Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 64 of 103
Found at i:24062927 original size:20 final size:19
Alignment explanation
Indices: 24062904--24062952 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 19
24062894 AATCCACCAT
24062904 AAAAAAAATACAAAAAAATC
1 AAAAAAAATA-AAAAAAATC
24062924 AAAAAAAATAAAAAAAATC
1 AAAAAAAATAAAAAAAATC
24062943 AAAGAAAAAT
1 AAA-AAAAAT
24062953 TCACAATGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.82, C:0.06, G:0.02, T:0.10
Consensus pattern (19 bp):
AAAAAAAATAAAAAAAATC
Found at i:24063143 original size:97 final size:95
Alignment explanation
Indices: 24062978--24063169 Score: 366
Period size: 97 Copynumber: 2.0 Consensus size: 95
24062968 GTAAGTGGCT
24062978 ATGGTTTTTGGGAAATTTTTAGTTTGTTTTTTTTTTTGGCCTGGGAAAGGGAGATCTGAGCCACC
1 ATGGTTTTTGGGAAATTTTTAGTTTGTTTTTTTTTTTGGCCTGGGAAAGGGAGATCTGAGCCACC
24063043 GGTGGTGAGGTTTTTAGAGTTTGGGTGAGC
66 GGTGGTGAGGTTTTTAGAGTTTGGGTGAGC
24063073 NATGGTTTTTGGGTAAATTTTTAGTTTGTTTTTTTTTTTGGCCTGGGAAAGGGAGATCTGAGCCA
1 -ATGGTTTTTGGG-AAATTTTTAGTTTGTTTTTTTTTTTGGCCTGGGAAAGGGAGATCTGAGCCA
24063138 CCGGTGGTGAGGTTTTTAGAGTTTGGGTGAGC
64 CCGGTGGTGAGGTTTTTAGAGTTTGGGTGAGC
24063170 TTGGGTTGCC
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 12 0.13
97 83 0.87
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.41
Consensus pattern (95 bp):
ATGGTTTTTGGGAAATTTTTAGTTTGTTTTTTTTTTTGGCCTGGGAAAGGGAGATCTGAGCCACC
GGTGGTGAGGTTTTTAGAGTTTGGGTGAGC
Found at i:24064288 original size:24 final size:23
Alignment explanation
Indices: 24064261--24064328 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 23
24064251 CTACATAAAA
24064261 AAAATAATAAAATAATAAATAG-AT
1 AAAATAA-AAAATAA-AAATAGCAT
*
24064285 AAAATGGAAAAAATAAAAACAGCAT
1 AAAAT--AAAAAATAAAAATAGCAT
24064310 AATAATAAAAAATAAAAAT
1 AA-AATAAAAAATAAAAAT
24064329 GAAATAAGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
24 22 0.58
25 11 0.29
26 5 0.13
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (23 bp):
AAAATAAAAAATAAAAATAGCAT
Found at i:24064700 original size:39 final size:36
Alignment explanation
Indices: 24064643--24064715 Score: 101
Period size: 39 Copynumber: 1.9 Consensus size: 36
24064633 CGGCAATCCT
* *
24064643 AAAAAACCCTAGCTTCTAGCAGCCGAATACCACAGC
1 AAAAAACCCTAGCTTCTAGCAGCCAAAAACCACAGC
24064679 AAAAATACCCTAAGCTTTCTAGCAGCCAAAAACCACA
1 AAAAA-ACCCT-AGC-TTCTAGCAGCCAAAAACCACA
24064716 AATCCTCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 5 0.16
37 5 0.16
38 3 0.09
39 19 0.59
ACGTcount: A:0.42, C:0.32, G:0.11, T:0.15
Consensus pattern (36 bp):
AAAAAACCCTAGCTTCTAGCAGCCAAAAACCACAGC
Found at i:24065023 original size:41 final size:41
Alignment explanation
Indices: 24064853--24065024 Score: 159
Period size: 41 Copynumber: 4.1 Consensus size: 41
24064843 TCGGTGCTGA
* * *
24064853 GAGGTTTAGGATTTGGGTCGATCGTCGGTGAGAGTAGC-AG
1 GAGGTTTAGGATTTGGGTCGACCGTCGGTGAGCGAAGCAAG
** *
24064893 G-GGAATAGGATCTTTGGTGGGTCAACCGTCGGTGAGCGAAGCAAG
1 GAGGTTTAGGA---TT--TGGGTCGACCGTCGGTGAGCGAAGCAAG
* * * *
24064938 GAGATTTAGGCTTTGGGTCGACCGCCGGTGAACGAAGCAAG
1 GAGGTTTAGGATTTGGGTCGACCGTCGGTGAGCGAAGCAAG
* ** *
24064979 GAGGTTTGGGATTTGGGTCGGGCGTCGATGAGCGAAGCAAG
1 GAGGTTTAGGATTTGGGTCGACCGTCGGTGAGCGAAGCAAG
24065020 GAGGT
1 GAGGT
24065025 ACGAGATTTG
Statistics
Matches: 104, Mismatches: 21, Indels: 13
0.75 0.15 0.09
Matches are distributed among these distances:
39 7 0.07
40 1 0.01
41 63 0.61
42 2 0.02
43 2 0.02
44 21 0.20
45 3 0.03
46 5 0.05
ACGTcount: A:0.22, C:0.14, G:0.42, T:0.22
Consensus pattern (41 bp):
GAGGTTTAGGATTTGGGTCGACCGTCGGTGAGCGAAGCAAG
Found at i:24066141 original size:18 final size:18
Alignment explanation
Indices: 24066118--24066174 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
24066108 CGAGATTTTC
24066118 ATTTTTAAATAAATAAAA
1 ATTTTTAAATAAATAAAA
* *
24066136 ATTTTT-ACTACATAAAA
1 ATTTTTAAATAAATAAAA
*
24066153 ATTAGTTAAA-AAATAATAA
1 ATT-TTTAAATAAATAA-AA
24066172 ATT
1 ATT
24066175 AAGAAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 12 0.39
18 13 0.42
19 6 0.19
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
ATTTTTAAATAAATAAAA
Found at i:24070912 original size:20 final size:20
Alignment explanation
Indices: 24070887--24070933 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
24070877 AAGCTTCAAA
*
24070887 GAATATGCTCAAAGATGGAG
1 GAATATGCTCAAAGATGAAG
24070907 GAATATGCTCAAAGATGAAG
1 GAATATGCTCAAAGATGAAG
*
24070927 AAATATG
1 GAATATG
24070934 GCTTTTCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.26, T:0.21
Consensus pattern (20 bp):
GAATATGCTCAAAGATGAAG
Found at i:24078454 original size:37 final size:37
Alignment explanation
Indices: 24078413--24078786 Score: 380
Period size: 37 Copynumber: 10.1 Consensus size: 37
24078403 TAGTTTCAAG
* * * *
24078413 ATTTTTAAAGTCTCGTTGCCTCAGTTTTGAGGAATTC
1 ATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTC
* * * * *
24078450 ATTTTAAAAGTCTCGTTGCCTCAACTTTG-GGAAGTTTT
1 ATTTTTAAAGTTTCATTGCCTCAATTTTGAGG-AG-TTC
24078488 ATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTC
1 ATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTC
** **
24078525 ATTTTTAAAGTTTCGGTGCCTCAGCTTTGAGGAGTTC
1 ATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTC
* * *
24078562 ATTTTTCAAGTTTCGTTGCCTCAATTTT---GAGTTT
1 ATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTC
* *
24078596 ATTTTTTAAATTTTCATTGCCTCAATTTTGAGGAGTTT
1 A-TTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTC
* * * * *
24078634 ACTCTTAAAGTTCCATTGCCTCAATTTAGAGGAGTAC
1 ATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTC
* * * * *
24078671 CTTTTTAAAGTTTCGTTACTTCAATTTTGAGGAGTTT
1 ATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTC
*
24078708 ATTTTTAAAGTTTCATT-CTCTCAATTTTGAGGAGTTT
1 ATTTTTAAAGTTTCATTGC-CTCAATTTTGAGGAGTTC
* * *
24078745 ATTCTTAAAGTGTCATTGCCTCAACTTTGAGGAGTCTC
1 ATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGT-TC
24078783 ATTT
1 ATTT
24078787 AAAAAAAAAC
Statistics
Matches: 280, Mismatches: 47, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
34 6 0.02
35 24 0.09
36 3 0.01
37 204 0.73
38 41 0.15
39 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (37 bp):
ATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTC
Found at i:24078680 original size:146 final size:146
Alignment explanation
Indices: 24078456--24078779 Score: 393
Period size: 146 Copynumber: 2.2 Consensus size: 146
24078446 ATTCATTTTA
* * * * * *
24078456 AAAGTCTCGTTGCCTCAACTTTG-GGAAGTTTTATTTTTAAAGTTTCATTGCCTCAATTTTGAGG
1 AAAGTGTCATTGCCTCAACTTTGAGG-AG-TTTACTCTTAAAGTTCCATTGCCTCAATTTAGAGG
* * * * *
24078520 AGTTCATTTTTAAAGTTTCGGTGCCTCAGCTTTGAGGAGTTCATTTTTCAAGTTTCGTTGC-CTC
64 AGTACATTTTTAAAGTTTCGGTACCTCAACTTTGAGGAGTTCATTTTTAAAGTTTCATT-CTCTC
*
24078584 AATTTT-GAGTTTATTTTTT
128 AATTTTGGAGTTTA-TTCTT
* * *
24078603 AAATTTTCATTGCCTCAATTTTGAGGAGTTTACTCTTAAAGTTCCATTGCCTCAATTTAGAGGAG
1 AAAGTGTCATTGCCTCAACTTTGAGGAGTTTACTCTTAAAGTTCCATTGCCTCAATTTAGAGGAG
* * * * *
24078668 TACCTTTTTAAAGTTTCGTTACTTCAATTTTGAGGAGTTTATTTTTAAAGTTTCATTCTCTCAAT
66 TACATTTTTAAAGTTTCGGTACCTCAACTTTGAGGAGTTCATTTTTAAAGTTTCATTCTCTCAAT
24078733 TTTGAGGAGTTTATTCTT
131 TTT--GGAGTTTATTCTT
24078751 AAAGTGTCATTGCCTCAACTTTGAGGAGT
1 AAAGTGTCATTGCCTCAACTTTGAGGAGT
24078780 CTCATTTAAA
Statistics
Matches: 150, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
145 1 0.01
146 89 0.59
147 21 0.14
148 32 0.21
149 7 0.05
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (146 bp):
AAAGTGTCATTGCCTCAACTTTGAGGAGTTTACTCTTAAAGTTCCATTGCCTCAATTTAGAGGAG
TACATTTTTAAAGTTTCGGTACCTCAACTTTGAGGAGTTCATTTTTAAAGTTTCATTCTCTCAAT
TTTGGAGTTTATTCTT
Found at i:24078826 original size:13 final size:13
Alignment explanation
Indices: 24078808--24078849 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
24078798 AAAAAAACAA
24078808 AAACAAACAAAAT
1 AAACAAACAAAAT
*
24078821 AAACAAACAAACAA
1 AAACAAACAAA-AT
*
24078835 AAAAAAACAAAAT
1 AAACAAACAAAAT
24078848 AA
1 AA
24078850 TAATAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.81, C:0.14, G:0.00, T:0.05
Consensus pattern (13 bp):
AAACAAACAAAAT
Found at i:24078832 original size:27 final size:28
Alignment explanation
Indices: 24078788--24078849 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
24078778 GTCTCATTTA
* *
24078788 AAAAAAAACAAAAAAAACAAAAACAAAC
1 AAAATAAACAAAAAAAACAAAAAAAAAC
*
24078816 AAAATAAAC-AAACAAACAAAAAAAAAC
1 AAAATAAACAAAAAAAACAAAAAAAAAC
24078843 AAAATAA
1 AAAATAA
24078850 TAATAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (28 bp):
AAAATAAACAAAAAAAACAAAAAAAAAC
Found at i:24078870 original size:18 final size:15
Alignment explanation
Indices: 24078787--24078884 Score: 74
Period size: 15 Copynumber: 6.3 Consensus size: 15
24078777 AGTCTCATTT
24078787 AAAAAAAAACAAAAA
1 AAAAAAAAACAAAAA
*
24078802 AAACAAAAACAAACAA
1 AAAAAAAAACAAA-AA
* *
24078818 AATAAACAAAC-AAAC
1 AA-AAAAAAACAAAAA
24078833 AAAAAAAAACAAAATA
1 AAAAAAAAACAAAA-A
24078849 ATAATAAAAAA-AAAACA
1 A-AA-AAAAAACAAAA-A
* * *
24078866 CATAAAACACAAAAA
1 AAAAAAAAACAAAAA
24078881 AAAA
1 AAAA
24078885 GAGAAGAAGA
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
14 7 0.11
15 26 0.41
16 12 0.19
17 13 0.20
18 6 0.09
ACGTcount: A:0.83, C:0.12, G:0.00, T:0.05
Consensus pattern (15 bp):
AAAAAAAAACAAAAA
Found at i:24078870 original size:21 final size:22
Alignment explanation
Indices: 24078787--24078884 Score: 80
Period size: 27 Copynumber: 4.4 Consensus size: 22
24078777 AGTCTCATTT
24078787 AAAAAAAAAC-AAA-AAAA-AC
1 AAAAAAAAACAAAATAAAACAC
*
24078806 AAAAACAAACAAAATAAACAAACAAAC
1 AAAAAAAAACAAAAT--A-AAAC--AC
*
24078833 AAAAAAAAACAAAATAATAATA-
1 AAAAAAAAACAAAATAA-AACAC
*
24078855 AAAAAAAAAC-ACATAAAACAC
1 AAAAAAAAACAAAATAAAACAC
24078876 AAAAAAAAA
1 AAAAAAAAA
24078885 GAGAAGAAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
19 9 0.14
20 6 0.09
21 14 0.22
22 10 0.16
23 2 0.03
24 4 0.06
25 3 0.05
27 16 0.25
ACGTcount: A:0.83, C:0.12, G:0.00, T:0.05
Consensus pattern (22 bp):
AAAAAAAAACAAAATAAAACAC
Found at i:24078881 original size:9 final size:9
Alignment explanation
Indices: 24078788--24078861 Score: 78
Period size: 9 Copynumber: 7.9 Consensus size: 9
24078778 GTCTCATTTA
24078788 AAAAAAAAC
1 AAAAAAAAC
24078797 AAAAAAAAC
1 AAAAAAAAC
24078806 AAAAACAAAC
1 AAAAA-AAAC
*
24078816 AAAATAAAC
1 AAAAAAAAC
*
24078825 -AAACAAAC
1 AAAAAAAAC
24078833 AAAAAAAAAC
1 -AAAAAAAAC
*
24078843 AAAATAATAAT
1 AAAA-AA-AAC
24078854 AAAAAAAA
1 AAAAAAAA
24078862 AACACATAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.12
9 24 0.43
10 19 0.34
11 6 0.11
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:24079610 original size:85 final size:85
Alignment explanation
Indices: 24079467--24079742 Score: 410
Period size: 85 Copynumber: 3.2 Consensus size: 85
24079457 CGTTGAGAGG
* * * *
24079467 TTTAGGATTTGGGTCGACCGCC-AGTGAGAGTAGCAGGGGAATAGAATCTTTGGTGGGTCGGCCG
1 TTTAGGATTTGGGTCGACCGCCGA-TGAAAGTAGTAGGGGAATAGGATCTTTGGTGGGTCGGTCG
** *
24079531 CCAATGAGCGAAGCAATGAGA
65 CCGGTGAGCGAAGCAAGGAGA
* * * *
24079552 TTTAGGATTTGGGTTGACAGCCGATGAAAGTAGTAGGGGAATAGGATCTTTGATGGGTCGATCGC
1 TTTAGGATTTGGGTCGACCGCCGATGAAAGTAGTAGGGGAATAGGATCTTTGGTGGGTCGGTCGC
24079617 CGGTGAGCGAAGCAAGGAGA
66 CGGTGAGCGAAGCAAGGAGA
*
24079637 TTTAGGATTTGGGTCGACCGCCGATGAAAGTAGTAGGGGAATAGGATCTTTGGTGGGTCGGTTGC
1 TTTAGGATTTGGGTCGACCGCCGATGAAAGTAGTAGGGGAATAGGATCTTTGGTGGGTCGGTCGC
*
24079702 CGGTGAGTGAAGCAAGGAGA
66 CGGTGAGCGAAGCAAGGAGA
*
24079722 TTTAGGATTTGGGTCAACCGC
1 TTTAGGATTTGGGTCGACCGC
24079743 TGGTGAGCGA
Statistics
Matches: 172, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
85 171 0.99
86 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.37, T:0.24
Consensus pattern (85 bp):
TTTAGGATTTGGGTCGACCGCCGATGAAAGTAGTAGGGGAATAGGATCTTTGGTGGGTCGGTCGC
CGGTGAGCGAAGCAAGGAGA
Found at i:24079650 original size:41 final size:41
Alignment explanation
Indices: 24079605--24079802 Score: 166
Period size: 41 Copynumber: 4.8 Consensus size: 41
24079595 GGATCTTTGA
*
24079605 TGGGTCGATCGCCGGTGAGCGAAGCAAGGAGATTTAGGATT
1 TGGGTCGACCGCCGGTGAGCGAAGCAAGGAGATTTAGGATT
* ** * * * *
24079646 TGGGTCGACCGCCGATGAAAGTAG-TAGGGGA-ATAGGATCTTT
1 TGGGTCGACCGCCGGTGAGCGAAGCAAGGAGATTTAGGA---TT
*** *
24079688 GGTGGGTCGGTTGCCGGTGAGTGAAGCAAGGAGATTTAGGATT
1 --TGGGTCGACCGCCGGTGAGCGAAGCAAGGAGATTTAGGATT
* * * *
24079731 TGGGTCAACCGCTGGTGAGCGAAGCAAGGAGGTTTGGGATT
1 TGGGTCGACCGCCGGTGAGCGAAGCAAGGAGATTTAGGATT
* * *
24079772 TGGGTCGACTGTCGATGAGCGAAGCAAGGAG
1 TGGGTCGACCGCCGGTGAGCGAAGCAAGGAG
24079803 GTACGAGATT
Statistics
Matches: 119, Mismatches: 31, Indels: 14
0.73 0.19 0.09
Matches are distributed among these distances:
39 5 0.04
40 5 0.04
41 78 0.66
42 2 0.02
43 2 0.02
44 17 0.14
45 5 0.04
46 5 0.04
ACGTcount: A:0.24, C:0.14, G:0.40, T:0.22
Consensus pattern (41 bp):
TGGGTCGACCGCCGGTGAGCGAAGCAAGGAGATTTAGGATT
Found at i:24080493 original size:2 final size:2
Alignment explanation
Indices: 24080486--24080513 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24080476 GAATATAGGA
24080486 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24080514 TTAAATGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24080954 original size:18 final size:17
Alignment explanation
Indices: 24080933--24080975 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
24080923 TTTTTGCTAC
24080933 ATAAAAATT-AGTTAAAAA
1 ATAAAAATTAAG--AAAAA
24080951 ATAATAAATTAAGAAAAA
1 ATAA-AAATTAAGAAAAA
24080969 ATAAAAA
1 ATAAAAA
24080976 AAATTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.13
18 13 0.57
19 5 0.22
20 2 0.09
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (17 bp):
ATAAAAATTAAGAAAAA
Found at i:24087375 original size:22 final size:24
Alignment explanation
Indices: 24087348--24087397 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 24
24087338 TTTTTATCTT
24087348 ATTTT-ATTTTTAAAATATTAATA
1 ATTTTAATTTTTAAAATATTAATA
24087371 ATTTATAATTTATTTAAAATATTAATA
1 ATTT-TAA-TT-TTTAAAATATTAATA
24087398 TTTGATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
24 1 0.04
25 1 0.04
26 2 0.09
27 15 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTTTAATTTTTAAAATATTAATA
Found at i:24087376 original size:27 final size:26
Alignment explanation
Indices: 24087356--24087419 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
24087346 TTATTTTATT
24087356 TTTAAAATATTAATAATTTATAATTTA
1 TTTAAAATATTAATAATTTAT-ATTTA
24087383 TTTAAAATATTAAT-ATTTGATA---A
1 TTTAAAATATTAATAATTT-ATATTTA
24087406 TTT-AAATATTAATA
1 TTTAAAATATTAATA
24087420 TTTTTTCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
22 10 0.29
23 4 0.11
26 5 0.14
27 16 0.46
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
TTTAAAATATTAATAATTTATATTTA
Found at i:24087702 original size:16 final size:17
Alignment explanation
Indices: 24087683--24087716 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
24087673 ATTTTTTTTA
24087683 TTAAAAATTTAA-AATT
1 TTAAAAATTTAATAATT
*
24087699 TTAATAATTTAATAATT
1 TTAAAAATTTAATAATT
24087716 T
1 T
24087717 GTTATTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTAATAATT
Found at i:24087817 original size:14 final size:16
Alignment explanation
Indices: 24087792--24087831 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
24087782 ATATATTCAC
24087792 TTAATAATTTT-AAA-A
1 TTAAT-ATTTTAAAATA
24087807 TTAATATTTTAAAATA
1 TTAATATTTTAAAATA
24087823 TTAATATTT
1 TTAATATTT
24087832 ATTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.22
15 8 0.35
16 10 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATATTTTAAAATA
Found at i:24087868 original size:41 final size:42
Alignment explanation
Indices: 24087772--24087868 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 42
24087762 TATTTTTTAT
*
24087772 TTTTTAATTTAT-ATATTCACTTAATAATTTTAAAATTAATA
1 TTTTTAATTTTTAATATTCACTTAATAATTTTAAAATTAATA
* * * * *
24087813 TTTTAAAATATTAATATTTA-TTTATAA-TTTAAATATTAATA
1 TTTTTAATTTTTAATATTCACTTAATAATTTTAAA-ATTAATA
24087854 TTTTTAATTTTTAAT
1 TTTTTAATTTTTAAT
24087869 TTAAAACATT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
40 6 0.13
41 33 0.73
42 6 0.13
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (42 bp):
TTTTTAATTTTTAATATTCACTTAATAATTTTAAAATTAATA
Found at i:24087872 original size:21 final size:21
Alignment explanation
Indices: 24087795--24087863 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
24087785 TATTCACTTA
24087795 ATAATTTTAAA-ATTAATATTTT
1 ATAA-TTTAAATATTAATA-TTT
*
24087817 AAAATATT-AATATT--TATTT
1 ATAAT-TTAAATATTAATATTT
24087836 ATAATTTAAATATTAATATTT
1 ATAATTTAAATATTAATATTT
*
24087857 TTAATTT
1 ATAATTT
24087864 TTAATTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
18 2 0.05
19 13 0.33
20 2 0.05
21 14 0.36
22 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATAATTTAAATATTAATATTT
Found at i:24088166 original size:2 final size:2
Alignment explanation
Indices: 24088161--24088186 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24088151 GTGTGTGTAC
24088161 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
24088187 TAGAGTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24088539 original size:17 final size:16
Alignment explanation
Indices: 24088517--24088558 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
24088507 AATTTGAGAA
*
24088517 ATTTTTTTTATTTGTAT
1 ATTTTTTTTATGT-TAT
24088534 ATTTTTATTTATGTTAT
1 ATTTTT-TTTATGTTAT
24088551 ATTTTTTT
1 ATTTTTTT
24088559 AGAAATCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 15 0.65
18 6 0.26
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (16 bp):
ATTTTTTTTATGTTAT
Found at i:24088559 original size:19 final size:18
Alignment explanation
Indices: 24088517--24088559 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
24088507 AATTTGAGAA
*
24088517 ATTTTT-TTTATTTGTAT
1 ATTTTTATTTATTTATAT
24088534 ATTTTTATTTATGTTATAT
1 ATTTTTATTTAT-TTATAT
*
24088553 TTTTTTA
1 ATTTTTA
24088560 GAAATCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 11 0.50
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (18 bp):
ATTTTTATTTATTTATAT
Found at i:24091186 original size:20 final size:21
Alignment explanation
Indices: 24091158--24091199 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24091148 TCTTTTGTGA
24091158 TTTGCTTT-ATTTTTTAATTG
1 TTTGCTTTAATTTTTTAATTG
* *
24091178 TTTGGTTTAATTTTTTTATTG
1 TTTGCTTTAATTTTTTAATTG
24091199 T
1 T
24091200 AATTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.71
Consensus pattern (21 bp):
TTTGCTTTAATTTTTTAATTG
Found at i:24101999 original size:20 final size:18
Alignment explanation
Indices: 24101962--24102000 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
24101952 CCTACATAAA
*
24101962 AAAAGAAGTCATGGTCCC
1 AAAAGAAGTCATGATCCC
24101980 AAAAGAGAGTCATGAATCCC
1 AAAAGA-AGTCATG-ATCCC
24102000 A
1 A
24102001 TATCAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.15
Consensus pattern (18 bp):
AAAAGAAGTCATGATCCC
Found at i:24103185 original size:13 final size:13
Alignment explanation
Indices: 24103148--24103211 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
24103138 TTAATTATTT
* *
24103148 TAAAATATATAAT
1 TAAAATATTTAAA
24103161 TAAAATAAATTTAAA
1 TAAAAT--ATTTAAA
24103176 TAAAATATTTAAAA
1 TAAAATATTT-AAA
*
24103190 TATAAT-TTTAACA
1 TAAAATATTTAA-A
24103203 -AAAATATTT
1 TAAAATATTT
24103212 TTAAAAGTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 6 0.14
13 17 0.40
14 8 0.19
15 11 0.26
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAAATATTTAAA
Found at i:24103205 original size:25 final size:25
Alignment explanation
Indices: 24103160--24103211 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
24103150 AAATATATAA
*
24103160 TTAAAATAAATTTAAA-TAAAATAT
1 TTAAAATAAATTTAAACAAAAATAT
*
24103184 TTAAAATATAATTTTAACAAAAATAT
1 TTAAAATA-AATTTAAACAAAAATAT
24103210 TT
1 TT
24103212 TTAAAAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 8 0.33
25 7 0.29
26 9 0.38
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
TTAAAATAAATTTAAACAAAAATAT
Found at i:24107557 original size:2 final size:2
Alignment explanation
Indices: 24107550--24107574 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24107540 ACAATATTAC
24107550 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
24107575 AATGAATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24117923 original size:19 final size:19
Alignment explanation
Indices: 24117899--24117936 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24117889 ACTTCTCAAC
24117899 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
24117918 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
24117937 TGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:24119827 original size:2 final size:2
Alignment explanation
Indices: 24119820--24119880 Score: 94
Period size: 2 Copynumber: 32.5 Consensus size: 2
24119810 ACTGATGGTG
24119820 AT AT AT AT AT AT A- AT A- AT AT AT AT AT AT A- AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24119858 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
24119881 NNNNNNNNNN
Statistics
Matches: 55, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
1 4 0.07
2 51 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24120406 original size:2 final size:2
Alignment explanation
Indices: 24120394--24120435 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
24120384 NNNNNNTTAA
*
24120394 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24120436 GTTGCACAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24122419 original size:28 final size:29
Alignment explanation
Indices: 24122373--24122436 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
24122363 GTCTATGGGC
**
24122373 AATTTTTCAATTT-TTGGGGCAAAAATGT
1 AATTTTTCAATTTACGGGGGCAAAAATGT
* *
24122401 AATTTTTCACTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTACGGGGGCAAAAATGT
24122430 AATTTTT
1 AATTTTT
24122437 AAAAATTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (29 bp):
AATTTTTCAATTTACGGGGGCAAAAATGT
Found at i:24123603 original size:13 final size:13
Alignment explanation
Indices: 24123585--24123609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24123575 GGAAAATGGG
24123585 ATTTTATAAAATA
1 ATTTTATAAAATA
24123598 ATTTTATAAAAT
1 ATTTTATAAAAT
24123610 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:24125965 original size:27 final size:27
Alignment explanation
Indices: 24125930--24125983 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
24125920 TAATTAAAGA
**
24125930 TAATATAAA-TACCATTTATAATAATTT
1 TAATATAAATTAAAATTTAT-ATAATTT
*
24125957 TAATCTAAATTAAAATTTATATAATTT
1 TAATATAAATTAAAATTTATATAATTT
24125984 ATTTTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (27 bp):
TAATATAAATTAAAATTTATATAATTT
Found at i:24131225 original size:15 final size:16
Alignment explanation
Indices: 24131205--24131239 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
24131195 CATTCAAATA
*
24131205 TTTGTTTGTTG-AATT
1 TTTGTTGGTTGTAATT
24131220 TTTGTTGGTTGTAATT
1 TTTGTTGGTTGTAATT
24131236 TTTG
1 TTTG
24131240 AAGAGTGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.11, C:0.00, G:0.23, T:0.66
Consensus pattern (16 bp):
TTTGTTGGTTGTAATT
Found at i:24132930 original size:17 final size:17
Alignment explanation
Indices: 24132898--24132931 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24132888 TTTTTTTCAT
* *
24132898 TTAAAAAATTTGAAATA
1 TTAAAAAAATTCAAATA
24132915 TTAAAAAAATTCAAATA
1 TTAAAAAAATTCAAATA
24132932 AATATTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
TTAAAAAAATTCAAATA
Found at i:24134899 original size:93 final size:93
Alignment explanation
Indices: 24134740--24135018 Score: 504
Period size: 93 Copynumber: 3.0 Consensus size: 93
24134730 GAAGACCAGC
24134740 ATAGTTAACTTTCTTCACTAGTGGATGGGAAGAAAGGAACTCAGCAATCTTTTGTGCATTTTCCT
1 ATAGTTAACTTTCTTCACTAGTGGATGGGAAGAAAGGAACTCAGCAATCTTTTGTGCATTTTCCT
24134805 GTTAGAGGTTCAGAAATGTTAGTTTCAA
66 GTTAGAGGTTCAGAAATGTTAGTTTCAA
24134833 ATAGTTAACTTTCTTCACTAGTGGATGGGAAGAAAGGAACTCAGCAATCTTTTGTGCATTTTCCT
1 ATAGTTAACTTTCTTCACTAGTGGATGGGAAGAAAGGAACTCAGCAATCTTTTGTGCATTTTCCT
*
24134898 GTTAGAGGTTCAGAAATGTTAGTTTCAC
66 GTTAGAGGTTCAGAAATGTTAGTTTCAA
* *
24134926 ATGGTTAACTTTCTTCACTAGTGAATGGGAAGAAAGGAACTCAGCAATCTTTTGTGCATTTTCCT
1 ATAGTTAACTTTCTTCACTAGTGGATGGGAAGAAAGGAACTCAGCAATCTTTTGTGCATTTTCCT
* * *
24134991 GTTAGAGATTCAGAAACGTTAGTCTCAA
66 GTTAGAGGTTCAGAAATGTTAGTTTCAA
24135019 GTTTGAACTT
Statistics
Matches: 179, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 179 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (93 bp):
ATAGTTAACTTTCTTCACTAGTGGATGGGAAGAAAGGAACTCAGCAATCTTTTGTGCATTTTCCT
GTTAGAGGTTCAGAAATGTTAGTTTCAA
Found at i:24139508 original size:2 final size:2
Alignment explanation
Indices: 24139503--24139543 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
24139493 TGTGCAAACA
24139503 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
24139544 CGTAGGGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24153743 original size:26 final size:26
Alignment explanation
Indices: 24153709--24153760 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
24153699 AGCAAGCACG
24153709 TTTTCATTGCTTGAAATATTTGCATT
1 TTTTCATTGCTTGAAATATTTGCATT
*
24153735 TTTTCATTGCTTGCAATATTTGCATT
1 TTTTCATTGCTTGAAATATTTGCATT
24153761 ACTTAATGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.13, G:0.12, T:0.54
Consensus pattern (26 bp):
TTTTCATTGCTTGAAATATTTGCATT
Found at i:24157409 original size:2 final size:2
Alignment explanation
Indices: 24157402--24157501 Score: 143
Period size: 2 Copynumber: 51.5 Consensus size: 2
24157392 AGAATTTATG
24157402 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
24157442 TA TA TA TA TA TA TA TA TA TA T- TA CA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
24157483 TA TA GA TA TC TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA T
24157502 TTTCAAACAT
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
1 3 0.03
2 84 0.97
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:24157628 original size:36 final size:36
Alignment explanation
Indices: 24157588--24157694 Score: 160
Period size: 36 Copynumber: 3.0 Consensus size: 36
24157578 TCAACTCAGT
* *
24157588 TCATGTGCACTCCCACACCGCACATAGCTATTATTG
1 TCATGTGCACTCCCACACCGCACATAGTTATTATCG
* * *
24157624 TCATGTGCACTCCCACTCTGCACATAGTTATCATCG
1 TCATGTGCACTCCCACACCGCACATAGTTATTATCG
*
24157660 TCATGTGCACTCCCACACCGTACATAGTTATTATC
1 TCATGTGCACTCCCACACCGCACATAGTTATTATC
24157695 ACCATGAGCT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 62 1.00
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACATAGTTATTATCG
Found at i:24160509 original size:3 final size:3
Alignment explanation
Indices: 24160501--24160547 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
24160491 ATTTATACAT
*
24160501 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24160548 GTGCATTACG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24167431 original size:39 final size:39
Alignment explanation
Indices: 24167344--24167436 Score: 91
Period size: 38 Copynumber: 2.4 Consensus size: 39
24167334 ATATTATTTG
* * * * **
24167344 CAATGCTTCTTCTTC-TAGGGGTGTTCAAATTCTACTTG
1 CAATACTTTTTCTTCTTGGGGGTGTTCAAATTCCACTCA
24167382 CAATACTTTTT-TTCTTGGGGGTGTTCTAAATTCCACTCA
1 CAATACTTTTTCTTCTTGGGGGTGTTC-AAATTCCACTCA
**
24167421 CAATTTTTTTTCTTCT
1 CAATACTTTTTCTTCT
24167437 ACTGGAGTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
37 3 0.07
38 19 0.43
39 18 0.41
40 4 0.09
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.47
Consensus pattern (39 bp):
CAATACTTTTTCTTCTTGGGGGTGTTCAAATTCCACTCA
Found at i:24172031 original size:36 final size:36
Alignment explanation
Indices: 24171981--24172074 Score: 161
Period size: 36 Copynumber: 2.6 Consensus size: 36
24171971 ATTACCGTGC
* *
24171981 GTGTGCGGTATGAGAGTGCACATGACGGTGATGGTG
1 GTGTGCGATGTGAGAGTGCACATGACGGTGATGGTG
24172017 GTGTGCGATGTGAGAGTGCACATGACGGTGATGGTG
1 GTGTGCGATGTGAGAGTGCACATGACGGTGATGGTG
*
24172053 GCGTGCGATGTGAGAGTGCACA
1 GTGTGCGATGTGAGAGTGCACA
24172075 CACTGATTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.20, C:0.13, G:0.44, T:0.23
Consensus pattern (36 bp):
GTGTGCGATGTGAGAGTGCACATGACGGTGATGGTG
Found at i:24172125 original size:33 final size:36
Alignment explanation
Indices: 24172055--24172149 Score: 124
Period size: 33 Copynumber: 2.6 Consensus size: 36
24172045 TGATGGTGGC
24172055 GTGCGATGTGAGAGTGCACACACTGATTATATATGCCAT
1 GTGCGATGTGAGAGTG--CACA-TGATTATATATGCCAT
24172094 GTGCGATGTGAGAGTGCACATGA-TAT-T-TGCCAT
1 GTGCGATGTGAGAGTGCACATGATTATATATGCCAT
* *
24172127 GTGCGGTGTGGGAGTGCACATGA
1 GTGCGATGTGAGAGTGCACATGA
24172150 GGATATTAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
33 27 0.50
34 1 0.02
35 3 0.06
36 3 0.06
37 4 0.07
39 16 0.30
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (36 bp):
GTGCGATGTGAGAGTGCACATGATTATATATGCCAT
Found at i:24172165 original size:36 final size:36
Alignment explanation
Indices: 24172089--24172186 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 36
24172079 GATTATATAT
* * *
24172089 GCCATGTGCGATGTGAGAGTGCACAT---GATATTT
1 GCCATGTGCGGTGTGGGAGTGCACATGAGGATATTA
24172122 GCCATGTGCGGTGTGGGAGTGCACATGAGGATATTA
1 GCCATGTGCGGTGTGGGAGTGCACATGAGGATATTA
* * * * *
24172158 GCTATGTGCAGTGTAGAAGTGCATATGAG
1 GCCATGTGCGGTGTGGGAGTGCACATGAG
24172187 CTGAGTTGAG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 24 0.44
36 30 0.56
ACGTcount: A:0.24, C:0.13, G:0.35, T:0.28
Consensus pattern (36 bp):
GCCATGTGCGGTGTGGGAGTGCACATGAGGATATTA
Found at i:24172302 original size:13 final size:13
Alignment explanation
Indices: 24172284--24172308 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24172274 CCATATATAT
24172284 ATATATATACATA
1 ATATATATACATA
24172297 ATATATATACAT
1 ATATATATACAT
24172309 GAATTCTTAT
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATATATACATA
Found at i:24182360 original size:13 final size:13
Alignment explanation
Indices: 24182342--24182367 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24182332 TTCCAGAAAA
24182342 TTTATAAAATCAC
1 TTTATAAAATCAC
24182355 TTTATAAAATCAC
1 TTTATAAAATCAC
24182368 AATTTCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTATAAAATCAC
Found at i:24183760 original size:19 final size:19
Alignment explanation
Indices: 24183736--24183773 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24183726 CTGCCAAACC
*
24183736 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
*
24183755 CTCAAATCATACTCTAATA
1 CTCAAATCATACTCCAATA
24183774 AGTTAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:24185035 original size:16 final size:17
Alignment explanation
Indices: 24184998--24185040 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
24184988 ACTCCACCTC
24184998 TCTT-TTTTTTCGTTCT
1 TCTTCTTTTTTCGTTCT
24185014 TCTTCTTTTTTC-TCTCT
1 TCTTCTTTTTTCGT-TCT
24185031 T-TTCTTTTTT
1 TCTTCTTTTTT
24185041 TTTTTCTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (17 bp):
TCTTCTTTTTTCGTTCT
Found at i:24185041 original size:17 final size:18
Alignment explanation
Indices: 24185001--24185041 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
24184991 CCACCTCTCT
24185001 TTTTTTTCGTTCTTCTTC
1 TTTTTTTCGTTCTTCTTC
24185019 -TTTTTTC-TCTCTT-TTC
1 TTTTTTTCGT-TCTTCTTC
24185035 TTTTTTT
1 TTTTTTT
24185042 TTTTCTCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTTTCGTTCTTCTTC
Found at i:24185256 original size:17 final size:17
Alignment explanation
Indices: 24185231--24185264 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24185221 ACTTAGTTGA
*
24185231 TTGCAATCACTTTCCTT
1 TTGCAATCACATTCCTT
*
24185248 TTGCTATCACATTCCTT
1 TTGCAATCACATTCCTT
24185265 CTCATTGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.29, G:0.06, T:0.47
Consensus pattern (17 bp):
TTGCAATCACATTCCTT
Found at i:24185872 original size:28 final size:28
Alignment explanation
Indices: 24185835--24185889 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
24185825 ATGTTGCAAA
24185835 CAAATAAATTACA-CTAAACATAAATAAG
1 CAAATAAATTACATC-AAACATAAATAAG
*
24185863 CAAATCAATTACATCAAACATAAATAA
1 CAAATAAATTACATCAAACATAAATAA
24185890 AGTTTCAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (28 bp):
CAAATAAATTACATCAAACATAAATAAG
Found at i:24186200 original size:22 final size:23
Alignment explanation
Indices: 24186174--24186240 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 23
24186164 TATAATTCGC
*
24186174 AGCTAAATTATTAATTTTATA-T
1 AGCTAAATTATTAATTTTAAATT
*
24186196 AGCTAAATATATAAAATTATTAAATT
1 AGCTAAAT-TAT-TAATT-TTAAATT
*
24186222 AACTAAAATTATTAATTTT
1 AGCT-AAATTATTAATTTT
24186241 TTTCTTCTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
22 8 0.22
23 3 0.08
24 6 0.17
25 8 0.22
26 7 0.19
27 4 0.11
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (23 bp):
AGCTAAATTATTAATTTTAAATT
Found at i:24188977 original size:22 final size:22
Alignment explanation
Indices: 24188949--24188991 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
24188939 GTTTACATGC
*
24188949 TATCTTTCCCGTTCTATCATTA
1 TATCTTTCCCATTCTATCATTA
24188971 TATCTTTCCCATTCTATCATT
1 TATCTTTCCCATTCTATCATT
24188992 GATAAATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.28, G:0.02, T:0.51
Consensus pattern (22 bp):
TATCTTTCCCATTCTATCATTA
Found at i:24198419 original size:13 final size:14
Alignment explanation
Indices: 24198401--24198429 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24198391 TAGGTTTCTC
24198401 AATTCA-AATTACA
1 AATTCATAATTACA
24198414 AATTCATAATTACA
1 AATTCATAATTACA
24198428 AA
1 AA
24198430 ATAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (14 bp):
AATTCATAATTACA
Found at i:24210327 original size:13 final size:13
Alignment explanation
Indices: 24210309--24210333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24210299 ATTTTTAAAA
24210309 ATTTTATAAAATT
1 ATTTTATAAAATT
24210322 ATTTTATAAAAT
1 ATTTTATAAAAT
24210334 CTCATTTTCT
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:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:24236715 original size:2 final size:2
Alignment explanation
Indices: 24236710--24236747 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
24236700 TTTTTTTGTT
24236710 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24236748 GCTAGATTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24241180 original size:15 final size:15
Alignment explanation
Indices: 24241160--24241189 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24241150 CTAAGAAAAC
24241160 AAAAATTCTATATAA
1 AAAAATTCTATATAA
24241175 AAAAATTCTATATAA
1 AAAAATTCTATATAA
24241190 TATTATATAC
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:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATTCTATATAA
Found at i:24241619 original size:17 final size:18
Alignment explanation
Indices: 24241587--24241621 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24241577 ATATCATATA
*
24241587 AAATTAAATTTTCAAAAG
1 AAATTAAATATTCAAAAG
24241605 AAATTAAA-ATTCAAAAG
1 AAATTAAATATTCAAAAG
24241622 TTGTAAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (18 bp):
AAATTAAATATTCAAAAG
Found at i:24241671 original size:28 final size:27
Alignment explanation
Indices: 24241638--24241700 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
24241628 ATCTTATATT
*
24241638 TTAAAAAATTAATAACTTTATAATTTTA
1 TTAAAAAAATAATAA-TTTATAATTTTA
* *
24241666 TTAAAAAAATGATCATTTATAATTTTA
1 TTAAAAAAATAATAATTTATAATTTTA
*
24241693 TGAAAAAA
1 TTAAAAAA
24241701 GATCAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (27 bp):
TTAAAAAAATAATAATTTATAATTTTA
Found at i:24242589 original size:13 final size:14
Alignment explanation
Indices: 24242571--24242599 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24242561 TTGTTATGTG
24242571 AATTTT-ATTTTTA
1 AATTTTAATTTTTA
24242584 AATTTTAATTTTTA
1 AATTTTAATTTTTA
24242598 AA
1 AA
24242600 AATTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
AATTTTAATTTTTA
Found at i:24242883 original size:12 final size:12
Alignment explanation
Indices: 24242846--24242890 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 12
24242836 TGTTTTTAAT
24242846 TATTTATATTTTA
1 TATTTA-ATTTTA
24242859 TAAATTATAATTTTA
1 T--ATT-TAATTTTA
24242874 TATTTAATTTTA
1 TATTTAATTTTA
24242886 TATTT
1 TATTT
24242891 TTATTATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 13 0.45
13 4 0.14
15 10 0.34
16 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTTAATTTTA
Found at i:24250834 original size:5 final size:5
Alignment explanation
Indices: 24250818--24250864 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
24250808 AATTAATCGT
* *
24250818 TTTTC ATTTTC TTTTC -TTTC TTTTC TTTTC CTTTC CTTTC TTTTC TT
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
24250865 GCTTTTTCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 4 0.11
5 29 0.76
6 5 0.13
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:24250839 original size:9 final size:9
Alignment explanation
Indices: 24250825--24250870 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
24250815 CGTTTTTCAT
24250825 TTTCTTTTC
1 TTTCTTTTC
24250834 TTTCTTTTC
1 TTTCTTTTC
*
24250843 TTTTCCTTTCC
1 -TTT-CTTTTC
24250854 TTTCTTTTC
1 TTTCTTTTC
*
24250863 TTGCTTTT
1 TTTCTTTT
24250871 TCCTTCTCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 21 0.66
10 6 0.19
11 5 0.16
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:24250851 original size:20 final size:19
Alignment explanation
Indices: 24250818--24250864 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
24250808 AATTAATCGT
*
24250818 TTTTCATTTTCTTTTCTTTC
1 TTTTC-TTTTCTTTCCTTTC
24250838 TTTTCTTTTCCTTTCCTTTC
1 TTTTCTTTT-CTTTCCTTTC
24250858 TTTTCTT
1 TTTTCTT
24250865 GCTTTTTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCTTTTCTTTCCTTTC
Found at i:24250872 original size:20 final size:18
Alignment explanation
Indices: 24250818--24250875 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 18
24250808 AATTAATCGT
*
24250818 TTTTCATTTTCTTTTCTTTC
1 TTTTC-TTTT-TTTCCTTTC
24250838 TTTTCTTTTCCTTTCCTTTC
1 TTTTCTTTT--TTTCCTTTC
24250858 TTTTCTTGCTTTTTCCTT
1 TTTTCTT--TTTTTCCTT
24250876 CTCCTAACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 4 0.12
20 28 0.82
22 2 0.06
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTCTTTTTTTCCTTTC
Found at i:24252365 original size:2 final size:2
Alignment explanation
Indices: 24252358--24252434 Score: 97
Period size: 2 Copynumber: 38.5 Consensus size: 2
24252348 TTGGGAACAT
24252358 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA T- TA GT-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
24252398 TC TCA NTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA T-A -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24252435 TTAGTTCTCA
Statistics
Matches: 68, Mismatches: 1, Indels: 12
0.84 0.01 0.15
Matches are distributed among these distances:
1 3 0.04
2 62 0.91
3 2 0.03
4 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24258579 original size:8 final size:8
Alignment explanation
Indices: 24258566--24258598 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
24258556 GAGAACTTAT
24258566 TATATATG
1 TATATATG
24258574 TATATATG
1 TATATATG
*
24258582 TATATATA
1 TATATATG
24258590 TATATATG
1 TATATATG
24258598 T
1 T
24258599 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (8 bp):
TATATATG
Found at i:24258601 original size:2 final size:2
Alignment explanation
Indices: 24258596--24258696 Score: 76
Period size: 2 Copynumber: 50.5 Consensus size: 2
24258586 TATATATATA
* * * * *
24258596 TG TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG TA TA TC TT TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * * * * * * *
24258638 TA TT TG TG TG TG TG TG TG TG TA TA TC TT TG TA TT TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
24258680 TG TG TG TG TA TG TG TG T
1 TG TG TG TG TG TG TG TG T
24258697 ATAAAATTAG
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.07, C:0.03, G:0.37, T:0.53
Consensus pattern (2 bp):
TG
Found at i:24258648 original size:30 final size:30
Alignment explanation
Indices: 24258612--24258690 Score: 149
Period size: 30 Copynumber: 2.6 Consensus size: 30
24258602 TGTGTGTGTG
*
24258612 TGTGTGTGTGTGCGTGTATATCTTTGTATT
1 TGTGTGTGTGTGTGTGTATATCTTTGTATT
24258642 TGTGTGTGTGTGTGTGTATATCTTTGTATT
1 TGTGTGTGTGTGTGTGTATATCTTTGTATT
24258672 TGTGTGTGTGTGTGTGTAT
1 TGTGTGTGTGTGTGTGTAT
24258691 GTGTGTATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.09, C:0.04, G:0.33, T:0.54
Consensus pattern (30 bp):
TGTGTGTGTGTGTGTGTATATCTTTGTATT
Found at i:24258980 original size:16 final size:16
Alignment explanation
Indices: 24258959--24258989 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24258949 TATATATATA
24258959 TATATATGTATGTATG
1 TATATATGTATGTATG
24258975 TATATATGTATGTAT
1 TATATATGTATGTAT
24258990 TGAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (16 bp):
TATATATGTATGTATG
Found at i:24258982 original size:8 final size:8
Alignment explanation
Indices: 24258951--24258985 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
24258941 CATACTAATA
*
24258951 TATATATA
1 TATATATG
24258959 TATATATG
1 TATATATG
*
24258967 TATGTATG
1 TATATATG
24258975 TATATATG
1 TATATATG
24258983 TAT
1 TAT
24258986 GTATTGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (8 bp):
TATATATG
Found at i:24259541 original size:74 final size:74
Alignment explanation
Indices: 24259404--24259547 Score: 193
Period size: 74 Copynumber: 1.9 Consensus size: 74
24259394 AACAATTGAA
* ** * * *
24259404 AAATAACTATTTAGGATAATTATGGTTTTTTATATTTGTAAATAATGGTTGACTAATGATAATAA
1 AAATAACTACTTAGGATAATTATGACTTTTTATATTTGTAAATAATGATTAAATAATGATAATAA
24259469 AAAGTCAAG
66 AAAGTCAAG
*
24259478 AAATAACTACTTAGGATAATTATGACTTTTTATATTTGTAAATAACT-ATTAAATAGT-AGTAAT
1 AAATAACTACTTAGGATAATTATGACTTTTTATATTTGTAAATAA-TGATTAAATAATGA-TAAT
24259541 AAAAAGT
64 AAAAAGT
24259548 TAAGGGATCA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
73 1 0.02
74 59 0.97
75 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (74 bp):
AAATAACTACTTAGGATAATTATGACTTTTTATATTTGTAAATAATGATTAAATAATGATAATAA
AAAGTCAAG
Found at i:24265170 original size:71 final size:71
Alignment explanation
Indices: 24265054--24265196 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
24265044 TATTTTAAAA
24265054 TATTTTATAAAATTTAAGTAAATTTTGAGGCAAAAATGGGATAATGATGACTACATATGCATGGG
1 TATTTTATAAAATTTAAGTAAATTTTGAGGCAAAAATGGGATAATGATGACTACATATGCATGGG
24265119 ACACAT
66 ACACAT
*
24265125 TATTTTATAAAATTTAAGTAAGTTTTGAGGCAAAAATGGGATAATGATGACTACATATGCATGGG
1 TATTTTATAAAATTTAAGTAAATTTTGAGGCAAAAATGGGATAATGATGACTACATATGCATGGG
24265190 ACACAT
66 ACACAT
24265196 T
1 T
24265197 CTTAATGGAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (71 bp):
TATTTTATAAAATTTAAGTAAATTTTGAGGCAAAAATGGGATAATGATGACTACATATGCATGGG
ACACAT
Found at i:24269170 original size:21 final size:21
Alignment explanation
Indices: 24269144--24269186 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24269134 GCTATAAATA
24269144 TCATTTTCCAACAGCATCTTC
1 TCATTTTCCAACAGCATCTTC
* * *
24269165 TCATTTTTCAGCAGCTTCTTC
1 TCATTTTCCAACAGCATCTTC
24269186 T
1 T
24269187 TTTTCTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.30, G:0.07, T:0.44
Consensus pattern (21 bp):
TCATTTTCCAACAGCATCTTC
Found at i:24273098 original size:21 final size:21
Alignment explanation
Indices: 24273074--24273121 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
24273064 GTATATGGGG
24273074 TCATCACACTAAATATCTCCT
1 TCATCACACTAAATATCTCCT
*
24273095 TCATCACACTGAATATCTCCT
1 TCATCACACTAAATATCTCCT
*
24273116 ACATCA
1 TCATCA
24273122 ACACCTCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.31
Consensus pattern (21 bp):
TCATCACACTAAATATCTCCT
Found at i:24277772 original size:23 final size:23
Alignment explanation
Indices: 24277741--24277785 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
24277731 TGTGAAACGG
*
24277741 CATGTTGGGAATGTATGACACGA
1 CATGGTGGGAATGTATGACACGA
*
24277764 CATGGTGGGAATGTGTGACACG
1 CATGGTGGGAATGTATGACACG
24277786 GCTATGACAC
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:0.27, C:0.13, G:0.36, T:0.24
Consensus pattern (23 bp):
CATGGTGGGAATGTATGACACGA
Found at i:24277822 original size:24 final size:24
Alignment explanation
Indices: 24277790--24277866 Score: 111
Period size: 24 Copynumber: 3.2 Consensus size: 24
24277780 GACACGGCTA
24277790 TGACACGACATGGTTTAGAGTTTG
1 TGACACGACATGGTTTAGAGTTTG
* * *
24277814 TGACACGACATGG-TTGGAATGTG
1 TGACACGACATGGTTTAGAGTTTG
*
24277837 TGACACGACAGGGTTTAGAGTTTG
1 TGACACGACATGGTTTAGAGTTTG
24277861 TGACAC
1 TGACAC
24277867 TCCATGGTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 19 0.42
24 26 0.58
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (24 bp):
TGACACGACATGGTTTAGAGTTTG
Found at i:24277842 original size:23 final size:24
Alignment explanation
Indices: 24277790--24277889 Score: 96
Period size: 23 Copynumber: 4.2 Consensus size: 24
24277780 GACACGGCTA
* *
24277790 TGACACGACATGGTTTAGAGTTTG
1 TGACACGACATGGTTTAGAATGTG
*
24277814 TGACACGACATGG-TTGGAATGTG
1 TGACACGACATGGTTTAGAATGTG
* * *
24277837 TGACACGACAGGGTTTAGAGTTTG
1 TGACACGACATGGTTTAGAATGTG
** **
24277861 TGACACTCCATGG-TGGGAATGTG
1 TGACACGACATGGTTTAGAATGTG
24277884 TGACAC
1 TGACAC
24277890 AGTTGTGACA
Statistics
Matches: 61, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
23 31 0.51
24 30 0.49
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (24 bp):
TGACACGACATGGTTTAGAATGTG
Found at i:24277859 original size:47 final size:47
Alignment explanation
Indices: 24277790--24277889 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 47
24277780 GACACGGCTA
* *
24277790 TGACACGACATGGTTTAGAGTTTGTGACACGACATGGTTGGAATGTG
1 TGACACGACAGGGTTTAGAGTTTGTGACACGACATGGTGGGAATGTG
**
24277837 TGACACGACAGGGTTTAGAGTTTGTGACACTCCATGGTGGGAATGTG
1 TGACACGACAGGGTTTAGAGTTTGTGACACGACATGGTGGGAATGTG
24277884 TGACAC
1 TGACAC
24277890 AGTTGTGACA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (47 bp):
TGACACGACAGGGTTTAGAGTTTGTGACACGACATGGTGGGAATGTG
Found at i:24277938 original size:105 final size:105
Alignment explanation
Indices: 24277764--24277971 Score: 242
Period size: 105 Copynumber: 2.0 Consensus size: 105
24277754 TATGACACGA
* * ***
24277764 CATGGTGGGAATGTGTGACACGGCTATGACACGACATGGTTTAGAGTTTGTGACACGACATGGTT
1 CATGGTGGGAATGTGTGACACAGCTATGACACGACATGGTTCAGAGTTTGTGACACGACATGAAG
* * *
24277829 GGAATGTGTGACACGACAGG-GTTTAGAGTTTGTGACACTC
66 GGAATCTATGACACG-CAGGAGTTTAGAGTTGGTGACACTC
* * * *
24277869 CATGGTGGGAATGTGTGACACAGTTGTGACACGCCAAT-GTTCAGAGTTTGTGACA-TACCATGA
1 CATGGTGGGAATGTGTGACACAGCTATGACACGAC-ATGGTTCAGAGTTTGTGACACGA-CATGA
* *
24277932 AGGGAATCTATGACATGCCGGAGTTTAGAGTTGGTGACAC
64 AGGGAATCTATGACACGCAGGAGTTTAGAGTTGGTGACAC
24277972 CCCAGCGTTC
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
104 4 0.05
105 80 0.93
106 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (105 bp):
CATGGTGGGAATGTGTGACACAGCTATGACACGACATGGTTCAGAGTTTGTGACACGACATGAAG
GGAATCTATGACACGCAGGAGTTTAGAGTTGGTGACACTC
Found at i:24277946 original size:58 final size:58
Alignment explanation
Indices: 24277835--24277946 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
24277825 GGTTGGAATG
* * ** * *
24277835 TGTGACACGACAGGGTTTAGAGTTTGTGACACTCCATGGTGGGAATGTGTGACACAGT
1 TGTGACACGACAAGGTTCAGAGTTTGTGACACTCCATGAAGGGAATCTATGACACAGT
* *
24277893 TGTGACACGCCAATGTTCAGAGTTTGTGACA-TACCATGAAGGGAATCTATGACA
1 TGTGACACGACAAGGTTCAGAGTTTGTGACACT-CCATGAAGGGAATCTATGACA
24277947 TGCCGGAGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
57 1 0.02
58 44 0.98
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (58 bp):
TGTGACACGACAAGGTTCAGAGTTTGTGACACTCCATGAAGGGAATCTATGACACAGT
Found at i:24278041 original size:47 final size:47
Alignment explanation
Indices: 24277965--24278222 Score: 230
Period size: 47 Copynumber: 5.5 Consensus size: 47
24277955 TTTAGAGTTG
** *
24277965 GTGACACCCCAGCGTTCAA-AGTTCATGACATGCCATGGAGGGAATCT
1 GTGACACGTCAGCGTT-AAGAGTTCATGACACGCCATGGAGGGAATCT
* * * * * *
24278012 GTGATACGTTAGTGTTAAGAGTTCGTGACACACTATGGAGGGAATCT
1 GTGACACGTCAGCGTTAAGAGTTCATGACACGCCATGGAGGGAATCT
* * * *
24278059 GTGACACGCCAGCGTTCAGAGTTCGTGACACGCCATGTAGGGAATCT
1 GTGACACGTCAGCGTTAAGAGTTCATGACACGCCATGGAGGGAATCT
* * ** *
24278106 ATGACATGTCAGCGTTAAGAGTTCATGACACGCCATGGAAAGAATTT
1 GTGACACGTCAGCGTTAAGAGTTCATGACACGCCATGGAGGGAATCT
* * * * * * * * *
24278153 GTGACAAGCCAGCGTTCAGATTTCGTGACACACCATGAAAGAAATCT
1 GTGACACGTCAGCGTTAAGAGTTCATGACACGCCATGGAGGGAATCT
* * *
24278200 ATGACACGGCAGGGTTAAGAGTT
1 GTGACACGTCAGCGTTAAGAGTT
24278223 TGTCAGACTC
Statistics
Matches: 167, Mismatches: 43, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
46 2 0.01
47 165 0.99
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (47 bp):
GTGACACGTCAGCGTTAAGAGTTCATGACACGCCATGGAGGGAATCT
Found at i:24278082 original size:94 final size:94
Alignment explanation
Indices: 24277965--24278222 Score: 300
Period size: 94 Copynumber: 2.7 Consensus size: 94
24277955 TTTAGAGTTG
* * * * * * * *
24277965 GTGACACCCCAGCGTTCAAAGTTCATGACATGCCATGGAGGGAATCTGTGATACGTTAGTGTTAA
1 GTGACACGCCAGCGTTCAGAGTTCGTGACACGCCATGGAGGGAATCTATGACACGTCAGCGTTAA
* * **
24278030 GAGTTCGTGACACACTATGGAGGGAATCT
66 GAGTTCATGACACACCATGGAAAGAATCT
* *
24278059 GTGACACGCCAGCGTTCAGAGTTCGTGACACGCCATGTAGGGAATCTATGACATGTCAGCGTTAA
1 GTGACACGCCAGCGTTCAGAGTTCGTGACACGCCATGGAGGGAATCTATGACACGTCAGCGTTAA
* *
24278124 GAGTTCATGACACGCCATGGAAAGAATTT
66 GAGTTCATGACACACCATGGAAAGAATCT
* * * * * * * *
24278153 GTGACAAGCCAGCGTTCAGATTTCGTGACACACCATGAAAGAAATCTATGACACGGCAGGGTTAA
1 GTGACACGCCAGCGTTCAGAGTTCGTGACACGCCATGGAGGGAATCTATGACACGTCAGCGTTAA
24278218 GAGTT
66 GAGTT
24278223 TGTCAGACTC
Statistics
Matches: 139, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
94 139 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (94 bp):
GTGACACGCCAGCGTTCAGAGTTCGTGACACGCCATGGAGGGAATCTATGACACGTCAGCGTTAA
GAGTTCATGACACACCATGGAAAGAATCT
Found at i:24278236 original size:141 final size:141
Alignment explanation
Indices: 24277974--24278236 Score: 303
Period size: 141 Copynumber: 1.9 Consensus size: 141
24277964 GGTGACACCC
* ** * * ** *
24277974 CAGCGTTCAAAGTTCATGACATGCCATGGAGGGAATCTGTGATACGTTAGTGTTAAGAGTTCGTG
1 CAGCGTTCAAAGTTCATGACACGCCATGGAAAGAATCTGTGACAAGCCAGCGTTAAGAGTTCGTG
* * * * * * *
24278039 ACACACTATGGAGGGAATCTGTGACACGCCAGCGTTCAGAGTTCGTGACACGCCATGTAGGGAAT
66 ACACACCATGAAAGAAATCTATGACACGCCAGCGTTAAGAGTTCGTCACACGCCATGTAGGGAAT
24278104 CTATGACATGT
131 CTATGACATGT
* * *
24278115 CAGCGTT-AAGAGTTCATGACACGCCATGGAAAGAATTTGTGACAAGCCAGCGTTCAGATTTCGT
1 CAGCGTTCAA-AGTTCATGACACGCCATGGAAAGAATCTGTGACAAGCCAGCGTTAAGAGTTCGT
* * * * *
24278179 GACACACCATGAAAGAAATCTATGACACGGCAGGGTTAAGAGTTTGTCAGACTCCATG
65 GACACACCATGAAAGAAATCTATGACACGCCAGCGTTAAGAGTTCGTCACACGCCATG
24278237 GAGATCCGTG
Statistics
Matches: 98, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
140 2 0.02
141 96 0.98
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (141 bp):
CAGCGTTCAAAGTTCATGACACGCCATGGAAAGAATCTGTGACAAGCCAGCGTTAAGAGTTCGTG
ACACACCATGAAAGAAATCTATGACACGCCAGCGTTAAGAGTTCGTCACACGCCATGTAGGGAAT
CTATGACATGT
Found at i:24278940 original size:31 final size:31
Alignment explanation
Indices: 24278902--24279133 Score: 335
Period size: 31 Copynumber: 7.5 Consensus size: 31
24278892 GTTAGCGTTA
24278902 GCGTGTTACAACATTTTACATTATATGCATG
1 GCGTGTTACAACATTTTACATTATATGCATG
24278933 GCGTGTTACAACATTTTACATTATATGCATG
1 GCGTGTTACAACATTTTACATTATATGCATG
*
24278964 GCGTGCTACAACATTTTACGA-TATATGCATG
1 GCGTGTTACAACATTTTAC-ATTATATGCATG
24278995 GCGTGTTACAACATTTTACGA-TATATGCATG
1 GCGTGTTACAACATTTTAC-ATTATATGCATG
*
24279026 GCATGTTACAACATTTTA-AGTTATATGCATG
1 GCGTGTTACAACATTTTACA-TTATATGCATG
* * *
24279057 GCGTGTTACCACATTTTACGTTATATACATG
1 GCGTGTTACAACATTTTACATTATATGCATG
* *
24279088 GCGTGTTACCACATTTTACGTTATATGCATG
1 GCGTGTTACAACATTTTACATTATATGCATG
* *
24279119 GCATGTTACCACATT
1 GCGTGTTACAACATT
24279134 ATGGGTTAAC
Statistics
Matches: 188, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
29 1 0.01
31 186 0.99
32 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (31 bp):
GCGTGTTACAACATTTTACATTATATGCATG
Found at i:24280919 original size:37 final size:37
Alignment explanation
Indices: 24280861--24281015 Score: 224
Period size: 37 Copynumber: 4.2 Consensus size: 37
24280851 AATGCAATAT
* *
24280861 CATCATCATCTGTGCATTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
*
24280898 CATCATCATGTGTACACTCCCTACTCGCACAC-TCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
*
24280935 CATCATCATGTGTGCAC-CCCTACTCTCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
* * *
24280971 CATCATCATGTGTGCACTTCCTACTTGCACATTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
24281008 CATCATCA
1 CATCATCA
24281016 CACAACATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
36 34 0.32
37 72 0.68
ACGTcount: A:0.26, C:0.36, G:0.08, T:0.30
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:24280967 original size:73 final size:74
Alignment explanation
Indices: 24280861--24281015 Score: 224
Period size: 73 Copynumber: 2.1 Consensus size: 74
24280851 AATGCAATAT
*
24280861 CATCATCATCTGTGCATTCCCTACTCGCACACTTCAACATCATCATGTGTACACTCCCTACTCGC
1 CATCATCATCTGTGCATCCCCTACTCGCACACTTCAACATCATCATGTGTACACTCCCTACTCGC
24280926 ACA-CTCTAA
66 ACATCTC-AA
* * * * *
24280935 CATCATCATGTGTGCA-CCCCTACTCTCACACTTCAACATCATCATGTGTGCACTTCCTACTTGC
1 CATCATCATCTGTGCATCCCCTACTCGCACACTTCAACATCATCATGTGTACACTCCCTACTCGC
*
24280999 ACATTTCAA
66 ACATCTCAA
24281008 CATCATCA
1 CATCATCA
24281016 CACAACATTA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
73 56 0.77
74 17 0.23
ACGTcount: A:0.26, C:0.36, G:0.08, T:0.30
Consensus pattern (74 bp):
CATCATCATCTGTGCATCCCCTACTCGCACACTTCAACATCATCATGTGTACACTCCCTACTCGC
ACATCTCAA
Found at i:24281865 original size:20 final size:20
Alignment explanation
Indices: 24281840--24281879 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
24281830 AGAAGAAGAA
24281840 GAAGCTGCTGGAAAAATGAG
1 GAAGCTGCTGGAAAAATGAG
*
24281860 GAAGCTGCTGGAGAAATGAG
1 GAAGCTGCTGGAAAAATGAG
24281880 ATATTTATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.38, T:0.15
Consensus pattern (20 bp):
GAAGCTGCTGGAAAAATGAG
Found at i:24283315 original size:145 final size:145
Alignment explanation
Indices: 24283069--24283329 Score: 391
Period size: 145 Copynumber: 1.8 Consensus size: 145
24283059 TGAAGAACCG
*
24283069 GTAAGGATAGTTCTAAAGGTTTATGTTCAACAATTCCATATGTGATTATCGAATAACATATCTAT
1 GTAAGGATAGTTATAAAGGTTTATGTTCAACAATTCCATATGTGATTATCGAATAACATATCTAT
* * * * * *
24283134 GTTTGTAGTTGGACCATGCGATGATAGCTCCACAACCA-TCGATAAGTCCTCCTCAAACTCACAA
66 ATTTGCAATTGGACCATGCGACGACAGCTCCACAACCACT-GAGAAGTCCTCCTCAAACTCACAA
24283198 TGCTAACGAGGAGCCA
130 TGCTAACGAGGAGCCA
* * *
24283214 GTAAGGATGGTTATAACA-GTTTGTGTTCAACAATTCCATATGTGATTATCGAATAACATATCTG
1 GTAAGGATAGTTATAA-AGGTTTATGTTCAACAATTCCATATGTGATTATCGAATAACATATCTA
*
24283278 TATTTGCAATTGGACCATGCGACGACAGCTCCTCAACCACTGAGAAGTCCTC
65 TATTTGCAATTGGACCATGCGACGACAGCTCCACAACCACTGAGAAGTCCTC
24283330 TTCAGAGCAT
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
145 101 0.98
146 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (145 bp):
GTAAGGATAGTTATAAAGGTTTATGTTCAACAATTCCATATGTGATTATCGAATAACATATCTAT
ATTTGCAATTGGACCATGCGACGACAGCTCCACAACCACTGAGAAGTCCTCCTCAAACTCACAAT
GCTAACGAGGAGCCA
Found at i:24285684 original size:118 final size:118
Alignment explanation
Indices: 24285472--24285950 Score: 597
Period size: 118 Copynumber: 4.1 Consensus size: 118
24285462 CTGAAAAAAG
* * * * * *
24285472 TCAGCGTGTCACGCCAAGTATCTGGTTCCACTCAGCGTGTCATCACAA-TTGGGGTGTGCCGTGT
1 TCAGCGTGTCACGCCAACTATCTGCTTCCACTCAACGTGTCACCACAAGATGGGGCGTGCCGTGT
* *
24285536 CACCCCACAATACAGCAAAAAGTCAGCGTGTCACCACAGAAATCTGCATGCAC
66 CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCATGCAC
* * * * * **
24285589 TCAGCGTGTCACACCAATTATCTGCTTCCACTCAACCTATCACCATAAGATGGGGCGTGCTATGT
1 TCAGCGTGTCACGCCAACTATCTGCTTCCACTCAACGTGTCACCACAAGATGGGGCGTGCCGTGT
* *
24285654 CACCCCATAATACTGCAAGAAGTCAGCGTGTCACCATAGAAATCTGCATGCAC
66 CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCATGCAC
* * * * * * * *
24285707 TCAGCATGTCACGCCAACTATCTGCTTTCACTTAGCATGTCACCATAAGATGGGGTGTGTCGTGT
1 TCAGCGTGTCACGCCAACTATCTGCTTCCACTCAACGTGTCACCACAAGATGGGGCGTGCCGTGT
* * * * **
24285772 CACCCCATAATACTGC---AAGTTAGCATGTCACCACAGAAATTTGCATGCGT
66 CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCATGCAC
*
24285822 TCAGCATGTCACGCCAACTATCTGCTTCCACTCAACGTGTCACCACAAGATGGGGCGTGCCGTGT
1 TCAGCGTGTCACGCCAACTATCTGCTTCCACTCAACGTGTCACCACAAGATGGGGCGTGCCGTGT
* * ** *
24285887 CACCCCACAATAATGCAAGAAATCAGCGTGTCAAAACAGAAATCTGCATGCAT
66 CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCATGCAC
24285940 TCAGCGTGTCA
1 TCAGCGTGTCA
24285951 GCTTAGCATA
Statistics
Matches: 307, Mismatches: 51, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
115 100 0.33
117 40 0.13
118 167 0.54
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (118 bp):
TCAGCGTGTCACGCCAACTATCTGCTTCCACTCAACGTGTCACCACAAGATGGGGCGTGCCGTGT
CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCATGCAC
Found at i:24285853 original size:233 final size:233
Alignment explanation
Indices: 24285472--24285950 Score: 636
Period size: 233 Copynumber: 2.0 Consensus size: 233
24285462 CTGAAAAAAG
* * * * *
24285472 TCAGCGTGTCACGCCAAGTATCTGGTTCCACTCAGCGTGTCATCACAATTGGGGTGTGCCGTGTC
1 TCAGCGTGTCACGCCAACTATCTGCTTCCACTCAGCATGTCACCACAAATGGGGTGTGCCGTGTC
* *
24285537 ACCCCACAATACAGCAAAAAGTCAGCGTGTCACCACAGAAATCTGCATGCACTCAGCGTGTCACA
66 ACCCCACAATACAGC--AAAGTCAGCATGTCACCACAGAAATCTGCATGCACTCAGCATGTCACA
* * * * *
24285602 CCAATTATCTGCTTCCACTCAACCTATCACCATAAGATGGGGCGTGCTATGTCACCCCATAATAC
129 CCAACTATCTGCTTCCACTCAACCTATCACCACAAGATGGGGCGTGCCATGTCACCCCACAATAA
* ** *
24285667 TGCAAGAAGTCAGCGTGTCACCATAGAAATCTGCATGCAC
194 TGCAAGAAATCAGCGTGTCAAAACAGAAATCTGCATGCAC
* * * * *
24285707 TCAGCATGTCACGCCAACTATCTGCTTTCACTTAGCATGTCACCATAAGATGGGGTGTGTCGTGT
1 TCAGCGTGTCACGCCAACTATCTGCTTCCACTCAGCATGTCACCACAA-ATGGGGTGTGCCGTGT
* * * * ** *
24285772 CACCCCATAATACTGC-AAGTTAGCATGTCACCACAGAAATTTGCATGCGTTCAGCATGTCACGC
65 CACCCCACAATACAGCAAAGTCAGCATGTCACCACAGAAATCTGCATGCACTCAGCATGTCACAC
* * *
24285836 CAACTATCTGCTTCCACTCAACGTGTCACCACAAGATGGGGCGTGCCGTGTCACCCCACAATAAT
130 CAACTATCTGCTTCCACTCAACCTATCACCACAAGATGGGGCGTGCCATGTCACCCCACAATAAT
*
24285901 GCAAGAAATCAGCGTGTCAAAACAGAAATCTGCATGCAT
195 GCAAGAAATCAGCGTGTCAAAACAGAAATCTGCATGCAC
24285940 TCAGCGTGTCA
1 TCAGCGTGTCA
24285951 GCTTAGCATA
Statistics
Matches: 210, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
233 142 0.68
235 40 0.19
236 28 0.13
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (233 bp):
TCAGCGTGTCACGCCAACTATCTGCTTCCACTCAGCATGTCACCACAAATGGGGTGTGCCGTGTC
ACCCCACAATACAGCAAAGTCAGCATGTCACCACAGAAATCTGCATGCACTCAGCATGTCACACC
AACTATCTGCTTCCACTCAACCTATCACCACAAGATGGGGCGTGCCATGTCACCCCACAATAATG
CAAGAAATCAGCGTGTCAAAACAGAAATCTGCATGCAC
Found at i:24286208 original size:3 final size:3
Alignment explanation
Indices: 24286200--24286233 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
24286190 CTTGGTACAA
24286200 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24286234 TTGTTAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24289809 original size:31 final size:31
Alignment explanation
Indices: 24289771--24289941 Score: 288
Period size: 31 Copynumber: 5.5 Consensus size: 31
24289761 TTTGTCAGTC
*
24289771 ATGTTGTAACATGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
24289802 ATGTTGTAACACGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* **
24289833 ATGTTGTAACACGCCATGCAGATAATATAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
24289864 ATGTTGTAATACGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
24289895 ATGTTGTAACACGCCATGCATATAATGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
24289926 ATGTTGTAACACGCCA
1 ATGTTGTAACACGCCA
24289942 ACGCTGACAT
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 130 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (31 bp):
ATGTTGTAACACGCCATGCATATAACGTAAA
Found at i:24292135 original size:26 final size:26
Alignment explanation
Indices: 24292106--24292174 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
24292096 ATTTTTAAAA
24292106 AAATTATTATTTTATTATGTTTAATT
1 AAATTATTATTTTATTATGTTTAATT
* * *
24292132 AAATTTTTATGTTT-TTATTTTTGATT
1 AAATTATTAT-TTTATTATGTTTAATT
*
24292158 AAA-TAATATTTTATTAT
1 AAATTATTATTTTATTAT
24292175 TAAAATTAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.08
25 8 0.22
26 22 0.61
27 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (26 bp):
AAATTATTATTTTATTATGTTTAATT
Found at i:24308319 original size:67 final size:64
Alignment explanation
Indices: 24308237--24308386 Score: 176
Period size: 67 Copynumber: 2.3 Consensus size: 64
24308227 TGGCACCACA
* * *
24308237 TGTGGAATGTTACCTCACAATGTGCGAAATGCTATCATCATCATCATACTAGGTG-CAATTCACC
1 TGTGGAATGTTACCTCACAACGTGCGAAACGCTATCATCATCAT-AT--T-GGAGACAATTCACC
24308301 ATG
62 ATG
* * * * * *
24308304 TGTGAAATGTTACCTCACACCGTGTGGAGCGCTATCATCATCATATTGGAGACAATTTACCATG
1 TGTGGAATGTTACCTCACAACGTGCGAAACGCTATCATCATCATATTGGAGACAATTCACCATG
24308368 TGTGGAATGTTACCTCACA
1 TGTGGAATGTTACCTCACA
24308387 CCATGTGAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
63 3 0.04
64 30 0.42
66 2 0.03
67 37 0.51
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (64 bp):
TGTGGAATGTTACCTCACAACGTGCGAAACGCTATCATCATCATATTGGAGACAATTCACCATG
Found at i:24308377 original size:64 final size:64
Alignment explanation
Indices: 24308273--24308393 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
24308263 AAATGCTATC
* *
24308273 ATCATCATCATACTAGGTGCAATTCACCATGTGTGAAATGTTACCTCACACCGTGTGGAGCGCT
1 ATCATCATCATACTAGGAGCAATTCACCATGTGTGAAATGTTACCTCACACCATGTGGAGCGCT
* * *
24308337 ATCATCATCATA-TTGGAGACAATTTACCATGTGTGGAATGTTACCTCACACCATGTG
1 ATCATCATCATACTAGGAG-CAATTCACCATGTGTGAAATGTTACCTCACACCATGTG
24308394 AAAGCAATAG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 4 0.08
64 47 0.92
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (64 bp):
ATCATCATCATACTAGGAGCAATTCACCATGTGTGAAATGTTACCTCACACCATGTGGAGCGCT
Found at i:24311407 original size:84 final size:84
Alignment explanation
Indices: 24311277--24311466 Score: 202
Period size: 84 Copynumber: 2.3 Consensus size: 84
24311267 TCTGAAGATC
* * * *
24311277 TTTGAATATTTGATTACGCTTAGGAAACGGACTCCAAAATTGTTTGGATATATGATTTCACTTGG
1 TTTGGATATTTGATTATGCTTAGGAAACGGACTCCAAAATTCTTTGGATATATGATTACACTTGG
*
24311342 AA-AGTGGACTTTGAAATTA
66 AAGA-TAGACTTTGAAATTA
* * **** * * *
24311361 TTTGGATATTTGATTATGTTTGGGAAACGGACTTTGGAATTCTTTGGTTATTTGATTACGCTTGG
1 TTTGGATATTTGATTATGCTTAGGAAACGGACTCCAAAATTCTTTGGATATATGATTACACTTGG
* *
24311426 GAGATAGACTTTGAAATTC
66 AAGATAGACTTTGAAATTA
* *
24311445 TTTAGATATTGGATTATGCTTA
1 TTTGGATATTTGATTATGCTTA
24311467 AGAAGCAGAT
Statistics
Matches: 85, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
84 84 0.99
85 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (84 bp):
TTTGGATATTTGATTATGCTTAGGAAACGGACTCCAAAATTCTTTGGATATATGATTACACTTGG
AAGATAGACTTTGAAATTA
Found at i:24311426 original size:42 final size:42
Alignment explanation
Indices: 24311275--24311465 Score: 177
Period size: 42 Copynumber: 4.5 Consensus size: 42
24311265 ACTCTGAAGA
* * ***
24311275 TCTTTGAATATTTGATTACGCTTAGGAAACGGACTCCAAAAT
1 TCTTTGGATATTTGATTACGCTTGGGAAACGGACTTTGAAAT
* * * * *
24311317 TGTTTGGATATATGATTTCACTT-GGAAAGTGGACTTTGAAAT
1 TCTTTGGATATTTGATTACGCTTGGGAAA-CGGACTTTGAAAT
* * * *
24311359 TATTTGGATATTTGATTATGTTTGGGAAACGGACTTTGGAAT
1 TCTTTGGATATTTGATTACGCTTGGGAAACGGACTTTGAAAT
* * **
24311401 TCTTTGGTTATTTGATTACGCTTGGGAGATAGACTTTGAAAT
1 TCTTTGGATATTTGATTACGCTTGGGAAACGGACTTTGAAAT
* * *
24311443 TCTTTAGATATTGGATTATGCTT
1 TCTTTGGATATTTGATTACGCTT
24311466 AAGAAGCAGA
Statistics
Matches: 118, Mismatches: 29, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 5 0.04
42 108 0.92
43 5 0.04
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.41
Consensus pattern (42 bp):
TCTTTGGATATTTGATTACGCTTGGGAAACGGACTTTGAAAT
Found at i:24315410 original size:2 final size:2
Alignment explanation
Indices: 24315400--24315449 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
24315390 GGATTTTTTT
* * *
24315400 TA TA CA TA TA TA TA T- TA AA AA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24315440 TA TA TA TA TA
1 TA TA TA TA TA
24315450 ATTATAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:24315425 original size:13 final size:15
Alignment explanation
Indices: 24315405--24315455 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
24315395 TTTTTTATAC
24315405 ATATATATATTAA-AA
1 ATATATATA-TAATAA
*
24315420 ATATATATATAATAT
1 ATATATATATAATAA
24315435 ATATATATATATATAA
1 ATATATATATA-ATAA
*
24315451 TTATA
1 ATATA
24315456 ATAANNNNNN
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 3 0.10
15 21 0.68
16 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATATATAATAA
Found at i:24315427 original size:17 final size:17
Alignment explanation
Indices: 24315405--24315448 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
24315395 TTTTTTATAC
24315405 ATATATATATTAAAAAT
1 ATATATATATTAAAAAT
* * *
24315422 ATATATATAATATATAT
1 ATATATATATTAAAAAT
24315439 ATATATATAT
1 ATATATATAT
24315449 AATTATAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATATATTAAAAAT
Found at i:24319754 original size:32 final size:32
Alignment explanation
Indices: 24319708--24319774 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
24319698 CACTTGCAGA
*
24319708 TCTGGTGCCGCGCCAGCTGCCG-TTCCTCTCTC
1 TCTGGTGCCGCGCCAGCCGCCGCTT-CTCTCTC
*
24319740 TCTGTTGCCGCGCCAGCCGCCGCTTCTCTCTC
1 TCTGGTGCCGCGCCAGCCGCCGCTTCTCTCTC
24319772 TCT
1 TCT
24319775 TTCTCCGTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.03, C:0.45, G:0.22, T:0.30
Consensus pattern (32 bp):
TCTGGTGCCGCGCCAGCCGCCGCTTCTCTCTC
Found at i:24319927 original size:60 final size:61
Alignment explanation
Indices: 24319857--24319992 Score: 141
Period size: 62 Copynumber: 2.2 Consensus size: 61
24319847 CCAGCCGCCG
* ** *
24319857 CTCCTCTCTCTCTTCCTCCGTTC-GATGCTCCTTCTTCTTG-CCGGCAGCAGAACACCTCTCC
1 CTCCT-TCTCTATTCCTCCGCCCAGAT-CTCCTTCCTCTTGACCGGCAGCAGAACACCTCTCC
** * * **
24319918 CTCCTTCTCTATTTTTCTGCCCAGCTCTCCTTCCTCTTGAACCGGCAGCAGAACGTCTCTCC
1 CTCCTTCTCTATTCCTCCGCCCAGATCTCCTTCCTCTTG-ACCGGCAGCAGAACACCTCTCC
24319980 CTCCTTCTCTATT
1 CTCCTTCTCTATT
24319993 TTTCTGCTCC
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
60 23 0.37
61 7 0.11
62 32 0.52
ACGTcount: A:0.11, C:0.42, G:0.12, T:0.35
Consensus pattern (61 bp):
CTCCTTCTCTATTCCTCCGCCCAGATCTCCTTCCTCTTGACCGGCAGCAGAACACCTCTCC
Found at i:24319970 original size:62 final size:60
Alignment explanation
Indices: 24319884--24319999 Score: 187
Period size: 62 Copynumber: 1.9 Consensus size: 60
24319874 CCGTTCGATG
*
24319884 CTCCTTCTTCTTGCCGGCAGCAGAACACCTCTCCCTCCTTCTCTATTTTTCTGCCCAGCT
1 CTCCTTCCTCTTGCCGGCAGCAGAACACCTCTCCCTCCTTCTCTATTTTTCTGCCCAGCT
**
24319944 CTCCTTCCTCTTGAACCGGCAGCAGAACGTCTCTCCCTCCTTCTCTATTTTTCTGC
1 CTCCTTCCTCTTG--CCGGCAGCAGAACACCTCTCCCTCCTTCTCTATTTTTCTGC
24320000 TCCTTGGTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
60 12 0.24
62 39 0.76
ACGTcount: A:0.12, C:0.41, G:0.12, T:0.35
Consensus pattern (60 bp):
CTCCTTCCTCTTGCCGGCAGCAGAACACCTCTCCCTCCTTCTCTATTTTTCTGCCCAGCT
Found at i:24324050 original size:2 final size:2
Alignment explanation
Indices: 24324043--24324076 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24324033 AGCATATGTG
24324043 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24324077 CTGTAGCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24326778 original size:1 final size:1
Alignment explanation
Indices: 24326738--24326767 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
24326728 CTCCTCCCAG
24326738 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24326768 CTAAGGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:24328025 original size:28 final size:28
Alignment explanation
Indices: 24327972--24328025 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
24327962 AGTAGTTGTA
*
24327972 ATTAAGTTTGCAGACATGCAACCAATAC
1 ATTAAGTTTGCAGACATACAACCAATAC
* *
24328000 ATTAAGTTTGCAGATATACAATCAAT
1 ATTAAGTTTGCAGACATACAACCAAT
24328026 CTACGAACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (28 bp):
ATTAAGTTTGCAGACATACAACCAATAC
Found at i:24329329 original size:2 final size:2
Alignment explanation
Indices: 24329322--24329350 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24329312 CATTTCCCAC
24329322 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24329351 TACATTACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24334032 original size:18 final size:17
Alignment explanation
Indices: 24333996--24334029 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24333986 AAAAAAAAAA
24333996 AAAGAGGGGAATCGGGG
1 AAAGAGGGGAATCGGGG
24334013 AAAGAGAGGGAA-CGGGG
1 AAAGAG-GGGAATCGGGG
24334030 GAAGGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.38, C:0.06, G:0.53, T:0.03
Consensus pattern (17 bp):
AAAGAGGGGAATCGGGG
Found at i:24334162 original size:19 final size:19
Alignment explanation
Indices: 24334140--24334177 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24334130 CTCCCTTCTC
*
24334140 CCTCTCTCTCTCCTCATTT
1 CCTCTCTCTCCCCTCATTT
*
24334159 CCTCTCTTTCCCCTCATTT
1 CCTCTCTCTCCCCTCATTT
24334178 TTTCTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.47, G:0.00, T:0.47
Consensus pattern (19 bp):
CCTCTCTCTCCCCTCATTT
Found at i:24340691 original size:336 final size:335
Alignment explanation
Indices: 24340064--24341187 Score: 1061
Period size: 336 Copynumber: 3.3 Consensus size: 335
24340054 TTTCACTACT
* * * * * *
24340064 TATCAAGCATGTTTTTTGGGTTGAAAATGTGGGTCCGTGATTTAAAGACCTACTTAAACTCTATT
1 TATCAAGCATGTCTTTTGGGTTAAAAATGTGGATCCATGATTTAAAGGCTTACTTAAACTCTATT
* * * * *
24340129 TTCAAAGCTTAAGGCCACGCGGGGTTGGGTTTAAGTTCCAACCCATGACATGTGGTATCA-AAGT
66 TTCAAAGCTTAAGGTCGCGCGGGGTTGGGCTTAAGTTCCAGCCCATGACATTTGGTATCAGAA-T
** * * * * * *
24340193 AGACCCAGATCTTTC-TTAATGTAGGGCCCCATGAGA-TATACAAGGGTCGAGATAAAC-CTAGA
130 AGACTTAAATCTTTCACTAATGTAGGG-CCCATAAGAGTATACAAGGGTCGAGGTAGACTCGA-A
* * ** * * * * *
24340255 TTAGTGTAAGAGTCCCTTTCCTTTACTGGTAAAGAGTTGGTGCAACAGAGACGTTGCACAATTGA
193 CTAGTGTAAGAGTCCCTCT-CTTTACAAGTAAAGAGCTAGTGCAACAGGGGCATTGCACAATTGA
* * * * *
24340320 GTAGGGTAGAATGTCACGGATCCCACATTCGTAAAAGATGGGGTATATCTTAGATATATAAACAT
257 GTAGGGTAAAATGTCACAGATCCCACATCCGTAAAAGATGGGGTAGATCTTGGATATATAAACAT
24340385 AGGTCTTCCACCACC
322 -GGTCTTCCACCACC
* * *
24340400 TATCAAGCATGTTTTTTGGGTTAAAAATGTGGGTCCATGATTTAAAGGCTTACATAAACTCTATT
1 TATCAAGCATGTCTTTTGGGTTAAAAATGTGGATCCATGATTTAAAGGCTTACTTAAACTCTATT
* * * *** * * *
24340465 TTCAAAACTTAAGATTGCGTAAGGTTGGGCTTAAGTTTCGGCCCATGACATTTAGTATCAGAATA
66 TTCAAAGCTTAAGGTCGCGCGGGGTTGGGCTTAAGTTCCAGCCCATGACATTTGGTATCAGAATA
*
24340530 GACTTAAAT-TTTCACTAATGTTAGGGCCCATAAAAGT-TACAAGGGTCGAGGTAGACTCGAACT
131 GACTTAAATCTTTCACTAATG-TAGGGCCCATAAGAGTATACAAGGGTCGAGGTAGACTCGAACT
* *
24340593 AGTGTAAGAGTCTCTCTCTTGTACAAGTAAAGAGCTAGTGCAATAGGGGCATTGCACAATTGAGT
195 AGTGTAAGAGTCCCTCTCTT-TACAAGTAAAGAGCTAGTGCAACAGGGGCATTGCACAATTGAGT
* * * * **
24340658 AGGGTAAAATGTCACAGATCCGACATCCGTAAAAGAAGAGGTAGATTTTGGATATATAATTATGG
259 AGGGTAAAATGTCACAGATCCCACATCCGTAAAAGATGGGGTAGATCTTGGATATATAAACATGG
*
24340723 ATCTTCTACCACC
324 -TCTTCCACCACC
* * * ** * * * *
24340736 TATCAAGTATGTCTTTTAGGTTGAAAATGTCAATCCGA-GATTTATAGGCTTATTTAAGCTATAT
1 TATCAAGCATGTCTTTTGGGTTAAAAATGTGGATCC-ATGATTTAAAGGCTTACTTAAACTCTAT
* * * * * **
24340800 TTTCAAAGTTTAAGGTCGCACGGGGTTGGGCTTAAGTTCCTGCCCATGACATTTGGTGTTAGAGC
65 TTTCAAAGCTTAAGGTCGCGCGGGGTTGGGCTTAAGTTCCAGCCCATGACATTTGGTATCAGAAT
* * * * * * *
24340865 A-A-TTATGAATCTTT-ACTGATGTATGG-CCTTATGAGATATACAAAGGTCGAAGTAGACTTGA
130 AGACTTA--AATCTTTCACTAATGTAGGGCCCATAAGAG-TATACAAGGGTCGAGGTAGACTCGA
* * * ** *
24340926 ACTAGTGTAAGAATCCCTCTCTTCTACGAGTAAAGAGCCAGAACAACAGGGGCATTACACAATTG
192 ACTAGTGTAAGAGTCCCTCTCTT-TACAAGTAAAGAGCTAGTGCAACAGGGGCATTGCACAATTG
* * * * * *
24340991 GGTGGGGTAAAATGTCA-TGAATCCCACATCAGTAAGAA-ATGGGGTGGGTCTTGGATATATAAA
256 AGTAGGGTAAAATGTCACAG-ATCCCACATCCGTAA-AAGATGGGGTAGATCTTGGATATATAAA
*
24341054 CATTGGTCTTCCACCATC
319 CA-TGGTCTTCCACCACC
* * * * *
24341072 TATCAAGCATGTCTTTTGAGTTAAGAATATGGACCCATGATTTATAA-GCTTACTTAAGCTCTAT
1 TATCAAGCATGTCTTTTGGGTTAAAAATGTGGATCCATGATTTA-AAGGCTTACTTAAACTCTAT
* ** * * * * *
24341136 TTTCAAAGCTTAAGGCCGCATGAGGCTGGACTTAAGTTCCAACCCGTGACAT
65 TTTCAAAGCTTAAGGTCGCGCGGGGTTGGGCTTAAGTTCCAGCCCATGACAT
24341188 AACATGGGTT
Statistics
Matches: 640, Mismatches: 130, Indels: 36
0.79 0.16 0.04
Matches are distributed among these distances:
334 9 0.01
335 17 0.03
336 594 0.93
337 20 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (335 bp):
TATCAAGCATGTCTTTTGGGTTAAAAATGTGGATCCATGATTTAAAGGCTTACTTAAACTCTATT
TTCAAAGCTTAAGGTCGCGCGGGGTTGGGCTTAAGTTCCAGCCCATGACATTTGGTATCAGAATA
GACTTAAATCTTTCACTAATGTAGGGCCCATAAGAGTATACAAGGGTCGAGGTAGACTCGAACTA
GTGTAAGAGTCCCTCTCTTTACAAGTAAAGAGCTAGTGCAACAGGGGCATTGCACAATTGAGTAG
GGTAAAATGTCACAGATCCCACATCCGTAAAAGATGGGGTAGATCTTGGATATATAAACATGGTC
TTCCACCACC
Found at i:24341322 original size:136 final size:136
Alignment explanation
Indices: 24341071--24341323 Score: 330
Period size: 136 Copynumber: 1.9 Consensus size: 136
24341061 CTTCCACCAT
* * *
24341071 CTATCAAGCATGTCTTTTGAGTTAAGAATATGGACCCATGATTTATAAGCTTACTTAAGCTCTAT
1 CTATAAAGCATGTCTTTTGAGTTAAGAACATGGACCCATGATTTATAAACTTACTTAAGCTCTAT
* *
24341136 TTTCAAAGCTTAAGGCCGCATGAGGCTGGACTTAAGTTCCAACCCGTGACATAACATGGGTTTTC
66 TTTCAAAGCTTAAGGCCGCACGAGGCTGGACTTAAGTTCCAACCCATGACATAACATGGGTTTTC
24341201 CCTCAC
131 CCTCAC
* ** * * * *
24341207 CTATAAAGCATGTCTTTTGGGTTGGGAACATGGGCGCGTGATTTATAAACTT-CTTTAAGCTTTA
1 CTATAAAGCATGTCTTTTGAGTTAAGAACATGGACCCATGATTTATAAACTTAC-TTAAGCTCTA
* * **
24341271 TTTTCAAAGCTTAAGGCTGCACGAGGTTAGG-CTTAAGTTCCAACTTATGACAT
65 TTTTCAAAGCTTAAGGCCGCACGAGGCT-GGACTTAAGTTCCAACCCATGACAT
24341324 TTGGTATAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
135 1 0.01
136 96 0.97
137 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (136 bp):
CTATAAAGCATGTCTTTTGAGTTAAGAACATGGACCCATGATTTATAAACTTACTTAAGCTCTAT
TTTCAAAGCTTAAGGCCGCACGAGGCTGGACTTAAGTTCCAACCCATGACATAACATGGGTTTTC
CCTCAC
Found at i:24342535 original size:21 final size:21
Alignment explanation
Indices: 24342500--24342580 Score: 65
Period size: 23 Copynumber: 3.6 Consensus size: 21
24342490 TTATTTTTAT
24342500 CAAAAGATGAAAATACTTATAC
1 CAAAAGAT-AAAATACTTATAC
24342522 CAAAAGATAAAATACCCTTA-AC
1 CAAAAGATAAAATA--CTTATAC
* * *
24342544 AAAAATATAATAAAATATTTATAC
1 -CAAA-A-GATAAAATACTTATAC
*
24342568 CAAAAGATTAAAT
1 CAAAAGATAAAAT
24342581 TACCCGTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
21 12 0.26
22 11 0.23
23 13 0.28
24 3 0.06
25 8 0.17
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.25
Consensus pattern (21 bp):
CAAAAGATAAAATACTTATAC
Found at i:24345649 original size:25 final size:25
Alignment explanation
Indices: 24345611--24345658 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
24345601 AAGAATTCAA
24345611 AATTGGATATTATAAATTAAAAAAAT
1 AATTGGATATTATAAA-TAAAAAAAT
* *
24345637 AATT-GATTTTATATATAAAAAA
1 AATTGGATATTATAAATAAAAAA
24345659 TAACTATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 9 0.45
26 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (25 bp):
AATTGGATATTATAAATAAAAAAAT
Done.