Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 59 of 100
Found at i:10801823 original size:90 final size:90
Alignment explanation
Indices: 10801660--10801824 Score: 213
Period size: 90 Copynumber: 1.8 Consensus size: 90
10801650 TTGATAAAAC
* ** *
10801660 AGCTTGGCCAAAGAGCTTGGATCTACATATTGCCTTCAAAAAGGCCCAATTCGATAAAACAACTC
1 AGCTTAGCCAAAGAGCTCAGATCTACATATTGCCTTAAAAAAGGCCCAATTCGATAAAACAACTC
****
10801725 CGTTAAAGAATTTGATCTTAGATTT
66 AACAAAAGAATTTGATCTTAGATTT
* * * * *
10801750 AGCTTAGCCAAAGAGCTCATATCTACATATTGCCTTAAAAAATGCCCAATTCTATAAAATAGCTC
1 AGCTTAGCCAAAGAGCTCAGATCTACATATTGCCTTAAAAAAGGCCCAATTCGATAAAACAACTC
10801815 AACAAAAGAA
66 AACAAAAGAA
10801825 CTCGAGCTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
90 62 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.27
Consensus pattern (90 bp):
AGCTTAGCCAAAGAGCTCAGATCTACATATTGCCTTAAAAAAGGCCCAATTCGATAAAACAACTC
AACAAAAGAATTTGATCTTAGATTT
Found at i:10802022 original size:56 final size:56
Alignment explanation
Indices: 10801957--10802169 Score: 212
Period size: 56 Copynumber: 3.8 Consensus size: 56
10801947 CCATCTTTGC
** * *
10801957 CAAAGAGCTTATCTCGGTAAATTATCTTTATAAAAGCTTAACTTGGTCACATCGAT
1 CAAAGAGCTTATCTCAATAAATTATCTTCATAAAAGCTTAACTTAGTCACATCGAT
* * * * * * * * *
10802013 CAAAAAGCTTGTCTCAATAAATTGTCTTCATAAAGGCTTCACTTAGTCCCCTTGAC
1 CAAAGAGCTTATCTCAATAAATTATCTTCATAAAAGCTTAACTTAGTCACATCGAT
* * * * * * *
10802069 CAAAGAGCTTATCTCGATAAATTATTTTTATAAAGGCTTAGCTCAATCACATCGAT
1 CAAAGAGCTTATCTCAATAAATTATCTTCATAAAAGCTTAACTTAGTCACATCGAT
* *
10802125 CAAATAGCTTATCTCAGTAAATTGA-CTTCATAAAAGCTTAACTTA
1 CAAAGAGCTTATCTCAATAAATT-ATCTTCATAAAAGCTTAACTTA
10802170 AACAGTTTGG
Statistics
Matches: 121, Mismatches: 35, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
56 120 0.99
57 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (56 bp):
CAAAGAGCTTATCTCAATAAATTATCTTCATAAAAGCTTAACTTAGTCACATCGAT
Found at i:10802077 original size:112 final size:112
Alignment explanation
Indices: 10801956--10802169 Score: 311
Period size: 112 Copynumber: 1.9 Consensus size: 112
10801946 ACCATCTTTG
* ***
10801956 CCAAAGAGCTTATCTCGGTAAATTATCTTTATAAAAGCTTAACTTGGTCACATCGATCAAAAAGC
1 CCAAAGAGCTTATCTCGATAAATTATCTTTATAAAAGCTTAACTCAATCACATCGATCAAAAAGC
* * * *
10802021 TTGTCTCAATAAATTGTCTTCATAAAGGCTTCACTTAGTCCCCTTGA
66 TTATCTCAATAAATTGACTTCATAAAAGCTTAACTTAGTCCCCTTGA
* * * *
10802068 CCAAAGAGCTTATCTCGATAAATTATTTTTATAAAGGCTTAGCTCAATCACATCGATCAAATAGC
1 CCAAAGAGCTTATCTCGATAAATTATCTTTATAAAAGCTTAACTCAATCACATCGATCAAAAAGC
*
10802133 TTATCTCAGTAAATTGACTTCATAAAAGCTTAACTTA
66 TTATCTCAATAAATTGACTTCATAAAAGCTTAACTTA
10802170 AACAGTTTGG
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
112 89 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (112 bp):
CCAAAGAGCTTATCTCGATAAATTATCTTTATAAAAGCTTAACTCAATCACATCGATCAAAAAGC
TTATCTCAATAAATTGACTTCATAAAAGCTTAACTTAGTCCCCTTGA
Found at i:10802189 original size:112 final size:110
Alignment explanation
Indices: 10801866--10802203 Score: 308
Period size: 112 Copynumber: 3.0 Consensus size: 110
10801856 ACGAATTTAT
* *
10801866 AATT-TCTTTCATATAGGCTTAGCTCAGA-CACATCGACCAAATAGCTCTTCTC-GATAAA--GA
1 AATTATCTTT-ATAAAGGCTTAGCTCA-ATCACATCGATCAAATAGCT-TTCTCAG-TAAATTGA
* * * * *
10801926 CTTTATAAAGGCTTAGCTTAACCATCTTTGCCAAAGAGCTTATCTCGGTA
62 CTTCATAAAGGCTTAACTTAAACAT-TTGGCCAAAGAGCTTATCTCGATA
* * *** * * *
10801976 AATTATCTTTATAAAAGCTTAACTTGGTCACATCGATCAAAAAGCTTGTCTCAATAAATTGTCTT
1 AATTATCTTTATAAAGGCTTAGCTCAATCACATCGATCAAATAGCTT-TCTCAGTAAATTGACTT
* ** ** *
10802041 CATAAAGGCTTCACTTAGTCCCCTTGACCAAAGAGCTTATCTCGATA
65 CATAAAGGCTTAACTTA-AACATTTGGCCAAAGAGCTTATCTCGATA
*
10802088 AATTATTTTTATAAAGGCTTAGCTCAATCACATCGATCAAATAGCTTATCTCAGTAAATTGACTT
1 AATTATCTTTATAAAGGCTTAGCTCAATCACATCGATCAAATAGCTT-TCTCAGTAAATTGACTT
* * * * * *
10802153 CATAAAAGCTTAACTTAAACAGTTTGGTCAAGGAGCTCATCTAGACA
65 CATAAAGGCTTAACTTAAACA-TTTGGCCAAAGAGCTTATCTCGATA
10802200 AATT
1 AATT
10802204 GCCCTTATAT
Statistics
Matches: 179, Mismatches: 41, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
109 1 0.01
110 39 0.22
111 6 0.03
112 131 0.73
113 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (110 bp):
AATTATCTTTATAAAGGCTTAGCTCAATCACATCGATCAAATAGCTTTCTCAGTAAATTGACTTC
ATAAAGGCTTAACTTAAACATTTGGCCAAAGAGCTTATCTCGATA
Found at i:10802414 original size:19 final size:19
Alignment explanation
Indices: 10802370--10802416 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
10802360 AATGATTAAC
*
10802370 TTGGCCAAAAAAGATTAAT
1 TTGGCCAAAAAAGATCAAT
* *
10802389 TCT-GCCAAAAGAGCTCAAT
1 T-TGGCCAAAAAAGATCAAT
10802408 TTGGCCAAA
1 TTGGCCAAA
10802417 TTTCTTAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 21 0.91
20 1 0.04
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.23
Consensus pattern (19 bp):
TTGGCCAAAAAAGATCAAT
Found at i:10804412 original size:21 final size:21
Alignment explanation
Indices: 10804375--10804433 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
10804365 CAATATTTTC
10804375 ACAAATAAAAAATAAATTACTCA
1 ACAAAT-AAAAA-AAATTACTCA
* *
10804398 ACAAATAAAAAAAATTCCTTA
1 ACAAATAAAAAAAATTACTCA
*
10804419 ACAATACAAAAAAAA
1 ACAA-ATAAAAAAAA
10804434 AAACCAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.38
22 14 0.44
23 6 0.19
ACGTcount: A:0.68, C:0.14, G:0.00, T:0.19
Consensus pattern (21 bp):
ACAAATAAAAAAAATTACTCA
Found at i:10805074 original size:43 final size:43
Alignment explanation
Indices: 10805013--10805094 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
10805003 ATAATTCACG
* *
10805013 CTAAAATATCACTTACAAATTACCAATAGAATTAAATCTCGCA
1 CTAAAATATCACCTACAAATTACCAATAGAATCAAATCTCGCA
10805056 CTAAAATATCACCTACAAATTACCAATAGAATCAAATCT
1 CTAAAATATCACCTACAAATTACCAATAGAATCAAATCT
10805095 GTCGGTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.27
Consensus pattern (43 bp):
CTAAAATATCACCTACAAATTACCAATAGAATCAAATCTCGCA
Found at i:10806561 original size:18 final size:18
Alignment explanation
Indices: 10806534--10806571 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10806524 TCTTTTTTGT
*
10806534 TGAAATATTTGAAAAAAC
1 TGAAACATTTGAAAAAAC
*
10806552 TGAAACATTTGCAAAAAC
1 TGAAACATTTGAAAAAAC
10806570 TG
1 TG
10806572 TAATGTGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (18 bp):
TGAAACATTTGAAAAAAC
Found at i:10815319 original size:41 final size:41
Alignment explanation
Indices: 10815262--10815352 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
10815252 TACTTGTAAT
*
10815262 ATTGATCATAATTATACGAATTACACAATATGACCCTCTAA
1 ATTGATCATAATTATACGAATTACACAATACGACCCTCTAA
*
10815303 ATTGATCATAATTATACGAATTACATAATACGACCCTCTAA
1 ATTGATCATAATTATACGAATTACACAATACGACCCTCTAA
10815344 ATTGATCAT
1 ATTGATCAT
10815353 TGTACTTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (41 bp):
ATTGATCATAATTATACGAATTACACAATACGACCCTCTAA
Found at i:10815439 original size:25 final size:25
Alignment explanation
Indices: 10815406--10815470 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
10815396 CAACATTTAG
*
10815406 CACACCATTCAGCAATGTGCTCATA
1 CACACCATTCAGCAATATGCTCATA
** *
10815431 CACACCATTCAATAATATGCTTATA
1 CACACCATTCAGCAATATGCTCATA
*
10815456 CACACCCTTCAGCAA
1 CACACCATTCAGCAA
10815471 ACCACTCAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.35, C:0.32, G:0.08, T:0.25
Consensus pattern (25 bp):
CACACCATTCAGCAATATGCTCATA
Found at i:10817497 original size:356 final size:356
Alignment explanation
Indices: 10816734--10817592 Score: 989
Period size: 356 Copynumber: 2.4 Consensus size: 356
10816724 TAAAAAAAAC
* * * * * * *
10816734 TTTAATAAT-AAAAAAAATGTTTTT-GAAAAATTAATGAAGGCGTTGTTATCT-ACAACCGCCTT
1 TTTAATAATCCAAGAAAA-GTTTTTAGAAAAACTATTAAAGGCATTGTTTTCTGA-AACCGCCTT
* * *
10816796 TAGTAATTATATACAAATTGTGATAGGAATTGTTAAAGGCATCTATCTTAAATATACACCTTCAA
64 TAGTAATTATATACAAACTGTGATAGGAATTATTAAAGGCGTCTATCTTAAATATACACCTTCAA
* * * ** * * * * *
10816861 TAATAGTGTTACAATTTATGTGGTGGTATATAGAAGGCATTTTACGGTAGAAGACGGCTTTAATA
129 TAACAGTGTTACAATTTGTGCGACGGTATATAAAAGACATTTTACAGTAAAAGACGCCTTTAATA
* * * *
10816926 ATTCTCAAAATATTTAGTGAAAAATTTTTGAAGGCGTCTGTTATTAACAAATACCTTTAGTAATG
194 ATTCTCAAAATATTAAGTGAAAAATTTTTGAAGGCGTCTATTATTAACAAACACCTTCAGTAATG
** * *
10816991 GATTACTAAGTTTAAAGGTATATTGAAGGGGCATTTTTTAATAAATGCCTTTCATTACCATCGTG
259 GATTACTAAGTTTAAAGGTATATTGAAGGGGCATTTTCCAATAAACGCCTTCCATTACCATCGTG
** * * *
10817056 GTATATTAAAGGTGTTTTATAATAAATGACACA
324 GTATATTAAAGGCATCTCATAATAAAAGACACA
* * ** *
10817089 TTTAATAATCCGAGAAAAGTTTTTAGAAAAATTATTAAAGGCATTGTTTTCTGAAATTGCCTTCA
1 TTTAATAATCCAAGAAAAGTTTTTAGAAAAACTATTAAAGGCATTGTTTTCTGAAACCGCCTTTA
* * *
10817154 GTATTTATATACAAACTATGATAGGAATTATTAAAGGCGTCTATCTTAAATATACGCCTTCAATA
66 GTAATTATATACAAACTGTGATAGGAATTATTAAAGGCGTCTATCTTAAATATACACCTTCAATA
* *
10817219 ACAGTGTTACAATTTGTGCGACGGTATATAAAAGACATTTTATAGTAAAAGATGCCTTTAATAAT
131 ACAGTGTTACAATTTGTGCGACGGTATATAAAAGACATTTTACAGTAAAAGACGCCTTTAATAAT
* *
10817284 TC-CTAAAATATTAAGTGAGAAAA-TTTTGAAGGCGTCTATTATTAACAAGCGCCTTCAGTAATG
196 TCTC-AAAATATTAAGTGA-AAAATTTTTGAAGGCGTCTATTATTAACAAACACCTTCAGTAATG
* * *
10817347 GATTTCTAAGTTTAAA-GTATGTTGAAGGTGTC-TTTTCCAATAAACGCCTTCCATTACCATCGT
259 GATTACTAAGTTTAAAGGTATATTGAAGG-GGCATTTTCCAATAAACGCCTTCCATTACCATCGT
* ***
10817410 GGTATATTGAAGGCATCTCATAATAAAAGTGTC-
323 GGTATATTAAAGGCATCTCATAATAAAAGACACA
* * * * * *
10817443 TTTAATAATTCAAGAAAATTTTTTTAGGAAAACTATTGAAGGCATTGTTTTTCTGCAACCACCTT
1 TTTAATAATCCAAGAAAA-GTTTTTAGAAAAACTATTAAAGGCATTG-TTTTCTGAAACCGCCTT
* * * * * **
10817508 TAATAATTA-ACTACAAACTGTGATAAGAATTATTAAAGCCGTTTTTCTTGGATATACACCTTCA
64 TAGTAATTATA-TACAAACTGTGATAGGAATTATTAAAGGCGTCTATCTTAAATATACACCTTCA
*
10817572 ATAACAGTGTTAAAATTTGTG
128 ATAACAGTGTTACAATTTGTG
10817593 TGGCGATATG
Statistics
Matches: 423, Mismatches: 72, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
354 16 0.04
355 103 0.24
356 299 0.71
357 5 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (356 bp):
TTTAATAATCCAAGAAAAGTTTTTAGAAAAACTATTAAAGGCATTGTTTTCTGAAACCGCCTTTA
GTAATTATATACAAACTGTGATAGGAATTATTAAAGGCGTCTATCTTAAATATACACCTTCAATA
ACAGTGTTACAATTTGTGCGACGGTATATAAAAGACATTTTACAGTAAAAGACGCCTTTAATAAT
TCTCAAAATATTAAGTGAAAAATTTTTGAAGGCGTCTATTATTAACAAACACCTTCAGTAATGGA
TTACTAAGTTTAAAGGTATATTGAAGGGGCATTTTCCAATAAACGCCTTCCATTACCATCGTGGT
ATATTAAAGGCATCTCATAATAAAAGACACA
Found at i:10825498 original size:27 final size:27
Alignment explanation
Indices: 10825468--10825545 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 27
10825458 TTTAAAATCC
10825468 AAAATTTATAAATTT-TGTTTTGATTAA
1 AAAATTTATAAATTTATGTTTTGA-TAA
* *
10825495 AAAATTTATGAGTTTATGATTTTGATAA
1 AAAATTTATAAATTTATG-TTTTGATAA
* *
10825523 AAATAATTATCAAATTTGTGTTT
1 AAA-ATTTAT-AAATTTATGTTT
10825546 GCTTGATCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
27 13 0.32
28 8 0.20
29 14 0.34
30 6 0.15
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.49
Consensus pattern (27 bp):
AAAATTTATAAATTTATGTTTTGATAA
Found at i:10825786 original size:21 final size:21
Alignment explanation
Indices: 10825762--10825835 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
10825752 TTAAATTTTT
10825762 TTTAAAATATATAAAAATAAA
1 TTTAAAATATATAAAAATAAA
10825783 TTTAAAATAT-TAAGAAATAAA
1 TTTAAAATATATAA-AAATAAA
10825804 --T--AA-ATATAAAAATAAA
1 TTTAAAATATATAAAAATAAA
*
10825820 TATATAAAATACATAA
1 T-T-TAAAATATATAA
10825836 TTTTGTGTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 16
0.72 0.02 0.27
Matches are distributed among these distances:
16 9 0.21
17 5 0.12
19 1 0.02
20 4 0.09
21 17 0.40
22 2 0.05
23 5 0.12
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (21 bp):
TTTAAAATATATAAAAATAAA
Found at i:10825788 original size:12 final size:12
Alignment explanation
Indices: 10825770--10825830 Score: 61
Period size: 12 Copynumber: 4.9 Consensus size: 12
10825760 TTTTTAAAAT
10825770 ATATAAAAATAA
1 ATATAAAAATAA
* *
10825782 ATTTAAAATATTA
1 ATATAAAA-ATAA
*
10825795 AGA-AATAAATAA
1 ATATAA-AAATAA
10825807 ATATAAAAATAA
1 ATATAAAAATAA
10825819 ATATATAAAATA
1 ATATA-AAAATA
10825831 CATAATTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
12 25 0.64
13 14 0.36
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (12 bp):
ATATAAAAATAA
Found at i:10826032 original size:11 final size:12
Alignment explanation
Indices: 10826013--10826058 Score: 53
Period size: 11 Copynumber: 4.0 Consensus size: 12
10826003 GTTTGATTGT
10826013 TTAATAATTATA
1 TTAATAATTATA
*
10826025 TT-ATAATT-TG
1 TTAATAATTATA
10826035 TTAATTAATTAT-
1 TTAA-TAATTATA
10826047 TTAATAATTATA
1 TTAATAATTATA
10826059 ATTTTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
10 3 0.10
11 14 0.48
12 11 0.38
13 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (12 bp):
TTAATAATTATA
Found at i:10826043 original size:23 final size:22
Alignment explanation
Indices: 10826013--10826055 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
10826003 GTTTGATTGT
10826013 TTAATAATTATATT-ATAATTTG
1 TTAATAATTAT-TTAATAATTTG
10826035 TTAATTAATTATTTAATAATT
1 TTAA-TAATTATTTAATAATT
10826056 ATAATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATAATTATTTAATAATTTG
Found at i:10826052 original size:34 final size:34
Alignment explanation
Indices: 10826012--10826080 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
10826002 GGTTTGATTG
*
10826012 TTTAATAATTAT-ATTATAATTTGTTAATTAATTA
1 TTTAATAATTATAATTATAATAT-TTAATTAATTA
*
10826046 TTTAATAATTATAATTTTAATATTTAATTAATTA
1 TTTAATAATTATAATTATAATATTTAATTAATTA
10826080 T
1 T
10826081 ATGAAAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 24 0.75
35 8 0.25
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (34 bp):
TTTAATAATTATAATTATAATATTTAATTAATTA
Found at i:10826054 original size:15 final size:16
Alignment explanation
Indices: 10826012--10826075 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 16
10826002 GGTTTGATTG
10826012 TTTAATAATTATATTAT
1 TTTAATAATTA-ATTAT
**
10826029 AATTTGTTAATTAATTA-
1 --TTTAATAATTAATTAT
*
10826046 TTTAATAATT-ATAAT
1 TTTAATAATTAATTAT
*
10826061 TTTAATATTTAATTA
1 TTTAATAATTAATTA
10826076 ATTATATGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
14 3 0.08
15 17 0.47
16 3 0.08
18 4 0.11
19 9 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTAATAATTAATTAT
Found at i:10827704 original size:11 final size:11
Alignment explanation
Indices: 10827678--10827712 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
10827668 AATAATGTTG
10827678 TTTTTATATTA
1 TTTTTATATTA
10827689 TTTTTCATATTA
1 TTTTT-ATATTA
10827701 TTTTTATATTA
1 TTTTTATATTA
10827712 T
1 T
10827713 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:10829489 original size:19 final size:20
Alignment explanation
Indices: 10829467--10829544 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 20
10829457 TTATTAAAAC
10829467 AATATTATAAAATTAT-TTT
1 AATATTATAAAATTATATTT
* * *
10829486 AATAATATTAACTTAATATTAT
1 AATATTATAAAATT-ATATT-T
* *
10829508 AATATTGTTAAAATAATATTT
1 AATATT-ATAAAATTATATTT
10829529 AATATTA-AAATATTAT
1 AATATTATAAA-ATTAT
10829545 TAACTTAATA
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
19 14 0.32
20 6 0.14
21 9 0.20
22 11 0.25
23 4 0.09
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (20 bp):
AATATTATAAAATTATATTT
Found at i:10829540 original size:29 final size:29
Alignment explanation
Indices: 10829437--10829613 Score: 123
Period size: 29 Copynumber: 6.2 Consensus size: 29
10829427 ATATTCTTAC
* *
10829437 ATAATGTTTAATA-TAAATTATTATTAAA
1 ATAATATTTAATATTAAAATATTATTAAA
* *
10829465 ACAATA-TT-ATA--AAATTATT-TTAATA
1 ATAATATTTAATATTAAAATATTATTAA-A
* * * *
10829490 ATATTAACTTAATATTATAATATTGTTAAA
1 ATAAT-ATTTAATATTAAAATATTATTAAA
*
10829520 ATAATATTTAATATTAAAATATTATTAAC
1 ATAATATTTAATATTAAAATATTATTAAA
* ** * *
10829549 TTAATATAAAATTTTAAAAAATTATTAAA
1 ATAATATTTAATATTAAAATATTATTAAA
* * * *
10829578 AGTAATATTCAATATTTAAATAATATAAAA
1 A-TAATATTTAATATTAAAATATTATTAAA
10829608 ATAATA
1 ATAATA
10829614 ATAAAATATG
Statistics
Matches: 116, Mismatches: 25, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
24 4 0.03
25 12 0.10
26 4 0.03
27 4 0.03
28 7 0.06
29 48 0.41
30 33 0.28
31 4 0.03
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
ATAATATTTAATATTAAAATATTATTAAA
Found at i:10829547 original size:11 final size:11
Alignment explanation
Indices: 10829445--10829621 Score: 69
Period size: 11 Copynumber: 17.2 Consensus size: 11
10829435 ACATAATGTT
*
10829445 TAATA-TAAAT
1 TAATATTAAAA
*
10829455 TATTATTAAAA
1 TAATATTAAAA
*
10829466 CAATATTATAAA
1 TAATATTA-AAA
* **
10829478 -ATTATTTTAA
1 TAATATTAAAA
**
10829488 TAATATTAACT
1 TAATATTAAAA
*
10829499 TAATATTATAA
1 TAATATTAAAA
* *
10829510 TATTGTTAAAA
1 TAATATTAAAA
10829521 TAATATT----
1 TAATATTAAAA
10829528 TAATATTAAAA
1 TAATATTAAAA
* **
10829539 TATTATTAACT
1 TAATATTAAAA
10829550 TAATA-TAAAA
1 TAATATTAAAA
10829560 T--T-TTAAAA
1 TAATATTAAAA
10829568 -AATTATTAAAA
1 TAA-TATTAAAA
*
10829579 GTAATATT-CAA
1 -TAATATTAAAA
10829590 T-AT-TT-AAA
1 TAATATTAAAA
*
10829598 TAATATAAAAA
1 TAATATTAAAA
*
10829609 TAATAATAAAA
1 TAATATTAAAA
10829620 TA
1 TA
10829622 TGCTAGCATT
Statistics
Matches: 119, Mismatches: 31, Indels: 33
0.65 0.17 0.18
Matches are distributed among these distances:
7 7 0.06
8 11 0.09
9 4 0.03
10 13 0.11
11 75 0.63
12 7 0.06
13 2 0.02
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:10829814 original size:34 final size:31
Alignment explanation
Indices: 10829742--10830004 Score: 83
Period size: 30 Copynumber: 8.4 Consensus size: 31
10829732 GTAGTTGGTG
10829742 TAAAATATATGAAAATATTATTTAAATAATAT
1 TAAAATATA-GAAAATATTATTTAAATAATAT
**
10829774 CCAAATATA-AAAATATTAATTTAATATTTAATAT
1 TAAAATATAGAAAATATT-ATTTAA-A--TAATAT
** * * *
10829808 TAAAATAAAATTTAAAATGTT-GTAAAATTAAT-T
1 TAAAAT---ATAGAAAATATTATTTAAA-TAATAT
* * *
10829841 T-AAATAATATTACAA-ATTA-TTACATTAATAT
1 TAAAAT-ATA-GAAAATATTATTTA-AATAATAT
* *
10829872 T-TAATAT-GAAAATATTATTAAAATAATAT
1 TAAAATATAGAAAATATTATTTAAATAATAT
*
10829901 T-AAATAT--TAAATATT-TTTAAATTAATAT
1 TAAAATATAGAAAATATTATTTAAA-TAATAT
* * *
10829929 T-TAATAT-TAAAATATTATTAAAATTAATATT
1 TAAAATATAGAAAATATTATTTAAA-TAATA-T
*
10829960 TAATAATCAATATG-AAATATTATTGAAATAATAT
1 TAA-AAT--ATA-GAAAATATTATTTAAATAATAT
10829994 T-AAATAT-GAAA
1 TAAAATATAGAAA
10830005 TTAACATTTA
Statistics
Matches: 179, Mismatches: 27, Indels: 53
0.69 0.10 0.20
Matches are distributed among these distances:
27 5 0.03
28 23 0.13
29 26 0.15
30 36 0.20
31 18 0.10
32 15 0.08
33 6 0.03
34 17 0.09
35 8 0.04
36 16 0.09
37 2 0.01
38 7 0.04
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (31 bp):
TAAAATATAGAAAATATTATTTAAATAATAT
Found at i:10829890 original size:29 final size:28
Alignment explanation
Indices: 10829856--10829964 Score: 146
Period size: 29 Copynumber: 3.8 Consensus size: 28
10829846 AATATTACAA
*
10829856 ATTATTACATTAATATTTAATATGAAAAT
1 ATTATTAAATTAATATTTAATAT-AAAAT
* * *
10829885 ATTATTAAAATAATATTAAATATTAAAT
1 ATTATTAAATTAATATTTAATATAAAAT
*
10829913 ATTTTTAAATTAATATTTAATATTAAAAT
1 ATTATTAAATTAATATTTAATA-TAAAAT
10829942 ATTATTAAAATTAATATTTAATA
1 ATTATT-AAATTAATATTTAATA
10829965 ATCAATATGA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 23 0.33
29 30 0.43
30 16 0.23
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
ATTATTAAATTAATATTTAATATAAAAT
Found at i:10829926 original size:57 final size:58
Alignment explanation
Indices: 10829846--10829964 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 58
10829836 TAATTTAAAT
*
10829846 AATATTACAAATTATTACATTAATATTTAATATGAAAATATTATTAAAA-TAATATTA
1 AATATTACAAATTATTAAATTAATATTTAATATGAAAATATTATTAAAATTAATATTA
* * *
10829903 AATATTA-AATATTTTTAAATTAATATTTAATATTAAAATATTATTAAAATTAATATTT
1 AATATTACAA-ATTATTAAATTAATATTTAATATGAAAATATTATTAAAATTAATATTA
10829961 AATA
1 AATA
10829965 ATCAATATGA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.04
57 43 0.77
58 11 0.20
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (58 bp):
AATATTACAAATTATTAAATTAATATTTAATATGAAAATATTATTAAAATTAATATTA
Found at i:10829927 original size:21 final size:21
Alignment explanation
Indices: 10829903--10830198 Score: 63
Period size: 21 Copynumber: 14.4 Consensus size: 21
10829893 AATAATATTA
10829903 AATATTAAATATTTTTAAATT
1 AATATTAAATATTTTTAAATT
* *
10829924 AATATTTAATA---TTAAAAT
1 AATATTAAATATTTTTAAATT
* * *
10829942 ATTATTAAAATTAATATTTAATAATC
1 AATATT-AAA-T-AT-TTTTA-AATT
* *
10829968 AATATGAAATATTATTGAAA-T
1 AATATTAAATATT-TTTAAATT
*
10829989 AATATTAAATA---TGAAATT
1 AATATTAAATATTTTTAAATT
* * *
10830007 AACATTTAAT-TTTGTTCAA-T
1 AATATTAAATATTT-TTAAATT
* *
10830027 AGTACTT-AAT-TTTATCAAA-T
1 AATA-TTAAATATTT-TTAAATT
* *
10830047 AATATT-AATAATATTAAA-T
1 AATATTAAATATTTTTAAATT
* * *
10830066 AATAATTGAATAATATTAAATT
1 AAT-ATTAAATATTTTTAAATT
* **
10830088 AATATTGAATATTACTAAATT
1 AATATTAAATATTTTTAAATT
* * *
10830109 ACTA-TAGAATATTATTAATTT
1 AATATTA-AATATTTTTAAATT
*
10830130 AATATTAAATATTATT-AATT
1 AATATTAAATATTTTTAAATT
* **
10830150 AA-ATTTAATAAGATTT-AATT
1 AATATTAAAT-ATTTTTAAATT
* * *
10830170 AATATTTAAT-TTTATGAAAAT
1 AATATTAAATATTT-TTAAATT
10830191 AATATTAA
1 AATATTAA
10830199 TTAAAATATT
Statistics
Matches: 208, Mismatches: 42, Indels: 50
0.69 0.14 0.17
Matches are distributed among these distances:
17 5 0.02
18 20 0.10
19 22 0.11
20 37 0.18
21 98 0.47
22 9 0.04
23 5 0.02
24 1 0.00
25 5 0.02
26 6 0.03
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.45
Consensus pattern (21 bp):
AATATTAAATATTTTTAAATT
Found at i:10829949 original size:11 final size:11
Alignment explanation
Indices: 10829930--10829997 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
10829920 AATTAATATT
10829930 TAATATTAAAA
1 TAATATTAAAA
*
10829941 TATTATTAAAA
1 TAATATTAAAA
10829952 TTAATATTTAATAA
1 -TAATA-TTAA-AA
*
10829966 TCAATA-TGAAA
1 T-AATATTAAAA
* *
10829977 TATTATTGAAA
1 TAATATTAAAA
10829988 TAATATTAAA
1 TAATATTAAA
10829998 TATGAAATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
10 3 0.07
11 26 0.57
12 6 0.13
13 5 0.11
14 6 0.13
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:10829972 original size:29 final size:30
Alignment explanation
Indices: 10829830--10829966 Score: 135
Period size: 30 Copynumber: 4.7 Consensus size: 30
10829820 TAAAATGTTG
*
10829830 TAAAATTAAT-TTAAATAATATTACAA-ATTAT
1 TAAAATTAATATTTAATAATA--A-AATATTAT
*
10829861 T-ACATTAATATTTAAT-ATGAAAATATTAT
1 TAAAATTAATATTTAATAAT-AAAATATTAT
* *
10829890 TAAAA-TAATATTAAAT-ATTAAATATT-T
1 TAAAATTAATATTTAATAATAAAATATTAT
* *
10829917 TTAAATTAATATTTAATATTAAAATATTAT
1 TAAAATTAATATTTAATAATAAAATATTAT
10829947 TAAAATTAATATTTAATAAT
1 TAAAATTAATATTTAATAAT
10829967 CAATATGAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
27 5 0.06
28 19 0.22
29 27 0.31
30 30 0.34
31 7 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (30 bp):
TAAAATTAATATTTAATAATAAAATATTAT
Found at i:10829979 original size:44 final size:46
Alignment explanation
Indices: 10829887--10830005 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 46
10829877 ATGAAAATAT
* * **
10829887 TATTAAAATAATATTAAATATTAAATATTTTTAAATTAATATTTAA
1 TATTAAAATAATATTAAATATTAAATATTTATAAATCAATATGAAA
*
10829933 TATTAAAATATTATTAAA-ATT-AATATTTA-ATAATCAATATGAAA
1 TATTAAAATAATATTAAATATTAAATATTTATA-AATCAATATGAAA
*
10829977 TATTATTGAAATAATATTAAATATGAAAT
1 TATTA---AAATAATATTAAATATTAAAT
10830006 TAACATTTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.02
44 22 0.37
45 3 0.05
46 17 0.28
47 12 0.20
48 2 0.03
49 3 0.05
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (46 bp):
TATTAAAATAATATTAAATATTAAATATTTATAAATCAATATGAAA
Found at i:10829983 original size:93 final size:94
Alignment explanation
Indices: 10829835--10830005 Score: 240
Period size: 93 Copynumber: 1.8 Consensus size: 94
10829825 TGTTGTAAAA
* * *
10829835 TTAATTTAAATAATATTACAAATTATTACATTAATATTTAATATGAAAATATTATTAAAATAATA
1 TTAATTTAAATAATATTACAAATTAATACATTAATAATCAATATGAAAATATTATTAAAATAATA
*
10829900 TTAAATATTAAATATTTTTAAATTAATAT
66 TTAAATATGAAATATTTTTAAATTAATAT
* * *
10829929 TTAATATTAAAATATTATTA-AAATTAATA-TTTAATAATCAATATG-AAATATTATTGAAATAA
1 TTAAT-TT-AAATAATATTACAAATTAATACATTAATAATCAATATGAAAATATTATTAAAATAA
10829991 TATTAAATATGAAAT
64 TATTAAATATGAAAT
10830006 TAACATTTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
93 30 0.44
94 18 0.26
95 10 0.15
96 10 0.15
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (94 bp):
TTAATTTAAATAATATTACAAATTAATACATTAATAATCAATATGAAAATATTATTAAAATAATA
TTAAATATGAAATATTTTTAAATTAATAT
Found at i:10830054 original size:19 final size:19
Alignment explanation
Indices: 10830039--10830098 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
10830029 TACTTAATTT
10830039 TATCAAATAATATTAATAA
1 TATCAAATAATATTAATAA
*
10830058 TATTAAATAATAATTGAATAA
1 TATCAAATAAT-ATT-AATAA
*
10830079 TATTAAATTAATATTGAATA
1 TATCAAA-TAATATT-AATA
10830099 TTACTAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 10 0.27
20 3 0.08
21 20 0.54
22 4 0.11
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (19 bp):
TATCAAATAATATTAATAA
Found at i:10830079 original size:11 final size:10
Alignment explanation
Indices: 10830043--10830198 Score: 84
Period size: 11 Copynumber: 15.2 Consensus size: 10
10830033 TAATTTTATC
10830043 AAATAATATT
1 AAATAATATT
10830053 -AATAATATT
1 AAATAATATT
10830062 AAATAATAATT
1 AAATAAT-ATT
*
10830073 GAATAATATT
1 AAATAATATT
10830083 AAATTAATATT
1 AAA-TAATATT
* * *
10830094 GAATATTACT
1 AAATAATATT
*
10830104 AAATTACTA-T
1 AAA-TAATATT
*
10830114 AGAATATTATT
1 A-AATAATATT
*
10830125 AATTTAATATT
1 AA-ATAATATT
*
10830136 AAATATTATT
1 AAATAATATT
*
10830146 AATTAA-ATT
1 AAATAATATT
* *
10830155 TAATAAGATTT
1 AAATAATA-TT
*
10830166 AATTAATATT
1 AAATAATATT
* ** *
10830176 TAATTTTATGA
1 AAATAATAT-T
10830187 AAATAATATT
1 AAATAATATT
10830197 AA
1 AA
10830199 TTAAAATATT
Statistics
Matches: 108, Mismatches: 28, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
9 16 0.15
10 45 0.42
11 47 0.44
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (10 bp):
AAATAATATT
Found at i:10830223 original size:25 final size:28
Alignment explanation
Indices: 10830193--10830247 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 28
10830183 ATGAAAATAA
*
10830193 TATTAATTAAAATA-TTAA-TATT-TAG
1 TATTAAGTAAAATATTTAATTATTATAG
*
10830218 TATTAAGTAATATATTTAATTATTATAG
1 TATTAAGTAAAATATTTAATTATTATAG
10830246 TA
1 TA
10830248 AATTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.48
26 4 0.16
27 4 0.16
28 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (28 bp):
TATTAAGTAAAATATTTAATTATTATAG
Found at i:10835558 original size:14 final size:15
Alignment explanation
Indices: 10835531--10835560 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10835521 AATTTCAAAA
10835531 CCCAAATCTCAAACC
1 CCCAAATCTCAAACC
10835546 CCCAAATC-CAAACC
1 CCCAAATCTCAAACC
10835560 C
1 C
10835561 TGAACCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.50, G:0.00, T:0.10
Consensus pattern (15 bp):
CCCAAATCTCAAACC
Found at i:10835627 original size:12 final size:12
Alignment explanation
Indices: 10835553--10835627 Score: 62
Period size: 12 Copynumber: 6.0 Consensus size: 12
10835543 ACCCCCAAAT
*
10835553 CCAAACCCTGAA
1 CCAAACCCTAAA
*
10835565 CCAAATCC-AAGA
1 CCAAACCCTAA-A
*
10835577 CTCTAAACCCCAAA
1 C-C-AAACCCTAAA
*
10835591 CCAAACCCAAAA
1 CCAAACCCTAAA
*
10835603 CCAAAACCTTAAA
1 CC-AAACCCTAAA
10835616 CCAAACCCTAAA
1 CCAAACCCTAAA
10835628 ATCTAAATAG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
11 1 0.02
12 29 0.57
13 12 0.24
14 7 0.14
15 2 0.04
ACGTcount: A:0.49, C:0.39, G:0.03, T:0.09
Consensus pattern (12 bp):
CCAAACCCTAAA
Found at i:10835745 original size:26 final size:26
Alignment explanation
Indices: 10835704--10835786 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
10835694 CTTAAACTAT
* * *
10835704 CCTAAACTAAATCTTAAATCCCAAGC
1 CCTAAACTAAACCTTAAAACCCAAAC
* *
10835730 CCTAAACTACACCTTAAAACCTAAAC
1 CCTAAACTAAACCTTAAAACCCAAAC
*
10835756 CCTAAACCTAAA-C--AAAACTCAAAC
1 CCTAAA-CTAAACCTTAAAACCCAAAC
10835780 CCTAAAC
1 CCTAAAC
10835787 CCCAAACCTA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
23 1 0.02
24 15 0.31
26 28 0.58
27 4 0.08
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (26 bp):
CCTAAACTAAACCTTAAAACCCAAAC
Found at i:10835759 original size:7 final size:7
Alignment explanation
Indices: 10835744--10835855 Score: 64
Period size: 7 Copynumber: 17.4 Consensus size: 7
10835734 AACTACACCT
*
10835744 TAAAACC
1 TAAACCC
10835751 TAAACCC
1 TAAACCC
10835758 TAAA-CC
1 TAAACCC
10835764 TAAA--C
1 TAAACCC
* *
10835769 AAAACTC
1 TAAACCC
10835776 -AAACCC
1 TAAACCC
10835782 TAAACCC
1 TAAACCC
*
10835789 CAAA-CC
1 TAAACCC
*
10835795 TAAAACC
1 TAAACCC
**
10835802 TAGTCCC
1 TAAACCC
10835809 TAAA-CC
1 TAAACCC
**
10835815 TAAATTC
1 TAAACCC
10835822 TAAACCC
1 TAAACCC
10835829 T-AA-CC
1 TAAACCC
*
10835834 TAAACCT
1 TAAACCC
10835841 TAAA--C
1 TAAACCC
10835846 TAAACCC
1 TAAACCC
10835853 TAA
1 TAA
10835856 GAACCCCATG
Statistics
Matches: 81, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
5 11 0.14
6 26 0.32
7 44 0.54
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:10835762 original size:13 final size:13
Alignment explanation
Indices: 10835746--10835855 Score: 73
Period size: 13 Copynumber: 8.2 Consensus size: 13
10835736 CTACACCTTA
10835746 AAACCTAAACCCT
1 AAACCTAAACCCT
*
10835759 AAACCTAAACAAAACT
1 AAACCTAAAC---CCT
*
10835775 CAAACCCTAAACCCC
1 -AAA-CCTAAACCCT
*
10835790 AAACCTAAAACCT
1 AAACCTAAACCCT
**
10835803 AGTCCCTAAA-CCT
1 A-AACCTAAACCCT
*
10835816 AAATTCTAAACCCT
1 AAA-CCTAAACCCT
*
10835830 -AACCTAAACCTT
1 AAACCTAAACCCT
10835842 AAA-CTAAACCCT
1 AAACCTAAACCCT
10835854 AA
1 AA
10835856 GAACCCCATG
Statistics
Matches: 75, Mismatches: 13, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
12 18 0.24
13 32 0.43
14 12 0.16
15 1 0.01
16 2 0.03
17 3 0.04
18 7 0.09
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.17
Consensus pattern (13 bp):
AAACCTAAACCCT
Found at i:10835803 original size:20 final size:20
Alignment explanation
Indices: 10835780--10835837 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
10835770 AAACTCAAAC
10835780 CCTAAACCCCAAACCTAAAA
1 CCTAAACCCCAAACCTAAAA
** * *
10835800 CCTAGTCCCTAAACCTAAAT
1 CCTAAACCCCAAACCTAAAA
* *
10835820 TCTAAA-CCCTAACCTAAA
1 CCTAAACCCCAAACCTAAA
10835838 CCTTAAACTA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.43, C:0.36, G:0.02, T:0.19
Consensus pattern (20 bp):
CCTAAACCCCAAACCTAAAA
Found at i:10835838 original size:12 final size:12
Alignment explanation
Indices: 10835808--10835855 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
10835798 AACCTAGTCC
10835808 CTAAA-CCTAAA
1 CTAAACCCTAAA
*
10835819 TTCTAAACCCTAAC
1 --CTAAACCCTAAA
*
10835833 CTAAACCTTAAA
1 CTAAACCCTAAA
10835845 CTAAACCCTAA
1 CTAAACCCTAA
10835856 GAACCCCATG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 20 0.67
13 5 0.17
14 5 0.17
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (12 bp):
CTAAACCCTAAA
Found at i:10835915 original size:19 final size:19
Alignment explanation
Indices: 10835868--10835920 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
10835858 ACCCCATGCT
* *
10835868 AATCCCAAAACCTAAACTA
1 AATCCCAAACCCTAAACCA
* * *
10835887 AATACTAAACCCTAAACCC
1 AATCCCAAACCCTAAACCA
10835906 AATCCCAAACCCTAA
1 AATCCCAAACCCTAA
10835921 TTTAGACCCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (19 bp):
AATCCCAAACCCTAAACCA
Found at i:10836472 original size:23 final size:25
Alignment explanation
Indices: 10836428--10836478 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
10836418 AAGAAAAGAA
*
10836428 AAAAAATTCAAATTTTGGAATA-AAT
1 AAAAAATT-AAATTTTGAAATATAAT
*
10836453 AAAAAATT-AATTTTTAAATATAAT
1 AAAAAATTAAATTTTGAAATATAAT
10836477 AA
1 AA
10836479 GACAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 10 0.43
24 5 0.22
25 8 0.35
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAAAATTAAATTTTGAAATATAAT
Found at i:10837613 original size:9 final size:9
Alignment explanation
Indices: 10837591--10837664 Score: 84
Period size: 8 Copynumber: 8.6 Consensus size: 9
10837581 ATGCTTGAAG
*
10837591 GAAAAAGAAA
1 GAAAAA-AAT
10837601 GAAAAAAAT
1 GAAAAAAAT
10837610 G-AAAAAAT
1 GAAAAAAAT
10837618 G-AAAAAAT
1 GAAAAAAAT
10837626 GAAAAAAA-
1 GAAAAAAAT
10837634 GAAAAAAA-
1 GAAAAAAAT
*
10837642 GAAAAAAAA
1 GAAAAAAAT
*
10837651 GAGAAAAAT
1 GAAAAAAAT
10837660 GAAAA
1 GAAAA
10837665 GTGGAAAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
8 32 0.55
9 20 0.34
10 6 0.10
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:10838906 original size:41 final size:41
Alignment explanation
Indices: 10838638--10838904 Score: 371
Period size: 41 Copynumber: 6.6 Consensus size: 41
10838628 ACACGATTTA
*
10838638 TGGTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTTG
1 TGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTG
* *
10838679 TGGTGCCTCTGTTTAAAGGAGC-ATTT-TTTTTCAAAGTTA
1 TGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTG
* *
10838718 TGGT-CCTTTGTTTAGATGAGCAATTTATTTTTTCAAAGTTG
1 TGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTTG
* *
10838759 TGGTACCTCTGTTTAGAAGAGC-ATTTATATTTTCAAAGTTG
1 TGGTGCCTCTGTTTAGAGGAGCAATTTAT-TTTTCAAAGTTG
* *
10838800 TGGTGCCTCTGTTTAGAGGAACAATTTATTTTTCAAAGTTA
1 TGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTG
*
10838841 TGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGTTG
1 TGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTG
* * *
10838882 TGGTACCTCTATTTAAAGGAGCA
1 TGGTGCCTCTGTTTAGAGGAGCA
10838905 TTCATATTTT
Statistics
Matches: 201, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
38 14 0.07
39 20 0.10
40 5 0.02
41 141 0.70
42 21 0.10
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.42
Consensus pattern (41 bp):
TGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTG
Found at i:10838947 original size:45 final size:41
Alignment explanation
Indices: 10838643--10838947 Score: 249
Period size: 41 Copynumber: 7.4 Consensus size: 41
10838633 ATTTATGGTG
* * * **
10838643 CCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTG
1 CCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGTCGTGGAA
* ** *
10838684 CCTCTGTTTAAAGGAGCA-TTT-TTTTTCAAAGTTATGG-T
1 CCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGTCGTGGAA
* * * * *
10838722 CCTTTGTTTAGATGAGCAATTTATTTTTTCAAAGTTGTGGTA
1 CCTCTGTTTAGAGGAGCATTTTA-TTTTTCAAAGTCGTGGAA
* * **
10838764 CCTCTGTTTAGAAGAGCA-TTTATATTTTCAAAGTTGTGGTG
1 CCTCTGTTTAGAGGAGCATTTTAT-TTTTCAAAGTCGTGGAA
* * ** **
10838805 CCTCTGTTTAGAGGAACAATTTATTTTTCAAAGTTATGGTG
1 CCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGTCGTGGAA
* *
10838846 CCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTA
1 CCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGTCGTGGAA
* * * *
10838887 CCTCTATTTAAAGGAGCATTCATATTTTTTCTCAAAGTCGTTGAA
1 CCTCTGTTTAGAGGAGCATT--T-TATTTT-TCAAAGTCGTGGAA
*
10838932 CTTCTGTTTAGAGGAG
1 CCTCTGTTTAGAGGAG
10838948 TTTTGTTTAA
Statistics
Matches: 226, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
38 15 0.07
39 18 0.08
40 4 0.02
41 138 0.61
42 21 0.09
43 1 0.00
44 5 0.02
45 24 0.11
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.43
Consensus pattern (41 bp):
CCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGTCGTGGAA
Found at i:10839977 original size:4 final size:4
Alignment explanation
Indices: 10839959--10840019 Score: 79
Period size: 4 Copynumber: 15.2 Consensus size: 4
10839949 CATTCTTTGG
* * *
10839959 TATT T-TT TGTT TATT TATT TATT TAATT TATT TGTT TATT TGTT TATT
1 TATT TATT TATT TATT TATT TATT T-ATT TATT TATT TATT TATT TATT
10840007 TATT TATT TATT T
1 TATT TATT TATT T
10840020 TATTATTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
3 3 0.06
4 43 0.86
5 4 0.08
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:10840025 original size:8 final size:9
Alignment explanation
Indices: 10839968--10840028 Score: 60
Period size: 8 Copynumber: 7.3 Consensus size: 9
10839958 GTATTTTTTG
10839968 TTTATTTA-
1 TTTATTTAT
*
10839976 TTTATTTAA
1 TTTATTTAT
*
10839985 TTTATTT-G
1 TTTATTTAT
*
10839993 TTTATTT-G
1 TTTATTTAT
10840001 TTTATTTA-
1 TTTATTTAT
10840009 TTTATTTAT
1 TTTATTTAT
10840018 TTTA-TTAT
1 TTTATTTAT
10840026 TTT
1 TTT
10840029 TGCATGATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
8 38 0.78
9 11 0.22
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.75
Consensus pattern (9 bp):
TTTATTTAT
Found at i:10840025 original size:12 final size:13
Alignment explanation
Indices: 10839968--10840027 Score: 72
Period size: 12 Copynumber: 4.8 Consensus size: 13
10839958 GTATTTTTTG
10839968 TTTATTTATTTAT
1 TTTATTTATTTAT
* *
10839981 TTAATTTATTT-G
1 TTTATTTATTTAT
*
10839993 TTTATTTGTTTA-
1 TTTATTTATTTAT
10840005 TTTATTTATTTAT
1 TTTATTTATTTAT
10840018 TTTA-TTATTT
1 TTTATTTATTT
10840028 TTGCATGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
12 26 0.65
13 14 0.35
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:10840247 original size:22 final size:22
Alignment explanation
Indices: 10840222--10840263 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10840212 TTTTCAAACA
*
10840222 AAAAAATGAAAACATAAAATAT
1 AAAAAATAAAAACATAAAATAT
* *
10840244 AAAACATAAAAATATAAAAT
1 AAAAAATAAAAACATAAAAT
10840264 TTTGAAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAAAATAAAAACATAAAATAT
Found at i:10840255 original size:15 final size:15
Alignment explanation
Indices: 10840217--10840262 Score: 62
Period size: 14 Copynumber: 3.2 Consensus size: 15
10840207 GTTTATTTTC
10840217 AAACA-AAAAA-ATGA
1 AAACATAAAAATAT-A
10840231 AAACAT-AAAATATA
1 AAACATAAAAATATA
10840245 AAACATAAAAATATA
1 AAACATAAAAATATA
10840260 AAA
1 AAA
10840263 TTTTGAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (15 bp):
AAACATAAAAATATA
Found at i:10840678 original size:53 final size:52
Alignment explanation
Indices: 10840611--10840728 Score: 155
Period size: 53 Copynumber: 2.2 Consensus size: 52
10840601 AAAAGAAATA
* * * * *
10840611 AAAAAATTTCTAAATAGGCCCAAATGGTGGAAATTTTAGAAATTGTAAAAAAG
1 AAAATATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATT-CAAAAAAG
* **
10840664 AAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATTCAAAGGAG
1 AAAATATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTCAAAAAAG
10840716 AAAATATTTCTAA
1 AAAATATTTCTAA
10840729 TTTAGCCCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 18 0.32
53 39 0.68
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.28
Consensus pattern (52 bp):
AAAATATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTCAAAAAAG
Found at i:10842910 original size:18 final size:18
Alignment explanation
Indices: 10842889--10842924 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10842879 CCATCTTACC
10842889 CTTTTCATATTTCTTGTT
1 CTTTTCATATTTCTTGTT
10842907 CTTTTCATATTTCTTGTT
1 CTTTTCATATTTCTTGTT
10842925 TTCTCTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.06, T:0.67
Consensus pattern (18 bp):
CTTTTCATATTTCTTGTT
Found at i:10843978 original size:17 final size:17
Alignment explanation
Indices: 10843950--10843992 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10843940 ACAAGAAAGA
* *
10843950 AAAAACCTAAGCTACCT
1 AAAAACCCAAGCTACCC
*
10843967 AGAAACCCAAGCTACCC
1 AAAAACCCAAGCTACCC
10843984 AAAAACCCA
1 AAAAACCCA
10843993 TTTGGCTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.49, C:0.35, G:0.07, T:0.09
Consensus pattern (17 bp):
AAAAACCCAAGCTACCC
Found at i:10844829 original size:7 final size:7
Alignment explanation
Indices: 10844812--10844848 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
10844802 TTTTTGCTAA
10844812 ATTTCTTT
1 ATTT-TTT
10844820 ATTTTTT
1 ATTTTTT
10844827 ATTTTTT
1 ATTTTTT
10844834 ATTTTTT
1 ATTTTTT
10844841 ATTTTTT
1 ATTTTTT
10844848 A
1 A
10844849 AAATTATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 25 0.86
8 4 0.14
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (7 bp):
ATTTTTT
Found at i:10844988 original size:20 final size:21
Alignment explanation
Indices: 10844965--10845020 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
10844955 TATGAAAAAT
10844965 ATAAAAAAATG-TAAATAATA
1 ATAAAAAAATGATAAATAATA
*
10844985 AT-AAAATATGATAAATAATA
1 ATAAAAAAATGATAAATAATA
*
10845005 ATATAAAAAATAATAA
1 ATA-AAAAAATGATAA
10845021 TAAGAATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 7 0.23
20 13 0.43
22 10 0.33
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.27
Consensus pattern (21 bp):
ATAAAAAAATGATAAATAATA
Found at i:10845015 original size:15 final size:15
Alignment explanation
Indices: 10844984--10845022 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10844974 TGTAAATAAT
* *
10844984 AATAA-AATATGATA
1 AATAATAATATAAAA
10844998 AATAATAATATAAAA
1 AATAATAATATAAAA
10845013 AATAATAATA
1 AATAATAATA
10845023 AGAATGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AATAATAATATAAAA
Found at i:10845182 original size:17 final size:18
Alignment explanation
Indices: 10845162--10845198 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
10845152 AGTTTTTCAT
10845162 AATAAAAAAAGAA-AATA
1 AATAAAAAAAGAATAATA
*
10845179 AATAAAAATAGAATAATA
1 AATAAAAAAAGAATAATA
10845197 AA
1 AA
10845199 AAGATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (18 bp):
AATAAAAAAAGAATAATA
Found at i:10845193 original size:15 final size:14
Alignment explanation
Indices: 10845162--10845213 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
10845152 AGTTTTTCAT
10845162 AATAAA-AAAAGAA-
1 AATAAATAAAA-AAG
10845175 AATAAATAAAAATAG
1 AATAAATAAAAA-AG
10845190 AAT-AAT-AAAAAG
1 AATAAATAAAAAAG
10845202 -ATAAATAAAAAA
1 AATAAATAAAAAA
10845214 TATGAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 16 0.47
14 8 0.24
15 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (14 bp):
AATAAATAAAAAAG
Found at i:10853068 original size:22 final size:21
Alignment explanation
Indices: 10853043--10853084 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10853033 CTAGTGAGCA
*
10853043 TTTGCATAAATTTATTTACATC
1 TTTGCAT-AATGTATTTACATC
*
10853065 TTTGTATAATGTATTTACAT
1 TTTGCATAATGTATTTACAT
10853085 TTGTATCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (21 bp):
TTTGCATAATGTATTTACATC
Found at i:10853433 original size:33 final size:33
Alignment explanation
Indices: 10853392--10853454 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
10853382 AAAAAAAAAC
*
10853392 TTAAAAACCTCCAAGCCTCAAGATGAGAAAATT
1 TTAAAAACCTCCAAGCATCAAGATGAGAAAATT
10853425 TTAAAAACCTCCAAGCATCAAGATGAGAAA
1 TTAAAAACCTCCAAGCATCAAGATGAGAAA
10853455 TATTATCCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.19
Consensus pattern (33 bp):
TTAAAAACCTCCAAGCATCAAGATGAGAAAATT
Found at i:10854204 original size:85 final size:85
Alignment explanation
Indices: 10854067--10854268 Score: 266
Period size: 85 Copynumber: 2.4 Consensus size: 85
10854057 TCAAGTGTCA
*** *
10854067 AGATTTGTAAGACCTCCAAGCATAGTCTCTAAGTCTTTTGGGCAAGAGTTGTAACTCTTTCAAG-
1 AGATTTGTAAGACCTCCAAGCATAGTCTCTAAGTCTTTCAAGCAAAAGTTGTAACTCTTTCAAGC
10854131 TAGAATCTATTTTAAGTGTTG
66 TA-AATCTATTTTAAGTGTTG
* * * * *
10854152 AGATTTGTAAGACTTCC-AGCTATAGTCTCTAAGTCTTTCAAGTAAAATTTGTAAGTCTTTCGAG
1 AGATTTGTAAGACCTCCAAGC-ATAGTCTCTAAGTCTTTCAAGCAAAAGTTGTAACTCTTTCAAG
10854216 CTAAATCTATTTTAAGTGTTG
65 CTAAATCTATTTTAAGTGTTG
*
10854237 AGATTTGTAATACCTCCGAA-CATAGTCTCTAA
1 AGATTTGTAAGACCTCC-AAGCATAGTCTCTAA
10854269 TTCCTCTGGG
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
84 3 0.03
85 95 0.93
86 3 0.03
87 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (85 bp):
AGATTTGTAAGACCTCCAAGCATAGTCTCTAAGTCTTTCAAGCAAAAGTTGTAACTCTTTCAAGC
TAAATCTATTTTAAGTGTTG
Found at i:10854295 original size:85 final size:83
Alignment explanation
Indices: 10854039--10854335 Score: 255
Period size: 85 Copynumber: 3.5 Consensus size: 83
10854029 TTTATAAGTT
* * * * ** *
10854039 TTTCGAGCTGAATTTGTTTCAAGTGTCAAGATTTGTAAGACCTCCAAGCATAGTCTCTAAGTCTT
1 TTTCGAGCTAAATCTATTTTAAGTGTTGAGATTTGTAAGACCTCCAA-CATAGTCTCTAAGTCCT
10854104 TTGGGCAAGAGTTGTAAC-TC
65 TTGGGCAAGA-TTGT-ACGTC
* * *
10854124 TTTCAAG-TAGAATCTATTTTAAGTGTTGAGATTTGTAAGACTTCCAGCTATAGTCTCTAAGT-C
1 TTTCGAGCTA-AATCTATTTTAAGTGTTGAGATTTGTAAGACCTCCAAC-ATAGTCTCTAAGTCC
** * * *
10854187 TTTCAAGTAAAATTTGTAAGTC
64 TTT-GGGCAAGA-TTGTACGTC
* *
10854209 TTTCGAGCTAAATCTATTTTAAGTGTTGAGATTTGTAATACCTCCGAACATAGTCTCTAATTCCT
1 TTTCGAGCTAAATCTATTTTAAGTGTTGAGATTTGTAAGACCTCC-AACATAGTCTCTAAGTCCT
* * *
10854274 CTGGGCACGATTCATACGTC
65 TTGGGCAAGATT-GTACGTC
* *
10854294 -TTCTGAGCTAAATGTTTTTTAA-TGTT-AGGATTTGTAAGACCT
1 TTTC-GAGCTAAATCTATTTTAAGTGTTGA-GATTTGTAAGACCT
10854336 TTGGAAAAGA
Statistics
Matches: 170, Mismatches: 32, Indels: 21
0.76 0.14 0.09
Matches are distributed among these distances:
83 1 0.01
84 28 0.16
85 134 0.79
86 7 0.04
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (83 bp):
TTTCGAGCTAAATCTATTTTAAGTGTTGAGATTTGTAAGACCTCCAACATAGTCTCTAAGTCCTT
TGGGCAAGATTGTACGTC
Found at i:10855008 original size:13 final size:13
Alignment explanation
Indices: 10854992--10855016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10854982 AAATAAAAAT
10854992 AAAACAAACAAAC
1 AAAACAAACAAAC
10855005 AAAACAAACAAA
1 AAAACAAACAAA
10855017 AAATTCATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAACAAAC
Found at i:10855555 original size:24 final size:25
Alignment explanation
Indices: 10855496--10855555 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
10855486 CAAAGATAAG
*
10855496 AAAACATACAAAAAAAAAACAATAGA
1 AAAACAT-TAAAAAAAAAACAATAGA
* *
10855522 AAACCATTAAAAAAAAAA-GATAGA
1 AAAACATTAAAAAAAAAACAATAGA
10855546 AGAAAC-TTAA
1 A-AAACATTAA
10855556 GCTACCTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 10 0.34
25 13 0.45
26 6 0.21
ACGTcount: A:0.72, C:0.10, G:0.07, T:0.12
Consensus pattern (25 bp):
AAAACATTAAAAAAAAAACAATAGA
Found at i:10856386 original size:13 final size:13
Alignment explanation
Indices: 10856370--10856394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10856360 TTTGGTAAAT
10856370 TTTTTATTTTTTA
1 TTTTTATTTTTTA
10856383 TTTTTATTTTTT
1 TTTTTATTTTTT
10856395 TAAAATTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:10856519 original size:3 final size:3
Alignment explanation
Indices: 10856513--10856576 Score: 66
Period size: 3 Copynumber: 22.7 Consensus size: 3
10856503 GAAAAAAATA
*
10856513 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT TAT AAAT AA- AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
*
10856557 AA- AAT AA- AA- AAT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
10856577 GAATGAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 10 0.19
3 41 0.77
4 2 0.04
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:10860739 original size:6 final size:6
Alignment explanation
Indices: 10860728--10860763 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
10860718 AATTGGTTTT
10860728 ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA AT-AAA A
1 ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA A
10860764 AATAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
ATGAAA
Found at i:10860764 original size:6 final size:6
Alignment explanation
Indices: 10860731--10860787 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
10860721 TGGTTTTATG
* * * * *
10860731 AAAATG AAAATG AAAATG AAAATG AAAATAA AAAATA AAAATA AAGATA
1 AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAATA AAAATA
10860780 AAAATA AA
1 AAAATA AA
10860788 TTTTATATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
6 42 0.89
7 5 0.11
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:10860764 original size:18 final size:18
Alignment explanation
Indices: 10860728--10860784 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
10860718 AATTGGTTTT
*
10860728 ATGAAAATGAAAATGAAA
1 ATGAAAATGAAAATAAAA
10860746 ATGAAAATGAAAATAAAAA
1 ATGAAAATGAAAAT-AAAA
*
10860765 ATAAAAAT-AAAGATAAAA
1 ATGAAAATGAAA-ATAAAA
10860783 AT
1 AT
10860785 AAATTTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 23 0.66
19 12 0.34
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.18
Consensus pattern (18 bp):
ATGAAAATGAAAATAAAA
Found at i:10860771 original size:13 final size:13
Alignment explanation
Indices: 10860749--10860787 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
10860739 AATGAAAATG
*
10860749 AAAATGAAAATAA
1 AAAATAAAAATAA
10860762 AAAATAAAAAT-A
1 AAAATAAAAATAA
*
10860774 AAGATAAAAATAA
1 AAAATAAAAATAA
10860787 A
1 A
10860788 TTTTATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:10865225 original size:9 final size:9
Alignment explanation
Indices: 10865211--10865238 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10865201 TGTACTTCGG
10865211 AGAGTGGGA
1 AGAGTGGGA
10865220 AGAGTGGGA
1 AGAGTGGGA
10865229 AGAGTGGGA
1 AGAGTGGGA
10865238 A
1 A
10865239 TATGGGAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.54, T:0.11
Consensus pattern (9 bp):
AGAGTGGGA
Found at i:10872631 original size:22 final size:23
Alignment explanation
Indices: 10872606--10872656 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
10872596 AAATCAGAAC
10872606 AAAACTGTAA-AAAAAAAAAA-AA
1 AAAACT-TAATAAAAAAAAAATAA
10872628 AAAAGCTTAATAAAAAAAAAATAA
1 AAAA-CTTAATAAAAAAAAAATAA
10872652 AAAAC
1 AAAAC
10872657 CACATTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.27
23 13 0.50
24 6 0.23
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.12
Consensus pattern (23 bp):
AAAACTTAATAAAAAAAAAATAA
Found at i:10879663 original size:7 final size:7
Alignment explanation
Indices: 10879654--10879684 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
10879644 TCTTACGTTG
*
10879654 TTGATTG
1 TTGATTA
10879661 TTGATTA
1 TTGATTA
10879668 TTGATTA
1 TTGATTA
10879675 TTGATTA
1 TTGATTA
10879682 TTG
1 TTG
10879685 TCTATTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (7 bp):
TTGATTA
Found at i:10885442 original size:18 final size:17
Alignment explanation
Indices: 10885419--10885467 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
10885409 AATTTGTAAC
10885419 AGAAAAAACAAAAAATAA
1 AGAAAAAA-AAAAAATAA
*
10885437 AGAAAAGAAAAAAAT-A
1 AGAAAAAAAAAAAATAA
* *
10885453 GGAAAGAAAAAAAAT
1 AGAAAAAAAAAAAAT
10885468 TATTCAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 13 0.48
17 7 0.26
18 7 0.26
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.06
Consensus pattern (17 bp):
AGAAAAAAAAAAAATAA
Found at i:10885447 original size:16 final size:15
Alignment explanation
Indices: 10885423--10885466 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10885413 TGTAACAGAA
*
10885423 AAAACAAAAAATAAAG
1 AAAAGAAAAAA-AAAG
*
10885439 AAAAGAAAAAAATAG
1 AAAAGAAAAAAAAAG
*
10885454 GAAAGAAAAAAAA
1 AAAAGAAAAAAAA
10885467 TTATTCAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.05
Consensus pattern (15 bp):
AAAAGAAAAAAAAAG
Found at i:10886541 original size:34 final size:34
Alignment explanation
Indices: 10886503--10886601 Score: 138
Period size: 34 Copynumber: 3.1 Consensus size: 34
10886493 ACACAGTATT
10886503 TTGACATTGTTAGTTTACTGTTAATTGTATGCTA
1 TTGACATTGTTAGTTTACTGTTAATTGTATGCTA
*
10886537 TTGACATTGTTAGATTACTGTT-A---T-T-CTA
1 TTGACATTGTTAGTTTACTGTTAATTGTATGCTA
*
10886565 TTGACATTGTTAGTTTACTGTTATTTGTATGCTA
1 TTGACATTGTTAGTTTACTGTTAATTGTATGCTA
10886599 TTG
1 TTG
10886602 TTGATCTAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
28 24 0.43
29 1 0.02
30 1 0.02
32 1 0.02
33 2 0.04
34 27 0.48
ACGTcount: A:0.22, C:0.09, G:0.17, T:0.52
Consensus pattern (34 bp):
TTGACATTGTTAGTTTACTGTTAATTGTATGCTA
Found at i:10886566 original size:28 final size:28
Alignment explanation
Indices: 10886534--10886589 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
10886524 TAATTGTATG
10886534 CTATTGACATTGTTAGATTACTGTTATT
1 CTATTGACATTGTTAGATTACTGTTATT
*
10886562 CTATTGACATTGTTAGTTTACTGTTATT
1 CTATTGACATTGTTAGATTACTGTTATT
10886590 TGTATGCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.14, T:0.52
Consensus pattern (28 bp):
CTATTGACATTGTTAGATTACTGTTATT
Found at i:10886601 original size:28 final size:27
Alignment explanation
Indices: 10886542--10886603 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
10886532 TGCTATTGAC
* *
10886542 ATTGTTAGATTACTGTTATTCTATTGAC-
1 ATTGTTAGTTTACTGTTATTGTA-TG-CT
10886570 ATTGTTAGTTTACTGTTATTTGTATGCT
1 ATTGTTAGTTTACTGTTA-TTGTATGCT
10886598 ATTGTT
1 ATTGTT
10886604 GATCTAGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 1 0.03
28 25 0.83
29 4 0.13
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.55
Consensus pattern (27 bp):
ATTGTTAGTTTACTGTTATTGTATGCT
Found at i:10894158 original size:17 final size:17
Alignment explanation
Indices: 10894136--10894170 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
10894126 CAAATTTGTT
10894136 AAAT-AAATTTGGACAAA
1 AAATAAAATTTGGA-AAA
10894153 AAATAAAATTTGGAAAA
1 AAATAAAATTTGGAAAA
10894170 A
1 A
10894171 TAAGCCTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (17 bp):
AAATAAAATTTGGAAAA
Found at i:10897662 original size:23 final size:24
Alignment explanation
Indices: 10897608--10897667 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
10897598 CATCAATTCA
* *
10897608 TTCTCTTTTTCTAAAACTAGACAAT
1 TTCTCTCTCTCTAAAACTAGA-AAT
*
10897633 TTTTCTCTCTCTAAAACTAG-AAT
1 TTCTCTCTCTCTAAAACTAGAAAT
10897656 TTCTCTCTCTCT
1 TTCTCTCTCTCT
10897668 TGAGTTTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 14 0.45
25 17 0.55
ACGTcount: A:0.25, C:0.25, G:0.03, T:0.47
Consensus pattern (24 bp):
TTCTCTCTCTCTAAAACTAGAAAT
Found at i:10902851 original size:113 final size:111
Alignment explanation
Indices: 10902727--10902950 Score: 299
Period size: 110 Copynumber: 2.0 Consensus size: 111
10902717 ATAGGTAAAA
*
10902727 CTGTAGTGAATTTCTTCATCCATAGAAAAAAAACAAAAAAAATGAAGAAATCAAACATGAGAAGA
1 CTGTAGTGAATTTCTGCATCC--A-AAAAAAAACAAAAAAAATGAAGAAATCAAACATGAGAAGA
* * * *
10902792 AAATAA-GAAACTCACTTGTA-TAAAATTACTATTAACTTCACTTTTCCC
63 AAA-AAGGAAACTCACTTGCACGAAAATCACTATTAACTCCACTTTTCCC
* * * *
10902840 CTGTATTGAATTTCTGCATCCACAAAAAAACTAAAAAAATGAATAAATCAAACATGAGAAGAAAA
1 CTGTAGTGAATTTCTGCATCCAAAAAAAAACAAAAAAAATGAAGAAATCAAACATGAGAAGAAAA
* *
10902905 AAGGAAACTGACTTGCACGAATATCACTATTAACTCCACTTTTCCC
66 AAGGAAACTCACTTGCACGAAAATCACTATTAACTCCACTTTTCCC
10902951 ATTAATGTTG
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
109 2 0.02
110 52 0.53
111 25 0.26
113 19 0.19
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.25
Consensus pattern (111 bp):
CTGTAGTGAATTTCTGCATCCAAAAAAAAACAAAAAAAATGAAGAAATCAAACATGAGAAGAAAA
AAGGAAACTCACTTGCACGAAAATCACTATTAACTCCACTTTTCCC
Found at i:10908953 original size:16 final size:15
Alignment explanation
Indices: 10908918--10908951 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10908908 CAACTTAAAA
10908918 TTTTTAAAAATTTTC
1 TTTTTAAAAATTTTC
*
10908933 TTTTTGAAAATTTT-
1 TTTTTAAAAATTTTC
10908947 TTTTT
1 TTTTT
10908952 TTTGAAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTTTAAAAATTTTC
Found at i:10909094 original size:3 final size:3
Alignment explanation
Indices: 10909086--10909112 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10909076 AACTCAGTAA
10909086 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
10909113 GAGAGCTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10909862 original size:34 final size:34
Alignment explanation
Indices: 10909824--10909922 Score: 138
Period size: 34 Copynumber: 3.1 Consensus size: 34
10909814 ACACAGTATT
10909824 TTGACATTGTTAGTTTACTGTTAATTGTATGCTA
1 TTGACATTGTTAGTTTACTGTTAATTGTATGCTA
*
10909858 TTGACATTGTTAGATTACTGTT-A---T-T-CTA
1 TTGACATTGTTAGTTTACTGTTAATTGTATGCTA
*
10909886 TTGACATTGTTAGTTTACTGTTATTTGTATGCTA
1 TTGACATTGTTAGTTTACTGTTAATTGTATGCTA
10909920 TTG
1 TTG
10909923 TTGATCTAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
28 24 0.43
29 1 0.02
30 1 0.02
32 1 0.02
33 2 0.04
34 27 0.48
ACGTcount: A:0.22, C:0.09, G:0.17, T:0.52
Consensus pattern (34 bp):
TTGACATTGTTAGTTTACTGTTAATTGTATGCTA
Found at i:10909887 original size:28 final size:28
Alignment explanation
Indices: 10909855--10909910 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
10909845 TAATTGTATG
10909855 CTATTGACATTGTTAGATTACTGTTATT
1 CTATTGACATTGTTAGATTACTGTTATT
*
10909883 CTATTGACATTGTTAGTTTACTGTTATT
1 CTATTGACATTGTTAGATTACTGTTATT
10909911 TGTATGCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.14, T:0.52
Consensus pattern (28 bp):
CTATTGACATTGTTAGATTACTGTTATT
Found at i:10909922 original size:28 final size:27
Alignment explanation
Indices: 10909863--10909924 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
10909853 TGCTATTGAC
* *
10909863 ATTGTTAGATTACTGTTATTCTATTGAC-
1 ATTGTTAGTTTACTGTTATTGTA-TG-CT
10909891 ATTGTTAGTTTACTGTTATTTGTATGCT
1 ATTGTTAGTTTACTGTTA-TTGTATGCT
10909919 ATTGTT
1 ATTGTT
10909925 GATCTAGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 1 0.03
28 25 0.83
29 4 0.13
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.55
Consensus pattern (27 bp):
ATTGTTAGTTTACTGTTATTGTATGCT
Found at i:10916865 original size:3 final size:3
Alignment explanation
Indices: 10916857--10916884 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10916847 TAGGACAAAA
10916857 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10916885 GTTCAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:10917483 original size:18 final size:18
Alignment explanation
Indices: 10917460--10917495 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
10917450 CAAATATGTT
10917460 AAATAA-ATTTGGACAAAA
1 AAATAAGATTTGGA-AAAA
10917478 AAATAAGATTTGGAAAAA
1 AAATAAGATTTGGAAAAA
10917496 TGAGCCTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.61, C:0.03, G:0.14, T:0.22
Consensus pattern (18 bp):
AAATAAGATTTGGAAAAA
Found at i:10917622 original size:3 final size:3
Alignment explanation
Indices: 10917614--10917649 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10917604 AGGAAAAAAG
10917614 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10917650 TATTGTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10917822 original size:28 final size:28
Alignment explanation
Indices: 10917791--10917849 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
10917781 TAGAATGAAA
*
10917791 AAAGA-AAAAAAAAACAAAAATTAAAAGT
1 AAAGATAAAAAAAAA-AAAAATAAAAAGT
* *
10917819 AAAGATAAATAACAAAAAAATAAAAAGT
1 AAAGATAAAAAAAAAAAAAATAAAAAGT
10917847 AAA
1 AAA
10917850 AATATCTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (28 bp):
AAAGATAAAAAAAAAAAAAATAAAAAGT
Found at i:10918250 original size:36 final size:36
Alignment explanation
Indices: 10918162--10918257 Score: 95
Period size: 36 Copynumber: 2.6 Consensus size: 36
10918152 TTTATTAAAT
* * *
10918162 TTATATATAATTTTTGAATAAAATTTTAAATTATATTA
1 TTATA-ATAATTTTTAAAT-TATTTTTAAATTATATTA
* * *
10918200 TTTTAATAATTTTTATATTATTTTTATATTATATTA
1 TTATAATAATTTTTAAATTATTTTTAAATTATATTA
*
10918236 TTAT-ATTATATTTTAAATTATT
1 TTATAATAAT-TTTTAAATTATT
10918258 AGATCGGTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
35 4 0.08
36 29 0.60
37 11 0.23
38 4 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (36 bp):
TTATAATAATTTTTAAATTATTTTTAAATTATATTA
Found at i:10918257 original size:20 final size:20
Alignment explanation
Indices: 10918191--10918258 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
10918181 AAAATTTTAA
*
10918191 ATTATATTATTTTAATAATT
1 ATTATATTATTTTTATAATT
*
10918211 TTTATATTATTTTTATATTATATT
1 ATTATATTA-TTTT-TA-TA-ATT
10918235 ATTATATTATATTTTA-AATT
1 ATTATATTAT-TTTTATAATT
10918255 ATTA
1 ATTA
10918259 GATCGGTAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
20 15 0.38
21 5 0.12
22 1 0.03
23 5 0.12
24 14 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTATATTATTTTTATAATT
Found at i:10918580 original size:12 final size:12
Alignment explanation
Indices: 10918563--10918587 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10918553 ATGAAATATT
10918563 AAAAATAAATTA
1 AAAAATAAATTA
10918575 AAAAATAAATTA
1 AAAAATAAATTA
10918587 A
1 A
10918588 TGATAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATAAATTA
Found at i:10920049 original size:18 final size:18
Alignment explanation
Indices: 10920022--10920059 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
10920012 TAATATATAA
10920022 TTTTTTATAATTTC-ATT
1 TTTTTTATAATTTCTATT
10920039 TTTTATTATAATTTCTATT
1 TTTT-TTATAATTTCTATT
10920058 TT
1 TT
10920060 ATCATTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 10 0.53
19 5 0.26
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTATAATTTCTATT
Found at i:10920060 original size:17 final size:18
Alignment explanation
Indices: 10920021--10920061 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
10920011 ATAATATATA
10920021 ATTTT-TTATAATTTCAT
1 ATTTTATTATAATTTCAT
*
10920038 TTTTTATTATAATTTC-T
1 ATTTTATTATAATTTCAT
10920055 ATTTTAT
1 ATTTTAT
10920062 CATTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTATTATAATTTCAT
Found at i:10921259 original size:17 final size:17
Alignment explanation
Indices: 10921237--10921270 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10921227 AATTTATCCA
*
10921237 AATTTACATATATTTAT
1 AATTTAAATATATTTAT
*
10921254 AATTTAAATATTTTTAT
1 AATTTAAATATATTTAT
10921271 GTGTCATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTAAATATATTTAT
Found at i:10921513 original size:2 final size:2
Alignment explanation
Indices: 10921506--10921530 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10921496 CAATCGAGTT
10921506 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 T
10921531 CTAATATAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10922360 original size:9 final size:9
Alignment explanation
Indices: 10922348--10922469 Score: 100
Period size: 9 Copynumber: 13.6 Consensus size: 9
10922338 TATTTATTTA
*
10922348 TACTATTAC
1 TACTACTAC
10922357 TACTACTAC
1 TACTACTAC
10922366 TACTACTAC
1 TACTACTAC
* *
10922375 CACTATTAC
1 TACTACTAC
* *
10922384 CACTACTAT
1 TACTACTAC
10922393 TACTACTAC
1 TACTACTAC
* *
10922402 CACTGCTAC
1 TACTACTAC
* *
10922411 TGCTATTAC
1 TACTACTAC
* *
10922420 TACTGCTAA
1 TACTACTAC
* *
10922429 TGCTACTGC
1 TACTACTAC
* *
10922438 TGCTAATAC
1 TACTACTAC
*
10922447 TACTATTAC
1 TACTACTAC
10922456 TACTACTAC
1 TACTACTAC
10922465 TACTA
1 TACTA
10922470 TTATTATATT
Statistics
Matches: 87, Mismatches: 26, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
9 87 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (9 bp):
TACTACTAC
Found at i:10922363 original size:6 final size:6
Alignment explanation
Indices: 10922348--10922469 Score: 100
Period size: 6 Copynumber: 20.3 Consensus size: 6
10922338 TATTTATTTA
* * * * *
10922348 TACTAT TACTAC TACTAC TACTAC TACCAC TATTAC CACTAC TATTAC
1 TACTAC TACTAC TACTAC TACTAC TACTAC TACTAC TACTAC TACTAC
* * * * * * * * * *
10922396 TACTAC CACTGC TACTGC TATTAC TACTGC TAATGC TACTGC TGCTAA
1 TACTAC TACTAC TACTAC TACTAC TACTAC TACTAC TACTAC TACTAC
*
10922444 TACTAC TATTAC TACTAC TACTAC TA
1 TACTAC TACTAC TACTAC TACTAC TA
10922470 TTATTATATT
Statistics
Matches: 91, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 91 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (6 bp):
TACTAC
Found at i:10923277 original size:20 final size:20
Alignment explanation
Indices: 10923252--10923309 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
10923242 TGCAAGAATG
10923252 TCATGCAAATATATTAATTA
1 TCATGCAAATATATTAATTA
* *
10923272 TCATGC-AATAATATAAAATA
1 TCATGCAAAT-ATATTAATTA
10923292 TCATGCAAATATATTAAT
1 TCATGCAAATATATTAAT
10923310 AACCATTCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.36
Consensus pattern (20 bp):
TCATGCAAATATATTAATTA
Found at i:10923433 original size:20 final size:20
Alignment explanation
Indices: 10923410--10923515 Score: 95
Period size: 20 Copynumber: 5.0 Consensus size: 20
10923400 AAATAAATTA
*
10923410 ATAATCATGTAATTAAATAT
1 ATAATCATGCAATTAAATAT
*
10923430 ATAATCATGCAAATAAAAATAT
1 ATAATCATGC-AAT-TAAATAT
* *
10923452 ATAAACCATGCAATTAAATAA
1 AT-AATCATGCAATTAAATAT
* *
10923473 ATAATAATGCAAATAGTAATAT
1 ATAATCATGCAATTA--AATAT
*
10923495 ATAAATCATGCAAATAAATAT
1 AT-AATCATGCAATTAAATAT
10923516 GCAATTAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
20 19 0.27
21 15 0.21
22 17 0.24
23 19 0.27
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (20 bp):
ATAATCATGCAATTAAATAT
Found at i:10923469 original size:23 final size:22
Alignment explanation
Indices: 10923424--10923512 Score: 74
Period size: 23 Copynumber: 4.0 Consensus size: 22
10923414 TCATGTAATT
*
10923424 AAATATATAATCATGCAAATAA
1 AAATATATAACCATGCAAATAA
*
10923446 AAATATATAAACCATGC-AAT-T
1 AAATATAT-AACCATGCAAATAA
* ** *
10923467 AAATAAATAATAATGCAAATAG
1 AAATATATAACCATGCAAATAA
* *
10923489 TAATATATAAATCATGCAAATAA
1 AAATATAT-AACCATGCAAATAA
10923512 A
1 A
10923513 TATGCAATTA
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
20 6 0.12
21 10 0.19
22 17 0.33
23 19 0.37
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (22 bp):
AAATATATAACCATGCAAATAA
Found at i:10923477 original size:43 final size:43
Alignment explanation
Indices: 10923415--10923514 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
10923405 AATTAATAAT
* * *
10923415 CATGTAATTAAATATATAATCATGCAAATAAAAATATATAAAC
1 CATGCAATTAAATAAATAATAATGCAAATAAAAATATATAAAC
** *
10923458 CATGCAATTAAATAAATAATAATGCAAATAGTAATATATAAAT
1 CATGCAATTAAATAAATAATAATGCAAATAAAAATATATAAAC
*
10923501 CATGCAAATAAATA
1 CATGCAATTAAATA
10923515 TGCAATTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (43 bp):
CATGCAATTAAATAAATAATAATGCAAATAAAAATATATAAAC
Found at i:10923685 original size:21 final size:20
Alignment explanation
Indices: 10923643--10923688 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
10923633 TTATGCAAAT
*
10923643 AAATATATTAATAATCATAC
1 AAATATATTAATAATCACAC
10923663 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCACAC
10923684 AAATA
1 AAATA
10923689 AATATATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATATATTAATAATCACAC
Found at i:10923686 original size:101 final size:102
Alignment explanation
Indices: 10923409--10923644 Score: 275
Period size: 98 Copynumber: 2.4 Consensus size: 102
10923399 TAAATAAATT
* * * * * * * * *
10923409 AATAATCATGTAATTAAATATATAATCATGCAAATAAAAATATATAAACCATGCAATTAAATAAA
1 AATAAACATGCAATTAAATATATAATTATGCAAATAATAATACATAAATCATACAATCATATAAA
* * *
10923474 TAATAAT--GCAAA-TA-GTAATATATAAATCATGCA
66 TAATAATACACAAACCATGTAAAATATAAATCATGCA
* * * * *
10923507 AATAAATATGCAATTAAATATATAATTTTGCAAATAGTAATACATAAATCATACGATCATGTAAA
1 AATAAACATGCAATTAAATATATAATTATGCAAATAATAATACATAAATCATACAATCATATAAA
*
10923572 TAATAATATACAAACCATGTAAAATAT-AATCATGCA
66 TAATAATACACAAACCATGTAAAATATAAATCATGCA
10923608 AATAAACATGCAATTAAATATATAATTATGCAAATAA
1 AATAAACATGCAATTAAATATATAATTATGCAAATAA
10923645 ATATATTAAT
Statistics
Matches: 114, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
98 58 0.51
100 4 0.04
101 44 0.39
102 8 0.07
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (102 bp):
AATAAACATGCAATTAAATATATAATTATGCAAATAATAATACATAAATCATACAATCATATAAA
TAATAATACACAAACCATGTAAAATATAAATCATGCA
Found at i:10923700 original size:21 final size:21
Alignment explanation
Indices: 10923622--10923718 Score: 90
Period size: 21 Copynumber: 4.5 Consensus size: 21
10923612 AACATGCAAT
* *
10923622 TAAATATA-TAATTATGCAAA
1 TAAATATATTAATCATACAAA
10923642 TAAATATATTAATAATCATACAAA
1 TAAATATA-T--TAATCATACAAA
* * *
10923666 TATAT-TAATAAATCACACAAA
1 TAAATAT-ATTAATCATACAAA
*
10923687 TAAATATATTAATCATGCAAA
1 TAAATATATTAATCATACAAA
10923708 TAAATATATTA
1 TAAATATATTA
10923719 GGCAAATAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
20 8 0.13
21 36 0.58
22 1 0.02
23 2 0.03
24 15 0.24
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAATATATTAATCATACAAA
Found at i:10924769 original size:85 final size:85
Alignment explanation
Indices: 10924669--10924929 Score: 312
Period size: 85 Copynumber: 3.1 Consensus size: 85
10924659 TTTTTTTTGA
* * * *
10924669 AAAATACTCTCCCACAACTAAAGCTTTGAAACTTTTGAAAATAAAATGCTCCCTTACAACTGAGG
1 AAAATGCTCTCCCACAACTGAGGCTTTGAAACTTTTGAAAATAAAATGCTCCCTCACAACTGAGG
*
10924734 CTTTGAAACTTTTGAAAAGT
66 CTTTGAAACTTTTGAAAAAT
* *
10924754 AAAATGCTC-CTCCACAACTGAGGCTTTGGAAC-TTTGAAAAATAAAATACT-CCTCCACAACTG
1 AAAATGCTCTC-CCACAACTGAGGCTTTGAAACTTTTG-AAAATAAAATGCTCCCT-CACAACTG
*
10924816 AGGCTTTGGAACTTTTGAAAAAT
63 AGGCTTTGAAACTTTTGAAAAAT
* * * * * * * *
10924839 AAAACGCTTTCCCATAATTGAGGTTTTGAAACTTTGGAAAATAAAATGCTCCCCCATAACTGAGG
1 AAAATGCTCTCCCACAACTGAGGCTTTGAAACTTTTGAAAATAAAATGCTCCCTCACAACTGAGG
* *
10924904 CTTTAAAACTTCTGAAAAAT
66 CTTTGAAACTTTTGAAAAAT
10924924 AAAATG
1 AAAATG
10924930 AGATCATTCT
Statistics
Matches: 148, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
84 8 0.05
85 134 0.91
86 6 0.04
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (85 bp):
AAAATGCTCTCCCACAACTGAGGCTTTGAAACTTTTGAAAATAAAATGCTCCCTCACAACTGAGG
CTTTGAAACTTTTGAAAAAT
Found at i:10924771 original size:43 final size:43
Alignment explanation
Indices: 10924680--10924929 Score: 294
Period size: 42 Copynumber: 5.9 Consensus size: 43
10924670 AAATACTCTC
* *
10924680 CCACAACTAAAGCTTTGAAACTTTTG-AAAATAAAATGCTCC-
1 CCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCT
* *
10924721 CTTACAACTGAGGCTTTGAAACTTTTGAAAAGTAAAATGCTCCT
1 C-CACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCT
* *
10924765 CCACAACTGAGGCTTTGGAAC-TTTGAAAAATAAAATACTCCT
1 CCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCT
* * *
10924807 CCACAACTGAGGCTTTGGAACTTTTGAAAAATAAAACGCT-TT
1 CCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCT
* * * * *
10924849 CCCATAATTGAGGTTTTGAAAC-TTTGGAAAATAAAATGCTCCC
1 -CCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCT
* * *
10924892 CCATAACTGAGGCTTTAAAACTTCTGAAAAATAAAATG
1 CCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATG
10924930 AGATCATTCT
Statistics
Matches: 178, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.01
42 97 0.54
43 79 0.44
44 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.28
Consensus pattern (43 bp):
CCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCT
Found at i:10929389 original size:16 final size:16
Alignment explanation
Indices: 10929368--10929412 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
10929358 AAATATATTT
10929368 ATGTATGAATGCAT-G
1 ATGTATGAATGCATAG
10929383 AATGTATGAATGCATAG
1 -ATGTATGAATGCATAG
10929400 ATGTATGAATGCA
1 ATGTATGAATGCA
10929413 ATAAAGAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (16 bp):
ATGTATGAATGCATAG
Found at i:10931515 original size:19 final size:19
Alignment explanation
Indices: 10931477--10931515 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10931467 GTTAGTTAAC
*
10931477 ATATACAAGGAATAACATA
1 ATATACAAGGAACAACATA
* *
10931496 ATATATAAGGAACAATATA
1 ATATACAAGGAACAACATA
10931515 A
1 A
10931516 AAAGTTAGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.23
Consensus pattern (19 bp):
ATATACAAGGAACAACATA
Found at i:10932619 original size:20 final size:20
Alignment explanation
Indices: 10932588--10932673 Score: 75
Period size: 20 Copynumber: 4.1 Consensus size: 20
10932578 TATTCATGCA
*
10932588 AAAATGTCATGCAAATATAT
1 AAAATATCATGCAAATATAT
* *
10932608 CAATTATCATGC-AATAATAT
1 AAAATATCATGCAAAT-ATAT
*
10932628 AAAATACCATGCAAATATATT
1 AAAATATCATGCAAATATA-T
*
10932649 AATAACCATTCATGCAAATATAT
1 AA-AA-TA-TCATGCAAATATAT
10932672 AA
1 AA
10932674 TCATGAAATC
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
19 3 0.06
20 25 0.48
21 6 0.12
22 2 0.04
23 4 0.08
24 12 0.23
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.30
Consensus pattern (20 bp):
AAAATATCATGCAAATATAT
Found at i:10932991 original size:22 final size:23
Alignment explanation
Indices: 10932963--10933051 Score: 96
Period size: 22 Copynumber: 4.0 Consensus size: 23
10932953 ACATTCCATT
10932963 AAATATAT-AATCATACAAATAA
1 AAATATATAAATCATACAAATAA
* * *
10932985 AAATATATAAACCATGC-AAT-T
1 AAATATATAAATCATACAAATAA
*
10933006 AAATATAT-AATCATACAAATAG
1 AAATATATAAATCATACAAATAA
* *
10933028 TAATATATAAATCATGCAAATAA
1 AAATATATAAATCATACAAATAA
10933051 A
1 A
10933052 TATGCAATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
20 6 0.11
21 11 0.21
22 18 0.34
23 18 0.34
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.28
Consensus pattern (23 bp):
AAATATATAAATCATACAAATAA
Found at i:10933009 original size:43 final size:43
Alignment explanation
Indices: 10932960--10933054 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
10932950 TAAACATTCC
10932960 ATTAAATATATAATCATACAAATAAAAATATATAAACCATGCA
1 ATTAAATATATAATCATACAAATAAAAATATATAAACCATGCA
** *
10933003 ATTAAATATATAATCATACAAATAGTAATATATAAATCATGCA
1 ATTAAATATATAATCATACAAATAAAAATATATAAACCATGCA
*
10933046 AATAAATAT
1 ATTAAATAT
10933055 GCAATTAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (43 bp):
ATTAAATATATAATCATACAAATAAAAATATATAAACCATGCA
Found at i:10933011 original size:21 final size:21
Alignment explanation
Indices: 10932962--10933054 Score: 100
Period size: 23 Copynumber: 4.3 Consensus size: 21
10932952 AACATTCCAT
*
10932962 TAAATATAT-AATCATACAAA
1 TAAATATATAAATCATGCAAA
* *
10932982 TAAAAATATATAAACCATGCAAT
1 T--AAATATATAAATCATGCAAA
*
10933005 TAAATATAT-AATCATACAAA
1 TAAATATATAAATCATGCAAA
10933025 TAGTAATATATAAATCATGCAAA
1 TA--AATATATAAATCATGCAAA
10933048 TAAATAT
1 TAAATAT
10933055 GCAATTAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
20 11 0.18
21 13 0.22
22 15 0.25
23 21 0.35
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (21 bp):
TAAATATATAAATCATGCAAA
Found at i:10933048 original size:98 final size:96
Alignment explanation
Indices: 10932901--10933102 Score: 278
Period size: 98 Copynumber: 2.1 Consensus size: 96
10932891 AATTAATAAT
* * * * *
10932901 CATGTAATTAAATATATAATCATGCAATTAACAATTTAAATCATGCAAATAAACATTCCATTAAA
1 CATGCAATTAAATATATAATCATACAAATAACAATTTAAATCATGCAAATAAACATGCAATTAAA
*
10932966 TATATAATCATACAAATAAAAATATATAAAC
66 TATATAATCATACAAATAAAAATACATAAAC
** *
10932997 CATGCAATTAAATATATAATCATACAAATAGTAATATATAAATCATGCAAATAAATATGCAATTA
1 CATGCAATTAAATATATAATCATACAAATAACAAT-T-TAAATCATGCAAATAAACATGCAATTA
* * *
10933062 AATATATAATCATGCAAATAATAATACATAAAT
64 AATATATAATCATACAAATAAAAATACATAAAC
10933095 CATGCAAT
1 CATGCAAT
10933103 CACATAAACA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 30 0.33
97 1 0.01
98 61 0.66
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (96 bp):
CATGCAATTAAATATATAATCATACAAATAACAATTTAAATCATGCAAATAAACATGCAATTAAA
TATATAATCATACAAATAAAAATACATAAAC
Found at i:10933057 original size:55 final size:55
Alignment explanation
Indices: 10932998--10933101 Score: 181
Period size: 55 Copynumber: 1.9 Consensus size: 55
10932988 TATATAAACC
* *
10932998 ATGCAATTAAATATATAATCATACAAATAGTAATATATAAATCATGCAAATAAAT
1 ATGCAATTAAATATATAATCATACAAATAATAATACATAAATCATGCAAATAAAT
*
10933053 ATGCAATTAAATATATAATCATGCAAATAATAATACATAAATCATGCAA
1 ATGCAATTAAATATATAATCATACAAATAATAATACATAAATCATGCAA
10933102 TCACATAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.30
Consensus pattern (55 bp):
ATGCAATTAAATATATAATCATACAAATAATAATACATAAATCATGCAAATAAAT
Found at i:10933122 original size:55 final size:55
Alignment explanation
Indices: 10933001--10933133 Score: 164
Period size: 55 Copynumber: 2.4 Consensus size: 55
10932991 ATAAACCATG
* * * **
10933001 CAATTAAATATATAATCATACAAATAGTAATATATAAATCATGCAAATAAATATG
1 CAATTAAATATATAATCATGCAAATAATAATACATAAATCATGCAAATAAATAAA
*
10933056 CAATTAAATATATAATCATGCAAATAATAATACATAAATCATGC-AATCACATAAA
1 CAATTAAATATATAATCATGCAAATAATAATACATAAATCATGCAAAT-AAATAAA
*
10933111 CAA-T-AATATATAAACCATGCAAA
1 CAATTAAATATAT-AATCATGCAAA
10933134 ATATAATCAT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
53 7 0.10
54 14 0.20
55 48 0.70
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.28
Consensus pattern (55 bp):
CAATTAAATATATAATCATGCAAATAATAATACATAAATCATGCAAATAAATAAA
Found at i:10933155 original size:36 final size:35
Alignment explanation
Indices: 10933111--10933220 Score: 97
Period size: 36 Copynumber: 3.2 Consensus size: 35
10933101 ATCACATAAA
10933111 CAAT-AATATATAAACCATGCAAAATATAATCATG
1 CAATAAATATATAAACCATGCAAAATATAATCATG
* * * *
10933145 CAATTAAATATACAAATCATGCAATCATGTAA--AT-
1 CAA-TAAATATATAAACCATGCAA-AATATAATCATG
*
10933179 -AAT-AATATATAAAACCATGCAAAATATAATCACG
1 CAATAAATATAT-AAACCATGCAAAATATAATCATG
10933213 CAAATAAA
1 C-AATAAA
10933221 CTTGCAATTA
Statistics
Matches: 57, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
31 11 0.19
32 11 0.19
33 3 0.05
34 3 0.05
35 3 0.05
36 19 0.33
37 7 0.12
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (35 bp):
CAATAAATATATAAACCATGCAAAATATAATCATG
Found at i:10933183 original size:67 final size:70
Alignment explanation
Indices: 10933065--10933220 Score: 230
Period size: 68 Copynumber: 2.3 Consensus size: 70
10933055 GCAATTAAAT
10933065 ATATAATCATGCAAAT-AATAATACATAAATCATGCAATCACATAAACAATAATATAT-AAACCA
1 ATATAATCATGCAAATAAATAATACA-AAATCATGCAATCACATAAACAATAATATATAAAACCA
10933128 TGCAAA
65 TGCAAA
* ** *
10933134 ATATAATCATGCAATTAAAT-ATAC-AAATCATGCAATCATGTAAATAATAATATATAAAACCAT
1 ATATAATCATGCAAATAAATAATACAAAATCATGCAATCACATAAACAATAATATATAAAACCAT
10933197 GCAAA
66 GCAAA
*
10933202 ATATAATCACGCAAATAAA
1 ATATAATCATGCAAATAAA
10933221 CTTGCAATTA
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
67 28 0.35
68 29 0.37
69 19 0.24
70 3 0.04
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.26
Consensus pattern (70 bp):
ATATAATCATGCAAATAAATAATACAAAATCATGCAATCACATAAACAATAATATATAAAACCAT
GCAAA
Found at i:10934917 original size:19 final size:20
Alignment explanation
Indices: 10934893--10934930 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
10934883 TAACTAAAAA
10934893 ATAAGAAAATAA-ATTACAG
1 ATAAGAAAATAACATTACAG
10934912 ATAAGAAAATAACATTACA
1 ATAAGAAAATAACATTACA
10934931 AAAATAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.21
Consensus pattern (20 bp):
ATAAGAAAATAACATTACAG
Done.