Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 51 of 213
Found at i:13767031 original size:22 final size:21
Alignment explanation
Indices: 13767009--13767177 Score: 94
Period size: 22 Copynumber: 8.5 Consensus size: 21
13766999 GGTTTATGGT
13767009 TTTAGGGTTTTAAATTAAGGG
1 TTTAGGGTTTTAAATTAAGGG
* * *
13767030 -TTAGGGTTTTTAATTTATGGA
1 TTTAGGG-TTTTAAATTAAGGG
*
13767051 TTTAAGG--TT---TTAA-GG
1 TTTAGGGTTTTAAATTAAGGG
* *
13767066 TTTAGAGTTTTTAATTTAAGGG
1 TTTAG-GGTTTTAAATTAAGGG
*
13767088 TTTAGGGTTTTTAAGTTAAGGG
1 TTTAGGG-TTTTAAATTAAGGG
*
13767110 TTTAGGG--TT---TT-AGGT
1 TTTAGGGTTTTAAATTAAGGG
** *
13767125 TTTAAAGTTGTTAATTTAAGGG
1 TTTAGGGTT-TTAAATTAAGGG
**
13767147 TTTAGGGTTTTAGGTTAAGGG
1 TTTAGGGTTTTAAATTAAGGG
13767168 TTTAGGGTTT
1 TTTAGGGTTT
13767178 AAGGTTTAAG
Statistics
Matches: 113, Mismatches: 18, Indels: 34
0.68 0.11 0.21
Matches are distributed among these distances:
15 13 0.12
16 6 0.05
18 4 0.04
19 4 0.04
20 6 0.05
21 38 0.34
22 42 0.37
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (21 bp):
TTTAGGGTTTTAAATTAAGGG
Found at i:13767055 original size:29 final size:29
Alignment explanation
Indices: 13767023--13767118 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 29
13767013 GGGTTTTAAA
13767023 TTAAGGGTTAGGGTTTTTAATTTATGGAT
1 TTAAGGGTTAGGGTTTTTAATTTATGGAT
* * ** * **
13767052 TTAAGGTTTTAAGGTTTAGAGTTT-TTAAT
1 TTAAGG-GTTAGGGTTTTTAATTTATGGAT
* * *
13767081 TTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
1 TTAAGGG-TTAGGGTTTTTAATTTATGGAT
13767111 TT-AGGGTT
1 TTAAGGGTT
13767119 TTAGGTTTTA
Statistics
Matches: 47, Mismatches: 17, Indels: 7
0.66 0.24 0.10
Matches are distributed among these distances:
28 2 0.04
29 30 0.64
30 15 0.32
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (29 bp):
TTAAGGGTTAGGGTTTTTAATTTATGGAT
Found at i:13767076 original size:37 final size:37
Alignment explanation
Indices: 13767023--13767098 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
13767013 GGGTTTTAAA
* *
13767023 TTAAGGGTTAGGGTTTTTAATTTATGGATTTAAGGTT
1 TTAAGGGTTAGAGTTTTTAATTTAAGGATTTAAGGTT
* * *
13767060 TTAAGGTTTAGAGTTTTTAATTTAAGGGTTTAGGGTT
1 TTAAGGGTTAGAGTTTTTAATTTAAGGATTTAAGGTT
13767097 TT
1 TT
13767099 TAAGTTAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (37 bp):
TTAAGGGTTAGAGTTTTTAATTTAAGGATTTAAGGTT
Found at i:13767078 original size:109 final size:108
Alignment explanation
Indices: 13766934--13767130 Score: 292
Period size: 109 Copynumber: 1.8 Consensus size: 108
13766924 AATTTAAGGG
* * *
13766934 TTTATGATTTTAGGGTTTTAGGGTTTATGGTTTTTAATTTTAA-GGTGTATGGTTTTTAAGTTAA
1 TTTATGATTTTAAGGTTTTAAGGTTTATGGTTTTTAA-TTTAAGGGTGTAGGGTTTTTAAGTTAA
*
13766998 GGGTTTATGGTTTTAGGGTTTTAAATTAAGGGTTAGGGTTTTTAA
65 GGGTTTAGGGTTTTA-GGTTTTAAATTAAGGGTTAGGGTTTTTAA
*
13767043 TTTATGGA-TTTAAGGTTTTAAGGTTTA-GAGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTA
1 TTTAT-GATTTTAAGGTTTTAAGGTTTATG-GTTTTTAATTTAAGGGTGTAGGGTTTTTAAGTTA
13767106 AGGGTTTAGGGTTTTAGGTTTTAAA
64 AGGGTTTAGGGTTTTAGGTTTTAAA
13767131 GTTGTTAATT
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
108 15 0.19
109 63 0.79
110 2 0.03
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.50
Consensus pattern (108 bp):
TTTATGATTTTAAGGTTTTAAGGTTTATGGTTTTTAATTTAAGGGTGTAGGGTTTTTAAGTTAAG
GGTTTAGGGTTTTAGGTTTTAAATTAAGGGTTAGGGTTTTTAA
Found at i:13767119 original size:29 final size:29
Alignment explanation
Indices: 13767084--13767184 Score: 98
Period size: 29 Copynumber: 3.5 Consensus size: 29
13767074 TTTTAATTTA
13767084 AGGGTTTAGGGTTTTTAAGTTAAGGGTTT
1 AGGGTTTAGGGTTTTTAAGTTAAGGGTTT
* *****
13767113 AGGGTTTTA-GGTTTTAAAGTTGTTAATTT
1 AGGG-TTTAGGGTTTTTAAGTTAAGGGTTT
*
13767142 AAGGGTTTAGGG-TTTTAGGTTAAGGGTTT
1 -AGGGTTTAGGGTTTTTAAGTTAAGGGTTT
*
13767171 AGGGTTTAAGGTTT
1 AGGGTTTAGGGTTT
13767185 AAGGCACAAG
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
28 10 0.19
29 34 0.63
30 10 0.19
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.46
Consensus pattern (29 bp):
AGGGTTTAGGGTTTTTAAGTTAAGGGTTT
Found at i:13767165 original size:21 final size:22
Alignment explanation
Indices: 13767139--13767188 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
13767129 AAGTTGTTAA
*
13767139 TTTAAGGGTTTAGGGTTTTAGG
1 TTTAAGGGTTTAGGGTTTAAGG
13767161 -TTAAGGGTTTAGGGTTTAAGG
1 TTTAAGGGTTTAGGGTTTAAGG
13767182 TTTAAGG
1 TTTAAGG
13767189 CACAAGCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (22 bp):
TTTAAGGGTTTAGGGTTTAAGG
Found at i:13767166 original size:58 final size:58
Alignment explanation
Indices: 13766997--13767184 Score: 231
Period size: 59 Copynumber: 3.2 Consensus size: 58
13766987 TTTTAAGTTA
* * * * *
13766997 AGGG-TTTATGGTTTTAGGGTTTTAAATTAAGGG-TTAGGGTTTTTAATTTATGGATTT
1 AGGGTTTTA-GGTTTTAGAGTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTT
*
13767054 AAGGTTTTAAGG-TTTAGAGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTT
1 AGGGTTTT-AGGTTTTAGAG-TTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTT
* *
13767113 AGGGTTTTAGGTTTTAAAGTTGTTAATTTAAGGGTTTAGGG-TTTTAGGTTAAGGGTTT
1 AGGGTTTTAGGTTTTAGAGTT-TTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTT
*
13767171 AGGGTTTAAGGTTT
1 AGGGTTTTAGGTTT
13767185 AAGGCACAAG
Statistics
Matches: 115, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
57 9 0.08
58 52 0.45
59 54 0.47
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.47
Consensus pattern (58 bp):
AGGGTTTTAGGTTTTAGAGTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTT
Found at i:13767178 original size:7 final size:7
Alignment explanation
Indices: 13767143--13767185 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
13767133 TGTTAATTTA
13767143 AGGGTTT
1 AGGGTTT
13767150 AGGGTTTT
1 AGGG-TTT
*
13767158 A-GGTTA
1 AGGGTTT
13767164 AGGGTTT
1 AGGGTTT
13767171 AGGGTTT
1 AGGGTTT
*
13767178 AAGGTTT
1 AGGGTTT
13767185 A
1 A
13767186 AGGCACAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
6 3 0.10
7 24 0.77
8 4 0.13
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (7 bp):
AGGGTTT
Found at i:13767185 original size:14 final size:14
Alignment explanation
Indices: 13767139--13767188 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
13767129 AAGTTGTTAA
13767139 TTTAAGGGTTTAGGG
1 TTTAA-GGTTTAGGG
* *
13767154 TTTTAGGTTAAGGG
1 TTTAAGGTTTAGGG
* *
13767168 TTTAGGGTTTAAGG
1 TTTAAGGTTTAGGG
13767182 TTTAAGG
1 TTTAAGG
13767189 CACAAGCATA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 24 0.86
15 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:13768109 original size:21 final size:21
Alignment explanation
Indices: 13768083--13768385 Score: 267
Period size: 21 Copynumber: 14.5 Consensus size: 21
13768073 TCAAATTATA
13768083 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
13768104 TTTAAGTTAAGTGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * * * *
13768125 TTTTATTTAAGTGTTACGATT
1 TTTAAGTTAAGGGTTAGGGTT
* *
13768146 TTAAAGTTAAGGGTTTAGGGTA
1 TTTAAGTTAAGGG-TTAGGGTT
* **
13768168 TTTAATTTAAGGGTTACAGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
13768189 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
13768211 TTAAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
13768232 TTAAAGTTAAGGGTTTATGG-T
1 TTTAAGTTAAGGG-TTAGGGTT
* *
13768253 TTT-A---AA-GTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* ***
13768269 TTTAATTTAAGGGTTTACAATT
1 TTTAAGTTAAGGG-TTAGGGTT
*
13768291 TTTAAGCTAATGGGTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTT
* **
13768313 TTAAAGTTAAGGGTTAGGAAT
1 TTTAAGTTAAGGGTTAGGGTT
*
13768334 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
13768355 TTTAAGTTAAGGGTTAGGATT
1 TTTAAGTTAAGGGTTAGGGTT
13768376 TTTAAGTTAA
1 TTTAAGTTAA
13768386 TGATTTTTAA
Statistics
Matches: 224, Mismatches: 47, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
15 5 0.02
16 5 0.02
17 3 0.01
20 3 0.01
21 141 0.63
22 64 0.29
23 3 0.01
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.45
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:13768178 original size:43 final size:42
Alignment explanation
Indices: 13768083--13768377 Score: 207
Period size: 43 Copynumber: 7.1 Consensus size: 42
13768073 TCAAATTATA
* * * * *
13768083 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGTG-TTAGGGTT
1 TTTAATTTAAGGGTTACGATTTTAAAGTTAAGGGTTTAGGG-T
* *
13768125 TTTTATTTAAGTGTTACGATTTTAAAGTTAAGGGTTTAGGGT
1 TTTAATTTAAGGGTTACGATTTTAAAGTTAAGGGTTTAGGGT
* *
13768167 ATTTAATTTAAGGGTTAC-AGTTTTTAAGTTAAGGGTTTAAGGT
1 -TTTAATTTAAGGGTTACGA-TTTTAAAGTTAAGGGTTTAGGGT
* * *
13768210 TTTAAATTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTATGGT
1 TTT-AATTTAAGGGTTACGATTTTAAAGTTAAGGGTTTAGGGT
* ***
13768253 TTTAAAGTTTAA-GG-T----TTTT-AATTTAAGGGTTTACAATT
1 TTT-AA-TTTAAGGGTTACGATTTTAAAGTTAAGGGTTTA-GGGT
** * * *
13768291 TTTAAGCTAATGGGTTAGGGTTTTAAAGTTAAGGG-TTAGGAAT
1 TTTAATTTAA-GGGTTACGATTTTAAAGTTAAGGGTTTAGG-GT
* * * *
13768334 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGAT
1 TTTAATTTAAGGGTTACGATTTTAAAGTTAAGGGTTTAGGGT
13768375 TTT
1 TTT
13768378 TAAGTTAATG
Statistics
Matches: 209, Mismatches: 28, Indels: 33
0.77 0.10 0.12
Matches are distributed among these distances:
36 3 0.01
37 15 0.07
38 10 0.05
39 1 0.00
41 5 0.02
42 61 0.29
43 100 0.48
44 14 0.07
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (42 bp):
TTTAATTTAAGGGTTACGATTTTAAAGTTAAGGGTTTAGGGT
Found at i:13768190 original size:64 final size:63
Alignment explanation
Indices: 13768086--13768385 Score: 199
Period size: 64 Copynumber: 4.8 Consensus size: 63
13768076 AATTATATTT
* ** * * * *
13768086 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGTGTTAGGGTTTTTTATTTAAGTG-TTACGATTTTA
1 AAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTACAGTTTTTAAGTTAAGGGTTTAAGATTTTA
* *
13768149 AAGTTAAGGGTTTAGGGTATTTAATTTAAGGGTTACAGTTTTTAAGTTAAGGGTTTAAGGTTTTA
1 AAGTTAAGGG-TTAGGGT-TTTAAGTTAAGGGTTACAGTTTTTAAGTTAAGGGTTTAAGATTTTA
* * * * *
13768214 AATTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTA-TGGTTTT-A---AA--GTTTAAGGTTTTT
1 AAGTTAAGGGTTAGGGTTTT-AAGTTAAGGG-TTACAGTTTTTAAGTTAAGGGTTTAAGATTTTA
* *** * ** * *
13768272 AATTTAAGGGTTTACAATTTTTAAGCTAATGGGTTAGGGTTTTAAAGTTAAGGG-TTAGGAATTT
1 AAGTTAAGGG-TTA-GGGTTTTAAGTTAA-GGGTTACAGTTTTTAAGTTAAGGGTTTAAG-ATTT
13768336 T-
62 TA
* *
13768337 AATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTA-GGATTTTTAAGTTAA
1 AAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTACAG-TTTTTAAGTTAA
13768386 TGATTTTTAA
Statistics
Matches: 191, Mismatches: 28, Indels: 36
0.75 0.11 0.14
Matches are distributed among these distances:
58 22 0.12
59 12 0.06
60 13 0.07
61 1 0.01
62 2 0.01
63 32 0.17
64 69 0.36
65 35 0.18
66 5 0.03
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (63 bp):
AAGTTAAGGGTTAGGGTTTTAAGTTAAGGGTTACAGTTTTTAAGTTAAGGGTTTAAGATTTTA
Found at i:13768283 original size:15 final size:15
Alignment explanation
Indices: 13768244--13768285 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
13768234 AAAGTTAAGG
*
13768244 GTTTATGGTTTTAAA
1 GTTTAAGGTTTTAAA
*
13768259 GTTTAAGGTTTTTAA
1 GTTTAAGGTTTTAAA
*
13768274 -TTTAAGGGTTTA
1 GTTTAAGGTTTTA
13768286 CAATTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
GTTTAAGGTTTTAAA
Found at i:13769850 original size:50 final size:50
Alignment explanation
Indices: 13769736--13769978 Score: 360
Period size: 50 Copynumber: 4.8 Consensus size: 50
13769726 GATAATAACA
* * **
13769736 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
13769787 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
13769837 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
13769887 TGCCAACGCCATGTCCCAAACATAGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
13769937 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
13769979 TTACCCAAAT
Statistics
Matches: 175, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
50 143 0.82
51 32 0.18
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:13770366 original size:29 final size:29
Alignment explanation
Indices: 13770316--13770371 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
13770306 CCTCGACTCT
* *
13770316 AACTTTTTCAAAATTATGATTTTGCCCCTA
1 AACTTTTACAAAATTATCA-TTTGCCCCTA
*
13770346 AACTTTTACATAATTA-CATTTGCCCC
1 AACTTTTACAAAATTATCATTTGCCCC
13770372 AAGGCTCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.35
29 1 0.04
30 14 0.61
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.41
Consensus pattern (29 bp):
AACTTTTACAAAATTATCATTTGCCCCTA
Found at i:13771169 original size:22 final size:22
Alignment explanation
Indices: 13771141--13771263 Score: 149
Period size: 22 Copynumber: 5.4 Consensus size: 22
13771131 GGCCATTATA
13771141 TAGGGTTTTTAAGTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
13771163 TAGGGTTTTTAAGTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
*
13771185 TAGTGTTTTTAAGTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
* *
13771207 TAGGGTTTTTAAATTTAGGGTTATGGT
1 TAGGGTTTTTAAGTTAAGGG---T--T
13771234 TAGGGTTTTT-AGATTAAGGGTT
1 TAGGGTTTTTAAG-TTAAGGGTT
*
13771256 TAAGGTTT
1 TAGGGTTT
13771264 GTCAATTAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
22 68 0.77
24 1 0.01
25 1 0.01
26 1 0.01
27 17 0.19
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (22 bp):
TAGGGTTTTTAAGTTAAGGGTT
Found at i:13772437 original size:180 final size:180
Alignment explanation
Indices: 13772135--13772495 Score: 650
Period size: 180 Copynumber: 2.0 Consensus size: 180
13772125 TATAATCATA
* *
13772135 CCGATCTTCCCACATTTGGATGTACTCGGACCAAAATCTCGGCCAATCCGTATTTAATTGCCGAA
1 CCGATCTTCCCACATTTGGATGTACTCGGACCAAAATCTCGACCAATCCGTATTCAATTGCCGAA
*
13772200 GGTCGATTTTATGGTGATCATCAAACACCTCAGGTTCCACGGGAATCGGTTGTCTACATCTAAAT
66 GGTCGATTTTATGGTGATCATCAAACACCTCAGGTTCCACGGGAATCGGTTGTCTACATCCAAAT
*
13772265 TATCGTAACACCCTATCTGACTGGTGCATCTCCACGGTCGTGTAGTTGAT
131 TATCGTAACACCCTATCTGACTGGTGCATCTCCACGGTCGCGTAGTTGAT
* *
13772315 CCGATCTTCCCATATTTGGATGTACTCGGACCAGAATCTCGACCAATCCGTATTCAATTGCCGAA
1 CCGATCTTCCCACATTTGGATGTACTCGGACCAAAATCTCGACCAATCCGTATTCAATTGCCGAA
*
13772380 GGTCGATTTTGTGGTGATCATCAAACACCTCAGGTTCCACGGGAATCGGTTGTCTACATCCAAAT
66 GGTCGATTTTATGGTGATCATCAAACACCTCAGGTTCCACGGGAATCGGTTGTCTACATCCAAAT
*
13772445 TGTCGTAACACCCTATCTGACTGGTGCATCTCCACGGTCGCGTAGTTGAT
131 TATCGTAACACCCTATCTGACTGGTGCATCTCCACGGTCGCGTAGTTGAT
13772495 C
1 C
13772496 AACGCGACTT
Statistics
Matches: 173, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
180 173 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (180 bp):
CCGATCTTCCCACATTTGGATGTACTCGGACCAAAATCTCGACCAATCCGTATTCAATTGCCGAA
GGTCGATTTTATGGTGATCATCAAACACCTCAGGTTCCACGGGAATCGGTTGTCTACATCCAAAT
TATCGTAACACCCTATCTGACTGGTGCATCTCCACGGTCGCGTAGTTGAT
Found at i:13772849 original size:19 final size:20
Alignment explanation
Indices: 13772812--13772849 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13772802 CTTTTATTTT
*
13772812 TAAAATCTACATAATAATTG
1 TAAAATCTACATAAAAATTG
13772832 TAAAATCTA-ATAAAAATT
1 TAAAATCTACATAAAAATT
13772850 TTACCTCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
TAAAATCTACATAAAAATTG
Found at i:13773784 original size:10 final size:10
Alignment explanation
Indices: 13773741--13773786 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
13773731 TACGGTTTAA
13773741 AAAAAT-TTT
1 AAAAATATTT
* *
13773750 AAAAA-AATA
1 AAAAATATTT
13773759 AAAAATATTT
1 AAAAATATTT
13773769 AAAAATATTT
1 AAAAATATTT
13773779 AAAAATAT
1 AAAAATAT
13773787 GGATTTAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
9 11 0.35
10 20 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAATATTT
Found at i:13773841 original size:51 final size:51
Alignment explanation
Indices: 13773781--13773880 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
13773771 AAATATTTAA
13773781 AAATATGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAGATT
1 AAATATGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAGATT
* * *
13773832 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATATGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGA
13773881 GGAAATTAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.27
Consensus pattern (51 bp):
AAATATGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGATT
Found at i:13773854 original size:11 final size:11
Alignment explanation
Indices: 13773840--13773916 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
13773830 TTAAATATGG
13773840 ATTTGAGAGAA
1 ATTTGAGAGAA
*
13773851 ATTTG-GAAGGA
1 ATTTGAG-AGAA
13773862 ATTTGAGAGCAA
1 ATTTGAGAG-AA
13773874 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
13773885 A-TTAAGAGGAA
1 ATTTGAGA-GAA
*
13773896 A-TTAAGAGGAA
1 ATTTGAGA-GAA
13773907 ATTTGAGAGA
1 ATTTGAGAGA
13773917 GGATTAGTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
10 1 0.02
11 47 0.82
12 9 0.16
ACGTcount: A:0.45, C:0.01, G:0.30, T:0.23
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:13773883 original size:22 final size:21
Alignment explanation
Indices: 13773840--13773916 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 21
13773830 TTAAATATGG
13773840 ATTTGAGAGAAATTTG-GAAGGA
1 ATTTGAGAGAAA-TTGAG-AGGA
13773862 ATTTGAGAGCAAATTGAGAGGA
1 ATTTGAGAG-AAATTGAGAGGA
* * *
13773884 AATTAAGAGGAAATTAAGAGGAA
1 ATTTGAGA-GAAATTGAGAGG-A
13773907 ATTTGAGAGA
1 ATTTGAGAGA
13773917 GGATTAGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
22 34 0.74
23 12 0.26
ACGTcount: A:0.45, C:0.01, G:0.30, T:0.23
Consensus pattern (21 bp):
ATTTGAGAGAAATTGAGAGGA
Found at i:13777833 original size:3 final size:3
Alignment explanation
Indices: 13777825--13777893 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
13777815 AACACTTAAG
13777825 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
13777873 GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA
13777894 AATAACATCT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:13778941 original size:20 final size:18
Alignment explanation
Indices: 13778894--13778942 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
13778884 GTAGATAAAC
13778894 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
13778911 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
13778931 ATTAAATTAATA
1 ATTAAATTAATA
13778943 AAATAGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:13787452 original size:22 final size:22
Alignment explanation
Indices: 13787424--13787473 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
13787414 ACAAATCCTA
13787424 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
* *
13787446 TCTCAATTTCCTTCTAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
13787468 TCTCAA
1 TCTCAA
13787474 ACTGTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:13787488 original size:52 final size:52
Alignment explanation
Indices: 13787426--13787526 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
13787416 AAATCCTATC
* *
13787426 TCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCTAAAATTCTCTCAAACTG
1 TCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAAATCTCTCAAACTG
*
13787478 TCAATTTCCTTCTAAAATCCTCTCAATTTCCTTCCAAAAATCTCTCAAA
1 TCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAAATCTCTCAAA
13787527 TCCATATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.31, C:0.31, G:0.01, T:0.38
Consensus pattern (52 bp):
TCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAAATCTCTCAAACTG
Found at i:13787503 original size:22 final size:22
Alignment explanation
Indices: 13787478--13787525 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13787468 TCTCAAACTG
*
13787478 TCAATTTCCTT-CTAAAATCCTC
1 TCAATTTCCTTCCAAAAAT-CTC
13787500 TCAATTTCCTTCCAAAAATCTC
1 TCAATTTCCTTCCAAAAATCTC
13787522 TCAA
1 TCAA
13787526 ATCCATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (22 bp):
TCAATTTCCTTCCAAAAATCTC
Found at i:13787596 original size:31 final size:32
Alignment explanation
Indices: 13787561--13787627 Score: 127
Period size: 31 Copynumber: 2.1 Consensus size: 32
13787551 TCAATTTCAT
13787561 TTTTTTAAAAATAATTTTAAA-TTTTTTTATA
1 TTTTTTAAAAATAATTTTAAATTTTTTTTATA
13787592 TTTTTTAAAAATAATTTTAAATTTTTTTTATA
1 TTTTTTAAAAATAATTTTAAATTTTTTTTATA
13787624 TTTT
1 TTTT
13787628 CATCAATGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (32 bp):
TTTTTTAAAAATAATTTTAAATTTTTTTTATA
Found at i:13790011 original size:30 final size:30
Alignment explanation
Indices: 13789963--13790343 Score: 400
Period size: 30 Copynumber: 12.2 Consensus size: 30
13789953 AAACCCTAAC
*
13789963 CCCT-AACCCTAACCTAATTTAATTAAAAA
1 CCCTAAACCCTAACTTAATTTAATTAAAAA
* *
13789992 TCCTAAACCGTAACTTAATTTAATTAAAAA
1 CCCTAAACCCTAACTTAATTTAATTAAAAA
*
13790022 CCTTAAACCCTAACCCTAACCTAATTTAATTAAAAA
1 CCCTAAACCCTAA--CT----TAATTTAATTAAAAA
*
13790058 CCTTAAACCCTAACTTAATTTAATTAAAAA
1 CCCTAAACCCTAACTTAATTTAATTAAAAA
13790088 CCCT-AACCCTAACCTAATTTAATTTAATTAAAAA
1 CCCTAAACCCTAA-C----TTAATTTAATTAAAAA
*
13790122 CCCTAAACCCTAACCTAATTTAATTAAAAA
1 CCCTAAACCCTAACTTAATTTAATTAAAAA
13790152 CCCT-AACCCTAACTTAATTTAATTAAAAA
1 CCCTAAACCCTAACTTAATTTAATTAAAAA
*
13790181 CTCTAAACCCTAACCCTAACCTAATTTAATT-AAAA
1 CCCTAAACCCTAA--CT----TAATTTAATTAAAAA
*
13790216 CCCTAAACCCTAACCCTAACCTAATTTAAGTAAAAA
1 CCCTAAACCCTAA--CT----TAATTTAATTAAAAA
*
13790252 CCATAAACCCTAACTTAATTTAATTAAAAA
1 CCCTAAACCCTAACTTAATTTAATTAAAAA
*
13790282 CCCT-AA--C-AACCTAATTTAATTAAAAA
1 CCCTAAACCCTAACTTAATTTAATTAAAAA
*
13790308 CCCTAAACCCTAACTTAATTTTATTAAAAA
1 CCCTAAACCCTAACTTAATTTAATTAAAAA
13790338 CCCTAA
1 CCCTAA
13790344 CCATTAACAA
Statistics
Matches: 309, Mismatches: 18, Indels: 49
0.82 0.05 0.13
Matches are distributed among these distances:
26 22 0.07
27 3 0.01
29 41 0.13
30 119 0.39
32 4 0.01
34 25 0.08
35 41 0.13
36 54 0.17
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (30 bp):
CCCTAAACCCTAACTTAATTTAATTAAAAA
Found at i:13790127 original size:130 final size:124
Alignment explanation
Indices: 13789941--13790345 Score: 534
Period size: 130 Copynumber: 3.2 Consensus size: 124
13789931 AATAAAATCC
* *
13789941 TAATTTAATTAAAAACCCTAACCCCTAACCCTAACCTAATTTAATTAAAAATCCTAAACCGTAAC
1 TAATTTAATTAAAAACCCTAA-CCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAC
13790006 TTAATTTAATTAAAAACCTTAAACCCTAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA
65 TTAATTTAATT---AA----AAACCCTAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA
13790071 CT
123 CT
** *
13790073 TAATTTAATTAAAAACCCTAACCCTAA-CCTAATTTAATTTAATTAAAAACCCTAAACCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACT
*
13790137 TAATTTAATTAAAAACCCTAACCCTAACTTAATTTAATTAAAAA-CTCTAAACCCTAACCCT
66 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCT-TAAACCCTAA--CT
* *
13790198 AACCTAATTTAATT-AAAACCCTAAACCCTAACCCTAACCTAATTTAAGTAAAAACCATAAACCC
1 ----TAATTTAATTAAAAACCCT-AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
*
13790262 TAACTTAATTTAATTAAAAACCCTAA--C-AACCTAATTTAATTAAAAACCCTAAACCCTAACT
61 TAACTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAACT
*
13790323 TAATTTTATTAAAAACCCTAACC
1 TAATTTAATTAAAAACCCTAACC
13790346 ATTAACAAAA
Statistics
Matches: 248, Mismatches: 14, Indels: 33
0.84 0.05 0.11
Matches are distributed among these distances:
121 13 0.05
122 10 0.04
123 41 0.17
125 4 0.02
127 30 0.12
128 10 0.04
129 18 0.07
130 95 0.38
131 6 0.02
132 21 0.08
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.29
Consensus pattern (124 bp):
TAATTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACT
TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAACT
Found at i:13790163 original size:24 final size:23
Alignment explanation
Indices: 13790126--13790170 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
13790116 TAAAAACCCT
*
13790126 AAACCCTAACCTAATTTAATTAA
1 AAACCCTAACCTAACTTAATTAA
13790149 AAACCCTAACCCTAACTTAATT
1 AAACCCTAA-CCTAACTTAATT
13790171 TAATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (23 bp):
AAACCCTAACCTAACTTAATTAA
Found at i:13790326 original size:25 final size:26
Alignment explanation
Indices: 13790271--13790327 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
13790261 CTAACTTAAT
*
13790271 TTAATTAAAAACCCTAACAACCTAAT
1 TTAATTAAAAACCCTAACAACCTAAC
*
13790297 TTAATTAAAAACCCTAA-ACCCTAAC
1 TTAATTAAAAACCCTAACAACCTAAC
13790322 TTAATT
1 TTAATT
13790328 TTATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (26 bp):
TTAATTAAAAACCCTAACAACCTAAC
Found at i:13790426 original size:56 final size:56
Alignment explanation
Indices: 13790340--13790497 Score: 307
Period size: 56 Copynumber: 2.8 Consensus size: 56
13790330 ATTAAAAACC
13790340 CTAACCATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTTGATAATTTTA
1 CTAACCATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTTGATAATTTTA
13790396 CTAACCATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTTGATAATTTTA
1 CTAACCATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTTGATAATTTTA
*
13790452 CTAACTATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTT
1 CTAACCATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTT
13790498 TACATAATGT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 101 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (56 bp):
CTAACCATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTTGATAATTTTA
Found at i:13793744 original size:124 final size:124
Alignment explanation
Indices: 13793524--13793803 Score: 463
Period size: 124 Copynumber: 2.3 Consensus size: 124
13793514 CCACGAGGGC
13793524 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
*
13793589 AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAACATTCTGGTAGAA
66 AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAA
* *
13793648 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGACCAATTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
* * * *
13793713 AAATTGCGTCCACGAGGGCACGGTTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
66 AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAA
* *
13793772 ACGATTTTATACTATATGAC-CAGAAACGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
13793804 CTCGAAATAA
Statistics
Matches: 146, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
124 145 0.99
125 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (124 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAA
Found at i:13801323 original size:3 final size:3
Alignment explanation
Indices: 13801317--13801343 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13801307 TGATGATGAT
13801317 GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
13801344 ATGATTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:13809460 original size:28 final size:27
Alignment explanation
Indices: 13809427--13809484 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
13809417 TCAAAATAAT
13809427 TTTTTCAGAACACATCATGCCAAATTTA
1 TTTTTCAGAAC-CATCATGCCAAATTTA
* * * *
13809455 TTTTTCATATCCATCTTGTCAAATTTA
1 TTTTTCAGAACCATCATGCCAAATTTA
13809482 TTT
1 TTT
13809485 CTTCCGAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.47
Consensus pattern (27 bp):
TTTTTCAGAACCATCATGCCAAATTTA
Found at i:13810612 original size:15 final size:17
Alignment explanation
Indices: 13810582--13810613 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
13810572 TTAAATAAAA
13810582 ATTTTATATAGTTTTTT
1 ATTTTATATAGTTTTTT
13810599 ATTTTAT-T-GTTTTTT
1 ATTTTATATAGTTTTTT
13810614 TAAAATAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (17 bp):
ATTTTATATAGTTTTTT
Found at i:13811580 original size:22 final size:22
Alignment explanation
Indices: 13811554--13811595 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13811544 TTTCTCACAT
* *
13811554 TCTCAAATCTCTCTCAAATTTA
1 TCTCAAATCCCTCTAAAATTTA
*
13811576 TCTCAATTCCCTCTAAAATT
1 TCTCAAATCCCTCTAAAATT
13811596 CTCATTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (22 bp):
TCTCAAATCCCTCTAAAATTTA
Found at i:13817671 original size:73 final size:73
Alignment explanation
Indices: 13817547--13817695 Score: 235
Period size: 73 Copynumber: 2.0 Consensus size: 73
13817537 AAGCGTACCT
* * * * *
13817547 GAATTCATGAATTCCTTGAAATTTTTCCAGATATTGGGGATTTGATCTTCCAAATTAGCATATAA
1 GAATCCATGAATTCCTTAAAATTTTTCCAGATATTGAGGATTTGATCTTCCAAATTAGCACACAA
13817612 GAAATTCA
66 GAAATTCA
* *
13817620 GAATCCATGAATTCCTTAAAATTTTTCCAGATCTTGAGGATTTGATCTTCCAAATTAGTACACAA
1 GAATCCATGAATTCCTTAAAATTTTTCCAGATATTGAGGATTTGATCTTCCAAATTAGCACACAA
13817685 GAAATTCA
66 GAAATTCA
13817693 GAA
1 GAA
13817696 AATATTTGCT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (73 bp):
GAATCCATGAATTCCTTAAAATTTTTCCAGATATTGAGGATTTGATCTTCCAAATTAGCACACAA
GAAATTCA
Found at i:13818481 original size:29 final size:32
Alignment explanation
Indices: 13818442--13818506 Score: 109
Period size: 29 Copynumber: 2.1 Consensus size: 32
13818432 CTTTAAACCA
13818442 AAAAAATATATATAGATTTTTATAT-AA-TTT
1 AAAAAATATATATAGATTTTTATATAAACTTT
13818472 AAAAAA-ATATATAGATTTTTATATAAACTTT
1 AAAAAATATATATAGATTTTTATATAAACTTT
13818503 AAAA
1 AAAA
13818507 TTTTAAACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 18 0.55
30 8 0.24
31 7 0.21
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (32 bp):
AAAAAATATATATAGATTTTTATATAAACTTT
Found at i:13824427 original size:60 final size:60
Alignment explanation
Indices: 13824340--13824452 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
13824330 GTACACTTCC
* *
13824340 GTGTCCTTGATCGTATGGTTTTATACCACAAACACTGAGTTACACT-GCCTGGGCACTCCA
1 GTGTCCTTGATCATATGGTCTTATACCACAAACACTGAGTTACA-TAGCCTGGGCACTCCA
* * * *
13824400 GTGTCCTTGGTCATGTGGTCTTGTACCACAAACAGTGAGTTACATAGCCTGGG
1 GTGTCCTTGATCATATGGTCTTATACCACAAACACTGAGTTACATAGCCTGGG
13824453 TACACGCTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 1 0.02
60 45 0.98
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (60 bp):
GTGTCCTTGATCATATGGTCTTATACCACAAACACTGAGTTACATAGCCTGGGCACTCCA
Found at i:13825724 original size:3 final size:3
Alignment explanation
Indices: 13825716--13825749 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
13825706 ATGTGTACTC
13825716 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13825750 AGTTTGTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:13826653 original size:15 final size:15
Alignment explanation
Indices: 13826631--13826669 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
13826621 AACTAAACCC
13826631 CAAA-AACCCAAAAA
1 CAAAGAACCCAAAAA
*
13826645 CAAAGAACCCGAAAA
1 CAAAGAACCCAAAAA
13826660 CAAAGAACCC
1 CAAAGAACCC
13826670 TCAAAACGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.62, C:0.31, G:0.08, T:0.00
Consensus pattern (15 bp):
CAAAGAACCCAAAAA
Found at i:13826675 original size:16 final size:15
Alignment explanation
Indices: 13826631--13826676 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
13826621 AACTAAACCC
*
13826631 CAAA-AACCCAAAAA
1 CAAAGAACCCCAAAA
*
13826645 CAAAGAACCCGAAAA
1 CAAAGAACCCCAAAA
13826660 CAAAGAACCCTCAAAA
1 CAAAGAACCC-CAAAA
13826676 C
1 C
13826677 GTAAACACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 4 0.14
15 19 0.68
16 5 0.18
ACGTcount: A:0.61, C:0.30, G:0.07, T:0.02
Consensus pattern (15 bp):
CAAAGAACCCCAAAA
Found at i:13827468 original size:6 final size:6
Alignment explanation
Indices: 13827457--13827504 Score: 78
Period size: 6 Copynumber: 8.0 Consensus size: 6
13827447 TTTTAACAGG
* *
13827457 ACCAAT ACCAAT ACCAAT ACCAAT ACCAAT ACCAAT ACTACT ACCAAT
1 ACCAAT ACCAAT ACCAAT ACCAAT ACCAAT ACCAAT ACCAAT ACCAAT
13827505 TACCTTACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (6 bp):
ACCAAT
Found at i:13828909 original size:16 final size:16
Alignment explanation
Indices: 13828888--13828956 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
13828878 TTGGTTCGCT
13828888 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
13828904 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
*
13828920 GTAATGGAATAAAGGC
1 GTAATGGAATAGAGGC
13828936 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
13828952 GTAAT
1 GTAAT
13828957 AGCAATTCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:13829129 original size:11 final size:11
Alignment explanation
Indices: 13829110--13829142 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
13829100 TTAATATAAA
13829110 TAATAAATAATT
1 TAAT-AATAATT
13829122 TAATAATAATT
1 TAATAATAATT
13829133 TAA-AATAATT
1 TAATAATAATT
13829143 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:13829163 original size:24 final size:21
Alignment explanation
Indices: 13829087--13829198 Score: 70
Period size: 18 Copynumber: 5.1 Consensus size: 21
13829077 GTTATTAAAT
13829087 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
13829109 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
13829131 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
*
13829157 TTTAATAAA--AAT-ATATAA
1 TTTAATAAATTATTAATATAA
* *
13829175 TTTAATAAAATTCTTAATAAAA
1 TTTAAT-AAATTATTAATATAA
13829197 TT
1 TT
13829199 ATTCTTATAT
Statistics
Matches: 70, Mismatches: 8, Indels: 24
0.69 0.08 0.24
Matches are distributed among these distances:
18 12 0.17
19 3 0.04
20 5 0.07
21 12 0.17
22 12 0.17
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.09
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:13829176 original size:55 final size:55
Alignment explanation
Indices: 13829105--13829221 Score: 141
Period size: 55 Copynumber: 2.1 Consensus size: 55
13829095 GATTATTAAT
13829105 ATAAATAATAAATAATTTAATAATAA-T-TTAA-AATAATTATTATTAAATATAATTTA
1 ATAAA-AATAAATAATTTAATAA-AATTCTTAATAA-AATTATTATTAAAT-TAATTTA
* * *
13829161 ATAAAAATATATAATTTAATAAAATTCTTAATAAAATTATTCTTATATTAATTTA
1 ATAAAAATAAATAATTTAATAAAATTCTTAATAAAATTATTATTAAATTAATTTA
*
13829216 CTAAAA
1 ATAAAA
13829222 TCATAATATA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 2 0.04
55 29 0.54
56 21 0.39
57 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (55 bp):
ATAAAAATAAATAATTTAATAAAATTCTTAATAAAATTATTATTAAATTAATTTA
Found at i:13829604 original size:77 final size:77
Alignment explanation
Indices: 13829477--13829638 Score: 297
Period size: 77 Copynumber: 2.1 Consensus size: 77
13829467 ATTTTTTGTC
* *
13829477 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAATAATTAAACTTGACAATTAGATATATTTCAATCTTTGAACTTGAAATATATAAAATT
*
13829542 TTATTGACATAA
66 TTATTAACATAA
13829554 CACTTTAATAATTAAACTTGACAATTAGATATATTTCAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAATAATTAAACTTGACAATTAGATATATTTCAATCTTTGAACTTGAAATATATAAAATT
13829619 TTATTAACATAA
66 TTATTAACATAA
13829631 CACTTTAA
1 CACTTTAA
13829639 GATTGTCTCA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (77 bp):
CACTTTAATAATTAAACTTGACAATTAGATATATTTCAATCTTTGAACTTGAAATATATAAAATT
TTATTAACATAA
Found at i:13831542 original size:31 final size:31
Alignment explanation
Indices: 13831507--13831568 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
13831497 AGTTCCTTCA
13831507 AACAACACCTTTA-ACAACAAAAATTAAGTTT
1 AACAACACCTTTAGA-AACAAAAATTAAGTTT
13831538 AACAACACCTTTAGAAACAAAAATTAAGTTT
1 AACAACACCTTTAGAAACAAAAATTAAGTTT
13831569 TCTTTTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.26
Consensus pattern (31 bp):
AACAACACCTTTAGAAACAAAAATTAAGTTT
Found at i:13852979 original size:42 final size:42
Alignment explanation
Indices: 13852932--13853053 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
13852922 AAGTTTCAAT
*
13852932 TTAACCC-TATTGGGTTTCCGTTCAGCTCTTTTGAGCTTTAGC
1 TTAACCCTTA-TGGGTTTCCGTTCAGCTCTTATGAGCTTTAGC
**
13852974 TTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCCG-
1 TTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTTAGC
* * * *
13853015 TTAAACCCTTATGGGTTTCTGTTTAGCACTTATGTGCTT
1 TT-AACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTT
13853054 CTGTATAGCC
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
41 2 0.03
42 67 0.94
43 2 0.03
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (42 bp):
TTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTTAGC
Found at i:13853006 original size:21 final size:21
Alignment explanation
Indices: 13852980--13853048 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
13852970 TAGCTTAACC
* *
13852980 CTTATGGGTTTCCGTTCAGCT
1 CTTATGGGTTTCCGTTAAGCA
* * * *
13853001 CTTATGAGCTTCCGTTAAACC
1 CTTATGGGTTTCCGTTAAGCA
* *
13853022 CTTATGGGTTTCTGTTTAGCA
1 CTTATGGGTTTCCGTTAAGCA
13853043 CTTATG
1 CTTATG
13853049 TGCTTCTGTA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (21 bp):
CTTATGGGTTTCCGTTAAGCA
Found at i:13853055 original size:21 final size:21
Alignment explanation
Indices: 13853022--13853062 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13853012 CCGTTAAACC
* *
13853022 CTTATGGGTTTCTGTTTAGCA
1 CTTATGGGCTTCTGTATAGCA
*
13853043 CTTATGTGCTTCTGTATAGC
1 CTTATGGGCTTCTGTATAGC
13853063 CTTCGGGCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (21 bp):
CTTATGGGCTTCTGTATAGCA
Found at i:13857317 original size:25 final size:25
Alignment explanation
Indices: 13857289--13857338 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13857279 GGGAAGATCT
*
13857289 TTCGAGCCATATAGTGAGAAGCTCA
1 TTCGAGCCATATAATGAGAAGCTCA
** *
13857314 TTCGAGCTGTATAATGGGAAGCTCA
1 TTCGAGCCATATAATGAGAAGCTCA
13857339 AAAGAGCTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (25 bp):
TTCGAGCCATATAATGAGAAGCTCA
Found at i:13857345 original size:25 final size:24
Alignment explanation
Indices: 13857323--13857457 Score: 67
Period size: 24 Copynumber: 5.5 Consensus size: 24
13857313 ATTCGAGCTG
13857323 TATAAT-GGGAAGCTCAAAAGAGC
1 TATAATCGGGAAGCTCAAAAGAGC
* ** *
13857346 TATAATCGGGAAGTTCAAGCGGGC
1 TATAATCGGGAAGCTCAAAAGAGC
* ***
13857370 CA-ATATCGGGAAGCTCCGGAGAGC
1 TATA-ATCGGGAAGCTCAAAAGAGC
* * *
13857394 CATTAATCGAGAAGCTCATGAAAAAGCC
1 TA-TAATCGGGAAGCTCA--AAAGAG-C
* ***
13857422 TTTAATCGGGAAGCTCTGGAGAGC
1 TATAATCGGGAAGCTCAAAAGAGC
13857446 TATATATCGGGA
1 TATA-ATCGGGA
13857458 TGATCATAAG
Statistics
Matches: 81, Mismatches: 23, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
23 7 0.09
24 35 0.43
25 21 0.26
26 1 0.01
27 16 0.20
28 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (24 bp):
TATAATCGGGAAGCTCAAAAGAGC
Found at i:13857592 original size:25 final size:24
Alignment explanation
Indices: 13857564--13857611 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13857554 ATAACGGGAA
*
13857564 GCTCGTGAGAGCCAAATATCAGGAT
1 GCTCATGAGAG-CAAATATCAGGAT
* *
13857589 GCTCATGATAGCTAATATCAGGA
1 GCTCATGAGAGCAAATATCAGGA
13857612 CGCCCTTTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (24 bp):
GCTCATGAGAGCAAATATCAGGAT
Found at i:13867066 original size:4 final size:4
Alignment explanation
Indices: 13867057--13867089 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
13867047 GTGAAAGAAT
13867057 AATA AATA AATA AATAA AATA AAT- AATA AATA A
1 AATA AATA AATA AAT-A AATA AATA AATA AATA A
13867090 CATCAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 20 0.74
5 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:13869801 original size:100 final size:101
Alignment explanation
Indices: 13869627--13869888 Score: 323
Period size: 100 Copynumber: 2.6 Consensus size: 101
13869617 CAATTATTCA
* * * *
13869627 AACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGGTCATAGCTGGGCTAAGGCATT
1 AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCATT
* * * *
13869692 CTAATGATAATATCATATCTAGGTT-TGGCACTATG
66 CTAATGATAAGACCATAACTAGGTTATGGCACTACG
*
13869727 GACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCATT
1 AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCATT
* *
13869792 CTGATGATAAGACCATAACTGGGTTATGGCACTACG
66 CTAATGATAAGACCATAACTAGGTTATGGCACTACG
* ** * * * * * *
13869828 AATGTAAGACCATGGCAGGGCCATGATAATG--CATATGTAAGACCATAGTTGGACTATGGCA
1 AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCA
13869889 CAAAGGAAAC
Statistics
Matches: 140, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
99 27 0.19
100 80 0.57
101 33 0.24
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (101 bp):
AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCATT
CTAATGATAAGACCATAACTAGGTTATGGCACTACG
Found at i:13877500 original size:16 final size:16
Alignment explanation
Indices: 13877479--13877547 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
13877469 TTTGGTTCGC
13877479 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13877495 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13877511 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
13877528 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13877544 TGTA
1 TGTA
13877548 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13877525 original size:33 final size:32
Alignment explanation
Indices: 13877479--13877547 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
13877469 TTTGGTTCGC
13877479 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
13877511 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
13877544 TGTA
1 TGTA
13877548 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:13877612 original size:44 final size:45
Alignment explanation
Indices: 13877528--13877618 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
13877518 GGATTAGAGG
* * *
13877528 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
13877573 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
13877617 TG
1 TG
13877619 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:13877800 original size:16 final size:16
Alignment explanation
Indices: 13877763--13877817 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
13877753 TTAATCATAT
*
13877763 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
13877779 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
13877794 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
13877812 -TAAAAT
1 TTAAAAT
13877818 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:13877810 original size:18 final size:18
Alignment explanation
Indices: 13877769--13877817 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
13877759 ATATTTAAAC
13877769 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
13877787 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
13877803 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
13877818 TCTTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:13877913 original size:117 final size:118
Alignment explanation
Indices: 13877776--13878055 Score: 465
Period size: 117 Copynumber: 2.4 Consensus size: 118
13877766 AACATAATTA
13877776 TAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
1 TAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
*
13877841 TGAATTTACTCAAATCATAATATATGATACTATAAAATATAA-ATTAACATAAT
66 TGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATATTAA-ATAAT
* *
13877894 T-ATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
1 TAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
* *
13877958 TGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTTAAATAAT
66 TGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATATTAAATAAT
*
13878011 TAAAATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 T--AATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
13878056 TAAAATAATT
Statistics
Matches: 151, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
117 107 0.71
118 5 0.03
120 39 0.26
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (118 bp):
TAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
TGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATATTAAATAAT
Found at i:13878039 original size:16 final size:17
Alignment explanation
Indices: 13878014--13878054 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
13878004 AAATAATTAA
13878014 AATT-AAATATAT-TTT
1 AATTAAAATATATATTT
13878029 AATTAAAATATATGATTT
1 AATTAAAATATAT-ATTT
13878047 AA-TAAAAT
1 AATTAAAAT
13878055 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 6 0.26
18 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTAAAATATATATTT
Found at i:13881558 original size:16 final size:16
Alignment explanation
Indices: 13881537--13881605 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
13881527 TTTGGTTCGC
13881537 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13881553 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13881569 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
13881586 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13881602 TGTA
1 TGTA
13881606 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13881583 original size:33 final size:32
Alignment explanation
Indices: 13881537--13881605 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
13881527 TTTGGTTCGC
13881537 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
13881569 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
13881602 TGTA
1 TGTA
13881606 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:13881670 original size:44 final size:45
Alignment explanation
Indices: 13881586--13881676 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
13881576 GGATTAGAGG
* * *
13881586 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
13881631 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
13881675 TG
1 TG
13881677 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:13881862 original size:18 final size:19
Alignment explanation
Indices: 13881841--13881877 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
13881831 TTATTATTAA
13881841 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
13881859 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
13881878 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:13881936 original size:61 final size:59
Alignment explanation
Indices: 13881871--13882058 Score: 147
Period size: 61 Copynumber: 3.1 Consensus size: 59
13881861 ATAATTTATA
*
13881871 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATAAATATTCTTATATGAATTT-CT-AAATCATAATATATGATACT
* * ** * * *
13881932 ATAAAATATAATTTGAAATAATTAATATT-AAATAT--ATTT-T-AATTAAAATATATGAT-TT
1 ATAAAAT-T--CTT--AATAATAAATATTCTTATATGAATTTCTAAATCATAATATATGATACT
*
13881990 AATAAAATTCTTAAT-ATAAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACT
1 -ATAAAATTCTTAATAAT-AAATATTCTTATATGAA-TTTCT-AAATCATAATATATGATACT
13882052 ATAAAAT
1 ATAAAAT
13882059 ATAATTTAAC
Statistics
Matches: 97, Mismatches: 15, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
53 2 0.02
54 9 0.09
55 4 0.04
56 2 0.02
57 1 0.01
58 5 0.05
59 22 0.23
61 28 0.29
62 2 0.02
63 4 0.04
64 2 0.02
65 4 0.04
66 12 0.12
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (59 bp):
ATAAAATTCTTAATAATAAATATTCTTATATGAATTTCTAAATCATAATATATGATACT
Found at i:13881985 original size:59 final size:58
Alignment explanation
Indices: 13881919--13882104 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 58
13881909 CTCAAATCAT
* *
13881919 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * * *
13881978 AATATATGAT-TTAATAAAATTCTTAATATAAA-ATATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAATTTAAATA-ATTATTAT-TAAATATATTTTAATAA--A
* **
13882038 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
13882098 AATATAT
1 AATATAT
13882105 AATTTATCAT
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
58 2 0.02
59 40 0.42
60 23 0.24
61 28 0.29
62 3 0.03
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:13882042 original size:120 final size:120
Alignment explanation
Indices: 13881821--13882110 Score: 449
Period size: 120 Copynumber: 2.4 Consensus size: 120
13881811 TTAATCATAT
13881821 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
13881886 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
13881943 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAAT-A
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
13882006 TAAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 T-AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
13882063 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
13882111 TCATCATACT
Statistics
Matches: 154, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
119 4 0.03
120 107 0.69
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:13895558 original size:17 final size:17
Alignment explanation
Indices: 13895526--13895575 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
13895516 GCGAAAATAC
13895526 AAAAGAAAAGAAAAATGAT
1 AAAA-AAAAG-AAAATGAT
13895545 AAAAAAAAGAAAAT--T
1 AAAAAAAAGAAAATGAT
* *
13895560 CAAAAAAAGAGAATGA
1 AAAAAAAAGAAAATGA
13895576 AAAGAGAGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 13 0.48
17 5 0.19
18 5 0.19
19 4 0.15
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.10
Consensus pattern (17 bp):
AAAAAAAAGAAAATGAT
Found at i:13899670 original size:21 final size:21
Alignment explanation
Indices: 13899621--13899687 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
13899611 CCTCTTTGAA
* * *
13899621 CCATAACCAATTCGTACCAAATA
1 CCAT-ACCATTTCATACC-AATT
*
13899644 CCATACTATTTCATACCAATT
1 CCATACCATTTCATACCAATT
*
13899665 CCATACCATTTCGTACCAATT
1 CCATACCATTTCATACCAATT
13899686 CC
1 CC
13899688 CAAATACCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 24 0.63
22 10 0.26
23 4 0.11
ACGTcount: A:0.34, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
CCATACCATTTCATACCAATT
Found at i:13901182 original size:10 final size:11
Alignment explanation
Indices: 13901167--13901199 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
13901157 TCCAACTCAA
13901167 TTTTTTTGA-T
1 TTTTTTTGACT
13901177 TTTTTTTGACT
1 TTTTTTTGACT
13901188 TTTTTTT-ACT
1 TTTTTTTGACT
13901198 TT
1 TT
13901200 ACGAACCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (11 bp):
TTTTTTTGACT
Found at i:13904436 original size:22 final size:22
Alignment explanation
Indices: 13904408--13904451 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13904398 TTTTGAACCA
13904408 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
13904430 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
13904452 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:13907513 original size:20 final size:20
Alignment explanation
Indices: 13907490--13907536 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
13907480 GGGTTAAGAT
*
13907490 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
13907510 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
13907530 TGAGCTG
1 TGAGCTG
13907537 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:13909233 original size:18 final size:18
Alignment explanation
Indices: 13909212--13909246 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13909202 TTTTTCTTTT
13909212 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
13909230 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
13909247 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:13910159 original size:15 final size:14
Alignment explanation
Indices: 13910141--13910189 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
13910131 TTTAACTTGA
13910141 TTTTTTTTGCTCACC
1 TTTTTTTTGCTCA-C
13910156 TTTTTTTTGCTCGA-
1 TTTTTTTTGCTC-AC
13910170 TTTTTTTT--TCAC
1 TTTTTTTTGCTCAC
13910182 TTTTTTTT
1 TTTTTTTT
13910190 TGAATTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.03
12 10 0.31
14 8 0.25
15 12 0.38
16 1 0.03
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.71
Consensus pattern (14 bp):
TTTTTTTTGCTCAC
Found at i:13910201 original size:29 final size:29
Alignment explanation
Indices: 13910118--13910203 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
13910108 CTCGCAAGAC
13910118 TTTTCACTTTTTTTTT-AACTTGATTTTT
1 TTTTCACTTTTTTTTTGAACTTGATTTTT
* *
13910146 TTTGCTCACCTTTTTTTTG--CTCGATTTTT
1 TTT--TCACTTTTTTTTTGAACTTGATTTTT
* *
13910175 TTTTCACTTTTTTTTTGAATTTTATTTTT
1 TTTTCACTTTTTTTTTGAACTTGATTTTT
13910204 CAATCAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
27 13 0.28
28 3 0.06
29 19 0.40
30 12 0.26
ACGTcount: A:0.12, C:0.13, G:0.06, T:0.70
Consensus pattern (29 bp):
TTTTCACTTTTTTTTTGAACTTGATTTTT
Found at i:13910239 original size:13 final size:13
Alignment explanation
Indices: 13910156--13910241 Score: 65
Period size: 12 Copynumber: 6.5 Consensus size: 13
13910146 TTTGCTCACC
13910156 TTTTTTTTGCTCG-A
1 TTTTTTTT--TCGAA
*
13910170 TTTTTTTTTC-AC
1 TTTTTTTTTCGAA
13910182 TTTTTTTTT-GAA
1 TTTTTTTTTCGAA
13910194 TTTTATTTTTC-AA
1 TTTT-TTTTTCGAA
13910207 TCAATTTTTTTTCGAA
1 T---TTTTTTTTCGAA
*
13910223 TTTTTTTTTTG-A
1 TTTTTTTTTCGAA
13910235 TTTTTTT
1 TTTTTTT
13910242 GTTACTCCAA
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
12 24 0.39
13 17 0.28
14 8 0.13
15 6 0.10
16 6 0.10
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.72
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:13911749 original size:20 final size:20
Alignment explanation
Indices: 13911726--13911772 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
13911716 GGGTTAAGAT
*
13911726 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
13911746 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
13911766 TGAGCTG
1 TGAGCTG
13911773 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:13912805 original size:20 final size:20
Alignment explanation
Indices: 13912780--13912822 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13912770 AAAAGAAAAG
13912780 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
13912800 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
13912820 AAA
1 AAA
13912823 ACAAGAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:13914811 original size:22 final size:22
Alignment explanation
Indices: 13914781--13914824 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13914771 TTTGGTATTT
13914781 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
13914803 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
13914825 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:13917474 original size:29 final size:29
Alignment explanation
Indices: 13917441--13917513 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
13917431 TTAGATATTA
* *
13917441 TTAAATATGTCCTAATTAGTTTAGGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
13917470 TTAAATATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
13917499 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
13917514 ACTAATACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:13921566 original size:29 final size:28
Alignment explanation
Indices: 13921530--13921607 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
13921520 TCATGAGATT
13921530 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
13921560 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
13921587 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
13921608 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:13921825 original size:174 final size:174
Alignment explanation
Indices: 13921560--13921887 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
13921550 AAATTGTACA
* *
13921560 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACAAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
13921625 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
13921690 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
13921734 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACAAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACAAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
13921799 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
13921864 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
13921888 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACAAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:13932126 original size:11 final size:11
Alignment explanation
Indices: 13932110--13932151 Score: 75
Period size: 11 Copynumber: 3.7 Consensus size: 11
13932100 TCGGTATTGT
13932110 AAAAAAAATTC
1 AAAAAAAATTC
13932121 AAAAAAAATTC
1 AAAAAAAATTC
13932132 AAAAAAAAATTC
1 -AAAAAAAATTC
13932144 AAAAAAAA
1 AAAAAAAA
13932152 GTTTGTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 19 0.63
12 11 0.37
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:13932127 original size:12 final size:12
Alignment explanation
Indices: 13932110--13932151 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
13932100 TCGGTATTGT
13932110 AAAAAAAATTC-
1 AAAAAAAATTCA
13932121 AAAAAAAATTCA
1 AAAAAAAATTCA
13932133 AAAAAAAATTCA
1 AAAAAAAATTCA
13932145 AAAAAAA
1 AAAAAAA
13932152 GTTTGTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 11 0.37
12 19 0.63
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:13932232 original size:25 final size:26
Alignment explanation
Indices: 13932197--13932256 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
13932187 GTATTGAAGA
* *
13932197 AAAAAAGAAGAAAAAAATTAGGAATT-
1 AAAAAA-AAGAAAAAAAATAGAAATTG
*
13932223 AAAAAAAAGAAAAAAAATCGAAATTG
1 AAAAAAAAGAAAAAAAATAGAAATTG
13932249 AAAAAAAA
1 AAAAAAAA
13932257 AAGAGTGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 16 0.53
26 14 0.47
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.12
Consensus pattern (26 bp):
AAAAAAAAGAAAAAAAATAGAAATTG
Found at i:13933179 original size:17 final size:15
Alignment explanation
Indices: 13933159--13933197 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
13933149 GCGAGCGAGA
13933159 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
13933176 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
13933191 AAGATGA
1 AA-ATGA
13933198 GTGGGACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:13938792 original size:18 final size:18
Alignment explanation
Indices: 13938771--13938809 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13938761 GATTGAGAGT
* *
13938771 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
13938789 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
13938807 GAA
1 GAA
13938810 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:13940017 original size:13 final size:13
Alignment explanation
Indices: 13939999--13940023 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13939989 TGGTCATCAT
13939999 GGTGTGAACACAA
1 GGTGTGAACACAA
13940012 GGTGTGAACACA
1 GGTGTGAACACA
13940024 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:13940546 original size:20 final size:20
Alignment explanation
Indices: 13940518--13940566 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
13940508 AATGAGCTGA
13940518 ATTGTAGCTAAATTGAGCCCG
1 ATTG-AGCTAAATTGAGCCCG
* * *
13940539 ATTGAGCTGACTTGAGCTCG
1 ATTGAGCTAAATTGAGCCCG
*
13940559 AGTGAGCT
1 ATTGAGCT
13940567 GGAAACGAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (20 bp):
ATTGAGCTAAATTGAGCCCG
Found at i:13940567 original size:20 final size:20
Alignment explanation
Indices: 13940530--13940567 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13940520 TGTAGCTAAA
*
13940530 TTGAGCCCGATTGAGCTGAC
1 TTGAGCCCGAGTGAGCTGAC
*
13940550 TTGAGCTCGAGTGAGCTG
1 TTGAGCCCGAGTGAGCTG
13940568 GAAACGAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.26
Consensus pattern (20 bp):
TTGAGCCCGAGTGAGCTGAC
Found at i:13943382 original size:12 final size:12
Alignment explanation
Indices: 13943365--13943411 Score: 76
Period size: 12 Copynumber: 3.8 Consensus size: 12
13943355 CGTATGCAAT
13943365 TTTTTTTTTCAA
1 TTTTTTTTTCAA
13943377 TTTTTTTTTCAA
1 TTTTTTTTTCAA
13943389 TTTTTTTTTCGAA
1 TTTTTTTTTC-AA
13943402 CTTTTTTTTT
1 -TTTTTTTTT
13943412 ACGCACCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 22 0.67
13 2 0.06
14 9 0.27
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:13944388 original size:13 final size:13
Alignment explanation
Indices: 13944370--13944394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13944360 TGGTCATCAT
13944370 GGTGTGAACACAA
1 GGTGTGAACACAA
13944383 GGTGTGAACACA
1 GGTGTGAACACA
13944395 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:13944917 original size:20 final size:20
Alignment explanation
Indices: 13944889--13944937 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
13944879 AATGAGCTGA
13944889 ATTGTAGCTAAATTGAGCCCG
1 ATTG-AGCTAAATTGAGCCCG
* * *
13944910 ATTGAGCTGACTTGAGCTCG
1 ATTGAGCTAAATTGAGCCCG
*
13944930 AGTGAGCT
1 ATTGAGCT
13944938 GGAAACGAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (20 bp):
ATTGAGCTAAATTGAGCCCG
Found at i:13944938 original size:20 final size:20
Alignment explanation
Indices: 13944901--13944938 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13944891 TGTAGCTAAA
*
13944901 TTGAGCCCGATTGAGCTGAC
1 TTGAGCCCGAGTGAGCTGAC
*
13944921 TTGAGCTCGAGTGAGCTG
1 TTGAGCCCGAGTGAGCTG
13944939 GAAACGAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.26
Consensus pattern (20 bp):
TTGAGCCCGAGTGAGCTGAC
Found at i:13947626 original size:10 final size:10
Alignment explanation
Indices: 13947604--13947637 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
13947594 AAGAGAGAAG
13947604 AAATTCAAAAA
1 AAATTC-AAAA
13947615 AAATTCAAAA
1 AAATTCAAAA
*
13947625 AAAATCAAAA
1 AAATTCAAAA
13947635 AAA
1 AAA
13947638 AAGAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (10 bp):
AAATTCAAAA
Found at i:13947638 original size:10 final size:11
Alignment explanation
Indices: 13947604--13947638 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
13947594 AAGAGAGAAG
13947604 AAATTCAAAAA
1 AAATTCAAAAA
13947615 AAATTCAAAAA
1 AAATTCAAAAA
13947626 AAA-TCAAAAA
1 AAATTCAAAAA
13947636 AAA
1 AAA
13947639 AGAAAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:13947645 original size:21 final size:21
Alignment explanation
Indices: 13947588--13947647 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
13947578 TATTGGATTT
* * *
13947588 AAAAAAAAGAGAGAAGAAATTC
1 AAAAAAAA-AGAAAAAAAAATC
***
13947610 AAAAAAAATTCAAAAAAAATC
1 AAAAAAAAAGAAAAAAAAATC
13947631 AAAAAAAAAGAAAAAAA
1 AAAAAAAAAGAAAAAAA
13947648 GAAGTGACAA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.78, C:0.05, G:0.08, T:0.08
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAAAAATC
Found at i:13948626 original size:15 final size:14
Alignment explanation
Indices: 13948603--13948641 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
13948593 AAATTGAGAG
*
13948603 AAGAAAAAAAGAAA
1 AAGAGAAAAAGAAA
13948617 TAAGAGAAAAAGAAA
1 -AAGAGAAAAAGAAA
13948632 AAGATGAAAA
1 AAGA-GAAAA
13948642 TGAGATTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (14 bp):
AAGAGAAAAAGAAA
Found at i:13953297 original size:21 final size:21
Alignment explanation
Indices: 13953246--13953290 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
13953236 GAAAAATGAG
13953246 AAGAGAAAAAT-AAAAGTGAAA
1 AAGA-AAAAATGAAAAGTGAAA
13953267 AAGAAGAAAATGAAAA-TGAAA
1 AAGAA-AAAATGAAAAGTGAAA
13953288 AAG
1 AAG
13953291 GCAAAAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (21 bp):
AAGAAAAAATGAAAAGTGAAA
Found at i:13965431 original size:21 final size:21
Alignment explanation
Indices: 13965386--13965448 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
13965376 TTTGAACCAT
* *
13965386 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
13965408 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
13965429 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
13965449 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:13967447 original size:22 final size:22
Alignment explanation
Indices: 13967417--13967460 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13967407 TTTGGTATTT
*
13967417 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACAAAATGGTAA
*
13967439 GGGATTTGGTACAAAATGGTAA
1 GGGAATTGGTACAAAATGGTAA
13967461 TGGTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.34, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACAAAATGGTAA
Found at i:13971770 original size:4 final size:4
Alignment explanation
Indices: 13971761--13971794 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
13971751 AAGTTTTATT
13971761 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
13971795 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:13971802 original size:22 final size:22
Alignment explanation
Indices: 13971744--13971803 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
13971734 AAGTGGCCCA
*
13971744 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
13971768 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
13971789 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
13971804 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:13971883 original size:6 final size:6
Alignment explanation
Indices: 13971872--13971896 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13971862 TAGGAGTTTT
13971872 TTTTAG TTTTAG TTTTAG TTTTAG T
1 TTTTAG TTTTAG TTTTAG TTTTAG T
13971897 GTTCTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TTTTAG
Found at i:13974151 original size:18 final size:18
Alignment explanation
Indices: 13974130--13974168 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13974120 GATTGAGAGT
* *
13974130 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
13974148 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
13974166 GAA
1 GAA
13974169 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:13975574 original size:4 final size:4
Alignment explanation
Indices: 13975565--13975598 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
13975555 AAGTTTTATT
13975565 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
13975599 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:13975606 original size:22 final size:22
Alignment explanation
Indices: 13975548--13975607 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
13975538 AAGTGGCCCA
*
13975548 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
13975572 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
13975593 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
13975608 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:13980100 original size:22 final size:22
Alignment explanation
Indices: 13980049--13980114 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
13980039 GGTATTTGGG
* *
13980049 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
13980070 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
13980092 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
13980115 TCAAAAGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:13986456 original size:12 final size:12
Alignment explanation
Indices: 13986436--13986465 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13986426 TTCTTTTTGC
13986436 TTTTC-AAGGCT
1 TTTTCAAAGGCT
13986447 TTTTCAAAGGCT
1 TTTTCAAAGGCT
13986459 TTTTCAA
1 TTTTCAA
13986466 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:13986539 original size:21 final size:23
Alignment explanation
Indices: 13986513--13986571 Score: 59
Period size: 27 Copynumber: 2.5 Consensus size: 23
13986503 CTCTTGCCTC
13986513 TCTTTTCTTTTT-A-TTTCATTT
1 TCTTTTCTTTTTGATTTTCATTT
*
13986534 TCTTTTTCTTCTCTTGATTTTTCTTTT
1 TC-TTTTCTT-T-TTGA-TTTTCATTT
13986561 TCTTTTCTTTT
1 TCTTTTCTTTT
13986572 CTTTGTTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
21 2 0.06
22 7 0.23
23 1 0.03
24 3 0.10
25 2 0.06
26 7 0.23
27 9 0.29
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (23 bp):
TCTTTTCTTTTTGATTTTCATTT
Found at i:13986557 original size:37 final size:37
Alignment explanation
Indices: 13986515--13986585 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
13986505 CTTGCCTCTC
13986515 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGAT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGAT
*
13986552 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
13986586 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.04, C:0.17, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGAT
Found at i:13986585 original size:16 final size:16
Alignment explanation
Indices: 13986511--13986586 Score: 57
Period size: 16 Copynumber: 4.4 Consensus size: 16
13986501 GCCTCTTGCC
*
13986511 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
13986527 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
13986543 TCTCTTGATTTTTCTTTTTCT
1 TCTC-----TTTTCTTTTTCT
*
13986564 TTTCTTTTCTTTGTT-T
1 TCTCTTTTCTTT-TTCT
13986580 TCTCTTT
1 TCTCTTT
13986587 ACAAGAATGT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
15 2 0.04
16 28 0.57
17 4 0.08
21 15 0.31
ACGTcount: A:0.04, C:0.18, G:0.03, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:13989314 original size:30 final size:30
Alignment explanation
Indices: 13989280--13989376 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
13989270 TAAACTAAAA
* *
13989280 TGAGCTAAGTTTTAGTTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
13989310 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
13989340 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
13989369 ATGAGCTA
1 -TGAGCTA
13989377 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:13989911 original size:12 final size:12
Alignment explanation
Indices: 13989894--13989918 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13989884 AGACTGTATG
13989894 CAATTTTTTTTT
1 CAATTTTTTTTT
13989906 CAATTTTTTTTT
1 CAATTTTTTTTT
13989918 C
1 C
13989919 GAACTCCTTT
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:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (12 bp):
CAATTTTTTTTT
Done.