Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 8 of 345
Found at i:2750867 original size:31 final size:31
Alignment explanation
Indices: 2750829--2750946 Score: 193
Period size: 31 Copynumber: 3.8 Consensus size: 31
2750819 ACAAATGACA
*
2750829 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
2750860 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
2750891 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
2750922 AGT-AAATAGTGGTAGCTTCGGCTAC
1 AGTGAAA-AGTGGTAGCTCCGGCTAC
2750947 AAGTGACAAG
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 3 0.04
31 79 0.96
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:2751050 original size:47 final size:45
Alignment explanation
Indices: 2750964--2751221 Score: 172
Period size: 42 Copynumber: 5.7 Consensus size: 45
2750954 AAGTGATTTC
* * * *
2750964 CGTATAAGACCATATCTGGGATATGACATTTATGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCA-TCATGAGATATATGATA
* *
2751010 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCA-TGAGATATATGATA
* * * * *
2751057 CGTGTAAGACCATAGCTGGGCTATGGCATCGCTATGTGATATGTGATTA
1 CGTATAAGACCATATCTGGGATATGGCAT--C-ATGAGATATATGA-TA
* * * *
2751106 TGTGTAAGACCATAGCTGGGCTATGGCATC----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCATGAGATATATG-ATA
* * * *
2751148 TGTGTAAGACCATAGCTGGGCTATGGCATC----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCATGAGATATATG-ATA
* * * *
2751190 TGTGTAAGACCATAGCTGGGCTATGGCATCAT
1 CGTATAAGACCATATCTGGGATATGGCATCAT
2751222 TATGTGAAGA
Statistics
Matches: 190, Mismatches: 13, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
42 81 0.43
43 1 0.01
46 28 0.15
47 38 0.20
48 12 0.06
49 30 0.16
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (45 bp):
CGTATAAGACCATATCTGGGATATGGCATCATGAGATATATGATA
Found at i:2751150 original size:42 final size:42
Alignment explanation
Indices: 2751094--2751263 Score: 261
Period size: 42 Copynumber: 4.0 Consensus size: 42
2751084 ATCGCTATGT
* *
2751094 GATATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
2751136 GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
2751178 GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
* * * **
2751220 -ATTATGTGAAGATGTGTAAGACCATAGTTGAACTATGGCATC
1 GA-TATATGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
2751262 GA
1 GA
2751264 GAAAACGAAG
Statistics
Matches: 119, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
41 1 0.01
42 117 0.98
43 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:2761218 original size:29 final size:29
Alignment explanation
Indices: 2761186--2761255 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 29
2761176 GTAAATTTGT
* * ** *
2761186 AATTATAATAAATTTATTTATATAATTAA
1 AATTAAAATAAATTAATAAATAAAATTAA
* *
2761215 AATTAAAATTAATTAATAAATAAAATTAT
1 AATTAAAATAAATTAATAAATAAAATTAA
*
2761244 AATTACAATAAA
1 AATTAAAATAAA
2761256 AACATTTGTA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (29 bp):
AATTAAAATAAATTAATAAATAAAATTAA
Found at i:2761233 original size:23 final size:24
Alignment explanation
Indices: 2761185--2761248 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 24
2761175 TGTAAATTTG
* * *
2761185 TAATTATAA-TAAATTTATTTATA
1 TAATTAAAATTAAAATTAATTATA
2761208 TAATTAAAATTAAAATTAATTA-A
1 TAATTAAAATTAAAATTAATTATA
* *
2761231 TAAATAAAATTATAATTA
1 TAATTAAAATTAAAATTA
2761249 CAATAAAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 25 0.71
24 10 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TAATTAAAATTAAAATTAATTATA
Found at i:2767698 original size:25 final size:25
Alignment explanation
Indices: 2767670--2767739 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
2767660 ACACACCATG
*
2767670 GCTCTCATGCGCTTCCT-ATTATTTA
1 GCTCTCATGAGCTTCCTGA-TATTTA
* * *
2767695 GCTCTTATGAGCATCCTGATATTTG
1 GCTCTCATGAGCTTCCTGATATTTA
*
2767720 GCTCTCATGAGCTTCTTGAT
1 GCTCTCATGAGCTTCCTGAT
2767740 TAATGGCTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCTGATATTTA
Found at i:2767749 original size:50 final size:50
Alignment explanation
Indices: 2767668--2767785 Score: 116
Period size: 50 Copynumber: 2.4 Consensus size: 50
2767658 GGACACACCA
* *
2767668 TGGCTCTCATGCGCTTCCTATTATTTAGCTCT-TATGAGCATCCTGATATT
1 TGGCTCTCATGAGCTTCCTATTATATAGCTCTCT-TGAGCATCCTGATATT
* * * * *
2767718 TGGCTCTCATGAGCTTCTTGATTA-ATGGCTCTCTTGAGCTTTCTGATGTT
1 TGGCTCTCATGAGCTTCCT-ATTATATAGCTCTCTTGAGCATCCTGATATT
*
2767768 TGACTCGT-ATGAGCTTCC
1 TGGCTC-TCATGAGCTTCC
2767786 CGTTATATGG
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
50 50 0.89
51 6 0.11
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (50 bp):
TGGCTCTCATGAGCTTCCTATTATATAGCTCTCTTGAGCATCCTGATATT
Found at i:2767799 original size:25 final size:25
Alignment explanation
Indices: 2767771--2767831 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
2767761 TGATGTTTGA
* *
2767771 CTCGTATGAGCTTCCCGTT-ATATGG
1 CTCGTATGAGCTTCCAGTTAACAT-G
* *
2767796 CTCGGAAGAGCTTCCAGTTAACATG
1 CTCGTATGAGCTTCCAGTTAACATG
2767821 CTCGTATGAGC
1 CTCGTATGAGC
2767832 ACATATGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (25 bp):
CTCGTATGAGCTTCCAGTTAACATG
Found at i:2771253 original size:46 final size:46
Alignment explanation
Indices: 2771201--2771382 Score: 226
Period size: 46 Copynumber: 4.0 Consensus size: 46
2771191 GCTTCCTGAA
*
2771201 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
2771247 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
2771293 ATGAAATGA-ATAAGACCATTGTTGAAAGATACCATGGCAACATGAC
1 ATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
2771339 A-GAAA-ATGAGTAAAACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAATAT--GTAAGACCATGGTTGAAAGATACCATGGCAACATG
2771383 TCGAAGATAA
Statistics
Matches: 119, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.01
45 4 0.03
46 114 0.96
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (46 bp):
ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:2772102 original size:40 final size:40
Alignment explanation
Indices: 2772047--2772126 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
2772037 ATGAGATAGG
2772047 GGTGTTACAATTACCTCATCTTGAATAGGGAGTTGTTTAA
1 GGTGTTACAATTACCTCATCTTGAATAGGGAGTTGTTTAA
2772087 GGTGTTACAATTACCTCATCTTGAATAGGGAGTTGTTTAA
1 GGTGTTACAATTACCTCATCTTGAATAGGGAGTTGTTTAA
2772127 CACTGTCTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.38
Consensus pattern (40 bp):
GGTGTTACAATTACCTCATCTTGAATAGGGAGTTGTTTAA
Found at i:2778784 original size:3 final size:3
Alignment explanation
Indices: 2778776--2778818 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
2778766 AAACAAGTAA
*
2778776 AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2778819 TGAGTTTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2783569 original size:2 final size:2
Alignment explanation
Indices: 2783562--2783597 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2783552 AATCTCTTTT
2783562 TA TA TA TA 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 TA TA TA TA
2783598 ACTACAGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2785189 original size:29 final size:29
Alignment explanation
Indices: 2785125--2785217 Score: 84
Period size: 29 Copynumber: 3.1 Consensus size: 29
2785115 TTCATGTTTT
2785125 ATTTATAAATTTTAG-A-TTTTTATGTTTATA
1 ATTT-TAAATTTTAGTATTTTTTAT-TTTA-A
* **
2785155 AATTTAAATTTTTTTATTTTTTATTTTAA
1 ATTTTAAATTTTAGTATTTTTTATTTTAA
*
2785184 ATTTTAGATTTTAGTATTATTTT-TTGTTAA
1 ATTTTAAATTTTAGTATT-TTTTATT-TTAA
2785214 ATTT
1 ATTT
2785218 ATTAATGTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
29 25 0.48
30 20 0.38
31 7 0.13
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (29 bp):
ATTTTAAATTTTAGTATTTTTTATTTTAA
Found at i:2799361 original size:18 final size:17
Alignment explanation
Indices: 2799332--2799365 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
2799322 ACAACTTCTA
2799332 TTAAATTATAATTATTT
1 TTAAATTATAATTATTT
2799349 TTAAATATATAATTATT
1 TTAAAT-TATAATTATT
2799366 ATAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTATAATTATTT
Found at i:2799370 original size:17 final size:17
Alignment explanation
Indices: 2799333--2799372 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2799323 CAACTTCTAT
*
2799333 TAAATTATAATTATTTT
1 TAAATTATAATTATTTA
2799350 TAAATATATAATTA-TTA
1 TAAAT-TATAATTATTTA
2799367 TAAATT
1 TAAATT
2799373 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 12 0.57
18 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATTATAATTATTTA
Found at i:2801392 original size:40 final size:41
Alignment explanation
Indices: 2801348--2801449 Score: 98
Period size: 41 Copynumber: 2.5 Consensus size: 41
2801338 TAGATGGAGT
* *
2801348 TTTAGCGACG-CTTTTAAAAAAACGCCGCAATAGGTCGACC
1 TTTAGCGACGTCTTTTAAAAAAACGCCACAATAAGTCGACC
* * * * * *
2801388 TTTAGCGGCGTTTTTTGAAAAAGCGCCACCATAAGTCGGCC
1 TTTAGCGACGTCTTTTAAAAAAACGCCACAATAAGTCGACC
* * *
2801429 TTTAGCGGCGTTTTTTTAAAA
1 TTTAGCGACGTCTTTTAAAAA
2801450 GCGCCGCTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
40 9 0.17
41 43 0.83
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (41 bp):
TTTAGCGACGTCTTTTAAAAAAACGCCACAATAAGTCGACC
Found at i:2801733 original size:113 final size:112
Alignment explanation
Indices: 2801500--2801753 Score: 278
Period size: 113 Copynumber: 2.2 Consensus size: 112
2801490 AGCTTAACAT
* * * *
2801500 TTTAGTGGCGTTTTTTATAAAAACGCCACTAAAATGTTAGGAAAAATGATATCATTTTCTATGAG
1 TTTAGCGGCGTTTTTTA-AAAAACGCCACTAAAATGTTAGGAAAAACGACATCATTTTATATGAG
* * * * * * *
2801565 CTTAATTGCCATTAGCGGCGTTTTCTCGAAAACGCCGCTAAAGGTAACC
65 CTT-ATTGCCAGTAGCGGCGTTTTCCCAAAAACGCAGCAAAAGATAAAC
* * * * * *
2801614 TATAGCGGCGTTTGTGAAAAAACGCCACTAAAATGTTAAGG-AAAACGACGTCGTTTTATATGTG
1 TTTAGCGGCGTTTTTTAAAAAACGCCACTAAAATGTT-AGGAAAAACGACATCATTTTATATGAG
*
2801678 CTCT-TTGGCAGTAGCGGCGTTTTCCCAAAAACGCAGCAAAAGATCAAAC
65 CT-TATTGCCAGTAGCGGCGTTTTCCCAAAAACGCAGCAAAAGAT-AAAC
2801727 TTTAGCGGCGTTTTTTTAAAAAACGCC
1 TTTAGCGGCG-TTTTTTAAAAAACGCC
2801754 GCAATTGCTA
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
112 33 0.29
113 51 0.44
114 31 0.27
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (112 bp):
TTTAGCGGCGTTTTTTAAAAAACGCCACTAAAATGTTAGGAAAAACGACATCATTTTATATGAGC
TTATTGCCAGTAGCGGCGTTTTCCCAAAAACGCAGCAAAAGATAAAC
Found at i:2802206 original size:15 final size:14
Alignment explanation
Indices: 2802188--2802230 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
2802178 CTTAATATTT
2802188 TTATAGGTTTAGGGG
1 TTAT-GGTTTAGGGG
*
2802203 TTATGGGTTTAAGGG
1 TTAT-GGTTTAGGGG
*
2802218 TTATGATTTAGGG
1 TTATGGTTTAGGG
2802231 TTGATGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:2805347 original size:134 final size:133
Alignment explanation
Indices: 2805124--2805376 Score: 488
Period size: 134 Copynumber: 1.9 Consensus size: 133
2805114 TGGTGATTCC
2805124 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
2805189 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
2805254 TAT
131 TAT
*
2805257 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGT
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTG-TTTTCATGTTTCTATCCAACTTATGTGTTTAGT
2805322 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
65 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
2805377 TGTTGAATTC
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
133 30 0.25
134 88 0.75
ACGTcount: A:0.20, C:0.10, G:0.19, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:2807391 original size:21 final size:21
Alignment explanation
Indices: 2807367--2807406 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2807357 GTTTTTATGT
*
2807367 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
2807388 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
2807407 GAATTAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:2809477 original size:370 final size:370
Alignment explanation
Indices: 2808436--2809715 Score: 2533
Period size: 370 Copynumber: 3.5 Consensus size: 370
2808426 CTTGTCCATT
*
2808436 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
2808501 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
2808566 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
2808631 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
2808696 CGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
261 CGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
2808761 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAATTACTTTTTATC
326 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAA-TACTTTTTATC
2808807 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
2808872 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
2808937 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
2809002 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
2809067 CGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
261 CGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
2809132 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAATACTTTTTATC
326 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAATACTTTTTATC
2809177 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
2809242 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
2809307 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
2809372 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
2809437 CGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
261 CGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
2809502 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAATACTTTTTATC
326 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAATACTTTTTATC
2809547 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
2809612 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
2809677 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
2809716 TGTTTCAATT
Statistics
Matches: 907, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
370 549 0.61
371 358 0.39
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (370 bp):
AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
CGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
ATTTAATATTTTTAAATTTCTTTAAAAGTTATAATACTTTTTATC
Found at i:2809830 original size:24 final size:24
Alignment explanation
Indices: 2809803--2809870 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
2809793 ATTATTATTG
*
2809803 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
2809827 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
2809851 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
2809871 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:2810091 original size:15 final size:15
Alignment explanation
Indices: 2810047--2810102 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
2810037 AACGACATGT
2810047 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
2810063 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
2810076 ATATTATTTAATTAA
1 ATATTATTTAATTAA
2810091 ATATTATTTAAT
1 ATATTATTTAAT
2810103 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:2810235 original size:9 final size:9
Alignment explanation
Indices: 2810217--2810316 Score: 121
Period size: 9 Copynumber: 11.2 Consensus size: 9
2810207 CATAATTTAC
2810217 AACTTATAT
1 AACTTATAT
*
2810226 AACATATAT
1 AACTTATAT
*
2810235 AACTTACAT
1 AACTTATAT
2810244 AACTTATAT
1 AACTTATAT
* *
2810253 AACATACAT
1 AACTTATAT
2810262 AACTTATAT
1 AACTTATAT
2810271 AACTTATAT
1 AACTTATAT
*
2810280 AACTTAGAT
1 AACTTATAT
*
2810289 AA-ATATAT
1 AACTTATAT
*
2810297 AACTTACAT
1 AACTTATAT
*
2810306 AACTTACAT
1 AACTTATAT
2810315 AA
1 AA
2810317 TACTTAAATA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
8 6 0.08
9 71 0.92
ACGTcount: A:0.49, C:0.14, G:0.01, T:0.36
Consensus pattern (9 bp):
AACTTATAT
Found at i:2810349 original size:9 final size:9
Alignment explanation
Indices: 2810337--2810422 Score: 50
Period size: 9 Copynumber: 9.7 Consensus size: 9
2810327 TATTTTATAT
2810337 CATAATTTA
1 CATAATTTA
*
2810346 CATAACTTA
1 CATAATTTA
*
2810355 CATAACTTA
1 CATAATTTA
* *
2810364 GATAA-ATA
1 CATAATTTA
*
2810372 TATAATTTA
1 CATAATTTA
*
2810381 CATAAATATA
1 CAT-AATTTA
* * *
2810391 TATCATAT-
1 CATAATTTA
*
2810399 CATAAATTA
1 CATAATTTA
*
2810408 CATAACTTA
1 CATAATTTA
2810417 CATAAT
1 CATAAT
2810423 ACTTAAATAT
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
8 10 0.17
9 42 0.71
10 7 0.12
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (9 bp):
CATAATTTA
Found at i:2810360 original size:105 final size:105
Alignment explanation
Indices: 2810221--2810445 Score: 285
Period size: 105 Copynumber: 2.2 Consensus size: 105
2810211 ATTTACAACT
* * * * *
2810221 TATATAACATAT-ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTT
1 TATATATCATATCATAACTTACATAACTTACATAACATACATAA-ATATATAACTTACATAA-AT
*
2810285 AGATA-AATAT-ATAACTTACATAACTTACATAATACTTAAA
64 AGATATAATATCATAAATTACATAACTTACATAATACTTAAA
* * * * * * *
2810325 TATATTTTATATCATAATTTACATAACTTACATAACTTAGATAAATATATAATTTACATAAATAT
1 TATATATCATATCATAACTTACATAACTTACATAACATACATAAATATATAACTTACATAAATAG
*
2810390 ATATCATATCATAAATTACATAACTTACATAATACTTAAA
66 ATATAATATCATAAATTACATAACTTACATAATACTTAAA
2810430 TATATATCATATCATA
1 TATATATCATATCATA
2810446 CATAACTAGT
Statistics
Matches: 102, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
103 5 0.05
104 27 0.26
105 70 0.69
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (105 bp):
TATATATCATATCATAACTTACATAACTTACATAACATACATAAATATATAACTTACATAAATAG
ATATAATATCATAAATTACATAACTTACATAATACTTAAA
Found at i:2810368 original size:18 final size:18
Alignment explanation
Indices: 2810338--2810421 Score: 55
Period size: 17 Copynumber: 4.7 Consensus size: 18
2810328 ATTTTATATC
* *
2810338 ATAATTTACATAACTTAC
1 ATAACTTACATAACTTAT
* *
2810356 ATAACTTAGATAA-ATAT
1 ATAACTTACATAACTTAT
* *
2810373 ATAATTTACATAA-ATAT
1 ATAACTTACATAACTTAT
* * * *
2810390 ATATCATATCATAAATTAC
1 ATAACTTA-CATAACTTAT
2810409 ATAACTTACATAA
1 ATAACTTACATAA
2810422 TACTTAAATA
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
17 22 0.43
18 21 0.41
19 8 0.16
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (18 bp):
ATAACTTACATAACTTAT
Found at i:2810385 original size:17 final size:17
Alignment explanation
Indices: 2810333--2810392 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
2810323 AATATATTTT
2810333 ATATCATAATTTACATAA
1 ATAT-ATAATTTACATAA
* * * *
2810351 CTTACATAACTTAGATAA
1 -ATATATAATTTACATAA
2810369 ATATATAATTTACATAA
1 ATATATAATTTACATAA
2810386 ATATATA
1 ATATATA
2810393 TCATATCATA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
17 20 0.61
18 11 0.33
19 2 0.06
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (17 bp):
ATATATAATTTACATAA
Found at i:2810482 original size:105 final size:102
Alignment explanation
Indices: 2810291--2810495 Score: 234
Period size: 105 Copynumber: 2.0 Consensus size: 102
2810281 ACTTAGATAA
* * * *
2810291 ATATATAACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTACATAACTTAC
1 ATATATAAATTACATAACTTACATAATACTTAAATATATATCATATCATAATTAACATAACTTAC
* * *
2810356 ATAACTTAGATAAATATATAATTTACATAAATATATATC
66 AAAACTTACATAAATACATAA--TACATAAATATATATC
**
2810395 ATATCATAAATTACATAACTTACATAATACTTAAATATATATCATATCATACA-TAAC-TAGTTT
1 ATAT-ATAAATTACATAACTTACATAATACTTAAATATATATCATATCATA-ATTAACATAACTT
* * * *
2810458 ACAAAATTTACTTAACTTACATAATACATAAATCTATA
64 ACAAAACTTACATAA-ATACATAATACATAAATATATA
2810496 GTCGAAAATC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
103 13 0.15
104 19 0.22
105 52 0.61
106 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (102 bp):
ATATATAAATTACATAACTTACATAATACTTAAATATATATCATATCATAATTAACATAACTTAC
AAAACTTACATAAATACATAATACATAAATATATATC
Found at i:2816100 original size:21 final size:21
Alignment explanation
Indices: 2816067--2816117 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2816057 ACAACTTAGA
*
2816067 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
2816088 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
2816109 GCAGAGGCA
1 GCAGAGGCA
2816118 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:2816415 original size:31 final size:31
Alignment explanation
Indices: 2816369--2816435 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
2816359 TGGTTGTATT
* *
2816369 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
2816400 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
2816431 TTTTA
1 TTTTA
2816436 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:2816534 original size:43 final size:42
Alignment explanation
Indices: 2816487--2816803 Score: 364
Period size: 43 Copynumber: 7.4 Consensus size: 42
2816477 ATCTGCCAAA
* *
2816487 TTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCGTTTTTACACAAA-CGCCGCTAAAAGCCTTGACC
* * *
2816530 TTTAGCGGCGCTTCTACTACAAACGCCGCTAAAATCTCTTGACC
1 TTTAGCGGCGTTTTTAC-ACAAACGCCGCTAAAAGC-CTTGACC
**
2816574 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCG-TTTTTACACAAACGCCGCTAAAAGCCTTGACC
* * *
2816617 TTTAGCGGCGCTTCTACCACAAACGCCGCTAAAAGCCTTAACC
1 TTTAGCGGCGTTTTTA-CACAAACGCCGCTAAAAGCCTTGACC
** *
2816660 TTTAGCGGCACTTCTACCACAAACGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCGTTTTTA-CACAAACGCCGCTAAAAGCCTTGACC
** ** *
2816703 TTTAATGGCGCTTTTCCCAAAAACGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCG-TTTTTACACAAACGCCGCTAAAAGCCTTGACC
**
2816746 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCG-TTTTTACACAAACGCCGCTAAAAGCCTTGACC
* *
2816789 TATAGCGGCATTTTT
1 TTTAGCGGCGTTTTT
2816804 TCCAACAAAC
Statistics
Matches: 238, Mismatches: 31, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
42 6 0.03
43 189 0.79
44 40 0.17
45 3 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTACACAAACGCCGCTAAAAGCCTTGACC
Found at i:2816727 original size:86 final size:86
Alignment explanation
Indices: 2816510--2816797 Score: 459
Period size: 86 Copynumber: 3.3 Consensus size: 86
2816500 TTAAAAAAAG
* *
2816510 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACTACAAACGCCGCTAAAATCTCTTGACCT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAAGC-CTTGACCT
2816575 TTAGCGGCGCTTTTCCCACAAA
65 TTAGCGGCGCTTTTCCCACAAA
*
2816597 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAAGCCTTAACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAAGCCTTGACCTT
* * *
2816662 TAGCGGCACTTCTACCACAAA
66 TAGCGGCGCTTTTCCCACAAA
** * * *
2816683 CGCCGCTAAAAGCCTTGACCTTTAATGGCGCTTTTCCCAAAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAAGCCTTGACCTT
2816748 TAGCGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTTCCCACAAA
*
2816769 CGCCGCTAAAAGCCTTGACCTATAGCGGC
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
2816798 ATTTTTTCCA
Statistics
Matches: 183, Mismatches: 18, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
86 129 0.70
87 54 0.30
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.23
Consensus pattern (86 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAAGCCTTGACCTT
TAGCGGCGCTTTTCCCACAAA
Found at i:2816756 original size:129 final size:130
Alignment explanation
Indices: 2816510--2816816 Score: 481
Period size: 129 Copynumber: 2.4 Consensus size: 130
2816500 TTAAAAAAAG
* * *
2816510 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACTACAAACGCCGCTAAAATCTCTTGACCT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCACTTCTACCACAAACGCCGCTAAAAGCTCTTGACCT
* *
2816575 TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAA
66 TTAACGGCGCTTTTCCCAAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAA
*
2816640 CGCCGCTAAAAGCCTTAACCTTTAGCGGCACTTCTACCACAAACGCCGCTAAAAGC-CTTGACCT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCACTTCTACCACAAACGCCGCTAAAAGCTCTTGACCT
* * *
2816704 TTAATGGCGCTTTTCCCAAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
66 TTAACGGCGCTTTTCCCAAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAA
* * * *
2816769 CGCCGCTAAAAGCCTTGACCTATAGCGGCATTTTTTCCAACAAACGCC
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCACTTCTACC-ACAAACGCC
2816817 ACAAAATTTT
Statistics
Matches: 162, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
129 101 0.62
130 61 0.38
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (130 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCACTTCTACCACAAACGCCGCTAAAAGCTCTTGACCT
TTAACGGCGCTTTTCCCAAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAA
Found at i:2817527 original size:2 final size:2
Alignment explanation
Indices: 2817520--2817544 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2817510 AATATTATTA
2817520 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 A
2817545 CAACTAGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2818427 original size:10 final size:10
Alignment explanation
Indices: 2818414--2818439 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
2818404 ATTATCATAA
2818414 ATTTTAAAAT
1 ATTTTAAAAT
2818424 ATTTTAAAAT
1 ATTTTAAAAT
2818434 ATTTTA
1 ATTTTA
2818440 TTTTAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:2819076 original size:5 final size:5
Alignment explanation
Indices: 2819066--2819101 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
2819056 TTATGTTTTA
2819066 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
2819102 CATAAACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:2820429 original size:18 final size:19
Alignment explanation
Indices: 2820408--2820446 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
2820398 ATATATAGAT
2820408 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
2820426 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
2820445 AT
1 AT
2820447 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:2820952 original size:18 final size:19
Alignment explanation
Indices: 2820931--2820971 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
2820921 AATAAAATGA
2820931 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
2820949 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
2820968 GAAA
1 GAAA
2820972 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:2824179 original size:49 final size:47
Alignment explanation
Indices: 2824116--2824239 Score: 160
Period size: 49 Copynumber: 2.6 Consensus size: 47
2824106 ACATCTTCAT
*
2824116 ATATAGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCAC
1 ATAT-GATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCAC
* *
2824165 ATATCGATGCCATAGCCGAGCTATGGTCTTACACGAATCACATATCTC
1 ATAT-GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCAC
* * *
2824213 A-CTGATGCCATATCCCAGATATGGTCT
1 ATATGATGCCATAGCCCAGCTATGGTCT
2824240 CATATAGTAG
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 21 0.31
47 1 0.01
48 13 0.19
49 32 0.48
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (47 bp):
ATATGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCAC
Found at i:2824353 original size:31 final size:31
Alignment explanation
Indices: 2824310--2824458 Score: 208
Period size: 31 Copynumber: 4.8 Consensus size: 31
2824300 CTTGTCACTT
* * *
2824310 GTAGCCGAAGCTACCACTATCCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
2824341 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
2824372 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
2824403 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
2824434 GTAACCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
2824459 TGTCATTTGT
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:2830757 original size:16 final size:15
Alignment explanation
Indices: 2830736--2830767 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
2830726 AGACATTAAA
2830736 GCATAAAGTAAACAGT
1 GCATAAAGTAAA-AGT
2830752 GCATAAAGTAAAAGT
1 GCATAAAGTAAAAGT
2830767 G
1 G
2830768 GTACTGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (15 bp):
GCATAAAGTAAAAGT
Found at i:2836040 original size:13 final size:14
Alignment explanation
Indices: 2836024--2836059 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
2836014 CAATCTCATA
2836024 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
2836037 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
2836050 TCTC-ATTTCA
1 TCTCAATTTCA
2836060 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:2836049 original size:18 final size:19
Alignment explanation
Indices: 2836011--2836051 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
2836001 TGGTTCATGT
2836011 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
2836030 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
2836048 TTTC
1 TTTC
2836052 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:2836241 original size:39 final size:38
Alignment explanation
Indices: 2836174--2836308 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
2836164 ACCAATATGG
* * *
2836174 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
2836213 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
2836251 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
2836292 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
2836309 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:2837796 original size:5 final size:5
Alignment explanation
Indices: 2837786--2837817 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
2837776 TTATGTTTAT
2837786 ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
2837818 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:2839121 original size:19 final size:19
Alignment explanation
Indices: 2839070--2839122 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
2839060 TCAAATAATT
2839070 TTTTTTTACTTCTTATAACA
1 TTTTTTTACTT-TTATAACA
* * *
2839090 TTTTTTAATTTTTAT-ATA
1 TTTTTTTACTTTTATAACA
2839108 TTATTTTTACTTTTA
1 TT-TTTTTACTTTTA
2839123 AAAATTTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 4 0.15
19 14 0.52
20 9 0.33
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTTTACTTTTATAACA
Found at i:2839488 original size:28 final size:28
Alignment explanation
Indices: 2839436--2839489 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
2839426 ATTAATATCT
*
2839436 GAAAAGTAAAAAATTAAGTTCTTAAAAA
1 GAAAAGTAAAAAATTAAATTCTTAAAAA
*
2839464 GAAAAGTAAAGGAATTAAATT-TTAAA
1 GAAAAGTAAA-AAATTAAATTCTTAAA
2839490 TTTATGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.59, C:0.02, G:0.13, T:0.26
Consensus pattern (28 bp):
GAAAAGTAAAAAATTAAATTCTTAAAAA
Found at i:2845580 original size:18 final size:19
Alignment explanation
Indices: 2845559--2845607 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
2845549 GGTTTTTTTA
*
2845559 ATTTTTTAATTTTTGAA-T
1 ATTTTTTAATTTTTAAATT
* **
2845577 ATTTTATAAAATTTAAATT
1 ATTTTTTAATTTTTAAATT
2845596 ATTTTTTAATTT
1 ATTTTTTAATTT
2845608 CATGTGTTGT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTTTAATTTTTAAATT
Found at i:2858741 original size:21 final size:21
Alignment explanation
Indices: 2858708--2858753 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2858698 AAAATATTAC
*
2858708 TTTTTTACCATTTTCTTGCTA
1 TTTTTCACCATTTTCTTGCTA
* * *
2858729 TTTTTCACTATTTTGTTGTTA
1 TTTTTCACCATTTTCTTGCTA
2858750 TTTT
1 TTTT
2858754 ATTGTTGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTTCACCATTTTCTTGCTA
Found at i:2864153 original size:20 final size:21
Alignment explanation
Indices: 2864106--2864153 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
2864096 TTAGGTACTT
* *
2864106 TTTAT-TTAATTTTATAATAG
1 TTTATATTAATATTATAATAA
2864126 TTTA-ATTAATATTATAA-AA
1 TTTATATTAATATTATAATAA
2864145 TTTATATTA
1 TTTATATTA
2864154 TTTTTCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTATATTAATATTATAATAA
Found at i:2867196 original size:2 final size:2
Alignment explanation
Indices: 2867189--2867217 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2867179 TTTAAGTATC
2867189 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 A
2867218 ACTAATTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2874950 original size:18 final size:18
Alignment explanation
Indices: 2874924--2874958 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2874914 GAAAGGAACG
*
2874924 AGCAGCAGCAACAACAAC
1 AGCAACAGCAACAACAAC
*
2874942 AGCAACAGCAACGACAA
1 AGCAACAGCAACAACAA
2874959 TGCATATTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.31, G:0.17, T:0.00
Consensus pattern (18 bp):
AGCAACAGCAACAACAAC
Found at i:2894143 original size:29 final size:31
Alignment explanation
Indices: 2894104--2894162 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
2894094 CGAATCATTG
*
2894104 AGTGACTAAAATA-AA-AAAATTAATAGTTA
1 AGTGACCAAAATAGAACAAAATTAATAGTTA
*
2894133 AGTGACCAAAATAGAACAAATTTAATAGTT
1 AGTGACCAAAATAGAACAAAATTAATAGTT
2894163 TGGTAACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 2 0.08
31 12 0.46
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (31 bp):
AGTGACCAAAATAGAACAAAATTAATAGTTA
Found at i:2900097 original size:40 final size:40
Alignment explanation
Indices: 2900044--2900130 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
2900034 AAAATCGAAA
* *
2900044 AGATCAAGTATTAGCAGCACTTTTT-AAAAACCGCCGCTAT
1 AGATCGAGCATTAGCAGCA-TTTTTAAAAAACCGCCGCTAT
** **
2900084 AGATCGAGCATTAGTGGCATTTTTAAAAAAGTGCCGCTAT
1 AGATCGAGCATTAGCAGCATTTTTAAAAAACCGCCGCTAT
*
2900124 AGGTCGA
1 AGATCGA
2900131 CCTATAAACG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 5 0.13
40 34 0.87
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (40 bp):
AGATCGAGCATTAGCAGCATTTTTAAAAAACCGCCGCTAT
Found at i:2900885 original size:14 final size:14
Alignment explanation
Indices: 2900833--2900893 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
2900823 AACACTAGAG
* *
2900833 CCTAACCCATAAAT
1 CCTAACCCCTAACT
*
2900847 CCTAACCCATTAAC-
1 CCTAACCC-CTAACT
* *
2900861 CTTAACTCCTAACT
1 CCTAACCCCTAACT
*
2900875 CCTAACCCCTAACC
1 CCTAACCCCTAACT
2900889 CCTAA
1 CCTAA
2900894 ACTCATAAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 4 0.11
14 30 0.81
15 3 0.08
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (14 bp):
CCTAACCCCTAACT
Found at i:2900887 original size:21 final size:20
Alignment explanation
Indices: 2900833--2900893 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
2900823 AACACTAGAG
*
2900833 CCTAACCCATAAATCCTAAC
1 CCTAACCCATAACTCCTAAC
*
2900853 CCATTAA-CCTTAACTCCTAAC
1 CC--TAACCCATAACTCCTAAC
* *
2900874 TCCTAACCCCTAACCCCTAA
1 -CCTAACCCATAACTCCTAA
2900894 ACTCATAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 5 0.15
21 23 0.70
22 5 0.15
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (20 bp):
CCTAACCCATAACTCCTAAC
Found at i:2901476 original size:74 final size:73
Alignment explanation
Indices: 2901321--2901573 Score: 339
Period size: 74 Copynumber: 3.4 Consensus size: 73
2901311 AAGATAGCCT
* **
2901321 TTAGTGGCGTTTTCGTAA-AAAACGCCTGCAAAAATGTTTTAAAAGTGT-GCAAAATGCTGTCGT
1 TTAGTGGCGTTTT--TAAGAAAACGCC-GCAAATATGTTTTAAGCGTGTAG-AAAATGCTGTCGT
* *
2901384 TTTTTCTGACTT
62 TTTGTCTGACTA
* * *
2901396 TTAGTGGCATTTTTAAGAAAACGCCGCAAATATGTTTTAAGCGTGTAGAAAACGATGTCGTTTCT
1 TTAGTGGCGTTTTTAAGAAAACGCCGCAAATATGTTTTAAGCGTGTAGAAAATGCTGTCGTTT-T
2901461 GTCTGACTA
65 GTCTGACTA
*
2901470 TTAGTGGCGTTTTAAAGAAAACGCCGCAAATATGTTTTAAGCGTGTAGAAAATGCTGTCGTTTTT
1 TTAGTGGCGTTTTTAAGAAAACGCCGCAAATATGTTTTAAGCGTGTAGAAAATGCTGTCG-TTTT
2901535 GTCTGACTA
65 GTCTGACTA
* *
2901544 TTAGTGGCGTTTTTTAGAAAACGCTGCAAA
1 TTAGTGGCGTTTTTAAGAAAACGCCGCAAA
2901574 AAGAAGCCTT
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
73 34 0.21
74 110 0.69
75 15 0.09
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (73 bp):
TTAGTGGCGTTTTTAAGAAAACGCCGCAAATATGTTTTAAGCGTGTAGAAAATGCTGTCGTTTTG
TCTGACTA
Found at i:2906164 original size:13 final size:14
Alignment explanation
Indices: 2906148--2906176 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2906138 TTATAAATAT
2906148 TTATAAT-GTTTAA
1 TTATAATAGTTTAA
2906161 TTATAATAGTTTAA
1 TTATAATAGTTTAA
2906175 TT
1 TT
2906177 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATAATAGTTTAA
Found at i:2906908 original size:33 final size:32
Alignment explanation
Indices: 2906852--2906964 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 32
2906842 TTAGATTTAA
* *
2906852 TGTTTTTGGTTGTATTTTTATGTTATATTTGT
1 TGTTTTTGGTTGGATTTTTATGTTATATTTGC
* *
2906884 TGTTTTTGGTTGTATTTTTTATGTTACATTTGC
1 TGTTTTTGGTTGGA-TTTTTATGTTATATTTGC
* *
2906917 TGTTTTTGGTTGGA-TTTCATGCTATATTTGC
1 TGTTTTTGGTTGGATTTTTATGTTATATTTGC
2906948 TGTTTTTGGTTGGATTT
1 TGTTTTTGGTTGGATTT
2906965 AATGCAGGAA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
31 28 0.38
32 16 0.22
33 29 0.40
ACGTcount: A:0.12, C:0.04, G:0.21, T:0.63
Consensus pattern (32 bp):
TGTTTTTGGTTGGATTTTTATGTTATATTTGC
Found at i:2908890 original size:17 final size:15
Alignment explanation
Indices: 2908861--2908896 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
2908851 GGCTTTATTC
2908861 ATTTTATATTTTTAG
1 ATTTTATATTTTTAG
2908876 ATTTTATAATATTTTAG
1 ATTTTAT-AT-TTTTAG
2908893 ATTT
1 ATTT
2908897 AGGCTGGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 2 0.11
17 10 0.53
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (15 bp):
ATTTTATATTTTTAG
Found at i:2928013 original size:24 final size:24
Alignment explanation
Indices: 2927986--2928031 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2927976 ACAATTTAGC
*
2927986 TTTTAAAATATATTTTTATTTTTA
1 TTTTAAAACATATTTTTATTTTTA
* *
2928010 TTTTGATACATATTTTTATTTT
1 TTTTAAAACATATTTTTATTTT
2928032 ATCTCAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTAAAACATATTTTTATTTTTA
Found at i:2928212 original size:21 final size:21
Alignment explanation
Indices: 2928183--2928235 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2928173 ACACATTAAA
*
2928183 ATATGAAAAATT-AAAATGAAT
1 ATATAAAAAATTCAAAAT-AAT
*
2928204 ATATAAAAAATTCATAATAAT
1 ATATAAAAAATTCAAAATAAT
*
2928225 ATATACAAAAT
1 ATATAAAAAAT
2928236 CTAGAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (21 bp):
ATATAAAAAATTCAAAATAAT
Found at i:2928265 original size:22 final size:22
Alignment explanation
Indices: 2928222--2928265 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2928212 AATTCATAAT
* *
2928222 AATATATACAAAATCTAGAAAA
1 AATATATACAAAATATAAAAAA
* *
2928244 AATATATATAAATTATAAAAAA
1 AATATATACAAAATATAAAAAA
2928266 TTATTAAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (22 bp):
AATATATACAAAATATAAAAAA
Found at i:2931295 original size:2 final size:2
Alignment explanation
Indices: 2931288--2931314 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2931278 CTCCATAAAC
2931288 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2931315 CTACTTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2931537 original size:15 final size:15
Alignment explanation
Indices: 2931517--2931545 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2931507 ACGACTCAAC
2931517 TAAAATATTATTTTT
1 TAAAATATTATTTTT
2931532 TAAAATATTATTTT
1 TAAAATATTATTTT
2931546 AATATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAAAATATTATTTTT
Found at i:2931584 original size:20 final size:18
Alignment explanation
Indices: 2931541--2931577 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2931531 TTAAAATATT
2931541 ATTTTAATATTTTTATAC
1 ATTTTAATATTTTTATAC
2931559 ATTTTAAT-TTTATTATAC
1 ATTTTAATATTT-TTATAC
2931577 A
1 A
2931578 CATTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTAATATTTTTATAC
Found at i:2931904 original size:17 final size:18
Alignment explanation
Indices: 2931882--2931923 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2931872 GATAAAATCT
* *
2931882 AATTATAATTTACC-CAA
1 AATTATAATTAACCAAAA
2931899 AATTAT-ATTAACCAAAA
1 AATTATAATTAACCAAAA
2931916 AATTATAA
1 AATTATAA
2931924 AAATAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 14 0.67
18 1 0.05
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTATAATTAACCAAAA
Found at i:2944399 original size:25 final size:24
Alignment explanation
Indices: 2944370--2944432 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 24
2944360 ATATTCTAAA
2944370 TAAAATATAAAAATT-ATAATTTTT
1 TAAAATATAAAAATTCAT-ATTTTT
*
2944394 TAAAAATAAAAAAAAATTCATATTTTT
1 T-AAAAT--ATAAAAATTCATATTTTT
2944421 TAAAAT-TAAAAA
1 TAAAATATAAAAA
2944433 CTATTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
23 5 0.15
24 1 0.03
25 5 0.15
26 5 0.15
27 15 0.45
28 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAATATAAAAATTCATATTTTT
Found at i:2944418 original size:27 final size:27
Alignment explanation
Indices: 2944378--2944432 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
2944368 AATAAAATAT
2944378 AAAAATTATAATTTTTTAAAAATAAAA
1 AAAAATTATAATTTTTTAAAAATAAAA
*
2944405 AAAAATTCAT-ATTTTTTAAAATTAAAA
1 AAAAATT-ATAATTTTTTAAAAATAAAA
2944432 A
1 A
2944433 CTATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
AAAAATTATAATTTTTTAAAAATAAAA
Found at i:2944442 original size:17 final size:18
Alignment explanation
Indices: 2944422--2944467 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
2944412 CATATTTTTT
2944422 AAAATTA-AAAACTATTA
1 AAAATTATAAAACTATTA
* *
2944439 AAAA-AATAAAACTCTTA
1 AAAATTATAAAACTATTA
*
2944456 AAAATTTTAAAA
1 AAAATTATAAAA
2944468 ATGAAAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 1 0.04
17 17 0.74
18 5 0.22
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATTATAAAACTATTA
Found at i:2951435 original size:36 final size:35
Alignment explanation
Indices: 2951358--2951436 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 35
2951348 GAACACTCAG
*
2951358 AAAGTACCCAAGGAACCAACCTGAGTGAAAACAATC
1 AAAGT-CCCAAGGAACAAACCTGAGTGAAAACAATC
* *
2951394 TAAGTCCACAAGGAACAAACCTGAGTGAGAACACA-C
1 AAAGTCC-CAAGGAACAAACCTGAGTGAAAACA-ATC
2951430 AAAGTCC
1 AAAGTCC
2951437 TTCAGAGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 2 0.05
36 34 0.92
37 1 0.03
ACGTcount: A:0.46, C:0.25, G:0.18, T:0.11
Consensus pattern (35 bp):
AAAGTCCCAAGGAACAAACCTGAGTGAAAACAATC
Found at i:2951619 original size:108 final size:108
Alignment explanation
Indices: 2951531--2951768 Score: 280
Period size: 108 Copynumber: 2.2 Consensus size: 108
2951521 TGGCAATGAT
* * * * **
2951531 GACACACAAAGTCCTCAGAAGAGAAGCCATGATGCAAACATGAGTAGTCCTCAATGTATAAA-CA
1 GACACACAAAGTCCTAAAAAGAGAAACCACGATGCAAACATGAGTAGTCCTCAACATATAAATC-
2951595 ATAATGAAGATGCACAAAAACCTCAAGATATAATCTGGAATGGA
65 ATAATGAAGATGCACAAAAACCTCAAGATATAATCTGGAATGGA
** * * *
2951639 GGTACACAAAGTCCTAAAAAGAGAAACCGCGATGCTAACATGAGTAGTCCTCAACATATAAATCC
1 GACACACAAAGTCCTAAAAAGAGAAACCACGATGCAAACATGAGTAGTCCTCAACATATAAATCA
* * * * * *
2951704 TAATGAAGATGCACAAAAAGCTCGAGATGTAAACCGGAATGAA
66 TAATGAAGATGCACAAAAACCTCAAGATATAATCTGGAATGGA
* * *
2951747 GATACACACAGTCCTCAAAAGA
1 GACACACAAAGTCCTAAAAAGA
2951769 TAAGCCGCAA
Statistics
Matches: 109, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
108 108 0.99
109 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (108 bp):
GACACACAAAGTCCTAAAAAGAGAAACCACGATGCAAACATGAGTAGTCCTCAACATATAAATCA
TAATGAAGATGCACAAAAACCTCAAGATATAATCTGGAATGGA
Found at i:2963373 original size:18 final size:18
Alignment explanation
Indices: 2963350--2963391 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2963340 TCTATTAATT
2963350 ATTATTTATTAAAT-AAAA
1 ATTATTT-TTAAATAAAAA
*
2963368 ATTA-TTTTAATTAAAAA
1 ATTATTTTTAAATAAAAA
2963385 ATTATTT
1 ATTATTT
2963392 CAATAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 10 0.48
18 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTATTTTTAAATAAAAA
Found at i:2963398 original size:16 final size:17
Alignment explanation
Indices: 2963364--2963399 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2963354 TTTATTAAAT
*
2963364 AAAAATTATTTTAATTA
1 AAAAATTATTTCAATTA
2963381 AAAAATTATTTCAA-TA
1 AAAAATTATTTCAATTA
2963397 AAA
1 AAA
2963400 TGATTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAATTATTTCAATTA
Found at i:2964923 original size:37 final size:37
Alignment explanation
Indices: 2964858--2964952 Score: 100
Period size: 37 Copynumber: 2.6 Consensus size: 37
2964848 TCACAATTCC
* * * * * * *
2964858 TATAAAACAATAATAAAATAAGAACTATCGCAGTCAG
1 TATAAAACAACAATAAGATAACAACTATCACAATAAA
* *
2964895 TATAAAATAACAATAAGATAACATCTATCACAATAAA
1 TATAAAACAACAATAAGATAACAACTATCACAATAAA
*
2964932 TAAAAAACAACAATAAGATAA
1 TATAAAACAACAATAAGATAA
2964953 TTTGAAAATA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21
Consensus pattern (37 bp):
TATAAAACAACAATAAGATAACAACTATCACAATAAA
Found at i:2966386 original size:16 final size:15
Alignment explanation
Indices: 2966347--2966388 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
2966337 TTTCTCATTC
2966347 TATGTATATATTATT
1 TATGTATATATTATT
*
2966362 GATGT-TATATTATTT
1 TATGTATATATTA-TT
2966377 TATGTATATATT
1 TATGTATATATT
2966389 TTCTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 10 0.43
16 6 0.26
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
TATGTATATATTATT
Found at i:2966657 original size:18 final size:18
Alignment explanation
Indices: 2966622--2966667 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
2966612 ATTTAATATA
* * *
2966622 TTATTTATTTTTACCTTT
1 TTATCTATTTTAAACTTT
2966640 TTATCTATTTTAAACTTT
1 TTATCTATTTTAAACTTT
2966658 TATATCTATT
1 T-TATCTATT
2966668 ACTTGTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATCTATTTTAAACTTT
Found at i:2967245 original size:19 final size:21
Alignment explanation
Indices: 2967218--2967262 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
2967208 GGTCGATCAT
2967218 TTTAATAAAAC-A-TTTTTGG
1 TTTAATAAAACAACTTTTTGG
*
2967237 TTTATTAAAACAACGTTTTTGG
1 TTTAATAAAACAAC-TTTTTGG
2967259 TTTA
1 TTTA
2967263 CGAAAAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 1 0.05
22 11 0.50
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (21 bp):
TTTAATAAAACAACTTTTTGG
Found at i:2967722 original size:125 final size:126
Alignment explanation
Indices: 2967579--2967809 Score: 293
Period size: 126 Copynumber: 1.8 Consensus size: 126
2967569 CTCAAATAGT
* * * * ** * * *
2967579 AAATCGAAACCCAGCACGAATGGGCACCATTTATCGAA-TTTCTAAATACGAAACATTGCCTTAT
1 AAATCGAAACCCAACACGAATGGGCACCATCTACCAAACTCCCCAAATACGAAACACTGCCTCAT
* * *
2967643 TTTAATTTGAGAAAACATGGATAAAATTTTAAAAGGATATTTTGTATTTTAGTCGAATGGA
66 TTTAATTTAAGAAAACATGGATAAAATCTCAAAAGGATATTTTGTATTTTAGTCGAATGGA
* * * *
2967704 AAATCGAAACCCAACACGATTGGGCACGATCTCCCAAACTCCCCAAATACGAAATACTGCCTCAT
1 AAATCGAAACCCAACACGAATGGGCACCATCTACCAAACTCCCCAAATACGAAACACTGCCTCAT
* *
2967769 TTTAATTTAAGAAAACATGGATGAAATCTCACAAGGATATT
66 TTTAATTTAAGAAAACATGGATAAAATCTCAAAAGGATATT
2967810 CCAAGGATAT
Statistics
Matches: 87, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
125 31 0.36
126 56 0.64
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (126 bp):
AAATCGAAACCCAACACGAATGGGCACCATCTACCAAACTCCCCAAATACGAAACACTGCCTCAT
TTTAATTTAAGAAAACATGGATAAAATCTCAAAAGGATATTTTGTATTTTAGTCGAATGGA
Found at i:2971583 original size:20 final size:20
Alignment explanation
Indices: 2971560--2971600 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2971550 TTAAATCGAT
*
2971560 TTGATTAAAATCAAATCAAA
1 TTGATTAAAATCAAATAAAA
**
2971580 TTGATTGGAATCAAATAAAA
1 TTGATTAAAATCAAATAAAA
2971600 T
1 T
2971601 CAAGATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (20 bp):
TTGATTAAAATCAAATAAAA
Found at i:2971585 original size:25 final size:25
Alignment explanation
Indices: 2971552--2971603 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
2971542 AGGAGCAATT
* * *
2971552 AAATCGATTTGATTAAAATCAAATC
1 AAATCGATTGGAATAAAATAAAATC
* *
2971577 AAATTGATTGGAATCAAATAAAATC
1 AAATCGATTGGAATAAAATAAAATC
2971602 AA
1 AA
2971604 GATATATTCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (25 bp):
AAATCGATTGGAATAAAATAAAATC
Found at i:2978998 original size:21 final size:20
Alignment explanation
Indices: 2978973--2979011 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2978963 TCGTTGCGGT
2978973 TGCCGCGTT-GCTTATCTCTAC
1 TGCCGC-TTGGCTT-TCTCTAC
2978994 TGCCGCTTGGCTTTCTCT
1 TGCCGCTTGGCTTTCTCT
2979012 TGTTTTCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.05, C:0.33, G:0.21, T:0.41
Consensus pattern (20 bp):
TGCCGCTTGGCTTTCTCTAC
Found at i:2983961 original size:28 final size:28
Alignment explanation
Indices: 2983921--2983981 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
2983911 CAAAAGTGGA
2983921 TTTGGATCACTATAGCACATTAAATTCT
1 TTTGGATCACTATAGCACATTAAATTCT
2983949 TTTGGATCACTATAGCACATTAAATTCT
1 TTTGGATCACTATAGCACATTAAATTCT
2983977 TTTGG
1 TTTGG
2983982 GTTCAATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (28 bp):
TTTGGATCACTATAGCACATTAAATTCT
Found at i:2987633 original size:30 final size:30
Alignment explanation
Indices: 2987598--2987654 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
2987588 TAAGCACTCA
2987598 ACCT-AACTTGA-AATATGGATTTTAAATTTT
1 ACCTAAACTTGATAATAT--ATTTTAAATTTT
2987628 ACCTAAACTTGATAATATATTTTAAAT
1 ACCTAAACTTGATAATATATTTTAAAT
2987655 GACTAACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
30 13 0.52
31 7 0.28
32 5 0.20
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (30 bp):
ACCTAAACTTGATAATATATTTTAAATTTT
Found at i:2989184 original size:3 final size:3
Alignment explanation
Indices: 2989163--2989208 Score: 67
Period size: 3 Copynumber: 15.0 Consensus size: 3
2989153 TTCACCATCT
2989163 TTC TT- TTC TTTC TTTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
2989209 ATATCTTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.78
4 7 0.17
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:3011281 original size:26 final size:26
Alignment explanation
Indices: 3011245--3011294 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
3011235 ACTTTTTTAT
3011245 TAAATGGTCGATTTGCTAATAAGTTC
1 TAAATGGTCGATTTGCTAATAAGTTC
3011271 TAAATGGTCGATTTGCTAATAAGT
1 TAAATGGTCGATTTGCTAATAAGT
3011295 CCTCAAGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (26 bp):
TAAATGGTCGATTTGCTAATAAGTTC
Found at i:3015520 original size:22 final size:22
Alignment explanation
Indices: 3015494--3015538 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3015484 TTAACCCTCA
*
3015494 ACTTTTATACATTATATAATTT
1 ACTTTTACACATTATATAATTT
* *
3015516 ACTTTTACATATTGTATAATTT
1 ACTTTTACACATTATATAATTT
3015538 A
1 A
3015539 ATTATTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (22 bp):
ACTTTTACACATTATATAATTT
Found at i:3021422 original size:45 final size:46
Alignment explanation
Indices: 3021371--3021468 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 46
3021361 TAGAAGATGA
*
3021371 TCCAAAAGA-AGGAGTGTCGGAAACGCCAAAAGCAGAACTTGACAC
1 TCCAAAAGACAGGAGTCTCGGAAACGCCAAAAGCAGAACTTGACAC
* ** * **
3021416 TCCAAAA-ACAGGAGTCTTGGAAGTGCCAAAAGCAGAATTTGATGC
1 TCCAAAAGACAGGAGTCTCGGAAACGCCAAAAGCAGAACTTGACAC
3021461 TCCAAAAG
1 TCCAAAAG
3021469 CATGAGTGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
44 1 0.02
45 43 0.98
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.15
Consensus pattern (46 bp):
TCCAAAAGACAGGAGTCTCGGAAACGCCAAAAGCAGAACTTGACAC
Found at i:3021484 original size:45 final size:45
Alignment explanation
Indices: 3021395--3021493 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
3021385 TGTCGGAAAC
**
3021395 GCCAAAAGCAGAACTTGACACTCCAAAAACAGGAGTCTTGGAAGT
1 GCCAAAAGCAGAACTTGACACTCCAAAAACAGGAGTCGAGGAAGT
* ** * *
3021440 GCCAAAAGCAGAATTTGATGCTCCAAAAGCATGAGT-GAGAGAAGT
1 GCCAAAAGCAGAACTTGACACTCCAAAAACAGGAGTCGAG-GAAGT
3021485 GCCAAAAGC
1 GCCAAAAGC
3021494 TGGTGCGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.15
Consensus pattern (45 bp):
GCCAAAAGCAGAACTTGACACTCCAAAAACAGGAGTCGAGGAAGT
Found at i:3021649 original size:24 final size:24
Alignment explanation
Indices: 3021596--3021654 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
3021586 TTCCAGTTGA
*
3021596 ACCGAAGGCAGGAGTGCTTGTGAC
1 ACCGAAGGCAGGAGTGCTTGAGAC
3021620 ACCGAAGGCAGGAGTGCTTGCAG-C
1 ACCGAAGGCAGGAGTGCTTG-AGAC
*
3021644 AGCGAAGGCAG
1 ACCGAAGGCAG
3021655 AAGTACTGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.39, T:0.12
Consensus pattern (24 bp):
ACCGAAGGCAGGAGTGCTTGAGAC
Found at i:3028745 original size:29 final size:31
Alignment explanation
Indices: 3028684--3028747 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
3028674 TTTAATTTAG
* *
3028684 AAATTTATAAAAAATAAATAAAAGTAGATAA
1 AAATTTATAAAAAATAAATAAAAGTAAAAAA
3028715 AAATTT-T-AAAAATAAAT-AAAGTGAAAAAA
1 AAATTTATAAAAAATAAATAAAAGT-AAAAAA
3028744 AAAT
1 AAAT
3028748 AGGGAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.17
29 18 0.60
30 1 0.03
31 6 0.20
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (31 bp):
AAATTTATAAAAAATAAATAAAAGTAAAAAA
Found at i:3028846 original size:17 final size:18
Alignment explanation
Indices: 3028824--3028858 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3028814 CCATTCTTTA
3028824 AAAAACA-TAAAAAAAAT
1 AAAAACATTAAAAAAAAT
*
3028841 AAAAACATTAAACAAAAT
1 AAAAACATTAAAAAAAAT
3028859 TCTTGGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAACATTAAAAAAAAT
Found at i:3032395 original size:26 final size:26
Alignment explanation
Indices: 3032366--3032418 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3032356 TTTAAACTGC
*
3032366 TATTTTCTGTAATTTAAATGCTTTGT
1 TATTTTCTGTAATTAAAATGCTTTGT
* *
3032392 TATTTTGTGTAATTAAAATGTTTTGT
1 TATTTTCTGTAATTAAAATGCTTTGT
3032418 T
1 T
3032419 TTTATAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.13, T:0.58
Consensus pattern (26 bp):
TATTTTCTGTAATTAAAATGCTTTGT
Found at i:3034362 original size:27 final size:29
Alignment explanation
Indices: 3034330--3034396 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 29
3034320 AATGAAATTA
3034330 AATAAATTTAAAACAT-AAAAT-ATTA-TC
1 AATAAATTTAAAA-ATGAAAATAATTAGTC
3034357 AATAAATTTCAAAAATGAAAATAAATTAGTC
1 AATAAATTT-AAAAATGAAAAT-AATTAGTC
3034388 AAT-AATTTA
1 AATAAATTTA
3034397 CCAAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
27 11 0.31
28 9 0.26
29 1 0.03
30 9 0.26
31 5 0.14
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (29 bp):
AATAAATTTAAAAATGAAAATAATTAGTC
Found at i:3039152 original size:21 final size:20
Alignment explanation
Indices: 3039122--3039160 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
3039112 AGGCATAGAT
3039122 TCCAACTTCAATTCTACGTA
1 TCCAACTTCAATTCTACGTA
3039142 TCCAAGCTTCAATTCTACG
1 TCCAA-CTTCAATTCTACG
3039161 CATCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (20 bp):
TCCAACTTCAATTCTACGTA
Found at i:3057979 original size:24 final size:25
Alignment explanation
Indices: 3057925--3057979 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
3057915 AAAAAAAATT
*
3057925 AATT-TAATCTTTTAAAAACTATAA
1 AATTATAATCTATTAAAAACTATAA
*
3057949 AACTATAATCTATT-AAAA-TAGTAA
1 AATTATAATCTATTAAAAACTA-TAA
3057973 AATTATA
1 AATTATA
3057980 TTTTTACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 16 0.62
25 8 0.31
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (25 bp):
AATTATAATCTATTAAAAACTATAA
Found at i:3066188 original size:2 final size:2
Alignment explanation
Indices: 3066181--3066217 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3066171 CTTTATTCTT
3066181 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3066218 TTCACTTGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3067023 original size:21 final size:23
Alignment explanation
Indices: 3066999--3067041 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
3066989 CTAGTTTTAT
3066999 TATAAATTTC-TTCTTT-TTGTA
1 TATAAATTTCATTCTTTATTGTA
*
3067020 TATATATTTCATTCTTTATTGT
1 TATAAATTTCATTCTTTATTGT
3067042 CGTCATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 6 0.32
23 4 0.21
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.63
Consensus pattern (23 bp):
TATAAATTTCATTCTTTATTGTA
Found at i:3083217 original size:25 final size:26
Alignment explanation
Indices: 3083189--3083243 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
3083179 CTCCAGTTAG
* *
3083189 ATTTTA-AAAAATAA-ATAAATGTTTT
1 ATTTTATAAAAA-AACACAAATATTTT
3083214 ATTTTATAAAAAAACACAAATATTTT
1 ATTTTATAAAAAAACACAAATATTTT
3083240 ATTT
1 ATTT
3083244 CAAATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTTTATAAAAAAACACAAATATTTT
Found at i:3086794 original size:132 final size:130
Alignment explanation
Indices: 3086341--3086808 Score: 410
Period size: 131 Copynumber: 3.6 Consensus size: 130
3086331 ATATGCGGCA
* * * * * *
3086341 TTTGGTAATTC-GCGGAATCGTGCCCTAACGTGCTAGGTTGCTATTTCCCGTTTGCTT-AAAATA
1 TTTGATAATTCAG-GGAATAGTGCCCTATCGTGCTGGGTTGCGATTTCCCGTTTG-TTCAAAACA
* * * * * *
3086404 ATCAAATATCCCTTCAAAATTTCACTCATGTATTCTAAAAATCCTTTAAAACAAAGGCAATACCC
64 ATCGAATATTCCTTCAAAATTTCACTCATGTTTTCTAAAAA-CCTTTAAAACGAAGGCAATATCG
3086469 AGTG
128 A-TG
* * * *
3086473 TTTGATAATTC-GAGAATCA-TGCCCTATCGTGTTGGGTTGTGATTTCTCGTTTGTTCAAAACAA
1 TTTGATAATTCAGGGAAT-AGTGCCCTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAACAA
* *** * * *
3086536 TCGAATATTCCTTTAGGTTTTCACTCGTGTTTAT-TAAAAACCTTCCAAAACGAAGACAATACTC
65 TCGAATATTCCTTCAAAATTTCACTCATGTTT-TCTAAAAACCTT-TAAAACGAAGGCAATA-TC
*
3086600 GGTG
127 GATG
* * * * *
3086604 TTTGATAATTCAGGG-ATCGTGCCCTGA-CGTGTTGGGTTGTGATTTCCCCTTTTTTTCAAAACA
1 TTTGATAATTCAGGGAATAGTGCCCT-ATCGTGCTGGGTTGCGATTT-CCCGTTTGTTCAAAACA
* ** *
3086667 ATCGAAGATTCCTTCAAAATTTCACTCACATTTTCTAAAAACCCTTTAAAACGAAGGCGATATTC
64 ATCGAATATTCCTTCAAAATTTCACTCATGTTTTCTAAAAA-CCTTTAAAACGAAGGCAATA-TC
3086732 GATG
127 GATG
** * * * * *
3086736 TTTGGCAATTCAGGGAATAGTACCCTATAGTGCTGGATTGCAATTTCCCGTTTGTTCAAAATAAA
1 TTTGATAATTCAGGGAATAGTGCCCTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAA-CAA
3086801 TCGAATAT
65 TCGAATAT
3086809 CTCTTCGGAG
Statistics
Matches: 267, Mismatches: 55, Indels: 27
0.77 0.16 0.08
Matches are distributed among these distances:
130 6 0.02
131 121 0.45
132 106 0.40
133 34 0.13
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (130 bp):
TTTGATAATTCAGGGAATAGTGCCCTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAACAAT
CGAATATTCCTTCAAAATTTCACTCATGTTTTCTAAAAACCTTTAAAACGAAGGCAATATCGATG
Found at i:3088368 original size:19 final size:19
Alignment explanation
Indices: 3088344--3088389 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
3088334 CTTTCTTTTC
3088344 TTTGCATT-CATCCCATGCA
1 TTTGCATTGCATCCCAT-CA
**
3088363 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATCCCATCA
3088382 TTTGCATT
1 TTTGCATT
3088390 AGATTTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATCCCATCA
Found at i:3093122 original size:23 final size:23
Alignment explanation
Indices: 3093040--3093126 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
3093030 CCTGATCAGT
*
3093040 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
3093062 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
3093082 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
3093105 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
3093127 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:3093398 original size:22 final size:21
Alignment explanation
Indices: 3093373--3093415 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3093363 ATTCACTTTT
3093373 CAATATCAAATATTCAATATCA
1 CAATATCAAATATTC-ATATCA
* *
3093395 CAATCTCATATATTCATATCA
1 CAATATCAAATATTCATATCA
3093416 ATTTCCTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (21 bp):
CAATATCAAATATTCATATCA
Found at i:3094800 original size:5 final size:5
Alignment explanation
Indices: 3094785--3094820 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
3094775 CTTCTTAGTT
3094785 TATATA TATAA TATAA TATAA TAT-A TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA T
3094821 TAAAACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:3094812 original size:14 final size:15
Alignment explanation
Indices: 3094785--3094820 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
3094775 CTTCTTAGTT
3094785 TATATATATAATATAA
1 TATA-ATATAATATAA
3094801 TATAATAT-ATATAA
1 TATAATATAATATAA
3094815 TATAAT
1 TATAAT
3094821 TAAAACATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.60
15 4 0.20
16 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAATATAATATAA
Found at i:3094856 original size:8 final size:8
Alignment explanation
Indices: 3094843--3094871 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
3094833 TATCTTTATT
3094843 ATATAATA
1 ATATAATA
3094851 ATATAATA
1 ATATAATA
3094859 ATATAATA
1 ATATAATA
3094867 ATATA
1 ATATA
3094872 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:3094891 original size:53 final size:57
Alignment explanation
Indices: 3094784--3094885 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 57
3094774 GCTTCTTAGT
* **
3094784 TTATATATATAATATAATATAATATATATAATATAATTAAAACATAAAGTATCTTTA
1 TTATATATATAATATAATATAATATATATAATATAACTAAAACATAAAAAATCTTTA
3094841 TTATATA-ATAATAT-A-ATAATATA-ATAATAT-ACT-AAACATAAAAAA
1 TTATATATATAATATAATATAATATATATAATATAACTAAAACATAAAAAA
3094886 AATCTTAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
51 10 0.24
52 2 0.05
53 7 0.17
54 8 0.19
55 1 0.02
56 7 0.17
57 7 0.17
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (57 bp):
TTATATATATAATATAATATAATATATATAATATAACTAAAACATAAAAAATCTTTA
Found at i:3099442 original size:23 final size:23
Alignment explanation
Indices: 3099388--3099448 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 23
3099378 GACATATAAA
3099388 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
3099409 GTGCCTG--ATACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
3099430 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
3099449 TAAAGTGCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.69
23 10 0.28
ACGTcount: A:0.34, C:0.28, G:0.25, T:0.13
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:3099456 original size:23 final size:23
Alignment explanation
Indices: 3099374--3099460 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
3099364 CCTGATCAGT
* *
3099374 ATACGACATATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
3099396 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
3099416 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
3099439 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
3099461 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.61
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:3099732 original size:22 final size:21
Alignment explanation
Indices: 3099707--3099749 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3099697 ATTCACTTTT
3099707 CAATATCAAATATTCAATATCA
1 CAATATCAAATATTC-ATATCA
* *
3099729 CAATCTCATATATTCATATCA
1 CAATATCAAATATTCATATCA
3099750 ATTTCCTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (21 bp):
CAATATCAAATATTCATATCA
Found at i:3100953 original size:9 final size:9
Alignment explanation
Indices: 3100939--3100965 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
3100929 CAAAACTTTA
3100939 TTCTAAAAC
1 TTCTAAAAC
3100948 TTCTAAAAC
1 TTCTAAAAC
3100957 TTCTAAAAC
1 TTCTAAAAC
3100966 ATCAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (9 bp):
TTCTAAAAC
Found at i:3101136 original size:5 final size:5
Alignment explanation
Indices: 3101123--3101159 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
3101113 TTCTTTAGTT
3101123 TATATA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA T
3101160 TAAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:3101195 original size:8 final size:8
Alignment explanation
Indices: 3101182--3101210 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
3101172 TATCTTTATT
3101182 ATATAATA
1 ATATAATA
3101190 ATATAATA
1 ATATAATA
3101198 ATATAATA
1 ATATAATA
3101206 ATATA
1 ATATA
3101211 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:3102018 original size:88 final size:88
Alignment explanation
Indices: 3101906--3102381 Score: 846
Period size: 88 Copynumber: 5.4 Consensus size: 88
3101896 CTGACCTTTA
*
3101906 TTGAAGCA-AGTCCAAGATGATTTGGCATATCTGTATTAGGCGGGGAGCAGATCGAAGACATAGC
1 TTGAAGCAGA-TCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGC
*
3101970 TAATTTGGCTTTCACGTGTTTACG
65 TGATTTGGCTTTCACGTGTTTACG
* *
3101994 TTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGGCGGGGAGCAGATCGAAGACATAGTT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCT
3102059 GATTTGGCTTTCACGTGTTTACG
66 GATTTGGCTTTCACGTGTTTACG
*
3102082 TTGAAGCAGATCCAAGATGATTTGTCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCT
3102147 GATTTGGCTTTCACGTGTTTACG
66 GATTTGGCTTTCACGTGTTTACG
3102170 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCT
* *
3102235 AATTTGGCTTTCAAGTGTTTACG
66 GATTTGGCTTTCACGTGTTTACG
*
3102258 TTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCT
3102323 GATTTGGCTTTCACGTGTTTACG
66 GATTTGGCTTTCACGTGTTTACG
* *
3102346 TTGAAGCAGATCCAAGATAATTTGGCGTCTCTGTAT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
3102382 CGTCAGAGGG
Statistics
Matches: 371, Mismatches: 16, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
88 370 1.00
89 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (88 bp):
TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCT
GATTTGGCTTTCACGTGTTTACG
Found at i:3102043 original size:41 final size:41
Alignment explanation
Indices: 3101916--3102315 Score: 160
Period size: 41 Copynumber: 9.2 Consensus size: 41
3101906 TTGAAGCAAG
*
3101916 TCCAAGATGATTTGGCATATCTGTATTAGGCGGGGAGCAGA
1 TCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGA
* * * * *
3101957 TCGAAGACATAGCTAATTTGGCTTTCACGTGT-TTA--CGTTGAAGCAGA
1 TCCAAG--AT-G---ATTTGGC-ATCTC-TGTATTAGGCG-GGGAGCAGA
*
3102004 TCCAAGATGATTTGGCATCTCTATATTAGGCGGGGAGCAGA
1 TCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGA
* * * * *
3102045 TCGAAGACATAGTTGATTTGGCTTTCACGTGT-TTA--CGTTGAAGCAGA
1 TC-----CA-AGATGATTTGGC-ATCTC-TGTATTAGGCG-GGGAGCAGA
*
3102092 TCCAAGATGATTTGTCATCTCTGTATTAGGCGGGGAGCAGA
1 TCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGA
* * * * *
3102133 TCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTA--CGTTGAAGCAGA
1 TC-----CA-AGATGATTTGGC-ATCTC-TGTATTAGGCG-GGGAGCAGA
3102180 TCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGA
1 TCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGA
* * * *
3102221 TCGAAGACATAGCTAATTTGGC-TTTCAAGTGT-TTA--CGTTGAAGCAGA
1 TCCAAG--AT-G---ATTTGGCATCTC---TGTATTAGGCG-GGGAGCAGA
*
3102268 TCTAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGA
1 TCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGA
*
3102309 TCGAAGA
1 TCCAAGA
3102316 CATAGCTGAT
Statistics
Matches: 265, Mismatches: 44, Indels: 100
0.65 0.11 0.24
Matches are distributed among these distances:
39 11 0.04
40 21 0.08
41 83 0.31
42 15 0.06
43 4 0.02
44 4 0.02
45 4 0.02
46 15 0.06
47 77 0.29
48 20 0.08
49 11 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (41 bp):
TCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGA
Found at i:3102418 original size:44 final size:44
Alignment explanation
Indices: 3102364--3102479 Score: 160
Period size: 44 Copynumber: 2.6 Consensus size: 44
3102354 GATCCAAGAT
* *
3102364 AATTTGGCGTCTCTGTATCGTCAGAGGGCAAATCGAAGATAGCA
1 AATTTGGCGTCTCTGTATCGGCAGAGAGCAAATCGAAGATAGCA
* * *
3102408 AATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCA
1 AATTTGGCGTCTCTGTATCGGCAGAGAGCAAATCGAAGATAGCA
* * *
3102452 GATTTGGCGTGTCTGTATTGGCAGAGAG
1 AATTTGGCGTCTCTGTATCGGCAGAGAG
3102480 TATGTAACAC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.27
Consensus pattern (44 bp):
AATTTGGCGTCTCTGTATCGGCAGAGAGCAAATCGAAGATAGCA
Found at i:3103305 original size:22 final size:22
Alignment explanation
Indices: 3103276--3103340 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
3103266 ACAAACGAAC
*
3103276 AGAGAGCACTAAAGTGCTATAT
1 AGAGAGCACTAAAGTGCTAAAT
* *
3103298 TGAGAGCAC-AGATGTGCTAAAT
1 AGAGAGCACTA-AAGTGCTAAAT
*
3103320 AGAGAGCACTTAACGTGCTAA
1 AGAGAGCAC-TAAAGTGCTAA
3103341 TAATAGAACG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 25 0.71
23 8 0.23
24 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (22 bp):
AGAGAGCACTAAAGTGCTAAAT
Found at i:3105957 original size:20 final size:18
Alignment explanation
Indices: 3105919--3105962 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
3105909 CAACTATTTA
*
3105919 ATTTATTTAAAATATAAT
1 ATTTATTAAAAATATAAT
3105937 ATTTATTAAATAATCATAAT
1 ATTTATTAAA-AAT-ATAAT
*
3105957 AATTAT
1 ATTTAT
3105963 AAAGCCATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 3 0.14
20 10 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTTATTAAAAATATAAT
Found at i:3107113 original size:7 final size:7
Alignment explanation
Indices: 3107103--3107191 Score: 55
Period size: 7 Copynumber: 13.3 Consensus size: 7
3107093 TACTTATGTT
3107103 TTATATA
1 TTATATA
3107110 -T-TATA
1 TTATATA
3107115 TTATATA
1 TTATATA
*
3107122 TAATATA
1 TTATATA
*
3107129 ATA-ATA
1 TTATATA
*
3107135 TAATATA
1 TTATATA
3107142 TTATATA
1 TTATATA
3107149 TTA-ATA
1 TTATATA
*
3107155 CTTAAATA
1 -TTATATA
3107163 TTA-AGT-
1 TTATA-TA
*
3107169 TAATATA
1 TTATATA
*
3107176 ATATATA
1 TTATATA
*
3107183 ATATATA
1 TTATATA
3107190 TT
1 TT
3107192 TTTATATAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 13 0.20
7 44 0.69
8 3 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (7 bp):
TTATATA
Done.