Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 85 of 208
Found at i:29730966 original size:21 final size:21
Alignment explanation
Indices: 29730933--29730972 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
29730923 TAATTAATTG
* *
29730933 TAAATCCTAAACCCCAAACTA
1 TAAACCCTAAACCACAAACTA
*
29730954 TAAACCCTTAACCACAAAC
1 TAAACCCTAAACCACAAAC
29730973 CCCAAACTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCTAAACCACAAACTA
Found at i:29731101 original size:25 final size:26
Alignment explanation
Indices: 29731067--29731118 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
29731057 TATCGTAGAC
*
29731067 ATTAACCATAGATC-TTAAACCC-TAA
1 ATTAACCATA-AACATTAAACCCATAA
29731092 ATTAACCATAAACATTAAACCCATAA
1 ATTAACCATAAACATTAAACCCATAA
29731118 A
1 A
29731119 CCACAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 2 0.08
25 18 0.75
26 4 0.17
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (26 bp):
ATTAACCATAAACATTAAACCCATAA
Found at i:29734955 original size:14 final size:14
Alignment explanation
Indices: 29734936--29734963 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29734926 AGGGTTTCTG
29734936 TGAAAATTTATAAA
1 TGAAAATTTATAAA
29734950 TGAAAATTTATAAA
1 TGAAAATTTATAAA
29734964 AATTTTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
TGAAAATTTATAAA
Found at i:29735025 original size:30 final size:30
Alignment explanation
Indices: 29734948--29735025 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
29734938 AAAATTTATA
*
29734948 AATGAAAATTTATAAAAATTTTGGTAGGTCT
1 AATGAAAATTTA-AAAAATTTTAGTAGGTCT
* * *
29734979 AATTAAAACTTTAAAAATTTTTAG-AGGTTT
1 AATGAAAA-TTTAAAAAATTTTAGTAGGTCT
29735009 AATGAAAATTTAAAAAA
1 AATGAAAATTTAAAAAA
29735026 ATAAAAGAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 8 0.20
30 12 0.30
31 16 0.40
32 4 0.10
ACGTcount: A:0.49, C:0.03, G:0.12, T:0.37
Consensus pattern (30 bp):
AATGAAAATTTAAAAAATTTTAGTAGGTCT
Found at i:29743177 original size:17 final size:17
Alignment explanation
Indices: 29743151--29743189 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
29743141 TACAGCCTAT
*
29743151 CACACGGTCAAGTGTCA
1 CACACAGTCAAGTGTCA
*
29743168 CACACAGTCATGTGTCA
1 CACACAGTCAAGTGTCA
29743185 CACAC
1 CACAC
29743190 GGCCTACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (17 bp):
CACACAGTCAAGTGTCA
Found at i:29743202 original size:12 final size:12
Alignment explanation
Indices: 29743185--29743214 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
29743175 TCATGTGTCA
29743185 CACACGGCCTAC
1 CACACGGCCTAC
29743197 CACACGGCCTAC
1 CACACGGCCTAC
29743209 CACACG
1 CACACG
29743215 ACCGTGTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.50, G:0.17, T:0.07
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:29747259 original size:18 final size:17
Alignment explanation
Indices: 29747227--29747275 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
29747217 GGGTGATAAG
29747227 TAAAAGTTTAGGGGGAAA
1 TAAAAGTTTAGGGGG-AA
*
29747245 TAAAAAGTTT-TGGGGAA
1 T-AAAAGTTTAGGGGGAA
29747262 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
29747276 AATGTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 8 0.31
17 3 0.12
18 7 0.27
19 8 0.31
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.27
Consensus pattern (17 bp):
TAAAAGTTTAGGGGGAA
Found at i:29747649 original size:9 final size:9
Alignment explanation
Indices: 29747635--29747671 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
29747625 TATAGTTTAA
29747635 TATTCGAAT
1 TATTCGAAT
29747644 TATTCGAAT
1 TATTCGAAT
*
29747653 TATTCGAGT
1 TATTCGAAT
29747662 TATTCGAAT
1 TATTCGAAT
29747671 T
1 T
29747672 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:29756776 original size:20 final size:21
Alignment explanation
Indices: 29756736--29756777 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
29756726 CTCACTATTT
29756736 TATTATTATTATTCAAGACTG
1 TATTATTATTATTCAAGACTG
29756757 TATTATT-TTATTTCAA-ACTG
1 TATTATTATTA-TTCAAGACTG
29756777 T
1 T
29756778 GGTATGGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (21 bp):
TATTATTATTATTCAAGACTG
Found at i:29768471 original size:51 final size:51
Alignment explanation
Indices: 29768409--29768576 Score: 183
Period size: 51 Copynumber: 3.3 Consensus size: 51
29768399 AAAGCTAAGG
* * * **
29768409 TGGAGCAGATTAAAGCTGAAGGCAGTGAATCCTATCTCCATGGTGTTACAA
1 TGGAGCAGATTAAAGCTAAAGGCAGCGAATCATATCTCCATGGCATTACAA
* * *
29768460 TGGAGCGGATTAAAGCTAAAAGCAGCGAATCATATCTCCTTGGCATTACAA
1 TGGAGCAGATTAAAGCTAAAGGCAGCGAATCATATCTCCATGGCATTACAA
** * * * * * * *
29768511 TGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAG
1 TGGAGCAGATTAAAGCTAAAGGCAGCGAATCATATCTCCATGGCATTACAA
29768562 TGGAGCAGATTAAAG
1 TGGAGCAGATTAAAG
29768577 TTGAAAGCAA
Statistics
Matches: 96, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 96 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (51 bp):
TGGAGCAGATTAAAGCTAAAGGCAGCGAATCATATCTCCATGGCATTACAA
Found at i:29768591 original size:51 final size:50
Alignment explanation
Indices: 29768409--29768605 Score: 178
Period size: 51 Copynumber: 3.9 Consensus size: 50
29768399 AAAGCTAAGG
* * * * * **
29768409 TGGAGCAGATTAAAGCTGAAGGCAGTGAATCCTATCTCCATGGTGTTACAA
1 TGGAGCAGATTAAAGCT-AAAGCAGCGAATCTTATATCCCTGGCATTACAA
* * * *
29768460 TGGAGCGGATTAAAGCTAAAAGCAGCGAATCATATCTCCTTGGCATTACAA
1 TGGAGCAGATTAAAGCT-AAAGCAGCGAATCTTATATCCCTGGCATTACAA
** * * * * *
29768511 TGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAG
1 TGGAGCAGATTAAAGCTAAA-GCAGCGAATCTTATATCCCTGGCATTACAA
* *
29768562 TGGAGCAGATTAAAGTTGAAAGCAACGAATCTTATATCCCTGGC
1 TGGAGCAGATTAAAGCT-AAAGCAGCGAATCTTATATCCCTGGC
29768606 GTTAAGACTA
Statistics
Matches: 119, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
50 3 0.03
51 113 0.95
52 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (50 bp):
TGGAGCAGATTAAAGCTAAAGCAGCGAATCTTATATCCCTGGCATTACAA
Found at i:29768689 original size:51 final size:51
Alignment explanation
Indices: 29768613--29768720 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 51
29768603 GGCGTTAAGA
* * *
29768613 CTAAAGGCAGCGAATCTTATTTCCTTGGCATTGCAGTGGAACAGATTAAAG
1 CTAAAGGCAGCAAATCGTATTTCCTTAGCATTGCAGTGGAACAGATTAAAG
* *
29768664 CTAAAGGTAGCAAATCGTATTTCCTTAGCATTGCAGTGGAATAGATTAAAG
1 CTAAAGGCAGCAAATCGTATTTCCTTAGCATTGCAGTGGAACAGATTAAAG
*
29768715 ATAAAG
1 CTAAAG
29768721 TAGAGCGGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (51 bp):
CTAAAGGCAGCAAATCGTATTTCCTTAGCATTGCAGTGGAACAGATTAAAG
Found at i:29768804 original size:51 final size:51
Alignment explanation
Indices: 29768748--29768855 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
29768738 GAAGACAACA
* * * *
29768748 AATCTTATCACCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCG
1 AATCTTATCACCCTGGCATTACAGCGAAACAGATTAAAGCTAAAAGTAGCG
* ** *
29768799 AATCTTGTTTCCCTGGCATTACAGCGAAACAGATTAAAGCTAAAGGTAGCG
1 AATCTTATCACCCTGGCATTACAGCGAAACAGATTAAAGCTAAAAGTAGCG
29768850 AATCTT
1 AATCTT
29768856 GTTTCCCTGG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (51 bp):
AATCTTATCACCCTGGCATTACAGCGAAACAGATTAAAGCTAAAAGTAGCG
Found at i:29768856 original size:51 final size:51
Alignment explanation
Indices: 29768761--29768895 Score: 191
Period size: 51 Copynumber: 2.6 Consensus size: 51
29768751 CTTATCACCT
* * *
29768761 TGGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTGTTTCCC
1 TGGCGTTACAGCGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
*
29768812 TGGCATTACAGCGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
1 TGGCGTTACAGCGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
* * *
29768863 TGGTGTTGCAAC-AGAACAGATTAAAGCTAAAGG
1 TGGCGTTACAGCGA-AACAGATTAAAGCTAAAGG
29768896 CAGCAAATAT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
50 1 0.01
51 74 0.99
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (51 bp):
TGGCGTTACAGCGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
Found at i:29768885 original size:312 final size:312
Alignment explanation
Indices: 29768312--29768888 Score: 769
Period size: 312 Copynumber: 1.8 Consensus size: 312
29768302 TTATTACAGT
** * *
29768312 GAATCTTATTTCCCTGGTGTTGCAATGGAATCGATTAAAGCTAAAGGTAAAAAATCTTGTTTCCA
1 GAATCTTATTTCCCTGGCATTGCAATGGAATCGATTAAAGCTAAAGGTAAAAAATCGTATTTCCA
* * * * * ***
29768377 TGGCATTACAGTGGAATAGATTAAAGCTAAGGTGGAGCAGATTAAAGCTGAAGGCAGTGAATCCT
66 TAGCATTACAGTGGAATAGATTAAAGATAAAGTAGAGCAGATTAAAGCTGAAGACAACAAATCCT
* * * * *
29768442 ATCTCCATGGTGTTACAATGGAGCGGATTAAAGCTAAAAGCAGCGAATCATATCTCCTTGGCATT
131 ATCACCATGGCGTTACAATGGAACAGATTAAAGCTAAAAGCAGCGAATCATATCTCCCTGGCATT
* * * *** *
29768507 ACAATGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAGCAGAT
196 ACAACGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAACAGAACAGAT
29768572 TAAAGTTGAAAGCAACGAATCTTATATCCCTGGCGTTAAGACTAAAGGCAGC
261 TAAAGTTGAAAGCAACGAATCTTATATCCCTGGCGTTAAGACTAAAGGCAGC
* * **
29768624 GAATCTTATTTCCTTGGCATTGCAGTGGAA-CAGATTAAAGCTAAAGGTAGCAAATCGTATTTCC
1 GAATCTTATTTCCCTGGCATTGCAATGGAATC-GATTAAAGCTAAAGGTAAAAAATCGTATTTCC
* * * *
29768688 TTAGCATTGCAGTGGAATAGATTAAAGATAAAGTAGAGCGGATTAAAGCTGAAGACAACAAATCT
65 ATAGCATTACAGTGGAATAGATTAAAGATAAAGTAGAGCAGATTAAAGCTGAAGACAACAAATCC
* * * * * *
29768753 TATCACCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTGTTTCCCTGGCAT
130 TATCACCATGGCGTTACAATGGAACAGATTAAAGCTAAAAGCAGCGAATCATATCTCCCTGGCAT
* **
29768818 TACAGCGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGTGTTGCAACAGAACAGA
195 TACAACGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAACAGAACAGA
29768883 TTAAAG
260 TTAAAG
29768889 CTAAAGGCAG
Statistics
Matches: 223, Mismatches: 41, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
311 1 0.00
312 222 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (312 bp):
GAATCTTATTTCCCTGGCATTGCAATGGAATCGATTAAAGCTAAAGGTAAAAAATCGTATTTCCA
TAGCATTACAGTGGAATAGATTAAAGATAAAGTAGAGCAGATTAAAGCTGAAGACAACAAATCCT
ATCACCATGGCGTTACAATGGAACAGATTAAAGCTAAAAGCAGCGAATCATATCTCCCTGGCATT
ACAACGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAACAGAACAGAT
TAAAGTTGAAAGCAACGAATCTTATATCCCTGGCGTTAAGACTAAAGGCAGC
Found at i:29769040 original size:44 final size:44
Alignment explanation
Indices: 29768980--29769404 Score: 266
Period size: 44 Copynumber: 9.8 Consensus size: 44
29768970 GAAGATGGCG
* * * *
29768980 AATCTTATCTCCCTAAAGTTATAGTGAAGCAGATTAAA-ACCAAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGA-CAAC
* * * * *
29769024 AATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAGTTATAAC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAG--ACAAC
* * * *
29769070 --TCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAAATACACC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGACAAC
*
29769112 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA-AAC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGACAAC
* * * * **
29769155 AATCCTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAATG--ATG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAA-GACAAC
* * ** * * *
29769199 GATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA-T--CG-CATC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGACAAC
* * * *
29769239 AAGTCTTATCTCCCTGCAGTTACAGTGGAGCAGACTGAATA-AACC
1 AA-TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGACAA-C
* * *
29769284 AATCTTATCTCCCTGAATTTGCAGTGGAGCAGATTGAAGA-AAC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGACAAC
** * * * **
29769327 AAT-TCTATCTATCTGAAGTTGCAGCGGAGCAGATTAAA-ATGATG
1 AATCT-TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGA-CAAC
* * * *
29769371 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT
29769405 CGCATCAGGT
Statistics
Matches: 301, Mismatches: 62, Indels: 36
0.75 0.16 0.09
Matches are distributed among these distances:
39 1 0.00
40 3 0.01
41 26 0.09
42 6 0.02
43 67 0.22
44 190 0.63
45 5 0.02
46 2 0.01
47 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGACAAC
Found at i:29769215 original size:87 final size:86
Alignment explanation
Indices: 29769113--29769404 Score: 302
Period size: 87 Copynumber: 3.4 Consensus size: 86
29769103 AAATACACCA
*
29769113 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAACAATCCTATCTCCCTGAAGTTGCA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT-AAGAAACAATCCTATCTCCCTGAAGTTGCA
*
29769178 GCGGAGTAGATTGAAATGATGG
65 GCGGAGCAGATTGAAATGATGG
* * * * * * * *
29769200 ATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA-T-CGCATCAAGTCTTATCTCCCTGCAGTTACA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAGAAACAA-TCCTATCTCCCTGAAGTTGCA
* * * ***
29769263 GTGGAGCAGACTG-AATAAACCA
65 GCGGAGCAGATTGAAAT-GATGG
* * * **
29769285 ATCTTATCTCCCTGAATTTGCAGTGGAGCAGATTGAAGAAACAATTCTATCTATCTGAAGTTGCA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT-AAGAAACAATCCTATCTCCCTGAAGTTGCA
*
29769350 GCGGAGCAGATTAAAATGATGG
65 GCGGAGCAGATTGAAATGATGG
* * *
29769372 ATCTTATCTCTCTGAAGTTACAGTAGAGAAGAT
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
29769405 CGCATCAGGT
Statistics
Matches: 158, Mismatches: 41, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
84 8 0.05
85 57 0.36
86 2 0.01
87 83 0.53
88 8 0.05
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (86 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAGAAACAATCCTATCTCCCTGAAGTTGCAG
CGGAGCAGATTGAAATGATGG
Found at i:29769272 original size:172 final size:172
Alignment explanation
Indices: 29769070--29769436 Score: 572
Period size: 172 Copynumber: 2.1 Consensus size: 172
29769060 AAGTTATAAC
* *
29769070 TCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAAATACACCAATCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAATAAACCAATCTTATCTCCCTGAAGTTGCA
* * *
29769135 GTGGAGCAGATTAAAGAAACAATCCTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAATGATGG
66 GTGGAGCAGATTAAAGAAACAATCCTATCTACCTGAAGTTGCAGCGGAGCAGATTAAAATGATGG
** *
29769200 ATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCAAG
131 ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAAG
* * *
29769242 TCTTATCTCCCTGCAGTTACAGTGGAGCAGACTGAATAAACCAATCTTATCTCCCTGAATTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAATAAACCAATCTTATCTCCCTGAAGTTGCA
* * *
29769307 GTGGAGCAGATTGAAGAAACAATTCTATCTATCTGAAGTTGCAGCGGAGCAGATTAAAATGATGG
66 GTGGAGCAGATTAAAGAAACAATCCTATCTACCTGAAGTTGCAGCGGAGCAGATTAAAATGATGG
*
29769372 ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAGG
131 ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAAG
* * *
29769414 TCTTATTTCCTTGAAATTACAGT
1 TCTTATCTCCCTGAAGTTACAGT
29769437 TGAAGCTACA
Statistics
Matches: 176, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
172 176 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (172 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAATAAACCAATCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATTAAAGAAACAATCCTATCTACCTGAAGTTGCAGCGGAGCAGATTAAAATGATGG
ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAAG
Found at i:29769357 original size:128 final size:127
Alignment explanation
Indices: 29769114--29769360 Score: 300
Period size: 128 Copynumber: 1.9 Consensus size: 127
29769104 AATACACCAA
* *
29769114 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAACAATCCTATCTCCCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGAAACAATCCTATCTCCCTGAAGTTGCAG
* *** * * *
29769179 CGGAGTAGATTGAAATGATGGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCAAG
66 CGGAGCAGATTGAAA-GAACAATCTTATCTATCTGAAGTTGCAGCAGAGCAGATCGCATCAAG
* * * * *
29769242 TCTTATCTCCCTGCAGTTACAGTGGAGCAGACTGAATAAACCAATCTTATCTCCCTGAATTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGAAA-CAATCCTATCTCCCTGAAGTTGCA
* *
29769307 GTGGAGCAGATTG-AAGAAACAAT-TCTATCTATCTGAAGTTGCAGCGGAGCAGAT
65 GCGGAGCAGATTGAAAG-AACAATCT-TATCTATCTGAAGTTGCAGCAGAGCAGAT
29769361 TAAAATGATG
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
127 2 0.02
128 65 0.65
129 33 0.33
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (127 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGAAACAATCCTATCTCCCTGAAGTTGCAG
CGGAGCAGATTGAAAGAACAATCTTATCTATCTGAAGTTGCAGCAGAGCAGATCGCATCAAG
Found at i:29772246 original size:3 final size:3
Alignment explanation
Indices: 29772240--29772280 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
29772230 GATTTCGGCA
* * *
29772240 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATC CTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
29772281 CCTTATAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:29772261 original size:15 final size:15
Alignment explanation
Indices: 29772241--29772280 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
29772231 ATTTCGGCAA
**
29772241 TTATTATTATTATTG
1 TTATTATTATTATCC
29772256 TTATTATTATTATCC
1 TTATTATTATTATCC
29772271 TTATTATTAT
1 TTATTATTAT
29772281 CCTTATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (15 bp):
TTATTATTATTATCC
Found at i:29772274 original size:12 final size:12
Alignment explanation
Indices: 29772259--29772286 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
29772249 ATTATTGTTA
29772259 TTATTATTATCC
1 TTATTATTATCC
29772271 TTATTATTATCC
1 TTATTATTATCC
29772283 TTAT
1 TTAT
29772287 AATAATTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATTATTATCC
Found at i:29777513 original size:22 final size:22
Alignment explanation
Indices: 29777488--29777532 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
29777478 CAAACCCATC
29777488 CCACCCCAATCCAA-CCAACACA
1 CCACCCCAA-CCAACCCAACACA
**
29777510 CCACCCGTACCAACCCAACACA
1 CCACCCCAACCAACCCAACACA
29777532 C
1 C
29777533 AATGTGGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.38, C:0.56, G:0.02, T:0.04
Consensus pattern (22 bp):
CCACCCCAACCAACCCAACACA
Found at i:29777661 original size:27 final size:28
Alignment explanation
Indices: 29777631--29777706 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 28
29777621 CAGTATAGGC
*
29777631 GGCAAAGCCACCAGTAACAGTAAT-TGT
1 GGCAGAGCCACCAGTAACAGTAATGTGT
* *
29777658 GGCAGAGCCACCAGTATCAAT-ATGTGT
1 GGCAGAGCCACCAGTAACAGTAATGTGT
* *
29777685 GACAGAGCCACCAGAAACAGTA
1 GGCAGAGCCACCAGTAACAGTA
29777707 CTTCCTCCAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.16
Consensus pattern (28 bp):
GGCAGAGCCACCAGTAACAGTAATGTGT
Found at i:29777852 original size:27 final size:27
Alignment explanation
Indices: 29777815--29778121 Score: 341
Period size: 27 Copynumber: 11.4 Consensus size: 27
29777805 AGGGGTATAA
* *
29777815 TGGTCATTTTACCCTTCGAGGGTATTT
1 TGGTAATTTTACCCATCGAGGGTATTT
** * * *
29777842 TAATAACTTTACCCTTCAAGGGTATTT
1 TGGTAATTTTACCCATCGAGGGTATTT
* * *
29777869 CGGTAATTTTA-CCATCGAAGGTGTTT
1 TGGTAATTTTACCCATCGAGGGTATTT
*** * *
29777895 CAATAATTTTACCCATCGAGAGCATTTT
1 TGGTAATTTTACCCATCGAGGGTA-TTT
*
29777923 TGGTAATTTTACCCATCAAGGGTATTT
1 TGGTAATTTTACCCATCGAGGGTATTT
*
29777950 TAGTAATTTTACCCATCGAGGGTATTT
1 TGGTAATTTTACCCATCGAGGGTATTT
* *
29777977 CGATAATTTTACCCATCGAGGGTATTT
1 TGGTAATTTTACCCATCGAGGGTATTT
29778004 T-GTAATTTTACCCATCGAGGGTATTT
1 TGGTAATTTTACCCATCGAGGGTATTT
*
29778030 T-GTAATTTTACCCATCAAGGGTATTT
1 TGGTAATTTTACCCATCGAGGGTATTT
* * * *
29778056 CGATAATTTTACCAATTGAGGGTATTT
1 TGGTAATTTTACCCATCGAGGGTATTT
*
29778083 TGGTAATTTTACCCATCAAGGGTATTT
1 TGGTAATTTTACCCATCGAGGGTATTT
* *
29778110 CGATAATTTTAC
1 TGGTAATTTTAC
29778122 GGCCCAAGCC
Statistics
Matches: 232, Mismatches: 45, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
26 69 0.30
27 142 0.61
28 21 0.09
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.40
Consensus pattern (27 bp):
TGGTAATTTTACCCATCGAGGGTATTT
Found at i:29780090 original size:73 final size:71
Alignment explanation
Indices: 29779957--29780098 Score: 187
Period size: 73 Copynumber: 2.0 Consensus size: 71
29779947 TCGAATGTGG
* * * *
29779957 CAATAGCATGTTTTTTATATGTTAAACTATAGTGCAATTAGTATGTTCTAATTAGTTTTATCTGA
1 CAATAGCATGTTTTTTATATATTAAACTATAATGCAACTAGTATGTTCTAATTAGCTTTATCTGA
29780022 ATATGC
66 ATATGC
* *
29780028 CAATAGCATGTTTTTTTATCTATTAAACTATATATGCAACTAGTATGTTCTGATCTA-CTTTATC
1 CAATAGCATG-TTTTTTATATATTAAACTATA-ATGCAACTAGTATGTTCTAAT-TAGCTTTATC
*
29780092 TGCATAT
63 TGAATAT
29780099 AGGCATGTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
71 10 0.16
72 19 0.31
73 30 0.49
74 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (71 bp):
CAATAGCATGTTTTTTATATATTAAACTATAATGCAACTAGTATGTTCTAATTAGCTTTATCTGA
ATATGC
Found at i:29786459 original size:22 final size:22
Alignment explanation
Indices: 29786434--29786484 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
29786424 CTCTAGTTAA
* *
29786434 ATTTTGGCCCCAATTAATATTT
1 ATTTTAGCACCAATTAATATTT
*
29786456 ATTTTAGTACCAATTAATATTT
1 ATTTTAGCACCAATTAATATTT
29786478 ATTTTAG
1 ATTTTAG
29786485 TATGTTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (22 bp):
ATTTTAGCACCAATTAATATTT
Found at i:29786485 original size:22 final size:22
Alignment explanation
Indices: 29786443--29786486 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
29786433 AATTTTGGCC
29786443 CCAATTAATATTTATTTTAGTA
1 CCAATTAATATTTATTTTAGTA
29786465 CCAATTAATATTTATTTTAGTA
1 CCAATTAATATTTATTTTAGTA
29786487 TGTTTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (22 bp):
CCAATTAATATTTATTTTAGTA
Found at i:29789059 original size:14 final size:15
Alignment explanation
Indices: 29789040--29789072 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
29789030 TGATTTATGA
29789040 TTTA-TTTGAAATTT
1 TTTATTTTGAAATTT
*
29789054 TTTATTTTGATATTT
1 TTTATTTTGAAATTT
29789069 TTTA
1 TTTA
29789073 CATTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (15 bp):
TTTATTTTGAAATTT
Found at i:29799395 original size:22 final size:21
Alignment explanation
Indices: 29799360--29799455 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
29799350 AAAGGGTATC
* *
29799360 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
29799381 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
29799404 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
29799423 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
29799442 TGCATATCATATCT
1 TACAAATCATATCT
29799456 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 34 0.54
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:29799403 original size:23 final size:22
Alignment explanation
Indices: 29799360--29799417 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
29799350 AAAGGGTATC
* *
29799360 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
29799381 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
29799404 TGCATATCATATCT
1 TACAAATCATATCT
29799418 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:29799420 original size:19 final size:19
Alignment explanation
Indices: 29799396--29799468 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
29799386 AATCATATCT
29799396 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
29799415 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
29799434 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
29799453 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
29799469 CCTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:29800015 original size:132 final size:132
Alignment explanation
Indices: 29799793--29800553 Score: 1224
Period size: 132 Copynumber: 5.8 Consensus size: 132
29799783 TAGGACTTAC
* ** *
29799793 AATCTTCAACCTATTCCACTACTGACCAGGG-AGATATG-ATTACTGGCTTCAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCACT
* * * *
29799856 GTAACCACAGGGAGTTAAAATCCGCCATCTTCGATCTTCTCCACTACTGCTTAGGGAGATAAGAC
64 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
29799921 CTGA
129 CTGA
* * *
29799925 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTTAATGTACTCCATTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* *
29799990 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
*
29800055 CA
131 GA
*
29800057 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAACTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
29800122 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
29800187 GA
131 GA
* *
29800189 AATCTTCCATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
** *
29800254 AACCACAGGGAGGTAAAATCCATCATATTCGATCTGCTCCACTACTGCTTAGGGAG--AAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
29800317 GA
131 GA
* * * *
29800319 AATCTTCAATCTATTCCACTATTGCCCAAGGAAGTAGAATTACTGGGTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* *
29800384 AACCATAGGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
29800449 GA
131 GA
* *
29800451 AATCTTCAATCTATTCCACTGTTGTCCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
29800516 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
29800554 TCGCTGTCAA
Statistics
Matches: 587, Mismatches: 38, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
130 123 0.21
131 1 0.00
132 461 0.79
133 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:29800508 original size:394 final size:395
Alignment explanation
Indices: 29799831--29800553 Score: 1232
Period size: 394 Copynumber: 1.8 Consensus size: 395
29799821 GGGAGATATG
* * * * *
29799831 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGTTAAAATCCGCCATCTTCGATCTTCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATATTCGATCTGCT
* * *
29799896 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGA-AAGACCTGAAATCTTCAATCTATTCCACTATTGCCCAAGGAAGTA
* * * *
29799961 GAATTACTGGCTTTAATGTACTCCATTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTG
130 GAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATATTCGATCTG
*
29800026 CTCCACTACTACTTAGGGAGATAAGACCTCAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAG
195 CTCCACTACTACTTAGGGAGATAAGACCTCAAATCTTCAATCTATTCCACTGTTGTCCAGAGAAG
29800091 TAGAACTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATC
260 TAGAACTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATC
29800156 TGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCCATCTATTCCACTGTTGCCCAGGGA
325 TGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCCATCTATTCCACTGTTGCCCAGGGA
29800221 AGTAGA
390 AGTAGA
*
29800227 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCATCATATTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATATTCGATCTGCT
*
29800292 CCACTACTGCTTAGGGAG-AAGATCTGAAATCTTCAATCTATTCCACTATTGCCCAAGGAAGTAG
66 CCACTACTGCTTAGGGAGAAAGACCTGAAATCTTCAATCTATTCCACTATTGCCCAAGGAAGTAG
* *
29800356 AATTACTGGGTTCAATGTACTCCACTATAACCATAGGGAGGTAAAATCCGCCATATTCGATCTGC
131 AATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATATTCGATCTGC
* * *
29800421 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGAGAAGT
196 TCCACTACTACTTAGGGAGATAAGACCTCAAATCTTCAATCTATTCCACTGTTGTCCAGAGAAGT
* *
29800486 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
261 AGAACTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
29800551 GCT
326 GCT
29800554 TCGCTGTCAA
Statistics
Matches: 305, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
394 228 0.75
396 77 0.25
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (395 bp):
ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATATTCGATCTGCT
CCACTACTGCTTAGGGAGAAAGACCTGAAATCTTCAATCTATTCCACTATTGCCCAAGGAAGTAG
AATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATATTCGATCTGC
TCCACTACTACTTAGGGAGATAAGACCTCAAATCTTCAATCTATTCCACTGTTGTCCAGAGAAGT
AGAACTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
GCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCCATCTATTCCACTGTTGCCCAGGGAA
GTAGA
Found at i:29807349 original size:22 final size:21
Alignment explanation
Indices: 29807314--29807390 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 21
29807304 AAAGGGTATC
* *
29807314 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
29807335 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
29807358 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
29807377 TATATATCATATCT
1 TACAAATCATATCT
29807391 AATATTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 17 0.37
21 4 0.09
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:29807357 original size:23 final size:22
Alignment explanation
Indices: 29807314--29807371 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
29807304 AAAGGGTATC
* *
29807314 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
29807335 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
29807358 TGCATATCATATCT
1 TACAAATCATATCT
29807372 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:29807374 original size:19 final size:19
Alignment explanation
Indices: 29807350--29807422 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
29807340 AATCATATCT
29807350 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
29807369 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
29807388 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
29807407 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
29807423 CCTGAAGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:29812778 original size:38 final size:38
Alignment explanation
Indices: 29812696--29812830 Score: 191
Period size: 38 Copynumber: 3.6 Consensus size: 38
29812686 CCCTATTGAG
* * * * * *
29812696 TACATGTTATGCATGT-CATTGCCAGTGTTGAATTGAA
1 TACATGTTAAGCATGTCCACTGCTAATGTTAAACTGAA
*
29812733 TACATGTTAAGTATGTCCACTGCTAATGTTAAACTGAA
1 TACATGTTAAGCATGTCCACTGCTAATGTTAAACTGAA
29812771 TACATGTTAAGCATGTCCACTGCTAATGTTAAACTGAA
1 TACATGTTAAGCATGTCCACTGCTAATGTTAAACTGAA
*
29812809 TACATGTTAAGCATGTCTACTG
1 TACATGTTAAGCATGTCCACTG
29812831 TTTTGCATTA
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
37 14 0.16
38 74 0.84
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (38 bp):
TACATGTTAAGCATGTCCACTGCTAATGTTAAACTGAA
Found at i:29832438 original size:217 final size:216
Alignment explanation
Indices: 29832039--29832450 Score: 508
Period size: 217 Copynumber: 1.9 Consensus size: 216
29832029 GAGAAAGATT
* * * * *
29832039 ATTGAAGAGATTCCATCTAAAGACTCATTTGATTTAACTGATGAACCAGAAACTAAATCAGACCC
1 ATTGAAGAGATTCCATCTAAAGACTCATATAATTCAACTAATGAACCAGAAACAAAATCAGACCC
*
29832104 CACTTTATAGAGGACATACCTCTGAAGGAAATCATCGGTGACAAAACTCGATCCAAGAAGCCAAA
66 CACTTTATAGAGGACATACCTCTAAAGGAAATCATCGGTGACAAAACTCGATCCAAGAAGCCAAA
* * * * *
29832169 TGTTCCTATGACTGCACAGCAACGTAATAAGAGGTTGAAGCAAGTAGGTGTACCTTCTTTGCTTG
131 TGTGCCTATGACTGCACAGCAACGTAACAAGAAGATGAAGCAAGCAGGTGTACCTTCTTTGCTTG
29832234 TTGAAGCTACTGCCAAGGCAC
196 TTGAAGCTACTGCCAAGGCAC
* ** *
29832255 ATTGAAGAGATTCCA-CTTATAGACTCATATAATTCAGTTAATGAACCAGAAACAAAATCAGGCC
1 ATTGAAGAGATTCCATC-TAAAGACTCATATAATTCAACTAATGAACCAGAAACAAAATCAGACC
* * * * **
29832319 CTAGCTTTGTAGATGG-CATACCTCTAAAGGAAATCATTGGTGGA-AAAGCTCGATCCAAGTGGC
65 CCA-CTTTATAGA-GGACATACCTCTAAAGGAAATCATCGGT-GACAAAACTCGATCCAAGAAGC
* * * * *
29832382 CAAATGTGCAC-ATGACTGCACAGTAATGTAACAAGAAGATGAAGTAAGCGGGTGTACTTTCTTT
127 CAAATGTGC-CTATGACTGCACAGCAACGTAACAAGAAGATGAAGCAAGCAGGTGTACCTTCTTT
*
29832446 TCTTG
191 GCTTG
29832451 CTAAAGATAA
Statistics
Matches: 164, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
215 1 0.01
216 55 0.34
217 103 0.63
218 5 0.03
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (216 bp):
ATTGAAGAGATTCCATCTAAAGACTCATATAATTCAACTAATGAACCAGAAACAAAATCAGACCC
CACTTTATAGAGGACATACCTCTAAAGGAAATCATCGGTGACAAAACTCGATCCAAGAAGCCAAA
TGTGCCTATGACTGCACAGCAACGTAACAAGAAGATGAAGCAAGCAGGTGTACCTTCTTTGCTTG
TTGAAGCTACTGCCAAGGCAC
Found at i:29847904 original size:13 final size:13
Alignment explanation
Indices: 29847888--29847920 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
29847878 GAGAAAATAG
*
29847888 AAAGGAAAAAAAT
1 AAAGAAAAAAAAT
29847901 AAAGAAAAAAAAT
1 AAAGAAAAAAAAT
29847914 AAAGAAA
1 AAAGAAA
29847921 GGAAAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
AAAGAAAAAAAAT
Found at i:29852761 original size:402 final size:402
Alignment explanation
Indices: 29852017--29853625 Score: 2862
Period size: 402 Copynumber: 4.0 Consensus size: 402
29852007 AAATAAAACC
*
29852017 ATGAAAATCCAGAACCATGGTCACCGTTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
1 ATGAAAATCCAGAACCATGGTCACCATTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
29852082 TTACCTATGCATATTCAACAGAAGGGGGTGAGTTTACGTAAACTCAGTGTAATCCCGCAGAAACA
66 TTACCTATGCATATTCAACAGAAGGGGGTGAGTTTACGTAAACTCAGTGTAATCCCGCAGAAACA
*
29852147 AACAAACAGCAATCATAATGCACAGTCAAAAGCGGTTTAGGGCCTAAGCCCTTTTCAGTATCAGT
131 AACAAACAGCAATCATAATGCACAGTCAAAAGCGGTCTAGGGCCTAAGCCCTTTTCAGTATCAGT
* * * *
29852212 ATCAGTTTGCACAAAGGTCTTAACCCATCACAGCATCAGTAACAGATATACAGCATTCAGTAACA
196 ATCAGTTTGCACAAGGGCCTTAGCCCATCACAGCATCAGTAACAGATATACAGTATTCAGTAACA
29852277 ATGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGGGATTAAA
261 ATGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGGGATTAAA
*
29852342 TCAAGCCACCCATCCTTACACTCCAGGTAGTACCGAATGTGGCATAAAACAGTAATTTCCAACTG
326 TCAAGCCACCCATCCTTACACTCCAGGTAGTACCGAATGTGGCATAAAACAGTAATTTCCAGCTG
29852407 AGTTGCCAGTAT
391 AGTTGCCAGTAT
* * *
29852419 ATGAAAATCCAGAACCATGGTTACCGTTGAGTCCTCCGTCGTACCAATCCATCTAGGTCTGGAGA
1 ATGAAAATCCAGAACCATGGTCACCATTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
29852484 TTACCTATGCATATTCAACAGAAGGGGGTGAGTTTACGTAAACTCAGTGTAATCCCGCAGAAACA
66 TTACCTATGCATATTCAACAGAAGGGGGTGAGTTTACGTAAACTCAGTGTAATCCCGCAGAAACA
29852549 AACAAACAGCAATCATAATGCACAGTCAAAAGCGGTCTAGGGCCTAAGCCCTTTTCAGTATCAGT
131 AACAAACAGCAATCATAATGCACAGTCAAAAGCGGTCTAGGGCCTAAGCCCTTTTCAGTATCAGT
*
29852614 ATCAGTTTGCACAAGGGTCTTAGCCCATCACAGCATCAGTAACAGATATACAGTATTCAGTAACA
196 ATCAGTTTGCACAAGGGCCTTAGCCCATCACAGCATCAGTAACAGATATACAGTATTCAGTAACA
29852679 ATGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGGGATTAAA
261 ATGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGGGATTAAA
*
29852744 TCAAGCCACCCATCCTTACACTCCAGGTAGTACCGAATGTGGCATAAAACAGTAATTTGCAGCTG
326 TCAAGCCACCCATCCTTACACTCCAGGTAGTACCGAATGTGGCATAAAACAGTAATTTCCAGCTG
29852809 AGTTGCCAGTAT
391 AGTTGCCAGTAT
*
29852821 ATGAAAATCCAGAACCATGGTTACCATTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
1 ATGAAAATCCAGAACCATGGTCACCATTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
* *
29852886 TTACCTATGCATATTCAACAGAATGGGGTGAGTTTACGTAAACTCAATGTAATCCCGCAGAAACA
66 TTACCTATGCATATTCAACAGAAGGGGGTGAGTTTACGTAAACTCAGTGTAATCCCGCAGAAACA
* * *
29852951 AACAAATAGCAATCATAATGCACAGTCAGAAGCGGTCTTGGGCCTAAGCCCTTTTCAGTATCAGT
131 AACAAACAGCAATCATAATGCACAGTCAAAAGCGGTCTAGGGCCTAAGCCCTTTTCAGTATCAGT
*
29853016 ATTAGTTTGCACAAGGGCCTTAGCCCATCACAGCATCAGTAACAGATATACAGTATTCAGTAACA
196 ATCAGTTTGCACAAGGGCCTTAGCCCATCACAGCATCAGTAACAGATATACAGTATTCAGTAACA
*
29853081 ATGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTAGGATTAAA
261 ATGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGGGATTAAA
* * * *
29853146 TCAACCCACCCATCCTTACATTCCAGGTAGTACCGAATGTAGCATAAAACAGTAATTTGCAGCTG
326 TCAAGCCACCCATCCTTACACTCCAGGTAGTACCGAATGTGGCATAAAACAGTAATTTCCAGCTG
*
29853211 AGTTACCAGTAT
391 AGTTGCCAGTAT
29853223 ATG-AAATCCAGAACCATGGTCACCATTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
1 ATGAAAATCCAGAACCATGGTCACCATTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
* * *
29853287 TTACATGTGCATATTCAACAGAAGGGGGTGAGTTTACGTAAACTCAGTGTAATCCCGCAAAAACA
66 TTACCTATGCATATTCAACAGAAGGGGGTGAGTTTACGTAAACTCAGTGTAATCCCGCAGAAACA
* * *
29853352 AACAAACAGCAATCATAATGCACAGTCAGAAGCGGTCTTGGGCCTAAGCCCTTTTCAATATCAGT
131 AACAAACAGCAATCATAATGCACAGTCAAAAGCGGTCTAGGGCCTAAGCCCTTTTCAGTATCAGT
*
29853417 ATCAGTTTGCACAAGGGCCTTAGCCCATCACAGCATCAGTAACCGATATACAGTATTCAGTAACA
196 ATCAGTTTGCACAAGGGCCTTAGCCCATCACAGCATCAGTAACAGATATACAGTATTCAGTAACA
* *
29853482 ATGTCCTACCCAACCAGCCTCTACACACCATCTCCATCCAACCCTACACTTCATGTGGGATTAAA
261 ATGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGGGATTAAA
* *
29853547 TCAA-CTCACCCATCCTTACACTCCAGGTAGTACCGAATGCGGCATAAAATAGTAATTTCCAGCT
326 TCAAGC-CACCCATCCTTACACTCCAGGTAGTACCGAATGTGGCATAAAACAGTAATTTCCAGCT
*
29853611 GAGCTGCCAGTAT
390 GAGTTGCCAGTAT
29853624 AT
1 AT
29853626 TAGGCTTAAG
Statistics
Matches: 1164, Mismatches: 42, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
400 1 0.00
401 378 0.32
402 785 0.67
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (402 bp):
ATGAAAATCCAGAACCATGGTCACCATTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
TTACCTATGCATATTCAACAGAAGGGGGTGAGTTTACGTAAACTCAGTGTAATCCCGCAGAAACA
AACAAACAGCAATCATAATGCACAGTCAAAAGCGGTCTAGGGCCTAAGCCCTTTTCAGTATCAGT
ATCAGTTTGCACAAGGGCCTTAGCCCATCACAGCATCAGTAACAGATATACAGTATTCAGTAACA
ATGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGGGATTAAA
TCAAGCCACCCATCCTTACACTCCAGGTAGTACCGAATGTGGCATAAAACAGTAATTTCCAGCTG
AGTTGCCAGTAT
Found at i:29856061 original size:14 final size:14
Alignment explanation
Indices: 29856032--29856060 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29856022 AAACTCTCTC
29856032 TTCTTTTTTTCTTT
1 TTCTTTTTTTCTTT
29856046 TTCTTTTTTT-TTT
1 TTCTTTTTTTCTTT
29856059 TT
1 TT
29856061 TGTGAATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTCTTTTTTTCTTT
Found at i:29860247 original size:42 final size:43
Alignment explanation
Indices: 29860192--29860281 Score: 155
Period size: 42 Copynumber: 2.1 Consensus size: 43
29860182 TTATTTTAAC
*
29860192 TCTTTGATGTCATTTATACTTCTATACAACTTCCCATTTCTT-
1 TCTTTAATGTCATTTATACTTCTATACAACTTCCCATTTCTTA
*
29860234 TCTTTAATGTCATTTATACTTCTATACAACTTCTCATTTCTTA
1 TCTTTAATGTCATTTATACTTCTATACAACTTCCCATTTCTTA
29860277 TCTTT
1 TCTTT
29860282 GGGTTCCTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 40 0.89
43 5 0.11
ACGTcount: A:0.22, C:0.22, G:0.03, T:0.52
Consensus pattern (43 bp):
TCTTTAATGTCATTTATACTTCTATACAACTTCCCATTTCTTA
Found at i:29860270 original size:24 final size:24
Alignment explanation
Indices: 29860201--29860272 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
29860191 CTCTTTGATG
29860201 TCATTTATACTTCTATACAACTTC
1 TCATTTATACTTCTATACAACTTC
* * * *
29860225 CCATTTCT--TTCT-T-TAA--TG
1 TCATTTATACTTCTATACAACTTC
29860243 TCATTTATACTTCTATACAACTTC
1 TCATTTATACTTCTATACAACTTC
29860267 TCATTT
1 TCATTT
29860273 CTTATCTTTG
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
18 7 0.21
20 6 0.18
21 2 0.06
22 6 0.18
24 13 0.38
ACGTcount: A:0.25, C:0.24, G:0.01, T:0.50
Consensus pattern (24 bp):
TCATTTATACTTCTATACAACTTC
Found at i:29869530 original size:9 final size:9
Alignment explanation
Indices: 29869518--29869567 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
29869508 AAACTAGTAA
*
29869518 ATTATTAGT
1 ATTATTATT
*
29869527 ATTAGTATT
1 ATTATTATT
*
29869536 ATTAATATT
1 ATTATTATT
*
29869545 ATTATTAAT
1 ATTATTATT
*
29869554 ATTATTTTT
1 ATTATTATT
29869563 ATTAT
1 ATTAT
29869568 CATCATATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (9 bp):
ATTATTATT
Found at i:29869547 original size:12 final size:12
Alignment explanation
Indices: 29869518--29869559 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
29869508 AAACTAGTAA
* *
29869518 ATTATTAGTATT
1 ATTATTATTAAT
*
29869530 AGTATTATTAAT
1 ATTATTATTAAT
29869542 ATTATTATTAAT
1 ATTATTATTAAT
29869554 ATTATT
1 ATTATT
29869560 TTTATTATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (12 bp):
ATTATTATTAAT
Found at i:29870308 original size:73 final size:71
Alignment explanation
Indices: 29870190--29870331 Score: 230
Period size: 73 Copynumber: 2.0 Consensus size: 71
29870180 TCTTTTCAAA
* * *
29870190 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCGGAAAGTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGAT-CC
29870255 CTTTTTC
65 CTTTTTC
*
29870262 CTCAAGTTTTTAAACGATCTCGGAAAGTAAGAAAAGATCGTGTCCTAACTTACTGGGCCTGATCC
1 CTCAAG-TTTTAAACGATCTCGGAAAGTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCC
29870327 CTTTT
65 CTTTT
29870332 CTAAACCCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
72 13 0.20
73 52 0.80
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATCTCGGAAAGTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
TTTTTC
Found at i:29879718 original size:14 final size:13
Alignment explanation
Indices: 29879696--29879729 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
29879686 AAAGTATTTT
*
29879696 AAAATTAAAAATTA
1 AAAAATAAAAA-TA
29879710 AAAAATAAAAATA
1 AAAAATAAAAATA
29879723 AAAAATA
1 AAAAATA
29879730 TATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:29902414 original size:19 final size:20
Alignment explanation
Indices: 29902390--29902427 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
29902380 AGTTATAGAA
29902390 GATCTATGGAC-CTTAAAAG
1 GATCTATGGACTCTTAAAAG
29902409 GATCTATGGACTCTTAAAA
1 GATCTATGGACTCTTAAAA
29902428 ATCCTTAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (20 bp):
GATCTATGGACTCTTAAAAG
Found at i:29905797 original size:25 final size:24
Alignment explanation
Indices: 29905751--29905797 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
29905741 TCAAAGCTTA
* *
29905751 ATTTTTTAACAAATTTAAAAATAT
1 ATTTTTTAAAAAAATTAAAAATAT
*
29905775 ATTTTTTAAAAAAAATTATAAAT
1 ATTTTTT-AAAAAAATTAAAAAT
29905798 TTCTTAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTTTTTAAAAAAATTAAAAATAT
Found at i:29909844 original size:15 final size:15
Alignment explanation
Indices: 29909824--29909857 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
29909814 TAGAATTACA
29909824 AAAAATTAAGATATT
1 AAAAATTAAGATATT
**
29909839 AAAAATTTTGATATT
1 AAAAATTAAGATATT
29909854 AAAA
1 AAAA
29909858 CAAATTAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
AAAAATTAAGATATT
Found at i:29921827 original size:41 final size:41
Alignment explanation
Indices: 29921770--29922006 Score: 316
Period size: 41 Copynumber: 5.8 Consensus size: 41
29921760 CCTTTCATGG
* *
29921770 CTTTAGCGGCGTTTTTGGAAAAGCGTCGCTAATGCCTGGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCTAGGT
* *
29921811 CTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCCCAGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCTAGGT
* * * *
29921852 CTTTAGCGGCATTTTTAGAAAAGCACCGCTAATGCCCAGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCTAGGT
*
29921893 CTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCCT-GGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCTAGGT
* * *
29921933 TTTTAGCGGCGTTTTTGGAAAAAGCGCCGCTAATG-GTAGGGG
1 CTTTAGCGGCGTTTTTGG-AAAAGCGCCGCTAATGCCTA-GGT
* *
29921975 CTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
29922007 AAATATTTTA
Statistics
Matches: 175, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 20 0.11
41 138 0.79
42 17 0.10
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCTAGGT
Found at i:29922437 original size:42 final size:43
Alignment explanation
Indices: 29922366--29922449 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 43
29922356 GAGGGAGTAT
*
29922366 GGATTTAAGGATTATGTATCAGGGATTATGG-TTTAAGGGTTG
1 GGATTTAAGGATTAGGTATCAGGGATTATGGATTTAAGGGTTG
* * * * *
29922408 GGATTTAAGGTTTAGGTGTTAGGGTTTATGGATTTAGGGGTT
1 GGATTTAAGGATTAGGTATCAGGGATTATGGATTTAAGGGTT
29922450 AGACATTATG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
42 26 0.74
43 9 0.26
ACGTcount: A:0.23, C:0.01, G:0.36, T:0.40
Consensus pattern (43 bp):
GGATTTAAGGATTAGGTATCAGGGATTATGGATTTAAGGGTTG
Found at i:29925733 original size:42 final size:41
Alignment explanation
Indices: 29925687--29925895 Score: 150
Period size: 43 Copynumber: 4.9 Consensus size: 41
29925677 TTTAATAAAA
*
29925687 ATGCTTTTAGTGGCGTTTTCTATAAAAGCGTCGCTAAAGGTC
1 ATGCTTTTAGTGGCGTTTT-TATAAAAGCGCCGCTAAAGGTC
** * ** *
29925729 ATGCTTTTTAGCT-GCGCTTTGAAAAAAAATGCCGCTAAAAGTC
1 ATGC-TTTTAG-TGGCG-TTTTTATAAAAGCGCCGCTAAAGGTC
* * * *
29925772 CTGTTCTTTAGCGGCGTTTTTAATAAAATCGCCGCTAAAGGTC
1 ATGCT-TTTAGTGGCGTTTTT-ATAAAAGCGCCGCTAAAGGTC
* * * *
29925815 TTGTTCTTTAGTGGCGTTTTTTTCAAAGCGCCGCTAAAGGTC
1 ATGCT-TTTAGTGGCGTTTTTATAAAAGCGCCGCTAAAGGTC
* * * *
29925857 ATGACCTTTAGCGGCGTTTATTTCTAAAAACGCCGCTAA
1 ATG-CTTTTAGTGGCG-TT-TTTATAAAAGCGCCGCTAA
29925896 TGTTAGCAAC
Statistics
Matches: 130, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
42 37 0.28
43 73 0.56
44 20 0.15
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (41 bp):
ATGCTTTTAGTGGCGTTTTTATAAAAGCGCCGCTAAAGGTC
Found at i:29948606 original size:16 final size:18
Alignment explanation
Indices: 29948567--29948600 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29948557 AAAGTTTATA
29948567 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
29948584 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
29948601 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:29948714 original size:25 final size:23
Alignment explanation
Indices: 29948686--29948738 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
29948676 AAGATGACTG
29948686 TATAAAAAATTTCATCAAATAAAAA
1 TATAAAAAA-TT-ATCAAATAAAAA
* * *
29948711 TATATAAAATTATTAAATAATAA
1 TATAAAAAATTATCAAATAAAAA
29948734 TATAA
1 TATAA
29948739 TATAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 14 0.58
24 2 0.08
25 8 0.33
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (23 bp):
TATAAAAAATTATCAAATAAAAA
Found at i:29948740 original size:5 final size:5
Alignment explanation
Indices: 29948730--29948771 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
29948720 TTATTAAATA
* *
29948730 ATAAT ATAAT ATAAT ATAAT ATAA- AAAATT AAAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT AT
29948772 GGGTGGACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 3 0.09
5 26 0.79
6 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:29949502 original size:9 final size:9
Alignment explanation
Indices: 29949488--29949545 Score: 73
Period size: 9 Copynumber: 6.4 Consensus size: 9
29949478 GTAGTGATTC
*
29949488 AATTTGGTT
1 AATTCGGTT
*
29949497 AATTTGGTT
1 AATTCGGTT
29949506 AATTCAGG-T
1 AATTC-GGTT
*
29949515 AATTCGGGT
1 AATTCGGTT
29949524 AATTCGGTT
1 AATTCGGTT
29949533 AATTCGGTT
1 AATTCGGTT
29949542 AATT
1 AATT
29949546 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
8 2 0.04
9 41 0.91
10 2 0.04
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:29949694 original size:12 final size:12
Alignment explanation
Indices: 29949677--29949701 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29949667 TGTTATTACG
29949677 GGTCGGTTAACC
1 GGTCGGTTAACC
29949689 GGTCGGTTAACC
1 GGTCGGTTAACC
29949701 G
1 G
29949702 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:29951220 original size:15 final size:17
Alignment explanation
Indices: 29951189--29951220 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
29951179 GTCCTGTTTG
29951189 TTCTTAATTTCATAAAT
1 TTCTTAATTTCATAAAT
29951206 TTCTT-ATTT-ATAAAT
1 TTCTTAATTTCATAAAT
29951221 CTTATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (17 bp):
TTCTTAATTTCATAAAT
Found at i:29952079 original size:28 final size:28
Alignment explanation
Indices: 29952048--29952108 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
29952038 CTCGAAGTTC
**
29952048 AAAACCTCAAATCCGCAATTTGAAATTT
1 AAAACCTCAAATCCAAAATTTGAAATTT
* *
29952076 AAAACTTCAAATCTAAAATTTGAAATTT
1 AAAACCTCAAATCCAAAATTTGAAATTT
29952104 AAAAC
1 AAAAC
29952109 TTAAAACCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAACCTCAAATCCAAAATTTGAAATTT
Found at i:29952087 original size:14 final size:14
Alignment explanation
Indices: 29952070--29952110 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
29952060 CCGCAATTTG
29952070 AAATTTAAAACTTC
1 AAATTTAAAACTTC
* * *
29952084 AAATCTAAAATTTG
1 AAATTTAAAACTTC
29952098 AAATTTAAAACTT
1 AAATTTAAAACTT
29952111 AAAACCCAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (14 bp):
AAATTTAAAACTTC
Found at i:29952121 original size:28 final size:28
Alignment explanation
Indices: 29952064--29952121 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
29952054 TCAAATCCGC
* * *
29952064 AATTTGAAATTTAAAACTTCAAATCTAA
1 AATTTGAAATTTAAAACTTAAAACCCAA
29952092 AATTTGAAATTTAAAACTTAAAACCCAA
1 AATTTGAAATTTAAAACTTAAAACCCAA
29952120 AA
1 AA
29952122 AAAATTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.31
Consensus pattern (28 bp):
AATTTGAAATTTAAAACTTAAAACCCAA
Found at i:29952394 original size:30 final size:29
Alignment explanation
Indices: 29952361--29952416 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
29952351 AAAAAGCCTT
*
29952361 TTTTTTCAA-TATTTATCGAAATGGGCCGG
1 TTTTTT-AATTATTTACCGAAATGGGCCGG
*
29952390 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATTATTTACCGAAATGGGCC
29952417 ATTTTCAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (29 bp):
TTTTTTAATTATTTACCGAAATGGGCCGG
Found at i:29953389 original size:29 final size:29
Alignment explanation
Indices: 29953355--29953410 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
29953345 CGCGGAAAAT
29953355 GGCCCATTCCGGTAAATAATT-AAAAAACC
1 GGCCCATTCCGGTAAAT-ATTGAAAAAACC
**
29953384 GGCCCATTTTGGTAAATATTGAAAAAA
1 GGCCCATTCCGGTAAATATTGAAAAAA
29953411 AGGGCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATATTGAAAAAACC
Found at i:29959486 original size:22 final size:22
Alignment explanation
Indices: 29959458--29959502 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
29959448 CTACAAGGGG
29959458 TATGCTTTACTTTATTTATCTA
1 TATGCTTTACTTTATTTATCTA
29959480 TATGCTTTACTTTATTTATCTA
1 TATGCTTTACTTTATTTATCTA
29959502 T
1 T
29959503 CTTTCGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.60
Consensus pattern (22 bp):
TATGCTTTACTTTATTTATCTA
Found at i:29971213 original size:23 final size:23
Alignment explanation
Indices: 29971174--29971218 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
29971164 TTAAAATCTA
*
29971174 AAAAATAGAAAGATTAATTTTCT
1 AAAAATAGAAAGATTAAATTTCT
*
29971197 AAAAATA-AAAGGGTTAAATTTC
1 AAAAATAGAAA-GATTAAATTTC
29971219 AAATGCACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.31
Consensus pattern (23 bp):
AAAAATAGAAAGATTAAATTTCT
Found at i:29977840 original size:14 final size:14
Alignment explanation
Indices: 29977821--29977852 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
29977811 TGAAAATACA
29977821 TATAAAAAAGTCTT
1 TATAAAAAAGTCTT
29977835 TATAAAAAAGTCTT
1 TATAAAAAAGTCTT
29977849 TATA
1 TATA
29977853 CTTAAATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (14 bp):
TATAAAAAAGTCTT
Found at i:29979328 original size:24 final size:24
Alignment explanation
Indices: 29979301--29979352 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
29979291 TTCATAGGTC
*
29979301 AAATAAATTATACTAATAAATATT
1 AAATAAATTATACTAATAAATACT
*
29979325 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
29979349 AAAT
1 AAAT
29979353 CTTCTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:29979641 original size:27 final size:23
Alignment explanation
Indices: 29979583--29979639 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 23
29979573 GCCCGACCCG
*
29979583 TTTTTAAATAAAATTAAAATTAT
1 TTTTTAAATAAAATTAAAATAAT
29979606 TTTTTAAATAAAATTAAAACTAAT
1 TTTTTAAATAAAATTAAAA-TAAT
29979630 TGTTATTAAA
1 T-TT-TTAAA
29979640 ATTAATTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 19 0.63
24 4 0.13
25 2 0.07
26 5 0.17
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TTTTTAAATAAAATTAAAATAAT
Found at i:29979657 original size:16 final size:16
Alignment explanation
Indices: 29979620--29979659 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
29979610 TAAATAAAAT
* *
29979620 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
29979636 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
29979652 TAAAATTA
1 TAAAATTA
29979660 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:29979764 original size:68 final size:68
Alignment explanation
Indices: 29979648--29979925 Score: 515
Period size: 68 Copynumber: 4.1 Consensus size: 68
29979638 AAATTAATTG
* *
29979648 TTAGTAAAATTATCAAATTATT-ATT-TGTTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
29979711 TGA
66 TGA
29979714 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
29979779 TGA
66 TGA
29979782 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
29979847 TGA
66 TGA
*
29979850 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
29979915 TGA
66 TGA
29979918 TTAGTAAA
1 TTAGTAAA
29979926 ACAAACTTGA
Statistics
Matches: 207, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
66 21 0.10
67 3 0.01
68 183 0.88
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:29979765 original size:9 final size:9
Alignment explanation
Indices: 29979732--29979759 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
29979722 TTTATCAAAT
29979732 TATTAATTG
1 TATTAATTG
29979741 TATTAATTG
1 TATTAATTG
29979750 TATTAATTG
1 TATTAATTG
29979759 T
1 T
29979760 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:29979833 original size:9 final size:9
Alignment explanation
Indices: 29979800--29979827 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
29979790 TTTATCAAAT
29979800 TATTAATTG
1 TATTAATTG
29979809 TATTAATTG
1 TATTAATTG
29979818 TATTAATTG
1 TATTAATTG
29979827 T
1 T
29979828 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:29979880 original size:9 final size:9
Alignment explanation
Indices: 29979868--29979895 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
29979858 TTTATCAAAT
29979868 TATTAATTG
1 TATTAATTG
29979877 TATTAATTG
1 TATTAATTG
29979886 TATTAATTG
1 TATTAATTG
29979895 T
1 T
29979896 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:29980021 original size:24 final size:24
Alignment explanation
Indices: 29979992--29980066 Score: 116
Period size: 24 Copynumber: 3.0 Consensus size: 24
29979982 AAATAAACTT
29979992 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
29980016 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
29980040 AAAATAAAAATA-TATATATATATTTA
1 AAAATAAAAA-ACTAT-TATAT-TTTA
29980066 A
1 A
29980067 TATTTTCGGG
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
24 37 0.77
25 6 0.12
26 5 0.10
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:29985084 original size:18 final size:18
Alignment explanation
Indices: 29985057--29985093 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29985047 TTATTTATTA
* *
29985057 AAGGTTAATAAGGAAAAT
1 AAGGTAAATAAAGAAAAT
29985075 AAGGTAAATAAAGAAAAT
1 AAGGTAAATAAAGAAAAT
29985093 A
1 A
29985094 CTAATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (18 bp):
AAGGTAAATAAAGAAAAT
Found at i:29987025 original size:41 final size:41
Alignment explanation
Indices: 29986876--29987100 Score: 375
Period size: 41 Copynumber: 5.5 Consensus size: 41
29986866 GACTTTATGT
29986876 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
29986917 CTAGCAGGCT-AGTGCCGGTGATCTGAATCAAGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
29986957 CTAGCAAGCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
29986997 CTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
29987038 CTAGTAGGCTAAGTGCCGGTGATCTGAATCA-GTCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT-TATAAAC
29987079 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
29987101 ATATGTTAAA
Statistics
Matches: 173, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 78 0.45
41 95 0.55
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:29994232 original size:44 final size:44
Alignment explanation
Indices: 29994184--29994268 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
29994174 TTAATGGATT
*
29994184 ACATATATGTTAGTCAAATATATGTATTGAATTTGACAGGTGGA
1 ACATATATGTTAGCCAAATATATGTATTGAATTTGACAGGTGGA
*
29994228 ACATATATGTTAGCCGAATATATGTATTGAATTTGACAGGT
1 ACATATATGTTAGCCAAATATATGTATTGAATTTGACAGGT
29994269 TGAAATTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.36
Consensus pattern (44 bp):
ACATATATGTTAGCCAAATATATGTATTGAATTTGACAGGTGGA
Found at i:29994681 original size:41 final size:41
Alignment explanation
Indices: 29994624--29994889 Score: 412
Period size: 41 Copynumber: 6.5 Consensus size: 41
29994614 GACTTTATGT
29994624 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
29994665 CTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
29994706 CTAGTAGGCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
29994746 CTAGCAAGCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * * *
29994786 CTAGCAGGCTAAGTACAGGTGATTTGAATTAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
29994827 CTAGTAGGCTAAGTGCCGGTGATCTGAATCA-GTCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT-TATAAAC
*
29994868 CTAGCAGGCAAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
29994890 ATATGTTAAA
Statistics
Matches: 205, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 78 0.38
41 127 0.62
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:29998850 original size:18 final size:18
Alignment explanation
Indices: 29998805--29998856 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 18
29998795 GAAAATAAAT
*
29998805 TATTTT-TTTAATTTTCC
1 TATTTTATTTAATTTTAC
29998822 TATTATTATTTAATTTTAC
1 TATT-TTATTTAATTTTAC
*
29998841 TATTTTATTTTATTTT
1 TATTTTATTTAATTTT
29998857 TGTAGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 4 0.13
18 13 0.42
19 14 0.45
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTATTTAATTTTAC
Found at i:29999002 original size:41 final size:41
Alignment explanation
Indices: 29998945--29999026 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
29998935 TTTACCTACG
29998945 AGACCAACCTCCACGACATTGAAATGCATGAGGAGTTTTTT
1 AGACCAACCTCCACGACATTGAAATGCATGAGGAGTTTTTT
29998986 AGACCAACCTCCACGACATTGAAATGCATGAGGAGTTTTTT
1 AGACCAACCTCCACGACATTGAAATGCATGAGGAGTTTTTT
29999027 TTTCTCTCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (41 bp):
AGACCAACCTCCACGACATTGAAATGCATGAGGAGTTTTTT
Found at i:30003690 original size:93 final size:91
Alignment explanation
Indices: 30003543--30003746 Score: 247
Period size: 93 Copynumber: 2.3 Consensus size: 91
30003533 GCACTCAAGT
* * * * *
30003543 TTTTCAAAAAAAGCAATTAAG--TCTCTGTTTTTTTTTGCACTCATTTGGGTACTTGAACTTTCA
1 TTTTCAAAAAAAGCAATTAAGCCCCTCTCTTTTTTTTTGCAATCAATTGGGTACTTGAACTTCCA
*
30003606 AAAT-ATATCAAAAAAGCCCTTAAAC-C
66 AAATGAT-TCAAAAAA-CCCTCAAACTC
*
30003632 TTTTCAAGAAAAAGCAATTAAGCCCCTGCTCTTTTTTTTTTCAATCAATTGGGTACTTGAACTTC
1 TTTTCAA-AAAAAGCAATTAAGCCCCT-CTCTTTTTTTTTGCAATCAATTGGGTACTTGAACTTC
* * *
30003697 CAAAATGCTTCAAAAGACCCTCAAACTT
64 CAAAATGATTCAAAAAACCCTCAAACTC
30003725 TTTTC-AAAAAAGCAATTAAGCC
1 TTTTCAAAAAAAGCAATTAAGCC
30003747 TCTGATTTTA
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
89 7 0.07
90 14 0.14
91 16 0.16
92 11 0.11
93 50 0.51
94 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (91 bp):
TTTTCAAAAAAAGCAATTAAGCCCCTCTCTTTTTTTTTGCAATCAATTGGGTACTTGAACTTCCA
AAATGATTCAAAAAACCCTCAAACTC
Found at i:30003875 original size:9 final size:8
Alignment explanation
Indices: 30003861--30003910 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 8
30003851 TAAATTTTTT
30003861 TAAAAATA
1 TAAAAATA
30003869 GTAAAAATA
1 -TAAAAATA
30003878 TATAAAATA
1 TA-AAAATA
30003887 TATAGAAATA
1 TA-A-AAATA
30003897 TAAAAATTA
1 TAAAAA-TA
30003906 TAAAA
1 TAAAA
30003911 TTTTATAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
8 5 0.13
9 26 0.68
10 7 0.18
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (8 bp):
TAAAAATA
Found at i:30003883 original size:19 final size:19
Alignment explanation
Indices: 30003861--30003910 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
30003851 TAAATTTTTT
30003861 TAAAA-ATAGTAAAAATATA
1 TAAAATATA-TAAAAATATA
*
30003880 TAAAATATATAGAAATATA
1 TAAAATATATAAAAATATA
30003899 -AAAAT-TATAAAA
1 TAAAATATATAAAA
30003911 TTTTATAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 6 0.21
18 5 0.18
19 14 0.50
20 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (19 bp):
TAAAATATATAAAAATATA
Found at i:30004157 original size:36 final size:38
Alignment explanation
Indices: 30004117--30004199 Score: 107
Period size: 36 Copynumber: 2.2 Consensus size: 38
30004107 GGTCATTAAT
* * *
30004117 TTTTTTATGATTTT-TATAAAAAATTAAT-ATTTTTTA
1 TTTTTTATGATTTTACAAAAAAAATTAATAATTTATTA
*
30004153 TTTTTTATGATTTTACAAAAAAAATTTATAATTTATTA
1 TTTTTTATGATTTTACAAAAAAAATTAATAATTTATTA
30004191 TATTTTTAT
1 T-TTTTTAT
30004200 TAAAATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
36 14 0.35
37 11 0.28
38 8 0.20
39 7 0.17
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (38 bp):
TTTTTTATGATTTTACAAAAAAAATTAATAATTTATTA
Found at i:30004376 original size:89 final size:88
Alignment explanation
Indices: 30004250--30004456 Score: 213
Period size: 89 Copynumber: 2.3 Consensus size: 88
30004240 AAGAGCAGGG
* * * * * *
30004250 GCTTAATTGC-TTTTTTAAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAATTTAATTACCC
1 GCTTAATTGCTTTTTTTAAAAAAGTTTGAGGGTCTTTTTAATACATTCTGAAAATTCAAGTACCC
*
30004314 AATTGAGTGAAAAAAAAAGTAAGA
66 AATTGAGTG-AAAAAAAAGGAAGA
* * * * *
30004338 GCTTAATTGCTTTTTTTGAAGAAGTTTGATGG-CATTTTTAATACATTCTGAAAATTCAAGTGCT
1 GCTTAATTGCTTTTTTTAAAAAAGTTTGAGGGTC-TTTTTAATACATTCTGAAAATTCAAGTACC
* *
30004402 TAATTGAGTGAAAAAAAAGGAAGG
65 CAATTGAGTGAAAAAAAAGGAAGA
* *
30004426 GCTTAATTACTTTTCTTTTTAAAAA-TTTGAG
1 GCTTAATTGC-TTT-TTTTAAAAAAGTTTGAG
30004457 AACTTTTTAC
Statistics
Matches: 97, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
88 32 0.33
89 57 0.59
90 8 0.08
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (88 bp):
GCTTAATTGCTTTTTTTAAAAAAGTTTGAGGGTCTTTTTAATACATTCTGAAAATTCAAGTACCC
AATTGAGTGAAAAAAAAGGAAGA
Found at i:30004683 original size:2 final size:2
Alignment explanation
Indices: 30004676--30004705 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30004666 ACGCACACGC
30004676 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
30004706 TACAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30005256 original size:22 final size:23
Alignment explanation
Indices: 30005231--30005282 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
30005221 CCTATTTTTT
30005231 TAAAAATATTT-AAAATTTAAAA
1 TAAAAATATTTGAAAATTTAAAA
*
30005253 TAAAAATATTTGAAATTTTAAAA
1 TAAAAATATTTGAAAATTTAAAA
30005276 TATAAAA
1 TA-AAAA
30005283 GAAATTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 11 0.41
23 12 0.44
24 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAAAATATTTGAAAATTTAAAA
Found at i:30005968 original size:31 final size:31
Alignment explanation
Indices: 30005933--30006017 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
30005923 ACAAAGTTAG
*
30005933 AAATGATCTAAAACGTAAGTAATCAAAATAA
1 AAATGATCTAAAACGTAAGTAACCAAAATAA
* *
30005964 AAATGATCTAAAATGTAAGTGACCAAAATAA
1 AAATGATCTAAAACGTAAGTAACCAAAATAA
* * *
30005995 AAAAGATCTAAAACATTAGTAAC
1 AAATGATCTAAAACGTAAGTAAC
30006018 TGAATTGAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (31 bp):
AAATGATCTAAAACGTAAGTAACCAAAATAA
Found at i:30010360 original size:28 final size:29
Alignment explanation
Indices: 30010292--30010360 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
30010282 TGATAATCAT
*
30010292 ATTAATTTTATTACTTGAAAATATAATTA
1 ATTAATTTTATCACTTGAAAATATAATTA
*
30010321 A-TAACTACTTATCACTTGAAAA-AT-ATTA
1 ATTAA-T-TTTATCACTTGAAAATATAATTA
30010349 AGTTAATTTTAT
1 A-TTAATTTTAT
30010361 TTTTCAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
28 12 0.36
29 5 0.15
30 16 0.48
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.45
Consensus pattern (29 bp):
ATTAATTTTATCACTTGAAAATATAATTA
Found at i:30011168 original size:21 final size:21
Alignment explanation
Indices: 30011141--30011193 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
30011131 AGCAGTGGCG
30011141 GTGAGATTA-ATTACTGTAGC-
1 GTGAGATTAGA-TACTGTAGCA
30011161 GATGAGATTAGATACTGTAGCA
1 G-TGAGATTAGATACTGTAGCA
30011183 GTGAGATTAGA
1 GTGAGATTAGA
30011194 AACAGCGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.03
21 27 0.90
22 2 0.07
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:30018084 original size:16 final size:15
Alignment explanation
Indices: 30018063--30018122 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
30018053 CTTCAAAGTT
30018063 TTTTATATAATATAAA
1 TTTTATATAATA-AAA
*
30018079 TTTTATAAAATAAAA
1 TTTTATATAATAAAA
*
30018094 ATTTATA-AA-AAAA
1 TTTTATATAATAAAA
*
30018107 -GTTATATAATATAAA
1 TTTTATATAATA-AAA
30018122 T
1 T
30018123 ATTTCAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 5 0.14
13 6 0.16
14 3 0.08
15 12 0.32
16 11 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
TTTTATATAATAAAA
Found at i:30018100 original size:15 final size:16
Alignment explanation
Indices: 30018064--30018103 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
30018054 TTCAAAGTTT
* *
30018064 TTTATATAATATAAAT
1 TTTATAAAATATAAAA
30018080 TTTATAAAATA-AAAA
1 TTTATAAAATATAAAA
30018095 TTTATAAAA
1 TTTATAAAA
30018104 AAAGTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTATAAAATATAAAA
Found at i:30022537 original size:27 final size:27
Alignment explanation
Indices: 30022499--30022552 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30022489 TGCTCCTCTA
30022499 ATGCTTGTTGCCTTGTAGCCATTTGTT
1 ATGCTTGTTGCCTTGTAGCCATTTGTT
30022526 ATGCTTGTTGCCTTGTAGCCATTTGTT
1 ATGCTTGTTGCCTTGTAGCCATTTGTT
30022553 CCATGAAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (27 bp):
ATGCTTGTTGCCTTGTAGCCATTTGTT
Found at i:30027764 original size:31 final size:32
Alignment explanation
Indices: 30027726--30027787 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
30027716 GGCCCATTTT
30027726 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTTAAAAAATTAAAAAAAG
* * *
30027757 TATTTTAAAAATATTTTAAAATTTTAAAAAA
1 TATTTTAAAAATATTTAAAAAATTAAAAAAA
30027788 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (32 bp):
TATTTTAAAAATATTTAAAAAATTAAAAAAAG
Found at i:30027766 original size:11 final size:11
Alignment explanation
Indices: 30027726--30027913 Score: 81
Period size: 10 Copynumber: 18.2 Consensus size: 11
30027716 GGCCCATTTT
30027726 TATTTT-AAAA
1 TATTTTAAAAA
30027736 -ATTTTAAAAA
1 TATTTTAAAAA
**
30027746 -ATTAAAAAAA
1 TATTTTAAAAA
30027756 GTATTTTAAAAA
1 -TATTTTAAAAA
30027768 TATTTT--AAA
1 TATTTTAAAAA
30027777 -ATTTTAAAAA
1 TATTTTAAAAA
**
30027787 -ATTAAAAAAAAA
1 TATT--TTAAAAA
30027799 GTATTTTAAAAA
1 -TATTTTAAAAA
30027811 TATTTT--AAA
1 TATTTTAAAAA
30027820 -A--TTAAAAA
1 TATTTTAAAAA
* **
30027828 AATTAAAAAAAA
1 TATT-TTAAAAA
30027840 GTATTTTAAAAA
1 -TATTTTAAAAA
30027852 TATTTT--AAA
1 TATTTTAAAAA
30027861 -ATTTTAAAAA
1 TATTTTAAAAA
* *
30027871 -AATTAAAAAA
1 TATTTTAAAAA
*
30027881 GTA-TGTAAAAA
1 -TATTTTAAAAA
30027892 TATTTT-AAAA
1 TATTTTAAAAA
*
30027902 T-TTTAAAAAA
1 TATTTTAAAAA
30027912 TA
1 TA
30027914 AATATATTTA
Statistics
Matches: 136, Mismatches: 19, Indels: 45
0.68 0.09 0.22
Matches are distributed among these distances:
6 2 0.01
8 14 0.10
9 18 0.13
10 41 0.30
11 26 0.19
12 29 0.21
13 3 0.02
14 3 0.02
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:30027783 original size:41 final size:42
Alignment explanation
Indices: 30027726--30027912 Score: 294
Period size: 41 Copynumber: 4.5 Consensus size: 42
30027716 GGCCCATTTT
30027726 TATTTTAAAAATTTTAAAAAATT-AAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTTTAAAAAATTAAAAAAAAGTATTTTAAAAA
30027768 TATTTTAAAATTTTAAAAAATTAAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTTAAAAAATT-AAAAAAAAGTATTTTAAAAA
*
30027811 TATTTTAAAA-TTAAAAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTTAAAAAATTAAAAAAAAGTATTTTAAAAA
*
30027852 TATTTTAAAATTTTAAAAAAATT--AAAAAAGTA-TGTAAAAA
1 TATTTTAAAATTTT-AAAAAATTAAAAAAAAGTATTTTAAAAA
30027892 TATTTTAAAATTTTAAAAAAT
1 TATTTTAAAATTTTAAAAAAT
30027913 AAATATATTT
Statistics
Matches: 138, Mismatches: 3, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
39 7 0.05
40 21 0.15
41 55 0.40
42 18 0.13
43 37 0.27
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (42 bp):
TATTTTAAAATTTTAAAAAATTAAAAAAAAGTATTTTAAAAA
Found at i:30027811 original size:33 final size:31
Alignment explanation
Indices: 30027763--30027829 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 31
30027753 AAAGTATTTT
30027763 AAAAATATTTTAAAAT-TTTAAAAAATTAAAA
1 AAAAATATTTTAAAATATTT-AAAAATTAAAA
*
30027794 AAAAAGTATTTTAAAAATATTTTAAAATTAAAA
1 AAAAA-TATTTT-AAAATATTTAAAAATTAAAA
30027827 AAA
1 AAA
30027830 TTAAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 5 0.16
32 6 0.19
33 18 0.56
34 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (31 bp):
AAAAATATTTTAAAATATTTAAAAATTAAAA
Found at i:30027870 original size:31 final size:31
Alignment explanation
Indices: 30027806--30027872 Score: 59
Period size: 33 Copynumber: 2.2 Consensus size: 31
30027796 AAAGTATTTT
*
30027806 AAAAA-TATTTT-AAAA-TTAAAAAAATTAAA
1 AAAAAGTATTTTAAAAATTTTAAAAAATT-AA
**
30027835 AAAAAGTATTTTAAAAATATTTTAAAATTTTAA
1 AAAAAGTATTTT-AAAA-ATTTTAAAAAATTAA
30027868 AAAAA
1 AAAAA
30027873 TTAAAAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
29 5 0.17
30 6 0.20
32 3 0.10
33 8 0.27
34 8 0.27
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (31 bp):
AAAAAGTATTTTAAAAATTTTAAAAAATTAA
Found at i:30030416 original size:14 final size:13
Alignment explanation
Indices: 30030386--30030412 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30030376 AAATATAATT
30030386 ATAATCCCATTAA
1 ATAATCCCATTAA
30030399 ATAATCCCATTAA
1 ATAATCCCATTAA
30030412 A
1 A
30030413 ATAAGTAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATCCCATTAA
Found at i:30034301 original size:14 final size:15
Alignment explanation
Indices: 30034279--30034355 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
30034269 CAATCAAACA
30034279 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
30034293 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
30034308 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
30034328 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
30034342 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
30034356 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:30034320 original size:20 final size:20
Alignment explanation
Indices: 30034295--30034334 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30034285 AATATTTTCC
*
30034295 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
30034315 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
30034335 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:30034340 original size:34 final size:35
Alignment explanation
Indices: 30034283--30034349 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
30034273 CAAACACCAG
*
30034283 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
30034318 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
30034350 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:30041815 original size:30 final size:30
Alignment explanation
Indices: 30041781--30041842 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
30041771 ACTTATTTTA
* *
30041781 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAAGCAT
30041811 TTGTTAATTTTATTATTATTTTAAAAGCAT
1 TTGTTAATTTTATTATTATTTTAAAAGCAT
30041841 TT
1 TT
30041843 ACTTATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAAGCAT
Found at i:30045200 original size:156 final size:154
Alignment explanation
Indices: 30045036--30045915 Score: 1112
Period size: 156 Copynumber: 5.7 Consensus size: 154
30045026 ATAAAATCTG
* **
30045036 AAAA-AATGTAAAATAATAAAA-TACATAAATAATATATTTTTATTGAAAGTAATAAAATTTGGG
1 AAAATAATGTAAAATAATAAAATTAGA-AAATAATATATTTTTATTGAAAGTAATAAAATCAGGG
* * *
30045099 AAAAAATATGAACAAAGGTTCGAAATAAAGGTTATTTTTTGAAATTTATTTAAAAAACACACTAA
65 AAAAAATACGAACAAAGGGTCGAAATAAGGGTT-TTTTTT-AAATTTATTTAAAAAACACACTAA
*
30045164 ATTAATAAATTTCAAACATAATGTACT
128 ATTAATACATTTCAAACATAATGTACT
*
30045191 AAAATAATGTAAAATAATAAAATTAGAAAATAATATA-TTTT-TT-AAAGTAATAAAATCCTGGG
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAAT-CAGGG
* * * * * *
30045253 AAAAAATACAAATAAAGGGTCGAAATAAGGGTTTTTTACTAAA-TTA--AAAAAAACAGAAGT-A
65 AAAAAATACGAACAAAGGGTCGAAATAAGGGTTTTTT-TTAAATTTATTTAAAAAACA-CACTAA
*
30045314 ATTAATACATTTCAAACACAATGTACT
128 ATTAATACATTTCAAACATAATGTACT
* * * * *
30045341 AAAATAATGCAAAATGATAAAA-TACAAAAATAATATATTTTTATTGGAAGTAATAAAATCCGAG
1 AAAATAATGTAAAATAATAAAATTA-GAAAATAATATATTTTTATTGAAAGTAATAAAATCAG-G
* * * *
30045405 AAAAAAATACGAACAAAGGG-CTGAAATAA--GTTTTTTTT-ACTTTATTT-AAAAATACAGTAA
64 GAAAAAATACGAACAAAGGGTC-GAAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACACTAA
*
30045465 ATTAATATATTTCAAACATAATGTACT
128 ATTAATACATTTCAAACATAATGTACT
*
30045492 AAACTAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCAGGGA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCAGGG-
* * *
30045557 AAAAAATACGAACAAATGG-CTGAAATAAGGGTTTTTTTTTTAATTTAATTAAAAAACACACTAA
65 AAAAAATACGAACAAAGGGTC-GAAATAAGGG-TTTTTTTTAAATTTATTTAAAAAACACACTAA
30045621 ATTAATACATTTCAAACATAATGTACT
128 ATTAATACATTTCAAACATAATGTACT
* * * *
30045648 AAAATAATGTAAAATAATAAAATTATAAAATAAAATATTTTTATTGAAAGAAATAAAATCCAGGA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAAT-CAGGG
*
30045713 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTGTAAATTTATTTAAAAAACACACTAA
65 AAAAAATACGAACAAAGGGTCGAAATAAGGG-TTTTTTT-TAAATTTATTTAAAAAACACACTAA
30045778 ATTAATACATTTCAAACATAATGGT-CT
128 ATTAATACATTTCAAACATAAT-GTACT
* *
30045805 AAACTAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATAGAAAGTAATAAAATTC-GGG
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAA-TCAGGG
* * *
30045869 AAAAAATACGAATAAAGGGCCAAAATAAGGGTTTTTTTACTAAATTT
65 AAAAAATACGAACAAAGGGTCGAAATAAGGGTTTTTTT--TAAATTT
30045916 GTTTTGAAGT
Statistics
Matches: 639, Mismatches: 58, Indels: 55
0.85 0.08 0.07
Matches are distributed among these distances:
149 3 0.00
150 73 0.11
151 125 0.20
152 10 0.02
153 58 0.09
154 43 0.07
155 22 0.03
156 193 0.30
157 109 0.17
158 3 0.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (154 bp):
AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCAGGGA
AAAAATACGAACAAAGGGTCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACACTAAATT
AATACATTTCAAACATAATGTACT
Found at i:30051201 original size:23 final size:23
Alignment explanation
Indices: 30051156--30051202 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
30051146 TAAAAATAAT
*
30051156 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
30051179 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
30051202 A
1 A
30051203 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:30053660 original size:340 final size:340
Alignment explanation
Indices: 30053040--30053727 Score: 1279
Period size: 340 Copynumber: 2.0 Consensus size: 340
30053030 ACTCAGGTGC
30053040 CTCGTCCTCCAAGCCACCCGCTTTTAGAGGGAATGCACTCACCTCCAGGAGTGGACCACCAAGGA
1 CTCGTCCTCCAAGCCACCCGCTTTTAGAGGGAATGCACTCACCTCCAGGAGTGGACCACCAAGGA
30053105 ACCATTGAGGCGTAACAACCTTGTATTACCACAACAAAGAGAATGTCAAGACAGTGTTATACATA
66 ACCATTGAGGCGTAACAACCTTGTATTACCACAACAAAGAGAATGTCAAGACAGTGTTATACATA
*
30053170 AGGGCAACCGGCCTACCACCTGGCCTACCACATGAGTAGACCACCACTCATATTGTTGGTGACAA
131 AGGGCAACCGGCCTACCACCTGGCCCACCACATGAGTAGACCACCACTCATATTGTTGGTGACAA
30053235 GGCATTACCAGGCATGGGACCTCCCACTATAAATACCTTCCATCACGATGAAGAGAGGATCTTTT
196 GGCATTACCAGGCATGGGACCTCCCACTATAAATACCTTCCATCACGATGAAGAGAGGATCTTTT
*
30053300 GACCCTTTCAGCAACCCTAAGCATTTGCCTATTACGCTTACCTTCCCTTGCCTTTAGACCTTCCT
261 GACCCTTTCAGCAACCCTAAGCATTTGCCTACTACGCTTACCTTCCCTTGCCTTTAGACCTTCCT
*
30053365 CACTCCTTTCCTTCT
326 CACTCATTTCCTTCT
30053380 CTCGTCCTCCAAGCCACCCGCTTTTAGAGGGAATGCACTCACCTCCAGGAGTGGACCACCAAGGA
1 CTCGTCCTCCAAGCCACCCGCTTTTAGAGGGAATGCACTCACCTCCAGGAGTGGACCACCAAGGA
30053445 ACCATTGAGGCGTAACAACCTTGTATTACCACAACAAAGAGAATGTCAATG-CAGTGTTATACAT
66 ACCATTGAGGCGTAACAACCTTGTATTACCACAACAAAGAGAATGTCAA-GACAGTGTTATACAT
* * *
30053509 GAGGGCAACCGGCCTACCACCTGGCCCACCACATGGGTAGACCACCACTCGTATTGTTGGTGACA
130 AAGGGCAACCGGCCTACCACCTGGCCCACCACATGAGTAGACCACCACTCATATTGTTGGTGACA
*
30053574 AGGCATTACCAGGCATGGGACCTCCCCCTATAAATACCTTCCATCACGATGAAGAGAGGATCTTT
195 AGGCATTACCAGGCATGGGACCTCCCACTATAAATACCTTCCATCACGATGAAGAGAGGATCTTT
*
30053639 TGACCCTTTCAGCAACCCTAAGCATTTGCCTACTACGCTTACCTTCCCTTGCCTTTAGACCTTCT
260 TGACCCTTTCAGCAACCCTAAGCATTTGCCTACTACGCTTACCTTCCCTTGCCTTTAGACCTTCC
30053704 TCACTCATTTCCTTCT
325 TCACTCATTTCCTTCT
*
30053720 TTCGTCCT
1 CTCGTCCT
30053728 TTTCAACTTT
Statistics
Matches: 338, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
340 337 1.00
341 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (340 bp):
CTCGTCCTCCAAGCCACCCGCTTTTAGAGGGAATGCACTCACCTCCAGGAGTGGACCACCAAGGA
ACCATTGAGGCGTAACAACCTTGTATTACCACAACAAAGAGAATGTCAAGACAGTGTTATACATA
AGGGCAACCGGCCTACCACCTGGCCCACCACATGAGTAGACCACCACTCATATTGTTGGTGACAA
GGCATTACCAGGCATGGGACCTCCCACTATAAATACCTTCCATCACGATGAAGAGAGGATCTTTT
GACCCTTTCAGCAACCCTAAGCATTTGCCTACTACGCTTACCTTCCCTTGCCTTTAGACCTTCCT
CACTCATTTCCTTCT
Found at i:30061571 original size:21 final size:21
Alignment explanation
Indices: 30061528--30061738 Score: 122
Period size: 21 Copynumber: 10.1 Consensus size: 21
30061518 GTACATCGTT
*
30061528 AACAGAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTA
*
30061547 AACAGAAGCTTGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
* * * * *
30061568 AACAGAAAC-CTATAAGGGTTG
1 AACAGAAGCTC-GTAAGAGCTA
* *
30061589 AACAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTA
* * * * *
30061610 AACGGAAACTCATATGAGTTA
1 AACAGAAGCTCGTAAGAGCTA
* * **
30061631 AACAAAAGCTCATAAGAGCCG
1 AACAGAAGCTCGTAAGAGCTA
* * * *
30061652 AACAGAAACTCCTAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTA
* *
30061673 AACAGAAGCTCGAAAAAGCTA
1 AACAGAAGCTCGTAAGAGCTA
* * * * *
30061694 AACGGAAACTCATATGAGTTA
1 AACAGAAGCTCGTAAGAGCTA
*
30061715 AACAGAAGCTCGAAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
30061736 AAC
1 AAC
30061739 GGAAAGTAAA
Statistics
Matches: 137, Mismatches: 51, Indels: 6
0.71 0.26 0.03
Matches are distributed among these distances:
19 11 0.08
20 2 0.01
21 123 0.90
22 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:30061598 original size:42 final size:42
Alignment explanation
Indices: 30061545--30061743 Score: 220
Period size: 42 Copynumber: 4.7 Consensus size: 42
30061535 GCTCGAAAGC
* * *
30061545 TGAACAGAAGCTTGTAAGAGCTAAACAGAAAC-CTATAAGGGT
1 TGAACAGAAGCTCGTAAGAGCTAAACGGAAACTC-ATAAGAGT
* * *
30061587 TGAACAAAAGCTCGTAAGAGCTGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCGTAAGAGCTAAACGGAAACTCATAAGAGT
* * * ** * *
30061629 TAAACAAAAGCTCATAAGAGCCGAACAGAAACTCCTAAGAGT
1 TGAACAGAAGCTCGTAAGAGCTAAACGGAAACTCATAAGAGT
* * *
30061671 TGAACAGAAGCTCGAAAAAGCTAAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCGTAAGAGCTAAACGGAAACTCATAAGAGT
* *
30061713 TAAACAGAAGCTCGAAAGAGCTAAACGGAAA
1 TGAACAGAAGCTCGTAAGAGCTAAACGGAAA
30061744 GTAAAACACA
Statistics
Matches: 132, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
42 131 0.99
43 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (42 bp):
TGAACAGAAGCTCGTAAGAGCTAAACGGAAACTCATAAGAGT
Found at i:30062306 original size:31 final size:31
Alignment explanation
Indices: 30062271--30062329 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
30062261 TACAACCCAT
*
30062271 TTTTTCAATAATTTCACAAA-AAATCCTTGTA
1 TTTTT-AATAATTTAACAAATAAATCCTTGTA
* *
30062302 TTTTTACTAATTTAACAAATTAATCCTT
1 TTTTTAATAATTTAACAAATAAATCCTT
30062330 AATCGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (31 bp):
TTTTTAATAATTTAACAAATAAATCCTTGTA
Found at i:30062398 original size:169 final size:169
Alignment explanation
Indices: 30062196--30062534 Score: 597
Period size: 169 Copynumber: 2.0 Consensus size: 169
30062186 AGTCCCTGAG
* *
30062196 CCCAAAATATACAAATTAACCATTTTAATGCAAACCCATGCTAGATGAATATTCATGGCATTCAA
1 CCCAAAACATACAAATTAACCATTTTAATGCAAACCCATACTAGATGAATATTCATGGCATTCAA
* *
30062261 TACAACCCATTTTTTCAATAATTTCACAAAAAATCCTTGTATTTTTACTAATTTAACAAATTAAT
66 TACAACCCATTTTTGCAATAATTTAACAAAAAATCCTTGTATTTTTACTAATTTAACAAATTAAT
**
30062326 CCTTAATCGAAAAATTCATCAAAATCACTTAACAAAATA
131 CCTTAATAAAAAAATTCATCAAAATCACTTAACAAAATA
* * *
30062365 CCCAAAACATGCAAATTAACCATTTTAATGCAAACCCATACTAGCTGAATATTCATGTCATTCAA
1 CCCAAAACATACAAATTAACCATTTTAATGCAAACCCATACTAGATGAATATTCATGGCATTCAA
30062430 TACAACCCATTTTTGCAATAATTTAACAAAAAATCCTTGTATTTTTACTAATTTAACAAATTAAT
66 TACAACCCATTTTTGCAATAATTTAACAAAAAATCCTTGTATTTTTACTAATTTAACAAATTAAT
30062495 CCTTAATAAAAAAATTCATCAAAATCACTTAACAAAATA
131 CCTTAATAAAAAAATTCATCAAAATCACTTAACAAAATA
30062534 C
1 C
30062535 TTTTAAATAA
Statistics
Matches: 161, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
169 161 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (169 bp):
CCCAAAACATACAAATTAACCATTTTAATGCAAACCCATACTAGATGAATATTCATGGCATTCAA
TACAACCCATTTTTGCAATAATTTAACAAAAAATCCTTGTATTTTTACTAATTTAACAAATTAAT
CCTTAATAAAAAAATTCATCAAAATCACTTAACAAAATA
Found at i:30062639 original size:33 final size:33
Alignment explanation
Indices: 30062602--30062667 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
30062592 TCATTAAGGG
30062602 CAATATCCAAAATCTTTAACAAAATAAAAAACT
1 CAATATCCAAAATCTTTAACAAAATAAAAAACT
*
30062635 CAATATCCAAAATCTTTAACAAAATCAAAAACT
1 CAATATCCAAAATCTTTAACAAAATAAAAAACT
30062668 AAGGTAAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (33 bp):
CAATATCCAAAATCTTTAACAAAATAAAAAACT
Found at i:30067656 original size:6 final size:6
Alignment explanation
Indices: 30067645--30067669 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
30067635 TAAATCAATG
30067645 AACACC AACACC AACACC AACACC A
1 AACACC AACACC AACACC AACACC A
30067670 TGGAAGTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (6 bp):
AACACC
Found at i:30072325 original size:39 final size:39
Alignment explanation
Indices: 30072266--30072341 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
30072256 GCAGACATGG
**
30072266 CTTGCAACCTCGTCCTTGCGAGGTTTACGCGAGCTCCCT
1 CTTGCAACCTCGTCCTTGCGAGGCCTACGCGAGCTCCCT
*
30072305 CTTGCAACCTTGT-CTCTGCGAGGCCTACGCGAGCTCC
1 CTTGCAACCTCGTCCT-TGCGAGGCCTACGCGAGCTCC
30072342 TCCATGCGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.13, C:0.37, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTGCAACCTCGTCCTTGCGAGGCCTACGCGAGCTCCCT
Found at i:30075425 original size:20 final size:20
Alignment explanation
Indices: 30075402--30075447 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
30075392 AAAAATTTAT
*
30075402 TAAAAATTAGAAAAAAAATA
1 TAAAAATCAGAAAAAAAATA
* *
30075422 TAAAAATCATAAAAAATATA
1 TAAAAATCAGAAAAAAAATA
30075442 TAAAAA
1 TAAAAA
30075448 ATTGTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (20 bp):
TAAAAATCAGAAAAAAAATA
Found at i:30075449 original size:11 final size:10
Alignment explanation
Indices: 30075385--30075466 Score: 58
Period size: 10 Copynumber: 8.0 Consensus size: 10
30075375 AAAAAAATTT
30075385 AATTATTAAAA
1 AATTA-TAAAA
* *
30075396 ATTTATTAAA
1 AATTATAAAA
*
30075406 AATTAGAAAA
1 AATTATAAAA
*
30075416 AA-AATATAAA
1 AATTATA-AAA
*
30075426 AATCATAAAA
1 AATTATAAAA
30075436 AATATATAAAA
1 AAT-TATAAAA
*
30075447 AATTGTAAAA
1 AATTATAAAA
**
30075457 TTTTATAAAA
1 AATTATAAAA
30075467 TCGTAAGAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 7
0.73 0.17 0.09
Matches are distributed among these distances:
9 2 0.04
10 37 0.67
11 16 0.29
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (10 bp):
AATTATAAAA
Found at i:30075479 original size:21 final size:21
Alignment explanation
Indices: 30075453--30075497 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
30075443 AAAAAATTGT
* *
30075453 AAAATTTTATAAAATCGT-AAG
1 AAAATTATACAAAAT-GTAAAG
30075474 AAAATTATACAAAATGTAAAG
1 AAAATTATACAAAATGTAAAG
30075495 AAA
1 AAA
30075498 TATAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTATACAAAATGTAAAG
Found at i:30075753 original size:27 final size:30
Alignment explanation
Indices: 30075723--30075785 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
30075713 AAAAAGTTCT
30075723 AATTTTTAAT-AAATTT-TAATTTTTTT-A
1 AATTTTTAATAAAATTTATAATTTTTTTGA
*
30075750 AATTTTTATTAAAATTTAATAATTTTTTTGA
1 AATTTTTAATAAAATTT-ATAATTTTTTTGA
30075781 AATTT
1 AATTT
30075786 ATTTTTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 9 0.29
28 6 0.19
30 10 0.32
31 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (30 bp):
AATTTTTAATAAAATTTATAATTTTTTTGA
Found at i:30075757 original size:17 final size:17
Alignment explanation
Indices: 30075722--30075755 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30075712 TAAAAAGTTC
30075722 TAATTTTTAATAAATTT
1 TAATTTTTAATAAATTT
*
30075739 TAATTTTT-TTAAATTT
1 TAATTTTTAATAAATTT
30075755 T
1 T
30075756 TATTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TAATTTTTAATAAATTT
Done.