61826205--61826318 Score: 91
Period size: 32 Copynumber: 3.5 Consensus size: 34
61826195 ACCTCCTATA
61826205 TTTA-TTTTAAT-TTTAATATATATTTATATTAT
1 TTTATTTTTAATATTTAATATATATTTATATTAT
*
61826237 ATTATTTTTAATATTTAATA-AT-TTTATACTT-T
1 TTTATTTTTAATATTTAATATATATTTATA-TTAT
* * * *
61826269 TTTATTTATTAA-ATTT-TTTTATATTTATCTTAAC
1 TTTATTT-TTAATATTTAATATATATTTATATT-AT
*
61826303 ATTA-TTTTAATATTTA
1 TTTATTTTTAATATTTA
61826319 TATTATAAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
31 1 0.02
32 28 0.43
33 26 0.40
34 10 0.15
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (34 bp):
TTTATTTTTAATATTTAATATATATTTATATTAT
Found at i:61831827 original size:3 final size:3
Alignment explanation
Indices: 61831819--61831858 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
61831809 TGAATCTTTT
61831819 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
61831859 AAGACTTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:61832450 original size:27 final size:28
Alignment explanation
Indices: 61832396--61832456 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
61832386 TTGAACCTCG
* *
61832396 AACTCCGAACTTAGAACCTTGAATCCTA
1 AACTCCGAACCTAGAACCTTGAACCCTA
*
61832424 AACTCCGAACCT-GAATCTTGAACCCTA
1 AACTCCGAACCTAGAACCTTGAACCCTA
61832451 AACTCC
1 AACTCC
61832457 AAAATCGAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.34, C:0.33, G:0.10, T:0.23
Consensus pattern (28 bp):
AACTCCGAACCTAGAACCTTGAACCCTA
Found at i:61832474 original size:20 final size:20
Alignment explanation
Indices: 61832451--61832488 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
61832441 TTGAACCCTA
61832451 AACTCCAA-AATCGAACCTCG
1 AACTCCAATAAT-GAACCTCG
*
61832471 AACTCGAATAATGAACCT
1 AACTCCAATAATGAACCT
61832489 TGAGCCTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.42, C:0.29, G:0.11, T:0.18
Consensus pattern (20 bp):
AACTCCAATAATGAACCTCG
Found at i:61833286 original size:6 final size:6
Alignment explanation
Indices: 61833270--61833303 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
61833260 TTTAGTGATC
61833270 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
61833304 AATTAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:61839723 original size:3 final size:3
Alignment explanation
Indices: 61839715--61839755 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
61839705 AACACCCATC
61839715 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61839756 CATTTTGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:61846618 original size:64 final size:64
Alignment explanation
Indices: 61846545--61846672 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
61846535 TTGCAAATTC
* *
61846545 AAATATATTTTAATTTATATGTCATAATTTTAGAATTTCTTTTTTAGGTTAGAATTAACTTGGG
1 AAATATATTTTAATTTATATATCATAATTTTAGAATTTCTTTTGTAGGTTAGAATTAACTTGGG
61846609 AAATATATTTTAATTTATATATCATAATTTTAGAATTTCTTTTGTAGGTTAGAATTAACTTGGG
1 AAATATATTTTAATTTATATATCATAATTTTAGAATTTCTTTTGTAGGTTAGAATTAACTTGGG
61846673 GTTTCACCTA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (64 bp):
AAATATATTTTAATTTATATATCATAATTTTAGAATTTCTTTTGTAGGTTAGAATTAACTTGGG
Found at i:61862068 original size:22 final size:22
Alignment explanation
Indices: 61862040--61862086 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
61862030 AGATATTTCC
61862040 TGACAAAGAGAAAAACCAGACA
1 TGACAAAGAGAAAAACCAGACA
61862062 TGACAAAGAGAAAAACCAGACA
1 TGACAAAGAGAAAAACCAGACA
61862084 TGA
1 TGA
61862087 TGGGCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.57, C:0.17, G:0.19, T:0.06
Consensus pattern (22 bp):
TGACAAAGAGAAAAACCAGACA
Found at i:61866057 original size:22 final size:23
Alignment explanation
Indices: 61866031--61866076 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
61866021 AAATATTAGC
*
61866031 ATTATAA-AAATTGAATGATAAA
1 ATTATAATAAATTAAATGATAAA
*
61866053 ATTATAATAAATTAAATTATAAA
1 ATTATAATAAATTAAATGATAAA
61866076 A
1 A
61866077 ATTTGAACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
ATTATAATAAATTAAATGATAAA
Found at i:61867446 original size:171 final size:171
Alignment explanation
Indices: 61867161--61867496 Score: 663
Period size: 171 Copynumber: 2.0 Consensus size: 171
61867151 ATTGAAACTA
61867161 ATAATAATATATACGTAATGAGCGTCAGACGATATCAAATGATATTATAATAACATATAATAAGT
1 ATAATAATATATACGTAATGAGCGTCAGACGATATCAAATGATATTATAATAACATATAATAAGT
61867226 AATGAAATGTATTGTTTGAAATTGAACCCGTGTACTTGTCAGATGGTTAGAGTGTTCATTGCCCC
66 AATGAAATGTATTGTTTGAAATTGAACCCGTGTACTTGTCAGATGGTTAGAGTGTTCATTGCCCC
61867291 ATGTGTGACATGGGTTTGAGTCGCGTTGCTGTTAATAATAT
131 ATGTGTGACATGGGTTTGAGTCGCGTTGCTGTTAATAATAT
61867332 ATAATAATATATACGTAATGAGCGTCAGACGATATCAAATGATATTATAATAACATATAATAAGT
1 ATAATAATATATACGTAATGAGCGTCAGACGATATCAAATGATATTATAATAACATATAATAAGT
*
61867397 AATGAAATGTATTGTTTGAAATTGAACCCGTGTATTTGTCAGATGGTTAGAGTGTTCATTGCCCC
66 AATGAAATGTATTGTTTGAAATTGAACCCGTGTACTTGTCAGATGGTTAGAGTGTTCATTGCCCC
61867462 ATGTGTGACATGGGTTTGAGTCGCGTTGCTGTTAA
131 ATGTGTGACATGGGTTTGAGTCGCGTTGCTGTTAA
61867497 GGCTTTATCC
Statistics
Matches: 164, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 164 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (171 bp):
ATAATAATATATACGTAATGAGCGTCAGACGATATCAAATGATATTATAATAACATATAATAAGT
AATGAAATGTATTGTTTGAAATTGAACCCGTGTACTTGTCAGATGGTTAGAGTGTTCATTGCCCC
ATGTGTGACATGGGTTTGAGTCGCGTTGCTGTTAATAATAT
Found at i:61869239 original size:18 final size:15
Alignment explanation
Indices: 61869198--61869241 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 15
61869188 AAGCTAATTA
61869198 AAAAAAATTAAAACC
1 AAAAAAATTAAAACC
61869213 AAAAAAATTAATTAATCC
1 AAAAAAATTAA--AA-CC
61869231 AAAAAAATTAA
1 AAAAAAATTAA
61869242 CCCAGCGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.42
17 2 0.08
18 13 0.50
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAAAATTAAAACC
Found at i:61891550 original size:42 final size:43
Alignment explanation
Indices: 61891503--61891612 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 43
61891493 AGCTGCATAA
* *
61891503 TTGGCAAGAAAGCTCGTCCAACTGAG-C-AAGTTTTTTACACAG
1 TTGGCAAGAAAGCTCATCCAACTGAGACGAA-TTTTCTACACAG
*
61891545 TTGGC-AGAAAAGCTCATCCAA-TTAGACGAATTTTCTACACAG
1 TTGGCAAG-AAAGCTCATCCAACTGAGACGAATTTTCTACACAG
* * *
61891587 TTGACAGGAAAGCTCTTCCAACTGAG
1 TTGGCAAGAAAGCTCATCCAACTGAG
61891613 TGAGCTTTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
41 5 0.09
42 45 0.80
43 6 0.11
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (43 bp):
TTGGCAAGAAAGCTCATCCAACTGAGACGAATTTTCTACACAG
Found at i:61893511 original size:107 final size:108
Alignment explanation
Indices: 61893321--61893521 Score: 314
Period size: 107 Copynumber: 1.8 Consensus size: 108
61893311 AAGACACTGG
* *
61893321 TTCCCAAACTACTTATGTTCGACTCAAGAAAAACTTGAACTCGGCTCAATAACTATCGAGCCAAG
1 TTCCCAAACTACTTATGTTCG---CAAGAAAAACTTGAACTCGACTCAATAACTATCAAGCCAAG
61893386 CTCAAACTATTGGTCAAGCTGAATTTGAGACTTCGTAATGCTCAGC
63 CTCAAACTATTGGTCAAGCTGAATTTGAGACTTCGTAATGCTCAGC
* * *
61893432 TTCCCAAACTACTTATGTTCG-AAGAAAAACTTGAACTTGACTCAATAATTATCAAGCCAAGCTT
1 TTCCCAAACTACTTATGTTCGCAAGAAAAACTTGAACTCGACTCAATAACTATCAAGCCAAGCTC
*
61893496 GAACTATTGGTCAAGCTGAATTTGAG
66 AAACTATTGGTCAAGCTGAATTTGAG
61893522 CTTAATTATA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 63 0.75
111 21 0.25
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (108 bp):
TTCCCAAACTACTTATGTTCGCAAGAAAAACTTGAACTCGACTCAATAACTATCAAGCCAAGCTC
AAACTATTGGTCAAGCTGAATTTGAGACTTCGTAATGCTCAGC
Found at i:61896051 original size:3 final size:3
Alignment explanation
Indices: 61896043--61896068 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
61896033 ACTGAGTAGC
61896043 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
61896069 TTAAAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:61897172 original size:21 final size:21
Alignment explanation
Indices: 61897146--61897214 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
61897136 CGAGTCTATA
61897146 TTTTTACTCAAATTCTTTCAC
1 TTTTTACTCAAATTCTTTCAC
** *
61897167 TTTTTA-T-AAA-AGTTTCGGCC
1 TTTTTACTCAAATTCTTTC--AC
*
61897187 TAATTTACTCAAATTCTTTCAC
1 T-TTTTACTCAAATTCTTTCAC
61897209 TTTTTA
1 TTTTTA
61897215 TAAAAGTTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
18 4 0.12
19 3 0.09
20 3 0.09
21 14 0.41
22 3 0.09
23 3 0.09
24 4 0.12
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTTTACTCAAATTCTTTCAC
Found at i:61897196 original size:42 final size:42
Alignment explanation
Indices: 61897148--61897231 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
61897138 AGTCTATATT
61897148 TTTACTCAAATTCTTTCACTTTTTATAAAAGTTTCGGCCTAA
1 TTTACTCAAATTCTTTCACTTTTTATAAAAGTTTCGGCCTAA
61897190 TTTACTCAAATTCTTTCACTTTTTATAAAAGTTTCGGCCTAA
1 TTTACTCAAATTCTTTCACTTTTTATAAAAGTTTCGGCCTAA
61897232 CCCTTGGACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.07, T:0.45
Consensus pattern (42 bp):
TTTACTCAAATTCTTTCACTTTTTATAAAAGTTTCGGCCTAA
Found at i:61898193 original size:29 final size:30
Alignment explanation
Indices: 61898161--61898246 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 30
61898151 TTTTAACTTC
* *
61898161 TTTATATATATATATATATATTTTAG-AAT
1 TTTATATAAATATATATAAATTTTAGAAAT
61898190 TTTA-A-AAATATATATAAATTTTAGAAAT
1 TTTATATAAATATATATAAATTTTAGAAAT
* *
61898218 TTT-TATAAATAT-TTTGAATTTTA-AAAT
1 TTTATATAAATATATATAAATTTTAGAAAT
61898245 TT
1 TT
61898247 ATTTTGATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
27 23 0.46
28 17 0.34
29 10 0.20
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (30 bp):
TTTATATAAATATATATAAATTTTAGAAAT
Found at i:61898239 original size:19 final size:19
Alignment explanation
Indices: 61898187--61898227 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
61898177 TATATTTTAG
* * *
61898187 AATTTTAAAAATATATATA
1 AATTTTAGAAATTTTTATA
61898206 AATTTTAGAAATTTTTATA
1 AATTTTAGAAATTTTTATA
61898225 AAT
1 AAT
61898228 ATTTTGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
AATTTTAGAAATTTTTATA
Found at i:61902437 original size:21 final size:20
Alignment explanation
Indices: 61902391--61902438 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
61902381 AACCCTACTG
* * *
61902391 TTTTCGTTGTTGTTTTTTCA
1 TTTTTGTTGTTATTTTATCA
61902411 TATTTTGTTGTTATTTTATCA
1 T-TTTTGTTGTTATTTTATCA
61902432 CTTTTTG
1 -TTTTTG
61902439 CCACTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.10, C:0.08, G:0.12, T:0.69
Consensus pattern (20 bp):
TTTTTGTTGTTATTTTATCA
Found at i:61902682 original size:18 final size:16
Alignment explanation
Indices: 61902661--61902695 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
61902651 TATATTTTAA
61902661 AAAATTTATATAAAAAAT
1 AAAATTT-TA-AAAAAAT
61902679 AAAATTTTAAAAAAAT
1 AAAATTTTAAAAAAAT
61902695 A
1 A
61902696 CGAGTCCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATTTTAAAAAAAT
Found at i:61903420 original size:15 final size:13
Alignment explanation
Indices: 61903394--61903428 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
61903384 TTTATTAGTA
61903394 TTTATTTTAAATT
1 TTTATTTTAAATT
61903407 TTTATTTGTAAAATT
1 TTTATTT-T-AAATT
61903422 TTTATTT
1 TTTATTT
61903429 AATATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 1 0.05
15 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTATTTTAAATT
Found at i:61904290 original size:6 final size:6
Alignment explanation
Indices: 61904269--61904304 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
61904259 CATTTTTCTT
61904269 ATTT-A ATTTAAA ATTTAA ATTTAA ATTTAA ATTTAA
1 ATTTAA ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA
61904305 TTCATAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 4 0.14
6 20 0.69
7 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:61910470 original size:16 final size:17
Alignment explanation
Indices: 61910449--61910484 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
61910439 TATTCTTCAA
61910449 TTTGAT-CATTTTTAAT
1 TTTGATACATTTTTAAT
61910465 TTTGATACATTTTTAAT
1 TTTGATACATTTTTAAT
61910482 TTT
1 TTT
61910485 AAAATTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTGATACATTTTTAAT
Found at i:61914385 original size:12 final size:12
Alignment explanation
Indices: 61914368--61914401 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
61914358 ACGGAAGGAA
61914368 AGCCACGGCCAC
1 AGCCACGGCCAC
61914380 AGCCACGGCCAC
1 AGCCACGGCCAC
61914392 AGCCACGGCC
1 AGCCACGGCC
61914402 TCCGCCGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.50, G:0.26, T:0.00
Consensus pattern (12 bp):
AGCCACGGCCAC
Found at i:61923873 original size:47 final size:47
Alignment explanation
Indices: 61923804--61923897 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
61923794 CAAGTGCCCT
*
61923804 AATCGATACGTATCTCTCGTTTGTGACAAGGAAAGATGGAAAGCATG
1 AATCGATACGTAGCTCTCGTTTGTGACAAGGAAAGATGGAAAGCATG
* *
61923851 AATCGATACGTAGCTCTGGTTTGTGACAAGGAAATATGGAAAGCATG
1 AATCGATACGTAGCTCTCGTTTGTGACAAGGAAAGATGGAAAGCATG
61923898 GGTCAGCCGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.26
Consensus pattern (47 bp):
AATCGATACGTAGCTCTCGTTTGTGACAAGGAAAGATGGAAAGCATG
Found at i:61927761 original size:26 final size:26
Alignment explanation
Indices: 61927732--61927788 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
61927722 AGAAAATTTT
* *
61927732 AAATTTAGGTACTAAATTAAATAAAA
1 AAATTTAGGTACCAAATTAAAAAAAA
*
61927758 AAA-TTAGGTGCCAAATTAAAAAAAA
1 AAATTTAGGTACCAAATTAAAAAAAA
61927783 AAATTT
1 AAATTT
61927789 GTCAAGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTTAGGTACCAAATTAAAAAAAA
Found at i:61928815 original size:302 final size:303
Alignment explanation
Indices: 61928244--61928857 Score: 752
Period size: 302 Copynumber: 2.0 Consensus size: 303
61928234 AATAGTACAT
* * * * *
61928244 ATATACAACTGATGGAAATAGTAAATTGTGCATATTAAAATAAAAATGTATAGAATATACAAAAA
1 ATATACAACTGATGGAAATAATAAAATGTGCATAGTAAAATAAAAATGCATAAAATATACAAAAA
* * *
61928309 TGAAATTTCAGTTGAGTGGTACATTTAAAATTTTACTAATGCAATTGGTGAGGTTCAATTTTCAC
66 TGAAATTTCAGTTGAGTGGTAAATTTAAAATTTTACTAATGCAATTAGTGAGGTTCAA-TATCAC
* * * *
61928374 CTTATGCAAATTTTTATTAGTTTTTGTCAGAATGAAATGGCTAAAATACTCTCGAATAATACGAG
130 CCTATGCAAATTTTAATTAGTTTTTGTCAAAATGAAAT-G-TAAAATACTCTCGAATAATACGAC
** * **** *
61928439 TTACTTTAATTACGAAAGGACATTTTTGTAATTTTTCTAATCGAGTTTGTGTTTGGTTGACTTAT
193 TTACTTTAATTACGAAAGGACATTTTCATAATTTTTCTAATCGAGTTGGTGCCCAGTTGACTCAT
* *
61928504 GACACCAACTCAGTTAGAGGTTTTATTAAAATTAAGTAT-ATATAG
258 GACACCAACTCAGTTAGAGATTTTATTAAAAGTAAGTATAATATAG
* **
61928549 ATATACAACTGAT-GAAGATAATAAAATGTGCATAGTAAAATAAGAATGCATAAAATATATTAAA
1 ATATACAACTGATGGAA-ATAATAAAATGTGCATAGTAAAATAAAAATGCATAAAATATACAAAA
* ** * * * *
61928613 ATGAAGTTTTGGTTGAGTGGTAAATTTAAGATTTTACTAATGCAATTATTGCGGGTTCAA-ATCC
65 ATGAAATTTCAGTTGAGTGGTAAATTTAAAATTTTACTAATGCAATTAGTG-AGGTTCAATATCA
* * * *
61928677 CCCTATGCAAATTTTAATTGGTTTTTGTTAAAATGAAAAT-TAAAATGC-CTTCGAATAATATGA
129 CCCTATGCAAATTTTAATTAGTTTTTGTCAAAATG-AAATGTAAAATACTC-TCGAATAATACGA
* *
61928740 CTTACTTTAATTACGAAAGGGCATTTTCATAATTTTTCTAATCGAGTTGGTGCCCAGTTGACTCG
192 CTTACTTTAATTACGAAAGGACATTTTCATAATTTTTCTAATCGAGTTGGTGCCCAGTTGACTCA
* * *
61928805 TGACACCAACTTAGTTAGCGATTTTATTAATAGTAAGTATAGATATAG
257 TGACACCAACTCAGTTAGAGATTTTATTAAAAGTAAGTATA-ATATAG
61928853 ATATA
1 ATATA
61928858 GATATAGATA
Statistics
Matches: 262, Mismatches: 41, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
301 1 0.00
302 108 0.41
304 46 0.18
305 100 0.38
306 7 0.03
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (303 bp):
ATATACAACTGATGGAAATAATAAAATGTGCATAGTAAAATAAAAATGCATAAAATATACAAAAA
TGAAATTTCAGTTGAGTGGTAAATTTAAAATTTTACTAATGCAATTAGTGAGGTTCAATATCACC
CTATGCAAATTTTAATTAGTTTTTGTCAAAATGAAATGTAAAATACTCTCGAATAATACGACTTA
CTTTAATTACGAAAGGACATTTTCATAATTTTTCTAATCGAGTTGGTGCCCAGTTGACTCATGAC
ACCAACTCAGTTAGAGATTTTATTAAAAGTAAGTATAATATAG
Found at i:61928853 original size:6 final size:6
Alignment explanation
Indices: 61928842--61928869 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
61928832 TAATAGTAAG
61928842 TATAGA TATAGA TATAGA TATAGA TATA
1 TATAGA TATAGA TATAGA TATAGA TATA
61928870 CAACTAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (6 bp):
TATAGA
Found at i:61935618 original size:23 final size:23
Alignment explanation
Indices: 61935591--61935689 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
61935581 AGTGTTATTG
*
61935591 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
61935614 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
61935637 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
61935660 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
61935683 ATCAGTG
1 ATCAGTG
61935690 TTGCACTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:61940159 original size:36 final size:36
Alignment explanation
Indices: 61940109--61940184 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
61940099 AAATAGAAAA
61940109 TTAAAAAAAATCACAATTAACATTGAATTTATTCTG
1 TTAAAAAAAATCACAATTAACATTGAATTTATTCTG
* *
61940145 TTAAAAAAATTCACAATTAGCATTGAATTTATTCTG
1 TTAAAAAAAATCACAATTAACATTGAATTTATTCTG
61940181 TTAA
1 TTAA
61940185 CATGATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.38
Consensus pattern (36 bp):
TTAAAAAAAATCACAATTAACATTGAATTTATTCTG
Found at i:61944509 original size:60 final size:60
Alignment explanation
Indices: 61944436--61944555 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
61944426 AATTTTGGGA
61944436 CTTAATATTTATACTTTAATGTGGCATAATTTATTGCGCCCACTATTACAATGTTATTAG
1 CTTAATATTTATACTTTAATGTGGCATAATTTATTGCGCCCACTATTACAATGTTATTAG
61944496 CTTAATATTTATACTTTAATGTGGCATAATTTATTGCGCCCACTATTACAATGTTATTAG
1 CTTAATATTTATACTTTAATGTGGCATAATTTATTGCGCCCACTATTACAATGTTATTAG
61944556 TAACATTGCT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (60 bp):
CTTAATATTTATACTTTAATGTGGCATAATTTATTGCGCCCACTATTACAATGTTATTAG
Found at i:61946320 original size:131 final size:133
Alignment explanation
Indices: 61946084--61946352 Score: 382
Period size: 131 Copynumber: 2.0 Consensus size: 133
61946074 TTAAAACATT
* * * *
61946084 TGAAAAGCTATCGATTCGAAAACGAGATAGTGTGAGCTTCTGAACAATCCGCCTGATATATTCCA
1 TGAAAAGCTACCGATTCGAAAACGAGAGAGTGTGAGCTTCTGAACAATCCGCCTAACATATTCCA
* * **
61946149 CAAAGTGACAATGCACAAGGAAAGAGGAAACATTGGAGTAAGCACATTGAATGCTTAGTAAGTTT
66 CAAAGTGACAATGCACAAGGAAAGAGGAAACATCGAAGTAAGCACATTGAATGCTTAGTAAGTCC
61946214 ATA
131 ATA
* * * *
61946217 TGAAAAGCTACCGATTCGAAAAC-AG-GAGTTTGAGCTTCTGAACGATCCGTCTAACATATTCTA
1 TGAAAAGCTACCGATTCGAAAACGAGAGAGTGTGAGCTTCTGAACAATCCGCCTAACATATTCCA
* *
61946280 CAAAGTGACAATGTACAAGGAAA-AGGGAAACATCGAAGTAAGCATATTGAATGCTTAGTAAGTC
66 CAAAGTGACAATGCACAAGGAAAGA-GGAAACATCGAAGTAAGCACATTGAATGCTTAGTAAGTC
61946344 CATA
130 CATA
61946348 TGAAA
1 TGAAA
61946353 TTTACTTAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
130 1 0.01
131 96 0.79
132 2 0.02
133 22 0.18
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (133 bp):
TGAAAAGCTACCGATTCGAAAACGAGAGAGTGTGAGCTTCTGAACAATCCGCCTAACATATTCCA
CAAAGTGACAATGCACAAGGAAAGAGGAAACATCGAAGTAAGCACATTGAATGCTTAGTAAGTCC
ATA
Found at i:61948517 original size:39 final size:39
Alignment explanation
Indices: 61948461--61948577 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 39
61948451 TTAAATCTCG
* * *
61948461 TTACCCGAGGATATGCAACAAAGGCTAGATCTTATTATA
1 TTACCCAAGGATCTGCAACAAAGGCTAGATCTCATTATA
* * * *
61948500 TTACCCAAGGGTCTGCAACGAATGCTAGATCTCGTTATA
1 TTACCCAAGGATCTGCAACAAAGGCTAGATCTCATTATA
* * * *
61948539 TTACCTAAGGATCTACAA-AAAGTGCTAAATCTCGTTATA
1 TTACCCAAGGATCTGCAACAAAG-GCTAGATCTCATTATA
61948578 ATCTATACAA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 2 0.03
39 62 0.97
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (39 bp):
TTACCCAAGGATCTGCAACAAAGGCTAGATCTCATTATA
Found at i:61959127 original size:22 final size:22
Alignment explanation
Indices: 61959086--61959153 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 22
61959076 AAAATCAAAG
*
61959086 AAATTTATAAAAATA-CATAAAT
1 AAATTTA-AAAAATATAATAAAT
**
61959108 ATTTTTAAAAAATATAAT-AAT
1 AAATTTAAAAAATATAATAAAT
61959129 AAATTTAAAAATATATAA-AAAT
1 AAATTTAAAAA-ATATAATAAAT
61959151 AAA
1 AAA
61959154 AATATTGTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATTTAAAAAATATAATAAAT
Found at i:61959129 original size:21 final size:22
Alignment explanation
Indices: 61959111--61959153 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
61959101 CATAAATATT
*
61959111 TTTAAAAA-ATATAATAATAAA
1 TTTAAAAATATATAAAAATAAA
61959132 TTTAAAAATATATAAAAATAAA
1 TTTAAAAATATATAAAAATAAA
61959154 AATATTGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAAATATATAAAAATAAA
Found at i:61963988 original size:21 final size:19
Alignment explanation
Indices: 61963947--61963989 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
61963937 AACATCAACA
*
61963947 TAAAATTTAAAAGAGTAAT
1 TAAAATTTAAAAGAATAAT
*
61963966 TAAAATTTTCAAAAGAATGAT
1 TAAAA-TTT-AAAAGAATAAT
61963987 TAA
1 TAA
61963990 GTGTATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 12 0.60
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (19 bp):
TAAAATTTAAAAGAATAAT
Found at i:61967810 original size:60 final size:59
Alignment explanation
Indices: 61967693--61967811 Score: 141
Period size: 60 Copynumber: 2.0 Consensus size: 59
61967683 CAATAAAATA
* * * *
61967693 TCAGGGACTAACTTGGACAAAAAAAAATTCAAGTCCCAATGTGAGAACAATTTCCAAGT
1 TCAGGGACTAAATTGAACAAAAAAAAATTCAAGACCCAATGTGAGAACAATTGCCAAGT
* * * *
61967752 TCAGGGACTAAATTGAACGAAAAAATAATT-TAGACCCTATTGTGGGAACAATTGCCAAGT
1 TCAGGGACTAAATTGAAC-AAAAAAAAATTCAAGACCC-AATGTGAGAACAATTGCCAAGT
61967812 CCAAAGACTA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
59 21 0.42
60 29 0.58
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (59 bp):
TCAGGGACTAAATTGAACAAAAAAAAATTCAAGACCCAATGTGAGAACAATTGCCAAGT
Found at i:61972283 original size:45 final size:45
Alignment explanation
Indices: 61972219--61972309 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
61972209 ATTAAGAATG
61972219 ATCAAATTAGAGATCATGGACCGAATCTATAACTTTACACATTAT
1 ATCAAATTAGAGATCATGGACCGAATCTATAACTTTACACATTAT
61972264 ATCAAATTAGAGATCATGGACCGAATCTATAACTTTACACATTAT
1 ATCAAATTAGAGATCATGGACCGAATCTATAACTTTACACATTAT
61972309 A
1 A
61972310 CAAGTTTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.31
Consensus pattern (45 bp):
ATCAAATTAGAGATCATGGACCGAATCTATAACTTTACACATTAT
Found at i:61972622 original size:21 final size:21
Alignment explanation
Indices: 61972598--61972638 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61972588 TCATACATTG
* *
61972598 CATAATTTTATTATAAAAAAT
1 CATAATGTAATTATAAAAAAT
61972619 CATAATGTAATTATAAAAAA
1 CATAATGTAATTATAAAAAA
61972639 AAATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
CATAATGTAATTATAAAAAAT
Found at i:61974812 original size:3 final size:3
Alignment explanation
Indices: 61974806--61974863 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
61974796 TGCTCCTCAG
61974806 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
61974854 CTT CTT CTT C
1 CTT CTT CTT C
61974864 ACAATCTGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:61981268 original size:20 final size:21
Alignment explanation
Indices: 61981230--61981273 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
61981220 AAAAAATATA
* *
61981230 TAAAATTTAGTCTTTAATT-T
1 TAAAATTTAGGCTTCAATTGT
*
61981250 TAAAATTTAGGGTTCAATTGT
1 TAAAATTTAGGCTTCAATTGT
61981271 TAA
1 TAA
61981274 TACTGTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (21 bp):
TAAAATTTAGGCTTCAATTGT
Found at i:61985730 original size:19 final size:19
Alignment explanation
Indices: 61985703--61985769 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
61985693 GAAATTAGAA
*
61985703 AGATCAAATTATAGTAAAG
1 AGATTAAATTATAGTAAAG
* * *
61985722 AGATTAAATTCGTA-AAAAA
1 AGATTAAATT-ATAGTAAAG
*
61985741 AAATTAAATTATAGTAAAG
1 AGATTAAATTATAGTAAAG
* *
61985760 GGATTCAATT
1 AGATTAAATT
61985770 CGTGAAAAAT
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
18 2 0.06
19 31 0.89
20 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.13, T:0.30
Consensus pattern (19 bp):
AGATTAAATTATAGTAAAG
Found at i:61986008 original size:111 final size:110
Alignment explanation
Indices: 61985790--61985999 Score: 255
Period size: 111 Copynumber: 1.9 Consensus size: 110
61985780 GCATAGTATG
* * * * *
61985790 GAATTAATATAAAGAAAGTTAACCTCATGAGTATCGAAAATACACAGCTTGAGAGCTAGCGACAC
1 GAATTAATAGAAAGAAAGTAAACCTCATGAGTATCGAAAATACACAGCTTGAGAACGAGCAACAC
* *
61985855 TAGAAATGATCAAATTATAGTAAATGGATTAAACTAGTTAAAATGC
66 TAGAAATGATCAAATTATAGTAAATGAACTAAACTAG-TAAAATGC
* ** *
61985901 GAATTAATAGAAAGAAAG-AAAGCCTCATGAGTATTGAAAATACACATTTTCGGGAACGA-CAAA
1 GAATTAATAGAAAGAAAGTAAA-CCTCATGAGTATCGAAAATACACAGCTT-GAGAACGAGC-AA
61985964 CACTAGAAATGATCAAATTATAGTAACAT-AACTAAA
63 CACTAGAAATGATCAAATTATAGTAA-ATGAACTAAA
61986000 TTCATAAAAG
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
110 2 0.02
111 43 0.51
112 37 0.44
113 2 0.02
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (110 bp):
GAATTAATAGAAAGAAAGTAAACCTCATGAGTATCGAAAATACACAGCTTGAGAACGAGCAACAC
TAGAAATGATCAAATTATAGTAAATGAACTAAACTAGTAAAATGC
Found at i:61987000 original size:2 final size:2
Alignment explanation
Indices: 61986993--61987021 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61986983 ACTAGCTAGG
61986993 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
61987022 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:61991366 original size:47 final size:48
Alignment explanation
Indices: 61991252--61991385 Score: 139
Period size: 47 Copynumber: 2.8 Consensus size: 48
61991242 AACAAGAGGA
* *
61991252 GAACATTCTTAATCAGTTGGCAACTAATTTATGAACATGAGGATAAGG
1 GAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAGATAAGG
* * * * *
61991300 GAACATCACTAATCGGTTGGCAACTAATTT-TGAGCTTGAA-AGT-AGG
1 GAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAGA-TAAGG
* * *
61991346 GAAACATTGTTAATCAGTTGGAAACTAATTTAGGAACATG
1 G-AACATTATTAATCAGTTGGCAACTAATTTATGAACATG
61991386 TGACATATCT
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
46 5 0.07
47 32 0.47
48 31 0.46
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.29
Consensus pattern (48 bp):
GAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAGATAAGG
Found at i:62010910 original size:31 final size:29
Alignment explanation
Indices: 62010842--62010918 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
62010832 CTTTTCAAGT
* *
62010842 GTGCTCAAATAAGGGTTAAATCTTTCAAA
1 GTGCTCAAATAAGAGTAAAATCTTTCAAA
* * *
62010871 ATGGTCAAATAAGAGTAAAACTTCTTTGAAA
1 GTGCTCAAATAAGAGTAAAA--TCTTTCAAA
62010902 GTGCTCAAATAAAGAGT
1 GTGCTCAAAT-AAGAGT
62010919 TTTCACATAC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 16 0.42
31 16 0.42
32 6 0.16
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.29
Consensus pattern (29 bp):
GTGCTCAAATAAGAGTAAAATCTTTCAAA
Found at i:62012987 original size:2 final size:2
Alignment explanation
Indices: 62012980--62013009 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
62012970 GCTTTATCGT
62012980 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
62013010 CCTTATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:62013050 original size:5 final size:5
Alignment explanation
Indices: 62013012--62013043 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
62013002 TCTCTCTCCC
62013012 TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TT
62013044 TTATTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:62014390 original size:32 final size:33
Alignment explanation
Indices: 62014354--62014419 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
62014344 CCTTCACTCC
*
62014354 TTAGCCTTTTCTTTTCC-CTTTCTTCAATTAGG
1 TTAGCCTTCTCTTTTCCTCTTTCTTCAATTAGG
*
62014386 TTAGCCTTCTCTTTTCCTTTTTCTTCAATTAGG
1 TTAGCCTTCTCTTTTCCTCTTTCTTCAATTAGG
62014419 T
1 T
62014420 CCTCTCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.12, C:0.24, G:0.09, T:0.55
Consensus pattern (33 bp):
TTAGCCTTCTCTTTTCCTCTTTCTTCAATTAGG
Found at i:62014433 original size:28 final size:32
Alignment explanation
Indices: 62014372--62014434 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
62014362 TTCTTTTCCC
*
62014372 TTTCTTCAATTAGGTTAGCCTTCTCTTTTCCTT
1 TTTCTTCAATTAGGTTA-CCTTCTCCTTTCCTT
62014405 TTTCTTCAATTAGG-T-CC-TCTCCTTT-CTT
1 TTTCTTCAATTAGGTTACCTTCTCCTTTCCTT
62014433 TT
1 TT
62014435 ATTTCTCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 5 0.17
29 7 0.24
30 2 0.07
32 1 0.03
33 14 0.48
ACGTcount: A:0.11, C:0.25, G:0.08, T:0.56
Consensus pattern (32 bp):
TTTCTTCAATTAGGTTACCTTCTCCTTTCCTT
Found at i:62016762 original size:22 final size:22
Alignment explanation
Indices: 62016701--62016764 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
62016691 TGCTGATCAA
* **
62016701 AGAGCATCAAAGTGCTAAGTAG
1 AGAGCACCAAAGTGCTAAACAG
*
62016723 AGAGCACCAAAGTACTAAACAG
1 AGAGCACCAAAGTGCTAAACAG
* *
62016745 AGAGCACCGAGGTGCTAAAC
1 AGAGCACCAAAGTGCTAAAC
62016765 CCGTACAAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (22 bp):
AGAGCACCAAAGTGCTAAACAG
Found at i:62017343 original size:19 final size:19
Alignment explanation
Indices: 62017282--62017346 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 19
62017272 ATTAAATAAA
* *
62017282 TATTAGTTTATTAATATTT
1 TATTATTTTATTAGTATTT
62017301 TAATTTAATTTTAATT-GATATTT
1 T-A-TT-ATTTT-ATTAG-TATTT
62017324 TATTATTTTATTAGTATTT
1 TATTATTTTATTAGTATTT
62017343 TATT
1 TATT
62017347 TAGTATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
19 13 0.34
20 7 0.18
21 4 0.11
22 5 0.13
23 9 0.24
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TATTATTTTATTAGTATTT
Found at i:62018165 original size:25 final size:25
Alignment explanation
Indices: 62018137--62018188 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
62018127 CAAATTGGTA
62018137 AGACATTTTCCATTCT-TCTCTAAGC
1 AGACATTTTCCATTCTCT-TCTAAGC
62018162 AGACATTTTCCATTCTCTTCTAAGC
1 AGACATTTTCCATTCTCTTCTAAGC
62018187 AG
1 AG
62018189 CAGACATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (25 bp):
AGACATTTTCCATTCTCTTCTAAGC
Found at i:62028489 original size:275 final size:269
Alignment explanation
Indices: 62027856--62028631 Score: 837
Period size: 275 Copynumber: 2.8 Consensus size: 269
62027846 TTCATGTGAG
* * *
62027856 CCATCAACTCATTC-TCACACTAGTAGTAAACATTATTTTCAGCTATCATTTTCGAAAC-GCTCG
1 CCATCAACTCATTCACCATAC-AGTAGTTAACATTATTTTCAGCTATCATTTTCGAAACAGCTC-
* * * * ** *
62027919 GA-TCCCAAACCAAACCACTTCTTGCTGACATCGTATCCTTTATTCCCCATCC-CAATAACTAAA
64 CACCCCCAAACCAAACCACTTCTAGCTGATATTATATCC-TTATTTCCCATCCTCAATAACT-AA
* * * *
62027982 AC-TAAATCTTACTTTTCCACAAACAATTACTTTTGATTGCCAAAAGGAAGTCCTAAAATAAACC
127 ACTTAAATCTTCCTTTTCCACAAACAATCACTTTTGATTGCCAAAA-TAAGTCTTAAAATAAA-C
* * * * *
62028046 CCATTCGAATACCCCAATAATACAATTATCAGTCATTACCACTCTTTCAACAAGTCACATCTTCC
190 CCATTCAAACACCCCAATAATACAATTATCAGTCATTACCACTCTTCCAACAAGTCACATCTACA
62028111 ATGTGTTCTATGTAA
255 ATGTGTTCTATGTAA
* * * * *
62028126 -GATCAATTCATTCACCATACCAGTAGTTAACATTATTGTCGGCTATCATTTTCGAAACAACTCC
1 CCATCAACTCATTCACCATA-CAGTAGTTAACATTATTTTCAGCTATCATTTTCGAAACAGCTCC
* *
62028190 ACCCCCAAACCAAACCATTTCTAGCTGATATTATATCCTTACTTTCCCATCCTCAATAACTGAAC
65 ACCCCCAAACCAAACCACTTCTAGCTGATATTATATCCTTA-TTTCCCATCCTCAATAACTAAAC
* * * *
62028255 TTAAATCTTCCTTTTCCACAGACAATGACTTTTGGTTGCCAAATTATAGTCTTAAAATAAACCCA
129 TTAAATCTTCCTTTTCCACAAACAATCACTTTTGATTGCCAAAATA-AGTCTTAAAATAAACCCA
* * * *
62028320 TTCAAACGCCCCAATAATAGAATTATCACAGTCATTATCACTCTTCCAACAAG-CTGCATCTACA
193 TTCAAACACCCCAATAATACAATTAT--CAGTCATTACCACTCTTCCAACAAGTC-ACATCTACA
*
62028384 ATGTGTTCTTTGTAA
255 ATGTGTTCTATGTAA
* * *
62028399 TCCATCAACTCATTCACCATATCAGTAGTTAACTTTCTTTTCAGCTATCATTTTTGAAACAGCTC
1 -CCATCAACTCATTCACCATA-CAGTAGTTAACATTATTTTCAGCTATCATTTTCGAAACAGCTC
* *
62028464 CACCCCCAAACCTAACCACTTCTAGCTGATATTATATGATTATATCCTTATTTTTCCATCCTCAA
64 CACCCCCAAACCAAACCACTTCTAGCTG-------AT-ATTATATCCTTA-TTTCCCATCCTCAA
* * * * *
62028529 TAACTAAAATTAGATCTTCCCTTTCCACAAACAACCACTTTTGATTGCCAAAATACAGTTCTAAA
120 TAACTAAACTTAAATCTTCCTTTTCCACAAACAATCACTTTTGATTGCCAAAATA-AG-TCTTAA
* * * *
62028594 AATAAACCCATTCAAAAACCCTAATGATACAATCATCA
183 AATAAACCCATTCAAACACCCCAATAATACAATTATCA
62028632 CAATCATTAG
Statistics
Matches: 420, Mismatches: 64, Indels: 32
0.81 0.12 0.06
Matches are distributed among these distances:
269 11 0.03
270 41 0.10
271 73 0.17
272 60 0.14
273 43 0.10
275 80 0.19
282 4 0.01
283 73 0.17
284 35 0.08
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (269 bp):
CCATCAACTCATTCACCATACAGTAGTTAACATTATTTTCAGCTATCATTTTCGAAACAGCTCCA
CCCCCAAACCAAACCACTTCTAGCTGATATTATATCCTTATTTCCCATCCTCAATAACTAAACTT
AAATCTTCCTTTTCCACAAACAATCACTTTTGATTGCCAAAATAAGTCTTAAAATAAACCCATTC
AAACACCCCAATAATACAATTATCAGTCATTACCACTCTTCCAACAAGTCACATCTACAATGTGT
TCTATGTAA
Found at i:62030289 original size:32 final size:29
Alignment explanation
Indices: 62030253--62030317 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
62030243 TTAATAAATG
*
62030253 AATATACATAATTATTAAATATTAAATTAAAA
1 AATATAAAT-ATTATTAAA-A-TAAATTAAAA
* *
62030285 AATATAAATATTTTTAAAATAAATTTAAA
1 AATATAAATATTATTAAAATAAATTAAAA
62030314 AATA
1 AATA
62030318 ATATGAGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 13 0.43
30 1 0.03
31 8 0.27
32 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AATATAAATATTATTAAAATAAATTAAAA
Found at i:62030321 original size:32 final size:34
Alignment explanation
Indices: 62030235--62030321 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 34
62030225 TTATTTATTT
* *
62030235 ATATAATTTTAATAAATGAATATACATAATTATTAA
1 ATATAAATTTAA-AAAT-AATATAAATAATTATTAA
*
62030271 ATATTAAA-TT-AAAA-AATATAAAT-ATTTTTAA
1 ATA-TAAATTTAAAAATAATATAAATAATTATTAA
62030302 A-ATAAATTTAAAAATAATAT
1 ATATAAATTTAAAAATAATAT
62030322 GAGTGGACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
29 4 0.09
30 3 0.07
31 12 0.27
32 13 0.30
34 3 0.07
35 1 0.02
36 5 0.11
37 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (34 bp):
ATATAAATTTAAAAATAATATAAATAATTATTAA
Found at i:62039599 original size:10 final size:10
Alignment explanation
Indices: 62039584--62039635 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
62039574 CATTAATTTG
62039584 TATTTTAAAT
1 TATTTTAAAT
*
62039594 TATTTTTTATAT
1 TA--TTTTAAAT
62039606 GTATTTTAAAT
1 -TATTTTAAAT
*
62039617 TATTTT-TAT
1 TATTTTAAAT
62039626 TATTTTAAAT
1 TATTTTAAAT
62039636 ATAAAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 8 0.24
10 10 0.29
11 7 0.21
12 7 0.21
13 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TATTTTAAAT
Found at i:62039662 original size:21 final size:21
Alignment explanation
Indices: 62039628--62039669 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
62039618 ATTTTTATTA
* *
62039628 TTTTAAATATAAAATATTTAT
1 TTTTAAATAAAAAATAGTTAT
*
62039649 TTTTACATAAAAAATAGTTAT
1 TTTTAAATAAAAAATAGTTAT
62039670 AAAAACTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTAAATAAAAAATAGTTAT
Found at i:62048749 original size:26 final size:26
Alignment explanation
Indices: 62048713--62048764 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
62048703 ATAGATTATG
62048713 GTGCATTGTAATGAGCTAGCGGCACT
1 GTGCATTGTAATGAGCTAGCGGCACT
62048739 GTGCATTGTAATGAGCTAGCGGCACT
1 GTGCATTGTAATGAGCTAGCGGCACT
62048765 CTCTTAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (26 bp):
GTGCATTGTAATGAGCTAGCGGCACT
Found at i:62054123 original size:16 final size:17
Alignment explanation
Indices: 62054102--62054134 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62054092 GACTCGAGTA
62054102 ATTTTAAATTT-AAATT
1 ATTTTAAATTTGAAATT
*
62054118 ATTTTAAGTTTGAAATT
1 ATTTTAAATTTGAAATT
62054135 TAAGTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTGAAATT
Found at i:62056680 original size:2 final size:2
Alignment explanation
Indices: 62056630--62056668 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
62056620 NNNNNNNNNN
* *
62056630 TA TA TA TA TA TA TA TA TA TA TA TA CA CTA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
62056669 AACAATTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 31 0.97
3 1 0.03
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:62056782 original size:18 final size:17
Alignment explanation
Indices: 62056735--62056784 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
62056725 TAAAAATAAC
*
62056735 TATAATAATAGTAAAGA
1 TATAATAATAATAAAGA
*
62056752 TGATAATAGTAATAATAGA
1 T-ATAATAATAATAA-AGA
62056771 TATAATAATAATAA
1 TATAATAATAATAA
62056785 CTAAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.82
19 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (17 bp):
TATAATAATAATAAAGA
Found at i:62056838 original size:29 final size:30
Alignment explanation
Indices: 62056803--62056859 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
62056793 TAAAATTGCT
*
62056803 AAAATA-TAGGCTAAATCGAAATAAAAACG
1 AAAATATTAGGCGAAATCGAAATAAAAACG
*
62056832 AAAATATTGGGCGAAATCGAAATAAAAA
1 AAAATATTAGGCGAAATCGAAATAAAAA
62056860 AGGATTAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.58, C:0.09, G:0.16, T:0.18
Consensus pattern (30 bp):
AAAATATTAGGCGAAATCGAAATAAAAACG
Found at i:62068044 original size:27 final size:27
Alignment explanation
Indices: 62067992--62068044 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
62067982 ATTTAGGTCT
* * *
62067992 ATTTATGATTTTAGTCCCTCTATTAAA
1 ATTTAAGATTTTAATCCCTCCATTAAA
62068019 ATTTAAGA-TTTAATCCCTCCACTTAA
1 ATTTAAGATTTTAATCCCTCCA-TTAA
62068045 TTTGATCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (27 bp):
ATTTAAGATTTTAATCCCTCCATTAAA
Found at i:62073639 original size:12 final size:12
Alignment explanation
Indices: 62073622--62073651 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
62073612 TATTTTATAT
62073622 AAATTCTTTAAA
1 AAATTCTTTAAA
62073634 AAATTCTTTAAA
1 AAATTCTTTAAA
62073646 AAATTC
1 AAATTC
62073652 ATGTCATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTCTTTAAA
Found at i:62076633 original size:46 final size:46
Alignment explanation
Indices: 62076566--62076774 Score: 314
Period size: 46 Copynumber: 4.6 Consensus size: 46
62076556 TTTGAGTACT
* * * *
62076566 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACATTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
* * *
62076612 TCTGATCAAGTGACAAAGTGATAAGTGTTAACTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
62076658 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
62076704 TCTAATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
* *
62076750 TTTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
62076775 ATCATACGTA
Statistics
Matches: 151, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
44 12 0.08
45 5 0.03
46 134 0.89
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:62077393 original size:14 final size:15
Alignment explanation
Indices: 62077374--62077410 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
62077364 GGGGTGTTAC
62077374 AAAATTTAACA-GAT
1 AAAATTTAACAGGAT
62077388 AAAATTTAACAGTGAT
1 AAAATTTAACAG-GAT
62077404 AAAATTT
1 AAAATTT
62077411 GACTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
16 10 0.48
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (15 bp):
AAAATTTAACAGGAT
Found at i:62078443 original size:17 final size:17
Alignment explanation
Indices: 62078421--62078454 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62078411 CGTAAACCAA
*
62078421 ACCATGTCAGATTAAAG
1 ACCATGTCAAATTAAAG
62078438 ACCATGTCAAATTAAAG
1 ACCATGTCAAATTAAAG
62078455 TATAGATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (17 bp):
ACCATGTCAAATTAAAG
Found at i:62082922 original size:2 final size:2
Alignment explanation
Indices: 62082915--62082941 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62082905 AACCAAAAAC
62082915 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
62082942 AATTTCGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62084899 original size:28 final size:28
Alignment explanation
Indices: 62084857--62084918 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
62084847 GAAGTCGTTA
62084857 TATTTTTCATATTTAAAAATTAATTTTTT
1 TATTTTTCATATTTAAAAATTAA-TTTTT
* * *
62084886 TATTTTT-ATTTTTAAGAATTTATTTTT
1 TATTTTTCATATTTAAAAATTAATTTTT
62084913 TATTTT
1 TATTTT
62084919 AAAATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 11 0.37
28 12 0.40
29 7 0.23
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (28 bp):
TATTTTTCATATTTAAAAATTAATTTTT
Found at i:62084927 original size:20 final size:21
Alignment explanation
Indices: 62084883--62084927 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
62084873 AAATTAATTT
62084883 TTTTATTTTTATTTTTAAGAA
1 TTTTATTTTTATTTTTAAGAA
62084904 -TTTATTTTT-TATTTTAA-AA
1 TTTTATTTTTAT-TTTTAAGAA
62084923 TTTTA
1 TTTTA
62084928 AAATGTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTATTTTTATTTTTAAGAA
Found at i:62085103 original size:23 final size:21
Alignment explanation
Indices: 62085062--62085109 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
62085052 TTTAAATTTA
62085062 AAAATTTAAAAATAAAATAACT
1 AAAATTTAAAAATAAAATAA-T
* *
62085084 AAAATTTAAAAGTATTAATAAT
1 AAAATTTAAAAATA-AAATAAT
62085106 AAAA
1 AAAA
62085110 GAATTTAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATTTAAAAATAAAATAAT
Found at i:62086416 original size:21 final size:21
Alignment explanation
Indices: 62086376--62086415 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62086366 AATTAAATTA
*
62086376 TACAAATAGAAACTTTAAAAT
1 TACAAAAAGAAACTTTAAAAT
62086397 TACAAAAAGAAA-TTTAAAA
1 TACAAAAAGAAACTTTAAAA
62086416 AATATATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (21 bp):
TACAAAAAGAAACTTTAAAAT
Done.