Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 142 of 172
Found at i:46692712 original size:19 final size:19
Alignment explanation
Indices: 46692688--46692726 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
46692678 TGTGACTAAT
46692688 ACAATTAGCCGAAAAATAG
1 ACAATTAGCCGAAAAATAG
46692707 ACAATTAGCCGAAAAATAG
1 ACAATTAGCCGAAAAATAG
46692726 A
1 A
46692727 GTTTGCAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (19 bp):
ACAATTAGCCGAAAAATAG
Found at i:46694409 original size:22 final size:23
Alignment explanation
Indices: 46694355--46694415 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
46694345 TATGCAATCT
* *
46694355 AAGATATGA-TATGTAATTTTAG
1 AAGATATGATTCTGTAATCTTAG
46694377 AAGATATGATTCTGTAATCTTAG
1 AAGATATGATTCTGTAATCTTAG
* *
46694400 -AGATTTGATTTTGTAA
1 AAGATATGATTCTGTAA
46694416 ATAGCTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 23 0.68
23 11 0.32
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.43
Consensus pattern (23 bp):
AAGATATGATTCTGTAATCTTAG
Found at i:46697687 original size:14 final size:14
Alignment explanation
Indices: 46697668--46697696 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46697658 TTGTAGGAGT
46697668 AAATTAGAGAAAAA
1 AAATTAGAGAAAAA
46697682 AAATTAGAGAAAAA
1 AAATTAGAGAAAAA
46697696 A
1 A
46697697 TGAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAATTAGAGAAAAA
Found at i:46712042 original size:42 final size:42
Alignment explanation
Indices: 46711991--46712074 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
46711981 ATTATAAAAA
46711991 TAAAAATAAAAATAAATTATAATAAACAACTTTCATAAATTT
1 TAAAAATAAAAATAAATTATAATAAACAACTTTCATAAATTT
46712033 TAAAAATAAAAATAAATTATAATAAACAACTTTCATAAATTT
1 TAAAAATAAAAATAAATTATAATAAACAACTTTCATAAATTT
46712075 ATTCTTTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (42 bp):
TAAAAATAAAAATAAATTATAATAAACAACTTTCATAAATTT
Found at i:46712070 original size:23 final size:23
Alignment explanation
Indices: 46712002--46712073 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
46711992 AAAAATAAAA
46712002 ATAAATTATAATAAACAACTTTC
1 ATAAATTATAATAAACAACTTTC
* * **
46712025 ATAAATTTTAA-AAATAA---AA
1 ATAAATTATAATAAACAACTTTC
46712044 ATAAATTATAATAAACAACTTTC
1 ATAAATTATAATAAACAACTTTC
46712067 ATAAATT
1 ATAAATT
46712074 TATTCTTTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
19 10 0.27
20 5 0.14
22 5 0.14
23 17 0.46
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAAATTATAATAAACAACTTTC
Found at i:46712225 original size:13 final size:11
Alignment explanation
Indices: 46712189--46712219 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
46712179 CCGTCCGTAT
46712189 TAATTTTTATA
1 TAATTTTTATA
*
46712200 TTATTTTTATA
1 TAATTTTTATA
46712211 TAATTTTTA
1 TAATTTTTA
46712220 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:46712362 original size:30 final size:30
Alignment explanation
Indices: 46712335--46712403 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
46712325 GATATAACTT
46712335 ATCAAGCAAATGCCTCTAAAATAATAACAGA
1 ATCAA-CAAATGCCTCTAAAATAATAACAGA
* *
46712366 ATTAACAAATGCCTCTAAAATAATAACAAA
1 ATCAACAAATGCCTCTAAAATAATAACAGA
*
46712396 ATTAACAA
1 ATCAACAA
46712404 TAAAACAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 32 0.89
31 4 0.11
ACGTcount: A:0.55, C:0.17, G:0.06, T:0.22
Consensus pattern (30 bp):
ATCAACAAATGCCTCTAAAATAATAACAGA
Found at i:46714065 original size:66 final size:62
Alignment explanation
Indices: 46713957--46714080 Score: 176
Period size: 66 Copynumber: 1.9 Consensus size: 62
46713947 ATAATGTGGT
46713957 AAGCAAAAATTTTATTGTTTCATAAATGCTTTTACTATTAAATTATAAATGTTATTATGAGG
1 AAGCAAAAATTTTATTGTTTCATAAATGCTTTTACTATTAAATTATAAATGTTATTATGAGG
* * * *
46714019 AAGCGAAAATTTTGATTGTTTTATAAATGGTTTTTTTACTATTAAATTATAATTGTTATTAT
1 AAGCAAAAATTTT-ATTGTTTCATAAAT-G--CTTTTACTATTAAATTATAAATGTTATTAT
46714081 TAAAGTAAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
62 12 0.22
63 13 0.24
64 1 0.02
66 28 0.52
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (62 bp):
AAGCAAAAATTTTATTGTTTCATAAATGCTTTTACTATTAAATTATAAATGTTATTATGAGG
Found at i:46718783 original size:30 final size:31
Alignment explanation
Indices: 46718739--46718818 Score: 112
Period size: 30 Copynumber: 2.6 Consensus size: 31
46718729 CATTTACCTA
46718739 AATGTGGAAA-CCTTTGTGGCCGTTATTTGAT
1 AATGT-GAAAGCCTTTGTGGCCGTTATTTGAT
46718770 -ATGTGAAAGCCTTTGTGGCCGTTATTTGAT
1 AATGTGAAAGCCTTTGTGGCCGTTATTTGAT
* *
46718800 AAAGT-AAAGCCTTAGTGGC
1 AATGTGAAAGCCTTTGTGGC
46718819 TAATTCTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
29 4 0.09
30 38 0.84
31 3 0.07
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (31 bp):
AATGTGAAAGCCTTTGTGGCCGTTATTTGAT
Found at i:46718853 original size:29 final size:28
Alignment explanation
Indices: 46718807--46718868 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
46718797 GATAAAGTAA
* *
46718807 AGCCTTAGTGGCTAATTCTGTTGTATAAG
1 AGCCTTAGAGGCTAATTCTGTTATAT-AG
* *
46718836 AGCCTTCGAGGCTGATTCTGTTATATAG
1 AGCCTTAGAGGCTAATTCTGTTATATAG
46718864 AGCCT
1 AGCCT
46718869 CCGTGGCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (28 bp):
AGCCTTAGAGGCTAATTCTGTTATATAG
Found at i:46718876 original size:28 final size:29
Alignment explanation
Indices: 46718814--46718886 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 29
46718804 TAAAGCCTTA
* *
46718814 GTGGCTAATTCTGTTGTATAAGAGCCTTC
1 GTGGCTAATTCTGTTATATAAGAGCCTCC
* *
46718843 GAGGCTGATTCTGTTATAT-AGAGCCTCC
1 GTGGCTAATTCTGTTATATAAGAGCCTCC
* *
46718871 GTGGCTATTTCAGTTA
1 GTGGCTAATTCTGTTA
46718887 AAGGACGCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 20 0.56
29 16 0.44
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (29 bp):
GTGGCTAATTCTGTTATATAAGAGCCTCC
Found at i:46720845 original size:55 final size:56
Alignment explanation
Indices: 46720761--46720869 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 56
46720751 CTTTTGAAGC
*
46720761 ATTGCTATGAGTAGTATTGGTTGTATCATTGCGATAAAA-AAAGATAAACACAACA
1 ATTGCTATGAGCAGTATTGGTTGTATCATTGCGATAAAACAAAGATAAACACAACA
46720816 ATTGCTATGAGCAGTATTGGTTGTATCATTGCGATAAAACAAAGATAAACACAA
1 ATTGCTATGAGCAGTATTGGTTGTATCATTGCGATAAAACAAAGATAAACACAA
46720870 TAAATTATTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 38 0.73
56 14 0.27
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (56 bp):
ATTGCTATGAGCAGTATTGGTTGTATCATTGCGATAAAACAAAGATAAACACAACA
Found at i:46722673 original size:36 final size:37
Alignment explanation
Indices: 46722633--46722716 Score: 102
Period size: 36 Copynumber: 2.3 Consensus size: 37
46722623 ATACATATAA
*
46722633 ATATATATACT-TATAAAAATAA-AAATAT-GTATATGT
1 ATATATATA-TATATAAAAA-AAGAAATATAGTATACGT
*
46722669 ATATAGATATATATAAAAAAAGAAATATGAGTATACGT
1 ATATATATATATATAAAAAAAGAAATAT-AGTATACGT
46722707 ATATATATAT
1 ATATATATAT
46722717 TAAACAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 3 0.07
36 22 0.54
38 16 0.39
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (37 bp):
ATATATATATATATAAAAAAAGAAATATAGTATACGT
Found at i:46722679 original size:38 final size:37
Alignment explanation
Indices: 46722644--46722716 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
46722634 TATATATACT
*
46722644 TATAAAAATAA-AAATAT-GTATATGTATATAGATATA
1 TATAAAAA-AAGAAATATAGTATACGTATATAGATATA
*
46722680 TATAAAAAAAGAAATATGAGTATACGTATATATATAT
1 TATAAAAAAAGAAATAT-AGTATACGTATATAGATAT
46722717 TAAACAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 2 0.06
36 14 0.44
38 16 0.50
ACGTcount: A:0.55, C:0.01, G:0.10, T:0.34
Consensus pattern (37 bp):
TATAAAAAAAGAAATATAGTATACGTATATAGATATA
Found at i:46722766 original size:3 final size:3
Alignment explanation
Indices: 46722758--46722956 Score: 398
Period size: 3 Copynumber: 66.3 Consensus size: 3
46722748 ATATGTACAA
46722758 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46722806 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46722854 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46722902 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46722950 AAT AAT A
1 AAT AAT A
46722957 GCAAAAGTAC
Statistics
Matches: 196, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 196 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46723462 original size:12 final size:12
Alignment explanation
Indices: 46723445--46723472 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
46723435 AGCTTCGGTC
46723445 GCCGTCCGTCGT
1 GCCGTCCGTCGT
46723457 GCCGTCCGTCGT
1 GCCGTCCGTCGT
46723469 GCCG
1 GCCG
46723473 GCGTTGCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.36, T:0.21
Consensus pattern (12 bp):
GCCGTCCGTCGT
Found at i:46730211 original size:3 final size:3
Alignment explanation
Indices: 46730200--46730258 Score: 82
Period size: 3 Copynumber: 19.7 Consensus size: 3
46730190 CAATAATACC
* * * *
46730200 AAT ACT AAT AAT AGT AAA AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46730248 AAT AAT AAT AA
1 AAT AAT AAT AA
46730259 AACTTTTGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46736109 original size:14 final size:15
Alignment explanation
Indices: 46736078--46736116 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
46736068 CCTTAATTTT
*
46736078 AATCCTAAAACTCTA
1 AATCTTAAAACTCTA
46736093 AATCTTAAAAC-CTA
1 AATCTTAAAACTCTA
46736107 AATCCTTAAA
1 AAT-CTTAAA
46736117 TCTTATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (15 bp):
AATCTTAAAACTCTA
Found at i:46736948 original size:14 final size:15
Alignment explanation
Indices: 46736929--46736957 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46736919 GTAGGAGGGG
46736929 GATTTTTCTT-TTTT
1 GATTTTTCTTCTTTT
46736943 GATTTTTCTTCTTTT
1 GATTTTTCTTCTTTT
46736958 CTTTCGGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.76
Consensus pattern (15 bp):
GATTTTTCTTCTTTT
Found at i:46743101 original size:25 final size:25
Alignment explanation
Indices: 46743073--46743135 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
46743063 TTGAGTCAAA
* *
46743073 AAAAATGATGAAAA-AAAAGAAAATG
1 AAAAATGA-AAAAATAAAAAAAAATG
46743098 AAAAATGAAAAAATAAAAAAAAATG
1 AAAAATGAAAAAATAAAAAAAAATG
*
46743123 AAAAA-GTAAAAAT
1 AAAAATGAAAAAAT
46743136 GGAGAGGCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.32
25 23 0.68
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (25 bp):
AAAAATGAAAAAATAAAAAAAAATG
Found at i:46743108 original size:18 final size:18
Alignment explanation
Indices: 46743098--46743134 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
46743088 AAAGAAAATG
46743098 AAAAATGAAAAAATAAAA
1 AAAAATGAAAAAATAAAA
*
46743116 AAAAATGAAAAAGTAAAA
1 AAAAATGAAAAAATAAAA
46743134 A
1 A
46743135 TGGAGAGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (18 bp):
AAAAATGAAAAAATAAAA
Found at i:46744601 original size:100 final size:100
Alignment explanation
Indices: 46744448--46745812 Score: 1834
Period size: 100 Copynumber: 13.7 Consensus size: 100
46744438 GGCGATGTAC
* * * ** * *
46744448 TGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATCGCGGTTAAAAAGGTTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
** * *
46744513 CTACCGCAGCGAATCTTACTTCCCAGGCAGTGTAG
66 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
* *
46744548 TGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAGG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
* * * *
46744613 TTACAACAGTGAATCTTACTTCCCTGGCAATGTAG
66 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
* * ** *
46744648 TGGAATAGATTAAAGTCACATTAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
* *
46744713 CTACAACAGCAAATCTTACTTACCTGGCAGTGCAG
66 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
* * * *
46744748 TGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTACAGTTAAAAATATTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
** *
46744813 CTACAACAGCGAATCTTACTTCTGTGGCGGTGCAG
66 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
* * * *
46744848 TGGAACAGATTAAAGCCACATCGGTGAATCTTACTTCTCCGACTTTGCAGTTAAAAAGATTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
* * *
46744913 CTGCAACAGCAAATCTTACTTCCCTGGC-GATACAG
66 CTACAACAGCGAATCTTACTTCCCTGGCAG-TGCAG
* * * * * *
46744948 TAGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
* *
46745013 CTACAACAGCGAATCTTACTTTCCC-GGTAATGCAG
66 CTACAACAGCGAATCTTAC-TTCCCTGGCAGTGCAG
* * * * *
46745048 TGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGCAGTTAAAAAGATTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
46745113 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
66 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
* * *
46745148 TGGATCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGATATTACAGTTAAAAAGGTTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
46745213 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
66 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
* * *
46745248 TGGATCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGATATTACAGTTAAAAAGGTTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
46745313 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
66 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
* * *
46745348 TGGATCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGATATTACAGTTAAAAAGGTTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
46745413 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
66 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
* * *
46745448 TGGATCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGATATTACAGTTAAAAAGGTTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
* * *
46745513 CTACAACAGCGAATCTTACTTCCTTGGCGGTACAG
66 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
* * * * *
46745548 TGGAACAGATTAACGCCGCAACGGTGAACCTCGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
* ** * *
46745613 CTACAACAACGAATCTTACTTCCAAGGCGGTGTAG
66 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
* * *
46745648 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCCGTTAAAATGATTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
* * * * ** *
46745713 CTACAACGGCGAATCATATTTCCCGGGTGGTGCAA
66 CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
* * * * ** * * * *
46745748 TGGAACAGATCAAAGCTACAACAGCAAATCTTACTTCCTCGACATCACAGTTAAACAGATTAAAG
1 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
46745813 TTACGAGTTA
Statistics
Matches: 1132, Mismatches: 129, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
99 6 0.01
100 1121 0.99
101 5 0.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (100 bp):
TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAG
CTACAACAGCGAATCTTACTTCCCTGGCAGTGCAG
Found at i:46746631 original size:24 final size:23
Alignment explanation
Indices: 46746576--46746633 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
46746566 TCGTTCTGAT
*
46746576 TTTTTTCTTTATCGATTTATTTG
1 TTTTTTATTTATCGATTTATTTG
*
46746599 TTTATTTATTTATCTATTTACTTT-
1 TTT-TTTATTTATCGATTTA-TTTG
46746623 TATTTTTATTT
1 T-TTTTTATTT
46746634 TCTTTTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 3 0.10
24 22 0.73
25 5 0.17
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (23 bp):
TTTTTTATTTATCGATTTATTTG
Found at i:46757501 original size:12 final size:12
Alignment explanation
Indices: 46757484--46757516 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
46757474 CGGCCCGCCC
46757484 ATATTAATTTTT
1 ATATTAATTTTT
46757496 ATATT-ATTTTT
1 ATATTAATTTTT
46757507 ATA-TAATTTT
1 ATATTAATTTT
46757517 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:46759539 original size:16 final size:17
Alignment explanation
Indices: 46759512--46759555 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 17
46759502 TCATTTTATC
46759512 ATTTTATTTAATTTTTA
1 ATTTTATTTAATTTTTA
46759529 ATTTT-TTTAATTTTTAA
1 ATTTTATTTAATTTTT-A
46759546 ACTTTTATTT
1 A-TTTTATTT
46759556 TTTTATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.42
17 7 0.29
18 4 0.17
19 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTATTTAATTTTTA
Found at i:46760238 original size:17 final size:18
Alignment explanation
Indices: 46760216--46760255 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
46760206 TACAAATTAA
*
46760216 AAAAATAAAAA-TATTTT
1 AAAAATAAAAATTAATTT
46760233 AAAAATAAAAATTAATTT
1 AAAAATAAAAATTAATTT
46760251 AAAAA
1 AAAAA
46760256 AGTATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATAAAAATTAATTT
Found at i:46760331 original size:31 final size:31
Alignment explanation
Indices: 46760264--46760341 Score: 102
Period size: 32 Copynumber: 2.5 Consensus size: 31
46760254 AAAGTATATT
*
46760264 TTTTTGACAAGTTCAGATACCAACTAGGTAC
1 TTTTTGACAAGTTCAGATACCAAATAGGTAC
** *
46760295 TTTTTGAACAAGTTTTGATACTAAATAGGTAC
1 TTTTTG-ACAAGTTCAGATACCAAATAGGTAC
*
46760327 TTTTGGACAAGTTCA
1 TTTTTGACAAGTTCA
46760342 AAGGATAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 13 0.33
32 26 0.67
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (31 bp):
TTTTTGACAAGTTCAGATACCAAATAGGTAC
Found at i:46763825 original size:18 final size:18
Alignment explanation
Indices: 46763778--46763839 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
46763768 ATTGAAATTT
46763778 TTAAA-AATTATTTAATATA
1 TTAAATAATT-TTTAA-ATA
*
46763797 TTTTAAT-ATTTTTAAATA
1 -TTAAATAATTTTTAAATA
46763815 TTAAATAATTTTTAAATA
1 TTAAATAATTTTTAAATA
*
46763833 TAAAATA
1 TTAAATA
46763840 TTCACAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.14
18 20 0.54
19 5 0.14
20 7 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATAATTTTTAAATA
Found at i:46763876 original size:20 final size:20
Alignment explanation
Indices: 46763827--46763877 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
46763817 AAATAATTTT
*
46763827 TAAATATAAAATATTCACAA
1 TAAATATAAAATACTCACAA
46763847 -AATATATAAAATACTCATCAA
1 TAA-ATATAAAATACTCA-CAA
46763868 TAAAT-TAAAA
1 TAAATATAAAA
46763878 AAAAATAGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 2 0.07
20 18 0.67
21 5 0.19
22 2 0.07
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAATATAAAATACTCACAA
Found at i:46764661 original size:91 final size:93
Alignment explanation
Indices: 46764497--46764734 Score: 329
Period size: 91 Copynumber: 2.6 Consensus size: 93
46764487 AGAATGTCAC
* * * * *
46764497 ATTTGGTACATATACTTTTATAAAATGTCCAATGTGGTATTTGTACTTT-AAAAAAGTCTAATAT
1 ATTTGGTACCTATACTTTCATAAAATGTCCAATGTGGTACTTGTACTTTGAAAATAGTCCAATAT
*
46764561 GATATTTGAACTATCAAATTGTGTATT-
66 GATACTTGAACTATCAAATTGTGTATTG
* * *
46764588 ATTTGGTACCTATACTTTCATAAAATGTCTAATGTGGTACTTGTAGTTTGAAAATA-TCCAATGT
1 ATTTGGTACCTATACTTTCATAAAATGTCCAATGTGGTACTTGTACTTTGAAAATAGTCCAATAT
* *
46764652 GGTACTTGAACTATCAATTTGTGTATTG
66 GATACTTGAACTATCAAATTGTGTATTG
* * *
46764680 TTTTGGTACCTATACTTTCATAAAATGTCCAATGTGATACTTATACTTTGAAAAT
1 ATTTGGTACCTATACTTTCATAAAATGTCCAATGTGGTACTTGTACTTTGAAAAT
46764735 GTTTAATCTG
Statistics
Matches: 129, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
91 74 0.57
92 55 0.43
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (93 bp):
ATTTGGTACCTATACTTTCATAAAATGTCCAATGTGGTACTTGTACTTTGAAAATAGTCCAATAT
GATACTTGAACTATCAAATTGTGTATTG
Found at i:46768261 original size:47 final size:46
Alignment explanation
Indices: 46768183--46768275 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 46
46768173 TACTTGATGA
* *
46768183 CCTCTTAGACAAAATTTCGAGGACGACATTTTCTTAAGGGGGAAAG
1 CCTCCTAGACAAAATTTCGAGGACGAAATTTTCTTAAGGGGGAAAG
*
46768229 NCCTCCTAGACGAAATTTCGAGGACGAAATTTTCTTAAGGGGGAAAG
1 -CCTCCTAGACAAAATTTCGAGGACGAAATTTTCTTAAGGGGGAAAG
46768276 AGTTGTAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (46 bp):
CCTCCTAGACAAAATTTCGAGGACGAAATTTTCTTAAGGGGGAAAG
Found at i:46772009 original size:18 final size:18
Alignment explanation
Indices: 46771952--46772012 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
46771942 GCTCACACTC
*
46771952 GTATAGGCTCGCTTGCAT
1 GTATAGGCTCGCATGCAT
* * *
46771970 GTATATAAGCTTGTATAG-AT
1 G--TATAGGCTCGCAT-GCAT
46771990 GTATAGGCTCGCATGCAT
1 GTATAGGCTCGCATGCAT
46772008 GTATA
1 GTATA
46772013 TAGGCTCCCA
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
17 1 0.03
18 18 0.56
20 12 0.38
21 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (18 bp):
GTATAGGCTCGCATGCAT
Found at i:46772016 original size:20 final size:20
Alignment explanation
Indices: 46771953--46772019 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
46771943 CTCACACTCG
*
46771953 TATAGGCTCGCTTGCATGTA
1 TATAGGCTCGCATGCATGTA
* * *
46771973 TATAAGCTTGTATAG-ATG--
1 TATAGGCTCGCAT-GCATGTA
46771991 TATAGGCTCGCATGCATGTA
1 TATAGGCTCGCATGCATGTA
46772011 TATAGGCTC
1 TATAGGCTC
46772020 CCATACATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
17 1 0.03
18 13 0.36
20 21 0.58
21 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (20 bp):
TATAGGCTCGCATGCATGTA
Found at i:46773467 original size:21 final size:22
Alignment explanation
Indices: 46773443--46773484 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
46773433 CAGTAAAATG
46773443 GGAAAT-TTTGAGATTT-TACAA
1 GGAAATATTTGA-ATTTCTACAA
*
46773464 GGAATTATTTGAATTTCTACA
1 GGAAATATTTGAATTTCTACA
46773485 GAAAAACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (22 bp):
GGAAATATTTGAATTTCTACAA
Found at i:46773682 original size:124 final size:124
Alignment explanation
Indices: 46773515--46773756 Score: 285
Period size: 124 Copynumber: 1.9 Consensus size: 124
46773505 TATTTTTATA
* * * *
46773515 ATTTTTCTTTTTTTTAGAAATAATTTTAGTTTTTTCCATTAAAAGAGAAAA-ACCTGG-GATTTT
1 ATTTTTCTTTTTTTTAGAAATAATTTTAATTTTTTCCAGTAAAAGA-AAAAGACATGGAG-CTTT
* * *
46773578 ACAAGAAATTACCTAAGTTTT-TATAGAAAAAATTTGGGTTTTTAC-GGAAAAACTCAATTT
64 ACAAGAAATTACCTAGGTTTTATA-AGAAAAAACTTGGGTATTTACAGGAAAAACTCAATTT
* * * **
46773638 ATTTTTTTTCTTTTTTAGAATTGATTTTAATTTTTTTGAGTAAAAGAAAAAGACATGGAGCTTTA
1 ATTTTTCTT-TTTTTTAGAAATAATTTTAATTTTTTCCAGTAAAAGAAAAAGACATGGAGCTTTA
* *
46773703 CAAGGAATTACCTGGGTTTTATAAGAAAAAACTTGGGTATTTACAGGGAAAAAC
65 CAAGAAATTACCTAGGTTTTATAAGAAAAAACTTGGGTATTTACA-GGAAAAAC
46773757 ATATTATCTT
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
123 12 0.12
124 76 0.77
125 3 0.03
126 8 0.08
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.40
Consensus pattern (124 bp):
ATTTTTCTTTTTTTTAGAAATAATTTTAATTTTTTCCAGTAAAAGAAAAAGACATGGAGCTTTAC
AAGAAATTACCTAGGTTTTATAAGAAAAAACTTGGGTATTTACAGGAAAAACTCAATTT
Found at i:46788431 original size:44 final size:44
Alignment explanation
Indices: 46788342--46788432 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
46788332 AGTATTTTTT
* * * * *
46788342 ATTTATACATTCAATTAAGTTTGTGCAAAATATAATATATTTTA
1 ATTTATACATTCAATAAAATTTGTGCAAAATAAAAAATATATTA
46788386 ATTTATACATTCAATAAAATTTGTGCAAAATAAAAAACTA-ATTA
1 ATTTATACATTCAATAAAATTTGTGCAAAATAAAAAA-TATATTA
46788430 ATT
1 ATT
46788433 GAATCTTGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (44 bp):
ATTTATACATTCAATAAAATTTGTGCAAAATAAAAAATATATTA
Found at i:46792770 original size:5 final size:5
Alignment explanation
Indices: 46792760--46792788 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
46792750 TATAAAATAT
46792760 TATTA TATTA TATTA TATTA TATTA -ATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA
46792789 AATAAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:46792812 original size:13 final size:14
Alignment explanation
Indices: 46792788--46792816 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
46792778 TATATTAATT
46792788 AAATAAAGTAAATA
1 AAATAAAGTAAATA
46792802 AAATAAA-TAAATA
1 AAATAAAGTAAATA
46792815 AA
1 AA
46792817 TCAAATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAAAGTAAATA
Found at i:46793688 original size:5 final size:5
Alignment explanation
Indices: 46793682--46793720 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
46793672 TGTGGTATTG
* *
46793682 AATTG AATTG AATTC AATTC AATTC AATTC AATTC AATT
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATT
46793721 ATAAGTATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (5 bp):
AATTC
Found at i:46797777 original size:17 final size:16
Alignment explanation
Indices: 46797738--46797781 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
46797728 CATACTTGAA
*
46797738 AAAAAAATTTAAAACT
1 AAAAAAATTAAAAACT
* *
46797754 AATAAAATTAAGAAATT
1 AAAAAAATTAA-AAACT
46797771 AAAAAAATTAA
1 AAAAAAATTAA
46797782 TTAAACATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAAAAATTAAAAACT
Found at i:46798742 original size:19 final size:19
Alignment explanation
Indices: 46798718--46798758 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
46798708 TGTATACAGC
46798718 TATATATTAA-ATTAAAATT
1 TATATA-TAATATTAAAATT
*
46798737 TATATATAATTTTAAAATT
1 TATATATAATATTAAAATT
46798756 TAT
1 TAT
46798759 TCTATTAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATATAATATTAAAATT
Found at i:46799771 original size:26 final size:26
Alignment explanation
Indices: 46799742--46799794 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
46799732 AGTGATAATT
46799742 TATTCATCAC-TTAATTAAATATAAAA
1 TATTCATCACTTTAATT-AATATAAAA
* * *
46799768 TATTTATCTCTTTAATTAATTTAAAA
1 TATTCATCACTTTAATTAATATAAAA
46799794 T
1 T
46799795 TATTAGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.47
Consensus pattern (26 bp):
TATTCATCACTTTAATTAATATAAAA
Found at i:46800916 original size:78 final size:77
Alignment explanation
Indices: 46800810--46800960 Score: 171
Period size: 78 Copynumber: 1.9 Consensus size: 77
46800800 AACAAGGTGG
* * * *
46800810 AGATTAGTTTTAATTTTCAACATTAACATGGCGAGACG-GG-GATCAGTTTCAATTTTCTTTTAA
1 AGATTAGTTTCAATTTTCAACATCAACATGGCGA-A-GTGGAGATCAATTCCAATTTT-TTTTAA
46800873 CCACCAACATGGCGA
63 CCACCAACATGGCGA
*** * * *
46800888 AGATTAGTTTCAATTTTTTTCATCAACATGGTGAAGTGGAGATCAATTCCGATTTTTTTTTACCA
1 AGATTAGTTTCAATTTTCAACATCAACATGGCGAAGTGGAGATCAATTCCAATTTTTTTTAACCA
46800953 CCAACATG
66 CCAACATG
46800961 ACAAGGTGGA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
76 1 0.02
77 19 0.31
78 41 0.67
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (77 bp):
AGATTAGTTTCAATTTTCAACATCAACATGGCGAAGTGGAGATCAATTCCAATTTTTTTTAACCA
CCAACATGGCGA
Found at i:46801100 original size:41 final size:42
Alignment explanation
Indices: 46800923--46801106 Score: 136
Period size: 43 Copynumber: 4.4 Consensus size: 42
46800913 ACATGGTGAA
* * *
46800923 GTGGAGATCAATTCCGATTTTTTTTTACCACCAACATGACAAG
1 GTGGAGATCAGTTCCGA-TTTTTTTCAACACCAACATGACAAG
* * * * *
46800966 GTGGAGTTCAGTTCTGATTTTTTTCAACATCAACACGACGAG
1 GTGGAGATCAGTTCCGATTTTTTTCAACACCAACATGACAAG
** * * * ** *
46801008 GCAGAGATTAGTTCCGGGTTTTTTTCAACACTAATGTGGCAAG
1 GTGGAGATCAGTTCC-GATTTTTTTCAACACCAACATGACAAG
*** * * *
46801051 GCAAAGATCAATTCCGATTTTTTT-AACACCAATATGGCAAG
1 GTGGAGATCAGTTCCGATTTTTTTCAACACCAACATGACAAG
*
46801092 ATGGAGATCAGTTCC
1 GTGGAGATCAGTTCC
46801107 AATTCTTGCC
Statistics
Matches: 108, Mismatches: 32, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
41 25 0.23
42 38 0.35
43 45 0.42
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (42 bp):
GTGGAGATCAGTTCCGATTTTTTTCAACACCAACATGACAAG
Found at i:46803329 original size:22 final size:23
Alignment explanation
Indices: 46803274--46803329 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
46803264 AACTCGTTTG
*
46803274 AGCTTACTA-TTCAGCTCAATAG
1 AGCTTACTATTTCAGCTCAATAA
*
46803296 AGCTTACCATTTCAGCT-AATAA
1 AGCTTACTATTTCAGCTCAATAA
46803318 AGCTTACTATTT
1 AGCTTACTATTT
46803330 ATCAGCTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 23 0.77
23 7 0.23
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (23 bp):
AGCTTACTATTTCAGCTCAATAA
Found at i:46804679 original size:18 final size:19
Alignment explanation
Indices: 46804634--46804681 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
46804624 CATGATATAC
46804634 ATAACATATATATAAAAACA
1 ATAACATA-ATATAAAAACA
* *
46804654 ATAA-ATAATATGAAAATA
1 ATAACATAATATAAAAACA
46804672 A-AACATAATA
1 ATAACATAATA
46804682 AAGATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAACATAATATAAAAACA
Found at i:46804880 original size:20 final size:20
Alignment explanation
Indices: 46804844--46804881 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46804834 GGAAAATAAT
*
46804844 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
46804864 ATATATAATTAA-AAATAA
1 ATATATAA-TAAGAAATAA
46804882 TACTCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:46805945 original size:29 final size:29
Alignment explanation
Indices: 46805903--46805959 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
46805893 GGTGTAGACG
*
46805903 CGTGCACTGATCACGGCGCTGATGGAGGA
1 CGTGCACTGATCACGACGCTGATGGAGGA
46805932 CGTGCACTGATCACGACGCTGATGGAGG
1 CGTGCACTGATCACGACGCTGATGGAGG
46805960 GTTACTGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.37, T:0.18
Consensus pattern (29 bp):
CGTGCACTGATCACGACGCTGATGGAGGA
Found at i:46806468 original size:83 final size:83
Alignment explanation
Indices: 46806327--46806636 Score: 575
Period size: 83 Copynumber: 3.7 Consensus size: 83
46806317 GGTGATTACA
*
46806327 AGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTC
1 AGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTC
*
46806392 TGTTTGAGAACATTTGAG
66 TGTTTGAGAACGTTTGAG
46806410 AGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTC
1 AGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTC
46806475 TGTTTGAGAACGTTTGAG
66 TGTTTGAGAACGTTTGAG
46806493 AGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTC
1 AGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTC
*
46806558 TATTTGAGAACGTTTGAG
66 TGTTTGAGAACGTTTGAG
* *
46806576 AGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTG
1 AGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTG
46806637 GATCTGCTTC
Statistics
Matches: 222, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 222 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (83 bp):
AGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTC
TGTTTGAGAACGTTTGAG
Found at i:46817443 original size:129 final size:129
Alignment explanation
Indices: 46817213--46817470 Score: 473
Period size: 129 Copynumber: 2.0 Consensus size: 129
46817203 GTCGCCAAGC
46817213 TGTCGAAACCATTTTCAAATTCTGTTTTGGAAAATGAGAATCGATTTTAAAAAACGAAAACGGGA
1 TGTCGAAACCATTTTCAAATTCTGTTTTGGAAAATGAGAATCGATTTTAAAAAACGAAAACGGGA
**
46817278 GTCGCCACCAATCTTTTTAGGTGTGATTGGATCACCTTATAAAATGTTTTGTTTTAAAA-CATTA
66 GTCGCCACCAATCTTTTTAGGTGTGATTGGATCACCTT-TAAAACATTTTGTTTTAAAATCATTA
*
46817342 TGTCGAAACCATTTTCAAATTCTGTTTTGGAAAATGGGAATCGATTTTAAAAAACGAAAACGGGA
1 TGTCGAAACCATTTTCAAATTCTGTTTTGGAAAATGAGAATCGATTTTAAAAAACGAAAACGGGA
46817407 GTCGCCACCAATCTTTTTAGGTGTGATTGGATCACCTTTAAAACATTTTGTTTTAAAATCATTA
66 GTCGCCACCAATCTTTTTAGGTGTGATTGGATCACCTTTAAAACATTTTGTTTTAAAATCATTA
46817471 GTTTTGGTCC
Statistics
Matches: 125, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
128 18 0.14
129 107 0.86
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (129 bp):
TGTCGAAACCATTTTCAAATTCTGTTTTGGAAAATGAGAATCGATTTTAAAAAACGAAAACGGGA
GTCGCCACCAATCTTTTTAGGTGTGATTGGATCACCTTTAAAACATTTTGTTTTAAAATCATTA
Found at i:46818781 original size:8 final size:8
Alignment explanation
Indices: 46818768--46818794 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
46818758 CCACGTGCCG
46818768 GCCCACGC
1 GCCCACGC
46818776 GCCCACGC
1 GCCCACGC
46818784 GCCCACGC
1 GCCCACGC
46818792 GCC
1 GCC
46818795 GTCCTAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.63, G:0.26, T:0.00
Consensus pattern (8 bp):
GCCCACGC
Found at i:46819809 original size:40 final size:40
Alignment explanation
Indices: 46819709--46819809 Score: 134
Period size: 40 Copynumber: 2.5 Consensus size: 40
46819699 CTATGTTGAA
* *
46819709 ATGAATGAATTACTGTTGATATGGATGAATTACTGTTATT
1 ATGAATGAATTACTGTTTATATGGATGAACTACTGTTATT
*
46819749 ACTG-ATGAATTACTGGTTATATGGATGAACTACTAGTTA-T
1 A-TGAATGAATTACTGTTTATATGGATGAACTACT-GTTATT
*
46819789 ATGAATGAATTACAGTTTATA
1 ATGAATGAATTACTGTTTATA
46819810 CGAATAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
39 2 0.04
40 45 0.85
41 6 0.11
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.40
Consensus pattern (40 bp):
ATGAATGAATTACTGTTTATATGGATGAACTACTGTTATT
Found at i:46819814 original size:20 final size:19
Alignment explanation
Indices: 46819709--46819801 Score: 107
Period size: 20 Copynumber: 4.7 Consensus size: 19
46819699 CTATGTTGAA
46819709 ATGAATGAATTACTGTTGAT
1 ATGAATGAATTACTGTT-AT
*
46819729 ATGGATGAATTACTGTTATT
1 ATGAATGAATTACTGTTA-T
46819749 ACTG-ATGAATTACTGGTTAT
1 A-TGAATGAATTACT-GTTAT
* *
46819769 ATGGATGAACTACTAGTTAT
1 ATGAATGAATTACT-GTTAT
46819789 ATGAATGAATTAC
1 ATGAATGAATTAC
46819802 AGTTTATACG
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
19 3 0.05
20 55 0.86
21 6 0.09
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (19 bp):
ATGAATGAATTACTGTTAT
Found at i:46823366 original size:63 final size:63
Alignment explanation
Indices: 46823297--46823422 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
46823287 TATTTTGAGA
46823297 AGAGTTGGATGATTAAAGAAGAATGAATGAGTATGTAGACTGTATGAGTTGTTTGCATAGTTG
1 AGAGTTGGATGATTAAAGAAGAATGAATGAGTATGTAGACTGTATGAGTTGTTTGCATAGTTG
46823360 AGAGTTGGATGATTAAAGAAGAATGAATGAGTATGTAGACTGTATGAGTTGTTTGCATAGTTG
1 AGAGTTGGATGATTAAAGAAGAATGAATGAGTATGTAGACTGTATGAGTTGTTTGCATAGTTG
46823423 TTTTGTTTGC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.33
Consensus pattern (63 bp):
AGAGTTGGATGATTAAAGAAGAATGAATGAGTATGTAGACTGTATGAGTTGTTTGCATAGTTG
Found at i:46823430 original size:17 final size:17
Alignment explanation
Indices: 46823408--46823443 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
46823398 ACTGTATGAG
46823408 TTGTTTGCATAGTTGTT
1 TTGTTTGCATAGTTGTT
46823425 TTGTTTGCATAGTTGTT
1 TTGTTTGCATAGTTGTT
46823442 TT
1 TT
46823444 ATAGTGAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.06, G:0.22, T:0.61
Consensus pattern (17 bp):
TTGTTTGCATAGTTGTT
Found at i:46825171 original size:27 final size:25
Alignment explanation
Indices: 46825109--46825212 Score: 81
Period size: 27 Copynumber: 4.1 Consensus size: 25
46825099 CAGTTTTTTT
* *
46825109 TTTATTTTAAGTTTTTTTTCATATAGTA
1 TTTATTTTAA-ATTGTTTTCATAT--TA
*
46825137 TTTGTTTTAAATTGTTATATCATATTA
1 TTTATTTTAAATTGTT-T-TCATATTA
* *
46825164 TTTATTTTAATTTGTTTT-GTATTA
1 TTTATTTTAAATTGTTTTCATATTA
*
46825188 -TTATTTTAAATTATTTT-ATA-TA
1 TTTATTTTAAATTGTTTTCATATTA
46825210 TTT
1 TTT
46825213 TAAATTGCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
22 2 0.03
23 19 0.30
24 5 0.08
25 1 0.02
26 1 0.02
27 20 0.31
28 10 0.16
29 6 0.09
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (25 bp):
TTTATTTTAAATTGTTTTCATATTA
Found at i:46825224 original size:19 final size:19
Alignment explanation
Indices: 46825185--46825226 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
46825175 TTGTTTTGTA
*
46825185 TTAT-TATTTTAAATTATT
1 TTATATATTTTAAATTACT
*
46825203 TTATATATTTTAAATTGCT
1 TTATATATTTTAAATTACT
46825222 TTATA
1 TTATA
46825227 AACTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTATATATTTTAAATTACT
Found at i:46825314 original size:25 final size:26
Alignment explanation
Indices: 46825269--46825335 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
46825259 TTTAAAATTT
* *
46825269 ATATATTATTTATTCTGAACCGTTTC
1 ATATATTATTTATTTTAAACCGTTTC
* *
46825295 ATATATTA-TTATTTTAAACCTTTTT
1 ATATATTATTTATTTTAAACCGTTTC
*
46825320 ATAAATTATTTATTTT
1 ATATATTATTTATTTT
46825336 TATATTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (26 bp):
ATATATTATTTATTTTAAACCGTTTC
Found at i:46826009 original size:127 final size:127
Alignment explanation
Indices: 46825783--46826012 Score: 300
Period size: 127 Copynumber: 1.8 Consensus size: 127
46825773 TCGACTTAAA
* * * * * *
46825783 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAACGTGTTGGGTTTCG
1 TAAAACAAAAGCGATGATTGATGTTTAGAAATTCGAGGAATCGTGCACTAACGTGCTGGGTTTCA
* ** ** *
46825848 ATCTTTCGTTTATTTAAATAATCAAATTTTCCTTTAAAATCCCGTCCACGTTTTCTAAACTC
66 ATCTTTCATTTATCCAAATAATCAAACATCCCTTTAAAATCCCGTCCACGTTTTCTAAACTC
* *
46825910 TAAAACAAAAGCGATGATTGATGTTTGGAAATTCG-GGAAATCGTGCACTAATGTGCTGGGTTTC
1 TAAAACAAAAGCGATGATTGATGTTTAGAAATTCGAGG-AATCGTGCACTAACGTGCTGGGTTTC
* *
46825974 AATTTTTTATTTATCCAAATAATCAAACATCCCTTTAAA
65 AATCTTTCATTTATCCAAATAATCAAACATCCCTTTAAA
46826013 TTTCTGTCCA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
126 2 0.02
127 84 0.98
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (127 bp):
TAAAACAAAAGCGATGATTGATGTTTAGAAATTCGAGGAATCGTGCACTAACGTGCTGGGTTTCA
ATCTTTCATTTATCCAAATAATCAAACATCCCTTTAAAATCCCGTCCACGTTTTCTAAACTC
Found at i:46830990 original size:27 final size:27
Alignment explanation
Indices: 46830960--46831011 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
46830950 CCCAAAACGG
*
46830960 GTCGAGCCTGTCAAGTAGGCACGACTA
1 GTCGAGCCTGACAAGTAGGCACGACTA
* * *
46830987 GTCGTGCCTGACAGGTAGGCTCGAC
1 GTCGAGCCTGACAAGTAGGCACGAC
46831012 ACCCCCACCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (27 bp):
GTCGAGCCTGACAAGTAGGCACGACTA
Found at i:46831236 original size:19 final size:18
Alignment explanation
Indices: 46831210--46831248 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
46831200 AAAGGAGAGA
**
46831210 AAGGAGAATGAGAAGAAG
1 AAGGAGAAAAAGAAGAAG
46831228 AAGGAAGAAAAAGAAGAAG
1 AAGG-AGAAAAAGAAGAAG
46831247 AA
1 AA
46831249 AAAAAGGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (18 bp):
AAGGAGAAAAAGAAGAAG
Found at i:46831786 original size:112 final size:113
Alignment explanation
Indices: 46831452--46831891 Score: 771
Period size: 113 Copynumber: 3.9 Consensus size: 113
46831442 ATTGTTAGTA
46831452 TTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTAAAAAAAATAATTATAGCTATT
1 TTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTAAAAAAAATAATTATAGCTATT
46831517 TTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGG
66 TTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGG
46831565 TTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTAAAAAAAATAATTATAGCTATT
1 TTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTAAAAAAAATAATTATAGCTATT
46831630 TTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGG
66 TTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGG
* * **
46831678 TTTAGTGTATTAGTGTATGGTAATTTTTTTAGTAATATATTTTTTAAAAAA-AATTATAGCTATT
1 TTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTAAAAAAAATAATTATAGCTATT
*
46831742 TTATTAGTAATTTAAGTTTAGGTTATATAAATTGTTAGTGTTTAGTGG
66 TTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGG
**
46831790 TTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATA-TTTAAAAAAAGATTTTTATAGCTAT
1 TTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTAAAAAAA-ATAATTATAGCTAT
*
46831854 TTTATTAGGAATTTAAGATTAGGTTATAT--ATTGTTAGT
65 TTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGT
46831892 TAGTGTATTG
Statistics
Matches: 312, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
111 17 0.05
112 98 0.31
113 197 0.63
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (113 bp):
TTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTAAAAAAAATAATTATAGCTATT
TTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGG
Found at i:46831803 original size:225 final size:224
Alignment explanation
Indices: 46831452--46831891 Score: 767
Period size: 225 Copynumber: 2.0 Consensus size: 224
46831442 ATTGTTAGTA
* *
46831452 TTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTAAAAAAAATAATTATAGCTATT
1 TTTAGTGTATTAGTGTATGGTAATTTTTTTAGTAATATATTTTAAAAAAAATAATTATAGCTATT
46831517 TTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTA
66 TTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTA
*
46831582 TTGTGATTTTTTTAGTAATATATTTTAAAAAAA-ATAATTATAGCTATTTTATTAGTAATTTAAG
131 TTGTGATTTTTTTAGTAATATA-TTTAAAAAAAGATAATTATAGCTATTTTATTAGGAATTTAAG
46831646 ATTAGGTTATATAAATTGTTAGTGTTTAGTGG
195 ATTAGGTTATAT--ATTGTTAGTGTTTAGTGG
**
46831678 TTTAGTGTATTAGTGTATGGTAATTTTTTTAGTAATATATTTTTTAAAAAA-AATTATAGCTATT
1 TTTAGTGTATTAGTGTATGGTAATTTTTTTAGTAATATATTTTAAAAAAAATAATTATAGCTATT
*
46831742 TTATTAGTAATTTAAGTTTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTA
66 TTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTA
**
46831807 TTGTGATTTTTTTAGTAATATATTTAAAAAAAGATTTTTATAGCTATTTTATTAGGAATTTAAGA
131 TTGTGATTTTTTTAGTAATATATTTAAAAAAAGATAATTATAGCTATTTTATTAGGAATTTAAGA
46831872 TTAGGTTATATATTGTTAGT
196 TTAGGTTATATATTGTTAGT
46831892 TAGTGTATTG
Statistics
Matches: 205, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
223 9 0.04
224 10 0.05
225 139 0.68
226 47 0.23
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (224 bp):
TTTAGTGTATTAGTGTATGGTAATTTTTTTAGTAATATATTTTAAAAAAAATAATTATAGCTATT
TTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTA
TTGTGATTTTTTTAGTAATATATTTAAAAAAAGATAATTATAGCTATTTTATTAGGAATTTAAGA
TTAGGTTATATATTGTTAGTGTTTAGTGG
Found at i:46832038 original size:15 final size:16
Alignment explanation
Indices: 46832009--46832040 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
46831999 TGTGATTTTT
46832009 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
46832025 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
46832040 T
1 T
46832041 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:46834238 original size:25 final size:22
Alignment explanation
Indices: 46834189--46834247 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 22
46834179 AAATACATAC
46834189 ATAATATATA-AAATATAAAAT
1 ATAATATATATAAATATAAAAT
*
46834210 ATAATATATATATATATTAGAAAT
1 ATAATATATATAAATA-TA-AAAT
46834234 GATAATA-ATATAAA
1 -ATAATATATATAAA
46834248 AAAAACTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 10 0.31
22 4 0.12
23 2 0.06
24 10 0.31
25 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (22 bp):
ATAATATATATAAATATAAAAT
Found at i:46834321 original size:19 final size:19
Alignment explanation
Indices: 46834297--46834335 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
46834287 TATAAATAAT
*
46834297 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
46834316 AATGATATTAGAAATATAC
1 AATGATATTAGAAATATAC
46834335 A
1 A
46834336 TAAAAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:46834390 original size:22 final size:23
Alignment explanation
Indices: 46834364--46834409 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
46834354 AAGAACTAAT
46834364 AATAT-TAAAATATATACATAAC
1 AATATGTAAAATATATACATAAC
* *
46834386 AATATGTAAATTGTATACATAAC
1 AATATGTAAAATATATACATAAC
46834409 A
1 A
46834410 TAGTTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (23 bp):
AATATGTAAAATATATACATAAC
Found at i:46834456 original size:17 final size:17
Alignment explanation
Indices: 46834436--46834469 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46834426 ATATATACAC
*
46834436 GTAATATAGAATTTTAA
1 GTAATATAAAATTTTAA
46834453 GTAATATAAAATTTTAA
1 GTAATATAAAATTTTAA
46834470 AATATGCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
GTAATATAAAATTTTAA
Found at i:46834656 original size:3 final size:3
Alignment explanation
Indices: 46834536--46834644 Score: 69
Period size: 3 Copynumber: 34.7 Consensus size: 3
46834526 AAAACACTAT
* * *
46834536 TAA TAA TGA TATA TAA TATA TATA TAA GTAT TAA GTAG TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TA-A TAA -TAA TAA -TAA TAA TAA TAA
* * *
46834583 TAA TAA TAA TAA TAA TGA -AA TAC TAA TAAA TAA AAA CT-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA -TAA TAA TAA
* *
46834628 TAA TAA CAG TAA TAA TA
1 TAA TAA TAA TAA TAA TA
46834645 GTATAAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
2 2 0.02
3 63 0.77
4 17 0.21
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46836496 original size:86 final size:86
Alignment explanation
Indices: 46836294--46836610 Score: 340
Period size: 88 Copynumber: 3.6 Consensus size: 86
46836284 GGCATGTGAT
* * * * * *
46836294 CCTGA-GCTCAACTCACTTCTCGCAATATGAGTTGACTCTTTAAAACAGACATT-AAAAACA-AA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGAAATTGAAAAA-ATGA
* *
46836356 AATTGAAAATAGCTCAGCACGTGAG
65 AATTGAAAATACCTCAG--CGTG-C
* * * *
46836381 CC-AATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGAATTTGAAAAGCA-G-
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGAAATTGAAAA-AATGA
* *
46836443 ATTTCGAAAATACTTCAGCGTGC
65 AATT-GAAAATACCTCAGCGTGC
* * *
46836466 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAATTG
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TAAAAGAGAAATTGAAAAAA-TG
*
46836531 AAATTGAAAATACCTCAGCGTGT
64 AAATTGAAAATACCTCAGCGTGC
46836554 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTG
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-AAAAG-AGAAATTG
46836611 TAAATTCCCC
Statistics
Matches: 193, Mismatches: 26, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
85 2 0.01
86 42 0.22
87 61 0.32
88 78 0.40
89 10 0.05
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (86 bp):
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGAAATTGAAAAAATGAA
ATTGAAAATACCTCAGCGTGC
Found at i:46836710 original size:73 final size:73
Alignment explanation
Indices: 46836530--46836828 Score: 431
Period size: 73 Copynumber: 4.1 Consensus size: 73
46836520 TGAAAAAATT
46836530 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
46836595 TGAAAAGCA
66 TGAAAA-CA
* * * * *
46836604 GAAATTGTAAATTCCCCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
46836668 TGACAAATA
66 TGA-AAACA
* *
46836677 GAAATTGAAATTACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
46836742 TTGAAAGACA
65 TTGAAA-ACA
* * ** *
46836752 GAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
46836816 TGAAAACA
66 TGAAAACA
46836824 GAAAT
1 GAAAT
46836829 AAAAACATTA
Statistics
Matches: 200, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
72 8 0.04
73 69 0.34
74 60 0.30
75 63 0.31
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (73 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TGAAAACA
Found at i:46836827 original size:147 final size:147
Alignment explanation
Indices: 46836530--46836828 Score: 449
Period size: 147 Copynumber: 2.0 Consensus size: 147
46836520 TGAAAAAATT
46836530 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * **
46836595 TGAAAAGCAGAAATTGTAAATTCCCCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
66 TGAAAAGCAGAAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
46836660 TTGATTTTTGACAAATA
131 TTGAATTTTGACAAACA
* *
46836677 GAAATTGAAATTACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
* * * **
46836742 TTG-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTGAAAAG-CAGAAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
46836806 AGTTGAATTTTGA-AAACA
129 AGTTGAATTTTGACAAACA
46836824 GAAAT
1 GAAAT
46836829 AAAAACATTA
Statistics
Matches: 137, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
147 71 0.52
148 66 0.48
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (147 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TGAAAAGCAGAAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGAATTTTGACAAACA
Found at i:46838652 original size:71 final size:72
Alignment explanation
Indices: 46838535--46838672 Score: 251
Period size: 71 Copynumber: 1.9 Consensus size: 72
46838525 GGCCACGGAG
*
46838535 AAGTCATGACGTGAAGGGGCAAAGGGGCTACATGAATTTTATCACCATAAATTTGACATTTGTGG
1 AAGTCATGACATGAAGGGGCAAAGGGGCTACATGAATTTTATCACCATAAATTTGACATTTGTGG
46838600 CATTTGA
66 CATTTGA
*
46838607 AAGTCATGACATGAA-GGGCGAAGGGGCTACATGAATTTTATCACCATAAATTTGACATTTGTGG
1 AAGTCATGACATGAAGGGGCAAAGGGGCTACATGAATTTTATCACCATAAATTTGACATTTGTGG
46838671 CA
66 CA
46838673 CTTTCGTGCA
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 50 0.78
72 14 0.22
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (72 bp):
AAGTCATGACATGAAGGGGCAAAGGGGCTACATGAATTTTATCACCATAAATTTGACATTTGTGG
CATTTGA
Found at i:46848349 original size:52 final size:48
Alignment explanation
Indices: 46848330--46848532 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
46848320 TGACAAGTGG
* *
46848330 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
46848376 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
46848428 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
46848474 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
46848520 AAAGTGATAAGTG
1 AAAGTGATAAGTG
46848533 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:46848384 original size:98 final size:98
Alignment explanation
Indices: 46848264--46848532 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
46848254 TTTGAGTACT
*
46848264 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
46848329 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
46848362 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
46848427 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
46848460 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
46848525 GATAAGTG
65 GAAAAGTG
46848533 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:46848540 original size:37 final size:37
Alignment explanation
Indices: 46848496--46848641 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
46848486 GATAGCTTTA
*
46848496 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
46848533 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
46848570 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
46848607 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
46848642 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:46849957 original size:49 final size:49
Alignment explanation
Indices: 46849896--46850039 Score: 225
Period size: 49 Copynumber: 2.9 Consensus size: 49
46849886 ATGTGAACAT
* *
46849896 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
46849946 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
46849995 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
46850040 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 84 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.33
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:46853250 original size:52 final size:48
Alignment explanation
Indices: 46853231--46853433 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
46853221 TGACAAGTGG
* *
46853231 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
46853277 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
46853329 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
46853375 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
46853421 AAAGTGATAAGTG
1 AAAGTGATAAGTG
46853434 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:46853285 original size:98 final size:98
Alignment explanation
Indices: 46853165--46853433 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
46853155 TTTGAGTACT
*
46853165 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
46853230 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
46853263 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
46853328 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
46853361 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
46853426 GATAAGTG
65 GAAAAGTG
46853434 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:46853441 original size:37 final size:37
Alignment explanation
Indices: 46853397--46853542 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
46853387 GATAGCTTTA
*
46853397 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
46853434 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
46853471 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
46853508 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
46853543 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:46855455 original size:53 final size:53
Alignment explanation
Indices: 46855375--46855481 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
46855365 CTAACAAATT
46855375 AAGTTACCCGGTCCAACAGACCCGATTCCTTTGCAAAGTATAAATGAAAGGTA
1 AAGTTACCCGGTCCAACAGACCCGATTCCTTTGCAAAGTATAAATGAAAGGTA
**
46855428 AAGTTACCCGGTCCAATTGACCCGATTCCTTTGCAAAGTATAAATGAAAGGTA
1 AAGTTACCCGGTCCAACAGACCCGATTCCTTTGCAAAGTATAAATGAAAGGTA
46855481 A
1 A
46855482 GAGTCGTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (53 bp):
AAGTTACCCGGTCCAACAGACCCGATTCCTTTGCAAAGTATAAATGAAAGGTA
Found at i:46856973 original size:27 final size:26
Alignment explanation
Indices: 46856941--46857011 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 26
46856931 ATATATACAT
46856941 AATATATATATATAATAAATATTGAAA
1 AATATATATATATAATAAATA-TGAAA
* * * *
46856968 AATATATGTACATAACATATATGAAA
1 AATATATATATATAATAAATATGAAA
*
46856994 AATATATACATAATAATA
1 AATATATATAT-ATAATA
46857012 TTAAAATAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 13 0.37
27 22 0.63
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (26 bp):
AATATATATATATAATAAATATGAAA
Found at i:46857064 original size:19 final size:20
Alignment explanation
Indices: 46857003--46857069 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 20
46856993 AAATATATAC
46857003 ATAATAA-TATTAA-AATAAA
1 ATAATAAGTA-TAATAATAAA
*
46857022 ATAATAAGTGATAATAGTGAAA
1 ATAATAAGT-ATAATAAT-AAA
46857044 ATAATAAGTATAATAATAAA
1 ATAATAAGTATAATAATAAA
46857064 TATAAT
1 -ATAAT
46857070 GATGTATGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 7 0.17
20 7 0.17
21 15 0.37
22 12 0.29
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
ATAATAAGTATAATAATAAA
Found at i:46857835 original size:9 final size:10
Alignment explanation
Indices: 46857818--46857848 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
46857808 ACTCAAAAAA
46857818 TGTATTTTTT
1 TGTATTTTTT
*
46857828 TTTATTTTTT
1 TGTATTTTTT
46857838 TGTATTTTTT
1 TGTATTTTTT
46857848 T
1 T
46857849 ACGTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (10 bp):
TGTATTTTTT
Found at i:46859401 original size:12 final size:12
Alignment explanation
Indices: 46859384--46859414 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
46859374 GCATCATGCA
46859384 CCAGAGCAGAAG
1 CCAGAGCAGAAG
*
46859396 CCAGAGCAGGAG
1 CCAGAGCAGAAG
46859408 CCAGAGC
1 CCAGAGC
46859415 CGGAACTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.29, G:0.35, T:0.00
Consensus pattern (12 bp):
CCAGAGCAGAAG
Found at i:46859606 original size:33 final size:34
Alignment explanation
Indices: 46859569--46859681 Score: 110
Period size: 33 Copynumber: 3.4 Consensus size: 34
46859559 ATTTATCTCA
*
46859569 GTACTCTACTCCTTCCGGCCCGTATCCACCCA-T
1 GTACTCTACTCCTTCCGGCCCGTATCCACCCACC
*
46859602 GTACTCAACTCC-TCCAGAG-CCGTATCCA-CCACC
1 GTACTCTACTCCTTCC-G-GCCCGTATCCACCCACC
* * *
46859635 GTACTCTACTCCTTTCGGCCCATATCCA-CCGCC
1 GTACTCTACTCCTTCCGGCCCGTATCCACCCACC
* *
46859668 ATATTCTACTCCTT
1 GTACTCTACTCCTT
46859682 TCGGTTCATG
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
32 7 0.10
33 57 0.85
34 3 0.04
ACGTcount: A:0.19, C:0.43, G:0.11, T:0.27
Consensus pattern (34 bp):
GTACTCTACTCCTTCCGGCCCGTATCCACCCACC
Found at i:46862709 original size:23 final size:22
Alignment explanation
Indices: 46862657--46862709 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
46862647 TCCTCGTCTT
*
46862657 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
46862679 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
46862702 TTTCTTTT
1 TTTCTTTT
46862710 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:46867859 original size:27 final size:27
Alignment explanation
Indices: 46867797--46867859 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
46867787 CCTACCAAGA
* *
46867797 AGGCACAACTAGTCGCGCTTGTCAAAT
1 AGGCACAACTAGTCGAGCCTGTCAAAT
* * * *
46867824 AAGCTCAACTAGTTGAGCCTGTCAGAT
1 AGGCACAACTAGTCGAGCCTGTCAAAT
*
46867851 AGGCGCAAC
1 AGGCACAAC
46867860 ATGTATATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (27 bp):
AGGCACAACTAGTCGAGCCTGTCAAAT
Found at i:46871285 original size:31 final size:31
Alignment explanation
Indices: 46871249--46871311 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
46871239 TCAAATTAAA
46871249 AGGGTTATTTACCAATTAAGTACTTAAAATC
1 AGGGTTATTTACCAATTAAGTACTTAAAATC
46871280 AGGGTTATTTACCAATTAAGTACTTAAAATC
1 AGGGTTATTTACCAATTAAGTACTTAAAATC
46871311 A
1 A
46871312 ATCTTCACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (31 bp):
AGGGTTATTTACCAATTAAGTACTTAAAATC
Found at i:46872347 original size:18 final size:18
Alignment explanation
Indices: 46872321--46872511 Score: 158
Period size: 18 Copynumber: 10.6 Consensus size: 18
46872311 AATTGATCGG
*
46872321 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
46872339 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
* *
46872357 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAGTCAA
*
46872374 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
46872392 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
*
46872411 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
46872429 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
46872447 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
46872466 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* * *
46872483 TTATCCGGTAACAGTCAG
1 TTATTCAGTAACAGTCAA
46872501 TTATTCAGTAA
1 TTATTCAGTAA
46872512 TAATCAGCTA
Statistics
Matches: 138, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
17 19 0.14
18 104 0.75
19 15 0.11
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:46872384 original size:54 final size:54
Alignment explanation
Indices: 46872321--46872523 Score: 196
Period size: 54 Copynumber: 3.8 Consensus size: 54
46872311 AATTGATCGG
*
46872321 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGATATTCAGTAACAATTAA
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATCAGATATTCAGTAACAATCAA
* * * * **
46872374 GTTATTCAGTAGCAGTC-ATTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 -TTATCCAGTAACAGTCAATT-ATTCAGTAACAATCAGATATTCAGTAACAATCAA
* * * * * * *
46872429 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA-ATATCCAGTAACAGTCAA
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATC-AGATATTCAGTAACAATCAA
* * * *
46872483 TTATCCGGTAACAGTCAGTTATTCAGTAATAATCAGCTATT
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATCAGATATT
46872524 TTATACCTTT
Statistics
Matches: 118, Mismatches: 26, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
53 4 0.03
54 91 0.77
55 23 0.19
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (54 bp):
TTATCCAGTAACAGTCAATTATTCAGTAACAATCAGATATTCAGTAACAATCAA
Found at i:46872505 original size:72 final size:70
Alignment explanation
Indices: 46872322--46872523 Score: 215
Period size: 72 Copynumber: 2.8 Consensus size: 70
46872312 ATTGATCGGT
* * * * *
46872322 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAACAATTAAGTTATTCAGTAGC
1 TATCCAGTAACAGTCAATTATTCAGTAAAGTCAGTTATTCAGTAA-TATTCAGTTATTCAGTAAC
*
46872387 AGTCAT
65 AGTCAA
* * * * * *
46872393 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAGTCAATTATTCAGTAAAG-TCAGTTATTCAGTAATATTCAGTTATTCAGTAA
46872458 CAGTCTAA
64 CAGTC-AA
* * * *
46872466 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAGTTATTCAGTAATAATCAGCTATT
1 TATCCAGTAACAGTCAATTATTCAGTAA-AGTCAGTTATTCAGTAATATTCAGTTATT
46872524 TTATACCTTT
Statistics
Matches: 105, Mismatches: 22, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
71 1 0.01
72 88 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (70 bp):
TATCCAGTAACAGTCAATTATTCAGTAAAGTCAGTTATTCAGTAATATTCAGTTATTCAGTAACA
GTCAA
Found at i:46872705 original size:47 final size:47
Alignment explanation
Indices: 46872640--46872746 Score: 160
Period size: 47 Copynumber: 2.3 Consensus size: 47
46872630 CAGTAACAGT
* * *
46872640 AACAGTAGCAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
* * *
46872687 AACAGTAATAGTATGGTACACTGAGTACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
46872734 AACAGTAACAGTA
1 AACAGTAACAGTA
46872747 ACAATATCCG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:46872792 original size:12 final size:12
Alignment explanation
Indices: 46872775--46872799 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46872765 AGTGCCGAAT
46872775 CGGTAACAGTAA
1 CGGTAACAGTAA
46872787 CGGTAACAGTAA
1 CGGTAACAGTAA
46872799 C
1 C
46872800 AGTAGTCGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:46873393 original size:20 final size:18
Alignment explanation
Indices: 46873359--46873403 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
46873349 AAACTTTCAA
46873359 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
46873377 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
46873397 -TTTCCCT
1 TTTTCCCT
46873404 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:46878191 original size:18 final size:18
Alignment explanation
Indices: 46878139--46878416 Score: 152
Period size: 18 Copynumber: 15.1 Consensus size: 18
46878129 TCATTAACAA
* *
46878139 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* * *
46878156 TCTGTAACAGTCACTTAT
1 TCAGTAACAATCAATTAT
*
46878174 TCAGTAACAATGAATTAT
1 TCAGTAACAATCAATTAT
* * * * *
46878192 TCAATAATAACCAGTTAC
1 TCAGTAACAATCAATTAT
* *
46878210 TCAGTATCGATCAATTGATCGGTT
1 TCAGTAACAATCAATT-A-----T
46878234 ATCCAGTAACAATCAATTAT
1 -TC-AGTAACAATCAATTAT
46878254 TCAGTAA-AATCAGA-TAT
1 TCAGTAACAATCA-ATTAT
*
46878271 TCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
** *
46878290 TCAGTTGCAGTC-ATTCAT
1 TCAGTAACAATCAATT-AT
* *
46878308 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTAT
**
46878326 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
46878344 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
*
46878362 TCAGTAACAGTCTAA-TAT
1 TCAGTAACAATC-AATTAT
* *
46878380 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
* *
46878398 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
46878416 T
1 T
46878417 TTATACCTTT
Statistics
Matches: 197, Mismatches: 47, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
17 23 0.12
18 141 0.72
19 17 0.09
20 1 0.01
25 3 0.02
26 12 0.06
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:46878271 original size:17 final size:18
Alignment explanation
Indices: 46878232--46878416 Score: 153
Period size: 18 Copynumber: 10.3 Consensus size: 18
46878222 AATTGATCGG
*
46878232 TTATCCAGTAACAATCAA
1 TTATTCAGTAACAATCAA
46878250 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
*
46878268 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAATCAA
** *
46878285 GTTATTCAGTTGCAGTC-A
1 -TTATTCAGTAACAATCAA
* *
46878303 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAA
**
46878322 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
* * *
46878340 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAA
*
46878358 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATC-AA
* *
46878377 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* *
46878394 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAA
46878412 TTATT
1 TTATT
46878417 TTATACCTTT
Statistics
Matches: 134, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
17 20 0.15
18 100 0.75
19 14 0.10
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:46878360 original size:72 final size:73
Alignment explanation
Indices: 46878233--46878416 Score: 223
Period size: 72 Copynumber: 2.5 Consensus size: 73
46878223 ATTGATCGGT
*
46878233 TATCCAGTAACAATCAATTATTCAGTAA-AATCAGA-TATTCAGTAACAATTAAGTTATTCAGTT
1 TATCCAGTAACAATCAATTATTCAGTAATAATCA-ATTATTCAGTAACAATTAAGTTATTCAGTA
* *
46878296 GCAGTC-AT
65 ACAGTCTAA
* * * * * *
46878304 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAA-TATTCAGTTATTCAGTA
1 T-ATCCAGTAACAATCAATTATTCAGTAATAATCAATTATTCAGTAACAATTAAGTTATTCAGTA
46878368 ACAGTCTAA
65 ACAGTCTAA
* *
46878377 TATCCAGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAATAATCAATTATT
46878417 TTATACCTTT
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
71 1 0.01
72 77 0.82
73 16 0.17
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (73 bp):
TATCCAGTAACAATCAATTATTCAGTAATAATCAATTATTCAGTAACAATTAAGTTATTCAGTAA
CAGTCTAA
Found at i:46878680 original size:20 final size:18
Alignment explanation
Indices: 46878644--46878688 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
46878634 AAACATTCAA
46878644 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
46878662 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
46878682 -TTTCCCT
1 TTTTCCCT
46878689 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:46883149 original size:21 final size:21
Alignment explanation
Indices: 46883099--46883151 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
46883089 CGCTGTTTCT
* *
46883099 AATCTCACCGCTACAGTATCC
1 AATCTCACTGCTACAGTAACC
46883120 AATCTCACTGCTACAGTAACC
1 AATCTCACTGCTACAGTAACC
46883141 AATCTCACTGC
1 AATCTCACTGC
46883152 CACTGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:46884097 original size:20 final size:22
Alignment explanation
Indices: 46884053--46884097 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
46884043 TATCTTTATT
*
46884053 ATATTCTTTCGAATCTTTTTTTA
1 ATATTCTTTC-AATCTTTGTTTA
46884076 ATATTCTTTC-ATC-TTGTTTA
1 ATATTCTTTCAATCTTTGTTTA
46884096 AT
1 AT
46884098 TTTAGGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 3 0.14
23 10 0.48
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.60
Consensus pattern (22 bp):
ATATTCTTTCAATCTTTGTTTA
Found at i:46885078 original size:18 final size:18
Alignment explanation
Indices: 46885057--46885091 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46885047 ATTTTATATT
*
46885057 TATTAAATAATTTAATTA
1 TATTAAATAATTAAATTA
*
46885075 TATTTAATAATTAAATT
1 TATTAAATAATTAAATT
46885092 TAAGTAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTAAATAATTAAATTA
Found at i:46885078 original size:22 final size:22
Alignment explanation
Indices: 46885050--46885110 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
46885040 AATTTAAATT
46885050 TTATATTTATTAAATAATTTAA
1 TTATATTTATTAAATAATTTAA
* *
46885072 TTATATTTAATAATTAAATTTAA
1 TTATATTTATTAAAT-AATTTAA
* *
46885095 GTA-ATTTATCAAATAA
1 TTATATTTATTAAATAA
46885111 ATTTTATAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 2 0.06
22 21 0.66
23 9 0.28
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTATATTTATTAAATAATTTAA
Found at i:46890685 original size:31 final size:31
Alignment explanation
Indices: 46890644--46890708 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
46890634 AACCCTTAAC
*
46890644 AGTCAAGTGACTTGAATAAAAACTTTTGAAT
1 AGTCAAGTGACTTAAATAAAAACTTTTGAAT
* *
46890675 AGTCTAGTGACTTAAATGAAAACTTTTGAAT
1 AGTCAAGTGACTTAAATAAAAACTTTTGAAT
46890706 AGT
1 AGT
46890709 TCAATGATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (31 bp):
AGTCAAGTGACTTAAATAAAAACTTTTGAAT
Found at i:46892627 original size:15 final size:15
Alignment explanation
Indices: 46892607--46892636 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46892597 GTCACGTCCC
46892607 AAAAATTAGGTTAGT
1 AAAAATTAGGTTAGT
*
46892622 AAAAATTGGGTTAGT
1 AAAAATTAGGTTAGT
46892637 GAATCAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AAAAATTAGGTTAGT
Found at i:46893204 original size:29 final size:29
Alignment explanation
Indices: 46893155--46893212 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
46893145 TGACCTCTAA
* *
46893155 TTCTTCTGTTGTCGTCCCCTTGCTATTGT
1 TTCTTCTGTTGTCGTCACCTTGCCATTGT
* *
46893184 TTCTTTTGTTGTTGTCACCTTGCCATTGT
1 TTCTTCTGTTGTCGTCACCTTGCCATTGT
46893213 GGTGTTGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.05, C:0.24, G:0.17, T:0.53
Consensus pattern (29 bp):
TTCTTCTGTTGTCGTCACCTTGCCATTGT
Found at i:46895151 original size:26 final size:26
Alignment explanation
Indices: 46895114--46895167 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
46895104 AATAGTCAAG
46895114 TTTTCTAATTAATAAAATGAGACGGT
1 TTTTCTAATTAATAAAATGAGACGGT
* *
46895140 TTTTCTACTTAATAAAATGAGATGGT
1 TTTTCTAATTAATAAAATGAGACGGT
46895166 TT
1 TT
46895168 ATGTTTTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (26 bp):
TTTTCTAATTAATAAAATGAGACGGT
Found at i:46896218 original size:42 final size:42
Alignment explanation
Indices: 46896162--46896250 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
46896152 GTCCCCTCCC
* * * * *
46896162 AAGG-CTAGGTAGTCTTGTTGTGAGTCTTGGGCTTGGGAGGG
1 AAGGACTAAGTAGTCTTATGGTGAGTCTTGGGCATGGGAAGG
*
46896203 AAGGACTAAGTAGTCTTATGGTGAGTTTTGGGCATGGGAAGG
1 AAGGACTAAGTAGTCTTATGGTGAGTCTTGGGCATGGGAAGG
*
46896245 ATGGAC
1 AAGGAC
46896251 CAAGACTAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 4 0.10
42 36 0.90
ACGTcount: A:0.21, C:0.09, G:0.40, T:0.29
Consensus pattern (42 bp):
AAGGACTAAGTAGTCTTATGGTGAGTCTTGGGCATGGGAAGG
Found at i:46899857 original size:53 final size:53
Alignment explanation
Indices: 46899782--46899888 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 53
46899772 CATGGAAACT
* * *
46899782 TGTGATATGTGATTTCCGTATAAGACCATAGTTGGGCTATGGCATCGGTGTGA
1 TGTGATATGTGACTTCCGTATAAGACCATAGTTGGGATATGGCATCAGTGTGA
* *
46899835 TGTGATTATGTG-CTTCCGTATAAGACTATATTTGGGATATGGCATCAGTGTGA
1 TGTGA-TATGTGACTTCCGTATAAGACCATAGTTGGGATATGGCATCAGTGTGA
46899888 T
1 T
46899889 ATGTGCTTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 42 0.88
54 6 0.12
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.36
Consensus pattern (53 bp):
TGTGATATGTGACTTCCGTATAAGACCATAGTTGGGATATGGCATCAGTGTGA
Found at i:46899906 original size:47 final size:45
Alignment explanation
Indices: 46899835--46899954 Score: 152
Period size: 47 Copynumber: 2.6 Consensus size: 45
46899825 ATCGGTGTGA
* * * *
46899835 TGTGATTATGTGCTTCCGTATAAGACTATATTTGGGATATGGCATCAG
1 TGTGA-TATGTGCTTCTGTGTAAGACCATATCTGGGATA--GCATCAG
46899883 TGTGATATGTGCTTCTGTGTAAGACCATATCTGGGATAGCATCAG
1 TGTGATATGTGCTTCTGTGTAAGACCATATCTGGGATAGCATCAG
* *
46899928 TGTGGTATGTG-ATCTGTGTAAGACCAT
1 TGTGATATGTGCTTCTGTGTAAGACCAT
46899955 GGCTGGGCTA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
44 15 0.23
45 17 0.26
47 29 0.44
48 5 0.08
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (45 bp):
TGTGATATGTGCTTCTGTGTAAGACCATATCTGGGATAGCATCAG
Found at i:46902008 original size:130 final size:129
Alignment explanation
Indices: 46901828--46902199 Score: 440
Period size: 130 Copynumber: 2.9 Consensus size: 129
46901818 AAAATTCTTC
* * * *
46901828 AAAACGAAGACGAAATTTAATGTTCGGCGATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * *
46901893 TTTCGTATTTGCTCAAAATAATCGAATTTCCCTTCGAAATTTCATTCATATCTTTTAAAATCCCT
66 TTTCG-ATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * *
46901958 TAAATGAAGATGAGATTTGATGTTTGGCCATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * ** * * *
46902023 TTTCGCATTTGTTCAAAATAATCGAATATCACTTTAAAATTTTGCTCGTGTCTTTTAAAATCTCT
66 TTTCG-ATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * * * *
46902088 AAAACGAAGGCGATATGTGATATTTGGCAATTCGCGGGATCATGCCCTAACGTGTTGGGTAGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* *
46902153 TTTCCCGA-TTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTC
66 TTT--CGATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTC
46902200 GGCTCTTCTA
Statistics
Matches: 203, Mismatches: 37, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
130 200 0.99
131 1 0.00
132 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (129 bp):
AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
Found at i:46905815 original size:21 final size:21
Alignment explanation
Indices: 46905785--46905836 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
46905775 TGCATTCATG
46905785 CATT-TGCATTTGCATCATAT
1 CATTATGCATTTGCATCATAT
46905805 CATTATGCATTTGCATCATAT
1 CATTATGCATTTGCATCATAT
46905826 CATTATGCATT
1 CATTATGCATT
46905837 AAAGGCCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 27 0.87
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (21 bp):
CATTATGCATTTGCATCATAT
Found at i:46914376 original size:44 final size:44
Alignment explanation
Indices: 46913994--46914365 Score: 550
Period size: 44 Copynumber: 8.5 Consensus size: 44
46913984 GGTAAATTCT
* *
46913994 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
46914038 GCAGATTTGGTATCTCTGTATTGGCGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
46914082 GCAGATTTGGTATCTCTGTATTGGCGGAGAGCA-A-CGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
** * * *
46914124 ATAGATTTGACATCTCTGTATTGGTGGAGAACAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * * * *
46914168 GCAGATTTGACATCTCTATATTGGCGGAGAACATATCGAAAATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
46914212 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATC
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
46914256 GTAGATTTGGCATTTCTGTATTGGCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
46914300 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
46914344 GCAGATTTGGCGTCTCTGTATT
1 GCAGATTTGGCATCTCTGTATT
46914366 TACAAAGAGC
Statistics
Matches: 297, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
42 34 0.11
43 2 0.01
44 261 0.88
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
Found at i:46914376 original size:132 final size:131
Alignment explanation
Indices: 46913996--46914365 Score: 562
Period size: 130 Copynumber: 2.8 Consensus size: 131
46913986 TAAATTCTGC
* * *
46913996 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGTATCTCTGTATTG
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
* *
46914061 GCGGAGAGCAGATCAAAGATAGCAGATTTGGTATCTCTGTATTGGCGGAGAGCAA-CGAAGATAA
66 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAATCGAAGATAA
46914125 T
131 T
* * * * *
46914126 AGATTTGACATCTCTGTATTGGTGGAGAACAGATCGAAGATAGCAGATTTGACATCTCTATATTG
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
* * * *
46914191 GCGGAGAACATATCGAAAATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATC
66 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCA-ATCGAAGATA
*
46914256 GT
130 AT
* *
46914258 AGATTTGGCATTTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
*
46914323 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATT
66 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATT
46914366 TACAAAGAGC
Statistics
Matches: 212, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
130 106 0.50
131 1 0.00
132 105 0.50
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (131 bp):
AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAATCGAAGATAA
T
Found at i:46921217 original size:14 final size:14
Alignment explanation
Indices: 46921182--46921224 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
46921172 CCACATATTT
*
46921182 TTATGTTTAAAT-A
1 TTATGTTTGAATAA
46921195 TT-T-TTTGAATAA
1 TTATGTTTGAATAA
46921207 TTATGTTTGAATAA
1 TTATGTTTGAATAA
46921221 TTAT
1 TTAT
46921225 TTGGTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 6 0.23
12 4 0.15
13 3 0.12
14 13 0.50
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (14 bp):
TTATGTTTGAATAA
Found at i:46938117 original size:37 final size:37
Alignment explanation
Indices: 46938076--46938251 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
46938066 TTTGAGTACT
46938076 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
46938113 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
46938150 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
46938187 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
46938224 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
46938252 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:46938323 original size:45 final size:46
Alignment explanation
Indices: 46938214--46938337 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
46938204 GTGATAAGTG
* *
46938214 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
46938260 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
46938305 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
46938338 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:46948745 original size:23 final size:23
Alignment explanation
Indices: 46948692--46948745 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
46948682 TATGGTTATT
46948692 ATTATT-TAACTAATATTAAATA
1 ATTATTATAACTAATATTAAATA
* * *
46948714 ATTAATATAATTAATATTATATGA
1 ATTATTATAACTAATATTAAAT-A
46948738 A-TATTATA
1 ATTATTATA
46948746 TTTGAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 5 0.19
23 19 0.73
24 2 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTATTATAACTAATATTAAATA
Found at i:46948973 original size:28 final size:28
Alignment explanation
Indices: 46948920--46949003 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
46948910 CACTTTGTGC
46948920 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
* *
46948949 TATTCTGGTGCGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
46948977 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
46949004 CTAGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.19, C:0.05, G:0.31, T:0.45
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:46949320 original size:13 final size:14
Alignment explanation
Indices: 46949302--46949330 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
46949292 GATTAACTTC
46949302 ATAAATATTTT-TA
1 ATAAATATTTTCTA
46949315 ATAAATATTTTCTA
1 ATAAATATTTTCTA
46949329 AT
1 AT
46949331 CCATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Done.