Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 275 of 362
Found at i:92895177 original size:3 final size:3
Alignment explanation
Indices: 92895163--92895298 Score: 50
Period size: 3 Copynumber: 45.0 Consensus size: 3
92895153 AAATATACAC
* * *
92895163 TAA TATA TAA TAA TAA TAG TAA TAA TAA TAA TAT TAA -AA GCTAT TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA
* * ** *
92895210 TAA TAC TATA TAA T-A TATA TATA TGTA TAA GCA TCA -AA TAA -AA TAA
1 TAA TAA TA-A TAA TAA TA-A TA-A T-AA TAA TAA TAA TAA TAA TAA TAA
* * * * *
92895256 TAA TAA T-A GAA CAC TAA TAA AAA T-A TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
92895299 ATGTAATAGC
Statistics
Matches: 98, Mismatches: 23, Indels: 24
0.68 0.16 0.17
Matches are distributed among these distances:
2 10 0.10
3 74 0.76
4 13 0.13
5 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:92899346 original size:11 final size:11
Alignment explanation
Indices: 92899330--92899354 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
92899320 AAATTTTCTT
92899330 AAAAACTTAAA
1 AAAAACTTAAA
92899341 AAAAACTTAAA
1 AAAAACTTAAA
92899352 AAA
1 AAA
92899355 TTATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAACTTAAA
Found at i:92899351 original size:19 final size:20
Alignment explanation
Indices: 92899327--92899423 Score: 61
Period size: 19 Copynumber: 4.4 Consensus size: 20
92899317 TGTAAATTTT
*
92899327 CTTAAAAACTTA-AAAAAAA
1 CTTAAAAAATTATAAAAAAA
92899346 CTTAAAAAATTATAAAAAATA
1 CTTAAAAAATTATAAAAAA-A
* *
92899367 TTATAAAAATATTAAAATTGATATAAA
1 CT-TAAAAA-ATTATAA---A-A-AAA
*
92899394 TTTATAAAAATTATAAAAAAA
1 CTTA-AAAAATTATAAAAAAA
92899415 TCTTAAAAA
1 -CTTAAAAA
92899424 TGTGAATCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
19 11 0.18
20 6 0.10
21 9 0.15
22 10 0.16
23 7 0.11
26 9 0.15
27 8 0.13
28 2 0.03
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (20 bp):
CTTAAAAAATTATAAAAAAA
Found at i:92899361 original size:10 final size:10
Alignment explanation
Indices: 92899329--92899413 Score: 54
Period size: 10 Copynumber: 8.7 Consensus size: 10
92899319 TAAATTTTCT
*
92899329 TAAAAACTTA
1 TAAAAAATTA
* *
92899339 AAAAAAACT-
1 TAAAAAATTA
92899348 TAAAAAATTA
1 TAAAAAATTA
92899358 TAAAAAA-TA
1 TAAAAAATTA
92899367 TTATAAAAA-TA
1 -TA-AAAAATTA
*
92899378 T-TAAAATTGA
1 TAAAAAATT-A
* *
92899388 TATAAATTTA
1 TAAAAAATTA
92899398 T-AAAAATTA
1 TAAAAAATTA
92899407 TAAAAAA
1 TAAAAAA
92899414 ATCTTAAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
8 4 0.07
9 17 0.29
10 25 0.42
11 13 0.22
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:92899409 original size:9 final size:9
Alignment explanation
Indices: 92899341--92899412 Score: 58
Period size: 9 Copynumber: 7.6 Consensus size: 9
92899331 AAAACTTAAA
92899341 AAAAACTTA-
1 AAAAA-TTAT
92899350 AAAAATTAT
1 AAAAATTAT
92899359 AAAAAATATTAT
1 --AAAA-ATTAT
92899371 AAAAA-TAT
1 AAAAATTAT
*
92899379 TAAAATTGAT
1 AAAAATT-AT
*
92899389 ATAAATTTAT
1 A-AAAATTAT
92899399 AAAAATTAT
1 AAAAATTAT
92899408 AAAAA
1 AAAAA
92899413 AATCTTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
8 10 0.19
9 19 0.37
10 9 0.17
11 9 0.17
12 5 0.10
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:92899877 original size:25 final size:25
Alignment explanation
Indices: 92899843--92899903 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
92899833 CCACAATTAT
92899843 CGTTTTATTTAGGAAATATCAAGAC
1 CGTTTTATTTAGGAAATATCAAGAC
92899868 CGTTTTATTTAGGAAATATCAAGAC
1 CGTTTTATTTAGGAAATATCAAGAC
*
92899893 CATTTTATTTA
1 CGTTTTATTTA
92899904 ACATAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (25 bp):
CGTTTTATTTAGGAAATATCAAGAC
Found at i:92899993 original size:10 final size:10
Alignment explanation
Indices: 92899980--92900084 Score: 57
Period size: 10 Copynumber: 10.8 Consensus size: 10
92899970 ATTTATTATG
92899980 ATTTTTAATA
1 ATTTTTAATA
92899990 ATTTTT-AT-
1 ATTTTTAATA
92899998 A-TTTTAATGA
1 ATTTTTAAT-A
92900008 ACTTTTATAA-A
1 A-TTTT-TAATA
*
92900019 ATTTTAAAT-
1 ATTTTTAATA
92900028 ATATTTT-ATA
1 AT-TTTTAATA
*
92900038 A-TATTAATAA
1 ATTTTTAAT-A
*
92900048 ATTTTT-ATG
1 ATTTTTAATA
*
92900057 ATTTTTTATA
1 ATTTTTAATA
92900067 ATTGTTT-ATA
1 ATT-TTTAATA
92900077 ATTTTTAA
1 ATTTTTAA
92900085 GTTTATATAA
Statistics
Matches: 74, Mismatches: 6, Indels: 30
0.67 0.05 0.27
Matches are distributed among these distances:
7 4 0.05
8 6 0.08
9 19 0.26
10 31 0.42
11 8 0.11
12 3 0.04
13 3 0.04
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:92900003 original size:29 final size:28
Alignment explanation
Indices: 92899969--92900083 Score: 76
Period size: 29 Copynumber: 4.0 Consensus size: 28
92899959 TAATGTTATG
*
92899969 TATTTATTATGATTTTTAATAATTTTTA
1 TATTTTTTATGATTTTTAATAATTTTTA
* *
92899997 TA-TTTTAATGAACTTTTATAA-AATTTTAAA
1 TATTTTTTATG-A-TTTT-TAATAATTTT-TA
* * *
92900027 TATATTTTAT-AATATTAATAAATTTTTA
1 TATTTTTTATGATTTTTAAT-AATTTTTA
*
92900055 TGATTTTTTATAATTGTTT-ATAATTTTTA
1 T-ATTTTTTATGATT-TTTAATAATTTTTA
92900084 AGTTTATATA
Statistics
Matches: 66, Mismatches: 11, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
27 9 0.14
28 7 0.11
29 33 0.50
30 10 0.15
31 7 0.11
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (28 bp):
TATTTTTTATGATTTTTAATAATTTTTA
Found at i:92900013 original size:18 final size:17
Alignment explanation
Indices: 92899982--92900016 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
92899972 TTATTATGAT
*
92899982 TTTTAATAATTTTTATA
1 TTTTAATAACTTTTATA
92899999 TTTTAATGAACTTTTATA
1 TTTTAAT-AACTTTTATA
92900017 AAATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTAATAACTTTTATA
Found at i:92900023 original size:39 final size:38
Alignment explanation
Indices: 92899980--92900081 Score: 100
Period size: 39 Copynumber: 2.6 Consensus size: 38
92899970 ATTTATTATG
*
92899980 ATTTTTAATAATTTTTAT-ATTTTAATGAACTTTTATAAA
1 ATTTTTAATAATTTTTATAATTTTAAT-AAATTTT-TAAA
* * **
92900019 ATTTTAAAT-ATATTTTATAATATTAATAAATTTTTATG
1 ATTTTTAATAAT-TTTTATAATTTTAATAAATTTTTAAA
*
92900057 ATTTTTTATAATTGTTTATAATTTT
1 ATTTTTAATAATT-TTTATAATTTT
92900082 TAAGTTTATA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
38 12 0.24
39 32 0.63
40 7 0.14
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (38 bp):
ATTTTTAATAATTTTTATAATTTTAATAAATTTTTAAA
Found at i:92900083 original size:19 final size:19
Alignment explanation
Indices: 92899970--92900083 Score: 65
Period size: 20 Copynumber: 5.8 Consensus size: 19
92899960 AATGTTATGT
*
92899970 ATTTATTATGATTTTTA-ATA
1 ATTT-TTATAATTTTTATA-A
* *
92899990 ATTTTTAT-ATTTTAATGA
1 ATTTTTATAATTTTTATAA
* *
92900008 ACTTTTATAAAATTTTA-AA
1 ATTTTTAT-AATTTTTATAA
* *
92900027 TATATTTTATAATATTAATAA
1 -AT-TTTTATAATTTTTATAA
*
92900048 ATTTTTATGATTTTT-TATA
1 ATTTTTATAATTTTTATA-A
92900067 ATTGTTTATAATTTTTA
1 ATT-TTTATAATTTTTA
92900084 AGTTTATATA
Statistics
Matches: 71, Mismatches: 14, Indels: 17
0.70 0.14 0.17
Matches are distributed among these distances:
18 16 0.23
19 19 0.27
20 28 0.39
21 8 0.11
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.59
Consensus pattern (19 bp):
ATTTTTATAATTTTTATAA
Found at i:92900118 original size:24 final size:24
Alignment explanation
Indices: 92900078--92900131 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
92900068 TTGTTTATAA
*
92900078 TTTTTAAGTTTATATAAATTTTAT
1 TTTTTAAATTTATATAAATTTTAT
92900102 TTTTTAATATTTA-ATAAATTTTAT
1 TTTTTAA-ATTTATATAAATTTTAT
92900126 TTTTTA
1 TTTTTA
92900132 TGATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTTTAAATTTATATAAATTTTAT
Found at i:92900137 original size:24 final size:25
Alignment explanation
Indices: 92900086--92900137 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
92900076 AATTTTTAAG
92900086 TTTATATAAATTTTATTTTTTAAT-A
1 TTTATATAAATTTTATTTTTT-ATGA
92900111 TTTA-ATAAATTTTATTTTTTATGA
1 TTTATATAAATTTTATTTTTTATGA
92900135 TTT
1 TTT
92900138 TTTTAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 2 0.08
24 20 0.77
25 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTATATAAATTTTATTTTTTATGA
Found at i:92900187 original size:28 final size:27
Alignment explanation
Indices: 92900156--92900255 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
92900146 TTTTTAAGAA
92900156 TTTTTATATGTTTTATTAATTTTATATT
1 TTTTTATATGTTTTA-TAATTTTATATT
* * * * *
92900184 TTTTCATAAG-TTAATAGAATTTATAAT
1 TTTTTATATGTTTTATA-ATTTTATATT
* *
92900211 TTTTTATATTTTTTATAATATTATAGGTT
1 TTTTTATATGTTTTATAATTTTATA--TT
*
92900240 TTTTTATA-ATTTTATA
1 TTTTTATATGTTTTATA
92900256 TCAATTTAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
26 2 0.04
27 24 0.44
28 20 0.36
29 9 0.16
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (27 bp):
TTTTTATATGTTTTATAATTTTATATT
Found at i:92900218 original size:10 final size:10
Alignment explanation
Indices: 92900203--92900262 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
92900193 GTTAATAGAA
92900203 TTTATAATTT
1 TTTATAATTT
92900213 TTTAT-ATTT
1 TTTATAATTT
*
92900222 TTTATAATAT
1 TTTATAATTT
* ***
92900232 TATAGGTTTT
1 TTTATAATTT
92900242 TTTATAATTT
1 TTTATAATTT
*
92900252 TATATCAATTT
1 TTTAT-AATTT
92900263 AAATATTTCT
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
9 9 0.24
10 23 0.62
11 5 0.14
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (10 bp):
TTTATAATTT
Found at i:92900227 original size:19 final size:19
Alignment explanation
Indices: 92900203--92900255 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
92900193 GTTAATAGAA
*
92900203 TTTATAATTTTTTA-TATTT
1 TTTATAATTTTATAGT-TTT
*
92900222 TTTATAATATTATAGGTTTT
1 TTTATAATTTTATA-GTTTT
92900242 TTTATAATTTTATA
1 TTTATAATTTTATA
92900256 TCAATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
20 16 0.55
21 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTATAATTTTATAGTTTT
Found at i:92905770 original size:8 final size:8
Alignment explanation
Indices: 92905757--92905783 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
92905747 TAGGCCTGTC
92905757 ATCTTATG
1 ATCTTATG
92905765 ATCTTATG
1 ATCTTATG
92905773 ATCTTATG
1 ATCTTATG
92905781 ATC
1 ATC
92905784 CCATGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (8 bp):
ATCTTATG
Found at i:92912768 original size:25 final size:24
Alignment explanation
Indices: 92912731--92912851 Score: 134
Period size: 25 Copynumber: 4.8 Consensus size: 24
92912721 ACGAGCTGTA
* *
92912731 AACGGAAAGCTCATTCGAGCTGAAT
1 AACGG-AAGCTCATACGAGCTAAAT
*
92912756 AACTGGAAGCTCATGCGAGCTAAAT
1 AAC-GGAAGCTCATACGAGCTAAAT
*
92912781 AACGGGAAGCTCATGCGAGCTAAAT
1 AAC-GGAAGCTCATACGAGCTAAAT
* *
92912806 AACAAGAAGCTCATACGAGCTATAT
1 AAC-GGAAGCTCATACGAGCTAAAT
*
92912831 ATCGAGAAGCTCATACGAGCT
1 AACG-GAAGCTCATACGAGCT
92912852 GTGGTGTGTC
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
25 83 0.98
26 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (24 bp):
AACGGAAGCTCATACGAGCTAAAT
Found at i:92912800 original size:50 final size:50
Alignment explanation
Indices: 92912731--92912852 Score: 154
Period size: 50 Copynumber: 2.4 Consensus size: 50
92912721 ACGAGCTGTA
* * ** *
92912731 AACGGAAAGCTCATTCGAGCTGAATAACTGGAAGCTCATGCGAGCTAAAT
1 AACGGGAAGCTCATACGAGCTGAATAACAAGAAGCTCATACGAGCTAAAT
* * *
92912781 AACGGGAAGCTCATGCGAGCTAAATAACAAGAAGCTCATACGAGCTATAT
1 AACGGGAAGCTCATACGAGCTGAATAACAAGAAGCTCATACGAGCTAAAT
* *
92912831 ATCGAGAAGCTCATACGAGCTG
1 AACGGGAAGCTCATACGAGCTG
92912853 TGGTGTGTCC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (50 bp):
AACGGGAAGCTCATACGAGCTGAATAACAAGAAGCTCATACGAGCTAAAT
Found at i:92913041 original size:22 final size:21
Alignment explanation
Indices: 92912991--92913043 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
92912981 TTATGGCTAT
92912991 TGTACAATTTACAAACAATAAA
1 TGTACAATTTA-AAACAATAAA
*
92913013 --T-CAATTTAACACATATAAA
1 TGTACAATTTAAAACA-ATAAA
92913032 TGTACAATTTAA
1 TGTACAATTTAA
92913044 TTACACGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 1 0.04
21 1 0.04
22 8 0.31
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (21 bp):
TGTACAATTTAAAACAATAAA
Found at i:92922786 original size:17 final size:17
Alignment explanation
Indices: 92922744--92922787 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
92922734 CAAAATTATG
* *
92922744 GGCCCACATGCCCGTGT
1 GGCCCACACGCCCGTAT
*
92922761 GGACCCACACGTCCGTAT
1 GG-CCCACACGCCCGTAT
92922779 GGCCCACAC
1 GGCCCACAC
92922788 AACCACACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.18, C:0.43, G:0.25, T:0.14
Consensus pattern (17 bp):
GGCCCACACGCCCGTAT
Found at i:92924353 original size:15 final size:16
Alignment explanation
Indices: 92924328--92924357 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
92924318 ACCCAAGAAC
92924328 ACAATAAGAGAAAAAT
1 ACAATAAGAGAAAAAT
92924344 ACAA-AAGAGAAAAA
1 ACAATAAGAGAAAAA
92924358 GATAATAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.07, G:0.13, T:0.07
Consensus pattern (16 bp):
ACAATAAGAGAAAAAT
Found at i:92926390 original size:15 final size:15
Alignment explanation
Indices: 92926370--92926411 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
92926360 AATTTTAAAG
*
92926370 AAATGTGATTATTTA
1 AAATGTGATTATTAA
*
92926385 AAATGTGACTATTAA
1 AAATGTGATTATTAA
92926400 AAATGTGATTAT
1 AAATGTGATTAT
92926412 CGAGAATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.40
Consensus pattern (15 bp):
AAATGTGATTATTAA
Found at i:92926851 original size:13 final size:13
Alignment explanation
Indices: 92926833--92926859 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92926823 TAATAAACTT
92926833 TATTCTTGACAAA
1 TATTCTTGACAAA
92926846 TATTCTTGACAAA
1 TATTCTTGACAAA
92926859 T
1 T
92926860 TTAATTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TATTCTTGACAAA
Found at i:92939397 original size:16 final size:16
Alignment explanation
Indices: 92939376--92939409 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
92939366 TGGGAGAAAA
92939376 AACCCGATATTTATGG
1 AACCCGATATTTATGG
92939392 AACCCGATATTTATGG
1 AACCCGATATTTATGG
92939408 AA
1 AA
92939410 ATACATCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (16 bp):
AACCCGATATTTATGG
Found at i:92943963 original size:19 final size:19
Alignment explanation
Indices: 92943939--92944036 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
92943929 AATCTTTAAG
92943939 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92943958 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92943977 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92943994 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92944013 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
92944034 GAT
1 GAT
92944037 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:92943969 original size:36 final size:35
Alignment explanation
Indices: 92943929--92944036 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
92943919 ATGGAAATAT
92943929 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
92943965 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
92944001 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
92944037 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:92944590 original size:26 final size:24
Alignment explanation
Indices: 92944546--92944594 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
92944536 GTGCATAGTT
92944546 TTATTTTTTTATATGCTATGTTTAA
1 TTATTTTTTTATATGCTAT-TTTAA
* *
92944571 TTATTTCTTTTATGTTCTATTTTA
1 TTATTT-TTTTATATGCTATTTTA
92944595 TGATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.67
Consensus pattern (24 bp):
TTATTTTTTTATATGCTATTTTAA
Found at i:92947321 original size:37 final size:38
Alignment explanation
Indices: 92947263--92947340 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 38
92947253 TTACGAAGTC
* * *
92947263 TTACCCGGACATAATCTCCACACAAAGTTATCGGGT-T
1 TTACCCGGACAAAATCCCCACACAAAGTCATCGGGTCT
**
92947300 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTCT
1 TTACCCGGACAAAATCCCCACACAAAGTCATCGGGTCT
92947338 TTA
1 TTA
92947341 GAGCTCAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
37 31 0.89
38 4 0.11
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (38 bp):
TTACCCGGACAAAATCCCCACACAAAGTCATCGGGTCT
Found at i:92947535 original size:47 final size:47
Alignment explanation
Indices: 92947457--92947763 Score: 492
Period size: 47 Copynumber: 6.5 Consensus size: 47
92947447 CCCTTCGGGA
* * * * * *
92947457 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
92947504 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92947551 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92947598 CTTAT--CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92947643 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
92947692 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92947741 CTTATCACATATATACACTTTCA
1 CTTATCACATATATACACTTTCA
92947764 TGTATACACA
Statistics
Matches: 244, Mismatches: 10, Indels: 12
0.92 0.04 0.05
Matches are distributed among these distances:
45 45 0.18
47 111 0.45
49 82 0.34
51 6 0.02
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:92953344 original size:1 final size:1
Alignment explanation
Indices: 92953338--92953398 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
92953328 CTTCTATCTC
* * * * * * * *
92953338 AAAAAAAAAGAAAAAGAAAAAGAAAAAGAAAAAAATAATAAAAAGAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
92953399 TGGAGAGGCG
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (1 bp):
A
Found at i:92953353 original size:6 final size:6
Alignment explanation
Indices: 92953338--92953397 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
92953328 CTTCTATCTC
* *
92953338 AAAA-A AAAAGA AAAAGA AAAAGA AAAAGA AAAA-A ATAATA AAAAG-
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
92953383 AAAA-A AAAAGA AAAA
1 AAAAGA AAAAGA AAAA
92953398 ATGGAGAGGC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
5 16 0.33
6 32 0.67
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:92954473 original size:88 final size:88
Alignment explanation
Indices: 92954288--92954952 Score: 517
Period size: 88 Copynumber: 7.6 Consensus size: 88
92954278 ACAAGATTTG
* * *
92954288 GCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGCAGATCTGACA-CTCCTGTGCTTACAAC
1 GCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTGGCATC-CCTGTGCTTATAAG
* ** *
92954351 AAAGCAGATCGAAGATTTCAGCAT-C
65 GAA-CAGATCGAAGATAGCAG-ATGT
* * *
92954376 GCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAAGG
1 GCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAAGG
92954440 AACAGATCGAAGATAGCAGATGT
66 AACAGATCGAAGATAGCAGATGT
* * ** *
92954463 GACA-CTCCTGTGCTTATAGCGAAGC-AGATCGAAGATTTCAG--CATGGCATCCCTGTGTTTAT
1 G-CATC-CCTGTGTTTATAGGGAA-CAAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTAT
* * * *
92954524 AGGGAACA-AGTTGAAGACAGCAGATTT
62 AAGGAACAGA-TCGAAGATAGCAGATGT
* *
92954551 GGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGCAGATCTGACA-CTCCTGTGCTTA-CA
1 -GCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTGGCATC-CCTGTGCTTATAA
**
92954613 GCGAAGCAGATCGAAGATTTCAGCATG-
64 G-GAA-CAGATCGAAGATAGCAG-ATGT
* * * * *
92954640 GCATCCCTGTGTTTATAGGGAACAA-ATTGAAGATAGCAGATCTGACATTCTTGTGATTAT-AGC
1 GCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAAG-
**
92954703 GAAGCAGATCGAAGATTTCAGCATG-
65 GAA-CAGATCGAAGATAGCAG-ATGT
* * * * *
92954728 GCATCCCTATGTTTATAGGGAACAAG-TTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGG
1 GCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAAGG
* *
92954792 AACAAATCGAAGATAGCAGATTT
66 AACAGATCGAAGATAGCAGATGT
* * * ** * ** * *
92954815 GACATTCCTATGCTTATAGCAAAAAAGATCGAAGATTTCAG--CATGGCATTCCTGTGCTTATAG
1 G-CATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAA
* * *
92954878 GGAACA-AGTTGAAGATAACAGATTT
64 GGAACAGA-TCGAAGATAGCAGATGT
* * * *
92954903 GGCATCCCTATGTTTATAGGGAACAA-ATTGAAGATAACAGATCTGACATC
1 -GCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTGGCATC
92954953 TCCATTTCGA
Statistics
Matches: 475, Mismatches: 71, Indels: 62
0.78 0.12 0.10
Matches are distributed among these distances:
86 4 0.01
87 62 0.13
88 364 0.77
89 42 0.09
90 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (88 bp):
GCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAAGG
AACAGATCGAAGATAGCAGATGT
Found at i:92954518 original size:132 final size:132
Alignment explanation
Indices: 92954281--92954944 Score: 751
Period size: 132 Copynumber: 5.0 Consensus size: 132
92954271 CAGAGAAACA
* *
92954281 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATGTGACACTCCTGTGCTT
* * * * *
92954346 ACAACAAAGCAGATCGAAGATTTCAGCATCGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ATAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATA
92954411 GC
131 GC
92954413 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATGTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATGTGACACTCCTGTGCTT
* *
92954478 ATAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGACA
66 ATAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATA
92954543 GC
131 GC
* *
92954545 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATGTGACACTCCTGTGCTT
*
92954610 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATA
66 ATAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATA
92954675 GC
131 GC
* * * * * ** *
92954677 AGATCTGACATTCTTGTGATTAT-AGCGAAGCAGATCGAAGATTTCAGCATG-G-CA-TCCCTAT
1 AGATTTGGCATCCCTGTGTTTATAAG-GAA-CAGATCGAAGATAGCAG-ATGTGACACT-CCTGT
* * * ** *
92954738 GTTTATAGGGAA-CA-AGTTGAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATC
62 GCTTATAGCGAAGCAGA-TCGAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAACAAATT
92954800 GAAGATAGC
124 GAAGATAGC
* * * * * * ** *
92954809 AGATTTGACATTCCTATGCTTAT-AGCAAAAAAGATCGAAGATTTCAGCATG-G-CATTCCTGTG
1 AGATTTGGCATCCCTGTGTTTATAAG--GAACAGATCGAAGATAGCAG-ATGTGACACTCCTGTG
* * ** *
92954871 CTTATAGGGAA-CA-AGTTGAAGATAACAG-ATTTGGCATCCCTATGTTTATAGGGAACAAATTG
63 CTTATAGCGAAGCAGA-TCGAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAACAAATTG
*
92954933 AAGATAAC
125 AAGATAGC
92954941 AGAT
1 AGAT
92954945 CTGACATCTC
Statistics
Matches: 481, Mismatches: 42, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
130 2 0.00
131 14 0.03
132 444 0.92
133 19 0.04
134 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATGTGACACTCCTGTGCTT
ATAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATA
GC
Found at i:92954674 original size:220 final size:220
Alignment explanation
Indices: 92954418--92954900 Score: 777
Period size: 220 Copynumber: 2.2 Consensus size: 220
92954408 ATAGCAGATT
* * * * *
92954418 TGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATGTGACACTCCTGTGCTTATAGC
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACACTCCTGTGATTATAGC
*
92954483 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGACAGCAGA
* *
92954548 TTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTTACA
131 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTATGCTTACA
* **
92954613 GCGAAGCAGATCGAAGATTTCAGCA
196 GCAAAAAAGATCGAAGATTTCAGCA
* *
92954638 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCTTGTGATTATAGC
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACACTCCTGTGATTATAGC
*
92954703 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGACAGCAGA
* * *
92954768 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATTTGACATTCCTATGCTTATA
131 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTATGCTTACA
92954833 GCAAAAAAGATCGAAGATTTCAGCA
196 GCAAAAAAGATCGAAGATTTCAGCA
* * * *
92954858 TGGCATTCCTGTGCTTATAGGGAACAAGTTGAAGATAACAGAT
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGAT
92954901 TTGGCATCCC
Statistics
Matches: 242, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
220 242 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (220 bp):
TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACACTCCTGTGATTATAGC
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGACAGCAGA
TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTATGCTTACA
GCAAAAAAGATCGAAGATTTCAGCA
Found at i:92959082 original size:18 final size:19
Alignment explanation
Indices: 92959052--92959090 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
92959042 CCTCAATGCC
*
92959052 AAAACATAAATAAAACCAT
1 AAAACATAAATAAAACAAT
92959071 AAAACA-AAATAAAACAAT
1 AAAACATAAATAAAACAAT
92959089 AA
1 AA
92959091 TAGCAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (19 bp):
AAAACATAAATAAAACAAT
Found at i:92962954 original size:43 final size:43
Alignment explanation
Indices: 92962902--92963043 Score: 205
Period size: 43 Copynumber: 3.3 Consensus size: 43
92962892 TTTTTGAAAA
*
92962902 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
*
92962945 AAACGCCGCTAAA-AGCCATGACCTTTAGCGGCGCTTTTTTTAC
1 AAACGCCGCTAAAGA-CCATGACCTTTAGCGGCGCTTTTTTCAC
* * * * *
92962988 AAACGCCGCTAAAGATCATAACCTTTAGCTGCACTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
92963031 AAACGCCGCTAAA
1 AAACGCCGCTAAA
92963044 AATAATGGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
42 1 0.01
43 87 0.98
44 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
Found at i:92966596 original size:46 final size:46
Alignment explanation
Indices: 92966543--92966718 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
92966533 TGGTTGAGCA
92966543 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
92966589 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
92966634 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
92966682 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
92966719 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:92966699 original size:93 final size:93
Alignment explanation
Indices: 92966540--92966710 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
92966530 GGATGGTTGA
* * * *
92966540 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
92966605 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
92966633 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
92966698 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
92966711 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:92973216 original size:47 final size:47
Alignment explanation
Indices: 92973155--92973737 Score: 1004
Period size: 47 Copynumber: 12.4 Consensus size: 47
92973145 CAGCCAAGAC
*
92973155 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
92973202 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
92973249 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
92973296 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
92973343 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
92973390 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
92973437 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
92973484 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
92973531 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
92973578 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
92973625 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
92973672 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
92973719 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
92973738 TCCCGAAGGG
Statistics
Matches: 515, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 515 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:92973912 original size:37 final size:37
Alignment explanation
Indices: 92973856--92973934 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
92973846 CCGAGCTCTA
* *
92973856 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
92973893 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
92973930 AAGAC
1 AAGAC
92973935 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:92975518 original size:18 final size:16
Alignment explanation
Indices: 92975487--92975524 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
92975477 TATTGATTAA
92975487 TTTTAAATTTTTTTAT
1 TTTTAAATTTTTTTAT
92975503 TTTTAATATATTTTTTAT
1 TTTTAA-AT-TTTTTTAT
92975521 TTTT
1 TTTT
92975525 CTCTTTTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTAAATTTTTTTAT
Found at i:92975610 original size:7 final size:7
Alignment explanation
Indices: 92975597--92975652 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
92975587 TTAAATATTA
92975597 AATTTTT
1 AATTTTT
92975604 AAGTTTTT
1 AA-TTTTT
92975612 -ATTTTT
1 AATTTTT
*
92975618 TATTTTT
1 AATTTTT
*
92975625 TATTTTT
1 AATTTTT
*
92975632 AAATTTT
1 AATTTTT
*
92975639 AAATTTT
1 AATTTTT
92975646 AATTTTT
1 AATTTTT
92975653 TTTATTTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
6 5 0.11
7 34 0.77
8 5 0.11
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (7 bp):
AATTTTT
Found at i:92975615 original size:14 final size:13
Alignment explanation
Indices: 92975598--92975667 Score: 58
Period size: 14 Copynumber: 5.5 Consensus size: 13
92975588 TAAATATTAA
92975598 ATTTTTAAGTTTTT
1 ATTTTTAA-TTTTT
*
92975612 ATTTTTTATTTTTT
1 A-TTTTTAATTTTT
*
92975626 ATTTTTAAATTTTA
1 ATTTTT-AATTTTT
*
92975640 AATTTTAA--TTT
1 ATTTTTAATTTTT
92975651 -TTTTT-ATTTTT
1 ATTTTTAATTTTT
92975662 ATTTTT
1 ATTTTT
92975668 TGAGTTTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
9 1 0.02
10 4 0.09
11 5 0.11
12 5 0.11
13 7 0.16
14 17 0.38
15 6 0.13
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.76
Consensus pattern (13 bp):
ATTTTTAATTTTT
Found at i:92975623 original size:13 final size:13
Alignment explanation
Indices: 92975607--92975685 Score: 61
Period size: 13 Copynumber: 5.7 Consensus size: 13
92975597 AATTTTTAAG
92975607 TTTTTATTTTTTAT
1 TTTTTA-TTTTTAT
92975621 TTTTTATTTTTAAAT
1 TTTTTATTTTT--AT
** *
92975636 TTTAAATTTTAATTT
1 TTTTTATTTT--TAT
92975651 TTTTTATTTTTAT
1 TTTTTATTTTTAT
*
92975664 TTTTTGA-GTTTAT
1 TTTTT-ATTTTTAT
92975677 TTTTTATTT
1 TTTTTATTT
92975686 CGGTTTAATG
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
12 1 0.02
13 23 0.45
14 7 0.14
15 19 0.37
17 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:92975636 original size:36 final size:36
Alignment explanation
Indices: 92975594--92975667 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 36
92975584 ATATTAAATA
* *
92975594 TTAAATTTTTAAGTTTTTATTTTTTAT-TTTTTATTT
1 TTAAA-TTTTAAATTTTAATTTTTTATATTTTTATTT
*
92975630 TTAAATTTTAAATTTTAATTTTTTTTATTTTTATTT
1 TTAAATTTTAAATTTTAATTTTTTATATTTTTATTT
92975666 TT
1 TT
92975668 TGAGTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 18 0.53
36 16 0.47
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.74
Consensus pattern (36 bp):
TTAAATTTTAAATTTTAATTTTTTATATTTTTATTT
Found at i:92975641 original size:43 final size:43
Alignment explanation
Indices: 92975587--92975668 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
92975577 GACTAAAATA
92975587 TTAAATATTAAATTTTTAAGTTTTTAT-TTTTTATTTTTTATTT
1 TTAAATATTAAA-TTTTAAGTTTTTATATTTTTATTTTTTATTT
* * *
92975630 TTAAATTTTAAATTTTAATTTTTTTTATTTTTATTTTTT
1 TTAAATATTAAATTTTAAGTTTTTATATTTTTATTTTTT
92975669 GAGTTTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 12 0.34
43 23 0.66
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.72
Consensus pattern (43 bp):
TTAAATATTAAATTTTAAGTTTTTATATTTTTATTTTTTATTT
Found at i:92976286 original size:15 final size:15
Alignment explanation
Indices: 92976263--92976313 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
92976253 ATATCCATGG
*
92976263 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
92976278 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
* *
92976293 CTAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
92976307 CCTTAAA
1 CCATAAA
92976314 TATTAAACCG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:92976491 original size:16 final size:17
Alignment explanation
Indices: 92976466--92976499 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
92976456 GAAGTTATAC
*
92976466 TTTAGTGTTT-AGGGTT
1 TTTAGGGTTTAAGGGTT
92976482 TTTAGGGTTTAAGGGTT
1 TTTAGGGTTTAAGGGTT
92976499 T
1 T
92976500 AGTATTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (17 bp):
TTTAGGGTTTAAGGGTT
Found at i:92976508 original size:53 final size:55
Alignment explanation
Indices: 92976441--92976554 Score: 124
Period size: 53 Copynumber: 2.1 Consensus size: 55
92976431 ATGTTTTTTG
* * *
92976441 GGGTTTAGGGTTTTAGAAGTTATACTTTAGTGTTTA-G-GGTTTTTAGGGTTTAA
1 GGGTTTAGGATTTTAGAAGTTATACATTAGTGTTCATGAGGTTTTTAGGGTTTAA
* ** * ** *
92976494 GGGTTTAGTATTTTAGGGGTTATAGATTAGTGTTCATGATTTTTTTAGGGTTTAG
1 GGGTTTAGGATTTTAGAAGTTATACATTAGTGTTCATGAGGTTTTTAGGGTTTAA
92976549 GGGTTT
1 GGGTTT
92976555 TAGGGGTTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
53 29 0.59
54 1 0.02
55 19 0.39
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (55 bp):
GGGTTTAGGATTTTAGAAGTTATACATTAGTGTTCATGAGGTTTTTAGGGTTTAA
Found at i:92976612 original size:41 final size:41
Alignment explanation
Indices: 92976567--92976769 Score: 268
Period size: 41 Copynumber: 5.0 Consensus size: 41
92976557 GGGGTTATAT
92976567 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
*
92976608 GACTTTTAGCGGCGTTTTACTAAAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* *
92976649 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGATCT
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* * * * *
92976690 G-TTTTTAGCGGCGTTTTAACAAAAAACGCCTCTATTGCTCT
1 GACTTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTATTGCTCC
* * *
92976731 G-TTTTTAGCGGCGTGTTAACTAAAA-CGCCGCTATTGCTC
1 GACTTTTAGCGGCGT-TTTACCAAAAGCGCCGCTATTGCTC
92976770 TGTGTTTTAC
Statistics
Matches: 148, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
40 28 0.19
41 118 0.80
42 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
Found at i:92985271 original size:44 final size:42
Alignment explanation
Indices: 92985208--92985416 Score: 196
Period size: 44 Copynumber: 4.9 Consensus size: 42
92985198 TTTTTATATG
92985208 TGATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCAATT
1 TGATTTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATT
* *
92985249 TGAGATTTACGTGTAAGACCACGTTTAGGACGTTGGCATCAATT
1 T--GATTTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATT
* * * *
92985293 TGAAATTTACGTGTAAGACCATGTCTAGGACATCGGCATTGC-ATT
1 TG--ATTTACGTGTAAGACCACGTCTGGGACGTTGGCA-T-CAATT
* *
92985338 TGATTT-CGTATAAGACC-CTGTCTGGGACAG-TGGCATCGATACT
1 TGATTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC-A-ATT
* *
92985381 TGA-TTACATGTAAGACCACGTCTGAGACGTTGGCAT
1 TGATTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
92985417 TTTACGAGCT
Statistics
Matches: 138, Mismatches: 15, Indels: 28
0.76 0.08 0.15
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
42 26 0.19
43 37 0.27
44 65 0.47
45 6 0.04
46 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGATTTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATT
Found at i:92992946 original size:16 final size:16
Alignment explanation
Indices: 92992925--92992972 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
92992915 AAGTTTAATC
92992925 ACATCAAATTATTTTA
1 ACATCAAATTATTTTA
* ** *
92992941 ACATCAAGTT-TAATC
1 ACATCAAATTATTTTA
92992956 ACATCAAATTATTTTA
1 ACATCAAATTATTTTA
92992972 A
1 A
92992973 ACAATCATTT
Statistics
Matches: 23, Mismatches: 8, Indels: 2
0.70 0.24 0.06
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.40
Consensus pattern (16 bp):
ACATCAAATTATTTTA
Found at i:92992948 original size:31 final size:31
Alignment explanation
Indices: 92992912--92992972 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
92992902 CACACATGTA
92992912 ATCAAGTTTAATCACATCAAATTATTTTAAC
1 ATCAAGTTTAATCACATCAAATTATTTTAAC
92992943 ATCAAGTTTAATCACATCAAATTATTTTAA
1 ATCAAGTTTAATCACATCAAATTATTTTAA
92992973 ACAATCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (31 bp):
ATCAAGTTTAATCACATCAAATTATTTTAAC
Found at i:92992961 original size:15 final size:15
Alignment explanation
Indices: 92992912--92992962 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
92992902 CACACATGTA
92992912 ATCAAGTTTAATCAC
1 ATCAAGTTTAATCAC
* ** *
92992927 ATCAAATTATTTTAAC
1 ATCAAGTT-TAATCAC
92992943 ATCAAGTTTAATCAC
1 ATCAAGTTTAATCAC
92992958 ATCAA
1 ATCAA
92992963 ATTATTTTAA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
15 16 0.59
16 11 0.41
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (15 bp):
ATCAAGTTTAATCAC
Found at i:92996436 original size:20 final size:20
Alignment explanation
Indices: 92996411--92996448 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
92996401 ACCGAGCTCT
92996411 AGCCGCACCACCCGCCCTCC
1 AGCCGCACCACCCGCCCTCC
92996431 AGCCGCACCACCCGCCCT
1 AGCCGCACCACCCGCCCT
92996449 AAGTTTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.63, G:0.16, T:0.05
Consensus pattern (20 bp):
AGCCGCACCACCCGCCCTCC
Found at i:92996701 original size:37 final size:37
Alignment explanation
Indices: 92996658--92996740 Score: 132
Period size: 37 Copynumber: 2.2 Consensus size: 37
92996648 GTCCGACTAT
*
92996658 CCCTACACACCATATA-GGTCATTAAATACATATCCAA
1 CCCTACACACCATATAGGGT-ATTAAATACACATCCAA
*
92996695 CCCTACACACCATATAGGGTATTAAATACCCATCCAA
1 CCCTACACACCATATAGGGTATTAAATACACATCCAA
92996732 CCCTACACA
1 CCCTACACA
92996741 ACTTTTAGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
37 40 0.93
38 3 0.07
ACGTcount: A:0.39, C:0.34, G:0.06, T:0.22
Consensus pattern (37 bp):
CCCTACACACCATATAGGGTATTAAATACACATCCAA
Found at i:92997008 original size:21 final size:21
Alignment explanation
Indices: 92996984--92997024 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
92996974 TAATGAATAG
92996984 CAGATCATACATAACATATTT
1 CAGATCATACATAACATATTT
* *
92997005 CAGATTATACATAACGTATT
1 CAGATCATACATAACATATT
92997025 ACAAATTATG
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:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (21 bp):
CAGATCATACATAACATATTT
Found at i:92997032 original size:21 final size:21
Alignment explanation
Indices: 92996990--92997033 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
92996980 ATAGCAGATC
* *
92996990 ATACATAACATATTTCAGATT
1 ATACATAACATATTACAAATT
*
92997011 ATACATAACGTATTACAAATT
1 ATACATAACATATTACAAATT
92997032 AT
1 AT
92997034 GCTTATCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (21 bp):
ATACATAACATATTACAAATT
Found at i:93001713 original size:26 final size:26
Alignment explanation
Indices: 93001674--93001781 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
93001664 CATGGTACAT
93001674 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
93001700 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93001726 TGATAATGGGTTAGGTAAAAGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93001752 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93001778 TGAT
1 TGAT
93001782 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93005161 original size:21 final size:20
Alignment explanation
Indices: 93005135--93005173 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
93005125 AATGCACATG
*
93005135 ATATTAAACATGATAATAATA
1 ATATTAAACACGA-AATAATA
93005156 ATATTAAACACGAAATAA
1 ATATTAAACACGAAATAA
93005174 AATCATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (20 bp):
ATATTAAACACGAAATAATA
Found at i:93005361 original size:14 final size:13
Alignment explanation
Indices: 93005334--93005403 Score: 51
Period size: 14 Copynumber: 5.5 Consensus size: 13
93005324 ATATGTACAT
93005334 AATAT-ATATAAA
1 AATATAATATAAA
93005346 AATATAATATTAAA
1 AATATAATA-TAAA
* *
93005360 AATAT-ATA-CAT
1 AATATAATATAAA
93005371 AATATAA-AGTTAAA
1 AATATAATA--TAAA
93005385 AATA-ATATATAAA
1 AATATA-ATATAAA
93005398 AATATA
1 AATATA
93005404 TACATGATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
11 7 0.16
12 6 0.13
13 15 0.33
14 16 0.36
15 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (13 bp):
AATATAATATAAA
Found at i:93005363 original size:37 final size:36
Alignment explanation
Indices: 93005311--93005422 Score: 134
Period size: 37 Copynumber: 3.0 Consensus size: 36
93005301 AAGGTGCATT
* * * *
93005311 AATAGTATTGAAAATATGTACATAATATATATAAAA
1 AATAATATTAAAAATATATACATAATATATATTAAA
*
93005347 ATATAATATTAAAAATATATACATAATATAAAGTTAAA
1 A-ATAATATTAAAAATATATACATAATATATA-TTAAA
* *
93005385 AATAATATATAAAAATATATACATGATATCTATTAAA
1 AATAATAT-TAAAAATATATACATAATATATATTAAA
93005422 A
1 A
93005423 GAATATACAC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
36 1 0.02
37 39 0.60
38 25 0.38
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (36 bp):
AATAATATTAAAAATATATACATAATATATATTAAA
Found at i:93005383 original size:25 final size:24
Alignment explanation
Indices: 93005337--93005403 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 24
93005327 TGTACATAAT
93005337 ATATATAAAAATATAATATTAAAA
1 ATATATAAAAATATAATATTAAAA
*
93005361 ATATATACATAATATAA-AGTTAAAAATA
1 ATATATA-AAAATATAATA-TT--AAA-A
93005389 ATATATAAAAATATA
1 ATATATAAAAATATA
93005404 TACATGATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
24 8 0.22
25 10 0.28
27 10 0.28
28 8 0.22
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (24 bp):
ATATATAAAAATATAATATTAAAA
Found at i:93005495 original size:22 final size:20
Alignment explanation
Indices: 93005470--93005514 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
93005460 AATTGAAGCT
*
93005470 AAAACTAATACTAATAATAGTA
1 AAAACTAATAAT-ATAATA-TA
93005492 AAAACTAATAATATAATATA
1 AAAACTAATAATATAATATA
93005512 AAA
1 AAA
93005515 TAAAATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 6 0.27
22 11 0.50
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAACTAATAATATAATATA
Found at i:93005503 original size:3 final size:3
Alignment explanation
Indices: 93005475--93005648 Score: 58
Period size: 3 Copynumber: 58.0 Consensus size: 3
93005465 AAGCTAAAAC
* * *
93005475 TAA TAC TAA TAA TAG TAA AAA CTAA TAA T-A TAA T-A TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
93005518 -AA TGAA -AA TAA -AGA -AA TAA TAG TAA TAA TAC GAA GAT TAA TAA
1 TAA T-AA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
93005561 TAG TAA TAG TAA CAA TAA TGA TAA TATA TATG TATA TGAA TAG TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TA-A T-AA TAA TAA TAA
* **
93005610 TAA TAA TAA TAA TAC TAA -AA TAA TTAA TTT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
93005649 AGTAATTAAA
Statistics
Matches: 125, Mismatches: 33, Indels: 26
0.68 0.18 0.14
Matches are distributed among these distances:
2 14 0.11
3 93 0.74
4 17 0.14
5 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:93005637 original size:21 final size:21
Alignment explanation
Indices: 93005608--93005657 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
93005598 GAATAGTACT
*
93005608 AATAA-TAATAATAATACTAA
1 AATAATTAATAATAATAATAA
**
93005628 AATAATTAATTTTAATAATAA
1 AATAATTAATAATAATAATAA
*
93005649 AGTAATTAA
1 AATAATTAA
93005658 AAAAGGATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AATAATTAATAATAATAATAA
Found at i:93006182 original size:13 final size:13
Alignment explanation
Indices: 93006164--93006188 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93006154 GCAGGTCCAT
93006164 CGCCGGCCACCGA
1 CGCCGGCCACCGA
93006177 CGCCGGCCACCG
1 CGCCGGCCACCG
93006189 CACGTAGTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.56, G:0.32, T:0.00
Consensus pattern (13 bp):
CGCCGGCCACCGA
Found at i:93007738 original size:46 final size:44
Alignment explanation
Indices: 93007662--93007822 Score: 180
Period size: 46 Copynumber: 3.5 Consensus size: 44
93007652 AATGTAAAAC
* *
93007662 CATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGA
1 CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGT-C-AGTGTAAGA
* * *
93007709 CATGTCTGGAACATACATCGGCCTCGAGACGTAAGTCAGTATAAGA
1 CATGTCTGGGACATGCATCGGCCTCGAGACG--AGTCAGTGTAAGA
*
93007755 CATGTCTGGGACATGCATCGG-CTACGAGACGTGTCAGTGTAAGA
1 CATGTCTGGGACATGCATCGGCCT-CGAGACGAGTCAGTGTAAGA
*
93007799 CCATGTCCGGGACATGGCATCGGC
1 -CATGTCTGGGACAT-GCATCGGC
93007823 ACCTTACCCC
Statistics
Matches: 98, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 55 0.56
47 14 0.14
48 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (44 bp):
CATGTCTGGGACATGCATCGGCCTCGAGACGAGTCAGTGTAAGA
Found at i:93014183 original size:25 final size:26
Alignment explanation
Indices: 93014154--93014208 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
93014144 TGAAATTCCC
93014154 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
93014179 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93014205 ATCA
1 ATCA
93014209 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93014964 original size:34 final size:35
Alignment explanation
Indices: 93014897--93014979 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 35
93014887 CTGGTCTGAT
*
93014897 ATGACATTCTGATATGATATATATGCTTTTGAAAAA
1 ATGACATTTTGATATGA-ATATATGCTTTTGAAAAA
*
93014933 ATGACATTTTGATATG-ATATATG-TTTATGAAAAT
1 ATGACATTTTGATATGAATATATGCTTT-TGAAAAA
* *
93014967 ATGATACTTTGAT
1 ATGACATTTTGAT
93014980 CCGAAATATG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 3 0.07
34 24 0.57
36 15 0.36
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.42
Consensus pattern (35 bp):
ATGACATTTTGATATGAATATATGCTTTTGAAAAA
Found at i:93017905 original size:46 final size:46
Alignment explanation
Indices: 93017835--93018144 Score: 415
Period size: 46 Copynumber: 6.9 Consensus size: 46
93017825 TTTGAAGTGA
* * * * * *
93017835 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
93017881 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
93017927 TGCCATGGTATCTTTTAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
93017973 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
93018018 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
93018064 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
93018102 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
93018145 AAGAGCACAC
Statistics
Matches: 238, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
38 33 0.14
39 1 0.00
40 2 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 50 0.21
46 147 0.62
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:93018057 original size:91 final size:91
Alignment explanation
Indices: 93017835--93018144 Score: 420
Period size: 91 Copynumber: 3.5 Consensus size: 91
93017825 TTTGAAGTGA
* * * * * *
93017835 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
** * *
93017899 CCATGGTCTTATTCTTTTCATGTCACGT
65 CCATGGTCTTACACATTTCATATCA-GT
* *
93017927 TGCCATGGTATCTTTTAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
93017992 CATGGTCTTACACATTTCATATCAGT
66 CATGGTCTTACACATTTCATATCAGT
93018018 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
93018083 CATGGTCTTACACA---C--A--GGT
66 CATGGTCTTACACATTTCATATCAGT
*
93018102 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
93018145 AAGAGCACAC
Statistics
Matches: 201, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
84 44 0.22
86 1 0.00
88 1 0.00
91 82 0.41
92 73 0.36
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGT
Found at i:93018084 original size:137 final size:130
Alignment explanation
Indices: 93017835--93018144 Score: 417
Period size: 137 Copynumber: 2.3 Consensus size: 130
93017825 TTTGAAGTGA
* * * * *
93017835 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAA
** * * *
93017899 CCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTTAACCATGGTCTTACACATCTC
65 CCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C
93017964 ATATCAGGT
125 --A-CAGGT
93017973 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
93018037 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
66 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
*
93018102 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
93018145 AAGAGCACAC
Statistics
Matches: 159, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
129 47 0.30
130 1 0.01
132 1 0.01
135 3 0.02
137 74 0.47
138 33 0.21
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (130 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
Found at i:93018110 original size:38 final size:38
Alignment explanation
Indices: 93018059--93018132 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
93018049 CATTTCATAT
93018059 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
93018097 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
93018133 TATTTCATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:93020283 original size:11 final size:11
Alignment explanation
Indices: 93020267--93020314 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
93020257 CTTTATATAC
93020267 TAATAAAATAA
1 TAATAAAATAA
*
93020278 TAATAAAATATCT
1 TAATAAAATA--A
* *
93020291 TATTAAAATAT
1 TAATAAAATAA
93020302 TAATAAAATAA
1 TAATAAAATAA
93020313 TA
1 TA
93020315 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:93021290 original size:22 final size:22
Alignment explanation
Indices: 93021245--93021306 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
93021235 CTATAGGCCT
93021245 TAAAT-CTCAAAC-CTTAAACTA
1 TAAATCCT-AAACTCTTAAACTA
93021266 TAAATCCTAAACTCTTAAA-TCA
1 TAAATCCTAAACTCTTAAACT-A
* *
93021288 TAAACCCTAAAATCTTAAA
1 TAAATCCTAAACTCTTAAA
93021307 AATAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 10 0.28
22 26 0.72
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATCCTAAACTCTTAAACTA
Found at i:93021798 original size:42 final size:42
Alignment explanation
Indices: 93021744--93021843 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
93021734 ATTTAAGTTC
*
93021744 AAGGTTTAGGGTATTGGGTTTAGAATTTAGTTTATAAGGTTT
1 AAGGTTTAGGGTATTGGGTTTAGAATTTAGTCTATAAGGTTT
* * *
93021786 AAGGTATT-GGGTATTGGGTTTAGAGTTTGGTCTATAGGGTTT
1 AAGGT-TTAGGGTATTGGGTTTAGAATTTAGTCTATAAGGTTT
*
93021828 AGGGTTTAGGGTATTG
1 AAGGTTTAGGGTATTG
93021844 TGTATTTGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.04
42 47 0.92
43 2 0.04
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.43
Consensus pattern (42 bp):
AAGGTTTAGGGTATTGGGTTTAGAATTTAGTCTATAAGGTTT
Found at i:93021830 original size:7 final size:7
Alignment explanation
Indices: 93021820--93021893 Score: 62
Period size: 7 Copynumber: 10.4 Consensus size: 7
93021810 GTTTGGTCTA
93021820 TAGGGTT
1 TAGGGTT
93021827 TAGGGTT
1 TAGGGTT
93021834 TAGGGTAT
1 TAGGGT-T
*
93021842 T-GTGTAT
1 TAGGGT-T
*
93021849 T-TGGTT
1 TAGGGTT
93021855 TAGGGTT
1 TAGGGTT
** *
93021862 TAGTCTA
1 TAGGGTT
93021869 TAGGGTT
1 TAGGGTT
93021876 TAGGGTAT
1 TAGGGT-T
93021884 TAGGGTT
1 TAGGGTT
93021891 TAG
1 TAG
93021894 TGTATTGGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
6 2 0.04
7 43 0.80
8 9 0.17
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (7 bp):
TAGGGTT
Found at i:93021854 original size:21 final size:22
Alignment explanation
Indices: 93021827--93021886 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
93021817 CTATAGGGTT
*
93021827 TAGGGTTTAGGGTATT-GTGTA
1 TAGGGTTTAGGGTATTAGTCTA
**
93021848 TTTGGTTTAGGGT-TTAGTCTA
1 TAGGGTTTAGGGTATTAGTCTA
93021869 TAGGGTTTAGGGTATTAG
1 TAGGGTTTAGGGTATTAG
93021887 GGTTTAGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 2 0.06
21 26 0.81
22 4 0.12
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.45
Consensus pattern (22 bp):
TAGGGTTTAGGGTATTAGTCTA
Found at i:93021902 original size:49 final size:48
Alignment explanation
Indices: 93021781--93021904 Score: 169
Period size: 49 Copynumber: 2.5 Consensus size: 48
93021771 TAGTTTATAA
* * *
93021781 GGTTTAAGGTATTGGGTATTGGGTTTAGAGTTTGGTCTATAGGGTTTAG
1 GGTTTAGGGTATTGTGTATT-GGTTTAGAGTTTAGTCTATAGGGTTTAG
*
93021830 GGTTTAGGGTATTGTGTATTTGGTTTAGGGTTTAGTCTATAGGGTTTAG
1 GGTTTAGGGTATTGTGTA-TTGGTTTAGAGTTTAGTCTATAGGGTTTAG
93021879 GGTATTAGGGT-TTAGTGTATTGGTTT
1 GGT-TTAGGGTATT-GTGTATTGGTTT
93021905 TGGGATTAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
49 54 0.79
50 14 0.21
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.46
Consensus pattern (48 bp):
GGTTTAGGGTATTGTGTATTGGTTTAGAGTTTAGTCTATAGGGTTTAG
Found at i:93022284 original size:83 final size:84
Alignment explanation
Indices: 93022197--93022424 Score: 273
Period size: 84 Copynumber: 2.7 Consensus size: 84
93022187 ATTGAAATGT
* *
93022197 CGTCGTTTTATTTCGCG-GGTAGT-GG-ATTTAGTGGCGCTATCTTATAAACGCCACTAATAATA
1 CGTCGTTTTATGTCGCGCGGT-GTAGGTA-TTAGTGGCGCTATCTTATAAACGCCACTAAGAATA
*
93022259 TGAAAAATCGAATGAAAACTA
64 TGAAAAACCGAATGAAAACTA
* * * *
93022280 CGTCGTTTTATGTGGCGCGGTTTAGGTATTAGTGGCGTTATCTTATAAGCGCCACTAAGAATATG
1 CGTCGTTTTATGTCGCGCGGTGTAGGTATTAGTGGCGCTATCTTATAAACGCCACTAAGAATATG
*
93022345 AGAAACCGAATGAAAACTA
66 AAAAACCGAATGAAAACTA
* * * * * * * *
93022364 CGTCGTTTTATGTGGCACGGTTTAGGAATTAGTGGCGCTATCCTAAAAACACCACAAAGAA
1 CGTCGTTTTATGTCGCGCGGTGTAGGTATTAGTGGCGCTATCTTATAAACGCCACTAAGAA
93022425 ACTGAGTTAC
Statistics
Matches: 126, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
83 16 0.13
84 109 0.87
85 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (84 bp):
CGTCGTTTTATGTCGCGCGGTGTAGGTATTAGTGGCGCTATCTTATAAACGCCACTAAGAATATG
AAAAACCGAATGAAAACTA
Found at i:93022333 original size:84 final size:84
Alignment explanation
Indices: 93022224--93022424 Score: 303
Period size: 84 Copynumber: 2.4 Consensus size: 84
93022214 GGTAGTGGAT
* *
93022224 TTAGTGGCGCTATCTTATAAACGCCACTAATAATATGAAAAATCGAATGAAAACTACGTCGTTTT
1 TTAGTGGCGCTATCTTATAAACGCCACTAAGAATATGAAAAACCGAATGAAAACTACGTCGTTTT
* *
93022289 ATGTGGCGCGGTTTAGGTA
66 ATGTGGCACGGTTTAGGAA
* * *
93022308 TTAGTGGCGTTATCTTATAAGCGCCACTAAGAATATGAGAAACCGAATGAAAACTACGTCGTTTT
1 TTAGTGGCGCTATCTTATAAACGCCACTAAGAATATGAAAAACCGAATGAAAACTACGTCGTTTT
93022373 ATGTGGCACGGTTTAGGAA
66 ATGTGGCACGGTTTAGGAA
* * * *
93022392 TTAGTGGCGCTATCCTAAAAACACCACAAAGAA
1 TTAGTGGCGCTATCTTATAAACGCCACTAAGAA
93022425 ACTGAGTTAC
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 104 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (84 bp):
TTAGTGGCGCTATCTTATAAACGCCACTAAGAATATGAAAAACCGAATGAAAACTACGTCGTTTT
ATGTGGCACGGTTTAGGAA
Found at i:93022809 original size:16 final size:16
Alignment explanation
Indices: 93022784--93022816 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
93022774 GGAATGCATA
93022784 TTTCTATTGTTAATGC
1 TTTCTATTGTTAATGC
*
93022800 TTTCTGTTGTTAATGC
1 TTTCTATTGTTAATGC
93022816 T
1 T
93022817 CAGCACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (16 bp):
TTTCTATTGTTAATGC
Found at i:93024840 original size:50 final size:51
Alignment explanation
Indices: 93024773--93024879 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 51
93024763 AGATGTTAAG
* * *
93024773 TTTATATATTCTATCAATTT-GATCTTGATTTAACAAA-TTAAATCGTAATA
1 TTTATATATTCTATCAATTTAG-TCATAATTTAACAAATTTAAATCGTAACA
* * **
93024823 TTTATATATTTTGTCAATTTAGTCATAATTTAACAAATTTAGCTCGTAACA
1 TTTATATATTCTATCAATTTAGTCATAATTTAACAAATTTAAATCGTAACA
93024874 TTTATA
1 TTTATA
93024880 CGTTATGTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
50 31 0.65
51 17 0.35
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (51 bp):
TTTATATATTCTATCAATTTAGTCATAATTTAACAAATTTAAATCGTAACA
Found at i:93025305 original size:3 final size:3
Alignment explanation
Indices: 93025299--93025338 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
93025289 ATTATTATTA
93025299 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG -TTG TTG
93025339 ATTCGAGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:93025781 original size:13 final size:13
Alignment explanation
Indices: 93025763--93025792 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
93025753 CCACATAATA
93025763 CATAAATATATAT
1 CATAAATATATAT
93025776 CATAAATATATAT
1 CATAAATATATAT
93025789 CATA
1 CATA
93025793 TCATAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:93025806 original size:9 final size:9
Alignment explanation
Indices: 93025794--93025858 Score: 60
Period size: 9 Copynumber: 7.2 Consensus size: 9
93025784 TATATCATAT
*
93025794 CATAAGTTA
1 CATAACTTA
93025803 CATAACTTA
1 CATAACTTA
*
93025812 CATACCTTA
1 CATAACTTA
*
93025821 CATAAATGTA
1 CATAACT-TA
* * *
93025831 TATCA-TAA
1 CATAACTTA
93025839 CATAACTTA
1 CATAACTTA
93025848 CATAACTTA
1 CATAACTTA
93025857 CA
1 CA
93025859 AAGTTTACTT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
8 4 0.09
9 35 0.80
10 5 0.11
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:93031016 original size:13 final size:14
Alignment explanation
Indices: 93031000--93031028 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93030990 TTCTAAATAT
93031000 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
93031013 TTATAATTGTTTAA
1 TTATAATTGTTTAA
93031027 TT
1 TT
93031029 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:93031779 original size:33 final size:33
Alignment explanation
Indices: 93031729--93031810 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
93031719 TTAGAATTAA
* *
93031729 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGT
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGT
* *
93031762 TGTTTTTGGCTGCA--TTTTATACTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGT
* *
93031793 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
93031811 AATGCAGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.15, C:0.05, G:0.20, T:0.61
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATACTAAATTTGT
Found at i:93033901 original size:15 final size:14
Alignment explanation
Indices: 93033875--93033910 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
93033865 GTTTGCTTCC
93033875 GTACCAATTTTGTA
1 GTACCAATTTTGTA
93033889 GTACCATATTTTGTA
1 GTACCA-ATTTTGTA
*
93033904 ATACCAA
1 GTACCAA
93033911 ATATTGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (14 bp):
GTACCAATTTTGTA
Found at i:93037105 original size:10 final size:10
Alignment explanation
Indices: 93037090--93037166 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 10
93037080 TTATTAAATT
93037090 ATTTTTTATA
1 ATTTTTTATA
93037100 A-TTTTTATA
1 ATTTTTTATA
* *
93037109 AATTATTA-A
1 ATTTTTTATA
*
93037118 TATTTTTT-GA
1 -ATTTTTTATA
*
93037128 ATTTTTTACA
1 ATTTTTTATA
93037138 TATTTTTTATA
1 -ATTTTTTATA
93037149 TATTTTTT-TA
1 -ATTTTTTATA
*
93037159 AATTTTTA
1 ATTTTTTA
93037167 GCGGAAAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
9 23 0.42
10 15 0.27
11 17 0.31
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:93037154 original size:20 final size:19
Alignment explanation
Indices: 93037101--93037154 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
93037091 TTTTTTATAA
*
93037101 TTTTTATAAATTATTAATAT
1 TTTTTATATATT-TTAATAT
*
93037121 TTTTTGA-ATTTTTTACATAT
1 TTTTT-ATATATTTTA-ATAT
93037141 TTTTTATATATTTT
1 TTTTTATATATTTT
93037155 TTTAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.14
20 23 0.82
21 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTATATATTTTAATAT
Found at i:93037713 original size:25 final size:26
Alignment explanation
Indices: 93037679--93037727 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
93037669 CCGACCCGAG
*
93037679 CAAACAAAACCA-AAAACCAAAAAAA
1 CAAACAAAACAAGAAAACCAAAAAAA
*
93037704 CAAACAAAACAAGAAAATCAAAAA
1 CAAACAAAACAAGAAAACCAAAAA
93037728 TATTATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.76, C:0.20, G:0.02, T:0.02
Consensus pattern (26 bp):
CAAACAAAACAAGAAAACCAAAAAAA
Found at i:93038909 original size:21 final size:21
Alignment explanation
Indices: 93038885--93038929 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
93038875 GCTACCGAGG
93038885 GTCATAATCCAAAGACCTACA
1 GTCATAATCCAAAGACCTACA
93038906 GTCATAATCCAAAGACCTACA
1 GTCATAATCCAAAGACCTACA
93038927 GTC
1 GTC
93038930 TTCCCCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.20
Consensus pattern (21 bp):
GTCATAATCCAAAGACCTACA
Found at i:93045267 original size:132 final size:132
Alignment explanation
Indices: 93045057--93046100 Score: 1683
Period size: 132 Copynumber: 7.9 Consensus size: 132
93045047 ATCCTACAGA
** * * *
93045057 TCTTGTTTCCCTAAAGTTACAGTGAAGCAGATCAAAGACGGCGAATCTTGGCTTCCTGAAGTTGT
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
*
93045122 AGTGAAGCAGATTTAAGCCACAAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
*
93045187 AG
131 GG
* *
93045189 TCTTGTTTCCCTGGAGTTGCAGTGAAACAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
93045254 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
93045319 GG
131 GG
* * *
93045321 TCTTGTTTCCCTAGAGTTGCAATGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGT
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
*
93045386 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCAGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
93045451 GG
131 GG
* * * *
93045453 TCTTGTTTCCCTGAAGTTGTAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGT
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
* * * * *
93045518 AGTGAAGCAGATTTAAGCCATCAACCTAGCTCCCTAAAGTTTTAGTAGAGTAGACTAAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
93045583 GG
131 GG
*
93045585 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
* *
93045650 AGTGAAGCAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
*
93045715 GA
131 GG
*
93045717 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
* *
93045782 AGTGAAGAAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
93045847 GG
131 GG
* * * * *
93045849 TCTTGTTTCCCTGCAGTTGTAGTGAAGCAAATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGC
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
* * *
93045914 AGTGAAGTAGATTTAAGCTACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGATGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
93045979 GG
131 GG
* * * *
93045981 TCTTGTTTCCCTGGAGTTGTAGTGAAGCAGATCGAAGACAGCGAATCTTGGCTTCTTGAAGTTAC
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
* * * *
93046046 AGTGAAGCAGATTTAAGCCACTAACCTAGCTTCCTAAAGTTATAATGGAGTAGGC
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
93046101 CGAAGATTGC
Statistics
Matches: 847, Mismatches: 65, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 847 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (132 bp):
TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
GG
Found at i:93045392 original size:45 final size:45
Alignment explanation
Indices: 93045343--93045793 Score: 153
Period size: 45 Copynumber: 10.2 Consensus size: 45
93045333 AGAGTTGCAA
*
93045343 TGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGTAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
** ** * * * *
93045388 TGAAGCAGATTTAAG-CCACCAA-CCTAGCTCCCTAAAGTTGTAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
* * * **** * *
93045431 TGGAGTAG-GCAGAA-A-TTTTAGGTCTT-GTTTCCCTGAAGTTGTAG
1 TGAAGCAGATC-GAAGACGGCGA-ATCTTAGCTT-CCTGAAGTTGTAG
* *
93045475 TGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGTAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
** * ** * * * *
93045520 TGAAGCAGATTTAAGCCATC-AA-CCTAGCTCCCTAAAGTTTTAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
* * ***** * * * *
93045563 T-AGAGTAGA-CTAA-AATTTTAGGTCTT-GTTTCCCTGGAGTTGCAG
1 TGA-AGCAGATCGAAGACGGCGA-ATCTTAGCTT-CCTGAAGTTGTAG
*
93045607 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGCAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
** ** * * *
93045652 TGAAGCAGATTTAAG-CCACCAA-CCTAGCTTCCTAAAGTTGTAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
* * * * ***** * *
93045695 TGGAGTAG-GCTAA-AATTTTAGATCTT-GTTTCCCTGAAGTTGCAG
1 TGAAGCAGATCGAAGACGGCGA-ATCTTAGCTT-CCTGAAGTTGTAG
* *
93045739 TGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
*
93045784 TGAAGAAGAT
1 TGAAGCAGAT
93045794 TTAAGCCACC
Statistics
Matches: 283, Mismatches: 98, Indels: 50
0.66 0.23 0.12
Matches are distributed among these distances:
41 1 0.00
42 10 0.04
43 79 0.28
44 69 0.24
45 109 0.39
46 15 0.05
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (45 bp):
TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
Found at i:93046496 original size:24 final size:25
Alignment explanation
Indices: 93046469--93046516 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
93046459 CCGACCCGAG
*
93046469 CAAACAAAACCA-AAAACCAAAAAA
1 CAAACAAAACAAGAAAACCAAAAAA
*
93046493 CAAACAAAACAAGAAAATCAAAAA
1 CAAACAAAACAAGAAAACCAAAAA
93046517 TATTATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.75, C:0.21, G:0.02, T:0.02
Consensus pattern (25 bp):
CAAACAAAACAAGAAAACCAAAAAA
Found at i:93049431 original size:131 final size:131
Alignment explanation
Indices: 93048967--93049420 Score: 626
Period size: 131 Copynumber: 3.5 Consensus size: 131
93048957 AGATTTAATG
*
93048967 TTTGGCAATTAGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
1 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
* *
93049032 CAAATATCACTTCAAAATTTCATTCATGTCTTTTAAAAATCCCTTAAACGAAGGCGATATGCGAT
66 CAAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTTAAACGAAGGCAATATGCGAT
93049097 A
131 A
*
93049098 TTTGGCAATTCGCGGAATTGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
1 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
93049163 CAAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTTAAACGAAGGCAATATGCGAT
66 CAAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTTAAACGAAGGCAATATGCGAT
93049228 A
131 A
* * ** * *
93049229 TTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCACTTGTTTAAAATAAT
1 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
* * * * * *
93049294 CAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACAAAGGTAATACTTG-
66 CAAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTT-AAACGAAGGCAATA--TGC
*
93049358 G-TG
128 GATA
* * * * * ** * *
93049361 TTTGACAATTCG-AGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAA
1 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAA
93049421 CAATTGAATA
Statistics
Matches: 291, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
131 264 0.91
132 24 0.08
133 1 0.00
134 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (131 bp):
TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
CAAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTTAAACGAAGGCAATATGCGAT
A
Found at i:93051912 original size:46 final size:45
Alignment explanation
Indices: 93051862--93052037 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
93051852 TGGTTGAGCA
93051862 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
93051908 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
93051953 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
93052001 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93052038 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:93052018 original size:93 final size:93
Alignment explanation
Indices: 93051859--93052029 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
93051849 GGATGGTTGA
* *
93051859 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
93051924 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
93051952 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
93052017 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
93052030 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:93059479 original size:46 final size:46
Alignment explanation
Indices: 93059426--93059587 Score: 188
Period size: 46 Copynumber: 3.5 Consensus size: 46
93059416 ATCCGAACTC
93059426 GTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGA
1 GTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGA
* * *
93059472 GTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAACTCGTTGA
1 GTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCGAACTCGTTGA
* * *
93059519 GTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGA
*
93059565 GTTGAGTCCGAGTTCGCTTATGG
1 GTTGAGTCCGAGTTCACTTATGG
93059588 GCGGGTTACA
Statistics
Matches: 97, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 49 0.51
47 29 0.30
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
GTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGA
Found at i:93063091 original size:21 final size:19
Alignment explanation
Indices: 93063067--93063115 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
93063057 TTAATTAAAA
93063067 TTAATTAATAATATTTTTATC
1 TTAATTAATAATA-TTTTA-C
**
93063088 TTAATTAATCTTATTTTAC
1 TTAATTAATAATATTTTAC
93063107 TTAATTAAT
1 TTAATTAAT
93063116 CAACATGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 10 0.38
20 5 0.19
21 11 0.42
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTAATTAATAATATTTTAC
Found at i:93063111 original size:19 final size:21
Alignment explanation
Indices: 93063067--93063117 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
93063057 TTAATTAAAA
*
93063067 TTAATTAATAATATTTTTATC
1 TTAATTAATCATATTTTTATC
*
93063088 TTAATTAATCTTA-TTTTA-C
1 TTAATTAATCATATTTTTATC
93063107 TTAATTAATCA
1 TTAATTAATCA
93063118 ACATGACCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 11 0.41
20 5 0.19
21 11 0.41
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATTAATCATATTTTTATC
Found at i:93066659 original size:5 final size:5
Alignment explanation
Indices: 93066651--93066677 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
93066641 TAGTTTACTC
93066651 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
93066678 TCCTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:93068552 original size:150 final size:150
Alignment explanation
Indices: 93068277--93068579 Score: 563
Period size: 150 Copynumber: 2.0 Consensus size: 150
93068267 TTCAAATTTA
93068277 TTTAAAGGCTCATTTAATGCAAATTTGTATCTTTATTCATGGAAATTTCAAAAAATTCCTCCATT
1 TTTAAAGGCTCATTTAATGCAAATTTGTATCTTTATTCATGGAAATTTCAAAAAATTCCTCCATT
*
93068342 TTGAATGCCTATAAAAGCCTAAAAAATACTGCAGAATTCTTTAAAGACAAACAACGAATTTATTT
66 TTGAATGCCTATAAAAGCCTAAAAAATACTGCAGAATTCTTTAAAGACAAACAACAAATTTATTT
93068407 CACTCTCAAAAATTCTTTTC
131 CACTCTCAAAAATTCTTTTC
*
93068427 TTTAAAGGCTCCTTTAATGCAAATTTGTATCTTTATTCATGGAAATTTCAAAAAATTCCTCCATT
1 TTTAAAGGCTCATTTAATGCAAATTTGTATCTTTATTCATGGAAATTTCAAAAAATTCCTCCATT
*
93068492 TTGAATGCCTATAAAAGCCTAAAAAATACCT-CAGAATTCTTTAAAGACAAATAACAAATTTATT
66 TTGAATGCCTATAAAAGCCTAAAAAATA-CTGCAGAATTCTTTAAAGACAAACAACAAATTTATT
93068556 TCACTCTCAAAAATTCTTTTC
130 TCACTCTCAAAAATTCTTTTC
93068577 TTT
1 TTT
93068580 TCCTCTCCAA
Statistics
Matches: 149, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
150 147 0.99
151 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (150 bp):
TTTAAAGGCTCATTTAATGCAAATTTGTATCTTTATTCATGGAAATTTCAAAAAATTCCTCCATT
TTGAATGCCTATAAAAGCCTAAAAAATACTGCAGAATTCTTTAAAGACAAACAACAAATTTATTT
CACTCTCAAAAATTCTTTTC
Found at i:93075465 original size:2 final size:2
Alignment explanation
Indices: 93075458--93075499 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
93075448 TTATATTAAA
93075458 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
93075500 TACTACATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:93080558 original size:15 final size:15
Alignment explanation
Indices: 93080538--93080576 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
93080528 TAACGTCAAA
93080538 TTTCTTTTCCATTCT
1 TTTCTTTTCCATTCT
**
93080553 TTTCTTTGACATTCT
1 TTTCTTTTCCATTCT
*
93080568 TCTCTTTTC
1 TTTCTTTTC
93080577 GGTAAACCTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.08, C:0.26, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTCTTTTCCATTCT
Found at i:93100085 original size:15 final size:14
Alignment explanation
Indices: 93100036--93100101 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
93100026 CACACATTCT
93100036 TTTCTTCTCTTTTTC
1 TTTCTT-TCTTTTTC
*
93100051 TTTATTTCTTTTTAC
1 TTTCTTTCTTTTT-C
* *
93100066 GTTCTTTCTTCTTC
1 TTTCTTTCTTTTTC
* *
93100080 TTTTCTTATCATTTTA
1 -TTTCTT-TCTTTTTC
93100096 TTTCTT
1 TTTCTT
93100102 GTTTTGCTGC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
14 8 0.20
15 27 0.68
16 5 0.12
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTCTTTCTTTTTC
Found at i:93106209 original size:30 final size:30
Alignment explanation
Indices: 93106173--93106234 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
93106163 TGATTCATCC
93106173 TTGGAAAAT-AAAATAAAGAAAAGGATGA-AA
1 TTGGAAAATGAAAA-AAAGAAAA-GATGATAA
* *
93106203 TTGGAAAGTGAAAAAAATAAAAGATGATAA
1 TTGGAAAATGAAAAAAAGAAAAGATGATAA
93106233 TT
1 TT
93106235 AATTAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.18
30 19 0.68
31 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (30 bp):
TTGGAAAATGAAAAAAAGAAAAGATGATAA
Found at i:93112894 original size:21 final size:19
Alignment explanation
Indices: 93112849--93112903 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
93112839 AATTAATTTT
93112849 TTAAAAATTTAAAAA-ATTC
1 TTAAAAA-TTAAAAATATTC
**
93112868 AAAAAAATATAAAAATTATTC
1 TTAAAAAT-TAAAAA-TATTC
93112889 TTAAAAATTAAAAAT
1 TTAAAAATTAAAAAT
93112904 CATTAGAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 12 0.41
20 6 0.21
21 10 0.34
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAAATTAAAAATATTC
Found at i:93117116 original size:10 final size:11
Alignment explanation
Indices: 93117091--93117116 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
93117081 TGATCCAATT
93117091 TTTTTACTTGA
1 TTTTTACTTGA
93117102 TTTTTACTTGA
1 TTTTTACTTGA
93117113 TTTT
1 TTTT
93117117 GACAATTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTTACTTGA
Found at i:93119056 original size:17 final size:17
Alignment explanation
Indices: 93119029--93119061 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
93119019 TGTACTTTTA
93119029 TGAATTGTG-AATAAAG
1 TGAATTGTGAAATAAAG
93119045 TGAATATGTGAAATAAA
1 TGAAT-TGTGAAATAAA
93119062 AATGTAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (17 bp):
TGAATTGTGAAATAAAG
Found at i:93120845 original size:40 final size:40
Alignment explanation
Indices: 93120761--93120985 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
93120751 TTGAATGATG
* * * *
93120761 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
93120801 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
93120841 TCCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
93120880 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
93120920 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
93120961 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
93120986 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:93121007 original size:119 final size:119
Alignment explanation
Indices: 93120761--93121018 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
93120751 TTGAATGATG
* *
93120761 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* *** *
93120826 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
93120880 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
93120943 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
93121000 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
93121019 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:93197823 original size:47 final size:47
Alignment explanation
Indices: 93197695--93198141 Score: 537
Period size: 47 Copynumber: 9.6 Consensus size: 47
93197685 GCCCTTCGGA
* * * * * *
93197695 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93197742 CCTGTCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGC
93197790 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
93197837 CTTATCACATATATATACAC-TTCCCATCCATCACAT-GGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93197884 CTTATCACATATATACAC-TTCACATTCATCACAATCGGCCATTAGCC
1 CTTATCACATATATACACTTTCACATTCATCAC-ATCGGCCATTAGGC
*
93197931 CTTATCACATATATATACACTTTCACA-TCATCACAT-GGCCATTTGG-
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93197977 C-TATCACACTATATACAC-TTCACATTCA-CACA-C-GCC-TTAGGC
1 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93198019 C-TATCACATATATATACAC-TTCA-ATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93198065 CTTATCACATATATACACTTTCACATTCATCACATCGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATC-GGCCATTAGGC
*
93198113 GCTTATCACATATATATACATTTCACATT
1 -CTTATCACATATATACAC-TTTCACATT
93198142 TATTCAATAT
Statistics
Matches: 351, Mismatches: 25, Indels: 45
0.83 0.06 0.11
Matches are distributed among these distances:
41 4 0.01
42 15 0.04
43 28 0.08
44 13 0.04
45 41 0.12
46 13 0.04
47 112 0.32
48 66 0.19
49 44 0.13
50 15 0.04
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:93197921 original size:94 final size:95
Alignment explanation
Indices: 93197689--93198141 Score: 621
Period size: 94 Copynumber: 4.9 Consensus size: 95
93197679 CTAATTGCCC
* * * * * * * * *
93197689 TTCGGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATAT
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
93197754 AT-TACACTTTCACATTCATCACATCGGCCA
66 ATATACACTTTCACATTCATCACAT-GGCCA
*
93197784 TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
* *
93197849 ATATACAC-TTCCCATCCATCACATGGCCA
66 ATATACACTTTCACATTCATCACATGGCCA
*
93197878 TTCGGCCTTATCACATATATACAC-TTCACATTCATCACAATCGGCCATTAGCCCTTATCACATA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCAC-ATCGGCCATTAGGCCTTATCACATA
93197942 TATATACACTTTCACA-TCATCACATGGCCA
65 TATATACACTTTCACATTCATCACATGGCCA
*
93197972 TTTGG-C-TATCACACTATATACAC-TTCACATTCA-CACA-C-GCC-TTAGGCC-TATCACATA
1 TTCGGCCTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
93198029 TATATACAC-TTCA-ATTCATCACATTGGCCA
65 TATATACACTTTCACATTCATCACA-TGGCCA
93198059 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGGCCATTAGGCGCTTATCACAT
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATC-GGCCATTAGGC-CTTATCACAT
93198124 ATATATACA-TTTCACATT
64 ATATATACACTTTCACATT
93198142 TATTCAATAT
Statistics
Matches: 321, Mismatches: 19, Indels: 34
0.86 0.05 0.09
Matches are distributed among these distances:
85 1 0.00
86 12 0.04
87 28 0.09
88 16 0.05
89 20 0.06
90 5 0.02
91 2 0.01
92 10 0.03
93 37 0.12
94 84 0.26
95 77 0.24
96 26 0.08
97 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (95 bp):
TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
ATATACACTTTCACATTCATCACATGGCCA
Found at i:93198062 original size:181 final size:189
Alignment explanation
Indices: 93197689--93198140 Score: 635
Period size: 181 Copynumber: 2.4 Consensus size: 189
93197679 CTAATTGCCC
* * * * * ** *
93197689 TTCGGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC-TGTCACATA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGCCCTTATCACATA
93197753 TAT-TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
65 TATATACACTTTCACA-TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
*
93197817 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTCCCATCCATCACATGGCCA
129 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTCCAATCCATCACATGGCCA
93197878 TTCGGCCTTATCACATATATACAC-TTCACATTCATCACAATCGGCCATTAGCCCTTATCACATA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCAC-ATCGGCCATTAGCCCTTATCACATA
*
93197942 TATATACACTTTCACATCATCACAT-GGCCATTTGG-C-TATCACACTATATACAC-TTCACATT
65 TATATACACTTTCACATCATCACATCGGCCATTAGGCCTTATCACA-TATATACACTTTCACATT
*
93198003 CA-CACA-C-GCC-TTAGGCC-TATCACATATATATACACTT-CAATTCATCACATTGGCCA
129 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTCCAATCCATCACA-TGGCCA
*
93198059 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGGCCATTAGGCGCTTATCACAT
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATC-GGCCATTA-GCCCTTATCACAT
93198124 ATATATACA-TTTCACAT
64 ATATATACACTTTCACAT
93198141 TTATTCAATA
Statistics
Matches: 243, Mismatches: 12, Indels: 23
0.87 0.04 0.08
Matches are distributed among these distances:
180 10 0.04
181 53 0.22
182 37 0.15
183 24 0.10
184 1 0.00
185 4 0.02
186 17 0.07
187 10 0.04
188 27 0.11
189 48 0.20
190 12 0.05
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (189 bp):
TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATAT
ATATACACTTTCACATCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATATACACTTCCAATCCATCACATGGCCA
Found at i:93201187 original size:46 final size:46
Alignment explanation
Indices: 93201046--93201442 Score: 567
Period size: 47 Copynumber: 8.6 Consensus size: 46
93201036 CCCTTCGGGA
* * * *
93201046 CTTATCACAT-TATACACTTTCACATCCATCACGT-TGCCA-TCGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGC
93201089 CTGT-TCACATA-ATACACTTTCACATTC-TCACATCGGCCATTAGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGC
93201133 CTTATCACATATATACACTTTCACATTCATTCACATCGG-CATTAGC
1 CTTATCACATATATACACTTTCACATTCA-TCACATCGGCCATTAGC
*
93201179 CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTACGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
* *
93201226 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGC
93201275 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGC
* *
93201321 CTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTCGC
1 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGC
93201368 CTTATCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
93201414 CTTATCACTATATTATACACTTTCACATT
1 CTTATCAC-ATA-TATACACTTTCACATT
93201443 TATTCAAATA
Statistics
Matches: 323, Mismatches: 14, Indels: 29
0.88 0.04 0.08
Matches are distributed among these distances:
42 5 0.02
43 28 0.09
44 13 0.04
45 36 0.11
46 82 0.25
47 100 0.31
48 16 0.05
49 43 0.13
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (46 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGC
Found at i:93207757 original size:47 final size:47
Alignment explanation
Indices: 93207679--93208040 Score: 539
Period size: 47 Copynumber: 7.6 Consensus size: 47
93207669 CCCTTCGGGA
* * * * *
93207679 CTTATCACATTTATACACTTTCACATCCATCACGTTC-GCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCAC-ATCGGCCATTAGGC
* *
93207726 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93207773 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93207820 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93207869 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93207916 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
93207965 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93208012 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
93208041 TATTCAAATA
Statistics
Matches: 289, Mismatches: 17, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
46 3 0.01
47 178 0.62
49 107 0.37
50 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.