Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 62 of 313
Found at i:20988433 original size:23 final size:22
Alignment explanation
Indices: 20988357--20988433 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
20988347 CTGATAAATA
* * *
20988357 GTAAGCTTTATTGAGCTAAAAATG
1 GTAAGCTCTATTGAGCT--GAACG
*
20988381 GTAAGCTCTATTGAGCTGAACA
1 GTAAGCTCTATTGAGCTGAACG
*
20988403 GTAAGCTCT-TTCGAGTTGAATCG
1 GTAAGCTCTATT-GAGCTGAA-CG
20988426 GTAAGCTC
1 GTAAGCTC
20988434 CAATAAGCTG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.04
22 18 0.40
23 9 0.20
24 16 0.36
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTGAACG
Found at i:20988454 original size:46 final size:45
Alignment explanation
Indices: 20988380--20988470 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 45
20988370 AGCTAAAAAT
* * * * * *
20988380 GGTAAGCTCTATTGAGCTGAACAGTAAGCTCTTTCGAGTTGAATC
1 GGTAAGCTCCAATAAGCTGAACAATAAGCTCTTACGAGCTGAATC
20988425 GGTAAGCTCCAATAAGCTGAAACAATAAGCTCTTACGAGCTGAATC
1 GGTAAGCTCCAATAAGCTG-AACAATAAGCTCTTACGAGCTGAATC
20988471 AATAAGTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 16 0.41
46 23 0.59
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (45 bp):
GGTAAGCTCCAATAAGCTGAACAATAAGCTCTTACGAGCTGAATC
Found at i:20988485 original size:23 final size:23
Alignment explanation
Indices: 20988439--20988488 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
20988429 AGCTCCAATA
**
20988439 AGCTGAAACAATAAGCTCTTACG
1 AGCTGAAACAATAAGCTCAAACG
* *
20988462 AGCTGAATCAATAAGTTCAAACG
1 AGCTGAAACAATAAGCTCAAACG
20988485 AGCT
1 AGCT
20988489 ATGGTGAGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (23 bp):
AGCTGAAACAATAAGCTCAAACG
Found at i:20990826 original size:12 final size:12
Alignment explanation
Indices: 20990811--20990842 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
20990801 GATCAATTAA
20990811 AATATCAATAGT
1 AATATCAATAGT
20990823 AATATCAATAGT
1 AATATCAATAGT
20990835 AATCATCA
1 AAT-ATCA
20990843 GGTGAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (12 bp):
AATATCAATAGT
Found at i:20993026 original size:63 final size:63
Alignment explanation
Indices: 20992863--20993028 Score: 215
Period size: 63 Copynumber: 2.6 Consensus size: 63
20992853 AGTCACAGAC
* * * * * * *
20992863 AGTGAGTTACACGACTTAGACATATGCCCATATCTCTAGCTCGCATGGTTTCTAAATTAAAAA
1 AGTGAGTCACACGACTTGGGCACATGCCCGTGTCTCTGGCTCGCATGGTTTCTAAATTAAAAA
* * * * *
20992926 AGTGAGTCACACAACCTGGGCACACGCCTGTGTCTCTGGCTCGCGTGGTTTCTAAATTAAAAA
1 AGTGAGTCACACGACTTGGGCACATGCCCGTGTCTCTGGCTCGCATGGTTTCTAAATTAAAAA
*
20992989 AGTGAGTCACACGGCTTGGGCACATGCCCGTGTCTCTGGC
1 AGTGAGTCACACGACTTGGGCACATGCCCGTGTCTCTGGC
20993029 CTATGTGATC
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 86 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.27
Consensus pattern (63 bp):
AGTGAGTCACACGACTTGGGCACATGCCCGTGTCTCTGGCTCGCATGGTTTCTAAATTAAAAA
Found at i:20994547 original size:40 final size:40
Alignment explanation
Indices: 20994309--20994533 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
20994299 TTGAATGATG
* * * *
20994309 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
20994349 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
20994389 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20994428 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20994468 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20994509 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20994534 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20994551 original size:80 final size:80
Alignment explanation
Indices: 20994309--20994566 Score: 251
Period size: 80 Copynumber: 3.2 Consensus size: 80
20994299 TTGAATGATG
* * * * * * *
20994309 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** *
20994372 TTGTGCGAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* *
20994389 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
20994453 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
*
20994468 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
20994532 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
20994548 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
20994567 TACGTGATTT
Statistics
Matches: 155, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.01
79 73 0.47
80 78 0.50
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:20994555 original size:119 final size:119
Alignment explanation
Indices: 20994309--20994566 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
20994299 TTGAATGATG
* * *
20994309 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
20994374 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
20994428 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
20994491 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
20994548 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
20994567 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.70
120 32 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:20996673 original size:33 final size:33
Alignment explanation
Indices: 20996535--20996671 Score: 140
Period size: 33 Copynumber: 4.3 Consensus size: 33
20996525 ACAATGCATG
* *
20996535 CAGTAACAGTCTGGGCCTGAGCCCTATCCAGTAT
1 CAGT-ACAGTCTGGGCCTTAGCCCTATACAGTAT
* *
20996569 CAGTACAGTCTGGGCCTTAGCCTTATACAGTAA
1 CAGTACAGTCTGGGCCTTAGCCCTATACAGTAT
** *
20996602 CACAACAGTCTGGGCTTTAGCCCTATACAGTA-
1 CAGTACAGTCTGGGCCTTAGCCCTATACAGTAT
* * *
20996634 -A-T--AGTGTGGGCCTAAGCCCAATACAGTAT
1 CAGTACAGTCTGGGCCTTAGCCCTATACAGTAT
20996663 CAGTACAGT
1 CAGTACAGT
20996672 GTAATGCAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
28 22 0.26
30 1 0.01
31 2 0.02
33 56 0.66
34 4 0.05
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTTAGCCCTATACAGTAT
Found at i:20996846 original size:26 final size:27
Alignment explanation
Indices: 20996808--20996873 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
20996798 TAATAATGCA
**
20996808 GCATAGCTGCCAGAAACAGTAAATGTG
1 GCATAGCCACCAGAAACAGTAAATGTG
* * *
20996835 GCA-AGCCACCAGTATCAGTAATTGTG
1 GCATAGCCACCAGAAACAGTAAATGTG
20996861 GCATAGCCACCAG
1 GCATAGCCACCAG
20996874 TACAATACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (27 bp):
GCATAGCCACCAGAAACAGTAAATGTG
Found at i:20997046 original size:27 final size:28
Alignment explanation
Indices: 20997015--20997132 Score: 127
Period size: 27 Copynumber: 4.4 Consensus size: 28
20997005 AGGGCATATC
*
20997015 GTCATTTTACCTTACAGGGGTATTACGA
1 GTCATTTTACCCTACAGGGGTATTACGA
20997043 -TCATTTTACCCTACAGGGGTATTAC-A
1 GTCATTTTACCCTACAGGGGTATTACGA
* * * * *
20997069 GTCATTTTACCTTATAAGGGCATTA-TA
1 GTCATTTTACCCTACAGGGGTATTACGA
* * *
20997096 TTCATTTTACCCTATAGGAGTATTACG-
1 GTCATTTTACCCTACAGGGGTATTACGA
20997123 GTCATTTTAC
1 GTCATTTTAC
20997133 AAACTGAGGG
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 74 0.99
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (28 bp):
GTCATTTTACCCTACAGGGGTATTACGA
Found at i:20997079 original size:54 final size:54
Alignment explanation
Indices: 20997015--20997132 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
20997005 AGGGCATATC
* * *
20997015 GTCATTTTACCTTACAGGGGTATTACGA-TCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCTTACAAGGGCATTA-GATTCATTTTACCCTACAGGAGTATTACA
* * * *
20997069 GTCATTTTACCTTATAAGGGCATTATATTCATTTTACCCTATAGGAGTATTACG
1 GTCATTTTACCTTACAAGGGCATTAGATTCATTTTACCCTACAGGAGTATTACA
20997123 GTCATTTTAC
1 GTCATTTTAC
20997133 AAACTGAGGG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.02
54 55 0.98
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (54 bp):
GTCATTTTACCTTACAAGGGCATTAGATTCATTTTACCCTACAGGAGTATTACA
Found at i:20997143 original size:54 final size:54
Alignment explanation
Indices: 20997043--20997146 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
20997033 GGTATTACGA
* **
20997043 TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCTTATAAGGGCATTATAT
1 TCATTTTACCCTACAGGAGTATTACAGTCATTTTACCAAATAAGGGCATTATAT
* * *
20997097 TCATTTTACCCTATAGGAGTATTACGGTCATTTTA-CAAACTGAGGGCATT
1 TCATTTTACCCTACAGGAGTATTACAGTCATTTTACCAAA-TAAGGGCATT
20997147 TCAATAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.05
54 41 0.95
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (54 bp):
TCATTTTACCCTACAGGAGTATTACAGTCATTTTACCAAATAAGGGCATTATAT
Found at i:20997157 original size:54 final size:54
Alignment explanation
Indices: 20997045--20997159 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
20997035 TATTACGATC
* ** * *
20997045 ATTTTACCCTACAGGGGTATTACAGTCATTTTACCTTATAAGGGCATTATATTC
1 ATTTTACCCTACAGGAGTATTACAGTCATTTTACCAAATAAGGGCATTATAATA
* * *
20997099 ATTTTACCCTATAGGAGTATTACGGTCATTTTA-CAAACTGAGGGCATT-TCAATA
1 ATTTTACCCTACAGGAGTATTACAGTCATTTTACCAAA-TAAGGGCATTAT-AATA
20997153 ATTTTAC
1 ATTTTAC
20997160 AAATCAGGGT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 3 0.06
54 48 0.94
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (54 bp):
ATTTTACCCTACAGGAGTATTACAGTCATTTTACCAAATAAGGGCATTATAATA
Found at i:20997157 original size:81 final size:80
Alignment explanation
Indices: 20997002--20997159 Score: 174
Period size: 81 Copynumber: 2.0 Consensus size: 80
20996992 CATACGAAAC
* * * ** *
20997002 ATAAGGGCATATCGTCATTTTACCTTACAGGGGTATTACGATCATTTTACCCTACAGGGGTATTA
1 ATAAGGGCATATAGTCATTTTACCCTACAGGAGTATTACGATCATTTTACCAAACAGGGGCATTA
* *
20997067 CAGTCATTTTACCTT
66 CAATAATTTTACCTT
* * * *
20997082 ATAAGGGCATTATATTCATTTTACCCTATAGGAGTATTACGGTCATTTTA-CAAACTGAGGGCAT
1 ATAAGGGCA-TATAGTCATTTTACCCTACAGGAGTATTACGATCATTTTACCAAACAG-GGGCAT
*
20997146 TTCAATAATTTTAC
64 TACAATAATTTTAC
20997160 AAATCAGGGT
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
80 13 0.21
81 50 0.79
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (80 bp):
ATAAGGGCATATAGTCATTTTACCCTACAGGAGTATTACGATCATTTTACCAAACAGGGGCATTA
CAATAATTTTACCTT
Found at i:21005599 original size:22 final size:23
Alignment explanation
Indices: 21005574--21005619 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
21005564 TATAAAACCT
21005574 AAAAATAAAATAA-TA-TTAAAG
1 AAAAATAAAATAAGTACTTAAAG
*
21005595 AAAAATAAAAAAAGTACTTAAAG
1 AAAAATAAAATAAGTACTTAAAG
21005618 AA
1 AA
21005620 GATAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 2 0.09
23 8 0.36
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (23 bp):
AAAAATAAAATAAGTACTTAAAG
Found at i:21008712 original size:13 final size:13
Alignment explanation
Indices: 21008696--21008723 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21008686 AATCTGATTG
21008696 TTTTATCTGCTAA
1 TTTTATCTGCTAA
21008709 TTTTATCTGCTAA
1 TTTTATCTGCTAA
21008722 TT
1 TT
21008724 GAATGCTCAT
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:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (13 bp):
TTTTATCTGCTAA
Found at i:21019549 original size:17 final size:18
Alignment explanation
Indices: 21019527--21019562 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
21019517 AAAATAGAAA
*
21019527 AAGGATTAAA-TTGAATT
1 AAGGATAAAAGTTGAATT
21019544 AAGGATAAAAGTTGAATT
1 AAGGATAAAAGTTGAATT
21019562 A
1 A
21019563 TAAAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (18 bp):
AAGGATAAAAGTTGAATT
Found at i:21020220 original size:15 final size:14
Alignment explanation
Indices: 21020173--21020223 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
21020163 ATTATTAATA
*
21020173 TAAAAAAATAAAA-
1 TAAATAAATAAAAG
21020186 TAAAATAAATAAAAG
1 T-AAATAAATAAAAG
21020201 TAAATAGAATAAAACG
1 TAAATA-AATAAAA-G
21020217 -AAATAAA
1 TAAATAAA
21020224 AAGAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 1 0.03
14 18 0.55
15 13 0.39
16 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.18
Consensus pattern (14 bp):
TAAATAAATAAAAG
Found at i:21020838 original size:29 final size:27
Alignment explanation
Indices: 21020777--21020848 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
21020767 AATGCCTGAT
21020777 TGGTGTGTTTGAGAGGATATGATATAC
1 TGGTGTGTTTGAGAGGATATGATATAC
* *
21020804 TGGTGTGTTTGGGAGGCTAT-ATTATAC
1 TGGTGTGTTTGAGAGGATATGA-TATAC
21020831 TGGTGTGTTATG-GAGGAT
1 TGGTGTGTT-TGAGAGGAT
21020849 TTATAATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.21, C:0.04, G:0.36, T:0.39
Consensus pattern (27 bp):
TGGTGTGTTTGAGAGGATATGATATAC
Found at i:21020892 original size:23 final size:23
Alignment explanation
Indices: 21020854--21020900 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
21020844 AGGATTTATA
21020854 ATATTCCGGTTGTGTTTGGGCTGG
1 ATATTCCGGTTGTGTTTGGG-TGG
*
21020878 ATATTCTGG-TGTGTTTGGGTGG
1 ATATTCCGGTTGTGTTTGGGTGG
21020900 A
1 A
21020901 ATCCGCGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 10 0.45
24 8 0.36
ACGTcount: A:0.11, C:0.09, G:0.38, T:0.43
Consensus pattern (23 bp):
ATATTCCGGTTGTGTTTGGGTGG
Found at i:21026847 original size:17 final size:18
Alignment explanation
Indices: 21026825--21026858 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21026815 AAAATAGAAA
*
21026825 AAGGATTAAA-TTGAATT
1 AAGGATAAAAGTTGAATT
21026842 AAGGATAAAAGTTGAAT
1 AAGGATAAAAGTTGAAT
21026859 AATAGAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
AAGGATAAAAGTTGAATT
Found at i:21027001 original size:14 final size:14
Alignment explanation
Indices: 21026963--21027016 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
21026953 TTGTTTTAGA
21026963 TTATATAAT-TAAT
1 TTATATAATATAAT
*
21026976 GATATATAAATATAAT
1 -TTATAT-AATATAAT
21026992 TTATATAATATGAAT
1 TTATATAATAT-AAT
21027007 TTATGATAAT
1 TTAT-ATAAT
21027017 TAAAATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 10 0.29
15 15 0.44
16 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (14 bp):
TTATATAATATAAT
Found at i:21027476 original size:14 final size:14
Alignment explanation
Indices: 21027470--21027528 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
21027460 AATTATTAAT
21027470 ATAAAATAAATAAA
1 ATAAAATAAATAAA
21027484 ATAAAATAAAT-AA
1 ATAAAATAAATAAA
*
21027497 ATAAAAAGTAAATAGA
1 AT-AAAA-TAAATAAA
*
21027513 ATAAAACGAAATAAA
1 ATAAAA-TAAATAAA
21027528 A
1 A
21027529 GGAAAAAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
13 4 0.11
14 15 0.39
15 16 0.42
16 3 0.08
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (14 bp):
ATAAAATAAATAAA
Found at i:21027484 original size:9 final size:9
Alignment explanation
Indices: 21027470--21027517 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
21027460 AATTATTAAT
21027470 ATAAAATAA
1 ATAAAATAA
21027479 ATAAAATAA
1 ATAAAATAA
21027488 A-ATAAATAA
1 ATA-AAATAA
21027497 ATAAAAAGTAA
1 AT-AAAA-TAA
*
21027508 ATAGAATAA
1 ATAAAATAA
21027517 A
1 A
21027518 ACGAAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
8 1 0.03
9 21 0.62
10 6 0.18
11 6 0.18
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (9 bp):
ATAAAATAA
Found at i:21027509 original size:29 final size:30
Alignment explanation
Indices: 21027467--21027527 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
21027457 TTAAATTATT
*
21027467 AATATAAAATAAATAAAATAAAA-TAAATA
1 AATATAAAATAAATAAAATAAAACGAAATA
*
21027496 AATA-AAAAGTAAATAGAATAAAACGAAATA
1 AATATAAAA-TAAATAAAATAAAACGAAATA
21027526 AA
1 AA
21027528 AGGAAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 17 0.61
30 7 0.25
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (30 bp):
AATATAAAATAAATAAAATAAAACGAAATA
Found at i:21028142 original size:29 final size:27
Alignment explanation
Indices: 21028081--21028152 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
21028071 AATGCCTTAT
21028081 TGGTGTGTTTGAGAGGATATGATATAC
1 TGGTGTGTTTGAGAGGATATGATATAC
* *
21028108 TGGTGTGTTTGGGAGGCTAT-ATTATAC
1 TGGTGTGTTTGAGAGGATATGA-TATAC
21028135 TGGTGTGTTATG-GAGGAT
1 TGGTGTGTT-TGAGAGGAT
21028153 TTATAATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.21, C:0.04, G:0.36, T:0.39
Consensus pattern (27 bp):
TGGTGTGTTTGAGAGGATATGATATAC
Found at i:21028681 original size:56 final size:56
Alignment explanation
Indices: 21028615--21028733 Score: 220
Period size: 56 Copynumber: 2.1 Consensus size: 56
21028605 TTAAGTGGCA
21028615 TGTACTAGGTAGTTGAATATGAATTATGTATATAAATTTAAGTTAAATGATTTTGGT
1 TGTA-TAGGTAGTTGAATATGAATTATGTATATAAATTTAAGTTAAATGATTTTGGT
*
21028672 TGTATAGGTAGTTGAATATGAATTATGTATATACATTTAAGTTAAATGATTTTGGT
1 TGTATAGGTAGTTGAATATGAATTATGTATATAAATTTAAGTTAAATGATTTTGGT
21028728 TGTATA
1 TGTATA
21028734 TAAATGATTA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 57 0.93
57 4 0.07
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (56 bp):
TGTATAGGTAGTTGAATATGAATTATGTATATAAATTTAAGTTAAATGATTTTGGT
Found at i:21031209 original size:64 final size:64
Alignment explanation
Indices: 21031118--21031280 Score: 204
Period size: 64 Copynumber: 2.6 Consensus size: 64
21031108 CCATTGTGCC
* * * * *
21031118 TCACACAGCCT-GACACATGCTCATGTCTCTAGCCTGTGTGGTTTCTAAATCACAAACAGTGAG
1 TCACACGGCCTGGACACAAGCTCCTGTCTCTAGCCCGTATGGTTTCTAAATCACAAACAGTGAG
* * * *
21031181 TTACACGGCCTGGACACAAGC-CCGTGTCTCTGGCCCGTATGGTTTCTAAATTACAAATAGTGAG
1 TCACACGGCCTGGACACAAGCTCC-TGTCTCTAGCCCGTATGGTTTCTAAATCACAAACAGTGAG
* *
21031245 TCACACGGCCTGGACACACGCTCCTGTCTCTGGCCC
1 TCACACGGCCTGGACACAAGCTCCTGTCTCTAGCCC
21031281 ATGTGATCCT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
63 10 0.12
64 74 0.86
65 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (64 bp):
TCACACGGCCTGGACACAAGCTCCTGTCTCTAGCCCGTATGGTTTCTAAATCACAAACAGTGAG
Found at i:21032190 original size:14 final size:15
Alignment explanation
Indices: 21032165--21032200 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
21032155 TGATAAATAT
*
21032165 TTGATTTGTTCTTAA
1 TTGATATGTTCTTAA
21032180 TT-ATATGTTCTTAA
1 TTGATATGTTCTTAA
21032194 TTGATAT
1 TTGATAT
21032201 TAATTTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.58
Consensus pattern (15 bp):
TTGATATGTTCTTAA
Found at i:21037833 original size:14 final size:13
Alignment explanation
Indices: 21037807--21037845 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
21037797 GTTTAAAGAC
*
21037807 TTTTATTTATTAT
1 TTTTATTTTTTAT
21037820 TTTTATGTTTTTAT
1 TTTTAT-TTTTTAT
21037834 TTTTATATTTTT
1 TTTTAT-TTTTT
21037846 TTAAAACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:21037876 original size:6 final size:5
Alignment explanation
Indices: 21037857--21037894 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
21037847 TAAAACTAAT
*
21037857 TTTTA TTTTA TTTTA TTTT- TTTTC TTTTAA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTT
21037895 CATCCTTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.73
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:21037879 original size:20 final size:20
Alignment explanation
Indices: 21037856--21037894 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
21037846 TTAAAACTAA
*
21037856 TTTTTATTTT-ATTTTATTT
1 TTTTTCTTTTAATTTTATTT
21037875 TTTTTCTTTTAATTTTATTT
1 TTTTTCTTTTAATTTTATTT
21037895 CATCCTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTCTTTTAATTTTATTT
Found at i:21042897 original size:25 final size:24
Alignment explanation
Indices: 21042869--21042966 Score: 79
Period size: 25 Copynumber: 3.9 Consensus size: 24
21042859 TACTGACTTT
* *
21042869 ATCAGGCTGCTGACACTTGCTTTGG
1 ATCAGGCTGCTAACACTAGC-TTGG
*
21042894 ATCAAGGTTGCTAACACTAGCTTGG
1 ATC-AGGCTGCTAACACTAGCTTGG
* *
21042919 ATCAAGGTTGCCAACACTAGCTTGG
1 ATC-AGGCTGCTAACACTAGCTTGG
* * * *
21042944 TTCGATGCTACAAACACTAGCTT
1 ATC-AGGCTGCTAACACTAGCTT
21042967 CAGATAATTC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
25 48 0.77
26 14 0.23
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATCAGGCTGCTAACACTAGCTTGG
Found at i:21042905 original size:26 final size:25
Alignment explanation
Indices: 21042876--21042943 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
21042866 TTTATCAGGC
* *
21042876 TGCTGACACTTGCTTTGGATCAAGGT
1 TGCTAACACTAGC-TTGGATCAAGGT
21042902 TGCTAACACTAGCTTGGATCAAGGT
1 TGCTAACACTAGCTTGGATCAAGGT
*
21042927 TGCCAACACTAGCTTGG
1 TGCTAACACTAGCTTGG
21042944 TTCGATGCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 28 0.72
26 11 0.28
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (25 bp):
TGCTAACACTAGCTTGGATCAAGGT
Found at i:21044460 original size:16 final size:16
Alignment explanation
Indices: 21044436--21044468 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21044426 AAAAAGATAG
21044436 AATAAAGATGAAAAAA
1 AATAAAGATGAAAAAA
*
21044452 AATATAGATGAAAAAA
1 AATAAAGATGAAAAAA
21044468 A
1 A
21044469 TTACAAGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (16 bp):
AATAAAGATGAAAAAA
Found at i:21044661 original size:38 final size:38
Alignment explanation
Indices: 21044610--21044692 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
21044600 TCTTAAAAGA
21044610 TTGTTAAAACTCTTCTAAAAGAAAACTCAAAGAGAATT
1 TTGTTAAAACTCTTCTAAAAGAAAACTCAAAGAGAATT
21044648 TTGTTAAAACTCTTCTAAAAGAAAACTCAAAGAGAATT
1 TTGTTAAAACTCTTCTAAAAGAAAACTCAAAGAGAATT
*
21044686 TTATTAA
1 TTGTTAA
21044693 CTCAAAGTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (38 bp):
TTGTTAAAACTCTTCTAAAAGAAAACTCAAAGAGAATT
Found at i:21047897 original size:21 final size:21
Alignment explanation
Indices: 21047871--21047913 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
21047861 GGCCCTCTAT
21047871 ACGGGCATGTG-GGGCCTTCAC
1 ACGGGCATGTGTGGG-CTTCAC
*
21047892 ACGGGCGTGTGTGGGCTTCAC
1 ACGGGCATGTGTGGGCTTCAC
21047913 A
1 A
21047914 TGGACGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.14, C:0.26, G:0.40, T:0.21
Consensus pattern (21 bp):
ACGGGCATGTGTGGGCTTCAC
Found at i:21047921 original size:21 final size:21
Alignment explanation
Indices: 21047878--21047922 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
21047868 TATACGGGCA
*
21047878 TGTGGGGCCTTCACACGGGCG
1 TGTGGGGCCTTCACACGGACG
*
21047899 TGTGTGGG-CTTCACATGGACG
1 TGTG-GGGCCTTCACACGGACG
21047920 TGT
1 TGT
21047923 AGACCCCCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.11, C:0.22, G:0.40, T:0.27
Consensus pattern (21 bp):
TGTGGGGCCTTCACACGGACG
Found at i:21050694 original size:27 final size:27
Alignment explanation
Indices: 21050664--21050737 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
21050654 ATATTGAGCC
* * *
21050664 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
* * *
21050691 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
21050718 CGCACACTTAGTGCTACATA
1 CGCACACTTAGTGCTACATA
21050738 GTNNNNNNNN
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:21063656 original size:21 final size:20
Alignment explanation
Indices: 21063608--21063663 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
21063598 ACACGGGCTG
*
21063608 TTCACACGGGCATGTGCCCC
1 TTCACATGGGCATGTGCCCC
* **
21063628 TCCACATGGGCATGTGGGGCC
1 TTCACATGGGCATGT-GCCCC
21063649 TTCACATGGGCATGT
1 TTCACATGGGCATGT
21063664 AGACCCCCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.23
Consensus pattern (20 bp):
TTCACATGGGCATGTGCCCC
Found at i:21069463 original size:33 final size:33
Alignment explanation
Indices: 21069421--21069489 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
21069411 AATAAGTAAA
21069421 AAGAAAACATATGTTCTTTCTAGTACTATCAAT
1 AAGAAAACATATGTTCTTTCTAGTACTATCAAT
*
21069454 AAGAAAACATATGTTGTTTCTAGTACTATCAAT
1 AAGAAAACATATGTTCTTTCTAGTACTATCAAT
21069487 AAG
1 AAG
21069490 CATTTGGACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (33 bp):
AAGAAAACATATGTTCTTTCTAGTACTATCAAT
Found at i:21071611 original size:43 final size:43
Alignment explanation
Indices: 21071556--21071712 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
21071546 ATATCATACA
*
21071556 ATGCCAACGTCCCAGATATGGTCTTACATGCAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGCAATCACATATCG
* * * *
21071599 ATGCC-ACTGTCCCAAACAGGGTCTTACA--CAAATCAAATA-CA
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGC-AATCACATATCG
* * * *
21071640 ATGCCAATGTCCCACACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGCAATCACATATCG
**
21071683 ATGCCAACGTCCCAGATGTGGTCTTACATG
1 ATGCCAACGTCCCAGACATGGTCTTACATG
21071713 AGAACACATA
Statistics
Matches: 92, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 25 0.27
42 19 0.21
43 48 0.52
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGCAATCACATATCG
Found at i:21076832 original size:61 final size:62
Alignment explanation
Indices: 21076759--21076907 Score: 148
Period size: 61 Copynumber: 2.4 Consensus size: 62
21076749 AAAGAGGTTT
* * *
21076759 ACACAAAAGCTTTCCTATCAAGAGTTT-CGCCATAAAGGCTAT-CATTTACAT-TAATTACTCG
1 ACACAAAGGCTTTCCTATCAAGAGTTTACGCCATAAAGACTATCCA-TTACATCT-ACTACTCG
** * *
21076820 -CTACAAAGGCTTTCCCGTCCAA-A-TTTACGCTATAAAGACTATCCATTATATCTACTACTCG
1 AC-ACAAAGGCTTTCCTAT-CAAGAGTTTACGCCATAAAGACTATCCATTACATCTACTACTCG
*
21076881 ACACAAAGGCTTTCCTATCTAGAGTTT
1 ACACAAAGGCTTTCCTATCAAGAGTTT
21076908 TACCTAGAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
60 6 0.09
61 54 0.77
62 10 0.14
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (62 bp):
ACACAAAGGCTTTCCTATCAAGAGTTTACGCCATAAAGACTATCCATTACATCTACTACTCG
Found at i:21086628 original size:207 final size:207
Alignment explanation
Indices: 21086273--21086649 Score: 691
Period size: 207 Copynumber: 1.8 Consensus size: 207
21086263 TCAATCTCAT
*
21086273 CATTTGATTGTAGAGAAAAAGCTGATGAAAGTCTGAAGTGGACTGTTAACAGAGTCCTAACAGCC
1 CATTTGATTGTAGAGAAAAAGCTGATGAAAGTCTAAAGTGGACTGTTAACAGAGTCCTAACAGCC
* *
21086338 TTGGCATTTTGCATATTGAACATGCAAAGAACTTTCTCAATGTACCCTTTCTGACTTAGGTACAA
66 TTGGCATTCTGCATATTGAACATGCAAAGAACTTTCTCAATGTACCCTTTCTAACTTAGGTACAA
21086403 TTTACATTTTTTTCTATCTCTGAGAATCTCCATCCCAAGTATCTTATTTGGCTGAGAATCTCCTT
131 TTTACATTTTTTTCTATCTCTGAGAATCTCCATCCCAAGTATCTTATTTGGCTGAGAATCTCCTT
21086468 TATATGTAGATA
196 TATATGTAGATA
* **
21086480 CATTTGATTGTAGAGACAAAGCTGATGAAAGTCTAAAGTGGACTGTTAATGGAGTCCTAACAGCC
1 CATTTGATTGTAGAGAAAAAGCTGATGAAAGTCTAAAGTGGACTGTTAACAGAGTCCTAACAGCC
*
21086545 TTGGCATTCTGCATATTGAACATGCAAAGAAGTTTCTCAATGTACCCTTTCTAACTTAGGTACAA
66 TTGGCATTCTGCATATTGAACATGCAAAGAACTTTCTCAATGTACCCTTTCTAACTTAGGTACAA
21086610 TTTACATTTTTTTCTATCTCTGAGAATCTCCATCCCAAGT
131 TTTACATTTTTTTCTATCTCTGAGAATCTCCATCCCAAGT
21086650 CCTTCATCTC
Statistics
Matches: 163, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
207 163 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (207 bp):
CATTTGATTGTAGAGAAAAAGCTGATGAAAGTCTAAAGTGGACTGTTAACAGAGTCCTAACAGCC
TTGGCATTCTGCATATTGAACATGCAAAGAACTTTCTCAATGTACCCTTTCTAACTTAGGTACAA
TTTACATTTTTTTCTATCTCTGAGAATCTCCATCCCAAGTATCTTATTTGGCTGAGAATCTCCTT
TATATGTAGATA
Found at i:21093386 original size:34 final size:34
Alignment explanation
Indices: 21093329--21093411 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
21093319 TATAAGGCAT
* *
21093329 TTTGGTGTGCTGGATTGATTGGCTC-TTACGAGCA
1 TTTGGTGTGCTAGATTGAATGGCTCATT-CGAGCA
21093363 TTTGGTGTGCTAG-TTGGAATGGCTCATTCGAGCA
1 TTTGGTGTGCTAGATT-GAATGGCTCATTCGAGCA
***
21093397 TACAGTGTGCTAGAT
1 TTTGGTGTGCTAGAT
21093412 GGTTAAACGA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 2 0.05
34 36 0.88
35 3 0.07
ACGTcount: A:0.18, C:0.14, G:0.31, T:0.36
Consensus pattern (34 bp):
TTTGGTGTGCTAGATTGAATGGCTCATTCGAGCA
Found at i:21094670 original size:40 final size:40
Alignment explanation
Indices: 21094615--21094749 Score: 146
Period size: 40 Copynumber: 3.4 Consensus size: 40
21094605 GGATGTTATA
* * * * * *
21094615 GGTACTAAGGTACAAACAGGGGAACGTATATCCATTTAGG
1 GGTACCAAAGTACAAACAGGGGAACGTATGTGCATTCAAG
* * *
21094655 GGTACCAAAGTACAAACAGCGGCATGTATGTGCATTCAAG
1 GGTACCAAAGTACAAACAGGGGAACGTATGTGCATTCAAG
* * *
21094695 GGTACCTAAGTACAATCA-GGGACACGTATGTGCAATCAAG
1 GGTACCAAAGTACAAACAGGGGA-ACGTATGTGCATTCAAG
21094735 GGTACCAAAGTACAA
1 GGTACCAAAGTACAA
21094750 TCAAGGGCAC
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 2 0.03
40 76 0.97
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (40 bp):
GGTACCAAAGTACAAACAGGGGAACGTATGTGCATTCAAG
Found at i:21094750 original size:20 final size:20
Alignment explanation
Indices: 21094690--21094756 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
21094680 GTATGTGCAT
21094690 TCAAGGGTACCTAAGTACAA
1 TCAAGGGTACCTAAGTACAA
* *
21094710 TC-AGGG-ACACGTATGTGCAA
1 TCAAGGGTAC-C-TAAGTACAA
*
21094730 TCAAGGGTACCAAAGTACAA
1 TCAAGGGTACCTAAGTACAA
21094750 TCAAGGG
1 TCAAGGG
21094757 CACGTGTGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
18 2 0.05
19 5 0.13
20 24 0.63
21 5 0.13
22 2 0.05
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.18
Consensus pattern (20 bp):
TCAAGGGTACCTAAGTACAA
Found at i:21094750 original size:40 final size:39
Alignment explanation
Indices: 21094654--21094766 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 39
21094644 ATCCATTTAG
* * *
21094654 GGGTACCAAAGTACAAACAGCGGCATGTATGTGCATTCAA
1 GGGTACCAAAGTACAATCAG-GGCACGTATGTGCAATCAA
*
21094694 GGGTACCTAAGTACAATCAGGGACACGTATGTGCAATCAA
1 GGGTACCAAAGTACAATCAGGG-CACGTATGTGCAATCAA
*
21094734 GGGTACCAAAGTACAATCAAGGGCACGTGTGTG
1 GGGTACCAAAGTACAATC-AGGGCACGTATGTG
21094767 TGTATTCAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.03
40 59 0.91
41 4 0.06
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.19
Consensus pattern (39 bp):
GGGTACCAAAGTACAATCAGGGCACGTATGTGCAATCAA
Found at i:21097761 original size:24 final size:24
Alignment explanation
Indices: 21097631--21097760 Score: 208
Period size: 24 Copynumber: 5.4 Consensus size: 24
21097621 CTAGAGGCCT
*
21097631 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
21097656 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
21097680 AGCCCTTTTAATAA-TAGGGGCATA
1 AGCCCTTTTAATAACT-GGGGCATA
*
21097704 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
21097728 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
21097752 AGCCCTTTT
1 AGCCCTTTT
21097761 GCACTTCCTC
Statistics
Matches: 101, Mismatches: 2, Indels: 5
0.94 0.02 0.05
Matches are distributed among these distances:
23 1 0.01
24 95 0.94
25 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:21097840 original size:20 final size:20
Alignment explanation
Indices: 21097811--21097869 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
21097801 TATGAATACA
21097811 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
*
21097831 TCATGCGCATATCATACATG
1 TCATGTGCATATCATACATG
21097851 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
21097870 ACCATCTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:21125405 original size:43 final size:42
Alignment explanation
Indices: 21125341--21125421 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 42
21125331 TCTGAACTCA
* **
21125341 TTCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTTAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
21125383 TTCACCGGTATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TTCACCGGCATT-TAGCCTGCTAGGCCCGAAGCCCGATA
21125422 ATAATATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 11 0.32
43 23 0.68
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (42 bp):
TTCACCGGCATTTAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:21125460 original size:44 final size:43
Alignment explanation
Indices: 21125355--21125463 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 43
21125345 CCGGCATTTC
* * * *
21125355 GCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGTATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATAATTTCACCAGTATTAAA
* *
21125398 GCCTGCTAGGCCCGAAGCCCGATAATAATATTCACCAG-CTTAAA
1 GCCTGCTAGGCTCGAAGCCCGAT-ATAAT-TTCACCAGTATTAAA
* *
21125442 GCTTGCTAGGCTCAAAGCCCGA
1 GCCTGCTAGGCTCGAAGCCCGA
21125464 ATATCACAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
43 21 0.38
44 27 0.49
45 7 0.13
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (43 bp):
GCCTGCTAGGCTCGAAGCCCGATATAATTTCACCAGTATTAAA
Found at i:21125619 original size:28 final size:28
Alignment explanation
Indices: 21125588--21125655 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
21125578 TTGATATTTT
*
21125588 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGACATTCTCAATATCTC
*
21125616 GCACACTAAGTGACATTCTCAATATTTC
1 GCACACTAAGTGACATTCTCAATATCTC
* *
21125644 GTACACTGAGTG
1 GCACACTAAGTG
21125656 CCATATTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGACATTCTCAATATCTC
Found at i:21136679 original size:47 final size:47
Alignment explanation
Indices: 21136625--21136719 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 47
21136615 TAGTCTTGAG
21136625 ATAGAGTATTCTGAGAC-AGACGTACTAGTAAAAAATCCTTTGGGTAA
1 ATAGAGTATTCTGAGACGA-ACGTACTAGTAAAAAATCCTTTGGGTAA
* * **
21136672 ATAGAGTATTTTGAGACGAACGTACTGGTAAAAGGTCCTTTGGGTAA
1 ATAGAGTATTCTGAGACGAACGTACTAGTAAAAAATCCTTTGGGTAA
21136719 A
1 A
21136720 AGTACATTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 42 0.98
48 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (47 bp):
ATAGAGTATTCTGAGACGAACGTACTAGTAAAAAATCCTTTGGGTAA
Found at i:21155713 original size:43 final size:42
Alignment explanation
Indices: 21155616--21155720 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
21155606 GACTTCTATT
**
21155616 TTACATGTAAGACCATGTCTGGGACATCAGCATCGTATCTGA
1 TTACATGTAAGACCATGTCTACGACATCAGCATCGTATCTGA
* * * * *
21155658 TTTCGTGTAAGACCCTGTCTACGACAGT-GGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTACGACA-TCAGCATCG-TATCTGA
*
21155701 TTACATGTAAGACCACGTCT
1 TTACATGTAAGACCATGTCT
21155721 GGGACCTTGG
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 27 0.54
43 23 0.46
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTACGACATCAGCATCGTATCTGA
Found at i:21155732 original size:43 final size:43
Alignment explanation
Indices: 21155577--21155733 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
21155567 TGTGATTTTG
* *
21155577 TGTAAGACCACATCTGGGACATTGGCATCGACT-TCTAT-TTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TAT-T-TGATTACA
* ** * * *
21155621 TGTAAGACCATGTCTGGGACATCAGCATCG-TATCTGATTTCG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
** *
21155663 TGTAAGACC-CTGTCTACGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTACA
*
21155706 TGTAAGACCACGTCTGGGACCTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
21155734 TGTATATCTG
Statistics
Matches: 87, Mismatches: 21, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.31
43 32 0.37
44 27 0.31
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:21163194 original size:22 final size:22
Alignment explanation
Indices: 21163169--21163213 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
21163159 TTTAATAAAG
21163169 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
21163191 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
21163213 A
1 A
21163214 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:21167794 original size:22 final size:22
Alignment explanation
Indices: 21167769--21167813 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
21167759 TTTAATAAAA
21167769 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
21167791 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
21167813 A
1 A
21167814 CAGAATTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:21167817 original size:13 final size:13
Alignment explanation
Indices: 21167776--21167819 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 13
21167766 AAAAAAATAT
*
21167776 CTACAAAATATTC
1 CTACAGAATATTC
21167789 CTA-A-AATATT-
1 CTACAGAATATTC
21167799 -TACAGAATATTC
1 CTACAGAATATTC
21167811 CTACAGAAT
1 CTACAGAAT
21167820 TCATGAGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 2 0.07
10 1 0.04
11 12 0.44
12 1 0.04
13 11 0.41
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (13 bp):
CTACAGAATATTC
Found at i:21168541 original size:44 final size:41
Alignment explanation
Indices: 21168449--21168605 Score: 133
Period size: 42 Copynumber: 3.7 Consensus size: 41
21168439 TTCCGTTATG
* *
21168449 TGATTT-CGTGTAAGACCATATCTGGGACGTTGGCATCGA-C
1 TGATTTACGTGTAAGACCATGTCTGGGAC-ATGGCATCGAGC
*
21168489 TTCTATTTCACGTGTAAGACCATGTCTGGGACATCGGCATCGTAGC
1 -T-GATTT-ACGTGTAAGACCATGTCTGGGACAT-GGCATCG-AGC
* * *
21168535 TGATTT-CGTGTAAGACCCTGTCTAGGACAGTGGCATCGATGTT
1 TGATTTACGTGTAAGACCATGTCTGGGACA-TGGCATCGA-G-C
* *
21168578 TGA-TTACATGTAAGACCACGTCTGGGAC
1 TGATTTACGTGTAAGACCATGTCTGGGAC
21168606 CTTGGCACTG
Statistics
Matches: 95, Mismatches: 11, Indels: 18
0.77 0.09 0.15
Matches are distributed among these distances:
41 2 0.02
42 35 0.37
43 23 0.24
44 32 0.34
45 2 0.02
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (41 bp):
TGATTTACGTGTAAGACCATGTCTGGGACATGGCATCGAGC
Found at i:21168612 original size:43 final size:43
Alignment explanation
Indices: 21168449--21168612 Score: 140
Period size: 43 Copynumber: 3.8 Consensus size: 43
21168439 TTCCGTTATG
* ** *
21168449 TGATTTCGTGTAAGACCATATCTGGGACGTTGGCATCGACT-TC
1 TGATTACGTGTAAGACCACGTCTGGGACATTGGCATCGA-TGTC
* *
21168492 T-ATTTCACGTGTAAGACCATGTCTGGGACATCGGCATCG-TAG-C
1 TGA-TT-ACGTGTAAGACCACGTCTGGGACATTGGCATCGAT-GTC
* * * *
21168535 TGATTTCGTGTAAGACC-CTGTCTAGGACAGTGGCATCGATGTT
1 TGATTACGTGTAAGACCAC-GTCTGGGACATTGGCATCGATGTC
* *
21168578 TGATTACATGTAAGACCACGTCTGGGACCTTGGCA
1 TGATTACGTGTAAGACCACGTCTGGGACATTGGCA
21168613 CTGTATATCT
Statistics
Matches: 97, Mismatches: 15, Indels: 18
0.75 0.12 0.14
Matches are distributed among these distances:
42 30 0.31
43 36 0.37
44 31 0.32
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (43 bp):
TGATTACGTGTAAGACCACGTCTGGGACATTGGCATCGATGTC
Found at i:21169292 original size:116 final size:116
Alignment explanation
Indices: 21169158--21169388 Score: 462
Period size: 116 Copynumber: 2.0 Consensus size: 116
21169148 ATGGTCAACG
21169158 TTGAGAAGTTTTGGTAAGTTTTGAGCATTTGATTGAATGATGTATTGATCATATGTTTAGGTATG
1 TTGAGAAGTTTTGGTAAGTTTTGAGCATTTGATTGAATGATGTATTGATCATATGTTTAGGTATG
21169223 ATTTTAGTTGAAGTTTTGGTATAAATTGATTGATGAATTGAGATTTGAAAC
66 ATTTTAGTTGAAGTTTTGGTATAAATTGATTGATGAATTGAGATTTGAAAC
21169274 TTGAGAAGTTTTGGTAAGTTTTGAGCATTTGATTGAATGATGTATTGATCATATGTTTAGGTATG
1 TTGAGAAGTTTTGGTAAGTTTTGAGCATTTGATTGAATGATGTATTGATCATATGTTTAGGTATG
21169339 ATTTTAGTTGAAGTTTTGGTATAAATTGATTGATGAATTGAGATTTGAAA
66 ATTTTAGTTGAAGTTTTGGTATAAATTGATTGATGAATTGAGATTTGAAA
21169389 TGATTGGTAA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.44
Consensus pattern (116 bp):
TTGAGAAGTTTTGGTAAGTTTTGAGCATTTGATTGAATGATGTATTGATCATATGTTTAGGTATG
ATTTTAGTTGAAGTTTTGGTATAAATTGATTGATGAATTGAGATTTGAAAC
Found at i:21169367 original size:58 final size:58
Alignment explanation
Indices: 21169189--21169379 Score: 178
Period size: 58 Copynumber: 3.3 Consensus size: 58
21169179 TGAGCATTTG
*
21169189 ATTGAATGATGTATTGATCATATGTTTAGGTATGATTTTAGTTGAAGTTTTGGTATAA
1 ATTGAATGATGAATTGATCATATGTTTAGGTATGATTTTAGTTGAAGTTTTGGTATAA
* * * * * * * **
21169247 ATTGATTGATGAATTGA-GATTTGAAACTT-GAG-AAG-TTTT-GGT-AAGTTTTGAGCATTTG
1 ATTGAATGATGAATTGATCATATG---TTTAG-GTATGATTTTAGTTGAAGTTTTG-GTA-TAA
*
21169305 ATTGAATGATGTATTGATCATATGTTTAGGTATGATTTTAGTTGAAGTTTTGGTATAA
1 ATTGAATGATGAATTGATCATATGTTTAGGTATGATTTTAGTTGAAGTTTTGGTATAA
*
21169363 ATTGATTGATGAATTGA
1 ATTGAATGATGAATTGA
21169380 GATTTGAAAT
Statistics
Matches: 99, Mismatches: 22, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
56 11 0.11
57 11 0.11
58 55 0.56
59 11 0.11
60 11 0.11
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.45
Consensus pattern (58 bp):
ATTGAATGATGAATTGATCATATGTTTAGGTATGATTTTAGTTGAAGTTTTGGTATAA
Found at i:21169862 original size:29 final size:29
Alignment explanation
Indices: 21169819--21169886 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
21169809 TCTACGGCTT
* * *
21169819 AGACACACGAGCGTGTCCAAGGTCGTGTG
1 AGACACACGGGCGTGTCCAAGGCCATGTG
*
21169848 TGACACACGGGCGTGTCCAAGGCCATGTG
1 AGACACACGGGCGTGTCCAAGGCCATGTG
21169877 AGACACACGG
1 AGACACACGG
21169887 CCTGTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.25, C:0.26, G:0.34, T:0.15
Consensus pattern (29 bp):
AGACACACGGGCGTGTCCAAGGCCATGTG
Found at i:21175432 original size:25 final size:26
Alignment explanation
Indices: 21175398--21175448 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
21175388 TTTGTAAATC
*
21175398 AGAAAAATATCTGTAGA-AATTTTCT
1 AGAAAAATATCTGTAGAGAACTTTCT
* *
21175423 AGAATAATATCTTTAGAGAACTTTCT
1 AGAAAAATATCTGTAGAGAACTTTCT
21175449 CTTTACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (26 bp):
AGAAAAATATCTGTAGAGAACTTTCT
Found at i:21175696 original size:20 final size:18
Alignment explanation
Indices: 21175649--21175755 Score: 67
Period size: 19 Copynumber: 5.8 Consensus size: 18
21175639 CAGGATAACC
21175649 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
21175666 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
**
21175686 ATTAAATTAATAAAATAAT
1 ATTAAATTAAT-ATTTAAT
* * *
21175705 ATTAAGGTAAATATTAAAT
1 ATTAA-ATTAATATTTAAT
* *
21175724 -TTAATTTAATATTAAACT
1 ATTAAATTAATATTTAA-T
*
21175742 ATTAAAATAATATT
1 ATTAAATTAATATT
21175756 ATTTTTGGGG
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
17 18 0.26
18 6 0.09
19 26 0.37
20 20 0.29
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:21181632 original size:20 final size:18
Alignment explanation
Indices: 21181580--21181683 Score: 63
Period size: 19 Copynumber: 5.6 Consensus size: 18
21181570 ATCTATAGGA
21181580 TAATCATTAAATTAA-ATT
1 TAAT-ATTAAATTAATATT
21181598 TAATATTAAGA-TAATCACTT
1 TAATATTAA-ATTAAT-A-TT
**
21181618 TAATATTAAATTAATAAAA
1 TAATATTAAATTAAT-ATT
21181637 TAATATTAAGA-TAAGTATT
1 TAATATTAA-ATTAA-TATT
* *
21181656 GAAT-TTAATTTAATATT
1 TAATATTAAATTAATATT
*
21181673 AAACTATTAAA
1 TAA-TATTAAA
21181684 ATATTATTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
17 14 0.21
18 13 0.19
19 22 0.33
20 18 0.27
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (18 bp):
TAATATTAAATTAATATT
Found at i:21188064 original size:18 final size:18
Alignment explanation
Indices: 21188015--21188051 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
21188005 ATGATGACTT
21188015 TTAAATAAT-AT-TTTTA
1 TTAAATAATAATATTTTA
21188031 TTAAATAATAATATTTTA
1 TTAAATAATAATATTTTA
21188049 TTA
1 TTA
21188052 TTTAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 2 0.11
18 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAAATAATAATATTTTA
Found at i:21189701 original size:21 final size:20
Alignment explanation
Indices: 21189677--21189730 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
21189667 TATATAGACT
21189677 AAATAAAATAATAAAATAATA
1 AAATAAAATAATAAAAT-ATA
** * *
21189698 AAATATCATATTAAAATATT
1 AAATAAAATAATAAAATATA
21189718 AAAT-AAATAATAA
1 AAATAAAATAATAA
21189731 TTATCTAATT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
19 6 0.23
20 6 0.23
21 14 0.54
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATAAAATAATAAAATATA
Found at i:21189720 original size:8 final size:8
Alignment explanation
Indices: 21189678--21189702 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21189668 ATATAGACTA
21189678 AATAAAAT
1 AATAAAAT
21189686 AATAAAAT
1 AATAAAAT
21189694 AATAAAAT
1 AATAAAAT
21189702 A
1 A
21189703 TCATATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:21190701 original size:19 final size:19
Alignment explanation
Indices: 21190674--21190711 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
21190664 TGTGCTAATA
21190674 ACCTATATGTTTATATCTT
1 ACCTATATGTTTATATCTT
*
21190693 ACCTGTATGTTTATATCTT
1 ACCTATATGTTTATATCTT
21190712 TTCTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.53
Consensus pattern (19 bp):
ACCTATATGTTTATATCTT
Found at i:21191549 original size:6 final size:6
Alignment explanation
Indices: 21191507--21191571 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
21191497 TTGTGCCTAA
* * *
21191507 AACAGT ACATAGT ACCAG- AACAGT AATCAGT AACAGT AGCAGT AACAGT
1 AACAGT A-ACAGT AACAGT AACAGT AA-CAGT AACAGT AACAGT AACAGT
* *
21191556 AATACT AACAGT AACA
1 AACAGT AACAGT AACA
21191572 ATATTCAACA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
5 4 0.09
6 31 0.67
7 11 0.24
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:21191629 original size:45 final size:45
Alignment explanation
Indices: 21191561--21191793 Score: 344
Period size: 45 Copynumber: 5.2 Consensus size: 45
21191551 ACAGTAATAC
*
21191561 TAACAGTAACAATATTCAACACACAAAGTGCTGAATCGGTAACGG
1 TAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACGG
* *
21191606 TAATAGTAACAATATTCGACACACAAAGTG-TCGAATCGGTGACGG
1 TAACAGTAACAATATTCGACACACAAAGTGCT-GAATCGGTAACGG
* *
21191651 TAACAATAACAATATTCGACACACAAAGTGCCGAATCGGTAACGG
1 TAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACGG
* *
21191696 TAACAATAACAATATTCGACACACAAAGTG-TCGAATCGGTAACGA
1 TAACAGTAACAATATTCGACACACAAAGTGCT-GAATCGGTAACGG
* *
21191741 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAG
1 TAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACGG
*
21191786 TAGCAGTA
1 TAACAGTA
21191794 GCGGTAACAA
Statistics
Matches: 170, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
44 1 0.01
45 169 0.99
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACGG
Found at i:21191664 original size:90 final size:90
Alignment explanation
Indices: 21191561--21191783 Score: 383
Period size: 90 Copynumber: 2.5 Consensus size: 90
21191551 ACAGTAATAC
* * * *
21191561 TAACAGTAACAATATTCAACACACAAAGTGCTGAATCGGTAACGGTAATAGTAACAATATTCGAC
1 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACAATAACAATATTCGAC
* *
21191626 ACACAAAGTGTCGAATCGGTGACGG
66 ACACAAAGTGTCGAATCGGTAACGA
*
21191651 TAACAATAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACAATAACAATATTCGAC
1 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACAATAACAATATTCGAC
21191716 ACACAAAGTGTCGAATCGGTAACGA
66 ACACAAAGTGTCGAATCGGTAACGA
21191741 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
1 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
21191784 AGTAGCAGTA
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 125 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (90 bp):
TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACAATAACAATATTCGAC
ACACAAAGTGTCGAATCGGTAACGA
Found at i:21192223 original size:5 final size:5
Alignment explanation
Indices: 21192209--21192245 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
21192199 AATTAATCAT
*
21192209 AATTC CATTC AATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
21192246 CTTTTCCACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:21192233 original size:15 final size:16
Alignment explanation
Indices: 21192196--21192245 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
21192186 CAATACACAT
21192196 TTCAATT-AA-TCATAA
1 TTCAATTCAATTCA-AA
*
21192211 TTCCATTCAATTC-AA
1 TTCAATTCAATTCAAA
21192226 TTCAATTCAATTCAAA
1 TTCAATTCAATTCAAA
21192242 TTCA
1 TTCA
21192246 CTTTTCCACT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 20 0.67
16 8 0.27
17 2 0.07
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (16 bp):
TTCAATTCAATTCAAA
Found at i:21194876 original size:8 final size:8
Alignment explanation
Indices: 21194834--21194858 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21194824 ATATAGATTA
21194834 AATAAAAT
1 AATAAAAT
21194842 AATAAAAT
1 AATAAAAT
21194850 AATAAAAT
1 AATAAAAT
21194858 A
1 A
21194859 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:21194882 original size:29 final size:31
Alignment explanation
Indices: 21194836--21194903 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
21194826 ATAGATTAAA
*
21194836 TAAAATAATAAAATAATAA-AA-TATCTTAT
1 TAAAATAATAAAATAATAATAATTATCTAAT
*
21194865 TAAAAT-ATTAAATAAATAATAATTATCTAAT
1 TAAAATAATAAAAT-AATAATAATTATCTAAT
21194896 T-AAATAAT
1 TAAAATAAT
21194904 TATAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 6 0.18
29 11 0.33
30 6 0.18
31 10 0.30
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (31 bp):
TAAAATAATAAAATAATAATAATTATCTAAT
Found at i:21194908 original size:29 final size:30
Alignment explanation
Indices: 21194838--21194909 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
21194828 AGATTAAATA
*
21194838 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
21194866 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
21194897 AAATAATTATAAA
1 AAATAATTATAAA
21194910 ATATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:21195425 original size:26 final size:24
Alignment explanation
Indices: 21195395--21195443 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
21195385 AATAAAAAAT
*
21195395 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAAT-AAATATA
21195421 TTTAAAAACATAAAAATAAATAT
1 TTTAAAAACATAAAAATAAATAT
21195444 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTAAAAACATAAAAATAAATATA
Found at i:21195455 original size:22 final size:22
Alignment explanation
Indices: 21195414--21195472 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
21195404 ATAATAAATC
* *
21195414 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
21195434 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
* *
21195456 AAAT-GATACTAAAACAA
1 AAATAAATATTAAAACAA
21195473 TTCTTAAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.21
21 17 0.52
22 9 0.27
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:21197147 original size:52 final size:52
Alignment explanation
Indices: 21197078--21197181 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
21197068 AAATTATTAT
21197078 CTATTTTCTTTCAATGTAAAATTTGCTTTAATAAAAAAATAAAAAAATAGTA
1 CTATTTTCTTTCAATGTAAAATTTGCTTTAATAAAAAAATAAAAAAATAGTA
21197130 CTATTTTCTTTCAATGTAAAATTTGCTTTAATAAAAAAATAAAAAAATAGTA
1 CTATTTTCTTTCAATGTAAAATTTGCTTTAATAAAAAAATAAAAAAATAGTA
21197182 AATTCGAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (52 bp):
CTATTTTCTTTCAATGTAAAATTTGCTTTAATAAAAAAATAAAAAAATAGTA
Found at i:21200830 original size:16 final size:15
Alignment explanation
Indices: 21200811--21200853 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
21200801 TAATTACAGT
21200811 TCTATTCCATTACAA
1 TCTATTCCATTACAA
* *
21200826 CTCTAATCTATTACAA
1 -TCTATTCCATTACAA
21200842 TCATATTCCATT
1 TC-TATTCCATT
21200854 CACCCGAACG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.42
Consensus pattern (15 bp):
TCTATTCCATTACAA
Found at i:21201179 original size:16 final size:15
Alignment explanation
Indices: 21201158--21201210 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
21201148 GGGGTAAATA
21201158 GAATAGGATTGTAATG
1 GAATAGGA-TGTAATG
21201174 GAATAGAGATGTAATG
1 GAATAG-GATGTAATG
* *
21201190 GAATATGACTGTAATA
1 GAATAGGA-TGTAATG
21201206 GAATA
1 GAATA
21201211 AAACTGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 2 0.06
16 29 0.88
17 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.26, T:0.28
Consensus pattern (15 bp):
GAATAGGATGTAATG
Found at i:21201462 original size:27 final size:26
Alignment explanation
Indices: 21201379--21201521 Score: 81
Period size: 29 Copynumber: 5.0 Consensus size: 26
21201369 TTATTGTTAT
* *
21201379 TAAATTTT-AATTAGATTATTACTAAA
1 TAAATTTTAAAATA-ATTATTATTAAA
*
21201405 TATAATTTAATAAAAATAATGATATAATTAAA
1 TA-AATTT--T-AAAATAAT--TATTATTAAA
*
21201437 TAATATTTTAACATAATTATTATTAAA
1 TAA-ATTTTAAAATAATTATTATTAAA
* *
21201464 TACAATTTAATAAAATAATATATAATTTAA
1 TA-AATTT--TAAAATAAT-TATTATTAAA
* *
21201494 TAACATTCTTAATATAATTATTTTTAAA
1 TAA-ATT-TTAAAATAATTATTATTAAA
21201522 ATATGAATTA
Statistics
Matches: 91, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
26 2 0.02
27 20 0.22
28 8 0.09
29 25 0.27
30 16 0.18
31 6 0.07
32 14 0.15
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (26 bp):
TAAATTTTAAAATAATTATTATTAAA
Found at i:21201521 original size:58 final size:59
Alignment explanation
Indices: 21201393--21201521 Score: 181
Period size: 58 Copynumber: 2.2 Consensus size: 59
21201383 TTTTAATTAG
* * *
21201393 ATTATTACTAAATATAATTTAATAAAAATAATGATATAATTAAATAATATTTTAACATA
1 ATTATTATTAAATACAATTTAATAAAAATAATGATATAATTAAATAACATTTTAACATA
* *
21201452 ATTATTATTAAATACAATTTAAT-AAAATAAT-ATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATACAATTTAATAAAAATAATGATATAATTAAATAACATT-TTAACATA
*
21201510 ATTATTTTTAAA
1 ATTATTATTAAA
21201522 ATATGAATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
57 16 0.25
58 26 0.41
59 21 0.33
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (59 bp):
ATTATTATTAAATACAATTTAATAAAAATAATGATATAATTAAATAACATTTTAACATA
Found at i:21201533 original size:59 final size:58
Alignment explanation
Indices: 21201393--21201536 Score: 184
Period size: 59 Copynumber: 2.4 Consensus size: 58
21201383 TTTTAATTAG
* *
21201393 ATTATTACTAAATATAATTTAATAAAAATAATGATATAATTAAATAATATTTTAACATA
1 ATTATTATTAAATATAATTTAAT-AAAATAATGATATAATTAAATAACATTTTAACATA
* * *
21201452 ATTATTATTAAATACAATTTAATAAAATAAT-ATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAATAATGATATAATTAAATAACATT-TTAACATA
*
21201510 ATTATTTTTAAAATATGAA-TTAATAAA
1 ATTATTATT-AAATAT-AATTTAATAAA
21201537 GATCATAATA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
57 16 0.21
58 23 0.31
59 34 0.45
60 2 0.03
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (58 bp):
ATTATTATTAAATATAATTTAATAAAATAATGATATAATTAAATAACATTTTAACATA
Found at i:21201553 original size:58 final size:55
Alignment explanation
Indices: 21201393--21201553 Score: 128
Period size: 59 Copynumber: 2.8 Consensus size: 55
21201383 TTTTAATTAG
* * * * *
21201393 ATTATTACTAAATATAATTTAATAAAAATAATGATATAATTAAATAATATTTTAACATA
1 ATTATTATTAAATACAATTTAATAAAGAT-ATAATAT-A-T-AATAACATTTTAACATA
* *
21201452 ATTATTATTAAATACAATTTAATAAA-ATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATACAATTTAATAAAGAT-ATA-AT-ATATAATAACATT-TTAACATA
* *
21201510 ATTATTTTTAAAATATGAA-TTAATAAAGATCATAATATATAATA
1 ATTATTATT-AAATA-CAATTTAATAAAGAT-ATAATATATAATA
21201554 TTAGAAAAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
57 8 0.09
58 28 0.33
59 41 0.48
60 9 0.10
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (55 bp):
ATTATTATTAAATACAATTTAATAAAGATATAATATATAATAACATTTTAACATA
Found at i:21204044 original size:11 final size:11
Alignment explanation
Indices: 21204028--21204052 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21204018 CAACCAAATA
21204028 ATGGTTTAGTG
1 ATGGTTTAGTG
21204039 ATGGTTTAGTG
1 ATGGTTTAGTG
21204050 ATG
1 ATG
21204053 TGCCTACTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (11 bp):
ATGGTTTAGTG
Found at i:21207216 original size:2 final size:2
Alignment explanation
Indices: 21207209--21207249 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
21207199 AGGAGGCAGG
21207209 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
21207250 GCAGCAGCAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21208994 original size:20 final size:19
Alignment explanation
Indices: 21208954--21208992 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
21208944 CAGGATACAC
21208954 TACAAAAATAGTGGTTTTT
1 TACAAAAATAGTGGTTTTT
*
21208973 TACAAAAGTAGTGGTTTTT
1 TACAAAAATAGTGGTTTTT
21208992 T
1 T
21208993 TAGTTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (19 bp):
TACAAAAATAGTGGTTTTT
Found at i:21209151 original size:17 final size:19
Alignment explanation
Indices: 21209129--21209168 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
21209119 TCCAACTGAG
21209129 ATTAAAAT-AAAATTTT-A
1 ATTAAAATAAAAATTTTAA
21209146 ATT-AAATAAAAATTTTAA
1 ATTAAAATAAAAATTTTAA
21209164 ATTAA
1 ATTAA
21209169 TTACATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.20
17 11 0.55
18 4 0.20
19 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTAAAATAAAAATTTTAA
Found at i:21210729 original size:57 final size:57
Alignment explanation
Indices: 21210653--21210761 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
21210643 ATACGGTCTT
* **
21210653 AATGTAATTTATAGTTGCTGTCAAAATATCTCTTAATGTGCATATTTATGTTGGCCA
1 AATGTAATTTATAGGTGCTGTCAAAATATCTCTTAATGCACATATTTATGTTGGCCA
* *
21210710 AATGTAATTTATAGGTGCTGTCATAATGTCTCTTAATGCACATATTTATGTT
1 AATGTAATTTATAGGTGCTGTCAAAATATCTCTTAATGCACATATTTATGTT
21210762 TGTCAAAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (57 bp):
AATGTAATTTATAGGTGCTGTCAAAATATCTCTTAATGCACATATTTATGTTGGCCA
Found at i:21214803 original size:42 final size:43
Alignment explanation
Indices: 21214690--21214803 Score: 158
Period size: 43 Copynumber: 2.7 Consensus size: 43
21214680 GGAATTAAGA
* *
21214690 AATCCGAGCTCGTTGAGCGGTTCGAGTTCGTGATATATGTGAG
1 AATCCGAGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAG
* * * *
21214733 AATACGAACTTGTTGAGTGGTCCAAGTTCGTGATATATGTG-G
1 AATCCGAGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAG
*
21214775 CATCCGAGCTCGTTGAGTGGTCCGAGTTC
1 AATCCGAGCTCGTTGAGTGGTCCGAGTTC
21214804 ATAATGGATG
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (43 bp):
AATCCGAGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAG
Found at i:21227171 original size:25 final size:25
Alignment explanation
Indices: 21227139--21227196 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
21227129 TGCCGAAAGC
* *
21227139 AAATAAAAGAA-AAAATAGTAATTA
1 AAATAAAAAAATAAAATAGTAATAA
* *
21227163 AAATAAAAAAATTAAATTGTAATAA
1 AAATAAAAAAATAAAATAGTAATAA
21227188 AAATAAAAA
1 AAATAAAAA
21227197 TGGTTAAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.22
Consensus pattern (25 bp):
AAATAAAAAAATAAAATAGTAATAA
Found at i:21227208 original size:24 final size:23
Alignment explanation
Indices: 21227155--21227215 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
21227145 AAGAAAAAAT
*
21227155 AGTAATTAAAATAAAAAAATTAA
1 AGTAATAAAAATAAAAAAATTAA
**
21227178 ATTGTAATAAAAATAAAAATGGTTAA
1 A--GTAATAAAAATAAAAA-AATTAA
21227204 AGTAATAAAAAT
1 AGTAATAAAAAT
21227216 TAAGTGTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 1 0.03
24 11 0.34
25 15 0.47
26 5 0.16
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (23 bp):
AGTAATAAAAATAAAAAAATTAA
Found at i:21233782 original size:43 final size:43
Alignment explanation
Indices: 21233576--21233782 Score: 167
Period size: 43 Copynumber: 4.8 Consensus size: 43
21233566 AGCTCGTACA
* * *
21233576 ATGCC-ATATCCCAGATATGGTCTTACATGTTATC--ACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTTA-ATA-CG
* * * *
21233618 ATGCCACTGTCCTAGAAAGGGTCTTACATGTAATCGATT-A-ACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC--TTAATACG
*** * *
21233661 ATGCCAATGTTTTAGACACGGTCTTACACGTAATCGTATAAT--G
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC-T-TAATACG
** *
21233704 ATGCCAATGTCCCAGACATGGTCTTACACATAATCTTAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTTAATACG
*
21233747 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCT
21233783 CGTCTCGATG
Statistics
Matches: 133, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
41 4 0.03
42 7 0.05
43 119 0.89
44 2 0.02
45 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTTAATACG
Found at i:21237919 original size:27 final size:27
Alignment explanation
Indices: 21237879--21238051 Score: 193
Period size: 27 Copynumber: 6.4 Consensus size: 27
21237869 TGGATAAGTT
* * **
21237879 GTAGAATTATCGAAATACCCTTGTAAA
1 GTAGAATTACCGAAATACCCCTGTAGG
21237906 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
21237933 GTAGAATTATTGAAATACCCCTGTTGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
21237960 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
21237987 GTAGAAATATCGAAATACCCCTGCAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * **
21238014 GTACAATTACCGAGATACCCTTGCGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
21238041 GTAAAATTACC
1 GTAGAATTACC
21238052 ATTTTGCCCC
Statistics
Matches: 124, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:21238032 original size:81 final size:81
Alignment explanation
Indices: 21237879--21238051 Score: 220
Period size: 81 Copynumber: 2.1 Consensus size: 81
21237869 TGGATAAGTT
* * * * **
21237879 GTAGAATTATCGAAATACCCTTGTAAAGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATT
1 GTAGAATTACCGAAATACCCTTGTAAAGTAGAAATACCGAAATACCCCTGCAGGGTACAATTACC
**
21237944 GAAATACCCCTGTTGG
66 GAAATACCCCTGCGGG
** *
21237960 GTAGAATTACCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGCAGGGTACAATTACC
1 GTAGAATTACCGAAATACCCTTGTAAAGTAGAAATACCGAAATACCCCTGCAGGGTACAATTACC
* *
21238025 GAGATACCCTTGCGGG
66 GAAATACCCCTGCGGG
*
21238041 GTAAAATTACC
1 GTAGAATTACC
21238052 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCTTGTAAAGTAGAAATACCGAAATACCCCTGCAGGGTACAATTACC
GAAATACCCCTGCGGG
Found at i:21238034 original size:54 final size:54
Alignment explanation
Indices: 21237879--21238036 Score: 226
Period size: 54 Copynumber: 2.9 Consensus size: 54
21237869 TGGATAAGTT
* ** *
21237879 GTAGAATTATCGAAATACCCTTGTAAAGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* *
21237933 GTAGAATTATTGAAATACCCCTGTTGGGTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * * *
21237987 GTAGAAATATCGAAATACCCCTGCAGGGTACAATTACCGAGATACCCTTG
1 GTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTG
21238037 CGGGGTAAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (54 bp):
GTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:21238747 original size:27 final size:26
Alignment explanation
Indices: 21238703--21238754 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
21238693 CTCGCTGCAA
*
21238703 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
21238730 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
21238755 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:21240872 original size:17 final size:17
Alignment explanation
Indices: 21240819--21240878 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
21240809 CAAGATAAAC
21240819 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
21240836 ATTAAGA-TAACCACTTTAAT
1 ATTAA-ATTAA--A-TTTAAT
*
21240856 ATTAAATTTAATTTAAT
1 ATTAAATTAAATTTAAT
21240873 ATTAAA
1 ATTAAA
21240879 CTATGGAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
17 20 0.54
18 2 0.05
19 2 0.05
20 13 0.35
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (17 bp):
ATTAAATTAAATTTAAT
Found at i:21244577 original size:55 final size:56
Alignment explanation
Indices: 21244505--21244655 Score: 157
Period size: 55 Copynumber: 2.7 Consensus size: 56
21244495 GTCCGTGTGC
* *
21244505 AACACTGGA-TTTAAAACATGGCCATGGCACATGCCCGTGTGGTC-TACCCATGT-T
1 AACACT-GACTTTAAAACACGGCCATGGCACATGCCCGTGTGGACTTACCCATGTAT
* * * * * * * *
21244559 CAATACTGTCTTTTAAACACGACCATAGCACATGTCCGTGT-GACTTGCCCGTGTAT
1 -AACACTGACTTTAAAACACGGCCATGGCACATGCCCGTGTGGACTTACCCATGTAT
*
21244615 AACACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTG
1 AACACTGACTTTAAAACACGGCCATGGCACATGCCCGTGTG
21244656 TTCAACTATG
Statistics
Matches: 75, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
54 3 0.04
55 71 0.95
56 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (56 bp):
AACACTGACTTTAAAACACGGCCATGGCACATGCCCGTGTGGACTTACCCATGTAT
Found at i:21253350 original size:43 final size:43
Alignment explanation
Indices: 21253287--21253604 Score: 267
Period size: 43 Copynumber: 7.5 Consensus size: 43
21253277 TGAGACATCA
* * *
21253287 TGTAAGACCGTGTCTGGGACACAGGCCTCG-ATTGTGATTTACG
1 TGTAAGACCATGTCTGGGACACAGGCATCGTA-TCTGATTTACG
* * *
21253330 TATAAGACCATGTCTGGGACATC-GACATCGTATCTGATTT-CA
1 TGTAAGACCATGTCTGGGACA-CAGGCATCGTATCTGATTTACG
* * * *
21253372 TGTAAGACCGTGTCTGGGAAACAGGCCTCG-ATTGTGATTTACG
1 TGTAAGACCATGTCTGGGACACAGGCATCGTA-TCTGATTTACG
* * *
21253415 TATAAGACCATGTCTGGGACATC-GACATCGTATCTGATTT-CA
1 TGTAAGACCATGTCTGGGACA-CAGGCATCGTATCTGATTTACG
* * * **
21253457 TGTAAGACCGTGTCTGGGACACAGGCCTCGTTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACACAGGCATCGTATCTGATTTACG
* * * *
21253500 TATATGACAATGTCTGCGACATC-GGCATCGTATCTGATTT-CG
1 TGTAAGACCATGTCTGGGACA-CAGGCATCGTATCTGATTTACG
* * * *
21253542 TGTAAGACCCTGTCTGGGACAGAGGCATCGATAT-TGAATTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCG-TATCTGATTTACG
* *
21253585 TGTAAGACTACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
21253605 GTCAACATTG
Statistics
Matches: 214, Mismatches: 48, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
41 3 0.01
42 93 0.43
43 113 0.53
44 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGTATCTGATTTACG
Found at i:21253427 original size:85 final size:85
Alignment explanation
Indices: 21253284--21253604 Score: 482
Period size: 85 Copynumber: 3.8 Consensus size: 85
21253274 GTCTGAGACA
21253284 TCATGTAAGACCGTGTCTGGGACACAGGCCTCGATTGTGATTTACGTATAAGACCATGTCTGGGA
1 TCATGTAAGACCGTGTCTGGGACACAGGCCTCGATTGTGATTTACGTATAAGACCATGTCTGGGA
21253349 CATCGACATCGTATCTGATT
66 CATCGACATCGTATCTGATT
*
21253369 TCATGTAAGACCGTGTCTGGGAAACAGGCCTCGATTGTGATTTACGTATAAGACCATGTCTGGGA
1 TCATGTAAGACCGTGTCTGGGACACAGGCCTCGATTGTGATTTACGTATAAGACCATGTCTGGGA
21253434 CATCGACATCGTATCTGATT
66 CATCGACATCGTATCTGATT
* * * * *
21253454 TCATGTAAGACCGTGTCTGGGACACAGGCCTCGTTTGAGATTTACGTATATGACAATGTCTGCGA
1 TCATGTAAGACCGTGTCTGGGACACAGGCCTCGATTGTGATTTACGTATAAGACCATGTCTGGGA
*
21253519 CATCGGCATCGTATCTGATT
66 CATCGACATCGTATCTGATT
* * * * * * * * *
21253539 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATAT-TGAATTACATGTAAGACTACGTCTGGG
1 TCATGTAAGACCGTGTCTGGGACACAGGCCTCGAT-TGTGATTTACGTATAAGACCATGTCTGGG
21253603 AC
65 AC
21253605 GTCAACATTG
Statistics
Matches: 214, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
85 213 1.00
86 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (85 bp):
TCATGTAAGACCGTGTCTGGGACACAGGCCTCGATTGTGATTTACGTATAAGACCATGTCTGGGA
CATCGACATCGTATCTGATT
Found at i:21254075 original size:20 final size:20
Alignment explanation
Indices: 21254050--21254117 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
21254040 AAAGTATGGC
21254050 ATGTATAGGCTAGAAGGTCT
1 ATGTATAGGCTAGAAGGTCT
** * *
21254070 ATGTATATAAGTTTTGATGG-C-
1 ATG--TAT-AGGCTAGAAGGTCT
21254091 ATGTATAGGCTAGAAGGTCT
1 ATGTATAGGCTAGAAGGTCT
21254111 ATGTATA
1 ATGTATA
21254118 TAAGTTTTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
18 7 0.20
19 4 0.11
20 10 0.29
21 3 0.09
22 4 0.11
23 7 0.20
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (20 bp):
ATGTATAGGCTAGAAGGTCT
Found at i:21254102 original size:41 final size:41
Alignment explanation
Indices: 21254045--21254129 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
21254035 ATTTTAAAGT
21254045 ATGGCATGTATAGGCTAGAAGGTCTATGTATATAAGTTTTG
1 ATGGCATGTATAGGCTAGAAGGTCTATGTATATAAGTTTTG
21254086 ATGGCATGTATAGGCTAGAAGGTCTATGTATATAAGTTTTG
1 ATGGCATGTATAGGCTAGAAGGTCTATGTATATAAGTTTTG
21254127 ATG
1 ATG
21254130 TGTATATATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.36
Consensus pattern (41 bp):
ATGGCATGTATAGGCTAGAAGGTCTATGTATATAAGTTTTG
Found at i:21260503 original size:9 final size:9
Alignment explanation
Indices: 21260489--21260513 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
21260479 TGGATTAAAC
21260489 TGAATGAAA
1 TGAATGAAA
21260498 TGAATGAAA
1 TGAATGAAA
21260507 TGAATGA
1 TGAATGA
21260514 TTGAATGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (9 bp):
TGAATGAAA
Found at i:21260905 original size:42 final size:42
Alignment explanation
Indices: 21260801--21261003 Score: 155
Period size: 43 Copynumber: 4.8 Consensus size: 42
21260791 ATCTGAGACA
* * * *
21260801 TCGTGTAAGACCGTGTTTGGGACACAGGCCTCG-AT-TGAGATT
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCGTATCT--GATT
* * *
21260843 TACGTATAAGACCATATCTGGGACATCGGCATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATT
* * * *
21260886 TTGTGTAAGACCGTGTCTGGGACATAGGCCTC-AAT-TGAGATT
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCGTATCT--GATT
* * * *
21260928 TACGTATAAGACAATGTCTGGGGCATCA-GCATCATATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACAT-AGGCATCGTATCTGATT
* *
21260971 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCG
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCG
21261004 ATATTAAATA
Statistics
Matches: 124, Mismatches: 27, Indels: 20
0.73 0.16 0.12
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 55 0.44
43 58 0.47
44 5 0.04
45 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATT
Found at i:21260948 original size:85 final size:85
Alignment explanation
Indices: 21260801--21260999 Score: 299
Period size: 85 Copynumber: 2.3 Consensus size: 85
21260791 ATCTGAGACA
* * *
21260801 TCGTGTAAGACCGTGTTTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATATCTGGGA
1 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCAATTGAGATTTACGTATAAGACAATATCTGGGA
* *
21260866 CATCGGCATCGTATCTGATT
66 CATCAGCATCATATCTGATT
* * * *
21260886 TTGTGTAAGACCGTGTCTGGGACATAGGCCTCAATTGAGATTTACGTATAAGACAATGTCTGGGG
1 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCAATTGAGATTTACGTATAAGACAATATCTGGGA
21260951 CATCAGCATCATATCTGATT
66 CATCAGCATCATATCTGATT
* *
21260971 TCGTGTAAGACCCTGTCTGGGACAGAGGC
1 TCGTGTAAGACCGTGTCTGGGACACAGGC
21261000 ATCGATATTA
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 102 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (85 bp):
TCGTGTAAGACCGTGTCTGGGACACAGGCCTCAATTGAGATTTACGTATAAGACAATATCTGGGA
CATCAGCATCATATCTGATT
Found at i:21261023 original size:85 final size:85
Alignment explanation
Indices: 21260801--21261024 Score: 227
Period size: 85 Copynumber: 2.6 Consensus size: 85
21260791 ATCTGAGACA
* * * * * * * * *
21260801 TCGTGTAAGACCGTGTTTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATATCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCAATTGAGAATAACATATAAGACAATATCTGGGA
* *
21260866 CATCGGCATCGTATCTGATT
66 CATCAGCATCATATCTGATT
* * * * * * * * *
21260886 TTGTGTAAGACCGTGTCTGGGACATAGGCCTCAATTGAGATTTACGTATAAGACAATGTCTGGGG
1 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCAATTGAGAATAACATATAAGACAATATCTGGGA
21260951 CATCAGCATCATATCTGATT
66 CATCAGCATCATATCTGATT
*
21260971 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT-A-AATAACATGTAAGAC
1 TCGTGTAAGACCCTGTCTGGGACAGAGGCATC-A-ATTGAGAATAACATATAAGAC
21261025 CACGTCGGGA
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
85 115 0.96
86 2 0.02
87 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACAGAGGCATCAATTGAGAATAACATATAAGACAATATCTGGGA
CATCAGCATCATATCTGATT
Found at i:21266034 original size:16 final size:16
Alignment explanation
Indices: 21266013--21266045 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21266003 AAACAATTAC
21266013 ATGTTTACTATAATAT
1 ATGTTTACTATAATAT
21266029 ATGTTTACTATAATAT
1 ATGTTTACTATAATAT
21266045 A
1 A
21266046 GACACATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
ATGTTTACTATAATAT
Found at i:21270986 original size:49 final size:48
Alignment explanation
Indices: 21270924--21271054 Score: 136
Period size: 48 Copynumber: 2.7 Consensus size: 48
21270914 CATGATTTAT
* * * * *
21270924 GAGATCCCATGTAAGACCATGTCGCAGGACATGGCTTCGGCATCTATAC
1 GAGATCTCGTGTAAGACCATGTC-AAGGACATGGCTTCGGCATCGATAA
* * *
21270973 GAGATCTCGTGTAAGACCATATTAAGGATATGGCTTCGGCATCGATAA
1 GAGATCTCGTGTAAGACCATGTCAAGGACATGGCTTCGGCATCGATAA
* * * * *
21271021 GTGATTTTGTATAAGACCATGTCTAGGACATGGC
1 GAGATCTCGTGTAAGACCATGTCAAGGACATGGC
21271055 ATCGATATGA
Statistics
Matches: 66, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
48 47 0.71
49 19 0.29
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (48 bp):
GAGATCTCGTGTAAGACCATGTCAAGGACATGGCTTCGGCATCGATAA
Found at i:21281221 original size:19 final size:19
Alignment explanation
Indices: 21281199--21281244 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
21281189 CGTGGCCTAG
*
21281199 CCACACGGGCGTGTGAAAT
1 CCACACGGGCGTATGAAAT
21281218 CCACACGGGCGTATGAAAT
1 CCACACGGGCGTATGAAAT
21281237 CCACACGG
1 CCACACGG
21281245 ACTACCCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.13
Consensus pattern (19 bp):
CCACACGGGCGTATGAAAT
Found at i:21294241 original size:299 final size:297
Alignment explanation
Indices: 21293657--21294244 Score: 1079
Period size: 299 Copynumber: 2.0 Consensus size: 297
21293647 TTGGTTAAAT
21293657 GCGAAGAATAAACAAGTGATATTCCCTAGTTAAAAATTGGTTAATGACTTAACTAGGTTACTCTA
1 GCGAAGAATAAACAAGTGATATTCCCTAGTTAAAAATTGGTTAATGACTTAACTAGGTTACTCTA
21293722 ATAGGATTAGAAACTAGAGGCAAGTAATTTGGATAAATCATAAGATGATTAGAACAAGAGTTGTT
66 ATAGGATTAGAAACTAGAGGCAAGTAATTTGGATAAATCATAAGATGATTAGAACAAGAGTTGTT
** *
21293787 CACCAAATTGTAGGAGTTACATATGATGTAATTAGTGAGTGTTGCTTACTAAATAACCATAATCT
131 CACCAAATTGTAGGAGTTACATATGATGTAATTAGCAAGTGTTGCTTACTAAAGAACCATAATCT
* *
21293852 TGAGAGTAAATCCAAAGCTGACTTAAGAGGAGGTGAAATATGGATCCTTAACCCACTAGAAATAC
196 TGAGAGTAAAGCCAAAGCTGACTTAAGAGGAGATGAAATATGGATCCTTAACCCACTAGAAATAC
21293917 TTTCAAGAAAGTCTTTCCGAAATTAATATTGTTGAAC
261 TTTCAAGAAAGTCTTTCCGAAATTAATATTGTTGAAC
*
21293954 GCGAAGAATAAACAAGTGATATTCGCC-GGTTAAAAATTGGTTAATGACTTAACTAGGTTACTCT
1 GCGAAGAATAAACAAGTGATATTC-CCTAGTTAAAAATTGGTTAATGACTTAACTAGGTTACTCT
21294018 AATAGGATTAGAAACCTAGAGGCAAGTAATTTGGATAAATCATAAGATGATTAGAACAAGAGTTG
65 AATAGGATTAGAAA-CTAGAGGCAAGTAATTTGGATAAATCATAAGATGATTAGAACAAGAGTTG
21294083 TTCACCAAATTGTAGGAGTTACATATGATGTAATTAGCAAGTGTTGCTTACCTAAAGAACCATAA
129 TTCACCAAATTGTAGGAGTTACATATGATGTAATTAGCAAGTGTTGCTTA-CTAAAGAACCATAA
*
21294148 TCTTGAGAGTAAAGCCAAAGCTGACTTAAGAGGATATGAAATATGGATCCTTAACCCACTAGAAA
193 TCTTGAGAGTAAAGCCAAAGCTGACTTAAGAGGAGATGAAATATGGATCCTTAACCCACTAGAAA
21294213 TACTTTCAAGAAAGTCTTTCCGAAATTAATAT
258 TACTTTCAAGAAAGTCTTTCCGAAATTAATAT
21294245 ATGAGGGTTA
Statistics
Matches: 281, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
297 74 0.26
298 100 0.36
299 107 0.38
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (297 bp):
GCGAAGAATAAACAAGTGATATTCCCTAGTTAAAAATTGGTTAATGACTTAACTAGGTTACTCTA
ATAGGATTAGAAACTAGAGGCAAGTAATTTGGATAAATCATAAGATGATTAGAACAAGAGTTGTT
CACCAAATTGTAGGAGTTACATATGATGTAATTAGCAAGTGTTGCTTACTAAAGAACCATAATCT
TGAGAGTAAAGCCAAAGCTGACTTAAGAGGAGATGAAATATGGATCCTTAACCCACTAGAAATAC
TTTCAAGAAAGTCTTTCCGAAATTAATATTGTTGAAC
Found at i:21296137 original size:27 final size:27
Alignment explanation
Indices: 21296107--21296284 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21296097 ATATTGAGTC
* * * *
21296107 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21296134 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21296161 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21296189 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21296216 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21296243 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21296270 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21296285 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21296246 original size:82 final size:81
Alignment explanation
Indices: 21296128--21296283 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21296118 TGCTATATAA
* *
21296128 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21296193 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21296210 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21296274 CACTTAGTGC
65 CACTTAGTGC
21296284 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21304200 original size:27 final size:27
Alignment explanation
Indices: 21304170--21304347 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21304160 ATATTGAGTC
* * * *
21304170 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21304197 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21304224 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21304252 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21304279 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21304306 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21304333 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21304348 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21304309 original size:82 final size:81
Alignment explanation
Indices: 21304191--21304346 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21304181 TGCTATATAA
* *
21304191 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21304256 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21304273 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21304337 CACTTAGTGC
65 CACTTAGTGC
21304347 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Done.