Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 38 of 427
Found at i:9519494 original size:73 final size:73
Alignment explanation
Indices: 9519375--9519674 Score: 305
Period size: 73 Copynumber: 4.0 Consensus size: 73
9519365 TTTTTGAATC
* * * * *
9519375 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
9519440 GTTGATTT
66 GTTGATTT
* *
9519448 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
** ***
9519513 GTAAAGAC
66 GTTGATTT
* * * * **
9519521 AT-AAATTGATCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTGAAA---AACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
9519585 TGAGTTGATTTTTTT
63 TGAGTTGA----TTT
* * * * * * *
9519600 TTGAAAAGCAGAAACTGAAAATACCTCAATGTATCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
9519665 GTTGATTT
66 GTTGATTT
9519673 TT
1 TT
9519675 TTTTGAAACA
Statistics
Matches: 190, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
72 3 0.02
73 69 0.36
75 57 0.30
77 57 0.30
79 1 0.01
80 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (73 bp):
TTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:9529765 original size:13 final size:13
Alignment explanation
Indices: 9529747--9529776 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9529737 TTAGGAAACG
9529747 TACATAAAAAATA
1 TACATAAAAAATA
*
9529760 TACATAAAAAATT
1 TACATAAAAAATA
9529773 TACA
1 TACA
9529777 ACAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (13 bp):
TACATAAAAAATA
Found at i:9535876 original size:19 final size:19
Alignment explanation
Indices: 9535852--9535891 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9535842 GGTTGAAATT
*
9535852 AATAAACAAAAGTAAACTA
1 AATAAAAAAAAGTAAACTA
*
9535871 AATAAAAAAAATTAAACTA
1 AATAAAAAAAAGTAAACTA
9535890 AA
1 AA
9535892 ATAATTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.17
Consensus pattern (19 bp):
AATAAAAAAAAGTAAACTA
Found at i:9538041 original size:28 final size:28
Alignment explanation
Indices: 9538009--9538068 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
9537999 TAGAATACTC
9538009 TAGTATCTCTGAGTTGTTAAGGAGTTGT
1 TAGTATCTCTGAGTTGTTAAGGAGTTGT
9538037 TAGTATCTCTGAGTTGTTAAGGAGTTGT
1 TAGTATCTCTGAGTTGTTAAGGAGTTGT
9538065 TAGT
1 TAGT
9538069 CTGTTACTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.22, C:0.07, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGTATCTCTGAGTTGTTAAGGAGTTGT
Found at i:9540280 original size:25 final size:27
Alignment explanation
Indices: 9540215--9540288 Score: 102
Period size: 26 Copynumber: 2.9 Consensus size: 27
9540205 GTGAGCTTTC
*
9540215 AAATGTGC-AAGCTGCAAGCTCAGCAA
1 AAATGTGCAAAGCTGCAAGCTTAGCAA
9540241 AAATGTGCAAA-CTGCAAGCTTAGC-A
1 AAATGTGCAAAGCTGCAAGCTTAGCAA
*
9540266 AGATGT-CAAAGCTGCAAGCTTAG
1 AAATGTGCAAAGCTGCAAGCTTAG
9540289 TGAGAAGTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 4 0.09
25 18 0.41
26 20 0.45
27 2 0.05
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (27 bp):
AAATGTGCAAAGCTGCAAGCTTAGCAA
Found at i:9541232 original size:38 final size:35
Alignment explanation
Indices: 9541188--9541275 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 35
9541178 GGGTAAAAAT
*
9541188 AAATATATACATAATATATACGTAATATAGTA-CTAA
1 AAATATATACATAACATATAC--AATATAGTATCTAA
* *
9541224 GAATATATATATATACACATATACAATATAGTATTTAA
1 -AA-ATATATACATA-ACATATACAATATAGTATCTAA
9541262 AAATATATACATAA
1 AAATATATACATAA
9541276 GATGGTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
35 1 0.02
36 10 0.23
37 13 0.30
38 13 0.30
39 7 0.16
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (35 bp):
AAATATATACATAACATATACAATATAGTATCTAA
Found at i:9541286 original size:24 final size:23
Alignment explanation
Indices: 9541259--9541319 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
9541249 ATATAGTATT
9541259 TAAAAATATATACAT-AAGATGGTA
1 TAAAAATATATACATGAA-AT-GTA
* *
9541283 TAAAACTATGTACATGGAAATGTA
1 TAAAAATATATACAT-GAAATGTA
9541307 TAAGAAATATATA
1 TAA-AAATATATA
9541320 TAACTAGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
24 19 0.63
25 9 0.30
26 2 0.07
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.30
Consensus pattern (23 bp):
TAAAAATATATACATGAAATGTA
Found at i:9543967 original size:29 final size:29
Alignment explanation
Indices: 9543925--9543982 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
9543915 AGAAATTAAA
9543925 AGGCTCAACTCACCTCTCGCAATATGAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGT
9543954 AGGCTCAACTCACCTCTCGCAATATGAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGT
9543983 TGATTTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (29 bp):
AGGCTCAACTCACCTCTCGCAATATGAGT
Found at i:9544010 original size:83 final size:83
Alignment explanation
Indices: 9543871--9544034 Score: 301
Period size: 83 Copynumber: 2.0 Consensus size: 83
9543861 ATGTGACCCG
* *
9543871 AGGCTCAACTTACCTCTCCCGATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
1 AGGCTCAACTCACCTCTCCCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
9543936 ACCTCTCGCAATATGAGT
66 ACCTCTCGCAATATGAGT
*
9543954 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
1 AGGCTCAACTCACCTCTCCCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
9544019 ACCTCTCGCAATATGA
66 ACCTCTCGCAATATGA
9544035 ATTGATTTTT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (83 bp):
AGGCTCAACTCACCTCTCCCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
ACCTCTCGCAATATGAGT
Found at i:9544040 original size:54 final size:54
Alignment explanation
Indices: 9543954--9544422 Score: 821
Period size: 54 Copynumber: 8.6 Consensus size: 54
9543944 CAATATGAGT
9543954 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
9544008 AGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTAGAAAAATAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-GAAAAACAGAAATTAAA
* *
9544063 AGGCTCAACTCACCTTTCGCAATATAAGTTGATTTTTAGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-GAAAAACAGAAATTAAA
*
9544118 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAGAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
9544172 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
9544226 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
9544280 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAA
* * *
9544336 AAGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
9544390 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT
9544423 CTTGGAAATA
Statistics
Matches: 395, Mismatches: 17, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
54 242 0.61
55 102 0.26
56 51 0.13
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:9544320 original size:164 final size:163
Alignment explanation
Indices: 9543954--9544422 Score: 823
Period size: 164 Copynumber: 2.9 Consensus size: 163
9543944 CAATATGAGT
9543954 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
* * *
9544019 ACCTCTCGCAATATGAATTGATTTTTAGAAAAATAGAAATTAAAAGGCTCAACTCACCTTTCGCA
66 ACCTCTCGCAATATGAGTTGATTTTT-GAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCA
*
9544084 ATATAAGTTGATTTTTAGAAAAACAGAAATTAAA
130 ATATGAGTTGATTTTTAGAAAAACAGAAATTAAA
*
9544118 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAGAAACAGAAATTAAAAGGCTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
9544183 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAA
66 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAA
*
9544248 TATGAGTTGATTTTT-GAAAAATAGAAATTAAA
131 TATGAGTTGATTTTTAGAAAAACAGAAATTAAA
* *
9544280 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAGTTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAGGCTCAAC
*
9544345 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGAGAAATTAAAAGGCTCAACTCACCTCTCGC
64 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGC
9544410 AATATGAGTTGAT
129 AATATGAGTTGAT
9544423 CTTGGAAATA
Statistics
Matches: 293, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
162 48 0.16
163 51 0.17
164 194 0.66
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (163 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTAGAAAAACAGAAATTAAA
Found at i:9544332 original size:218 final size:218
Alignment explanation
Indices: 9543954--9544422 Score: 850
Period size: 218 Copynumber: 2.2 Consensus size: 218
9543944 CAATATGAGT
9543954 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
*
9544019 ACCTCTCGCAATATGAATTGATTTTTAGAAAAATAGAAATTAAAAGGCTCAACTCACCTTTCGCA
66 ACCTCTCGCAATATGAATTGATTTTTAGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCA
*
9544084 ATATAAGTTGATTTTTAGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTG
131 ATATAAGTTGATTTTTAGAAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTG
*
9544149 ATTTTTGAGAAACAGAAATTAAA
196 ATTTTTGAAAAACAGAAATTAAA
9544172 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
*
9544237 ACCTCTCGCAATATGAGTTGATTTTT-GAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCA
66 ACCTCTCGCAATATGAATTGATTTTTAGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCA
* * *
9544301 ATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAGTTCAACTCACCTCTCGCAATATGAGTT
131 ATATAAGTTGA-TTTTTAGAAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTT
*
9544366 GATTTTTGAAAAAGAGAAATTAAA
195 GATTTTTGAAAAACAGAAATTAAA
9544390 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT
9544423 CTTGGAAATA
Statistics
Matches: 242, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
217 47 0.19
218 195 0.81
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (218 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
ACCTCTCGCAATATGAATTGATTTTTAGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCA
ATATAAGTTGATTTTTAGAAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGAAAAACAGAAATTAAA
Found at i:9544575 original size:89 final size:89
Alignment explanation
Indices: 9544390--9544874 Score: 718
Period size: 89 Copynumber: 5.5 Consensus size: 89
9544380 AGAAATTAAA
* * * * *
9544390 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TCTTGGAAATATGAATTGAAAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAACGGAAATT
* *
9544453 AAAAATACCTCAGCATGTGAGCC-G
66 GAAAATACCTCAGCGTGTGA-CCTG
9544477 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAACATAAATTGAAAAAACGGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTG-AAAAACGGAAAT
*
9544541 TGAAAATACCTCAGCGTTTGACCTG
65 TGAAAATACCTCAGCGTGTGACCTG
* *
9544566 AGGCCCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACATAAATTGAAAAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AA-ACATAAATTGAAAAACGGAAA
*
9544631 TTGAAAATACCTCAGC--ATGACCTG
64 TTGAAAATACCTCAGCGTGTGACCTG
* * *
9544655 GGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTCTTGAAACATAAATTGAAAAACGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-TTGAAACATAAATTGAAAAACGGAAA
9544720 TTGAAAATACCTCAGCGTGT--CCTG
64 TTGAAAATACCTCAGCGTGTGACCTG
9544744 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAACATAAATTGAAAAACGGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAACGGAAATT
9544808 GAAAATACCTCAGCGTGTGACCTG
66 GAAAATACCTCAGCGTGTGACCTG
*
9544832 AGGCCCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
9544875 GACAGAAATA
Statistics
Matches: 364, Mismatches: 21, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
86 45 0.12
87 36 0.10
88 51 0.14
89 176 0.48
90 14 0.04
91 32 0.09
92 10 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (89 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAACGGAAATT
GAAAATACCTCAGCGTGTGACCTG
Found at i:9544622 original size:14 final size:14
Alignment explanation
Indices: 9544603--9544637 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9544593 GTTGATTTTT
* *
9544603 TTGAAAGACATAAA
1 TTGAAAAACAGAAA
9544617 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
9544631 TTGAAAA
1 TTGAAAA
9544638 TACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:9544864 original size:266 final size:262
Alignment explanation
Indices: 9544391--9544890 Score: 812
Period size: 266 Copynumber: 1.9 Consensus size: 262
9544381 GAAATTAAAA
* *
9544391 GGCTCAACTCACCTCTCGCAATATGAGTTGATCTTGGAAATATGAATTGAAAAACAGAAATTAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATCTTGGAAACATAAATTGAAAAACAGAAATTAAA
9544456 AATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACA
66 AATACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACA
*
9544521 TAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTTTGACCTGAGGCCCAACTCACCTCTCGC
130 TAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGC
*
9544586 AATATGAGTTGATTTTTTTGAAAGACATAAATTGAAAAACAGAAATTGAAAATACCTCAGCATGA
195 AATATGAGTTGATTTTTTTGAAAGACAGAAA-T-AAAAACAGAAATTGAAAATACCTCAGCATGA
9544651 CCTGG
258 CCTGG
*
9544656 GGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTCTT-GAAACATAAATTGAAAAAC-GAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-----TCTTGGAAACATAAATTGAAAAACAG-AA
* *
9544719 ATTGAAAATACCTCAGC-GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
60 ATTAAAAATACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
9544782 GAAACATAAATTG-AAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACC
124 GAAACATAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACC
9544846 TCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATAAAAACA
189 TCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATAAAAACA
9544891 TCAAAATACC
Statistics
Matches: 221, Mismatches: 7, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
264 7 0.03
265 31 0.14
266 88 0.40
267 55 0.25
268 1 0.00
269 35 0.16
270 4 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (262 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATCTTGGAAACATAAATTGAAAAACAGAAATTAAA
AATACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACAT
AAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTGAAAGACAGAAATAAAAACAGAAATTGAAAATACCTCAGCATGACCT
GG
Found at i:9551867 original size:38 final size:35
Alignment explanation
Indices: 9551823--9551910 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 35
9551813 GGGTAAAAAT
*
9551823 AAATATATACATAATATATACGTAATATAGTA-CTAA
1 AAATATATACATAACATATAC--AATATAGTATCTAA
* *
9551859 GAATATATATATATACACATATACAATATAGTATTTAA
1 -AA-ATATATACATA-ACATATACAATATAGTATCTAA
9551897 AAATATATACATAA
1 AAATATATACATAA
9551911 GATGGTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
35 1 0.02
36 10 0.23
37 13 0.30
38 13 0.30
39 7 0.16
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (35 bp):
AAATATATACATAACATATACAATATAGTATCTAA
Found at i:9551921 original size:24 final size:23
Alignment explanation
Indices: 9551894--9551954 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
9551884 ATATAGTATT
9551894 TAAAAATATATACAT-AAGATGGTA
1 TAAAAATATATACATGAA-AT-GTA
* *
9551918 TAAAACTATGTACATGGAAATGTA
1 TAAAAATATATACAT-GAAATGTA
9551942 TAAGAAATATATA
1 TAA-AAATATATA
9551955 TAACTAGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
24 19 0.63
25 9 0.30
26 2 0.07
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.30
Consensus pattern (23 bp):
TAAAAATATATACATGAAATGTA
Found at i:9553521 original size:17 final size:17
Alignment explanation
Indices: 9553499--9553532 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9553489 CGTCAGAGGG
*
9553499 CAAGTGGGCAGGTGGCT
1 CAAGTGGGCAGATGGCT
9553516 CAAGTGGGCAGATGGCT
1 CAAGTGGGCAGATGGCT
9553533 GAGTCGGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.44, T:0.18
Consensus pattern (17 bp):
CAAGTGGGCAGATGGCT
Found at i:9558267 original size:21 final size:21
Alignment explanation
Indices: 9558229--9558268 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9558219 AGAATTATAT
*
9558229 AAAAATATATAAATAATTTCA
1 AAAAATAAATAAATAATTTCA
9558250 AAAAATAAAATAAA-AATTT
1 AAAAAT-AAATAAATAATTT
9558269 GTATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATAAATAAATAATTTCA
Found at i:9560174 original size:43 final size:43
Alignment explanation
Indices: 9560126--9560323 Score: 216
Period size: 43 Copynumber: 4.6 Consensus size: 43
9560116 TTATTTAAAA
* * **
9560126 AAACGCCGCTAAAGACCATAACTTTTAGCGGCGCTTTTTTTGC
1 AAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTTTCTCAC
* * * * * **
9560169 AAACGCCACTAAAGGCCATGACCTTTAGCGGTGCTTTTTTTGC
1 AAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTTTCTCAC
* ** *
9560212 AAACGCCGCTAAAGACCATGACCTTTAGCGATGCTTTTCTCAA
1 AAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTTTCTCAC
* * * *
9560255 AAACGCCACTAAAAACTATAACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTTTCTCAC
*
9560298 AAACGCCGCTAAAGACCATGACCTTT
1 AAACGCCGCTAAAGACCATAACCTTT
9560324 TAAAAAAATT
Statistics
Matches: 131, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 131 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTTTCTCAC
Found at i:9560279 original size:86 final size:86
Alignment explanation
Indices: 9560126--9560323 Score: 243
Period size: 86 Copynumber: 2.3 Consensus size: 86
9560116 TTATTTAAAA
* * * * *** ** *
9560126 AAACGCCGCTAAAGACCATAACTTTTAGCGGCGCTTTTTTTGCAAACGCCACTAAAGGCCATGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAAAAACGCCACTAAAAACCATAAC
* ****
9560191 CTTTAGCGGTGCTTTTTTTGC
66 CTTTAGCGGCGCTTTTCCCAC
* *
9560212 AAACGCCGCTAAAGACCATGACCTTTAGCGATGCTTTTCTCAAAAACGCCACTAAAAACTATAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAAAAACGCCACTAAAAACCATAAC
9560277 CTTTAGCGGCGCTTTTCCCAC
66 CTTTAGCGGCGCTTTTCCCAC
9560298 AAACGCCGCTAAAGACCATGACCTTT
1 AAACGCCGCTAAAGACCATGACCTTT
9560324 TAAAAAAATT
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 95 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAAAAACGCCACTAAAAACCATAAC
CTTTAGCGGCGCTTTTCCCAC
Found at i:9564378 original size:17 final size:18
Alignment explanation
Indices: 9564345--9564378 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9564335 TCTCTCTTAA
9564345 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
9564363 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
9564379 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:9565220 original size:15 final size:15
Alignment explanation
Indices: 9565177--9565230 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
9565167 TATAAACTCT
* *
9565177 TAAT-CCTAGACCCC
1 TAATCCCTAAACCCA
9565191 TAA-CCCTTAAA-CCA
1 TAATCCC-TAAACCCA
9565205 TAATCCCTAAACCCA
1 TAATCCCTAAACCCA
*
9565220 TAATCCATAAA
1 TAATCCCTAAA
9565231 ACTTAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 14 0.42
15 19 0.58
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (15 bp):
TAATCCCTAAACCCA
Found at i:9565227 original size:22 final size:21
Alignment explanation
Indices: 9565188--9565229 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
9565178 AATCCTAGAC
*
9565188 CCCTAACCCTTAAACCATAAT
1 CCCTAACCCATAAACCATAAT
*
9565209 CCCTAAACCCATAATCCATAA
1 CCCT-AACCCATAAACCATAA
9565230 AACTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAACCCATAAACCATAAT
Found at i:9565590 original size:41 final size:40
Alignment explanation
Indices: 9565533--9565733 Score: 285
Period size: 41 Copynumber: 5.0 Consensus size: 40
9565523 GTTATATGAC
* * *
9565533 TTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTTCGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGC-TCTGT
* *
9565574 TTTTAGCGGCGTTTTACCAAAAGCGCCGGTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT-GT
9565615 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
* * *
9565655 TTTTAGCGGCGTTTTAACAAAAAACGCCACTATTGCTCTGT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTATTGCTCTGT
* *
9565696 TTTTAGCGGCGTTTTACCAAAAACACCGCTATTGCTCT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT
9565734 ATGTTTTACA
Statistics
Matches: 147, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
40 39 0.27
41 108 0.73
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
Found at i:9565706 original size:81 final size:81
Alignment explanation
Indices: 9565533--9565733 Score: 287
Period size: 81 Copynumber: 2.5 Consensus size: 81
9565523 GTTATATGAC
* * * * *
9565533 TTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTTCGGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGC-TCTGTTTTTAGCGGCGTTTTACAAAAAAC
**
9565598 GCCGGTAATGCTCTAGT
65 GCCACTAATGCTCTAGT
9565615 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTAACAAAAAAC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGTTTTTAGCGGCGTTTT-ACAAAAAAC
*
9565680 GCCACTATTGCTCT-GT
65 GCCACTAATGCTCTAGT
* *
9565696 TTTTAGCGGCGTTTTACCAAAAACACCGCTATTGCTCT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT
9565734 ATGTTTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
81 57 0.53
82 51 0.47
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTACAAAAAACG
CCACTAATGCTCTAGT
Found at i:9571148 original size:3 final size:3
Alignment explanation
Indices: 9571140--9571192 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
9571130 AACATATCAA
9571140 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9571188 ATT AT
1 ATT AT
9571193 ATATAGCTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9571665 original size:16 final size:15
Alignment explanation
Indices: 9571640--9571669 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9571630 GATTCCCTAT
9571640 ATTTTGTACAGAAAA
1 ATTTTGTACAGAAAA
9571655 ATTTCTGTACAGAAA
1 ATTT-TGTACAGAAA
9571670 TTATCATCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (15 bp):
ATTTTGTACAGAAAA
Found at i:9574799 original size:14 final size:13
Alignment explanation
Indices: 9574778--9574807 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
9574768 GTAAAATATT
9574778 TTTCGGAAAATGA
1 TTTCGGAAAATGA
9574791 TTTCTGGAAAATGA
1 TTTC-GGAAAATGA
9574805 TTT
1 TTT
9574808 ACTTTTGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (13 bp):
TTTCGGAAAATGA
Found at i:9574820 original size:20 final size:20
Alignment explanation
Indices: 9574795--9574833 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9574785 AAATGATTTC
*
9574795 TGGAAAATGATTTACTTTTG
1 TGGAAAATAATTTACTTTTG
9574815 TGGAAAATAATTTACTTTT
1 TGGAAAATAATTTACTTTT
9574834 CTATTGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (20 bp):
TGGAAAATAATTTACTTTTG
Found at i:9575446 original size:138 final size:138
Alignment explanation
Indices: 9575257--9575533 Score: 545
Period size: 138 Copynumber: 2.0 Consensus size: 138
9575247 TTTAAGAAAT
9575257 TAGAATGATGTTACAACAAAGATCAGCGACTAACTGACCCATTACTTGATACAAAATCAGGTTTC
1 TAGAATGATGTTACAACAAAGATCAGCGACTAACTGACCCATTACTTGATACAAAATCAGGTTTC
9575322 TCATTTTGTCTTATAACAAAATGGTCAACCACCCTGACTGTATTCACTGGATCTTGCTGCCTTGC
66 TCATTTTGTCTTATAACAAAATGGTCAACCACCCTGACTGTATTCACTGGATCTTGCTGCCTTGC
9575387 TGCTGCAC
131 TGCTGCAC
*
9575395 TAGAATGATGTTACAACAAGGATCAGCGACTAACTGACCCATTACTTGATACAAAATCAGGTTTC
1 TAGAATGATGTTACAACAAAGATCAGCGACTAACTGACCCATTACTTGATACAAAATCAGGTTTC
9575460 TCATTTTGTCTTATAACAAAATGGTCAACCACCCTGACTGTATTCACTGGATCTTGCTGCCTTGC
66 TCATTTTGTCTTATAACAAAATGGTCAACCACCCTGACTGTATTCACTGGATCTTGCTGCCTTGC
9575525 TGCTGCAC
131 TGCTGCAC
9575533 T
1 T
9575534 CCATTTGCTA
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (138 bp):
TAGAATGATGTTACAACAAAGATCAGCGACTAACTGACCCATTACTTGATACAAAATCAGGTTTC
TCATTTTGTCTTATAACAAAATGGTCAACCACCCTGACTGTATTCACTGGATCTTGCTGCCTTGC
TGCTGCAC
Found at i:9579088 original size:27 final size:27
Alignment explanation
Indices: 9579050--9579130 Score: 153
Period size: 27 Copynumber: 3.0 Consensus size: 27
9579040 CTTGTATTTG
9579050 TTCCATCTCTTCCAAATCGCTCTCATA
1 TTCCATCTCTTCCAAATCGCTCTCATA
9579077 TTCCATCTCTTCCAAATCGCTCTCATA
1 TTCCATCTCTTCCAAATCGCTCTCATA
*
9579104 TTCCATTTCTTCCAAATCGCTCTCATA
1 TTCCATCTCTTCCAAATCGCTCTCATA
9579131 CACTATTCTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.22, C:0.36, G:0.04, T:0.38
Consensus pattern (27 bp):
TTCCATCTCTTCCAAATCGCTCTCATA
Found at i:9581808 original size:2 final size:2
Alignment explanation
Indices: 9581796--9581826 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9581786 ACATCAACAT
*
9581796 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9581827 TTTCGTACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9581987 original size:14 final size:15
Alignment explanation
Indices: 9581968--9581999 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9581958 ATTATTAGTT
9581968 AAAATTAA-TAAATA
1 AAAATTAACTAAATA
9581982 AAAATTAACTAAATA
1 AAAATTAACTAAATA
9581997 AAA
1 AAA
9582000 TATTTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATTAACTAAATA
Found at i:9582000 original size:14 final size:13
Alignment explanation
Indices: 9581967--9582000 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
9581957 TATTATTAGT
9581967 TAAAATTAATAAA
1 TAAAATTAATAAA
9581980 TAAAAATTAACTAAA
1 T-AAAATTAA-TAAA
9581995 TAAAAT
1 TAAAAT
9582001 ATTTTTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 13 0.68
15 5 0.26
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAAATTAATAAA
Found at i:9584849 original size:14 final size:14
Alignment explanation
Indices: 9584810--9584857 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
9584800 AGAGAAAGTA
9584810 AAAATTTT-GGGAG
1 AAAATTTTGGGGAG
*
9584823 AAATTAATTTGGGGAG
1 AAA--ATTTTGGGGAG
*
9584839 TAAATTTTGGGGAG
1 AAAATTTTGGGGAG
9584853 AAAAT
1 AAAAT
9584858 ATTAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 3 0.11
14 14 0.50
15 4 0.14
16 7 0.25
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (14 bp):
AAAATTTTGGGGAG
Found at i:9593898 original size:22 final size:21
Alignment explanation
Indices: 9593861--9593903 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9593851 AATAATAACG
*
9593861 ATATATAAACATATAA-ATGT
1 ATATATAAAAATATAATATGT
9593881 ATATATTAAAAATAATAATATGT
1 ATATA-TAAAAAT-ATAATATGT
9593904 GTACGTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 4 0.21
23 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (21 bp):
ATATATAAAAATATAATATGT
Found at i:9594152 original size:2 final size:2
Alignment explanation
Indices: 9594147--9594177 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9594137 GCTATATAAC
*
9594147 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9594178 ATGAAAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9595394 original size:46 final size:46
Alignment explanation
Indices: 9595344--9595435 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
9595334 AGTAAAAGAA
*
9595344 AGGGTAAAATGATAAATAAATAAAAACAGTAGATAGACCTTTAGAT
1 AGGGTAAAATGATAAATAAATAAAAACAATAGATAGACCTTTAGAT
9595390 AGGGTAAAATGATAAATAAATAAAAACAATAGATAGACCTTTAGAT
1 AGGGTAAAATGATAAATAAATAAAAACAATAGATAGACCTTTAGAT
9595436 CGGTCTTCGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.53, C:0.07, G:0.16, T:0.24
Consensus pattern (46 bp):
AGGGTAAAATGATAAATAAATAAAAACAATAGATAGACCTTTAGAT
Found at i:9596276 original size:86 final size:86
Alignment explanation
Indices: 9596126--9596503 Score: 555
Period size: 86 Copynumber: 4.4 Consensus size: 86
9596116 ATATTTAATT
* * * * *
9596126 TTCAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCTT-GTCGTCTTTGATCTGTTTCC-CTACT
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG-TTCTTCGTCTTCGATCTG-CTCCACTACT
** * * *
9596189 GCTTAGGG-TTTTAGAACTGTAAA
64 GCTTAGGGAGATAAGATCTG-CAA
*
9596212 CTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGC
9596277 TTAGGGAGATAAGATCTGCAA
66 TTAGGGAGATAAGATCTGCAA
*
9596298 TTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGC
9596363 TTAGGGAGATAAGATCTGCAA
66 TTAGGGAGATAAGATCTGCAA
9596384 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGC
9596449 TTAGGGAGATAAGATCTGCAA
66 TTAGGGAGATAAGATCTGCAA
**** *
9596470 TTTGGTCTGTTTCCCTACTGCTTAGGGGTTTAAG
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAG
9596504 ACCCTATGAA
Statistics
Matches: 270, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
85 5 0.02
86 258 0.96
87 7 0.03
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (86 bp):
TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGC
TTAGGGAGATAAGATCTGCAA
Found at i:9596280 original size:44 final size:44
Alignment explanation
Indices: 9596226--9596454 Score: 215
Period size: 44 Copynumber: 5.3 Consensus size: 44
9596216 ACCTGTTACC
9596226 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
* * * * * * *
9596270 CTACTGCTTAGGGAG-ATAA-GATCTGCAAT-TT-AACCTGTTACC-
1 CTACTGCTTAGGG-GTTTAAGGTTCTTC-GTCTTCGATCTGCT-CCA
9596312 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
* * * ** * * *
9596356 CTACTGCTTAGGGAG-ATAA-GATCTGC-AATTCAACCTGTTACC-
1 CTACTGCTTAGGG-GTTTAAGGTTCTTCGTCTTCGATCTGCT-CCA
9596398 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
9596442 CTACTGCTTAGGG
1 CTACTGCTTAGGG
9596455 AGATAAGATC
Statistics
Matches: 141, Mismatches: 30, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
41 2 0.01
42 46 0.33
43 32 0.23
44 59 0.42
45 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (44 bp):
CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
Found at i:9596324 original size:42 final size:41
Alignment explanation
Indices: 9596259--9596496 Score: 169
Period size: 42 Copynumber: 5.6 Consensus size: 41
9596249 CTTCGTCTTC
*
9596259 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
1 GATCTGTTCC-CTACTGCTTAGGGAGATAAGATCTGCAATTT
* * * * * *
9596301 AACCTGTTACCCTACTGCTTAGGG-GTTTAAGGTTCTTC-GTCTT
1 GATCTGTT-CCCTACTGCTTAGGGAG-ATAA-GATCTGCAAT-TT
* *
9596344 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTC
1 -GATCTGTTCC-CTACTGCTTAGGGAGATAAGATCTGCAATTT
* * * * * *
9596387 AACCTGTTACCCTACTGCTTAGGG-GTTTAAGGTTCTTC-GTCTT
1 GATCTGTT-CCCTACTGCTTAGGGAG-ATAA-GATCTGCAAT-TT
*
9596430 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
1 -GATCTGTTCC-CTACTGCTTAGGGAGATAAGATCTGCAATTT
*
9596473 GGTCTGTTTCCCTACTGCTTAGGG
1 GATCTG-TTCCCTACTGCTTAGGG
9596497 GTTTAAGACC
Statistics
Matches: 147, Mismatches: 32, Indels: 34
0.69 0.15 0.16
Matches are distributed among these distances:
41 2 0.01
42 62 0.42
43 37 0.25
44 44 0.30
45 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (41 bp):
GATCTGTTCCCTACTGCTTAGGGAGATAAGATCTGCAATTT
Found at i:9596504 original size:42 final size:43
Alignment explanation
Indices: 9596132--9596504 Score: 207
Period size: 44 Copynumber: 8.7 Consensus size: 43
9596122 AATTTTCAGC
* * * * *
9596132 CTGTTACCCTACTGCTTAGGGGATTAAG-GCTTGTCGTCTTTGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGATC-TG-CATCTTCGAT
* * * * * *
9596176 CTGTTTCCCTACTGCTTA-GGGTTTTAGAACTGTAAAC-TCAAC
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGATCTG-CATCTTCGAT
* * * *
9596218 CTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAA-GATCTGCATCTTCGAT
* * * *
9596262 CTG-CTCCACTACTGCTTAGGGAG-ATAAGATCTGCAAT-TT-AAC
1 CTGTTTCC-CTACTGCTTAGGG-GTTTAAGATCTGC-ATCTTCGAT
* * * *
9596304 CTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAA-GATCTGCATCTTCGAT
* * * * *
9596348 CTG-CTCCACTACTGCTTAGGGAG-ATAAGATCTGCA-ATTCAAC
1 CTGTTTCC-CTACTGCTTAGGG-GTTTAAGATCTGCATCTTCGAT
* * * *
9596390 CTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAA-GATCTGCATCTTCGAT
* * *
9596434 CTG-CTCCACTACTGCTTAGGGAG-ATAAGATCTGCAAT-TT-GGT
1 CTGTTTCC-CTACTGCTTAGGG-GTTTAAGATCTGC-ATCTTCGAT
9596476 CTGTTTCCCTACTGCTTAGGGGTTTAAGA
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGA
9596505 CCCTATGAAC
Statistics
Matches: 243, Mismatches: 63, Indels: 48
0.69 0.18 0.14
Matches are distributed among these distances:
41 3 0.01
42 86 0.35
43 63 0.26
44 88 0.36
45 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (43 bp):
CTGTTTCCCTACTGCTTAGGGGTTTAAGATCTGCATCTTCGAT
Found at i:9596626 original size:88 final size:89
Alignment explanation
Indices: 9596475--9596639 Score: 235
Period size: 88 Copynumber: 1.9 Consensus size: 89
9596465 TGCAATTTGG
* * *
9596475 TCTGTTTCCCTACTGCTTAGGGGTTTAAGACCCTATGAACATCAGCTTGTTACTCTACTGCTTAG
1 TCTGTTTCCCTACTGCTTAGGGGTATAAGACCCTATAAACATCAGCTTGTTACCCTACTGCTTAG
9596540 GAAGTTAAAGCTCGTTGCTTTCGA
66 GAAGTTAAAGCTCGTTGCTTTCGA
* * *
9596564 TCTGTTTCCCTACTGCTTAGGGCG-ATAATA-TCTATAAACTTCAGCTTGTTACCCTACTGCTTA
1 TCTGTTTCCCTACTGCTTAGGG-GTATAAGACCCTATAAACATCAGCTTGTTACCCTACTGCTTA
**
9596627 GGGGGTTAAAGCT
65 GGAAGTTAAAGCT
9596640 TGGTGGTTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
88 40 0.60
89 26 0.39
90 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (89 bp):
TCTGTTTCCCTACTGCTTAGGGGTATAAGACCCTATAAACATCAGCTTGTTACCCTACTGCTTAG
GAAGTTAAAGCTCGTTGCTTTCGA
Found at i:9597077 original size:44 final size:43
Alignment explanation
Indices: 9597027--9597111 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
9597017 GGAGACAAGA
* *
9597027 TCTGTAATTTTCAGCCTATTACCCTACTTCTTAGGGGGTTAAGG
1 TCTGTAAATTT-AGCCTATTACCCTACTGCTTAGGGGGTTAAGG
* * *
9597071 TCTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAA
1 TCTGTAAATTTAGCCTATTACCCTACTGCTTAGGGGGTTAA
9597112 AGCTCATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 26 0.72
44 10 0.28
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (43 bp):
TCTGTAAATTTAGCCTATTACCCTACTGCTTAGGGGGTTAAGG
Found at i:9605614 original size:19 final size:21
Alignment explanation
Indices: 9605567--9605614 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
9605557 TTTTACAGTG
*
9605567 CTGTTTTAAGTTCTTCTATATT
1 CTGTTTTAAGTTCTTC-AGATT
*
9605589 CTTTTTTAA-TTCTTC-GATT
1 CTGTTTTAAGTTCTTCAGATT
9605608 CTGTTTT
1 CTGTTTT
9605615 GACTAGCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 9 0.39
21 6 0.26
22 8 0.35
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (21 bp):
CTGTTTTAAGTTCTTCAGATT
Found at i:9614112 original size:23 final size:23
Alignment explanation
Indices: 9614086--9614167 Score: 101
Period size: 23 Copynumber: 3.5 Consensus size: 23
9614076 AAAGTGCTGC
9614086 AAATTGAAGTGTTTAAATGCTAT
1 AAATTGAAGTGTTTAAATGCTAT
* * *
9614109 AAATTGAAGTGCTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTAT
* * *
9614132 AAATTGAAGTGTTTTAAGTACTAC
1 AAATTGAAGTG-TTTAAATGCTAT
9614156 AAATTGAAGTGT
1 AAATTGAAGTGT
9614168 GTAGTTGCTG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 32 0.65
24 17 0.35
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGCTAT
Found at i:9614597 original size:19 final size:19
Alignment explanation
Indices: 9614574--9614620 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
9614564 ATTTAATCTA
*
9614574 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
9614592 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
9614612 ATTTTTATT
1 ATTTTTATT
9614621 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:9614964 original size:22 final size:20
Alignment explanation
Indices: 9614906--9614951 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
9614896 GCGTTTTTGG
9614906 AAAAAAGCGCCGCTAAAGGC
1 AAAAAAGCGCCGCTAAAGGC
9614926 AAAAAAGCGCCGCTAAAGGC
1 AAAAAAGCGCCGCTAAAGGC
9614946 AAAAAA
1 AAAAAA
9614952 AAACGCCGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.22, G:0.22, T:0.04
Consensus pattern (20 bp):
AAAAAAGCGCCGCTAAAGGC
Found at i:9615828 original size:25 final size:26
Alignment explanation
Indices: 9615787--9615891 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 26
9615777 TGATACAAAT
9615787 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9615813 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9615838 TGATAATGGGTTAGGTAAAT-TTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9615863 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
9615888 TGAT
1 TGAT
9615892 GGAATTTCAT
Statistics
Matches: 75, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
25 54 0.72
26 21 0.28
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9615842 original size:51 final size:50
Alignment explanation
Indices: 9615787--9615891 Score: 185
Period size: 51 Copynumber: 2.1 Consensus size: 50
9615777 TGATACAAAT
9615787 TGATAATGGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAAT-TTCCATGATAATGGGTTAGGTAAATG-TTCA
9615838 TGATAATGGGTTAGGTAAATTTCCATGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATTTCCATGATAATGGGTTAGGTAAATGTTCA
9615888 TGAT
1 TGAT
9615892 GGAATTTCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
50 20 0.38
51 33 0.62
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (50 bp):
TGATAATGGGTTAGGTAAATTTCCATGATAATGGGTTAGGTAAATGTTCA
Found at i:9617400 original size:25 final size:26
Alignment explanation
Indices: 9617372--9617423 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
9617362 TTTACAGTTT
9617372 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
9617397 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
9617423 T
1 T
9617424 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:9622842 original size:26 final size:26
Alignment explanation
Indices: 9622813--9622945 Score: 250
Period size: 26 Copynumber: 5.2 Consensus size: 26
9622803 TGATACAAAT
9622813 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9622839 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9622865 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9622890 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9622916 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9622942 TGAT
1 TGAT
9622946 GGAATTTCAT
Statistics
Matches: 104, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9622880 original size:51 final size:52
Alignment explanation
Indices: 9622813--9622945 Score: 250
Period size: 51 Copynumber: 2.6 Consensus size: 52
9622803 TGATACAAAT
9622813 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
*
9622865 TGATAAT-GGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
9622916 TGATAATGGGTTAGGTAAATGTTCCATGAT
1 TGATAATGGGTTAGGTAAATGTTCCATGAT
9622946 GGAATTTCAT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
51 50 0.64
52 28 0.36
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
Found at i:9624470 original size:25 final size:26
Alignment explanation
Indices: 9624428--9624479 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
9624418 TTTACAGTTT
9624428 TACCCCTAGGAGATAATT-ACCGAAA
1 TACCCCTAGGAGATAATTGACCGAAA
* *
9624453 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGAT-AATTGACCGAAA
9624479 T
1 T
9624480 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 14 0.61
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGAGATAATTGACCGAAA
Found at i:9625674 original size:42 final size:42
Alignment explanation
Indices: 9625627--9625738 Score: 206
Period size: 42 Copynumber: 2.7 Consensus size: 42
9625617 TGTATGCATT
9625627 TTAGCATTTTAATAGTTAATGGATGATGATGGATAATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGATGGATAATGGGCA
* *
9625669 TTAGCATTTTAATAGTTAATGGATGATAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGATGGATAATGGGCA
9625711 TTAGCATTTTAATAGTTAATGGATGATG
1 TTAGCATTTTAATAGTTAATGGATGATG
9625739 GGCATGGTAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (42 bp):
TTAGCATTTTAATAGTTAATGGATGATGATGGATAATGGGCA
Found at i:9627257 original size:26 final size:26
Alignment explanation
Indices: 9627228--9627280 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9627218 TACAGTTTTA
9627228 CCCCTAGGAGATAAATT-ACCGAAATG
1 CCCCTAGG-GATAAATTGACCGAAATG
* *
9627254 CCCCTAGGGTTAAATTGACCTAAATG
1 CCCCTAGGGATAAATTGACCGAAATG
9627280 C
1 C
9627281 ATGTTTGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (26 bp):
CCCCTAGGGATAAATTGACCGAAATG
Found at i:9636242 original size:28 final size:28
Alignment explanation
Indices: 9636210--9636267 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
9636200 TTTCATTAAG
9636210 ATTAAATAATGGCATAATGCTAATACAT
1 ATTAAATAATGGCATAATGCTAATACAT
9636238 ATTAAATAATGGCATAATGCTAATACAT
1 ATTAAATAATGGCATAATGCTAATACAT
9636266 AT
1 AT
9636268 CCAAGCATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (28 bp):
ATTAAATAATGGCATAATGCTAATACAT
Found at i:9651153 original size:18 final size:18
Alignment explanation
Indices: 9651130--9651193 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
9651120 GAACAATTAT
*
9651130 TTATTCAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* * *
9651148 TTATTCGGTAACAATCAA
1 TTATTCAGTAATAATCAG
*
9651166 TTATTCAATAATAATCAG
1 TTATTCAGTAATAATCAG
*
9651184 TTGTTCAGTA
1 TTATTCAGTA
9651194 TCAATCAACT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:9651199 original size:36 final size:36
Alignment explanation
Indices: 9651121--9651201 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
9651111 TTAACAATCG
* * * * *
9651121 AACAATTATTTATTCAGTAATAGTCAGTTATTCGGT
1 AACAATCAATTATTCAATAATAATCAGTTATTCAGT
*
9651157 AACAATCAATTATTCAATAATAATCAGTTGTTCAGT
1 AACAATCAATTATTCAATAATAATCAGTTATTCAGT
*
9651193 ATCAATCAA
1 AACAATCAA
9651202 CTGATCGGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.37
Consensus pattern (36 bp):
AACAATCAATTATTCAATAATAATCAGTTATTCAGT
Found at i:9653097 original size:22 final size:22
Alignment explanation
Indices: 9653072--9653114 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9653062 GAAATCCCAA
*
9653072 TTTTTCCCTTTTTCCTTCTTTC
1 TTTTTCCCTTCTTCCTTCTTTC
* *
9653094 TTTTTTCCTTCTTCTTTCTTT
1 TTTTTCCCTTCTTCCTTCTTT
9653115 ACCCTGCTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTCCCTTCTTCCTTCTTTC
Found at i:9653100 original size:15 final size:14
Alignment explanation
Indices: 9653080--9653110 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
9653070 AATTTTTCCC
9653080 TTTTTCCTTCTTTCT
1 TTTTTCCTTC-TTCT
9653095 TTTTTCCTTCTTCT
1 TTTTTCCTTCTTCT
9653109 TT
1 TT
9653111 CTTTACCCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTCCTTCTTCT
Found at i:9653323 original size:18 final size:20
Alignment explanation
Indices: 9653292--9653378 Score: 58
Period size: 20 Copynumber: 4.3 Consensus size: 20
9653282 TTCTTTAATC
*
9653292 TATTTA-TTATATAAATATC
1 TATTTACTTATATAAATATA
9653311 T-TTTACTTA-ATAATAATATA
1 TATTTACTTATAT-A-AATATA
* *
9653331 TAATTTAATAATATAAATATA
1 T-ATTTACTTATATAAATATA
9653352 T-TTTACTTA-ATAATAATATA
1 TATTTACTTATAT-A-AATATA
9653372 TAATTTA
1 T-ATTTA
9653379 ATAATATACT
Statistics
Matches: 53, Mismatches: 5, Indels: 17
0.71 0.07 0.23
Matches are distributed among these distances:
18 8 0.15
19 12 0.23
20 13 0.25
21 7 0.13
22 11 0.21
23 2 0.04
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTTACTTATATAAATATA
Found at i:9653341 original size:15 final size:15
Alignment explanation
Indices: 9653321--9653386 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
9653311 TTTTACTTAA
9653321 TAATAATATATAATT
1 TAATAATATATAATT
*
9653336 TAATAATATA-AATA
1 TAATAATATATAATT
**
9653350 T-ATTTTACT-TAA--
1 TAATAATA-TATAATT
9653362 TAATAATATATAATT
1 TAATAATATATAATT
9653377 TAATAATATA
1 TAATAATATA
9653387 CTTATATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
12 2 0.05
13 11 0.28
14 7 0.17
15 20 0.50
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATAATATATAATT
Found at i:9653352 original size:23 final size:21
Alignment explanation
Indices: 9653325--9653396 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
9653315 ACTTAATAAT
9653325 AATATATAATTTAATAATATA
1 AATATATAATTTAATAATATA
*
9653346 AATATAT--TTTACTTAATA-A
1 AATATATAATTTA-ATAATATA
9653365 TAATATATAATTTAATAATATA
1 -AATATATAATTTAATAATATA
**
9653387 CTTATATAAT
1 AATATATAAT
9653397 AAGTAAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 5 0.12
20 12 0.29
21 20 0.48
22 5 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATATAATTTAATAATATA
Found at i:9653379 original size:18 final size:18
Alignment explanation
Indices: 9653317--9653384 Score: 73
Period size: 18 Copynumber: 3.5 Consensus size: 18
9653307 TATCTTTTAC
9653317 TTAATAATAATATATAAT
1 TTAATAATAATATATAAT
* *
9653335 TTAATAATATAAATATATTTTAC
1 TTAAT-A-AT-AATATA--TAAT
9653358 TTAATAATAATATATAAT
1 TTAATAATAATATATAAT
9653376 TTAATAATA
1 TTAATAATA
9653385 TACTTATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 16 0.39
19 1 0.02
20 8 0.20
21 8 0.20
22 1 0.02
23 7 0.17
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATAATAATATATAAT
Found at i:9653393 original size:41 final size:41
Alignment explanation
Indices: 9653300--9653386 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
9653290 TCTATTTATT
*
9653300 ATATAAATATCTTTTACTTAATAATAATATATAATTTAATA
1 ATATAAATATATTTTACTTAATAATAATATATAATTTAATA
9653341 ATATAAATATATTTTACTTAATAATAATATATAATTTAATA
1 ATATAAATATATTTTACTTAATAATAATATATAATTTAATA
9653382 ATATA
1 ATATA
9653387 CTTATATAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (41 bp):
ATATAAATATATTTTACTTAATAATAATATATAATTTAATA
Found at i:9654647 original size:14 final size:15
Alignment explanation
Indices: 9654628--9654683 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
9654618 AATCTTCAAT
9654628 GATATG-CAATCTTA
1 GATATGACAATCTTA
9654642 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
9654659 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
9654677 GATATGA
1 GATATGA
9654684 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:9654672 original size:35 final size:37
Alignment explanation
Indices: 9654626--9654695 Score: 117
Period size: 35 Copynumber: 1.9 Consensus size: 37
9654616 ATAATCTTCA
9654626 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
9654662 ATGAT-TGCAATCTTAGATATGATATGCAATCTTA
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTA
9654696 AAAGATATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
35 19 0.59
36 5 0.16
37 8 0.25
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:9654704 original size:17 final size:19
Alignment explanation
Indices: 9654626--9654695 Score: 119
Period size: 17 Copynumber: 3.8 Consensus size: 19
9654616 ATAATCTTCA
9654626 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9654645 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9654662 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9654680 ATGATATGCAATCTTA
1 ATGATATGCAATCTTA
9654696 AAAGATATGA
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 16 0.33
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:9654723 original size:22 final size:22
Alignment explanation
Indices: 9654626--9654706 Score: 78
Period size: 17 Copynumber: 4.2 Consensus size: 22
9654616 ATAATCTTCA
9654626 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAAAAGAT
9654645 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAAAAGAT
9654662 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAAAAGAT
9654680 ATGATATGCAATCTTAAAAGAT
1 ATGATATGCAATCTTAAAAGAT
9654702 ATGAT
1 ATGAT
9654707 TTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
17 16 0.29
18 16 0.29
19 15 0.27
22 9 0.16
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.36
Consensus pattern (22 bp):
ATGATATGCAATCTTAAAAGAT
Found at i:9663411 original size:221 final size:219
Alignment explanation
Indices: 9662928--9663513 Score: 922
Period size: 221 Copynumber: 2.7 Consensus size: 219
9662918 TAAAGCACAA
* * * * *
9662928 CAGATTTGACCTTCAGGTGTTTACACTGAAGCGAATCCAAGATGATTTAACATCTCTGTATTGTC
1 CAGATTTGGCTTTCACGTGTTTACGCTGAAGC-AATCTAAGATGATTTAACATCTCTGTATTGTC
* *
9662993 AGAGAACAAATCGAAGAAACAGATTCGGCATCTCTATATTCGACGGAGAGCAGATCGAAGACATA
65 AGAGAACAAATAGAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAGACATA
* * ** *
9663058 GCAGATCTAAACTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGTATCCTTGCGTT
130 GCAGATCTAACCTTCGAATGCCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTT
*
9663123 GACAAGGAGCAGATCGAAGATATAG
195 GACAAGGAGCAGATCGAAGACATAG
*
9663148 CAGATTTGGCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTAACATCTCTGTATTGTC
1 CAGATTTGGCTTTCACGTGTTTACGCTGAAGCA-ATCTAAGATGATTTAACATCTCTGTATTGTC
*
9663213 AGAGAACAAATAGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATA
65 AGAGAACAAATAGAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAGACATA
9663278 GCAGATCTAACCTTCGAATGACCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGT
130 GCAGATCTAACCTTCGAATG-CCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGT
*
9663343 TGACAAGGAGCAGATTGAAGACATAG
194 TGACAAGGAGCAGATCGAAGACATAG
** *
9663369 CAGATTTGGCTTTCACGTGTTTACGCTGAAGCATATCTAAGATGATTTGGCATCTCTGTACTGTC
1 CAGATTTGGCTTTCACGTGTTTACGCTGAAGCA-ATCTAAGATGATTTAACATCTCTGTATTGTC
*
9663434 AGAGAACAAATCA-AAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGATTGAAGACAT
65 AGAGAACAAAT-AGAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAGACAT
* *
9663498 AGCAGATTTGACCTTC
129 AGCAGATCTAACCTTC
9663514 ATTGAAGCAG
Statistics
Matches: 338, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
219 1 0.00
220 137 0.41
221 199 0.59
222 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (219 bp):
CAGATTTGGCTTTCACGTGTTTACGCTGAAGCAATCTAAGATGATTTAACATCTCTGTATTGTCA
GAGAACAAATAGAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAGACATAG
CAGATCTAACCTTCGAATGCCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTG
ACAAGGAGCAGATCGAAGACATAG
Found at i:9663588 original size:78 final size:78
Alignment explanation
Indices: 9663455--9663747 Score: 392
Period size: 78 Copynumber: 3.8 Consensus size: 78
9663445 CAAAGAAACA
* * * * *
9663455 GATTTGGCATCTCTATATTCGACGGAGAGCAGATTGAAGACATAGCAGATTTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATTTGACCTTCATTGAA
9663520 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
9663533 GATTTGGCATATCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATTTGACCTTCATTGAA
*
9663598 GCAGATCTAAGAT
66 GCAGATCCAAGAT
* * *
9663611 GATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTTGACCCTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATTTGACCTTCATTGAA
*
9663676 GTAGATCCAAGAT
66 GCAGATCCAAGAT
** ** * *
9663689 GATTTGGCATC-CTTGCGTT-GACAAGGAGCAGATCGAAGACATAGCAGATTTGACTTTCA
1 GATTTGGCATCTC-TGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATTTGACCTTCA
9663748 CGTGTTTATG
Statistics
Matches: 188, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
77 34 0.18
78 154 0.82
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATTTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:9664057 original size:221 final size:221
Alignment explanation
Indices: 9663674--9664085 Score: 716
Period size: 221 Copynumber: 1.9 Consensus size: 221
9663664 ACCCTCATTG
9663674 AAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAGATT
1 AAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAGATT
* * * * *
9663739 TGACTTTCACGTGTTTATGCTGAAGTAGATCTAAGATGATTTAACATCTCTGTATTGTTAGAGAA
66 TGACTTTCACATGCTTACGCTGAAGTAGATCTAAGATGATTTAACATCTCTGTACTGTCAGAGAA
*
9663804 CAAATCAAAGAAACATATTTGGCATCTCCATATTCAATGGAGAGCAGATCGAAGACATAGCGGAT
131 CAAATCAAAGAAACAGATTTGGCATCTCCATATTCAATGGAGAGCAGATCGAAGACATAGCGGAT
9663869 CTAACCTTCGGAGGACCTTCACATCA
196 CTAACCTTCGGAGGACCTTCACATCA
9663895 AAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAGATT
1 AAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAGATT
* **
9663960 TGGCTTTCACATGCTTACGCTGAAGTAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAA
66 TGACTTTCACATGCTTACGCTGAAGTAGATCTAAGATGATTTAACATCTCTGTACTGTCAGAGAA
* **
9664025 TAAATCAAAGAAACAGATTTGGCATCTCCATATTTGATGGAGAGCAGATCGAAGACATAGC
131 CAAATCAAAGAAACAGATTTGGCATCTCCATATTCAATGGAGAGCAGATCGAAGACATAGC
9664086 AAATCTGACC
Statistics
Matches: 179, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
221 179 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (221 bp):
AAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAGATT
TGACTTTCACATGCTTACGCTGAAGTAGATCTAAGATGATTTAACATCTCTGTACTGTCAGAGAA
CAAATCAAAGAAACAGATTTGGCATCTCCATATTCAATGGAGAGCAGATCGAAGACATAGCGGAT
CTAACCTTCGGAGGACCTTCACATCA
Found at i:9664174 original size:78 final size:78
Alignment explanation
Indices: 9664040--9664218 Score: 261
Period size: 78 Copynumber: 2.3 Consensus size: 78
9664030 CAAAGAAACA
** * * *
9664040 GATTTGGCATCTCCATATTTGATGGAGAGCAGATCGAAGACATAGCAAATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAAATCTGACCTTCATTGAA
* *
9664105 GCAGATCTAAGAT
66 GCAGATCCAAAAT
*
9664118 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAAAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAAATCT-GACCTTCATTGA
*
9664182 AGTAGATCCAAAAT
65 AGCAGATCCAAAAT
9664196 GATTTGGCATCTCTGTATTAGAC
1 GATTTGGCATCTCTGTATTAGAC
9664219 AATGAACAGA
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 90 0.99
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAAATCTGACCTTCATTGAA
GCAGATCCAAAAT
Found at i:9664200 original size:585 final size:585
Alignment explanation
Indices: 9663088--9664218 Score: 1906
Period size: 585 Copynumber: 1.9 Consensus size: 585
9663078 TTTTCACATC
* *
9663088 GAAGTAGATCCAAGATGATTTGGTATCCTTGCGTTGACAAGGAGCAGATCGAAGATATAGCAGAT
1 GAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAGAT
*
9663153 TTGGCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGA
66 TTGACTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGA
*
9663218 ACAAATAGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGA
131 ACAAATAGAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAGACATAGCAGA
* *
9663283 TCTAACCTTCGAATGACCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACA
196 TCTAACCTTCGAAGGACCTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACA
* * * *
9663348 AGGAGCAGATTGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCATATCTAAGATG
261 AGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACATGCTTACGCTGAAGCAGATCTAAGATG
*
9663413 ATTTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCTATATTCGAC
326 ATTTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCCATATTCGAC
* * *
9663478 GGAGAGCAGATTGAAGACATAGCAGATTTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCAT
391 GGAGAGCAGATCGAAGACATAGCAAATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCAT
** * *
9663543 ATCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGATCTGACCTTCATTGAAGCAGATCTAA
456 ATCTGTATTAGACGGGGAGCAGATCGAAGACACAACAAATCTGACCTTCATTGAAGCAGATCCAA
* *
9663608 GATGATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTTGACCCTCATT
521 AATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTTGACCCTCATT
9663673 GAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAGAT
1 GAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAGAT
* ** *
9663738 TTGACTTTCACGTGTTTATGCTGAAGTAGATCTAAGATGATTTAACATCTCTGTATTGTTAGAGA
66 TTGACTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGA
* * *
9663803 ACAAATCA-AAGAAACATATTTGGCATCTCCATATTCAATGGAGAGCAGATCGAAGACATAGCGG
131 ACAAAT-AGAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAGACATAGCAG
*
9663867 ATCTAACCTTCGGAGGACCTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGAC
195 ATCTAACCTTCGAAGGACCTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGAC
*
9663932 AAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACATGCTTACGCTGAAGTAGATCTAAGAT
260 AAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACATGCTTACGCTGAAGCAGATCTAAGAT
* *
9663997 GATTTGGCATCTCTGTACTGTCAGAGAATAAATCAAAGAAACAGATTTGGCATCTCCATATTTGA
325 GATTTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCCATATTCGA
* *
9664062 TGGAGAGCAGATCGAAGACATAGCAAATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCA
390 CGGAGAGCAGATCGAAGACATAGCAAATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCA
* * *
9664127 TCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAAAT-TGGACCTTCATTGAAGTAGATCC
455 TATCTGTATTAGACGGGGAGCAGATCGAAGACACAACAAATCT-GACCTTCATTGAAGCAGATCC
9664191 AAAATGATTTGGCATCTCTGTATTAGAC
519 AAAATGATTTGGCATCTCTGTATTAGAC
9664219 AATGAACAGA
Statistics
Matches: 508, Mismatches: 36, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
584 1 0.00
585 506 1.00
586 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (585 bp):
GAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAGAT
TTGACTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGA
ACAAATAGAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAGACATAGCAGA
TCTAACCTTCGAAGGACCTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACA
AGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACATGCTTACGCTGAAGCAGATCTAAGATG
ATTTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCCATATTCGAC
GGAGAGCAGATCGAAGACATAGCAAATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCAT
ATCTGTATTAGACGGGGAGCAGATCGAAGACACAACAAATCTGACCTTCATTGAAGCAGATCCAA
AATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTTGACCCTCATT
Found at i:9664229 original size:78 final size:78
Alignment explanation
Indices: 9664069--9664256 Score: 243
Period size: 78 Copynumber: 2.4 Consensus size: 78
9664059 TGATGGAGAG
* * *
9664069 CAGATCGAAGACATAGCAAATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGT
1 CAGATCGAAGACATAACAAATCTGACCTTCATTGAAGCAGATCCAAAATGATTTGGCATCTCTGT
** *
9664134 ATTAGACGGGGAG
66 ATTAGACAAGGAA
*
9664147 CAGATCGAAGACATAACAAAT-TGGACCTTCATTGAAGTAGATCCAAAATGATTTGGCATCTCTG
1 CAGATCGAAGACATAACAAATCT-GACCTTCATTGAAGCAGATCCAAAATGATTTGGCATCTCTG
*
9664211 TATTAGACAATGAA
65 TATTAGACAAGGAA
* ** * *
9664225 CAGATCTAATTCATAGCAGATCTGACCTTCAT
1 CAGATCGAAGACATAACAAATCTGACCTTCAT
9664257 GTGTTTACAT
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
77 1 0.01
78 93 0.98
79 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (78 bp):
CAGATCGAAGACATAACAAATCTGACCTTCATTGAAGCAGATCCAAAATGATTTGGCATCTCTGT
ATTAGACAAGGAA
Found at i:9664337 original size:44 final size:45
Alignment explanation
Indices: 9664270--9664417 Score: 181
Period size: 45 Copynumber: 3.3 Consensus size: 45
9664260 TTTACATCGA
* * * *
9664270 AGCAGATCCAAGATGACAGATTTGGCATCTTTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* ** *
9664315 AGCAGATTGAAGA-AGTAGATTTGGTGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* * *
9664359 AGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTATATGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
*
9664404 AGCAGATCAAAGAT
1 AGCAGATCGAAGAT
9664418 TGCAGATATC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 37 0.43
45 49 0.57
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
Found at i:9664845 original size:35 final size:37
Alignment explanation
Indices: 9664774--9664871 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
9664764 ATAATCTTCA
9664774 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
9664812 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
9664847 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
9664872 ATTTTGTACT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:9664871 original size:17 final size:19
Alignment explanation
Indices: 9664774--9664864 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
9664764 ATAATCTTCA
9664774 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9664793 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9664812 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9664829 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9664847 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
9664865 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:9667315 original size:38 final size:37
Alignment explanation
Indices: 9667256--9667330 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
9667246 GTAACAGAAA
* * *
9667256 ATGTTAATGAGTGACTGATTTGTAACTTTTTGATAACG
1 ATGTTAATGAGTAACTAATTTGTAAC-TTTCGATAACG
* *
9667294 ATGTTAATGGGTAACTAATTTGTCACTTTCGATAACG
1 ATGTTAATGAGTAACTAATTTGTAACTTTCGATAACG
9667331 TTAATGACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 10 0.31
38 22 0.69
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (37 bp):
ATGTTAATGAGTAACTAATTTGTAACTTTCGATAACG
Found at i:9669122 original size:29 final size:29
Alignment explanation
Indices: 9669080--9669140 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
9669070 TCTTACACAG
9669080 AATGGCTAAGTTGAGTGCTTTTGAGTTTA
1 AATGGCTAAGTTGAGTGCTTTTGAGTTTA
9669109 AATGGCTAAGTTGAGTGCTTTTGAGTTTA
1 AATGGCTAAGTTGAGTGCTTTTGAGTTTA
9669138 AAT
1 AAT
9669141 TTGACAGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (29 bp):
AATGGCTAAGTTGAGTGCTTTTGAGTTTA
Found at i:9678379 original size:17 final size:17
Alignment explanation
Indices: 9678357--9678392 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
9678347 GAATTCATTA
9678357 AAAGAGCTGATGAATCT
1 AAAGAGCTGATGAATCT
9678374 AAAGAGCTGATGAATCT
1 AAAGAGCTGATGAATCT
9678391 AA
1 AA
9678393 GGGACTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (17 bp):
AAAGAGCTGATGAATCT
Found at i:9679927 original size:2 final size:2
Alignment explanation
Indices: 9679920--9679964 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
9679910 AGAAATGAGC
9679920 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9679962 AT A
1 AT A
9679965 CACACGCATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9680093 original size:26 final size:26
Alignment explanation
Indices: 9680031--9680113 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
9680021 GGCATAATCA
* *
9680031 TAAATTTAATTTTCAATGTTTATATTTTT
1 TAAA-TTAAATTT-AATTTTTAT-TTTTT
9680060 T--ATT-AATTTAATTTTTATTTTTT
1 TAAATTAAATTTAATTTTTATTTTTT
* * *
9680083 TAAATTAAATTTGATTATTAATTTTT
1 TAAATTAAATTTAATTTTTATTTTTT
9680109 TAAAT
1 TAAAT
9680114 AGAGTCAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.13
24 8 0.17
25 7 0.15
26 23 0.50
27 1 0.02
29 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (26 bp):
TAAATTAAATTTAATTTTTATTTTTT
Found at i:9683294 original size:35 final size:36
Alignment explanation
Indices: 9683248--9683316 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
9683238 CAGTTTTTTT
9683248 TTATTCTGTCACGGCTGGAGT-CGTGGGCACGACGC
1 TTATTCTGTCACGGCTGGAGTCCGTGGGCACGACGC
9683283 TTATTCTGTCACGGCTGGAGTCGCGTGGGCACGA
1 TTATTCTGTCACGGCTGGAGTC-CGTGGGCACGA
9683317 TGCGGATCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 21 0.66
37 11 0.34
ACGTcount: A:0.14, C:0.25, G:0.35, T:0.26
Consensus pattern (36 bp):
TTATTCTGTCACGGCTGGAGTCCGTGGGCACGACGC
Found at i:9686246 original size:40 final size:40
Alignment explanation
Indices: 9686191--9686271 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
9686181 ACATGCTCAC
*
9686191 AAAGCTTTTGAAACCTCTCAGACAAGTATTCAATCCCATT
1 AAAGCTTTTGAAACCTCTCACACAAGTATTCAATCCCATT
9686231 AAAGCTTTTGAAACCTCTCACACAAGTATTCAATCCCATT
1 AAAGCTTTTGAAACCTCTCACACAAGTATTCAATCCCATT
9686271 A
1 A
9686272 TCAGTTCTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.30
Consensus pattern (40 bp):
AAAGCTTTTGAAACCTCTCACACAAGTATTCAATCCCATT
Found at i:9686559 original size:41 final size:41
Alignment explanation
Indices: 9686462--9686784 Score: 479
Period size: 41 Copynumber: 7.9 Consensus size: 41
9686452 GTAAAACACA
* * * *
9686462 GAGCAATAGCGGCGTTTTTGGTAAAACGCTGCTAAAAA-CA
1 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCG
* * *
9686502 GAGCAATAGCTGCGCTTTTGGTAAAACGCTGCTAAAAGA-CG
1 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA-ACCG
* * *
9686543 GAGCAATAGCGGCGCTTTTAGTAAAATGCCGCTAAAAACCG
1 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCG
*
9686584 GAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAACCG
1 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCG
9686625 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCG
1 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCG
*
9686666 GAGCATTAACGGCGCTTTTGGTAAAACGCCGCTAAAAACCG
1 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCG
* *
9686707 GAGCATTAGCGGCGCTTTTTGTGAAACGCCGCTAAAAACCG
1 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCG
* *
9686748 GAGCATTAGTGGCGCTTTTTGTAAAACGCCGCTAAAA
1 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
9686785 GTCATATAAC
Statistics
Matches: 264, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
40 36 0.14
41 228 0.86
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCG
Found at i:9687290 original size:21 final size:21
Alignment explanation
Indices: 9687249--9687292 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9687239 TTTAATCATT
* *
9687249 TAAAGTTTAGATGATAGGGGG
1 TAAAGGTTAGATGATAAGGGG
9687270 TAAAGGTTAGA-GATTAAGGGG
1 TAAAGGTTAGATGA-TAAGGGG
9687291 TA
1 TA
9687293 GAAGTTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.27
Consensus pattern (21 bp):
TAAAGGTTAGATGATAAGGGG
Found at i:9687359 original size:15 final size:15
Alignment explanation
Indices: 9687329--9687397 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
9687319 TTAAGGTTTA
* *
9687329 GGGGTTAAGAGTTAT
1 GGGGTTTAGGGTTAT
9687344 -GGGTTTACGGGTTAT
1 GGGGTTTA-GGGTTAT
9687359 GGGGTTTAGGGTT-T
1 GGGGTTTAGGGTTAT
* * *
9687373 AGGATATAGGTGTTA-
1 GGGGTTTAGG-GTTAT
9687388 GGGGTTTAGG
1 GGGGTTTAGG
9687398 ATTTAGGGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
14 14 0.33
15 21 0.50
16 7 0.17
ACGTcount: A:0.19, C:0.01, G:0.43, T:0.36
Consensus pattern (15 bp):
GGGGTTTAGGGTTAT
Found at i:9687534 original size:17 final size:17
Alignment explanation
Indices: 9687508--9687551 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
9687498 AATCTATATA
* *
9687508 TTAAATAATTTCAAATT
1 TTAAAAAATTTAAAATT
*
9687525 TTAAAGAA-TTAAAATT
1 TTAAAAAATTTAAAATT
9687541 TTAAAAAATTT
1 TTAAAAAATTT
9687552 TCAAGATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAAAAATTTAAAATT
Found at i:9687549 original size:26 final size:26
Alignment explanation
Indices: 9687520--9687569 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
9687510 AAATAATTTC
9687520 AAATTTTAAAGAATTAAAATTTTAAA
1 AAATTTTAAAGAATTAAAATTTTAAA
* * *
9687546 AAATTTTCAAGATTTCAAATTTTA
1 AAATTTTAAAGAATTAAAATTTTA
9687570 TGTAATTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (26 bp):
AAATTTTAAAGAATTAAAATTTTAAA
Found at i:9692852 original size:43 final size:43
Alignment explanation
Indices: 9692789--9693057 Score: 368
Period size: 43 Copynumber: 6.3 Consensus size: 43
9692779 GATCATTATT
9692789 TTTAGCGGCGTTTG-TGAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCT-AAAAAAGCGCCGCTAAAGGTCATGGTC
* *
9692832 TATAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTTATGGTC
1 TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTCATGGTC
* *
9692875 TTTAGTGGCGTTTTC-AAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
9692917 TTTAGCGGCGTTTG-TGAAAAAAGCGCCGCTAAAGCTCTTGGTT
1 TTTAGCGGCGTTTGCT-AAAAAAGCGCCGCTAAAGGTCATGGTC
* ** *
9692960 TTTAGCGGCGTTT-TTTTAAAAGCGTCAG-TAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCTAAAAAAGCG-CCGCTAAAGGTCATGGTC
*
9693002 TTTAGCGGCGTTTGCTAAAATAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTCATGGTC
9693045 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
9693058 TTCCCGAAAA
Statistics
Matches: 197, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
42 71 0.36
43 125 0.63
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:9693027 original size:128 final size:128
Alignment explanation
Indices: 9692789--9693057 Score: 398
Period size: 128 Copynumber: 2.1 Consensus size: 128
9692779 GATCATTATT
*
9692789 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGCTAAAAAA
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGCTCATGGTCTATAGCGGCGTTTGCTAAAAAA
* * * *
9692854 GCGCCGCTAAAGGTTATGGTCTTTAGTGGCGTTTTCAAAAAAGCGCCGCTAAAGGTCATGGTC
66 GCGCAGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCAAAAAAGCGCCGCTAAAGGTCATGGTC
* * * * **
9692917 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGCTCTTGGTTTTTAGCGGCGTTT-TTTTAAAA
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGCTCATGGTCTATAGCGGCGTTTGCTAAAAAA
*
9692981 GCGTCAG-TAAAGGTCATGGTCTTTAGCGGCGTTTGCTAAAATAGCGCCGCTAAAGGTCATGGTC
66 GCG-CAGCTAAAGGTCATGGTCTTTAGCGGCGTTTGC-AAAAAAGCGCCGCTAAAGGTCATGGTC
9693045 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
9693058 TTCCCGAAAA
Statistics
Matches: 127, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
127 34 0.27
128 93 0.73
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (128 bp):
TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGCTCATGGTCTATAGCGGCGTTTGCTAAAAAA
GCGCAGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:9693059 original size:85 final size:85
Alignment explanation
Indices: 9692789--9693059 Score: 384
Period size: 85 Copynumber: 3.2 Consensus size: 85
9692779 GATCATTATT
* * *
9692789 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGCTAAAAAA
1 TTTAGCGGCGTTT-TTAAAAAAGCGCAGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCTAAAAAA
*
9692854 GCGCCGCTAAAGGTTATGGTC
65 GCGCCGCTAAAGGTCATGGTC
* * *
9692875 TTTAGTGGCGTTTTCAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTG-TGAAAAAA
1 TTTAGCGGCGTTTTTAAAAAAGCGCAGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCT-AAAAAA
* * *
9692939 GCGCCGCTAAAGCTCTTGGTT
65 GCGCCGCTAAAGGTCATGGTC
** *
9692960 TTTAGCGGCGTTTTTTTAAAAGCGTCAG-TAAAGGTCATGGTCTTTAGCGGCGTTTGCTAAAATA
1 TTTAGCGGCGTTTTTAAAAAAGCG-CAGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCTAAAAAA
9693024 GCGCCGCTAAAGGTCATGGTC
65 GCGCCGCTAAAGGTCATGGTC
9693045 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
9693060 CCCGAAAAAC
Statistics
Matches: 166, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
84 1 0.01
85 150 0.90
86 15 0.09
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (85 bp):
TTTAGCGGCGTTTTTAAAAAAGCGCAGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCTAAAAAAG
CGCCGCTAAAGGTCATGGTC
Found at i:9699985 original size:17 final size:17
Alignment explanation
Indices: 9699942--9699989 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
9699932 ACATTGTTTT
*
9699942 TTTATATA-ACATTTAA
1 TTTATATATTCATTTAA
**
9699958 AATAT-TATTCATTTAA
1 TTTATATATTCATTTAA
9699974 TTTATATATTCATTTA
1 TTTATATATTCATTTA
9699990 TATATAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 2 0.08
16 13 0.52
17 10 0.40
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTATATATTCATTTAA
Found at i:9703498 original size:22 final size:21
Alignment explanation
Indices: 9703473--9703517 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9703463 AAAATAAAGC
9703473 AACTAAAAACAAAAAAAAATAA
1 AACTAAAAA-AAAAAAAAATAA
* *
9703495 AACTAAAAAGAAAAGAAATAA
1 AACTAAAAAAAAAAAAAATAA
9703516 AA
1 AA
9703518 TCAATGATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.80, C:0.07, G:0.04, T:0.09
Consensus pattern (21 bp):
AACTAAAAAAAAAAAAAATAA
Found at i:9705212 original size:19 final size:19
Alignment explanation
Indices: 9705184--9705224 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9705174 CAATGTTAAG
9705184 TTTTTGTAT-ATTTTTATGA
1 TTTTTGTATAATTTTTAT-A
*
9705203 TTTTTTTATAATTTTTATA
1 TTTTTGTATAATTTTTATA
9705222 TTT
1 TTT
9705225 CTTATGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTTGTATAATTTTTATA
Found at i:9706768 original size:18 final size:18
Alignment explanation
Indices: 9706747--9706818 Score: 58
Period size: 20 Copynumber: 3.9 Consensus size: 18
9706737 TTAATAAAAA
9706747 ATAAAATATTAAAAATTT
1 ATAAAATATTAAAAATTT
9706765 ATAAAAAATATT-AAAA-TT
1 AT--AAAATATTAAAAATTT
* * *
9706783 GTAAAACATTATAAAATAT
1 ATAAAATATTA-AAAATTT
*
9706802 ATAGAAATATAAAAAAT
1 ATA-AAATATTAAAAAT
9706819 GTACAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
16 7 0.17
18 9 0.21
19 12 0.29
20 14 0.33
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAAAATATTAAAAATTT
Found at i:9706780 original size:28 final size:27
Alignment explanation
Indices: 9706742--9706827 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 27
9706732 AGATTTTAAT
9706742 AAAAA-ATAAAATATTAAAAATTTATA
1 AAAAATATAAAATATTAAAAATTTATA
9706768 AAAAATATTAAAAT-TGTAAAACA-TTATA
1 AAAAATA-TAAAATAT-TAAAA-ATTTATA
* * * *
9706796 AAATATATAGAAATATAAAAAATGTACA
1 AAAAATATA-AAATATTAAAAATTTATA
9706824 AAAA
1 AAAA
9706828 TTTATAAAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
26 5 0.10
27 5 0.10
28 36 0.75
29 2 0.04
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.28
Consensus pattern (27 bp):
AAAAATATAAAATATTAAAAATTTATA
Found at i:9706788 original size:36 final size:36
Alignment explanation
Indices: 9706740--9706863 Score: 92
Period size: 36 Copynumber: 3.4 Consensus size: 36
9706730 TTAGATTTTA
* *
9706740 ATAAAAAA--TAAAATATTA-AAAATTTATAAAAAAT
1 ATAAAAAATGTAAAACATTATAAAATATAT-AAAAAT
* * *
9706774 ATTAAAATTGTAAAACATTATAAAATATATAGAAAT
1 ATAAAAAATGTAAAACATTATAAAATATATAAAAAT
* * * *
9706810 ATAAAAAATGTACAAAAATTTATAAAGTCGTAAAAAAATT
1 ATAAAAAATGTA-AAACA-TTATAAAAT-ATATAAAAA-T
*
9706850 ATACAAAATGTAAA
1 ATAAAAAATGTAAA
9706864 GAAATATAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
34 6 0.09
36 24 0.34
37 12 0.17
38 8 0.11
39 8 0.11
40 12 0.17
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (36 bp):
ATAAAAAATGTAAAACATTATAAAATATATAAAAAT
Found at i:9706828 original size:19 final size:18
Alignment explanation
Indices: 9706766--9706873 Score: 65
Period size: 19 Copynumber: 5.7 Consensus size: 18
9706756 TAAAAATTTA
* *
9706766 TAAAAAATATTAAAATTG
1 TAAAAAATATAAAAAATG
* * *
9706784 TAAAACAT-TATAAAATA
1 TAAAAAATATAAAAAATG
*
9706801 TATAGAAATATAAAAAATG
1 TA-AAAAATATAAAAAATG
* * *
9706820 TACAAAAATTTATAAAGTCG
1 TA-AAAAATATAAAAAAT-G
*
9706840 TAAAAAAATTATACAAAATG
1 T-AAAAAA-TATAAAAAATG
9706860 TAAAGAAATATAAA
1 TAAA-AAATATAAA
9706874 TTTTGTAAAA
Statistics
Matches: 66, Mismatches: 18, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
17 7 0.11
18 11 0.17
19 28 0.42
20 12 0.18
21 8 0.12
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (18 bp):
TAAAAAATATAAAAAATG
Found at i:9706862 original size:20 final size:20
Alignment explanation
Indices: 9706809--9706895 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
9706799 TATATAGAAA
*
9706809 TATAAAAAATGTACAAAAAT
1 TATAAAAAATGTAAAAAAAT
* *
9706829 T-TATAAAGTCGTAAAAAAAT
1 TATAAAAAAT-GTAAAAAAAT
* *
9706849 TATACAAAATGTAAAGAAA-
1 TATAAAAAATGTAAAAAAAT
***
9706868 TATAAATTTTGTAAAAAAAAT
1 TATAAAAAATGT-AAAAAAAT
9706889 TATAAAA
1 TATAAAA
9706896 TTATCGTACC
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
19 14 0.27
20 25 0.49
21 12 0.24
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (20 bp):
TATAAAAAATGTAAAAAAAT
Found at i:9707159 original size:19 final size:20
Alignment explanation
Indices: 9707123--9707164 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
9707113 ATATTTGTAT
9707123 TAAAATTTAATA-AGTTTTC
1 TAAAATTTAATATAGTTTTC
* **
9707142 TAAAATTTATTATTTTTTTC
1 TAAAATTTAATATAGTTTTC
9707162 TAA
1 TAA
9707165 TTTTTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (20 bp):
TAAAATTTAATATAGTTTTC
Found at i:9707553 original size:19 final size:19
Alignment explanation
Indices: 9707529--9707566 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9707519 ATTTTATATG
9707529 ATTTTTAATTTAATAGTTA
1 ATTTTTAATTTAATAGTTA
9707548 ATTTTTAATTTAATAGTTA
1 ATTTTTAATTTAATAGTTA
9707567 TTTCAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTTTTAATTTAATAGTTA
Found at i:9708996 original size:21 final size:22
Alignment explanation
Indices: 9708956--9709005 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
9708946 TTTGTAAAAA
*
9708956 TAAAAATAATAAAAATTGAATT
1 TAAAAATAATAAAAATTGAAAT
* *
9708978 TAAAAATTATAAACA-TGAAAT
1 TAAAAATAATAAAAATTGAAAT
9708999 TAAAAAT
1 TAAAAAT
9709006 CGAAGGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (22 bp):
TAAAAATAATAAAAATTGAAAT
Found at i:9709105 original size:2 final size:2
Alignment explanation
Indices: 9709098--9709138 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9709088 AATTTATTGA
9709098 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9709139 AGTTTCACCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9709391 original size:41 final size:39
Alignment explanation
Indices: 9709324--9709550 Score: 222
Period size: 41 Copynumber: 5.6 Consensus size: 39
9709314 TAATATACAT
* * * *
9709324 TAGCGGCGTTTGT-CCGAAACGCCACTAAAAGCTAAACTA
1 TAGCGGCGTTTTTGCC-AAACGCCACTAAAAGCTGATCAA
* *
9709363 TAGCGGCGTTTTTGCCAAAAACGCCACTAAAAACTGGTCAA
1 TAGCGGCGTTTTTGCC--AAACGCCACTAAAAGCTGATCAA
*
9709404 TAGCGGCGTTTTTATCCAAACGCCACTAAAAGCTGATCAA
1 TAGCGGCGTTTTT-GCCAAACGCCACTAAAAGCTGATCAA
* *
9709444 TAGCGGCGTTTTTGTCCCAAACGCCACAAAAAACTGATCAA
1 TAGCGGCGTTTTTG--CCAAACGCCACTAAAAGCTGATCAA
* * * * * *
9709485 TTGTGGCATTTTTATCCAAAACGCCACTAAAAACTGATTAA
1 TAGCGGCGTTTTT-GCC-AAACGCCACTAAAAGCTGATCAA
9709526 TAGCGGCGTTTTTGGTCCAAACGCC
1 TAGCGGCGTTTTT-G-CCAAACGCC
9709551 GTAAAAAGTT
Statistics
Matches: 156, Mismatches: 24, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
39 12 0.08
40 38 0.24
41 102 0.65
42 4 0.03
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (39 bp):
TAGCGGCGTTTTTGCCAAACGCCACTAAAAGCTGATCAA
Found at i:9709557 original size:81 final size:80
Alignment explanation
Indices: 9709340--9709550 Score: 273
Period size: 81 Copynumber: 2.6 Consensus size: 80
9709330 CGTTTGTCCG
* * *
9709340 AAACGCCACTAAAAGCTAAACT-ATAGCGGCGTTTTTG-CCAAAAACGCCACTAAAAACTGGTCA
1 AAACGCCACTAAAAGCT-GATTAATAGCGGCGTTTTTGTCC--AAACGCCACTAAAAACTGATCA
*
9709403 ATAGCGGCGTTTTTATCC
63 ATAGCGGCATTTTTATCC
* *
9709421 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTTGTCCCAAACGCCACAAAAAACTGATCAAT
1 AAACGCCACTAAAAGCTGATTAATAGCGGCGTTTTTGT-CCAAACGCCACTAAAAACTGATCAAT
* *
9709486 TGTGGCATTTTTATCC
65 AGCGGCATTTTTATCC
*
9709502 AAAACGCCACTAAAAACTGATTAATAGCGGCGTTTTTGGTCCAAACGCC
1 -AAACGCCACTAAAAGCTGATTAATAGCGGCGTTTTT-GTCCAAACGCC
9709551 GTAAAAAGTT
Statistics
Matches: 115, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
80 1 0.01
81 67 0.58
82 43 0.37
83 4 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (80 bp):
AAACGCCACTAAAAGCTGATTAATAGCGGCGTTTTTGTCCAAACGCCACTAAAAACTGATCAATA
GCGGCATTTTTATCC
Found at i:9709900 original size:28 final size:28
Alignment explanation
Indices: 9709840--9709915 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
9709830 TGGCTTTCTG
* *
9709840 TAAACCCTTAAATCTTAAACATTAAACCC
1 TAAACCC-TAAATCTTAAACATTAAAACA
*
9709869 TAAACCCTAAATTTTAAATCA-TAAAACA
1 TAAACCCTAAATCTTAAA-CATTAAAACA
*
9709897 TAAACACT-AATCTATAAAC
1 TAAACCCTAAATCT-TAAAC
9709916 TCCAAAACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 5 0.12
28 26 0.65
29 9 0.22
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (28 bp):
TAAACCCTAAATCTTAAACATTAAAACA
Found at i:9711537 original size:29 final size:29
Alignment explanation
Indices: 9711504--9711577 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
9711494 GTGACGAGAT
*
9711504 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGCGCTGGAAATATA
9711533 TGGCACTAAGTGTGCGCGCTGGAAATATA
1 TGGCACTAAGTGTGCGCGCTGGAAATATA
*
9711562 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
9711578 ATTTACTATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGCGCTGGAAATATA
Found at i:9711587 original size:24 final size:24
Alignment explanation
Indices: 9711560--9711698 Score: 242
Period size: 24 Copynumber: 5.8 Consensus size: 24
9711550 GCTGGAAATA
9711560 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
9711584 TATGGCACTATGTGTGCGATCCAC
1 TATGGCACTATGTGTGCGATTTAC
9711608 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
9711632 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
9711656 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
9711680 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
9711699 ACATAATAAG
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 109 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:9711712 original size:48 final size:48
Alignment explanation
Indices: 9711563--9711720 Score: 205
Period size: 48 Copynumber: 3.3 Consensus size: 48
9711553 GGAAATATAT
*
9711563 GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATCCACT-AT-
1 GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA-ACA-TAATA
** *
9711611 GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTA
1 GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA
**
9711658 TGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATAATA
1 -GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA
*
9711707 AGCACTATGTGTGC
1 GGCACTATGTGTGC
9711721 CACATTCGGT
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
48 89 0.93
49 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (48 bp):
GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA
Found at i:9711712 original size:72 final size:72
Alignment explanation
Indices: 9711559--9711720 Score: 245
Period size: 72 Copynumber: 2.2 Consensus size: 72
9711549 CGCTGGAAAT
*
9711559 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATCCACTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATCCACTATGGCACTATGTGTG
**
9711624 CGATTTA
66 CGACATA
* * * *
9711631 CTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATCCACTATGGCACTATGTGTG
9711696 CGAACATA
66 CG-ACATA
9711704 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
9711721 CACATTCGGT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
72 77 0.94
73 5 0.06
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (72 bp):
ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATCCACTATGGCACTATGTGTG
CGACATA
Found at i:9719337 original size:28 final size:29
Alignment explanation
Indices: 9719304--9719376 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 29
9719294 GTGACGAGAT
*
9719304 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGCGCTGGAAATATA
9719333 T-GCACTAAGTGTGCGCGCTGGAAATATA
1 TGGCACTAAGTGTGCGCGCTGGAAATATA
*
9719361 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
9719377 ATTTACTATG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 27 0.66
29 14 0.34
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGCGCTGGAAATATA
Found at i:9719386 original size:24 final size:24
Alignment explanation
Indices: 9719359--9719497 Score: 242
Period size: 24 Copynumber: 5.8 Consensus size: 24
9719349 GCTGGAAATA
9719359 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
9719383 TATGGCACTATGTGTGCGATCCAC
1 TATGGCACTATGTGTGCGATTTAC
9719407 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
9719431 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
9719455 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
9719479 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
9719498 ACATAATAAG
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 109 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:9719511 original size:48 final size:48
Alignment explanation
Indices: 9719362--9719519 Score: 205
Period size: 48 Copynumber: 3.3 Consensus size: 48
9719352 GGAAATATAT
*
9719362 GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATCCACT-AT-
1 GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA-ACA-TAATA
** *
9719410 GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTA
1 GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA
**
9719457 TGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATAATA
1 -GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA
*
9719506 AGCACTATGTGTGC
1 GGCACTATGTGTGC
9719520 CACATTCGGT
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
48 89 0.93
49 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (48 bp):
GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA
Found at i:9719511 original size:72 final size:72
Alignment explanation
Indices: 9719358--9719519 Score: 245
Period size: 72 Copynumber: 2.2 Consensus size: 72
9719348 CGCTGGAAAT
*
9719358 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATCCACTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATCCACTATGGCACTATGTGTG
**
9719423 CGATTTA
66 CGACATA
* * * *
9719430 CTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATCCACTATGGCACTATGTGTG
9719495 CGAACATA
66 CG-ACATA
9719503 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
9719520 CACATTCGGT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
72 77 0.94
73 5 0.06
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (72 bp):
ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATCCACTATGGCACTATGTGTG
CGACATA
Found at i:9723774 original size:14 final size:15
Alignment explanation
Indices: 9723755--9723784 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9723745 TGTGTTTATA
9723755 TAAATACAT-AATTC
1 TAAATACATAAATTC
9723769 TAAATACATAAATTC
1 TAAATACATAAATTC
9723784 T
1 T
9723785 GAAGTTTGTG
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:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATACATAAATTC
Found at i:9726852 original size:24 final size:24
Alignment explanation
Indices: 9726825--9726892 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
9726815 ATTATTATTG
*
9726825 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
9726849 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
9726873 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
9726893 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Done.