Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 106 of 131
Found at i:18951241 original size:120 final size:119
Alignment explanation
Indices: 18951020--18951242 Score: 347
Period size: 120 Copynumber: 1.9 Consensus size: 119
18951010 TGCTTTTGTA
* * * *
18951020 CAAGAAAAATTGATACTTTCGACTTTTTCTTAAATATTTTTCTTGATAATCTTTATTTTTAAGGA
1 CAAGAAAAATTGATACTTTCAACTTTTTCTAAAATACTTTTCTTGATAATCTTTATTTTTAAGAA
* * * *
18951085 AAATTGGTACTTCCAACTTTTTCTCAAAATATTTTTTTTTTGAAATTTTAATTT
66 AAATTAGTACTTCCAAATTTTCCTAAAAATATTTTTTTTTTGAAATTTTAATTT
*
18951139 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATACTTTTCTTGATAATTTTTATTTTTAAGA
1 CAAGAAAAATTGATACTTTCAACTTTTTCT-AAAATACTTTTCTTGATAATCTTTATTTTTAAGA
18951204 AAAATTAGTACTTCCAAATTTTCCTTAAAAATATTTTTT
65 AAAATTAGTACTTCCAAATTTTCC-TAAAAATATTTTTT
18951243 AAAAATTTTT
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
119 29 0.31
120 51 0.55
121 13 0.14
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (119 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTAAAATACTTTTCTTGATAATCTTTATTTTTAAGAA
AAATTAGTACTTCCAAATTTTCCTAAAAATATTTTTTTTTTGAAATTTTAATTT
Found at i:18951248 original size:74 final size:74
Alignment explanation
Indices: 18951170--18951316 Score: 181
Period size: 74 Copynumber: 2.0 Consensus size: 74
18951160 ACTTTTTCTC
* * *
18951170 AAAATACTT-TTCTTGATAATTTTTATTTTTAAGAAAAATT-AGTACTTCCAAATTTTCCTTAAA
1 AAAATACTTATTCTTGAAAAATTTTATTTTTAA-AAAAATTGA-TACTTCCAAATTTTCCTCAAA
18951233 AATATTTTTTA
64 AATATTTTTTA
** * * * *
18951244 AAAATTTTTATTTTTTAAAAATTTTATTTTTAAAAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 AAAATACTTATTCTTGAAAAATTTTATTTTTAAAAAAATTGATACTTCCAAATTTTCCTCAAAAA
18951309 TATTTTTT
66 TATTTTTT
18951317 TTAAAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
74 42 0.68
75 20 0.32
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (74 bp):
AAAATACTTATTCTTGAAAAATTTTATTTTTAAAAAAATTGATACTTCCAAATTTTCCTCAAAAA
TATTTTTTA
Found at i:18951257 original size:16 final size:16
Alignment explanation
Indices: 18951235--18951279 Score: 74
Period size: 17 Copynumber: 2.8 Consensus size: 16
18951225 TCCTTAAAAA
18951235 TATTTTTTAAAAATTTT
1 TATTTTTTAAAAA-TTT
18951252 TATTTTTTAAAAATTT
1 TATTTTTTAAAAATTT
18951268 TA-TTTTTAAAAA
1 TATTTTTTAAAAA
18951280 AATTGATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.36
16 5 0.18
17 13 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTTTTAAAAATTT
Found at i:18951283 original size:17 final size:16
Alignment explanation
Indices: 18951238--18951280 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
18951228 TTAAAAATAT
*
18951238 TTTTTAAAAATTTTTA
1 TTTTTAAAAAATTTTA
*
18951254 TTTTTTAAAAATTTTA
1 TTTTTAAAAAATTTTA
18951270 TTTTTAAAAAA
1 TTTTTAAAAAA
18951281 ATTGATACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTAAAAAATTTTA
Found at i:18951334 original size:74 final size:75
Alignment explanation
Indices: 18951190--18951339 Score: 182
Period size: 74 Copynumber: 2.0 Consensus size: 75
18951180 TCTTGATAAT
* ***
18951190 TTTTATTTTTAAGAAAAATTAGTACTTCCAAATTTTCCTTAAAAATATTTTTTAAAAATTTTTAT
1 TTTTATTTTTAAGAAAAATTAGTACTTCCAAATTTTCCTCAAAAATATTTTTTAAAAAAAATTA-
18951255 TTTTTA-AAAA
65 TTTTTAGAAAA
* *
18951265 TTTTATTTTTAA-AAAAATT-GATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAAAAAAAAT
1 TTTTATTTTTAAGAAAAATTAG-TACTTCCAAATTTTCCTCAAAAATA--TTTTTTAAAAAAAAT
18951328 TA-TTTTAGAAAA
63 TATTTTTAGAAAA
18951340 ATCATTGACA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
73 1 0.02
74 34 0.52
75 16 0.25
76 14 0.22
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (75 bp):
TTTTATTTTTAAGAAAAATTAGTACTTCCAAATTTTCCTCAAAAATATTTTTTAAAAAAAATTAT
TTTTAGAAAA
Found at i:18951942 original size:21 final size:20
Alignment explanation
Indices: 18951917--18951962 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
18951907 AATTCTCATA
18951917 AAAAATAATTGCC-AAAAATTT
1 AAAAA-AATT-CCAAAAAATTT
18951938 AAAAAAATTCCAAAAAAATTT
1 AAAAAAATTCC-AAAAAATTT
18951959 AAAA
1 AAAA
18951963 CTGTTTCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 4 0.17
21 17 0.74
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAAATTCCAAAAAATTT
Found at i:18952267 original size:12 final size:12
Alignment explanation
Indices: 18952223--18952265 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
18952213 TAAATAAACA
18952223 AAAAATAATAAT
1 AAAAATAATAAT
18952235 AAATAATAATAAT
1 AAA-AATAATAAT
*
18952248 AATAATGAA-AAT
1 AAAAAT-AATAAT
18952260 AAAAAT
1 AAAAAT
18952266 GAGCTTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 14 0.52
13 13 0.48
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:18952658 original size:58 final size:59
Alignment explanation
Indices: 18952484--18952788 Score: 308
Period size: 58 Copynumber: 5.3 Consensus size: 59
18952474 GCATTGGAAA
* *
18952484 CAATTTTCCTTGAAAATAAGTTTTCTAAAAAAACTATTTTTGAGGAAAAGTTGAAAGTAT
1 CAATTTTCCTTGAAAATAAATTTTCTAAAAAAA-TATTTTTGAGAAAAAGTTGAAAGTAT
* * * *
18952544 CAAATTTT-CTTGAAAAT-AATTTTCT--AAAAATTTTTTTGCGAAAAAAGGTAAAAGTAT
1 C-AATTTTCCTTGAAAATAAATTTTCTAAAAAAATATTTTTGAG-AAAAAGTTGAAAGTAT
*
18952601 CAATTTTCCTTGAAAATAAAATTTT-T-AAAAAATATTTTTGAGAAAAAGCTGAAAGTAT
1 CAATTTTCCTTGAAAAT-AAATTTTCTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTAT
* * * *
18952659 TAATTTCCCTT-AAAAAAAATTTTTTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTAT
1 CAATTTTCCTTGAAAATAAATTTTCTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTAT
* * * * * * *
18952717 CAATTTT-C-TCAAAGTTAAAGTTTC-AAAAAAATA-TTTTGGGGAAAAGTTGGAAGTAC
1 CAATTTTCCTTGAAA-ATAAATTTTCTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTAT
* *
18952773 CAATTTTTCTTAAAAA
1 CAATTTTCCTTGAAAA
18952789 AAAAAAACGT
Statistics
Matches: 207, Mismatches: 26, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
56 48 0.23
57 47 0.23
58 70 0.34
59 26 0.13
60 10 0.05
61 6 0.03
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (59 bp):
CAATTTTCCTTGAAAATAAATTTTCTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTAT
Found at i:18952687 original size:14 final size:15
Alignment explanation
Indices: 18952668--18952697 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18952658 TTAATTTCCC
18952668 TTAAAAAAA-ATTTT
1 TTAAAAAAATATTTT
18952682 TTAAAAAAATATTTT
1 TTAAAAAAATATTTT
18952697 T
1 T
18952698 GAGAAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAAAAAATATTTT
Found at i:18952792 original size:115 final size:115
Alignment explanation
Indices: 18952484--18952791 Score: 327
Period size: 115 Copynumber: 2.7 Consensus size: 115
18952474 GCATTGGAAA
* ** *
18952484 CAATTTTCCTTGAAAATAAGTTTTCTAAAAAAACTATTTTTGAGGAAAAGTTGAAAGTATCAAAT
1 CAATTTTCCTTCAAAATAAAATTTC-AAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATT
* * * *
18952549 TTTCTTGAAAATAATTTTCTAAAAATTTTTTTGCGAAAAAAGGTAAAAGTAT
64 TTTCTTAAAAAAAATTTTCTAAAAATATTTTTGAGAAAAAAGGTAAAAGTAT
* ** * * * *
18952601 CAATTTTCCTTGAAAATAAAATTTTTAAAAAATATTTTTGAGAAAAAGCTGAAAGTATTAATTTC
1 CAATTTTCCTTCAAAATAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
* * * *
18952666 CCTTAAAAAAAATTTTTTAAAAAAATATTTTTGAG-AAAAAGTTGAAAGTAT
66 TCTTAAAAAAAATTTTCT--AAAAATATTTTTGAGAAAAAAGGTAAAAGTAT
* * * * *
18952717 CAATTTT-C-TCAAAGTTAAAGTTTCAAAAAAATA-TTTTGGGGAAAAGTTGGAAGTACCAATTT
1 CAATTTTCCTTCAAA-ATAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTT
18952779 TTCTTAAAAAAAA
65 TTCTTAAAAAAAA
18952792 AAAACGTTTT
Statistics
Matches: 158, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
114 38 0.24
115 58 0.37
116 27 0.17
117 35 0.22
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.36
Consensus pattern (115 bp):
CAATTTTCCTTCAAAATAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
TCTTAAAAAAAATTTTCTAAAAATATTTTTGAGAAAAAAGGTAAAAGTAT
Found at i:18958745 original size:8 final size:8
Alignment explanation
Indices: 18958734--18958816 Score: 84
Period size: 8 Copynumber: 10.4 Consensus size: 8
18958724 AAAAAAAGGA
18958734 GAAAAAAT
1 GAAAAAAT
18958742 GAAAAAAT
1 GAAAAAAT
18958750 AAAGAAAAAAT
1 ---GAAAAAAT
18958761 GAAAAAAT
1 GAAAAAAT
18958769 GAAAAAAT
1 GAAAAAAT
18958777 -AAAAAAT
1 GAAAAAAT
*
18958784 AAAAAAAAT
1 -GAAAAAAT
18958793 G--AAAAT
1 GAAAAAAT
*
18958799 GAAAAGA-
1 GAAAAAAT
18958806 GAAAAAAT
1 GAAAAAAT
18958814 GAA
1 GAA
18958817 GACTCAAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 16
0.77 0.04 0.19
Matches are distributed among these distances:
6 6 0.09
7 13 0.20
8 30 0.47
9 7 0.11
11 8 0.12
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (8 bp):
GAAAAAAT
Found at i:18958757 original size:27 final size:27
Alignment explanation
Indices: 18958734--18958816 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
18958724 AAAAAAAGGA
18958734 GAAAAAATGAAAAAATAAAGAAAAAAT
1 GAAAAAATGAAAAAATAAAGAAAAAAT
*
18958761 GAAAAAATGAAAAAATAAA-AAATAA-
1 GAAAAAATGAAAAAATAAAGAAAAAAT
18958786 -AAAAAATGAAAATGAA-AAGAGAAAAAAT
1 GAAAAAATGAAAA--AATAA-AGAAAAAAT
18958814 GAA
1 GAA
18958817 GACTCAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
24 12 0.25
25 2 0.04
26 8 0.17
27 24 0.50
29 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (27 bp):
GAAAAAATGAAAAAATAAAGAAAAAAT
Found at i:18958780 original size:15 final size:15
Alignment explanation
Indices: 18958735--18958816 Score: 77
Period size: 15 Copynumber: 5.7 Consensus size: 15
18958725 AAAAAAGGAG
18958735 AAAAAATGAAAAAAT
1 AAAAAATGAAAAAAT
18958750 ---AAA-GAAAAAAT
1 AAAAAATGAAAAAAT
18958761 GAAAAAATGAAAAAAT
1 -AAAAAATGAAAAAAT
18958777 AAAAAAT-AAAAAA-
1 AAAAAATGAAAAAAT
* *
18958790 AATGAAAATGAAAAGAG
1 AA--AAAATGAAAAAAT
18958807 AAAAAATGAA
1 AAAAAATGAA
18958817 GACTCAAATT
Statistics
Matches: 57, Mismatches: 1, Indels: 18
0.75 0.01 0.24
Matches are distributed among these distances:
11 8 0.14
12 3 0.05
13 2 0.04
14 6 0.11
15 23 0.40
16 13 0.23
17 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAAAATGAAAAAAT
Found at i:18959980 original size:46 final size:46
Alignment explanation
Indices: 18959901--18960033 Score: 189
Period size: 46 Copynumber: 2.9 Consensus size: 46
18959891 GAACATTTTA
* * * *
18959901 AGAATCTTTGAGTCTTAAATGAGAATCTCTAAGACGTTTTCAAATG
1 AGAATATTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAATG
*
18959947 AGAAGT-TTTGAGTCTTAAATGAAAATTTTTAAGACATTTTCAAATG
1 AGAA-TATTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAATG
18959993 AGAATATTTGAGTCTTAAATGAAAATCTTTACA-ACATTTTC
1 AGAATATTTGAGTCTTAAATGAAAATCTTTA-AGACATTTTC
18960034 TTTAAGACAT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
45 1 0.01
46 76 0.96
47 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (46 bp):
AGAATATTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAATG
Found at i:18960101 original size:25 final size:24
Alignment explanation
Indices: 18960032--18960269 Score: 106
Period size: 25 Copynumber: 10.2 Consensus size: 24
18960022 TACAACATTT
* * *
18960032 TCTTTAAGACATTTTAAATGTGAA
1 TCTTTAAAAAATTTTAAATGAGAA
* * *
18960056 TCTTT---AAGTCTTAAATTAGAA
1 TCTTTAAAAAATTTTAAATGAGAA
18960077 TCTTTAAAAAAATTTTAAATGAGAA
1 TCTTT-AAAAAATTTTAAATGAGAA
* * *
18960102 TCTTT---GAGTCTTAAATGAGAA
1 TCTTTAAAAAATTTTAAATGAGAA
* ***
18960123 CCTTTAAGACGTTTTTAAATGAGAA
1 TCTTTAA-AAAATTTTAAATGAGAA
*
18960148 TCTTTAAAATATTTTCAAATGAGAA
1 TCTTTAAAAAATTTT-AAATGAGAA
* * *
18960173 TCTTT---GAGTCTTAAATGAGAA
1 TCTTTAAAAAATTTTAAATGAGAA
**
18960194 -CTTTTAAAACGTTTTCAAATGAGAA
1 TC-TTTAAAAAATTTT-AAATGAGAA
* * *
18960219 TCTTT---GAGTCTTAAATGAGAA
1 TCTTTAAAAAATTTTAAATGAGAA
***
18960240 TCTTTAAGATGTTTTTAAATGAGAA
1 TCTTTAA-AAAATTTTAAATGAGAA
18960265 TCTTT
1 TCTTT
18960270 GAGGTGTGAA
Statistics
Matches: 161, Mismatches: 34, Indels: 37
0.69 0.15 0.16
Matches are distributed among these distances:
20 1 0.01
21 59 0.37
22 7 0.04
24 14 0.09
25 79 0.49
26 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (24 bp):
TCTTTAAAAAATTTTAAATGAGAA
Found at i:18960103 original size:46 final size:46
Alignment explanation
Indices: 18960042--18960154 Score: 154
Period size: 46 Copynumber: 2.5 Consensus size: 46
18960032 TCTTTAAGAC
* * *
18960042 ATTTTAAATGTGAATCTTTAAGTCTTAAATTAGAATCTTTAAAAAA
1 ATTTTAAATGAGAATCTTTAAGTCTTAAATGAGAACCTTTAAAAAA
* * **
18960088 ATTTTAAATGAGAATCTTTGAGTCTTAAATGAGAACCTTTAAGACG
1 ATTTTAAATGAGAATCTTTAAGTCTTAAATGAGAACCTTTAAAAAA
*
18960134 TTTTTAAATGAGAATCTTTAA
1 ATTTTAAATGAGAATCTTTAA
18960155 AATATTTTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (46 bp):
ATTTTAAATGAGAATCTTTAAGTCTTAAATGAGAACCTTTAAAAAA
Found at i:18960148 original size:71 final size:71
Alignment explanation
Indices: 18960066--18960223 Score: 255
Period size: 71 Copynumber: 2.2 Consensus size: 71
18960056 TCTTTAAGTC
*
18960066 TTAAATTAGAATCTTTAAAAAAATTTT-AAATGAGAATCTTTGAGTCTTAAATGAGAACCTTTAA
1 TTAAATGAGAATCTTT-AAAAAATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAACCTTTAA
*
18960130 GACGTTT
65 AACGTTT
* *
18960137 TTAAATGAGAATCTTTAAAATATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAACTTTTAAA
1 TTAAATGAGAATCTTTAAAAAATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAACCTTTAAA
18960202 ACGTTT
66 ACGTTT
*
18960208 TCAAATGAGAATCTTT
1 TTAAATGAGAATCTTT
18960224 GAGTCTTAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
70 9 0.11
71 72 0.89
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (71 bp):
TTAAATGAGAATCTTTAAAAAATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAACCTTTAAA
ACGTTT
Found at i:18960183 original size:117 final size:116
Alignment explanation
Indices: 18960032--18960269 Score: 361
Period size: 117 Copynumber: 2.0 Consensus size: 116
18960022 TACAACATTT
* * *
18960032 TCTTTAAGACATTTTAAATGTGAATCTTTAAGTCTTAAATTAGAATCTTTAAAAAAATTTT-AAA
1 TCTTTAAAACATTTTAAATGAGAATCTTTAAGTCTTAAATGAGAA-CTTTAAAAAAATTTTCAAA
18960096 TGAGAATCTTTGAGTCTTAAATGAGAACCTTTAAGACGTTTTTAAATGAGAA
65 TGAGAATCTTTGAGTCTTAAATGAGAACCTTTAAGACGTTTTTAAATGAGAA
* * * **
18960148 TCTTTAAAATATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAACTTTTAAAACGTTTTCAAA
1 TCTTTAAAACATTTT-AAATGAGAATCTTTAAGTCTTAAATGAGAACTTTAAAAAAATTTTCAAA
* *
18960213 TGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTTTAAATGAGAA
65 TGAGAATCTTTGAGTCTTAAATGAGAACCTTTAAGACGTTTTTAAATGAGAA
18960265 TCTTT
1 TCTTT
18960270 GAGGTGTGAA
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
116 25 0.23
117 85 0.77
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (116 bp):
TCTTTAAAACATTTTAAATGAGAATCTTTAAGTCTTAAATGAGAACTTTAAAAAAATTTTCAAAT
GAGAATCTTTGAGTCTTAAATGAGAACCTTTAAGACGTTTTTAAATGAGAA
Found at i:18960187 original size:46 final size:46
Alignment explanation
Indices: 18960137--18960272 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
18960127 TAAGACGTTT
*
18960137 TTAAATGAGAATCTTTAAAATATTTTCAAATGAGAATCTTTGAGTC
1 TTAAATGAGAATCTTTAAAATGTTTTCAAATGAGAATCTTTGAGTC
*
18960183 TTAAATGAGAA-CTTTTAAAACGTTTTCAAATGAGAATCTTTGAGTC
1 TTAAATGAGAATC-TTTAAAATGTTTTCAAATGAGAATCTTTGAGTC
* *
18960229 TTAAATGAGAATCTTTAAGATGTTTTTAAATGAGAATCTTTGAG
1 TTAAATGAGAATCTTTAAAATGTTTTCAAATGAGAATCTTTGAG
18960273 GTGTGAAACC
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
45 1 0.01
46 81 0.98
47 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (46 bp):
TTAAATGAGAATCTTTAAAATGTTTTCAAATGAGAATCTTTGAGTC
Found at i:18960264 original size:71 final size:69
Alignment explanation
Indices: 18960068--18960244 Score: 223
Period size: 71 Copynumber: 2.5 Consensus size: 69
18960058 TTTAAGTCTT
* * * * *
18960068 AAATTAGAATCTTTAAAAAAATTTTAAATGAGAATCTTTGAGTCTTAAATGAGAACCTTTAAGAC
1 AAATGAGAATCTTT--AAATATCTTAAATGAGAATCTTTGAGTCTTAAATGAGAACTTTTAAAAC
*
18960133 GTTTTT
64 GTTTTC
*
18960139 AAATGAGAATCTTTAAAATATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAACTTTTAAAAC
1 AAATGAGAATCTTT-AAATATCTT-AAATGAGAATCTTTGAGTCTTAAATGAGAACTTTTAAAAC
18960204 GTTTTC
64 GTTTTC
* *
18960210 AAATGAGAATCTTT-GA-GTCTTAAATGAGAATCTTT
1 AAATGAGAATCTTTAAATATCTTAAATGAGAATCTTT
18960245 AAGATGTTTT
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
67 14 0.14
68 3 0.03
69 1 0.01
70 9 0.09
71 70 0.72
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (69 bp):
AAATGAGAATCTTTAAATATCTTAAATGAGAATCTTTGAGTCTTAAATGAGAACTTTTAAAACGT
TTTC
Found at i:18960324 original size:20 final size:20
Alignment explanation
Indices: 18960295--18960333 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18960285 AAAGTTCGTT
* *
18960295 GAATGTGAATCTTTGAACTA
1 GAATGAGAATCTTTAAACTA
18960315 GAATGAGAATCTTTAAACT
1 GAATGAGAATCTTTAAACT
18960334 TTTGGATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (20 bp):
GAATGAGAATCTTTAAACTA
Found at i:18960935 original size:44 final size:42
Alignment explanation
Indices: 18960835--18960938 Score: 115
Period size: 41 Copynumber: 2.5 Consensus size: 42
18960825 TCAAAGAGCC
* * *
18960835 ATTTA-TTTTTAAAAATCGTGATTGCCTCTGTTTAGAGGAGT
1 ATTTATTTTTTAAAAGTTGTGATTACCTCTGTTTAGAGGAGT
*
18960876 ATTTATTTTTCAAAAGTTGTGA-TACCTCTGTTTAGA-GAGGCTTT
1 ATTTATTTTTTAAAAGTTGTGATTACCTCTGTTTAGAGGA-G---T
18960920 ATTTATTTTTTAAAAGTTG
1 ATTTATTTTTTAAAAGTTG
18960939 AGCCTCTGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
40 2 0.04
41 19 0.36
42 13 0.25
44 19 0.36
ACGTcount: A:0.27, C:0.09, G:0.17, T:0.47
Consensus pattern (42 bp):
ATTTATTTTTTAAAAGTTGTGATTACCTCTGTTTAGAGGAGT
Found at i:18961001 original size:44 final size:44
Alignment explanation
Indices: 18960858--18961206 Score: 298
Period size: 44 Copynumber: 8.1 Consensus size: 44
18960848 AATCGTGATT
*
18960858 GCCTCTGTTTAGAGGAG---TATTTA-TTTTTCAAAAGTTG-TGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTTC-AAAGTCGTTGA
* *
18960898 TACCTCTGTTTAGA-GAGGCTTTATTTATTTTTT-AAA--AGTTGA
1 -GCCTCTGTTTAGAGGA-GCTTTATTTATTTTTTCAAAGTCGTTGA
* * * *
18960940 GCCTCTGATTAAAGGAGCTTTATTTATTCTTCCAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTTCAAAGTCGTTGA
** * *
18960984 GGTTCTGTTTAGAGGAGCTTTGTTTA-TTTTTCAAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTTC-AAAGTCGTTGA
* *
18961028 GCCTCTGATTAAAGGAGCTTT-TTTATTATTTTCAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATT-TTTTCAAAGTCGTTGA
* * *
18961072 GCCTCTATTTAGAGGATCAATTTATTTATTTATTT--AAGTCGTTAA
1 GCCTCTGTTTAGAGGAGC--TTTATTTATTT-TTTCAAAGTCGTTGA
* * *
18961117 GCCTCTGATTAGATGAACTTTATTTATTTTTTCAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTTCAAAGTCGTTGA
* * * *
18961161 ACCTCTGTTTAGAAGAAC---ATTTATTTTCTTTAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTT-TTCAAAGTCGTTGA
18961203 GCCT
1 GCCT
18961207 TTATTTATAA
Statistics
Matches: 252, Mismatches: 36, Indels: 39
0.77 0.11 0.12
Matches are distributed among these distances:
40 2 0.01
41 47 0.19
42 27 0.11
43 22 0.09
44 108 0.43
45 33 0.13
46 4 0.02
47 9 0.04
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (44 bp):
GCCTCTGTTTAGAGGAGCTTTATTTATTTTTTCAAAGTCGTTGA
Found at i:18961121 original size:45 final size:43
Alignment explanation
Indices: 18961049--18961218 Score: 127
Period size: 45 Copynumber: 3.9 Consensus size: 43
18961039 AAGGAGCTTT
** * *
18961049 TTTA-TTATTTTCAAAGTCGTTGAGCCTCTATTTAGAGGATCAA
1 TTTATTTATTTTTTAAGTCGTTAAGCCTCTATTTAGAAGA-CAA
* *
18961092 TTTATTTATTTATTTAAGTCGTTAAGCCTCTGA-TTAGATGA-AC
1 TTTATTTATTT-TTTAAGTCGTTAAGCCTCT-ATTTAGAAGACAA
*
18961135 TTTATTTATTTTTTCAAAGTCGTTGAA-CCTCTGTTTAGAAGA-ACA
1 TTTATTTATTTTTT--AAGTCGTT-AAGCCTCTATTTAGAAGACA-A
* * * * *
18961180 TTTATTT-TCTTTAAAGTCGTTGAGCCTTTATTTATAAGA
1 TTTATTTATTTTTTAAGTCGTTAAGCCTCTATTTAGAAGA
18961219 GCTTTGTTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
41 1 0.01
42 23 0.22
43 16 0.15
44 31 0.30
45 32 0.31
46 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (43 bp):
TTTATTTATTTTTTAAGTCGTTAAGCCTCTATTTAGAAGACAA
Found at i:18961149 original size:89 final size:87
Alignment explanation
Indices: 18960875--18961206 Score: 329
Period size: 88 Copynumber: 3.8 Consensus size: 87
18960865 TTTAGAGGAG
* * * **
18960875 TATTTA-TTTTTCAAAAGTTG-TGATACCTCTGTTTAGA-GAGGC-TTTATTTATTTTTTAA-AA
1 TATTTATTTTTTC-AAAGTCGTTGA-GCCTCTGTTTAGAGGA-ACATTTATTTATTTTTTAAGTC
18960935 GTTGAGCCTCTGATTAAAGGAGCTT
63 GTTGAGCCTCTGATTAAAGGAGCTT
* * ** * * * *
18960960 TATTTATTCTTCCAAAGTCGTTGAGGTTCTGTTTAGAGGAGC-TTTGTTTATTTTTCAAAAGTCA
1 TATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACATTTATTTATTTTT--TAAGTCG
18961024 TTGAGCCTCTGATTAAAGGAGCTT
64 TTGAGCCTCTGATTAAAGGAGCTT
* *
18961048 T-TTTATTATTTTCAAAGTCGTTGAGCCTCTATTTAGAGGATCAATTTATTTATTTATTTAAGTC
1 TATTTATT-TTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAAC-ATTTATTTATTT-TTTAAGTC
* * * *
18961112 GTTAAGCCTCTGATTAGATGAACTT
63 GTTGAGCCTCTGATTAAAGGAGCTT
* * * *
18961137 TATTTATTTTTTCAAAGTCGTTGAACCTCTGTTTAGAAGAACATTTATTT-TCTTTAAAGTCGTT
1 TATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACATTTATTTATTTTTTAAGTCGTT
18961201 GAGCCT
66 GAGCCT
18961207 TTATTTATAA
Statistics
Matches: 205, Mismatches: 31, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
85 36 0.18
86 24 0.12
87 10 0.05
88 61 0.30
89 56 0.27
90 16 0.08
91 2 0.01
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (87 bp):
TATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACATTTATTTATTTTTTAAGTCGTT
GAGCCTCTGATTAAAGGAGCTT
Found at i:18963069 original size:15 final size:14
Alignment explanation
Indices: 18963051--18963086 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
18963041 TTAATGATTA
*
18963051 TTTTAAAATAAATTT
1 TTTTAAAA-AAATAT
18963066 TTTTAAAAAAATAT
1 TTTTAAAAAAATAT
18963080 TTTTAAA
1 TTTTAAA
18963087 GGAAAGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTAAAAAAATAT
Found at i:18963197 original size:58 final size:59
Alignment explanation
Indices: 18963051--18963671 Score: 341
Period size: 58 Copynumber: 10.2 Consensus size: 59
18963041 TTAATGATTA
** * * *
18963051 TTTTAAAATAAATTTTTTTAAAAAAATATTTTTAAAGGAAAGTTGAAAATATCAATTTTC
1 TTTTAAAATAAAAATTTCT-AAAAAATATTTTTGAAGGAAAATTGAAAATATCAATTTTC
* * *
18963111 TTTTAAAGTAAAAATTTTTTAAAAATATTTTTGAAGGAAAATTGAAAATATCAA-TTTC
1 TTTTAAAATAAAAATTTCTAAAAAATATTTTTGAAGGAAAATTGAAAATATCAATTTTC
* * *
18963169 TTTTTAAAGTAAAAATTT-TTAAAAATATTTTTGAAGGAAAATT-AAAAGTATTAATTTTC
1 -TTTTAAAATAAAAATTTCTAAAAAATATTTTTGAAGGAAAATTGAAAA-TATCAATTTTC
* *
18963228 TTTAAAAATAAAAATTTCTAAAAAATATTTTTGAA-GAAAAGTTGAAAGTATCAATTTT-
1 TTTTAAAATAAAAATTTCTAAAAAATATTTTTGAAGGAAAA-TTGAAAATATCAATTTTC
* * * **
18963286 TCTTTAAAATTAAAATTTCTAAAAAATATTTCCCGTTTCTAAAAGATATTTTTGCAAAAAAAATT
1 T-TTTAAAATAAAAATTTCTAAAAAATA--T----TTT-TGAAGGA-A-AATTG---AA------
18963351 GAAAGTATCAATTTT-
47 --AA-TATCAATTTTC
* * * * **
18963366 TCTTGAAAAT-AAATTTTTTAAAAAGAATATTTTT-AAGGAAAAGATGAAAGCATCAATTTTC
1 T-TTTAAAATAAAAATTTCT-AAAA-AATATTTTTGAAGGAAAA-TTGAAAATATCAATTTTC
* * * **
18963427 CTTTAAAAT--AATTTTTTAAAAAATATTTTTG-AGGAAAAACGTAAAAGTATCAATTTTC
1 TTTTAAAATAAAAATTTCTAAAAAATATTTTTGAAGGAAAATTG-AAAA-TATCAATTTTC
*
18963485 TTTTATAAA-ATAAAATTT-TAAAAAAATATTTTT-AAGGAAAAATTGAAAGTATCAATTTT-
1 TTTTA-AAATA-AAAATTTCT-AAAAAATATTTTTGAAGG-AAAATTGAAAATATCAATTTTC
* * * * *
18963544 TCTTAAAA-ATAAATTTTTTAAAAAATATTTTT-AAGAAAAAGTTGAAAGTATCAATTTT-
1 TTTTAAAATA-AAAATTTCTAAAAAATATTTTTGAAGGAAAA-TTGAAAATATCAATTTTC
* * * * * * * *
18963602 TCTCAAAATTAAAGTTTCAGAAAAAATA-TTTTGAA-AAAAAGTTGAAAGTCTCAATTTTC
1 TTTTAAAATAAAAATTTC-TAAAAAATATTTTTGAAGGAAAA-TTGAAAATATCAATTTTC
18963661 -TTTAAAA-AAAA
1 TTTTAAAATAAAA
18963672 CGTTTTAAGG
Statistics
Matches: 463, Mismatches: 49, Indels: 101
0.76 0.08 0.16
Matches are distributed among these distances:
56 2 0.00
57 30 0.06
58 161 0.35
59 130 0.28
60 46 0.10
61 26 0.06
62 5 0.01
65 3 0.01
66 3 0.01
67 2 0.00
68 4 0.01
69 2 0.00
71 2 0.00
72 3 0.01
73 4 0.01
74 1 0.00
75 3 0.01
79 9 0.02
80 23 0.05
81 4 0.01
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (59 bp):
TTTTAAAATAAAAATTTCTAAAAAATATTTTTGAAGGAAAATTGAAAATATCAATTTTC
Found at i:18963206 original size:117 final size:118
Alignment explanation
Indices: 18963052--18963671 Score: 405
Period size: 117 Copynumber: 5.1 Consensus size: 118
18963042 TAATGATTAT
** * * *
18963052 TTTAAAATAAATTTTTTTAAAAAAATATTTTTAAAGGAAAGTTGAAAA-TATCAATTTTCTTTTA
1 TTTAAAATAAAAATTTCT-AAAAAATATTTTTAAAGGAAAATT-AAAAGTATCAATTTTCTTTAA
* * *
18963116 AAGTAAAAATTTTTTAAAAATATTTTTGAAGGAAAA-TTGAAAATATCAATTTCTT-
64 AAATAAAAATTTCTAAAAAATATTTTTGAA-GAAAAGTTGAAAATATCAATTT-TTC
* * * *
18963171 TTTAAAGTAAAAATTT-TTAAAAATATTTTTGAAGGAAAATTAAAAGTATTAATTTTCTTTAAAA
1 TTTAAAATAAAAATTTCTAAAAAATATTTTTAAAGGAAAATTAAAAGTATCAATTTTCTTTAAAA
*
18963235 ATAAAAATTTCTAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTC
66 ATAAAAATTTCTAAAAAATATTTTTGAAGAAAAGTTGAAAATATCAATTTTTC
* *
18963288 TTTAAAATTAAAATTTCTAAAAAATATTTCCCGTTTCTAAAAGATATTTTTGCAAAAAAAATTGA
1 TTTAAAATAAAAATTTCTAAAAAATA--T----TTT-T-AAAG--------G-----AAAATTAA
* * * *
18963353 AAGTATCAATTTT-TCTTGAAAAT-AAATTTTTTAAAAAGAATATTTTT-AAGGAAAAGATGAAA
45 AAGTATCAATTTTCT-TTAAAAATAAAAATTTCT-AAAA-AATATTTTTGAA-GAAAAGTTGAAA
** *
18963415 GCATCAATTTTCC
106 ATATCAATTTTTC
* * * *
18963428 TTTAAAAT--AATTTTTTAAAAAATATTTTT-GAGGAAAAACGTAAAAGTATCAATTTTCTTTTA
1 TTTAAAATAAAAATTTCTAAAAAATATTTTTAAAGG-AAAA-TTAAAAGTATCAATTTTC-TTTA
* *
18963490 TAAAAT-AAAATTT-TAAAAAAATATTTTT-AAGGAAAAATTGAAAGTATCAATTTTTC
63 -AAAATAAAAATTTCT-AAAAAATATTTTTGAA-GAAAAGTTGAAAATATCAATTTTTC
* * * * * * *
18963546 TTAAAAAT-AAATTTTTTAAAAAATATTTTT-AAGAAAAAGTTGAAAGTATCAATTTT-TCTCAA
1 TTTAAAATAAAAATTTCTAAAAAATATTTTTAAAGGAAAA-TTAAAAGTATCAATTTTCTTTAAA
* * * * * *
18963608 AATTAAAGTTTCAGAAAAAATA-TTTTGAAAAAAAGTTGAAAGTCTCAA-TTTTC
65 AATAAAAATTTC-TAAAAAATATTTTTGAAGAAAAGTTGAAAATATCAATTTTTC
18963661 TTTAAAA-AAAA
1 TTTAAAATAAAA
18963672 CGTTTTAAGG
Statistics
Matches: 413, Mismatches: 49, Indels: 82
0.76 0.09 0.15
Matches are distributed among these distances:
115 19 0.05
116 39 0.09
117 106 0.26
118 83 0.20
119 44 0.11
120 13 0.03
121 1 0.00
124 3 0.01
125 1 0.00
126 3 0.01
129 2 0.00
131 1 0.00
132 3 0.01
134 1 0.00
136 1 0.00
138 22 0.05
139 32 0.08
140 39 0.09
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (118 bp):
TTTAAAATAAAAATTTCTAAAAAATATTTTTAAAGGAAAATTAAAAGTATCAATTTTCTTTAAAA
ATAAAAATTTCTAAAAAATATTTTTGAAGAAAAGTTGAAAATATCAATTTTTC
Found at i:18963375 original size:80 final size:78
Alignment explanation
Indices: 18963242--18963389 Score: 224
Period size: 79 Copynumber: 1.9 Consensus size: 78
18963232 AAAATAAAAA
* * *
18963242 TTTCTAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTTAAAATTAAAATTTCTA
1 TTTCTAAAAAATATTTTTGAAAAAAAATTGAAAGTATCAATTTTTCTTGAAAA-TAAAATTTCTA
18963307 AAAAATATTTCCCG
65 AAAAATATTTCCCG
* * *
18963321 TTTCTAAAAGATATTTTTGCAAAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAATTTTTTA
1 TTTCTAAAAAATATTTTTG-AAAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAATTTCTA
18963386 AAAA
65 AAAA
18963390 GAATATTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
79 31 0.50
80 31 0.50
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (78 bp):
TTTCTAAAAAATATTTTTGAAAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAATTTCTAA
AAAATATTTCCCG
Found at i:18963465 original size:118 final size:115
Alignment explanation
Indices: 18963325--18963667 Score: 381
Period size: 118 Copynumber: 2.9 Consensus size: 115
18963315 TTCCCGTTTC
* * * *
18963325 TAAAAGATATTTTTGCAAAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAATTTTTTAAAAA
1 TAAAAAATATTTTTG-AGAAAAAATTGAAAGTATCAATTTTTCTTCAAAATAAA-ATTTTAAAAA
18963390 GAATATTTTTAAGGAAAAGATGAAAGCATCAATTTTCCTTTAAAAT-AATTTTT
64 -AATATTTTTAAGGAAAAGATGAAAGCATCAATTTT-CTTTAAAATAAATTTTT
** * * *
18963443 TAAAAAATATTTTTGAGGAAAAACGTAAAAGTATCAATTTTCTTTTATAAAATAAAATTTTAAAA
1 TAAAAAATATTTTTGA-GAAAAAATTGAAAGTATCAATTTT-TCTT-CAAAATAAAATTTTAAAA
* *
18963508 AAATATTTTTAAGGAAAA-ATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTT
63 AAATATTTTTAAGGAAAAGA-TGAAAGCATCAA-TTTTCTTTAAAATAAATTTTT
* * * *
18963562 TAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTC-TCAAAATTAAAGTTTCAGAAAA
1 TAAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTCAAAA-TAAAATTTTA-AAAA
* * *
18963626 AATATTTTGAA-AAAAAGTTGAAAGTC-TCAATTTTCTTTAAAA
64 AATATTTTTAAGGAAAAGATGAAAG-CATCAATTTTCTTTAAAA
18963668 AAAACGTTTT
Statistics
Matches: 192, Mismatches: 23, Indels: 23
0.81 0.10 0.10
Matches are distributed among these distances:
115 15 0.08
116 23 0.12
117 17 0.09
118 91 0.47
119 38 0.20
120 8 0.04
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.38
Consensus pattern (115 bp):
TAAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTCAAAATAAAATTTTAAAAAAA
TATTTTTAAGGAAAAGATGAAAGCATCAATTTTCTTTAAAATAAATTTTT
Found at i:18963567 original size:16 final size:17
Alignment explanation
Indices: 18963538--18963570 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18963528 TGAAAGTATC
*
18963538 AATTTTTCTTAAAAATA
1 AATTTTTCTAAAAAATA
18963555 AATTTTT-TAAAAAATA
1 AATTTTTCTAAAAAATA
18963571 TTTTTAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTTTTCTAAAAAATA
Found at i:18963799 original size:17 final size:17
Alignment explanation
Indices: 18963769--18963810 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
18963759 ATCATTATTC
18963769 TTTTTTTTCATTTT-AT
1 TTTTTTTTCATTTTAAT
*
18963785 TTTTTTTTCTTTTTTGAAT
1 TTTTTTTTC-ATTTT-AAT
18963804 TTTTTTT
1 TTTTTTT
18963811 AACGTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 9 0.41
17 4 0.18
19 9 0.41
ACGTcount: A:0.10, C:0.05, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTTTTTTCATTTTAAT
Found at i:18964833 original size:44 final size:45
Alignment explanation
Indices: 18964746--18964834 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
18964736 GCTTTTGTAT
18964746 AAGAAAAATTGATACTTTCAACTTTTTCTTAAAACATTTTTTTTA
1 AAGAAAAATTGATACTTTCAACTTTTTCTTAAAACATTTTTTTTA
* * *
18964791 AAGAAAAATTGGTACTTTCAA-TTTTTTTTCAAAATATTTTTTTT
1 AAGAAAAATTGATACTTTCAACTTTTTCTT-AAAACATTTTTTTT
18964835 GAAATTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 7 0.17
45 33 0.82
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (45 bp):
AAGAAAAATTGATACTTTCAACTTTTTCTTAAAACATTTTTTTTA
Found at i:18964913 original size:117 final size:117
Alignment explanation
Indices: 18964769--18965067 Score: 390
Period size: 117 Copynumber: 2.5 Consensus size: 117
18964759 ACTTTCAACT
* * *
18964769 TTTTCTTAAAACATTT-TTTTTAAAGAAAAATTGGTACTTTCAATTTTTTTTCAAAATATTTTTT
1 TTTT-TTAAAAAATTTATTTTT-AAGAAAAATTGATACTTTCAATTTTTTCTCAAAATATTTTTT
* *
18964833 TTGAAATTTTAATTTCGAGAAAAATTGATACTTTCA-ATTTTTATTCAAAAATA
64 TTAAAATTTTAATTTCAAGAAAAATTGATACTTTCACATTTTTATTCAAAAATA
* *
18964886 TATTTTTAAAAAATTTATTTTTAAGAAAAATTGATACTTTTAACTTTTTCTCAAAA-ATATTTTT
1 T-TTTTTAAAAAATTTATTTTTAAGAAAAATTGATACTTTCAATTTTTTCTCAAAATAT-TTTTT
* * * *
18964950 TTAAAATTTTATTTTCAAGAAAAATTGATACTTTTACCTTTTTCTTCAAAAATA
64 TTAAAATTTTAATTTCAAGAAAAATTGATACTTTCACATTTTTATTCAAAAATA
* * *
18965004 TTTTTTAAAAAA-TTATTTTCAAGAAAAATTGATACATTCAACTTTTTTCTCAAAAATATCTTTT
1 TTTTTTAAAAAATTTATTTTTAAGAAAAATTGATACTTTCAA-TTTTTTCTC-AAAATATTTTTT
18965068 ACAAACGGAA
Statistics
Matches: 159, Mismatches: 16, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
116 28 0.18
117 97 0.61
118 32 0.20
119 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (117 bp):
TTTTTTAAAAAATTTATTTTTAAGAAAAATTGATACTTTCAATTTTTTCTCAAAATATTTTTTTT
AAAATTTTAATTTCAAGAAAAATTGATACTTTCACATTTTTATTCAAAAATA
Found at i:18964915 original size:59 final size:57
Alignment explanation
Indices: 18964769--18965068 Score: 334
Period size: 58 Copynumber: 5.1 Consensus size: 57
18964759 ACTTTCAACT
* * * *
18964769 TTTTCTTAAAACATTTTTTTTAAAGAAAAATTGGTACTTTCAATTTTTTTTC-AAAATA
1 TTTT-TTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAA-TTTTTTTCAAAAATA
** * * *
18964827 TTTTTTTTGAAATTTTAATTTCGAGAAAAATTGATACTTTCAATTTTTATTCAAAAATA
1 -TTTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAATTTTT-TTCAAAAATA
* * *
18964886 TATTTTTAAAAAATTTATTTTTAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAATA
1 T-TTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAA-TTTTTTTCAAAAATA
* * * *
18964945 TTTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTTACCTTTTTCTTCAAAAATA
1 TTTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCA-ATTTTT-TTCAAAAATA
*
18965004 TTTTTTAAAAAA-TTATTTTCAAGAAAAATTGATACATTCAACTTTTTTCTCAAAAATA
1 TTTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAA-TTTTTT-TCAAAAATA
*
18965062 TCTTTTA
1 TTTTTTA
18965069 CAAACGGAAA
Statistics
Matches: 205, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
57 6 0.03
58 121 0.59
59 73 0.36
60 5 0.02
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (57 bp):
TTTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAATTTTTTTCAAAAATA
Found at i:18964917 original size:17 final size:15
Alignment explanation
Indices: 18964879--18964914 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
18964869 ATTTTTATTC
*
18964879 AAAAATATATTTTTA
1 AAAAATTTATTTTTA
18964894 AAAAATTTATTTTTA
1 AAAAATTTATTTTTA
18964909 AGAAAA
1 A-AAAA
18964915 ATTGATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
AAAAATTTATTTTTA
Found at i:18964998 original size:31 final size:31
Alignment explanation
Indices: 18964908--18964998 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 31
18964898 ATTTATTTTT
18964908 AAGAAAAATTGATACTTTTAACTTTTTC-TC
1 AAGAAAAATTGATACTTTTAACTTTTTCTTC
* * *
18964938 AA-AAATATT--T--TTTTAAAATTTTATTTTC
1 AAGAAAAATTGATACTTTT-AACTTTT-TCTTC
*
18964966 AAGAAAAATTGATACTTTTACCTTTTTCTTC
1 AAGAAAAATTGATACTTTTAACTTTTTCTTC
18964997 AA
1 AA
18964999 AAATATTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 15
0.68 0.10 0.22
Matches are distributed among these distances:
25 4 0.09
26 6 0.13
27 2 0.04
28 4 0.09
29 12 0.26
30 2 0.04
31 7 0.15
32 5 0.11
33 4 0.09
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.47
Consensus pattern (31 bp):
AAGAAAAATTGATACTTTTAACTTTTTCTTC
Found at i:18965114 original size:138 final size:137
Alignment explanation
Indices: 18964939--18965206 Score: 359
Period size: 138 Copynumber: 1.9 Consensus size: 137
18964929 CTTTTTCTCA
*
18964939 AAAATATTTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTTACCTTTTTCTTCAAAAATA
1 AAAATATTTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTTAACTTTTTC-TCAAAAATA
18965004 TT-TTTT-AAAAAATTATTTTC-AAGAAAAATTGATACATTCAACTTTTT-TCTCAAAAATATCT
65 TTGTTTTGAAAAAATTATTTTCAAAG-AAAATTGATACATTCAA-TTTTTGT-TCAAAAATATCT
18965065 TTTACAAACGG
127 TTTACAAACGG
*
18965076 AAAATA-TTTTTTAGAAATTTTAATTTTCAA-AGAAAATTGATACTTTTAACTTTTTCTCAAAAC
1 AAAATATTTTTTTA-AAATTTT-ATTTTCAAGA-AAAATTGATACTTTTAACTTTTTCTCAAAAA
*** * * *
18965139 TATTGTTTTGAAATTTTTATTTTCAAAGAAAATTGATACTTTTAATTTTTGTTCAAAAATATTTT
63 TATTGTTTTGAAAAAATTATTTTCAAAGAAAATTGATACATTCAATTTTTGTTCAAAAATATCTT
18965204 TTA
128 TTA
18965207 AAATTTTTAC
Statistics
Matches: 116, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
136 7 0.06
137 24 0.21
138 55 0.47
139 27 0.23
140 3 0.03
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (137 bp):
AAAATATTTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAATAT
TGTTTTGAAAAAATTATTTTCAAAGAAAATTGATACATTCAATTTTTGTTCAAAAATATCTTTTA
CAAACGG
Found at i:18965123 original size:26 final size:26
Alignment explanation
Indices: 18965093--18965187 Score: 66
Period size: 26 Copynumber: 3.4 Consensus size: 26
18965083 TTTTTAGAAA
18965093 TTTTAATTTTCAAAGAAAATTGATAC
1 TTTTAATTTTCAAAGAAAATTGATAC
** * *
18965119 TTTTAACTTTTTCTCAAA-ACTATTGTTTTGAAA
1 TTTTAA---TTT-TCAAAGAAAATTG--AT--AC
*
18965152 TTTTTATTTTCAAAGAAAATTGATAC
1 TTTTAATTTTCAAAGAAAATTGATAC
18965178 TTTTAATTTT
1 TTTTAATTTT
18965188 TGTTCAAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 18
0.64 0.13 0.23
Matches are distributed among these distances:
26 16 0.32
28 1 0.02
29 13 0.26
30 13 0.26
31 1 0.02
33 6 0.12
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (26 bp):
TTTTAATTTTCAAAGAAAATTGATAC
Found at i:18965173 original size:255 final size:255
Alignment explanation
Indices: 18964821--18965322 Score: 641
Period size: 255 Copynumber: 2.0 Consensus size: 255
18964811 ATTTTTTTTC
* * *
18964821 AAAATATTTTTTTTGAAATTTTAATTTCGAGAAAAATTGATACTTTCAATTTTTATTCAAAAATA
1 AAAATATTTTTTTAGAAATTTTAATTTCAAGAAAAATTGATACTTTCAATTTTTACTCAAAAATA
*
18964886 TATTTTTAAAAAATTTATTTTTAAGAAAAATTGATACTTTTAACTTTTT-CTCAAAAATATTTTT
66 TATTTTTAAAAAATTTATTTTAAAGAAAAATTGATACTTTTAA-TTTTTGCTCAAAAATA-TTTT
* * *
18964950 TTAAAA-TTTTATTTTCAAGAA-AAATTGATACTTTTACCTTTTTCTTCAAAAATAT-TTTTTAA
129 TTAAAATTTTTACTTTCAA-AAGAAATTGATACTTTCACC-TTTCCTTCAAAAATATATTTTTAA
* *
18965012 AA-AATTA-TTTTCAAGAA-AAATTGATACATTCAACTTTTTTCTCAAAAATATCTTTTACAAAC
192 AATAATTACTTTT-AA-AAGAAATTAATACATTCAACTTTTTT-TCAAAAATATATTTTACAAAC
18965074 GG
254 GG
*
18965076 AAAATA-TTTTTTAGAAATTTTAATTTTCAA-AGAAAATTGATACTTTTAACTTTTT-CTCAAAA
1 AAAATATTTTTTTAGAAATTTTAA-TTTCAAGA-AAAATTGATACTTTCAA-TTTTTACTCAAAA
* * ** *
18965138 CTAT-TGTTTTGAAATTTTTATTTTCAAAG-AAAATTGATACTTTTAATTTTTGTTCAAAAATAT
63 ATATAT-TTTTAAAAAATTTATTTT-AAAGAAAAATTGATACTTTTAATTTTTGCTCAAAAATAT
*
18965201 TTTTTAAAATTTTTACTTTCAAAAGAAATTGATACTTTCAGCTTTCCTTCAAAAATATATTTTTA
126 TTTTTAAAATTTTTACTTTCAAAAGAAATTGATACTTTCACCTTTCCTTCAAAAATATATTTTTA
** *
18965266 AAATTTTTACTTTTAAAAGAAATTAATACTTTCAACTTTTTTTCAAAAATATATTTT
191 AAATAATTACTTTTAAAAGAAATTAATACATTCAACTTTTTTTCAAAAATATATTTT
18965323 TTAAAAAATT
Statistics
Matches: 216, Mismatches: 19, Indels: 24
0.83 0.07 0.09
Matches are distributed among these distances:
254 50 0.23
255 128 0.59
256 34 0.16
257 4 0.02
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (255 bp):
AAAATATTTTTTTAGAAATTTTAATTTCAAGAAAAATTGATACTTTCAATTTTTACTCAAAAATA
TATTTTTAAAAAATTTATTTTAAAGAAAAATTGATACTTTTAATTTTTGCTCAAAAATATTTTTT
AAAATTTTTACTTTCAAAAGAAATTGATACTTTCACCTTTCCTTCAAAAATATATTTTTAAAATA
ATTACTTTTAAAAGAAATTAATACATTCAACTTTTTTTCAAAAATATATTTTACAAACGG
Found at i:18965221 original size:58 final size:58
Alignment explanation
Indices: 18965076--18965345 Score: 296
Period size: 59 Copynumber: 4.6 Consensus size: 58
18965066 TTACAAACGG
* * * *
18965076 AAAATATTTTTTAGAAATTTTAATTTTC-AAAGAAAATTGATACTTTTAACTTTTTCTCA
1 AAAATATTTTTTA-AAATTTTTACTTTCAAAAG-AAATTGATACTTTCAACTTTTTTTCA
* * * *
18965135 AAACTATTGTTTTGAAATTTTTATTTTC-AAAGAAAATTGATACTTTTAA-TTTTTGTTCA
1 AAAATATT-TTTTAAAATTTTTACTTTCAAAAG-AAATTGATACTTTCAACTTTTT-TTCA
* **
18965194 AAAATATTTTTTAAAATTTTTACTTTCAAAAGAAATTGATACTTTCAGCTTTCCTTCA
1 AAAATATTTTTTAAAATTTTTACTTTCAAAAGAAATTGATACTTTCAACTTTTTTTCA
* *
18965252 AAAATATATTTTTAAAATTTTTACTTTTAAAAGAAATTAATACTTTCAACTTTTTTTCAA
1 AAAATAT-TTTTTAAAATTTTTACTTTCAAAAGAAATTGATACTTTCAACTTTTTTTC-A
** *
18965312 AAATATATTTTTTAAAAAATTTA-TTTTAAAAGAA
1 AAA-ATATTTTTTAAAATTTTTACTTTCAAAAGAA
18965346 TCATTAAAAA
Statistics
Matches: 186, Mismatches: 18, Indels: 14
0.85 0.08 0.06
Matches are distributed among these distances:
58 47 0.25
59 114 0.61
60 21 0.11
61 4 0.02
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (58 bp):
AAAATATTTTTTAAAATTTTTACTTTCAAAAGAAATTGATACTTTCAACTTTTTTTCA
Found at i:18965222 original size:117 final size:118
Alignment explanation
Indices: 18965076--18965328 Score: 311
Period size: 117 Copynumber: 2.1 Consensus size: 118
18965066 TTACAAACGG
* * * *
18965076 AAAATATTTTTTAGAAATTTTAATTTTC-AAAGAAAATTGATACTTTTAACTTT-TTCTCAAAAC
1 AAAATATTTTTTA-AAATTTTAACTTTCAAAAG-AAATTGATACTTTCAACTTTCCT-TCAAAAA
* * * *
18965139 TAT-TGTTTTGAAATTTTTA-TTTTCAAAGAAAATTGATACTTTTAA-TTTTTGTTC-A
63 TATAT-TTTTAAAATTTTTACTTTTAAAAG-AAATTAATACTTTCAACTTTTT-TTCAA
* *
18965194 AAAATATTTTTTAAAATTTTTACTTTCAAAAGAAATTGATACTTTCAGCTTTCCTTCAAAAATAT
1 AAAATATTTTTTAAAATTTTAACTTTCAAAAGAAATTGATACTTTCAACTTTCCTTCAAAAATAT
18965259 ATTTTTAAAATTTTTACTTTTAAAAGAAATTAATACTTTCAACTTTTTTTCAA
66 ATTTTTAAAATTTTTACTTTTAAAAGAAATTAATACTTTCAACTTTTTTTCAA
18965312 AAATATATTTTTTAAAA
1 AAA-ATATTTTTTAAAA
18965329 AATTTATTTT
Statistics
Matches: 118, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
117 69 0.58
118 36 0.31
119 13 0.11
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (118 bp):
AAAATATTTTTTAAAATTTTAACTTTCAAAAGAAATTGATACTTTCAACTTTCCTTCAAAAATAT
ATTTTTAAAATTTTTACTTTTAAAAGAAATTAATACTTTCAACTTTTTTTCAA
Found at i:18965255 original size:196 final size:196
Alignment explanation
Indices: 18964880--18965263 Score: 528
Period size: 196 Copynumber: 2.0 Consensus size: 196
18964870 TTTTTATTCA
*
18964880 AAAATATATTTTTAAAAAATTTATTTTTAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAATA
1 AAAATATATTTTTAAAAAATTTATTTTAAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAATA
* *
18964945 TTTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTTACCTTTTTCTTCAAAAATATTTTTT
66 TTTTTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTTACATTTTTCTTCAAAAATATTTTTT
* ** *
18965010 AAAAAATTATTTTCAAGAAAAATTGATACATTCAACTTTTTTCTCAAAAATATCTTTTACAAACG
131 AAAAAATTACTTTCAAGAAAAATTGATACATTCAACTTTCCTCTCAAAAATATATTTTACAAACG
18965075 G
196 G
* * *
18965076 AAAATAT-TTTTTAGAAATTTTAATTTTCAAAG-AAAATTGATACTTTTAACTTTTTCTCAAAAC
1 AAAATATATTTTTAAAAAATTT-ATTTT-AAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAA
* *
18965139 TATTGTTTTGAAATTTTTATTTTCAA-AGAAAATTGATACTTTTA-ATTTTTGTTCAAAAATATT
64 TATT-TTTTGAAAATTTTATTTTCAAGA-AAAATTGATACTTTTACATTTTTCTTCAAAAATATT
** * *
18965202 TTTTAAAATTTTTACTTTCAA-AAGAAATTGATACTTTCAGCTTTCCT-TCAAAAATATATTTT
127 TTTTAAAA-AATTACTTTCAAGAA-AAATTGATACATTCAACTTTCCTCTCAAAAATATATTTT
18965264 TAAAATTTTT
Statistics
Matches: 166, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
195 12 0.07
196 88 0.53
197 66 0.40
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (196 bp):
AAAATATATTTTTAAAAAATTTATTTTAAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAATA
TTTTTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTTACATTTTTCTTCAAAAATATTTTTT
AAAAAATTACTTTCAAGAAAAATTGATACATTCAACTTTCCTCTCAAAAATATATTTTACAAACG
G
Found at i:18965324 original size:16 final size:16
Alignment explanation
Indices: 18965303--18965338 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18965293 ACTTTCAACT
*
18965303 TTTTTTCAAAAATATA
1 TTTTTTAAAAAATATA
*
18965319 TTTTTTAAAAAATTTA
1 TTTTTTAAAAAATATA
18965335 TTTT
1 TTTT
18965339 AAAAGAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTTAAAAAATATA
Found at i:18969776 original size:16 final size:16
Alignment explanation
Indices: 18969776--18969861 Score: 60
Period size: 16 Copynumber: 5.5 Consensus size: 16
18969766 AAAATATTTA
18969776 AAAATATTT-ATTATT
1 AAAATATTTAATTATT
*
18969791 AAAATATATTAA-AATT
1 AAAATAT-TTAATTATT
18969807 AAAATGA-TTAATT-TT
1 AAAAT-ATTTAATTATT
*
18969822 CAAAATAGTTATATTA-T
1 -AAAATATTTA-ATTATT
18969839 AATAAT-TTTAA-TATT
1 AA-AATATTTAATTATT
18969854 AAAATATT
1 AAAATATT
18969862 ATATTAATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 22
0.70 0.04 0.27
Matches are distributed among these distances:
14 5 0.09
15 20 0.35
16 23 0.40
17 9 0.16
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (16 bp):
AAAATATTTAATTATT
Found at i:18969791 original size:25 final size:27
Alignment explanation
Indices: 18969755--18969804 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
18969745 AATAATATTG
18969755 ATTTAATTATTAAAATAT-TTAAAAAT
1 ATTTAATTATTAAAATATATTAAAAAT
18969781 ATTT-ATTATTAAAATATATTAAAA
1 ATTTAATTATTAAAATATATTAAAA
18969805 TTAAAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
ATTTAATTATTAAAATATATTAAAAAT
Found at i:18970030 original size:17 final size:18
Alignment explanation
Indices: 18970003--18970036 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18969993 ATTATCAAAG
*
18970003 TATTAAAAATATTTATAA
1 TATTAAAAATAGTTATAA
18970021 TATT-AAAATAGTTATA
1 TATTAAAAATAGTTATA
18970037 TTTTATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TATTAAAAATAGTTATAA
Found at i:18970533 original size:23 final size:22
Alignment explanation
Indices: 18970490--18970552 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 22
18970480 CTCCGATTTG
*
18970490 AATAGAATTATAA-AAATATTTAA
1 AATAAAATT-TAATAAA-ATTTAA
* *
18970513 AATAAAATATTGATAAAATTTTA
1 AATAAAAT-TTAATAAAATTTAA
*
18970536 AGTAAAATTTAATAAAA
1 AATAAAATTTAATAAAA
18970553 ATTTTTACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
22 8 0.24
23 21 0.64
24 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (22 bp):
AATAAAATTTAATAAAATTTAA
Found at i:18970553 original size:23 final size:24
Alignment explanation
Indices: 18970499--18970573 Score: 73
Period size: 23 Copynumber: 3.1 Consensus size: 24
18970489 GAATAGAATT
*
18970499 ATAAAAATATTTAAAATAAAATATTG
1 ATAAAAAT-TTT-AAATAAAATATTA
*
18970525 AT-AAAATTTTAAGTAAAAT-TTA
1 ATAAAAATTTTAAATAAAATATTA
* * *
18970547 ATAAAAATTTTTACTAAAATAATA
1 ATAAAAATTTTAAATAAAATATTA
18970571 ATA
1 ATA
18970574 TTTATGATCG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
22 4 0.10
23 23 0.55
24 8 0.19
25 5 0.12
26 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (24 bp):
ATAAAAATTTTAAATAAAATATTA
Found at i:18972886 original size:13 final size:13
Alignment explanation
Indices: 18972868--18972892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18972858 TACTTAGAAA
18972868 AACAAAAAAAAAT
1 AACAAAAAAAAAT
18972881 AACAAAAAAAAA
1 AACAAAAAAAAA
18972893 CTAATTTAAA
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:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (13 bp):
AACAAAAAAAAAT
Found at i:18975896 original size:48 final size:49
Alignment explanation
Indices: 18975806--18975930 Score: 197
Period size: 48 Copynumber: 2.7 Consensus size: 49
18975796 AACAATCTTG
18975806 AATAAATTAAAAAACAAAATA-T-TATATA--TGGGACAAATTGTAATA
1 AATAAATTAAAAAACAAAATATTATATATATGTGGGACAAATTGTAATA
18975851 AATAAATT-AAAAACAAAATATTATATATATGTGGGACAAATTGTAATA
1 AATAAATTAAAAAACAAAATATTATATATATGTGGGACAAATTGTAATA
* *
18975899 AATATATTAAAAAACCAAATATTATATATATG
1 AATAAATTAAAAAACAAAATATTATATATATG
18975931 AGACAAATCG
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
44 12 0.16
45 9 0.12
46 6 0.08
48 24 0.33
49 22 0.30
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (49 bp):
AATAAATTAAAAAACAAAATATTATATATATGTGGGACAAATTGTAATA
Found at i:18979716 original size:19 final size:20
Alignment explanation
Indices: 18979682--18979719 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18979672 TAATTTTATT
*
18979682 AAAAGTTTTGAAATATAGTG
1 AAAAATTTTGAAATATAGTG
18979702 AAAAATTTT-AAATATAGT
1 AAAAATTTTGAAATATAGT
18979720 TACTTTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (20 bp):
AAAAATTTTGAAATATAGTG
Found at i:18988990 original size:21 final size:21
Alignment explanation
Indices: 18988966--18989008 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
18988956 TCAAATCTCA
18988966 TGAAATAAATAAAAAA-TATTG
1 TGAAA-AAATAAAAAATTATTG
*
18988987 TGAAAATATAAAAAATTATTG
1 TGAAAAAATAAAAAATTATTG
18989008 T
1 T
18989009 TTAATAGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (21 bp):
TGAAAAAATAAAAAATTATTG
Found at i:18989691 original size:2 final size:2
Alignment explanation
Indices: 18989649--18989674 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18989639 TTAAGTGGTG
18989649 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
18989675 AAGTTAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18990286 original size:20 final size:20
Alignment explanation
Indices: 18990261--18990308 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
18990251 TTAATTATAT
18990261 TTTATTTATAATTT-TTTAAA
1 TTTATTT-TAATTTCTTTAAA
*
18990281 TTTATTTTAGTTTCTTTAAA
1 TTTATTTTAATTTCTTTAAA
18990301 TTTATTTT
1 TTTATTTT
18990309 TAAAGTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTATTTTAATTTCTTTAAA
Found at i:19005918 original size:2 final size:2
Alignment explanation
Indices: 19005911--19005940 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19005901 TTCAATTTTC
*
19005911 AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19005941 CTACTTCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:19009486 original size:287 final size:287
Alignment explanation
Indices: 19008943--19009513 Score: 896
Period size: 287 Copynumber: 2.0 Consensus size: 287
19008933 TGACAACATG
* * *
19008943 ATTGTGAAAAGCAAGAGCTCGACTGAGCACTTGGAAACCTAAAAAAAATATTCAACACATCAATG
1 ATTGTGAAAAGCAAGAGCTCGACTAAGCACTTGAAAACCTAAAAAAAACATTCAACACATCAATG
* *
19009008 AACTATAATATAAAGCTCAACCTAAGCAAATATGCATTTAGAGTTACGACTAGCAAATTCATAAG
66 AACTATAATATAAAGCTCAACCCAAGCAAATATGCATTTAGAGTTACAACTAGCAAATTCATAAG
*
19009073 ATACATGATTAACTAGAGAGGTATAGAAGGTAATCCTAAAAAAGTTTGAGCTATTTTGGATATGA
131 ATACATGATTAACTAGAGAGGTATAGAAGGTAATCCTAAAAAAGTTTAAGCTATTTTGGATATGA
*
19009138 AAAATACAAACCTCAATAAAAGATCTACAAAGGTTATCTAAGAGAATTACCTCACTGAGCAAGTT
196 AAAATACAAACCTCAATAAAAGATCTACAAAAGTTATCTAAGAGAATTACCTCACTGAGCAAGTT
19009203 TATGTCAAGGTCAACAGATCGGTGTTT
261 TATGTCAAGGTCAACAGATCGGTGTTT
* ** * * *
19009230 ATTGTGAAAAGCAAGAGCTCGGCTAAGCACTTGAAAACCTGGAGAAAACATTCAATACATTAA-G
1 ATTGTGAAAAGCAAGAGCTCGACTAAGCACTTGAAAACCTAAAAAAAACATTCAACACATCAATG
* *
19009294 AAACTATAATATAAAGCTCAACCCAAGCAAATATGCATTTAGAGTTACAACTAGTAAATTCCTAA
66 -AACTATAATATAAAGCTCAACCCAAGCAAATATGCATTTAGAGTTACAACTAGCAAATTCATAA
19009359 GATACATGATTAACTAGAGAGGTATAGAAGGTAA-CCTAAAAAAAGTTTAAGCTATTTTGGATAT
130 GATACATGATTAACTAGAGAGGTATAGAAGGTAATCCT-AAAAAAGTTTAAGCTATTTTGGATAT
* * * * * *
19009423 G-AAAATACAAACCTTAATAAAAGATGTACAAAAGTTATCTGAGAGAGTTACCCTTATTGAGCAA
194 GAAAAATACAAACCTCAATAAAAGATCTACAAAAGTTATCTAAGAGAATTA-CCTCACTGAGCAA
*
19009487 GTTTATGTCAAGGTCAGCAGATCGGTG
258 GTTTATGTCAAGGTCAACAGATCGGTG
19009514 CTTACCATTT
Statistics
Matches: 259, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
286 48 0.19
287 211 0.81
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (287 bp):
ATTGTGAAAAGCAAGAGCTCGACTAAGCACTTGAAAACCTAAAAAAAACATTCAACACATCAATG
AACTATAATATAAAGCTCAACCCAAGCAAATATGCATTTAGAGTTACAACTAGCAAATTCATAAG
ATACATGATTAACTAGAGAGGTATAGAAGGTAATCCTAAAAAAGTTTAAGCTATTTTGGATATGA
AAAATACAAACCTCAATAAAAGATCTACAAAAGTTATCTAAGAGAATTACCTCACTGAGCAAGTT
TATGTCAAGGTCAACAGATCGGTGTTT
Found at i:19012619 original size:21 final size:22
Alignment explanation
Indices: 19012594--19012634 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
19012584 GGACTAACAT
*
19012594 GTCCTC-AAGCTTTTGGCTTAA
1 GTCCTCGAAGCTTTTAGCTTAA
*
19012615 GTCCTCGAATCTTTTAGCTT
1 GTCCTCGAAGCTTTTAGCTT
19012635 TTTACCAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (22 bp):
GTCCTCGAAGCTTTTAGCTTAA
Found at i:19015230 original size:29 final size:29
Alignment explanation
Indices: 19015158--19015231 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
19015148 TTATTTCTAA
* *
19015158 AATAATTTTTATTTATTTTTAAAAATTTT
1 AATACTTTTTATTTTTTTTTAAAAATTTT
** *
19015187 -ATCATCTTTGAATTTTTTTTTCAAAATTTT
1 AAT-A-CTTTTTATTTTTTTTTAAAAATTTT
19015217 AATACTTTTTATTTT
1 AATACTTTTTATTTT
19015232 GACTGAAAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
28 2 0.06
29 10 0.29
30 21 0.60
31 2 0.06
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.62
Consensus pattern (29 bp):
AATACTTTTTATTTTTTTTTAAAAATTTT
Found at i:19015404 original size:27 final size:27
Alignment explanation
Indices: 19015374--19015433 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
19015364 TCATTGTAAT
* *
19015374 ATTTTTATCTATTTTAAAAAATTATTA
1 ATTTTTATCAAATTTAAAAAATTATTA
* *
19015401 ATTTTT-TCAAATTTAAAAACTTCTTA
1 ATTTTTATCAAATTTAAAAAATTATTA
*
19015427 TTTTTTA
1 ATTTTTA
19015434 ACTAATCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTTTTATCAAATTTAAAAAATTATTA
Found at i:19015528 original size:23 final size:23
Alignment explanation
Indices: 19015497--19015559 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
19015487 ATTAAAAAAC
*
19015497 AAAAAAATTAAATA-AAATAGAA-T
1 AAAATAATTAAA-ACAAATA-AAGT
19015520 AAAATAATTAAAACAAATAAAGT
1 AAAATAATTAAAACAAATAAAGT
19015543 AAAATAATTAAAACAAA
1 AAAATAATTAAAACAAA
19015560 AATATGAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 3 0.08
23 34 0.92
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (23 bp):
AAAATAATTAAAACAAATAAAGT
Found at i:19016802 original size:10 final size:10
Alignment explanation
Indices: 19016787--19016816 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19016777 ATCGAGCTTT
19016787 TATATTTTAA
1 TATATTTTAA
19016797 TATATTTTAA
1 TATATTTTAA
19016807 T-TATTTTAA
1 TATATTTTAA
19016816 T
1 T
19016817 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:19016813 original size:9 final size:9
Alignment explanation
Indices: 19016789--19016818 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
19016779 CGAGCTTTTA
19016789 TATTTTAAT
1 TATTTTAAT
19016798 ATATTTTAAT
1 -TATTTTAAT
19016808 TATTTTAAT
1 TATTTTAAT
19016817 TA
1 TA
19016819 ATAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:19019202 original size:12 final size:12
Alignment explanation
Indices: 19019165--19019257 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 12
19019155 TATTTATTCG
19019165 TAAATAT-TAAA
1 TAAATATATAAA
**
19019176 TAAATATATCCA
1 TAAATATATAAA
19019188 TAAATATATATATAA
1 T-AA-ATATATA-AA
**
19019203 TCAAATATATTCA
1 T-AAATATATAAA
*
19019216 TAAATA-ATAAT
1 TAAATATATAAA
19019227 TAAATCATAATTAAA
1 TAAAT-AT-A-TAAA
19019242 TAAAT-T-TAAA
1 TAAATATATAAA
19019252 TAAATA
1 TAAATA
19019258 AATTTTAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
10 9 0.15
11 14 0.23
12 9 0.15
13 5 0.08
14 13 0.21
15 12 0.19
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (12 bp):
TAAATATATAAA
Found at i:19019232 original size:28 final size:26
Alignment explanation
Indices: 19019168--19019233 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 26
19019158 TTATTCGTAA
19019168 ATATTAAAT-AAATATATCCATAAAT
1 ATATTAAATCAAATATATCCATAAAT
*
19019193 ATATATATAATCAAATATATTCATAAAT
1 ATAT-TA-AATCAAATATATCCATAAAT
19019221 AATAATTAAATCA
1 -AT-ATTAAATCA
19019234 TAATTAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
25 4 0.11
26 2 0.06
27 3 0.09
28 20 0.57
29 4 0.11
30 2 0.06
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (26 bp):
ATATTAAATCAAATATATCCATAAAT
Found at i:19019252 original size:10 final size:10
Alignment explanation
Indices: 19019237--19019312 Score: 63
Period size: 10 Copynumber: 7.9 Consensus size: 10
19019227 TAAATCATAA
19019237 TTAAATAAAT
1 TTAAATAAAT
19019247 TTAAATAAA-
1 TTAAATAAAT
19019256 -TAAAT---T
1 TTAAATAAAT
*
19019262 TTAAATGAAT
1 TTAAATAAAT
*
19019272 CTAAATAAAT
1 TTAAATAAAT
*
19019282 ATAAATAAAT
1 TTAAATAAAT
19019292 CTTAAATATAAT
1 -TTAAATA-AAT
*
19019304 TAAAATAAA
1 TTAAATAAA
19019313 AAATAAAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
7 5 0.09
8 5 0.09
10 29 0.54
11 12 0.22
12 3 0.06
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.36
Consensus pattern (10 bp):
TTAAATAAAT
Found at i:19019264 original size:15 final size:14
Alignment explanation
Indices: 19019238--19019299 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
19019228 AAATCATAAT
19019238 TAAATAAATTTAAA
1 TAAATAAATTTAAA
19019252 TAAATAAATTTTAAA
1 TAAATAAA-TTTAAA
* *
19019267 TGAATCTAAA-TAAATA
1 T-AA-ATAAATTTAA-A
19019283 TAAATAAATCTTAAA
1 TAAATAAAT-TTAAA
19019298 TA
1 TA
19019300 TAATTAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
14 12 0.32
15 15 0.39
16 7 0.18
17 4 0.11
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (14 bp):
TAAATAAATTTAAA
Found at i:19019276 original size:21 final size:22
Alignment explanation
Indices: 19019252--19019312 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
19019242 TAAATTTAAA
* *
19019252 TAAATAAATTTTAAATGAATC-
1 TAAATAAATTATAAATAAATCT
19019273 TAAATAAA-TATAAATAAATCT
1 TAAATAAATTATAAATAAATCT
19019294 TAAATATAATTA-AAATAAA
1 TAAATA-AATTATAAATAAA
19019313 AAATAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 10 0.29
21 14 0.40
22 9 0.26
23 2 0.06
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (22 bp):
TAAATAAATTATAAATAAATCT
Found at i:19019743 original size:15 final size:15
Alignment explanation
Indices: 19019712--19019740 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19019702 TAATAAAATC
19019712 AAATTTATTAATTTT
1 AAATTTATTAATTTT
19019727 AAATTT-TTAATTTT
1 AAATTTATTAATTTT
19019741 TAATCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AAATTTATTAATTTT
Found at i:19021789 original size:16 final size:16
Alignment explanation
Indices: 19021768--19021800 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19021758 TGTAAGGATG
19021768 AGAAAAAAAAAAGAAA
1 AGAAAAAAAAAAGAAA
*
19021784 AGAAAAGAAAAAGAAA
1 AGAAAAAAAAAAGAAA
19021800 A
1 A
19021801 CATAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAAGAAA
Found at i:19023657 original size:59 final size:59
Alignment explanation
Indices: 19023562--19023675 Score: 169
Period size: 59 Copynumber: 1.9 Consensus size: 59
19023552 TATAGCCCAA
* *
19023562 ATTGTTGTCATATAAAGCTAATTTAGCCAATTTTCTTTTAAT-TTTGTCAAATTGATCAT
1 ATTGTTGTCACATAAAGCTAATTTAGCCAATTTTCTTTT-ATGTTTATCAAATTGATCAT
*
19023621 ATTGTTGTCACATAAAGCTAATTTAGCC-CTTATTCTTTTATGTTTATCAAATTGA
1 ATTGTTGTCACATAAAGCTAATTTAGCCAATT-TTCTTTTATGTTTATCAAATTGA
19023676 CCAGATTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 4 0.08
59 46 0.92
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (59 bp):
ATTGTTGTCACATAAAGCTAATTTAGCCAATTTTCTTTTATGTTTATCAAATTGATCAT
Found at i:19029272 original size:14 final size:13
Alignment explanation
Indices: 19029255--19029289 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
19029245 AATTTACATA
19029255 TATATATTTATAAT
1 TATATATTT-TAAT
19029269 TATAATATTTTAAT
1 TAT-ATATTTTAAT
19029283 TATATAT
1 TATATAT
19029290 ATTTTATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 10 0.50
15 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATATATTTTAAT
Found at i:19033495 original size:29 final size:32
Alignment explanation
Indices: 19033452--19033525 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 32
19033442 TAATTTAATT
* *
19033452 ATATATAAATGTAATTTTTTTACTAA-ATTA-AG
1 ATATATAAA--TAATATTTTTACTAACATTATAC
*
19033484 ATAT-TAAATAATATTTTTATTAACATTATAC
1 ATATATAAATAATATTTTTACTAACATTATAC
19033515 ATATATAAATA
1 ATATATAAATA
19033526 TAAATTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 13 0.36
30 4 0.11
31 9 0.25
32 10 0.28
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (32 bp):
ATATATAAATAATATTTTTACTAACATTATAC
Found at i:19033868 original size:13 final size:12
Alignment explanation
Indices: 19033822--19033882 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
19033812 CTCACAAATT
19033822 TATTAAATTAAAA
1 TATTAAA-TAAAA
*
19033835 TATTAAATAATA
1 TATTAAATAAAA
* *
19033847 TTTTTAATAAAA
1 TATTAAATAAAA
*
19033859 TATATAAATATAGA
1 TAT-TAAATA-AAA
19033873 -ATTAAATAAA
1 TATTAAATAAA
19033883 TAATAAAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
11 1 0.03
12 21 0.55
13 14 0.37
14 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
TATTAAATAAAA
Found at i:19034514 original size:17 final size:17
Alignment explanation
Indices: 19034492--19034527 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
19034482 CTTTTATTTA
19034492 ATAAATAACATGCATAT
1 ATAAATAACATGCATAT
*
19034509 ATAAATAACATGTATAT
1 ATAAATAACATGCATAT
19034526 AT
1 AT
19034528 CAAAATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (17 bp):
ATAAATAACATGCATAT
Found at i:19037945 original size:30 final size:29
Alignment explanation
Indices: 19037909--19037969 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
19037899 ACTCATTTTA
19037909 TTAAATTTAATTTATATAATAAAAAAAA-AT
1 TTAAATTT-ATTTATA-AATAAAAAAAATAT
* *
19037939 TTAAATTTTTTTTTAAATAAAAAAAATAT
1 TTAAATTTATTTATAAATAAAAAAAATAT
19037968 TT
1 TT
19037970 TATATAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 11 0.39
29 9 0.32
30 8 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAAATTTATTTATAAATAAAAAAAATAT
Found at i:19038455 original size:39 final size:38
Alignment explanation
Indices: 19038386--19038464 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 38
19038376 TAAGTATTAG
* * *
19038386 ATTCAGGCAATATAGGAAGCAACTTTAGACACCATAAC
1 ATTCAGGCAATATAAGAAGCAACTTCAGACAACATAAC
*
19038424 ATTCTAGGCAATATAAGAGGCAA-TTACAGACAACATAAC
1 ATTC-AGGCAATATAAGAAGCAACTT-CAGACAACATAAC
19038463 AT
1 AT
19038465 CCAGAAAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 6 0.17
39 29 0.83
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (38 bp):
ATTCAGGCAATATAAGAAGCAACTTCAGACAACATAAC
Found at i:19038853 original size:15 final size:15
Alignment explanation
Indices: 19038801--19038879 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 15
19038791 TTTACAAAAT
19038801 AACTATTCATAGAAC
1 AACTATTCATAGAAC
* * *
19038816 AACTTTTTCACATAAC
1 AAC-TATTCATAGAAC
** *
19038832 AGTTATTCATAGAAT
1 AACTATTCATAGAAC
* *
19038847 AACTATTCAAAAAAC
1 AACTATTCATAGAAC
* *
19038862 AACTCTTCATGGAAC
1 AACTATTCATAGAAC
19038877 AAC
1 AAC
19038880 ATTTTCATGG
Statistics
Matches: 45, Mismatches: 18, Indels: 2
0.69 0.28 0.03
Matches are distributed among these distances:
15 35 0.78
16 10 0.22
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.29
Consensus pattern (15 bp):
AACTATTCATAGAAC
Found at i:19041461 original size:13 final size:13
Alignment explanation
Indices: 19041443--19041468 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19041433 GATTCAAGTC
19041443 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
19041456 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
19041469 GTGAGTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAA
Found at i:19052990 original size:17 final size:16
Alignment explanation
Indices: 19052960--19052994 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19052950 TCCCTATCTC
19052960 TTTATTTTGATTATAG
1 TTTATTTTGATTATAG
*
19052976 TTTATATTTGCTTATAG
1 TTTAT-TTTGATTATAG
19052993 TT
1 TT
19052995 CATCAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.63
Consensus pattern (16 bp):
TTTATTTTGATTATAG
Found at i:19059602 original size:17 final size:16
Alignment explanation
Indices: 19059572--19059606 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19059562 TCACTATCTC
19059572 TTTATTTTTATTATAG
1 TTTATTTTTATTATAG
*
19059588 TTTATATTTTCTTATAG
1 TTTAT-TTTTATTATAG
19059605 TT
1 TT
19059607 CATCAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTATTTTTATTATAG
Found at i:19060604 original size:15 final size:15
Alignment explanation
Indices: 19060586--19060620 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
19060576 AAATATGTAT
19060586 ATAATATATAAT-AAA
1 ATAATA-ATAATAAAA
19060601 ATAATAATAATAAAA
1 ATAATAATAATAAAA
19060616 ATAAT
1 ATAAT
19060621 GATTTGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATAATAATAAAA
Found at i:19068471 original size:23 final size:23
Alignment explanation
Indices: 19068436--19068485 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
19068426 CAAAAATTGT
*
19068436 AATTAATAAAT-AATTAACTAATA
1 AATTAATAAATAAATAAAC-AATA
19068459 AATTAA-AATATAAATAAACAATA
1 AATTAATAA-ATAAATAAACAATA
19068482 AATT
1 AATT
19068486 CACACAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 2 0.08
23 16 0.67
24 6 0.25
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (23 bp):
AATTAATAAATAAATAAACAATA
Found at i:19068744 original size:10 final size:10
Alignment explanation
Indices: 19068731--19068788 Score: 53
Period size: 10 Copynumber: 5.3 Consensus size: 10
19068721 TTTTTTTTAC
19068731 TTTTTTAATA
1 TTTTTTAATA
19068741 TTTTTTAATA
1 TTTTTTAATA
*
19068751 TTTTTTCTAATT
1 -TTTTT-TAATA
19068763 TTTTGTTAAAATA
1 TTTT-TT--AATA
*
19068776 TTTTTTTATA
1 TTTTTTAATA
19068786 TTT
1 TTT
19068789 AATAAACATT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 16 0.40
11 10 0.25
12 7 0.17
13 7 0.17
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTTTAATA
Found at i:19069282 original size:13 final size:13
Alignment explanation
Indices: 19069266--19069307 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
19069256 TTTTATTATT
19069266 TTTTCTTCCTTTA
1 TTTTCTTCCTTTA
*
19069279 TTTTTTTCCTTTA
1 TTTTCTTCCTTTA
19069292 TTTTTTCTTCCTTTA
1 --TTTTCTTCCTTTA
19069307 T
1 T
19069308 GGAAACGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 13 0.52
15 12 0.48
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTCTTCCTTTA
Found at i:19069282 original size:28 final size:27
Alignment explanation
Indices: 19069246--19069307 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 27
19069236 TTTTTTGTCT
*
19069246 TTTATTTTTATTTTATTATTTTTTCTTCC
1 TTTATTTTT-TTCT-TTATTTTTTCTTCC
19069275 TTTATTTTTTTCCTTTATTTTTTCTTCC
1 TTTATTTTTTT-CTTTATTTTTTCTTCC
19069303 TTTAT
1 TTTAT
19069308 GGAAACGTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (27 bp):
TTTATTTTTTTCTTTATTTTTTCTTCC
Found at i:19069297 original size:12 final size:13
Alignment explanation
Indices: 19069265--19069307 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 13
19069255 ATTTTATTAT
19069265 TTTTTCTTCCTTTA
1 TTTTT-TTCCTTTA
19069279 TTTTTTTCCTTTA
1 TTTTTTTCCTTTA
19069292 TTTTTTCTTCCTTTA
1 -TTTTT-TTCCTTTA
19069307 T
1 T
19069308 GGAAACGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.30
14 11 0.41
15 8 0.30
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTTCCTTTA
Found at i:19069302 original size:15 final size:15
Alignment explanation
Indices: 19069261--19069307 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
19069251 TTTTATTTTA
19069261 TTATTTTTTCTTCCT
1 TTATTTTTTCTTCCT
19069276 TTA-TTTTT-TTCCT
1 TTATTTTTTCTTCCT
19069289 TTATTTTTTCTTCCT
1 TTATTTTTTCTTCCT
19069304 TTAT
1 TTAT
19069308 GGAAACGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.27
14 10 0.33
15 12 0.40
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTTTTTCTTCCT
Found at i:19069620 original size:12 final size:12
Alignment explanation
Indices: 19069577--19069622 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
19069567 TTATTTTGAC
*
19069577 TATATATTAAAT
1 TATATATTTAAT
*
19069589 TATATTTTTAAT
1 TATATATTTAAT
*
19069601 TATTTATTTAAT
1 TATATATTTAAT
*
19069613 TGTATATTTA
1 TATATATTTA
19069623 TATATTAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (12 bp):
TATATATTTAAT
Found at i:19069649 original size:28 final size:30
Alignment explanation
Indices: 19069614--19069683 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
19069604 TTATTTAATT
*
19069614 GTATATTTATATATTAAATTAATAAAAATA
1 GTATATTTATATATTAAATTAACAAAAATA
* *
19069644 -T-TATTTAATATCTTAATTTAACAAAAATA
1 GTATATTT-ATATATTAAATTAACAAAAATA
19069673 GTATATTTATA
1 GTATATTTATA
19069684 CATAGTTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 5 0.15
29 20 0.59
30 4 0.12
31 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (30 bp):
GTATATTTATATATTAAATTAACAAAAATA
Found at i:19069776 original size:11 final size:12
Alignment explanation
Indices: 19069748--19069776 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19069738 TTTGACATGC
19069748 TATCTTATTTTT
1 TATCTTATTTTT
19069760 TATCTTATTTTT
1 TATCTTATTTTT
19069772 T-TCTT
1 TATCTT
19069777 TTTCAACCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (12 bp):
TATCTTATTTTT
Found at i:19070470 original size:7 final size:7
Alignment explanation
Indices: 19070452--19070518 Score: 64
Period size: 7 Copynumber: 9.0 Consensus size: 7
19070442 GCACCTTTTT
19070452 TTTTTCA
1 TTTTTCA
19070459 TTTTTTCA
1 -TTTTTCA
19070467 TTTTTTTC-
1 --TTTTTCA
19070475 TTTTTCA
1 TTTTTCA
*
19070482 TTTTTCC
1 TTTTTCA
19070489 TTTTTCA
1 TTTTTCA
19070496 TTTTTCTA
1 TTTTTC-A
*
19070504 TTTTTTCG
1 -TTTTTCA
19070512 TTTTTCA
1 TTTTTCA
19070519 ACCTTTTGGC
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
6 6 0.12
7 24 0.47
8 8 0.16
9 13 0.25
ACGTcount: A:0.09, C:0.15, G:0.01, T:0.75
Consensus pattern (7 bp):
TTTTTCA
Found at i:19073466 original size:20 final size:21
Alignment explanation
Indices: 19073428--19073469 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
19073418 ATATTGACAT
19073428 AATTTTATTTAATTATTATAA
1 AATTTTATTTAATTATTATAA
19073449 AATTTTA-TTAA-TATTTATAA
1 AATTTTATTTAATTA-TTATAA
19073469 A
1 A
19073470 TATATCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 2 0.10
20 11 0.55
21 7 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTTTATTTAATTATTATAA
Found at i:19074438 original size:36 final size:36
Alignment explanation
Indices: 19074355--19074431 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
19074345 ATTTTTTTTT
* *
19074355 AAAGTTTAAATAATTTGAAATATTTTAAGAATTTATAA
1 AAAG-TTAAA-AATATGAAATATTTTAAGAAATTATAA
*
19074393 AAAGTTAAAAATATGAAATATTTGTAA-AAATTATGA
1 AAAGTTAAAAATATGAAATATTT-TAAGAAATTATAA
19074429 AAA
1 AAA
19074432 TGTAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 23 0.66
37 8 0.23
38 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (36 bp):
AAAGTTAAAAATATGAAATATTTTAAGAAATTATAA
Found at i:19074455 original size:18 final size:17
Alignment explanation
Indices: 19074428--19074487 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 17
19074418 AAAAATTATG
19074428 AAAATGTAAAATTTAAAA
1 AAAAT-TAAAATTTAAAA
*
19074446 AAAATCTAAAAATTTTAATA
1 AAAAT-T-AAAA-TTTAAAA
*
19074466 AAAA-TAAAATTTCAAA
1 AAAATTAAAATTTAAAA
19074482 AAAATT
1 AAAATT
19074488 TTGAAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 9 0.26
17 5 0.14
18 7 0.20
19 4 0.11
20 10 0.29
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATTAAAATTTAAAA
Found at i:19074477 original size:36 final size:35
Alignment explanation
Indices: 19074434--19074512 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 35
19074424 TATGAAAATG
19074434 TAAAATTT-AAAAAAAATCTAAAAATTTTAATAAAAA
1 TAAAATTTCAAAAAAAATCTAAAAATTTTAAT--AAA
* * *
19074470 TAAAATTTCAAAAAAATTTTGAAAATTTTAATAAA
1 TAAAATTTCAAAAAAAATCTAAAAATTTTAATAAA
19074505 TAAAATTT
1 TAAAATTT
19074513 TCATAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 11 0.28
36 8 0.21
37 20 0.51
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (35 bp):
TAAAATTTCAAAAAAAATCTAAAAATTTTAATAAA
Found at i:19074511 original size:15 final size:16
Alignment explanation
Indices: 19074454--19074525 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 16
19074444 AAAAAATCTA
*
19074454 AAAATTTTAATAAAAAT
1 AAAATTTTAAT-AAATT
* *
19074471 AAAATTTCAAAAAAATTTT
1 AAAATTT-TAATAAA--TT
19074490 GAAAATTTTAATAAA-T
1 -AAAATTTTAATAAATT
*
19074506 AAAATTTTCATAAATT
1 AAAATTTTAATAAATT
19074522 AAAA
1 AAAA
19074526 AAAGCACAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
15 13 0.30
16 6 0.14
17 10 0.23
18 2 0.05
19 6 0.14
20 7 0.16
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (16 bp):
AAAATTTTAATAAATT
Found at i:19074592 original size:21 final size:21
Alignment explanation
Indices: 19074568--19074624 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 21
19074558 AAAAAAACCT
19074568 AAAATTTTTAAAAAATATAT-G
1 AAAATTTTTAAAAAAT-TATGG
*
19074589 AAAATTTTT--AAAATTTTGG
1 AAAATTTTTAAAAAATTATGG
19074608 AAAATTTTTAAAAAATT
1 AAAATTTTTAAAAAATT
19074625 CTAAAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.06
19 15 0.47
21 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (21 bp):
AAAATTTTTAAAAAATTATGG
Found at i:19074630 original size:19 final size:19
Alignment explanation
Indices: 19074566--19074630 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
19074556 AAAAAAAAAC
19074566 CTAAAATTTTTAAAAAATAT
1 CTAAAATTTTTAAAAAAT-T
* **
19074586 ATGAAAATTTTTAAAATTTT
1 CT-AAAATTTTTAAAAAATT
**
19074606 GGAAAATTTTTAAAAAATT
1 CTAAAATTTTTAAAAAATT
19074625 CTAAAA
1 CTAAAA
19074631 AATTAAAAAC
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
19 19 0.54
20 2 0.06
21 14 0.40
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (19 bp):
CTAAAATTTTTAAAAAATT
Found at i:19074632 original size:21 final size:21
Alignment explanation
Indices: 19074568--19074634 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
19074558 AAAAAAACCT
19074568 AAAATTTTTAAAAAA-TATATG
1 AAAATTTTTAAAAAATTATA-G
* *
19074589 AAAATTTTT--AAAATTTTGG
1 AAAATTTTTAAAAAATTATAG
* *
19074608 AAAATTTTTAAAAAATTCTAA
1 AAAATTTTTAAAAAATTATAG
19074629 AAAATT
1 AAAATT
19074635 AAAAACTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 14 0.37
20 2 0.05
21 22 0.58
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAATTTTTAAAAAATTATAG
Found at i:19074768 original size:20 final size:20
Alignment explanation
Indices: 19074745--19074802 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
19074735 ATTTGTCAAT
19074745 AATTTTT-AAAATGTTTTAGA
1 AATTTTTAAAAAT-TTTTAGA
19074765 AATTTTTAAAAATTTTTAG-
1 AATTTTTAAAAATTTTTAGA
* *
19074784 ATTTTTTCAAAAAATTTTA
1 AATTTTT-AAAAATTTTTA
19074803 TATTTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.18
20 23 0.68
21 5 0.15
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (20 bp):
AATTTTTAAAAATTTTTAGA
Found at i:19074771 original size:10 final size:10
Alignment explanation
Indices: 19074745--19074784 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
19074735 ATTTGTCAAT
19074745 AATTTTTA-A
1 AATTTTTAGA
19074754 AATGTTTTAGA
1 AAT-TTTTAGA
*
19074765 AATTTTTAAA
1 AATTTTTAGA
19074775 AATTTTTAGA
1 AATTTTTAGA
19074785 TTTTTTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 3 0.11
10 20 0.74
11 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (10 bp):
AATTTTTAGA
Found at i:19074811 original size:21 final size:19
Alignment explanation
Indices: 19074747--19074810 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
19074737 TTGTCAATAA
** *
19074747 TTTTTAAAATGTTTTAGAAA
1 TTTTTAAAAAATTTTAG-AT
*
19074767 TTTTTAAAAATTTTTAGAT
1 TTTTTAAAAAATTTTAGAT
*
19074786 TTTTTCAAAAAATTTTATAT
1 TTTTT-AAAAAATTTTAGAT
19074806 TTTTT
1 TTTTT
19074811 TAAGTTTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
19 6 0.16
20 32 0.84
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTTTAAAAAATTTTAGAT
Found at i:19074820 original size:17 final size:17
Alignment explanation
Indices: 19074798--19074835 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
19074788 TTTCAAAAAA
19074798 TTTTATATTT-TTTTAAG
1 TTTTAT-TTTATTTTAAG
19074815 TTTTATTTTATTTTAAG
1 TTTTATTTTATTTTAAG
19074832 TTTT
1 TTTT
19074836 TATGAATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTTATTTTATTTTAAG
Found at i:19074891 original size:55 final size:54
Alignment explanation
Indices: 19074788--19074891 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 54
19074778 TTTTAGATTT
* * *
19074788 TTTCAAAAAATTTTATATTTTTTTAAGTTTTATTTTATTTTAAGTTTTTATGAA
1 TTTCAAAAAATTTTATATTTTTTAAAATTTTATTTTATTTGAAGTTTTTATGAA
*
19074842 TTTCAAGAAAATTTTAT-TTTTATTAAAATTTTCATTTT-TTTGAATTTTTT
1 TTTCAA-AAAATTTTATATTTT-TTAAAATTTT-ATTTTATTTGAAGTTTTT
19074892 GGATTTAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
54 10 0.23
55 28 0.65
56 5 0.12
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (54 bp):
TTTCAAAAAATTTTATATTTTTTAAAATTTTATTTTATTTGAAGTTTTTATGAA
Found at i:19074983 original size:38 final size:40
Alignment explanation
Indices: 19074894--19074990 Score: 105
Period size: 38 Copynumber: 2.5 Consensus size: 40
19074884 AATTTTTTGG
* * * *
19074894 ATTTAAGATTTTTTGAATTTTTTATAATTTTTTCAAAAAT
1 ATTTTAGATTTTTTAAATTTCTTATAACTTTTTCAAAAAT
19074934 ATTTCT--A-TTTTTAAATTTCTTAT-ACTTTTT-AAAAAT
1 ATTT-TAGATTTTTTAAATTTCTTATAACTTTTTCAAAAAT
19074970 ATTTTAGATTTTTTGAAATTT
1 ATTTTAGATTTTTT-AAATTT
19074991 TCTTTTAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
35 1 0.02
36 10 0.21
37 7 0.15
38 19 0.40
39 7 0.15
40 4 0.08
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (40 bp):
ATTTTAGATTTTTTAAATTTCTTATAACTTTTTCAAAAAT
Found at i:19075963 original size:25 final size:23
Alignment explanation
Indices: 19075904--19075993 Score: 65
Period size: 25 Copynumber: 3.7 Consensus size: 23
19075894 AAAGGCAACG
*
19075904 TTTTTAAAATAAAAAATGTTATT
1 TTTTTAAAATAAAAAATATTATT
19075927 TTTGTTAAAAATATGAAAAATATTA-T
1 TTT-TT-AAAATA--AAAAATATTATT
* * * *
19075953 TTTTTAGAAATTAATAAAGATGATA
1 TTTTTA-AAA-TAAAAAATATTATT
*
19075978 TTTTTAAGATAAAAAA
1 TTTTTAAAATAAAAAA
19075994 CACAATTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
23 9 0.17
24 12 0.23
25 17 0.32
26 6 0.11
27 9 0.17
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (23 bp):
TTTTTAAAATAAAAAATATTATT
Found at i:19076033 original size:20 final size:20
Alignment explanation
Indices: 19075966--19076034 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
19075956 TTAGAAATTA
*
19075966 ATAAAGATGATATTTTTAAG
1 ATAAAAATGATATTTTTAAG
** * **
19075986 ATAAAAAACACAATTTTTGTTG
1 ATAAAAATGA-TATTTTT-AAG
*
19076008 AAAAAAATGATATTTTTAAG
1 ATAAAAATGATATTTTTAAG
19076028 ATAAAAA
1 ATAAAAA
19076035 CACAATTTTT
Statistics
Matches: 34, Mismatches: 13, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
20 14 0.41
21 12 0.35
22 8 0.24
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (20 bp):
ATAAAAATGATATTTTTAAG
Found at i:19076042 original size:20 final size:21
Alignment explanation
Indices: 19075977--19076045 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
19075967 TAAAGATGAT
19075977 ATTTTTAAGATAAAAAACACA
1 ATTTTTAAGATAAAAAACACA
* *
19075998 ATTTTT--GTTGAAAAAA-ATGA
1 ATTTTTAAGAT-AAAAAACA-CA
19076018 TATTTTTAAGAT-AAAAACACA
1 -ATTTTTAAGATAAAAAACACA
19076039 ATTTTTA
1 ATTTTTA
19076046 CTGTTAACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
19 3 0.08
20 14 0.37
21 18 0.47
22 1 0.03
23 2 0.05
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (21 bp):
ATTTTTAAGATAAAAAACACA
Found at i:19076313 original size:41 final size:41
Alignment explanation
Indices: 19076266--19076349 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
19076256 AGAATTCAAT
** *
19076266 AAAAATGATGTTTCTAAGATAAAAACATAGTTTTTATTGAA
1 AAAAATGACATTTCTAAGATAAAAACATAATTTTTATTGAA
* * *
19076307 AAAAATGACATTTTTAAGATAAAAATATAATTTTTGTTGAA
1 AAAAATGACATTTCTAAGATAAAAACATAATTTTTATTGAA
19076348 AA
1 AA
19076350 TAAGAAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.37
Consensus pattern (41 bp):
AAAAATGACATTTCTAAGATAAAAACATAATTTTTATTGAA
Found at i:19076339 original size:20 final size:19
Alignment explanation
Indices: 19076266--19076341 Score: 55
Period size: 21 Copynumber: 3.7 Consensus size: 19
19076256 AGAATTCAAT
*
19076266 AAAAATGATGTTTCTAAGATA
1 AAAAATAAT-TTT-TAAGATA
* *
19076287 AAAACATAGTTTTTATTGA-A
1 AAAA-ATAATTTTTA-AGATA
19076307 AAAAATGACATTTTTAAGATA
1 AAAAAT-A-ATTTTTAAGATA
19076328 AAAATATAATTTTT
1 AAAA-ATAATTTTT
19076342 GTTGAAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 2 0.05
20 16 0.36
21 21 0.48
22 5 0.11
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (19 bp):
AAAAATAATTTTTAAGATA
Found at i:19076471 original size:113 final size:113
Alignment explanation
Indices: 19076256--19076463 Score: 253
Period size: 113 Copynumber: 1.8 Consensus size: 113
19076246 ATATAGTTTC
* * * *
19076256 AGAATTCAATAAAAATGATGTTTCTAAGATAAAAACATAGTTTTTATTGAAAAAAATGACATTTT
1 AGAATTCAATAAAAATAAAGTTTCTAAGATAAAAACATAATTTTTATTGAAAAAAATGACATTTC
**
19076321 TAAGATAAAAATATAATTTTTGTTGAAAATAAGAAAAATATGTTTTTT
66 TAAGATAAAAATATAATTTTAATTGAAAATAAGAAAAATATGTTTTTT
* ** * *
19076369 AGAATTCAATAAAGATAAAGTTTCTAAGATAAAAATGTAATTTTTGTTG-AAAATAT-AGCATTT
1 AGAATTCAATAAAAATAAAGTTTCTAAGATAAAAACATAATTTTTATTGAAAAAAATGA-CATTT
19076432 CTAAGATAAACAA-ATGCAATTTTAATT-AAAAT
65 CTAAGATAAA-AATAT--AATTTTAATTGAAAAT
19076464 TATAAAAAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
111 1 0.01
112 22 0.28
113 49 0.61
114 8 0.10
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.37
Consensus pattern (113 bp):
AGAATTCAATAAAAATAAAGTTTCTAAGATAAAAACATAATTTTTATTGAAAAAAATGACATTTC
TAAGATAAAAATATAATTTTAATTGAAAATAAGAAAAATATGTTTTTT
Found at i:19076513 original size:37 final size:36
Alignment explanation
Indices: 19076472--19076543 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 36
19076462 ATTATAAAAA
19076472 ATAAAACGTAAAAT-ATATCTATTTAATATTATTACAT
1 ATAAAACGTAAAATCAT-TC-ATTTAATATTATTACAT
**
19076509 ATAAAATTTAAAATGCATTCATTTAATATTATTAC
1 ATAAAACGTAAAAT-CATTCATTTAATATTATTAC
19076544 GCATAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 27 0.87
38 2 0.06
39 2 0.06
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (36 bp):
ATAAAACGTAAAATCATTCATTTAATATTATTACAT
Found at i:19080903 original size:23 final size:25
Alignment explanation
Indices: 19080877--19080922 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19080867 GTTATTCATG
19080877 TGTT-AATAAAT-ATATTATGAAAA
1 TGTTAAATAAATGATATTATGAAAA
*
19080900 TGTTAAATAAATGATTTTATGAA
1 TGTTAAATAAATGATATTATGAA
19080923 TATCACACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
25 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (25 bp):
TGTTAAATAAATGATATTATGAAAA
Found at i:19082714 original size:45 final size:43
Alignment explanation
Indices: 19082637--19082722 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 43
19082627 CACTTGAGAT
* *
19082637 ATATATATATATATAAATATATTATTTATTTAATTTTATATTA
1 ATATATATATATATAAAAATATTATTTATTTAATTTAATATTA
* *
19082680 ATATATAT-TA-ATAAAAATATTATTTA-ATACTTTAAT-TTA
1 ATATATATATATATAAAAATATTATTTATTTAATTTAATATTA
19082719 ATAT
1 ATAT
19082723 GTTAATTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 7 0.18
40 7 0.18
41 15 0.38
42 2 0.05
43 8 0.21
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (43 bp):
ATATATATATATATAAAAATATTATTTATTTAATTTAATATTA
Found at i:19082792 original size:20 final size:18
Alignment explanation
Indices: 19082750--19082789 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19082740 ATTACATTTA
*
19082750 TTTATAATTAAAATGTAT
1 TTTATAATTAAAATATAT
*
19082768 TTTATATTTAAAATAATAT
1 TTTATAATTAAAAT-ATAT
19082787 TTT
1 TTT
19082790 TATGAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTATAATTAAAATATAT
Found at i:19083133 original size:29 final size:29
Alignment explanation
Indices: 19083060--19083118 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
19083050 CATTTTAATT
*
19083060 TTATATTAATAC-AT-A-TTAATAAAAATA
1 TTAT-TTAATACTATAATTTAATAAAAACA
*
19083087 TTATTTAATACTTTAATTTAATAAAAACA
1 TTATTTAATACTATAATTTAATAAAAACA
19083116 TTA
1 TTA
19083119 CATTTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 7 0.26
27 5 0.19
28 1 0.04
29 14 0.52
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (29 bp):
TTATTTAATACTATAATTTAATAAAAACA
Found at i:19085551 original size:19 final size:20
Alignment explanation
Indices: 19085500--19085551 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
19085490 CGGGTCATGA
*
19085500 TTTCTTATTATTATCAATGTT
1 TTTCATATTATTATCAATG-T
* *
19085521 TTTTATTTTTATTATCAATG-
1 TTTCA-TATTATTATCAATGT
19085541 TTTCATATTAT
1 TTTCATATTAT
19085552 ATTTATTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
19 5 0.20
20 4 0.16
21 3 0.12
22 13 0.52
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTCATATTATTATCAATGT
Found at i:19085551 original size:25 final size:22
Alignment explanation
Indices: 19085507--19085558 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 22
19085497 TGATTTCTTA
*
19085507 TTATTATCAATGTTTTTTATTT
1 TTATTATCAATGTTTTTTATAT
19085529 TTATTATCAATGTTTCATATTATAT
1 TTATTATCAATGTTT--T-TTATAT
19085554 TTATT
1 TTATT
19085559 TTTATATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 15 0.58
24 1 0.04
25 10 0.38
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (22 bp):
TTATTATCAATGTTTTTTATAT
Found at i:19085565 original size:12 final size:12
Alignment explanation
Indices: 19085548--19085612 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
19085538 ATGTTTCATA
19085548 TTATATTTATTT
1 TTATATTTATTT
19085560 TTATATTTATATT
1 TTATATTTAT-TT
* **
19085573 TAATAAGTA-TT
1 TTATATTTATTT
* *
19085584 TAAAATTTATTT
1 TTATATTTATTT
*
19085596 TTATTTTTATTT
1 TTATATTTATTT
19085608 TTATA
1 TTATA
19085613 AGTATTTAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 8 0.20
12 25 0.61
13 8 0.20
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (12 bp):
TTATATTTATTT
Done.