Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 28 of 59
Found at i:10306862 original size:26 final size:26
Alignment explanation
Indices: 10306833--10306891 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
10306823 TTCTGAAACA
10306833 AGACAAAGACTCTCTTTCACTTAAAT
1 AGACAAAGACTCTCTTTCACTTAAAT
10306859 AGACAAAGACTCTCTTTCACTTAAAT
1 AGACAAAGACTCTCTTTCACTTAAAT
10306885 AGACAAA
1 AGACAAA
10306892 AAAAAATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.27
Consensus pattern (26 bp):
AGACAAAGACTCTCTTTCACTTAAAT
Found at i:10307114 original size:21 final size:22
Alignment explanation
Indices: 10307075--10307115 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10307065 AAGTACATTA
*
10307075 GGCATGGAGATTAATAAATTTT
1 GGCATGGAGATTAACAAATTTT
*
10307097 GGCAT-GAGATTGACAAATT
1 GGCATGGAGATTAACAAATT
10307116 AATATTTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (22 bp):
GGCATGGAGATTAACAAATTTT
Found at i:10308112 original size:29 final size:29
Alignment explanation
Indices: 10308079--10308134 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
10308069 AACATGTCTA
10308079 GCATCTGTCTTTACAAAGACATAGGAGTT
1 GCATCTGTCTTTACAAAGACATAGGAGTT
* *
10308108 GCATCTGTCTTTACTAAGACATGGGAG
1 GCATCTGTCTTTACAAAGACATAGGAG
10308135 GTTTAGGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (29 bp):
GCATCTGTCTTTACAAAGACATAGGAGTT
Found at i:10313723 original size:2 final size:2
Alignment explanation
Indices: 10313716--10313745 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10313706 ATTGACAAGA
*
10313716 GT GT GT GT GT GT GT GT GT GT AT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
10313746 ATATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
GT
Found at i:10315509 original size:23 final size:23
Alignment explanation
Indices: 10315483--10315529 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
10315473 GTTTAAAGTT
*
10315483 TGTGAAACGGCA-GGTTGGGAATG
1 TGTGAAACGACATGG-TGGGAATG
*
10315506 TGTGACACGACATGGTGGGAATG
1 TGTGAAACGACATGGTGGGAATG
10315529 T
1 T
10315530 ATGAGTGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.26, C:0.11, G:0.40, T:0.23
Consensus pattern (23 bp):
TGTGAAACGACATGGTGGGAATG
Found at i:10315870 original size:23 final size:23
Alignment explanation
Indices: 10315841--10315917 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
10315831 GTTTAGAGTT
10315841 TGTGACATGCCATGGAGGCAATC
1 TGTGACATGCCATGGAGGCAATC
* * * * *
10315864 TGTGACACGGCAGGGTTTA-G-AGTT
1 TGTGACATGCCATGG---AGGCAATC
10315888 TGTGACATGCCATGGAGGCAATC
1 TGTGACATGCCATGGAGGCAATC
10315911 TGTGACA
1 TGTGACA
10315918 CAACAACGTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 21 0.54
24 14 0.36
25 1 0.03
26 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (23 bp):
TGTGACATGCCATGGAGGCAATC
Found at i:10315965 original size:23 final size:23
Alignment explanation
Indices: 10315935--10316060 Score: 87
Period size: 23 Copynumber: 5.4 Consensus size: 23
10315925 GTTCAGAGTT
10315935 TGTGACACGGCATGGAGGGAATC
1 TGTGACACGGCATGGAGGGAATC
* *** * *
10315958 TGTGACACGACA-GCGTTCAGAGTT
1 TGTGACACGGCATG-G-AGGGAATC
*
10315982 TGTGACACGACATGGAGGGAATC
1 TGTGACACGGCATGGAGGGAATC
** * *
10316005 TGTGACACGCCAGCATTCA--GAGTT
1 TGTGACACG---GCATGGAGGGAATC
10316029 TGTGACACGGCATGGAGGGAATC
1 TGTGACACGGCATGGAGGGAATC
10316052 TGTGACACG
1 TGTGACACG
10316061 TCAATGTTTA
Statistics
Matches: 75, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
21 5 0.07
22 1 0.01
23 36 0.48
24 28 0.37
25 1 0.01
26 4 0.05
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (23 bp):
TGTGACACGGCATGGAGGGAATC
Found at i:10315990 original size:24 final size:24
Alignment explanation
Indices: 10315958--10316037 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 24
10315948 GGAGGGAATC
10315958 TGTGACACGACAGCGTTCAGAGTT
1 TGTGACACGACAGCGTTCAGAGTT
*** * *
10315982 TGTGACACGACATG-G-AGGGAATC
1 TGTGACACGACA-GCGTTCAGAGTT
* *
10316005 TGTGACACGCCAGCATTCAGAGTT
1 TGTGACACGACAGCGTTCAGAGTT
10316029 TGTGACACG
1 TGTGACACG
10316038 GCATGGAGGG
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
22 1 0.02
23 14 0.34
24 25 0.61
25 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (24 bp):
TGTGACACGACAGCGTTCAGAGTT
Found at i:10316060 original size:47 final size:47
Alignment explanation
Indices: 10315535--10316060 Score: 592
Period size: 47 Copynumber: 11.2 Consensus size: 47
10315525 AATGTATGAG
* * *
10315535 TGTGACACGGCAAG-GTTTAGAGTTTGTGACATGCCATGGAGGGAATC
1 TGTGACAC-GCCAGCGTTCAGAGTTTGTGACACGCCATGGAGGGAATC
* *** * * * * *
10315582 TATGACACATAAGGGTTCAAACTTTGTGACACGTCATGGAGGGAATT
1 TGTGACACGCCAGCGTTCAGAGTTTGTGACACGCCATGGAGGGAATC
* *
10315629 TATGACACAG-CAGCGTTCAGAGTTTGTGACACGGCATGGAGGGAATC
1 TGTGACAC-GCCAGCGTTCAGAGTTTGTGACACGCCATGGAGGGAATC
* * **
10315676 TGTGACATGCTAGCGTTCAGAGTTTGTGACACGCCATGGAAAGAATC
1 TGTGACACGCCAGCGTTCAGAGTTTGTGACACGCCATGGAGGGAATC
* **
10315723 TGTGACATGGTAAG-GTTCAGAGTTTGTGACACAG-CATGGAGGGAATC
1 TGTGACA-CGCCAGCGTTCAGAGTTTGTGACAC-GCCATGGAGGGAATC
* * * *
10315770 TGTGACATGCTAGCATTCAGAGTTTATGACACGCCATGGAGGGAATC
1 TGTGACACGCCAGCGTTCAGAGTTTGTGACACGCCATGGAGGGAATC
* * * * * *
10315817 TATGACATGTCAGCGTTTAGAGTTTGTGACATGCCATGGAGGCAATC
1 TGTGACACGCCAGCGTTCAGAGTTTGTGACACGCCATGGAGGGAATC
* * * * *
10315864 TGTGACACGGCAGGGTTTAGAGTTTGTGACATGCCATGGAGGCAATC
1 TGTGACACGCCAGCGTTCAGAGTTTGTGACACGCCATGGAGGGAATC
** * *
10315911 TGTGACACAACAACGTTCAGAGTTTGTGACACGGCATGGAGGGAATC
1 TGTGACACGCCAGCGTTCAGAGTTTGTGACACGCCATGGAGGGAATC
* *
10315958 TGTGACACGACAGCGTTCAGAGTTTGTGACACGACATGGAGGGAATC
1 TGTGACACGCCAGCGTTCAGAGTTTGTGACACGCCATGGAGGGAATC
* *
10316005 TGTGACACGCCAGCATTCAGAGTTTGTGACACGGCATGGAGGGAATC
1 TGTGACACGCCAGCGTTCAGAGTTTGTGACACGCCATGGAGGGAATC
10316052 TGTGACACG
1 TGTGACACG
10316061 TCAATGTTTA
Statistics
Matches: 414, Mismatches: 58, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
46 8 0.02
47 402 0.97
48 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
TGTGACACGCCAGCGTTCAGAGTTTGTGACACGCCATGGAGGGAATC
Found at i:10316158 original size:44 final size:44
Alignment explanation
Indices: 10316071--10316164 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
10316061 TCAATGTTTA
* * * **
10316071 AAATTTGTGACACGGTAGGGTTCAGAGTTTGTCAGACTCCATGG
1 AAATTTGTGACACGGCAGGGTTCAGAGTGTGTCACACGACATGG
* * *
10316115 AAATTTGTGACACTGCAGGGTTTAGAGTGTGTGACACGACATGG
1 AAATTTGTGACACGGCAGGGTTCAGAGTGTGTCACACGACATGG
*
10316159 CAATTT
1 AAATTT
10316165 ATGAGTGACA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (44 bp):
AAATTTGTGACACGGCAGGGTTCAGAGTGTGTCACACGACATGG
Found at i:10317430 original size:20 final size:20
Alignment explanation
Indices: 10317380--10317430 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
10317370 CTTCATCTTC
10317380 CATGCTCCCAACGCCATTTT
1 CATGCTCCCAACGCCATTTT
** *
10317400 CACCCACCCAACGCCATTTT
1 CATGCTCCCAACGCCATTTT
*
10317420 CATGCTTCCAA
1 CATGCTCCCAA
10317431 GCTATTTTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.43, G:0.08, T:0.25
Consensus pattern (20 bp):
CATGCTCCCAACGCCATTTT
Found at i:10317535 original size:14 final size:13
Alignment explanation
Indices: 10317512--10317541 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
10317502 GGAAAGAAAG
10317512 AAAGGAGAAAGGA
1 AAAGGAGAAAGGA
10317525 AAAGAGAGAAAGGA
1 AAAG-GAGAAAGGA
10317539 AAA
1 AAA
10317542 AAAAAGCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (13 bp):
AAAGGAGAAAGGA
Found at i:10318577 original size:37 final size:37
Alignment explanation
Indices: 10318513--10318707 Score: 213
Period size: 37 Copynumber: 5.4 Consensus size: 37
10318503 TAATGTGGGC
*
10318513 GGGAGTG--CATG-TGATGATATTGAAATGTGCATGTA
1 GGGAGTGCACATGATGA-GATATTGAAATGTGCATGCA
** **
10318548 AAGAGTGCACATGATGAGATATTGAAATGTGTGTGCA
1 GGGAGTGCACATGATGAGATATTGAAATGTGCATGCA
10318585 GGGAGTGCACATGATGAGATATTGAAATGTGCATGCA
1 GGGAGTGCACATGATGAGATATTGAAATGTGCATGCA
* * *
10318622 GGGAGTGCACATGATGATATATTGAAA-GCTGCGTGTA
1 GGGAGTGCACATGATGAGATATTGAAATG-TGCATGCA
*** * *
10318659 GGGAGTGCACATGAT--GATATTGCCTTGTGCGTGTA
1 GGGAGTGCACATGATGAGATATTGAAATGTGCATGCA
10318694 GGGAGTGCACATGA
1 GGGAGTGCACATGA
10318708 GCTGAGTAAG
Statistics
Matches: 139, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
35 33 0.24
36 2 0.01
37 101 0.73
38 3 0.02
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.27
Consensus pattern (37 bp):
GGGAGTGCACATGATGAGATATTGAAATGTGCATGCA
Found at i:10318628 original size:74 final size:74
Alignment explanation
Indices: 10318513--10318707 Score: 240
Period size: 74 Copynumber: 2.7 Consensus size: 74
10318503 TAATGTGGGC
**
10318513 GGGAGTG--CATG-TGATGATATTGAAATGTGCATGTAAAGAGTGCACATGATGAGATATTGAAA
1 GGGAGTGCACATGATGA-GATATTGAAATGTGCATGTAGGGAGTGCACATGATGAGATATTGAAA
*
10318575 TG-TGTGTGCA
65 -GCTGCGTGCA
* *
10318585 GGGAGTGCACATGATGAGATATTGAAATGTGCATGCAGGGAGTGCACATGATGATATATTGAAAG
1 GGGAGTGCACATGATGAGATATTGAAATGTGCATGTAGGGAGTGCACATGATGAGATATTGAAAG
*
10318650 CTGCGTGTA
66 CTGCGTGCA
*** *
10318659 GGGAGTGCACATGAT--GATATTGCCTTGTGCGTGTAGGGAGTGCACATGA
1 GGGAGTGCACATGATGAGATATTGAAATGTGCATGTAGGGAGTGCACATGA
10318708 GCTGAGTAAG
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
72 36 0.33
73 1 0.01
74 68 0.63
75 3 0.03
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.27
Consensus pattern (74 bp):
GGGAGTGCACATGATGAGATATTGAAATGTGCATGTAGGGAGTGCACATGATGAGATATTGAAAG
CTGCGTGCA
Found at i:10319491 original size:31 final size:31
Alignment explanation
Indices: 10319456--10319562 Score: 146
Period size: 31 Copynumber: 3.5 Consensus size: 31
10319446 TCAGCATTGG
* *
10319456 CGTGTTACAACATTTAAC-TTGATACGCATGA
1 CGTGTTACAACATTTTACGTT-ATATGCATGA
*
10319487 CGTGTTACAACATTTTACGTTATATGCATGG
1 CGTGTTACAACATTTTACGTTATATGCATGA
*
10319518 CGTATTACAACATTTTACGTTATATGCAT-A
1 CGTGTTACAACATTTTACGTTATATGCATGA
10319548 GCGTGTTACAACATT
1 -CGTGTTACAACATT
10319563 ATGAGTTAAC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
31 66 0.97
32 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (31 bp):
CGTGTTACAACATTTTACGTTATATGCATGA
Found at i:10321241 original size:145 final size:145
Alignment explanation
Indices: 10320968--10321242 Score: 399
Period size: 145 Copynumber: 1.9 Consensus size: 145
10320958 CAGAAAGGAC
* * *
10320968 GGTTGTAACGGTTTGTATTCAACAATACCATAAGTGATTATCGAATAACATATCTGTGTTTGCAG
1 GGTTATAACAGTTTGTATTCAACAATACCATAAGTGATTATCGAATAACATATCTGTGTTGGCAG
* * *
10321033 TTGGACCATGCAACGATAGCTCCACAACCACCGAGAGGTCCTTCTCAGACTCACAATGCTAACGA
66 TTGGACCATGCAACGACAGCTCCACAACCACCGAGAGGTCCTTCTCAAACGCACAATGCTAACGA
10321098 TGAGCTAGTAAAGAT
131 TGAGCTAGTAAAGAT
* * *
10321113 GGTTATAACAGTTTGTGTTCAACAATTCCATATGTGATTATCGAATAACATATCTGTGTTGGCAG
1 GGTTATAACAGTTTGTATTCAACAATACCATAAGTGATTATCGAATAACATATCTGTGTTGGCAG
* ** ** *
10321178 TTGGACCATGCGACGACAGCTCTTCAACCATTGAGAGGT-CTTCCTCAAACGCACAATGTTAACG
66 TTGGACCATGCAACGACAGCTCCACAACCACCGAGAGGTCCTT-CTCAAACGCACAATGCTAACG
10321242 A
130 A
10321243 CCTGTCTATA
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
144 3 0.03
145 111 0.97
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (145 bp):
GGTTATAACAGTTTGTATTCAACAATACCATAAGTGATTATCGAATAACATATCTGTGTTGGCAG
TTGGACCATGCAACGACAGCTCCACAACCACCGAGAGGTCCTTCTCAAACGCACAATGCTAACGA
TGAGCTAGTAAAGAT
Found at i:10321287 original size:145 final size:145
Alignment explanation
Indices: 10320988--10321309 Score: 373
Period size: 145 Copynumber: 2.2 Consensus size: 145
10320978 GTTTGTATTC
* * * *
10320988 AACAATACCATAAGTGATTATCGAATAACATATCTGTGTTTGCAGTTGGACCATGCAACGATAGC
1 AACAATTCCATATGTGATTATCGAATAACATATCTGTGTTGGCAGTTGGACCATGCAACGACAGC
* * *
10321053 TCCACAACCACCGAGAGGTCCTTCTCAGACTCACAATGCTAACGATGAGCTAGTAAAGATGGTTA
66 TCCACAACCACCGAGAGGTCCTTCTCAAACGCACAATGCTAACGATGAGCTAGTAAAGATAGTTA
* *
10321118 TAACAGTTTGTGTTC
131 TAACAGTTTATGTTA
*
10321133 AACAATTCCATATGTGATTATCGAATAACATATCTGTGTTGGCAGTTGGACCATGCGACGACAGC
1 AACAATTCCATATGTGATTATCGAATAACATATCTGTGTTGGCAGTTGGACCATGCAACGACAGC
** ** * *
10321198 TCTTCAACCATTGAGAGGT-CTTCCTCAAACGCACAATGTTAACGACCTG-TCTA-T-AAGATCA
66 TCCACAACCACCGAGAGGTCCTT-CTCAAACGCACAATGCTAACGA--TGAGCTAGTAAAGAT-A
* *
10321259 GTTCTAACGGTTTATGTTA
127 GTTATAACAGTTTATGTTA
* * * * *
10321278 AACATTTCCACATATGTTTATCGAGTAACATA
1 AACAATTCCATATGTGATTATCGAATAACATA
10321310 GTAATTTCTG
Statistics
Matches: 150, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
144 8 0.05
145 137 0.91
146 3 0.02
147 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (145 bp):
AACAATTCCATATGTGATTATCGAATAACATATCTGTGTTGGCAGTTGGACCATGCAACGACAGC
TCCACAACCACCGAGAGGTCCTTCTCAAACGCACAATGCTAACGATGAGCTAGTAAAGATAGTTA
TAACAGTTTATGTTA
Found at i:10323455 original size:31 final size:31
Alignment explanation
Indices: 10323420--10323498 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
10323410 CTATAAGAAG
*
10323420 TCAGCGTGTCACCACAAAAATCTGCATGCAC
1 TCAGCGTGTCACCACAAAAATCTGCATCCAC
* ** *
10323451 TCAGCATGTCA-CACTAAGTATCTGCTTCCAC
1 TCAGCGTGTCACCAC-AAAAATCTGCATCCAC
10323482 TCAGCGTGTCACCACAA
1 TCAGCGTGTCACCACAA
10323499 TTGGGGCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 3 0.08
31 34 0.85
32 3 0.08
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (31 bp):
TCAGCGTGTCACCACAAAAATCTGCATCCAC
Found at i:10323494 original size:117 final size:117
Alignment explanation
Indices: 10323340--10323969 Score: 837
Period size: 117 Copynumber: 5.4 Consensus size: 117
10323330 CAAGGTAACG
* * *
10323340 TGTCACGCCAAGTATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCGCGCCGTGTCACCCCA
1 TGTCACGCCAAGTATCTGCTTCCACTCAGCGTGTCACCACAATTGGGGCGTGCCCTGTCACCCCA
* *
10323405 TAATACTATAAGAAGTCAGCGTGTCACCACAAAAATCTGCATGCACTCAGCA
66 CAATACTACAAGAAGTCAGCGTGTCACCACAAAAATCTGCATGCACTCAGCA
* * * *
10323457 TGTCACACTAAGTATCTGCTTCCACTCAGCGTGTCACCACAATTGGGGCATGCCGTGTCACCCCA
1 TGTCACGCCAAGTATCTGCTTCCACTCAGCGTGTCACCACAATTGGGGCGTGCCCTGTCACCCCA
* * *
10323522 TAATACTACAAGAAGTCAGCATGTCACCACTAAAATCTGCATGCACTCAGCA
66 CAATACTACAAGAAGTCAGCGTGTCACCACAAAAATCTGCATGCACTCAGCA
* ** *
10323574 TGTCACGCCAAGTACCTGCTTCCACTCAATGTGTCACCACAATTAGGGCGTGCCCTGTCACCCCA
1 TGTCACGCCAAGTATCTGCTTCCACTCAGCGTGTCACCACAATTGGGGCGTGCCCTGTCACCCCA
* * **
10323639 CAATACTACAAGAAGTTAGTGTGTCACCACAAAAATCTGCATGCACTCAGTG
66 CAATACTACAAGAAGTCAGCGTGTCACCACAAAAATCTGCATGCACTCAGCA
* * * *
10323691 TGTCACGCCAAATATCTGCTGCCACTCAGCATGTCACCACAATTGGGGCATGCCCTGTCACCCCA
1 TGTCACGCCAAGTATCTGCTTCCACTCAGCGTGTCACCACAATTGGGGCGTGCCCTGTCACCCCA
* * * * *
10323756 CAATATTGCAAGAAGTCAACGTGTCACCATAGAAATCTGCATGCACTCAGCA
66 CAATACTACAAGAAGTCAGCGTGTCACCACAAAAATCTGCATGCACTCAGCA
* * *** * *
10323808 TGTCATGCCAAGTATTTGCTTCCACTCAGCGTGTCACCACAATTNCCCCTGTGTGCCTTGTCACC
1 TGTCACGCCAAGTATCTGCTTCCACTCAGCGTGTCACCACAATT---GGGGCGTGCCCTGTCACC
* * ** * **
10323873 CCACAATATTGCAAGAAGTCAATGTGTCACCACAGAAATCTGCATGCACTCAGTG
63 CCACAATACTACAAGAAGTCAGCGTGTCACCACAAAAATCTGCATGCACTCAGCA
*
10323928 TGTCACGCCAACTATCTGCTTCCACTCAGCGTGTCACCACAA
1 TGTCACGCCAAGTATCTGCTTCCACTCAGCGTGTCACCACAA
10323970 GATGTCATTG
Statistics
Matches: 452, Mismatches: 58, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
117 350 0.77
120 102 0.23
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (117 bp):
TGTCACGCCAAGTATCTGCTTCCACTCAGCGTGTCACCACAATTGGGGCGTGCCCTGTCACCCCA
CAATACTACAAGAAGTCAGCGTGTCACCACAAAAATCTGCATGCACTCAGCA
Found at i:10323691 original size:31 final size:31
Alignment explanation
Indices: 10323656--10323732 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
10323646 ACAAGAAGTT
10323656 AGTGTGTCACCACAAAAATCTGCATG-CACTC
1 AGTGTGTCACCACAAAAATCTGC-TGCCACTC
*
10323687 AGTGTGTCACGC-CAAATATCTGCTGCCACTC
1 AGTGTGTCAC-CACAAAAATCTGCTGCCACTC
**
10323718 AGCATGTCACCACAA
1 AGTGTGTCACCACAA
10323733 TTGGGGCATG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 3 0.08
31 36 0.90
32 1 0.03
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (31 bp):
AGTGTGTCACCACAAAAATCTGCTGCCACTC
Found at i:10323930 original size:31 final size:31
Alignment explanation
Indices: 10323895--10323969 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
10323885 AAGAAGTCAA
*
10323895 TGTGTCACCACAGA-AATCTGCATGCACTCAG
1 TGTGTCACCACA-ACAATCTGCATCCACTCAG
* *
10323926 TGTGTCACGC-CAACTATCTGCTTCCACTCAG
1 TGTGTCAC-CACAACAATCTGCATCCACTCAG
*
10323957 CGTGTCACCACAA
1 TGTGTCACCACAA
10323970 GATGTCATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
30 2 0.05
31 34 0.92
32 1 0.03
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.24
Consensus pattern (31 bp):
TGTGTCACCACAACAATCTGCATCCACTCAG
Found at i:10327145 original size:21 final size:21
Alignment explanation
Indices: 10327121--10327161 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10327111 ATGCAGTATT
* *
10327121 ACCCTCGAGCGTCATAGTGTC
1 ACCCTCCAACGTCATAGTGTC
*
10327142 ACCCTCCAACGTCGTAGTGT
1 ACCCTCCAACGTCATAGTGT
10327162 TGTCCTCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.34, G:0.22, T:0.24
Consensus pattern (21 bp):
ACCCTCCAACGTCATAGTGTC
Found at i:10327884 original size:31 final size:31
Alignment explanation
Indices: 10327846--10328078 Score: 313
Period size: 31 Copynumber: 7.5 Consensus size: 31
10327836 TTTGTCAGTC
10327846 ATGTTGTAACACGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
10327877 ATGTTGTAACACGCCATGCATATAATGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
** * *
10327908 ATGTTGTAACACGTTATACATATAACATAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * * *
10327939 ATATTGTAACACACCATACATATAACGTCAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * *
10327970 ATGTTATAACACACCATGCATAAAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * *
10328001 ATGTTGTAACACGCCATGCGTATAATGTCAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* *
10328032 ATGTTGTAACACACTATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
10328063 ATGTTGTAACACGCCA
1 ATGTTGTAACACGCCA
10328079 ATCACTATAA
Statistics
Matches: 172, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 172 1.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.27
Consensus pattern (31 bp):
ATGTTGTAACACGCCATGCATATAACGTAAA
Found at i:10328508 original size:9 final size:9
Alignment explanation
Indices: 10328492--10328533 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
10328482 GGTGCTCAAC
10328492 AGAGAGTTG
1 AGAGAGTTG
*
10328501 ACAGAGTTG
1 AGAGAGTTG
* *
10328510 AGACAGTTC
1 AGAGAGTTG
10328519 AGAGAGTTG
1 AGAGAGTTG
10328528 AGAGAG
1 AGAGAG
10328534 AAAGATGAGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.36, C:0.07, G:0.38, T:0.19
Consensus pattern (9 bp):
AGAGAGTTG
Found at i:10328516 original size:63 final size:63
Alignment explanation
Indices: 10328410--10328533 Score: 203
Period size: 63 Copynumber: 2.0 Consensus size: 63
10328400 ACCACAGCCC
*
10328410 GATGACGATGGTGCTCAACAGAGAGTTGACAGAGCTCATACAGTTCAAAGAGCTGAGAGAGTT
1 GATGACGATGGTGCTCAACAGAGAGTTGACAGAGCTCAGACAGTTCAAAGAGCTGAGAGAGTT
* * * *
10328473 GATGACGATGGTGCTCAACAGAGAGTTGACAGAGTTGAGACAGTTCAGAGAGTTGAGAGAG
1 GATGACGATGGTGCTCAACAGAGAGTTGACAGAGCTCAGACAGTTCAAAGAGCTGAGAGAG
10328534 AAAGATGAGC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (63 bp):
GATGACGATGGTGCTCAACAGAGAGTTGACAGAGCTCAGACAGTTCAAAGAGCTGAGAGAGTT
Found at i:10335371 original size:9 final size:9
Alignment explanation
Indices: 10335353--10335386 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
10335343 CATGAAGAAC
10335353 AAAAAAAAT
1 AAAAAAAAT
*
10335362 AAATAAAAT
1 AAAAAAAAT
10335371 AGAAAAAAAT
1 A-AAAAAAAT
10335381 AAAAAA
1 AAAAAA
10335387 GAAAGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:10335382 original size:15 final size:16
Alignment explanation
Indices: 10335353--10335390 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
10335343 CATGAAGAAC
10335353 AAAA-AAAATAAATAA
1 AAAAGAAAATAAATAA
*
10335368 AATAGAAAA-AAATAA
1 AAAAGAAAATAAATAA
10335383 AAAAGAAA
1 AAAAGAAA
10335391 GAGAAAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (16 bp):
AAAAGAAAATAAATAA
Found at i:10335395 original size:21 final size:19
Alignment explanation
Indices: 10335354--10335398 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
10335344 ATGAAGAACA
* *
10335354 AAAAAAATAAATAAAATAG
1 AAAAAAATAAAAAAAAGAG
10335373 AAAAAAATAAAAAAGAAAGAG
1 AAAAAAAT-AAAAA-AAAGAG
10335394 AAAAA
1 AAAAA
10335399 GGACCAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 10 0.45
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (19 bp):
AAAAAAATAAAAAAAAGAG
Found at i:10335397 original size:19 final size:19
Alignment explanation
Indices: 10335354--10335398 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
10335344 ATGAAGAACA
*
10335354 AAAAAAATAAATAAAATAG
1 AAAAAAATAAATAAAAAAG
10335373 AAAAAAATAAA-AAAGAAAG
1 AAAAAAATAAATAAA-AAAG
*
10335392 AGAAAAA
1 AAAAAAA
10335399 GGACCAGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (19 bp):
AAAAAAATAAATAAAAAAG
Found at i:10336694 original size:5 final size:5
Alignment explanation
Indices: 10336684--10336747 Score: 57
Period size: 5 Copynumber: 13.6 Consensus size: 5
10336674 GTAGACACTC
* * *
10336684 AAATA AAATA AAA-A AATTA AATTA AATTA AAAT- AAAT- AAAT- AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
10336730 AAATA ACAAT- AAATA AAA
1 AAATA A-AATA AAATA AAA
10336748 AAATTAATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
4 18 0.34
5 32 0.60
6 3 0.06
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:10336710 original size:23 final size:22
Alignment explanation
Indices: 10336684--10336766 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 22
10336674 GTAGACACTC
10336684 AAATAAAATAAAAAAATTAAATT
1 AAATAAAATAAAAAAA-TAAATT
* *
10336707 AAATTAAAATAAATAAATAAATA
1 AAA-TAAAATAAAAAAATAAATT
10336730 AAATAACAATAAATAAAA-AAATT
1 AAATAA-AATAAA-AAAATAAATT
*
10336753 AATTAAAA-AAAAAA
1 AAATAAAATAAAAAA
10336767 NNNNNNNNNN
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
20 3 0.06
21 3 0.06
22 5 0.10
23 26 0.50
24 15 0.29
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (22 bp):
AAATAAAATAAAAAAATAAATT
Found at i:10336760 original size:28 final size:27
Alignment explanation
Indices: 10336684--10336765 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 27
10336674 GTAGACACTC
*
10336684 AAATAAAATAAAAAAATTAAATTAAATTA
1 AAAT-AAATAAAAAAATT-AATTAAAATA
*
10336713 AAATAAAT----AAA-TAAATAAAATA
1 AAATAAATAAAAAAATTAATTAAAATA
*
10336735 ACAATAAATAAAAAAATTAATTAAAAAA
1 A-AATAAATAAAAAAATTAATTAAAATA
10336763 AAA
1 AAA
10336766 ANNNNNNNNN
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
22 9 0.21
23 8 0.19
24 3 0.07
27 5 0.12
28 14 0.33
29 4 0.09
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (27 bp):
AAATAAATAAAAAAATTAATTAAAATA
Found at i:10338820 original size:68 final size:69
Alignment explanation
Indices: 10338717--10338871 Score: 199
Period size: 68 Copynumber: 2.3 Consensus size: 69
10338707 ATATGAAAAA
* * *
10338717 ATACATCATATACATAATCTCATGCATTCATCATGCCTTTTTAA-CTATTTCAAGTAGTATATGG
1 ATACATCATATACATAATCTCATGCATCCATCATGCCTTATTAATC-ATCTCAAGTAGTATATGG
10338781 -A-AT
65 TATAT
* * * *
10338784 GTACATCATATACTTAATTTCATGGCATCCATCATGCCTTATTAATCATCTCATGTAGTATATGG
1 ATACATCATATACATAATCTCAT-GCATCCATCATGCCTTATTAATCATCTCAAGTAGTATATGG
10338849 TATAT
65 TATAT
*
10338854 ATATATCATATACATAAT
1 ATACATCATATACATAAT
10338872 ATAACATCTT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
67 20 0.27
68 35 0.47
69 2 0.03
70 17 0.23
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.39
Consensus pattern (69 bp):
ATACATCATATACATAATCTCATGCATCCATCATGCCTTATTAATCATCTCAAGTAGTATATGGT
ATAT
Found at i:10342472 original size:251 final size:252
Alignment explanation
Indices: 10342030--10344848 Score: 3302
Period size: 251 Copynumber: 11.3 Consensus size: 252
10342020 TGTAAAGCAA
* ** * * * * * *
10342030 TAAGAATTGATGTAAAAACTCGTAAAAGT-AAAATAATTAAATTTAAAATCCTAATATAAATGTG
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTAACATAAATGTG
* * * * * ** * * * *
10342094 TAAAAGTTAACGTAATAGGTCAAAT-AAGGAAAAATTTTAATTTTAATGAAAAAAAAATATTTAA
66 TGAGAGTTAACGTAACAAGTCAATTAAATAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAA
* * * *
10342158 ATTTATATTCTCTGGCTAAAATTGTTTAACGATATTA-AAATTTTAATTTTTAAATAAAGAATAA
131 ATTTATATTCTCAGACTAAAAGTATTTAACGATA-TACAAATTTTAATTTTTAAATAAAGAATAA
* *
10342222 TAAAGATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCCTTGACATAAAATTG
195 TAAGGATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCCTTGACGTAAAATTG
* * * * *
10342280 TAAGAATTGTCGTAAAAATTTATAAATGTGAG-ATAATTATATTTTAAATCTTAACATAAATGTG
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTAACATAAATGTG
* * * * * * *
10342344 TGAGATTTAACATAACAAGTCAATTAAATGAAAAAATATAATTTCAATGAAAAACAAACATTTAA
66 TGAGAGTTAACGTAACAAGTCAATTAAATAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAA
*
10342409 ATTTATATTCTCAGACTAAAACTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAAT
131 ATTTATATTCTCAGACTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAAT
* * * *
10342474 AGGGATAAAAATAATTATAATTCAAAATTGACATAAAAAAGCCTTGATGTAAAATTG
196 AAGGATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCCTTGACGTAAAATTG
* * * * *
10342531 TAGGAATTGACGTAAAAACTTATAATGGT-ATAATAATTAAATTTTAAATCTTAACATAAACGTG
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTAACATAAATGTG
* ** * *
10342595 TGAGGGCAAACGTAACAAGTCAATTAAGTAAAAAAAAT-TAATTTTAGTGAAAAATAAATATTTA
66 TGAGAGTTAACGTAACAAGTCAATTAAAT-AAAAAAATCTAATTTTAGTGAAAAACAAATATTTA
* * *
10342659 AATTTATATTCTCAGGCTAAAA-AATTTTCACGATATACAAATTTTAATTTTTAAATAAAGAATA
130 AATTTATATTCTCAGACTAAAAGTA-TTTAACGATATACAAATTTTAATTTTTAAATAAAGAATA
* * *
10342723 ATAAGGACAAAAATAATTATAGTTCAAAATTGACATAGATAAGCCTTGATGTAAAATTG
194 ATAAGGATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCCTTGACGTAAAATTG
* * * * * * * *
10342782 TAACAATTGACATCAAAATTTACAAAGGTG-GAATAACTAACTTTTAAAACTTAACGTAAATGTG
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTAACATAAATGTG
* * ** *
10342846 TAAGAGTTAATGTAACAAGTCAATT-AAGGAAAAAATCTAATTTTAAT-AAAAA-AAATATTTAA
66 TGAGAGTTAACGTAACAAGTCAATTAAATAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAA
* * *
10342908 ATTTATATTCTCAGGCTAAAAGTGTTTAACGATATA-AAAATTTAATTTTTAAATAAAGAATAAT
131 ATTTATATTCTCAGACTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAAT
* * * * * *
10342972 AAGGATAAAAATAATTATAGGGAT-AAATTTG-CATAGAAAAACCTTAAC-TAAAACTA
196 AAGGATAAAAATAATTATA--GTTCAAAATTGACATAGAAAAGCCTTGACGTAAAATTG
* * * *
10343028 TAAGAATTAACGTAAAAACTTATAAAGGTG-GAATAACTAAATTTTAAATTTTAACGTAAGTGTG
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTAACATAAATGTG
* * * * *
10343092 TAAGAGTTAACGTAACAAGCCAATTAAGTAAAAAAATCTAATTTCAGT-AAATAACAAACATTTA
66 TGAGAGTTAACGTAACAAGTCAATTAAATAAAAAAATCTAATTTTAGTGAAA-AACAAATATTTA
* *
10343156 AATTTATATTCTCGGAATAAAAGTATTTAACGATATAC-AATTTTAATTTTTAAAATAAA-AATA
130 AATTTATATTCTCAGACTAAAAGTATTTAACGATATACAAATTTTAATTTTT-AAATAAAGAATA
* * * * * *
10343219 ATAAGGATAAAAATAATTACAATTCAAAATTGACATAGATAAGCCTT-ATTGTAAAACTA
194 ATAAGGATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCCTTGA-CGTAAAATTG
* * * * *
10343278 TAACAATTAACGTAAAAACTTATAAAGTTGA-AATAACTAAATTTTAAATCTTAACGTCAATGTG
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTAACATAAATGTG
* * * *
10343342 TGAGAGTTAACGTAATAAGTCAATTAAGA-AAAAAAATCTAATTTTAATGAAAAATAAATATTCA
66 TGAGAGTTAACGTAACAAGTCAATTAA-ATAAAAAAATCTAATTTTAGTGAAAAACAAATATTTA
* * * * * *
10343406 AATTTATATTTTCGGACTAAAAGTGTTTAACGAGATAAAAATTTTAATTTGTAAATAAAGAATAA
130 AATTTATATTCTCAGACTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAA
* * * * * * *
10343471 TAAGGAAAAAAATAATTATAGATCAGAATTGACATA-AAAGAGCCTAGATGTAAGACTG
195 TAAGGATAAAAATAATTATAGTTCAAAATTGACATAGAAA-AGCCTTGACGTAAAATTG
* * *
10343529 TAAGAATTAACGTAAAAACTTATAAAGGTG-GAATGACTAAATTTTAAATCTTAACGTAAATGTG
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTAACATAAATGTG
* * * *
10343593 TGAGAGTTAATGTAACAAGTCAATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAACATTTAA
66 TGAGAGTTAACGTAACAAGTCAATTAAATAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAA
* * * * *
10343658 ATTTATATTCTCAAAATAAAAGTATTTAATGATATACAAAATTTAATTTTTAAATAAA-AATCAT
131 ATTTATATTCTCAGACTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAAT
* * * * *
10343722 AAGGATAAAAATAATTATAGTTTAAAATTTATATAAAAAAGCCTTGACGTAAAACTG
196 AAGGATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCCTTGACGTAAAATTG
10343779 TAAGAATTGACGTAAAAACTTATAAAGGT-AGAATAACTAAATTTT-AATCTTAACATAAATGTG
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTAACATAAATGTG
* * *
10343842 TGAGAGTTAACGTAACAAATTAATTAAATAAAAAAAATCTAATTTTAGTGAAAAACAAACA-TTA
66 TGAGAGTTAACGTAACAAGTCAATTAAAT-AAAAAAATCTAATTTTAGTGAAAAACAAATATTTA
* * * *
10343906 AATTTATATTCTCAAAATAAAAGTATTTAACGTTATAAAAATTTTAATTTTTAAATAAAGAATAA
130 AATTTATATTCTCAGACTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAA
* * * *
10343971 TAA-GAAAAAAATAATTATAGTTCAAAATTGACATAGAAAAGTCTGGACGTAAAATTA
195 TAAGGATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCCTTGACGTAAAATTG
* *
10344028 TAAGAATTAACGTAAAAACTTATAAAAGTGA-AATAACTAAATTTTAAATCTTAA-AGTAAATGT
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTAACA-TAAATGT
* *
10344091 GTGAGAGTTAACGTAATAAGTCAATTAAATAAAAAAAATCTAATTTTAGTGAAAAACAAACATTT
65 GTGAGAGTTAACGTAACAAGTCAATTAAAT-AAAAAAATCTAATTTTAGTGAAAAACAAATATTT
* ** *
10344156 AAATTTATATTCTCAGAATAAAAGTATTTAATTATATACATATTTTAATTTTTAAATAAA-AATA
129 AAATTTATATTCTCAGACTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATA
* **
10344220 ATAAGGATAAAAATAATTATAGTTTAAAATTGACATAGAAAAGATTTGACGTAAAATTG
194 ATAAGGATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCCTTGACGTAAAATTG
* * * ** **
10344279 TAAGAATTGACGTAAAAACTTGTAAATGTGA-AATAACTAAATTTTAAATCCTAATTTAAACATG
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTAACATAAATGTG
* * * * *
10344343 TGAGAGTTAATGTAACAAGTCAACTAAGTAAAAAAAATATAATTTTAGTGAAAAACAAATGTTTA
66 TGAGAGTTAACGTAACAAGTCAATTAAAT-AAAAAAATCTAATTTTAGTGAAAAACAAATATTTA
* * *
10344408 AATTTATATTCTCA-AGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAAATA
130 AATTTATATTCTCAGA-CTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATA
* * * *
10344472 ATAAAGATAAAAATAATTATAGTTCAAAACTGACATAGATAAGCCTAGACGTAAAATTG
194 ATAAGGATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCCTTGACGTAAAATTG
* * *
10344531 TAATAATTGACGTAAAAACTTATAAAGGTG-GAATAACTAAATTTTAAATCTGAACTTAAATGTG
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTAACATAAATGTG
* * * * * * **
10344595 TAAGAGTTAACGTAAAAAATCAATTAAGTTAAAAAGTCTAATTTTAGTGAAAAACGCATATTTAA
66 TGAGAGTTAACGTAACAAGTCAATTAAATAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAA
** * * * * * *
10344660 ATTTATATTCTTGGGCTAAAAGTGTTTAACAATATTCAAATTTTAA-TTTTATATAAAAAATAAA
131 ATTTATATTCTCAGACTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAAT-AA
* ** * * * * * *
10344724 AAATAATAAAAATAATTATAGTTCAAAATTGATATAGATAAGTCTTTACATAAAACTG
195 TAAGGATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCCTTGACGTAAAATTG
* ** * * * *
10344782 TAAGAATTAATATTAAAACTTATAAAGGT-TGAATAACTAAATTTTAAACCTTATA-GTAAATGT
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTA-ACATAAATGT
10344845 GTGA
65 GTGA
10344849 TTGTCAAACC
Statistics
Matches: 2225, Mismatches: 298, Indels: 91
0.85 0.11 0.03
Matches are distributed among these distances:
246 83 0.04
247 79 0.04
248 57 0.03
249 290 0.13
250 474 0.21
251 1098 0.49
252 144 0.06
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (252 bp):
TAAGAATTGACGTAAAAACTTATAAAGGTGAGAATAACTAAATTTTAAATCTTAACATAAATGTG
TGAGAGTTAACGTAACAAGTCAATTAAATAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAA
ATTTATATTCTCAGACTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAAT
AAGGATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCCTTGACGTAAAATTG
Found at i:10344092 original size:750 final size:750
Alignment explanation
Indices: 10342030--10344848 Score: 3456
Period size: 750 Copynumber: 3.8 Consensus size: 750
10342020 TGTAAAGCAA
* ** * ** * * **
10342030 TAAGAATTGATGTAAAAACTCGTAAAAGTAAAATAATTAAATTTAAAATCCTAATATAAATGTGT
1 TAAGAATTGACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCCTAACGTAAATGTGT
* * * * * * * * *
10342095 AAAAGTTAACGTAATAGGTCAAATAAGGAAAAATTTTAATTTTAATGAAAAAAAAATATTTAAAT
66 AAGAGTTAATGTAACAAGTCAATTAAGAAAAAAATATAATTTTAATGAAAAACAAATATTTAAAT
** * *
10342160 TTATATTCTCTGGCTAAAATTGTTTAACGATATTAAAATTTTAATTTTTAAATAAAGAATAATAA
131 TTATATTCTCAAGCTAAAAGTGTTTAACGATA-TAAAAATTTAATTTTTAAATAAAGAATAATAA
* * * *
10342225 AGATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCCTTGACATAAAATTGTAAGAATTGT
195 AGATAAAAATAATTATAGTTCAAAATTGACATAAAAAAGCCTTGACGTAAAACTGTAAGAATTGA
* * * * * *
10342290 CGTAAAAATTTATAAATGT-GAGATAATTATATTTTAAATCTTAACATAAATGTGTGAGATTTAA
260 CGTAAAAACTTATAAAGGTGGA-ATAACTAAATTTTAAATCTTAACATAAATGTGTAAGAGTTAA
* * * * *
10342354 CATAACAAGTCAATTAAATGAAAAAATATAATTTCAATGAAAAACAAACATTTAAATTTATATTC
324 CGTAACAAATCAATTAAATAAAAAAATCTAATTTCAGTGAAAAACAAACATTTAAATTTATATTC
* * * * *
10342419 TCAGACTAAAACTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAGGGATAAAA
389 TCAGAATAAAAGTATTTAACGATATAAAAATTTTAATTTTTAAATAAAGAATAATA-AGAAAAAA
* * * * * *
10342484 ATAATTATAATTCAAAATTGACATAAAAAAGCCTTGATGTAAAATTGTAGGAATTGACGTAAAAA
453 ATAATTATAATTCAAAATTGACATAGAAAAGCCTTGACGTAAAACTATAAGAATTAACGTAAAAA
* * * * * ** *
10342549 CTTAT-AATGGT-ATAATAATTAAATTTTAAATCTTAACA-TAAACGTGTGAGGGCAAACGTAAC
518 CTTATAAAAGTTGA-AATAACTAAATTTTAAATCTTAA-AGTAAATGTGTGAGAGTTAACGTAAT
10342611 AAGTCAATTAAGTAAAAAAAAT-TAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCAGG
581 AAGTCAATTAAG-AAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTC-GG
* * *
10342675 -CTAAAAAATTTTCACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGACAAAAATAA
644 ACT-AAAAGTTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGAAAAAAATAA
*
10342739 TTATAGTTCAAAATTGACATAGATAAGCCTTGATGTAAAATTG
708 TTATAGTTCAAAATTGACATAGAAAAGCCTTGATGTAAAATTG
* * * * * * * *
10342782 TAACAATTGACATCAAAATTTACAAAGGTGGAATAACTAACTTTTAAAACTTAACGTAAATGTGT
1 TAAGAATTGACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCCTAACGTAAATGTGT
* *
10342847 AAGAGTTAATGTAACAAGTCAATTAAGGAAAAAATCTAATTTTAAT-AAAAA-AAATATTTAAAT
66 AAGAGTTAATGTAACAAGTCAATTAAGAAAAAAATATAATTTTAATGAAAAACAAATATTTAAAT
* *
10342910 TTATATTCTCAGGCTAAAAGTGTTTAACGATATAAAAATTTAATTTTTAAATAAAGAATAATAAG
131 TTATATTCTCAAGCTAAAAGTGTTTAACGATATAAAAATTTAATTTTTAAATAAAGAATAATAAA
* * * *
10342975 GATAAAAATAATTATAGGGAT-AAATTTG-CATAGAAAAA-CCTTAAC-TAAAACTATAAGAATT
196 GATAAAAATAATTATA--GTTCAAAATTGACATA-AAAAAGCCTTGACGTAAAACTGTAAGAATT
* * * *
10343036 AACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATTTTAACGTAAGTGTGTAAGAGTTA
258 GACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACATAAATGTGTAAGAGTTA
** *
10343101 ACGTAACAAGCCAATTAAGTAAAAAAATCTAATTTCAGT-AAATAACAAACATTTAAATTTATAT
323 ACGTAACAAATCAATTAAATAAAAAAATCTAATTTCAGTGAAA-AACAAACATTTAAATTTATAT
* * *
10343165 TCTCGGAATAAAAGTATTTAACGATAT-ACAATTTTAATTTTTAAAATAAA-AATAATAAGGATA
387 TCTCAGAATAAAAGTATTTAACGATATAAAAATTTTAATTTTT-AAATAAAGAATAATAA-GAAA
* * * *
10343228 AAAATAATTACAATTCAAAATTGACATAGATAAGCCTT-ATTGTAAAACTATAACAATTAACGTA
450 AAAATAATTATAATTCAAAATTGACATAGAAAAGCCTTGA-CGTAAAACTATAAGAATTAACGTA
* *
10343292 AAAACTTAT-AAAGTTGAAATAACTAAATTTTAAATCTTAACGTCAATGTGTGAGAGTTAACGTA
514 AAAACTTATAAAAGTTGAAATAACTAAATTTTAAATCTTAAAGTAAATGTGTGAGAGTTAACGTA
* * *
10343356 ATAAGTCAATTAAGAAAAAAAATCTAATTTTAATGAAAAATAAATATTCAAATTTATATTTTCGG
579 ATAAGTCAATTAAGAAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCGG
* * *
10343421 ACTAAAAGTGTTTAACGAGATAAAAATTTTAATTTGTAAATAAAGAATAATAAGGAAAAAAATAA
644 ACTAAAAGT-TTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGAAAAAAATAA
* * * * *
10343486 TTATAGATCAGAATTGACATA-AAAGAGCCTAGATGTAAGACTG
708 TTATAGTTCAAAATTGACATAGAAA-AGCCTTGATGTAAAATTG
* * *
10343529 TAAGAATTAACGTAAAAACTTATAAAGGTGGAATGACTAAATTTTAAATCTTAACGTAAATGTGT
1 TAAGAATTGACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCCTAACGTAAATGTGT
* * *
10343594 GAGAGTTAATGTAACAAGTCAATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAACATTTAAA
66 AAGAGTTAATGTAACAAGTCAATTAAG-AAAAAAATATAATTTTAATGAAAAACAAATATTTAAA
** * * *
10343659 TTTATATTCTCAAAATAAAAGTATTTAATGATATACAAAATTTAATTTTTAAATAAA-AATCATA
130 TTTATATTCTCAAGCTAAAAGTGTTTAACGATATA-AAAATTTAATTTTTAAATAAAGAATAATA
* * * *
10343723 AGGATAAAAATAATTATAGTTTAAAATTTATATAAAAAAGCCTTGACGTAAAACTGTAAGAATTG
194 AAGATAAAAATAATTATAGTTCAAAATTGACATAAAAAAGCCTTGACGTAAAACTGTAAGAATTG
* *
10343788 ACGTAAAAACTTATAAAGGTAGAATAACTAAATTTT-AATCTTAACATAAATGTGTGAGAGTTAA
259 ACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACATAAATGTGTAAGAGTTAA
* *
10343852 CGTAACAAATTAATTAAATAAAAAAAATCTAATTTTAGTGAAAAACAAACA-TTAAATTTATATT
324 CGTAACAAATCAATTAAAT-AAAAAAATCTAATTTCAGTGAAAAACAAACATTTAAATTTATATT
* *
10343916 CTCAAAATAAAAGTATTTAACGTTATAAAAATTTTAATTTTTAAATAAAGAATAATAAGAAAAAA
388 CTCAGAATAAAAGTATTTAACGATATAAAAATTTTAATTTTTAAATAAAGAATAATAAGAAAAAA
* * * *
10343981 ATAATTATAGTTCAAAATTGACATAGAAAAGTCTGGACGTAAAATTATAAGAATTAACGTAAAAA
453 ATAATTATAATTCAAAATTGACATAGAAAAGCCTTGACGTAAAACTATAAGAATTAACGTAAAAA
10344046 CTTATAAAAG-TGAAATAACTAAATTTTAAATCTTAAAGTAAATGTGTGAGAGTTAACGTAATAA
518 CTTATAAAAGTTGAAATAACTAAATTTTAAATCTTAAAGTAAATGTGTGAGAGTTAACGTAATAA
* * * * *
10344110 GTCAATTAAATAAAAAAAATCTAATTTTAGTGAAAAACAAACATTTAAATTTATATTCTCAGAAT
583 GTCAATT-AAGAAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCGGACT
** * *
10344175 AAAAGTATTTAATTATATACATATTTTAATTTTTAAATAAA-AATAATAAGGATAAAAATAATTA
647 AAAAGT-TTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGAAAAAAATAATTA
* ** *
10344239 TAGTTTAAAATTGACATAGAAAAGATTTGACGTAAAATTG
711 TAGTTCAAAATTGACATAGAAAAGCCTTGATGTAAAATTG
* * * ** **
10344279 TAAGAATTGACGTAAAAACTTGTAAATGTGAAATAACTAAATTTTAAATCCTAATTTAAACATGT
1 TAAGAATTGACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCCTAACGTAAATGTGT
* * * *
10344344 GAGAGTTAATGTAACAAGTCAACTAAGTAAAAAAAATATAATTTTAGTGAAAAACAAATGTTTAA
66 AAGAGTTAATGTAACAAGTCAATTAAG--AAAAAAATATAATTTTAATGAAAAACAAATATTTAA
* *
10344409 ATTTATATTCTCAAGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAAATAAT
129 ATTTATATTCTCAAGCTAAAAGTGTTTAACGATATA-AAAATTTAATTTTTAAATAAAGAATAAT
* * * * * *
10344474 AAAGATAAAAATAATTATAGTTCAAAACTGACATAGATAAGCCTAGACGTAAAATTGTAATAATT
193 AAAGATAAAAATAATTATAGTTCAAAATTGACATAAAAAAGCCTTGACGTAAAACTGTAAGAATT
* *
10344539 GACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTGAACTTAAATGTGTAAGAGTTA
258 GACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACATAAATGTGTAAGAGTTA
* * * * * ** *
10344604 ACGTAAAAAATCAATTAAGTTAAAAAGTCTAATTTTAGTGAAAAACGCATATTTAAATTTATATT
323 ACGTAACAAATCAATTAAATAAAAAAATCTAATTTCAGTGAAAAACAAACATTTAAATTTATATT
** ** * * ** * * * *
10344669 CTTGGGCTAAAAGTGTTTAACAATATTCAAATTTTAA-TTTTATATAAAAAATAAAAAATAATAA
388 CTCAGAATAAAAGTATTTAACGATATAAAAATTTTAATTTTTAAATAAAGAAT-AATAAGAA-AA
* * * * * * * ** *
10344733 AAATAATTATAGTTCAAAATTGATATAGATAAGTCTTTACATAAAACTGTAAGAATTAATATTAA
451 AAATAATTATAATTCAAAATTGACATAGAAAAGCCTTGACGTAAAACTATAAGAATTAACGTAAA
* * *
10344798 AACTTATAAAGGTTG-AATAACTAAATTTTAAACCTTATAGTAAATGTGTGA
516 AACTTATAAAAGTTGAAATAACTAAATTTTAAATCTTAAAGTAAATGTGTGA
10344849 TTGTCAAACC
Statistics
Matches: 1792, Mismatches: 238, Indels: 72
0.85 0.11 0.03
Matches are distributed among these distances:
746 19 0.01
747 350 0.20
748 169 0.09
749 74 0.04
750 462 0.26
751 303 0.17
752 224 0.12
753 87 0.05
754 102 0.06
755 2 0.00
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (750 bp):
TAAGAATTGACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCCTAACGTAAATGTGT
AAGAGTTAATGTAACAAGTCAATTAAGAAAAAAATATAATTTTAATGAAAAACAAATATTTAAAT
TTATATTCTCAAGCTAAAAGTGTTTAACGATATAAAAATTTAATTTTTAAATAAAGAATAATAAA
GATAAAAATAATTATAGTTCAAAATTGACATAAAAAAGCCTTGACGTAAAACTGTAAGAATTGAC
GTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACATAAATGTGTAAGAGTTAACG
TAACAAATCAATTAAATAAAAAAATCTAATTTCAGTGAAAAACAAACATTTAAATTTATATTCTC
AGAATAAAAGTATTTAACGATATAAAAATTTTAATTTTTAAATAAAGAATAATAAGAAAAAAATA
ATTATAATTCAAAATTGACATAGAAAAGCCTTGACGTAAAACTATAAGAATTAACGTAAAAACTT
ATAAAAGTTGAAATAACTAAATTTTAAATCTTAAAGTAAATGTGTGAGAGTTAACGTAATAAGTC
AATTAAGAAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCGGACTAAAA
GTTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGAAAAAAATAATTATAGTT
CAAAATTGACATAGAAAAGCCTTGATGTAAAATTG
Found at i:10346614 original size:13 final size:13
Alignment explanation
Indices: 10346596--10346620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10346586 GGAGAAATTG
10346596 TGATTTTATAAAA
1 TGATTTTATAAAA
10346609 TGATTTTATAAA
1 TGATTTTATAAA
10346621 TTTTCTAGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:10349891 original size:11 final size:11
Alignment explanation
Indices: 10349877--10349906 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10349867 AATAATATTT
10349877 TATTAATAAAA
1 TATTAATAAAA
*
10349888 TATTATTAAAA
1 TATTAATAAAA
10349899 TATTAATA
1 TATTAATA
10349907 TTTAGCCGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTAATAAAA
Found at i:10358537 original size:17 final size:18
Alignment explanation
Indices: 10358492--10358527 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 18
10358482 TTAATTATTA
10358492 ATAATAAA-AA-AA-TTT
1 ATAATAAATAATAATTTT
10358507 ATAATAAATAATAATTTT
1 ATAATAAATAATAATTTT
10358525 ATA
1 ATA
10358528 TAACATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.44
16 2 0.11
17 2 0.11
18 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATAAATAATAATTTT
Found at i:10359202 original size:14 final size:14
Alignment explanation
Indices: 10359185--10359231 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
10359175 AATATAATTT
10359185 AAAAAATAAATAAAA
1 AAAAAATAAAT-AAA
*
10359200 AAAAATATAAATAGA
1 AAAAA-ATAAATAAA
*
10359215 AAAAATTAAATAAA
1 AAAAAATAAATAAA
10359229 AAA
1 AAA
10359232 TTTATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 10 0.36
15 12 0.43
16 6 0.21
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAAAATAAATAAA
Found at i:10359205 original size:10 final size:11
Alignment explanation
Indices: 10359184--10359232 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
10359174 GAATATAATT
10359184 TAAAAAATAAA
1 TAAAAAATAAA
10359195 TAAAAAA-AAA
1 TAAAAAATAAA
* *
10359205 T-ATAAATAGA
1 TAAAAAATAAA
*
10359215 -AAAAATTAAA
1 TAAAAAATAAA
10359225 TAAAAAAT
1 TAAAAAAT
10359233 TTATTTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
9 4 0.14
10 12 0.41
11 13 0.45
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:10374283 original size:30 final size:29
Alignment explanation
Indices: 10374223--10374286 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
10374213 AAAATTTAAA
* * *
10374223 TTTAT-TTTTTATTATAATTAATTAATTT
1 TTTATATTTTTATTATAATCAAATAAATT
*
10374251 TTTATATTTTTATTTTGAATCAAATAAATT
1 TTTATATTTTTATTAT-AATCAAATAAATT
10374281 TTTATA
1 TTTATA
10374287 ATTATAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 5 0.17
29 9 0.30
30 16 0.53
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTATATTTTTATTATAATCAAATAAATT
Found at i:10385215 original size:19 final size:19
Alignment explanation
Indices: 10385191--10385228 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10385181 CTGCCAAACC
*
10385191 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
10385210 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
10385229 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:10402785 original size:19 final size:19
Alignment explanation
Indices: 10402758--10402795 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10402748 CCATTTAACT
10402758 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
10402777 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
10402796 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:10406134 original size:21 final size:21
Alignment explanation
Indices: 10406109--10406148 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10406099 CACAAAATAA
*
10406109 AAAGTAAATATATTTATATTT
1 AAAGTAAATATATATATATTT
**
10406130 AAAGTCTATATATATATAT
1 AAAGTAAATATATATATAT
10406149 ATATATAATA
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:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (21 bp):
AAAGTAAATATATATATATTT
Found at i:10409836 original size:17 final size:17
Alignment explanation
Indices: 10409814--10409848 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10409804 CATTCAAACA
* *
10409814 TTGAATATTTTAACTAT
1 TTGAATATGTAAACTAT
10409831 TTGAATATGTAAACTAT
1 TTGAATATGTAAACTAT
10409848 T
1 T
10409849 GGATGGGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (17 bp):
TTGAATATGTAAACTAT
Found at i:10420647 original size:28 final size:29
Alignment explanation
Indices: 10420606--10420665 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
10420596 GTCTATGGGA
*
10420606 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCAGTTTTAGGGGGCAAAAATGT
* * *
10420634 AATTTTTGATTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAGTTTTA-GGGGGCAAAAATGT
10420664 AA
1 AA
10420666 ATATCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (29 bp):
AATTTTTCAGTTTTAGGGGGCAAAAATGT
Found at i:10434481 original size:49 final size:48
Alignment explanation
Indices: 10434428--10434545 Score: 157
Period size: 49 Copynumber: 2.5 Consensus size: 48
10434418 TGTTGAGAAA
* ** *
10434428 TATGTTTCGTCCGTGGATGATTCTGGACGATGATATGATGTGAGATATT
1 TATGTTTCGTCCATGGATGATTCCAGACGATGAT-TGATGTGAGATATG
*
10434477 TATGTTTCGTCCATGGATGATTCCAGATGATGATTGATGTGAGATATG
1 TATGTTTCGTCCATGGATGATTCCAGACGATGATTGATGTGAGATATG
* *
10434525 T-TGTTTAGTCCATGGAGGATT
1 TATGTTTCGTCCATGGATGATT
10434546 TCTGAACAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 18 0.29
48 14 0.23
49 30 0.48
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.39
Consensus pattern (48 bp):
TATGTTTCGTCCATGGATGATTCCAGACGATGATTGATGTGAGATATG
Found at i:10436055 original size:15 final size:15
Alignment explanation
Indices: 10436035--10436065 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10436025 CAAAACTTAT
10436035 GCTGATGGGGTTAAG
1 GCTGATGGGGTTAAG
10436050 GCTGATGGGGTTAAG
1 GCTGATGGGGTTAAG
10436065 G
1 G
10436066 GTGTTGGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.26
Consensus pattern (15 bp):
GCTGATGGGGTTAAG
Found at i:10436210 original size:29 final size:29
Alignment explanation
Indices: 10436146--10436211 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
10436136 CAATTTTTAA
* * *
10436146 TTATAATTTA-CTTATTTTTAGTTATTTTT
1 TTATAA-TTAGCTTATTTTTAGTGAGTTAT
10436175 TTATAATTAGCTTATTTTTAAGTGAGTTAT
1 TTATAATTAGCTTATTTTT-AGTGAGTTAT
10436205 TT-TAATT
1 TTATAATT
10436212 TTATGTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 3 0.09
29 20 0.62
30 9 0.28
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (29 bp):
TTATAATTAGCTTATTTTTAGTGAGTTAT
Found at i:10436227 original size:20 final size:21
Alignment explanation
Indices: 10436204--10436243 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
10436194 AAGTGAGTTA
*
10436204 TTTTAATTTTA-TGTTATTTC
1 TTTTAATTTGATTGTTATTTC
10436224 TTTTAATTTGATTGTTATTT
1 TTTTAATTTGATTGTTATTT
10436244 ATCAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTTAATTTGATTGTTATTTC
Found at i:10438976 original size:163 final size:162
Alignment explanation
Indices: 10438691--10439017 Score: 510
Period size: 163 Copynumber: 2.0 Consensus size: 162
10438681 ATACAATTAT
* * * * * *
10438691 GAATTAGTCCAATTATGGGGAATTTGAATAGACAGTAGAATAACCCATATTCTAATACTTATAAT
1 GAATCAGTCCAATTATGGGGAACTTCAATAAACAGCAGAATAACCCATATTCCAATACTTATAAT
* *
10438756 CCTGGTTGGAGAAACCACCCCAACTTTTCATGGAATAACAATGCAGGGCCTTCTAATCCAAAACC
66 CCTAGTTGGAGAAACCACCCCAACTTTTCATGGAATAACAATGCAAGGCCTTCTAATCCAAAACC
* *
10438821 CATCATGCCTCCTGGTTTTCAACAATAAGCTA
131 CATCACGCCTCCTGGTTTTCAACAACAAGCTA
* *
10438853 GAATCAGTCCAATTTGTGGGGAACTTCAATAAATAGCAGAATAACCCATATTCCAATACTTATAA
1 GAATCAGTCCAA-TTATGGGGAACTTCAATAAACAGCAGAATAACCCATATTCCAATACTTATAA
*
10438918 TCCTAGTTGGAGAAACCATCCCAACTTTTCATGGAATAACAATGCAAGGCCTTCTAATCCAAAAC
65 TCCTAGTTGGAGAAACCACCCCAACTTTTCATGGAATAACAATGCAAGGCCTTCTAATCCAAAAC
* *
10438983 CTATCACGCCTCTTGGTTTTCAACAACAAGCTA
130 CCATCACGCCTCCTGGTTTTCAACAACAAGCTA
10439016 GA
1 GA
10439018 CCATAAATTC
Statistics
Matches: 149, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
162 11 0.07
163 138 0.93
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (162 bp):
GAATCAGTCCAATTATGGGGAACTTCAATAAACAGCAGAATAACCCATATTCCAATACTTATAAT
CCTAGTTGGAGAAACCACCCCAACTTTTCATGGAATAACAATGCAAGGCCTTCTAATCCAAAACC
CATCACGCCTCCTGGTTTTCAACAACAAGCTA
Found at i:10445261 original size:21 final size:21
Alignment explanation
Indices: 10445233--10445282 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
10445223 TCCTTAACTT
10445233 TTTC-ATAGCATATATAAACA
1 TTTCTATAGCATATATAAACA
10445253 TTTCTATAGCATATATAAACA
1 TTTCTATAGCATATATAAACA
*
10445274 TCTCTATAG
1 TTTCTATAG
10445283 TGTATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (21 bp):
TTTCTATAGCATATATAAACA
Found at i:10445391 original size:35 final size:35
Alignment explanation
Indices: 10445328--10445408 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
10445318 CATAAGCTCT
*
10445328 TGTGCACTCCCTACACGCACAAGGCAATATCATCA
1 TGTGCACTCCCTACACGCACAAGGCAATACCATCA
* ***
10445363 TGTGCACTCCCTACACGTACATTTCAATACCATCA
1 TGTGCACTCCCTACACGCACAAGGCAATACCATCA
**
10445398 CATGCACTCCC
1 TGTGCACTCCC
10445409 GCCCACATCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.28, C:0.37, G:0.11, T:0.23
Consensus pattern (35 bp):
TGTGCACTCCCTACACGCACAAGGCAATACCATCA
Found at i:10448605 original size:19 final size:19
Alignment explanation
Indices: 10448578--10448615 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10448568 CCATTTGACT
10448578 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
10448597 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
10448616 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:10454720 original size:222 final size:223
Alignment explanation
Indices: 10454334--10454772 Score: 720
Period size: 222 Copynumber: 2.0 Consensus size: 223
10454324 ATTCTCATGC
* *
10454334 ATTCCTTGTTACTCACAAGTGCAGCACCTCTACCACAACTTGGAGGAAAGTCTCGGACAACAGAT
1 ATTCCTTGCTACTCACAAGTGCAGCACCTCTACCACAACCTGGAGGAAAGTCTCGGACAACAGAT
*
10454399 ACAGATACTTTCCTAGGACGATAATTACTGACAGTCCCTTTTTCCCATCTTGTTCGAGTTCTTTT
66 ACAGATACTTTCCTAAGACGATAATTACTGACAGTCCCTTTTTCCCATCTTGTTCGAGTTCTTTT
* * * * *
10454464 TTCTTGGATCGATTTCATTGCGCACCATTCTTGCAAGGCTCCTCCAGCTTTTAAATAGTATTCTA
131 TCCTTGGATCAATTTCATTACGCACCATTCTTGCAAGGCTCCTCCAACTCTTAAATAGTATTCTA
*
10454529 CCTATC-GGGAACCGATCCACTTGAAAA
196 CCTATCGGGGAACCAATCCACTTGAAAA
* * *
10454556 ATTCCTTGCTACTCACAAGTTCAGCACCTCTGCCATAACCTGGAGGAAAGTCTCGGACAACAGAT
1 ATTCCTTGCTACTCACAAGTGCAGCACCTCTACCACAACCTGGAGGAAAGTCTCGGACAACAGAT
*
10454621 ACAGATACTTTCCTAAGATGATAATTACTGACAGTCCCTATTTT-CCATCTTGTTCGAGTTCTTT
66 ACAGATACTTTCCTAAGACGATAATTACTGACAGTCCCT-TTTTCCCATCTTGTTCGAGTTCTTT
*
10454685 TTCCTTGGATCAATTTCATTACGCACCATTCTTGCAAGGCTCTTCCAACTCTTAAATAGTATTCT
130 TTCCTTGGATCAATTTCATTACGCACCATTCTTGCAAGGCTCCTCCAACTCTTAAATAGTATTCT
*
10454750 ACCTCTCGGGGAACCAATCCACT
195 ACCTATCGGGGAACCAATCCACT
10454773 CAAACAATTG
Statistics
Matches: 200, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
222 182 0.91
223 18 0.09
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (223 bp):
ATTCCTTGCTACTCACAAGTGCAGCACCTCTACCACAACCTGGAGGAAAGTCTCGGACAACAGAT
ACAGATACTTTCCTAAGACGATAATTACTGACAGTCCCTTTTTCCCATCTTGTTCGAGTTCTTTT
TCCTTGGATCAATTTCATTACGCACCATTCTTGCAAGGCTCCTCCAACTCTTAAATAGTATTCTA
CCTATCGGGGAACCAATCCACTTGAAAA
Found at i:10455804 original size:21 final size:21
Alignment explanation
Indices: 10455776--10455831 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
10455766 TCCTTAACTT
10455776 TTTC-ATAGCATATATAAACA
1 TTTCTATAGCATATATAAACA
10455796 TTTCTATAGCATATATAAACA
1 TTTCTATAGCATATATAAACA
* *
10455817 TCTCTATAGCGTATA
1 TTTCTATAGCATATA
10455832 AATATATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (21 bp):
TTTCTATAGCATATATAAACA
Found at i:10455940 original size:35 final size:35
Alignment explanation
Indices: 10455871--10455940 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
10455861 CATCAGCTCT
* *
10455871 TGTGCACTCCCTACACGTACATTTCAACATCATCA
1 TGTGCACTCCCTACACGCACATTTCAACACCATCA
* *
10455906 TGTGCACTCCCTGCACGCACATTTCAATACCATCA
1 TGTGCACTCCCTACACGCACATTTCAACACCATCA
10455941 CACGCACTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.27, C:0.36, G:0.10, T:0.27
Consensus pattern (35 bp):
TGTGCACTCCCTACACGCACATTTCAACACCATCA
Found at i:10455948 original size:35 final size:35
Alignment explanation
Indices: 10455874--10455950 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
10455864 CAGCTCTTGT
* * ***
10455874 GCACTCCCTACACGTACATTTCAACATCATCATGT
1 GCACTCCCTACACGCACATTTCAACACCATCACAC
* *
10455909 GCACTCCCTGCACGCACATTTCAATACCATCACAC
1 GCACTCCCTACACGCACATTTCAACACCATCACAC
10455944 GCACTCC
1 GCACTCC
10455951 AACCCACATC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.27, C:0.40, G:0.09, T:0.23
Consensus pattern (35 bp):
GCACTCCCTACACGCACATTTCAACACCATCACAC
Found at i:10471129 original size:20 final size:21
Alignment explanation
Indices: 10471106--10471145 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
10471096 AAGTGAGTTA
*
10471106 TTTTAATTTTA-TGTTATTTC
1 TTTTAATTTGATTGTTATTTC
10471126 TTTTAATTTGATTGTTATTT
1 TTTTAATTTGATTGTTATTT
10471146 ACTAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTTAATTTGATTGTTATTTC
Found at i:10477004 original size:19 final size:19
Alignment explanation
Indices: 10476980--10477017 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10476970 CCATTTGACT
10476980 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
10476999 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
10477018 GTTTAGAAGT
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:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:10478009 original size:2 final size:2
Alignment explanation
Indices: 10478002--10478044 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10477992 CATATCATGC
10478002 AT AT AT AT 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
10478044 A
1 A
10478045 CNNNNNNNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10478430 original size:16 final size:16
Alignment explanation
Indices: 10478409--10478443 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
10478399 ATAAAATATT
10478409 ATGTTTTTCAATTAAA
1 ATGTTTTTCAATTAAA
*
10478425 ATGTTTTTTAATTAAA
1 ATGTTTTTCAATTAAA
10478441 ATG
1 ATG
10478444 AGATTTATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (16 bp):
ATGTTTTTCAATTAAA
Found at i:10489134 original size:11 final size:11
Alignment explanation
Indices: 10489101--10489137 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
10489091 ATCTTACAAA
10489101 AACATAAAAAT
1 AACATAAAAAT
*
10489112 AA-ATATAAAT
1 AACATAAAAAT
10489122 AACATAAAAAT
1 AACATAAAAAT
10489133 AACAT
1 AACAT
10489138 TATTAACGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (11 bp):
AACATAAAAAT
Found at i:10489168 original size:17 final size:19
Alignment explanation
Indices: 10489100--10489167 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 19
10489090 AATCTTACAA
*
10489100 AAACATAAAAATAA-ATATAA
1 AAACAT-AAAATAACAT-TAT
10489120 ATAACATAAAAATAACATTAT
1 A-AACAT-AAAATAACATTAT
* *
10489141 TAACGTAAAATAACATT-T
1 AAACATAAAATAACATTAT
10489159 AAACATAAA
1 AAACATAAA
10489168 TTAAACTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 8 0.20
19 11 0.27
20 5 0.12
21 15 0.37
22 2 0.05
ACGTcount: A:0.65, C:0.09, G:0.01, T:0.25
Consensus pattern (19 bp):
AAACATAAAATAACATTAT
Found at i:10492270 original size:10 final size:10
Alignment explanation
Indices: 10492251--10492336 Score: 55
Period size: 10 Copynumber: 8.0 Consensus size: 10
10492241 CTATCCTTTC
*
10492251 TTTCTCTCTT
1 TTTCTTTCTT
10492261 TTTCTTTCTT
1 TTTCTTTCTT
* *
10492271 TTCCTCTCTT
1 TTTCTTTCTT
*
10492281 TTCTCTTTTTTT
1 TT-TC-TTTCTT
10492293 CTTTCTTTCTT
1 -TTTCTTTCTT
* *
10492304 TTCCTCTCCTT
1 TTTCT-TTCTT
*
10492315 TCTCCTTTCTTT
1 T-TTCTTTC-TT
10492327 TTTCTTTCTT
1 TTTCTTTCTT
10492337 CCCCTTTCTC
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
10 25 0.42
11 19 0.32
12 13 0.22
13 2 0.03
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:10492279 original size:20 final size:21
Alignment explanation
Indices: 10492246--10492293 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
10492236 CGTGTCTATC
10492246 CTTTC-TTT-CTCTCTTTT-T
1 CTTTCTTTTCCTCTCTTTTCT
10492264 CTTTCTTTTCCTCTCTTTTCT
1 CTTTCTTTTCCTCTCTTTTCT
10492285 CTTT-TTTTC
1 CTTTCTTTTC
10492294 TTTCTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.19
19 3 0.11
20 14 0.52
21 5 0.19
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
CTTTCTTTTCCTCTCTTTTCT
Found at i:10492298 original size:33 final size:33
Alignment explanation
Indices: 10492259--10492336 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
10492249 TCTTTCTCTC
* *
10492259 TTTTTCTTTCTTTTCCTCTCTTTTCT-CTTTTT
1 TTTTTCTTTCTTTTCCTCTCCTTTCTCCTTTCT
10492291 TTCTTTCTTTCTTTTCCTCTCCTTTCTCCTTTCT
1 TT-TTTCTTTCTTTTCCTCTCCTTTCTCCTTTCT
10492325 TTTTTCTTTCTT
1 TTTTTCTTTCTT
10492337 CCCCTTTCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
32 2 0.05
33 33 0.79
34 7 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (33 bp):
TTTTTCTTTCTTTTCCTCTCCTTTCTCCTTTCT
Found at i:10492305 original size:43 final size:45
Alignment explanation
Indices: 10492247--10492333 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 45
10492237 GTGTCTATCC
* *
10492247 TTTCTTTCTCTCTTTTTCT-TTCTTT-TCCTCTCTTTTCTCTTTT
1 TTTCTTTCTCTCTTTTCCTCTCCTTTCTCCTCTCTTTTCTCTTTT
* * *
10492290 TTTCTTTCTTTCTTTTCCTCTCCTTTCTCCTTTCTTTTTTCTTT
1 TTTCTTTCTCTCTTTTCCTCTCCTTTCTCCTCTCTTTTCTCTTT
10492334 CTTCCCCTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 17 0.46
44 5 0.14
45 15 0.41
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (45 bp):
TTTCTTTCTCTCTTTTCCTCTCCTTTCTCCTCTCTTTTCTCTTTT
Found at i:10495421 original size:21 final size:21
Alignment explanation
Indices: 10495394--10495472 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
10495384 AATGCCATTA
10495394 ATCTATCGATAGATGAAGAAC
1 ATCTATCGATAGATGAAGAAC
* * **
10495415 GTCTATCGATAGA-AAAGTTC
1 ATCTATCGATAGATGAAGAAC
* *
10495435 ACCTATTGATAGATGAAGAAC
1 ATCTATCGATAGATGAAGAAC
* *
10495456 ATTTATCGATAGTTGAA
1 ATCTATCGATAGATGAA
10495473 TGTTTTGGCA
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
20 14 0.33
21 29 0.67
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (21 bp):
ATCTATCGATAGATGAAGAAC
Found at i:10497755 original size:14 final size:12
Alignment explanation
Indices: 10497735--10497776 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
10497725 TTGAGAAGAA
10497735 AAAGAAAAAACAG
1 AAAGAAAAAA-AG
10497748 AGAAG-AAAAAAG
1 A-AAGAAAAAAAG
10497760 AAAGAAAAAAGAG
1 AAAGAAAAAA-AG
10497773 AAAG
1 AAAG
10497777 GAGAAGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 3 0.12
12 8 0.31
13 12 0.46
14 3 0.12
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAG
Found at i:10497767 original size:23 final size:20
Alignment explanation
Indices: 10497727--10497774 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 20
10497717 AGCTTCACTT
*
10497727 GAGAAGAAAAAGAAAAAACA
1 GAGAAGAAAAAGAAAAAAAA
10497747 GAGAAGAAAAAAGAAAGAAAAAA
1 GAGAAG-AAAAAG-AA-AAAAAA
10497770 GAGAA
1 GAGAA
10497775 AGGAGAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 6 0.25
22 2 0.08
23 10 0.42
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (20 bp):
GAGAAGAAAAAGAAAAAAAA
Found at i:10497786 original size:25 final size:25
Alignment explanation
Indices: 10497727--10497787 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
10497717 AGCTTCACTT
*
10497727 GAGAAGAAAAAGAAAAAACAGAGAA
1 GAGAAGAGAAAGAAAAAACAGAGAA
* * *
10497752 GAAAAAAGAAAGAAAAAAGAGA-AA
1 GAGAAGAGAAAGAAAAAACAGAGAA
10497776 GGAGAAGAGAAA
1 -GAGAAGAGAAA
10497788 AAGAAATAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (25 bp):
GAGAAGAGAAAGAAAAAACAGAGAA
Found at i:10498657 original size:13 final size:13
Alignment explanation
Indices: 10498639--10498672 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
10498629 CACCTTATCA
10498639 TTTCTTCTATTTC
1 TTTCTTCTATTTC
10498652 TTTCTTCTATTTC
1 TTTCTTCTATTTC
10498665 TTTCTTCT
1 TTTCTTCT
10498673 TTGCTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCTTCTATTTC
Found at i:10499720 original size:21 final size:21
Alignment explanation
Indices: 10499696--10499736 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10499686 CTCCAAGCCT
*
10499696 TTTTCTTATTCCTCCTTTCTC
1 TTTTATTATTCCTCCTTTCTC
* *
10499717 TTTTATTCTTTCTCCTTTCT
1 TTTTATTATTCCTCCTTTCT
10499737 TCCCTCCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTATTATTCCTCCTTTCTC
Found at i:10502235 original size:12 final size:12
Alignment explanation
Indices: 10502214--10502252 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
10502204 ACCAATTACA
10502214 CTAGTAACACCT
1 CTAGTAACACCT
10502226 CTAG-ACACACCT
1 CTAGTA-ACACCT
*
10502238 TTAGTAACACCT
1 CTAGTAACACCT
10502250 CTA
1 CTA
10502253 CCATCCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 1 0.04
12 21 0.91
13 1 0.04
ACGTcount: A:0.33, C:0.33, G:0.08, T:0.26
Consensus pattern (12 bp):
CTAGTAACACCT
Found at i:10502880 original size:2 final size:2
Alignment explanation
Indices: 10502873--10502903 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
10502863 CAGTGCATAT
10502873 AC AC AC AC AC AC AC -C AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
10502904 TACATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10502891 original size:15 final size:15
Alignment explanation
Indices: 10502873--10502901 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10502863 CAGTGCATAT
10502873 ACACACACACACACC
1 ACACACACACACACC
10502888 ACACACACACACAC
1 ACACACACACACAC
10502902 ACTACATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (15 bp):
ACACACACACACACC
Found at i:10503190 original size:15 final size:14
Alignment explanation
Indices: 10503161--10503208 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
10503151 ATATAAACAA
*
10503161 AATTATATATATTAT
1 AATTATA-ATTTTAT
10503176 AATTAATAATTTTAT
1 AATT-ATAATTTTAT
*
10503191 AAGTTATAATTTTGT
1 AA-TTATAATTTTAT
10503206 AAT
1 AAT
10503209 GTTAACACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 1 0.03
15 23 0.79
16 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (14 bp):
AATTATAATTTTAT
Found at i:10510875 original size:28 final size:28
Alignment explanation
Indices: 10510835--10510894 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
10510825 CATTTCGAAA
10510835 AATATATTTTCTCTATAAACTAATTCAT
1 AATATATTTTCTCTATAAACTAATTCAT
*
10510863 AATATATTTTCTCTATAACCTAATTCAT
1 AATATATTTTCTCTATAAACTAATTCAT
10510891 AATA
1 AATA
10510895 ATTATCTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (28 bp):
AATATATTTTCTCTATAAACTAATTCAT
Found at i:10513593 original size:21 final size:21
Alignment explanation
Indices: 10513564--10513623 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
10513554 AATAACCACA
*
10513564 CAGAAATCACTAAGAACTACC
1 CAGAGATCACTAAGAACTACC
10513585 CAGAGATCACTAAGAACTACC
1 CAGAGATCACTAAGAACTACC
10513606 CAGAGATCACTAAGAACT
1 CAGAGATCACTAAGAACT
10513624 GTGCACTAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.45, C:0.27, G:0.13, T:0.15
Consensus pattern (21 bp):
CAGAGATCACTAAGAACTACC
Found at i:10516350 original size:265 final size:265
Alignment explanation
Indices: 10515848--10516355 Score: 673
Period size: 265 Copynumber: 1.9 Consensus size: 265
10515838 TTAAAATTGT
*
10515848 TCTCTCACCATTCAAATATGTTAGAGTGCCCTTTTTATAGCTTGAAATGATCTAGATTTGGAGCC
1 TCTCTAACCATTCAAATATGTTAGAGTGCCCTTTTTATAGCTTGAAATGATCTAGATTTGGAGCC
* * * * *
10515913 ATTCTAGAACTTTGAAGTAGAGAAATAGACATTGTGGGAGCAAAATTTGACCATTGGTTGCTAAA
66 ATTCTAGAACTCTGAAGTAGAGAAAGAGACAGTGTGAGAGCAAAATTTCACCATTGGTTGCTAAA
* * * * * * *
10515978 AGCAACTTAGAGGATCTGTCCCTTGAAGAACAATTTGCTTTAGGGAGCTTTTGTCCATGTAGGGA
131 AGCAACATAGAGGATCTGTCCCTCGAACAAAAAATTGCTTCAGGGAGCTTTTGTCCATGCAGGGA
*
10516043 TTGATCCCTTCTTCCAAAATTTCATATCTTTCACTTTTAAATCTTGAAAATGTTGTTTCTTTGTT
196 TTGATCCCTTCTTCCAAAATTTCATATCTTGCACTTTTAAATCTTGAAAATGTTGTTTCTTTGTT
10516108 TTGAA
261 TTGAA
* * * * *
10516113 TCTCTAACCA-TCTAAATGTGTTGGAGTGTCCTTTTTATAGCTTGAAATGATTTGGATTTGGAGC
1 TCTCTAACCATTC-AAATATGTTAGAGTGCCCTTTTTATAGCTTGAAATGATCTAGATTTGGAGC
** * * * * *
10516177 TGTTGTAGAACTCTGAAGTAGAGAACGAGATAGTGTGAGAGCCAAATTTCACCATTTGTTGCTAA
65 CATTCTAGAACTCTGAAGTAGAGAAAGAGACAGTGTGAGAGCAAAATTTCACCATTGGTTGCTAA
* * *
10516242 AATCAACATAGAGTATC-GATCCCTCGAACAAAAAATTGCTTCAGGTTGA-TTTTTGT-CATGCA
130 AAGCAACATAGAGGATCTG-TCCCTCGAACAAAAAATTGCTTCAGG--GAGCTTTTGTCCATGCA
**
10516304 GGGATTGATTTCTTCTTCCAAAATTTCATATCTTGCACTTTTAAATCTTGAA
192 GGGATTGATCCCTTCTTCCAAAATTTCATATCTTGCACTTTTAAATCTTGAA
10516356 GGTTTTGTTT
Statistics
Matches: 208, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
264 3 0.01
265 197 0.95
266 6 0.03
267 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (265 bp):
TCTCTAACCATTCAAATATGTTAGAGTGCCCTTTTTATAGCTTGAAATGATCTAGATTTGGAGCC
ATTCTAGAACTCTGAAGTAGAGAAAGAGACAGTGTGAGAGCAAAATTTCACCATTGGTTGCTAAA
AGCAACATAGAGGATCTGTCCCTCGAACAAAAAATTGCTTCAGGGAGCTTTTGTCCATGCAGGGA
TTGATCCCTTCTTCCAAAATTTCATATCTTGCACTTTTAAATCTTGAAAATGTTGTTTCTTTGTT
TTGAA
Found at i:10519200 original size:166 final size:168
Alignment explanation
Indices: 10518930--10519315 Score: 505
Period size: 166 Copynumber: 2.3 Consensus size: 168
10518920 TTATGTTATC
* * *
10518930 ACTTTTGTTAATTATTAAAAATACTTTTTCAGCAAGTAGGCTCTTGTTTTTCCTTCCCTTCTTTA
1 ACTTTTATT-ATTATTAAGAATACTTTTTCAGCAAGTAGGCTCTT-TTTTTCCTTCCCTTCTGTA
** * * *
10518995 AAGGATGGTTGAAAGCTTAAGTTCTCTGCATGTCAAATATGACAAATAGAA-GC-CTATGCCTCC
64 AAGGATGGTTGAAAGCTTAAGCCCTCTGCATGCCAAATATGAAAAATAGAAGGCTCTAGGCCTCC
10519058 ATCTCACCCTTCCCACCTTCCGTGCTTAATTACATT-AAT
129 ATCTCACCCTTCCCACCTTCCGTGCTTAATTACATTAAAT
10519097 ACTTTTATTGATTATTAAGAATAC-TTTTCAGCTAA-TAGGCTCTTTTTTTGCCTTCCCTTCTGT
1 ACTTTTATT-ATTATTAAGAATACTTTTTCAGC-AAGTAGGCTCTTTTTTT-CCTTCCCTTCTGT
* *
10519160 AAAGGATGGTTGAAAGCTTAAGCCCTCTTCTTGCCAAATATGAAAAATAGAAGGCTATGCTAGGC
63 AAAGGATGGTTGAAAGCTTAAGCCCTCTGCATGCCAAATATGAAAAATAGAAGGC--T-CTAGGC
* * * *
10519225 CTCCATCTCACCCTTCCCACCTTCTGTTCTTAATTGCGTTAAAT
125 CTCCATCTCACCCTTCCCACCTTCCGTGCTTAATTACATTAAAT
**
10519269 ACTTTTATTACTTATTAAGCGTACTTTTTCAGCAAGTAGGCT-TTTTT
1 ACTTTTATTA-TTATTAAGAATACTTTTTCAGCAAGTAGGCTCTTTTT
10519316 CTCTTTTGAA
Statistics
Matches: 191, Mismatches: 17, Indels: 17
0.85 0.08 0.08
Matches are distributed among these distances:
165 5 0.03
166 75 0.39
167 25 0.13
171 42 0.22
172 30 0.16
173 14 0.07
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (168 bp):
ACTTTTATTATTATTAAGAATACTTTTTCAGCAAGTAGGCTCTTTTTTTCCTTCCCTTCTGTAAA
GGATGGTTGAAAGCTTAAGCCCTCTGCATGCCAAATATGAAAAATAGAAGGCTCTAGGCCTCCAT
CTCACCCTTCCCACCTTCCGTGCTTAATTACATTAAAT
Found at i:10523626 original size:43 final size:43
Alignment explanation
Indices: 10523563--10523649 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
10523553 GGATCCTGTG
*
10523563 TCTTGGAAACATAAATTATGGTGATGGATAGTTGAGAAGTGAA
1 TCTTGGAAACATAAACTATGGTGATGGATAGTTGAGAAGTGAA
10523606 TCTTGGAAACATAAACTATGGTGATGGATAGTTGAGAAGTGAA
1 TCTTGGAAACATAAACTATGGTGATGGATAGTTGAGAAGTGAA
10523649 T
1 T
10523650 ATAGCAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.30
Consensus pattern (43 bp):
TCTTGGAAACATAAACTATGGTGATGGATAGTTGAGAAGTGAA
Found at i:10526241 original size:2 final size:2
Alignment explanation
Indices: 10526122--10526227 Score: 79
Period size: 2 Copynumber: 53.5 Consensus size: 2
10526112 TTTTAAATGC
* * * * *
10526122 AT AT AT AT AT AT AT AT AT AT GT TT AT GT AT AT AC AC 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
* * * * * * *
10526164 AT AT TT AT GT AT AT AC AT AT AT AT AT GT -T TT AT GT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
10526205 AT AC AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
10526228 CAAGTGTATA
Statistics
Matches: 80, Mismatches: 23, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
1 1 0.01
2 79 0.99
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10526282 original size:2 final size:2
Alignment explanation
Indices: 10526275--10526299 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10526265 GTTGAAAAAC
10526275 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
10526300 CGTATGTATG
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:10526290 original size:32 final size:32
Alignment explanation
Indices: 10526211--10526291 Score: 76
Period size: 32 Copynumber: 2.5 Consensus size: 32
10526201 ATACATACAT
* * *
10526211 ATATATATACATATATACAAGTGTATATATAC
1 ATATATATATATATATACAAGTGTATAAAAAC
* * *
10526243 A-ATGTTTTATGTATATACAAGTGT-TGAAAAAC
1 ATAT-ATATATATATATACAAGTGTAT-AAAAAC
10526275 ATATATATATATATATA
1 ATATATATATATATATA
10526292 TATATATACG
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
31 3 0.08
32 32 0.86
33 2 0.05
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (32 bp):
ATATATATATATATATACAAGTGTATAAAAAC
Found at i:10527012 original size:98 final size:98
Alignment explanation
Indices: 10526836--10527040 Score: 286
Period size: 98 Copynumber: 2.1 Consensus size: 98
10526826 CCATGTCACT
** ** * *
10526836 GACATGCTGATGTGGCACTACCACGTCAGCATTTGATATCAAGGAGCCACATGGCACCATAATAG
1 GACATGCTGACATGGCACTACCACGTCAGCATCGGATATCAAGGAGCCACATGGCACCACAAGAG
* ** *
10526901 GTTGCCATGTGGCACTTTTATTATTCAAAACAA
66 GTTACCACATGGCACTCTTATTATTCAAAACAA
* *
10526934 GACATGCTGACATGGCACTACCACGTTAGCATCGGATATCGAGGCA-CCACATGGCACCACAAGA
1 GACATGCTGACATGGCACTACCACGTCAGCATCGGATATCAAGG-AGCCACATGGCACCACAAGA
10526998 GGTTACCACATGGCACTCTTATTATTCAAAACAA
65 GGTTACCACATGGCACTCTTATTATTCAAAACAA
10527032 GACATGCTG
1 GACATGCTG
10527041 TTATTGAGGT
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 93 0.99
99 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (98 bp):
GACATGCTGACATGGCACTACCACGTCAGCATCGGATATCAAGGAGCCACATGGCACCACAAGAG
GTTACCACATGGCACTCTTATTATTCAAAACAA
Found at i:10528921 original size:16 final size:15
Alignment explanation
Indices: 10528885--10528931 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 15
10528875 GTTTTATTTC
10528885 TTCTTTCCTTTTCTCTTT
1 TTCTTT-CTTTT-T-TTT
10528903 TTCTTTCTTATTTTTT
1 TTCTTTCTT-TTTTTT
10528919 TTCTTTCTTTTTT
1 TTCTTTCTTTTTT
10528932 CAAAACTACG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.14
16 12 0.43
17 4 0.14
18 8 0.29
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (15 bp):
TTCTTTCTTTTTTTT
Found at i:10531621 original size:168 final size:167
Alignment explanation
Indices: 10531338--10531672 Score: 645
Period size: 168 Copynumber: 2.0 Consensus size: 167
10531328 GAATTTTTTT
10531338 CTTGTTGTTTTGTTTCTAAATATGCTAAACTAACTAAAAACACTAACATAACTTAGAATCAAATC
1 CTTGTTGTTTTGTTTCTAAATATGCTAAACTAACTAAAAACACTAACATAACTTAGAATCAAATC
10531403 AATACAAATTCATTCTCTCTCCATACCCATTTGGTCAGCCATGAATTCACCATGAAAACATGAAA
66 AATACAAATTCATTCTCTCTCCATACCCATTTGGTCAGCCATGAATTCACCATGAAAACATGAAA
10531468 TTTAACCATGGAAAATAAGGAGAAATGCATGGGAAAG
131 TTTAACCATGGAAAATAAGGAGAAATGCATGGGAAAG
10531505 NCTTGTTTGTTTTGTTTCTAAATATGCTAAACTAACT-AAAACACTAACATAACTTAGAATCAAA
1 -CTTG-TTGTTTTGTTTCTAAATATGCTAAACTAACTAAAAACACTAACATAACTTAGAATCAAA
10531569 TCAATACAAATTCATTCTCTCTCCATACCCATTTGGTCAGCCATGAATTCACCATGAAAACATGA
64 TCAATACAAATTCATTCTCTCTCCATACCCATTTGGTCAGCCATGAATTCACCATGAAAACATGA
10531634 AATTTAACCATGGAAAATAAGGAGAAATGCATGGGAAAG
129 AATTTAACCATGGAAAATAAGGAGAAATGCATGGGAAAG
10531673 GTAGATCACA
Statistics
Matches: 166, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
168 135 0.81
169 31 0.19
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.29
Consensus pattern (167 bp):
CTTGTTGTTTTGTTTCTAAATATGCTAAACTAACTAAAAACACTAACATAACTTAGAATCAAATC
AATACAAATTCATTCTCTCTCCATACCCATTTGGTCAGCCATGAATTCACCATGAAAACATGAAA
TTTAACCATGGAAAATAAGGAGAAATGCATGGGAAAG
Found at i:10532842 original size:2 final size:2
Alignment explanation
Indices: 10532837--10532864 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10532827 TAGCTTTTTT
10532837 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
10532865 GCTATTTACA
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):
TA
Found at i:10542631 original size:2 final size:2
Alignment explanation
Indices: 10542626--10542670 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
10542616 CACACAACAA
10542626 AT AT AT AT 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
10542668 AT A
1 AT A
10542671 ANTCATGTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10542753 original size:43 final size:43
Alignment explanation
Indices: 10542703--10542784 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
10542693 CACATGGCTG
*
10542703 GGTCATTATCGGTTTATGCGCACTCCTTACTCGCACATAACCA
1 GGTCATTATCGGCTTATGCGCACTCCTTACTCGCACATAACCA
*
10542746 GGTCATTATCGGCTTATGCGCACTCCTTACTCGTACATA
1 GGTCATTATCGGCTTATGCGCACTCCTTACTCGCACATA
10542785 GCCGAGTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32
Consensus pattern (43 bp):
GGTCATTATCGGCTTATGCGCACTCCTTACTCGCACATAACCA
Found at i:10542817 original size:2 final size:2
Alignment explanation
Indices: 10542810--10542856 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
10542800 TTACACAACA
10542810 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
10542851 AC AT AT
1 AT AT AT
10542857 CAATTCTCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10543123 original size:18 final size:19
Alignment explanation
Indices: 10543096--10543132 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10543086 ATTATTTATT
10543096 TCCTAAC-TTTCAAAAATA
1 TCCTAACTTTTCAAAAATA
*
10543114 TCCTAGCTTTTCAAAAATA
1 TCCTAACTTTTCAAAAATA
10543133 ACTAAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.35
Consensus pattern (19 bp):
TCCTAACTTTTCAAAAATA
Found at i:10549859 original size:21 final size:23
Alignment explanation
Indices: 10549823--10549871 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
10549813 ATCTGCTCTA
*
10549823 ATTTCAAATAAATGTATTGATAC
1 ATTTCAAATAAATGTATCGATAC
*
10549846 ATTTC-AAT-AATGTATCGATAT
1 ATTTCAAATAAATGTATCGATAC
10549867 ATTTC
1 ATTTC
10549872 TGGCAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 16 0.67
22 3 0.12
23 5 0.21
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (23 bp):
ATTTCAAATAAATGTATCGATAC
Found at i:10557036 original size:25 final size:25
Alignment explanation
Indices: 10556987--10557036 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10556977 CTTTTTCGTA
*
10556987 ATTTAATCACACAAGTTATTATAAT
1 ATTTAATCACACAAGTTAATATAAT
* * *
10557012 ATTTATTCACACAATTTAATCTAAT
1 ATTTAATCACACAAGTTAATATAAT
10557037 TTTTTATAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTTAATCACACAAGTTAATATAAT
Found at i:10567215 original size:22 final size:22
Alignment explanation
Indices: 10567189--10567230 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10567179 TAATTGTGTA
*
10567189 ATACGACACAATACAATTAACT
1 ATACGACACAACACAATTAACT
*
10567211 ATACGACACGACACAATTAA
1 ATACGACACAACACAATTAA
10567231 TAACACGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.24, G:0.07, T:0.19
Consensus pattern (22 bp):
ATACGACACAACACAATTAACT
Found at i:10579321 original size:21 final size:20
Alignment explanation
Indices: 10579275--10579327 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
10579265 TTTTAAAGAT
10579275 TTCTATCACTAA-TTAAAAA
1 TTCTATCACTAATTTAAAAA
* *
10579294 ATCTATCACTAATTTAATATA
1 TTCTATCACTAATTTAA-AAA
*
10579315 TTCTATCATTAAT
1 TTCTATCACTAAT
10579328 AGAATAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.39
20 4 0.14
21 13 0.46
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (20 bp):
TTCTATCACTAATTTAAAAA
Found at i:10579604 original size:2 final size:2
Alignment explanation
Indices: 10579597--10579623 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10579587 TAGATGAACA
10579597 AT 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 AT A
10579624 ATAACTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10586725 original size:34 final size:34
Alignment explanation
Indices: 10586675--10586827 Score: 141
Period size: 34 Copynumber: 4.4 Consensus size: 34
10586665 TTATTGCTAC
10586675 CGGTTTGTGAGAGAGAAAGGAAGGGCTGTGTTGT
1 CGGTTTGTGAGAGAGAAAGGAAGGGCTGTGTTGT
* * * * * *
10586709 CGGTTTATGAGGGAGAAATGAGGGGTTGTTGTTGC
1 CGGTTTGTGAGAGAGAAAGGAAGGGCTG-TGTTGT
* *
10586744 CGGTTTGTGAGAGAGAAAGG-AGGGGTCGTGCTGT
1 CGGTTTGTGAGAGAGAAAGGAAGGGCT-GTGTTGT
* * *
10586778 CAGTTTGTGAGGGAGAAA-GAAGGGGT-TGTTGCT
1 CGGTTTGTGAGAGAGAAAGGAAGGGCTGTGTTG-T
10586811 GCCGGTTTGTGAGAGAG
1 --CGGTTTGTGAGAGAG
10586828 TTTAAGAGGG
Statistics
Matches: 95, Mismatches: 18, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
32 4 0.04
33 2 0.02
34 53 0.56
35 36 0.38
ACGTcount: A:0.22, C:0.07, G:0.44, T:0.27
Consensus pattern (34 bp):
CGGTTTGTGAGAGAGAAAGGAAGGGCTGTGTTGT
Found at i:10586748 original size:35 final size:35
Alignment explanation
Indices: 10586651--10586823 Score: 197
Period size: 35 Copynumber: 5.0 Consensus size: 35
10586641 AAAGAAGAAA
* *
10586651 GGAGAAAGGAGGGGTTATTGCTACCGGTTTGTGAG
1 GGAGAAAGGAGGGGTTGTTGCTGCCGGTTTGTGAG
* * * * * *
10586686 AGAGAAAGGAAGGGCTG-TGTTGTCGGTTTATGAG
1 GGAGAAAGGAGGGGTTGTTGCTGCCGGTTTGTGAG
* *
10586720 GGAGAAATGAGGGGTTGTTGTTGCCGGTTTGTGAG
1 GGAGAAAGGAGGGGTTGTTGCTGCCGGTTTGTGAG
* * * *
10586755 AGAGAAAGGAGGGGTCG-TGCTGTCAGTTTGTGAG
1 GGAGAAAGGAGGGGTTGTTGCTGCCGGTTTGTGAG
*
10586789 GGAGAAAGAAGGGGTTGTTGCTGCCGGTTTGTGAG
1 GGAGAAAGGAGGGGTTGTTGCTGCCGGTTTGTGAG
10586824 AGAGTTTAAG
Statistics
Matches: 111, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
34 54 0.49
35 57 0.51
ACGTcount: A:0.22, C:0.08, G:0.44, T:0.27
Consensus pattern (35 bp):
GGAGAAAGGAGGGGTTGTTGCTGCCGGTTTGTGAG
Found at i:10586762 original size:69 final size:68
Alignment explanation
Indices: 10586651--10586827 Score: 248
Period size: 69 Copynumber: 2.6 Consensus size: 68
10586641 AAAGAAGAAA
* * * *
10586651 GGAGAAAGGAGGGGTTATTGCTACCGGTTTGTGAGAGAGAAAGGAAGGGCT-GTGTTGTCGGTTT
1 GGAGAAA-GAGGGGTTGTTGCTGCCGGTTTGTGAGAGAGAAAGG-AGGGCTCGTGCTGTCAGTTT
10586715 ATGAG
64 ATGAG
* * *
10586720 GGAGAAATGAGGGGTTGTTGTTGCCGGTTTGTGAGAGAGAAAGGAGGGGTCGTGCTGTCAGTTTG
1 GGAGAAA-GAGGGGTTGTTGCTGCCGGTTTGTGAGAGAGAAAGGAGGGCTCGTGCTGTCAGTTTA
10586785 TGAG
65 TGAG
10586789 GGAGAAAGAAGGGGTTGTTGCTGCCGGTTTGTGAGAGAG
1 GGAGAAAG-AGGGGTTGTTGCTGCCGGTTTGTGAGAGAG
10586828 TTTAAGAGGG
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
68 6 0.06
69 91 0.94
ACGTcount: A:0.23, C:0.07, G:0.44, T:0.26
Consensus pattern (68 bp):
GGAGAAAGAGGGGTTGTTGCTGCCGGTTTGTGAGAGAGAAAGGAGGGCTCGTGCTGTCAGTTTAT
GAG
Found at i:10586982 original size:15 final size:14
Alignment explanation
Indices: 10586964--10587012 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 14
10586954 ATAAGGAGAA
10586964 AAAAAATAATAAAAT
1 AAAAAATAA-AAAAT
*
10586979 AAAAAA-AAATAA-
1 AAAAAATAAAAAAT
10586991 AAAAAAT-AAAAAT
1 AAAAAATAAAAAAT
10587004 AAAAAATAA
1 AAAAAATAA
10587013 TATATCAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 10 0.34
13 10 0.34
14 3 0.10
15 6 0.21
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAAATAAAAAAT
Found at i:10586983 original size:18 final size:18
Alignment explanation
Indices: 10586962--10587012 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
10586952 AAATAAGGAG
10586962 AAAAAAAATAATAAAATA
1 AAAAAAAATAATAAAATA
*
10586980 AAAAAAAATAAAAAAAATA
1 AAAAAAAAT-AATAAAATA
10586999 AAAATAAAA-AATAA
1 AAAA-AAAATAATAA
10587013 TATATCAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 13 0.45
19 12 0.41
20 4 0.14
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAAAAATAATAAAATA
Found at i:10586986 original size:9 final size:9
Alignment explanation
Indices: 10586962--10587002 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
10586952 AAATAAGGAG
10586962 AAAAAAAAT
1 AAAAAAAAT
*
10586971 -AATAAAAT
1 AAAAAAAAT
10586979 AAAAAAAAAT
1 -AAAAAAAAT
10586989 AAAAAAAAT
1 AAAAAAAAT
10586998 AAAAA
1 AAAAA
10587003 TAAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 7 0.25
9 14 0.50
10 7 0.25
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:10591181 original size:6 final size:6
Alignment explanation
Indices: 10591167--10591197 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
10591157 TTTAGGAGTA
10591167 GGCTA- GGCTAT GGCTAT GGCTAT GGCTAT GG
1 GGCTAT GGCTAT GGCTAT GGCTAT GGCTAT GG
10591198 ACAATTGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.16, C:0.16, G:0.39, T:0.29
Consensus pattern (6 bp):
GGCTAT
Found at i:10600390 original size:67 final size:67
Alignment explanation
Indices: 10600216--10600461 Score: 302
Period size: 67 Copynumber: 3.7 Consensus size: 67
10600206 GTAGGCTTAG
* *
10600216 CCACAACCTTTAGCAATGGTTTTTCACAGGATCAACCAAAACCCAAAGTGGTTTTTC-AAGGCTC
1 CCACAACCTATAACAATGGTTTTTCACAGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTC
10600280 AA
66 AA
* * * * * * * *
10600282 CCACAACCTTTTACACTAGTTTTTCAC-GAGCTAAACTAAAACCCAAAGTGGTTTTTCAAAGGGT
1 CCACAACCTATAACAATGGTTTTTCACAG-GATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCT
10600346 CAA
65 CAA
* * *
10600349 CCACAACCTACAACAATGGTTTTT-ACCGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAAGCT
1 CCACAACCTATAACAATGGTTTTTCA-CAGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCT
*
10600413 TAA
65 CAA
*
10600416 CCACAACTTATAACAATGGTTTTT-ACTAGGATCAACCAAAACCCAA
1 CCACAACCTATAACAATGGTTTTTCAC-AGGATCAACCAAAACCCAA
10600462 CAACCAACTT
Statistics
Matches: 153, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
65 1 0.01
66 50 0.33
67 101 0.66
68 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (67 bp):
CCACAACCTATAACAATGGTTTTTCACAGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTC
AA
Found at i:10603000 original size:10 final size:10
Alignment explanation
Indices: 10602978--10603011 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
10602968 AGCACTATTC
10602978 TCAATTATCA
1 TCAATTATCA
* *
10602988 TCAAGTATTA
1 TCAATTATCA
10602998 TCAATTATCA
1 TCAATTATCA
10603008 TCAA
1 TCAA
10603012 ACATTCATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (10 bp):
TCAATTATCA
Found at i:10603001 original size:20 final size:20
Alignment explanation
Indices: 10602973--10603011 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10602963 CTTCAAGCAC
*
10602973 TATTCTCAATTATCATCAAG
1 TATTATCAATTATCATCAAG
10602993 TATTATCAATTATCATCAA
1 TATTATCAATTATCATCAA
10603012 ACATTCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (20 bp):
TATTATCAATTATCATCAAG
Found at i:10617215 original size:16 final size:15
Alignment explanation
Indices: 10617190--10617223 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
10617180 TAAATTAAAA
10617190 TAAAATATTAATATT
1 TAAAATATTAATATT
10617205 TAAAGATATTAATATT
1 TAAA-ATATTAATATT
10617221 TAA
1 TAA
10617224 TATTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TAAAATATTAATATT
Found at i:10617395 original size:169 final size:164
Alignment explanation
Indices: 10617111--10617601 Score: 630
Period size: 169 Copynumber: 3.0 Consensus size: 164
10617101 TGGAATAGCT
10617111 TAAAAAATTATTATGACTAAATTACCCTTCATAAATTTAAAAATTTACAATCCCTCAAATATTAA
1 TAAAAAATTATTATGACTAAATTACCCTTCATAAATTTAAAAATTTACAATCCCTCAAATATTAA
10617176 TAATTAAATTA-AAATAAAATATTAATATTTAAA-GATATTAATATTTAATATTTTAAATTAAAT
66 TAATTAAATTATAAATAAAATATTAATATTTAAATG--ATTAATA-TTAATATTTTAAA-TAAAT
10617239 TATAAATTATGTAATTAATTACAAAATAAAATAAATAAA
127 TATAAATTATGTAA-TAATTACAAAATAAAATAAATAAA
10617278 TAANAAAAATTATTATGACTAAATTACCCTTCATAAATTTAAAAATTTACAATCCCTCAAATATT
1 T-A-AAAAATTATTATGACTAAATTACCCTTCATAAATTTAAAAATTTACAATCCCTCAAATATT
10617343 AATAATTAAATTATAAATAAAATATTAATATTTAAATGATTAATCATTAATATTTTAAATAAATT
64 AATAATTAAATTATAAATAAAATATTAATATTTAAATGATTAAT-ATTAATATTTTAAATAAATT
10617408 ATAAATTATGTAATAATTACAAAATAAAAT-AA-AAA
128 ATAAATTATGTAATAATTACAAAATAAAATAAATAAA
* * * * ** ** ** **
10617443 TAAATAATCATAAT-AATATTTTA-AATT-ATAAA--T-AAAATATTA-ATAT-TTTGTAATATT
1 TAAAAAATTATTATGACTAAATTACCCTTCATAAATTTAAAAAT-TTACA-ATCCCTCAAATATT
* *
10617500 AATGATTAAATTATAAATAAAATATTAATATTTAAATTATTAATGATTAATATTTTAAATAAATT
64 AATAATTAAATTATAAATAAAATATTAATATTTAAATGATTAAT-ATTAATATTTTAAATAAATT
* * *
10617565 ATAAATTAT-AAATATTTAAAAAATAAAATAAAATAAA
128 ATAAATTATGTAATAATTACAAAATAAAAT-AAATAAA
10617602 AATAAATAGT
Statistics
Matches: 296, Mismatches: 18, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
156 17 0.06
157 84 0.28
158 8 0.03
159 3 0.01
160 5 0.02
161 2 0.01
162 6 0.02
163 9 0.03
164 1 0.00
165 4 0.01
166 2 0.01
167 18 0.06
168 20 0.07
169 93 0.31
170 23 0.08
171 1 0.00
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (164 bp):
TAAAAAATTATTATGACTAAATTACCCTTCATAAATTTAAAAATTTACAATCCCTCAAATATTAA
TAATTAAATTATAAATAAAATATTAATATTTAAATGATTAATATTAATATTTTAAATAAATTATA
AATTATGTAATAATTACAAAATAAAATAAATAAA
Found at i:10617467 original size:27 final size:27
Alignment explanation
Indices: 10617437--10617491 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
10617427 CAAAATAAAA
*
10617437 TAAA-AATAAATAATCATAATAATATTT
1 TAAATAATAAATAA-AATAATAATATTT
* *
10617464 TAAATTATAAATAAAATATTAATATTT
1 TAAATAATAAATAAAATAATAATATTT
10617491 T
1 T
10617492 GTAATATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAATAATAAATAAAATAATAATATTT
Found at i:10617514 original size:42 final size:41
Alignment explanation
Indices: 10617499--10617691 Score: 100
Period size: 41 Copynumber: 4.8 Consensus size: 41
10617489 TTTGTAATAT
*
10617499 TAATGATTAAATTATAAATAAAATATTAATA-TTTAAATTAT
1 TAATGATTAAATTATAAATAAAATATTAATATTTTTAA-TAT
* * * *
10617540 TAATGATTAATATTTTAAATAAATTA-TAA-ATTATAAATATT
1 TAATGATTAA-ATTATAAATAAAATATTAATATTTTTAATA-T
** * * * * **
10617581 TAAAAAATAAAATA-AAATAAAA-ATAAATAGTCATAATA-
1 TAATGATTAAATTATAAATAAAATATTAATATTTTTAATAT
* *
10617619 -ACAT--TTGAATTAT-AATAAAATATTAATATTTTATAATGT
1 TA-ATGATTAAATTATAAATAAAATATTAATATTTT-TAATAT
* * * *
10617658 TACTTATCAAATTATAAATAAGATATTAATATTT
1 TAATGATTAAATTATAAATAAAATATTAATATTT
10617692 AAATGATCAA
Statistics
Matches: 111, Mismatches: 27, Indels: 27
0.67 0.16 0.16
Matches are distributed among these distances:
36 12 0.11
37 8 0.07
38 6 0.05
39 10 0.09
40 12 0.11
41 33 0.30
42 30 0.27
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (41 bp):
TAATGATTAAATTATAAATAAAATATTAATATTTTTAATAT
Found at i:10617564 original size:27 final size:26
Alignment explanation
Indices: 10617506--10617588 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
10617496 TATTAATGAT
10617506 TAAATTATAAAT-A-AAATA-TTAATA
1 TAAATTATAAATGATAAATATTTAA-A
* *
10617530 TTTAAATTATTAATGATTAATATTTTAAA
1 --TAAATTATAAATGATAAATA-TTTAAA
*
10617559 TAAATTATAAATTATAAATATTTAAA
1 TAAATTATAAATGATAAATATTTAAA
10617585 -AAAT
1 TAAAT
10617589 AAAATAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
25 4 0.08
26 17 0.35
27 18 0.38
28 4 0.08
29 1 0.02
30 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (26 bp):
TAAATTATAAATGATAAATATTTAAA
Found at i:10617693 original size:159 final size:158
Alignment explanation
Indices: 10617168--10617920 Score: 785
Period size: 159 Copynumber: 4.7 Consensus size: 158
10617158 CAATCCCTCA
*
10617168 AATATTAATAATTAAATTA-AAATAAAATATTAATATTTAAA-GATATTAATATTTAATATTTTA
1 AATATTAATAA-TAAATTATAAATAAAATATTAATATTTAAATG--ATCAATA-TTAATATTTTA
* * * * *
10617231 AATTAAATTATAAATTATGTAATTAATTACAAAATAAAAT-AAATAAATAANAAA-AATTATTAT
62 AA-TAAATTATAAATTAT-TAA-TATTTAAAAAATAAAATAAAATAAA-AATAAATAATCATAAT
* * ** ** **
10617294 GACTAAATTACCCTTCATAAATTTAAAA-ATTTACA-ATCCCTCA
123 AAC--ATTTA-AATT-ATAAA--TAAAATA-TTA-ATAT-TTTGT
*
10617337 AATATTAATAATTAAATTATAAATAAAATATTAATATTTAAATGATTAATCATTAATATTTTAAA
1 AATATTAATAA-TAAATTATAAATAAAATATTAATATTTAAATGATCAAT-ATTAATATTTTAAA
* * *
10617402 TAAATTATAAATTATGTAATAATT-----ACAAAATAAAATAAAAATAAATAATCATAATAATAT
64 TAAATTATAAATTAT-TAATATTTAAAAAATAAAATAAAATAAAAATAAATAATCATAATAACA-
10617462 TTTAAATTATAAATAAAATATTAATATTTTGT
127 TTTAAATTATAAATAAAATATTAATATTTTGT
* * *
10617494 AATATTAATGATTAAATTATAAATAAAATATTAATATTTAAATTATTAATGATTAATATTTTAAA
1 AATATTAAT-AATAAATTATAAATAAAATATTAATATTTAAATGATCAAT-ATTAATATTTTAAA
* *
10617559 TAAATTATAAATTATAAATATTTAAAAAATAAAATAAAATAAAAATAAATAGTCATAATAACATT
64 TAAATTATAAATTATTAATATTTAAAAAATAAAATAAAATAAAAATAAATAATCATAATAACATT
* *
10617624 TGAATTAT-AATAAAATATTAATATTTTAT
129 TAAATTATAAATAAAATATTAATATTTTGT
* * * * * *
10617653 AATGTTACTTATCAAATTATAAATAAGATATTAATATTTAAATGATCAACTATTAAAACTTTAAA
1 AATATTAATAAT-AAATTATAAATAAAATATTAATATTTAAATGATCAA-TATTAATATTTTAAA
** *
10617718 TGGATTATAAATTATTAATATTTAAAACATAAAATAAAATAAAAATAAATAATCATAATAACATT
64 TAAATTATAAATTATTAATATTTAAAAAATAAAATAAAATAAAAATAAATAATCATAATAACATT
**
10617783 TAAATTATAAATAAAATATTAATATTGCGT
129 TAAATTATAAATAAAATATTAATATTTTGT
* * * ** *
10617813 AATTTTAATGAATACATTATAAATAATATATTTTTATTTAAATTATCAATTATTAATATTTTAAA
1 AATATTAAT-AATAAATTATAAATAAAATATTAATATTTAAATGATCAA-TATTAATATTTTAAA
10617878 TAAATTATAAATTATTAATA-TTAAAAAATAAAATAAAAATAAA
64 TAAATTATAAATTATTAATATTTAAAAAATAAAAT-AAAATAAA
10617921 TAATCTCATA
Statistics
Matches: 510, Mismatches: 55, Indels: 47
0.83 0.09 0.08
Matches are distributed among these distances:
156 6 0.01
157 77 0.15
158 12 0.02
159 153 0.30
160 110 0.22
161 37 0.07
162 14 0.03
163 15 0.03
167 5 0.01
168 19 0.04
169 38 0.07
170 23 0.05
171 1 0.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (158 bp):
AATATTAATAATAAATTATAAATAAAATATTAATATTTAAATGATCAATATTAATATTTTAAATA
AATTATAAATTATTAATATTTAAAAAATAAAATAAAATAAAAATAAATAATCATAATAACATTTA
AATTATAAATAAAATATTAATATTTTGT
Found at i:10618092 original size:27 final size:27
Alignment explanation
Indices: 10618062--10618113 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
10618052 TAAATTACGT
10618062 AATAACTATTTTATTCTATTCTTATAA
1 AATAACTATTTTATTCTATTCTTATAA
* * *
10618089 AATAATTATTTTATTTTATTTTTAT
1 AATAACTATTTTATTCTATTCTTAT
10618114 CTATTCCATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (27 bp):
AATAACTATTTTATTCTATTCTTATAA
Found at i:10625605 original size:21 final size:21
Alignment explanation
Indices: 10625581--10625629 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
10625571 CCAATTCAAC
10625581 ACCAATTAACTCCATTTTTCT
1 ACCAATTAACTCCATTTTTCT
10625602 ACCAATTAACTCCATTTTTCT
1 ACCAATTAACTCCATTTTTCT
*
10625623 TCCAATT
1 ACCAATT
10625630 CTCCAAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (21 bp):
ACCAATTAACTCCATTTTTCT
Found at i:10629732 original size:19 final size:19
Alignment explanation
Indices: 10629673--10629722 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
10629663 GGGGGTTTGG
10629673 TGAGAAACCCTCGGCCACT
1 TGAGAAACCCTCGGCCACT
10629692 TGAGAAACCCTCGGCCACT
1 TGAGAAACCCTCGGCCACT
10629711 TGAGAAACCCTC
1 TGAGAAACCCTC
10629723 AGCTAGTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.28, C:0.36, G:0.20, T:0.16
Consensus pattern (19 bp):
TGAGAAACCCTCGGCCACT
Found at i:10641039 original size:43 final size:43
Alignment explanation
Indices: 10640969--10641082 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
10640959 TTAATGACAT
*
10640969 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCAAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAA-CCAAGTGA
* * **
10641012 TGACCCGGTTATGTGTGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCAAGTGA
* *
10641055 TGACCCAGCCATGTGCGAGTAGGGAGTG
1 TGACCCGGCTATGTGCGAGTAGGGAGTG
10641083 TTCATGAGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 3 0.05
43 58 0.95
ACGTcount: A:0.23, C:0.19, G:0.38, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCAAGTGA
Found at i:10641562 original size:39 final size:40
Alignment explanation
Indices: 10641474--10641566 Score: 125
Period size: 39 Copynumber: 2.4 Consensus size: 40
10641464 AAATTCATTC
* *
10641474 TCGCTGTAGCGAGAAACTTTCTATTTTCTAGGTTGCAATT
1 TCGCTGCAGCGAGAAACTTTCTATTTTCTAGGTTACAATT
* * * *
10641514 TTGCTGCAGCGAGAAATTTTCTGTTTT-TGGGTTACAATT
1 TCGCTGCAGCGAGAAACTTTCTATTTTCTAGGTTACAATT
10641553 TCGCTGCAGCGAGA
1 TCGCTGCAGCGAGA
10641567 TTCAATCTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 23 0.50
40 23 0.50
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.38
Consensus pattern (40 bp):
TCGCTGCAGCGAGAAACTTTCTATTTTCTAGGTTACAATT
Done.