Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold39
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: 4724573
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 178835 characters in sequence are not A, C, G, or T
File 27 of 27
Found at i:4605671 original size:51 final size:51
Alignment explanation
Indices: 4605610--4605753 Score: 175
Period size: 51 Copynumber: 2.8 Consensus size: 51
4605600 AAATAACGGG
* *
4605610 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGGA
** *
4605661 GTTGGAGTATCCCCGATTGTGGTAAATCT-ATGCTTT-AGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAAT-TGATGTTTTGA-AAATAAAATCGGA
* ** *
4605712 GTTGAAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAAT
4605754 GGAACTGGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
50 2 0.03
51 74 0.96
52 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGGA
Found at i:4607058 original size:20 final size:19
Alignment explanation
Indices: 4607033--4607139 Score: 100
Period size: 20 Copynumber: 5.7 Consensus size: 19
4607023 AAAATGCCTG
*
4607033 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
4607053 AATGTATCGATACAATGAGT
1 AATGTATCGATACAATGA-A
*
4607073 AATGTATTGATAC------
1 AATGTATCGATACAATGAA
*
4607086 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
4607106 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
4607126 AATGTATCGATACA
1 AATGTATCGATACA
4607140 TCTAGGTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
13 12 0.16
19 1 0.01
20 59 0.81
21 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:4607095 original size:33 final size:33
Alignment explanation
Indices: 4607053--4607122 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
4607043 TACATTGTAA
* *
4607053 AATGTATCGATACAATGAGTAATGTATTGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
4607086 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
4607119 AATG
1 AATG
4607123 CAAAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:4607095 original size:53 final size:53
Alignment explanation
Indices: 4607033--4607139 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 53
4607023 AAAATGCCTG
* * *
4607033 AATGTATCGATACATTGTA-AAATGTATCGATACAATG-AGTAATGTATTGATAC
1 AATGTATCGATACAATG-AGAAATGTATCGATACAATGCA-AAATGTATCGATAC
*
4607086 AATGTATCGATACAATGAGCAATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAC
4607139 A
1 A
4607140 TCTAGGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
52 1 0.02
53 46 0.96
54 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (53 bp):
AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAC
Found at i:4607121 original size:13 final size:13
Alignment explanation
Indices: 4607073--4607102 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4607063 TACAATGAGT
*
4607073 AATGTATTGATAC
1 AATGTATCGATAC
4607086 AATGTATCGATAC
1 AATGTATCGATAC
4607099 AATG
1 AATG
4607103 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:4607173 original size:13 final size:13
Alignment explanation
Indices: 4607155--4607184 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4607145 GTAAACCTAG
*
4607155 AATGTATCGATAT
1 AATGTATCGATAC
4607168 AATGTATCGATAC
1 AATGTATCGATAC
4607181 AATG
1 AATG
4607185 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:4607880 original size:41 final size:40
Alignment explanation
Indices: 4607748--4607881 Score: 110
Period size: 41 Copynumber: 3.2 Consensus size: 40
4607738 AGACTTTAGG
* * * *
4607748 AGGGGAAAGAAATGGAAGGAGTGTCCCACTTTTTGAGGACAA
1 AGGGAAAAGAAAAGGAA--AGTGTCCTACTTCTTGAGGACAA
* * * * *
4607790 A-GGAAAAGAGAATGAAA-TAGGTCTTGCTCCTTGAGGACAA
1 AGGGAAAAGAAAAGGAAAGT--GTCCTACTTCTTGAGGACAA
*
4607830 AGGAAAAAAGAAAAGGAAAGTGTCCTACTTCTTGAGGACAA
1 AGG-GAAAAGAAAAGGAAAGTGTCCTACTTCTTGAGGACAA
4607871 AGTGGAAAAGA
1 AG-GGAAAAGA
4607882 GCACGTCCTG
Statistics
Matches: 70, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 16 0.23
41 37 0.53
42 14 0.20
43 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (40 bp):
AGGGAAAAGAAAAGGAAAGTGTCCTACTTCTTGAGGACAA
Found at i:4607950 original size:42 final size:43
Alignment explanation
Indices: 4607885--4608049 Score: 169
Period size: 42 Copynumber: 3.8 Consensus size: 43
4607875 GAAAAGAGCA
* *
4607885 CGTCCTGCT-TTTCGAGGATAAAAGAAAAAAGGAAAATAAAATG
1 CGTCCTGCTCTTT-GAGGACAAAAGAAAAAAGGAAAATAAAGTG
* *
4607928 -GTCTTGCTCTTTGAGGACAAAAG-AAAGAGGAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAAAATAAAGTG
* * *
4607969 CGTCCTGCGCTTTGAGGACAAAAGAGAAAAGAAGG-GAATGAAGTG
1 CGTCCTGCTCTTTGAGGAC-AAA-AGAAAA-AAGGAAAATAAAGTG
* *
4608014 TGTCCTACTCTTTGAGGAC-AAAGAAGAAAAGGAAAA
1 CGTCCTGCTCTTTGAGGACAAAAGAA-AAAAGGAAAA
4608050 GGCATCTTGC
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
41 16 0.16
42 41 0.41
43 12 0.12
44 2 0.02
45 27 0.27
46 3 0.03
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.19
Consensus pattern (43 bp):
CGTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAAAATAAAGTG
Found at i:4608019 original size:45 final size:44
Alignment explanation
Indices: 4607898--4608044 Score: 133
Period size: 45 Copynumber: 3.4 Consensus size: 44
4607888 CCTGCTTTTC
* * * * * *
4607898 GAGGATAAA-AGAAAAAAGGAAAATAAAATG-GTCTTGCTCTTT
1 GAGGACAAAGAGAAAAGAGGAAAATAAAGTGCGTCCTACGCTTT
*
4607940 GAGGACAAA-AG-AAAGAGGAAAATAAAGTGCGTCCTGCGCTTT
1 GAGGACAAAGAGAAAAGAGGAAAATAAAGTGCGTCCTACGCTTT
* * * *
4607982 GAGGACAAAAGAGAAAAGAAGG-GAATGAAGTGTGTCCTACTCTTT
1 GAGGAC-AAAGAGAAAAG-AGGAAAATAAAGTGCGTCCTACGCTTT
4608027 GAGGACAAAGAAGAAAAG
1 GAGGACAAAG-AGAAAAG
4608045 GAAAAGGCAT
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
41 16 0.18
42 26 0.29
43 3 0.03
44 6 0.07
45 35 0.39
46 3 0.03
ACGTcount: A:0.45, C:0.10, G:0.27, T:0.18
Consensus pattern (44 bp):
GAGGACAAAGAGAAAAGAGGAAAATAAAGTGCGTCCTACGCTTT
Found at i:4608112 original size:62 final size:62
Alignment explanation
Indices: 4608039--4608443 Score: 487
Period size: 61 Copynumber: 6.6 Consensus size: 62
4608029 GGACAAAGAA
* * *
4608039 GAAAAGGAAAAGGCATCTTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
* *** * * *
4608101 GAAAAGAAAAA-GCGTCCTGCTTTTTGAGGACTGGTAGGTGCCACCAACTTGTATGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
** * *
4608162 GAAAAGAAAAAGGTATCCTGCTCTTTGAAGACT-AAAAGTGCCACCAACTCATGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
* * *
4608223 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
* * * * * *
4608285 AAAAAGGAAAAGGTGTCTTGCTCCTTGAGGACT-AAATGTGTCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTG-CCACCAACTCGTGTGGGCTTT
* * * **
4608347 GAAAAGAATAAGGCGTCCTACTTTTTGAGGACTAAAGCGTGCCACCAACTCGTGTGGGC-TT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
* *
4608408 GAAAAGAAAAAGGCATCCTACT-TCTTGAGGACTAAA
1 GAAAAGAAAAAGGCGTCCTGCTCT-TTGAGGACTAAA
4608444 GGGAAAAGAA
Statistics
Matches: 295, Mismatches: 43, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
60 1 0.00
61 145 0.49
62 144 0.49
63 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (62 bp):
GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
Found at i:4608184 original size:123 final size:121
Alignment explanation
Indices: 4608039--4608443 Score: 535
Period size: 123 Copynumber: 3.3 Consensus size: 121
4608029 GGACAAAGAA
* *
4608039 GAAAAGGAAAAGGCATCTTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTCGTGTGGGCTTTGAA
** *
4608104 AAGAAAAAGCGTCCTGCTTTTTGAGGACTGGTAGGTGCCACCAACTTGTATGGGCTTT
65 AAGAAAAAGCGTCCTGCTTTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
4608162 GAAAAGAAAAAGGTATCCTGCTCTTTGAAGACTAAAAGTGCCACCAACTCATGTGGGCTTTGAAA
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTGAAA
* *
4608227 AGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
66 AGAAAAA-GCGTCCTGCTTTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * ** * * *
4608285 AAAAAGGAAAAGGTGTCTTGCTCCTTGAGGACTAAATGTGTCCACCAACTCGTGTGGGCTTTGAA
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGTG-CCACCAACTCGTGTGGGCTTTGAA
* * *
4608350 AAGAATAAGGCGTCCTACTTTTTGAGGACTAAAGCGTGCCACCAACTCGTGTGGGC-TT
65 AAGAA-AAAGCGTCCTGCTTTTTGAGGACTAAAG-GTGCCACCAACTTGTGTGGGCTTT
*
4608408 GAAAAGAAAAAGGCATCCTACT-TCTTGAGGACTAAA
1 GAAAAGAAAAAGGCATCCTGCTCT-TTGAGGACTAAA
4608444 GGGAAAAGAA
Statistics
Matches: 246, Mismatches: 31, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
122 38 0.15
123 140 0.57
124 66 0.27
125 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (121 bp):
GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTGAAA
AGAAAAAGCGTCCTGCTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:4608702 original size:45 final size:43
Alignment explanation
Indices: 4608432--4608749 Score: 320
Period size: 44 Copynumber: 7.2 Consensus size: 43
4608422 ATCCTACTTC
* *
4608432 TTGAGGACTAAAGG-GAAAAGAAGGAAATGAAGTGCGTCCTGCTCT
1 TTGAGGAC-AAAGGAGAAAAG--GAAAATAAAGTGCGTCCTGCTCT
*
4608477 TTGAGGACAAAAGGAGAAAA-GAAGGGAATGGAACGT--GTCCTGCTCT
1 TTGAGGAC-AAAGGAGAAAAGGAA---AAT--AAAGTGCGTCCTGCTCT
* * * *
4608523 TTGAGGACAATGGAGAAAAGGAAAATAGAGTGCGTCCTTCTTTT
1 TTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGC-TCT
* *
4608567 TTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTACTTTT
1 TTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGC-TCT
*
4608611 TTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCATCCTGCTCT
1 TTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCT
* ** *
4608654 TTGAGGACAAAGGGGAAAAAAAAGAAATGAAGTGCGTCCTGCTCT
1 TTGAGGACAAAGGAG-AAAAGGA-AAATAAAGTGCGTCCTGCTCT
* * * *
4608699 TTGAGGACAAGGGGGAAGAGGAAAATAAAGTGCGTCCTACTCT
1 TTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCT
*
4608742 TTGTGGAC
1 TTGAGGAC
4608750 TAGGAGGTGC
Statistics
Matches: 234, Mismatches: 27, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
41 3 0.01
43 53 0.23
44 90 0.38
45 56 0.24
46 29 0.12
48 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (43 bp):
TTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCT
Found at i:4608855 original size:62 final size:62
Alignment explanation
Indices: 4608725--4609091 Score: 432
Period size: 62 Copynumber: 6.0 Consensus size: 62
4608715 AGAGGAAAAT
* * * * *
4608725 AAAGTGCGTCCTACTCTTTGTGGACTAG-GAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
1 AAAG-GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA
*
4608788 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTTAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
4608850 GAAGGCGTCCTGCTCTTTGAGGACTGGGAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GG--A
* * *
4608914 AAATGTGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG--A
* * * *
4608977 AAAGGCATCCTACTCTTTGGGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTT---A--A
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
4609032 AAA-GCGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTCTGGGCTTTAAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
4609092 CGTCCTGCTT
Statistics
Matches: 265, Mismatches: 27, Indels: 26
0.83 0.08 0.08
Matches are distributed among these distances:
54 17 0.06
55 4 0.02
56 26 0.10
59 2 0.01
61 26 0.10
62 84 0.32
63 56 0.21
64 50 0.19
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (62 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:4609069 original size:56 final size:55
Alignment explanation
Indices: 4608975--4609114 Score: 183
Period size: 56 Copynumber: 2.5 Consensus size: 55
4608965 TTTAAAAGGA
* * * * *
4608975 AAAAAGGCATCCTACTCTTTGGGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAA-GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTCTGGGCTTT
*
4609030 AAAAAGCGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTCTGGGCTTT
1 AAAAAGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTCTGGGCTTT
* *
4609086 AAAAGGCGTCCTGCTTTTTGAGGACTAAA
1 AAAAAGCGTCCTGCTCTTTGAGGACTAAA
4609115 GGGCGAAAGG
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
54 17 0.23
55 7 0.09
56 50 0.68
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (55 bp):
AAAAAGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTCTGGGCTTT
Found at i:4609306 original size:60 final size:60
Alignment explanation
Indices: 4609130--4610082 Score: 1009
Period size: 55 Copynumber: 16.4 Consensus size: 60
4609120 AAAGGAGAGA
* *
4609130 GCGTCCTGCTCTTTGAGGATTGAGAA-GTGCCACCAACTTGTGTGGGCTATAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCT-TTAAAAGAAAAG
* * * *
4609191 GCATCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTCTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
4609252 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAG
* * *
4609312 GCATCCTGCTCTTTGAGGACT-AAAGGTACCACCAACTTCTGTGGGCTTT---A-AAAA-
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
* * *
4609366 GCATCCTGCTCTTTGAGGACT-AAAGGTACCACCAACTTCTGTGGGCTTT---A-AAAA-
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
* *
4609420 GCATCCTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTTGTGTAGGCTTT-----AAAAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
* ** * *
4609475 GCGTCCTGCTCTTTGAGGACTAAAAATTGCCACAAATTTGTGTGGGCTTT----G-AAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
* * * ** *
4609530 GTGTCCTGCCCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAACAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
* * *
4609592 GCGTCCTACTCTTTAAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAG
1 GCGTCCTGCTCTTTGAGGACTGAA-AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
4609647 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
** *
4609702 ATGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
* * *
4609763 GCATCTTACTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
*
4609823 GCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT----G-AAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
4609878 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
* * *
4609939 GCGTGCTGCTCTTTAAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAA
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAAG
* * * *
4610001 ACGTCCTGCTCTTTGAGGACGAGAAAAGTGCCACTAACTTGTGTGGGCTTT-----AAAAG
1 GCGTCCTGCTCTTTGAGGAC-TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
*
4610057 GCGTTCTGCTCTTTGAGGACT-AAAGG
1 GCGTCCTGCTCTTTGAGGACTGAAAGG
4610083 GCGAAAGGAG
Statistics
Matches: 790, Mismatches: 65, Indels: 81
0.84 0.07 0.09
Matches are distributed among these distances:
54 88 0.11
55 239 0.30
56 53 0.07
57 1 0.00
59 6 0.01
60 169 0.21
61 162 0.21
62 46 0.06
64 26 0.03
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (60 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
Found at i:4610583 original size:61 final size:59
Alignment explanation
Indices: 4610099--4610927 Score: 865
Period size: 55 Copynumber: 14.4 Consensus size: 59
4610089 GGAGAGAGCA
* * *
4610099 TCCTACTCTTTGAGGACTGTGAA-GTGCCACCAACTTGTGTGGGCTTT---A-AAAGGTG
1 TCCTGCTCTTTGAGGACTG-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
* * * ** *
4610154 TCCTGCTTTTTAAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT----GAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
* * **
4610209 TCCTGCTCTTTGAAGACTAAAAAAATGCCACCAACTTGTGTGGGCTTT----GAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
*
4610265 TCCTGCTCTTTGAGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTT----GAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
* * *
4610320 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTATATGGGCTTT----GAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
* *
4610375 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAGGCG
*
4610435 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT----GAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
* * *
4610489 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTATGGGCTTTAAAAAGAAAATGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAGGCG
* *
4610550 TCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGACG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAGGCG
4610611 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAGGCG
* * * * *
4610671 TCGTACTCTTTGAGTACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT----GAAACGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
4610726 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAGGCG
* * * *
4610787 TCCTACTCTTTGAGGACT-AAAGGTGCCACCAACTTATGTGGGGTTTAAAAAGAAAAAAAGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG---AAAGGCG
* * *
4610849 TCCTGCTTTTTGAGGACGAGAAAAGTGCCACCAACTTGTGTGGGCTTT---A-AAAGGCG
1 TCCTGCTCTTTGAGGAC-TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
*
4610905 TCCTGCTCTTTGAAGACT-AAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
4610928 GTGAAAGGAG
Statistics
Matches: 680, Mismatches: 64, Indels: 61
0.84 0.08 0.08
Matches are distributed among these distances:
54 32 0.05
55 255 0.38
56 76 0.11
59 31 0.05
60 110 0.16
61 127 0.19
62 24 0.04
64 25 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
Found at i:4610655 original size:176 final size:169
Alignment explanation
Indices: 4610099--4610927 Score: 983
Period size: 176 Copynumber: 4.8 Consensus size: 169
4610089 GGAGAGAGCA
* * * * *
4610099 TCCTACTCTTTGAGGACTGTGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTTT
1 TCCTGCTCTTTGAGGAC--TAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* * * * *
4610163 TTAAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAAGACTA
64 TTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-
* **
4610228 AAAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
128 GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
4610265 TCCTGCTCTTTGAGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTT
1 TCCTGCTCTTTGAGGAC-TAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * *
4610330 TGAGGACT-GAAAGGTGCCACCAACTTATATGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTG
65 TGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
*
4610394 AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGCG
129 AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
4610435 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTT
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
* * *
4610500 GAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTAAAAAGAAAATGCGTCCTGCTCTTTGAGG
66 GAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTTTGAGG
* *
4610565 ACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGACG
125 ACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* *
4610611 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCGTA
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTG
* * * *
4610676 CTCTTTGAGTACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAACGCGTCCTGCTCTTTGAGG
60 CTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
4610741 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
125 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * * *
4610787 TCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGGTTTAAAAAGAAAAAAAGCGTCC
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-----G---AAAGGCGTCC
* * *
4610852 TGCTTTTTGAGGACGAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
58 TGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
*
4610917 AAGACT-AAAGG
122 AGGACTGAAAGG
4610928 GTGAAAGGAG
Statistics
Matches: 585, Mismatches: 52, Indels: 40
0.86 0.08 0.06
Matches are distributed among these distances:
165 32 0.05
166 105 0.18
169 76 0.13
170 26 0.04
174 1 0.00
175 50 0.09
176 170 0.29
177 1 0.00
178 26 0.04
179 49 0.08
181 1 0.00
182 48 0.08
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (169 bp):
TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
GAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAA
AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:4610666 original size:845 final size:839
Alignment explanation
Indices: 4609255--4611700 Score: 3498
Period size: 845 Copynumber: 2.9 Consensus size: 839
4609245 GGAAAAGGCG
* * *
4609255 TCCTGCTCTTTGAGGAC--TAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 TCCTACTCTTTGAGGACTGTGAA-GTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCC
** * * * *
4609318 TGCTCTTTGAGGACT-AAAGGTACCACCAACTTCTGTGGGCTTTAAAAAGCATCCTGCTCTTTGA
59 TGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGA
** * * * * *
4609382 GGACT--AAAGGTACCACCAACTTCTGTGGGCTTTAAAAAGCATCCTGCTCTTTGAGGACTGAGA
124 GGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACGGA-A
* * * * * *
4609445 AGTGCCACCAACTTGTGTAGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAAATTGCCACAA
188 AGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACT-GAAAGTGCCACCA
* * * * *
4609510 ATTTGTGTGGGCTTTGAAAGGTGTCCTGCCCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTG
252 ATTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACT-AGAAAGTGCCACCAACTTGTGTG
* * * *
4609575 GGCTTTAAAAACAAAAGGCGTCCTACTCTTTAAGGACTAAGAAGTGCCACCAACTTGTGTGGGCT
316 GGCTTT-AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCT
*
4609640 TTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG--A
379 TTGAAAGGCGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTATGGGCTTT-AAAGAAA
* *
4609703 T--GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAAGAAAAGGCA
442 TGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
* *
4609766 TCTTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTG
507 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTG
4609831 CTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
572 CTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
* * *
4609896 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTGCTGCTCTTTAAGGACTA
637 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTACTCTTTGAGGACTA
*
4609961 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAACGTCCTGCTCTTTGAGGACGAGAA
702 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGCGTCCTGCTCTTTGAGGACGAGAA
* * *
4610026 AAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCGTTCTGCTCTTTGAGGACTAAAGGGCGAAAGG
767 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAAGACTAAAGGGCGAAAGG
4610091 AGAGAGCA
832 AGAGAGCA
* *
4610099 TCCTACTCTTTGAGGACTGTGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTTTT
1 TCCTACTCTTTGAGGACTGTGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
* *
4610164 TAAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAAGACTAA
66 TGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAA
*
4610229 AAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACGGAAAGGTGCCA
131 AAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACGGAAA-GTGCCA
* * *
4610294 CCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTATA
195 CCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTGAAA-GTGCCACCAATTTGTG
4610359 TGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTA
259 TGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTA
* *
4610423 AAAGAAAATGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGT
323 AAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
*
4610488 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTAAAAAGAAAATGCGTCC
388 GTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTATGGGCTTT--AAAG-AAATGCGTCC
* *
4610553 TGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGACGTCCTGC
449 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGC
* *
4610617 TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCGTACTCTTT
513 TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTT
* *
4610682 GAGTACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAACGCGTCCTGCTCTTTGAGGACTGAA
578 GAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAA
4610747 AGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAAAGGTG
643 AGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAAAGGTG
* * *
4610812 CCACCAACTTATGTGGGGTTTAAAAAGAAAAAAAGCGTCCTGCTTTTTGAGGACGAGAAAAGTGC
708 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGCGTCCTGCTCTTTGAGGACGAGAAAAGTGC
*
4610877 CACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAAGACTAAAGGGTGAAAGGAGAGAG
773 CACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAAGACTAAAGGGCGAAAGGAGAGAG
*
4610942 CG
838 CA
*
4610944 TCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTACTCTTTGAGGACTGTGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
4611009 TGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAA
66 TGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAA
* * * *
4611074 AAAAATGCCACCAATTTGTGTGGGCTTTAAAAAGAAAAGACACCCTGCTCTTTGAGGACTGGGAA
131 AAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCATCCTGCTCTTTGAGGAC-GGAAA
*
4611139 GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAA
189 GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACT-GAAAGTGCCACCAA
* ** * * *
4611204 TTTGTGTGGGCTTTGAAAGGCGTCATGCTCTTTTTGGACTGGGAAGTGCCACCAACTTGTGTAGG
253 TTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAGAAAGTGCCACCAACTTGTGTGGG
4611269 CTTT----G-AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
318 CTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTG
* *** *
4611329 AAAGGCGTCCTGCTCTTTAAGGACTGAAAGTTTTTACCAACTTGTATGGGCTTT---GAAAGGCG
382 AAAGGCGTCCTGCTCTTTGAGGACTGAAAG-TGCCACCAACTTGTATGGGCTTTAAAGAAATGCG
4611391 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCT
446 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCT
*
4611456 GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGTGTCCTGCTCT
511 GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCT
* * *
4611515 TTGAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTAAAAAGAAAAGGTGTCCTGCTCTTTGA
576 TTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTTTGA
*
4611580 GGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTACTCTTTGAGGA
635 GGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTACTCTTTGAGGA
* * * *
4611638 CTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCATCCTACTCTTTGAGGAC
699 CTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGCGTCCTGCTCTTTGAGGAC
4611701 TGGAAGGGCT
Statistics
Matches: 1456, Mismatches: 111, Indels: 79
0.88 0.07 0.05
Matches are distributed among these distances:
835 127 0.09
836 2 0.00
839 95 0.07
840 90 0.06
841 182 0.12
842 141 0.10
843 2 0.00
844 16 0.01
845 545 0.37
846 34 0.02
847 73 0.05
850 1 0.00
851 138 0.09
852 10 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (839 bp):
TCCTACTCTTTGAGGACTGTGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
TGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAA
AAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACGGAAAGTGCCAC
CAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTGAAAGTGCCACCAATTTGTGTG
GGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
GAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
CTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTATGGGCTTTAAAGAAATGCGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAG
GACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG
GGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
CCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAAC
TTGTGTGGGCTTTAAAAAGAAAAAAAGCGTCCTGCTCTTTGAGGACGAGAAAAGTGCCACCAACT
TGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAAGACTAAAGGGCGAAAGGAGAGAGCA
Found at i:4610891 original size:64 final size:60
Alignment explanation
Indices: 4610372--4610900 Score: 615
Period size: 61 Copynumber: 8.9 Consensus size: 60
4610362 GCTTTGAAAG
* *
4610372 GCGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAT
1 GCGTCCTGCTCTTTGAGGAC-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
* *
4610432 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
1 GCGTCCTGCTCTTTGAGGACGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
* * * *
4610486 GTGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTATGGGCTTTAAAAAGAAAAT
1 GCGTCCTGCTCTTTGAGGAC--GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
*
4610547 GCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAAA
1 GCGTCCTGCTCTTTGAGGAC--GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
* *
4610607 GACGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 G-CGTCCTGCTCTTTGAGGACGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
* * * * *
4610668 GCGTCGTACTCTTTGAGTACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAC
1 GCGTCCTGCTCTTTGAGGAC--GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
*
4610723 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGAC-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
* * * *
4610784 GCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGGTTTAAAAAGAAAAAAA
1 GCGTCCTGCTCTTTGAGGACGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG--AAAAA
* *
4610846 GCGTCCTGCTTTTTGAGGACGAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 GCGTCCTGCTCTTTGAGGAC--GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
4610901 GGCGTCCTGC
Statistics
Matches: 407, Mismatches: 38, Indels: 44
0.83 0.08 0.09
Matches are distributed among these distances:
54 25 0.06
55 68 0.17
56 3 0.01
59 30 0.07
60 103 0.25
61 125 0.31
62 24 0.06
64 29 0.07
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (60 bp):
GCGTCCTGCTCTTTGAGGACGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
Found at i:4610981 original size:94 final size:95
Alignment explanation
Indices: 4610845--4611019 Score: 291
Period size: 94 Copynumber: 1.9 Consensus size: 95
4610835 AAAGAAAAAA
* *
4610845 AGCGTCCTGCTTTTTGAGGACGAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTG
1 AGCGTCCTACTCTTTGAGGACGAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTG
4610910 CTCTTTGAAGACTAAAGGGTGAAAGGAGAG
66 CTCTTTGAAGACTAAAGGGTGAAAGGAGAG
*
4610940 AGCGTCCTACTCTTTGAGGACTG-G-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCT
1 AGCGTCCTACTCTTTGAGGAC-GAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCT
*
4611003 GCTCTTTGAGGACTAAA
65 GCTCTTTGAAGACTAAA
4611020 AAATGCCACC
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
94 54 0.72
95 20 0.27
96 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (95 bp):
AGCGTCCTACTCTTTGAGGACGAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTG
CTCTTTGAAGACTAAAGGGTGAAAGGAGAG
Found at i:4611027 original size:55 final size:55
Alignment explanation
Indices: 4610941--4611667 Score: 870
Period size: 55 Copynumber: 12.9 Consensus size: 55
4610931 AAAGGAGAGA
* ** *
4610941 GCGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
4610996 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
4611051 GCATCCTGCTCTTTGAGGACTAAAAAAATGCCACCAATTTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* ** **
4611113 ACACCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
4611168 GCGTCCTACTCTTTGAGGACT-AGGAAGTGCCACCAATTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* ** ** *
4611223 GCGTCATGCTCTTTTTGGACTGGGAAGTGCCACCAACTTGTGTAGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
4611278 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *** *
4611333 GCGTCCTGCTCTTTAAGGACTG-AAAGTTTTTACCAACTTGTATGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTTGAAAG
*
4611388 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
*
4611449 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
4611503 GTGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTATGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* **
4611564 GTGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
4611619 GCGTCCTACTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
4611668 AAAAAGAAAA
Statistics
Matches: 590, Mismatches: 57, Indels: 51
0.85 0.08 0.07
Matches are distributed among these distances:
54 54 0.09
55 349 0.59
56 33 0.06
60 30 0.05
61 101 0.17
62 23 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:4611549 original size:115 final size:115
Alignment explanation
Indices: 4610941--4611702 Score: 965
Period size: 110 Copynumber: 6.7 Consensus size: 115
4610931 AAAGGAGAGA
* * *
4610941 GCGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGT
* *
4611000 CCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
66 CCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * * * *
4611051 GCATCCTGCTCTTTGAGGACTAAAAAAATGCCACCAATTTGTGTGGGCTTTAAAAAGAAAAGACA
1 GCGTCCTGCTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
* *
4611116 CCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
65 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
4611168 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAATTTGTGTGGGCTTT-----G-AAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGT
* ** * *
4611227 CATGCTCTTTTTGGACTGGGAAGTGCCACCAACTTGTGTAGGCTTTGAAAG
66 CCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
4611278 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
1 GCGTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
* *** *
4611336 TCCTGCTCTTTAAGGACTGAAAGTTTTTACCAACTTGTATGGGCTTTGAAAG
65 TCCTGCTCTTTGAGGACTGAAAG-TGCCACCAACTTGTGTGGGCTTTGAAAG
4611388 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
1 GCGTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
4611452 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
65 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
4611503 GTGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTAAAAAGAAAAGGTGT
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGT
*
4611568 CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
66 CCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
4611619 GCGTCCTACTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAG--AAAAGGC
* *
4611683 ATCCTACTCTTTGAGGACTG
64 GTCCTGCTCTTTGAGGACTG
4611703 GAAGGGCTAA
Statistics
Matches: 576, Mismatches: 55, Indels: 36
0.86 0.08 0.05
Matches are distributed among these distances:
109 7 0.01
110 210 0.36
111 25 0.04
115 133 0.23
116 104 0.18
117 97 0.17
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (115 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGT
CCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:4617935 original size:51 final size:51
Alignment explanation
Indices: 4617879--4617992 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 51
4617869 ACAACGAGGC
* ** *
4617879 TGGAGTATCCCCAATTATGGAAAATTGGTGTTCCAG-AAATAAAATCGGGGT
1 TGGAGTATCCCCAATTATAGAAAATCAGTATT-CAGAAAATAAAATCGGGGT
** **
4617930 TGGAGTATCCCTGATTATAGAAAATCAGTATTTTGAAAATAAAATCGGGGT
1 TGGAGTATCCCCAATTATAGAAAATCAGTATTCAGAAAATAAAATCGGGGT
*
4617981 TAGAGTATCCCC
1 TGGAGTATCCCC
4617993 GCAAAAATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 1 0.02
51 51 0.98
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
TGGAGTATCCCCAATTATAGAAAATCAGTATTCAGAAAATAAAATCGGGGT
Found at i:4618055 original size:79 final size:79
Alignment explanation
Indices: 4617924--4618071 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 79
4617914 GAAATAAAAT
* *
4617924 CGGGGTTGGAGTATCCCTGATTATAGAAAATCAGTATTTTGAAAATAAAATCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATAGAAAATCAGTATTTTGAAAATAAAATCGGAGTTAGAGTAT
4617989 CCCCGCAAAAATAA
66 CCCCGCAAAAATAA
* ** * *
4618003 CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATAG-AAAATCAGTATTTTGAAAATAAAATCGGAGTTAGAGTA
4618067 TCCCC
65 TCCCC
4618072 AATTGTGGGA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 1 0.02
79 60 0.98
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATAGAAAATCAGTATTTTGAAAATAAAATCGGAGTTAGAGTAT
CCCCGCAAAAATAA
Found at i:4618064 original size:51 final size:51
Alignment explanation
Indices: 4618007--4618122 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
4617997 AAATAACGGG
* *
4618007 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTGTGAAAAATTGGTATTTTAG-AAATAAAATCGGA
** *
4618058 GTTGGAGTATCCCCAATTGTGGGAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGA
4618109 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
4618123 TCAGAAATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 58 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:4618117 original size:130 final size:130
Alignment explanation
Indices: 4617879--4618153 Score: 347
Period size: 130 Copynumber: 2.1 Consensus size: 130
4617869 ACAACGAGGC
* * **
4617879 TGGAGTATCCCCAATTATGGAAAATTGGTGTTCCAGAAATAAAATCGGGGTTGGAGTATCCCTGA
1 TGGAGTATCCCCAATTATGAAAAATTGGTGTTCCAGAAATAAAATCGGAGTTGGAGTATCCCCAA
* *
4617944 TTATAGAAAATCAGTATTTTGAAAATAAAATCGGGGTTAGAGTATCCCCGCAAAAATAACGGGGT
66 TTATAGAAAATCAGTATTTTGAAAATAAAATCGGGGTTAGAGTATCCCCGCAAAAATAACGAGAT
* * **
4618009 TGGAGTATCCCCGATTGTGAAAAATTGGTGTT-TTGAAAATAAAATCGGAGTTGGAGTATCCCCA
1 TGGAGTATCCCCAATTATGAAAAATTGGTGTTCCAG-AAATAAAATCGGAGTTGGAGTATCCCCA
* * * ** * * *
4618073 ATTGTGGGAAATTGGTATTTT-AGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGAG
65 ATTATAGAAAATCAGTATTTTGA-AAATAAAATCGGGGTTAGAGTATCCCCGCAAAAATAACGAG
4618137 AT
129 AT
*
4618139 TGAAGTATCCCCAAT
1 TGGAGTATCCCCAAT
4618154 GAAATAATGG
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
129 2 0.02
130 121 0.98
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (130 bp):
TGGAGTATCCCCAATTATGAAAAATTGGTGTTCCAGAAATAAAATCGGAGTTGGAGTATCCCCAA
TTATAGAAAATCAGTATTTTGAAAATAAAATCGGGGTTAGAGTATCCCCGCAAAAATAACGAGAT
Found at i:4618173 original size:28 final size:28
Alignment explanation
Indices: 4618105--4618178 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
4618095 GAAATAAAAT
*
4618105 CGGGGTTGGAGTATCCCCTCAGAAATAA
1 CGGGGTTGGAGTATCCCCTAAGAAATAA
* * *
4618133 CGAGATTGAAGTATCCCC-AATGAAATAA
1 CGGGGTTGGAGTATCCCCTAA-GAAATAA
* *
4618161 TGGGGTTGGAGTACCCCC
1 CGGGGTTGGAGTATCCCC
4618179 GATTTTGAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTAAGAAATAA
Found at i:4618389 original size:51 final size:51
Alignment explanation
Indices: 4618250--4618389 Score: 163
Period size: 51 Copynumber: 2.7 Consensus size: 51
4618240 AATGGGGTTA
* * * *
4618250 GAGTATCCCTGATTGTGAAAAATTGGTGTTTTAAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCAGAGTTG
* ** * *
4618301 GAGTATCCTCGATTGTGGTAAATCGATGCTTTAGAAATAAAATCAGAGTTG
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCAGAGTTG
** * *
4618352 GAGTATCCCCGATTAAGAAAAATTAATGTTTTGGAAAT
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAAT
4618390 GGAACTGGGA
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 71 1.00
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCAGAGTTG
Found at i:4620749 original size:33 final size:33
Alignment explanation
Indices: 4620703--4620772 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
4620693 TACATTGTAA
* *
4620703 AATGTATCGATACAATGAGTAATGTATCGATAC
1 AATGTATCAATACAATGAGCAATGTATCGATAC
4620736 AATGTATCAATACAATGAGCAATGTATCGATAC
1 AATGTATCAATACAATGAGCAATGTATCGATAC
4620769 AATG
1 AATG
4620773 CAAAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (33 bp):
AATGTATCAATACAATGAGCAATGTATCGATAC
Found at i:4620749 original size:53 final size:53
Alignment explanation
Indices: 4620683--4620789 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 53
4620673 AAAATGCTTG
* * *
4620683 AATGTATCGATACATTGTA-AAATGTATCGATACAATG-AGTAATGTATCGATAC
1 AATGTATCAATACAATG-AGAAATGTATCGATACAATGCA-AAATGTATCGATAC
*
4620736 AATGTATCAATACAATGAGCAATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCAATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAC
4620789 A
1 A
4620790 TCTAGGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
52 1 0.02
53 46 0.96
54 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (53 bp):
AATGTATCAATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAC
Found at i:4620771 original size:13 final size:13
Alignment explanation
Indices: 4620723--4620752 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4620713 TACAATGAGT
*
4620723 AATGTATCGATAC
1 AATGTATCAATAC
4620736 AATGTATCAATAC
1 AATGTATCAATAC
4620749 AATG
1 AATG
4620753 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:4620779 original size:20 final size:19
Alignment explanation
Indices: 4620683--4620789 Score: 100
Period size: 20 Copynumber: 5.7 Consensus size: 19
4620673 AAAATGCTTG
*
4620683 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
4620703 AATGTATCGATACAATGAGT
1 AATGTATCGATACAATGA-A
4620723 AATGTATCGATAC------
1 AATGTATCGATACAATGAA
* *
4620736 AATGTATCAATACAATGAGC
1 AATGTATCGATACAATGA-A
4620756 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
4620776 AATGTATCGATACA
1 AATGTATCGATACA
4620790 TCTAGGTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
13 12 0.16
19 1 0.01
20 59 0.81
21 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:4620823 original size:13 final size:13
Alignment explanation
Indices: 4620805--4620834 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4620795 GTAAACCCAA
4620805 AATGTATCCATAC
1 AATGTATCCATAC
*
4620818 AATGTATCGATAC
1 AATGTATCCATAC
4620831 AATG
1 AATG
4620835 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCCATAC
Found at i:4621588 original size:41 final size:44
Alignment explanation
Indices: 4621543--4621638 Score: 99
Period size: 50 Copynumber: 2.1 Consensus size: 44
4621533 CTATGGCTTG
4621543 CAAAA-GCAAT-T-AGCATAAAGACCAAAATAAACCAACTACAC
1 CAAAATGCAATATAAGCATAAAGACCAAAATAAACCAACTACAC
* *
4621584 CAAAACCTATGCAATAATCAATCATAAAGACCAAAATAAACCAAGTACAC
1 C-AAA---ATGCAAT-AT-AAGCATAAAGACCAAAATAAACCAACTACAC
4621634 CAAAA
1 CAAAA
4621639 CCTATGCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
41 1 0.02
42 3 0.07
45 1 0.02
46 6 0.14
48 1 0.02
49 3 0.07
50 29 0.66
ACGTcount: A:0.56, C:0.24, G:0.06, T:0.14
Consensus pattern (44 bp):
CAAAATGCAATATAAGCATAAAGACCAAAATAAACCAACTACAC
Found at i:4621618 original size:50 final size:50
Alignment explanation
Indices: 4621556--4621657 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
4621546 AAGCAATTAG
4621556 CATAAAGACCAAAATAAACCAACTACACCAAAACCTATGCAATAATCAAT
1 CATAAAGACCAAAATAAACCAACTACACCAAAACCTATGCAATAATCAAT
*
4621606 CATAAAGACCAAAATAAACCAAGTACACCAAAACCTATGCAATAATCAAT
1 CATAAAGACCAAAATAAACCAACTACACCAAAACCTATGCAATAATCAAT
4621656 CA
1 CA
4621658 CTTTCATATT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.54, C:0.25, G:0.05, T:0.16
Consensus pattern (50 bp):
CATAAAGACCAAAATAAACCAACTACACCAAAACCTATGCAATAATCAAT
Found at i:4628314 original size:18 final size:19
Alignment explanation
Indices: 4628286--4628321 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4628276 TTTAAAAATA
*
4628286 TTATATAATTTATTTTATT
1 TTATATAATTTATATTATT
4628305 TTATAT-ATTTATATTAT
1 TTATATAATTTATATTAT
4628322 ATAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATAATTTATATTATT
Found at i:4629012 original size:34 final size:32
Alignment explanation
Indices: 4628981--4629050 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 32
4628971 TTTTTTTATT
4628981 AAATTTAGATTTT-TTTATTTTTTAAAATTTTA
1 AAATTTAGATTTTATTTA-TTTTTAAAATTTTA
* *
4629013 AAATTTTGTTTTTAAATTTATTTTTAAAATTTTCA
1 AAATTTAGATTTT--ATTTATTTTTAAAATTTT-A
4629048 AAA
1 AAA
4629051 ATTCTAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
32 11 0.34
34 13 0.41
35 8 0.25
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (32 bp):
AAATTTAGATTTTATTTATTTTTAAAATTTTA
Found at i:4629916 original size:21 final size:21
Alignment explanation
Indices: 4629892--4629936 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
4629882 CTTGTTCAAA
*
4629892 TATTTATTTATGAATTTTATT
1 TATTTATTTATGAATTTCATT
4629913 TATTTATTTATGAATTTCATT
1 TATTTATTTATGAATTTCATT
4629934 TAT
1 TAT
4629937 GCAATTCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (21 bp):
TATTTATTTATGAATTTCATT
Found at i:4633557 original size:20 final size:21
Alignment explanation
Indices: 4633509--4633581 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
4633499 TTCTACAATT
4633509 TGTATCGATACA-AACGGTAAA
1 TGTATCGATACATAAC-GTAAA
* *
4633530 TGTGTCGATACATAA-GTGAA
1 TGTATCGATACATAACGTAAA
* *
4633550 TGTATCGATACAT-GCCTAAAA
1 TGTATCGATACATAACGT-AAA
4633571 TGTATCGATAC
1 TGTATCGATAC
4633582 GAAATCACCC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 17 0.40
21 24 0.56
22 2 0.05
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (21 bp):
TGTATCGATACATAACGTAAA
Found at i:4646389 original size:23 final size:23
Alignment explanation
Indices: 4646339--4646393 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
4646329 TAACTTGTTA
**
4646339 AAAAAACAACAAAAACAAAAAAGT
1 AAAAAA-AACAAAAACAAAAAACC
4646363 AAAAAAAAC-AAAACAAAAACACC
1 AAAAAAAACAAAAACAAAAA-ACC
4646386 AAAAAAAA
1 AAAAAAAA
4646394 ACCAAAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 10 0.36
23 12 0.43
24 6 0.21
ACGTcount: A:0.82, C:0.15, G:0.02, T:0.02
Consensus pattern (23 bp):
AAAAAAAACAAAAACAAAAAACC
Found at i:4647884 original size:34 final size:33
Alignment explanation
Indices: 4647820--4648073 Score: 271
Period size: 34 Copynumber: 7.5 Consensus size: 33
4647810 AAGTCCACAT
* * *
4647820 CCACACTAGTTAGTGGCATC-CTTTTTTCAAAG
1 CCACACAAGTTGGTGGCATCTTTTTTTTCAAAG
4647852 CCGACACAAGTTGGTGGCATCTTTTTTTTCAAAG
1 CC-ACACAAGTTGGTGGCATCTTTTTTTTCAAAG
* *
4647886 CCCACATAAGTTGGTGGCATCTTTTTTTACAAAG
1 -CCACACAAGTTGGTGGCATCTTTTTTTTCAAAG
* *
4647920 TCCACACTAGTTGGTGGCATC-CTTTTTTCAAAG
1 -CCACACAAGTTGGTGGCATCTTTTTTTTCAAAG
*
4647953 CCCACACAAGTTGGTAGCATCCTTTTTTTTCAAAG
1 -CCACACAAGTTGGTGGCAT-CTTTTTTTTCAAAG
* * * *
4647988 CCACATAAGTTGATGGCATCCATTTTTTTC-TAG
1 CCACACAAGTTGGTGGCAT-CTTTTTTTTCAAAG
* *
4648021 CCCATACAAGTTGGTGGCATCTTTTTTTTCCAAG
1 -CCACACAAGTTGGTGGCATCTTTTTTTTCAAAG
* *
4648055 CTCACATAAGTTAGTGGCA
1 C-CACACAAGTTGGTGGCA
4648074 AACATTTTAA
Statistics
Matches: 187, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
32 2 0.01
33 55 0.29
34 117 0.63
35 13 0.07
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.35
Consensus pattern (33 bp):
CCACACAAGTTGGTGGCATCTTTTTTTTCAAAG
Found at i:4647994 original size:101 final size:101
Alignment explanation
Indices: 4647819--4648066 Score: 331
Period size: 101 Copynumber: 2.4 Consensus size: 101
4647809 AAAGTCCACA
* * *
4647819 TCCACACTAGTTAGTGGCATCCTTTTTTCAAAGCCGACACAAGTTGGTGGCATCTTTTTTTTCAA
1 TCCACACTAGTTGGTGGCATCCTTTTTTCAAAGCCCACACAAGTTGGTAGCATCTTTTTTTTCAA
*
4647884 AGCCCACATAAGTTGGTGGCAT-C-TTTTTTTACAAAG
66 AGCCCACATAAGTTGATGGCATCCATTTTTTT-C-AAG
4647920 TCCACACTAGTTGGTGGCATCCTTTTTTCAAAGCCCACACAAGTTGGTAGCATCCTTTTTTTTCA
1 TCCACACTAGTTGGTGGCATCCTTTTTTCAAAGCCCACACAAGTTGGTAGCAT-CTTTTTTTTCA
*
4647985 AAG-CCACATAAGTTGATGGCATCCATTTTTTTCTAG
65 AAGCCCACATAAGTTGATGGCATCCATTTTTTTCAAG
* * * * * * *
4648021 CCCATACAAGTTGGTGGCATCTTTTTTTTCCAAGCTCACATAAGTT
1 TCCACACTAGTTGGTGGCATC-CTTTTTTCAAAGCCCACACAAGTT
4648067 AGTGGCAAAC
Statistics
Matches: 131, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
101 88 0.67
102 36 0.27
103 7 0.05
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (101 bp):
TCCACACTAGTTGGTGGCATCCTTTTTTCAAAGCCCACACAAGTTGGTAGCATCTTTTTTTTCAA
AGCCCACATAAGTTGATGGCATCCATTTTTTTCAAG
Found at i:4648049 original size:68 final size:67
Alignment explanation
Indices: 4647820--4648104 Score: 314
Period size: 67 Copynumber: 4.3 Consensus size: 67
4647810 AAGTCCACAT
* * * * *
4647820 CCACACTAGTTAGTGGCATC-CTTTTTTCAAAGCCGACACAAGTTGGTGGCATCTTTTTTTTCAA
1 CCACACAAGTTGGTGGCATCTTTTTTTTCAAAGCC-ACATAAGTTGGTGGCATCCTTTTTTTCAA
4647884 AGC
65 AGC
* *
4647887 CCACATAAGTTGGTGGCATCTTTTTTTACAAAGTCCACACT-AGTTGGTGGCATCC-TTTTTTCA
1 CCACACAAGTTGGTGGCATCTTTTTTTTCAAAG-CCACA-TAAGTTGGTGGCATCCTTTTTTTCA
4647950 AAGC
64 AAGC
* *
4647954 CCACACAAGTTGGTAGCATCCTTTTTTTTCAAAGCCACATAAGTTGATGGCATCCATTTTTTTC-
1 CCACACAAGTTGGTGGCAT-CTTTTTTTTCAAAGCCACATAAGTTGGTGGCATCC-TTTTTTTCA
*
4648018 TAGC
64 AAGC
* * * ** *
4648022 CCATACAAGTTGGTGGCATCTTTTTTTTCCAAGCTCACATAAGTTAGTGGCAAAC--ATTTT-AA
1 CCACACAAGTTGGTGGCATCTTTTTTTTCAAAGC-CACATAAGTTGGTGGCATCCTTTTTTTCAA
4648084 AGC
65 AGC
*
4648087 CCCCACAAGTTGGTGGCA
1 CCACACAAGTTGGTGGCA
4648105 ACCCTCCCAA
Statistics
Matches: 186, Mismatches: 23, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
65 23 0.12
66 1 0.01
67 78 0.42
68 75 0.40
69 9 0.05
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (67 bp):
CCACACAAGTTGGTGGCATCTTTTTTTTCAAAGCCACATAAGTTGGTGGCATCCTTTTTTTCAAA
GC
Found at i:4648268 original size:52 final size:51
Alignment explanation
Indices: 4648223--4648514 Score: 264
Period size: 52 Copynumber: 5.6 Consensus size: 51
4648213 ATGTTGCTAA
* * **
4648223 CCTTGAATTAGCACATTGGCACTCTTATCATGTTTAAGTCCAATGTCATTGG
1 CCTTGAATCAGCACATTGGCAC-CTTATCATCTTTAAGTCCAATGTCGCTGG
* * * * * * *
4648275 CTTTGAATCAGCACATTAGTACCTT-TGCCATCTTTCAGTCCGATATCGCTAG
1 CCTTGAATCAGCACATTGGCACCTTAT--CATCTTTAAGTCCAATGTCGCTGG
* ** * *
4648327 ACTTGAATCAGCATGTTGGCACCTCTATCATTTTTAAG-CCTAATATCGCTGG
1 CCTTGAATCAGCACATTGGCACCT-TATCATCTTTAAGTCC-AATGTCGCTGG
* *
4648379 CCTTGAATTAGCACATTGGCACCTTTATCATGTTTAAGTCCAATGTCGCTGG
1 CCTTGAATCAGCACATTGGCACC-TTATCATCTTTAAGTCCAATGTCGCTGG
* * * * *
4648431 CCTTGAATCAACACATTAGCATTCTTCTCATCTTTAAGCCCAATGTCGCTGG
1 CCTTGAATCAGCACATTGGCA-CCTTATCATCTTTAAGTCCAATGTCGCTGG
* * *
4648483 CCTTGAATCAGCTCATTGACACTCTTCTCATC
1 CCTTGAATCAGCACATTGGCAC-CTTATCATC
4648515 CTTATAATCT
Statistics
Matches: 192, Mismatches: 39, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
50 1 0.01
51 5 0.03
52 180 0.94
53 5 0.03
54 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.35
Consensus pattern (51 bp):
CCTTGAATCAGCACATTGGCACCTTATCATCTTTAAGTCCAATGTCGCTGG
Found at i:4650481 original size:20 final size:21
Alignment explanation
Indices: 4650451--4650491 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
4650441 GCTTTATATC
4650451 GATACATTGTATCGATACATG
1 GATACATTGTATCGATACATG
4650472 GATA-ATTGTATCGATACATG
1 GATACATTGTATCGATACATG
4650492 AAATTGGCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (21 bp):
GATACATTGTATCGATACATG
Found at i:4662611 original size:97 final size:96
Alignment explanation
Indices: 4662354--4662602 Score: 374
Period size: 97 Copynumber: 2.6 Consensus size: 96
4662344 TTTTTGATTG
*
4662354 AAAAACAGGGTTGGAGTATCCCCTCGGAGGAATGGA-TTGGAGTGTCCCCCGATAATGACAATTT
1 AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGGAGTTGGAGTGT--CCCGATAATGACAATTT
*
4662418 AAGTGAGAATAAGATTTAAACTTTGATGTATTT
64 AAGTGAGAATAACATTTAAACTTTGATGTATTT
* *
4662451 AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCTGATGATGACAATTTA
1 AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGGAGTTGGAGTGTCCC-GATAATGACAATTTA
*
4662516 AGTGAGAATAACATTTAAACTTTGATGTCTTT
65 AGTGAGAATAACATTTAAACTTTGATGTATTT
** * *
4662548 AAAAGTGGGGTTGGAGTATCCCCTCGGAGGAATAGAGTTGGAGTATCCTCGATAA
1 AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGGAGTTGGAGTGTCC-CGATAA
4662603 ATAAAATTTT
Statistics
Matches: 138, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
96 3 0.02
97 125 0.91
98 10 0.07
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (96 bp):
AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGGAGTTGGAGTGTCCCGATAATGACAATTTAA
GTGAGAATAACATTTAAACTTTGATGTATTT
Found at i:4664345 original size:9 final size:10
Alignment explanation
Indices: 4664299--4664349 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
4664289 TTTTTTTTAC
*
4664299 CTCTTTGTTT
1 CTCTTTTTTT
* *
4664309 CTATTTCTTCT
1 CTCTTT-TTTT
4664320 CTCTTTTCTTT
1 CTCTTTT-TTT
4664331 CTCTTTTTTT
1 CTCTTTTTTT
4664341 C-CTTTTTTT
1 CTCTTTTTTT
4664350 TTAGTTGAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 8 0.24
10 10 0.29
11 16 0.47
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.73
Consensus pattern (10 bp):
CTCTTTTTTT
Found at i:4665744 original size:32 final size:32
Alignment explanation
Indices: 4665671--4665830 Score: 156
Period size: 32 Copynumber: 5.2 Consensus size: 32
4665661 CGAACATAGG
***
4665671 TGCCACCAACTTGTGTGGGCTTTGAA-A-AAA
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGGGT
* *
4665701 TGCCACAAACTTGTGTGGGCTTTGAAGGGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGGGT
* * *
4665733 TGCCACCAACTTATGTGGACTTTGAAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGGGT
*
4665765 TGCCACCGACTTGTGTGGGCTTT-AGAGAAGGG-
1 TGCCACCAACTTGTGTGGGCTTTGA-AG-AGGGT
*
4665797 TGCCACTAAC-T-TGTGGGCTTTGAA-AGGG-
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGGGT
4665825 TGCCAC
1 TGCCAC
4665831 GGAGTTGTGG
Statistics
Matches: 109, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
28 10 0.09
30 36 0.33
31 3 0.03
32 56 0.51
33 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTGAAGAGGGT
Found at i:4665829 original size:28 final size:28
Alignment explanation
Indices: 4665669--4666101 Score: 391
Period size: 28 Copynumber: 14.8 Consensus size: 28
4665659 CTCGAACATA
* *
4665669 GGTGCCACCAACTTGTGTGGGCTTTGAAAA
1 GGTGCCACTAAC-T-TGTGGGCTTTGAAAG
** * *
4665699 AATGCCACAAACTTGTGTGGGCTTTGAAGGG
1 GGTGCCACTAAC-T-TGTGGGCTTTGAA-AG
* *
4665730 GGTTGCCACCAACTTATGTGGACTTTGAAAAG
1 GG-TGCCACTAAC-T-TGTGGGCTTTG-AAAG
**
4665762 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAG
1 GG-TGCCACTAAC-T-TGTGGGCTTT-GA-AAG
4665795 GGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
** * * *
4665823 GGTGCCACGGAGTTGTGGAC-TTAAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
* * *
4665850 GGATGCCATTGACTTGTGGACTTTGAAAG
1 GG-TGCCACTAACTTGTGGGCTTTGAAAG
* *
4665879 GGTGCCACTGACTTATGGGCTTTGAAGAAG
1 GGTGCCACTAACTTGTGGGCTTTG-A-AAG
** * *
4665909 AAAATGCCACTAACTTATGGGCTTTTGAAAA
1 --GGTGCCACTAACTTGTGGGC-TTTGAAAG
* *
4665940 GATGCCACTAACTTGTGGACTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
* *
4665968 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
*
4665996 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
*
4666024 GATGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
* *
4666052 GGTGTCACTAACTTGTGGGCTTTGGAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
4666080 GGTGCCACTAACTTGTGGGCTT
1 GGTGCCACTAACTTGTGGGCTT
4666102 AAAAGAATGC
Statistics
Matches: 346, Mismatches: 45, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
27 8 0.02
28 185 0.53
29 28 0.08
30 38 0.11
31 3 0.01
32 72 0.21
33 12 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
GGTGCCACTAACTTGTGGGCTTTGAAAG
Found at i:4666302 original size:28 final size:27
Alignment explanation
Indices: 4665746--4666651 Score: 605
Period size: 27 Copynumber: 32.6 Consensus size: 27
4665736 CACCAACTTA
*
4665746 TGTGGACTTTGAAAAGGGTTGCCACCGACTT
1 TGTGGAC-TT-AAAAGGG-TGCCACAGAC-T
*
4665777 GTGTGGGCTTTAGAGAAGGGTGCCACTA-ACT
1 -TGTGGAC-TTA-A-AAGGGTGCCAC-AGACT
* * * *
4665808 TGTGGGCTTTGAAAGGGTGCCACGGAGT
1 TGTGGAC-TTAAAAGGGTGCCACAGACT
**
4665836 TGTGGACTTAAAAGGGATGCCATTGACT
1 TGTGGACTTAAAAGGG-TGCCACAGACT
* *
4665864 TGTGGACTTTGAAAGGGTGCCACTGACT
1 TGTGGAC-TTAAAAGGGTGCCACAGACT
* * **
4665892 TATGGGCTTTGAAGAAGAAAATGCCACTA-ACT
1 TGTGGAC-TT-AA-AAG--GGTGCCAC-AGACT
* * *
4665924 TATGGGCTTTTGAAAA-GATGCCACTA-ACT
1 TGTGGAC--TT-AAAAGGGTGCCAC-AGACT
* * *
4665953 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGAC-TTAAAAGGGTGCCACAGACT
* * *
4665981 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGAC-TTAAAAGGGTGCCACAGACT
* * *
4666009 TGTGGGCTTTGAAAGGATGCCACTA-ACT
1 TGTGGAC-TTAAAAGGGTGCCAC-AGACT
* * *
4666037 TGTGGGCTTTGAAAGGGTGTCACTA-ACT
1 TGTGGAC-TTAAAAGGGTGCCAC-AGACT
* **
4666065 TGTGGGCTTTGGAAGGGTGCCACTA-ACT
1 TGTGGAC-TTAAAAGGGTGCCAC-AGACT
* ** *
4666093 TGTGGGCTTAAAAGAATGCCACAGAGT
1 TGTGGACTTAAAAGGGTGCCACAGACT
* * * * *
4666120 TGTGGTCGTGAAAGGATGCCACAGAGT
1 TGTGGACTTAAAAGGGTGCCACAGACT
* * * * *
4666147 TGTTGACTTTAAAA-GATGCCGCGGAGT
1 TGTGGAC-TTAAAAGGGTGCCACAGACT
* * * *
4666174 TATGGACTTTCAAA-GATGCCACAGAGT
1 TGTGGAC-TTAAAAGGGTGCCACAGACT
* ** *
4666201 TGTGGACTTTAAAA-GATGCCATGGAGT
1 TGTGGAC-TTAAAAGGGTGCCACAGACT
* *
4666228 TGGGGACTTAAAAGGGTGCCAC-GAAGT
1 TGTGGACTTAAAAGGGTGCCACAG-ACT
* *
4666255 TGGGGACTTAAAAGGGTGCCACAGAGT
1 TGTGGACTTAAAAGGGTGCCACAGACT
* *
4666282 TGGGGACTTTAAAAGGGTGCCAC-GAAGT
1 TGTGGAC-TTAAAAGGGTGCCACAG-ACT
* *
4666310 TGTGGACTTAAAAGGATGCCACGGACT
1 TGTGGACTTAAAAGGGTGCCACAGACT
*
4666337 TGTGGACTTAAAAGGGTGCCACGGACT
1 TGTGGACTTAAAAGGGTGCCACAGACT
* * * *
4666364 TATAGACTTTAAAAGGGTGCCATAGAGT
1 TGTGGAC-TTAAAAGGGTGCCACAGACT
*
4666392 TGTGGACTTAAAAGGGTGCCACGGACT
1 TGTGGACTTAAAAGGGTGCCACAGACT
*
4666419 TGTGGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGAC-TTAAAAGGGTGCCACAGACT
* *
4666447 TGTGGACTTAAAAGGATGCCACGGACT
1 TGTGGACTTAAAAGGGTGCCACAGACT
* *
4666474 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACAGACT
4666501 TGTGG-CTTTAAAAGGGTGCCACAGACT
1 TGTGGAC-TTAAAAGGGTGCCACAGACT
* * * * *
4666528 TGTAGACTTAAAAGGATGTCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACAGACT
* *
4666555 TATGGACTTAAAAGGATGCCACAGACT
1 TGTGGACTTAAAAGGGTGCCACAGACT
* *
4666582 TGTGGACTAAAAAGGGTGCCACGGACT
1 TGTGGACTTAAAAGGGTGCCACAGACT
* *
4666609 TGTGGACTTAAAAGGATGCCACGGACT
1 TGTGGACTTAAAAGGGTGCCACAGACT
4666636 TGTGGACTTTAAAAGG
1 TGTGGAC-TTAAAAGG
4666652 AATGCCACTA
Statistics
Matches: 749, Mismatches: 97, Indels: 60
0.83 0.11 0.07
Matches are distributed among these distances:
26 9 0.01
27 389 0.52
28 262 0.35
29 27 0.04
30 13 0.02
31 2 0.00
32 36 0.05
33 11 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (27 bp):
TGTGGACTTAAAAGGGTGCCACAGACT
Found at i:4672907 original size:97 final size:96
Alignment explanation
Indices: 4672768--4673103 Score: 505
Period size: 96 Copynumber: 3.5 Consensus size: 96
4672758 ATTGAAAAAC
* *
4672768 GGGGTTGGAGTATCCCCTCGGAGGAAT-GGGATTCGAGTGTCCCCGATGATGACAATTTAAGTGA
1 GGGGTTGGAGTATCCCCTCGGAGGAATAGGG-TTGGAGTATCCCCGATGATGACAATTTAAGTGA
*
4672832 GAATAAGATTTAAACTTTGACGTGTTTAAAAGT
65 GAATAAGATTTAAACTTT-ATGTGTTTAAAAGT
* * * *
4672865 GGGGTTGGAGTATCTCCTCAGAGGAATAGGGTTGGAGTGTCCCCGATGATGACAATTTAA-TAGG
1 GGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGATGATGACAATTTAAGT-GA
* * *
4672929 GAATAAAATATAAACTTTATGTGTTTAAAAGC
65 GAATAAGATTTAAACTTTATGTGTTTAAAAGT
* * *
4672961 GGAGTTGGAGTATCCCCTTGGAGGAATAGGGTTGGAGTATCCCCAATGATGACAATTTAAGTGAG
1 GGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGATGATGACAATTTAAGTGAG
*
4673026 AATAAGATTTAAATTTTATGTGTTTAAAAGT
66 AATAAGATTTAAACTTTATGTGTTTAAAAGT
4673057 GGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGAT
4673104 AAATAAAATT
Statistics
Matches: 214, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
96 140 0.65
97 71 0.33
98 3 0.01
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (96 bp):
GGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGATGATGACAATTTAAGTGAG
AATAAGATTTAAACTTTATGTGTTTAAAAGT
Found at i:4674849 original size:9 final size:10
Alignment explanation
Indices: 4674833--4674858 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4674823 TTTCTTTCTC
4674833 CTTTTTTTTT
1 CTTTTTTTTT
4674843 CTTTTTTTTT
1 CTTTTTTTTT
4674853 CTTTTT
1 CTTTTT
4674859 AAGTTGAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:4674850 original size:13 final size:13
Alignment explanation
Indices: 4674815--4674852 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4674805 TTTCTATTTC
*
4674815 TTCTCTTTTTTCT
1 TTCTCTTTTTTTT
*
4674828 TTCTCCTTTTTTT
1 TTCTCTTTTTTTT
4674841 TTCT-TTTTTTTT
1 TTCTCTTTTTTTT
4674853 CTTTTTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTCTCTTTTTTTT
Found at i:4676672 original size:63 final size:62
Alignment explanation
Indices: 4676568--4676724 Score: 212
Period size: 63 Copynumber: 2.5 Consensus size: 62
4676558 TCATAATTGA
* *
4676568 ATTGTATCGATACATGGTAAATTGTATAGATACATTAAGCCCAACAGCTATAATTTCAAATGC
1 ATTGTATCGATACATGG-AAATTGTATCGATACATTAAGCCCAACAGCTAGAATTTCAAATGC
* * ** *
4676631 ATTGTATTGATACATGGCAAATTGTATCGATACATTGAGCCCAATGGCTAGAATTTCAAATGT
1 ATTGTATCGATACATGG-AAATTGTATCGATACATTAAGCCCAACAGCTAGAATTTCAAATGC
4676694 ATTGTATCGATAC-T-G-AATTGTATCGATACAT
1 ATTGTATCGATACATGGAAATTGTATCGATACAT
4676725 AGGAGCATGT
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
59 16 0.19
61 1 0.01
62 1 0.01
63 67 0.79
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (62 bp):
ATTGTATCGATACATGGAAATTGTATCGATACATTAAGCCCAACAGCTAGAATTTCAAATGC
Found at i:4681520 original size:44 final size:44
Alignment explanation
Indices: 4681457--4681610 Score: 138
Period size: 44 Copynumber: 3.6 Consensus size: 44
4681447 TAACCCTAGT
* * *
4681457 GGTAAG-AAGCCT-ACCGGGGACAAAGCCGACAAGTAAACAAAG
1 GGTAAGAAAGGCTGACCAGGGACAAAGCCGACAGGTAAACAAAG
* * *
4681499 GGTAAGAAAGGCTGACCGGGGACAAAGCCGACAGGT-CACCAAG
1 GGTAAGAAAGGCTGACCAGGGACAAAGCCGACAGGTAAACAAAG
* * * * * ** *
4681542 AGTAA-AAA-GTTTACTAGGGACATAGTTGACAGGTAAACGAAG
1 GGTAAGAAAGGCTGACCAGGGACAAAGCCGACAGGTAAACAAAG
*
4681584 TGTAAGAAAGGCTGACCAGGGACAAAG
1 GGTAAGAAAGGCTGACCAGGGACAAAG
4681611 TTGATAGGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
41 19 0.22
42 18 0.20
43 17 0.19
44 34 0.39
ACGTcount: A:0.40, C:0.18, G:0.31, T:0.12
Consensus pattern (44 bp):
GGTAAGAAAGGCTGACCAGGGACAAAGCCGACAGGTAAACAAAG
Found at i:4681658 original size:85 final size:85
Alignment explanation
Indices: 4681458--4681678 Score: 230
Period size: 85 Copynumber: 2.6 Consensus size: 85
4681448 AACCCTAGTG
* * * *
4681458 GTAAGAAGCCTACCGGGGACAAAGCCGACAAGTAAACAAAGGGTAAGAAAGGCTGACCGGGGACA
1 GTAAGAAGCCTACCAGGGACAAAGTCGACAGGTAAACAAAGGGTAAGAAAGGCTGACCAGGGACA
4681523 AAGCCGACAGGTCACCAAGA
66 AAGCCGACAGGTCACCAAGA
* ** * * * * *
4681543 GTAAAAAGTTTACTAGGGACATAGTTGACAGGTAAACGAAGTGTAAGAAAGGCTGACCAGGGACA
1 GTAAGAAGCCTACCAGGGACAAAGTCGACAGGTAAACAAAGGGTAAGAAAGGCTGACCAGGGACA
** *
4681608 AAGTTGATAGG-CTACCAAGA
66 AAGCCGACAGGTC-ACCAAGA
* * * * *
4681628 GTAATGAAGCCT-CCAGGGTCAAAGTCGACAGGCAGACTAAGGGTAGGAAAG
1 GTAA-GAAGCCTACCAGGGACAAAGTCGACAGGTAAACAAAGGGTAAGAAAG
4681679 TCTTCATGAT
Statistics
Matches: 107, Mismatches: 27, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
84 1 0.01
85 102 0.95
86 4 0.04
ACGTcount: A:0.39, C:0.18, G:0.30, T:0.13
Consensus pattern (85 bp):
GTAAGAAGCCTACCAGGGACAAAGTCGACAGGTAAACAAAGGGTAAGAAAGGCTGACCAGGGACA
AAGCCGACAGGTCACCAAGA
Found at i:4681705 original size:42 final size:42
Alignment explanation
Indices: 4681641--4681833 Score: 171
Period size: 42 Copynumber: 4.6 Consensus size: 42
4681631 ATGAAGCCTC
**
4681641 CAGGGTCAAAGTCGACAGGCAGACTAAGGGTAGGAAAGTCTT
1 CAGGGTCAAAACCGACAGGCAGACTAAGGGTAGGAAAGTCTT
* * * * *
4681683 CATGATCAAAACCGACAGGCAGACTGAGGGTA-AAAAGTCTC
1 CAGGGTCAAAACCGACAGGCAGACTAAGGGTAGGAAAGTCTT
** * * *
4681724 CAGGGTCAAAGTCGACAAGCAGACTTTA--G-ATGAAGCAGTC-T
1 CAGGGTCAAAACCGACAGGCAGAC-TAAGGGTAGGAA--AGTCTT
4681765 CTAGGGTCAAAACCGACAGGCAGACTGAAGGGTAGGAAAGTCTT
1 C-AGGGTCAAAACCGACAGGCAGACT-AAGGGTAGGAAAGTCTT
* * *
4681809 CAGGGTCAAAGCTGACAGGAAGACT
1 CAGGGTCAAAACCGACAGGCAGACT
4681834 TTAGATGAGG
Statistics
Matches: 118, Mismatches: 23, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 28 0.24
42 54 0.46
43 25 0.21
44 3 0.03
45 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.30, T:0.16
Consensus pattern (42 bp):
CAGGGTCAAAACCGACAGGCAGACTAAGGGTAGGAAAGTCTT
Found at i:4681739 original size:83 final size:83
Alignment explanation
Indices: 4681638--4681833 Score: 222
Period size: 83 Copynumber: 2.3 Consensus size: 83
4681628 GTAATGAAGC
*
4681638 CTCCAGGGTCAAAGTCGACAGGCAGACTAAGGGTAGGAA-AGTCT-TCATGATCAAAACCGACAG
1 CTCCAGGGTCAAAGTCGACAGGCAGACTAA--G-AGGAACAGTCTCT-AGGATCAAAACCGACAG
4681701 GCAGACTG-AGGGTA-AAAAGT
62 GCAGACTGAAGGGTAGAAAAGT
* * * *
4681721 CTCCAGGGTCAAAGTCGACAAGCAGACTTTAGATGAAGCAGTCTCTAGGGTCAAAACCGACAGGC
1 CTCCAGGGTCAAAGTCGACAGGCAGAC-TAAGAGGAA-CAGTCTCTAGGATCAAAACCGACAGGC
*
4681786 AGACTGAAGGGTAGGAAAGT
64 AGACTGAAGGGTAGAAAAGT
* *
4681806 CTTCAGGGTCAAAG-CTGACAGGAAGACT
1 CTCCAGGGTCAAAGTC-GACAGGCAGACT
4681834 TTAGATGAGG
Statistics
Matches: 97, Mismatches: 9, Indels: 13
0.82 0.08 0.11
Matches are distributed among these distances:
81 4 0.04
82 1 0.01
83 54 0.56
84 11 0.11
85 27 0.28
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.16
Consensus pattern (83 bp):
CTCCAGGGTCAAAGTCGACAGGCAGACTAAGAGGAACAGTCTCTAGGATCAAAACCGACAGGCAG
ACTGAAGGGTAGAAAAGT
Found at i:4681837 original size:85 final size:83
Alignment explanation
Indices: 4681688--4681860 Score: 249
Period size: 85 Copynumber: 2.1 Consensus size: 83
4681678 GTCTTCATGA
*
4681688 TCAAAACCGACAGGCAGACTGAGGGTAAAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTTAG
1 TCAAAACCGACAGGCAGACTGAGGGTAAAAAGTCTCCAGGGTCAAAGTCGACAAGAAGACTTTAG
* *
4681753 ATGAAGCAGTCTCTAGGG
66 ATGAAGCAGTCTCCAAGG
* * *
4681771 TCAAAACCGACAGGCAGACTGAAGGGTAGGAAAGTCTTCAGGGTCAAAG-CTGACAGGAAGACTT
1 TCAAAACCGACAGGCAGACTG-AGGGTA-AAAAGTCTCCAGGGTCAAAGTC-GACAAGAAGACTT
*
4681835 TAGATGAGGCAGTCTCCAAGG
63 TAGATGAAGCAGTCTCCAAGG
4681856 TCAAA
1 TCAAA
4681861 GCTAACAGGT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
83 21 0.26
84 7 0.09
85 52 0.65
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.17
Consensus pattern (83 bp):
TCAAAACCGACAGGCAGACTGAGGGTAAAAAGTCTCCAGGGTCAAAGTCGACAAGAAGACTTTAG
ATGAAGCAGTCTCCAAGG
Found at i:4681861 original size:42 final size:42
Alignment explanation
Indices: 4681717--4683404 Score: 813
Period size: 42 Copynumber: 40.0 Consensus size: 42
4681707 TGAGGGTAAA
* * *
4681717 AAGTCTCCAGGGTCAAAG-TCGACAAGCAGACTTTAGATGAAG
1 AAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTTTAGATGAGG
* * * * * ** *
4681759 CAGTCTCTAGGGTCAAAACCGACAGGCAGACTGAAG-GGTAGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATG-AGG
* * *
4681801 AAAGTCTTCAGGGTCAAAGCTGACAGGAAGACTTTAGATGAGG
1 -AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * * * *
4681844 CAGTCTCCAAGGTCAAAGCTAACAGGTA-AATTGAAGATGAGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT-TAGATGAGG
* * * * ** *
4681886 CAA-TCTCCAAGGTCAAAG-TCGATAAGTAAACTGAAG-GGTAGG
1 -AAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTTTAGATG-AGG
* ** * *
4681928 AAAGTCTCTAAGGTCAAAGCCAATAGGCAAACTTTAGATGAGG
1 -AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * ** * *
4681971 TAGTCTCTAAGGTCAAAG-TCGACAGGCAGACTGAAGGATAAGA
1 AAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTTTA-GATGAGG
* * *
4682014 AAGTCTCCAGGGTTAAAGCTGACAAGCAGACTTTAGATGAGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * * * * * *
4682056 CAGTCTCTAGGGTC--AGCCGACAGGCAGACTTAAGGGTTGA-A
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTA--GATGAGG
** * *
4682097 AAGTCTCCAAGGTCAAAGCCAATAGGCAGACTTTAGGTGAGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * * *
4682139 TAGTCTCCAAGGTCAAAGCCGATAGGCAGAC-TAAGGAT-AGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTA-GATGAGG
** * *
4682180 AAAGTCTCCAAGGTCAAAGCCAACTGGCAGAC-TAAGA-GTAGG
1 -AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATG-AGG
* * *** *
4682222 AAAGTCTTCAAGGTCAAAACTGACATATAGACTTTAGATAAGG
1 -AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * * *
4682265 CACTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * * * * * * *
4682307 TAGTATCCAGGGTCAAAGCTGACAAGTAGACTTAAG-GGTAGAA
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATG-AG-G
**
4682350 AAGTCTTTAAGGTCAAAG-TCGACAGGCAGACTTTAGATGAGG
1 AAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTTTAGATGAGG
* * * ** * **
4682392 CAGTCT-CTAGAGTCAAAGCTGACAGGCAAACTGAAGGATAAAA
1 AAGTCTCCAAG-GTCAAAGCTGACAGGCAGACTTTA-GATGAGG
* *
4682435 AAGTCTCC-AGGCTCAAAGCTGACAGACAGGCTTTAGATGA-G
1 AAGTCTCCAAGG-TCAAAGCTGACAGGCAGACTTTAGATGAGG
* * * * ** * * *
4682476 ACAATCTTCAAGGTCAAAGCCGACAAGCAGACTAAAAGGTAAGA
1 A-AGTCTCCAAGGTCAAAGCTGACAGGCAGACT-TTAGATGAGG
* * * * * *
4682520 AAGTTTTCAAGGTCAAAACCGACAGGTAGACTTTAGATAAGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * * * * **
4682562 TAGTCTCTATGGTTAAAGC-GAACAGG-TGAACTGAAGGAT-AGG
1 AAGTCTCCAAGGTCAAAGCTG-ACAGGCAG-ACTTTA-GATGAGG
* * * *
4682604 AAAGTTTCCATGGTCAAAGCTGACAGCCAAACTTTAGATGAGG
1 -AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * * * **
4682647 CAGTCTTC-AGGTCAAAGCCGATA-GCTAGACTGAAGGAT-AGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGC-AGACTTTA-GATGAGG
* * * *
4682688 AAAGTCTCTAGGGTCAAAGCCGACGGGCAGACTTTAGATGA-G
1 -AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * * * * *
4682730 CAGCCTTCAGGGTCAAAG-TCGGCAAGCAGACTTTAGATGAGG
1 AAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTTTAGATGAGG
* * *
4682772 TAGTCTCTAGGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
** * * ** ** *
4682814 CGGTCTCAAAGGTCAAAACTGACATACAGACTAAAG-GGTAGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATG-AGG
* * * *
4682856 AAAGTCTCCAAGGTCAAGGCCGACATGCCGACTTTAGATGAGG
1 -AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * * * * *
4682899 CAGTTTGCAAGGTCAAAGCCGATAGGCAGAC-TAAGGAT-AGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTA-GATGAGG
* * * * *
4682940 AAAGTCTCCAAGGTCAAAGCCGATAGGCAAAC-TGAG-GGTAGG
1 -AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATG-AGG
** * * ** *
4682982 AAAGTCTTTAGGGTGAAAGCCAACAGGCAGACTTTAAATGAGG
1 -AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * ** *
4683025 TAGTCTCCAGGGTCAAAGCTGACAGGCAGACTAAAGGT-AGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * *
4683066 AAAGTCT-TAATGGTCAAAG-TCGACAGGTAGACTTTTGATGAGG
1 -AAGTCTCCAA-GGTCAAAGCT-GACAGGCAGACTTTAGATGAGG
* ** * *
4683109 CAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGATAAGA
1 -AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTA-GATGAGG
* * * *
4683153 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGTTGAGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
*
4683195 CAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * * * * ** *
4683237 CAGTCTCTAGGGTCAAAACCGACAGGCAGACTGAAG-GGTAGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATG-AGG
* * * * * * *
4683279 AAAGTTTCTAGGGTTAAAGCTAATAGGTAGACTTTAGATGAGG
1 -AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
* * * * **
4683322 CAGTCTCTATGGTCAAAGCTGACAAGCAGACTAAAGGAT-AGG
1 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTA-GATGAGG
* ** * *
4683364 AAAATCTCCAAGGTCAAAGCCAACAAGCAAACTTTAGATGA
1 -AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGA
4683405 AGCAATCTCT
Statistics
Matches: 1236, Mismatches: 333, Indels: 153
0.72 0.19 0.09
Matches are distributed among these distances:
40 17 0.01
41 98 0.08
42 694 0.56
43 408 0.33
44 19 0.02
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.19
Consensus pattern (42 bp):
AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGG
Found at i:4681879 original size:85 final size:85
Alignment explanation
Indices: 4681688--4681907 Score: 225
Period size: 85 Copynumber: 2.6 Consensus size: 85
4681678 GTCTTCATGA
* * * *
4681688 TCAAAACCGACAGGCAGACTG-AGGGTA-AAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTT
1 TCAAAACCAACAGGCAAACTGAAGGGTAGGAAAGTCTCCAGGGTCAAAGTCGACAAGAAGACTTT
* *
4681751 AGATGAAGCAGTCTCTAGGG
66 AGATGAAGCAGTCTCCAAGG
* * * *
4681771 TCAAAACCGACAGGCAGACTGAAGGGTAGGAAAGTCTTCAGGGTCAAAG-CTGACAGGAAGACTT
1 TCAAAACCAACAGGCAAACTGAAGGGTAGGAAAGTCTCCAGGGTCAAAGTC-GACAAGAAGACTT
*
4681835 TAGATGAGGCAGTCTCCAAGG
65 TAGATGAAGCAGTCTCCAAGG
* * * * * * *
4681856 TCAAAGCTAACAGGTAAATTGAA-GATGAGGCAA-TCTCCAAGGTCAAAGTCGA
1 TCAAAACCAACAGGCAAACTGAAGGGT-AGGAAAGTCTCCAGGGTCAAAGTCGA
4681908 TAAGTAAACT
Statistics
Matches: 115, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
83 21 0.18
84 24 0.21
85 70 0.61
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (85 bp):
TCAAAACCAACAGGCAAACTGAAGGGTAGGAAAGTCTCCAGGGTCAAAGTCGACAAGAAGACTTT
AGATGAAGCAGTCTCCAAGG
Found at i:4681934 original size:85 final size:85
Alignment explanation
Indices: 4681845--4683452 Score: 960
Period size: 85 Copynumber: 19.0 Consensus size: 85
4681835 TAGATGAGGC
* * * * * *
4681845 AGTCTCCAAGGTCAAAGCTAACAGGTA-AATTGAAGATGAGGCAATCTCCAAGGTCAAAGTCGAT
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATT-TAGATGAGGCAGTCTCCAAGGTCAAAGCCGAC
* * * *
4681909 AAGTAAACTGAAGGGTAGGAA
65 AGGCAGACTGAAGGATAGGAA
* * * * *
4681930 AGTCTCTAAGGTCAAAGCCAATAGGCA-AACTTTAGATGAGGTAGTCTCTAAGGTCAAAGTCGAC
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAA-TTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGAC
*
4681994 AGGCAGACTGAAGGATAAGAA
65 AGGCAGACTGAAGGATAGGAA
* * ** * * * *
4682015 AGTCTCCAGGGTTAAAGCTGACAAGCAGACTTTAGATGAGGCAGTCTCTAGGGTC--AGCCGACA
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACA
* * * *
4682078 GGCAGACTTAAGGGTTGAAA
66 GGCAGACTGAAGGATAGGAA
* * * * *
4682098 AGTCTCCAAGGTCAAAGCCAATAGGCAGACTTTAGGTGAGGTAGTCTCCAAGGTCAAAGCCGATA
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACA
4682163 GGCAGACT-AAGGATAGGAA
66 GGCAGACTGAAGGATAGGAA
* * * * * * *
4682182 AGTCTCCAAGGTCAAAGCCAACTGGCAG-ACTAAGA-GTAGGAAAGTCTTCAAGGTCAAAACTGA
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATG-AGG-CAGTCTCCAAGGTCAAAGCCGA
*** ** *
4682245 CATATAGACTTTA-GATAAGG-C
64 CAGGCAGACTGAAGGAT-AGGAA
* * * * * * * *
4682266 ACTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTATCCAGGGTCAAAGCTGACA
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACA
* * * * *
4682331 AGTAGACTTAAGGGTAGAAA
66 GGCAGACTGAAGGATAGGAA
** * * * * *
4682351 AGTCTTTAAGGTCAAAGTCGACAGGCAGACTTTAGATGAGGCAGTCT-CTAGAGTCAAAGCTGAC
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATGAGGCAGTCTCCAAG-GTCAAAGCCGAC
* **
4682415 AGGCAAACTGAAGGATAAAAA
65 AGGCAGACTGAAGGATAGGAA
** * ** * * *
4682436 AGTCTCC-AGGCTCAAAGCTGACAGACAGGCTTTAGATGAGACAATCTTCAAGGTCAAAGCCGAC
1 AGTCTCCAAGG-TCAAAGCCAACAGGCAGAATTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGAC
* * *
4682500 AAGCAGACTAAAAGG-TAAGAA
65 AGGCAGACT-GAAGGATAGGAA
* * * * * * * * * * *
4682521 AGTTTTCAAGGTCAAAACCGACAGGTAGACTTTAGATAAGGTAGTCTCTATGGTTAAAG-CGAAC
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATGAGGCAGTCTCCAAGGTCAAAGCCG-AC
*
4682585 AGG-TGAACTGAAGGATAGGAA
65 AGGCAG-ACTGAAGGATAGGAA
* * ** * * *
4682606 AGTTTCCATGGTCAAAGCTGACAGCCA-AACTTTAGATGAGGCAGTCTTC-AGGTCAAAGCCGAT
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAA-TTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGAC
4682669 A-GCTAGACTGAAGGATAGGAA
65 AGGC-AGACTGAAGGATAGGAA
* * * * * * * * * *
4682690 AGTCTCTAGGGTCAAAGCCGACGGGCAGACTTTAGATGA-GCAGCCTTCAGGGTCAAAGTCGGCA
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACA
* ** *
4682754 AGCAGACTTTA-GATGAGG-T
66 GGCAGACTGAAGGAT-AGGAA
* * ** * * * * *
4682773 AGTCTCTAGGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCGGTCTCAAAGGTCAAAACTGACA
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACA
** * *
4682838 TACAGACTAAAGGGTAGGAA
66 GGCAGACTGAAGGATAGGAA
* * * * * * * *
4682858 AGTCTCCAAGGTCAAGGCCGACATGCCGACTTTAGATGAGGCAGTTTGCAAGGTCAAAGCCGATA
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACA
4682923 GGCAGACT-AAGGATAGGAA
66 GGCAGACTGAAGGATAGGAA
* * * * * * ** * * *
4682942 AGTCTCCAAGGTCAAAGCCGATAGGCA-AACTGAG-GGTAGGAAAGTCTTTAGGGTGAAAGCCAA
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATG-AGG-CAGTCTCCAAGGTCAAAGCCGA
* *
4683005 CAGGCAGACTTTAA--ATGAGG-T
64 CAGGCAGAC-TGAAGGAT-AGGAA
* ** * ** * * * *
4683026 AGTCTCCAGGGTCAAAGCTGACAGGCAGACTAAAGGT-AGGAAAGTCT-TAATGGTCAAAGTCGA
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATGAGG-CAGTCTCCAA-GGTCAAAGCCGA
* *** *
4683089 CAGGTAGACT-TTTGATGAGGCA
64 CAGGCAGACTGAAGGAT-AGGAA
* * ** * ** * *
4683111 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGATAAGAAAGTCTCTAGGGTCAAAGCCGAC
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTA-GATGAGGCAGTCTCCAAGGTCAAAGCCGAC
** * *
4683176 AGGCAGACTTTA-GTTGAGG-C
65 AGGCAGACTGAAGGAT-AGGAA
** * * * *
4683196 AGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAGTCTCTAGGGTCAAAACCGACA
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACA
*
4683261 GGCAGACTGAAGGGTAGGAA
66 GGCAGACTGAAGGATAGGAA
* * * * * * * * * * *
4683281 AGTTTCTAGGGTTAAAGCTAATAGGTAGACTTTAGATGAGGCAGTCTCTATGGTCAAAGCTGACA
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACA
* *
4683346 AGCAGACTAAAGGATAGGAA
66 GGCAGACTGAAGGATAGGAA
* * * * * *
4683366 AATCTCCAAGGTCAAAGCCAACAAGCA-AACTTTAGATGAAGCAATCT-CTAGGTCAAAGCCGAT
1 AGTCTCCAAGGTCAAAGCCAACAGGCAGAA-TTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGAC
*
4683429 AGGCATACTGAAGGATAGGAA
65 AGGCAGACTGAAGGATAGGAA
4683450 AGT
1 AGT
4683453 TCATATGGTC
Statistics
Matches: 1199, Mismatches: 275, Indels: 99
0.76 0.17 0.06
Matches are distributed among these distances:
82 2 0.00
83 132 0.11
84 413 0.34
85 597 0.50
86 50 0.04
87 5 0.00
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (85 bp):
AGTCTCCAAGGTCAAAGCCAACAGGCAGAATTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACA
GGCAGACTGAAGGATAGGAA
Found at i:4682006 original size:127 final size:127
Alignment explanation
Indices: 4681718--4682041 Score: 314
Period size: 127 Copynumber: 2.5 Consensus size: 127
4681708 GAGGGTAAAA
* * ** * * *
4681718 AGTCTCCAGGGTCAAAGTCGACAAGCAGACTTTAGATGAAGCAGTCTCTAGGGTCAAAACCGACA
1 AGTCTCCAAGGTCAAAGTCGACAGGCAGACTGAAGATGAAGCAATCTCCAAGGTCAAAACCGACA
* * * **
4681783 GGCAGACTGAAGGGTAGGAAAGTCTTCAGGGTCAAAGCTGACAGGAAGACTTTAGATGAGGC
66 AGCAAACTGAAGGGTAGGAAAGTCTTCAAGGTCAAAGCCAACAGGAAGACTTTAGATGAGGC
* * * * * ** *
4681845 AGTCTCCAAGGTCAAAG-CTAACAGGTAAATTGAAGATGAGGCAATCTCCAAGGTCAAAGTCGAT
1 AGTCTCCAAGGTCAAAGTC-GACAGGCAGACTGAAGATGAAGCAATCTCCAAGGTCAAAACCGAC
* * *
4681909 AAGTAAACTGAAGGGTAGGAAAGTC-TCTAAGGTCAAAGCCAATAGGCAA-ACTTTAGATGAGGT
65 AAGCAAACTGAAGGGTAGGAAAGTCTTC-AAGGTCAAAGCCAACAGG-AAGACTTTAGATGAGGC
* * * * * *
4681972 AGTCTCTAAGGTCAAAGTCGACAGGCAGACTGAAGGAT-AAGAAAGTCTCCAGGGTTAAAGCTGA
1 AGTCTCCAAGGTCAAAGTCGACAGGCAGACTGAA-GATGAAGCAA-TCTCCAAGGTCAAAACCGA
4682036 CAAGCA
64 CAAGCA
4682042 GACTTTAGAT
Statistics
Matches: 155, Mismatches: 36, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
126 3 0.02
127 127 0.82
128 25 0.16
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (127 bp):
AGTCTCCAAGGTCAAAGTCGACAGGCAGACTGAAGATGAAGCAATCTCCAAGGTCAAAACCGACA
AGCAAACTGAAGGGTAGGAAAGTCTTCAAGGTCAAAGCCAACAGGAAGACTTTAGATGAGGC
Found at i:4683202 original size:760 final size:761
Alignment explanation
Indices: 4681847--4683452 Score: 1774
Period size: 760 Copynumber: 2.1 Consensus size: 761
4681837 GATGAGGCAG
* * * * * *
4681847 TCTCCAAGGTCAAAGCTAACAGGTAAA-TTGAAGATGAGGCAATCTCCAAGGTCAAAGTCGATAA
1 TCTCCAAGGTCAAAGCCAACAAGCAAACTT-TAGATGAGGCAATCTTCAAGGTCAAAGCCGAT-A
* * * *
4681911 G-TAAACTGAAGGGTAGGAAAGTCTCTAAGGTCAAAGCCAATAGGCAAACTTTAGATGAGGTAGT
64 GCTAAACTGAAGGATAGGAAAGTCTCTAAGGTCAAAGCCAACAGGCAAACTTTAGATGAGGCAGC
* *
4681975 CTCTAAGGTCAAAGTCGACAGGCAGACTGAAGGATAAGAAAGTCTCCAGGGTTAAAGCTGACAAG
129 CTCTAAGGTCAAAGTCGACAAGCAGACTGAAGGATAAGAAAGTCTCCAGGGTCAAAGCTGACAAG
* * * * * *
4682040 CAGACTTTAGATGAGGCAGTCTCTAGGGTCAGCCGACAGGCAGACTTAAGGGTTGAAAAGTCTCC
194 CAGACTTTAGATGAGGCAGTCTCAAAGGTCAACCGACAGACAGACTAAAGGGTAGAAAAGTCTCC
* * *
4682105 AAGGTCAAAGCCAATAGGCAGACTTTAGGTGAGGTAGTCTCCAAGGTCAAAGCCGATAGGCAGAC
259 AAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGATAGGCAGAC
*
4682170 TAAGGATAGGAAAGTCTCCAAGGTCAAAGCCAACTGGCAGACTAAGAGTAGGAAAGTCTTCAAGG
324 TAAGGATAGGAAAGTCTCCAAGGTCAAAGCCAACTGGCAAACTAAGAGTAGGAAAGTCTTCAAGG
** * * * * **
4682235 TCAAAACTGACATATAGACTTTAGATAAGGCACTCTCTAAGGTCAAAGCCGACAGGCAGACTTTA
389 TCAAAACCAACAGACAGACTTTAAATAAGGCACTCTCCAAGGTCAAAGCCGACAGGCAGACTAAA
* * **
4682300 GATGAGGTAGTATCCAGGGTCAAAGCTGACAAGTAGACTTAAGGGTAGAAAAGTCTTTAAGGTCA
454 GATGAGGAAGTATCAAGGGTCAAAGCTGACAAGTAGACTTAAGGGTAGAAAAGTCTCCAAGGTCA
* ** * ** *
4682365 AAGTCGACAGGCAGACTTTAGATGAGGCAGTCTCTAGAGTCAAAGCTGACAGGCAAACTGAAGGA
519 AAGCCGACAGGCAGACTAAAGATAAGAAAGTCTCTAGAGTCAAAGCCGACAGGCAAACTGAAGGA
*
4682430 TAAAAAAGTCTCC-AGGCTCAAAGCTGACAGACAGGCTTTAGATGAGACAATCT-TCAAGGTCAA
584 TAAAAAAGTCTCCAAGG-TCAAAGCTGACAGACAGACTTTAGATGAGACAATCTCT-AAGGTCAA
* *
4682493 AGCCGACAAGCAGACTAAAAGGTAAGAAAGTTT-TCAAGGTCAAAACCGACAGGTAGACTTTAGA
647 AACCGACAAGCAGACTAAAAGGTAAGAAAGTTTCT-AAGGTCAAAACCAACAGGTAGACTTTAGA
* * ** * *
4682557 TAAGGTAGTCTCTATGGTTAAAGC-GA-ACAGGTGAACTGAAGGATAGGAAAG
711 TAAGGCAGTCTCTATGGTCAAAGCTGACA-AGCAG-ACTAAAGGATAGGAAAA
* * ** *
4682608 TTTCCATGGTCAAAGCTGAC-AGCCAAACTTTAGATGAGGCAGTCTTC-AGGTCAAAGCCGATAG
1 TCTCCAAGGTCAAAGCCAACAAG-CAAACTTTAGATGAGGCAATCTTCAAGGTCAAAGCCGATAG
* * * * *
4682671 CTAGACTGAAGGATAGGAAAGTCTCTAGGGTCAAAGCCGACGGGCAGACTTTAGATGA-GCAGCC
65 CTAAACTGAAGGATAGGAAAGTCTCTAAGGTCAAAGCCAACAGGCAAACTTTAGATGAGGCAGCC
* * ** * ** * *
4682735 T-TCAGGGTCAAAGTCGGCAAGCAGACTTTA-GATGAGGTAGTCTCTAGGGTCAAAGCTGACAGG
130 TCT-AAGGTCAAAGTCGACAAGCAGACTGAAGGATAAGAAAGTCTCCAGGGTCAAAGCTGACAAG
* * * *
4682798 CAGACTTTAGATGAGGCGGTCTCAAAGGTCAAAACTGACATACAGACTAAAGGGTAGGAAAGTCT
194 CAGACTTTAGATGAGGCAGTCTCAAAGGTC--AACCGACAGACAGACTAAAGGGTAGAAAAGTCT
* * * * * *
4682863 CCAAGGTCAAGGCCGACATGCCGACTTTAGATGAGGCAGTTTGCAAGGTCAAAGCCGATAGGCAG
257 CCAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGATAGGCAG
* * * *
4682928 ACTAAGGATAGGAAAGTCTCCAAGGTCAAAGCCGA-TAGGCAAACTGAGGGTAGGAAAGTCTTTA
322 ACTAAGGATAGGAAAGTCTCCAAGGTCAAAGCCAACT-GGCAAACTAAGAGTAGGAAAGTCTTCA
* * * * * * * * *
4682992 GGGTGAAAGCCAACAGGCAGACTTTAAATGAGGTAGTCTCCAGGGTCAAAGCTGACAGGCAGACT
386 AGGTCAAAACCAACAGACAGACTTTAAATAAGGCACTCTCCAAGGTCAAAGCCGACAGGCAGACT
* * * * * ** * **
4683057 AAAGGT-AGGAAAGTCTTAATGGTCAAAG-TCGACAGGTAGACTT-TTGATGAGGCAAGTCTCCA
451 AAAGATGAGG-AAGTATCAAGGGTCAAAGCT-GACAAGTAGACTTAAGGGT-AGAAAAGTCTCCA
* *
4683119 AGGTCAAAGCCGACAGGCAGACTAAAGGATAAGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGAC
513 AGGTCAAAGCCGACAGGCAGACTAAA-GATAAGAAAGTCTCTAGAGTCAAAGCCGACAGGCAAAC
** * * *** * * * *
4683184 TTTA-GTTGAGGCAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAGTCTCTAGG
577 TGAAGGATAAAAAAGTCTCCAAGGTCAAAGCTGACAGACAGACTTTAGATGAGACAATCTCTAAG
* * * * * * * * *
4683248 GTCAAAACCGACAGGCAGACTGAAGGGTAGGAAAGTTTCTAGGGTTAAAGCTAATAGGTAGACTT
642 GTCAAAACCGACAAGCAGACTAAAAGGTAAGAAAGTTTCTAAGGTCAAAACCAACAGGTAGACTT
*
4683313 TAGATGAGGCAGTCTCTATGGTCAAAGCTGACAAGCAGACTAAAGGATAGGAAAA
707 TAGATAAGGCAGTCTCTATGGTCAAAGCTGACAAGCAGACTAAAGGATAGGAAAA
* *
4683368 TCTCCAAGGTCAAAGCCAACAAGCAAACTTTAGATGAAGCAATC-TCTAGGTCAAAGCCGATAGG
1 TCTCCAAGGTCAAAGCCAACAAGCAAACTTTAGATGAGGCAATCTTCAAGGTCAAAGCCGATA-G
*
4683432 C-ATACTGAAGGATAGGAAAGT
65 CTAAACTGAAGGATAGGAAAGT
4683453 TCATATGGTC
Statistics
Matches: 696, Mismatches: 130, Indels: 39
0.80 0.15 0.05
Matches are distributed among these distances:
758 55 0.08
759 38 0.05
760 518 0.74
761 82 0.12
762 3 0.00
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (761 bp):
TCTCCAAGGTCAAAGCCAACAAGCAAACTTTAGATGAGGCAATCTTCAAGGTCAAAGCCGATAGC
TAAACTGAAGGATAGGAAAGTCTCTAAGGTCAAAGCCAACAGGCAAACTTTAGATGAGGCAGCCT
CTAAGGTCAAAGTCGACAAGCAGACTGAAGGATAAGAAAGTCTCCAGGGTCAAAGCTGACAAGCA
GACTTTAGATGAGGCAGTCTCAAAGGTCAACCGACAGACAGACTAAAGGGTAGAAAAGTCTCCAA
GGTCAAAGCCAACAGGCAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGATAGGCAGACTA
AGGATAGGAAAGTCTCCAAGGTCAAAGCCAACTGGCAAACTAAGAGTAGGAAAGTCTTCAAGGTC
AAAACCAACAGACAGACTTTAAATAAGGCACTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGA
TGAGGAAGTATCAAGGGTCAAAGCTGACAAGTAGACTTAAGGGTAGAAAAGTCTCCAAGGTCAAA
GCCGACAGGCAGACTAAAGATAAGAAAGTCTCTAGAGTCAAAGCCGACAGGCAAACTGAAGGATA
AAAAAGTCTCCAAGGTCAAAGCTGACAGACAGACTTTAGATGAGACAATCTCTAAGGTCAAAACC
GACAAGCAGACTAAAAGGTAAGAAAGTTTCTAAGGTCAAAACCAACAGGTAGACTTTAGATAAGG
CAGTCTCTATGGTCAAAGCTGACAAGCAGACTAAAGGATAGGAAAA
Found at i:4701482 original size:19 final size:20
Alignment explanation
Indices: 4701437--4701488 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
4701427 TTACAAGCCA
*
4701437 ATGTATCGATACATTTTGTG
1 ATGTATCGATACATATTGTG
4701457 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTGTG
4701477 -TGTATCGATACA
1 ATGTATCGATACA
4701489 AATTTAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATATTGTG
Found at i:4701547 original size:20 final size:20
Alignment explanation
Indices: 4701522--4701574 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
4701512 CCAATGACTT
**
4701522 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
4701542 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
4701562 GTATCGATACATT
1 GTATCGATACATT
4701575 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:4702239 original size:21 final size:21
Alignment explanation
Indices: 4702215--4702254 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4702205 ATTGCAAGAA
*
4702215 GATAATAAAAAATTAACTAAT
1 GATAACAAAAAATTAACTAAT
**
4702236 GATAACAACGAATTAACTA
1 GATAACAAAAAATTAACTA
4702255 GAAAGAATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.25
Consensus pattern (21 bp):
GATAACAAAAAATTAACTAAT
Found at i:4708240 original size:43 final size:43
Alignment explanation
Indices: 4708172--4708274 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 43
4708162 TCATAATTGA
* *
4708172 ATTGTATCGAT-CTATTAAGCCCAACGGCTATAATTTCAACTAC
1 ATTGTATCGATAC-ATTAAGCCCAACGGCTAAAATTTCAAATAC
* * *
4708215 ATTGTATCGATACATTGAGCTCAACGGCTAAAATTTCAAATGC
1 ATTGTATCGATACATTAAGCCCAACGGCTAAAATTTCAAATAC
4708258 ATTGTATCGATACATTA
1 ATTGTATCGATACATTA
4708275 TGAATTGTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 52 0.98
44 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (43 bp):
ATTGTATCGATACATTAAGCCCAACGGCTAAAATTTCAAATAC
Found at i:4708727 original size:25 final size:26
Alignment explanation
Indices: 4708699--4708748 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
4708689 TAAGTTATTG
*
4708699 TCTTCGA-GGATACTCTAACCCCACT
1 TCTTCGAGGGATACTCCAACCCCACT
4708724 TCTTCGAGGGGATACTCCAACCCCA
1 TCTTCGA-GGGATACTCCAACCCCA
4708749 TTTTTCAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
27 15 0.68
ACGTcount: A:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (26 bp):
TCTTCGAGGGATACTCCAACCCCACT
Found at i:4716028 original size:13 final size:14
Alignment explanation
Indices: 4715995--4716025 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4715985 AAAACACAAA
*
4715995 TTTTAAAATTAATT
1 TTTTAAAAATAATT
4716009 TTTTAAAAATAATT
1 TTTTAAAAATAATT
4716023 TTT
1 TTT
4716026 AAATTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTAAAAATAATT
Found at i:4718366 original size:53 final size:54
Alignment explanation
Indices: 4718309--4718413 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 54
4718299 GTGCATGATG
*
4718309 ATGTTACCAGTATGAACTACAAAAATCACTTGAAAAAGAAA-TTAAAAAAAAGA
1 ATGTTACCAATATGAACTACAAAAATCACTTGAAAAAGAAATTTAAAAAAAAGA
*
4718362 ATGTTACCAATATGAACTACAGAAATCACTTGAAAAAGAAATTTAAAAAAAA
1 ATGTTACCAATATGAACTACAAAAATCACTTGAAAAAGAAATTTAAAAAAAA
4718414 AAAAAAGAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 39 0.80
54 10 0.20
ACGTcount: A:0.56, C:0.11, G:0.10, T:0.22
Consensus pattern (54 bp):
ATGTTACCAATATGAACTACAAAAATCACTTGAAAAAGAAATTTAAAAAAAAGA
Found at i:4719212 original size:22 final size:21
Alignment explanation
Indices: 4719176--4719256 Score: 65
Period size: 22 Copynumber: 3.7 Consensus size: 21
4719166 ATTTTATTCC
4719176 TTTTATTTATT-AAATTCATATT
1 TTTTATTT-TTAAAATTC-TATT
*
4719198 TTTTATTTTTAAAATTTTAATCT
1 TTTTATTTTTAAAATTCT-AT-T
** *
4719221 TTTTATTTTATTTAATTCTATA
1 TTTTATTTT-TAAAATTCTATT
*
4719243 ATTTATTTTTAAAA
1 TTTTATTTTTAAAA
4719257 AATTTTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
21 6 0.13
22 23 0.49
23 12 0.26
24 6 0.13
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTATTTTTAAAATTCTATT
Found at i:4719215 original size:45 final size:45
Alignment explanation
Indices: 4719152--4719256 Score: 124
Period size: 45 Copynumber: 2.3 Consensus size: 45
4719142 ATTTTTATTA
* *
4719152 ATTTTA-TTTTATATATTTTATTCCTTTTA-TTTATTAAATTCATAT
1 ATTTTATTTTTA-AAATTTTAATCCTTTTATTTTATTAAATTC-TAT
* * *
4719197 TTTTTATTTTTAAAATTTTAATCTTTTTATTTTATTTAATTCTAT
1 ATTTTATTTTTAAAATTTTAATCCTTTTATTTTATTAAATTCTAT
*
4719242 AATTTATTTTTAAAA
1 ATTTTATTTTTAAAA
4719257 AATTTTAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
45 35 0.69
46 16 0.31
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (45 bp):
ATTTTATTTTTAAAATTTTAATCCTTTTATTTTATTAAATTCTAT
Found at i:4720021 original size:27 final size:27
Alignment explanation
Indices: 4719991--4720045 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
4719981 AATTTTTGTT
4719991 ACTTTGGTTCAGTCGCCAAATGACGCA
1 ACTTTGGTTCAGTCGCCAAATGACGCA
4720018 ACTTTGGTTCAGTCGCCAAATGACGCA
1 ACTTTGGTTCAGTCGCCAAATGACGCA
4720045 A
1 A
4720046 GTTGTCTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (27 bp):
ACTTTGGTTCAGTCGCCAAATGACGCA
Found at i:4720991 original size:20 final size:20
Alignment explanation
Indices: 4720968--4721020 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
4720958 CACACCCAGA
4720968 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
4720988 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
4721008 TGTATCGATACAT
1 TGTATCGATACAT
4721021 GGACAATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Done.