Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 220 of 378
Found at i:65163387 original size:11 final size:11
Alignment explanation
Indices: 65163371--65163417 Score: 60
Period size: 11 Copynumber: 4.1 Consensus size: 11
65163361 TATACAAGTT
65163371 AAAAAAATTGA
1 AAAAAAATTGA
65163382 AAAAAAATTTG-
1 AAAAAAA-TTGA
65163393 AAAAAAATCTGAA
1 AAAAAAAT-TG-A
65163406 AAAAAAATTGA
1 AAAAAAATTGA
65163417 A
1 A
65163418 GTGAAAACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.03
11 18 0.56
12 5 0.16
13 8 0.25
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (11 bp):
AAAAAAATTGA
Found at i:65163388 original size:12 final size:12
Alignment explanation
Indices: 65163371--65163417 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
65163361 TATACAAGTT
65163371 AAAAAAATTGAA
1 AAAAAAATTGAA
*
65163383 AAAAAATTTG--
1 AAAAAAATTGAA
65163393 AAAAAAATCTGAA
1 AAAAAAAT-TGAA
65163406 AAAAAAATTGAA
1 AAAAAAATTGAA
65163418 GTGAAAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 7 0.23
11 2 0.07
12 13 0.43
13 8 0.27
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (12 bp):
AAAAAAATTGAA
Found at i:65163397 original size:23 final size:23
Alignment explanation
Indices: 65163371--65163417 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
65163361 TATACAAGTT
*
65163371 AAAAAAAT-TGAAAAAAAATTTG
1 AAAAAAATCTGAAAAAAAAATTG
65163393 AAAAAAATCTGAAAAAAAAATTG
1 AAAAAAATCTGAAAAAAAAATTG
65163416 AA
1 AA
65163418 GTGAAAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (23 bp):
AAAAAAATCTGAAAAAAAAATTG
Found at i:65164549 original size:18 final size:19
Alignment explanation
Indices: 65164513--65164551 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
65164503 TTTGAGAGAG
*
65164513 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
65164532 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
65164550 AA
1 AA
65164552 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:65184019 original size:50 final size:49
Alignment explanation
Indices: 65183850--65184074 Score: 281
Period size: 49 Copynumber: 4.5 Consensus size: 49
65183840 CTAGTACGCA
* * * *
65183850 TAGTAGCTTGCACATAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
* *
65183899 TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
** * *
65183948 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACACG
* * * *
65183998 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTC-GAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCTG-GTACACG
65184049 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
65184075 TGCGACCTCA
Statistics
Matches: 152, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
49 75 0.49
50 43 0.28
51 33 0.22
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
Found at i:65184020 original size:99 final size:100
Alignment explanation
Indices: 65183842--65184081 Score: 306
Period size: 99 Copynumber: 2.4 Consensus size: 100
65183832 AAAGCTATCT
* * * * ** *
65183842 AGTACGCATAGTAGCTTGCACATAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCC
1 AGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCTGATACACGTAGTAGCC
65183907 TACACTTAGTACTACACACGTGA-C-CAATTATCCG
66 TACACTTAGTACTACACACGTGATCACAATT-TCCG
* * *
65183941 -GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGC
1 AGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCTGATACACGTAGTAGC
* * *
65184005 CTGCACTTAGTACTACACACGTGATCACAGTTTTCG
65 CTACACTTAGTACTACACACGTGATCACAATTTCCG
* *
65184041 AGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 AGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
65184082 TCACAATAGA
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
98 34 0.28
99 42 0.35
100 4 0.03
101 40 0.33
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (100 bp):
AGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCTGATACACGTAGTAGCC
TACACTTAGTACTACACACGTGATCACAATTTCCG
Found at i:65186266 original size:15 final size:15
Alignment explanation
Indices: 65186210--65186274 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
65186200 TAAAGATAAC
*
65186210 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
65186224 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
65186239 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
65186254 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
65186269 AAGAAA
1 AAGAAA
65186275 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:65186276 original size:30 final size:31
Alignment explanation
Indices: 65186210--65186278 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
65186200 TAAAGATAAC
*
65186210 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
65186240 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
65186269 AAGAAACCCA
1 AAGAAACCCA
65186279 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:65187297 original size:30 final size:32
Alignment explanation
Indices: 65187252--65187310 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
65187242 TTTGAGCCTT
65187252 GGGGAAAAATTGTAA-TTTTGTA-AATGTTAG
1 GGGGAAAAATTGTAATTTTTGTATAATGTTAG
65187282 GGGGCAAAAA-TGTAATTTTTGTATAATGT
1 GGGG-AAAAATTGTAATTTTTGTATAATGT
65187311 GATTTTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 9 0.35
31 12 0.46
32 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (32 bp):
GGGGAAAAATTGTAATTTTTGTATAATGTTAG
Found at i:65187519 original size:2 final size:2
Alignment explanation
Indices: 65187512--65187539 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
65187502 TTCAGCCTAT
65187512 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65187540 CTAGTTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65198296 original size:30 final size:31
Alignment explanation
Indices: 65198262--65198319 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
65198252 CGAGCCTAGG
65198262 GGCAAAAGTGTAA-ATATGCAAAAGTTTAGA
1 GGCAAAAGTGTAATATATGCAAAAGTTTAGA
* * *
65198292 GGCAAAATTGTAATTTTTGCAAAAGTTT
1 GGCAAAAGTGTAATATATGCAAAAGTTT
65198320 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (31 bp):
GGCAAAAGTGTAATATATGCAAAAGTTTAGA
Found at i:65199102 original size:68 final size:66
Alignment explanation
Indices: 65199030--65199177 Score: 165
Period size: 67 Copynumber: 2.2 Consensus size: 66
65199020 CATCATGTGT
* * *
65199030 ACAAGAGAGCTACAAGACATTATTATGTAGCCAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC-AG-CA-TA-TATGTAGCCAGGTCGCATGGGTGATACCAGTGAAGGACACCA
65199093 TGTAG
62 TGTAG
* * * * *
65199098 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCCAGGTCGCATGGGTGATACCA-GTGAAGGACACCATGT
65199163 AG
65 AG
65199165 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
65199178 GAGATAAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 24 0.35
65 2 0.03
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACAGCATATATGTAGCCAGGTCGCATGGGTGATACCAGTGAAGGACACCATGTA
G
Found at i:65202330 original size:93 final size:93
Alignment explanation
Indices: 65202219--65202389 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
65202209 GCCCCTAAGT
* *
65202219 GAACTCAGACTCAACTCAACGACCTCGGGCGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGACCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
65202284 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * * **
65202312 GAACTCGGACTCAACTCAACGAGCTTGGACATTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGACCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
*
65202377 TGAGTTCGGATGC
66 CGAGTTCGGATGC
65202390 TCAACCATCC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGACCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65207039 original size:55 final size:55
Alignment explanation
Indices: 65206849--65207103 Score: 264
Period size: 55 Copynumber: 4.8 Consensus size: 55
65206839 ACACGGGTTC
* * ** *
65206849 CTTACCATTGCCATGACTTTTCATGGTCTTACGTGGTATCC-T---TT-T-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* *
65206898 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * *
65206951 CTCACCAATGCCAT-TCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGT-CTTGACATGGTCTTACATGGTATCC-TTGCCTTATAGAAA
* *
65207006 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCC-T-TAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* *
65207059 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
65207104 AAACCCTAAT
Statistics
Matches: 174, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
49 36 0.21
50 1 0.01
52 3 0.02
53 50 0.29
54 11 0.06
55 70 0.40
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (55 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
Found at i:65207040 original size:108 final size:110
Alignment explanation
Indices: 65206894--65207096 Score: 322
Period size: 108 Copynumber: 1.9 Consensus size: 110
65206884 GTATCCTTTT
* *
65206894 GAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACC
*
65206957 AA-TGCCATTCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* * *
65207002 GAAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACCA
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
65207067 ATTGCCATGCCTTGGCATGGTCTTACATGG
66 ATTGCCATGCCTTGGCATGGTCTTACATGG
65207097 TATCCTTAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 51 0.59
109 7 0.08
110 27 0.31
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:65213273 original size:31 final size:31
Alignment explanation
Indices: 65213231--65213433 Score: 325
Period size: 31 Copynumber: 6.5 Consensus size: 31
65213221 TTTAACGGTT
*
65213231 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCACATC
*
65213262 ACTAGGCCGAAGCCTTTTCATAAATCACATC
1 ACTGGGCCGAAGCCTTTTCATAAATCACATC
*
65213293 ACTGGGCCAAAGCCTTTTCATAAATCACATC
1 ACTGGGCCGAAGCCTTTTCATAAATCACATC
*
65213324 ACTGGGCTGAAGCCTTTTCATAAATCACATC
1 ACTGGGCCGAAGCCTTTTCATAAATCACATC
* *
65213355 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCACATC
* *
65213386 ACTGGGCCGAAGCCTTTTCATAAATCATACC
1 ACTGGGCCGAAGCCTTTTCATAAATCACATC
*
65213417 ACTGGGCCAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
65213434 ACTGTAAACG
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 160 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCACATC
Found at i:65213503 original size:42 final size:42
Alignment explanation
Indices: 65213456--65213547 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
65213446 ATGCCCTTAG
* *
65213456 GCCCATTTCAATATCACATGTAATGTTAATAAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATAAATGTATACAA
*
65213498 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATACAA
1 GCCCATTTCAATATCACATGTAATGTCAATAAATGTATACAA
65213540 GCCCATTT
1 GCCCATTT
65213548 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATAAATGTATACAA
Found at i:65213746 original size:25 final size:26
Alignment explanation
Indices: 65213695--65213764 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 26
65213685 CTCTTTTAAT
*
65213695 AACTGGGGCAAAACCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCTGATA
*
65213720 AACTGGGGCAAAGCCCTTTTC-GGTA
1 AACTGGGGCAAAGCCCTTTTCTGATA
* * *
65213745 AACTAGGTCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
65213765 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCTGATA
Found at i:65214593 original size:27 final size:27
Alignment explanation
Indices: 65214563--65214627 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
65214553 GGGCATATTC
65214563 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
65214590 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
65214617 GTCTTTTTACC
1 GTCATTTTACC
65214628 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:65214711 original size:27 final size:27
Alignment explanation
Indices: 65214681--65214766 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
65214671 GTAAATCTAC
65214681 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
65214708 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
65214734 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
65214764 AAA
1 AAA
65214767 TTAGGGGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.02
27 22 0.43
28 7 0.14
29 20 0.39
30 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:65214785 original size:27 final size:27
Alignment explanation
Indices: 65214768--65214900 Score: 135
Period size: 27 Copynumber: 4.9 Consensus size: 27
65214758 TTTTGTAAAT
*
65214768 TAGGGGTATTTTGGTAATTTTA-AAAA
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
65214794 TTGAGGGTATTTCGGTAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* *
65214822 CAGTGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* **
65214849 TAGGGGTATTTTGGTAATTCTATCCTA-
1 TAGGGGTATTTTGGTAATTTTA-CAAAC
* *
65214876 TAGGGGTATTTTAGTAATTTCACAA
1 TAGGGGTATTTTGGTAATTTTACAA
65214901 TCGAGGGTAA
Statistics
Matches: 85, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
26 3 0.04
27 76 0.89
28 6 0.07
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:65214933 original size:27 final size:27
Alignment explanation
Indices: 65214899--65215331 Score: 492
Period size: 27 Copynumber: 16.3 Consensus size: 27
65214889 GTAATTTCAC
* *
65214899 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
65214926 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
*
65214953 AATCGAGGGTAAAACT-GCAATTTTGTA
1 AATCGAGGGTAAAA-TGGTAATTTTGTA
* *
65214980 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
65215007 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* ** *
65215034 AATTGAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
65215061 AATCGATGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
65215088 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
65215115 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
* *
65215142 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
65215169 AATCGA--G------GGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
65215188 AATCAAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * *
65215215 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
65215242 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * *
65215269 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * **
65215296 AATCGAGGGTAAAACGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTTTGTA
65215323 AATCGAGGG
1 AATCGAGGG
65215332 CATTTCAATA
Statistics
Matches: 352, Mismatches: 40, Indels: 28
0.84 0.10 0.07
Matches are distributed among these distances:
19 17 0.05
21 1 0.00
25 1 0.00
26 3 0.01
27 327 0.93
28 3 0.01
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:65215015 original size:81 final size:81
Alignment explanation
Indices: 65214899--65215331 Score: 546
Period size: 81 Copynumber: 5.4 Consensus size: 81
65214889 GTAATTTCAC
* * * *
65214899 AATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAACGGTAATTTTGTAAATCGAGGGT
*
65214963 AAAACT-GCAATTTTGTA
65 AAAA-TGGTAATTTTGTA
* * *
65214980 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
** *
65215045 AAATAATAATTCTGTA
66 AAATGGTAATTTTGTA
* * *
65215061 AATCGATGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGT
65215125 AAAATGGTAATTTTGTA
65 AAAATGGTAATTTTGTA
* * * *
65215142 AATCGAGGGTAAAATGGTAATTCTATAAATCGA--G------GGTAATTCTATAAATCAAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
65215199 AAATGGTAATTTTGTA
66 AAATGGTAATTTTGTA
* *
65215215 AATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
* * *
65215280 AAACGGTAATTCTATA
66 AAATGGTAATTTTGTA
*
65215296 AATCGAGGGTAAAACGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGG
65215332 CATTTCAATA
Statistics
Matches: 309, Mismatches: 31, Indels: 24
0.85 0.09 0.07
Matches are distributed among these distances:
73 65 0.21
74 1 0.00
75 1 0.00
79 1 0.00
80 1 0.00
81 239 0.77
82 1 0.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
AAATGGTAATTTTGTA
Found at i:65215179 original size:19 final size:19
Alignment explanation
Indices: 65215157--65215199 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
65215147 AGGGTAAAAT
*
65215157 GGTAATTCTATAAATCGAG
1 GGTAATTCTATAAATCAAG
65215176 GGTAATTCTATAAATCAAG
1 GGTAATTCTATAAATCAAG
65215195 GGTAA
1 GGTAA
65215200 AATGGTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (19 bp):
GGTAATTCTATAAATCAAG
Found at i:65215180 original size:46 final size:46
Alignment explanation
Indices: 65215130--65215226 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
65215120 AGGGTAAAAT
* * *
65215130 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAG
1 GGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTATAAATCGAG
* *
65215176 GGTAATTCTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAG
1 GGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTATAAATCGAG
65215222 GGTAA
1 GGTAA
65215227 AACGGTAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (46 bp):
GGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTATAAATCGAG
Found at i:65215197 original size:100 final size:100
Alignment explanation
Indices: 65215076--65215278 Score: 300
Period size: 100 Copynumber: 2.0 Consensus size: 100
65215066 ATGGTAAAAT
* * * * *
65215076 GGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTG
1 GGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAACGGTAATTCTA
*
65215140 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAG
65 TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAG
*
65215176 GGTAATTCTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAT
1 GGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAT
* * *
65215241 AAATTGAGGGTAAAACGGTAATTTTGTAAATCGAG
66 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAG
65215276 GGT
1 GGT
65215279 GAAACGGTAA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 91 0.99
101 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (100 bp):
GGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAT
AAATCGAGGGTAAAACGGTAATTCTATAAATCGAG
Found at i:65215344 original size:81 final size:81
Alignment explanation
Indices: 65215186--65215351 Score: 206
Period size: 81 Copynumber: 2.0 Consensus size: 81
65215176 GGTAATTCTA
* * * * *
65215186 TAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGG
1 TAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGG
* ** *
65215251 TAAAACGGTAATTTTG
66 CAAAACAATAATTTGG
* *
65215267 TAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGG
1 TAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGG
***
65215332 CATTTCAATAATTTGG
66 CAAAACAATAATTTGG
65215348 TAAA
1 TAAA
65215352 CTAAAGTATT
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (81 bp):
TAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGG
CAAAACAATAATTTGG
Found at i:65221123 original size:13 final size:13
Alignment explanation
Indices: 65221107--65221139 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
65221097 GACCACACGT
65221107 CCGTGTGTCTAGC
1 CCGTGTGTCTAGC
65221120 CCGTGTGTCTAGC
1 CCGTGTGTCTAGC
*
65221133 CCATGTG
1 CCGTGTG
65221140 CTATGCACAT
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:0.09, C:0.30, G:0.30, T:0.30
Consensus pattern (13 bp):
CCGTGTGTCTAGC
Found at i:65223076 original size:30 final size:30
Alignment explanation
Indices: 65223021--65223180 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
65223011 ATAGTGAATC
65223021 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
65223050 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
65223080 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
65223109 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
65223137 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
65223167 CGCACACTTAGTGC
1 CGCACACTTAGTGC
65223181 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:65223113 original size:59 final size:57
Alignment explanation
Indices: 65223021--65223180 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
65223011 ATAGTGAATC
*
65223021 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
65223080 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
65223137 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
65223181 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:65228398 original size:24 final size:24
Alignment explanation
Indices: 65228369--65228422 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
65228359 GTTAGGATAC
*
65228369 ATATGTCATGACATAAGATCTGAT
1 ATATGTCATGACATAAGATCCGAT
*
65228393 ATATGTCATGACATAGGATCCGAT
1 ATATGTCATGACATAAGATCCGAT
65228417 ATATGT
1 ATATGT
65228423 GTTCGTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (24 bp):
ATATGTCATGACATAAGATCCGAT
Found at i:65228529 original size:42 final size:42
Alignment explanation
Indices: 65228424--65228669 Score: 241
Period size: 42 Copynumber: 5.8 Consensus size: 42
65228414 GATATATGTG
* *
65228424 TTCGTGTAAGACCATGTCAGGGACATTGGCATTGGT-TTATGAT
1 TTCGTGTAAGACCATGTCTGGGACGTTGGCATT-GTATT-TGAT
65228467 TTACGTGTAAGACCATGTCTGGGACGTTGGCATTGTATTTGAT
1 TT-CGTGTAAGACCATGTCTGGGACGTTGGCATTGTATTTGAT
* * *
65228510 TTCGTGTATGACCTTGTCTGGGACAG-TGGC-TCGATATTTGAT
1 TTCGTGTAAGACCATGTCTGGGAC-GTTGGCATTG-TATTTGAT
* * **
65228552 TACATGTAAGACCACATCTGGGACGTTGGCATTGTATTTGAT
1 TTCGTGTAAGACCATGTCTGGGACGTTGGCATTGTATTTGAT
* * * *
65228594 TTCGTGTAAGACCCTGTCTAGGATAG-TGGC-TCGATATTTGAT
1 TTCGTGTAAGACCATGTCTGGGA-CGTTGGCATTG-TATTTGAT
* * * *
65228636 TACATGTAAGACCACGTCTGGGATGTTGGCATTG
1 TTCGTGTAAGACCATGTCTGGGACGTTGGCATTG
65228670 CACGAGCTTT
Statistics
Matches: 166, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
41 6 0.04
42 113 0.68
43 16 0.10
44 31 0.19
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (42 bp):
TTCGTGTAAGACCATGTCTGGGACGTTGGCATTGTATTTGAT
Found at i:65228572 original size:84 final size:84
Alignment explanation
Indices: 65228424--65228669 Score: 334
Period size: 84 Copynumber: 2.9 Consensus size: 84
65228414 GATATATGTG
* * * * * *
65228424 TTCGTGTAAGACCATGTC-AGGGACATTGGCATTGGT-TTATGATTTACGTGTAAGACCATGTCT
1 TTCGTGTAAGACCCTGTCTA-GGACAGTGGC-TCGATATT-TGA-TTACATGTAAGACCACGTCT
65228487 GGGACGTTGGCATTGTATTTGAT
62 GGGACGTTGGCATTGTATTTGAT
* * * *
65228510 TTCGTGTATGACCTTGTCTGGGACAGTGGCTCGATATTTGATTACATGTAAGACCACATCTGGGA
1 TTCGTGTAAGACCCTGTCTAGGACAGTGGCTCGATATTTGATTACATGTAAGACCACGTCTGGGA
65228575 CGTTGGCATTGTATTTGAT
66 CGTTGGCATTGTATTTGAT
*
65228594 TTCGTGTAAGACCCTGTCTAGGATAGTGGCTCGATATTTGATTACATGTAAGACCACGTCTGGGA
1 TTCGTGTAAGACCCTGTCTAGGACAGTGGCTCGATATTTGATTACATGTAAGACCACGTCTGGGA
*
65228659 TGTTGGCATTG
66 CGTTGGCATTG
65228670 CACGAGCTTT
Statistics
Matches: 143, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
84 110 0.77
85 6 0.04
86 27 0.19
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (84 bp):
TTCGTGTAAGACCCTGTCTAGGACAGTGGCTCGATATTTGATTACATGTAAGACCACGTCTGGGA
CGTTGGCATTGTATTTGAT
Found at i:65228655 original size:126 final size:128
Alignment explanation
Indices: 65228428--65228658 Score: 283
Period size: 126 Copynumber: 1.8 Consensus size: 128
65228418 TATGTGTTCG
** * *
65228428 TGTAAGACCATGTCAGGGACATTGGCATTGGTTTATGATTTACGTGTAAGACCATGTCTGGGACG
1 TGTAAGACCACATCAGGGACATTGGCATTGGTTTATGATTTACGTGTAAGACCATGTCTAGGAAG
* * * * **
65228493 TTGGCATTGTATTTGATTTCGTGTATGACCTTGTCTGGGACAGTGGCTCGATATTTGATTACA
66 TTGGCATCGTATTTGATTACATGTAAGACCACGTCTGGGACAGTGGCTCGATATTTGATTACA
* * *
65228556 TGTAAGACCACATCTGGGACGTTGGCATT-GTATT-TGATTT-CGTGTAAGACCCTGTCTAGGAT
1 TGTAAGACCACATCAGGGACATTGGCATTGGT-TTATGATTTACGTGTAAGACCATGTCTAGGA-
65228618 AG-TGGC-TCGATATTTGATTACATGTAAGACCACGTCTGGGA
64 AGTTGGCATCG-TATTTGATTACATGTAAGACCACGTCTGGGA
65228659 TGTTGGCATT
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
125 2 0.02
126 49 0.56
127 9 0.10
128 27 0.31
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (128 bp):
TGTAAGACCACATCAGGGACATTGGCATTGGTTTATGATTTACGTGTAAGACCATGTCTAGGAAG
TTGGCATCGTATTTGATTACATGTAAGACCACGTCTGGGACAGTGGCTCGATATTTGATTACA
Found at i:65231492 original size:27 final size:27
Alignment explanation
Indices: 65231441--65231608 Score: 232
Period size: 27 Copynumber: 6.3 Consensus size: 27
65231431 TAAGTTGTAT
*
65231441 AATTACCGAAATA-CCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
65231467 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
65231494 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
65231521 AATTACCGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
65231548 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
65231575 AATTACCGAGATACCCTTGT-GGGATAA
1 AATTACCGAAATACCCCTGTAGGG-TAG
65231602 AATTACC
1 AATTACC
65231609 ATTTTGCCCC
Statistics
Matches: 128, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
26 16 0.12
27 112 0.88
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:65231796 original size:10 final size:10
Alignment explanation
Indices: 65231767--65231797 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
65231757 TGGGAGATAT
*
65231767 CGTCATCAAT
1 CGTCATCAAC
65231777 CGTCATCAAC
1 CGTCATCAAC
65231787 CGTCATCAAC
1 CGTCATCAAC
65231797 C
1 C
65231798 AGGTGTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.29, C:0.39, G:0.10, T:0.23
Consensus pattern (10 bp):
CGTCATCAAC
Found at i:65232309 original size:27 final size:26
Alignment explanation
Indices: 65232265--65232316 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
65232255 CTCACTGCAA
*
65232265 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
65232292 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
65232317 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:65232410 original size:27 final size:25
Alignment explanation
Indices: 65232359--65232417 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
65232349 ATATATATAT
*
65232359 ATATCTGTTCTGGTGGCCTAGCACA
1 ATATCTGTTCTGGTGACCTAGCACA
* *
65232384 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAG-CACA
65232411 ATATCTG
1 ATATCTG
65232418 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 8 0.28
26 10 0.34
27 11 0.38
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (25 bp):
ATATCTGTTCTGGTGACCTAGCACA
Found at i:65239029 original size:27 final size:27
Alignment explanation
Indices: 65238995--65239166 Score: 256
Period size: 27 Copynumber: 6.4 Consensus size: 27
65238985 CGGATAAGTT
*
65238995 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
65239022 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
65239049 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
65239076 GTAGAATTACCGAAATA-CCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
65239102 ATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
65239129 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
65239156 GTAAAATTACC
1 GTAGAATTACC
65239167 ATTTTGCCCC
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 23 0.17
27 110 0.83
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:65239127 original size:53 final size:53
Alignment explanation
Indices: 65238996--65239149 Score: 245
Period size: 53 Copynumber: 2.9 Consensus size: 53
65238986 GGATAAGTTG
* * *
65238996 TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATA-CCCTATAGGA
65239050 TAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTATAGGA
1 TAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTATAGGA
* * *
65239103 TAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAGATACCCT
1 TAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCT
65239150 TGTGGGGTAA
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 52 0.55
54 42 0.45
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (53 bp):
TAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTATAGGA
Found at i:65239129 original size:80 final size:81
Alignment explanation
Indices: 65238995--65239166 Score: 258
Period size: 80 Copynumber: 2.1 Consensus size: 81
65238985 CGGATAAGTT
*
65238995 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
1 GTAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
65239060 GAAATACCCCTGTAGG
66 GAAATACCCCTGTAGG
* *
65239076 GTAGAATTACCGAAATA-CCCTAT-AGGATAGAATTACTGAAATACCCTTGTAGGGTAGAATTAC
1 GTAGAATTACCGAAATACCCCTATAAGG-TAGAATTACCGAAATACCCCTGTAGGGTAGAATTAC
* * *
65239139 CGAGATACCCTTGTGGG
65 CGAAATACCCCTGTAGG
*
65239156 GTAAAATTACC
1 GTAGAATTACC
65239167 ATTTTGCCCC
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 3 0.04
80 63 0.76
81 17 0.20
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
GAAATACCCCTGTAGG
Found at i:65239356 original size:10 final size:10
Alignment explanation
Indices: 65239327--65239357 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
65239317 TGGGAGATAT
*
65239327 CGTCATCAAT
1 CGTCATCAAC
65239337 CGTCATCAAC
1 CGTCATCAAC
65239347 CGTCATCAAC
1 CGTCATCAAC
65239357 C
1 C
65239358 AGGTGTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.29, C:0.39, G:0.10, T:0.23
Consensus pattern (10 bp):
CGTCATCAAC
Found at i:65239882 original size:25 final size:27
Alignment explanation
Indices: 65239853--65239911 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
65239843 ACATATATAT
65239853 ATATCTGT-TCTGGTG-CCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
65239878 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
65239905 ATATCTG
1 ATATCTG
65239912 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 8 0.28
26 7 0.24
27 14 0.48
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:65243400 original size:48 final size:47
Alignment explanation
Indices: 65243251--65243419 Score: 234
Period size: 48 Copynumber: 3.5 Consensus size: 47
65243241 AGGGGATATA
* * *
65243251 TTGATTTGGCTTCGGGACATGATATGGGCACTTCAGGTGTGAGTTAC
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAGTTAC
*
65243298 TTTGATTTGGCTTCGGGCTATGATATCGGCACTTCAGGTGCGAGTTAC
1 -TTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAGTTAC
65243346 TTTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAGCTTTAC
1 -TTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAG--TTAC
*
65243396 -TGATTTAGCTAT-GGGCCATGATAT
1 TTGATTTGGCT-TCGGGCCATGATAT
65243420 TATCACTTTG
Statistics
Matches: 112, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
48 107 0.96
49 1 0.01
50 4 0.04
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (47 bp):
TTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAGTTAC
Found at i:65243427 original size:48 final size:47
Alignment explanation
Indices: 65243251--65243485 Score: 190
Period size: 48 Copynumber: 4.9 Consensus size: 47
65243241 AGGGGATATA
* * ** *
65243251 TTGATTTGGCTTCGGGACATGATATGGGCACTTCAGGTGTGAGTTAC
1 TTGATTTAGCTTCGGGCCATGATATCAGCACTTCAGGTGCGAGTTAC
* * *
65243298 TTTGATTTGGCTTCGGGCTATGATATCGGCACTTCAGGTGCGAGTTAC
1 -TTGATTTAGCTTCGGGCCATGATATCAGCACTTCAGGTGCGAGTTAC
* *
65243346 TTTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAGCTTTAC
1 -TTGATTTAGCTTCGGGCCATGATATCAGCACTTCAGGTGCGAG--TTAC
* * ** *
65243396 -TGATTTAGCTAT-GGGCCATGATATTATCACTTTGGGTGCGACATATA-
1 TTGATTTAGCT-TCGGGCCATGATATCAGCACTTCAGGTGCGA-GT-TAC
* * * * *
65243443 TTGAGTTGGCTTTGGGCCATGATGTGAGCACTT-AGTGTGCGAG
1 TTGATTTAGCTTCGGGCCATGATATCAGCACTTCAG-GTGCGAG
65243486 ACTCCAGAGT
Statistics
Matches: 160, Mismatches: 19, Indels: 17
0.82 0.10 0.09
Matches are distributed among these distances:
47 3 0.02
48 152 0.95
49 1 0.01
50 4 0.03
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (47 bp):
TTGATTTAGCTTCGGGCCATGATATCAGCACTTCAGGTGCGAGTTAC
Found at i:65243427 original size:96 final size:95
Alignment explanation
Indices: 65243246--65243465 Score: 248
Period size: 96 Copynumber: 2.3 Consensus size: 95
65243236 TCATTAGGGG
* * * *
65243246 ATATATTGATTTGGCTTCGGGACATGATATGGGCACTTCAGGTGTGAGTTACTTTGATTTGGCTT
1 ATATATTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAGTTAC-TTGATTTAGCTT
* * *
65243311 CGGGCTATGATATCGGCACTTCAGGTGCGAG
65 CGGGCCATGATATCAGCACTTCAGGTGCGAC
*
65243342 TTACT-TTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAGCTTTAC-TGATTTAGC
1 ATA-TATTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAG--TTACTTGATTTAGC
* * **
65243405 TAT-GGGCCATGATATTATCACTTTGGGTGCGAC
63 T-TCGGGCCATGATATCAGCACTTCAGGTGCGAC
* *
65243438 ATATATTGAGTTGGCTTTGGGCCATGAT
1 ATATATTGATTTGGCTTCGGGCCATGAT
65243466 GTGAGCACTT
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
95 1 0.01
96 97 0.93
97 2 0.02
98 4 0.04
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (95 bp):
ATATATTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAGTTACTTGATTTAGCTTC
GGGCCATGATATCAGCACTTCAGGTGCGAC
Found at i:65246331 original size:24 final size:25
Alignment explanation
Indices: 65246276--65246331 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
65246266 TTGGTGGCGA
*
65246276 TTTCTTCTTCCTCTCTTTTTCCTTC
1 TTTCTTCTTCCTCCCTTTTTCCTTC
* * *
65246301 ATT-TTCTTTCTCCCTTTTTGCTT-
1 TTTCTTCTTCCTCCCTTTTTCCTTC
65246324 TTTCTTCT
1 TTTCTTCT
65246332 AGCCGAAACC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.08
24 21 0.84
25 2 0.08
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.66
Consensus pattern (25 bp):
TTTCTTCTTCCTCCCTTTTTCCTTC
Found at i:65255527 original size:47 final size:47
Alignment explanation
Indices: 65255473--65255597 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 47
65255463 TTAAGTTGCC
* * ** * *
65255473 TAAACTTAGGATACATTAAGTAGCTGTATTAACTAAAACATATTAAA
1 TAAACTTAGGACACATTAAATAGCTAAACTAACTAAAACACATTAAA
* * *
65255520 TAAACTTAGGACATATTAAATAGCTAAACTAATTAGAACACATTAAA
1 TAAACTTAGGACACATTAAATAGCTAAACTAACTAAAACACATTAAA
*
65255567 TAAACTTAAGACA-ATTAAATA-CTTAAACTAA
1 TAAACTTAGGACACATTAAATAGC-TAAACTAA
65255598 AATAACTAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.01
46 16 0.24
47 50 0.75
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (47 bp):
TAAACTTAGGACACATTAAATAGCTAAACTAACTAAAACACATTAAA
Found at i:65260749 original size:49 final size:50
Alignment explanation
Indices: 65260696--65260828 Score: 160
Period size: 50 Copynumber: 2.7 Consensus size: 50
65260686 CTGGTACGCA
* ** * *
65260696 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCCGATACACG
* * *
65260745 TAGTAGCCTGCACTTAGTACTATACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCCGATACACG
* * *
65260795 TAGTAACCTGCACTCAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCT
65260829 CACAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 30 0.42
50 42 0.58
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCCGATACACG
Found at i:65261095 original size:27 final size:27
Alignment explanation
Indices: 65261065--65261118 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
65261055 TCATACAACC
*
65261065 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAGTAATTTAACATTCAATT
**
65261092 CATGTAACAGTAATTTTCCATTCAATT
1 CATGTAACAGTAATTTAACATTCAATT
65261119 TCACATGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAGTAATTTAACATTCAATT
Found at i:65262142 original size:19 final size:19
Alignment explanation
Indices: 65262118--65262174 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 19
65262108 AGTGTTGAAA
65262118 TATTATTGGTTAAATATTT
1 TATTATTGGTTAAATATTT
*
65262137 TATTATT-TTATAAGATATTT
1 TATTATTGGT-TAA-ATATTT
*
65262157 TAATATTTGGATTAAATA
1 TATTA-TTGG-TTAAATA
65262175 ATTAAATGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
18 1 0.03
19 10 0.33
20 10 0.33
21 5 0.17
22 3 0.10
23 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (19 bp):
TATTATTGGTTAAATATTT
Found at i:65263234 original size:28 final size:28
Alignment explanation
Indices: 65263202--65263299 Score: 169
Period size: 28 Copynumber: 3.5 Consensus size: 28
65263192 ATTAAAGTGT
* *
65263202 TTAATGTGTCTTAGTTTATTACATATTA
1 TTAATGTGTCTTAGTTTAATACATGTTA
65263230 TTAATGTGTCTTAGTTTAATACATGTTA
1 TTAATGTGTCTTAGTTTAATACATGTTA
*
65263258 TTAATGTGTCTTAGTTTAATACATGTTT
1 TTAATGTGTCTTAGTTTAATACATGTTA
65263286 TTAATGTGTCTTAG
1 TTAATGTGTCTTAG
65263300 CTGCTGTCGA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.52
Consensus pattern (28 bp):
TTAATGTGTCTTAGTTTAATACATGTTA
Found at i:65267975 original size:49 final size:49
Alignment explanation
Indices: 65267917--65268013 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 49
65267907 GCGCTAACTT
65267917 TCATATATCGAG-GCTAATGCCATGTCCCAGACAGGTCTTACACTAGCTC
1 TCATATATCG-GTGCTAATGCCATGTCCCAGACAGGTCTTACACTAGCTC
* * * ***
65267966 TCATCTATCGGTGTTGATGCCATGTTTTAGACAGGTCTTACACTAGCT
1 TCATATATCGGTGCTAATGCCATGTCCCAGACAGGTCTTACACTAGCT
65268014 TGTATATCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 40 0.98
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (49 bp):
TCATATATCGGTGCTAATGCCATGTCCCAGACAGGTCTTACACTAGCTC
Found at i:65273215 original size:18 final size:18
Alignment explanation
Indices: 65273192--65273227 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
65273182 TTCCCTGGTA
65273192 ATAGTCGATTATCAACTC
1 ATAGTCGATTATCAACTC
**
65273210 ATAGTCTTTTATCAACTC
1 ATAGTCGATTATCAACTC
65273228 TAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (18 bp):
ATAGTCGATTATCAACTC
Found at i:65275900 original size:29 final size:29
Alignment explanation
Indices: 65275865--65275996 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
65275855 GTGACGAGAT
65275865 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
65275894 TGGCACTAAGTGTGCATGCTAGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
65275923 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
65275952 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
65275981 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
65275997 GGCTTAAATC
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:65283484 original size:29 final size:29
Alignment explanation
Indices: 65283449--65283580 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
65283439 GTGACGAGAT
65283449 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
65283478 TGGCACTAAGTGTGCATGCTAGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
65283507 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
65283536 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
65283565 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
65283581 GGCTTAAATC
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:65297158 original size:49 final size:49
Alignment explanation
Indices: 65297081--65297325 Score: 328
Period size: 49 Copynumber: 4.9 Consensus size: 49
65297071 TAGCCGAAGC
* * *
65297081 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
65297130 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
65297180 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
65297231 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
*
65297280 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
65297326 TCACAATAGC
Statistics
Matches: 169, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 83 0.49
50 48 0.28
51 38 0.22
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:65305540 original size:18 final size:18
Alignment explanation
Indices: 65305519--65305554 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
65305509 TTATCACAAA
*
65305519 TTTTTTTCCTTTTTTCTT
1 TTTTTTTCATTTTTTCTT
*
65305537 TTTTTTTGATTTTTTCTT
1 TTTTTTTCATTTTTTCTT
65305555 CAAAATCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTTTTTCATTTTTTCTT
Found at i:65306925 original size:48 final size:48
Alignment explanation
Indices: 65306854--65307332 Score: 807
Period size: 48 Copynumber: 10.0 Consensus size: 48
65306844 TGTTACAACC
* * * * *
65306854 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
65306902 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
65306950 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
65306998 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
65307046 TTCACATTAGCCATTCGGC-TTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
65307093 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** *
65307141 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCGTATGTAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
65307189 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
65307237 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
65307285 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
65307333 ATATTTATCT
Statistics
Matches: 407, Mismatches: 23, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
47 45 0.11
48 362 0.89
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:65307279 original size:239 final size:240
Alignment explanation
Indices: 65306854--65307332 Score: 843
Period size: 239 Copynumber: 2.0 Consensus size: 240
65306844 TGTTACAACC
* * *
65306854 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATATTTCACATTCGCCATTCG
*
65306919 GCTTTACGACATATACATATCTCATATATATTTCACATTCGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACATATACATATCTCATATATATTTCACATTCGCCATTCGGCTTTACCACATATACA
* *
65306984 TATCACACATATATTTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTC
131 TATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTC
65307049 ACATTAGCCATTCGGC-TTACCACATATACATATCACACATATAT
196 ACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
65307093 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATATTTCACATTCGCCATTCG
* *
65307158 GCTTTACCACATATACATATCTCGTATGTATTTCACATTCGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACATATACATATCTCATATATATTTCACATTCGCCATTCGGCTTTACCACATATACA
*
65307223 TTTCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTC
131 TATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTC
*
65307288 ACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
196 ACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
65307333 ATATTTATCT
Statistics
Matches: 227, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
239 199 0.88
240 28 0.12
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (240 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATATTTCACATTCGCCATTCG
GCTTTACCACATATACATATCTCATATATATTTCACATTCGCCATTCGGCTTTACCACATATACA
TATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTC
ACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:65311054 original size:40 final size:40
Alignment explanation
Indices: 65310988--65311254 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
65310978 CCAACATGAT
* * * *
65310988 TGCTTTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
65311028 TGCTCTTCGGGACTTAGTCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
65311068 TGCTCTTCGAAATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65311108 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65311148 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65311188 TGCTCTTC-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65311227 TGCTCTTCGGAACTTAGTCCGGATACAT
1 TGCTCTTCGGAACTTAGTCCGGATACAT
65311255 AACTCTCAAT
Statistics
Matches: 216, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 39 0.18
40 177 0.82
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:65312546 original size:37 final size:36
Alignment explanation
Indices: 65312494--65312566 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 36
65312484 TCAGACGAAA
65312494 TCTCCACACGAAGTCATCGGGTCTTACCCGGACATAC
1 TCTCCACACGAAGTCATCGGGTCTTACCCGGA-ATAC
* *
65312531 TCTCCACACGTAGTCATCGGGTTTTACCCGGAATAC
1 TCTCCACACGAAGTCATCGGGTCTTACCCGGAATAC
65312567 ATTTCCAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 4 0.12
37 30 0.88
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (36 bp):
TCTCCACACGAAGTCATCGGGTCTTACCCGGAATAC
Found at i:65312678 original size:48 final size:48
Alignment explanation
Indices: 65312607--65313037 Score: 675
Period size: 48 Copynumber: 9.0 Consensus size: 48
65312597 TGTTACAACC
* * * * *
65312607 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
65312655 TTCACATTCGCCATTCGACTTTACGACATATACATATCTCATATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
65312703 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
65312751 TTCACATTCGCCA-TCAGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
65312798 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** *
65312846 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCGTATGTAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
65312894 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
65312942 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
**
65312990 TTCACATTCGCCATTCGGCTTTACCACATATACATATTTCACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
65313038 ATATTTATCT
Statistics
Matches: 353, Mismatches: 29, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
47 44 0.12
48 309 0.88
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:65313034 original size:15 final size:15
Alignment explanation
Indices: 65313014--65313043 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65313004 TCGGCTTTAC
65313014 CACATATACATATTT
1 CACATATACATATTT
*
65313029 CACATATATATATTT
1 CACATATACATATTT
65313044 ATCTTGCACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
CACATATACATATTT
Found at i:65314138 original size:2 final size:2
Alignment explanation
Indices: 65314131--65314163 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
65314121 TTAATCGTTG
65314131 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65314164 CAACATTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65322553 original size:49 final size:48
Alignment explanation
Indices: 65322500--65322914 Score: 660
Period size: 47 Copynumber: 8.7 Consensus size: 48
65322490 GATTTTACGC
* *
65322500 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTAT-AATATGTGATAAGGCCTAATGGCCGATGT
65322549 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATA-ATATGTGATAAGGCCTAATGGCCGATGT
65322598 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATA-ATATGTGATAAGGCCTAATGGCCGATGT
65322647 GATGAATGTGAAAGTGTAT-ATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
65322694 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATA-ATATGTGATAAGGCCTAATGGCCGATGT
65322743 GATGAATGTGAAAGTGTAT-ATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
* * *
65322790 GATGAATGTGAAGGTGTAT-ATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
65322837 GATGAATGTGAAAGTGTAT-ATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
*
65322884 GATGGATGTGAAAGTGTATAA-ATGTGATAAG
1 GATGAATGTGAAAGTGTATAATATGTGATAAG
65322915 TCCCGAAGGG
Statistics
Matches: 351, Mismatches: 11, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
47 189 0.54
48 2 0.01
49 160 0.46
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (48 bp):
GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
Found at i:65322715 original size:96 final size:96
Alignment explanation
Indices: 65322500--65322914 Score: 676
Period size: 96 Copynumber: 4.3 Consensus size: 96
65322490 GATTTTACGC
* * *
65322500 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
65322565 TATATATATGTGATAAGGCCTAATGGCCGATGT
66 --TATATATGTGATAAGGCCTAATGGCCGATGT
65322598 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
65322663 TATATATGTGATAAGGCCTAATGGCCGATGT
66 TATATATGTGATAAGGCCTAATGGCCGATGT
65322694 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
65322759 TATATATGTGATAAGGCCTAATGGCCGATGT
66 TATATATGTGATAAGGCCTAATGGCCGATGT
* * *
65322790 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * *
65322853 TATATATGTGATAGGGCCGAGTGGCCAACGT
66 TATATATGTGATAAGGCCTAATGGCCGATGT
*
65322884 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
65322915 TCCCGAAGGG
Statistics
Matches: 302, Mismatches: 13, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
94 92 0.30
95 7 0.02
96 141 0.47
98 62 0.21
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:65324794 original size:26 final size:25
Alignment explanation
Indices: 65324758--65324841 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
65324748 TGATACAAAT
65324758 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
65324784 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
65324810 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
65324836 TGATAA
1 TGATAA
65324842 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
26 52 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:65326313 original size:28 final size:26
Alignment explanation
Indices: 65326271--65326341 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
65326261 AAAAGTAGCT
* * *
65326271 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
65326299 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
65326325 AAATTACCGTTATACCC
1 AAATTACTGTTATACCC
65326342 TTAGGGTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
26 19 0.50
27 1 0.03
28 18 0.47
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:65326490 original size:27 final size:28
Alignment explanation
Indices: 65326449--65326561 Score: 135
Period size: 27 Copynumber: 4.2 Consensus size: 28
65326439 GAGGAAGCGT
*
65326449 TCTGGTGGCTATGCCACAAATATCT-TA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
65326476 TCTGGTGGCTCTGCCACATATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
65326503 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* * *
65326531 TCTGGTGACTCTGTCAC-ATTATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
65326557 TCTGG
1 TCTGG
65326562 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
26 5 0.06
27 56 0.73
28 16 0.21
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:65326554 original size:54 final size:54
Alignment explanation
Indices: 65326447--65326561 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
65326437 TGGAGGAAGC
*
65326447 GTTCTGGTGGCTATGCCACAAATATCTTATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTTATCTGGTGACTCTGCCACATATATCT
* * * *
65326501 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCT-TATCTGGTGACTCTGCCACATATATCT
65326555 GTTCTGG
1 GTTCTGG
65326562 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 36 0.65
55 19 0.35
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTTATCTGGTGACTCTGCCACATATATCT
Found at i:65326647 original size:19 final size:21
Alignment explanation
Indices: 65326623--65326662 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65326613 CTCCCCACAT
65326623 GGTG-TAAGGTTGG-TATGGG
1 GGTGATAAGGTTGGATATGGG
65326642 GGTGTATAAGGTTGGATATGG
1 GGTG-ATAAGGTTGGATATGG
65326663 TTGGGGTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (21 bp):
GGTGATAAGGTTGGATATGGG
Found at i:65327934 original size:31 final size:31
Alignment explanation
Indices: 65327892--65328005 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
65327882 CCTTTTCGTA
65327892 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
65327929 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
65327961 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
65327992 TTTCATGTTTCATA
1 TTTCATATTTCATA
65328006 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:65327934 original size:38 final size:38
Alignment explanation
Indices: 65327869--65328031 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
65327859 TCAATCATGC
* * *
65327869 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATGTTTCATATTTCATAAT
65327908 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
*
65327946 ACTGGGCCGAAG-C----C-T-TTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
65327977 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
65328015 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
65328032 ACTGTAAACG
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 27 0.24
32 2 0.02
33 1 0.01
36 1 0.01
37 2 0.02
38 68 0.61
39 11 0.10
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
Found at i:65328003 original size:69 final size:69
Alignment explanation
Indices: 65327892--65328031 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
65327882 CCTTTTCGTA
65327892 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
65327957 GCCT
66 GCCT
*
65327961 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
65328026 GCCT
66 GCCT
65328030 TT
1 TT
65328032 ACTGTAAACG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:65328269 original size:24 final size:24
Alignment explanation
Indices: 65328223--65328317 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
65328213 GCTTTATCAT
*
65328223 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
65328248 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
65328272 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
65328295 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
65328318 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:65328302 original size:47 final size:49
Alignment explanation
Indices: 65328223--65328316 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
65328213 GCTTTATCAT
*
65328223 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
65328272 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
65328317 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:65328393 original size:20 final size:20
Alignment explanation
Indices: 65328368--65328427 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
65328358 TATGATTACC
65328368 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
65328388 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
65328408 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
65328428 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:65328502 original size:25 final size:25
Alignment explanation
Indices: 65328470--65328517 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65328460 ATACATAAAC
* * *
65328470 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
65328495 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
65328518 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:65332429 original size:153 final size:153
Alignment explanation
Indices: 65332151--65332458 Score: 607
Period size: 153 Copynumber: 2.0 Consensus size: 153
65332141 GTACCTTGTA
65332151 TATAGCCATAAGATGTGGCTTATGATAGTCATGGCTGGTAAGCCTAATTATCCAAGTTATGTGAT
1 TATAGCCATAAGATGTGGCTTATGATAGTCATGGCTGGTAAGCCTAATTATCCAAGTTATGTGAT
65332216 ATTGCCCTATGAAGTGGTTATGTGATTTGGCTTGATTGCTATGATTAGATGATATCATGATATGT
66 ATTGCCCTATGAAGTGGTTATGTGATTTGGCTTGATTGCTATGATTAGATGATATCATGATATGT
*
65332281 GTGTTTGCTAATTTTTTTGAGAT
131 GTGCTTGCTAATTTTTTTGAGAT
65332304 TATAGCCATAAGATGTGGCTTATGATAGTCATGGCTGGTAAGCCTAATTATCCAAGTTATGTGAT
1 TATAGCCATAAGATGTGGCTTATGATAGTCATGGCTGGTAAGCCTAATTATCCAAGTTATGTGAT
65332369 ATTGCCCTATGAAGTGGTTATGTGATTTGGCTTGATTGCTATGATTAGATGATATCATGATATGT
66 ATTGCCCTATGAAGTGGTTATGTGATTTGGCTTGATTGCTATGATTAGATGATATCATGATATGT
65332434 GTGCTTGCTAATTTTTTTGAGAT
131 GTGCTTGCTAATTTTTTTGAGAT
65332457 TA
1 TA
65332459 AATGGTATGC
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 154 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (153 bp):
TATAGCCATAAGATGTGGCTTATGATAGTCATGGCTGGTAAGCCTAATTATCCAAGTTATGTGAT
ATTGCCCTATGAAGTGGTTATGTGATTTGGCTTGATTGCTATGATTAGATGATATCATGATATGT
GTGCTTGCTAATTTTTTTGAGAT
Found at i:65333777 original size:26 final size:26
Alignment explanation
Indices: 65333715--65333779 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
65333705 AACACAACTT
*
65333715 AGACATATTT-AATTGGTCTGAATTA
1 AGACATATTTAAATTGGTCTAAATTA
* *
65333740 AAACATGTTTTAAATAT-GTCTAAATTA
1 AGACAT-ATTTAAAT-TGGTCTAAATTA
65333767 AGACATATTTAAA
1 AGACATATTTAAA
65333780 ACATACTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 5 0.16
26 9 0.28
27 17 0.53
28 1 0.03
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (26 bp):
AGACATATTTAAATTGGTCTAAATTA
Found at i:65336260 original size:21 final size:21
Alignment explanation
Indices: 65336236--65336278 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
65336226 AAACTCACTC
*
65336236 TAATTTTTCATTTT-TTTCATT
1 TAATTTTTC-TTTTCTCTCATT
65336257 TAATTTTTCTTTTCTCTCATT
1 TAATTTTTCTTTTCTCTCATT
65336278 T
1 T
65336279 TCACTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (21 bp):
TAATTTTTCTTTTCTCTCATT
Found at i:65336367 original size:22 final size:22
Alignment explanation
Indices: 65336314--65336367 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
65336304 CTCTTTGCTA
*
65336314 TTTCTTTCTCACTCTATTTTCT
1 TTTCTTTCTTACTCTATTTTCT
**
65336336 TTTCCCTCTTACTC-ATTTTCCT
1 TTTCTTTCTTACTCTATTTT-CT
65336358 TTTCTTTCTT
1 TTTCTTTCTT
65336368 GTTTCCTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTCTTTCTTACTCTATTTTCT
Found at i:65336394 original size:39 final size:38
Alignment explanation
Indices: 65336351--65336431 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
65336341 CTCTTACTCA
* * *
65336351 TTTTCCTTTTCTTTCTTGTTTCCTTTCTCAT-ACTTTTAT
1 TTTTCATTTTCTTTCTAGCTTCCTTTCTC-TCAC-TTTAT
*
65336390 TTTTCATTTTCTTTCTAGCTTGCTTTCTCTCACTTTAT
1 TTTTCATTTTCTTTCTAGCTTCCTTTCTCTCACTTTAT
65336428 TTTT
1 TTTT
65336432 GTAATCTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 10 0.27
39 27 0.73
ACGTcount: A:0.09, C:0.22, G:0.04, T:0.65
Consensus pattern (38 bp):
TTTTCATTTTCTTTCTAGCTTCCTTTCTCTCACTTTAT
Found at i:65338938 original size:40 final size:39
Alignment explanation
Indices: 65338863--65338965 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 39
65338853 CATCCGGATT
* *
65338863 AAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCC
1 AAGACCCGAAGGC-ATTGTGCAAGTAGCTAAATCCGGGCC
* * *
65338903 AAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCT
1 AAGACCCGAAGGCATT-GTGCAAGTAGCTAAATCCGGGCC
* *
65338943 AAGACTCGAAGGTATTTGTGCAA
1 AAGACCCGAAGGCA-TTGTGCAA
65338966 ATCGTGATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.06
40 49 0.91
41 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (39 bp):
AAGACCCGAAGGCATTGTGCAAGTAGCTAAATCCGGGCC
Found at i:65338978 original size:40 final size:40
Alignment explanation
Indices: 65338862--65338995 Score: 110
Period size: 40 Copynumber: 3.4 Consensus size: 40
65338852 ACATCCGGAT
* * *
65338862 TAAGACCCGAAGGCAATT-GTGCTAGTAGCT-ATATCCGGGC
1 TAAGACCCGAAGGC-ATTCGTGCAAATCG-TGATATCCGGGC
* * * * *
65338902 CAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGC
1 TAAGACCCGAAGGCATTCGTGCAAATCGTGATATCCGGGC
* * * *
65338942 TAAGACTCGAAGGTATTTGTGCAAATCGTGATATCCGGGT
1 TAAGACCCGAAGGCATTCGTGCAAATCGTGATATCCGGGC
* *
65338982 TAAGTCCCGTAGGC
1 TAAGACCCGAAGGC
65338996 CTTGGTGCGG
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 4 0.05
40 71 0.95
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTCGTGCAAATCGTGATATCCGGGC
Found at i:65342571 original size:16 final size:16
Alignment explanation
Indices: 65342544--65342601 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
65342534 TATTATTCAA
*
65342544 GCTTAATGCCTAGTAG
1 GCTTAGTGCCTAGTAG
*
65342560 GTTTAGTGCCTAGTAG
1 GCTTAGTGCCTAGTAG
* *
65342576 GCTTAATGCCTAGCAG
1 GCTTAGTGCCTAGTAG
65342592 GCTTAGTGCC
1 GCTTAGTGCC
65342602 ATTGTCATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (16 bp):
GCTTAGTGCCTAGTAG
Found at i:65342697 original size:22 final size:22
Alignment explanation
Indices: 65342669--65342721 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
65342659 GCCTAGTAAT
65342669 CTTAGTGCC-GATGTTATTCAGG
1 CTTAGTGCCAG-TGTTATTCAGG
65342691 CTTAGTGCCAGTGTTATTCAGG
1 CTTAGTGCCAGTGTTATTCAGG
65342713 CTTAGTGCC
1 CTTAGTGCC
65342722 TAGCAGACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (22 bp):
CTTAGTGCCAGTGTTATTCAGG
Found at i:65342744 original size:38 final size:38
Alignment explanation
Indices: 65342687--65342830 Score: 175
Period size: 38 Copynumber: 3.8 Consensus size: 38
65342677 CGATGTTATT
65342687 CAGGCTTAGTGCC-AGTGTTATTCAGGCTTAGTGCCTAG
1 CAGGCTTAGTGCCGA-TGTTATTCAGGCTTAGTGCCTAG
* * * *
65342725 CAGACTTAGTGCCGCTGTTATTCAGGCTTAATGCATAG
1 CAGGCTTAGTGCCGATGTTATTCAGGCTTAGTGCCTAG
* * *
65342763 CAGGCTTAGTGCCGAT-TATATTTAGGCTTAGTGACTAC
1 CAGGCTTAGTGCCGATGT-TATTCAGGCTTAGTGCCTAG
* *
65342801 CAGGCTTAGTGTCGATGTTATTCAGACTTA
1 CAGGCTTAGTGCCGATGTTATTCAGGCTTA
65342831 TTGCTAGTGT
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
37 1 0.01
38 87 0.98
39 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (38 bp):
CAGGCTTAGTGCCGATGTTATTCAGGCTTAGTGCCTAG
Found at i:65342758 original size:98 final size:98
Alignment explanation
Indices: 65342589--65342795 Score: 247
Period size: 98 Copynumber: 2.1 Consensus size: 98
65342579 TAATGCCTAG
* * * * *
65342589 CAGGCTTAGTGCCATTGTCATTTAGGCTTAGTGCTTAGCAAGATTAATGTCGAGGTTGTTCAAGC
1 CAGGCTTAGTGCCAGTGTCATTCAGGCTTAGTGCCTAGCAAGATTAATGCCGAGGTTATTCAAGC
* * *
65342654 TTAATGCCTAGTAATCTTAGTGCCGATGT-TATT
66 TTAATGCATAGCAAGCTTAGTGCCGAT-TATATT
* * ** *
65342687 CAGGCTTAGTGCCAGTGTTATTCAGGCTTAGTGCCTAGC-AGACTTAGTGCCGCTGTTATTCAGG
1 CAGGCTTAGTGCCAGTGTCATTCAGGCTTAGTGCCTAGCAAGA-TTAATGCCGAGGTTATTCAAG
*
65342751 CTTAATGCATAGCAGGCTTAGTGCCGATTATATT
65 CTTAATGCATAGCAAGCTTAGTGCCGATTATATT
*
65342785 TAGGCTTAGTG
1 CAGGCTTAGTG
65342796 ACTACCAGGC
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
97 4 0.04
98 88 0.96
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (98 bp):
CAGGCTTAGTGCCAGTGTCATTCAGGCTTAGTGCCTAGCAAGATTAATGCCGAGGTTATTCAAGC
TTAATGCATAGCAAGCTTAGTGCCGATTATATT
Found at i:65342820 original size:76 final size:76
Alignment explanation
Indices: 65342687--65342830 Score: 193
Period size: 76 Copynumber: 1.9 Consensus size: 76
65342677 CGATGTTATT
* * * *
65342687 CAGGCTTAGTGCCAGTGTTATTCAGGCTTAGTGCCTAGCAGACTTAGTGCCGCTGTTATTCAGGC
1 CAGGCTTAGTGCCAGTGTTATTCAGGCTTAGTGACTACCAGACTTAGTGCCGATGTTATTCAGAC
65342752 TTAATGCATAG
66 TTAATGCATAG
* * *
65342763 CAGGCTTAGTGCC-GAT-TATATTTAGGCTTAGTGACTACCAGGCTTAGTGTCGATGTTATTCAG
1 CAGGCTTAGTGCCAG-TGT-TATTCAGGCTTAGTGACTACCAGACTTAGTGCCGATGTTATTCAG
65342826 ACTTA
64 ACTTA
65342831 TTGCTAGTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 2 0.03
76 57 0.97
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (76 bp):
CAGGCTTAGTGCCAGTGTTATTCAGGCTTAGTGACTACCAGACTTAGTGCCGATGTTATTCAGAC
TTAATGCATAG
Found at i:65343395 original size:61 final size:61
Alignment explanation
Indices: 65343277--65343403 Score: 139
Period size: 61 Copynumber: 2.1 Consensus size: 61
65343267 GTGGGAAATC
* * * * * *
65343277 AACACGGCCTGGACTTCCCTACACGGGTATACCACACGCCCGTGTAGTGTTAGCAGACTCT
1 AACACGGCCTAGACTTCCCTACACGGGTAGACCACACGCCCGTGTACTATTAACAGACTCG
* * * * *
65343338 AACACGGCCTAGACTTCCTTACACGGGTAGACCATATGGCTGTGT-CTATTCAACAGACTCG
1 AACACGGCCTAGACTTCCCTACACGGGTAGACCACACGCCCGTGTACTATT-AACAGACTCG
65343399 AACAC
1 AACAC
65343404 AGGTTGAAGC
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 3 0.06
61 51 0.94
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (61 bp):
AACACGGCCTAGACTTCCCTACACGGGTAGACCACACGCCCGTGTACTATTAACAGACTCG
Found at i:65346479 original size:13 final size:13
Alignment explanation
Indices: 65346461--65346488 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
65346451 TAAATTTATA
65346461 TTCCCTGTTGATT
1 TTCCCTGTTGATT
65346474 TTCCCTGTTGATT
1 TTCCCTGTTGATT
65346487 TT
1 TT
65346489 GTTGTGCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.21, G:0.14, T:0.57
Consensus pattern (13 bp):
TTCCCTGTTGATT
Found at i:65348042 original size:46 final size:46
Alignment explanation
Indices: 65347898--65348023 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
65347888 AACCCGCCCC
* * *
65347898 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCA
*
65347944 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCA
65347990 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65348024 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCA
Found at i:65364336 original size:6 final size:6
Alignment explanation
Indices: 65364318--65364405 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
65364308 AAGAAACATT
* * *
65364318 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAAA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
65364367 ATCAGA ATCAGT ATCAGGTA A-CAAA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
65364406 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:65364385 original size:25 final size:25
Alignment explanation
Indices: 65364318--65364405 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
65364308 AAGAAACATT
65364318 ATCAGAA-CTAGAATCA-G-AATCAGA
1 ATCAGAATC-AGAATCAGGTAA-CAGA
* * *
65364342 ATCAGAATCAAAATTAGGTGACAGA
1 ATCAGAATCAGAATCAGGTAACAGA
* *
65364367 ATCAGAATCAGTATCAGGTAACAAA
1 ATCAGAATCAGAATCAGGTAACAGA
*
65364392 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
65364406 GTGAATGCAA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 12 0.24
25 38 0.75
26 1 0.02
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (25 bp):
ATCAGAATCAGAATCAGGTAACAGA
Found at i:65364585 original size:27 final size:26
Alignment explanation
Indices: 65364542--65364670 Score: 132
Period size: 27 Copynumber: 4.8 Consensus size: 26
65364532 GCTCAGTTAT
** *
65364542 CAGATATTGTGATAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
65364569 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* * * *
65364595 TAGATATTTATAGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
65364623 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* * *
65364649 TAGATATTTATGGCATAGCCAC
1 CAGATA-TTGTGGCAGAGCCAC
65364671 TTAACAGAAT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.15
27 65 0.76
28 7 0.08
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:65364626 original size:54 final size:54
Alignment explanation
Indices: 65364560--65364670 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 54
65364550 GTGATAGAGT
*
65364560 CACCAGATACAGATATTGTGGCAGAGCCACCAGAATAGATATTTATAGCATAGC
1 CACCAGAAACAGATATTGTGGCAGAGCCACCAGAATAGATATTTATAGCATAGC
*
65364614 CACCAGAAACAGATATTGTGGCAGAGCCACCAGAATAGATATTTATGGCATAGC
1 CACCAGAAACAGATATTGTGGCAGAGCCACCAGAATAGATATTTATAGCATAGC
65364668 CAC
1 CAC
65364671 TTAACAGAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (54 bp):
CACCAGAAACAGATATTGTGGCAGAGCCACCAGAATAGATATTTATAGCATAGC
Found at i:65365378 original size:27 final size:27
Alignment explanation
Indices: 65365320--65365865 Score: 763
Period size: 27 Copynumber: 20.3 Consensus size: 27
65365310 GGGGCAAAAT
* * * *
65365320 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65365346 GGTAATTCCACCCTACAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65365373 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65365400 GATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65365427 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
65365454 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65365481 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65365508 GATAATTCTACCCTACAGGGGTA-TTG
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65365534 GGATAATTCTACCCTATAGGGGTATTCC
1 GG-TAATTCTACCCTACAGGGGTATTTC
* *
65365562 GGTAATTCTACCCTACAGGGATATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65365589 GGTAATTCTACCCTACAGAGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65365616 GATAATTCTACCTTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65365643 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65365670 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65365697 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65365724 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
65365751 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65365778 GGTAATTATACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
65365805 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65365832 GGTATTTCTACCCTTCAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65365859 GATAATT
1 GGTAATT
65365866 TTGTAAATCG
Statistics
Matches: 464, Mismatches: 53, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
26 17 0.04
27 444 0.96
28 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:65365879 original size:27 final size:27
Alignment explanation
Indices: 65365849--65366208 Score: 119
Period size: 27 Copynumber: 13.3 Consensus size: 27
65365839 CTACCCTTCA
**
65365849 AGGGTATTTCGATAATTTTGTAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*** * * ** *
65365876 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* *
65365903 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGATAATTTTACAAATCG
* **
65365930 AGGGTATTTCTATAATTTTACAGGTCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
65365957 AGGGTATTTC-AGTAATTTCACAAATC-
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * **
65365983 AGGGGTATTTTGGTAATTTCGCAAATC-
1 A-GGGTATTTCGATAATTTTACAAATCG
* * **
65366010 AGGGGTATTTTGGTAATTTCGCAAATC-
1 A-GGGTATTTCGATAATTTTACAAATCG
* * * *
65366037 AGGGGTATTTTGGTAATTTTTCAAA-CC
1 A-GGGTATTTCGATAATTTTACAAATCG
* * * * * *
65366064 AGTAGTATTTTGGTGATTTTATAAA-CAA
1 AG-GGTATTTCGATAATTTTACAAATC-G
* *
65366092 AGGGTATTT-TAGTAATTTTACAAA-CC
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * ** * *
65366118 AGGGGTATTTTGGTAATTTTGTAAACCA
1 A-GGGTATTTCGATAATTTTACAAATCG
* *
65366146 AGGGTATTTTGATAATTTTACAAA-CC
1 AGGGTATTTCGATAATTTTACAAATCG
* * * * *
65366172 AGGGGTATTTTGGTAATTTTATAAACCA
1 A-GGGTATTTCGATAATTTTACAAATCG
65366200 AGGGTATTT
1 AGGGTATTT
65366209 TAGTGATTTT
Statistics
Matches: 271, Mismatches: 48, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
26 10 0.04
27 255 0.94
28 6 0.02
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:65366209 original size:27 final size:27
Alignment explanation
Indices: 65365901--65366244 Score: 323
Period size: 27 Copynumber: 12.7 Consensus size: 27
65365891 TTCTGTAAAT
* **
65365901 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * ***
65365928 CGAGGGTATTTCT-ATAATTTTACAGGT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* ** * *
65365955 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** *
65365982 CAGGGGTATTTTGGTAATTTCGCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** *
65366009 CAGGGGTATTTTGGTAATTTCGCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
65366036 CAGGGGTATTTTGGTAATTTTTCAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
65366063 C-AGTAGTATTTTGGTGATTTTATAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* *
65366090 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
65366117 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
65366144 CAAGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
65366171 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
65366198 CAAGGGTATTTTAGTGATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
65366225 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
65366245 GGTAAACTAA
Statistics
Matches: 267, Mismatches: 46, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
26 1 0.00
27 263 0.99
28 3 0.01
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:65366251 original size:27 final size:27
Alignment explanation
Indices: 65365958--65366244 Score: 340
Period size: 27 Copynumber: 10.6 Consensus size: 27
65365948 TACAGGTCGA
** * *
65365958 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
65365985 GGGTATTTTGGTAATTTCGCAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
65366012 GGGTATTTTGGTAATTTCGCAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65366039 GGGTATTTTGGTAATTTTTCAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * * * *
65366066 TAGTATTTTGGTGATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65366093 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
65366120 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65366147 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
65366174 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
65366201 GGGTATTTTAGTGATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
65366228 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
65366245 GGTAAACTAA
Statistics
Matches: 223, Mismatches: 37, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 223 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:65369862 original size:28 final size:28
Alignment explanation
Indices: 65369830--65369887 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
65369820 AGTTCAAGTA
*
65369830 AGATGCAGAATAGATCAG-ATACAGATGC
1 AGATGCAGAACAGATCAGAAT-CAGATGC
*
65369858 AGATGCAGAACAGATTAGAATCAGATGC
1 AGATGCAGAACAGATCAGAATCAGATGC
65369886 AG
1 AG
65369888 TTTCCTACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.17
Consensus pattern (28 bp):
AGATGCAGAACAGATCAGAATCAGATGC
Found at i:65370671 original size:63 final size:63
Alignment explanation
Indices: 65370596--65370714 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
65370586 TGGCCTACAC
* *
65370596 ACACGCCCGTGT-CTATGGCCCGTGTGACAC-CAATTCACAAATAGTGAGTTACACAGCCTGGAG
1 ACACGCCCGTGTCCT-TGGCCCGTGTGAC-CTCAAATCACAAACAGTGAGTTACACAGCCTGGAG
* * *
65370659 ACACGCCTGTGTCCTTGGCCTGTGTGACCTTAAATCACAAACAGTGAGTTACACAG
1 ACACGCCCGTGTCCTTGGCCCGTGTGACCTCAAATCACAAACAGTGAGTTACACAG
65370715 TCGTGTGGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
62 1 0.02
63 46 0.94
64 2 0.04
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (63 bp):
ACACGCCCGTGTCCTTGGCCCGTGTGACCTCAAATCACAAACAGTGAGTTACACAGCCTGGAG
Found at i:65381131 original size:34 final size:36
Alignment explanation
Indices: 65381049--65381131 Score: 134
Period size: 35 Copynumber: 2.3 Consensus size: 36
65381039 ACTTATCTTG
*
65381049 ATGAAACAAAATGGAAGAAAAAACTGTGGTATGTTCA
1 ATGAAACAAAATGGAAG-AAAAACTGTGGTATGTACA
65381086 ATGAAACAAAATGGAAG-AAAACTGTGGTATGTACA
1 ATGAAACAAAATGGAAGAAAAACTGTGGTATGTACA
65381121 A-GAAACAAAAT
1 ATGAAACAAAAT
65381132 AAGGAAAACT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
34 10 0.22
35 18 0.40
37 17 0.38
ACGTcount: A:0.52, C:0.08, G:0.20, T:0.19
Consensus pattern (36 bp):
ATGAAACAAAATGGAAGAAAAACTGTGGTATGTACA
Found at i:65384333 original size:50 final size:50
Alignment explanation
Indices: 65384270--65384640 Score: 388
Period size: 50 Copynumber: 7.6 Consensus size: 50
65384260 CATCAAAGTT
*
65384270 GATGCCATGTCCCAAACATGGTCTTACACTGACTCTCATATATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCC
* * * * * *
65384320 GATGCCATATCCCAGACGTGGTCTTACACT-AGCTCTAATCTACCG-GTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAG-GCC
* * * * * *
65384370 GATGCCATATCCCGGACATGGTCTTACACTGA----CACATGTC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCC
*
65384415 GATGCCATGTCCCAAACATGGTCTTACACT-AGCTCTCATATATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAGGCC
* * * * * *
65384465 GATGCCATGTCCCGGACATGGTCTTACACTG---CTCACACATCAAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCC
* *
65384512 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCGTATATCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCC
* * *
65384562 GATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATCTATCG-GTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG-GCC
*
65384612 GATGTCATGTCCCAGACATGGTCTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
65384641 CAGCACACAT
Statistics
Matches: 262, Mismatches: 44, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
44 1 0.00
45 30 0.11
46 3 0.01
47 41 0.16
49 9 0.03
50 177 0.68
51 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCC
Found at i:65384444 original size:95 final size:97
Alignment explanation
Indices: 65384319--65384640 Score: 339
Period size: 97 Copynumber: 3.3 Consensus size: 97
65384309 ATATCGAGGC
* * * *
65384319 CGATGCCATATCCCAGACGTGGTCTTACACTAGCTCTAATCTACCG-GTGTCGATGCCATATCCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAATATACCGAG-GCCGATGCCATATCCC
**
65384383 GGACATGGTCTTACACTG-ACACATGTC-AAGT
65 GGACATGGTCTTACACTGCACACACATCAAAGT
* * * *
65384414 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCCATGTCCCG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAATATACCGAGGCCGATGCCATATCCCG
*
65384479 GACATGGTCTTACACTGCTCACACATCAAAGT
66 GACATGGTCTTACACTGCACACACATCAAAGT
** * * *
65384511 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTCTCGTATATCGAGGCTGATGCCATGTCCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTAATATACCGAGGCCGATGCCATATCCC
** * * * **
65384575 AAACATGGTCTTACACT-AACTCTCATCTATCGGT
65 GGACATGGTCTTACACTGCACACACATC-A-AAGT
*
65384609 GCCGATGTCATGTCCCAGACATGGTCTTACAC
1 --CGATGCCATGTCCCAGACATGGTCTTACAC
65384641 CAGCACACAT
Statistics
Matches: 196, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
95 72 0.37
96 14 0.07
97 79 0.40
98 2 0.01
100 29 0.15
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (97 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAATATACCGAGGCCGATGCCATATCCCG
GACATGGTCTTACACTGCACACACATCAAAGT
Found at i:65384600 original size:147 final size:146
Alignment explanation
Indices: 65384269--65384640 Score: 495
Period size: 145 Copynumber: 2.5 Consensus size: 146
65384259 ACATCAAAGT
* *
65384269 TGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCATATATCGAGGCCGATGCCATATCCCA
1 TGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATATATCGAGGCCGATGCCATGTCCCA
* *** *
65384334 GACGTGGTCTTACACTAGCTCTAATCTACCGGTGTCGATGCCATATCCCGGACATGGTCTTACAC
66 GACATGGTCTTACACTAGCTCTAATCTACCAAAGTCGATGCCATATCCCAGACATGGTCTTACAC
* *
65384399 TGACACATGTCAAGTC
131 TGACACATATCAAGGC
* *
65384415 -GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCCATGTCCCG
1 TGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATATATCGAGGCCGATGCCATGTCCCA
* *
65384479 GACATGGTCTTACACT-GCTC-ACA-C-ATCAAAGTCGATGCCATGTCCCAGACATGGTCTTACA
66 GACATGGTCTTACACTAGCTCTA-ATCTACCAAAGTCGATGCCATATCCCAGACATGGTCTTACA
* *
65384540 CTGACTCTCGTATATCGAGGC
130 CTGA--CAC--ATATCAAGGC
* *
65384561 TGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATCTATCG-GTGCCGATGTCATGTCCC
1 TGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATATATCGAG-GCCGATGCCATGTCCC
65384625 AGACATGGTCTTACAC
65 AGACATGGTCTTACAC
65384641 CAGCACACAT
Statistics
Matches: 200, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
142 35 0.17
143 2 0.01
144 7 0.04
145 75 0.38
146 8 0.04
147 73 0.37
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (146 bp):
TGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATATATCGAGGCCGATGCCATGTCCCA
GACATGGTCTTACACTAGCTCTAATCTACCAAAGTCGATGCCATATCCCAGACATGGTCTTACAC
TGACACATATCAAGGC
Found at i:65389049 original size:38 final size:40
Alignment explanation
Indices: 65388998--65389424 Score: 280
Period size: 38 Copynumber: 10.0 Consensus size: 40
65388988 TTTCAAATTG
65388998 ACATGTATG--ACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATGTAACCGTGGCATATCCACTTAGCACCACGTT
*
65389036 ACATGT-T-TAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATGTAACCGTGGCATATCCACTTAGCACCACG-T--T
*
65389077 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTATGTAACCGTGGCATATCCACTTAGCACCACGTT
* *
65389121 ACATGT-T-TAGCCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATGTAACCGTGGCATATCCACTTAGCACCACG-T--T
*
65389162 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTATGTAACCGTGGCATATCCACTTAGCACCACGTT
* * *
65389206 ACATGTATCAATATGTGTAATCATGGTATATCCACTTAGCACCACGTT
1 ACATG------TA--TGTAACCGTGGCATATCCACTTAGCACCACGTT
* * * * *
65389254 ACA--CATATAACTGTGGTATATCTACTTAGCACCACGTTAAT
1 ACATGTATGTAACCGTGGCATATCCACTTAGCACCACG-T--T
* * *
65389295 GAATCAATATATGTAACTGTGACATATCCACTTAGCACCACGTT
1 --A-C-ATGTATGTAACCGTGGCATATCCACTTAGCACCACGTT
* * *
65389339 ACATGTATCAATATGTATAATCATGGTATATCCACTTAGCACCACGTT
1 ACATG------TATG--TAACCGTGGCATATCCACTTAGCACCACGTT
65389387 ACATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATGTAACCGTGGCATATCCACTTAGCACCACGTT
65389425 TTTTTCATTT
Statistics
Matches: 311, Mismatches: 33, Indels: 90
0.72 0.08 0.21
Matches are distributed among these distances:
37 1 0.00
38 113 0.36
39 4 0.01
40 8 0.03
41 6 0.02
42 5 0.02
43 3 0.01
44 6 0.02
45 7 0.02
46 11 0.04
47 83 0.27
48 64 0.21
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (40 bp):
ACATGTATGTAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:65389104 original size:85 final size:85
Alignment explanation
Indices: 65389007--65389424 Score: 422
Period size: 85 Copynumber: 4.8 Consensus size: 85
65388997 GACATGTATG
65389007 ACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACG
1 ACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACG
65389072 TTAATGAATCAATATATGTA
66 TTAATGAATCAATATATGTA
*
65389092 ACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCCGTGGTATATCCACTTAGCACCACG
1 ACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACG
65389157 TTAATGAATCAATATATGTA
66 TTAATGAATCAATATATGTA
* *
65389177 ACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCATGGTATATCCACT
1 ACCGTGGCATATCCACTTAGCACCACGTTACATG--------T-T-TAACCGTGGTATATCCACT
*
65389242 TAGCACCACG-T--T--A-C-ACATA--TA
56 TAGCACCACGTTAATGAATCAATATATGTA
* * * * * **
65389263 ACTGTGGTATATCTACTTAGCACCACGTTAATGAATCAATATATGTAACTGTGACATATCCACTT
1 ACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-TAACCGTGGTATATCCACTT
* * *
65389328 AGCACCACGTTACATGTATCAATATGTATA
57 AGCACCACGTTA-ATGAATCAATATATGTA
* * * * *
65389358 ATCATGGTATATCCACTTAGCACCACGTTACATGTATAACCGTGGCATATCCACTTAGCACCACG
1 ACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACG
65389423 TT
66 TT
65389425 TTTTTCATTT
Statistics
Matches: 281, Mismatches: 25, Indels: 53
0.78 0.07 0.15
Matches are distributed among these distances:
85 145 0.52
86 56 0.20
87 1 0.00
88 7 0.02
89 4 0.01
90 2 0.01
91 2 0.01
92 4 0.01
93 6 0.02
94 3 0.01
95 51 0.18
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (85 bp):
ACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACG
TTAATGAATCAATATATGTA
Found at i:65389237 original size:48 final size:47
Alignment explanation
Indices: 65389134--65389394 Score: 287
Period size: 48 Copynumber: 5.7 Consensus size: 47
65389124 TGTTTAGCCG
* *
65389134 TGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCG
1 TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAA-CA
* *
65389181 TGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCA
1 TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAA-CA
*
65389229 TGGTATATCCACTTAGCACCACGTTAC----A-C---ATA--TAACTG
1 TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAAC-A
* *
65389267 TGGTATATCTACTTAGCACCACGTTA-ATGAATCAATATATGTAAC-
1 TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACA
* * *
65389312 TGTGACATATCCACTTAGCACCACGTTACATGTATCAATATGTATAATCA
1 TG-G-TATATCCACTTAGCACCACGTTACATGTATCAATATATGTAA-CA
65389362 TGGTATATCCACTTAGCACCACGTTACATGTAT
1 TGGTATATCCACTTAGCACCACGTTACATGTAT
65389395 AACCGTGGCA
Statistics
Matches: 182, Mismatches: 15, Indels: 33
0.79 0.07 0.14
Matches are distributed among these distances:
37 1 0.01
38 28 0.15
40 2 0.01
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
45 5 0.03
46 1 0.01
47 50 0.27
48 87 0.48
49 2 0.01
50 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (47 bp):
TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACA
Found at i:65389281 original size:133 final size:133
Alignment explanation
Indices: 65389043--65389424 Score: 613
Period size: 133 Copynumber: 2.9 Consensus size: 133
65389033 GTTACATGTT
* * * * * *
65389043 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCGTGGCATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCATGGTATATCCA
* *
65389107 CTTAGCACCACGTTACATGTTTAGCCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATAT
66 CTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATAT
65389172 ATG
131 ATG
65389175 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCATGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCATGGTATATCCA
** * *
65389240 CTTAGCACCACGTTACACATATAACTGTGGTATATCTACTTAGCACCACGTTAATGAATCAATAT
66 CTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATAT
65389305 ATG
131 ATG
* * *
65389308 TAACTGTGACATATCCACTTAGCACCACGTTACATGTATCAATATGTATAATCATGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCATGGTATATCCA
*
65389373 CTTAGCACCACGTTACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
66 CTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
65389425 TTTTTCATTT
Statistics
Matches: 229, Mismatches: 20, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
132 31 0.14
133 198 0.86
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (133 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCATGGTATATCCA
CTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATAT
ATG
Found at i:65394622 original size:47 final size:49
Alignment explanation
Indices: 65394551--65394679 Score: 136
Period size: 50 Copynumber: 2.7 Consensus size: 49
65394541 AGGTGCCGAC
** * *
65394551 GCCATGTCCCGGACATGGTTTTACATTG-CTCAC-ACATCAAAGTAAAT
1 GCCATGTCCCAAACATGGTCTTACACTGACTCACGACATCAAAGTAAAT
* * * * **
65394598 GCCATGTCCCAAACATGGTCTTACACTGACTCTCGTATATCGAGGTTGAT
1 GCCATGTCCCAAACATGGTCTTACACTGACTCACG-ACATCAAAGTAAAT
*
65394648 GCCATGTCCCAAACATGGTCTTACACTAACTC
1 GCCATGTCCCAAACATGGTCTTACACTGACTC
65394680 TCATCTATCG
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
47 24 0.35
48 4 0.06
50 40 0.59
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAAACATGGTCTTACACTGACTCACGACATCAAAGTAAAT
Found at i:65394657 original size:50 final size:49
Alignment explanation
Indices: 65394596--65394771 Score: 203
Period size: 50 Copynumber: 3.6 Consensus size: 49
65394586 ATCAAAGTAA
* *
65394596 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCGTATATCGAGGTTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCATATATCG-GGCTG
* *
65394646 ATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATCTATCGGTGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCATATATCGG-GCTG
* * * * * *
65394696 ATGCCATGTCCCAGACATGGTATTACATTGGCTCACATA-AT-GTGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCATATATCG-GGCTG
**
65394744 ATGCCATGTCCCAGGCATGGTCTTACAC
1 ATGCCATGTCCCAAACATGGTCTTACAC
65394772 CAGCACACAT
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
48 29 0.27
49 4 0.04
50 76 0.70
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCATATATCGGGCTG
Found at i:65395986 original size:24 final size:24
Alignment explanation
Indices: 65395951--65395997 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
65395941 CTGTCAGGAG
* *
65395951 AGGATTTGGGAGCTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
65395975 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
65395998 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.04, G:0.40, T:0.21
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:65397241 original size:28 final size:28
Alignment explanation
Indices: 65397209--65397273 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
65397199 ATTTACTAGA
*
65397209 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
65397237 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
65397265 ATACCCCTA
1 ATACCCCTA
65397274 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:65397420 original size:28 final size:28
Alignment explanation
Indices: 65397379--65397469 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
65397369 AGGAAGCGTC
*
65397379 CTGGTGGCTA-TGCCATAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
* *
65397407 CTGGTGGCCCTGCCACAAATTATCTATT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
65397435 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
65397464 CTGGTG
1 CTGGTG
65397470 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
28 48 0.87
29 7 0.13
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:65401123 original size:43 final size:43
Alignment explanation
Indices: 65401062--65401187 Score: 189
Period size: 43 Copynumber: 2.9 Consensus size: 43
65401052 TACATGTTAC
* * * * *
65401062 CAATGCCACTGTTCCAGACAGGGTCTTACATGAAATCATAATA
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATA
*
65401105 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATA
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATA
*
65401148 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACA
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
65401188 TCTCGATAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATA
Found at i:65413036 original size:61 final size:61
Alignment explanation
Indices: 65412917--65413037 Score: 147
Period size: 60 Copynumber: 2.0 Consensus size: 61
65412907 TTATTCAGAA
* * *
65412917 ATCAGAGTTAACTGGGCCTTACCCCATATCAATATTAATCTAGGCCATAGCCCCTTACAAT
1 ATCAGAGTTAACTGGGCCTTACACCATATCAATATCAATCTAGGCCATAGCCCATTACAAT
* * * *
65412978 ATCAGAG-TATACTGGGCC-TAGACCATATCAGTGTCAATCTGGGCCATAGCCCTATTACAA
1 ATCAGAGTTA-ACTGGGCCTTACACCATATCAATATCAATCTAGGCCATAGCCC-ATTACAA
65413038 GTCGAGATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
60 30 0.59
61 21 0.41
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (61 bp):
ATCAGAGTTAACTGGGCCTTACACCATATCAATATCAATCTAGGCCATAGCCCATTACAAT
Found at i:65417005 original size:43 final size:43
Alignment explanation
Indices: 65416959--65417114 Score: 170
Period size: 43 Copynumber: 3.6 Consensus size: 43
65416949 TATCGAGATG
* * *
65416959 TGATTACATGTAAGACCATATCTGGGACATTGACATTGTATTG
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATAGTATTA
* * *
65417002 TGATTACGTGTAAGACCATGTCTGAGACATTGGCATAGTATTA
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATAGTATTA
* * * * * *
65417045 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATA
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATAGTAT-TA
* *
65417088 TGATAACATGTAAGACCTTATCTGGGA
1 TGATTACATGTAAGACCATATCTGGGA
65417115 TAGGGCATTG
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 2 0.02
43 94 0.98
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
TGATTACATGTAAGACCATATCTGGGACATTGGCATAGTATTA
Done.