Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 120 of 153
Found at i:37593666 original size:50 final size:50
Alignment explanation
Indices: 37593594--37593690 Score: 167
Period size: 50 Copynumber: 1.9 Consensus size: 50
37593584 ACTCGAAATT
* *
37593594 ACATATTGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAC
1 ACATATCGACGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAC
*
37593644 ACATATCGACGCCAATGCCATGTCCTAGACATGGTCTTACATGGGAT
1 ACATATCGACGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
37593691 AGCAGATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (50 bp):
ACATATCGACGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAC
Found at i:37595130 original size:12 final size:12
Alignment explanation
Indices: 37595113--37595165 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
37595103 ATATGAAAAT
37595113 AGAGTACTACAC
1 AGAGTACTACAC
*
37595125 AGAGTACT-CAT
1 AGAGTACTACAC
*
37595136 AGTAG-CCTACAC
1 AG-AGTACTACAC
37595148 AGAGTACTACAC
1 AGAGTACTACAC
37595160 ATGAGT
1 A-GAGT
37595166 TCTCATGACG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
11 8 0.24
12 21 0.64
13 4 0.12
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.21
Consensus pattern (12 bp):
AGAGTACTACAC
Found at i:37597232 original size:11 final size:11
Alignment explanation
Indices: 37597214--37597277 Score: 74
Period size: 11 Copynumber: 5.8 Consensus size: 11
37597204 ATGTTGTCCG
37597214 AATGTTGTTTA
1 AATGTTGTTTA
* *
37597225 AATATTGTATA
1 AATGTTGTTTA
37597236 AATGTTGTTTA
1 AATGTTGTTTA
***
37597247 AATGTTGTCCG
1 AATGTTGTTTA
*
37597258 AATGTTGGTTA
1 AATGTTGTTTA
37597269 AATGTTGTT
1 AATGTTGTT
37597278 CTCTTTTTAG
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
11 41 1.00
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.48
Consensus pattern (11 bp):
AATGTTGTTTA
Found at i:37597261 original size:22 final size:22
Alignment explanation
Indices: 37597092--37597276 Score: 140
Period size: 22 Copynumber: 8.3 Consensus size: 22
37597082 GATGACAAGG
* *
37597092 TGTTGTCTGAATGTTGTTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
** *
37597114 TACTGTCTGAATGTTGGTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
*
37597136 TGCTGTCCGAATGTTGGTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
* *
37597158 TGATATCCGAATGTTGGTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
* * * **
37597180 TGCTGT--TAATTTTTTAGCATACTAA
1 TGTTGTCCGAA--TGTT-GGTTA--AA
*
37597205 TGTTGTCCGAATGTTGTTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
* *** *
37597227 TATTGTATAAATGTTGTTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
37597249 TGTTGTCCGAATGTTGGTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
37597271 TGTTGT
1 TGTTGT
37597277 TCTCTTTTTA
Statistics
Matches: 129, Mismatches: 27, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.02
22 109 0.84
23 3 0.02
24 3 0.02
25 10 0.08
27 2 0.02
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (22 bp):
TGTTGTCCGAATGTTGGTTAAA
Found at i:37602836 original size:15 final size:15
Alignment explanation
Indices: 37602816--37602845 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37602806 TATTTACAAC
37602816 ATGTTATTTGATATG
1 ATGTTATTTGATATG
37602831 ATGTTATTTGATATG
1 ATGTTATTTGATATG
37602846 TGTGAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (15 bp):
ATGTTATTTGATATG
Found at i:37604685 original size:11 final size:11
Alignment explanation
Indices: 37604669--37604728 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
37604659 GATGACAAGG
37604669 TGTTGTCCAAA
1 TGTTGTCCAAA
**
37604680 TGTTGTTTAAA
1 TGTTGTCCAAA
*
37604691 TGTTGTCCGAA
1 TGTTGTCCAAA
37604702 TGTTGGT-CAAA
1 TGTT-GTCCAAA
* * *
37604713 TGCTATCCGAA
1 TGTTGTCCAAA
37604724 TGTTG
1 TGTTG
37604729 GTTAATTGTT
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
10 1 0.03
11 33 0.92
12 2 0.06
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (11 bp):
TGTTGTCCAAA
Found at i:37604694 original size:22 final size:22
Alignment explanation
Indices: 37604669--37605035 Score: 247
Period size: 22 Copynumber: 16.3 Consensus size: 22
37604659 GATGACAAGG
* *
37604669 TGTTGTCCAAATGTTGTTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
*
37604691 TGTTGTCCGAATGTTGGTCAAA
1 TGTTGTCCGAATGTTGGTTAAA
* * *
37604713 TGCTATCCGAATGTTGGTTAAT
1 TGTTGTCCGAATGTTGGTTAAA
* * * **
37604735 TGTTGT-TGATTTTTTAGCATACTAA
1 TGTTGTCCGA-ATGTT-GGTTA--AA
*
37604760 TGTTGTCCGAATGTTGTTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
*
37604782 TGTTGTCCGAATGTTGTTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
*
37604804 TGTTGTCTGAATGTTGGTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
* *
37604826 TGCTGTCTGAATGTTGGTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
* * * * **
37604848 TGCTGTTC-ATTTTTTAGCATACTAA
1 TGTTGTCCGA-ATGTT-GGTTA--AA
* *
37604873 TGCTGTCCGAATGTTGTTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
* *
37604895 TGATGTCTGAATGTTGGTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
*
37604917 TGCTG-CCTGAATGTTGGTTAAA
1 TGTTGTCC-GAATGTTGGTTAAA
* * * * **
37604939 TGCTGTTC-ATTTTTTAGCATACTAA
1 TGTTGTCCGA-ATGTT-GGTTA--AA
* *
37604964 TGTTGTCTGAATGTTGTTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
*
37604986 TGTTGTCCGAATGTCGGTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
* *
37605008 TTTTGTTCGAATGTTGGTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
37605030 TGTTGT
1 TGTTGT
37605036 TCATTTTTTA
Statistics
Matches: 270, Mismatches: 58, Indels: 34
0.75 0.16 0.09
Matches are distributed among these distances:
21 5 0.02
22 210 0.78
23 10 0.04
24 9 0.03
25 32 0.12
26 4 0.01
ACGTcount: A:0.23, C:0.10, G:0.22, T:0.44
Consensus pattern (22 bp):
TGTTGTCCGAATGTTGGTTAAA
Found at i:37604774 original size:11 final size:11
Alignment explanation
Indices: 37604758--37604841 Score: 80
Period size: 11 Copynumber: 7.6 Consensus size: 11
37604748 TTAGCATACT
*
37604758 AATGTTGTCCG
1 AATGTTGTCTG
* *
37604769 AATGTTGTTTA
1 AATGTTGTCTG
*
37604780 AATGTTGTCCG
1 AATGTTGTCTG
* *
37604791 AATGTTGTTTA
1 AATGTTGTCTG
37604802 AATGTTGTCTG
1 AATGTTGTCTG
*
37604813 AATGTTGGT-TA
1 AATGTT-GTCTG
*
37604824 AATGCTGTCTG
1 AATGTTGTCTG
37604835 AATGTTG
1 AATGTTG
37604842 GTTAAATGCT
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
10 2 0.04
11 52 0.93
12 2 0.04
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.44
Consensus pattern (11 bp):
AATGTTGTCTG
Found at i:37604867 original size:113 final size:113
Alignment explanation
Indices: 37604669--37604944 Score: 426
Period size: 113 Copynumber: 2.4 Consensus size: 113
37604659 GATGACAAGG
* * * *
37604669 TGTTGTCCAAATGTTGTTTAAATGTTGTCCGAATGTTGGTCAAATGCTATCCGAATGTTGGTTAA
1 TGTTGTCCGAATGTTGTTTAAATGTTGTCTGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAA
* * * *
37604734 TTGTTGTTGATTTTTTAGCATACTAATGTTGTCCGAATGTTGTTTAAA
66 ATGCTGTTCATTTTTTAGCATACTAATGCTGTCCGAATGTTGTTTAAA
*
37604782 TGTTGTCCGAATGTTGTTTAAATGTTGTCTGAATGTTGGTTAAATGCTGTCTGAATGTTGGTTAA
1 TGTTGTCCGAATGTTGTTTAAATGTTGTCTGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAA
37604847 ATGCTGTTCATTTTTTAGCATACTAATGCTGTCCGAATGTTGTTTAAA
66 ATGCTGTTCATTTTTTAGCATACTAATGCTGTCCGAATGTTGTTTAAA
* * * * *
37604895 TGATGTCTGAATGTTGGTTAAATGCTGCCTGAATGTTGGTTAAATGCTGT
1 TGTTGTCCGAATGTTGTTTAAATGTTGTCTGAATGTTGGTTAAATGCTGT
37604945 TCATTTTTTA
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
113 149 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (113 bp):
TGTTGTCCGAATGTTGTTTAAATGTTGTCTGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAA
ATGCTGTTCATTTTTTAGCATACTAATGCTGTCCGAATGTTGTTTAAA
Found at i:37604880 original size:91 final size:91
Alignment explanation
Indices: 37604780--37605058 Score: 443
Period size: 91 Copynumber: 3.1 Consensus size: 91
37604770 ATGTTGTTTA
*
37604780 AATGTTGTCCGAATGTTGTTTAAATGTTGTCTGAATGTTGGTTAAATGCTGTCTGAATGTTGGTT
1 AATGCTGTCCGAATGTTGTTTAAATGTTGTCTGAATGTTGGTTAAATGCTGTCTGAATGTTGGTT
37604845 AAATGCTGTTCATTTTTTAGCATACT
66 AAATGCTGTTCATTTTTTAGCATACT
* *
37604871 AATGCTGTCCGAATGTTGTTTAAATGATGTCTGAATGTTGGTTAAATGCTGCCTGAATGTTGGTT
1 AATGCTGTCCGAATGTTGTTTAAATGTTGTCTGAATGTTGGTTAAATGCTGTCTGAATGTTGGTT
37604936 AAATGCTGTTCATTTTTTAGCATACT
66 AAATGCTGTTCATTTTTTAGCATACT
* * * * **
37604962 AATGTTGTCTGAATGTTGTTTAAATGTTGTCCGAATGTCGGTTAAATTTTGT-TCGAATGTTGGT
1 AATGCTGTCCGAATGTTGTTTAAATGTTGTCTGAATGTTGGTTAAATGCTGTCT-GAATGTTGGT
* *
37605026 TAAATGTTGTTCATTTTTTAGCATATT
65 TAAATGCTGTTCATTTTTTAGCATACT
37605053 AATGCT
1 AATGCT
37605059 ATCCAAATTG
Statistics
Matches: 173, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
90 1 0.01
91 172 0.99
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.45
Consensus pattern (91 bp):
AATGCTGTCCGAATGTTGTTTAAATGTTGTCTGAATGTTGGTTAAATGCTGTCTGAATGTTGGTT
AAATGCTGTTCATTTTTTAGCATACT
Found at i:37606092 original size:22 final size:22
Alignment explanation
Indices: 37606064--37606105 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
37606054 TTAGTAGCGA
*
37606064 CACTAAAAACGCGGGTGGTGAC
1 CACTAAAAACACGGGTGGTGAC
*
37606086 CACTAAAAACACGTGTGGTG
1 CACTAAAAACACGGGTGGTG
37606106 CCTAATAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (22 bp):
CACTAAAAACACGGGTGGTGAC
Found at i:37608418 original size:16 final size:15
Alignment explanation
Indices: 37608387--37608415 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37608377 TTTTTCATTT
37608387 AAAAATAATTTTTTA
1 AAAAATAATTTTTTA
37608402 AAAAATAATTTTTT
1 AAAAATAATTTTTT
37608416 TAATTAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAAATAATTTTTTA
Found at i:37608862 original size:20 final size:19
Alignment explanation
Indices: 37608833--37608885 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
37608823 ATAATATTGA
*
37608833 ATTTTGAAATTTTTGTTTAT
1 ATTTTTAAATTTTT-TTTAT
*
37608853 ATTTTTAAATATTTTTTTTT
1 ATTTTTAAAT-TTTTTTTAT
*
37608873 ATTTTTTAATTTT
1 ATTTTTAAATTTT
37608886 AAATAGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 22 0.76
21 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTAAATTTTTTTTAT
Found at i:37608873 original size:22 final size:21
Alignment explanation
Indices: 37608841--37608881 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
37608831 GAATTTTGAA
37608841 ATTTTTGTTTATATTTTTAAAT
1 ATTTTTGTTTAT-TTTTTAAAT
*
37608863 ATTTTTTTTTATTTTTTAA
1 ATTTTTGTTTATTTTTTAA
37608882 TTTTAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
ATTTTTGTTTATTTTTTAAAT
Found at i:37608902 original size:17 final size:16
Alignment explanation
Indices: 37608852--37608921 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 16
37608842 TTTTTGTTTA
37608852 TATTTTTAAATA-TTT
1 TATTTTTAAATATTTT
37608867 T-TTTTT--AT-TTTT
1 TATTTTTAAATATTTT
*
37608879 TAATTTTAAATAGTTTT
1 TATTTTTAAATA-TTTT
** *
37608896 TATTTTTCCATAATTT
1 TATTTTTAAATATTTT
37608912 TATTTTTAAA
1 TATTTTTAAA
37608922 AAAATAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 11
0.70 0.12 0.18
Matches are distributed among these distances:
12 6 0.14
13 4 0.10
14 5 0.12
15 3 0.07
16 11 0.26
17 13 0.31
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (16 bp):
TATTTTTAAATATTTT
Found at i:37610914 original size:30 final size:30
Alignment explanation
Indices: 37610873--37610988 Score: 160
Period size: 30 Copynumber: 3.9 Consensus size: 30
37610863 CGAACTCGAA
*
37610873 CACACAGGCTGACATTATAATAGGATTGCT
1 CACACAAGCTGACATTATAATAGGATTGCT
* **
37610903 CACATAAGCTGACATTATAATAGTTTTGCT
1 CACACAAGCTGACATTATAATAGGATTGCT
* * *
37610933 CACACAAGTTGACATTACAATAAGATTGCT
1 CACACAAGCTGACATTATAATAGGATTGCT
*
37610963 CACACAAGCTAACATTATAATAGGAT
1 CACACAAGCTGACATTATAATAGGAT
37610989 GTAAAATTCC
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 72 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (30 bp):
CACACAAGCTGACATTATAATAGGATTGCT
Found at i:37621236 original size:15 final size:15
Alignment explanation
Indices: 37621199--37621247 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 15
37621189 ATGTAATATC
37621199 ATTTTTATTTTTA-A
1 ATTTTTATTTTTATA
**
37621213 ATGATT-TTTTTAT-
1 ATTTTTATTTTTATA
37621226 -TTTTTATTTTTATA
1 ATTTTTATTTTTATA
37621240 ATTTTTAT
1 ATTTTTAT
37621248 AAATTCTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
12 3 0.11
13 13 0.48
14 4 0.15
15 7 0.26
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTTTTATTTTTATA
Found at i:37621283 original size:23 final size:23
Alignment explanation
Indices: 37621227--37621284 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
37621217 TTTTTTTATT
* * *
37621227 TTTTATTTTTATAATTTTTATAAA
1 TTTTATTTTT-TAAATTTCAAAAA
* *
37621251 TTCTAATTTTTAAATTTCAAAAA
1 TTTTATTTTTTAAATTTCAAAAA
37621274 TTTTATTTTTT
1 TTTTATTTTTT
37621285 TAAAATAATT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTATTTTTTAAATTTCAAAAA
Found at i:37621310 original size:14 final size:14
Alignment explanation
Indices: 37621278--37621311 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
37621268 CAAAAATTTT
*
37621278 ATTTTTTTAAAATA
1 ATTTTTTTAAAAGA
37621292 ATTTTTTTAAAAG-
1 ATTTTTTTAAAAGA
37621305 ATTTTTT
1 ATTTTTT
37621312 GTGCTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
ATTTTTTTAAAAGA
Found at i:37621356 original size:26 final size:25
Alignment explanation
Indices: 37621316--37621373 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
37621306 TTTTTTGTGC
*
37621316 TTTTTAATGATTTTTTACAAATCTTAT
1 TTTTTAATGAATTTTTACAAA--TTAT
*
37621343 TTTTTAAT-AATTTTTATAAATTAT
1 TTTTTAATGAATTTTTACAAATTAT
37621367 TTTTTAA
1 TTTTTAA
37621374 ATAAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 11 0.38
26 10 0.34
27 8 0.28
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTAATGAATTTTTACAAATTAT
Found at i:37623356 original size:18 final size:16
Alignment explanation
Indices: 37623333--37623406 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 16
37623323 TGAATTTTAA
37623333 TAAAAAGTATTAAAATAT
1 TAAAAAGTA-TAAAA-AT
*
37623351 TAAAAATTATAAAAAT
1 TAAAAAGTATAAAAAT
*
37623367 AAAAAAGTA-AAAGAAT
1 TAAAAAGTATAAA-AAT
* *
37623383 TATAAAAATTTAAAAATT
1 TA-AAAAGTATAAAAA-T
37623401 TAAAAA
1 TAAAAA
37623407 AATCATAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
15 3 0.07
16 13 0.28
17 16 0.35
18 14 0.30
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (16 bp):
TAAAAAGTATAAAAAT
Found at i:37623407 original size:9 final size:8
Alignment explanation
Indices: 37623344--37623406 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
37623334 AAAAAGTATT
37623344 AAAATATTA
1 AAAAT-TTA
37623353 AAAATTATA
1 AAAATT-TA
*
37623362 AAAA-TAA
1 AAAATTTA
* *
37623369 AAAAGTAA
1 AAAATTTA
37623377 AAGAATTATA
1 AA-AATT-TA
37623387 AAAATTTA
1 AAAATTTA
37623395 AAAATTTA
1 AAAATTTA
37623403 AAAA
1 AAAA
37623407 AATCATAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
7 5 0.11
8 21 0.45
9 18 0.38
10 3 0.06
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (8 bp):
AAAATTTA
Found at i:37623427 original size:9 final size:9
Alignment explanation
Indices: 37623289--37623427 Score: 76
Period size: 9 Copynumber: 15.4 Consensus size: 9
37623279 TATGTGGCAA
37623289 AAAAATTAT
1 AAAAATTAT
37623298 AAAAA--AT
1 AAAAATTAT
*
37623305 AAAAGTTAT
1 AAAAATTAT
*
37623314 AAAAGTTATT
1 AAAAATTA-T
* **
37623324 GAATTTTAAT
1 AAAAATT-AT
*
37623334 AAAAAGTAT
1 AAAAATTAT
*
37623343 TAAAA-TATT
1 AAAAATTA-T
37623352 AAAAATTAT
1 AAAAATTAT
37623361 AAAAA-TA-
1 AAAAATTAT
*
37623368 AAAAAGTA-
1 AAAAATTAT
37623376 AAAGAATTAT
1 AAA-AATTAT
37623386 AAAAATT-T
1 AAAAATTAT
*
37623394 AAAAATTTAA
1 AAAAA-TTAT
*
37623404 AAAAATCATAA
1 AAAAAT--TAT
37623415 AAAAATTAT
1 AAAAATTAT
37623424 AAAA
1 AAAA
37623428 TGCATCAAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
7 11 0.11
8 15 0.14
9 49 0.47
10 19 0.18
11 10 0.10
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:37623565 original size:21 final size:20
Alignment explanation
Indices: 37623541--37623583 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
37623531 AAAATGCTTC
37623541 TTTTAGTACGATAATTTATAT
1 TTTTAGTACGA-AATTTATAT
** *
37623562 TTTTTTTACGAATTTTATAT
1 TTTTAGTACGAAATTTATAT
37623582 TT
1 TT
37623584 ATTTACATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTAGTACGAAATTTATAT
Found at i:37623664 original size:38 final size:37
Alignment explanation
Indices: 37623573--37623664 Score: 87
Period size: 38 Copynumber: 2.4 Consensus size: 37
37623563 TTTTTTACGA
*
37623573 ATTTTATATTTATTTACATTTTTTATAATTTTCTTATT
1 ATTTTATAATT-TTTACATTTTTTATAATTTTCTTATT
* * * * *
37623611 ACTTTATAAAATTTTATATTTTTTTTTATATTTC-TATAT
1 ATTTTAT-AATTTTTACATTTTTTATAAT-TTTCTTAT-T
37623650 ATTTTATAATTTTTA
1 ATTTTATAATTTTTA
37623665 ATAAAATTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
38 30 0.70
39 13 0.30
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.66
Consensus pattern (37 bp):
ATTTTATAATTTTTACATTTTTTATAATTTTCTTATT
Found at i:37623705 original size:20 final size:21
Alignment explanation
Indices: 37623658--37623705 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
37623648 ATATTTTATA
* *
37623658 ATTTTTAATAAAATTTTAATT
1 ATTTTTATTAAAATTATAATT
37623679 -TTTTTATTAAAA-TATAATT
1 ATTTTTATTAAAATTATAATT
37623698 ATTTTTAT
1 ATTTTTAT
37623706 AACTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTATTAAAATTATAATT
Found at i:37623842 original size:13 final size:13
Alignment explanation
Indices: 37623824--37623851 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37623814 GCGGGGACTT
37623824 AATTATTTTTTTG
1 AATTATTTTTTTG
37623837 AATTATTTTTTTG
1 AATTATTTTTTTG
37623850 AA
1 AA
37623852 AATCTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (13 bp):
AATTATTTTTTTG
Found at i:37628367 original size:12 final size:11
Alignment explanation
Indices: 37628350--37628382 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
37628340 AACAAATCCT
37628350 CTCTCATATTTC
1 CTCTCA-ATTTC
37628362 CTCTCAA-TTC
1 CTCTCAATTTC
37628372 CTCTCAATTTC
1 CTCTCAATTTC
37628383 TTTCCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:37628439 original size:51 final size:51
Alignment explanation
Indices: 37628365--37628487 Score: 187
Period size: 51 Copynumber: 2.4 Consensus size: 51
37628355 ATATTTCCTC
*
37628365 TCAA-TTCCTCTCAATTTCTTTCCAAAATTCTCTT-AAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCT-TTCAAATCCATATTTAATT
* * *
37628415 TCAATTTCTTCTCAATTTCCTTCCAAAATTCTTTCAATTCCATATTTGATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTTTCAAATCCATATTTAATT
37628466 TCAATTTCCTCTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
37628488 TTTTAAAATA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
50 6 0.09
51 60 0.91
ACGTcount: A:0.26, C:0.25, G:0.01, T:0.48
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAATTCTTTCAAATCCATATTTAATT
Found at i:37628539 original size:52 final size:52
Alignment explanation
Indices: 37628482--37628587 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
37628472 TCCTCTCAAT
37628482 TTCCTTTTTTAAAATAATTTAAATTTTTTTATATTTTTATAAATCGTAAAAA
1 TTCCTTTTTTAAAATAATTTAAATTTTTTTATATTTTTATAAATCGTAAAAA
37628534 TTCCTTTTTTAAAATAATTTAAATTTTTTTATATTTTTATAAATCGTAAAAA
1 TTCCTTTTTTAAAATAATTTAAATTTTTTTATATTTTTATAAATCGTAAAAA
37628586 TT
1 TT
37628588 TGTTCGATTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.55
Consensus pattern (52 bp):
TTCCTTTTTTAAAATAATTTAAATTTTTTTATATTTTTATAAATCGTAAAAA
Found at i:37629689 original size:7 final size:7
Alignment explanation
Indices: 37629677--37629702 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37629667 TAGTCGATTG
37629677 GTATTTA
1 GTATTTA
37629684 GTATTTA
1 GTATTTA
37629691 GTATTTA
1 GTATTTA
37629698 GTATT
1 GTATT
37629703 ATTATGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:37630947 original size:29 final size:29
Alignment explanation
Indices: 37630898--37631580 Score: 943
Period size: 29 Copynumber: 23.0 Consensus size: 29
37630888 GAAGTTTATT
*
37630898 CCTAACCCTAACCAAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
37630927 CCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
37630956 CCTAACCCTAATCTAACTCAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
37630985 CCTAACCCTAACCAAACTTTATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* * *
37631014 GCTAACCCTAACCAAACTCAATTAAAAACCC
1 CCTAACCCTAACCTAACTTAATTAAAAA--C
37631045 TAACTCTAACCCTAACCTAACTTAATTAAAAAC
1 ---C-CTAACCCTAACCTAACTTAATTAAAAAC
37631078 CCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
37631107 CTTAAACCCTAACCTAATTTAATTAAAAAC
1 CCT-AACCCTAACCTAACTTAATTAAAAAC
* * *
37631137 CCCACCCCTAACCAAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
37631166 CCTAACCCTAACCTAATTTAACTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
37631195 CCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
37631224 CCTAACCCTAACCTAATTTAATTAAAAAAC
1 CCTAACCCTAACCTAACTTAATT-AAAAAC
37631254 CCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
37631283 CCTAACCCTAATCTAACTCAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
37631312 CCTAACCCTAACCAAACTTTATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* * *
37631341 GCTAACCCTAACCAAACTCAATTAAAAACCC
1 CCTAACCCTAACCTAACTTAATTAAAAA--C
37631372 TAACTCTAACCCTAACCTAACTTAATTAAAAAC
1 ---C-CTAACCCTAACCTAACTTAATTAAAAAC
37631405 CCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
37631434 CTTAAACCCTAACCTAATTTAATTAAAAAC
1 CCT-AACCCTAACCTAACTTAATTAAAAAC
* * *
37631464 CCCACCCCTAACCAAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
37631493 CCTAACCCTAACCTAATTTAACTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
37631522 CCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
37631551 CCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
37631580 C
1 C
37631581 TAATTTAATT
Statistics
Matches: 581, Mismatches: 58, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
29 445 0.77
30 82 0.14
31 2 0.00
33 2 0.00
35 50 0.09
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (29 bp):
CCTAACCCTAACCTAACTTAATTAAAAAC
Found at i:37631515 original size:327 final size:327
Alignment explanation
Indices: 37630898--37631578 Score: 1328
Period size: 327 Copynumber: 2.1 Consensus size: 327
37630888 GAAGTTTATT
* * *
37630898 CCTAACCCTAACCAAACTTAATT-AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
1 CCTAACCCTAACCTAATTTAATTAAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAAC
37630962 CCTAATCTAACTCAATTAAAAACCCTAACCCTAACCAAACTTTATTAAAAACGCTAACCCTAACC
66 CCTAATCTAACTCAATTAAAAACCCTAACCCTAACCAAACTTTATTAAAAACGCTAACCCTAACC
37631027 AAACTCAATTAAAAACCCTAACTCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCT
131 AAACTCAATTAAAAACCCTAACTCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCT
37631092 AACTTAATTAAAAACCTTAAACCCTAACCTAATTTAATTAAAAACCCCACCCCTAACCAAACTTA
196 AACTTAATTAAAAACCTTAAACCCTAACCTAATTTAATTAAAAACCCCACCCCTAACCAAACTTA
37631157 ATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCCTAACCCTAACCTAACTTAATTAAAA
261 ATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCCTAACCCTAACCTAACTTAATTAAAA
37631222 AC
326 AC
37631224 CCTAACCCTAACCTAATTTAATTAAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAAC
1 CCTAACCCTAACCTAATTTAATTAAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAAC
37631289 CCTAATCTAACTCAATTAAAAACCCTAACCCTAACCAAACTTTATTAAAAACGCTAACCCTAACC
66 CCTAATCTAACTCAATTAAAAACCCTAACCCTAACCAAACTTTATTAAAAACGCTAACCCTAACC
37631354 AAACTCAATTAAAAACCCTAACTCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCT
131 AAACTCAATTAAAAACCCTAACTCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCT
37631419 AACTTAATTAAAAACCTTAAACCCTAACCTAATTTAATTAAAAACCCCACCCCTAACCAAACTTA
196 AACTTAATTAAAAACCTTAAACCCTAACCTAATTTAATTAAAAACCCCACCCCTAACCAAACTTA
37631484 ATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCCTAACCCTAACCTAACTTAATTAAAA
261 ATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCCTAACCCTAACCTAACTTAATTAAAA
37631549 AC
326 AC
37631551 CCTAACCCTAACCTAATTTAATTAAAAA
1 CCTAACCCTAACCTAATTTAATTAAAAA
37631579 CCTAATTTAA
Statistics
Matches: 351, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
326 21 0.06
327 330 0.94
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.24
Consensus pattern (327 bp):
CCTAACCCTAACCTAATTTAATTAAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAAC
CCTAATCTAACTCAATTAAAAACCCTAACCCTAACCAAACTTTATTAAAAACGCTAACCCTAACC
AAACTCAATTAAAAACCCTAACTCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCT
AACTTAATTAAAAACCTTAAACCCTAACCTAATTTAATTAAAAACCCCACCCCTAACCAAACTTA
ATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCCTAACCCTAACCTAACTTAATTAAAA
AC
Found at i:37631589 original size:46 final size:46
Alignment explanation
Indices: 37631531--37631619 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
37631521 CCCTAACCCT
37631531 AACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
1 AACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
*
37631577 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATT
1 AACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATT
37631620 NATAATTTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (46 bp):
AACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
Found at i:37631601 original size:18 final size:17
Alignment explanation
Indices: 37631560--37631597 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
37631550 CCCTAACCCT
37631560 AACCTAATTTAATTAAA
1 AACCTAATTTAATTAAA
37631577 AACCTAATTTAATTAAA
1 AACCTAATTTAATTAAA
37631594 AACC
1 AACC
37631598 CTAACCCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (17 bp):
AACCTAATTTAATTAAA
Found at i:37631670 original size:37 final size:37
Alignment explanation
Indices: 37631621--37632036 Score: 733
Period size: 37 Copynumber: 11.2 Consensus size: 37
37631611 AATTTAATTN
* *
37631621 ATAATTTCATAATTTCAGTAACCATTAATAATTTTAT
1 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
37631658 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
1 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
*
37631695 ATAATTTCATAATTTCACTAACCATTAATAATTTTAT
1 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
* *
37631732 ATAATTTGATAATTTTAGTAACCATTAATAATTTTAT
1 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
37631769 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
1 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
* *
37631806 ATAATTTGATAATTTTAGTAACCATTAATAATTTTAT
1 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
37631843 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
1 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
*
37631880 ATAATTTCATAATTTCACTAACCATTAATAATTTTAT
1 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
*
37631917 ATAATTTGATAATTTAACTAACCATTAATAATTTTAT
1 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
37631954 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
1 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
* *
37631991 ATAATTTGATAATTTTACTAACCATTAGTAATTTTAT
1 ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
37632028 ATAATTTGA
1 ATAATTTGA
37632037 GTTAATACAA
Statistics
Matches: 361, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 361 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.47
Consensus pattern (37 bp):
ATAATTTGATAATTTCACTAACCATTAATAATTTTAT
Found at i:37635359 original size:125 final size:124
Alignment explanation
Indices: 37635073--37635449 Score: 560
Period size: 125 Copynumber: 3.0 Consensus size: 124
37635063 CCCAAACATG
* *
37635073 CTACTGTAGCAAAAGCGCGCCCACGAGGCCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * **** *
37635138 TAGAAGCGATTTTATACTATTTGGTCGGAAA-AGT-AAAAAAAAATTATTTCTTACATGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAACA-TCAACTCGAAATTATTTCTT-CAAGAC
* * *
37635197 CTACTGTAGCAAAAGCGTGTCCACGAGGCCGCGATTTCAGAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
37635262 TAAAAGTGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCTAGGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTC-AAGAC
37635322 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
37635387 TAAAAGCGATTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTCTTCCAAGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTT-CAAGAC
37635447 CTA
1 CTA
37635450 AAAACCCTAA
Statistics
Matches: 230, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
124 90 0.39
125 139 0.60
126 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAAAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCAAGAC
Found at i:37635839 original size:3 final size:3
Alignment explanation
Indices: 37635831--37635855 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37635821 AGCCTCTAGG
37635831 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
37635856 TCTTATAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:37635980 original size:35 final size:35
Alignment explanation
Indices: 37635940--37636010 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
37635930 TAATTACAAA
*
37635940 TAAAATTTATACTAATTATTTTTTTAATTTATATT
1 TAAAATTTATACTAATTAATTTTTTAATTTATATT
37635975 TAAAATTTATACTAATTAATTTTTTAATTTATATT
1 TAAAATTTATACTAATTAATTTTTTAATTTATATT
37636010 T
1 T
37636011 GGTACAGTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (35 bp):
TAAAATTTATACTAATTAATTTTTTAATTTATATT
Found at i:37637556 original size:19 final size:17
Alignment explanation
Indices: 37637532--37637567 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
37637522 TTAACATTGC
37637532 TTTGAAGAAGTACTTTTTG
1 TTTGAA-AAGTA-TTTTTG
37637551 TTTGAAAAGTATTTTTG
1 TTTGAAAAGTATTTTTG
37637568 GAAGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.50
Consensus pattern (17 bp):
TTTGAAAAGTATTTTTG
Found at i:37660532 original size:79 final size:81
Alignment explanation
Indices: 37660396--37660580 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
37660386 TTGAATGATG
* *
37660396 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
37660460 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
37660475 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
37660537 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
37660555 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37660581 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:37660594 original size:40 final size:40
Alignment explanation
Indices: 37660397--37660580 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
37660387 TGAATGATGT
* * * *
37660397 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
37660437 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
37660477 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
37660515 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
37660556 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
37660581 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:37660602 original size:79 final size:79
Alignment explanation
Indices: 37660449--37660613 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
37660439 GGACTAAGAT
* * **
37660449 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
37660514 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
37660528 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
37660591 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
37660607 CCGAAGG
1 CCGAAGG
37660614 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:37663942 original size:21 final size:22
Alignment explanation
Indices: 37663918--37663974 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
37663908 AGAAGTCTGG
37663918 GTTGTATCGGTAGAAC-CCAAA
1 GTTGTATCGGTAGAACTCCAAA
*
37663939 GTTGTATCGGTAGAACTCCCAA
1 GTTGTATCGGTAGAACTCCAAA
*
37663961 -TTCTATCGGTAGAA
1 GTTGTATCGGTAGAA
37663975 TTCTGTAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 29 0.88
22 4 0.12
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (22 bp):
GTTGTATCGGTAGAACTCCAAA
Found at i:37681569 original size:55 final size:55
Alignment explanation
Indices: 37681510--37681615 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
37681500 CGTTTCAATC
* * **
37681510 AATAAAGAGTAAGTATAGTGGTAGAATGGAAAACCATTCTTTCCTCTCTTCAACT
1 AATAAAGAGTAAATATAGTGGTAGAATGAAAAACCACCCTTTCCTCTCTTCAACT
* * * *
37681565 AATAAAGAGTAAATTTAGTGTTTGAATGAAAAACTACCCTTTCCTCTCTTC
1 AATAAAGAGTAAATATAGTGGTAGAATGAAAAACCACCCTTTCCTCTCTTC
37681616 TTTTCCTTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (55 bp):
AATAAAGAGTAAATATAGTGGTAGAATGAAAAACCACCCTTTCCTCTCTTCAACT
Found at i:37683993 original size:20 final size:20
Alignment explanation
Indices: 37683968--37684008 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
37683958 GCCCATAAAG
37683968 CTTCATCCAATTTGGATGAC
1 CTTCATCCAATTTGGATGAC
37683988 CTTCATCCAATTTGGATGAC
1 CTTCATCCAATTTGGATGAC
37684008 C
1 C
37684009 AATCTTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (20 bp):
CTTCATCCAATTTGGATGAC
Found at i:37688010 original size:12 final size:13
Alignment explanation
Indices: 37687986--37688014 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
37687976 GGGCTATAAC
37687986 TATTGCATTTATT
1 TATTGCATTTATT
37687999 TATTGC-TTTATT
1 TATTGCATTTATT
37688011 TATT
1 TATT
37688015 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:37709723 original size:24 final size:26
Alignment explanation
Indices: 37709694--37709743 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
37709684 ACCTTGCAGT
*
37709694 ACAAAAGTCAAAAC-AACA-TCCAAA
1 ACAAAAATCAAAACAAACAGTCCAAA
*
37709718 ACAAAAATTAAAACAAACAGTCCAAA
1 ACAAAAATCAAAACAAACAGTCCAAA
37709744 GAGTCCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 4 0.18
26 6 0.27
ACGTcount: A:0.64, C:0.22, G:0.04, T:0.10
Consensus pattern (26 bp):
ACAAAAATCAAAACAAACAGTCCAAA
Found at i:37714063 original size:24 final size:26
Alignment explanation
Indices: 37714035--37714091 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
37714025 CTTTTTTTAT
*
37714035 TAAATAAAAAAC-TTT-AAAATATAA
1 TAAATAAAAAACATTTAAAAACATAA
* *
37714059 TAAATCAAATACATTTAAAAACATAA
1 TAAATAAAAAACATTTAAAAACATAA
37714085 -AAATAAA
1 TAAATAAA
37714092 TGTTAAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 10 0.37
25 9 0.33
26 8 0.30
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (26 bp):
TAAATAAAAAACATTTAAAAACATAA
Found at i:37714353 original size:11 final size:11
Alignment explanation
Indices: 37714316--37714377 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
37714306 AAACACAACA
37714316 AAAAGCAGCAGC
1 AAAA-CAGCAGC
*
37714328 AAAACAACA-C
1 AAAACAGCAGC
* *
37714338 TAAAATAGCGGC
1 -AAAACAGCAGC
37714350 AAAACAGCAGC
1 AAAACAGCAGC
* *
37714361 AAAACAACATC
1 AAAACAGCAGC
37714372 AAAACA
1 AAAACA
37714378 ACACCGAACA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
10 1 0.03
11 34 0.85
12 5 0.12
ACGTcount: A:0.58, C:0.24, G:0.13, T:0.05
Consensus pattern (11 bp):
AAAACAGCAGC
Found at i:37716787 original size:66 final size:66
Alignment explanation
Indices: 37716681--37716811 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
37716671 TCATAAAAAC
37716681 TCAAGTCCTGAAATCCAAATAAACCAAAAGATTATTAATTTTCATAATAAAAATATCTAATAATT
1 TCAAGTCCTGAAATCCAAATAAACCAAAAGATTATTAATTTTCATAATAAAAATATCTAATAATT
37716746 T
66 T
*
37716747 TCAAGTCCTGAAATCCAAATAAACCAAAAGATTATTAATTTTCATACTAAAAATATCTAATAATT
1 TCAAGTCCTGAAATCCAAATAAACCAAAAGATTATTAATTTTCATAATAAAAATATCTAATAATT
37716812 ATGATACAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.33
Consensus pattern (66 bp):
TCAAGTCCTGAAATCCAAATAAACCAAAAGATTATTAATTTTCATAATAAAAATATCTAATAATT
T
Found at i:37720377 original size:38 final size:38
Alignment explanation
Indices: 37720326--37720486 Score: 243
Period size: 38 Copynumber: 4.2 Consensus size: 38
37720316 TCGAAATATG
37720326 ATATCCGGGTTAAATCCCGCAGGCTTCGTGC-GCGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTG-GTATT
* * *
37720364 ATATCCAGGTTAAATCCCACAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
37720402 ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
37720440 ATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
37720478 ATATTCGGG
1 ATATCCGGG
37720487 CCTTTGAGCC
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
38 110 0.99
39 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:37720576 original size:45 final size:45
Alignment explanation
Indices: 37720480--37720592 Score: 117
Period size: 46 Copynumber: 2.5 Consensus size: 45
37720470 CTGGTATTAT
* * * * *
37720480 ATTCGGGCCTTT-GAGCCTAACAGACTATTATGTCGGTGAGACATT
1 ATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAGACATG
37720525 ATTCGGGCTTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-ATG
1 ATTCGGGC-TTTCGAGCCTAGCAGGCTATAATGCCGGTGAGACATG
*
37720569 ATATCGGGC-CTCGAGCCTAGCAGG
1 AT-TCGGGCTTTCGAGCCTAGCAGG
37720593 AAAAATACCA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
43 14 0.24
44 5 0.08
45 17 0.29
46 23 0.39
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (45 bp):
ATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAGACATG
Found at i:37720746 original size:65 final size:65
Alignment explanation
Indices: 37720642--37720775 Score: 259
Period size: 65 Copynumber: 2.1 Consensus size: 65
37720632 ACCTCGTATT
*
37720642 AGTTTGACAAATGAATACATTCAGTACGTTAAGTGGGCCAGGTACGCACTATGTACTCATATGTG
1 AGTTTGACAAATGAATACATTCAATACGTTAAGTGGGCCAGGTACGCACTATGTACTCATATGTG
37720707 AGTTTGACAAATGAATACATTCAATACGTTAAGTGGGCCAGGTACGCACTATGTACTCATATGTG
1 AGTTTGACAAATGAATACATTCAATACGTTAAGTGGGCCAGGTACGCACTATGTACTCATATGTG
37720772 AGTT
1 AGTT
37720776 CGATTTGAAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (65 bp):
AGTTTGACAAATGAATACATTCAATACGTTAAGTGGGCCAGGTACGCACTATGTACTCATATGTG
Found at i:37722416 original size:38 final size:38
Alignment explanation
Indices: 37722373--37722447 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
37722363 TTTCAAATTA
37722373 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTG
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTG
* *
37722411 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGT
37722448 TAATGAATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTG
Found at i:37722475 original size:47 final size:47
Alignment explanation
Indices: 37722418--37723289 Score: 1645
Period size: 47 Copynumber: 18.5 Consensus size: 47
37722408 GTGACATGTT
*
37722418 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37722465 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37722512 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37722559 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37722606 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37722653 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37722700 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37722747 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37722794 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37722841 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37722888 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37722935 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37722982 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37723029 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37723076 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37723123 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
37723170 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* ** * * *
37723217 TAACCGTGACATATCCACTTACCACCACGTTACATGTATCAATATGTG
1 TAACCATGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
***
37723265 TAATTGTGGTATATCCACTTAGCAC
1 TAACCATGGTATATCCACTTAGCAC
37723290 TACATTACAT
Statistics
Matches: 812, Mismatches: 12, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
47 779 0.96
48 33 0.04
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.30
Consensus pattern (47 bp):
TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:37724878 original size:27 final size:27
Alignment explanation
Indices: 37724848--37725025 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37724838 ATATTGAGTC
* * * *
37724848 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
37724875 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37724902 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
37724930 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
37724957 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
37724984 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37725011 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37725026 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:37724987 original size:82 final size:81
Alignment explanation
Indices: 37724869--37725024 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37724859 TGCTATATAA
* *
37724869 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37724934 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37724951 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37725015 CACTTAGTGC
65 CACTTAGTGC
37725025 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37729400 original size:24 final size:24
Alignment explanation
Indices: 37729345--37729400 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
37729335 CCCCTAAACA
* *
37729345 GTTCAGCTCCATTGGACTGAAGTC
1 GTTCAGTTCCATTGGACCGAAGTC
* * * *
37729369 ATTTAGTTCTATTTGACCGAAGTC
1 GTTCAGTTCCATTGGACCGAAGTC
37729393 GTTCAGTT
1 GTTCAGTT
37729401 ACCAACCCAC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (24 bp):
GTTCAGTTCCATTGGACCGAAGTC
Found at i:37732344 original size:17 final size:17
Alignment explanation
Indices: 37732322--37732354 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37732312 CAACAATCTC
37732322 ATTTCTCTTCTCTTTTT
1 ATTTCTCTTCTCTTTTT
*
37732339 ATTTCTCTTTTCTTTT
1 ATTTCTCTTCTCTTTT
37732355 CTCTCTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTCTCTTCTCTTTTT
Found at i:37732365 original size:42 final size:42
Alignment explanation
Indices: 37732318--37732398 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
37732308 CTTACAACAA
* * *
37732318 TCTCA-TTTCTCTTCTCTTTTTATTTCTCTTTTCTTTTCTCTC
1 TCTCATTTTCTCTT-TCTCTTGATTTCTATTTTCTTTTCTCTC
* *
37732360 TCTCATTTTTTCTTTCTCTTGATTTTTATTTTCTTTTCT
1 TCTCATTTTCTCTTTCTCTTGATTTCTATTTTCTTTTCT
37732399 TTTGAAGTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 26 0.79
43 7 0.21
ACGTcount: A:0.06, C:0.23, G:0.01, T:0.69
Consensus pattern (42 bp):
TCTCATTTTCTCTTTCTCTTGATTTCTATTTTCTTTTCTCTC
Found at i:37740620 original size:19 final size:20
Alignment explanation
Indices: 37740584--37740626 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
37740574 GATTATGTAG
* *
37740584 TTAATTAATTTTAATTT-AC
1 TTAATTAACTATAATTTAAC
*
37740603 TTAATTAACTATATTTTAAC
1 TTAATTAACTATAATTTAAC
37740623 TTAA
1 TTAA
37740627 AAAATCCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATTAACTATAATTTAAC
Found at i:37745465 original size:23 final size:23
Alignment explanation
Indices: 37745437--37745481 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
37745427 GTTCAAAATT
*
37745437 TTAAAATAAACAATATATATGAG
1 TTAAAACAAACAATATATATGAG
*
37745460 TTAAAACAAATAATATATATGA
1 TTAAAACAAACAATATATATGA
37745482 ATGTACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAACAAACAATATATATGAG
Found at i:37745568 original size:24 final size:24
Alignment explanation
Indices: 37745530--37745829 Score: 144
Period size: 24 Copynumber: 12.8 Consensus size: 24
37745520 TGAATTGGAT
* *
37745530 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
37745555 AATTTGAAATAATAATACAT-ATAA
1 AATTTAAAATAATAATATATGAT-A
*
37745579 AATTT-AAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* * **
37745599 AATTCTAGAATAATCATACGTGATA
1 AATT-TAAAATAATAATATATGATA
** * *
37745624 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
37745648 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
37745669 AATTTGAAATAGAT-ATACATGATA
1 AATTTAAAATA-ATAATATATGATA
** ** *
37745693 AATTTAAAATAATGTTA-ACAATG
1 AATTTAAAATAATAATATATGATA
37745716 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* *
37745739 AA-TTACAAATAATAAAACATGATA
1 AATTTA-AAATAATAATATATGATA
* **
37745763 AATCTAAAATAATAATATACAATA
1 AATTTAAAATAATAATATATGATA
* * * * *
37745787 CACTT-AGATAATATTA-ATGATT
1 AATTTAAAATAATAATATATGATA
37745809 AATTTAATAATAATAAGTATA
1 AATTTAA-AATAATAA-TATA
37745830 AACATTCAAA
Statistics
Matches: 202, Mismatches: 51, Indels: 43
0.68 0.17 0.15
Matches are distributed among these distances:
20 5 0.02
21 13 0.06
22 25 0.12
23 58 0.29
24 84 0.42
25 16 0.08
26 1 0.00
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:37745626 original size:69 final size:69
Alignment explanation
Indices: 37745552--37745813 Score: 194
Period size: 69 Copynumber: 3.8 Consensus size: 69
37745542 ATAATATATA
* * *
37745552 ATAAATTTGAAATAATAATACAT-ATAAAATTTAAAAATTTTGATGAT-AATTCT-AGAATA-AT
1 ATAAATTTAAAATAATAATACATAAT-AAATTTAAAAATATTAATGATAAATT-TGA-AATAGAT
*
37745613 CATACGTG
63 -ATACATG
** * *
37745621 ATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATATA
1 ATAAATTTAAAATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATATA
37745686 CATG
66 CATG
** * * * * **
37745690 ATAAATTTAAAATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAATTACAAATA-ATA
1 ATAAATTTAAAATAATAATACATAATAAATTT-AAA-AATATTAATGATAAATTTGAAATAGAT-
*
37745753 AAACATG
63 ATACATG
* * * * * * *
37745760 ATAAATCTAAAATAATAATATACAATACACTTAGATAATATTAATGATTAATTT
1 ATAAATTTAAAATAATAATACATAATAAATTTA-AAAATATTAATGATAAATTT
37745814 AATAATAATA
Statistics
Matches: 154, Mismatches: 30, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
68 9 0.06
69 69 0.45
70 67 0.44
71 9 0.06
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.35
Consensus pattern (69 bp):
ATAAATTTAAAATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATATA
CATG
Found at i:37745798 original size:70 final size:68
Alignment explanation
Indices: 37745619--37745812 Score: 176
Period size: 70 Copynumber: 2.8 Consensus size: 68
37745609 TAATCATACG
* * * * * **
37745619 TGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATA
1 TGATAAATCTAAAATAATAATATACAAT-AATTTAATAATAATAATGATAAATTACAAATAGATA
*
37745684 TACA
65 AACA
* ** *
37745688 TGATAAATTTAAAATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAATTACAAATA-A
1 TGATAAATCTAAAATAATAATATACAAT-AATTT--AATAATAATAATGATAAATTACAAATAGA
37745751 TAAAACA
63 T-AAACA
* * *
37745758 TGATAAATCTAAAATAATAATATACAATACACTTAGATAATATTAATGATTAATT
1 TGATAAATCTAAAATAATAATATACAATA-ATTTA-ATAATAATAATGATAAATT
37745813 TAATAATAAT
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
68 9 0.09
69 21 0.21
70 62 0.62
71 8 0.08
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (68 bp):
TGATAAATCTAAAATAATAATATACAATAATTTAATAATAATAATGATAAATTACAAATAGATAA
ACA
Found at i:37745922 original size:79 final size:79
Alignment explanation
Indices: 37745834--37745996 Score: 310
Period size: 79 Copynumber: 2.1 Consensus size: 79
37745824 AGTATAAACA
*
37745834 TTCAAATAATATCAGATTCAAAATTTAAAAAAAAACATAATAATCAACACTTAAATAAATAAAAC
1 TTCAAATAATATCAGATTCAAAATTTAAAAAAAAACATAATAATCAACACTTAAACAAATAAAAC
37745899 ACAAGCAAATTAAG
66 ACAAGCAAATTAAG
37745913 TTCAAATAATATCAGATTCAAAATTTAAAAAAAAACATAATAATCAACACTTAAACAAATAAAAC
1 TTCAAATAATATCAGATTCAAAATTTAAAAAAAAACATAATAATCAACACTTAAACAAATAAAAC
37745978 ACAAGCAAATTAAG
66 ACAAGCAAATTAAG
37745992 -TCAAA
1 TTCAAA
37745997 CTAGTGAGGA
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
78 5 0.06
79 78 0.94
ACGTcount: A:0.60, C:0.13, G:0.04, T:0.23
Consensus pattern (79 bp):
TTCAAATAATATCAGATTCAAAATTTAAAAAAAAACATAATAATCAACACTTAAACAAATAAAAC
ACAAGCAAATTAAG
Found at i:37746728 original size:23 final size:22
Alignment explanation
Indices: 37746698--37746742 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
37746688 AAATTAAATC
37746698 TCTAAGATTACAAAATCTTATCT
1 TCTAAGATTAC-AAATCTTATCT
* *
37746721 TCTAAGATTGCATATCTTATCT
1 TCTAAGATTACAAATCTTATCT
37746743 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (22 bp):
TCTAAGATTACAAATCTTATCT
Found at i:37746745 original size:19 final size:19
Alignment explanation
Indices: 37746721--37746774 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
37746711 AATCTTATCT
*
37746721 TCTAAGATTGCATATCTTA
1 TCTAAGATTGCATATCATA
37746740 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
37746759 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
37746775 CTTTTTCAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:37753983 original size:12 final size:12
Alignment explanation
Indices: 37753966--37753990 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37753956 GAGTTAAAAT
37753966 AAAATTAAATAA
1 AAAATTAAATAA
37753978 AAAATTAAATAA
1 AAAATTAAATAA
37753990 A
1 A
37753991 TCAACTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATTAAATAA
Found at i:37759235 original size:15 final size:15
Alignment explanation
Indices: 37759215--37759246 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
37759205 CATTTCACTA
37759215 TTATGTCTTTGATAT
1 TTATGTCTTTGATAT
37759230 TTATGTCTTTGATAT
1 TTATGTCTTTGATAT
37759245 TT
1 TT
37759247 TGCTTGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (15 bp):
TTATGTCTTTGATAT
Found at i:37767905 original size:18 final size:18
Alignment explanation
Indices: 37767882--37767941 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
37767872 ATACTAATTC
* *
37767882 ATATAGGGTTCACATAAA
1 ATATAGGGTTCGCATAAT
37767900 ATATAGGG-TCTGCATAAT
1 ATATAGGGTTC-GCATAAT
37767918 ATATAGGGTTCGCATAAT
1 ATATAGGGTTCGCATAAT
37767936 ATATAG
1 ATATAG
37767942 TAAGAGATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.05
18 34 0.89
19 2 0.05
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (18 bp):
ATATAGGGTTCGCATAAT
Found at i:37768123 original size:76 final size:74
Alignment explanation
Indices: 37767911--37768157 Score: 363
Period size: 76 Copynumber: 3.3 Consensus size: 74
37767901 TATAGGGTCT
* *
37767911 GCATAATATATAGGGTTCGCATAATATATAGTAAGAGATCACATACTAAATCATATAAGGTTTGC
1 GCATAATATGTAGGGTTCGCATAATATAT-GTAAGAGATCGCATACTAAATCATATAAGGTTTGC
37767976 ATATGGGTTC
65 ATATGGGTTC
*
37767986 GCATAATATGTAGGGTTCGCAT-ATATA-GTAAGAGATCGTATACTAAATCATATAATGGTTTGC
1 GCATAATATGTAGGGTTCGCATAATATATGTAAGAGATCGCATACTAAATCATATAA-GGTTTGC
37768049 ATATGGGTTC
65 ATATGGGTTC
* * ** *
37768059 ACATAATATGTAGGATTCAAATAATATATGGTAAGAGATCGCATATTAAATCATATAAGAGTTTG
1 GCATAATATGTAGGGTTCGCATAATATAT-GTAAGAGATCGCATACTAAATCATATAAG-GTTTG
*
37768124 TATATGGGTTC
64 CATATGGGTTC
37768135 GCATAATATGTAGGGTTCGCATA
1 GCATAATATGTAGGGTTCGCATA
37768158 TTCACTTATA
Statistics
Matches: 153, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
72 26 0.17
73 35 0.23
74 10 0.07
75 22 0.14
76 60 0.39
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (74 bp):
GCATAATATGTAGGGTTCGCATAATATATGTAAGAGATCGCATACTAAATCATATAAGGTTTGCA
TATGGGTTC
Found at i:37768330 original size:48 final size:48
Alignment explanation
Indices: 37768249--37768352 Score: 118
Period size: 48 Copynumber: 2.2 Consensus size: 48
37768239 TCACCTAGGG
* *
37768249 TTCGCATTCATAAGGGTTCACATACCTAAGGGTTAGCATACAAGGAGA
1 TTCGCATACATAAGGGTTCACATACATAAGGGTTAGCATACAAGGAGA
* * ** * * *
37768297 TTCGCATACATAATGGTTCACATATATGGGGGTTCGCATACATGGAGG
1 TTCGCATACATAAGGGTTCACATACATAAGGGTTAGCATACAAGGAGA
*
37768345 TTCACATA
1 TTCGCATA
37768353 ACAAATTACC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (48 bp):
TTCGCATACATAAGGGTTCACATACATAAGGGTTAGCATACAAGGAGA
Found at i:37768341 original size:16 final size:16
Alignment explanation
Indices: 37768245--37768339 Score: 77
Period size: 16 Copynumber: 5.9 Consensus size: 16
37768235 TAGTTCACCT
*
37768245 AGGGTTCGCATTCATA
1 AGGGTTCGCATACATA
* *
37768261 AGGGTTCACATACCTA
1 AGGGTTCGCATACATA
*
37768277 AGGGTTAGCATAC--A
1 AGGGTTCGCATACATA
37768291 AGGAGATTCGCATACATA
1 AGG-G-TTCGCATACATA
* * * *
37768309 ATGGTTCACATATATG
1 AGGGTTCGCATACATA
*
37768325 GGGGTTCGCATACAT
1 AGGGTTCGCATACAT
37768340 GGAGGTTCAC
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
14 4 0.07
15 1 0.02
16 52 0.85
17 1 0.02
18 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (16 bp):
AGGGTTCGCATACATA
Found at i:37768346 original size:16 final size:16
Alignment explanation
Indices: 37768279--37768352 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
37768269 CATACCTAAG
* *
37768279 GGTTAGCATACAAGGA
1 GGTTCGCATACATGGA
* *
37768295 GATTCGCATACAT-AA
1 GGTTCGCATACATGGA
* * *
37768310 TGGTTCACATATATGGG
1 -GGTTCGCATACATGGA
37768327 GGTTCGCATACATGGA
1 GGTTCGCATACATGGA
*
37768343 GGTTCACATA
1 GGTTCGCATA
37768353 ACAAATTACC
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
15 1 0.02
16 42 0.98
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (16 bp):
GGTTCGCATACATGGA
Found at i:37771209 original size:14 final size:15
Alignment explanation
Indices: 37771172--37771213 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
37771162 GTTTTGATTT
37771172 TTTTAATATAATTAA
1 TTTTAATATAATTAA
*
37771187 TTCTT-ATAT-TTTAA
1 TT-TTAATATAATTAA
37771201 TTTTAATATAATT
1 TTTTAATATAATT
37771214 TGATATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
13 2 0.09
14 10 0.45
15 8 0.36
16 2 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTAATATAATTAA
Found at i:37771244 original size:31 final size:29
Alignment explanation
Indices: 37771195--37771272 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 29
37771185 AATTCTTATA
*
37771195 TTTTAATTTTAATATAATTTGATATTT-ATATT
1 TTTTAATATT-AT-TAATTT-AT-TTTAATATT
*
37771227 TTTATAATGTTATTAA-TTATTTTAATATT
1 TTT-TAATATTATTAATTTATTTTAATATT
37771256 TTTTAATATTATTAATT
1 TTTTAATATTATTAATT
37771273 AATTAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
28 14 0.34
29 11 0.27
30 2 0.05
31 3 0.07
32 5 0.12
33 6 0.15
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.63
Consensus pattern (29 bp):
TTTTAATATTATTAATTTATTTTAATATT
Found at i:37773426 original size:60 final size:60
Alignment explanation
Indices: 37773333--37773453 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
37773323 TAAGAAAGGA
37773333 CACTTCAGAGTAGATTGAAAAGAGTACAAGGACTATTTATATAACACCCTTAATCCGTAT
1 CACTTCAGAGTAGATTGAAAAGAGTACAAGGACTATTTATATAACACCCTTAATCCGTAT
37773393 CACTTCAGAGTAGATTGAAAAGAGTACAAGGACTATTTATATAACACCCTTAATCCGTAT
1 CACTTCAGAGTAGATTGAAAAGAGTACAAGGACTATTTATATAACACCCTTAATCCGTAT
37773453 C
1 C
37773454 CGTCGCCAGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (60 bp):
CACTTCAGAGTAGATTGAAAAGAGTACAAGGACTATTTATATAACACCCTTAATCCGTAT
Found at i:37780262 original size:23 final size:23
Alignment explanation
Indices: 37780230--37780593 Score: 399
Period size: 23 Copynumber: 15.6 Consensus size: 23
37780220 GATTCAAGTG
* *
37780230 AATTTAGTGTATATATGCTGTCC
1 AATTTGGTGTATAAATGCTGTCC
* * *
37780253 AATTTGGTGTACAAATGTTGTCT
1 AATTTGGTGTATAAATGCTGTCC
* * *
37780276 AATTTGGTATATATATGCTGCCC
1 AATTTGGTGTATAAATGCTGTCC
*
37780299 AA-TTGGTGTATAAATCCTGTCC
1 AATTTGGTGTATAAATGCTGTCC
*
37780321 AATTTGGTGTATATATGCTGTCC
1 AATTTGGTGTATAAATGCTGTCC
37780344 AATTTGGTGTATAAATGCTGTCC
1 AATTTGGTGTATAAATGCTGTCC
*
37780367 AATTTTGGTGTATAAATGTTGTCC
1 AA-TTTGGTGTATAAATGCTGTCC
* * *
37780391 AATTTGGTATATATATGCTGCCC
1 AATTTGGTGTATAAATGCTGTCC
* *
37780414 AATTTGGTGTATAAATACTGTCT
1 AATTTGGTGTATAAATGCTGTCC
* *
37780437 AATTTGGTGTATATATGCTGCCC
1 AATTTGGTGTATAAATGCTGTCC
37780460 AATTTGGTGTATAAAATGCTGTCC
1 AATTTGGTGTAT-AAATGCTGTCC
* * *
37780484 AATTTGGTATATATATATGTTGTTC
1 AATTTGGTGTATA-A-ATGCTGTCC
37780509 AATTTGGTGTATAAAATGCTGTCC
1 AATTTGGTGTAT-AAATGCTGTCC
* * *
37780533 AATTTGGTATATATGTATACTGTCC
1 AATTTGGTGTATA--AATGCTGTCC
* *
37780558 AATTGGGTGTATAAATACTGTCC
1 AATTTGGTGTATAAATGCTGTCC
* *
37780581 GA-TTGATGTATAA
1 AATTTGGTGTATAA
37780594 TAGTTGTCCA
Statistics
Matches: 284, Mismatches: 49, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
22 27 0.10
23 157 0.55
24 61 0.21
25 38 0.13
26 1 0.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (23 bp):
AATTTGGTGTATAAATGCTGTCC
Found at i:37780395 original size:70 final size:69
Alignment explanation
Indices: 37780230--37780593 Score: 408
Period size: 70 Copynumber: 5.2 Consensus size: 69
37780220 GATTCAAGTG
* * * * * * * *
37780230 AATTTAGTGTATATATGCTGTCCAATTTGGTGTACAAATGTTGTCTAATTTGGTATATATATGCT
1 AATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
*
37780295 GCCC
66 GTCC
*
37780299 AA-TTGGTGTATAAATCCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
1 AATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
37780363 GTCC
66 GTCC
* * * *
37780367 AATTTTGGTGTATAAATGTTGTCCAATTTGGTATATATATGCTGCCCAATTTGGTGTATAAATAC
1 AA-TTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGC
*
37780432 TGTCT
65 TGTCC
* * * *
37780437 AATTTGGTGTATATATGCTGCCCAATTTGGTGTATAAAATGCTGTCCAATTTGGTATATATATAT
1 AATTTGGTGTATAAATGCTGTCCAATTTGGTGTAT-ATATGCTGTCCAATTTGGTGTATA-A-AT
* *
37780502 GTTGTTC
63 GCTGTCC
* * *
37780509 AATTTGGTGTATAAAATGCTGTCCAATTTGGTATATATGTATACTGTCCAATTGGGTGTATAAAT
1 AATTTGGTGTAT-AAATGCTGTCCAATTTGGTGTATA--TATGCTGTCCAATTTGGTGTATAAAT
*
37780574 ACTGTCC
63 GCTGTCC
* *
37780581 GA-TTGATGTATAA
1 AATTTGGTGTATAA
37780594 TAGTTGTCCA
Statistics
Matches: 248, Mismatches: 39, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
68 58 0.23
69 31 0.12
70 85 0.34
71 9 0.04
72 25 0.10
73 21 0.08
74 19 0.08
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (69 bp):
AATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
GTCC
Found at i:37789183 original size:23 final size:23
Alignment explanation
Indices: 37789153--37789499 Score: 469
Period size: 23 Copynumber: 15.0 Consensus size: 23
37789143 TAGTGGATAT
37789153 ATGCTGTCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGGTGTATAA
* * *
37789176 ATGTTGTCCAATTTGGTATATAT
1 ATGCTGTCCAATTTGGTGTATAA
**
37789199 ATGCTACCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGGTGTATAA
*
37789222 ATGTTGTCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGGTGTATAA
*
37789245 ATGCTGTCCAATTTGGTGTATAT
1 ATGCTGTCCAATTTGGTGTATAA
37789268 ATGCTGTCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGGTGTATAA
37789291 ATGCTGTCCAATTTTGGTGTATAA
1 ATGCTGTCCAA-TTTGGTGTATAA
* * *
37789315 ATGTTGTCCAATTTGGTATATAT
1 ATGCTGTCCAATTTGGTGTATAA
* *
37789338 ATGTTGCCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGGTGTATAA
*
37789361 ATGCTGTCCAATTTGGTGTATAT
1 ATGCTGTCCAATTTGGTGTATAA
* *
37789384 ATGCTGTTCAATTTGATGTATAAA
1 ATGCTGTCCAATTTGGTGTAT-AA
37789408 ATGCTGTCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGGTGTATAA
* * *
37789431 ATGTTGTCCAATTTGGTATATAT
1 ATGCTGTCCAATTTGGTGTATAA
* *
37789454 ATACTGTCCAATTGGGTGTATAA
1 ATGCTGTCCAATTTGGTGTATAA
* * *
37789477 ATGATGTCCGATTTGATGTATAA
1 ATGCTGTCCAATTTGGTGTATAA
37789500 GAGCTATCCA
Statistics
Matches: 281, Mismatches: 41, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
23 239 0.85
24 42 0.15
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAATTTGGTGTATAA
Found at i:37789362 original size:116 final size:115
Alignment explanation
Indices: 37789149--37789498 Score: 529
Period size: 116 Copynumber: 3.0 Consensus size: 115
37789139 GAATTAGTGG
* * * * **
37789149 ATATATGCTGTCCAATTTGGTGTATAAATGTTGTCCAATTTGGTATATATATGCTACCCAATTTG
1 ATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGTTGTCCAATTTG
* *
37789214 GTGTATAAATGTTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGT
66 GTATATATATGTTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGT
37789264 ATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTTGGTGTATAAATGTTGTCCAATTT
1 ATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAA-TTTGGTGTATAAATGTTGTCCAATTT
*
37789329 GGTATATATATGTTGCCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGT
65 GGTATATATATGTTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGT
* *
37789380 ATATATGCTGTTCAATTTGATGTATAAAATGCTGTCCAATTTGGTGTATAAATGTTGTCCAATTT
1 ATATATGCTGTCCAATTTGGTGTAT-AAATGCTGTCCAATTTGGTGTATAAATGTTGTCCAATTT
** * * * *
37789445 GGTATATATATACTGTCCAATTGGGTGTATAAATGATGTCCGATTTGATGT
65 GGTATATATATGTTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGT
37789496 ATA
1 ATA
37789499 AGAGCTATCC
Statistics
Matches: 215, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
115 37 0.17
116 165 0.77
117 13 0.06
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (115 bp):
ATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGTTGTCCAATTTG
GTATATATATGTTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGT
Found at i:37794939 original size:52 final size:52
Alignment explanation
Indices: 37794882--37794986 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
37794872 CCATAAAACA
37794882 CTTATGCTACAAAACAACCATTTAAAACAAATTTAAGATCTTTAAAAACAAT
1 CTTATGCTACAAAACAACCATTTAAAACAAATTTAAGATCTTTAAAAACAAT
37794934 CTTATGCTACAAAACAACCATTTAAAACAAATTTAAGATCTTTAAAAACAAT
1 CTTATGCTACAAAACAACCATTTAAAACAAATTTAAGATCTTTAAAAACAAT
37794986 C
1 C
37794987 ACTTCAAGTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.29
Consensus pattern (52 bp):
CTTATGCTACAAAACAACCATTTAAAACAAATTTAAGATCTTTAAAAACAAT
Found at i:37795053 original size:97 final size:98
Alignment explanation
Indices: 37794934--37795112 Score: 306
Period size: 97 Copynumber: 1.8 Consensus size: 98
37794924 TAAAAACAAT
* * *
37794934 CTTATGCTACAAAACAACCATTTAAAACAAATTTAAGATCTTTAAAAACAATCACTTCAAGTCAA
1 CTTATGCTACAAAACAACCATTTAAAAAAAATTTAAGATCTTCAAAAACAATCACTTCAAGACAA
37794999 AATCATCATTTTAAACAATTTACCCATAAAATA
66 AATCATCATTTTAAACAATTTACCCATAAAATA
* *
37795032 CTTATGCTAC-AAACTACCATTTAAAAAAAATTTAAGATCTTCAAAAGCAATCACTTCAAGACAA
1 CTTATGCTACAAAACAACCATTTAAAAAAAATTTAAGATCTTCAAAAACAATCACTTCAAGACAA
37795096 AATCATCATTTTAAACA
66 AATCATCATTTTAAACA
37795113 CCCTAGGTAC
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 66 0.87
98 10 0.13
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (98 bp):
CTTATGCTACAAAACAACCATTTAAAAAAAATTTAAGATCTTCAAAAACAATCACTTCAAGACAA
AATCATCATTTTAAACAATTTACCCATAAAATA
Found at i:37797594 original size:18 final size:18
Alignment explanation
Indices: 37797571--37797624 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
37797561 GTTTAGGAAT
*
37797571 GTTTTTGTCTCAAAAGTG
1 GTTTTTGTCCCAAAAGTG
*
37797589 GTTTTTATCCCAAAAGTG
1 GTTTTTGTCCCAAAAGTG
37797607 GTTTTTGTCCCAAAAGTG
1 GTTTTTGTCCCAAAAGTG
37797625 CTTCTTAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (18 bp):
GTTTTTGTCCCAAAAGTG
Found at i:37804885 original size:22 final size:22
Alignment explanation
Indices: 37804860--37804902 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
37804850 TAATAAAAAG
37804860 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
37804882 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
37804903 CACTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:37808619 original size:22 final size:22
Alignment explanation
Indices: 37808594--37808636 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
37808584 TAATAAAAAG
37808594 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
37808616 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
37808637 CACATTGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:37824427 original size:295 final size:294
Alignment explanation
Indices: 37823922--37824469 Score: 767
Period size: 295 Copynumber: 1.9 Consensus size: 294
37823912 TGATTTCGCC
* * **
37823922 AATTAATCGTTGTATAAATATTTGAATAGATTATTGTGCTTTATTTATATATTGCATGTTTCACT
1 AATTAATCGTTGTATAAATATTTGAATAGATTATTGTGCTTCATTCATATATCACATGTTTCACT
* ** * *
37823987 TAATAAACTAATTTATCTGTTAAGTGATTCTTTATTTGAAATTAGTTGTTTATTCAAGAGTGCTT
66 TAATAAACTAATTTATCTGTTAAGTGATTATTTATCCGAAATTAGTTGTTTATTAAAGAGTACTT
* ** * * *
37824052 AGTATATTAGGGAGTGACGTCCTTGATAGAATATCTAGATAAGTGAGACAGGAAGGGTATCATGT
131 AATATATTAGGGAGTGACACCCCTGATAGAATATCGAGATAAGTGAGACAGAAAGGGTATCATGT
* *
37824117 CATGTATAACTTGTGCCAAGCGGTGAAACAGGGAGGGTATCCATATGCCTAGGAAGAGATCGGAA
196 CATGTATAACTTGTGCCAAACGATGAAACA-GGAGGGTATCCATATGCCTAGGAAGAGATCGGAA
37824182 GTCTATTTGTTTATTTATAGTTTGTTAAATTTGTT
260 GTCTATTTGTTTATTTATAGTTTGTTAAATTTGTT
* * * * *
37824217 AATTGATCGTTGTATAAATATTTTAATAGATTATTGTGCTTCATTCATGTCTCACATGATTTGA-
1 AATTAATCGTTGTATAAATATTTGAATAGATTATTGTGCTTCATTCATATATCACATG-TTTCAC
* * *
37824281 TTATTAAACTAATTTATTTGTTAAGTGATTATTTATCCGAAATTTA-TTGTTTATTAAAGGGTAC
65 TTAATAAACTAATTTATCTGTTAAGTGATTATTTATCCGAAA-TTAGTTGTTTATTAAAGAGTAC
* *
37824345 TTAATATATTAGGGAGTGACACCCCTGATAGAATATCGAGATAGGTGAGACAGAAAGGGTATCCT
129 TTAATATATTAGGGAGTGACACCCCTGATAGAATATCGAGATAAGTGAGACAGAAAGGGTATCAT
* * * * *
37824410 GTCGTGTATATCTTGTGCCAAACGATGAGACAGGAGGGTATCCGTATGCCTAGGAGGAGA
194 GTCATGTATAACTTGTGCCAAACGATGAAACAGGAGGGTATCCATATGCCTAGGAAGAGA
37824470 CTGGAAGAGT
Statistics
Matches: 219, Mismatches: 32, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
294 26 0.12
295 186 0.85
296 7 0.03
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (294 bp):
AATTAATCGTTGTATAAATATTTGAATAGATTATTGTGCTTCATTCATATATCACATGTTTCACT
TAATAAACTAATTTATCTGTTAAGTGATTATTTATCCGAAATTAGTTGTTTATTAAAGAGTACTT
AATATATTAGGGAGTGACACCCCTGATAGAATATCGAGATAAGTGAGACAGAAAGGGTATCATGT
CATGTATAACTTGTGCCAAACGATGAAACAGGAGGGTATCCATATGCCTAGGAAGAGATCGGAAG
TCTATTTGTTTATTTATAGTTTGTTAAATTTGTT
Found at i:37824679 original size:14 final size:13
Alignment explanation
Indices: 37824641--37824675 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
37824631 AAGAAATTCC
37824641 ATTAGGTTAATTTA
1 ATTA-GTTAATTTA
37824655 AGTTAGTTAATTTA
1 A-TTAGTTAATTTA
37824669 ATTAGTT
1 ATTAGTT
37824676 TAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 11 0.55
15 3 0.15
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (13 bp):
ATTAGTTAATTTA
Found at i:37825058 original size:31 final size:31
Alignment explanation
Indices: 37825023--37825081 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
37825013 TTTTTGTACA
37825023 TAATTAAATATTTTTATTTTGAATTTTTAGT
1 TAATTAAATATTTTTATTTTGAATTTTTAGT
*
37825054 TAATTAAATATTTTTATTTTTAATTTTT
1 TAATTAAATATTTTTATTTTGAATTTTT
37825082 TATCTACCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (31 bp):
TAATTAAATATTTTTATTTTGAATTTTTAGT
Found at i:37842045 original size:14 final size:14
Alignment explanation
Indices: 37842012--37842041 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
37842002 ATTCCATTGG
37842012 GTTAATTTAAGTTA
1 GTTAATTTAAGTTA
37842026 GTTAATTTAA-TTA
1 GTTAATTTAAGTTA
37842039 GTT
1 GTT
37842042 TAATAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (14 bp):
GTTAATTTAAGTTA
Found at i:37842538 original size:45 final size:45
Alignment explanation
Indices: 37842489--37842681 Score: 181
Period size: 45 Copynumber: 4.3 Consensus size: 45
37842479 TTCTCTGAGC
*
37842489 CCACATGTACGAGTCCGCCATATATATGAATCATTTTCTATGAAT
1 CCACATGTATGAGTCCGCCATATATATGAATCATTTTCTATGAAT
* * *
37842534 CCACATGTATGAGTTCACCATATATGTGAATCATTTTCTATGAAT
1 CCACATGTATGAGTCCGCCATATATATGAATCATTTTCTATGAAT
*** * * * * * *
37842579 TTGCATATATGAATCTGCTATATATATGAATAATTTTCTATGAGT
1 CCACATGTATGAGTCCGCCATATATATGAATCATTTTCTATGAAT
* * * * * *
37842624 TCACATGTATG-GATCTGCCATGTCTATGAATCTTTTTCTGTGAAT
1 CCACATGTATGAG-TCCGCCATATATATGAATCATTTTCTATGAAT
* *
37842669 CCGCATGTGTGAG
1 CCACATGTATGAG
37842682 CCCATTATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
45 115 0.99
46 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (45 bp):
CCACATGTATGAGTCCGCCATATATATGAATCATTTTCTATGAAT
Found at i:37843820 original size:54 final size:54
Alignment explanation
Indices: 37843715--37843820 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 54
37843705 CACGACTGTG
* * *
37843715 TCCCAGCCCTTGTTCGTGCCTGTGTAACTCTCTGAGTTGTGTCAGACGGCCATA
1 TCCCAACCCGTGTTCGTGCCTGTGTAACTCTCTGAGTTGTGTCACACGGCCATA
* * *
37843769 TCCCAACCCGTGTTCGTGCCTGTGTAAGTCTTTGAGTTGTGTCACATGGCCA
1 TCCCAACCCGTGTTCGTGCCTGTGTAACTCTCTGAGTTGTGTCACACGGCCA
37843821 AGCCCTACGC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.15, C:0.28, G:0.25, T:0.32
Consensus pattern (54 bp):
TCCCAACCCGTGTTCGTGCCTGTGTAACTCTCTGAGTTGTGTCACACGGCCATA
Found at i:37843953 original size:30 final size:30
Alignment explanation
Indices: 37843898--37843954 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
37843888 TCTACAAGGG
* * * *
37843898 ACACACGACTATGTCGCATGGCCATGTGTC
1 ACACACGACTAAGACACATGCCCATGTGTC
37843928 ACACACGACTAAGACACATGCCCATGT
1 ACACACGACTAAGACACATGCCCATGT
37843955 CTTAGGCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (30 bp):
ACACACGACTAAGACACATGCCCATGTGTC
Found at i:37848445 original size:15 final size:16
Alignment explanation
Indices: 37848425--37848457 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37848415 ATCATAGAAT
*
37848425 ATTCAAA-AATAAAAA
1 ATTCAAATAAAAAAAA
37848440 ATTCAAATAAAAAAAA
1 ATTCAAATAAAAAAAA
37848456 AT
1 AT
37848458 AAAAAAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (16 bp):
ATTCAAATAAAAAAAA
Found at i:37856529 original size:20 final size:20
Alignment explanation
Indices: 37856506--37856550 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
37856496 GATTTGGTTC
37856506 ACTAATATTTGATTTAGGGA
1 ACTAATATTTGATTTAGGGA
37856526 ACTAATATTTGATTTAGGGA
1 ACTAATATTTGATTTAGGGA
*
37856546 TCTAA
1 ACTAA
37856551 ATTGCTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.40
Consensus pattern (20 bp):
ACTAATATTTGATTTAGGGA
Found at i:37862607 original size:344 final size:344
Alignment explanation
Indices: 37861980--37863355 Score: 2743
Period size: 344 Copynumber: 4.0 Consensus size: 344
37861970 ATAATCCGCC
37861980 TGACACGTTCTGCTAATTAACACTACAAGGAAAAATGAAACAAGAGAGTAAGCATTACAGTTGAT
1 TGACACGTTCTGCTAATTAACACTACAAGGAAAAATGAAACAAGAGAGTAAGCATTACAGTTGAT
37862045 TAGTAAGTTCACAAGTATTAAAACCAAATAACTTACCTCAGTTATAATTATACACTACATGTTAC
66 TAGTAAGTTCACAAGTATTAAAACCAAATAACTTACCTCAGTTATAATTATACACTACATGTTAC
37862110 TTAGCTTGATAAAGTTTGCCTATCATGGCAAATCACATATTAAAAAGGTGAGTTCAACATTTATC
131 TTAGCTTGATAAAGTTTGCCTATCATGGCAAATCACATATTAAAAAGGTGAGTTCAACATTTATC
37862175 ATACTATATATTAATTCATTCATATAACATTTCAATTCACTTAATTCAACATTTCGTTATCATTC
196 ATACTATATATTAATTCATTCATATAACATTTCAATTCACTTAATTCAACATTTCGTTATCATTC
37862240 ATAAAATAAACAATCATTTAATCATCTCACTATCTTAATCATATCATACCACCTATTTACCCTTA
261 ATAAAATAAACAATCATTTAATCATCTCACTATCTTAATCATATCATACCACCTATTTACCCTTA
37862305 ATACATCCCATTTCAAATT
326 ATACATCCCATTTCAAATT
37862324 TGACACGTTCTGCTAATTAACACTACAAGGAAAAATGAAACAAGAGAGTAAGCATTACAGTTGAT
1 TGACACGTTCTGCTAATTAACACTACAAGGAAAAATGAAACAAGAGAGTAAGCATTACAGTTGAT
37862389 TAGTAAGTTCACAAGTATTAAAACCAAATAACTTACCTCAGTTATAATTATACACTACATGTTAC
66 TAGTAAGTTCACAAGTATTAAAACCAAATAACTTACCTCAGTTATAATTATACACTACATGTTAC
37862454 TTAGCTTGATAAAGTTTGCCTATCATGGCAAATCACATATTAAAAAGGTGAGTTCAACATTTATC
131 TTAGCTTGATAAAGTTTGCCTATCATGGCAAATCACATATTAAAAAGGTGAGTTCAACATTTATC
37862519 ATACTATATATTAATTCATTCATATAACATTTCAATTCACTTAATTCAACATTTCGTTATCATTC
196 ATACTATATATTAATTCATTCATATAACATTTCAATTCACTTAATTCAACATTTCGTTATCATTC
37862584 ATAAAATAAACAATCATTTAATCATCTCACTATCTTAATCATATCATACCACCTATTTACCCTTA
261 ATAAAATAAACAATCATTTAATCATCTCACTATCTTAATCATATCATACCACCTATTTACCCTTA
37862649 ATACATCCCATTTCAAATT
326 ATACATCCCATTTCAAATT
37862668 TGACACGTTCTGCTAATTAACACTACAAGGAAAAATGAAACAAGAGAGTAAGCATTACAGTTGAT
1 TGACACGTTCTGCTAATTAACACTACAAGGAAAAATGAAACAAGAGAGTAAGCATTACAGTTGAT
37862733 TAGTAAGTTCACAAGTATTAAAACCAAATAACTTACCTCAGTTATAATTATACACTACATGTTAC
66 TAGTAAGTTCACAAGTATTAAAACCAAATAACTTACCTCAGTTATAATTATACACTACATGTTAC
37862798 TTAGCTTGATAAAGTTTGCCTATCATGGCAAATCACATATTAAAAAGGTGAGTTCAACATTTATC
131 TTAGCTTGATAAAGTTTGCCTATCATGGCAAATCACATATTAAAAAGGTGAGTTCAACATTTATC
37862863 ATACTATATATTAATTCATTCATATAACATTTCAATTCACTTAATTCAACATTTCGTTATCATTC
196 ATACTATATATTAATTCATTCATATAACATTTCAATTCACTTAATTCAACATTTCGTTATCATTC
37862928 ATAAAATAAACAATCATTTAATCATCTCACTATCTTAATCATATCATACCACCTATTTACCCTTA
261 ATAAAATAAACAATCATTTAATCATCTCACTATCTTAATCATATCATACCACCTATTTACCCTTA
37862993 ATACATCCCATTTCAAATT
326 ATACATCCCATTTCAAATT
37863012 TGACACGTTCTGCTAATTAACACTACAAGGAAAAATGAAACAAGAGAGTAAGCATTACAGTTGAT
1 TGACACGTTCTGCTAATTAACACTACAAGGAAAAATGAAACAAGAGAGTAAGCATTACAGTTGAT
37863077 TAGTAAGTTCACAAGTATTAAAACCAAATAACTTACCTCAGTTATAATTATACACTACATGTTAC
66 TAGTAAGTTCACAAGTATTAAAACCAAATAACTTACCTCAGTTATAATTATACACTACATGTTAC
37863142 TTAGCTTGATAAAGTTTGCCTATCATGGCAAATCACATATTAAAAAGGTGAGTTCAACATTTATC
131 TTAGCTTGATAAAGTTTGCCTATCATGGCAAATCACATATTAAAAAGGTGAGTTCAACATTTATC
37863207 ATACTATATATTAATTCATTCATATAACATTTCAATTCACTTAATTCAACATTTCGTTATCATTC
196 ATACTATATATTAATTCATTCATATAACATTTCAATTCACTTAATTCAACATTTCGTTATCATTC
*
37863272 ATAAAATAAACAATCATTTAATCATCTCACTATCTTAATCATATCATACCACCTATCTACCCTTA
261 ATAAAATAAACAATCATTTAATCATCTCACTATCTTAATCATATCATACCACCTATTTACCCTTA
37863337 ATACATCCCATTTCAAATT
326 ATACATCCCATTTCAAATT
37863356 ATGTCAAACA
Statistics
Matches: 1031, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
344 1031 1.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (344 bp):
TGACACGTTCTGCTAATTAACACTACAAGGAAAAATGAAACAAGAGAGTAAGCATTACAGTTGAT
TAGTAAGTTCACAAGTATTAAAACCAAATAACTTACCTCAGTTATAATTATACACTACATGTTAC
TTAGCTTGATAAAGTTTGCCTATCATGGCAAATCACATATTAAAAAGGTGAGTTCAACATTTATC
ATACTATATATTAATTCATTCATATAACATTTCAATTCACTTAATTCAACATTTCGTTATCATTC
ATAAAATAAACAATCATTTAATCATCTCACTATCTTAATCATATCATACCACCTATTTACCCTTA
ATACATCCCATTTCAAATT
Found at i:37868463 original size:14 final size:14
Alignment explanation
Indices: 37868446--37868480 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
37868436 ATTTTTGTCT
37868446 TTAAAATGATGAAA
1 TTAAAATGATGAAA
*
37868460 TTAAAATGGTGAAA
1 TTAAAATGATGAAA
37868474 TTAAAAT
1 TTAAAAT
37868481 CATCAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.31
Consensus pattern (14 bp):
TTAAAATGATGAAA
Found at i:37869114 original size:14 final size:14
Alignment explanation
Indices: 37869095--37869122 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37869085 TTCCAACAAA
37869095 TAGTATTTGATTTT
1 TAGTATTTGATTTT
37869109 TAGTATTTGATTTT
1 TAGTATTTGATTTT
37869123 CCAACAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (14 bp):
TAGTATTTGATTTT
Found at i:37869711 original size:17 final size:17
Alignment explanation
Indices: 37869689--37869721 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
37869679 TTATAAGTCT
37869689 AATAAATCTT-TTTATTA
1 AATAAAT-TTATTTATTA
37869706 AATAAATTTATTTATT
1 AATAAATTTATTTATT
37869722 GAGTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
AATAAATTTATTTATTA
Found at i:37873786 original size:12 final size:12
Alignment explanation
Indices: 37873769--37873795 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37873759 TTGAGGTATG
37873769 ATTGTTATTATT
1 ATTGTTATTATT
37873781 ATTGTTATTATT
1 ATTGTTATTATT
37873793 ATT
1 ATT
37873796 TATTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (12 bp):
ATTGTTATTATT
Found at i:37876827 original size:154 final size:154
Alignment explanation
Indices: 37876456--37876918 Score: 790
Period size: 150 Copynumber: 3.0 Consensus size: 154
37876446 GTTTAAATAA
* *
37876456 TTAATTTCAGATCATGCAATTAAGACAATTCACTTTGCTAATATTGATGAGTTTATATCTCAGTC
1 TTAATTTCAGATCATGCAACTAAGACAATTCATTTTGCTAATATTGATGAGTTTATATCTCAGTC
37876521 TTTTATTGATTGAGTTTGAAATTTTTTTGTAAAAGTTTGTTATTTATGCGCATAATAGTTTAGAG
66 TTTTATTGATTGAGTTTGAAATTTTTTTGTAAAAGTTTGTTATTTATGCGCATAATAGTTTAGAG
37876586 AAATTATTGATTGAACGCCTCT-G
131 AAATTATTGATTGAACGCCTCTGG
*
37876609 TT-A--TCAGATCATGCAACTAAGATAATTCATTTTGCTAATATTGATGAGTTTATATCTCAGTC
1 TTAATTTCAGATCATGCAACTAAGACAATTCATTTTGCTAATATTGATGAGTTTATATCTCAGTC
37876671 TTTTATTGATTGAGTTTGAAATTTTTTTGTAAAAGTTTGTTATTTATGCGCATAATAGTTTAGAG
66 TTTTATTGATTGAGTTTGAAATTTTTTTGTAAAAGTTTGTTATTTATGCGCATAATAGTTTAGAG
37876736 AAATTATTGATTGAACGCCTCTGG
131 AAATTATTGATTGAACGCCTCTGG
* * *
37876760 TTAATTTCGGATCATGCAACTAAGACAATTCATTTTTCTAATATTAATGAGTTTATATCTCAGTC
1 TTAATTTCAGATCATGCAACTAAGACAATTCATTTTGCTAATATTGATGAGTTTATATCTCAGTC
* *
37876825 TTTTATTGATTGAGTTTGAAAATTTTTTGTAAAAGTTTGCTATTTATGCGCATAATAGTTTAGAG
66 TTTTATTGATTGAGTTTGAAATTTTTTTGTAAAAGTTTGTTATTTATGCGCATAATAGTTTAGAG
* * * *
37876890 AATTTTTTGATTGAACACTTCTGG
131 AAATTATTGATTGAACGCCTCTGG
37876914 TTAAT
1 TTAAT
37876919 GTCAAAACCA
Statistics
Matches: 293, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
150 143 0.49
151 3 0.01
152 2 0.01
153 2 0.01
154 143 0.49
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (154 bp):
TTAATTTCAGATCATGCAACTAAGACAATTCATTTTGCTAATATTGATGAGTTTATATCTCAGTC
TTTTATTGATTGAGTTTGAAATTTTTTTGTAAAAGTTTGTTATTTATGCGCATAATAGTTTAGAG
AAATTATTGATTGAACGCCTCTGG
Found at i:37877930 original size:43 final size:43
Alignment explanation
Indices: 37877860--37878100 Score: 315
Period size: 43 Copynumber: 5.6 Consensus size: 43
37877850 TTATATATAA
37877860 AAACGCCGCTATAGAACATGACCTTTAGCGGCACTTTTTCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCACTTTTTCCAC
* * * *
37877903 AAATGCTGCTATAGAACATGACTTTTAGCGGCAC-TTTTCCCC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCACTTTTTCCAC
* * * *
37877945 AAGCGCCGCTATAGAATAAGACATTTAGCGGCA-TTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCACTTTTT-CCAC
* * *
37877988 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCACTTTTTCCAC
* * *
37878031 AAACACCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCACTTTTTCCAC
* *
37878074 AAACGCCGCTAAAGAAAATGACCTTTA
1 AAACGCCGCTATAGAACATGACCTTTA
37878101 AAAAAATATT
Statistics
Matches: 174, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
42 38 0.22
43 132 0.76
44 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACCTTTAGCGGCACTTTTTCCAC
Found at i:37877988 original size:85 final size:86
Alignment explanation
Indices: 37877860--37878100 Score: 333
Period size: 85 Copynumber: 2.8 Consensus size: 86
37877850 TTATATATAA
* *
37877860 AAACGCCGCTATAGAACATGACCTTTAGCGGCACTTTTT-CCACAAATGCTGCTATAGAACATGA
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCA-TTTTTCCCACAAACGCCGCTATAGAACATGA
*
37877924 CTTTTAGCGGCACTTTTCCC-C
65 CCTTTAGCGGCACTTTTCCCAC
* * * * *
37877945 AAGCGCCGCTATAGAATAAGACATTTAGCGGCATTTTTCCCACAAACGCCGCTATAGAACAAGAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCATTTTTCCCACAAACGCCGCTATAGAACATGAC
*
37878010 CTTTAGCGGCGCTTTTCCCAC
66 CTTTAGCGGCACTTTTCCCAC
* ** * *
37878031 AAACACCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAAAATGAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCATTTTTCCCACAAACGCCGCTATAGAACATGAC
37878096 CTTTA
66 CTTTA
37878101 AAAAAATATT
Statistics
Matches: 135, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 5 0.04
85 69 0.51
86 61 0.45
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (86 bp):
AAACGCCGCTATAGAACATGACCTTTAGCGGCATTTTTCCCACAAACGCCGCTATAGAACATGAC
CTTTAGCGGCACTTTTCCCAC
Found at i:37878160 original size:13 final size:13
Alignment explanation
Indices: 37878142--37878166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37878132 CTATGATAAA
37878142 TAATATTTAAATC
1 TAATATTTAAATC
37878155 TAATATTTAAAT
1 TAATATTTAAAT
37878167 ATATAAAATG
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATATTTAAATC
Found at i:37878539 original size:14 final size:14
Alignment explanation
Indices: 37878522--37878574 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
37878512 ATAGTAACTT
*
37878522 CTAAACCTTAAACC
1 CTAAACCATAAACC
*
37878536 CTAAACCATATACC
1 CTAAACCATAAACC
*
37878550 CTAAATCATAAACC
1 CTAAACCATAAACC
* *
37878564 TTAAACTATAA
1 CTAAACCATAA
37878575 TGATAATTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:37879069 original size:113 final size:113
Alignment explanation
Indices: 37878900--37879120 Score: 327
Period size: 113 Copynumber: 1.9 Consensus size: 113
37878890 TAAAGAGTCA
* * *
37878900 CTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTACTGCCATTAAAGCTCAACATAA
1 CTAAAGCTCGATCTATAGCGACGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAA
* *
37878965 AACGA-CGTTGTGCTTAAATTTTTTTGCGGCGTTTTACAAAATGCGTTG
66 AACGAGCGTTGTGCTT-AATTTTTTTGCAGCATTTTACAAAATGCGTTG
* * *
37879013 CTAATGCTCGATCTATAGTGACGTTTTTCAAAAAGCGCCGCTAATGCCACTGAAGCTCAACATAA
1 CTAAAGCTCGATCTATAGCGACGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAA
*
37879078 AACGACGGCGTTGTGCTTAATTTTTTTGCAGCATTTTTCAAAA
66 AACGA--GCGTTGTGCTTAATTTTTTTGCAGCATTTTACAAAA
37879121 AGCATCGCTA
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
113 64 0.67
115 22 0.23
116 10 0.10
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (113 bp):
CTAAAGCTCGATCTATAGCGACGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAA
AACGAGCGTTGTGCTTAATTTTTTTGCAGCATTTTACAAAATGCGTTG
Found at i:37879168 original size:115 final size:113
Alignment explanation
Indices: 37878912--37879171 Score: 317
Period size: 115 Copynumber: 2.3 Consensus size: 113
37878902 AAAGCTCGAT
* * *
37878912 CTATAGCGGCGTTTTTCAAAAAGCGCCGCTACTGCCATTAAAGCTCAACATAAAACGACGTTGTG
1 CTATAGCAGCGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAACGACGTTGTG
* * * * * * *
37878977 CTTAAATTTTTTTGCGGCGTTTTACAAAATGCGTTGCTAATGCTCGAT
66 CTTAAATTTTTTTGCAGCATTTTACAAAAAGCATCGCTAATGCTCAAC
* *
37879025 CTATAG-TGACGTTTTTCAAAAAGCGCCGCTAATGCCACTGAAGCTCAACATAAAACGACGGCGT
1 CTATAGCAG-CGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAACGA---CGT
* *
37879089 TGTGCTT-AATTTTTTTGCAGCATTTTTCAAAAAGCATCGCTAATGGTCAAC
62 TGTGCTTAAATTTTTTTGCAGCATTTTACAAAAAGCATCGCTAATGCTCAAC
* * *
37879140 CTATAGCAGCATTTTTAAAAAAGTGCCGCTAA
1 CTATAGCAGCGTTTTTCAAAAAGCGCCGCTAA
37879172 AAATACCGCT
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
112 1 0.01
113 52 0.42
115 61 0.49
116 11 0.09
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (113 bp):
CTATAGCAGCGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAACGACGTTGTG
CTTAAATTTTTTTGCAGCATTTTACAAAAAGCATCGCTAATGCTCAAC
Found at i:37880772 original size:20 final size:20
Alignment explanation
Indices: 37880724--37880777 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
37880714 AATTTAACAT
*
37880724 AATTTTTA-ATATTTTTAAG
1 AATTTTTATTTATTTTTAAG
**
37880743 AATTCATATTTATTTTTAAG
1 AATTTTTATTTATTTTTAAG
37880763 AATTTTTATTT-TTTT
1 AATTTTTATTTATTTT
37880778 AGAATTATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
AATTTTTATTTATTTTTAAG
Found at i:37903909 original size:50 final size:50
Alignment explanation
Indices: 37903809--37903995 Score: 207
Period size: 49 Copynumber: 3.6 Consensus size: 50
37903799 AAAGAGATCT
* **
37903809 CATGTAAGACCATGTCTGGGACATGGAATTGGAATCATTGAGATTATGAGAAGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGG---CACCGAG---ATGAGAAGTCC
*
37903865 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCC
* * * *
37903915 C-TCGTAAGACCATGTTTGGGACATGGCA-TGGCACCTATATGAGAACTCC
1 CAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCC
* *
37903964 CATGTAAGACCATATCTGGGATATGGCATTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGG
37903996 TAGTACAAGA
Statistics
Matches: 116, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
49 41 0.35
50 39 0.34
53 5 0.04
56 31 0.27
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCC
Found at i:37905094 original size:14 final size:14
Alignment explanation
Indices: 37905075--37905101 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37905065 TAGGGGAGAC
37905075 TTTAACTAATAAAT
1 TTTAACTAATAAAT
37905089 TTTAACTAATAAA
1 TTTAACTAATAAA
37905102 CTGTACTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAACTAATAAAT
Found at i:37908294 original size:20 final size:20
Alignment explanation
Indices: 37908267--37908312 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
37908257 AACATTAAAT
37908267 TAAATTTAATATTAAAATAA
1 TAAATTTAATATTAAAATAA
* *
37908287 TCAATTTAATATTAAATTAA
1 TAAATTTAATATTAAAATAA
37908307 TAAATT
1 TAAATT
37908313 ATTATTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATTTAATATTAAAATAA
Found at i:37908318 original size:19 final size:20
Alignment explanation
Indices: 37908272--37908320 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
37908262 TAAATTAAAT
*
37908272 TTAATATTAAAATAATCAAT
1 TTAATATTAAAATAATCAAA
*
37908292 TTAATATTAAATTAAT-AAA
1 TTAATATTAAAATAATCAAA
*
37908311 TTATTATTAA
1 TTAATATTAA
37908321 TATCAGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAATATTAAAATAATCAAA
Found at i:37920034 original size:15 final size:15
Alignment explanation
Indices: 37920014--37920045 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37920004 AAGCTTAAAG
37920014 AACATTCAACAAAAA
1 AACATTCAACAAAAA
*
37920029 AACATTCAATAAAAA
1 AACATTCAACAAAAA
37920044 AA
1 AA
37920046 TCTAAAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.16, G:0.00, T:0.16
Consensus pattern (15 bp):
AACATTCAACAAAAA
Found at i:37921017 original size:16 final size:15
Alignment explanation
Indices: 37920996--37921039 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
37920986 ATACATATAA
*
37920996 TTAGTTAAATTTAAAC
1 TTAGTT-AATTAAAAC
37921012 TTAGTTAATTAAAAC
1 TTAGTTAATTAAAAC
*
37921027 TTTAATTAATTAA
1 -TTAGTTAATTAA
37921040 CTAATTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (15 bp):
TTAGTTAATTAAAAC
Found at i:37921829 original size:9 final size:9
Alignment explanation
Indices: 37921805--37921941 Score: 61
Period size: 9 Copynumber: 14.6 Consensus size: 9
37921795 TATTTTAAAT
37921805 ATTTTAATTA
1 ATTTT-ATTA
37921815 AGTTTTATTA
1 A-TTTTATTA
37921825 ATTTTA-TA
1 ATTTTATTA
* *
37921833 TTTTTTTTA
1 ATTTTATTA
*
37921842 TAATTTATTA
1 -ATTTTATTA
*
37921852 GATTTAATTA
1 -ATTTTATTA
37921862 GATTTT-TTA
1 -ATTTTATTA
37921871 TATTTTA-TA
1 -ATTTTATTA
37921880 ATATTTA-TA
1 AT-TTTATTA
*
37921889 ACTTTTTTATA
1 A-TTTTAT-TA
*
37921900 ATTTTAATA
1 ATTTTATTA
37921909 AGTTTATATTA
1 A-TTT-TATTA
37921920 ATTTT-TATA
1 ATTTTAT-TA
*
37921929 TTTTTA-TA
1 ATTTTATTA
37921937 ATTTT
1 ATTTT
37921942 TTTATGCTTT
Statistics
Matches: 99, Mismatches: 16, Indels: 26
0.70 0.11 0.18
Matches are distributed among these distances:
8 15 0.15
9 37 0.37
10 35 0.35
11 12 0.12
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.64
Consensus pattern (9 bp):
ATTTTATTA
Found at i:37921877 original size:29 final size:27
Alignment explanation
Indices: 37921817--37921940 Score: 89
Period size: 27 Copynumber: 4.4 Consensus size: 27
37921807 TTTAATTAAG
37921817 TTTTATTAATTTTATATT--TTTTTTATA
1 TTTTATTAA-TTTA-ATTAATTTTTTATA
*
37921844 ATTTATTAGATTTAATTAGATTTTTTATA
1 TTTTATTA-ATTTAATTA-ATTTTTTATA
*
37921873 TTTTA-TAATATTTA-TAACTTTTTTATAA
1 TTTTATTAAT-TTAATTAA-TTTTTTAT-A
*
37921901 TTTTAATAAGTTTATATTAA-TTTTTATA
1 TTTTATTAA-TTTA-ATTAATTTTTTATA
37921929 TTTT-TATAATTT
1 TTTTAT-TAATTT
37921941 TTTTATGCTT
Statistics
Matches: 80, Mismatches: 5, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
26 4 0.05
27 26 0.32
28 20 0.25
29 25 0.31
30 2 0.03
31 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTATTAATTTAATTAATTTTTTATA
Found at i:37921877 original size:56 final size:56
Alignment explanation
Indices: 37921817--37921941 Score: 143
Period size: 56 Copynumber: 2.2 Consensus size: 56
37921807 TTTAATTAAG
** *
37921817 TTTTATTAATTTTATATTTTTTTTATAA-TTT-ATTAGATTTA-ATTAGATTTTTTATA
1 TTTTATTAATTTTATAACTTTTTTATAATTTTAATAAG-TTTATATTA-A-TTTTTATA
37921873 TTTTA-TAATATTTATAACTTTTTTATAATTTTAATAAGTTTATATTAATTTTTATA
1 TTTTATTAAT-TTTATAACTTTTTTATAATTTTAATAAGTTTATATTAATTTTTATA
37921929 TTTT-TATAATTTT
1 TTTTAT-TAATTTT
37921942 TTTATGCTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
55 4 0.07
56 36 0.60
57 12 0.20
58 8 0.13
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (56 bp):
TTTTATTAATTTTATAACTTTTTTATAATTTTAATAAGTTTATATTAATTTTTATA
Found at i:37921942 original size:9 final size:9
Alignment explanation
Indices: 37921865--37921942 Score: 72
Period size: 9 Copynumber: 8.6 Consensus size: 9
37921855 TTAATTAGAT
37921865 TTTTTAT-A
1 TTTTTATAA
37921873 -TTTTATAA
1 TTTTTATAA
*
37921881 TATTTATAA
1 TTTTTATAA
37921890 CTTTTTTATAA
1 --TTTTTATAA
*
37921901 TTTTAATAA
1 TTTTTATAA
*
37921910 GTTTATATTAA
1 -TTTTTA-TAA
37921921 TTTTTAT-A
1 TTTTTATAA
37921929 TTTTTATAA
1 TTTTTATAA
37921938 TTTTT
1 TTTTT
37921943 TTATGCTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
7 6 0.11
8 9 0.16
9 22 0.39
10 9 0.16
11 11 0.19
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Done.