Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 81 of 141
Found at i:23331588 original size:136 final size:130
Alignment explanation
Indices: 23331334--23331593 Score: 272
Period size: 136 Copynumber: 2.0 Consensus size: 130
23331324 CTTTTTTTTA
* * * * * *
23331334 GGGGGGGTTGAAACTATGGTTAGAAAATTTTTGAAATTAAGAAGCTAAAGAATTATTTTTTTTGG
1 GGGGGGGTTGAAACTATGGTTAGAAAAGTTGTGAAATTAAGAAACAAAAAAAGTATTTTTTTTGG
* * * * *
23331399 GTGAAACTATGGTTAAAAGAGTTGTAAAATTGAGAAACTAAAGAACTGTATTTTTTTTNNNNGGG
66 GTGAAACTATAGTTAAAAGAGTTATAAAATTAAGAAACTAAAGAAATGAATTTTTTTT----GGG
23331464 GGGG
127 GGGG
*
23331468 GGGGAGGGCTTGAAACTATGGTTA-AAAGAGTTGTGAAATTAATAAACAAAAAAAGTATGTTTTT
1 GGGG-GGG-TTGAAACTATGGTTAGAAA-AGTTGTGAAATTAAGAAACAAAAAAAGTAT-TTTTT
* * * ** *
23331532 TTGGGTGAAACTATAGTTAGAAGATTTATTAAATTAAGAAGTTGAAGAAAT-AATTTTTTTTG
62 TTGGGTGAAACTATAGTTAAAAGAGTTATAAAATTAAGAAACTAAAGAAATGAATTTTTTTTG
23331594 TGAAACTATG
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
132 1 0.01
134 4 0.04
135 6 0.06
136 47 0.45
137 46 0.44
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.34
Consensus pattern (130 bp):
GGGGGGGTTGAAACTATGGTTAGAAAAGTTGTGAAATTAAGAAACAAAAAAAGTATTTTTTTTGG
GTGAAACTATAGTTAAAAGAGTTATAAAATTAAGAAACTAAAGAAATGAATTTTTTTTGGGGGGG
Found at i:23331732 original size:54 final size:55
Alignment explanation
Indices: 23331637--23331742 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
23331627 TGGGTGGTTA
* *
23331637 AAACTATGATTAGAAGATTTGTGAAATTAAGAAGTTAAAGAAGTGTTCTTTTGTG
1 AAACTATGATTAGAAGATTTATGAAATTAAGAAGCTAAAGAAGTGTTCTTTTGTG
* * *
23331692 AAACTAT-AGTTAGACGATTTAT-AAATTGAGAAGCTAAAGAAGTGTTTTTTT
1 AAACTATGA-TTAGAAGATTTATGAAATTAAGAAGCTAAAGAAGTGTTCTTTT
23331743 TTTAGGAGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 27 0.60
55 18 0.40
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.37
Consensus pattern (55 bp):
AAACTATGATTAGAAGATTTATGAAATTAAGAAGCTAAAGAAGTGTTCTTTTGTG
Found at i:23331838 original size:23 final size:23
Alignment explanation
Indices: 23331812--23331856 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
23331802 ATTTTTTTGG
* * *
23331812 TGAAATTATGTTTAGAATATTTT
1 TGAAACTATGGTTAGAAGATTTT
23331835 TGAAACTATGGTTAGAAGATTT
1 TGAAACTATGGTTAGAAGATTT
23331857 CACTACTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (23 bp):
TGAAACTATGGTTAGAAGATTTT
Found at i:23332009 original size:67 final size:63
Alignment explanation
Indices: 23331866--23332018 Score: 166
Period size: 67 Copynumber: 2.4 Consensus size: 63
23331856 TCACTACTAA
* * * *
23331866 AAAAGCCAAAGAAG--TGTTTTTTAGTAGGGTTGAAACTATTGTTAGAAGATTTCTAAAATTT
1 AAAAGCTAAAGAAGTATGTTTTTTAGTAGGATTGAAACTATTGTTAGAAGACTTCTAAAATTG
* * * * *
23331927 AGAAGCTAAAAAAGTATGTTTTTTAGTAGAAAGATTGAAACTATTGTTTGAAAGACTTGTTAAAT
1 AAAAGCTAAAGAAGTATGTTTTTTAGTAG---GATTGAAACTATTGTTAG-AAGACTTCTAAAAT
23331992 TG
62 TG
*
23331994 AAAAGCTAAAGAAGTATTTTTTTTA
1 AAAAGCTAAAGAAGTATGTTTTTTA
23332019 AGAGTGAAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
61 11 0.15
63 13 0.18
66 16 0.22
67 34 0.46
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (63 bp):
AAAAGCTAAAGAAGTATGTTTTTTAGTAGGATTGAAACTATTGTTAGAAGACTTCTAAAATTG
Found at i:23332480 original size:58 final size:59
Alignment explanation
Indices: 23332147--23332497 Score: 265
Period size: 58 Copynumber: 6.0 Consensus size: 59
23332137 TGGGGTGGTG
* * *
23332147 GTTGAAACTATAGTTAGAGAATTTGTGAAATTAAGAAGTTAAAAAA-GTGTTTTTTTTT
1 GTTGAAACTATAGTTAGAAAATTTATGAAATTAAGAAGTTAAAAAATGTATTTTTTTTT
* ** * * * **
23332205 G-TGAAACTATGGTTAGAAGGTTTATGAAATTGAGAAG-CAAAAGATGTGATTTTTTTAGGGGG
1 GTTGAAACTATAGTTAGAAAATTTATGAAATTAAGAAGTTAAAAAATGT-ATTTTTTT----TT
* * * * * ** *
23332267 GTTGAAACTATTA-TTAGAAGATTTGTCAAATTAAGAAGCT-GAAGTTCTTATTTTTTTTT
1 GTTGAAACTA-TAGTTAGAAAATTTATGAAATTAAGAAGTTAAAAAAT-GTATTTTTTTTT
* * * * * * * **
23332326 GTTGAAACTATGGTTAAAAAAGTTATGAAATTGAGAAG-CAAAAGAA-CTAATTTTTTGG
1 GTTGAAACTATAGTTAGAAAATTTATGAAATTAAGAAGTTAAAA-AATGTATTTTTTTTT
* *
23332384 GTTAAAACTATTGTTAGAAAATTTATGAAATTAAGAAGTTAAATAAATGT-TTTTTTTTT
1 GTTGAAACTATAGTTAGAAAATTTATGAAATTAAGAAGTTAAA-AAATGTATTTTTTTTT
*
23332443 G-TGAAACTATAGTTAGAAAATTTATGAAATTTAGAAGTTAAAAAA-GT-TTTTTTTT
1 GTTGAAACTATAGTTAGAAAATTTATGAAATTAAGAAGTTAAAAAATGTATTTTTTTT
23332498 GGGAGGGGAT
Statistics
Matches: 227, Mismatches: 50, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
56 15 0.07
57 35 0.15
58 88 0.39
59 43 0.19
60 2 0.01
62 1 0.00
63 41 0.18
64 2 0.01
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (59 bp):
GTTGAAACTATAGTTAGAAAATTTATGAAATTAAGAAGTTAAAAAATGTATTTTTTTTT
Found at i:23332497 original size:117 final size:118
Alignment explanation
Indices: 23332146--23332500 Score: 382
Period size: 117 Copynumber: 3.0 Consensus size: 118
23332136 TTGGGGTGGT
* * *
23332146 GGTTGAAACTATAGTTAGAGAATTTGTGAAATTAAGAAGTTAAA-AAA-GTGTTTTTTTTTGTGA
1 GGTTGAAACTATTGTTAGAAAATTTGTGAAATTAAGAAGTTAAATAAATGTATTTTTTTTTGTGA
** * *
23332209 AACTATGGTTAGAAGGTTTATGAAATTGAGAAGCAAAAGATGTGATTTTTTTAGGGG
66 AACTATGGTTAGAAAATTTATGAAATTGAGAAGCAAAAGAAGT--TTTTTTT--TGG
* * * * * **
23332266 GGTTGAAACTATTATTAGAAGATTTGTCAAATTAAGAAGCTGAAGT-TCT-TATTTTTTTTTGTT
1 GGTTGAAACTATTGTTAGAAAATTTGTGAAATTAAGAAG-TTAAATAAATGTATTTTTTTTTG-T
* * * **
23332329 GAAACTATGGTTAAAAAAGTTATGAAATTGAGAAGCAAAAGAACTAATTTTTT-G
64 GAAACTATGGTTAGAAAATTTATGAAATTGAGAAGCAAAAGAAGTTTTTTTTTGG
* *
23332383 GGTTAAAACTATTGTTAGAAAATTTATGAAATTAAGAAGTTAAATAAATGT-TTTTTTTTTGTGA
1 GGTTGAAACTATTGTTAGAAAATTTGTGAAATTAAGAAGTTAAATAAATGTATTTTTTTTTGTGA
* * *
23332447 AACTATAGTTAGAAAATTTATGAAATTTAGAAGTTAAAA-AAGTTTTTTTTTGG
66 AACTATGGTTAGAAAATTTATGAAATTGAGAAG-CAAAAGAAGTTTTTTTTTGG
23332500 G
1 G
23332501 AGGGGATTGA
Statistics
Matches: 191, Mismatches: 36, Indels: 19
0.78 0.15 0.08
Matches are distributed among these distances:
116 45 0.24
117 52 0.27
118 1 0.01
120 39 0.20
121 14 0.07
122 40 0.21
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (118 bp):
GGTTGAAACTATTGTTAGAAAATTTGTGAAATTAAGAAGTTAAATAAATGTATTTTTTTTTGTGA
AACTATGGTTAGAAAATTTATGAAATTGAGAAGCAAAAGAAGTTTTTTTTTGG
Found at i:23333269 original size:10 final size:10
Alignment explanation
Indices: 23333253--23333300 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
23333243 AAAATAATTA
23333253 TAAATTTTTT
1 TAAATTTTTT
*
23333263 TATATTTTTT
1 TAAATTTTTT
* **
23333273 AAAATAATTT
1 TAAATTTTTT
23333283 TAAATTTTTT
1 TAAATTTTTT
*
23333293 TATATTTT
1 TAAATTTT
23333301 CATCAATGGC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TAAATTTTTT
Found at i:23333274 original size:30 final size:30
Alignment explanation
Indices: 23333238--23333300 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
23333228 CTCAAATCTA
23333238 TTTTTAAAATAATTATAAATTTTTTTATAT
1 TTTTTAAAATAATTATAAATTTTTTTATAT
*
23333268 TTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTAAAATAATTATAAATTTTTTTATAT
23333298 TTT
1 TTT
23333301 CATCAATGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTTAAAATAATTATAAATTTTTTTATAT
Found at i:23333411 original size:14 final size:15
Alignment explanation
Indices: 23333392--23333421 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
23333382 TTTGTAATTA
23333392 TTATTTAAG-ATTTT
1 TTATTTAAGTATTTT
23333406 TTATTTAAGTATTTT
1 TTATTTAAGTATTTT
23333421 T
1 T
23333422 AGATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TTATTTAAGTATTTT
Found at i:23335574 original size:29 final size:29
Alignment explanation
Indices: 23335542--23336141 Score: 599
Period size: 29 Copynumber: 19.8 Consensus size: 29
23335532 TTTAATTGAA
*
23335542 AACCCTAACCTAACCTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
23335571 AACCCTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
23335600 AACCCTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
* * * *
23335629 AA-CCTAACCTAACCTAACCTAACCTAACCTAATT
1 AACCCTAACCTAACTTAA-TTAA--AAACC---CT
*
23335663 AAAAACCCTAACCCTAACCTAAATTAACTAAA----
1 ---AACCCTAA-CCTAA-CTTAATTAA--AAACCCT
* *
23335695 AACTC-AACCTTACTTAATTAAAAACCCTAACCCT
1 AACCCTAACCTAACTTAATT--AAA----AACCCT
23335729 AACCCTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
* *
23335758 AACCCTAACCTAAATCAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
*
23335787 AACCCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
*
23335816 AACCCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
* *
23335845 AACCCTAACCTAAATTAACTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
23335874 AACCCTAACCCTAACTTAAATTAACTAAAAACCCT
1 AACCCTAA-CCTAACTT-AA-T---TAAAAACCCT
*
23335909 AACCCTAACCTTACTTAATTAAAAACCTTAACCCT
1 AACCCTAACCTAACTTAATT--AAA----AACCCT
23335944 AACCCTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
* *
23335973 AACCCTAACCCTAACCTAACCTAACTAAA----
1 AACCCTAA-CCTAACTTAA-TTAA--AAACCCT
* *
23336002 AACCCCAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
*
23336031 AACCCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
*
23336060 AACCCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
23336089 AACCCTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
*
23336118 AACCCTAACCCTAACCTAACTTAA
1 AACCCTAA-CCTAACTTAA-TTAA
23336142 TTAAAAACCC
Statistics
Matches: 494, Mismatches: 32, Indels: 88
0.80 0.05 0.14
Matches are distributed among these distances:
25 3 0.01
26 7 0.01
27 7 0.01
28 26 0.05
29 307 0.62
30 27 0.05
31 16 0.03
32 1 0.00
33 11 0.02
34 12 0.02
35 56 0.11
37 2 0.00
38 5 0.01
39 11 0.02
40 3 0.01
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (29 bp):
AACCCTAACCTAACTTAATTAAAAACCCT
Found at i:23335636 original size:5 final size:5
Alignment explanation
Indices: 23335626--23335660 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
23335616 AATTAAAAAC
23335626 CCTAA CCTAA CCTAA CCTAA CCTAA CCTAA CCTAA
1 CCTAA CCTAA CCTAA CCTAA CCTAA CCTAA CCTAA
23335661 TTAAAAACCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
CCTAA
Found at i:23335736 original size:101 final size:100
Alignment explanation
Indices: 23335545--23336132 Score: 393
Period size: 93 Copynumber: 5.7 Consensus size: 100
23335535 AATTGAAAAC
* *
23335545 CCTAACCTAACCTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACC
1 CCTAACCTAACCTAATTAAAAACCCTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTAACC
23335610 TAACTTAATTAAAAACCCTAACCTAACCTAACCTAA
66 TAACTTAA-TAAAAACCCTAACCTAACCTAACCTAA
23335646 CCTAACCTAACCTAATTAAAAACCCTAACCCTAACCTAAATTAACTAAAAA--CT----C-AACC
1 CCTAACCTAACCTAATTAAAAACCCTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTAACC
*
23335704 TTACTTAATTAAAAACCCTAA-C---CCTAA-C---
66 TAACTTAA-TAAAAACCCTAACCTAACCTAACCTAA
* * *
23335732 CCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAAATCAATTAAAAACCCTAACCCTAACC
1 CCTAACCTAACCTAATTAAAAACCCTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTAACC
* **
23335797 TAAATTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAA
66 TAACTTAA-TAAAAACCCTAA-CCTAACCT--A--ACCT---AA
23335841 CCCTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTAACCCTAACTTAAATTAACTAAAAAC
1 -CCTAA-CCTAACCT-AA-T---TAAAAACCCTAACCCTAA--C---C-TAAATTAACTAAAAAC
* *
23335906 CCTAACCCTAACCTTACTTAATTAAAAACCTTAA-C---CCTAA-C---
53 CCTAACCCTAACCTAACTTAA-TAAAAACCCTAACCTAACCTAACCTAA
* ** *
23335947 CCTAACCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAACCTAACTAAA----AACCCC
1 CCTAACCTAACCTAATTAAAAACCCTAACCCTAA-CCTAAATTAA-CTAA--AAACCCTAACCCT
* **
23336008 AACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAA
62 AACCTAACTTAA-TAAAAACCCTAA-CCTAACCT--A--ACCT---AA
* *
23336056 CCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAAC
1 -CCTAA-CCTAACC-----TAATTAAAAACCCTAACCCTAACCTAAATTAACTAAAAACCCTAAC
23336121 CCTAACCCTAAC
59 CCTAA-CCTAAC
23336133 CTAACTTAAT
Statistics
Matches: 391, Mismatches: 29, Indels: 118
0.73 0.05 0.22
Matches are distributed among these distances:
86 48 0.12
88 2 0.01
89 1 0.00
90 5 0.01
92 1 0.00
93 51 0.13
94 30 0.08
95 8 0.02
97 3 0.01
98 8 0.02
99 20 0.05
100 2 0.01
101 49 0.13
102 3 0.01
103 2 0.01
104 7 0.02
105 5 0.01
110 10 0.03
111 13 0.03
112 5 0.01
113 2 0.01
114 3 0.01
115 10 0.03
116 47 0.12
117 8 0.02
118 1 0.00
120 1 0.00
121 1 0.00
122 45 0.12
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (100 bp):
CCTAACCTAACCTAATTAAAAACCCTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTAACC
TAACTTAATAAAAACCCTAACCTAACCTAACCTAA
Found at i:23336005 original size:23 final size:23
Alignment explanation
Indices: 23335979--23336043 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
23335969 CCCTAACCCT
23335979 AACCCTAACCTAACCTAACTAAA
1 AACCCTAACCTAACCTAACTAAA
* ** *
23336002 AACCCCAACCTAAATTAATTAAA
1 AACCCTAACCTAACCTAACTAAA
23336025 AACCCTAACCCTAACCTAA
1 AACCCTAA-CCTAACCTAA
23336044 ATTAATTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 26 0.76
24 8 0.24
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (23 bp):
AACCCTAACCTAACCTAACTAAA
Found at i:23336151 original size:58 final size:60
Alignment explanation
Indices: 23335752--23336152 Score: 421
Period size: 64 Copynumber: 6.6 Consensus size: 60
23335742 CTTAATTAAA
* *
23335752 AACCCTAACCCTAACCTAAATCAATTAAAAACCCTAACCCTAACCTAAATTAATTAAA----
1 AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTTAATTAA--AAACCCT
*
23335810 AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAACTAAAAACCCT
1 AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACC----TTAATTAAAAACCCT
* * *
23335874 AACCCTAACCCTAACTTAAATTAACTAAAAACCCTAACCCTAACCTTACTTAATTAAAAACCTT
1 AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAA-C---CTTAATTAAAAACCCT
* * *
23335938 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCT---AA-CCT
1 AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTTAA-TTAAAAACCCT
*** * *
23335995 AACTAAAAACCCCAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAA----
1 AAC-CCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTTAATTAA--AAACCCT
23336054 AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAA-C---CTTAATTAAAAACCCT
*
23336118 AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAAATTAATTAAAAACCCT
23336153 TAACACAATT
Statistics
Matches: 289, Mismatches: 27, Indels: 48
0.79 0.07 0.13
Matches are distributed among these distances:
57 6 0.02
58 121 0.42
59 4 0.01
60 10 0.03
61 1 0.00
62 16 0.06
63 1 0.00
64 128 0.44
65 1 0.00
68 1 0.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (60 bp):
AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTTAATTAAAAACCCT
Found at i:23336267 original size:10 final size:10
Alignment explanation
Indices: 23336252--23336276 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23336242 TTTTGGCTTA
23336252 ATAATTTTAC
1 ATAATTTTAC
23336262 ATAATTTTAC
1 ATAATTTTAC
23336272 ATAAT
1 ATAAT
23336277 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:23338682 original size:18 final size:18
Alignment explanation
Indices: 23338659--23338697 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
23338649 AGCGTACGAG
23338659 GTCCCCTCACCGGTTGAC
1 GTCCCCTCACCGGTTGAC
23338677 GTCCCCTCACCGGTTGAC
1 GTCCCCTCACCGGTTGAC
23338695 GTC
1 GTC
23338698 GTAGGTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.44, G:0.23, T:0.23
Consensus pattern (18 bp):
GTCCCCTCACCGGTTGAC
Found at i:23339403 original size:125 final size:126
Alignment explanation
Indices: 23339102--23339455 Score: 584
Period size: 125 Copynumber: 2.8 Consensus size: 126
23339092 CTCAAACTTG
*
23339102 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTTAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
23339167 TATAAGCGATTTTATACTATTTGCTCAGAAACGTCAACAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAACAAAAAAATTATTTCTTACATGAC
* * *
23339228 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATTCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
23339293 TAGAAACGATTTTATACTATTTGCTCAGAAACATC-AGAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAACAAAAAAATTATTTCTTACATGAC
*
23339353 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTATTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* * * *
23339418 TAGAAGCGAATTTATACTATTTGATAAGAAACGTCAAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAC
23339456 TCGAAATAAT
Statistics
Matches: 209, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 115 0.55
126 94 0.45
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAACAAAAAAATTATTTCTTACATGAC
Found at i:23340176 original size:11 final size:11
Alignment explanation
Indices: 23340160--23340185 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23340150 ATTTTTTTAA
23340160 TTTTAAAATAT
1 TTTTAAAATAT
23340171 TTTTAAAATAT
1 TTTTAAAATAT
23340182 TTTT
1 TTTT
23340186 TTTGTAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:23342500 original size:26 final size:27
Alignment explanation
Indices: 23342455--23342506 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
23342445 AAATCCCAAA
*
23342455 TTTTCTTCCTTTCCTTCCCT-TTTTCT
1 TTTTCTTCCTTTCCTCCCCTGTTTTCT
23342481 TTTTCTTTCCTTT-CTCCCCTGTTTTC
1 TTTTC-TTCCTTTCCTCCCCTGTTTTC
23342507 GTTTGCCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTTCTTCCTTTCCTCCCCTGTTTTCT
Found at i:23342738 original size:14 final size:13
Alignment explanation
Indices: 23342714--23342761 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
23342704 TATTTAAAAA
23342714 ATAATAATATAAT
1 ATAATAATATAAT
23342727 ATAATAAATATAAT
1 ATAAT-AATATAAT
* *
23342741 -TTACAATATAAT
1 ATAATAATATAAT
*
23342753 AAAATAATA
1 ATAATAATA
23342762 ATATACTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 8 0.29
13 12 0.43
14 8 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:23343234 original size:11 final size:11
Alignment explanation
Indices: 23343220--23343324 Score: 61
Period size: 11 Copynumber: 10.4 Consensus size: 11
23343210 TATTTTTTAA
23343220 TTTTAAAATAT
1 TTTTAAAATAT
23343231 TTTTAAAATACT
1 TTTTAAAATA-T
***
23343243 TTTT-TTTTAT
1 TTTTAAAATAT
*
23343253 TTTT--TA-AT
1 TTTTAAAATAT
23343261 -TTTAAAATAT
1 TTTTAAAATAT
*
23343271 TTTAAAAATAT
1 TTTTAAAATAT
23343282 TTTT-AAAT-T
1 TTTTAAAATAT
*
23343291 TTTT----TAA
1 TTTTAAAATAT
23343298 TTTTAAAATAT
1 TTTTAAAATAT
23343309 TTTTAAAATACT
1 TTTTAAAATA-T
23343321 TTTT
1 TTTT
23343325 TAATTTTTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
6 1 0.01
7 7 0.09
8 2 0.03
9 7 0.09
10 11 0.15
11 36 0.49
12 10 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:23343246 original size:40 final size:40
Alignment explanation
Indices: 23343202--23343326 Score: 200
Period size: 40 Copynumber: 3.2 Consensus size: 40
23343192 GCTGTTACAT
23343202 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
* *
23343242 TTTTTTTTTATTTTTTAATTTTAAAATATTTTAAAAATA-
1 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
* *
23343281 TTTTTAAAT-TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
23343320 TTTTTTA
1 TTTTTTA
23343327 ATTTTTAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 28 0.36
39 12 0.16
40 37 0.48
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:23343344 original size:20 final size:20
Alignment explanation
Indices: 23343307--23343345 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23343297 ATTTTAAAAT
**
23343307 ATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATAAATTTTTA
23343327 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
23343346 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:23352783 original size:42 final size:42
Alignment explanation
Indices: 23352737--23352831 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
23352727 CATATTATGG
* **
23352737 TAAATCATTATTGTAAGAA-AGAGTGAATATTTATTAATTTTA
1 TAAATCATTATTGTAA-AATAGAGTGAACATCCATTAATTTTA
*
23352779 TAAATCATTATTGTAAAATAGTGTGAACATCCATTAATTTTA
1 TAAATCATTATTGTAAAATAGAGTGAACATCCATTAATTTTA
*
23352821 -AAATTATTATT
1 TAAATCATTATT
23352832 TATAATTAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
41 12 0.26
42 35 0.74
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (42 bp):
TAAATCATTATTGTAAAATAGAGTGAACATCCATTAATTTTA
Found at i:23355033 original size:105 final size:101
Alignment explanation
Indices: 23354882--23355077 Score: 259
Period size: 105 Copynumber: 1.9 Consensus size: 101
23354872 ATTTGTAGTG
* * * * *
23354882 CCATAACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCTAGCTATTGTCTTACACATGT-AT
1 CCATAACCCAATTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGTCTT--ACATGTAAA
23354946 CTATACTGCCATGGTCCAACCATGGTCTTATGTTCAAGGTA
64 C-AT--TGCCATGGTCCAACCATGGTCTTATGTTCAAGGTA
* * * *
23354987 CCATAACCCAATTGTGGTCTTTTCATTAAAATGTCATAGCCCAGCTATGGTCTTACATTTAAACA
1 CCATAACCCAATTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGTCTTACATGTAAACA
23355052 TTGCCATGGTCCAACCATGGTCTTAT
66 TTGCCATGGTCCAACCATGGTCTTAT
23355078 CCGTCAATTC
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
101 25 0.31
103 7 0.09
104 2 0.02
105 47 0.58
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (101 bp):
CCATAACCCAATTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGTCTTACATGTAAACA
TTGCCATGGTCCAACCATGGTCTTATGTTCAAGGTA
Found at i:23355921 original size:21 final size:22
Alignment explanation
Indices: 23355897--23355941 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
23355887 AGAAAAAGAG
23355897 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
23355918 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
23355940 AA
1 AA
23355942 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:23357214 original size:35 final size:35
Alignment explanation
Indices: 23357132--23357329 Score: 237
Period size: 35 Copynumber: 5.8 Consensus size: 35
23357122 TCAAAAATCC
* * *
23357132 GTGAACAGGAGAGATTCCCTGCAA-GAAATGA--T
1 GTGAACAGGAAAGATTCCCTGCAACAAAATAATGT
23357164 GTGAACAGGAAAGATTCCCTGCAACAAAATAATGT
1 GTGAACAGGAAAGATTCCCTGCAACAAAATAATGT
* *
23357199 GTGAACAGGAGAGATTCCCTGCAACAAAATAATGC
1 GTGAACAGGAAAGATTCCCTGCAACAAAATAATGT
* * *
23357234 GTGAACAGGAGAGATTCCCTGCAA-GAAATGA--T
1 GTGAACAGGAAAGATTCCCTGCAACAAAATAATGT
* *
23357266 GTGAACAGGAAAGATTCCCTGCAACAGAATAATGC
1 GTGAACAGGAAAGATTCCCTGCAACAAAATAATGT
* * *
23357301 GTGAACATGAAATATTCCCTGCAAGAAAA
1 GTGAACAGGAAAGATTCCCTGCAACAAAA
23357330 GACAAGTGAA
Statistics
Matches: 143, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
32 46 0.32
33 9 0.06
34 5 0.03
35 83 0.58
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (35 bp):
GTGAACAGGAAAGATTCCCTGCAACAAAATAATGT
Found at i:23357269 original size:67 final size:68
Alignment explanation
Indices: 23357132--23357328 Score: 267
Period size: 67 Copynumber: 2.9 Consensus size: 68
23357122 TCAAAAATCC
* * *
23357132 GTGAACAGGAGAGATTCCCTGCAA-GAAATGAT--GTGAACAGGAAAGATTCCCTGCAACAAAAT
1 GTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAAGATTCCCTGCAA-GAAAT
23357194 AATGT
65 AA-GT
* *
23357199 GTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATG
1 GTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAAGATTCCCTGCAAGAAATA
23357264 A-T
66 AGT
* * * *
23357266 GTGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACATGAAATATTCCCTGCAAGAAA
1 GTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAAGATTCCCTGCAAGAAA
23357329 AGACAAGTGA
Statistics
Matches: 117, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
67 83 0.71
68 6 0.05
69 5 0.04
70 23 0.20
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (68 bp):
GTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAAGATTCCCTGCAAGAAATA
AGT
Found at i:23357307 original size:102 final size:102
Alignment explanation
Indices: 23357131--23357329 Score: 344
Period size: 102 Copynumber: 2.0 Consensus size: 102
23357121 ATCAAAAATC
23357131 CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAA
1 CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAA
* *
23357196 TGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATG
66 TGCGTGAACAGGAAAGATTCCCTGCAACAAAATAATG
*
23357233 CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAGAATAA
1 CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAA
* * *
23357298 TGCGTGAACATGAAATATTCCCTGCAAGAAAA
66 TGCGTGAACAGGAAAGATTCCCTGCAACAAAA
23357330 GACAAGTGAA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 91 1.00
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (102 bp):
CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAA
TGCGTGAACAGGAAAGATTCCCTGCAACAAAATAATG
Found at i:23362402 original size:13 final size:14
Alignment explanation
Indices: 23362367--23362413 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
23362357 TTTTTTACTA
23362367 TGAACCCTAAACCT
1 TGAACCCTAAACCT
* *
23362381 TGAATCCTAAA-TT
1 TGAACCCTAAACCT
23362394 TGAACCCTAAACCT
1 TGAACCCTAAACCT
*
23362408 TAAACC
1 TGAACC
23362414 TAGAACCTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.30, G:0.06, T:0.26
Consensus pattern (14 bp):
TGAACCCTAAACCT
Found at i:23362415 original size:13 final size:14
Alignment explanation
Indices: 23362367--23362421 Score: 51
Period size: 13 Copynumber: 4.0 Consensus size: 14
23362357 TTTTTTACTA
*
23362367 TGAACCCTAAACCT
1 TGAAACCTAAACCT
* *
23362381 TGAATCCTAAA-TT
1 TGAAACCTAAACCT
*
23362394 TGAACCCTAAACCT
1 TGAAACCTAAACCT
23362408 T-AAACCTAGAACCT
1 TGAAACCTA-AACCT
23362422 CAAACTTGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
13 17 0.50
14 17 0.50
ACGTcount: A:0.38, C:0.29, G:0.07, T:0.25
Consensus pattern (14 bp):
TGAAACCTAAACCT
Found at i:23362472 original size:14 final size:14
Alignment explanation
Indices: 23362450--23362496 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
23362440 TCAAGTTTGA
*
23362450 GTTTGGGGTTCAAG
1 GTTTAGGGTTCAAG
* *
23362464 GTTTAGGGTTTAGG
1 GTTTAGGGTTCAAG
23362478 GTTT-GGGTTCAAG
1 GTTTAGGGTTCAAG
23362491 GTTTAG
1 GTTTAG
23362497 TGTTTGGGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.15, C:0.04, G:0.40, T:0.40
Consensus pattern (14 bp):
GTTTAGGGTTCAAG
Found at i:23362473 original size:7 final size:7
Alignment explanation
Indices: 23362463--23362514 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
23362453 TGGGGTTCAA
23362463 GGTTTAG
1 GGTTTAG
23362470 GGTTTAG
1 GGTTTAG
23362477 GGTTT-G
1 GGTTTAG
* *
23362483 GGTTCAA
1 GGTTTAG
23362490 GGTTTAG
1 GGTTTAG
* *
23362497 TGTTTGG
1 GGTTTAG
*
23362504 GGTTTGG
1 GGTTTAG
23362511 GGTT
1 GGTT
23362515 CATAGTAAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.10, C:0.02, G:0.44, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:23362474 original size:27 final size:28
Alignment explanation
Indices: 23362450--23362516 Score: 109
Period size: 27 Copynumber: 2.4 Consensus size: 28
23362440 TCAAGTTTGA
23362450 GTTTGGGGTTCAAGGTTTAGGGTTTAGG
1 GTTTGGGGTTCAAGGTTTAGGGTTTAGG
* *
23362478 GTTT-GGGTTCAAGGTTTAGTGTTTGGG
1 GTTTGGGGTTCAAGGTTTAGGGTTTAGG
23362505 GTTTGGGGTTCA
1 GTTTGGGGTTCA
23362517 TAGTAAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 25 0.69
28 11 0.31
ACGTcount: A:0.12, C:0.04, G:0.42, T:0.42
Consensus pattern (28 bp):
GTTTGGGGTTCAAGGTTTAGGGTTTAGG
Found at i:23362486 original size:20 final size:21
Alignment explanation
Indices: 23362463--23362514 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
23362453 TGGGGTTCAA
23362463 GGTTTAGGGTTTAGGGTTT-G
1 GGTTTAGGGTTTAGGGTTTGG
* * *
23362483 GGTTCAAGGTTTAGTGTTTGG
1 GGTTTAGGGTTTAGGGTTTGG
*
23362504 GGTTTGGGGTT
1 GGTTTAGGGTT
23362515 CATAGTAAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.10, C:0.02, G:0.44, T:0.44
Consensus pattern (21 bp):
GGTTTAGGGTTTAGGGTTTGG
Found at i:23371777 original size:18 final size:19
Alignment explanation
Indices: 23371750--23371785 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
23371740 CCTGAGTCTT
*
23371750 TTTTTTTATTT-TCTTTAA
1 TTTTTATATTTATCTTTAA
23371768 TTTTTATATTTATCTTTA
1 TTTTTATATTTATCTTTA
23371786 CAAACTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTATATTTATCTTTAA
Found at i:23376841 original size:3 final size:3
Alignment explanation
Indices: 23376833--23376916 Score: 60
Period size: 3 Copynumber: 28.0 Consensus size: 3
23376823 ATATATATAG
* * ** * *
23376833 ATA ATA ATA CTA TTA ATA GCA ATA ATA ATA GTA ATA ATA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
23376881 ACA ACA ACA ACA ACA ATA ATA ATA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23376917 TTAAACTAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:23377610 original size:51 final size:51
Alignment explanation
Indices: 23377553--23377666 Score: 169
Period size: 51 Copynumber: 2.2 Consensus size: 51
23377543 ATCCACTCCA
*
23377553 CTTTAGCTTTAATCTATTCCACTGCAACGCCA-GGAAAATAAGATTCGCTA-
1 CTTTAGCTTTAATCTATTCCACTGCAACACCAGGGAAAA-AAGATTCGCTAT
*
23377603 CTTTTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAAAAAGATTCGCTAT
1 C-TTTAGCTTTAATCTATTCCACTGCAACACCAGGGAAAAAAGATTCGCTAT
*
23377655 CTTCAGCTTTAA
1 CTTTAGCTTTAA
23377667 CGCCAGGGAG
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
50 1 0.02
51 50 0.86
52 7 0.12
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (51 bp):
CTTTAGCTTTAATCTATTCCACTGCAACACCAGGGAAAAAAGATTCGCTAT
Found at i:23377725 original size:87 final size:87
Alignment explanation
Indices: 23377578--23377753 Score: 219
Period size: 87 Copynumber: 2.0 Consensus size: 87
23377568 ATTCCACTGC
* * *
23377578 AACGCCAGGAAAATAAGATTCGCTACTTTTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAAA
1 AACGCCAGGAAAATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCACTACAACACCAGGGAAAA
23377643 AAGATTCGCTATC-TTCAGCTTT
66 AAGATTCGCTA-CATTCAGCTTT
* * * * * ** *
23377665 AACGCCAGGGAGATAAGATTCGTTGCCTTTAGCTTTAATCTGCTCCGCTACAACGTCAGGGAAAC
1 AACGCCAGGAAAATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCACTACAACACCAGGGAAAA
* *
23377730 AAGATTTGCTACATTTAGCTTT
66 AAGATTCGCTACATTCAGCTTT
23377752 AA
1 AA
23377754 TCTATTTCAC
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
86 1 0.01
87 74 0.99
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (87 bp):
AACGCCAGGAAAATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCACTACAACACCAGGGAAAA
AAGATTCGCTACATTCAGCTTT
Found at i:23377801 original size:138 final size:138
Alignment explanation
Indices: 23377553--23377804 Score: 324
Period size: 138 Copynumber: 1.8 Consensus size: 138
23377543 ATCCACTCCA
* * * *
23377553 CTTTAGCTTTAATCTATTCCACTGCAACGCCAGGAAAATAAGATTCGCTACTTTTAGCTTTAATC
1 CTTTAGCTTTAATCTACTCCACTACAACGCCAGGAAAACAAGATTCGCTACATTTAGCTTTAATC
* * * *
23377618 TGTTCCACTGCAACACCAGGGAAAAAAGATTCGCTATCTTCAGCTTTAACGCCAGGGAGATAAGA
66 TATTCCACCGCAACACCAAGGAAAAAAGATTCGCTACCTTCAGCTTTAACGCCAGGGAGATAAGA
23377683 TTCGTTGC
131 TTCGTTGC
* * * * *
23377691 CTTTAGCTTTAATCTGCTCCGCTACAACGTCAGGGAAACAAGATTTGCTACATTTAGCTTTAATC
1 CTTTAGCTTTAATCTACTCCACTACAACGCCAGGAAAACAAGATTCGCTACATTTAGCTTTAATC
* * * * * * *
23377756 TATTTCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAA
66 TATTCCACCGCAACACCAAGGAAAAAAGATTCGCTACCTTCAGCTTTAA
23377805 TCTGCTCCAT
Statistics
Matches: 94, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
138 94 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (138 bp):
CTTTAGCTTTAATCTACTCCACTACAACGCCAGGAAAACAAGATTCGCTACATTTAGCTTTAATC
TATTCCACCGCAACACCAAGGAAAAAAGATTCGCTACCTTCAGCTTTAACGCCAGGGAGATAAGA
TTCGTTGC
Found at i:23377834 original size:21 final size:21
Alignment explanation
Indices: 23377796--23377836 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23377786 TCGCTGCCTT
*
23377796 CAGCTTTAATCTGCTCCATTC
1 CAGCTTTAATCTACTCCATTC
*
23377817 CAGCTTTAATCTATTCCATT
1 CAGCTTTAATCTACTCCATT
23377837 GCAACGCCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.29, G:0.07, T:0.41
Consensus pattern (21 bp):
CAGCTTTAATCTACTCCATTC
Found at i:23377876 original size:72 final size:72
Alignment explanation
Indices: 23377746--23377887 Score: 167
Period size: 72 Copynumber: 2.0 Consensus size: 72
23377736 TGCTACATTT
* * * * * * *
23377746 AGCTTTAATCTATTTCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCTGCT
1 AGCTTTAATCTATTCCACCGCAACGCCAAGGAAACAAGATTCACTACCTTCAGCTTTAATCTGCT
23377811 CCATTCC
66 CCATTCC
** * * * *
23377818 AGCTTTAATCTATTCCATTGCAACGCCAGGGAAACAAGATTCACTACCTTTAGTTTTAATCTGTT
1 AGCTTTAATCTATTCCACCGCAACGCCAAGGAAACAAGATTCACTACCTTCAGCTTTAATCTGCT
23377883 CCATT
66 CCATT
23377888 GCAACGCCAG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (72 bp):
AGCTTTAATCTATTCCACCGCAACGCCAAGGAAACAAGATTCACTACCTTCAGCTTTAATCTGCT
CCATTCC
Found at i:23377927 original size:51 final size:51
Alignment explanation
Indices: 23377821--23377927 Score: 142
Period size: 51 Copynumber: 2.1 Consensus size: 51
23377811 CCATTCCAGC
* * *
23377821 TTTAATCTATTCCATTGCAACGCCAGGGAAACAAGATTCACTACCTTTAGT
1 TTTAATCTATTCCATTGCAACGCCAGGAAAACAAGATTCACTACCTTCAGA
* * ** *
23377872 TTTAATCTGTTCCATTGCAACGCCAGGAAAATAAGATTTGCTATCTTCAGA
1 TTTAATCTATTCCATTGCAACGCCAGGAAAACAAGATTCACTACCTTCAGA
23377923 TTTAA
1 TTTAA
23377928 CGCCAAGGAG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (51 bp):
TTTAATCTATTCCATTGCAACGCCAGGAAAACAAGATTCACTACCTTCAGA
Found at i:23377985 original size:87 final size:86
Alignment explanation
Indices: 23377839--23378014 Score: 228
Period size: 87 Copynumber: 2.0 Consensus size: 86
23377829 ATTCCATTGC
* * * *
23377839 AACGCCAGGGAAACAAGATTCACTACCTTTAGTTTTAATCTGTTCCATTGCAACGCCAGGAAAAT
1 AACGCCAAGGAAACAAGATTCACTACCTTCAGCTTTAATCTCTTCCA-TGCAACGCCAGGAAAAT
* *
23377904 AAGATTTGCTATCTTCAGATTT
65 AAGATTTGCGACCTTCAGATTT
* * *
23377926 AACGCCAAGGAGATAAGATTCACTACCTTCAGCTTTAATCTACTTCGC-TGCAACGCCAGGGAAA
1 AACGCCAAGGAAACAAGATTCACTACCTTCAGCTTTAATCT-CTTC-CATGCAACGCCAGGAAAA
*
23377990 TAAGATTTGCGACCTTCAGCTTT
64 TAAGATTTGCGACCTTCAGATTT
23378013 AA
1 AA
23378015 TCTGTTCCAC
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 73 0.95
88 3 0.04
89 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (86 bp):
AACGCCAAGGAAACAAGATTCACTACCTTCAGCTTTAATCTCTTCCATGCAACGCCAGGAAAATA
AGATTTGCGACCTTCAGATTT
Found at i:23378043 original size:261 final size:260
Alignment explanation
Indices: 23377548--23378987 Score: 1917
Period size: 261 Copynumber: 5.5 Consensus size: 260
23377538 CTTCAATCCA
* * * *
23377548 CTCCACTTTAGCTTTAATCTATTCCACTGCAACGCCAGGAAAATAAGATTCGCTACTTTTAGCTT
1 CTCCA-TTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
* *
23377613 TAATCTGTTCCACTGCAACACCAGGGAAAAAAGATTCGCTATCTTCAGCTTTAACGCCAGGGAGA
65 TAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGAGA
* * * * * *
23377678 TAAGATTCGTTGCCTTTAGCTTTAATCTGCTCCGCTACAACGTCAGGGAAACAAGATTTGCTACA
130 TAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACC
* *
23377743 TTTAGCTTTAATCTATTTCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCT
195 TTTAGCTTTAATCTGTTCCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCT
23377808 G
260 G
* * *
23377809 CTCCATTCCAGCTTTAATCTATTCCATTGCAACGCCAGGGAAACAAGATTCACTACCTTTAGTTT
1 CTCCATT-CAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
* * * * *
23377874 TAATCTGTTCCATTGCAACGCCAGGAAAATAAGATTTGCTATCTTCAGATTTAACGCCAAGGAGA
65 TAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGAGA
* * * * * * *
23377939 TAAGATTCACTACCTTCAGCTTTAATCTACTTCGCTGCAACGCCAGGGAAATAAGATTTGCGACC
130 TAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACC
* ** * * * * * * *
23378004 TTCAGCTTTAATCTGTTCCACTATAACGTCAACGAGATAGGATTCACTGTCTTGAGTTTTAATCC
195 TTTAGCTTTAATCTGTTCCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCT
*
23378069 A
260 G
* * * * * *
23378070 CTCCACTTTAGCTTTAATCTATTCCACTGCAATGCCAGGGAAATAAGATTTGCTACTTTTAACTT
1 CTCCA-TTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
* * * *
23378135 TAATCTATTCCACTGCAACGCCACGGAAATAAGATTTGCTATCTTCAGCTTTAACGCTAGGGAGA
65 TAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGAGA
* * * *
23378200 TAAGATTCGTTGCCTTCAGCTTTAATCTGCTCCGCTACAACGTCAGGGAAACAAGATTCGCTACA
130 TAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACC
* *
23378265 TTTAGCTTTAATCTATTCCACCGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCT
195 TTTAGCTTTAATCTGTTCCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCT
23378330 G
260 G
* * **
23378331 CTCCATTTCAGCTTTAATTTATTCCATTGCAACGCCAGGGAAACAAGATTTACTACCTTTAGCTT
1 CTCCA-TTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
* *
23378396 TAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCACTATCTTCAGCTTTAACGCCAGGGAGA
65 TAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGAGA
* * *** *
23378461 TAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAAAAAATAAGATTCGCTACC
130 TAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACC
* ** * * *
23378526 TTTAGCTTTAATCTGTTACACTATAACACCAAGGAGATAGGATTCGCTGCCTTAAGCTTTAATCC
195 TTTAGCTTTAATCTGTTCCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCT
23378591 G
260 G
* * * * *
23378592 CTCTACTTCAGCTTTAATCTATTCCACTACAATGCCAGGGAAACGAGATTCGCTACCTTTAACTT
1 CTCCA-TTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
23378657 TAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGAGA
65 TAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGAGA
* * * * * * **
23378722 TAAGATTCGCTACTTTCAGCTTTAATCTGCTCCACTGTAATGCTAGATAAACAAGATTCGCTACC
130 TAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACC
* * *
23378787 TTTAGCTTTAATTTGTTCCACCGTAACGCCAATGAGATAGGATTCGTTGCCTTCAGCTTTAATCT
195 TTTAGCTTTAATCTGTTCCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCT
*
23378852 A
260 G
* * * *
23378853 TTCTATTTCAGCCTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
1 CTCCA-TTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
* * ** * *
23378918 TAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCACTGCCCTCAGTTTTAACGCCAGGGAGA
65 TAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGAGA
23378983 TAAGA
130 TAAGA
23378988 ACTGTGTCTT
Statistics
Matches: 1027, Mismatches: 150, Indels: 4
0.87 0.13 0.00
Matches are distributed among these distances:
260 2 0.00
261 1023 1.00
262 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (260 bp):
CTCCATTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTT
AATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGAGAT
AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACCT
TTAGCTTTAATCTGTTCCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCTG
Found at i:23378065 original size:138 final size:135
Alignment explanation
Indices: 23377817--23378987 Score: 774
Period size: 123 Copynumber: 8.9 Consensus size: 135
23377807 TGCTCCATTC
* * * *
23377817 CAGCTTTAATCTATTCCATTGCAACGCCAGGGAAACAAGATTCACTACCTTTAGTTTTAATCTGT
1 CAGCTTTAATCTATT-CACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTAT
* * *
23377882 TCCATTGCAACGCC-AGGAAAATAAGATTTGCTATCTTCAGATTTAACGCCAAGGAGATAAGATT
65 TCCACTGCAACGCCAAGG-AAATAAGATTCGCTATCTTCAGCTTTAACGCC-AGGAGATAAGATT
23377946 CACTACCTT
128 C-CTACCTT
* * * * * *
23377955 CAGCTTTAATCTACTTCGCTGCAACGCCAGGGAAATAAGATTTGCGACCTTCAGCTTTAATCTGT
1 CAGCTTTAATCTA-TTCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTAT
** * * * * * * * * * *
23378020 TCCACTATAACGTCAACGAGATAGGATTCACTGTCTTGAGTTTTAA-TCC----------ACTCC
65 TCCACTGCAACGCCAAGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGAGATAAGATTCC
23378074 -A-CTT
130 TACCTT
* * * * * *
23378078 TAGCTTTAATCTATTCCACTGCAATGCCAGGGAAATAAGATTTGCTACTTTTAACTTTAATCTAT
1 CAGCTTTAATCTATT-CACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTAT
* * *
23378143 TCCACTGCAACGCCACGGAAATAAGATTTGCTATCTTCAGCTTTAACGCTAGGGAGATAAGATTC
65 TCCACTGCAACGCCAAGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCA-GGAGATAAGATTC
* *
23378208 GTTGCCTT
129 -CTACCTT
* * * * * *
23378216 CAGCTTTAATCTGCTCCGCTACAACGTCAGGGAAACAAGATTCGCTACATTTAGCTTTAATCTAT
1 CAGCTTTAATCT-ATTCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTAT
* * * * * ** * *
23378281 TCCACCGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAA--TC------T--G-CTCC
65 TCCACTGCAACGCCAAGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGAGATAAGATTCC
*
23378335 -A-TTT
130 TACCTT
* * **
23378339 CAGCTTTAATTTATTCCATTGCAACGCCAGGGAAACAAGATTTACTACCTTTAGCTTTAATCTAT
1 CAGCTTTAATCTATT-CACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTAT
* *
23378404 TCCACTGCAACGCCAGGGAAATAAGATTCACTATCTTCAGCTTTAACGCCAGGGAGATAAGATTT
65 TCCACTGCAACGCCAAGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCA-GGAGATAAGA-TT
* *
23378469 GCTGCCTT
128 CCTACCTT
* * *** * *
23378477 CAGCTTTAATCTGCTCCACTGCAACGCCAAAAAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
1 CAGCTTTAATCT-ATTCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTAT
* ** * * * ** * * *
23378542 TACACTATAACACCAAGGAGATAGGATTCGCTGCCTTAAGCTTTAA-TCC---------G-CT-C
65 TCCACTGCAACGCCAAGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGAGATAAGATTCC
23378595 TA-CTT
130 TACCTT
* * * * *
23378600 CAGCTTTAATCTATTCCACTACAATGCCAGGGAAACGAGATTCGCTACCTTTAACTTTAATCTGT
1 CAGCTTTAATCTATT-CACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTAT
*
23378665 TCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGAGATAAGATTC
65 TCCACTGCAACGCCAAGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCA-GGAGATAAGATTC
*
23378730 GCTACTTT
129 -CTACCTT
* * * * * ** * *
23378738 CAGCTTTAATCTGCTCCACTGTAATGCTAGATAAACAAGATTCGCTACCTTTAGCTTTAATTTGT
1 CAGCTTTAATCT-ATTCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTAT
* * * * * * ** *
23378803 TCCACCGTAACGCCAATGAGATAGGATTCGTTGCCTTCAGCTTTAA--TC------T---ATT-C
65 TCCACTGCAACGCCAAGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGAGATAAGATTCC
*
23378856 TA-TTT
130 TACCTT
* * *
23378861 CAGCCTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGT
1 CAGCTTTAATCTATT-CACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTAT
* * * ** * *
23378926 TCCACTGCAACACCAGGGAAATAAGATTCACTGCCCTCAGTTTTAACGCCAGGGAGATAAGA
65 TCCACTGCAACGCCAAGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCA-GGAGATAAGA
23378988 ACTGTGTCTT
Statistics
Matches: 782, Mismatches: 185, Indels: 135
0.71 0.17 0.12
Matches are distributed among these distances:
122 5 0.01
123 368 0.47
124 9 0.01
125 4 0.01
126 8 0.01
127 2 0.00
129 2 0.00
132 2 0.00
134 2 0.00
135 5 0.01
136 3 0.00
137 7 0.01
138 358 0.46
139 7 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (135 bp):
CAGCTTTAATCTATTCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATT
CCACTGCAACGCCAAGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGAGATAAGATTCCT
ACCTT
Found at i:23378136 original size:51 final size:51
Alignment explanation
Indices: 23378076--23378175 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 51
23378066 TCCACTCCAC
* * *
23378076 TTTAGCTTTAATCTATTCCACTGCAATGCCAGGGAAATAAGATTTGCTACT
1 TTTAACTTTAATCTATTCCACTGCAACGCCACGGAAATAAGATTTGCTACT
23378127 TTTAACTTTAATCTATTCCACTGCAACGCCACGGAAATAAGATTTGCTA
1 TTTAACTTTAATCTATTCCACTGCAACGCCACGGAAATAAGATTTGCTA
23378176 TCTTCAGCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (51 bp):
TTTAACTTTAATCTATTCCACTGCAACGCCACGGAAATAAGATTTGCTACT
Found at i:23378187 original size:51 final size:51
Alignment explanation
Indices: 23378074--23378188 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
23378064 AATCCACTCC
* *
23378074 ACTTT-AGCTTTAATCTATTCCACTGCAATGCCAGGGAAATAAGATTTGCT
1 ACTTTCAGCTTTAATCTATTCCACTGCAACGCCACGGAAATAAGATTTGCT
* *
23378124 ACTTTTAACTTTAATCTATTCCACTGCAACGCCACGGAAATAAGATTTGCT
1 ACTTTCAGCTTTAATCTATTCCACTGCAACGCCACGGAAATAAGATTTGCT
23378175 A-TCTTCAGCTTTAA
1 ACT-TTCAGCTTTAA
23378189 CGCTAGGGAG
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
50 6 0.10
51 52 0.90
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (51 bp):
ACTTTCAGCTTTAATCTATTCCACTGCAACGCCACGGAAATAAGATTTGCT
Found at i:23378356 original size:21 final size:21
Alignment explanation
Indices: 23378316--23378358 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23378306 ATTCGCTGCC
*
23378316 TTCAGCTTTAATCTGCTCCAT
1 TTCAGCTTTAATCTACTCCAT
* *
23378337 TTCAGCTTTAATTTATTCCAT
1 TTCAGCTTTAATCTACTCCAT
23378358 T
1 T
23378359 GCAACGCCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.23, G:0.07, T:0.49
Consensus pattern (21 bp):
TTCAGCTTTAATCTACTCCAT
Found at i:23378416 original size:51 final size:51
Alignment explanation
Indices: 23378337--23378449 Score: 172
Period size: 51 Copynumber: 2.2 Consensus size: 51
23378327 TCTGCTCCAT
* * *
23378337 TTCAGCTTTAATTTATTCCATTGCAACGCCAGGGAAACAAGATTTACTACC
1 TTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCACTACC
* * *
23378388 TTTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCACTATC
1 TTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCACTACC
23378439 TTCAGCTTTAA
1 TTCAGCTTTAA
23378450 CGCCAGGGAG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (51 bp):
TTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCACTACC
Found at i:23378464 original size:36 final size:36
Alignment explanation
Indices: 23378412--23378485 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
23378402 ATTCCACTGC
*
23378412 AACGCCAGGGAAATAAGATTCACTATCTTCAGCTTT
1 AACGCCAGGGAAATAAGATTCACTACCTTCAGCTTT
* ** *
23378448 AACGCCAGGGAGATAAGATTTGCTGCCTTCAGCTTT
1 AACGCCAGGGAAATAAGATTCACTACCTTCAGCTTT
23378484 AA
1 AA
23378486 TCTGCTCCAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (36 bp):
AACGCCAGGGAAATAAGATTCACTACCTTCAGCTTT
Found at i:23378513 original size:87 final size:87
Alignment explanation
Indices: 23378361--23378536 Score: 235
Period size: 87 Copynumber: 2.0 Consensus size: 87
23378351 ATTCCATTGC
* * ***
23378361 AACGCCAGGGAAACAAGATTTACTACCTTTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAAT
1 AACGCCAGGGAAACAAGATTTACTACCTTCAGCTTTAATCTACTCCACTGCAACGCCAAAAAAAT
*
23378426 AAGATTCACTATCTTCAGCTTT
66 AAGATTCACTACCTTCAGCTTT
* * * * *
23378448 AACGCCAGGGAGATAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAAAAAAT
1 AACGCCAGGGAAACAAGATTTACTACCTTCAGCTTTAATCTACTCCACTGCAACGCCAAAAAAAT
* *
23378513 AAGATTCGCTACCTTTAGCTTT
66 AAGATTCACTACCTTCAGCTTT
23378535 AA
1 AA
23378537 TCTGTTACAC
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (87 bp):
AACGCCAGGGAAACAAGATTTACTACCTTCAGCTTTAATCTACTCCACTGCAACGCCAAAAAAAT
AAGATTCACTACCTTCAGCTTT
Found at i:23378533 original size:51 final size:51
Alignment explanation
Indices: 23378460--23378594 Score: 144
Period size: 51 Copynumber: 2.6 Consensus size: 51
23378450 CGCCAGGGAG
* * * *
23378460 ATAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAAAAA
1 ATAAGATTCGCTGCCTTAAGCTTTAATCTGCTCCACTACAACACCAAAAAA
* * * * * ** *
23378511 ATAAGATTCGCTACCTTTAGCTTTAATCTGTTACACTATAACACCAAGGAG
1 ATAAGATTCGCTGCCTTAAGCTTTAATCTGCTCCACTACAACACCAAAAAA
* *
23378562 ATAGGATTCGCTGCCTTAAGCTTTAATCCGCTC
1 ATAAGATTCGCTGCCTTAAGCTTTAATCTGCTC
23378595 TACTTCAGCT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (51 bp):
ATAAGATTCGCTGCCTTAAGCTTTAATCTGCTCCACTACAACACCAAAAAA
Found at i:23378535 original size:522 final size:522
Alignment explanation
Indices: 23377542--23378987 Score: 2174
Period size: 522 Copynumber: 2.8 Consensus size: 522
23377532 ACTTCACTTC
* *
23377542 AATCCACTCCACTTTAGCTTTAATCTATTCCACTGCAACGCCAGGAAAATAAGATTCGCTACTTT
1 AATCCACTCCACTTTAGCTTTAATCTATTCCACTGCAATGCCAGGGAAATAAGATTCGCTACTTT
* * *
23377607 TAGCTTTAATCTGTTCCACTGCAACACCAGGGAAAAAAGATTCGCTATCTTCAGCTTTAACGCCA
66 TAACTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCA
* *
23377672 GGGAGATAAGATTCGTTGCCTTTAGCTTTAATCTGCTCCGCTACAACGTCAGGGAAACAAGATTT
131 GGGAGATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCCGCTACAACGTCAGGGAAACAAGATTC
*
23377737 GCTACATTTAGCTTTAATCTATTTCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTT
196 GCTACATTTAGCTTTAATCTATTCCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTT
*
23377802 TAATCTGCTCCATTCCAGCTTTAATCTATTCCATTGCAACGCCAGGGAAACAAGATTCACTACCT
261 TAATCTGCTCCATTTCAGCTTTAATCTATTCCATTGCAACGCCAGGGAAACAAGATTCACTACCT
* * * **
23377867 TTAGTTTTAATCTGTTCCATTGCAACGCCAGGAAAATAAGATTTGCTATCTTCAGATTTAACGCC
326 TTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTATCTTCAGATTTAACGCC
* * * ***
23377932 AAGGAGATAAGATTCACTACCTTCAGCTTTAATCTACTTCGCTGCAACGCCAGGGAAATAAGATT
391 AGGGAGATAAGATTCACTACCTTCAGCTTTAATCTACTCCACTGCAACGCCAAAAAAATAAGATT
* * ** * * *
23377997 TGCGACCTTCAGCTTTAATCTGTTCCACTATAACGTCAACGAGATAGGATTCACTGTCTTGAGTT
456 CGCGACCTTCAGCTTTAATCTGTTACACTATAACACCAACGAGATAGGATTCACTGCCTTAAGCT
23378062 TT
521 TT
*
23378064 AATCCACTCCACTTTAGCTTTAATCTATTCCACTGCAATGCCAGGGAAATAAGATTTGCTACTTT
1 AATCCACTCCACTTTAGCTTTAATCTATTCCACTGCAATGCCAGGGAAATAAGATTCGCTACTTT
* * * *
23378129 TAACTTTAATCTATTCCACTGCAACGCCACGGAAATAAGATTTGCTATCTTCAGCTTTAACGCTA
66 TAACTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCA
23378194 GGGAGATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCCGCTACAACGTCAGGGAAACAAGATTC
131 GGGAGATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCCGCTACAACGTCAGGGAAACAAGATTC
*
23378259 GCTACATTTAGCTTTAATCTATTCCACCGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTT
196 GCTACATTTAGCTTTAATCTATTCCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTT
* *
23378324 TAATCTGCTCCATTTCAGCTTTAATTTATTCCATTGCAACGCCAGGGAAACAAGATTTACTACCT
261 TAATCTGCTCCATTTCAGCTTTAATCTATTCCATTGCAACGCCAGGGAAACAAGATTCACTACCT
* *
23378389 TTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCACTATCTTCAGCTTTAACGCC
326 TTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTATCTTCAGATTTAACGCC
** * *
23378454 AGGGAGATAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAAAAAATAAGATT
391 AGGGAGATAAGATTCACTACCTTCAGCTTTAATCTACTCCACTGCAACGCCAAAAAAATAAGATT
* * * *
23378519 CGCTACCTTTAGCTTTAATCTGTTACACTATAACACCAAGGAGATAGGATTCGCTGCCTTAAGCT
456 CGCGACCTTCAGCTTTAATCTGTTACACTATAACACCAACGAGATAGGATTCACTGCCTTAAGCT
23378584 TT
521 TT
* * * * ** *
23378586 AATCCGCTCTACTTCAGCTTTAATCTATTCCACTACAATGCCAGGGAAACGAGATTCGCTACCTT
1 AATCCACTCCACTTTAGCTTTAATCTATTCCACTGCAATGCCAGGGAAATAAGATTCGCTACTTT
23378651 TAACTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCA
66 TAACTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCA
* * * * ** * **
23378716 GGGAGATAAGATTCGCTACTTTCAGCTTTAATCTGCTCCACTGTAATG-CTAGATAAACAAGATT
131 GGGAGATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCCGCTACAACGTC-AGGGAAACAAGATT
* * * * *
23378780 CGCTACCTTTAGCTTTAATTTGTTCCACCGTAACGCCAATGAGATAGGATTCGTTGCCTTCAGCT
195 CGCTACATTTAGCTTTAATCTATTCCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCT
** * * * * *
23378845 TTAATCTATTCTATTTCAGCCTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACC
260 TTAATCTGCTCCATTTCAGCTTTAATCTATTCCATTGCAACGCCAGGGAAACAAGATTCACTACC
* ** * *
23378910 TTTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCACTGCCCTCAGTTTTAACGC
325 TTTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTATCTTCAGATTTAACGC
23378975 CAGGGAGATAAGA
390 CAGGGAGATAAGA
23378988 ACTGTGTCTT
Statistics
Matches: 836, Mismatches: 87, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
521 1 0.00
522 835 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (522 bp):
AATCCACTCCACTTTAGCTTTAATCTATTCCACTGCAATGCCAGGGAAATAAGATTCGCTACTTT
TAACTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCA
GGGAGATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCCGCTACAACGTCAGGGAAACAAGATTC
GCTACATTTAGCTTTAATCTATTCCACCGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTT
TAATCTGCTCCATTTCAGCTTTAATCTATTCCATTGCAACGCCAGGGAAACAAGATTCACTACCT
TTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTATCTTCAGATTTAACGCC
AGGGAGATAAGATTCACTACCTTCAGCTTTAATCTACTCCACTGCAACGCCAAAAAAATAAGATT
CGCGACCTTCAGCTTTAATCTGTTACACTATAACACCAACGAGATAGGATTCACTGCCTTAAGCT
TT
Found at i:23378709 original size:51 final size:51
Alignment explanation
Indices: 23378597--23378710 Score: 156
Period size: 51 Copynumber: 2.2 Consensus size: 51
23378587 ATCCGCTCTA
* *
23378597 CTTCAGCTTTAATCTATTCCACTACAATGCCAGGGAAACGAGATTCGCTAC
1 CTTCAGCTTTAATCTATTCCACTACAACGCCAGGGAAACAAGATTCGCTAC
* * * * * *
23378648 CTTTAACTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTAT
1 CTTCAGCTTTAATCTATTCCACTACAACGCCAGGGAAACAAGATTCGCTAC
23378699 CTTCAGCTTTAA
1 CTTCAGCTTTAA
23378711 CGCCAGGGAG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
CTTCAGCTTTAATCTATTCCACTACAACGCCAGGGAAACAAGATTCGCTAC
Found at i:23378725 original size:36 final size:36
Alignment explanation
Indices: 23378673--23378746 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
23378663 GTTCCACTGC
23378673 AACGCCAGGGAAATAAGATTCGCTA-TCTTCAGCTTT
1 AACGCCAGGGAAATAAGATTCGCTACT-TTCAGCTTT
*
23378709 AACGCCAGGGAGATAAGATTCGCTACTTTCAGCTTT
1 AACGCCAGGGAAATAAGATTCGCTACTTTCAGCTTT
23378745 AA
1 AA
23378747 TCTGCTCCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 35 0.97
37 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (36 bp):
AACGCCAGGGAAATAAGATTCGCTACTTTCAGCTTT
Found at i:23378778 original size:87 final size:87
Alignment explanation
Indices: 23378637--23378797 Score: 216
Period size: 87 Copynumber: 1.9 Consensus size: 87
23378627 CAGGGAAACG
* * * *
23378637 AGATTCGCTACCTTTAACTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTT
1 AGATTCGCTACCTTTAACTTTAATCTGCTCCACTGCAACGCCAGAGAAACAAGATTCGCTACCTT
23378702 CAGCTTTAACGCCAGGGAGATA
66 CAGCTTTAACGCCAGGGAGATA
* * * * *
23378724 AGATTCGCTA-CTTTCAGCTTTAATCTGCTCCACTGTAATGCTAGATAAACAAGATTCGCTACCT
1 AGATTCGCTACCTTT-AACTTTAATCTGCTCCACTGCAACGCCAGAGAAACAAGATTCGCTACCT
*
23378788 TTAGCTTTAA
65 TCAGCTTTAA
23378798 TTTGTTCCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
86 4 0.06
87 59 0.94
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (87 bp):
AGATTCGCTACCTTTAACTTTAATCTGCTCCACTGCAACGCCAGAGAAACAAGATTCGCTACCTT
CAGCTTTAACGCCAGGGAGATA
Found at i:23378831 original size:51 final size:51
Alignment explanation
Indices: 23378708--23378851 Score: 139
Period size: 51 Copynumber: 2.8 Consensus size: 51
23378698 TCTTCAGCTT
** *
23378708 TAACGCCAGGGAGATAAGATTCGCTA-CTTTCAGCTTTAATCTGCTCCACTG
1 TAACGCCAATGAGATAAGATTCGCTACCTTT-AGCTTTAATCTGCTCCACCG
* * * * * *
23378759 TAATGCTAGAT-AAACAAGATTCGCTACCTTTAGCTTTAATTTGTTCCACCG
1 TAACGCCA-ATGAGATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCACCG
* * * *
23378810 TAACGCCAATGAGATAGGATTCGTTGCCTTCAGCTTTAATCT
1 TAACGCCAATGAGATAAGATTCGCTACCTTTAGCTTTAATCT
23378852 ATTCTATTTC
Statistics
Matches: 72, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
50 2 0.03
51 66 0.92
52 4 0.06
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (51 bp):
TAACGCCAATGAGATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCACCG
Found at i:23378971 original size:51 final size:51
Alignment explanation
Indices: 23378860--23378971 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 51
23378850 CTATTCTATT
* ** * *
23378860 TCAGCCTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACCT
1 TCAGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCACTACCC
* * * *
23378911 TTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCACTGCCC
1 TCAGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCACTACCC
*
23378962 TCAGTTTTAA
1 TCAGCTTTAA
23378972 CGCCAGGGAG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (51 bp):
TCAGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCACTACCC
Found at i:23379330 original size:24 final size:24
Alignment explanation
Indices: 23379301--23379364 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
23379291 CCAGATTGCC
*
23379301 TCCACTATAATCTTCAAGATTCAA
1 TCCACTGTAATCTTCAAGATTCAA
* * *
23379325 TTCACTGTAAGCTTCAAGGTTCAA
1 TCCACTGTAATCTTCAAGATTCAA
23379349 TCCACTGTAATCTTCA
1 TCCACTGTAATCTTCA
23379365 TAAAATTTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (24 bp):
TCCACTGTAATCTTCAAGATTCAA
Found at i:23380318 original size:12 final size:12
Alignment explanation
Indices: 23380297--23380325 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23380287 TGGCTTCTCC
23380297 TTTT-TATTATT
1 TTTTATATTATT
23380308 TTTTATATTATT
1 TTTTATATTATT
23380320 TTTTAT
1 TTTTAT
23380326 GACTCAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTATATTATT
Found at i:23380384 original size:46 final size:44
Alignment explanation
Indices: 23380318--23380451 Score: 155
Period size: 44 Copynumber: 3.0 Consensus size: 44
23380308 TTTTATATTA
*
23380318 TTTTTT-ATGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC
1 TTTTTTAAT-ACTCAAAGCGCCCTTTGCGAGTTTTCACCTTGGTC
* * * * *
23380362 TTTTTTTTAGA-ACTTAATGCGCCCCTTGCGTGTTTTCACCTTAGTC
1 --TTTTTTA-ATACTCAAAGCGCCCTTTGCGAGTTTTCACCTTGGTC
*
23380408 TTTTTTAATACTCAAAGCGCCATTTGCGAGTTTTCACCTTGGTC
1 TTTTTTAATACTCAAAGCGCCCTTTGCGAGTTTTCACCTTGGTC
23380452 CCTTCTCTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
43 1 0.01
44 36 0.49
46 36 0.49
48 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (44 bp):
TTTTTTAATACTCAAAGCGCCCTTTGCGAGTTTTCACCTTGGTC
Found at i:23380428 original size:44 final size:45
Alignment explanation
Indices: 23380318--23380447 Score: 149
Period size: 46 Copynumber: 2.9 Consensus size: 45
23380308 TTTTATATTA
* *
23380318 TTTTTT-ATGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCTT
1 TTTTTTAAT-ACTCAAAGCGCCCTTTGCGAGTTTTCACCTTAGTC-T
* * * *
23380364 TTTTTTAGA-ACTTAATGCGCCCCTTGCGTGTTTTCACCTTAGTC-
1 TTTTTTA-ATACTCAAAGCGCCCTTTGCGAGTTTTCACCTTAGTCT
*
23380408 TTTTTTAATACTCAAAGCGCCATTTGCGAGTTTTCACCTT
1 TTTTTTAATACTCAAAGCGCCCTTTGCGAGTTTTCACCTT
23380448 GGTCCCTTCT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 33 0.46
46 36 0.51
48 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.43
Consensus pattern (45 bp):
TTTTTTAATACTCAAAGCGCCCTTTGCGAGTTTTCACCTTAGTCT
Found at i:23384949 original size:17 final size:17
Alignment explanation
Indices: 23384924--23384956 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23384914 AAATGTACAC
23384924 TAATGAATACAAACAAT
1 TAATGAATACAAACAAT
*
23384941 TAATTAATACAAACAA
1 TAATGAATACAAACAA
23384957 GCATAGCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (17 bp):
TAATGAATACAAACAAT
Found at i:23386849 original size:18 final size:16
Alignment explanation
Indices: 23386826--23386865 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 16
23386816 ACATTTAGAC
23386826 TTTTATTTTATTTATTGG
1 TTTTA-TTTATTT-TTGG
23386844 TTTTATTTATTTTTGG
1 TTTTATTTATTTTTGG
23386860 TGTTTA
1 T-TTTA
23386866 CTGGGTCGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 11 0.52
18 5 0.24
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.72
Consensus pattern (16 bp):
TTTTATTTATTTTTGG
Found at i:23388398 original size:41 final size:41
Alignment explanation
Indices: 23388351--23388436 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
23388341 CATTGTGGTT
* * *
23388351 AATTGCCTATAGTTGTTGACTTTCAAGATTGATGGGGACTA
1 AATTGCCTATAGTTGCTGACTTTCAAAATTGATGGGAACTA
23388392 AATTGCCTATAGTTGCTGACTTTCAAAATTGATGGGAACTA
1 AATTGCCTATAGTTGCTGACTTTCAAAATTGATGGGAACTA
23388433 AATT
1 AATT
23388437 ATTCTAGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (41 bp):
AATTGCCTATAGTTGCTGACTTTCAAAATTGATGGGAACTA
Found at i:23401058 original size:342 final size:344
Alignment explanation
Indices: 23400373--23401061 Score: 1157
Period size: 342 Copynumber: 2.0 Consensus size: 344
23400363 TGAAACGGGG
*
23400373 AGAAAAGAAAGGGCGATATATTATCTCAGCAAGAAATTCATTGACTGTGAAATGAGATATTCGCC
1 AGAAAAGAAAGGGCGATATATTATCTCAGCAAGAAATTCACTGACTGTGAAATGAGATATTCGCC
* * * * *
23400438 GATTGAGAAGTTATGTTGTGCCTTGGTTTGGGCAACCCGAAGATTAAGGCAGTACATGTTATACC
66 GATTGAGAAATTATGATGTGCCTTGATTTGGACAACCCGAAGATTAAGACAGTACATGTTATACC
*
23400503 ACACGACCTGGCTAATCTCAAAGTTAGACCCGTTAAAGTATATGATGGAGTCAACTGCTTTGAAT
131 ACACGACCTGGCTAATCTCAAAGTTAGACCCGTTAAAGTATATGATGGAATCAACTGCTTTGAAT
** *
23400568 GGGAGGATGGCCCGATGGCAGATCTTACTGTCTGAATTCGATATTGTCTATGTGAGCCAAAAGGT
196 GGGAAAATGGCCCGATGGCAGATCTTACTGTCTGAATTCGATATTGTCTATGTGAGCCAAAAGGC
*
23400633 TGTGAAAGGGAGTGCAATTGCTAACTTTCTAGCTAGTAGAGATTTGGAGGACTACGAGCCATTGA
261 TGTGAAAGGGAGTGCAATTGCTAACTTTCTAGCTAGTAGAGATCTGGAGGACTACGAGCCATTGA
*
23400698 GTTTTGATTTCTCAAATGA
326 GTTTTGATTTCCCAAATGA
23400717 AGAAAA-AAAGGGCGATATATTATCTCAGCAAGAAATTCACTGACTGTGAAATGAGATATTCGCC
1 AGAAAAGAAAGGGCGATATATTATCTCAGCAAGAAATTCACTGACTGTGAAATGAGATATTCGCC
* *
23400781 TATTGAGAAATTATGATGTGCCTTGATTTGGACAACCCGAAGATTAAGATAGTACATGTTATACC
66 GATTGAGAAATTATGATGTGCCTTGATTTGGACAACCCGAAGATTAAGACAGTACATGTTATACC
* *
23400846 ATACGACTTGGCTAATCTCAAAGTTAGACCCGTTAAAGTATAT-ATGGAATCAACTGCTTTGAAT
131 ACACGACCTGGCTAATCTCAAAGTTAGACCCGTTAAAGTATATGATGGAATCAACTGCTTTGAAT
* *
23400910 GGGAAAATGGCCCGATGGCTGATCTTACTGTCTGAATTTGATATTGTCTATGTGAGCCAAAAGGC
196 GGGAAAATGGCCCGATGGCAGATCTTACTGTCTGAATTCGATATTGTCTATGTGAGCCAAAAGGC
* * * * *
23400975 TGTGAAAGGGAGTGCAATTGGTGACTTTCTAGCTAGTAGAGCTCTGGAGGACTGCGAGCCGTTGA
261 TGTGAAAGGGAGTGCAATTGCTAACTTTCTAGCTAGTAGAGATCTGGAGGACTACGAGCCATTGA
23401040 GTTTTGATTTCCCAAATGA
326 GTTTTGATTTCCCAAATGA
23401059 AGA
1 AGA
23401062 CCTGATGTGT
Statistics
Matches: 322, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
342 160 0.50
343 156 0.48
344 6 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (344 bp):
AGAAAAGAAAGGGCGATATATTATCTCAGCAAGAAATTCACTGACTGTGAAATGAGATATTCGCC
GATTGAGAAATTATGATGTGCCTTGATTTGGACAACCCGAAGATTAAGACAGTACATGTTATACC
ACACGACCTGGCTAATCTCAAAGTTAGACCCGTTAAAGTATATGATGGAATCAACTGCTTTGAAT
GGGAAAATGGCCCGATGGCAGATCTTACTGTCTGAATTCGATATTGTCTATGTGAGCCAAAAGGC
TGTGAAAGGGAGTGCAATTGCTAACTTTCTAGCTAGTAGAGATCTGGAGGACTACGAGCCATTGA
GTTTTGATTTCCCAAATGA
Found at i:23401489 original size:304 final size:304
Alignment explanation
Indices: 23400940--23401496 Score: 1071
Period size: 304 Copynumber: 1.8 Consensus size: 304
23400930 GATCTTACTG
23400940 TCTGAATTTGATATTGTCTATGTGAGCCAAAAGGCTGTGAAAGGGAGTGCAATTGGTGACTTTCT
1 TCTGAATTTGATATTGTCTATGTGAGCCAAAAGGCTGTGAAAGGGAGTGCAATTGGTGACTTTCT
23401005 AGCTAGTAGAGCTCTGGAGGACTGCGAGCCGTTGAGTTTTGATTTCCCAAATGAAGACCTGATGT
66 AGCTAGTAGAGCTCTGGAGGACTGCGAGCCGTTGAGTTTTGATTTCCCAAATGAAGACCTGATGT
23401070 GTATAGCGGCTACTGAAGAAAATCCACAAGAAAGTCACGGTTGGAGGTTAAACTTTGATGGAGCC
131 GTATAGCGGCTACTGAAGAAAATCCACAAGAAAGTCACGGTTGGAGGTTAAACTTTGATGGAGCC
23401135 TCGAATGCTGTGGGCAATGGAATTGGGGCAGTCCTAGTGTCCCCGAATGGTGATCATTGTCCTTT
196 TCGAATGCTGTGGGCAATGGAATTGGGGCAGTCCTAGTGTCCCCGAATGGTGATCATTGTCCTTT
23401200 CACTTGCAAATTGGATTTTGATTGTACAAACAACATGGCAGAAT
261 CACTTGCAAATTGGATTTTGATTGTACAAACAACATGGCAGAAT
23401244 TCTGAATTTGATATTGTCTATGTGAGCCAAAAGGCTGTGAAAGGGAGTGCAATTGGTGACTTTCT
1 TCTGAATTTGATATTGTCTATGTGAGCCAAAAGGCTGTGAAAGGGAGTGCAATTGGTGACTTTCT
23401309 AGCTAGTAGAGCTCTGGAGGACTGCGAGCCGTTGAGTTTTGATTTCCCAAATGAAGACCTGATGT
66 AGCTAGTAGAGCTCTGGAGGACTGCGAGCCGTTGAGTTTTGATTTCCCAAATGAAGACCTGATGT
*
23401374 GTATAGCGGCTACTGAAGAAAATCCCCAA-AAAGGTCACGGTTGGAGGTTAAACTTTGATGGAGC
131 GTATAGCGGCTACTGAAGAAAATCCACAAGAAA-GTCACGGTTGGAGGTTAAACTTTGATGGAGC
* *
23401438 CTCGAATGCTGTGGGTAATGGAATTGGGGCAGTCCTAGTGTCCCTGAATGGTGATCATT
195 CTCGAATGCTGTGGGCAATGGAATTGGGGCAGTCCTAGTGTCCCCGAATGGTGATCATT
23401497 ATCNTACAAA
Statistics
Matches: 249, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
303 3 0.01
304 246 0.99
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (304 bp):
TCTGAATTTGATATTGTCTATGTGAGCCAAAAGGCTGTGAAAGGGAGTGCAATTGGTGACTTTCT
AGCTAGTAGAGCTCTGGAGGACTGCGAGCCGTTGAGTTTTGATTTCCCAAATGAAGACCTGATGT
GTATAGCGGCTACTGAAGAAAATCCACAAGAAAGTCACGGTTGGAGGTTAAACTTTGATGGAGCC
TCGAATGCTGTGGGCAATGGAATTGGGGCAGTCCTAGTGTCCCCGAATGGTGATCATTGTCCTTT
CACTTGCAAATTGGATTTTGATTGTACAAACAACATGGCAGAAT
Found at i:23407277 original size:89 final size:89
Alignment explanation
Indices: 23407126--23408028 Score: 1045
Period size: 89 Copynumber: 10.0 Consensus size: 89
23407116 GAGTAGGTTG
* * * * *
23407126 AAAGATAACAGATCTTGCCTTCCTATACTAGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTCT
23407191 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
23407215 AAAGATACCAGATCTTGTCTTCCCATACTGGTGTTGAAGCAGATCGAAGAAAACAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTCT
23407280 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
23407304 AAAGATACCAGATCTTGTCTTCCCATACTGGTGTTGAAGCAGATCGAAGAAAACAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTCT
23407369 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
23407393 AAAGATACCAGATCTTGTCTTCCCATACTGGTGTTGAAGCAGATCGAAGAAAACAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTCT
*
23407458 TCATGTACTAGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * * *
23407482 AAAGATAACAGATCTTG-CTTTCCCATACCGGTGGTGAAGCAGATCGAAAAAAAAAGATCTTCTC
1 AAAGATAACAGATCTTGTC-TTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTC
23407546 TTCATGTACTGGCGTGAAGTAGATC
65 TTCATGTACTGGCGTGAAGTAGATC
* * * * ** **
23407571 AAAGATAACAGATCTTGCCTTCTCATACTGGCGGTGAAGCAGATTGAATCG-AAGTAGATCGAAG
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAA--GAAAACAGATC-TTG
* * * * * * * * * *
23407635 AAAACAAATCTTGT-CT-TCATGTACTGGCGTG
63 ---TC--TTCATGTACTGGCGTGAAGTAG-ATC
* * * *
23407666 AAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACCGGTGGCGAAGTAGATCGAAGAAAATAG
1 AA--AGAT---A-A---CAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAG
23407731 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
57 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* *
23407764 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTCT
* *
23407829 TCGTGTACTGGCGTGGAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * *
23407853 AAAGATAATAGATCTTGTCTTCCCATACTGGTGGTGAAACAGATCGAA-AAAACAGATATTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTCT
*
23407917 TCAT-T--TTGCGTGTAA-TAGATC
66 TCATGTACTGGCGTG-AAGTAGATC
* * * * * *
23407938 AAAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAA-TAGATC-AAAAAGAACATACCTTGT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGT-GAAGCAGATCGAAGAA-AACAGATCTTGT
* *
23408001 CTTCATGTATTGGAGTGAAGTAGATC
64 CTTCATGTACTGGCGTGAAGTAGATC
23408027 AA
1 AA
23408029 GCACAGCAGA
Statistics
Matches: 703, Mismatches: 80, Indels: 62
0.83 0.09 0.07
Matches are distributed among these distances:
84 2 0.00
85 51 0.07
86 19 0.03
87 2 0.00
88 20 0.03
89 512 0.73
90 8 0.01
92 1 0.00
93 1 0.00
94 7 0.01
95 5 0.01
96 9 0.01
97 9 0.01
98 5 0.01
99 7 0.01
100 1 0.00
101 1 0.00
102 2 0.00
103 8 0.01
104 33 0.05
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (89 bp):
AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTCT
TCATGTACTGGCGTGAAGTAGATC
Found at i:23407425 original size:178 final size:178
Alignment explanation
Indices: 23407126--23408028 Score: 1210
Period size: 178 Copynumber: 5.0 Consensus size: 178
23407116 GAGTAGGTTG
* * * * *
23407126 AAAGATAACAGATCTTGCCTTCCTATACTAGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTCT
*
23407191 TCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGTTGAAGCA
66 TCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGTTGAAGCA
23407256 GATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
131 GATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* *
23407304 AAAGATACCAGATCTTGTCTTCCCATACTGGTGTTGAAGCAGATCGAAGAAAACAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTCT
*
23407369 TCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGTTGAAGCA
66 TCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGTTGAAGCA
*
23407434 GATCGAAGAAAACAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATC
131 GATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* * * *
23407482 AAAGATAACAGATCTTG-CTTTCCCATACCGGTGGTGAAGCAGATCGAAAAAAAAAGATCTTCTC
1 AAAGATAACAGATCTTGTC-TTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTC
* *
23407546 TTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCTCATACTGGCGGTGAAGC
65 TTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACT---GGT-----
* *
23407611 AGATTGAATCGAAGTAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
122 -G--T---T-GAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* * * * *
23407675 AAAGATACCAGATCTTGTCTTCCCATACCGGTGGCGAAGTAGATCGAAGAAAATAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTCT
* *
23407740 TCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCA
66 TCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGTTGAAGCA
* * *
23407805 GATCGAAGAAAGCAGATCTTGTCTTCGTGTACTGGCGTGGAGTAGATC
131 GATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* * *
23407853 AAAGATAATAGATCTTGTCTTCCCATACTGGTGGTGAAACAGATCGAA-AAAACAGATATTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTCT
* * * *
23407917 TCAT-T--TTGCGTGTAA-TAGATCAAAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAA-
66 TCATGTACTGGCGTG-AAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGT-GTTGAAG
* * * * * *
23407977 TAGATC-AAAAAGAACATACCTTGTCTTCATGTATTGGAGTGAAGTAGATC
129 CAGATCGAAGAA-AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
23408027 AA
1 AA
23408029 GCACAGCAGA
Statistics
Matches: 649, Mismatches: 56, Indels: 44
0.87 0.07 0.06
Matches are distributed among these distances:
173 4 0.01
174 79 0.12
175 6 0.01
176 1 0.00
177 19 0.03
178 368 0.57
179 1 0.00
181 3 0.00
184 1 0.00
187 1 0.00
189 1 0.00
190 3 0.00
192 1 0.00
193 160 0.25
194 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (178 bp):
AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAGATCTTGTCT
TCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGTTGAAGCA
GATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
Found at i:23407660 original size:60 final size:59
Alignment explanation
Indices: 23407561--23407673 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 59
23407551 GTACTGGCGT
* *
23407561 GAAGTAGATCAAAGATAACAGATCTTGCCTTCTCATACTGGCGGTGAAGCAGATTGAATC
1 GAAGTAGATCAAAGAAAACAAATCTTGCCTTCTCATACTGGC-GTGAAGCAGATTGAATC
* * * *
23407621 GAAGTAGATCGAAGAAAACAAATCTTGTCTTCAT-GTACTGGCGTGAAGTAGAT
1 GAAGTAGATCAAAGAAAACAAATCTTGCCTTC-TCATACTGGCGTGAAGCAGAT
23407674 CAAAGATACC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 10 0.22
60 35 0.76
61 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (59 bp):
GAAGTAGATCAAAGAAAACAAATCTTGCCTTCTCATACTGGCGTGAAGCAGATTGAATC
Found at i:23407671 original size:44 final size:44
Alignment explanation
Indices: 23407621--23408028 Score: 308
Period size: 44 Copynumber: 9.3 Consensus size: 44
23407611 AGATTGAATC
* * *
23407621 GAAGTAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGGCGT
* * ** * * *
23407665 GAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACCGGTGGC
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGG-CGT
* * *
23407710 GAAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGGCGT
* * ** *
23407754 GAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTGGTGGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGG-CGT
* * * * *
23407799 GAAGCAGATCGAAGAAAGCAGATCTTGTCTTCGTGTACTGGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGGCGT
* * * ** *
23407843 GGAGTAGATCAAAGATAATAGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGG-CGT
** * * *
23407888 GAAACAGATCGAA-AAAACAGATATTGTCTTCAT-T--TTGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGGCGT
* * ** *
23407928 GTAA-TAGATCAAAGACAACAGATCTTGTCTCCCCATACTGGTGGT
1 G-AAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGG-CGT
* * * * *
23407973 GGAA-TAGATCAAA-AAGAACATACCTTGTCTTCATGTATTGGAGT
1 -GAAGTAGATCAAAGAA-AACAGATCTTGTCTTCATATACTGGCGT
23408017 GAAGTAGATCAA
1 GAAGTAGATCAA
23408029 GCACAGCAGA
Statistics
Matches: 276, Mismatches: 76, Indels: 24
0.73 0.20 0.06
Matches are distributed among these distances:
40 10 0.04
41 19 0.07
42 1 0.00
43 4 0.01
44 130 0.47
45 111 0.40
46 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (44 bp):
GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGGCGT
Found at i:23407851 original size:282 final size:282
Alignment explanation
Indices: 23407339--23407896 Score: 927
Period size: 282 Copynumber: 2.0 Consensus size: 282
23407329 TACTGGTGTT
*
23407339 GAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAG
1 GAAGCAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAG
* **
23407404 ATCTTGTCTTCCCATACTGGTGTTGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACTAG
66 ATCTTGTCTTCCCATACCGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACTAG
*
23407469 CGTGAAGTAGATCAAAGATAACAGATCTTGCTTTCCCATACCGGTGGTGAAGCAGATCGAAAAAA
131 CGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACCGGTGGTGAAGCAGATCGAAAAAA
*
23407534 AAAGATCTTCTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCTCATAC
196 AAAGATCTTCTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATAC
*
23407599 TGGCGGTGAAGCAGATTGAATC
261 TGGCGGTGAAACAGATTGAATC
*
23407621 GAAGTAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAG
1 GAAGCAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAG
* * *
23407686 ATCTTGTCTTCCCATACCGGTGGCGAAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTACTGG
66 ATCTTGTCTTCCCATACCGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACTAG
* *
23407751 CGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAA
131 CGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACCGGTGGTGAAGCAGATCGAAAAAA
** * * * * *
23407816 GCAGATCTTGTCTTCGTGTACTGGCGTGGAGTAGATCAAAGATAATAGATCTTGTCTTCCCATAC
196 AAAGATCTTCTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATAC
*
23407881 TGGTGGTGAAACAGAT
261 TGGCGGTGAAACAGAT
23407897 CGAAAAAACA
Statistics
Matches: 255, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
282 255 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (282 bp):
GAAGCAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAG
ATCTTGTCTTCCCATACCGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACTAG
CGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACCGGTGGTGAAGCAGATCGAAAAAA
AAAGATCTTCTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATAC
TGGCGGTGAAACAGATTGAATC
Found at i:23412576 original size:21 final size:21
Alignment explanation
Indices: 23412546--23412585 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23412536 AATAAATACC
*
23412546 AAAAATTTATTTTAAAAATTA
1 AAAAAATTATTTTAAAAATTA
23412567 AAAAAATTATTTTAAAAAT
1 AAAAAATTATTTTAAAAAT
23412586 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAAATTATTTTAAAAATTA
Found at i:23412585 original size:12 final size:12
Alignment explanation
Indices: 23412546--23412594 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
23412536 AATAAATACC
23412546 AAAAATTTATTTT
1 AAAAA-TTATTTT
*
23412559 AAAAATTA---A
1 AAAAATTATTTT
23412568 AAAAATTATTTT
1 AAAAATTATTTT
23412580 AAAAA-TATTTT
1 AAAAATTATTTT
23412591 AAAA
1 AAAA
23412595 TTAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 8 0.26
11 10 0.32
12 8 0.26
13 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:23412588 original size:11 final size:11
Alignment explanation
Indices: 23412568--23412679 Score: 58
Period size: 11 Copynumber: 10.4 Consensus size: 11
23412558 TAAAAATTAA
23412568 AAAAATTATTTT
1 AAAAA-TATTTT
23412580 AAAAATATTTT
1 AAAAATATTTT
23412591 --AAA-A--TT
1 AAAAATATTTT
**
23412597 AAAAA-AAATT
1 AAAAATATTTT
23412607 AAAAAGTATTTT
1 AAAAA-TATTTT
23412619 -AAAATATTTT
1 AAAAATATTTT
** **
23412629 AAATTTAAAATT
1 AAAAAT-ATTTT
*
23412641 AAAAAAATTTT
1 AAAAATATTTT
23412652 AAAAAAGTATTTT
1 -AAAAA-TATTTT
*
23412665 AAAAGTATTTT
1 AAAAATATTTT
23412676 AAAA
1 AAAA
23412680 TTAAAAAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
6 2 0.03
8 5 0.06
9 3 0.04
10 13 0.17
11 26 0.34
12 23 0.30
13 5 0.06
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:23412600 original size:38 final size:37
Alignment explanation
Indices: 23412557--23412668 Score: 124
Period size: 38 Copynumber: 3.0 Consensus size: 37
23412547 AAAATTTATT
23412557 TTAAAAATTAAAAAAATTATTTTAAAAATATTTTAAAA
1 TTAAAAATTAAAAAAA-TATTTTAAAAATATTTTAAAA
*
23412595 TTAAAAAAAATT-AAAAAGTATTTT-AAAATATTTT-AAA
1 TT---AAAAATTAAAAAAATATTTTAAAAATATTTTAAAA
* *
23412632 TTTAAAATTAAAAAAAT-TTTAAAAAAGTATTTTAAAA
1 TTAAAAATTAAAAAAATATTTTAAAAA-TATTTTAAAA
23412669 GTATTTTAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
34 9 0.14
35 10 0.16
36 6 0.10
37 8 0.13
38 12 0.19
39 6 0.10
40 5 0.08
41 7 0.11
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (37 bp):
TTAAAAATTAAAAAAATATTTTAAAAATATTTTAAAA
Found at i:23413508 original size:34 final size:35
Alignment explanation
Indices: 23413460--23413536 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 35
23413450 TTCTTTTTAC
* *
23413460 CTTGAACC-CGAAACCCCAAACCTTGAACCTTAAA
1 CTTGAACCTCGAAACCCCAAACCTTAAACCCTAAA
* *
23413494 TTTGAACCTC-AAACCCTAAACCTTAAACCCTAAA
1 CTTGAACCTCGAAACCCCAAACCTTAAACCCTAAA
*
23413528 CTCGAACCT
1 CTTGAACCT
23413537 TGAACCTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
34 35 0.97
35 1 0.03
ACGTcount: A:0.38, C:0.35, G:0.06, T:0.21
Consensus pattern (35 bp):
CTTGAACCTCGAAACCCCAAACCTTAAACCCTAAA
Found at i:23413521 original size:14 final size:14
Alignment explanation
Indices: 23413498--23413528 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23413488 CTTAAATTTG
23413498 AACCTCAAACCCTA
1 AACCTCAAACCCTA
*
23413512 AACCTTAAACCCTA
1 AACCTCAAACCCTA
23413526 AAC
1 AAC
23413529 TCGAACCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (14 bp):
AACCTCAAACCCTA
Found at i:23416625 original size:13 final size:13
Alignment explanation
Indices: 23416607--23416646 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
23416597 GCCTTAATAT
23416607 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
23416620 TGCTTTTGATAAG
1 TGCTTTTGAAAAG
* *
23416633 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
23416646 T
1 T
23416647 TTTGTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:23425387 original size:13 final size:13
Alignment explanation
Indices: 23425343--23425376 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
23425333 TTTCAACTAG
*
23425343 AGAATTTGATTAA
1 AGAATTTTATTAA
23425356 AGAATTTTATTAA
1 AGAATTTTATTAA
23425369 AGAATTTT
1 AGAATTTT
23425377 CTTGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (13 bp):
AGAATTTTATTAA
Found at i:23425942 original size:6 final size:6
Alignment explanation
Indices: 23425927--23425973 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
23425917 TAAAGTGATT
* *
23425927 ATATTA ATATTG ATATTG ATATTA ATATTA ATATTA ATATTA ATATT
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATT
23425974 TTTTATAGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:23426059 original size:58 final size:61
Alignment explanation
Indices: 23425919--23426062 Score: 154
Period size: 58 Copynumber: 2.3 Consensus size: 61
23425909 TATATTATTA
* * *
23425919 AAGTGATTATATTAATATTGATATTGATATTAATATTAATATTAATATTAATATTTTTTATAGAT
1 AAGT-ATTATATTAAT-TT-A-ATAGATATTAATATTAATATTAATACTAATATTTTCTATAGAT
* *
23425984 AAATATTCTATTAATTTAATAGAT-TTAATATTAA-ATTTAAT-CTAATATTTATCT-T-GAT
1 AAGTATTATATTAATTTAATAGATATTAATATTAATA-TTAATACTAATATTT-TCTATAGAT
23426042 AAGTATTATATTAATTTAATA
1 AAGTATTATATTAATTTAATA
23426063 TTAAAGTGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
58 22 0.31
59 10 0.14
60 17 0.24
61 5 0.07
62 1 0.01
63 2 0.03
64 10 0.14
65 3 0.04
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (61 bp):
AAGTATTATATTAATTTAATAGATATTAATATTAATATTAATACTAATATTTTCTATAGAT
Found at i:23429543 original size:20 final size:20
Alignment explanation
Indices: 23429518--23429560 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
23429508 GTTACCAAAA
23429518 AAATTTAAATACTAAAATAG
1 AAATTTAAATACTAAAATAG
23429538 AAATTTAAATACTAAAATAG
1 AAATTTAAATACTAAAATAG
23429558 AAA
1 AAA
23429561 AAAAAACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
AAATTTAAATACTAAAATAG
Found at i:23430137 original size:17 final size:17
Alignment explanation
Indices: 23430100--23430138 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
23430090 AAAAATATTC
23430100 TTTTATGATTTTTAATAA
1 TTTTATGATTTTT-ATAA
23430118 TTTTAATGATTTTT-TAA
1 TTTT-ATGATTTTTATAA
23430135 TTTT
1 TTTT
23430139 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
19 9 0.45
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTATGATTTTTATAA
Found at i:23432604 original size:28 final size:26
Alignment explanation
Indices: 23432550--23432628 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 26
23432540 AGGTCCAACC
*
23432550 ATATTTTAATTTT-TTTAAATATTTATATT
1 ATATTTT--TTTTATTTAAA-AATTATA-T
23432579 ATATTATTTTTTATTTAAAAATTATAT
1 ATATT-TTTTTTATTTAAAAATTATAT
*
23432606 ATATTTTTCATTTATTAAAAAAT
1 ATATTTTT--TTTATTTAAAAAT
23432629 ATAAACAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
26 3 0.07
27 6 0.14
28 22 0.50
29 11 0.25
30 2 0.05
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (26 bp):
ATATTTTTTTTATTTAAAAATTATAT
Found at i:23438232 original size:22 final size:22
Alignment explanation
Indices: 23438186--23438232 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23438176 GGCTTCAATG
***
23438186 TTTACTTTGGTACTTGAGTTTT
1 TTTACTTTGGTACTTGAGGGAT
*
23438208 TTTAGTTTGGTACTTGAGGGAT
1 TTTACTTTGGTACTTGAGGGAT
23438230 TTT
1 TTT
23438233 TTTTTATCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.15, C:0.06, G:0.23, T:0.55
Consensus pattern (22 bp):
TTTACTTTGGTACTTGAGGGAT
Found at i:23441199 original size:94 final size:94
Alignment explanation
Indices: 23441061--23441699 Score: 690
Period size: 94 Copynumber: 6.8 Consensus size: 94
23441051 TCACAGTTTC
* ** * * * * *
23441061 ATCTTGCTCCATTGCAACTTTAAAGAGATAAGATTTGTTGTTGTAGTTTCATTCCAACCCATTGC
1 ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATTGTAGTTTCAATCCAACCCACTGC
* * *
23441126 ATCTTTAGGGGTATAGGATTTGTAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * **
23441155 ATCTTGCTCCACTGCAATTTTAGGGAGATAAGATTTGCTATTGTAGTTTCAATTCAACCCACTAT
1 ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATTGTAGTTTCAATCCAACCCACTGC
* * *
23441220 ACCTTCAAGGGTATAAGATTTGTAGCTTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * ** * *
23441249 ATCTTACTCCACTGCAACTTCATGGAGATAAGATTCG-TCATTGTAGTTTCAATCTTATCCACTA
1 ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCT-ATTGTAGTTTCAATCCAACCCACTG
*
23441313 CAACTTCAAGGGTATAGGATTTGTAG-TTT
65 CAACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * *
23441342 CATCTTGCTCCACTGTAACTTTTA-GGAGATAAGATTCACCATTGTAGTTTCAATCCGACCCATT
1 -ATCTTGCTCCACTGCAAC-TTTAGGGAGATAAGATTCGCTATTGTAGTTTCAATCCAACCCACT
* *
23441406 GAAACTTCAGGGGTATAGGACTTGTAGCTTT
64 GCAACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * ** *** *
23441437 AACTTTCTCCATTGCAACTTTAAGGAGATAAGATTCGCTACCGTAGTTTCAATTTGACCCACTAC
1 ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATTGTAGTTTCAATCCAACCCACTGC
* *
23441502 AACTTCAAGGGTGTAGGATTTGTAGCTTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * *
23441531 ATTTTGCTCTACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCAGTCCAACCCACTGC
1 ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATTGTAGTTTCAATCCAACCCACTGC
* *
23441596 AACTTTAGGGGTATAGGACTTGTAGCTTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * ** *
23441625 ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTTATTATAGTTTCAATCTGACCCATTGC
1 ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATTGTAGTTTCAATCCAACCCACTGC
*
23441690 AACTTTAGGG
66 AACTTCAGGG
23441700 AGACAAGATT
Statistics
Matches: 452, Mismatches: 87, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
93 8 0.02
94 438 0.97
95 6 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (94 bp):
ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATTGTAGTTTCAATCCAACCCACTGC
AACTTCAGGGGTATAGGATTTGTAGCTTT
Found at i:23441560 original size:282 final size:282
Alignment explanation
Indices: 23441055--23441699 Score: 853
Period size: 282 Copynumber: 2.3 Consensus size: 282
23441045 TTAGTGTCAC
* * * * * *
23441055 AGTTTCATCTTGCTCCATTGCAACTTTAAAGAGATAAGATTTGTTGTTGTAGTTTCATTCCAACC
1 AGTTTCATCTTGCTCCACTGCAACTTTTAGGAGATAAGATTTGTTATTGTAGTTTCAATCCGACC
* * * * *
23441120 CATTGCATCTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAATTTTAGGGAGATA
66 CATTGCAACTTTAGGGGTATAGGACTTGTAGCTTCAACTTGCTCCACTGCAACTTTAAGGAGATA
* ** * *
23441185 AGATTTGCTATTGTAGTTTCAATTCAACCCACTATACCTTCAAGGGTATAAGATTTGTAGCTTTA
131 AGATTCGCTACCGTAGTTTCAATTCAACCCACTACAACTTCAAGGGTATAAGATTTGTAGCTTTA
* * ** *
23441250 TCTTACTCCACTGCAACTTCATGGAGATAAGATTCGTCATTGTAGTTTCAATCTTATCCACTACA
196 TCTTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCAATCCAACCCACTACA
*
23441315 ACTTCAAGGGTATAGGATTTGT
261 ACTTCAAGGGTATAGGACTTGT
* ****
23441337 AGTTTCATCTTGCTCCACTGTAACTTTTAGGAGATAAGATTCACCATTGTAGTTTCAATCCGACC
1 AGTTTCATCTTGCTCCACTGCAACTTTTAGGAGATAAGATTTGTTATTGTAGTTTCAATCCGACC
* * * * *
23441402 CATTGAAACTTCAGGGGTATAGGACTTGTAGCTTTAACTTTCTCCATTGCAACTTTAAGGAGATA
66 CATTGCAACTTTAGGGGTATAGGACTTGTAGCTTCAACTTGCTCCACTGCAACTTTAAGGAGATA
** * *
23441467 AGATTCGCTACCGTAGTTTCAATTTGACCCACTACAACTTCAAGGGTGTAGGATTTGTAGCTTTA
131 AGATTCGCTACCGTAGTTTCAATTCAACCCACTACAACTTCAAGGGTATAAGATTTGTAGCTTTA
* * * * *
23441532 TTTTGCTCTACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCAGTCCAACCCACTGCA
196 TCTTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCAATCCAACCCACTACA
* *
23441597 ACTTTAGGGGTATAGGACTTGT
261 ACTTCAAGGGTATAGGACTTGT
* *
23441619 AGCTTT-ATCTTGCTCCACTGCAAC-TTTAGGGAGATAAGATTTGTTATTATAGTTTCAATCTGA
1 AG-TTTCATCTTGCTCCACTGCAACTTTTA-GGAGATAAGATTTGTTATTGTAGTTTCAATCCGA
23441682 CCCATTGCAACTTTAGGG
64 CCCATTGCAACTTTAGGG
23441700 AGACAAGATT
Statistics
Matches: 309, Mismatches: 52, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
281 4 0.01
282 302 0.98
283 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (282 bp):
AGTTTCATCTTGCTCCACTGCAACTTTTAGGAGATAAGATTTGTTATTGTAGTTTCAATCCGACC
CATTGCAACTTTAGGGGTATAGGACTTGTAGCTTCAACTTGCTCCACTGCAACTTTAAGGAGATA
AGATTCGCTACCGTAGTTTCAATTCAACCCACTACAACTTCAAGGGTATAAGATTTGTAGCTTTA
TCTTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCAATCCAACCCACTACA
ACTTCAAGGGTATAGGACTTGT
Found at i:23441744 original size:144 final size:144
Alignment explanation
Indices: 23441543--23441803 Score: 362
Period size: 144 Copynumber: 1.8 Consensus size: 144
23441533 TTTGCTCTAC
* *
23441543 TGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCAGTCCAACCCACTGCAACTTTAGGGGT
1 TGCAACTTCAGGGAGACAAGATTCGCCATTGTAGTTTCAGTCCAACCCACTGCAACTTCAGGGGT
* * *
23441608 ATAGGACTTGTAGCTTTATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTTATTATAGTT
66 ATAGGACTTGTAGCTTTATCTTACTCCACTGCAACTTCAGGAAGATAAGATTTGTTATTATAGTT
23441673 TCAATCTGACCCAT
131 TCAATCTGACCCAT
* * * * * ** *
23441687 TGCAACTTTAGGGAGACAAGATTTGCCGTTGTAGTTTC-GATTCGACTTACTGTAACTTCAGGGG
1 TGCAACTTCAGGGAGACAAGATTCGCCATTGTAGTTTCAG-TCCAACCCACTGCAACTTCAGGGG
* * *
23441751 TATAGGACTTGTAGTTTTATCTTACTCCACTGTAACTTCATGAAGATAAGATT
65 TATAGGACTTGTAGCTTTATCTTACTCCACTGCAACTTCAGGAAGATAAGATT
23441804 CGCTATGGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
143 1 0.01
144 99 0.99
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (144 bp):
TGCAACTTCAGGGAGACAAGATTCGCCATTGTAGTTTCAGTCCAACCCACTGCAACTTCAGGGGT
ATAGGACTTGTAGCTTTATCTTACTCCACTGCAACTTCAGGAAGATAAGATTTGTTATTATAGTT
TCAATCTGACCCAT
Found at i:23441829 original size:144 final size:144
Alignment explanation
Indices: 23441541--23441844 Score: 353
Period size: 144 Copynumber: 2.1 Consensus size: 144
23441531 ATTTTGCTCT
* * *
23441541 ACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCAGTCCAACCCACTGCAACTTTAGGG
1 ACTGCAACTTTAGGGAGACAAGATTCGCCATTGTAGTTTCAGTCCAACCCACTGCAACTTCAGGG
* * * * * *
23441606 GTATAGGACTTGTAGCTTTATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTTATTATAG
66 GTATAGGACTTGTAGCTTTATCTTACTCCACTGCAACTTCAGGAAGATAAGATTCGCTATTATAC
**
23441671 TTTCAATCTGACCC
131 TTTCAATCCAACCC
* * * * * ** *
23441685 ATTGCAACTTTAGGGAGACAAGATTTGCCGTTGTAGTTTC-GATTCGACTTACTGTAACTTCAGG
1 ACTGCAACTTTAGGGAGACAAGATTCGCCATTGTAGTTTCAG-TCCAACCCACTGCAACTTCAGG
* * *
23441749 GGTATAGGACTTGTAGTTTTATCTTACTCCACTGTAACTTCATGAAGATAAGATTCGCTATGGTA
65 GGTATAGGACTTGTAGCTTTATCTTACTCCACTGCAACTTCAGGAAGATAAGATTCGCTAT--TA
23441814 -ACTTT-AATCCAACCC
128 TACTTTCAATCCAACCC
*
23441829 ACTGTAACTTTAGGGA
1 ACTGCAACTTTAGGGA
23441845 CAAATGATTT
Statistics
Matches: 133, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
143 1 0.01
144 126 0.95
145 4 0.03
146 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (144 bp):
ACTGCAACTTTAGGGAGACAAGATTCGCCATTGTAGTTTCAGTCCAACCCACTGCAACTTCAGGG
GTATAGGACTTGTAGCTTTATCTTACTCCACTGCAACTTCAGGAAGATAAGATTCGCTATTATAC
TTTCAATCCAACCC
Found at i:23445043 original size:21 final size:21
Alignment explanation
Indices: 23445017--23445061 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
23445007 ATCATGGCTC
* *
23445017 TTTGATATGTGGCTCCCGTAT
1 TTTGATATATGGCTCCCGCAT
*
23445038 TTTGATATATGGCTCTCGCAT
1 TTTGATATATGGCTCCCGCAT
23445059 TTT
1 TTT
23445062 TCAGTCTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.47
Consensus pattern (21 bp):
TTTGATATATGGCTCCCGCAT
Found at i:23449637 original size:37 final size:37
Alignment explanation
Indices: 23449576--23449721 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
23449566 TACGTATGAT
* *
23449576 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
23449611 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
23449648 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
23449685 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
23449722 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:23449738 original size:46 final size:46
Alignment explanation
Indices: 23449685--23449953 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
23449675 TAAGTGTAGC
* **
23449685 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
23449731 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
23449777 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
23449829 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
23449875 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
23449927 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
23449954 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:23449804 original size:52 final size:52
Alignment explanation
Indices: 23449728--23449947 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
23449718 TAGCTAAAGC
* *
23449728 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
23449781 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
23449833 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
23449879 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
23449931 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
23449948 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:23449850 original size:98 final size:98
Alignment explanation
Indices: 23449685--23449953 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
23449675 TAAGTGTAGC
* * *
23449685 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
23449750 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
23449784 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
23449849 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
23449882 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
23449947 GATCAGA
66 GATCAGA
23449954 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:23453148 original size:28 final size:28
Alignment explanation
Indices: 23453082--23453151 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
23453072 ATATTAGTTG
23453082 AAAA-AAATATA-A-ATATATACATAAA
1 AAAATAAATATACATATATATACATAAA
*
23453107 AAAATAAATATACATATATATAGATTAAA
1 AAAATAAATATACATATATATACA-TAAA
23453136 AATAAT-AAT-TACATAT
1 AA-AATAAATATACATAT
23453152 GAGAATTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
25 4 0.10
26 7 0.18
27 1 0.03
28 15 0.38
29 9 0.23
30 3 0.08
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (28 bp):
AAAATAAATATACATATATATACATAAA
Found at i:23455112 original size:51 final size:51
Alignment explanation
Indices: 23455043--23455139 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
23455033 TTCAAGTCTT
* * * *
23455043 AACACTAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGTTCCGCTAC
1 AACACTAGAGAAACAAGATTCACTACCCTCAGCTTTAATCTGTTCCGCTAC
* * *
23455094 AACACTAGGGAAACAAGATTCACTACCTTTAGCTTTAATCTGTTCC
1 AACACTAGAGAAACAAGATTCACTACCCTCAGCTTTAATCTGTTCC
23455140 ACTATAATGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (51 bp):
AACACTAGAGAAACAAGATTCACTACCCTCAGCTTTAATCTGTTCCGCTAC
Found at i:23455168 original size:169 final size:169
Alignment explanation
Indices: 23454883--23455597 Score: 999
Period size: 169 Copynumber: 4.2 Consensus size: 169
23454873 TATCGTCAGG
* * * * *
23454883 GAGATGAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTACAACACCAGGGAAACCAA-ATTTG
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTACAACACTAGGGAAA-CAAGATTCG
* * * *
23454947 CTACCTTTAGCCTTAATCTGTTCCACTATAATGCCAAAGAAATAGGATTTGCTGCCCACAGTTTT
65 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
*
23455012 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACTAGA
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACCAGA
* *
23455052 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGTTCCGCTACAACACTAGGGAAACAAGATTCAC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTACAACACTAGGGAAACAAGATTCGC
*
23455117 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTTGCTGCCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* * *
23455182 ATCCGCTCCAC-TCAGCTTTTTCAAGTCTTAACGCCAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACCAGA
* * **
23455220 GAGATAAGA-TCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAATGCTAGGGAAACAAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTACAACACTAGGGAAACAAGATTCGC
* * *
23455284 TACCTTTAGCTTTAATCTGTTCCACTATAATACCAAAAAGATAGGATTCACTGCCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* * * *
23455349 ATCCGCTCAACTTCAACTTTTTTTCAA-TCTTAACACTA-A
131 ATCCGCTCCACTTCAGC--TATTTCAAGTCTTAACACCAGA
* * * *
23455388 TGAGTTAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACTGCAACGCTAGGGAAACAAGATTCG
1 -GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTACAACACTAGGGAAACAAGATTCG
* **
23455453 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAAGATTCGCTGCCCACAATTTT
65 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
* * * *
23455518 AATCCGCTCCACTTCAGCTATTTCAAGACTTAACGCCCGG
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACCAGA
* *
23455558 GAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCGCT
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCT
23455598 GTAACGTTAG
Statistics
Matches: 487, Mismatches: 51, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
167 120 0.25
168 46 0.09
169 187 0.38
170 134 0.28
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (169 bp):
GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTACAACACTAGGGAAACAAGATTCGC
TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACCAGA
Found at i:23455747 original size:44 final size:45
Alignment explanation
Indices: 23455673--23455848 Score: 243
Period size: 44 Copynumber: 4.0 Consensus size: 45
23455663 TAAAGTTCAC
* *
23455673 AATCTTCAACCTATTCCACTGCTAATCAGGGAGATAGGACTTACA
1 AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACA
*
23455718 AAT-TTCAACATATTCCACTGCTGACCAGGGAGATAGGACTTAC-
1 AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACA
* *
23455761 AATCTTCAACCTATTCCACTGCTGACCAGTCGAGATAGGACTCA-A
1 AATCTTCAACCTATTCCACTGCTGACCAG-GGAGATAGGACTTACA
* * *
23455806 AATCTTCAACCCATTTCACTGCTGACTAGGGAGATAGGA-TTAC
1 AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTAC
23455849 TGGCTTTAAT
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
43 5 0.04
44 70 0.60
45 41 0.35
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (45 bp):
AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACA
Found at i:23455829 original size:89 final size:87
Alignment explanation
Indices: 23455671--23455848 Score: 250
Period size: 89 Copynumber: 2.0 Consensus size: 87
23455661 AGTAAAGTTC
* * * *
23455671 ACAATCTTCAACCTATTCCACTGCTAATCAGGGAGATAGGACTTACAAATTTCAACATATTCCAC
1 ACAATCTTCAACCTATTCCACTGCTAACCAGCGAGATAGGACTCACAAATTTCAACACATTCCAC
23455736 TGCTGACCAGGGAGATAGGACTT
66 TGCTGACCAGGGAGATAGGA-TT
* * *
23455759 ACAATCTTCAACCTATTCCACTGCTGACCAGTCGAGATAGGACTCA-AAATCTTCAACCCATTTC
1 ACAATCTTCAACCTATTCCACTGCTAACCAG-CGAGATAGGACTCACAAAT-TTCAACACATTCC
*
23455823 ACTGCTGACTAGGGAGATAGGATT
64 ACTGCTGACCAGGGAGATAGGATT
23455847 AC
1 AC
23455849 TGGCTTTAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
88 37 0.46
89 43 0.54
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (87 bp):
ACAATCTTCAACCTATTCCACTGCTAACCAGCGAGATAGGACTCACAAATTTCAACACATTCCAC
TGCTGACCAGGGAGATAGGATT
Found at i:23458897 original size:24 final size:25
Alignment explanation
Indices: 23458848--23458900 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
23458838 ACGAAAATCC
* *
23458848 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATGAAAGAATAACTACTCA
23458873 AAAAGAATGAAA-AAT-ACTAGCTCA
1 AAAAGAATGAAAGAATAACTA-CTCA
23458897 AAAA
1 AAAA
23458901 TAAATGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 10 0.40
25 12 0.48
ACGTcount: A:0.62, C:0.08, G:0.11, T:0.19
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAACTACTCA
Found at i:23465469 original size:21 final size:21
Alignment explanation
Indices: 23465443--23465484 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
23465433 TTAAAATGTG
23465443 TATATAAATACATACATATAAAT
1 TATA-AAATACATA-ATATAAAT
*
23465466 TATAAAATAGATAATATAA
1 TATAAAATACATAATATAA
23465485 TCATGTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
TATAAAATACATAATATAAAT
Found at i:23466436 original size:31 final size:30
Alignment explanation
Indices: 23466391--23466453 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
23466381 TTTAAAATTT
23466391 AAAAATTATTT-AAAAACCATAAAATTTATAA
1 AAAAATTATTTAAAAAACC-TAAAA-TTATAA
*
23466422 AAAAATT-TTATAAAAAATCTAAAATTATAA
1 AAAAATTATT-TAAAAAACCTAAAATTATAA
23466452 AA
1 AA
23466454 TTTTTGTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 10 0.34
31 13 0.45
32 6 0.21
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAATTATTTAAAAAACCTAAAATTATAA
Found at i:23475429 original size:18 final size:17
Alignment explanation
Indices: 23475406--23475445 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
23475396 TTTTAAACTC
* *
23475406 TAAAAACATTTATAATTA
1 TAAAAAAATTAAT-ATTA
23475424 TAAAAAAATTAATATTA
1 TAAAAAAATTAATATTA
23475441 TAAAA
1 TAAAA
23475446 CTTAGATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAAAAATTAATATTA
Found at i:23476430 original size:14 final size:14
Alignment explanation
Indices: 23476361--23476431 Score: 53
Period size: 14 Copynumber: 5.4 Consensus size: 14
23476351 TTGATTAAAT
23476361 ATAAATAATTTATA
1 ATAAATAATTTATA
* *
23476375 ATTAATAATATATA
1 ATAAATAATTTATA
* *
23476389 CTATATAA-TT-TA
1 ATAAATAATTTATA
*
23476401 AT-TA-AATTTACT-
1 ATAAATAATTTA-TA
23476413 ATAAATAATTTATA
1 ATAAATAATTTATA
23476427 ATAAA
1 ATAAA
23476432 CACTATAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
10 2 0.05
11 4 0.09
12 5 0.12
13 4 0.09
14 28 0.65
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAAATAATTTATA
Found at i:23480316 original size:24 final size:25
Alignment explanation
Indices: 23480264--23480318 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
23480254 TTCCAACTCT
*
23480264 TATGAGCTTACCGATACTCAGCTCG
1 TATGAGCTTACCGATACTCAGCTCA
*
23480289 TATGAGCTTACCGTTTA-T-AGCTCA
1 TATGAGCTTACCG-ATACTCAGCTCA
23480313 TATGAG
1 TATGAG
23480319 TACATGTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 11 0.41
25 14 0.52
26 2 0.07
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (25 bp):
TATGAGCTTACCGATACTCAGCTCA
Found at i:23483042 original size:16 final size:15
Alignment explanation
Indices: 23483021--23483050 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23483011 ATATCAAGGT
23483021 TAATTAAGTGAATTAG
1 TAATTAAGT-AATTAG
23483037 TAATTAAGTAATTA
1 TAATTAAGTAATTA
23483051 AAATAAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
TAATTAAGTAATTAG
Found at i:23483927 original size:30 final size:30
Alignment explanation
Indices: 23483893--23484061 Score: 144
Period size: 30 Copynumber: 5.7 Consensus size: 30
23483883 GGTGACGATC
* *
23483893 ATCGAACTATGAAAAGGGATGGTTTTGGCT
1 ATCGAACTATGAAAAGGGATAGCTTTGGCT
23483923 ATCGAACTATGAAAAGGGATAGCTTTGGCT
1 ATCGAACTATGAAAAGGGATAGCTTTGGCT
* * * * * *
23483953 ATCAAATTATGAAAAGGGAT-GGTGATGACC
1 ATCGAACTATGAAAAGGGATAGCT-TTGGCT
* * *
23483983 GTCAAACAATGAAAAGGGATAG-TTTGGCT
1 ATCGAACTATGAAAAGGGATAGCTTTGGCT
* ** * * *
23484012 GTCGAACTACAAAAAGGGATAACTTCGGTT
1 ATCGAACTATGAAAAGGGATAGCTTTGGCT
* *
23484042 ATCGAATTACGAAAAGGGAT
1 ATCGAACTATGAAAAGGGAT
23484062 GGGTCAATCA
Statistics
Matches: 112, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
29 22 0.20
30 89 0.79
31 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.25
Consensus pattern (30 bp):
ATCGAACTATGAAAAGGGATAGCTTTGGCT
Found at i:23484009 original size:89 final size:89
Alignment explanation
Indices: 23483843--23484063 Score: 273
Period size: 89 Copynumber: 2.5 Consensus size: 89
23483833 ATTGACAAAT
* * * * * *
23483843 CGAAAAGGGATAGCTTCGACTATCGATTATGAAAAAGGATGGTGACGATCATCGAACTATGAAAA
1 CGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACGACCATCAAACAATGAAAA
*
23483908 GGGATGGTTTTGGCTATCGAACTA
66 GGGATAGTTTTGGCTATCGAACTA
* * * *
23483932 TGAAAAGGGATAGCTTTGGCTATCAAATTATGAAAAGGGATGGTGATGACCGTCAAACAATGAAA
1 CGAAAAGGGATAGCTTCGGCTATC-AATTATGAAAAGGGATGGTGACGACCATCAAACAATGAAA
*
23483997 AGGGATAG-TTTGGCTGTCGAACTA
65 AGGGATAGTTTTGGCTATCGAACTA
* * * *
23484021 CAAAAAGGGATAACTTCGGTTATCGAATTACGAAAAGGGATGG
1 CGAAAAGGGATAGCTTCGGCTATC-AATTATGAAAAGGGATGG
23484064 GTCAATCATC
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
89 72 0.64
90 40 0.36
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (89 bp):
CGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACGACCATCAAACAATGAAAA
GGGATAGTTTTGGCTATCGAACTA
Found at i:23490187 original size:21 final size:21
Alignment explanation
Indices: 23490162--23490205 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
23490152 ATTGGGCTGT
* *
23490162 TACACTCCACCTGTTTTGGAG
1 TACACTCCACCTGCTGTGGAG
23490183 TACACTCCACCTGCTGTGGAG
1 TACACTCCACCTGCTGTGGAG
23490204 TA
1 TA
23490206 TTGCTCGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
TACACTCCACCTGCTGTGGAG
Found at i:23503470 original size:183 final size:183
Alignment explanation
Indices: 23503162--23503528 Score: 725
Period size: 183 Copynumber: 2.0 Consensus size: 183
23503152 ACTTTGGTTC
23503162 AAGTAGTAAAGAAAAGATTTTATAAATACTAGTGGCAAAGGCTCAAATCTCATCACATGCAAAAA
1 AAGTAGTAAAGAAAAGATTTTATAAATACTAGTGGCAAAGGCTCAAATCTCATCACATGCAAAAA
23503227 AAAAAATTATTGGTTTTATTAAATATATAAAATGACAAAACTACACTAGTAATGATATAAAGGAT
66 AAAAAATTATTGGTTTTATTAAATATATAAAATGACAAAACTACACTAGTAATGATATAAAGGAT
23503292 AAACTACACCCGAAGTCATTAAACTATTAATAAGTTTATATTATGGTCACTCA
131 AAACTACACCCGAAGTCATTAAACTATTAATAAGTTTATATTATGGTCACTCA
23503345 AAGTAGTAAAGAAAAGATTTTATAAATACTAGTGGCAAAGGCTCAAATCTCATCACATGCAAAAA
1 AAGTAGTAAAGAAAAGATTTTATAAATACTAGTGGCAAAGGCTCAAATCTCATCACATGCAAAAA
23503410 AAAAAATTATTGGTTTTATTAAATATATAAAATGACAAAACTACACTAGTAATGATATAAAGGAT
66 AAAAAATTATTGGTTTTATTAAATATATAAAATGACAAAACTACACTAGTAATGATATAAAGGAT
*
23503475 AAACTACACCCGAAGTCATTAAACTATTAATAAGTTTATATTATGGTTACTCA
131 AAACTACACCCGAAGTCATTAAACTATTAATAAGTTTATATTATGGTCACTCA
23503528 A
1 A
23503529 CTTCAAAAAG
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (183 bp):
AAGTAGTAAAGAAAAGATTTTATAAATACTAGTGGCAAAGGCTCAAATCTCATCACATGCAAAAA
AAAAAATTATTGGTTTTATTAAATATATAAAATGACAAAACTACACTAGTAATGATATAAAGGAT
AAACTACACCCGAAGTCATTAAACTATTAATAAGTTTATATTATGGTCACTCA
Found at i:23503924 original size:31 final size:31
Alignment explanation
Indices: 23503889--23503951 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
23503879 TTAATAGCCT
**
23503889 AGTGACTTAAATAAAAACTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTTCAAATAGTTC
* *
23503920 AGTGACTTCAATGAAAACTTTCAAATAGTTC
1 AGTGACTTAAATAAAAACTTTCAAATAGTTC
23503951 A
1 A
23503952 ATGATCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTCAAATAGTTC
Found at i:23510253 original size:17 final size:17
Alignment explanation
Indices: 23510228--23510266 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
23510218 GGCCAGCCAA
*
23510228 TGTGACCCACACGCCCG
1 TGTGGCCCACACGCCCG
* *
23510245 TGTGGCCCACATGCCTG
1 TGTGGCCCACACGCCCG
23510262 TGTGG
1 TGTGG
23510267 TCCAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.36, G:0.31, T:0.21
Consensus pattern (17 bp):
TGTGGCCCACACGCCCG
Found at i:23511508 original size:13 final size:13
Alignment explanation
Indices: 23511490--23511515 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23511480 CTTCCTCTCA
23511490 TATGTATTATGAT
1 TATGTATTATGAT
23511503 TATGTATTATGAT
1 TATGTATTATGAT
23511516 GATAATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TATGTATTATGAT
Found at i:23523565 original size:62 final size:62
Alignment explanation
Indices: 23523468--23523593 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
23523458 TTGGTCAAGG
23523468 AACCATTTCATTATATCAACTTAGTTAATCTCAACTTTTTGTAAAAGCACTAGATCTTTTGC
1 AACCATTTCATTATATCAACTTAGTTAATCTCAACTTTTTGTAAAAGCACTAGATCTTTTGC
23523530 AACCATTTCATTATATCAACTTAGTTAATCTCAACTTTTTGTAAAAGCACTAGATCTTTTGC
1 AACCATTTCATTATATCAACTTAGTTAATCTCAACTTTTTGTAAAAGCACTAGATCTTTTGC
23523592 AA
1 AA
23523594 AGAAAATATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (62 bp):
AACCATTTCATTATATCAACTTAGTTAATCTCAACTTTTTGTAAAAGCACTAGATCTTTTGC
Found at i:23524028 original size:22 final size:22
Alignment explanation
Indices: 23524000--23524043 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23523990 TCTATTATGT
*
23524000 GTTGGCTTACTATGAAACTAAC
1 GTTGGCTCACTATGAAACTAAC
*
23524022 GTTGGCTCACTATGAACCTAAC
1 GTTGGCTCACTATGAAACTAAC
23524044 TTATTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (22 bp):
GTTGGCTCACTATGAAACTAAC
Found at i:23530221 original size:25 final size:25
Alignment explanation
Indices: 23530193--23530241 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
23530183 TATAGTCTAT
* **
23530193 CTATAGTAGTCTCATTATATACTAC
1 CTATAGCAGTCTCAGGATATACTAC
*
23530218 CTATAGCAGTTTCAGGATATACTA
1 CTATAGCAGTCTCAGGATATACTA
23530242 TCAAAGACAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (25 bp):
CTATAGCAGTCTCAGGATATACTAC
Found at i:23530605 original size:18 final size:18
Alignment explanation
Indices: 23530574--23530621 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
23530564 TATCGTTCGT
*
23530574 TTTCAAAACATTATTC-A
1 TTTCAAAACGTTATTCAA
*
23530591 TTTACAAATCGTTATTCAA
1 TTT-CAAAACGTTATTCAA
23530610 TTTCAAAACGTT
1 TTTCAAAACGTT
23530622 TTCTTATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.73
19 4 0.15
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (18 bp):
TTTCAAAACGTTATTCAA
Found at i:23534274 original size:29 final size:28
Alignment explanation
Indices: 23534194--23534292 Score: 164
Period size: 28 Copynumber: 3.5 Consensus size: 28
23534184 AAAAATAAAA
23534194 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
23534222 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
*
23534250 ATTTACCAAAATATTTA-AACATTTTTATT
1 ATTTACCAAAATA-TTACAAC-TTTTTTTT
23534279 ATTTACCAAAATAT
1 ATTTACCAAAATAT
23534293 ATCAAAAAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
28 45 0.66
29 23 0.34
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Done.