Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 40 of 182
Found at i:15135087 original size:24 final size:24
Alignment explanation
Indices: 15135060--15135177 Score: 182
Period size: 24 Copynumber: 4.9 Consensus size: 24
15135050 ATACAAGTCG
*
15135060 AGAATGGCTAGCTCTTACGAGCCC
1 AGAATGGTTAGCTCTTACGAGCCC
*
15135084 AGAATGGTTAGCTCTTATGAGCCC
1 AGAATGGTTAGCTCTTACGAGCCC
* * *
15135108 AGAAAGTTTAGCTCTTACGAACCC
1 AGAATGGTTAGCTCTTACGAGCCC
15135132 AGAATGGTTAGCTCTTACGAGCCC
1 AGAATGGTTAGCTCTTACGAGCCC
*
15135156 AGAATGTTTAGCTCTTACGAGC
1 AGAATGGTTAGCTCTTACGAGC
15135178 TCAAATAGAG
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 84 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (24 bp):
AGAATGGTTAGCTCTTACGAGCCC
Found at i:15138293 original size:30 final size:30
Alignment explanation
Indices: 15138234--15138396 Score: 175
Period size: 30 Copynumber: 5.4 Consensus size: 30
15138224 ACCGGGGTCA
* * *
15138234 AAAATGAAATTTTGG-AAGGTTTGAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
15138263 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
* * * *
15138293 AAAATGTAATATTGGTAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
* * *
15138323 AAAATGTAATTTTAGAAAAGTTTTAAGGTCA
1 AAAATGTAATTTTGGAAAAGTTTTAGGGT-T
** *
15138354 AAAATGTAATTTTTAAAAAGTTTTGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
* *
15138384 AATATATAATTTT
1 AAAATGTAATTTT
15138397 TAGACAGTTA
Statistics
Matches: 112, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
29 14 0.12
30 73 0.65
31 25 0.22
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.39
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTAGGGTT
Found at i:15138327 original size:60 final size:61
Alignment explanation
Indices: 15138253--15138396 Score: 182
Period size: 61 Copynumber: 2.4 Consensus size: 61
15138243 TTTTGGAAGG
* * * **
15138253 TTTGAGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGT-TAAAATGTAATATTGGTAAAGT
1 TTTG-GGGTTAAAATGTAATTTTAGAAAAGTTTTAAGGTCAAAAATGTAATATTGAAAAAGT
* * *
15138314 TTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTAAGGTCAAAAATGTAATTTTTAAAAAGT
1 TTTGGGGTTAAAATGTAATTTTAGAAAAGTTTTAAGGTCAAAAATGTAATATTGAAAAAGT
* *
15138375 TTTGGGGTTAATATATAATTTT
1 TTTGGGGTTAAAATGTAATTTT
15138397 TAGACAGTTA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 31 0.44
61 40 0.56
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (61 bp):
TTTGGGGTTAAAATGTAATTTTAGAAAAGTTTTAAGGTCAAAAATGTAATATTGAAAAAGT
Found at i:15139446 original size:12 final size:12
Alignment explanation
Indices: 15139416--15139440 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15139406 ATATTTAATA
15139416 AAAATTATTATT
1 AAAATTATTATT
15139428 AAAATTATTATT
1 AAAATTATTATT
15139440 A
1 A
15139441 CTATTAATGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAAATTATTATT
Found at i:15140273 original size:17 final size:16
Alignment explanation
Indices: 15140251--15140356 Score: 122
Period size: 17 Copynumber: 6.3 Consensus size: 16
15140241 TTTCTTTTTG
15140251 AATTTAAAATAACATTA
1 AATTTAAAATAA-ATTA
*
15140268 AATTTAAATTAAATTTA
1 AATTTAAAATAAA-TTA
*
15140285 AATTTAAATTAAATTCA
1 AATTTAAAATAAATT-A
* *
15140302 AATTTAAATTTAAATTG
1 AATTTAAA-ATAAATTA
15140319 AATTTAAAATAAATTTA
1 AATTTAAAATAAA-TTA
*
15140336 AATTTAAAATAAATTT
1 AATTTAAAATAAATTA
15140352 AATTT
1 AATTT
15140357 CTAAATGGTT
Statistics
Matches: 80, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
16 14 0.17
17 59 0.74
18 7 0.09
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (16 bp):
AATTTAAAATAAATTA
Found at i:15140276 original size:6 final size:6
Alignment explanation
Indices: 15140265--15140353 Score: 107
Period size: 6 Copynumber: 15.7 Consensus size: 6
15140255 TAAAATAACA
*
15140265 TTAAAT TTAAA- TTAAAT TTAAAT TTAAA- TTAAAT TCAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
15140311 TTAAA- TTGAAT TTAAA- ATAAAT TTAAAT TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
15140354 TTTCTAAATG
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
5 22 0.31
6 48 0.69
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:15140278 original size:11 final size:11
Alignment explanation
Indices: 15140264--15140353 Score: 94
Period size: 11 Copynumber: 8.0 Consensus size: 11
15140254 TTAAAATAAC
15140264 ATTAAATTTAA
1 ATTAAATTTAA
15140275 ATTAAATTTAA
1 ATTAAATTTAA
15140286 ATTTAAA-TTAA
1 A-TTAAATTTAA
15140297 ATTCAAATTTAA
1 ATT-AAATTTAA
*
15140309 ATTTAAATTGAA
1 A-TTAAATTTAA
* *
15140321 TTTAAA-ATAA
1 ATTAAATTTAA
15140331 ATTTAAATTTAA
1 A-TTAAATTTAA
*
15140343 AATAAATTTAA
1 ATTAAATTTAA
15140354 TTTCTAAATG
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
10 4 0.06
11 39 0.59
12 21 0.32
13 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:15140752 original size:91 final size:91
Alignment explanation
Indices: 15140617--15141251 Score: 946
Period size: 91 Copynumber: 6.9 Consensus size: 91
15140607 TCAGGGTTTT
* * ** * * *
15140617 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGGCTTGATATCCAACTCTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
* * *
15140682 AGGATAGGGAAAGATGTCGGTGCTTC
66 AGGATAGGAAAAGATGTTGGTCCTTC
* *
15140708 ATCTTGCTCTTACTTCAATTTCAAAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
* *
15140773 AGGATAGGAAAATAATGTTTGTCCTTC
66 AGGATAGGAAAA-GATGTTGGTCCTTC
* *
15140800 TTCTTACTCTTACTTCAATTTCGGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
15140865 AGGATAGGAAAAGATGTTGGTCCTTC
66 AGGATAGGAAAAGATGTTGGTCCTTC
* * * *
15140891 TTCTTACTCTTACTTCAATTCCAGAGAGACGAAGGCTTGTTATCCAACTTTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
15140956 AGGATAGGAAAAGATGTTGGTCCTTC
66 AGGATAGGAAAAGATGTTGGTCCTTC
* * **
15140982 TTCTTACTCTTACTTCAATTCCAGATAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
* *
15141047 AGGATAGGAAAAGATGTCGGTGCTTC
66 AGGATAGGAAAAGATGTTGGTCCTTC
* *
15141073 ATCTTGCTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
*
15141138 AGGATAGGAAAATGATGTTGGTGCTTC
66 AGGATAGGAAAA-GATGTTGGTCCTTC
* * * *
15141165 ATCTTACTTTTACTTCAATTTTAGAGGGACGAAGGCTTGTTATCCAGGTTTACTTCAATTTTAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
15141230 AGGATAGGAAAATGATGTTGGT
66 AGGATAGGAAAA-GATGTTGGT
15141252 TGATCTGATC
Statistics
Matches: 503, Mismatches: 39, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
91 326 0.65
92 177 0.35
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (91 bp):
ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
AGGATAGGAAAAGATGTTGGTCCTTC
Found at i:15140908 original size:45 final size:45
Alignment explanation
Indices: 15140859--15140999 Score: 103
Period size: 45 Copynumber: 3.1 Consensus size: 45
15140849 TTACTTCAAT
15140859 TTCAAGAGGATAGGAAAAGATGTTGGTCCTTCTTCTTACTCTTAC
1 TTCAAGAGGATAGGAAAAGATGTTGGTCCTTCTTCTTACTCTTAC
* * * * * * ** * *
15140904 TTCAATTCCAGAGAGACG-AAGGCTTGTT-ATCCAAC-T-TTACT-TCAAT
1 TTCAA---GAG-GATAGGAAAAG-ATGTTGGTCCTTCTTCTTACTCT-TAC
15140950 TTCAAGAGGATAGGAAAAGATGTTGGTCCTTCTTCTTACTCTTAC
1 TTCAAGAGGATAGGAAAAGATGTTGGTCCTTCTTCTTACTCTTAC
15140995 TTCAA
1 TTCAA
15141000 TTCCAGATAG
Statistics
Matches: 65, Mismatches: 20, Indels: 22
0.61 0.19 0.21
Matches are distributed among these distances:
42 8 0.12
43 9 0.14
44 1 0.02
45 17 0.26
46 12 0.18
47 1 0.02
48 9 0.14
49 8 0.12
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (45 bp):
TTCAAGAGGATAGGAAAAGATGTTGGTCCTTCTTCTTACTCTTAC
Found at i:15141157 original size:274 final size:274
Alignment explanation
Indices: 15140617--15141251 Score: 966
Period size: 274 Copynumber: 2.3 Consensus size: 274
15140607 TCAGGGTTTT
* ** * *
15140617 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGGCTTGATATCCAACTCTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGAGACGAAGGCTTGTTATCCAACTTTACTTCAATTTCAAG
* * * * * *
15140682 AGGATAGGGAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCAAAGGGACGAAGGCTTG
66 AGGATAGGAAAAGATGTTGGTCCTTCATCTTACTCTTACTTCAATTCCAAAGAGACGAAGGCTTG
** *
15140747 TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTTTGTCCTTCTTCTTACTCTTA
131 TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTCGGTCCTTCATCTTACTCTTA
* *
15140812 CTTCAATTTCGGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA
196 CTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA
15140877 GATGTTGGTCCTTC
261 GATGTTGGTCCTTC
* *
15140891 TTCTTACTCTTACTTCAATTCCAGAGAGACGAAGGCTTGTTATCCAACTTTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGAGACGAAGGCTTGTTATCCAACTTTACTTCAATTTCAAG
* * *
15140956 AGGATAGGAAAAGATGTTGGTCCTTCTTCTTACTCTTACTTCAATTCCAGATAGACGAAGGCTTG
66 AGGATAGGAAAAGATGTTGGTCCTTCATCTTACTCTTACTTCAATTCCAAAGAGACGAAGGCTTG
* * *
15141021 TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA-GATGTCGGTGCTTCATCTTGCTCTTA
131 TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTCGGTCCTTCATCTTACTCTTA
15141085 CTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA
196 CTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA
*
15141150 TGATGTTGGTGCTTC
261 -GATGTTGGTCCTTC
* * * ** *
15141165 ATCTTACTTTTACTTCAATTTTAGAGGGACGAAGGCTTGTTATCCAGGTTTACTTCAATTTTAAG
1 ATCTTACTCTTACTTCAATTTCAGAGAGACGAAGGCTTGTTATCCAACTTTACTTCAATTTCAAG
15141230 AGGATAGGAAAATGATGTTGGT
66 AGGATAGGAAAA-GATGTTGGT
15141252 TGATCTGATC
Statistics
Matches: 326, Mismatches: 33, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
273 83 0.25
274 234 0.72
275 9 0.03
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (274 bp):
ATCTTACTCTTACTTCAATTTCAGAGAGACGAAGGCTTGTTATCCAACTTTACTTCAATTTCAAG
AGGATAGGAAAAGATGTTGGTCCTTCATCTTACTCTTACTTCAATTCCAAAGAGACGAAGGCTTG
TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTCGGTCCTTCATCTTACTCTTA
CTTCAATTTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA
GATGTTGGTCCTTC
Found at i:15153030 original size:28 final size:28
Alignment explanation
Indices: 15152998--15153060 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
15152988 AAAACGGGAC
15152998 TTTTGGA-TACCCGAGGGCAAAATGGTAA
1 TTTTGGACT-CCCGAGGGCAAAATGGTAA
** * *
15153026 TTTTGGACTTTCGGGGGCAAAATTGTAA
1 TTTTGGACTCCCGAGGGCAAAATGGTAA
15153054 TTTTGGA
1 TTTTGGA
15153061 GAAATCGAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (28 bp):
TTTTGGACTCCCGAGGGCAAAATGGTAA
Found at i:15153173 original size:29 final size:30
Alignment explanation
Indices: 15153127--15153295 Score: 173
Period size: 30 Copynumber: 5.6 Consensus size: 30
15153117 TGGTAAAACC
** * *
15153127 GGGGTTAAAACCTAAATTTTGG-AAGGTTTG
1 GGGGTTAAAATGT-AATTTTGGAAAAGTTTT
15153157 GGGGTTAAAATGTAA-TTTGGAAAAGTTTT
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTT
* *
15153186 AGGGTTAAAATGT-ATTATTAGAAAAGTTTT
1 GGGGTTAAAATGTAATT-TTGGAAAAGTTTT
* * *
15153216 AGGGTCAAAATGTAATATTGGAAAAGTTTT
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTT
**
15153246 GGGGTTAAAAATGTAATTTTTAAAAAGTTTT
1 GGGGTT-AAAATGTAATTTTGGAAAAGTTTT
* *
15153277 GAGGTTAAAATATAATTTT
1 GGGGTTAAAATGTAATTTT
15153296 TAGACAGTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.05
29 21 0.18
30 63 0.53
31 28 0.24
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (30 bp):
GGGGTTAAAATGTAATTTTGGAAAAGTTTT
Found at i:15153287 original size:61 final size:59
Alignment explanation
Indices: 15153158--15153294 Score: 188
Period size: 61 Copynumber: 2.3 Consensus size: 59
15153148 GAAGGTTTGG
15153158 GGGTTAAAATGTAATTTGGAAAAGTTTTAGGGTTAAAATGTATTATTAGAAAAGTTTTA
1 GGGTTAAAATGTAATTTGGAAAAGTTTTAGGGTTAAAATGTATTATTAGAAAAGTTTTA
* * *
15153217 GGGTCAAAATGTAATATTGGAAAAGTTTTGGGGTTAAAAATGTAATTTTTA-AAAAGTTTT-
1 GGGTTAAAATGTAAT-TTGGAAAAGTTTTAGGGTT-AAAATGT-ATTATTAGAAAAGTTTTA
*
15153277 GAGGTTAAAATATAATTT
1 G-GGTTAAAATGTAATTT
15153295 TTAGACAGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 14 0.20
60 21 0.30
61 28 0.41
62 6 0.09
ACGTcount: A:0.39, C:0.01, G:0.21, T:0.39
Consensus pattern (59 bp):
GGGTTAAAATGTAATTTGGAAAAGTTTTAGGGTTAAAATGTATTATTAGAAAAGTTTTA
Found at i:15154381 original size:28 final size:29
Alignment explanation
Indices: 15154322--15154402 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 29
15154312 AATTGTTATT
* *
15154322 AAAATTATTATTACTATTAATGTTATTTAAA
1 AAAATTATTAATACTATTAATG-T-TTGAAA
*
15154353 AAAATTATTAATAATATTAATG-TTGAAA
1 AAAATTATTAATACTATTAATGTTTGAAA
* *
15154381 ATAGTTATTAATTACTATTAAT
1 AAAATTATTAA-TACTATTAAT
15154403 ATACATTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
28 14 0.33
29 9 0.21
31 20 0.47
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (29 bp):
AAAATTATTAATACTATTAATGTTTGAAA
Found at i:15156318 original size:12 final size:12
Alignment explanation
Indices: 15156301--15156325 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15156291 GAATTCAAAT
15156301 AGGATTATTATG
1 AGGATTATTATG
15156313 AGGATTATTATG
1 AGGATTATTATG
15156325 A
1 A
15156326 AAAATGTTAA
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:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AGGATTATTATG
Found at i:15158749 original size:33 final size:31
Alignment explanation
Indices: 15158712--15158831 Score: 117
Period size: 33 Copynumber: 3.9 Consensus size: 31
15158702 TACTTAAATT
15158712 TTTTTGACCTAATTTGGTACCTAAACTTGACA
1 TTTTTGACCTAATTTGGTACCTAAACTTG-CA
15158744 CTTTTT--CCT-ATTTGGTACCTAAACTT---
1 -TTTTTGACCTAATTTGGTACCTAAACTTGCA
*
15158770 TTTTTGGACCTAATTTGGTATCTAAACTTGGCA
1 TTTTT-GACCTAATTTGGTACCTAAACTT-GCA
** *
15158803 TTTTTTCCCCTAATTTAGTACCTAAACTT
1 -TTTTTGACCTAATTTGGTACCTAAACTT
15158832 TTTTTAGATT
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
25 5 0.07
28 3 0.04
29 16 0.22
30 17 0.23
31 3 0.04
33 24 0.33
34 5 0.07
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (31 bp):
TTTTTGACCTAATTTGGTACCTAAACTTGCA
Found at i:15158789 original size:59 final size:59
Alignment explanation
Indices: 15158680--15158836 Score: 210
Period size: 59 Copynumber: 2.6 Consensus size: 59
15158670 GTACTTGAGT
* * *
15158680 TTGAAACTTTTTCTTAATTTGGTACTTAAA-TTTTTTTGACCTAATTTGGTACCTAAAC
1 TTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTGACCTAATTTGGTACCTAAAC
*
15158738 TTGACACTTTTTCCT-ATTTGGTACCTAAACTTTTTTTGGACCTAATTTGGTATCTAAAC
1 TTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTT-GACCTAATTTGGTACCTAAAC
* * *
15158797 TTGGCATTTTTTCCCCTAATTTAGTACCTAAACTTTTTTT
1 TTGACACTTTTT--CCTAATTTGGTACCTAAACTTTTTTT
15158837 AGATTCAAAT
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
57 13 0.15
58 20 0.23
59 30 0.34
61 3 0.03
62 21 0.24
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.48
Consensus pattern (59 bp):
TTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTGACCTAATTTGGTACCTAAAC
Found at i:15158850 original size:62 final size:59
Alignment explanation
Indices: 15158680--15158857 Score: 182
Period size: 62 Copynumber: 3.0 Consensus size: 59
15158670 GTACTTGAGT
* * * * *
15158680 TTGAAACTTTTTCTTAATTTGGTACTTAAA-TTTTTTT-GACCTAATTTGGTACCTAAAC
1 TTGACACTTTTTCCT-ATTTAGTACCTAAACTTTTTTTAGACCTAAATTGGTACCTAAAC
* * * *
15158738 TTGACACTTTTTCCTATTTGGTACCTAAACTTTTTTTGGACCTAATTTGGTATCTAAAC
1 TTGACACTTTTTCCTATTTAGTACCTAAACTTTTTTTAGACCTAAATTGGTACCTAAAC
* * *
15158797 TTGGCATTTTTTCCCCTAATTTAGTACCTAAACTTTTTTTAGA-TTCAAATTGGTACCTAAA
1 TTGACACTTTTT--CCT-ATTTAGTACCTAAACTTTTTTTAGACCT-AAATTGGTACCTAAA
15158858 TTGTGTAGAT
Statistics
Matches: 103, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
57 13 0.13
58 20 0.19
59 30 0.29
61 4 0.04
62 36 0.35
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (59 bp):
TTGACACTTTTTCCTATTTAGTACCTAAACTTTTTTTAGACCTAAATTGGTACCTAAAC
Found at i:15160306 original size:24 final size:25
Alignment explanation
Indices: 15160270--15160317 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
15160260 ATTAATTTTT
*
15160270 AAAAATAGTATTATAATATTTTAATA
1 AAAAATAG-ATTATAATAATTTAATA
*
15160296 AAAAATA-ATTATATTAATTTAA
1 AAAAATAGATTATAATAATTTAA
15160318 AACATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
26 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
AAAAATAGATTATAATAATTTAATA
Found at i:15170441 original size:16 final size:16
Alignment explanation
Indices: 15170420--15170451 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15170410 TGCATGAAAA
15170420 CCTTGACCAAACTAAG
1 CCTTGACCAAACTAAG
15170436 CCTTGACCAAACTAAG
1 CCTTGACCAAACTAAG
15170452 GGATTATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.12, T:0.19
Consensus pattern (16 bp):
CCTTGACCAAACTAAG
Found at i:15176217 original size:3 final size:3
Alignment explanation
Indices: 15176209--15176250 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
15176199 ATTTTAAAGA
* *
15176209 AAG AAG AAG AAC AAG AAC AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
15176251 GCTTTGGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.67, C:0.05, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15176725 original size:19 final size:17
Alignment explanation
Indices: 15176697--15176738 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 17
15176687 GTAAGGAAAC
15176697 TATATATTTAAAGAATAAA
1 TATATATTTAAA-AAT-AA
*
15176716 TATATGTTTAAAAATAA
1 TATATATTTAAAAATAA
15176733 TATATA
1 TATATA
15176739 ATTGTCGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
18 3 0.14
19 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
TATATATTTAAAAATAA
Found at i:15177077 original size:23 final size:23
Alignment explanation
Indices: 15177042--15177106 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
15177032 CTAATTTTTA
* *
15177042 TCTGCCTTCGTGGCACGCTTTTCT
1 TCTGTCTT-GTGGCACGCTTTTCC
*
15177066 TCTGTCTTGTGGCATGC-TTTCC
1 TCTGTCTTGTGGCACGCTTTTCC
*
15177088 TCTATCTTGTGGCACGCTT
1 TCTGTCTTGTGGCACGCTT
15177107 CTGCCTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 19 0.54
23 9 0.26
24 7 0.20
ACGTcount: A:0.06, C:0.29, G:0.22, T:0.43
Consensus pattern (23 bp):
TCTGTCTTGTGGCACGCTTTTCC
Found at i:15177119 original size:40 final size:41
Alignment explanation
Indices: 15177064--15177140 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 41
15177054 GCACGCTTTT
* * *
15177064 CTTCTGTCTTGTGGCATGCTTTCCTCTATC-TTGTGGCACG
1 CTTCTGCCTTATGGCACGCTTTCCTCTATCTTTGTGGCACG
* *
15177104 CTTCTGCCTTATGGCACGTTTTCGTCTATCTTTGTGG
1 CTTCTGCCTTATGGCACGCTTTCCTCTATCTTTGTGG
15177141 TACATTTGCG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 25 0.81
41 6 0.19
ACGTcount: A:0.08, C:0.26, G:0.22, T:0.44
Consensus pattern (41 bp):
CTTCTGCCTTATGGCACGCTTTCCTCTATCTTTGTGGCACG
Found at i:15187490 original size:2 final size:2
Alignment explanation
Indices: 15187483--15187513 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15187473 ATAAAGAGAT
15187483 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15187514 TTAAAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15190074 original size:18 final size:16
Alignment explanation
Indices: 15190042--15190085 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
15190032 ATGGAATGAG
15190042 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
15190058 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
*
15190072 ATTAAAATTTTTAA
1 AAT-AAATTTTTAA
15190086 ACCCTAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 6 0.25
17 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:15192313 original size:123 final size:123
Alignment explanation
Indices: 15192094--15192339 Score: 474
Period size: 123 Copynumber: 2.0 Consensus size: 123
15192084 TTCATTCTTT
*
15192094 GAGAATAGCAACTGTTTGCTTGCAGGATTTTGATGGATAATCGAAGTATTTTCTGGGTATGCTTC
1 GAGAATAGCAACTGTTTGCTTGCAGGATTTTGATGGATAATCGAAGTATATTCTGGGTATGCTTC
15192159 TTGTTCTTTTTTCTCACTGCTCAAGCCATCCTCTCCAGATTGAGGTTTTGATGTTACA
66 TTGTTCTTTTTTCTCACTGCTCAAGCCATCCTCTCCAGATTGAGGTTTTGATGTTACA
*
15192217 GAGAATAGCAACTGTTTGCTTGCAGTATTTTGATGGATAATCGAAGTATATTCTGGGTATGCTTC
1 GAGAATAGCAACTGTTTGCTTGCAGGATTTTGATGGATAATCGAAGTATATTCTGGGTATGCTTC
15192282 TTGTTCTTTTTTCTCACTGCTCAAGCCATCCTCTCCAGATTGAGGTTTTGATGTTACA
66 TTGTTCTTTTTTCTCACTGCTCAAGCCATCCTCTCCAGATTGAGGTTTTGATGTTACA
15192340 AGCTGATCAT
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 121 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (123 bp):
GAGAATAGCAACTGTTTGCTTGCAGGATTTTGATGGATAATCGAAGTATATTCTGGGTATGCTTC
TTGTTCTTTTTTCTCACTGCTCAAGCCATCCTCTCCAGATTGAGGTTTTGATGTTACA
Found at i:15195211 original size:14 final size:14
Alignment explanation
Indices: 15195173--15195204 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
15195163 CGCTTTCTTA
15195173 TAAATCTTAAACCT
1 TAAATCTTAAACCT
15195187 TAAATCTTAAACCT
1 TAAATCTTAAACCT
15195201 TAAA
1 TAAA
15195205 CTATAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAATCTTAAACCT
Found at i:15195508 original size:186 final size:190
Alignment explanation
Indices: 15195073--15195551 Score: 759
Period size: 186 Copynumber: 2.5 Consensus size: 190
15195063 TTTTACTAGC
* *
15195073 AAATATAGATAAAGTTCCTGAATTTCAAATACTATAAATATTAAATTATATCATTTGGAAGCAGA
1 AAATATAGATAAAGTTCCTGAATTTCAAATACTATAAATATTAAATTATATCAATTGAAAGCAGA
* * ** * *
15195138 ATAACTTCATAGAAATTATTTTTATCGCTTTCTTATAAATCTTAAACCTTAAATCTTAAACCTTA
66 ACAACTTCATAGAAATTATTTTTACCATTTTCTTAAAAATCTTAAACCCTAAATCTT-AA-C-TA
* * *
15195203 AACTATAAATTAAAAATCCTAAACCTGACCTTAAACATAAACTTCACCTTAACCCTAACCCCT
128 AACTATAAATCAAAAATCCTAAACCTGACCCTAAACATAAACTTCACCCTAACCCTAACCCCT
15195266 AAATATAGATAAAGTTCCTGAATTTCAAATACTATAAATATTAAATTATATCAATTGAAAGCAGA
1 AAATATAGATAAAGTTCCTGAATTTCAAATACTATAAATATTAAATTATATCAATTGAAAGCAGA
*
15195331 ACAACTTCATAGAAATTATTTTTACCATTTTCTTAAAAATCTTAAACCCTAAA-C-T-A-TAAAT
66 ACAACTTCATAGAAATTATTTTTACCATTTTCTTAAAAATCTTAAACCCTAAATCTTAACTAAAC
* *
15195392 TATAAATCAAAAATCTTAAACCTGACCCTAAACATAAACTTCACCCTAACCTTAACCCCT
131 TATAAATCAAAAATCCTAAACCTGACCCTAAACATAAACTTCACCCTAACCCTAACCCCT
* *
15195452 AAATATAGATAAATTTCTTGAATTTCAAATACTATAAATATTAAATTATATCAATTGAAAGCAGA
1 AAATATAGATAAAGTTCCTGAATTTCAAATACTATAAATATTAAATTATATCAATTGAAAGCAGA
15195517 ACAACTTCATAGAAATTATTTTTACCATTTTCTTA
66 ACAACTTCATAGAAATTATTTTTACCATTTTCTTA
15195552 TAAACCCTAA
Statistics
Matches: 270, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
186 157 0.58
189 1 0.00
191 1 0.00
192 1 0.00
193 110 0.41
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (190 bp):
AAATATAGATAAAGTTCCTGAATTTCAAATACTATAAATATTAAATTATATCAATTGAAAGCAGA
ACAACTTCATAGAAATTATTTTTACCATTTTCTTAAAAATCTTAAACCCTAAATCTTAACTAAAC
TATAAATCAAAAATCCTAAACCTGACCCTAAACATAAACTTCACCCTAACCCTAACCCCT
Found at i:15195581 original size:13 final size:13
Alignment explanation
Indices: 15195554--15195606 Score: 72
Period size: 13 Copynumber: 4.2 Consensus size: 13
15195544 TTTTCTTATA
15195554 AACCCT-AACCTT
1 AACCCTAAACCTT
*
15195566 AACCCTAAACCCT
1 AACCCTAAACCTT
*
15195579 AACTCTAAACCTT
1 AACCCTAAACCTT
*
15195592 AACCTTAAACCTT
1 AACCCTAAACCTT
15195605 AA
1 AA
15195607 ACCGAATGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
12 6 0.17
13 29 0.83
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.25
Consensus pattern (13 bp):
AACCCTAAACCTT
Found at i:15195595 original size:19 final size:19
Alignment explanation
Indices: 15195552--15195609 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
15195542 CATTTTCTTA
*
15195552 TAAACCCTAACCTTAACCC
1 TAAACCCTAACCTTAAACC
15195571 TAAACCCTAA-CTCTAAACC
1 TAAACCCTAACCT-TAAACC
* *
15195590 TTAACCTTAAACCTTAAACC
1 TAAACCCT-AACCTTAAACC
15195610 GAATGGGCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 2 0.06
19 21 0.64
20 8 0.24
21 2 0.06
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAACCCTAACCTTAAACC
Found at i:15196100 original size:39 final size:38
Alignment explanation
Indices: 15196009--15196101 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 38
15195999 CACTCAATGG
* * *
15196009 ACACCTTTTGAAGAGTCACAACCCTTTCAAATTGGATGG
1 ACACCTTTGGAAGAGTCACAACCCTTTCAAATTAGA-GC
* *
15196048 ACACCTTTTGAAGAGTCACAACCCTTTTCATATTAGA-C
1 ACACCTTTGGAAGAGTCACAACCC-TTTCAAATTAGAGC
*
15196086 ATACCTCTTGGAAGAG
1 ACACCT-TTGGAAGAG
15196102 ACTTGTCCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 5 0.11
39 32 0.68
40 10 0.21
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (38 bp):
ACACCTTTGGAAGAGTCACAACCCTTTCAAATTAGAGC
Found at i:15201013 original size:39 final size:40
Alignment explanation
Indices: 15200955--15201034 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 40
15200945 TATGCACTCA
* *
15200955 ATGGACATCTTTTGGAGAGTCAC-AACCCTTTCAAATTGG
1 ATGGACACCTTTTGAAGAGTCACAAACCCTTTCAAATTGG
* *
15200994 ATGGACACCTTTTGAAGAGTCACAAACCTTTTCATATTGG
1 ATGGACACCTTTTGAAGAGTCACAAACCCTTTCAAATTGG
15201034 A
1 A
15201035 CATACCTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 21 0.58
40 15 0.42
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (40 bp):
ATGGACACCTTTTGAAGAGTCACAAACCCTTTCAAATTGG
Found at i:15202051 original size:23 final size:24
Alignment explanation
Indices: 15202024--15202074 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
15202014 TTAATTTCAA
* *
15202024 TAAATTATATCTCTAATCACAT-C
1 TAAATCATATCCCTAATCACATCC
15202047 TAAATCATATCCCTAATCACATCC
1 TAAATCATATCCCTAATCACATCC
15202071 TAAA
1 TAAA
15202075 ATACAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAATCATATCCCTAATCACATCC
Found at i:15202175 original size:21 final size:21
Alignment explanation
Indices: 15202137--15202177 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15202127 AGGAAAATAT
*
15202137 ATATCTACAGCTACTTGACAG
1 ATATCTACAACTACTTGACAG
15202158 ATATCTACAACATA-TTGACA
1 ATATCTACAAC-TACTTGACA
15202178 ACTATGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (21 bp):
ATATCTACAACTACTTGACAG
Found at i:15202786 original size:2 final size:2
Alignment explanation
Indices: 15202779--15202807 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15202769 AGATATTAAT
15202779 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15202808 TGTAAGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15205740 original size:16 final size:17
Alignment explanation
Indices: 15205721--15205752 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15205711 ATTAATTAAA
15205721 TTTTATATT-AAATTAC
1 TTTTATATTCAAATTAC
15205737 TTTTATATTCAAATTA
1 TTTTATATTCAAATTA
15205753 TTATGTTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATATTCAAATTAC
Found at i:15205835 original size:23 final size:24
Alignment explanation
Indices: 15205809--15205858 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
15205799 TTAATTTTAA
15205809 ATAAA-AAATTTAATTATTT-ATAT
1 ATAAAGAAATTTAA-TATTTCATAT
*
15205832 ATAAAGTAATTTAATATTTCATAT
1 ATAAAGAAATTTAATATTTCATAT
15205856 ATA
1 ATA
15205859 CAATTGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
ATAAAGAAATTTAATATTTCATAT
Found at i:15206558 original size:16 final size:15
Alignment explanation
Indices: 15206526--15206554 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15206516 TAACATGTGT
15206526 TTTTTTTAATATTTA
1 TTTTTTTAATATTTA
15206541 TTTTTTTAATATTT
1 TTTTTTTAATATTT
15206555 TATTATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTAATATTTA
Found at i:15209305 original size:29 final size:29
Alignment explanation
Indices: 15209273--15209662 Score: 157
Period size: 29 Copynumber: 13.2 Consensus size: 29
15209263 CAAAGATCAT
*
15209273 ATTTTGACCCTAAATTCTTCCAAAATTAT
1 ATTTTGACCCTAAATTCTTCCAAAATTAC
* * * *
15209302 ATTTTGACATCGAACTT-TCCCAAAATTAC
1 ATTTTGAC-CCTAAATTCTTCCAAAATTAC
**
15209331 ATTTTGACCCTTAAACTT-TTCCAAAATCCC
1 ATTTTGACCC-TAAA-TTCTTCCAAAATTAC
* *
15209361 ATTTTGACCCCCAAACTTC-TCTAAAATTAC
1 ATTTTGA-CCCTAAA-TTCTTCCAAAATTAC
* * *
15209391 ATTTTGACATCGAATTTC-TCCAAAATTAC
1 ATTTTGAC-CCTAAATTCTTCCAAAATTAC
*
15209420 ATTTTGAGCCC-AAACTT-TTCCAAAATTGC
1 ATTTTGA-CCCTAAA-TTCTTCCAAAATTAC
*
15209449 ATTTTTTACCCCATAAA--CTTCCCAAAATTAC
1 A-TTTTGA-CCC-TAAATTCTT-CCAAAATTAC
* **
15209480 ATTTTGACACC-AAACTAATCCAAAAATTACC
1 ATTTTGAC-CCTAAATTCTTCC-AAAATTA-C
* *
15209511 ATTTTG-CCCTCGAATATC-T-AAAAATTACC
1 ATTTTGACCCT-AAAT-TCTTCCAAAATTA-C
* * * * *
15209540 ATTTTGCCCCTAAAATTC-ACCAAAGTCAT
1 ATTTTGACCCT-AAATTCTTCCAAAATTAC
15209569 ATTTTCGA-CCTCAAATT-TTCCAAAAGTT-C
1 ATTTT-GACCCT-AAATTCTTCCAAAA-TTAC
* * * *
15209598 GATTTTAATCCTAAATTTTTCAAAAAATT-C
1 -ATTTTGACCCTAAATTCTTC-CAAAATTAC
* * *
15209628 AATTTTGACCCTAAATTCCTCGAAAATTAT
1 -ATTTTGACCCTAAATTCTTCCAAAATTAC
15209658 ATTTT
1 ATTTT
15209663 CATCCCGAAT
Statistics
Matches: 275, Mismatches: 54, Indels: 64
0.70 0.14 0.16
Matches are distributed among these distances:
28 6 0.02
29 120 0.44
30 118 0.43
31 27 0.10
32 4 0.01
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (29 bp):
ATTTTGACCCTAAATTCTTCCAAAATTAC
Found at i:15209355 original size:30 final size:30
Alignment explanation
Indices: 15209273--15209521 Score: 194
Period size: 30 Copynumber: 8.4 Consensus size: 30
15209263 CAAAGATCAT
*
15209273 ATTTTGACCCT-AAA-TTCTTCCAAAATTAT
1 ATTTTGACCCTCAAACTT-TTCCAAAATTAC
* * *
15209302 ATTTTGA-CATCGAACTTTCCCAAAATTAC
1 ATTTTGACCCTCAAACTTTTCCAAAATTAC
* **
15209331 ATTTTGACCCTTAAACTTTTCCAAAATCCC
1 ATTTTGACCCTCAAACTTTTCCAAAATTAC
* * *
15209361 ATTTTGACCCCCAAACTTCTCTAAAATTAC
1 ATTTTGACCCTCAAACTTTTCCAAAATTAC
* *
15209391 ATTTTGA-CATCGAA-TTTCTCCAAAATTAC
1 ATTTTGACCCTCAAACTTT-TCCAAAATTAC
* *
15209420 ATTTTGAGCC-CAAACTTTTCCAAAATTGC
1 ATTTTGACCCTCAAACTTTTCCAAAATTAC
* *
15209449 ATTTTTTACCC-CATAAAC-TTCCCAAAATTAC
1 A-TTTTGACCCTC--AAACTTTTCCAAAATTAC
* **
15209480 ATTTTGACAC-CAAACTAATCCAAAAATTACC
1 ATTTTGACCCTCAAACTTTTCC-AAAATTA-C
15209511 ATTTTG-CCCTC
1 ATTTTGACCCTC
15209522 GAATATCTAA
Statistics
Matches: 173, Mismatches: 34, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
28 8 0.05
29 63 0.36
30 78 0.45
31 20 0.12
32 4 0.02
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (30 bp):
ATTTTGACCCTCAAACTTTTCCAAAATTAC
Found at i:15209460 original size:89 final size:88
Alignment explanation
Indices: 15209292--15209520 Score: 277
Period size: 89 Copynumber: 2.6 Consensus size: 88
15209282 CTAAATTCTT
*
15209292 CCAAAATTATATTTTGACATCGAACTTTCCCAAAATTACATTTTGACCCTTAAACTTTTCCAAAA
1 CCAAAATTACATTTTGACATCGAACTTTCCCAAAATTACATTTTGACCC-TAAACTTTTCCAAAA
15209357 TCCCATTTTGACCCC-CAAACTTC
65 TCCCATTTTGACCCCACAAACTTC
*
15209380 TCTAAAATTACATTTTGACATCGAA-TTTCTCCAAAATTACATTTTGAGCCC-AAACTTTTCCAA
1 -CCAAAATTACATTTTGACATCGAACTTTC-CCAAAATTACATTTTGA-CCCTAAACTTTTCCAA
** * *
15209443 AATTGCATTTTTTACCCCATAAACTTC
63 AATCCCA-TTTTGACCCCACAAACTTC
* * * *
15209470 CCAAAATTACATTTTGACACCAAACTAATCCAAAAATTACCATTTTG-CCCT
1 CCAAAATTACATTTTGACATCGAACT-TTCCCAAAATTA-CATTTTGACCCT
15209521 CGAATATCTA
Statistics
Matches: 121, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
88 21 0.17
89 72 0.60
90 19 0.16
91 9 0.07
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.34
Consensus pattern (88 bp):
CCAAAATTACATTTTGACATCGAACTTTCCCAAAATTACATTTTGACCCTAAACTTTTCCAAAAT
CCCATTTTGACCCCACAAACTTC
Found at i:15209618 original size:30 final size:30
Alignment explanation
Indices: 15209584--15209644 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15209574 CGACCTCAAA
* * * *
15209584 TTTTCCAAAAGTTCGATTTTAATCCTAAAT
1 TTTTCAAAAAATTCAATTTTAACCCTAAAT
*
15209614 TTTTCAAAAAATTCAATTTTGACCCTAAAT
1 TTTTCAAAAAATTCAATTTTAACCCTAAAT
15209644 T
1 T
15209645 CCTCGAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (30 bp):
TTTTCAAAAAATTCAATTTTAACCCTAAAT
Found at i:15213571 original size:16 final size:16
Alignment explanation
Indices: 15213538--15213567 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15213528 ACATGTGTCT
15213538 TTTTTTTAAATATTTA
1 TTTTTTTAAATATTTA
15213554 TTTTTTT-AATATTT
1 TTTTTTTAAATATTT
15213568 TATTATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTAAATATTTA
Found at i:15214879 original size:11 final size:11
Alignment explanation
Indices: 15214863--15214961 Score: 98
Period size: 11 Copynumber: 8.9 Consensus size: 11
15214853 TACTTTGAAA
*
15214863 TTAAATTTATT
1 TTAAATTTAAT
15214874 TTAAATTTTAAT
1 TTAAA-TTTAAT
15214886 TT-AATTTAAT
1 TTAAATTTAAT
15214896 TTAAATTT-AT
1 TTAAATTTAAT
15214906 TTAAATTTAAT
1 TTAAATTTAAT
*
15214917 TTAAGTTTGAAT
1 TTAAATTT-AAT
15214929 TT-AATTTAAAT
1 TTAAATTT-AAT
*
15214940 TT-AATATTATT
1 TTAAAT-TTAAT
15214951 TGTAAATTTAA
1 T-TAAATTTAA
15214962 AATGTCCAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
10 18 0.24
11 36 0.48
12 18 0.24
13 3 0.04
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:15214888 original size:5 final size:5
Alignment explanation
Indices: 15214861--15214944 Score: 80
Period size: 5 Copynumber: 15.6 Consensus size: 5
15214851 TTTACTTTGA
* *
15214861 AATTA AATTT ATTTT AAATTTT AATTT AATTT AATTT AAATTT -ATTT
1 AATTT AATTT AATTT -AA-TTT AATTT AATTT AATTT -AATTT AATTT
15214908 AAATTT AATTT AAGTTT GAATTT AATTT AAATTT AAT
1 -AATTT AATTT AA-TTT -AATTT AATTT -AATTT AAT
15214945 ATTATTTGTA
Statistics
Matches: 68, Mismatches: 3, Indels: 16
0.78 0.03 0.18
Matches are distributed among these distances:
4 4 0.06
5 36 0.53
6 23 0.34
7 5 0.07
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:15214911 original size:43 final size:45
Alignment explanation
Indices: 15214863--15214961 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 45
15214853 TACTTTGAAA
* *
15214863 TTAAATTTATTTTAAATTTTAATTTAATTT-AATTTAA-ATT-TAT
1 TTAAATTTAATTTAAATTTGAATTTAATTTAAATTTAATATTAT-T
*
15214906 TTAAATTTAATTTAAGTTTGAATTTAATTTAAATTTAATATTATT
1 TTAAATTTAATTTAAATTTGAATTTAATTTAAATTTAATATTATT
15214951 TGTAAATTTAA
1 T-TAAATTTAA
15214962 AATGTCCAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
43 27 0.55
44 7 0.14
45 5 0.10
46 10 0.20
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (45 bp):
TTAAATTTAATTTAAATTTGAATTTAATTTAAATTTAATATTATT
Found at i:15215194 original size:28 final size:28
Alignment explanation
Indices: 15215141--15215194 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
15215131 GCAGACCACT
* * *
15215141 ATCTCCACTTGCTTCTGCCACGGCCATC
1 ATCTCCACCTGCTGCTGCCACCGCCATC
15215169 ATCTCCACCTGCTGCT-CCAACCGCCA
1 ATCTCCACCTGCTGCTGCC-ACCGCCA
15215195 CTGTGGAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 20 0.91
ACGTcount: A:0.17, C:0.46, G:0.13, T:0.24
Consensus pattern (28 bp):
ATCTCCACCTGCTGCTGCCACCGCCATC
Found at i:15215650 original size:15 final size:15
Alignment explanation
Indices: 15215630--15215659 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15215620 ATAATTTCAT
15215630 AAATATCATTAATAA
1 AAATATCATTAATAA
*
15215645 AAATATTATTAATAA
1 AAATATCATTAATAA
15215660 TCATAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATCATTAATAA
Found at i:15215660 original size:3 final size:3
Alignment explanation
Indices: 15215639--15215722 Score: 51
Period size: 3 Copynumber: 26.7 Consensus size: 3
15215629 TAAATATCAT
* * * * *
15215639 TAA TAA AAA TAT TAT TAA TAA TCA TAA TAA TTAA TAA TAG TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA T-AA
* * * *
15215686 TAT TTA TAA TTA TAA TTAA TAT TAA TAA TTAA TAA TA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA -TAA TAA TA
15215723 TCAACCATTA
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
3 49 0.80
4 12 0.20
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:15215673 original size:16 final size:15
Alignment explanation
Indices: 15215652--15215723 Score: 67
Period size: 16 Copynumber: 4.7 Consensus size: 15
15215642 TAAAAATATT
15215652 ATTAATAATCATAATA
1 ATTAATAAT-ATAATA
15215668 ATTAATAATAGTAATA
1 ATTAATAATA-TAATA
* * * *
15215684 AATATTTATAATTATA
1 ATTAATAAT-ATAATA
15215700 ATTAAT-AT-TAATA
1 ATTAATAATATAATA
15215713 ATTAATAATAT
1 ATTAATAATAT
15215724 CAACCATTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
13 10 0.22
14 2 0.04
15 4 0.09
16 28 0.62
17 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (15 bp):
ATTAATAATATAATA
Found at i:15215684 original size:19 final size:18
Alignment explanation
Indices: 15215662--15215722 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
15215652 ATTAATAATC
15215662 ATAATAATTAATAATAGTA
1 ATAATAATTAATAATA-TA
*
15215681 ATAA-ATATTTATAATTATA
1 ATAATA-ATTAATAA-TATA
15215700 ATTAAT-ATTAATAAT-TA
1 A-TAATAATTAATAATATA
15215717 ATAATA
1 ATAATA
15215723 TCAACCATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
16 4 0.11
17 3 0.09
18 2 0.06
19 21 0.60
20 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAATAATTAATAATATA
Found at i:15216004 original size:16 final size:16
Alignment explanation
Indices: 15215980--15216010 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15215970 GATTTAGAAT
*
15215980 TTTTTCCAGATCTGGA
1 TTTTCCCAGATCTGGA
15215996 TTTTCCCAGATCTGG
1 TTTTCCCAGATCTGG
15216011 GTTTGGTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (16 bp):
TTTTCCCAGATCTGGA
Found at i:15216104 original size:20 final size:20
Alignment explanation
Indices: 15216078--15216124 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15216068 GAAAAAGAAA
*
15216078 AAGAAAACGAAAT-AACAAG
1 AAGAAAACGAAATGAAAAAG
*
15216097 AGAGAAAATGAAATGAAAAAG
1 A-AGAAAACGAAATGAAAAAG
15216118 AAGAAAA
1 AAGAAAA
15216125 AAAAGGGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 17 0.71
21 6 0.25
ACGTcount: A:0.70, C:0.04, G:0.19, T:0.06
Consensus pattern (20 bp):
AAGAAAACGAAATGAAAAAG
Found at i:15216856 original size:29 final size:29
Alignment explanation
Indices: 15216812--15217147 Score: 183
Period size: 29 Copynumber: 11.6 Consensus size: 29
15216802 CCAAACAGTT
15216812 CCAAAATT-CCATTTTTAACCCCGATTTCA
1 CCAAAATTACCA-TTTTAACCCCGATTTCA
* *
15216841 CCAAAATTATCATTTT-ACCCCTAAACTTT--
1 CCAAAATTACCATTTTAACCCC--GA-TTTCA
* *
15216870 CCAAAATT-CTATTTCTAACCCTGATTTCA
1 CCAAAATTACCATTT-TAACCCCGATTTCA
* *
15216899 CCAAAAATTACCATCTT-ACCCCTAAACTTT--
1 CC-AAAATTACCATTTTAACCCC--GA-TTTCA
***
15216929 CCAAAATT-CCATTTTAACCTTAATTTCA
1 CCAAAATTACCATTTTAACCCCGATTTCA
15216957 CCAAAAATTACCATTTT-ACCCTCGAACTTT--
1 CC-AAAATTACCATTTTAACCC-CG-A-TTTCA
15216987 CCAAAATT-CCATTTTTAACCCCGATTTCA
1 CCAAAATTACCA-TTTTAACCCCGATTTCA
*
15217016 CCAAAAATTACCA-TTT-CCCCCGAACTTT--
1 CC-AAAATTACCATTTTAACCCCG-A-TTTCA
*
15217044 CCAAAATTTA--ATTTTTAACCTCGATTTCA
1 CCAAAA-TTACCA-TTTTAACCCCGATTTCA
* * *
15217073 CCAAAATTACCATTTTACCCCCAAATTT-T
1 CCAAAATTACCATTTTAACCCC-GATTTCA
*
15217102 CCAAAATT-CCATTTTCGACCCCGATTTCA
1 CCAAAATTACCATTTT-AACCCCGATTTCA
*
15217131 CCAAAAATCACCATTTT
1 CC-AAAATTACCATTTT
15217148 GCCCCGTAAG
Statistics
Matches: 237, Mismatches: 28, Indels: 82
0.68 0.08 0.24
Matches are distributed among these distances:
26 4 0.02
27 15 0.06
28 50 0.21
29 95 0.40
30 48 0.20
31 19 0.08
32 6 0.03
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (29 bp):
CCAAAATTACCATTTTAACCCCGATTTCA
Found at i:15216889 original size:58 final size:59
Alignment explanation
Indices: 15216810--15217152 Score: 455
Period size: 58 Copynumber: 5.9 Consensus size: 59
15216800 CCCCAAACAG
*
15216810 TTCCAAAATTCCATTTTTAACCCCGATTTCACC-AAAATTATCATTTTACCCCTAAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACT
* * * *
15216868 TTCCAAAATTCTATTTCTAACCCTGATTTCACCAAAAATTACCATCTTACCCCTAAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACT
*** *
15216927 TTCCAAAATTCCA-TTTTAACCTTAATTTCACCAAAAATTACCATTTTA-CCCTCGAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCT-AAACT
**
15216985 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCA-TTT-CCCCCGAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACT
** * * *
15217042 TTCCAAAATTTAATTTTTAACCTCGATTTCACC-AAAATTACCATTTTACCCCCAAATT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACT
** * *
15217100 TTCCAAAATTCCATTTTCGACCCCGATTTCACCAAAAATCACCATTTTGCCCC
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCC
15217153 GTAAGTCCAA
Statistics
Matches: 251, Mismatches: 27, Indels: 13
0.86 0.09 0.04
Matches are distributed among these distances:
56 10 0.04
57 42 0.17
58 120 0.48
59 79 0.31
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (59 bp):
TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACT
Found at i:15217162 original size:115 final size:116
Alignment explanation
Indices: 15216810--15217174 Score: 463
Period size: 115 Copynumber: 3.1 Consensus size: 116
15216800 CCCCAAACAG
* * *
15216810 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAATTATCATTTTACCCCTAAACTTTCCAAA
1 TTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAATTACCATTTTACCCCCAAACTTTCCAAA
* * *
15216875 ATTCTA-TTTCTAACCCTGATTTCACCAAAAATTACCATCTTACCCC-TAAAC
66 ATTCCATTTTC-AACCCCGATTTCACCAAAAATTACCATTTTACCCCGT-AAC
** * *
15216926 TTTCCAAAATTCCA-TTTTAACCTTAATTTCACCAAAAATTACCATTTTACCCTCGAACTTTCCA
1 -TTCCAAAATTCCATTTTTAACCTCGATTTCACC-AAAATTACCATTTTACCCCCAAACTTTCCA
* *
15216990 AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCA-TTTCCCCCG-AAC
64 AAATTCCATTTTCAACCCCGATTTCACCAAAAATTACCATTTTACCCCGTAAC
** *
15217041 TTTCCAAAATTTAATTTTTAACCTCGATTTCACCAAAATTACCATTTTACCCCCAAATTTTCCAA
1 -TTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAATTACCATTTTACCCCCAAACTTTCCAA
* * *
15217106 AATTCCATTTTCGACCCCGATTTCACCAAAAATCACCATTTTGCCCCGTAA-
65 AATTCCATTTTCAACCCCGATTTCACCAAAAATTACCATTTTACCCCGTAAC
*
15217157 GTCCAAAATTACCATTTT
1 TTCCAAAATT-CCATTTT
15217175 GCCCCCGGGT
Statistics
Matches: 215, Mismatches: 26, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
115 87 0.40
116 52 0.24
117 73 0.34
118 3 0.01
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.35
Consensus pattern (116 bp):
TTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAATTACCATTTTACCCCCAAACTTTCCAAA
ATTCCATTTTCAACCCCGATTTCACCAAAAATTACCATTTTACCCCGTAAC
Found at i:15229385 original size:76 final size:76
Alignment explanation
Indices: 15229283--15229813 Score: 878
Period size: 76 Copynumber: 7.0 Consensus size: 76
15229273 ATCAGACCGC
*
15229283 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAATTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
15229348 ATTGAAGTAAG
66 ATTGAAGTAAG
*
15229359 AGCAACG-TCATTTCCTAT-C-C--G--CTTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
1 AGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
15229417 AATTGAAGTAAG
65 AATTGAAGTAAG
* *
15229429 AGCAAGATCATTTCTTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
15229494 ATTGAAGTAAG
66 ATTGAAGTAAG
*
15229505 AGCAAGATCATTTCCTATCCTCTTGAAATTGAATTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
15229570 ATTGAAGTAAG
66 ATTGAAGTAAG
15229581 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
15229646 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
15229657 AGCAAGACCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
15229722 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
15229733 AGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTG
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA--TCTCTG
15229798 AAATTGAAGTAAG
64 AAATTGAAGTAAG
15229811 AGC
1 AGC
15229814 TAGACGAAGC
Statistics
Matches: 428, Mismatches: 17, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
69 1 0.00
70 62 0.14
71 1 0.00
72 2 0.00
74 2 0.00
75 1 0.00
76 336 0.79
77 1 0.00
78 22 0.05
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (76 bp):
AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
ATTGAAGTAAG
Found at i:15230606 original size:26 final size:26
Alignment explanation
Indices: 15230577--15230635 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
15230567 TACAAAGGGT
*
15230577 TACAAACCCGGTGCTCAAAATCAATA
1 TACAAACCCCGTGCTCAAAATCAATA
* **
15230603 TACAACAACCCCGTTCTTGAAATCAATA
1 TAC-A-AACCCCGTGCTCAAAATCAATA
15230631 TACAA
1 TACAA
15230636 GCCCTTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
26 4 0.15
27 2 0.07
28 21 0.78
ACGTcount: A:0.42, C:0.27, G:0.08, T:0.22
Consensus pattern (26 bp):
TACAAACCCCGTGCTCAAAATCAATA
Found at i:15230918 original size:15 final size:15
Alignment explanation
Indices: 15230898--15230927 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15230888 ATAATTTCAT
15230898 AAATATCATTAATAA
1 AAATATCATTAATAA
*
15230913 AAATATTATTAATAA
1 AAATATCATTAATAA
15230928 TCATAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATCATTAATAA
Found at i:15230981 original size:13 final size:14
Alignment explanation
Indices: 15230920--15230986 Score: 61
Period size: 13 Copynumber: 4.9 Consensus size: 14
15230910 TAAAAATATT
15230920 ATTAATAATCATAATA
1 ATTAATAAT--TAATA
*
15230936 ATTAATAA-TAGTA
1 ATTAATAATTAATA
* *
15230949 ATAAAT-ATTTATA
1 ATTAATAATTAATA
15230962 ATT-ATAATTAAT-
1 ATTAATAATTAATA
15230974 ATTAATAATTAAT
1 ATTAATAATTAAT
15230987 GATATCAACC
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
12 6 0.14
13 28 0.67
16 8 0.19
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (14 bp):
ATTAATAATTAATA
Found at i:15231271 original size:16 final size:16
Alignment explanation
Indices: 15231247--15231277 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15231237 GATTTAGAAT
*
15231247 TTTTTCCAGATCTGGA
1 TTTTCCCAGATCTGGA
15231263 TTTTCCCAGATCTGG
1 TTTTCCCAGATCTGG
15231278 GTTTGGTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (16 bp):
TTTTCCCAGATCTGGA
Found at i:15231371 original size:20 final size:20
Alignment explanation
Indices: 15231345--15231391 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15231335 GAAAAAGAAA
*
15231345 AAGAAAACGAAAT-AACAAG
1 AAGAAAACGAAATGAAAAAG
*
15231364 AGAGAAAATGAAATGAAAAAG
1 A-AGAAAACGAAATGAAAAAG
15231385 AAGAAAA
1 AAGAAAA
15231392 AAAAGGGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 17 0.71
21 6 0.25
ACGTcount: A:0.70, C:0.04, G:0.19, T:0.06
Consensus pattern (20 bp):
AAGAAAACGAAATGAAAAAG
Found at i:15232159 original size:58 final size:59
Alignment explanation
Indices: 15232065--15232466 Score: 616
Period size: 59 Copynumber: 6.9 Consensus size: 59
15232055 CCCCAAACAG
*
15232065 TTCCAAAATTCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTA-CCCTCGAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCT-AAACT
* * * **
15232123 TTCTAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATCTTACCCCCGAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACT
15232182 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACT
* *
15232241 TTCCAAAATTCCA-TTTTAACCTCGATTTCACCAAAAATTACCATTTTACTCCC-GAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC-CCCTAAACT
* *
15232299 CTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACT
* *
15232358 TTCCAAAATTCCATTTTTAACCCCGATTCCACC-AAAATTACCATTTTACCCCTAAATT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACT
** *
15232416 TTCCAAAATTCCATTTTCGACCCTGATTTCACCAAAAATTACCATTTTACC
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACC
15232467 GCGCAAGTCC
Statistics
Matches: 315, Mismatches: 23, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
58 137 0.43
59 175 0.56
60 3 0.01
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (59 bp):
TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACT
Found at i:15232271 original size:117 final size:118
Alignment explanation
Indices: 15232065--15232466 Score: 641
Period size: 117 Copynumber: 3.4 Consensus size: 118
15232055 CCCCAAACAG
* *
15232065 TTCCAAAATTCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTA-CCCTCGAACTTTCTA
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCT-AAACTTTCCA
*
15232128 AAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATCTTACCCCCGAACT
65 AAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCGAACT
15232182 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAA
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAA
*
15232247 AATTCCA-TTTTAACCTCGATTTCACCAAAAATTACCATTTTACTCCCGAACT
66 AATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCGAACT
* *
15232299 CTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAA
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAA
* * ** *
15232364 AATTCCATTTTTAACCCCGATTCCACC-AAAATTACCATTTTACCCCTAAATT
66 AATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCGAACT
** *
15232416 TTCCAAAATTCCATTTTCGACCCTGATTTCACCAAAAATTACCATTTTACC
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACC
15232467 GCGCAAGTCC
Statistics
Matches: 265, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
117 213 0.80
118 48 0.18
119 4 0.02
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (118 bp):
TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAA
AATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCGAACT
Found at i:15234328 original size:9 final size:10
Alignment explanation
Indices: 15234301--15234334 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
15234291 CTAAGAAACA
15234301 TTTATTTATT
1 TTTATTTATT
15234311 TTTATTTATT
1 TTTATTTATT
15234321 TTTA-TTATT
1 TTTATTTATT
15234330 TTTAT
1 TTTAT
15234335 ATAATATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTTATT
Found at i:15234970 original size:19 final size:20
Alignment explanation
Indices: 15234918--15234961 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15234908 ATATGTTTTT
*
15234918 TTAATAAATACATTTTAAATA
1 TTAA-AAATATATTTTAAATA
*
15234939 TTAAAAATTTATTTTAAAT-
1 TTAAAAATATATTTTAAATA
15234958 TTAA
1 TTAA
15234962 TCATATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAAAAATATATTTTAAATA
Found at i:15236129 original size:24 final size:24
Alignment explanation
Indices: 15236102--15236150 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
15236092 TTTTATTTGT
*
15236102 TATTTATTTAATGCAGGTGAAAAA
1 TATTTATTTAATGCAGGCGAAAAA
* **
15236126 TATTTGTTTGGTGCAGGCGAAAAA
1 TATTTATTTAATGCAGGCGAAAAA
15236150 T
1 T
15236151 GTTTTGTGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (24 bp):
TATTTATTTAATGCAGGCGAAAAA
Found at i:15244078 original size:15 final size:17
Alignment explanation
Indices: 15244044--15244078 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15244034 ATTTAAAATT
15244044 GATTAAAATAATTGAAA
1 GATTAAAATAATTGAAA
15244061 GATTAAAA-AATT-AAA
1 GATTAAAATAATTGAAA
15244076 GAT
1 GAT
15244079 CGAAAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 4 0.22
17 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (17 bp):
GATTAAAATAATTGAAA
Found at i:15246367 original size:59 final size:60
Alignment explanation
Indices: 15246236--15246367 Score: 153
Period size: 61 Copynumber: 2.2 Consensus size: 60
15246226 TAATGAATTT
*
15246236 AGATACCAAATTGAATCTAAAAAAGTTTAGGTACTAAATTAGGAAAAAAAATATCAAATTC
1 AGATACCAAATTGAATCTAAAAAAGTTTAGGTACTAAATTAGG-AAAAAAATATCAAACTC
** * * *
15246297 AGATACCAAATTGGGTC-AAAAAAGGTTTAGGTA-TCAAATTAGG-AAAAAGTGTCAAGCTC
1 AGATACCAAATTGAATCTAAAAAA-GTTTAGGTACT-AAATTAGGAAAAAAATATCAAACTC
*
15246356 AGGTACCAAATT
1 AGATACCAAATT
15246368 AGAAAAAAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
59 23 0.37
60 7 0.11
61 32 0.52
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (60 bp):
AGATACCAAATTGAATCTAAAAAAGTTTAGGTACTAAATTAGGAAAAAAATATCAAACTC
Found at i:15246393 original size:31 final size:31
Alignment explanation
Indices: 15246322--15246397 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
15246312 TCAAAAAAGG
* * *
15246322 TTTAGGTATCAAATTAGGAAAAAGTGTCAAG
1 TTTAGGTACCAAATTAGAAAAAAGTGTCAAA
* *
15246353 CTCAGGTACCAAATTAGAAAAAAGTGTCAAA
1 TTTAGGTACCAAATTAGAAAAAAGTGTCAAA
*
15246384 TTTAAGTACCAAAT
1 TTTAGGTACCAAAT
15246398 GTTATATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (31 bp):
TTTAGGTACCAAATTAGAAAAAAGTGTCAAA
Found at i:15246710 original size:23 final size:23
Alignment explanation
Indices: 15246662--15246710 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
15246652 AACTCACGAG
*
15246662 TTTTTTCTGAGAATATACTAAAT
1 TTTTTTCTGAGAATATAATAAAT
15246685 TTTTTTCTGA-AATA-AATAAAT
1 TTTTTTCTGAGAATATAATAAAT
*
15246706 GTTTT
1 TTTTT
15246711 AAATTGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 4 0.17
23 10 0.42
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (23 bp):
TTTTTTCTGAGAATATAATAAAT
Found at i:15247044 original size:24 final size:24
Alignment explanation
Indices: 15247017--15247115 Score: 135
Period size: 24 Copynumber: 4.1 Consensus size: 24
15247007 ATACAAGTTG
*
15247017 AGAATGGTTAGCTCTTATGAGCCC
1 AGAATGGTTAGCTCTTACGAGCCC
* * *
15247041 AGAAAGTTTAGCTCATACGAGCCC
1 AGAATGGTTAGCTCTTACGAGCCC
*
15247065 AGAATGGTTAGCTCTTATGAGCCC
1 AGAATGGTTAGCTCTTACGAGCCC
* *
15247089 AGAATGTTTAGCTCTTACGAGTCC
1 AGAATGGTTAGCTCTTACGAGCCC
15247113 AGA
1 AGA
15247116 TAGAGTTTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AGAATGGTTAGCTCTTACGAGCCC
Found at i:15247070 original size:48 final size:48
Alignment explanation
Indices: 15247017--15247115 Score: 171
Period size: 48 Copynumber: 2.1 Consensus size: 48
15247007 ATACAAGTTG
15247017 AGAATGGTTAGCTCTTATGAGCCCAGAAAGTTTAGCTCATACGAGCCC
1 AGAATGGTTAGCTCTTATGAGCCCAGAAAGTTTAGCTCATACGAGCCC
* * *
15247065 AGAATGGTTAGCTCTTATGAGCCCAGAATGTTTAGCTCTTACGAGTCC
1 AGAATGGTTAGCTCTTATGAGCCCAGAAAGTTTAGCTCATACGAGCCC
15247113 AGA
1 AGA
15247116 TAGAGTTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (48 bp):
AGAATGGTTAGCTCTTATGAGCCCAGAAAGTTTAGCTCATACGAGCCC
Found at i:15250394 original size:33 final size:31
Alignment explanation
Indices: 15250364--15250447 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
15250354 ATTTTTTTGA
*
15250364 CCTAATTTGGTACCTAAACTTGACACTTTTT
1 CCTAATTTAGTACCTAAACTTGACACTTTTT
* * *
15250395 CCT-ATTTAGTATCTAAACTTGGCATTTTTT
1 CCTAATTTAGTACCTAAACTTGACACTTTTT
*
15250425 CCCCTAATTAAGTACCTAAACTT
1 --CCTAATTTAGTACCTAAACTT
15250448 TTTTAGATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
30 23 0.52
31 3 0.07
32 3 0.07
33 15 0.34
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (31 bp):
CCTAATTTAGTACCTAAACTTGACACTTTTT
Found at i:15251278 original size:15 final size:17
Alignment explanation
Indices: 15251258--15251290 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15251248 GACATTTGGC
15251258 AAAT-AAAATAAT-TAA
1 AAATAAAAATAATATAA
15251273 AAATAAAAATAATATAA
1 AAATAAAAATAATATAA
15251290 A
1 A
15251291 TATGAATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAAATAATATAA
Found at i:15251998 original size:96 final size:96
Alignment explanation
Indices: 15251824--15252001 Score: 243
Period size: 96 Copynumber: 1.9 Consensus size: 96
15251814 AAGGATGTTT
** ** * *
15251824 GATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGGGCAAATTTTCATAACCGAAGA
1 GATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAAATTTCAAAACCGAAGA
*
15251889 TAAGGAAACATTGCCTCAATTAAGGGTATTC
66 TAAAGAAACATTGCCTCAATTAAGGGTATTC
*
15251920 GATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAAATTTCAAAACTCGAA-
1 GATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAAATTTCAAAAC-CGAAG
*
15251984 ATAAA-AGAATATTGCCTC
65 ATAAAGA-AACATTGCCTC
15252002 GATTTTAAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
95 1 0.01
96 66 0.93
97 4 0.06
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (96 bp):
GATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAAATTTCAAAACCGAAGA
TAAAGAAACATTGCCTCAATTAAGGGTATTC
Found at i:15252239 original size:28 final size:28
Alignment explanation
Indices: 15252208--15252325 Score: 78
Period size: 28 Copynumber: 4.1 Consensus size: 28
15252198 GAAAATGACT
15252208 TTTTGGGTACTCGGGGGTAAAATGGTAA
1 TTTTGGGTACTCGGGGGTAAAATGGTAA
** * *
15252236 TTTTAGACT-CTCGAGGGAAAAATGGTAA
1 TTTT-GGGTACTCGGGGGTAAAATGGTAA
* * * * *
15252264 TTTTGGGAAAATTTGGGGTTAAAAAT-GAAA
1 TTTTGGG--TACTCGGGGGT-AAAATGGTAA
* **
15252294 TTTTGGATGTTCGGGGGTAAAATGGTAA
1 TTTTGGGTACTCGGGGGTAAAATGGTAA
15252322 TTTT
1 TTTT
15252326 TGGAAAAATC
Statistics
Matches: 65, Mismatches: 19, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
27 6 0.09
28 39 0.60
29 2 0.03
30 13 0.20
31 5 0.08
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.35
Consensus pattern (28 bp):
TTTTGGGTACTCGGGGGTAAAATGGTAA
Found at i:15252296 original size:58 final size:58
Alignment explanation
Indices: 15252234--15252385 Score: 164
Period size: 58 Copynumber: 2.6 Consensus size: 58
15252224 GTAAAATGGT
* * * * * * *
15252234 AATTTTAGACTCTCGAGGGAAAAATGGTAATTTTGGGAAAATTTGGGGTTAAAAATGA
1 AATTTTGGACTCTCGAGGGTAAAATGGTAATTTTGGGAAAAATCGAGATAAAAAATGA
* * *
15252292 AATTTTGGA-TGTTCGGGGGTAAAATGGTAATTTTTGGAAAAATCGAGATAAAAAATGA
1 AATTTTGGACT-CTCGAGGGTAAAATGGTAATTTTGGGAAAAATCGAGATAAAAAATGA
*
15252350 AGTTTTTGGACATC-CGAGGGTAAAATGGTAATTTTG
1 A-ATTTTGGAC-TCTCGAGGGTAAAATGGTAATTTTG
15252386 AGACGTGGTA
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
57 1 0.01
58 47 0.62
59 27 0.36
61 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.32
Consensus pattern (58 bp):
AATTTTGGACTCTCGAGGGTAAAATGGTAATTTTGGGAAAAATCGAGATAAAAAATGA
Found at i:15252458 original size:30 final size:30
Alignment explanation
Indices: 15252394--15252499 Score: 94
Period size: 30 Copynumber: 3.6 Consensus size: 30
15252384 TGAGACGTGG
* * **
15252394 TAATTTTT-AGGAGTTTTGGGGGTGAAAAGG
1 TAATTTTTGAGAAGTTTT-GGGGTAAAAATA
15252424 TAATTTTTGA-AAGTTTTGGGGTTAAAAATA
1 TAATTTTTGAGAAGTTTTGGGG-TAAAAATA
* *
15252454 TAATTTTGGAGAAG-TTTGGGGTCAAAATA
1 TAATTTTTGAGAAGTTTTGGGGTAAAAATA
*
15252483 TGATTTTTG-GACAGTTT
1 TAATTTTTGAGA-AGTTT
15252500 AAGGACCTCT
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.03
29 20 0.32
30 37 0.59
31 4 0.06
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.41
Consensus pattern (30 bp):
TAATTTTTGAGAAGTTTTGGGGTAAAAATA
Found at i:15253567 original size:7 final size:7
Alignment explanation
Indices: 15253557--15253614 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 7
15253547 TTTTTATTTT
15253557 TTATTAA
1 TTATTAA
15253564 TTATTACTA
1 TTATTA--A
15253573 TTATTAA
1 TTATTAA
* * *
15253580 TAACGTAT
1 TTA-TTAA
15253588 TTATTAA
1 TTATTAA
15253595 TTAATTAA
1 TT-ATTAA
15253603 TTATTAA
1 TTATTAA
15253610 TTATT
1 TTATT
15253615 TAAAACAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
7 23 0.56
8 11 0.27
9 7 0.17
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (7 bp):
TTATTAA
Found at i:15253606 original size:15 final size:15
Alignment explanation
Indices: 15253557--15253617 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
15253547 TTTTTATTTT
15253557 TTATTAATT-ATTACTA
1 TTATTAATTAATTA--A
* *
15253573 TTATTAA-TAACGTAT
1 TTATTAATTAA-TTAA
15253588 TTATTAATTAATTAA
1 TTATTAATTAATTAA
*
15253603 TTATTAATTATTTAA
1 TTATTAATTAATTAA
15253618 AACAGTTTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 24 0.65
16 11 0.30
17 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (15 bp):
TTATTAATTAATTAA
Found at i:15253607 original size:19 final size:19
Alignment explanation
Indices: 15253559--15253617 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
15253549 TTTATTTTTT
15253559 ATTAATTATTACTATT-ATTA
1 ATTAATTATT--TATTAATTA
*
15253579 A-TAACGTATTTATTAATTA
1 ATTAA-TTATTTATTAATTA
* *
15253598 ATTAATTATTAATTATTTA
1 ATTAATTATTTATTAATTA
15253617 A
1 A
15253618 AACAGTTTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 4 0.12
19 20 0.62
20 8 0.25
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTAATTATTTATTAATTA
Found at i:15254355 original size:6 final size:6
Alignment explanation
Indices: 15254344--15254456 Score: 67
Period size: 6 Copynumber: 19.3 Consensus size: 6
15254334 GGCTTCTAGT
* *
15254344 TTTAAA TTTAAAA ATT-A- TTTCAAA TTTAAA -CTAAA TTTAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * * *
15254391 TTTAAA TTTAAA -GTAAA TTTAAT TTTAGAA -ATAAA TCTAAA -ATATA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA
* *
15254437 TTTAAA CTTAAA TTAAAA TT
1 TTTAAA TTTAAA TTTAAA TT
15254457 GACCCAAAGT
Statistics
Matches: 81, Mismatches: 17, Indels: 18
0.70 0.15 0.16
Matches are distributed among these distances:
4 2 0.02
5 14 0.17
6 56 0.69
7 9 0.11
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:15254380 original size:29 final size:29
Alignment explanation
Indices: 15254346--15254412 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
15254336 CTTCTAGTTT
15254346 TAAATTTAAAAATT-ATTTCAAATTTAAAC
1 TAAATTTAAAAATTAATTT-AAATTTAAAC
* *
15254375 TAAATTT-AAATTTAAATTTAAATTTAAAG
1 TAAATTTAAAAATT-AATTTAAATTTAAAC
15254404 TAAATTTAA
1 TAAATTTAA
15254413 TTTTAGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 5 0.15
29 23 0.70
30 5 0.15
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (29 bp):
TAAATTTAAAAATTAATTTAAATTTAAAC
Found at i:15254391 original size:23 final size:23
Alignment explanation
Indices: 15254360--15254456 Score: 72
Period size: 23 Copynumber: 4.1 Consensus size: 23
15254350 TTTAAAAATT
15254360 ATTTCAAATTTAAACTAAATTTAA
1 ATTT-AAATTTAAACTAAATTTAA
* *
15254384 ATTTAAATTTAAATTTAAA-GTAA
1 ATTTAAATTTAAA-CTAAATTTAA
* * *
15254407 ATTTAATTTTAGAAATAAATCTAA
1 ATTTAAATTTA-AACTAAATTTAA
* * *
15254431 A-ATATATTTAAACTTAAATTAAA
1 ATTTAAATTTAAAC-TAAATTTAA
15254454 ATT
1 ATT
15254457 GACCCAAAGT
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
22 2 0.04
23 40 0.71
24 14 0.25
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTTAAATTTAAACTAAATTTAA
Found at i:15254425 original size:29 final size:29
Alignment explanation
Indices: 15254365--15254453 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
15254355 AAATTATTTC
* *
15254365 AAATTTAAACTAAATTTAAATTTAAATTT
1 AAATTTAAAATAAATTTAAATTTAAATAT
* *
15254394 AAATTTAAAGTAAATTTAATTTTAGAA-AT
1 AAATTTAAAATAAATTTAAATTTA-AATAT
* * *
15254423 AAATCTAAAATATATTTAAACTTAAAT-T
1 AAATTTAAAATAAATTTAAATTTAAATAT
15254451 AAA
1 AAA
15254454 ATTGACCCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
28 6 0.12
29 42 0.84
30 2 0.04
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (29 bp):
AAATTTAAAATAAATTTAAATTTAAATAT
Found at i:15255189 original size:205 final size:204
Alignment explanation
Indices: 15254802--15256256 Score: 2097
Period size: 205 Copynumber: 7.1 Consensus size: 204
15254792 TGGCTTTGTC
* * * * ** * * ** * *
15254802 CTCAGTATTTCATCAGGAAGATGACTGCGTCGTTTGTTTTGATCCATTTCTCTGGCTTTCCAT-A
1 CTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCC-TCA
* * * * * *
15254866 GGAAGAC-AGATTTGGTTCACTTCACTGTATATCATCAAGAAGCTAACCATTTTATTGCTTCGAC
65 GGAAGACGA-ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCA-TTTATTGCTTCGAC
* *
15254930 CTACTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATTGAGCTTGGGTTTG
128 CTGCTTCTCAGTATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCGCATTGAGCCTGGGTTTG
15254995 ATTTGGTCTTCTT
192 ATTTGGTCTTCTT
*
15255008 CTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTAGATCTCCTCAG
1 CTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTCAG
*
15255073 GAAGACGAATTTGGTCCACTTCTCAATGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTG
66 GAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTG
* * * * * * * *
15255138 CTTCTCAATGTCTTATCAGGAAGTTGGAGTTCGAAGATTTGCCCACATTGAGCTTGGATTTGATT
131 CTTCTCAGTATCTCATCAGGAAGCTGG-GTTCGAAGATTTGCTCGCATTGAGCCTGGGTTTGATT
15255203 TGGTCTTCTT
195 TGGTCTTCTT
*
15255213 CTCAGTGTCTTATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTCAG
1 CTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTCAG
15255278 GAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTG-TTCGACCTG
66 GAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTG
* *
15255342 CTTCTCAGTATCTTATCAGGAAGTTGGGATTCGAAGATTTGCTCGCATTGAGCCTGGGTTTGATT
131 CTTCTCAGTATCTCATCAGGAAGCTGGG-TTCGAAGATTTGCTCGCATTGAGCCTGGGTTTGATT
15255407 TGGTCTTCTT
195 TGGTCTTCTT
* * * *
15255417 TTTAGTGTCTCATTAGGAAGATGACCACATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTCAG
1 CTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTCAG
* * *
15255482 GAAGACGAATTTGGTCCACTTCTCAGTGTTTCATCAAGAAGCTAACCATTTATTGCTTCAACCTG
66 GAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTG
* * *
15255547 CTTCTCAGTATCTCATCAGGAAGCTGAGATTCAAAGATTTGCTCGCATTGAGCCTGGGTTTGAGT
131 CTTCTCAGTATCTCATCAGGAAGCTG-GGTTCGAAGATTTGCTCGCATTGAGCCTGGGTTTGATT
15255612 TGGTCTTCTT
195 TGGTCTTCTT
** * *
15255622 CTCAGTGTCTCATCAGGAAGATGACTACATCACTTGTTTTAATTCGCTTCTCTAGATCTCCTCAA
1 CTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTCAG
*
15255687 GAAGACGAATTTGGTCCACTTCTTAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTG
66 GAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTG
* * * * *
15255752 CTTCTTAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCCCGTATTGAGCCTGAGTTTGATT
131 CTTCTCAGTATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCGCATTGAGCCTGGGTTTGATT
15255817 TGGTCTTCTT
195 TGGTCTTCTT
* * * *
15255827 CTTAGTGTCTTATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGAATCTCATCAG
1 CTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTCAG
* * * *
15255892 GAAGACAAATTTGGTCTACTTCTCAGTATCTTATCAGGAAGCTAACCATTTATTGCTTCGACCTG
66 GAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTG
* * * * *
15255957 TTTCTCAGTTTCTCATCAGGAGGCTGAGGTTCGAATATTTGCTTGCATTGAGCCTGGGTTTGATT
131 CTTCTCAGTATCTCATCAGGAAGCTG-GGTTCGAAGATTTGCTCGCATTGAGCCTGGGTTTGATT
15256022 TGGTCTTCTT
195 TGGTCTTCTT
* * * * *
15256032 CTTAGTGTCTCATCAAGAAGATGACCGTATCACTTGTTTTAATTCGCTTCACTGGATCTCCTCAA
1 CTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTCAG
* * *
15256097 GAAGACAAATTTGGTCCACTTCTCAGTGTCTCATCAGTAAGCTAACCATTTATTGCTTCGACCTA
66 GAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTG
* * * *
15256162 CTTCTCAGTATCTCATTAGGAAGCTGGGATTCGAATATTTGCTTGCATTGAGCTTGGGTTTGATT
131 CTTCTCAGTATCTCATCAGGAAGCTGGG-TTCGAAGATTTGCTCGCATTGAGCCTGGGTTTGATT
15256227 TGGTCTTCTT
195 TGGTCTTCTT
15256237 CTCAGTGTCTCATCAGGAAG
1 CTCAGTGTCTCATCAGGAAG
15256257 CTAACCATTT
Statistics
Matches: 1131, Mismatches: 109, Indels: 19
0.90 0.09 0.02
Matches are distributed among these distances:
203 1 0.00
204 194 0.17
205 844 0.75
206 91 0.08
207 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (204 bp):
CTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTCAG
GAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTG
CTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCCTGGGTTTGATTT
GGTCTTCTT
Found at i:15256332 original size:119 final size:119
Alignment explanation
Indices: 15256105--15256324 Score: 370
Period size: 119 Copynumber: 1.9 Consensus size: 119
15256095 AAGAAGACAA
*
15256105 ATTTGGTCCACTTCTCAGTGTCTCATCAGTAAGCTAACCATTTATTGCTTCGACCTACTTCTCAG
1 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTACTTCTCAG
* * *
15256170 TATCTCATTAGGAAGCTGGGATTCGAATATTTGCTTGCATTGAGCTTGGGTTTG
66 TATCTCATTAGGAAGCTGGGATTAGAAGATTTGCTCGCATTGAGCTTGGGTTTG
** *
15256224 ATTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTGCTTCTCAG
1 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTACTTCTCAG
15256289 TATCTCA-TAGGAAGCTGGGATTAGAAGATTTGCTCG
66 TATCTCATTAGGAAGCTGGGATTAGAAGATTTGCTCG
15256325 TATTTGAGTG
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
118 26 0.28
119 68 0.72
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (119 bp):
ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTACTTCTCAG
TATCTCATTAGGAAGCTGGGATTAGAAGATTTGCTCGCATTGAGCTTGGGTTTG
Found at i:15256921 original size:49 final size:50
Alignment explanation
Indices: 15256844--15256947 Score: 147
Period size: 49 Copynumber: 2.1 Consensus size: 50
15256834 ACTTAAACCA
*
15256844 TTCCCTTCAAATCTTCGTGGTACGGGATCCACCGTCGCG-GCTTAGATCT
1 TTCCCTTCAAATCTTCGTGGTACGGGATCCACCGTCGCGAGCTTAGAGCT
** ** *
15256893 TTCCCTTCATGTCTTCGTGGTATTGGATCCACCGTCGCGATCTTAGAGCT
1 TTCCCTTCAAATCTTCGTGGTACGGGATCCACCGTCGCGAGCTTAGAGCT
15256943 TTCCC
1 TTCCC
15256948 GTTGTGTCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 35 0.73
50 13 0.27
ACGTcount: A:0.14, C:0.31, G:0.21, T:0.34
Consensus pattern (50 bp):
TTCCCTTCAAATCTTCGTGGTACGGGATCCACCGTCGCGAGCTTAGAGCT
Found at i:15256988 original size:50 final size:51
Alignment explanation
Indices: 15256934--15257199 Score: 191
Period size: 50 Copynumber: 5.3 Consensus size: 51
15256924 CCGTCGCGAT
* * *
15256934 CTTAGAGCTTTCCCGTTGTGTCTTCTGAGGTACACGATCTGCCGTTG-TGA
1 CTTAGACCTTTCCCGTTGTGTCTTTTGAGGTACACGATCTGCCGTTGCAGA
* * * * *
15256984 CTTAGACCTTTCCC-TTTTGTCTTTTTGCGGTACAAGATCTGCTGTTGCAGT
1 CTTAGACCTTTCCCGTTGTGTC-TTTTGAGGTACACGATCTGCCGTTGCAGA
* * * *** *
15257035 CTTAGATCTTTCCCGTCGTGTCTTTTGAGGTACACGGTCCATCGTTAC-GA
1 CTTAGACCTTTCCCGTTGTGTCTTTTGAGGTACACGATCTGCCGTTGCAGA
* * * ** **** * *
15257085 CTTAGACCTTTCCC-TTTTATCTTTTTGTGGTACTGGATCCATAGTTGCGGT
1 CTTAGACCTTTCCCGTTGTGTC-TTTTGAGGTACACGATCTGCCGTTGCAGA
* * * * * *
15257136 TTTAGATCTTTCCCGTCGTGTCTTCTGAGGTACACGATCTGTCGTTAC-GA
1 CTTAGACCTTTCCCGTTGTGTCTTTTGAGGTACACGATCTGCCGTTGCAGA
15257186 CTTAGACCTTTCCC
1 CTTAGACCTTTCCC
15257200 TTTTATCTTT
Statistics
Matches: 163, Mismatches: 47, Indels: 12
0.73 0.21 0.05
Matches are distributed among these distances:
49 10 0.06
50 81 0.50
51 63 0.39
52 9 0.06
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (51 bp):
CTTAGACCTTTCCCGTTGTGTCTTTTGAGGTACACGATCTGCCGTTGCAGA
Found at i:15257056 original size:101 final size:99
Alignment explanation
Indices: 15256933--15257253 Score: 426
Period size: 101 Copynumber: 3.2 Consensus size: 99
15256923 ACCGTCGCGA
* * * **
15256933 TCTTAGAGCTTTCCCGTTGTGTCTTCTGAGGTACACGATCTGCCGTTGTGACTTAGACCTTTCCC
1 TCTTAGATCTTTCCCGTCGTGTCTTCTGAGGTACACGATCTGTCGTTACGACTTAGACCTTTCCC
* ** *
15256998 TTTTGTCTTTTTGCGGTACAAGATCTGCTGTTGCAG
66 TTTTATCTTTTTGCGGTACTGGATC--CTGTTGCGG
* * **
15257034 TCTTAGATCTTTCCCGTCGTGTCTTTTGAGGTACACGGTCCATCGTTACGACTTAGACCTTTCCC
1 TCTTAGATCTTTCCCGTCGTGTCTTCTGAGGTACACGATCTGTCGTTACGACTTAGACCTTTCCC
*
15257099 TTTTATCTTTTTGTGGTACTGGATCCATAGTTGCGG
66 TTTTATCTTTTTGCGGTACTGGATCC-T-GTTGCGG
*
15257135 TTTTAGATCTTTCCCGTCGTGTCTTCTGAGGTACACGATCTGTCGTTACGACTTAGACCTTTCCC
1 TCTTAGATCTTTCCCGTCGTGTCTTCTGAGGTACACGATCTGTCGTTACGACTTAGACCTTTCCC
* * *
15257200 TTTTATCTTTTTGCGATACTGGATCCACCGTTACGG
66 TTTTATCTTTTTGCGGTACTGGAT-C-CTGTTGCGG
15257236 TCTTAGATCTTTCCCGTC
1 TCTTAGATCTTTCCCGTC
15257254 ATCTTCGTGG
Statistics
Matches: 192, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
99 1 0.01
100 1 0.01
101 188 0.98
102 1 0.01
103 1 0.01
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.40
Consensus pattern (99 bp):
TCTTAGATCTTTCCCGTCGTGTCTTCTGAGGTACACGATCTGTCGTTACGACTTAGACCTTTCCC
TTTTATCTTTTTGCGGTACTGGATCCTGTTGCGG
Found at i:15257232 original size:50 final size:51
Alignment explanation
Indices: 15256982--15257250 Score: 165
Period size: 51 Copynumber: 5.3 Consensus size: 51
15256972 CTGCCGTTGT
* * ** * *
15256982 GACTTAGACCTTTCCCTTTTGTCTTTTTGCGGTACAAGAT-C-TGCTGTTGCA
1 GACTTAGACCTTTCCCTTTTATCTTTTTGAGGTACTGGATCCAT-C-GTTACG
* * ** * *
15257033 GTCTTAGATCTTTCCCGTCGTGTC-TTTTGAGGTACACGG-TCCATCGTTAC-
1 GACTTAGACCTTTCCC-TTTTATCTTTTTGAGGTAC-TGGATCCATCGTTACG
* * *
15257083 GACTTAGACCTTTCCCTTTTATCTTTTTGTGGTACTGGATCCATAGTTGCG
1 GACTTAGACCTTTCCCTTTTATCTTTTTGAGGTACTGGATCCATCGTTACG
** * ** * * ** **
15257134 GTTTTAGATCTTTCCCGTCGTGTC-TTCTGAGGTACACGATCTGTCGTTAC-
1 GACTTAGACCTTTCCC-TTTTATCTTTTTGAGGTACTGGATCCATCGTTACG
* * *
15257184 GACTTAGACCTTTCCCTTTTATCTTTTTGCGATACTGGATCCACCGTTACG
1 GACTTAGACCTTTCCCTTTTATCTTTTTGAGGTACTGGATCCATCGTTACG
* *
15257235 GTCTTAGATCTTTCCC
1 GACTTAGACCTTTCCC
15257251 GTCATCTTCG
Statistics
Matches: 161, Mismatches: 47, Indels: 20
0.71 0.21 0.09
Matches are distributed among these distances:
49 10 0.06
50 64 0.40
51 74 0.46
52 12 0.07
53 1 0.01
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (51 bp):
GACTTAGACCTTTCCCTTTTATCTTTTTGAGGTACTGGATCCATCGTTACG
Found at i:15257289 original size:48 final size:48
Alignment explanation
Indices: 15257216--15257398 Score: 179
Period size: 48 Copynumber: 3.8 Consensus size: 48
15257206 CTTTTTGCGA
* *
15257216 TACTGGATCCACCGTTACGGTCTTAGATCTTTCCCGTCATCTTCGTGG
1 TACTGGATCCACCGTTACGGCCTTAGATCTTTCCCGTCATCTTCATGG
* * * *
15257264 TACTAGATCCACCGTCACGGCCTTAGATCTTTCCTGTCGTCTTCATGG
1 TACTGGATCCACCGTTACGGCCTTAGATCTTTCCCGTCATCTTCATGG
* * * * * * *
15257312 TACTGGATCCGCCGTTGCAGCCTTAGATTTTTCCCATCGTGTTTTCATGG
1 TACTGGATCCACCGTTACGGCCTTAGATCTTTCCCGTC--ATCTTCATGG
* * * * *
15257362 TACTGGATTCGCCGTTGCGG-TTTAAATCTTTCCCGTC
1 TACTGGATCCACCGTTACGGCCTTAGATCTTTCCCGTC
15257399 GTGTTTCATG
Statistics
Matches: 112, Mismatches: 21, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
48 72 0.64
49 13 0.12
50 27 0.24
ACGTcount: A:0.15, C:0.28, G:0.21, T:0.36
Consensus pattern (48 bp):
TACTGGATCCACCGTTACGGCCTTAGATCTTTCCCGTCATCTTCATGG
Found at i:15258665 original size:23 final size:22
Alignment explanation
Indices: 15258608--15258666 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
15258598 TCTCCTTCTC
*
15258608 TTTTTCTTTTTTTTTTGTTTTT
1 TTTTTCTTTTATTTTTGTTTTT
*
15258630 TTGTTTTTTTTATTTTTGTTTTT
1 TT-TTTCTTTTATTTTTGTTTTT
*
15258653 TCTTTTCTCTTATT
1 T-TTTTCTTTTATT
15258667 CATTAAATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 2 0.06
23 28 0.90
24 1 0.03
ACGTcount: A:0.03, C:0.07, G:0.05, T:0.85
Consensus pattern (22 bp):
TTTTTCTTTTATTTTTGTTTTT
Found at i:15259566 original size:11 final size:12
Alignment explanation
Indices: 15259549--15259604 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
15259539 CTTTTTCCTC
*
15259549 TCTTTTTTTTTT
1 TCTTTTTTCTTT
15259561 TCTTTTTTCTTT
1 TCTTTTTTCTTT
15259573 T-TGTTCTTTCTTT
1 TCT-TT-TTTCTTT
*
15259586 CTCTTTTTT-TTC
1 -TCTTTTTTCTTT
15259598 TCTTTTT
1 TCTTTTT
15259605 GATTGATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 8 0.21
12 16 0.42
13 10 0.26
14 3 0.08
15 1 0.03
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (12 bp):
TCTTTTTTCTTT
Found at i:15259567 original size:13 final size:13
Alignment explanation
Indices: 15259549--15259594 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
15259539 CTTTTTCCTC
15259549 TCTTTTTT-TTTT
1 TCTTTTTTCTTTT
15259561 TCTTTTTTCTTTT
1 TCTTTTTTCTTTT
* * *
15259574 TGTTCTTTCTTTC
1 TCTTTTTTCTTTT
15259587 TCTTTTTT
1 TCTTTTTT
15259595 TTCTCTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 8 0.29
13 20 0.71
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (13 bp):
TCTTTTTTCTTTT
Found at i:15259598 original size:19 final size:20
Alignment explanation
Indices: 15259547--15259598 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
15259537 CCCTTTTTCC
15259547 TCTCTTTTTTTT-TTTCTTT
1 TCTCTTTTTTTTCTTTCTTT
* *
15259566 TTTCTTTTTGTTCTTTC-TT
1 TCTCTTTTTTTTCTTTCTTT
15259585 TCTCTTTTTTTTCT
1 TCTCTTTTTTTTCT
15259599 CTTTTTGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (20 bp):
TCTCTTTTTTTTCTTTCTTT
Found at i:15263459 original size:96 final size:96
Alignment explanation
Indices: 15263288--15263469 Score: 260
Period size: 96 Copynumber: 1.9 Consensus size: 96
15263278 AAGGATGTTT
** * * *
15263288 GATTATCTCGATTTGAAGAAAGGTTGCACCAAGTAAGTTAAGGTGCAAATTTTCATAACCGAAGA
1 GATTATCTCGATTTGAAGAAAAATTGCACCAAGTAAGTTAAGGCGCAAAATTTCAAAACCGAAGA
*
15263353 TAAGGAAATATTGCCTCGATTAAGGGTATTC
66 TAAAGAAATATTGCCTCGATTAAGGGTATTC
* *
15263384 GATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAAATTTCAAAACTCGAA-
1 GATTATCTCGATTTGAAGAAAAATTGCACCAAGTAAGTTAAGGCGCAAAATTTCAAAAC-CGAAG
15263448 ATAAA-AGAATATTGCCTCGATT
65 ATAAAGA-AATATTGCCTCGATT
15263470 TTAAAGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
95 1 0.01
96 71 0.93
97 4 0.05
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (96 bp):
GATTATCTCGATTTGAAGAAAAATTGCACCAAGTAAGTTAAGGCGCAAAATTTCAAAACCGAAGA
TAAAGAAATATTGCCTCGATTAAGGGTATTC
Found at i:15263884 original size:30 final size:30
Alignment explanation
Indices: 15263860--15264185 Score: 178
Period size: 29 Copynumber: 11.2 Consensus size: 30
15263850 AAAATGGTAA
15263860 TTTTGAG-AGTTTTGGGGTCAAAAATGAAAT
1 TTTTGAGAAGTTTTGGGGTCAAAAATG-AAT
* * *
15263890 TTTTG-GAAG-CTCGGGGGCAAAAATGGAAT
1 TTTTGAGAAGTTTTGGGGTCAAAAAT-GAAT
**
15263919 TTTTG-GAAGTTCAGGGG-CAAAAATAGAAT
1 TTTTGAGAAGTTTTGGGGTCAAAAAT-GAAT
* * *
15263948 TTTT-AGAATTTTTAGGGTTAAAAATGGAAT
1 TTTTGAGAAGTTTTGGGGTCAAAAAT-GAAT
* *
15263978 TTTTG-GAA-ATTCGAGGG-C-AAAATGGAAT
1 TTTTGAGAAGTTTTG-GGGTCAAAAAT-GAAT
* *
15264006 TTTTG-GAAGTTTCGAGGT-AAAAATGGAAT
1 TTTTGAGAAGTTTTGGGGTCAAAAAT-GAAT
* * *
15264035 TTGTGA-AAG-TTCGAGGG-CAAAAATATAAT
1 TTTTGAGAAGTTTTG-GGGTCAAAAAT-GAAT
*
15264064 TTTTGA-AA-TTTTAGGGG-CAAAAATATAAT
1 TTTTGAGAAGTTTT-GGGGTCAAAAAT-GAAT
*
15264093 TTTTG-GAAGTTTTAGAGGT-AAAAATGTAAT
1 TTTTGAGAAGTTTT-GGGGTCAAAAATG-AAT
*
15264123 TTTTGA-AAGTTTTAGGGTC-AAAATGTAAT
1 TTTTGAGAAGTTTTGGGGTCAAAAATG-AAT
*
15264152 TTTGGAGAAG-TTTGGGGTCAAAATATG-AT
1 TTTTGAGAAGTTTTGGGGTCAAAA-ATGAAT
15264181 TTTTG
1 TTTTG
15264186 GACAATTTAG
Statistics
Matches: 240, Mismatches: 32, Indels: 49
0.75 0.10 0.15
Matches are distributed among these distances:
28 24 0.10
29 145 0.60
30 68 0.28
31 3 0.01
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.35
Consensus pattern (30 bp):
TTTTGAGAAGTTTTGGGGTCAAAAATGAAT
Found at i:15263905 original size:29 final size:28
Alignment explanation
Indices: 15263873--15264103 Score: 194
Period size: 29 Copynumber: 8.0 Consensus size: 28
15263863 TGAGAGTTTT
* *
15263873 GGGGTCAAAAATGAAATTTTTGGAAGCTC
1 GGGG-CAAAAATGGAATTTTTGGAAGTTC
15263902 GGGGGCAAAAATGGAATTTTTGGAAGTTC
1 -GGGGCAAAAATGGAATTTTTGGAAGTTC
* * * *
15263931 AGGGGCAAAAATAGAATTTTTAGAATTTTTA
1 -GGGGCAAAAATGGAATTTTTGGAA--GTTC
** *
15263962 GGGTTAAAAATGGAATTTTTGGAAATTC
1 GGGGCAAAAATGGAATTTTTGGAAGTTC
15263990 GAGGGC-AAAATGGAATTTTTGGAAGTTTC
1 G-GGGCAAAAATGGAATTTTTGGAAG-TTC
* * * *
15264019 GAGGTAAAAATGGAATTTGTGAAAGTTC
1 GGGGCAAAAATGGAATTTTTGGAAGTTC
** * * *
15264047 GAGGGCAAAAATATAATTTTTGAAATTTTA
1 G-GGGCAAAAATGGAATTTTTGGAA-GTTC
**
15264077 GGGGCAAAAATATAATTTTTGGAAGTT
1 GGGGCAAAAATGGAATTTTTGGAAGTT
15264104 TTAGAGGTAA
Statistics
Matches: 165, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
28 29 0.18
29 107 0.65
30 27 0.16
31 2 0.01
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (28 bp):
GGGGCAAAAATGGAATTTTTGGAAGTTC
Found at i:15263940 original size:58 final size:57
Alignment explanation
Indices: 15263873--15264187 Score: 203
Period size: 58 Copynumber: 5.4 Consensus size: 57
15263863 TGAGAGTTTT
* *
15263873 GGGGTCAAAAATGAAATTTTTGGAAGCTCGGGGGCAAAAATGGAATTTTTGGAAGTTC
1 GGGG-CAAAAATGAAATTTTTGGAAGTTCAGGGGCAAAAATGGAATTTTTGGAAGTTC
* * * ** *
15263931 AGGGGCAAAAAT-AGAATTTTTAGAATTTTTAGGGTTAAAAATGGAATTTTTGGAAATTC
1 -GGGGCAAAAATGA-AATTTTTGGAA-GTTCAGGGGCAAAAATGGAATTTTTGGAAGTTC
* * * * *
15263990 GAGGGC-AAAATGGAATTTTTGGAAGTTTC-GAGGTAAAAATGGAATTTGTGAAAGTTC
1 G-GGGCAAAAATGAAATTTTTGGAAG-TTCAGGGGCAAAAATGGAATTTTTGGAAGTTC
* * * ** *
15264047 GAGGGCAAAAAT-ATAATTTTTGAAATTTTAGGGGCAAAAATATAATTTTTGGAAGTTTTA
1 G-GGGCAAAAATGA-AATTTTTGGAAGTTCAGGGGCAAAAATGGAATTTTTGGAAG--TTC
* * * * * * * * *
15264107 GAGGTAAAAATGTAATTTTTGAAAGTTTTAGGGTC-AAAATGTAATTTTGGAGAAGTTT
1 GGGGCAAAAATGAAATTTTTGGAAG-TTCAGGGGCAAAAATGGAATTTTTG-GAAGTTC
15264165 GGGGTCAAAATATG--ATTTTTGGA
1 GGGG-CAAAA-ATGAAATTTTTGGA
15264188 CAATTTAGGG
Statistics
Matches: 202, Mismatches: 39, Indels: 31
0.74 0.14 0.11
Matches are distributed among these distances:
57 32 0.16
58 82 0.41
59 70 0.35
60 18 0.09
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (57 bp):
GGGGCAAAAATGAAATTTTTGGAAGTTCAGGGGCAAAAATGGAATTTTTGGAAGTTC
Found at i:15263973 original size:59 final size:56
Alignment explanation
Indices: 15263908--15264163 Score: 230
Period size: 59 Copynumber: 4.4 Consensus size: 56
15263898 GCTCGGGGGC
15263908 AAAAATGGAATTTTTGGAAGTTC-AGGGGCAAAAATAGAATTTTTAGAATTTTTAGGGTT
1 AAAAATGGAATTTTTGGAAGTTCGA-GGGCAAAAATAGAATTTTT-GAA-TTTTAGGG-T
* * * *
15263967 AAAAATGGAATTTTTGGAAATTCGAGGGC-AAAATGGAATTTTTGGAAGTTTCGAGGT
1 AAAAATGGAATTTTTGGAAGTTCGAGGGCAAAAATAGAATTTTT-GAATTTTAG-GGT
* * * *
15264024 AAAAATGGAATTTGTGAAAGTTCGAGGGCAAAAATATAATTTTTGAAATTTTAGGGGC
1 AAAAATGGAATTTTTGGAAGTTCGAGGGCAAAAATAGAATTTTTG-AATTTTA-GGGT
** ** *
15264082 AAAAATATAATTTTTGGAAGTTTTAGAGGTAAAAAT-GTAATTTTTGAAAGTTTTAGGGT
1 AAAAATGGAATTTTTGGAAGTTCGAG-GGCAAAAATAG-AATTTTTG-AA-TTTTAGGGT
* * *
15264141 CAAAATGTAATTTTGGAGAAGTT
1 AAAAATGGAATTTTTG-GAAGTT
15264164 TGGGGTCAAA
Statistics
Matches: 163, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
57 32 0.20
58 57 0.35
59 62 0.38
60 12 0.07
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.35
Consensus pattern (56 bp):
AAAAATGGAATTTTTGGAAGTTCGAGGGCAAAAATAGAATTTTTGAATTTTAGGGT
Found at i:15264028 original size:116 final size:115
Alignment explanation
Indices: 15263880--15264100 Score: 293
Period size: 116 Copynumber: 1.9 Consensus size: 115
15263870 TTTGGGGTCA
* * *
15263880 AAAATGAAATTTTTGGAAGCTCGGGGGCAAAAATGGAATTTTTGGAAGTTC-AGGGGCAAAAATA
1 AAAATGAAATTTTTGGAAGCTCGGAGGCAAAAATGGAATTTGTGAAAGTTCGA-GGGCAAAAATA
* ** *
15263944 GAATTTTTAGAATTTTTAGGGTTAAAAATGGAATTTTTGGAAATTCGAGGGC
65 GAATTTTT-GAAATTTTAGGGGCAAAAATAGAATTTTTGGAAATTCGAGGGC
* * *
15263996 AAAATGGAATTTTTGGAAGTTTC-GAGGTAAAAATGGAATTTGTGAAAGTTCGAGGGCAAAAATA
1 AAAATGAAATTTTTGGAAG-CTCGGAGGCAAAAATGGAATTTGTGAAAGTTCGAGGGCAAAAATA
* *
15264060 TAATTTTTGAAATTTTAGGGGCAAAAATATAATTTTTGGAA
65 GAATTTTTGAAATTTTAGGGGCAAAAATAGAATTTTTGGAA
15264101 GTTTTAGAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
115 28 0.31
116 60 0.66
117 3 0.03
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (115 bp):
AAAATGAAATTTTTGGAAGCTCGGAGGCAAAAATGGAATTTGTGAAAGTTCGAGGGCAAAAATAG
AATTTTTGAAATTTTAGGGGCAAAAATAGAATTTTTGGAAATTCGAGGGC
Found at i:15264195 original size:88 final size:88
Alignment explanation
Indices: 15263850--15264187 Score: 288
Period size: 88 Copynumber: 3.9 Consensus size: 88
15263840 ATTCGAGGGT
* * * * *
15263850 AAAATGGTAA-TTTTGAGAGTTTTGGGGTCAAAAATGAAATTTTTGG-AAGCTCGGGGGCAAAA-
1 AAAATAGTAATTTTTGAAAGTTTTAGGGTCAAAAATGTAA-TTTTGGAAAGTTC-GGGGCAAAAT
* * *
15263912 ATGGAATTTTTGGAAGTTCAGGGGCA
64 AT-GAATTTTTGGAAGTTTAGAGGTA
* * *
15263938 AAAATAG-AATTTTT-AGAATTTTTAGGGTTAAAAATGGAATTTTTGGAAA-TTCGAGGGCAAAA
1 AAAATAGTAATTTTTGA-AAGTTTTAGGGTCAAAAATGTAA-TTTTGGAAAGTTCG-GGGCAAAA
* *
15264000 T-GGAATTTTTGGAAGTTTCGAGGTA
63 TATGAATTTTTGGAAGTTTAGAGGTA
* * ** * * * *
15264025 AAAAT-GGAATTTGTGAAAGTTCGAGGG-CAAAAATATAATTTTTGAAATTTTAGGGGCAAAAAT
1 AAAATAGTAATTTTTGAAAGTTTTAGGGTCAAAAATGTAATTTTGGAAA-GTTCGGGGC-AAAAT
15264088 AT-AATTTTTGGAAGTTTTAGAGGTA
64 ATGAATTTTTGGAAG-TTTAGAGGTA
*
15264113 AAAAT-GTAATTTTTGAAAGTTTTAGGGTC-AAAATGTAATTTTGGAGAAGTTTGGGGTCAAAAT
1 AAAATAGTAATTTTTGAAAGTTTTAGGGTCAAAAATGTAATTTTGGA-AAGTTCGGGG-CAAAAT
15264176 ATG-ATTTTTGGA
64 ATGAATTTTTGGA
15264188 CAATTTAGGG
Statistics
Matches: 203, Mismatches: 31, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
85 8 0.04
86 13 0.06
87 62 0.31
88 114 0.56
89 6 0.03
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.34
Consensus pattern (88 bp):
AAAATAGTAATTTTTGAAAGTTTTAGGGTCAAAAATGTAATTTTGGAAAGTTCGGGGCAAAATAT
GAATTTTTGGAAGTTTAGAGGTA
Found at i:15265324 original size:19 final size:20
Alignment explanation
Indices: 15265287--15265335 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
15265277 TTAATTATTA
15265287 TTATT-ATT-AATAACGTAT
1 TTATTAATTAAATAACGTAT
15265305 TTATTAATTAAATAAC-TAT
1 TTATTAATTAAATAACGTAT
* *
15265324 TAATTATTTAAA
1 TTATTAATTAAA
15265336 ACAGTTTCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 5 0.19
19 16 0.59
20 6 0.22
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
TTATTAATTAAATAACGTAT
Found at i:15266070 original size:6 final size:6
Alignment explanation
Indices: 15266059--15266126 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
15266049 GGCTTCTAGT
* *
15266059 TTTAAA TTTAAAA ATT-A- TTTCAAA TTTAAA -CTAAA TTTAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
15266106 TTTAAA -ATAAA TTTAAT TTTA
1 TTTAAA TTTAAA TTTAAA TTTA
15266127 GAAATAAATC
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
4 2 0.04
5 9 0.18
6 30 0.61
7 8 0.16
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:15266094 original size:11 final size:11
Alignment explanation
Indices: 15266080--15266121 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
15266070 AAATTATTTC
*
15266080 AAATTTAAACT
1 AAATTTAAAAT
*
15266091 AAATTTAAATTT
1 AAATTTAAA-AT
15266103 AAATTTAAAAT
1 AAATTTAAAAT
15266114 AAATTTAA
1 AAATTTAA
15266122 TTTTAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATTTAAAAT
Found at i:15266106 original size:23 final size:23
Alignment explanation
Indices: 15266075--15266126 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
15266065 TTTAAAAATT
*
15266075 ATTTCAAATTTAAACTAAATTTAA
1 ATTT-AAATTTAAAATAAATTTAA
15266099 ATTTAAATTTAAAATAAATTTAA
1 ATTTAAATTTAAAATAAATTTAA
*
15266122 TTTTA
1 ATTTA
15266127 GAAATAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAAATTTAAAATAAATTTAA
Found at i:15266116 original size:17 final size:18
Alignment explanation
Indices: 15266096--15266140 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
15266086 AAACTAAATT
15266096 TAAATTTAAATTTA-AAA
1 TAAATTTAAATTTAGAAA
*
15266113 TAAATTTAATTTTAGAAA
1 TAAATTTAAATTTAGAAA
*
15266131 TAAATCTAAA
1 TAAATTTAAA
15266141 ATCTATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAATTTAAATTTAGAAA
Found at i:15266134 original size:23 final size:23
Alignment explanation
Indices: 15266075--15266134 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
15266065 TTTAAAAATT
* *
15266075 ATTTCAAATTTAAACTAAATTTAA
1 ATTT-AAATATAAAATAAATTTAA
*
15266099 ATTTAAATTTAAAATAAATTTAA
1 ATTTAAATATAAAATAAATTTAA
*
15266122 TTTTAGAA-ATAAA
1 ATTTA-AATATAAA
15266135 TCTAAAATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 26 0.81
24 6 0.19
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTTAAATATAAAATAAATTTAA
Found at i:15271641 original size:24 final size:24
Alignment explanation
Indices: 15271609--15271656 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
15271599 ATGGATGTTC
*
15271609 AACCTTTCATCTCCCTTGACCTTT
1 AACCTTTCATCTCCCTTAACCTTT
*
15271633 AACCTTTCATCTTCCTTAACCTTT
1 AACCTTTCATCTCCCTTAACCTTT
15271657 CATATTCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.35, G:0.02, T:0.44
Consensus pattern (24 bp):
AACCTTTCATCTCCCTTAACCTTT
Found at i:15279185 original size:16 final size:16
Alignment explanation
Indices: 15279164--15279195 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15279154 TGCATGAAAA
15279164 CCTTGACCAAACTAAG
1 CCTTGACCAAACTAAG
15279180 CCTTGACCAAACTAAG
1 CCTTGACCAAACTAAG
15279196 GGATTATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.12, T:0.19
Consensus pattern (16 bp):
CCTTGACCAAACTAAG
Found at i:15283541 original size:4 final size:4
Alignment explanation
Indices: 15283532--15283557 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
15283522 TTATCTTTCC
15283532 CTTT CTTT CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CT
15283558 CTCTCTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
CTTT
Found at i:15283562 original size:2 final size:2
Alignment explanation
Indices: 15283555--15283580 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15283545 TTTCTTTCTT
15283555 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
15283581 GTAATTAAAA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:15283682 original size:2 final size:2
Alignment explanation
Indices: 15283675--15283723 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
15283665 AATAGACAAG
15283675 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15283717 TC TC TC T
1 TC TC TC T
15283724 TTTACACTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:15284979 original size:3 final size:3
Alignment explanation
Indices: 15284971--15285000 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
15284961 TTAAAGGAAA
*
15284971 AAG AAG AAG AGG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
15285001 GCTTTGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15285840 original size:23 final size:23
Alignment explanation
Indices: 15285809--15285875 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
15285799 CCTTCGTAGC
15285809 ACGCTTTTCTTCTGTCTTGTGGT
1 ACGCTTTTCTTCTGTCTTGTGGT
* *
15285832 ACGTTTTTCTTCTGCCTTGTGGT
1 ACGCTTTTCTTCTGTCTTGTGGT
*
15285855 ACGCTTTTCTTCTATCTTGTG
1 ACGCTTTTCTTCTGTCTTGTG
15285876 ACACGCTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.06, C:0.22, G:0.19, T:0.52
Consensus pattern (23 bp):
ACGCTTTTCTTCTGTCTTGTGGT
Found at i:15285867 original size:26 final size:23
Alignment explanation
Indices: 15285795--15285867 Score: 92
Period size: 23 Copynumber: 3.1 Consensus size: 23
15285785 CTAATTTTTA
* * *
15285795 TCTGCCTTCGTAGCACGCTTTTCT
1 TCTGCCTT-GTGGTACGTTTTTCT
*
15285819 TCTGTCTTGTGGTACGTTTTTCT
1 TCTGCCTTGTGGTACGTTTTTCT
*
15285842 TCTGCCTTGTGGTACGCTTTTCT
1 TCTGCCTTGTGGTACGTTTTTCT
15285865 TCT
1 TCT
15285868 ATCTTGTGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 36 0.84
24 7 0.16
ACGTcount: A:0.05, C:0.26, G:0.19, T:0.49
Consensus pattern (23 bp):
TCTGCCTTGTGGTACGTTTTTCT
Found at i:15285881 original size:23 final size:23
Alignment explanation
Indices: 15285807--15285883 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
15285797 TGCCTTCGTA
15285807 GCACGCTTTTCTTCTGTCTTGTG
1 GCACGCTTTTCTTCTGTCTTGTG
* * *
15285830 GTACGTTTTTCTTCTGCCTTGTG
1 GCACGCTTTTCTTCTGTCTTGTG
* *
15285853 GTACGCTTTTCTTCTATCTTGTG
1 GCACGCTTTTCTTCTGTCTTGTG
*
15285876 ACACGCTT
1 GCACGCTT
15285884 CTACCTTATG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.08, C:0.25, G:0.19, T:0.48
Consensus pattern (23 bp):
GCACGCTTTTCTTCTGTCTTGTG
Done.