Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 45 of 228
Found at i:13604014 original size:10 final size:9
Alignment explanation
Indices: 13603971--13604012 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
13603961 TTTTTAAAAT
*
13603971 TAAAAATTT
1 TAAAAATTA
*
13603980 TAAAAA-AA
1 TAAAAATTA
13603988 TAAAAATTA
1 TAAAAATTA
13603997 GTAAAAATTA
1 -TAAAAATTA
13604007 TAAAAA
1 TAAAAA
13604013 ATATTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 6 0.21
9 13 0.46
10 9 0.32
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (9 bp):
TAAAAATTA
Found at i:13607418 original size:27 final size:27
Alignment explanation
Indices: 13607362--13607433 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
13607352 AATCTAATCA
* * *
13607362 TTATAATATGGCTGGTGGAATTTGATTG
1 TTATAATATGG-TGTTGGAATCTGACTG
13607390 TTATAATATGGTGTTGGAATCTGACTG
1 TTATAATATGGTGTTGGAATCTGACTG
**
13607417 TTCCAATATGGTCGTTG
1 TTATAATATGGT-GTTG
13607434 AATTTTTTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (27 bp):
TTATAATATGGTGTTGGAATCTGACTG
Found at i:13610537 original size:2 final size:2
Alignment explanation
Indices: 13610530--13610556 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13610520 TCCATCTGTT
13610530 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13610557 TGTCATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13622230 original size:26 final size:27
Alignment explanation
Indices: 13622187--13622248 Score: 99
Period size: 26 Copynumber: 2.3 Consensus size: 27
13622177 AATTTACTAC
13622187 GGGTAAAATCGTCAAAAATTTTATTAG
1 GGGTAAAATCGTCAAAAATTTTATTAG
* *
13622214 GGGTAAAATGGTC-AAAATTTTATTGG
1 GGGTAAAATCGTCAAAAATTTTATTAG
13622240 GGGTAAAAT
1 GGGTAAAAT
13622249 AGGAATGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (27 bp):
GGGTAAAATCGTCAAAAATTTTATTAG
Found at i:13637217 original size:28 final size:28
Alignment explanation
Indices: 13637186--13637258 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
13637176 TTGCTCATGT
* **
13637186 GGGTTCACACTTTAGGGGTCACACCTAG
1 GGGTTCACACATTAGGGACCACACCTAG
* *
13637214 GGGTTCACTCATTAGGGACCACACTTAGG
1 GGGTTCACACATTAGGGACCACACCTA-G
**
13637243 GGGTTTGCACATTAGG
1 GGGTTCACACATTAGG
13637259 CTTTACACAC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 22 0.61
29 14 0.39
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (28 bp):
GGGTTCACACATTAGGGACCACACCTAG
Found at i:13637580 original size:181 final size:181
Alignment explanation
Indices: 13637276--13637643 Score: 682
Period size: 181 Copynumber: 2.0 Consensus size: 181
13637266 CACAGGCTCA
* * *
13637276 CACATAGGGTTCACAGATTGGGTTTCGCACATAGGCTCGCTCATAGGGGCTCACGCATATAGTTT
1 CACATAGGGCTCACAGATTGGGTTTCGCACATAGGCTCGCTCATAGGGGCTCACACATACAGTTT
* *
13637341 GCATAATTAAACATGTACGATCTGCATACTATATCGGGTTCGCTCGTCCTATGTAGCATGTGCTT
66 GCATAATTAAACATGTACGATCTGCATACTATATCGGGTTCGCTCATCCTATGTAGCATGTGCCT
13637406 AGGGTTCACATATTTTATCATGTAGGGTTCGCATAATAAACAAGTATGTTT
131 AGGGTTCACATATTTTATCATGTAGGGTTCGCATAATAAACAAGTATGTTT
*
13637457 CACATAGGGCTCACAGATTGGGTTTCGCACATAGGCTCGCTCATAGGGGCTCGCACATACAGTTT
1 CACATAGGGCTCACAGATTGGGTTTCGCACATAGGCTCGCTCATAGGGGCTCACACATACAGTTT
13637522 GCATAATTAAACATGTACGATCTGCATACTATATCGGGTTCGCTCATCCTATGTAGCATGTGCCT
66 GCATAATTAAACATGTACGATCTGCATACTATATCGGGTTCGCTCATCCTATGTAGCATGTGCCT
13637587 AGGGTTCACATATTTTATCATGTAGGGTTCGCATAATAAACAAGTATGTTT
131 AGGGTTCACATATTTTATCATGTAGGGTTCGCATAATAAACAAGTATGTTT
13637638 CACATA
1 CACATA
13637644 ACTAAACATG
Statistics
Matches: 181, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
181 181 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (181 bp):
CACATAGGGCTCACAGATTGGGTTTCGCACATAGGCTCGCTCATAGGGGCTCACACATACAGTTT
GCATAATTAAACATGTACGATCTGCATACTATATCGGGTTCGCTCATCCTATGTAGCATGTGCCT
AGGGTTCACATATTTTATCATGTAGGGTTCGCATAATAAACAAGTATGTTT
Found at i:13637666 original size:23 final size:22
Alignment explanation
Indices: 13637605--13637666 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
13637595 CATATTTTAT
*
13637605 CATGTAGGGTTCGCATAATAAA
1 CATGTACGGTTCGCATAATAAA
* * * *
13637627 CAAGTATGTTTCACATAACTAAA
1 CATGTACGGTTCGCATAA-TAAA
13637650 CATGTACGGTTCGCATA
1 CATGTACGGTTCGCATA
13637667 CTATACAGGG
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 14 0.45
23 17 0.55
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (22 bp):
CATGTACGGTTCGCATAATAAA
Found at i:13637735 original size:117 final size:116
Alignment explanation
Indices: 13637523--13637738 Score: 253
Period size: 117 Copynumber: 1.8 Consensus size: 116
13637513 ATACAGTTTG
* *
13637523 CATAATTAAACATGTACGATCTGCATACTATATCGGGTTCGCTCATCCTATGTAGCATGTGCCTA
1 CATAACTAAACATGTACGATCTGCATACTATATCGGGTTCACTCATCCTATGTAGCATGTGCCTA
* ** *
13637588 GGGTTCACATATTTTATCATGTAGGGTTCGCATAATAAACAAGTATGTTTCA
66 AGGTTCACATATCCTATCATGTA-GATTCGCATAATAAACAAGTATGTTTCA
* *
13637640 CATAACTAAACATGTACGGT-TCGCATACTATA-CAGGGTTCACTCATCTTATGTAGCTCGTATG
1 CATAACTAAACATGTACGATCT-GCATACTATATC-GGGTTCACTCATCCTATGTAG--C--ATG
*
13637703 TGCCTAAGGTTCACATATCCT-T-GTGTA-ATTCGCATA
60 TGCCTAAGGTTCACATATCCTATCATGTAGATTCGCATA
13637739 GTATCCACAG
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
116 2 0.02
117 55 0.65
119 5 0.06
120 1 0.01
121 21 0.25
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (116 bp):
CATAACTAAACATGTACGATCTGCATACTATATCGGGTTCACTCATCCTATGTAGCATGTGCCTA
AGGTTCACATATCCTATCATGTAGATTCGCATAATAAACAAGTATGTTTCA
Found at i:13637865 original size:18 final size:20
Alignment explanation
Indices: 13637822--13637869 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
13637812 ATAATAATTT
13637822 TAAAAATAAATATTAATTAAA
1 TAAAAAT-AATATTAATTAAA
*
13637843 GAAAAATAAT-TTAA-TAAA
1 TAAAAATAATATTAATTAAA
13637861 TAAAAATAA
1 TAAAAATAA
13637870 GCTAGAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.48
19 4 0.16
20 3 0.12
21 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
TAAAAATAATATTAATTAAA
Found at i:13642062 original size:19 final size:19
Alignment explanation
Indices: 13642035--13642072 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13642025 CAAAAATATA
* *
13642035 TTATGATTTTTTTAGTTTT
1 TTATAATTTTTTGAGTTTT
13642054 TTATAATTTTTTGAGTTTT
1 TTATAATTTTTTGAGTTTT
13642073 AAGATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (19 bp):
TTATAATTTTTTGAGTTTT
Found at i:13642306 original size:31 final size:30
Alignment explanation
Indices: 13642254--13642314 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
13642244 TCAAAGTACC
*
13642254 AGGGCCAAGTTAATAACAAAAATAAAGTATA
1 AGGGCCAAATTAATAACAAAAA-AAAGTATA
* *
13642285 AGGGCCAAATTGATAGA-AAAAAATAGTATA
1 AGGGCCAAATTAATA-ACAAAAAAAAGTATA
13642315 GGTATCAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 7 0.27
31 18 0.69
32 1 0.04
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.20
Consensus pattern (30 bp):
AGGGCCAAATTAATAACAAAAAAAAGTATA
Found at i:13644844 original size:7 final size:8
Alignment explanation
Indices: 13644807--13644842 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
13644797 TATACAACTC
*
13644807 TTTTAAAA
1 TTTTTAAA
13644815 TTTTTAAA
1 TTTTTAAA
13644823 TTTTTAAA
1 TTTTTAAA
13644831 TTTTTAAA
1 TTTTTAAA
13644839 TTTT
1 TTTT
13644843 AATTTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTTAAA
Found at i:13645879 original size:18 final size:18
Alignment explanation
Indices: 13645852--13645944 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
13645842 TACGACCGTT
13645852 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
13645870 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
13645888 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
13645906 TACGGCACTATTTACGTA
1 TACGGTACTATTCACGTA
*
13645924 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
13645942 TAC
1 TAC
13645945 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:13645899 original size:36 final size:36
Alignment explanation
Indices: 13645852--13645944 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
13645842 TACGACCGTT
13645852 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
13645888 TACGGTACTATTCACGTATACGGCACTATTTACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
13645924 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
13645945 AGTAGTTGGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:13653058 original size:24 final size:23
Alignment explanation
Indices: 13653015--13653099 Score: 67
Period size: 24 Copynumber: 3.9 Consensus size: 23
13653005 ATAGATAGAA
* *
13653015 TTTATATATTTT-TAAGTTTAAT
1 TTTATATATTTTAAAATTTTAAT
13653037 TTTATATATTTTAAAATTTTTAA-
1 TTTATATATTTTAAAA-TTTTAAT
*
13653060 -TGA-A-A-TTTAAAATTTTAAT
1 TTTATATATTTTAAAATTTTAAT
13653079 TTT-TATGATTTTTAAAATTTT
1 TTTATAT-A-TTTTAAAATTTT
13653100 TTTATAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
18 6 0.12
19 7 0.14
20 3 0.06
21 1 0.02
22 15 0.30
23 2 0.04
24 16 0.32
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTATATATTTTAAAATTTTAAT
Found at i:13653100 original size:25 final size:25
Alignment explanation
Indices: 13653051--13653099 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
13653041 TATATTTTAA
13653051 AATTTTTAATGAAATTTAAAATTTT
1 AATTTTTAATGAAATTTAAAATTTT
**
13653076 AATTTTT-ATGATTTTTAAAATTTT
1 AATTTTTAATGAAATTTAAAATTTT
13653100 TTTATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
AATTTTTAATGAAATTTAAAATTTT
Found at i:13660145 original size:5 final size:5
Alignment explanation
Indices: 13660109--13660144 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
13660099 AAGAATATTA
*
13660109 AAAAG AAAAAG AAAAG AAAAG AAAAG AAAAG GAAAG
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
13660145 GCAGGTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:13660690 original size:24 final size:21
Alignment explanation
Indices: 13660650--13660692 Score: 59
Period size: 24 Copynumber: 1.9 Consensus size: 21
13660640 ATACTTCTTT
13660650 TAATAATTAAATTTTATTTTA
1 TAATAATTAAATTTTATTTTA
13660671 TAATAAATTAATATTTTTATTT
1 TAAT-AATTAA-A-TTTTATTT
13660693 AAATTCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 1 0.05
24 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TAATAATTAAATTTTATTTTA
Found at i:13661036 original size:17 final size:17
Alignment explanation
Indices: 13661016--13661049 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13661006 ATTTTTAAAT
13661016 TTAAAATAAAAATATTA
1 TTAAAATAAAAATATTA
* *
13661033 TTAATATAATAATATTA
1 TTAAAATAAAAATATTA
13661050 GACTTTATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAATAAAAATATTA
Found at i:13661046 original size:23 final size:23
Alignment explanation
Indices: 13661003--13661046 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
13660993 GTTTGATGTT
* *
13661003 AATATTTTTAAATTTAAAATAAA
1 AATATTATTAAATATAAAATAAA
13661026 AATATTATT-AATATAATAATA
1 AATATTATTAAATATAA-AATA
13661047 TTAGACTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATATTATTAAATATAAAATAAA
Found at i:13664338 original size:28 final size:28
Alignment explanation
Indices: 13664306--13664364 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
13664296 TATCATACTT
*
13664306 AGGCCCGGCACAAATTATAAGACTAGAA
1 AGGCCCGACACAAATTATAAGACTAGAA
*
13664334 AGGCCCGACACAAATTATAGGACTAGAA
1 AGGCCCGACACAAATTATAAGACTAGAA
13664362 AGG
1 AGG
13664365 TTGGTATGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (28 bp):
AGGCCCGACACAAATTATAAGACTAGAA
Found at i:13671218 original size:17 final size:18
Alignment explanation
Indices: 13671196--13671230 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13671186 ATTTGGGCCA
*
13671196 TGTGGG-CCACATGGGCG
1 TGTGGGCCCACAAGGGCG
13671213 TGTGGGCCCACAAGGGCG
1 TGTGGGCCCACAAGGGCG
13671231 AACTTCTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.14, C:0.26, G:0.46, T:0.14
Consensus pattern (18 bp):
TGTGGGCCCACAAGGGCG
Found at i:13674268 original size:76 final size:76
Alignment explanation
Indices: 13674142--13674289 Score: 208
Period size: 76 Copynumber: 1.9 Consensus size: 76
13674132 TTAGAAATGT
* ** * *
13674142 AAATATTAAAATTATATTAGGTTATATTTTAAAATAAAAAATCGGCAAGGACACTTGT-GTTCAT
1 AAATATTAAAAATATATTAAATTATATTGTAAAATAAAAAATCGACAAGGACACTTGTGGTT-AT
13674206 ACAAAAAAATTA
65 ACAAAAAAATTA
* * *
13674218 AAATATTAAAAATATATTAAATTATATTGTAAAATGAAAAATCTATAAGGACACTTGTGGTTATA
1 AAATATTAAAAATATATTAAATTATATTGTAAAATAAAAAATCGACAAGGACACTTGTGGTTATA
13674283 CAAAAAA
66 CAAAAAA
13674290 TGTATTAAGT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
76 60 0.95
77 3 0.05
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (76 bp):
AAATATTAAAAATATATTAAATTATATTGTAAAATAAAAAATCGACAAGGACACTTGTGGTTATA
CAAAAAAATTA
Found at i:13675650 original size:3 final size:3
Alignment explanation
Indices: 13675642--13675678 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
13675632 TGAAGAGATA
13675642 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
13675679 GTGGTGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:13677014 original size:19 final size:20
Alignment explanation
Indices: 13676990--13677030 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
13676980 ACAACAAAAT
*
13676990 AATAGCAACATAATAG-TGA
1 AATAGCAACAAAATAGTTGA
*
13677009 AATAGCAGCAAAATAGTTGA
1 AATAGCAACAAAATAGTTGA
13677029 AA
1 AA
13677031 AAATAGTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.20
Consensus pattern (20 bp):
AATAGCAACAAAATAGTTGA
Found at i:13677032 original size:11 final size:11
Alignment explanation
Indices: 13677008--13677065 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
13676998 CATAATAGTG
* *
13677008 AAATAGCAGCA
1 AAATAGTAGAA
*
13677019 AAATAGTTGAAA
1 AAATAGTAG-AA
*
13677031 AAATAGTAGGA
1 AAATAGTAGAA
13677042 AAATAGTAGAA
1 AAATAGTAGAA
*
13677053 AAACAGT-GAA
1 AAATAGTAGAA
13677063 AAA
1 AAA
13677066 ATAATAGTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
10 6 0.15
11 24 0.62
12 9 0.23
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.16
Consensus pattern (11 bp):
AAATAGTAGAA
Found at i:13677035 original size:23 final size:23
Alignment explanation
Indices: 13677008--13677055 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13676998 CATAATAGTG
*
13677008 AAATAGCAGCAAAATAGTTGAAA
1 AAATAGCAGCAAAATAGTAGAAA
* *
13677031 AAATAGTAGGAAAATAGTAGAAA
1 AAATAGCAGCAAAATAGTAGAAA
13677054 AA
1 AA
13677056 CAGTGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.60, C:0.04, G:0.19, T:0.17
Consensus pattern (23 bp):
AAATAGCAGCAAAATAGTAGAAA
Found at i:13679117 original size:43 final size:43
Alignment explanation
Indices: 13679030--13679136 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 43
13679020 TTTGTGTAAT
* * * * *
13679030 ACCATGTCTGGGACATTGGCATCAATATGAGATTACGTGTAAG
1 ACCATGTCTGGGACAGTGGCATCAAGATGAGATAACATGGAAG
* * * *
13679073 ACCCTGTCTGGGACAGTGGTATCGAGATGTGATAACATGGAAG
1 ACCATGTCTGGGACAGTGGCATCAAGATGAGATAACATGGAAG
* *
13679116 ACCATATCTGGGATA-TGGCAT
1 ACCATGTCTGGGACAGTGGCAT
13679137 TGAATGTGAT
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
42 5 0.10
43 46 0.90
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (43 bp):
ACCATGTCTGGGACAGTGGCATCAAGATGAGATAACATGGAAG
Found at i:13680055 original size:69 final size:69
Alignment explanation
Indices: 13679944--13680103 Score: 248
Period size: 69 Copynumber: 2.3 Consensus size: 69
13679934 CTATTTTTAC
* *
13679944 ATGTTATTAATGCTATCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAATCTATGCTAT
1 ATGTTATTAATGCTATCCAAATTAGTGCTTAAATGCTGTCCATGTTTGGTACAAATCAATGCTAT
*
13680009 CCGA
66 CCAA
* * *
13680013 ATGTTATTAATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATGTTTGGTACAAGTCAATGCTGT
1 ATGTTATTAATGCTATCCAAATTAGTGCTTAAATGCTGTCCATGTTTGGTACAAATCAATGCTAT
13680078 CCAA
66 CCAA
* *
13680082 ATGTTTTTACTGCTATCCAAAT
1 ATGTTATTAATGCTATCCAAAT
13680104 ATTTGTGAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 82 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (69 bp):
ATGTTATTAATGCTATCCAAATTAGTGCTTAAATGCTGTCCATGTTTGGTACAAATCAATGCTAT
CCAA
Found at i:13715919 original size:17 final size:18
Alignment explanation
Indices: 13715878--13715928 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
13715868 ACTAAACTTT
*
13715878 CTTATTAACATAAAATTA
1 CTTAATAACATAAAATTA
* *
13715896 CTAAATAACTTAAAA-TA
1 CTTAATAACATAAAATTA
13715913 CTTAATAATCATAAAA
1 CTTAATAA-CATAAAA
13715929 AATTTGGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
CTTAATAACATAAAATTA
Found at i:13717767 original size:27 final size:27
Alignment explanation
Indices: 13717674--13717774 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
13717664 CACGATAGAT
* ***
13717674 AAGGAATACCTTTGTGGTGCAATATGA
1 AAGGAATGCCTTTGTGGCAAAATATGA
* * * ** *
13717701 ATGGAATGCCCTTATGGCGCAATATGG
1 AAGGAATGCCTTTGTGGCAAAATATGA
*
13717728 AAGGAACGCCTTTGTGGCAAAATATGA
1 AAGGAATGCCTTTGTGGCAAAATATGA
*
13717755 AAGGAATGTCTTTGTGGCAA
1 AAGGAATGCCTTTGTGGCAA
13717775 CCCGGATGGG
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.27
Consensus pattern (27 bp):
AAGGAATGCCTTTGTGGCAAAATATGA
Found at i:13727662 original size:16 final size:17
Alignment explanation
Indices: 13727629--13727663 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
13727619 TATCTTTTAT
13727629 TAATTTTAAAATAGATTA
1 TAATTTTAAAATA-ATTA
13727647 TAATTTTAAAAT-ATTA
1 TAATTTTAAAATAATTA
13727663 T
1 T
13727664 TTTTTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
18 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TAATTTTAAAATAATTA
Found at i:13728797 original size:18 final size:19
Alignment explanation
Indices: 13728761--13728799 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13728751 AAATTTACAT
13728761 AATAAACCACTATAAACTA
1 AATAAACCACTATAAACTA
*
13728780 AATAAACCATTA-AAACTA
1 AATAAACCACTATAAACTA
13728798 AA
1 AA
13728800 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (19 bp):
AATAAACCACTATAAACTA
Found at i:13730371 original size:43 final size:43
Alignment explanation
Indices: 13730287--13730372 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
13730277 TAATAATTTT
* *
13730287 CAAACACCGGTGGTTCATCCACAACCTACTGGAAGTTTATCTG
1 CAAACACCGGTGGTTCATCCACAACCTACTAGAAGTCTATCTG
* * * * *
13730330 CAAACACTGGTGGTTCATCCATATCTTACTAGTAGTCTATCTG
1 CAAACACCGGTGGTTCATCCACAACCTACTAGAAGTCTATCTG
13730373 TAATTTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
CAAACACCGGTGGTTCATCCACAACCTACTAGAAGTCTATCTG
Found at i:13731859 original size:92 final size:90
Alignment explanation
Indices: 13731767--13731935 Score: 220
Period size: 91 Copynumber: 1.9 Consensus size: 90
13731757 GCTCTCAATT
* * *
13731767 TTTTTTC-AAAAAAAGCAATTAAG-TCTGCA-TTTTTTT-TTGCACTCAATTGGATACTTTAACT
1 TTTTTTCGAAAAAAA-CAATTAAGCCCT-CACTTTTTTTCTTGCACTCAATTGGACACTTGAACT
*
13731828 TTCAAAAATACATCAAAAGGGCCTTCAAA
64 ATC-AAAATACAT-AAAAGGGCCTTCAAA
* *
13731857 TTTTTTCGAAAAAAATAATTAAGCCCTTACTTTTTTTCTTGCACTCAATTGGACACTTGAACTAT
1 TTTTTTCGAAAAAAACAATTAAGCCCTCACTTTTTTTCTTGCACTCAATTGGACACTTGAACTAT
13731922 CAAAATACATAAAA
66 CAAAATACATAAAA
13731936 CAGGTCATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
90 19 0.28
91 25 0.36
92 25 0.36
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (90 bp):
TTTTTTCGAAAAAAACAATTAAGCCCTCACTTTTTTTCTTGCACTCAATTGGACACTTGAACTAT
CAAAATACATAAAAGGGCCTTCAAA
Found at i:13732078 original size:19 final size:17
Alignment explanation
Indices: 13732047--13732090 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
13732037 TAGCAAAAAA
13732047 AAAAATTAAAATTTTAAT
1 AAAAATTAAAA-TTTAAT
* *
13732065 AAAAATATATAATTTATT
1 AAAAAT-TAAAATTTAAT
13732083 AAAAATTA
1 AAAAATTA
13732091 GAAAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 17 0.74
19 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAATTAAAATTTAAT
Found at i:13732163 original size:29 final size:29
Alignment explanation
Indices: 13732054--13732165 Score: 84
Period size: 29 Copynumber: 3.8 Consensus size: 29
13732044 AAAAAAAATT
* *
13732054 AAAATTTTAATAAAAATATATAA-TTTATTA
1 AAAATTATAA-AAAAATATAAAATTTTA-TA
* ** *
13732084 AAAATTAGAAAAAAATTATAAGAATCGTA-G
1 AAAATTATAAAAAAA-TATAA-AATTTTATA
* * *
13732114 AAAATTATAAATAATTGTAAAATTTTATA
1 AAAATTATAAAAAAATATAAAATTTTATA
*
13732143 AAAATCATAAAAAAATATAAAAT
1 AAAATTATAAAAAAATATAAAAT
13732166 GCATCAGTAA
Statistics
Matches: 61, Mismatches: 17, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
28 5 0.08
29 28 0.46
30 24 0.39
31 2 0.03
32 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAATTATAAAAAAATATAAAATTTTATA
Found at i:13732449 original size:85 final size:83
Alignment explanation
Indices: 13732265--13732473 Score: 240
Period size: 85 Copynumber: 2.5 Consensus size: 83
13732255 GTGATTGATA
** * ***
13732265 CATTTTGGTAGTTCAAATACCCAATTGAGTGCAAAAAAAAGGGGCTTAATTGTTTTTTTTTTAAG
1 CATTTTGAAAGTTCAAATACCCAATTGAGTGC-AAAAAAAGGGGCTTAATTGTTGTTTTGAAAAG
* *
13732330 TTTGAGGGCCTTTTTTATG
65 TTTAAGAGCCTTTTTTATG
* *
13732349 TATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAGGGGCTTAATTGCTTGTTTTGAAAAT
1 CATTTTGAAAGTTCAAATACCCAATTGAGTGCAAAAAAAGGGGCTTAATTG-TTGTTTTGAAAA-
*
13732414 TTTTAAGAGCCTTTTTTATG
64 GTTTAAGAGCCTTTTTTATG
* * *
13732434 CATTTT-AAACTTTCAATTACCCAATTAAGTGCCAAAAAAA
1 CATTTTGAAA-GTTCAAATACCCAATTGAGTG-CAAAAAAA
13732474 AGTAGAGACT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
83 19 0.18
84 39 0.37
85 40 0.38
86 8 0.08
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (83 bp):
CATTTTGAAAGTTCAAATACCCAATTGAGTGCAAAAAAAGGGGCTTAATTGTTGTTTTGAAAAGT
TTAAGAGCCTTTTTTATG
Found at i:13733211 original size:5 final size:5
Alignment explanation
Indices: 13733201--13733232 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
13733191 TTTTCTAATT
13733201 TTCTA TTCTA TTCTA TTCTA TTCTA TTCTA TT
1 TTCTA TTCTA TTCTA TTCTA TTCTA TTCTA TT
13733233 TATATATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (5 bp):
TTCTA
Found at i:13737502 original size:41 final size:41
Alignment explanation
Indices: 13737457--13737642 Score: 291
Period size: 41 Copynumber: 4.5 Consensus size: 41
13737447 GACTTTAAGT
* * *
13737457 CTAGCAGGCTAAGTGTCGGTGAGCTTAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
13737498 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
13737539 CTAGTAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
13737580 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
13737621 CTAACAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
13737643 ATATGTTAAA
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:13739923 original size:46 final size:46
Alignment explanation
Indices: 13739823--13740148 Score: 378
Period size: 46 Copynumber: 7.6 Consensus size: 46
13739813 TACATATGAT
*
13739823 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
13739866 CACTTATCACTTTGTCACTTGATCAGATAAGGGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
13739912 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
13739958 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
13739994 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
13740040 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
13740076 CACTTATCACTTTTTCACTTGATCAGATCAA-TGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGAT-AAGTGTAGCTAAGGCTAC
13740122 CACTTATCAC-TTGATCACTTGATCAGA
1 CACTTATCACTTTG-TCACTTGATCAGA
13740149 AGTACTCAAA
Statistics
Matches: 247, Mismatches: 12, Indels: 45
0.81 0.04 0.15
Matches are distributed among these distances:
36 55 0.22
37 2 0.01
38 5 0.02
39 1 0.00
40 4 0.02
41 4 0.02
42 4 0.02
43 11 0.04
44 10 0.04
45 21 0.09
46 130 0.53
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:13739999 original size:36 final size:36
Alignment explanation
Indices: 13739958--13740103 Score: 166
Period size: 36 Copynumber: 3.8 Consensus size: 36
13739948 CTAAGGCTAA
13739958 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
13739994 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
13740036 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
13740076 CACTTATCACTTTTTCACTTGATCAGAT
1 CACTTATCACTTTGTCACTTGATCAGAT
13740104 CAATGTAGCT
Statistics
Matches: 94, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
36 55 0.59
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.30
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:13740049 original size:82 final size:82
Alignment explanation
Indices: 13739912--13740148 Score: 388
Period size: 82 Copynumber: 2.9 Consensus size: 82
13739902 CTAAGGCTAC
* * *
13739912 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
13739977 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
*
13739994 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
13740059 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
*
13740076 CACTTATCACTTTTTCACTTGATCAGATCAA-TGTAGCTAATGCTACCACTTATCAC-TTGATCA
1 CACTTATCACTTTTTCACTTGATCAGAT-AAGTGTAGCTAAAGCTACCACTTATCACTTTG-TCA
13740139 CTTGATCAGA
64 CTTGATCAGA
13740149 AGTACTCAAA
Statistics
Matches: 146, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
81 3 0.02
82 141 0.97
83 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTATAG
Found at i:13740111 original size:36 final size:36
Alignment explanation
Indices: 13740040--13740112 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
13740030 CTAAAGCTAC
*
13740040 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
13740076 CACTTATCACTTTTTCACTTGATCAGATCAA-TGTAG
1 CACTTATCACTTTGTCACTTGATCAGAT-AAGTGTAG
13740112 C
1 C
13740113 TAATGCTACC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 32 0.94
37 2 0.06
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:13740126 original size:128 final size:131
Alignment explanation
Indices: 13739823--13740148 Score: 385
Period size: 128 Copynumber: 2.5 Consensus size: 131
13739813 TACATATGAT
* *
13739823 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAA-TGTAGCTA-GCTACCACTTATCACTTTATCACTT
*
13739886 GATCAGATAAGGGTAGCTAAGGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTA
64 GATCAGATAAGGGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAG-GTAGCTA
13739951 AGGCTAA
128 AGG---A
*
13739958 CACTTATCACTTTGTCACTTGATCAGATAA-GTA--TAG----CACTTATCACTTTTTCACTTGA
1 CACTTATCACTTTGTCACTTGATCAGATAATGTAGCTAGCTACCACTTATCACTTTATCACTTGA
* * *
13740016 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAA-GT-G-T-A-G
66 TCAGATAAGGGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAGG
13740076 -
131 A
* *
13740076 CACTTATCACTTTTTCACTTGATCAGATCAATGTAGCTAATGCTACCACTTATCACTTGATCACT
1 CACTTATCACTTTGTCACTTGATCAGAT-AATGTAGCT-A-GCTACCACTTATCACTTTATCACT
13740141 TGATCAGA
63 TGATCAGA
13740149 AGTACTCAAA
Statistics
Matches: 170, Mismatches: 9, Indels: 31
0.81 0.04 0.15
Matches are distributed among these distances:
118 27 0.16
119 2 0.01
120 3 0.02
122 2 0.01
123 2 0.01
124 2 0.01
125 1 0.01
126 2 0.01
128 96 0.56
132 1 0.01
133 2 0.01
135 13 0.08
136 5 0.03
137 12 0.07
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (131 bp):
CACTTATCACTTTGTCACTTGATCAGATAATGTAGCTAGCTACCACTTATCACTTTATCACTTGA
TCAGATAAGGGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAGG
A
Found at i:13746585 original size:64 final size:64
Alignment explanation
Indices: 13746516--13746672 Score: 178
Period size: 63 Copynumber: 2.5 Consensus size: 64
13746506 TTCTATAAGC
* * *
13746516 AAAAATATAATGGTATGAATTGTATA-A-ATATGTTAGCCGAATGTATGTTTTGA-ATTTATAAG
1 AAAAATAAAAT-GTATGAATTGTATATATATATGTTAGCC-AATGTAT-ATTAGAGATTTATAAG
13746578 TT
63 TT
* *
13746580 AAAAATAAAATGTATGAATTGTATATATATATGTTAGTCAATGTATATTAGAGTTTTATAAGTT
1 AAAAATAAAATGTATGAATTGTATATATATATGTTAGCCAATGTATATTAGAGATTTATAAGTT
* * * *
13746644 -AAAATAAATTGCATAAATTATATATATAT
1 AAAAATAAAATGTATGAATTGTATATATAT
13746673 TTTTCCGAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
63 43 0.53
64 28 0.35
65 10 0.12
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.41
Consensus pattern (64 bp):
AAAAATAAAATGTATGAATTGTATATATATATGTTAGCCAATGTATATTAGAGATTTATAAGTT
Found at i:13746595 original size:63 final size:65
Alignment explanation
Indices: 13746516--13746651 Score: 174
Period size: 64 Copynumber: 2.1 Consensus size: 65
13746506 TTCTATAAGC
* * *
13746516 AAAAATATAATGGTATGAATTGTATA-A-ATATGTTAGCCGAATGTATGTTTTGA-ATTTATAAG
1 AAAAATAAAATGGTATGAATTGTATATATATATGTTAGCC-AATGTAT-ATTAGAGATTTATAAG
13746578 TT
64 TT
* *
13746580 AAAAATAAAAT-GTATGAATTGTATATATATATGTTAGTCAATGTATATTAGAGTTTTATAAGTT
1 AAAAATAAAATGGTATGAATTGTATATATATATGTTAGCCAATGTATATTAGAGATTTATAAGTT
13746644 -AAAATAAA
1 AAAAATAAA
13746652 TTGCATAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
63 26 0.41
64 28 0.44
65 10 0.16
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.40
Consensus pattern (65 bp):
AAAAATAAAATGGTATGAATTGTATATATATATGTTAGCCAATGTATATTAGAGATTTATAAGTT
Found at i:13747360 original size:41 final size:41
Alignment explanation
Indices: 13747315--13747500 Score: 300
Period size: 41 Copynumber: 4.5 Consensus size: 41
13747305 GACTTTAAGT
* *
13747315 CTAGCAGGCTAGGTGCCGGTGAGCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
**
13747356 CTAGCAGGCTAAGTGCTAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
13747397 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
13747438 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
13747479 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
13747501 ATATGTTAAA
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:13756828 original size:26 final size:25
Alignment explanation
Indices: 13756783--13756855 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
13756773 TCTCATCCCT
**
13756783 ATTTTACCCCCAGTAAAATTTTAACG
1 ATTTTACCCCTGGT-AAATTTTAACG
*
13756809 ATTTTACCCCTGGTATAATTTTGACG
1 ATTTTACCCCTGGTA-AATTTTAACG
* *
13756835 ATTTTGCCTCTGGTAAATTTT
1 ATTTTACCCCTGGTAAATTTT
13756856 CGAGAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 7 0.17
26 34 0.83
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.42
Consensus pattern (25 bp):
ATTTTACCCCTGGTAAATTTTAACG
Found at i:13761421 original size:73 final size:73
Alignment explanation
Indices: 13761337--13761531 Score: 300
Period size: 73 Copynumber: 2.6 Consensus size: 73
13761327 TTTTTTTATT
* * *
13761337 TTTTCATTTTTGGGTAAATTGTAAATAATTATATTATTGATGTAAAATACAATAGAATACAGTAC
1 TTTTCATTTTTGGGTAAATTGTAAATAAATATATTATTGATGTAAAATACAATAAAATACAATAC
13761402 AAACAATA
66 AAACAATA
* *
13761410 TTTTCAGTTTTGGGTAAATTGTAACTAAATATATTATTGATGTAAAAATACAATAAAATACAATA
1 TTTTCATTTTTGGGTAAATTGTAAATAAATATATTATTGATGT-AAAATACAATAAAATACAATA
13761475 CAAACAATA
65 CAAACAATA
** *
13761484 TTTTCATTTTTTTTGTAAATTGTAAATAAGTATATTATTGATGTAAAA
1 TTTTCA-TTTTTGGGTAAATTGTAAATAAATATATTATTGATGTAAAA
13761532 AATAAACAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
73 40 0.36
74 38 0.35
75 32 0.29
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (73 bp):
TTTTCATTTTTGGGTAAATTGTAAATAAATATATTATTGATGTAAAATACAATAAAATACAATAC
AAACAATA
Found at i:13761546 original size:54 final size:56
Alignment explanation
Indices: 13761488--13761597 Score: 143
Period size: 54 Copynumber: 2.0 Consensus size: 56
13761478 ACAATATTTT
* * * * * *
13761488 CATTTTTTTTGTAAATTGTAAATAAGTATATTATTGATGTAAAAAA-TAA-ACAAA
1 CATTTATTTTATAAAATGTAAATAAGTAAATTATGGATGAAAAAAATTAATACAAA
*
13761542 CATTTATTTTATAAAATGTGAATAAGTAAATTATGGATGAAAAAAATTAATACAAA
1 CATTTATTTTATAAAATGTAAATAAGTAAATTATGGATGAAAAAAATTAATACAAA
13761598 TTAAATGATG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 39 0.83
55 3 0.06
56 5 0.11
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (56 bp):
CATTTATTTTATAAAATGTAAATAAGTAAATTATGGATGAAAAAAATTAATACAAA
Found at i:13763598 original size:163 final size:163
Alignment explanation
Indices: 13763328--13763658 Score: 646
Period size: 163 Copynumber: 2.0 Consensus size: 163
13763318 CCCAAAGGAA
13763328 TACATTACACTATATGATTGAAATATCTAATGTGCTCCTGCAATAGCAATATTGTGAAAATGACT
1 TACATTACACTATATGATTGAAATATCTAATGTGCTCCTGCAATAGCAATATTGTGAAAATGACT
*
13763393 TTAATGGTATTTTTCGAACGATCTCATACTTTCTAGTGGCTAAGCTAAATAATATGTTACTAATG
66 TTAATGGTATTTTTCGAACGATCTCATACTTTCTAGTGGCTAAGCAAAATAATATGTTACTAATG
13763458 AAAAACTATGAAATTCTTCCCACTAGTTTTGCT
131 AAAAACTATGAAATTCTTCCCACTAGTTTTGCT
13763491 TACATTACACTATATGATTGAAATATCTAATGTGCTCCTGCAATAGCAATATTGTGAAAATGACT
1 TACATTACACTATATGATTGAAATATCTAATGTGCTCCTGCAATAGCAATATTGTGAAAATGACT
13763556 TTAATGGTATTTTTCGAACGATCTCATACTTTCTAGTGGCTAAGCAAAATAATATGTTACTAATG
66 TTAATGGTATTTTTCGAACGATCTCATACTTTCTAGTGGCTAAGCAAAATAATATGTTACTAATG
13763621 AAAAACTATGAAATTCTTCCCACTAGTTTTGCT
131 AAAAACTATGAAATTCTTCCCACTAGTTTTGCT
13763654 T-CATT
1 TACATT
13763659 CCCTGAAGTG
Statistics
Matches: 167, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
162 4 0.02
163 163 0.98
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (163 bp):
TACATTACACTATATGATTGAAATATCTAATGTGCTCCTGCAATAGCAATATTGTGAAAATGACT
TTAATGGTATTTTTCGAACGATCTCATACTTTCTAGTGGCTAAGCAAAATAATATGTTACTAATG
AAAAACTATGAAATTCTTCCCACTAGTTTTGCT
Found at i:13768106 original size:29 final size:30
Alignment explanation
Indices: 13768067--13768123 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
13768057 TAACAATTTG
* * *
13768067 ATAACGTGGGTGATCATAATATAATTTTTT
1 ATAACGTGGGTGATAAAAACATAATTTTTT
13768097 ATAAC-TGGGTGATAAAAACATAATTTT
1 ATAACGTGGGTGATAAAAACATAATTTT
13768124 AATTTTAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (30 bp):
ATAACGTGGGTGATAAAAACATAATTTTTT
Found at i:13772334 original size:54 final size:54
Alignment explanation
Indices: 13772270--13772380 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
13772260 AATCTTCATA
*
13772270 CATGATTGAAGATGTTCTAAACATTTCCCAAAGAGAAACAACCCAAGAATTTCC
1 CATGATTGAAGATGTTCTAAACATATCCCAAAGAGAAACAACCCAAGAATTTCC
13772324 CATGATTGAAGATGTTCTAAACATATCCCAAAGAGAAACAACCCAAGAATTTCC
1 CATGATTGAAGATGTTCTAAACATATCCCAAAGAGAAACAACCCAAGAATTTCC
13772378 CAT
1 CAT
13772381 TTAAAAGAGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (54 bp):
CATGATTGAAGATGTTCTAAACATATCCCAAAGAGAAACAACCCAAGAATTTCC
Found at i:13773883 original size:24 final size:25
Alignment explanation
Indices: 13773841--13773890 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
13773831 CCGAAAAATA
13773841 TTAAATATATATATATTTTTTATTT
1 TTAAATATATATATATTTTTTATTT
13773866 TTAAA-ATATA-ATAGTTTTTTATTT
1 TTAAATATATATATA-TTTTTTATTT
13773890 T
1 T
13773891 AAGTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 3 0.12
24 16 0.67
25 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTAAATATATATATATTTTTTATTT
Found at i:13774033 original size:17 final size:17
Alignment explanation
Indices: 13773987--13774026 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
13773977 TTTTGTTACA
*
13773987 ACAATTAATACAATTGAT
1 ACAATTAATA-ATTTGAT
13774005 ACAATTAATAATTTGAT
1 ACAATTAATAATTTGAT
13774022 A-AATT
1 ACAATT
13774027 TACTAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 7 0.33
18 10 0.48
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (17 bp):
ACAATTAATAATTTGAT
Found at i:13774108 original size:16 final size:16
Alignment explanation
Indices: 13774087--13774128 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
13774077 AATAATTTGA
*
13774087 TAATTTTATTAACAAT
1 TAATTTTAATAACAAT
*
13774103 TAATTTTAATAACGAT
1 TAATTTTAATAACAAT
*
13774119 TAGTTTTAAT
1 TAATTTTAAT
13774129 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:13793124 original size:11 final size:11
Alignment explanation
Indices: 13793108--13793134 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13793098 TGTTAATGAT
13793108 TTTTATTTTTA
1 TTTTATTTTTA
13793119 TTTTATTTTTA
1 TTTTATTTTTA
13793130 TTTTA
1 TTTTA
13793135 CTTTGAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:13793658 original size:29 final size:30
Alignment explanation
Indices: 13793603--13793678 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
13793593 AAGTTATTTG
* * *
13793603 AAAAGTAGAGAGACTAATTTCAAACAAA-T
1 AAAAGTAGAGGGACTAAATCCAAACAAATT
*
13793632 AAAAGTAGAGGGACTAAATCCACACAAATTT
1 AAAAGTAGAGGGACTAAATCCAAACAAA-TT
* *
13793663 ATAAGTACAGGGACTA
1 AAAAGTAGAGGGACTA
13793679 TCCTTAAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (30 bp):
AAAAGTAGAGGGACTAAATCCAAACAAATT
Found at i:13795708 original size:16 final size:16
Alignment explanation
Indices: 13795687--13795736 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
13795677 ATATTTTTTT
13795687 AAAATAATTAAATATA
1 AAAATAATTAAATATA
*
13795703 AAAATAA--AAATAAA
1 AAAATAATTAAATATA
13795717 AAAACTAATT-AATATA
1 AAAA-TAATTAAATATA
13795733 AAAA
1 AAAA
13795737 ATAAAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 10 0.34
15 3 0.10
16 16 0.55
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATAATTAAATATA
Found at i:13797112 original size:44 final size:42
Alignment explanation
Indices: 13797056--13797474 Score: 198
Period size: 44 Copynumber: 9.8 Consensus size: 42
13797046 TAGTGCTTCA
*
13797056 ATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAT-TT-G
* * **
13797100 ATCTGCTTCACTGCAACTTCA-GGAGGAT--GACTAG-ATGCG
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGTATTTG
* * * * *
13797139 ATCTG-TTCTCTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT--TGTATTTG
* * ** *
13797182 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-T-GTATTTG
* * *
13797226 ATCTGCTCCACTGCAACTTC-GAGGAGATAAGATTTGCCATCTTT
1 ATCTGCTCCACTGCAACTTCAG-GGAGATAAGACTTG-TAT-TTG
* * *
13797270 AGTCTGC-CTCACTGCAACTTCA-AGAGGATAAGACTT-TCTTCCTT
1 A-TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGTATT--TG
* * * *
13797314 AGTCTGCTCCACTACAACTTCAGGAAGATAAGACTAG-ATGTG
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTG
* * * * *
13797356 ATCTACT-CTCTGCAAATTCAGAGAGATAAGA-TCTGTTATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TG-TA-TTTG
* * * ** *
13797399 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTGTATTTG
* * *
13797443 ATCTGCTCCGCTGCATCTTCAAGGAGATAAGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA
13797475 TTTTCCATTG
Statistics
Matches: 289, Mismatches: 55, Indels: 62
0.71 0.14 0.15
Matches are distributed among these distances:
38 17 0.06
39 9 0.03
40 22 0.08
41 9 0.03
42 11 0.04
43 23 0.08
44 167 0.58
45 28 0.10
46 2 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (42 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTG
Found at i:13810063 original size:22 final size:23
Alignment explanation
Indices: 13810038--13810087 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
13810028 TAAAGTATAT
*
13810038 AAAAAATAT-TTACAT-TTTAAAA
1 AAAAAATATGTT-CATATATAAAA
13810060 AAAAAATATGTTCATATATAAAA
1 AAAAAATATGTTCATATATAAAA
13810083 AAAAA
1 AAAAA
13810088 TTAGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAAAATATGTTCATATATAAAA
Found at i:13810276 original size:23 final size:25
Alignment explanation
Indices: 13810249--13810296 Score: 82
Period size: 23 Copynumber: 2.0 Consensus size: 25
13810239 TATATTTTTT
13810249 TAAAAAAA-TAATTAA-ATAAAAAA
1 TAAAAAAACTAATTAATATAAAAAA
13810272 TAAAAAAACTAATTAATATAAAAAA
1 TAAAAAAACTAATTAATATAAAAAA
13810297 AATAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.35
24 7 0.30
25 8 0.35
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (25 bp):
TAAAAAAACTAATTAATATAAAAAA
Found at i:13817643 original size:102 final size:101
Alignment explanation
Indices: 13817471--13817683 Score: 300
Period size: 102 Copynumber: 2.1 Consensus size: 101
13817461 GAATTATATA
* * * *
13817471 TATTATTTAAGAATGTATTGGCCCTTTTGACGCGAAGTGGAATGATAACTCAAACACCTCACCCC
1 TATTGTTTAAGAATGTATTGGCCCTTTTGACGCGAAGTGGAATGACAACCCAAACACCCCACCCC
** *
13817536 AGTTACTTAGCCCAACACACTCTTAATTTATTATTTT
66 AGTTACCCAGCCCAACACACTCCTAATTTATT-TTTT
* * *
13817573 TATTGTTTAAGAATGTATTGGCCCTTTTGACTCGAAGTGGAATGACAACCCAAGCACCCCATCCC
1 TATTGTTTAAGAATGTATTGGCCCTTTTGACGCGAAGTGGAATGACAACCCAAACACCCCACCCC
* *
13817638 GGTTACCCAGCCCAACACACTCCTAATTTGTTTTTT
66 AGTTACCCAGCCCAACACACTCCTAATTTATTTTTT
*
13817674 TTTTGTTTAA
1 TATTGTTTAA
13817684 TTTTAGTTAG
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
101 13 0.13
102 85 0.87
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (101 bp):
TATTGTTTAAGAATGTATTGGCCCTTTTGACGCGAAGTGGAATGACAACCCAAACACCCCACCCC
AGTTACCCAGCCCAACACACTCCTAATTTATTTTTT
Found at i:13824702 original size:18 final size:18
Alignment explanation
Indices: 13824679--13824719 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
13824669 GGTTTGATTA
* * *
13824679 AAAAATTATCAAAATTTT
1 AAAAATAATAAAAATATT
13824697 AAAAATAATAAAAATATT
1 AAAAATAATAAAAATATT
13824715 AAAAA
1 AAAAA
13824720 AATCTAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATAATAAAAATATT
Found at i:13837402 original size:20 final size:19
Alignment explanation
Indices: 13837379--13837484 Score: 92
Period size: 19 Copynumber: 5.6 Consensus size: 19
13837369 AAAAAAATTC
13837379 AAATATTAAAAATTAG-AAAA
1 AAATA-TAAAAA-TAGTAAAA
13837399 AAATATAAAAATAGTAAAA
1 AAATATAAAAATAGTAAAA
* *
13837418 AAATAAAAAAAATTGTAAAA
1 AAAT-ATAAAAATAGTAAAA
***
13837438 TTTTATAAAAATAGTAAAA
1 AAATATAAAAATAGTAAAA
* * *
13837457 AATTAT-AAAATA-TATAG
1 AAATATAAAAATAGTAAAA
13837474 AAATATAAAAA
1 AAATATAAAAA
13837485 AAATTATAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
17 8 0.11
18 13 0.18
19 31 0.44
20 19 0.27
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
AAATATAAAAATAGTAAAA
Found at i:13837436 original size:29 final size:29
Alignment explanation
Indices: 13837379--13837496 Score: 111
Period size: 29 Copynumber: 4.1 Consensus size: 29
13837369 AAAAAAATTC
*
13837379 AAATAT-TA-AAAATTAGAAAAAAA-TATA
1 AAATATATAGAAAAATA-AAAAAAATTATA
* *
13837406 AAA-ATAGTAAAAAAATAAAAAAAATTGTA
1 AAATATA-TAGAAAAATAAAAAAAATTATA
* * *
13837435 AAAT-TTTATAAAAATAGTAAAAAATTATA
1 AAATATATAGAAAAATA-AAAAAAATTATA
*
13837464 AAATATATAGAAATATAAAAAAAATTATA
1 AAATATATAGAAAAATAAAAAAAATTATA
13837493 AAAT
1 AAAT
13837497 TTTATGAAGT
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
26 2 0.03
27 3 0.04
28 18 0.24
29 42 0.57
30 9 0.12
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (29 bp):
AAATATATAGAAAAATAAAAAAAATTATA
Found at i:13837448 original size:58 final size:58
Alignment explanation
Indices: 13837385--13837501 Score: 166
Period size: 58 Copynumber: 2.0 Consensus size: 58
13837375 ATTCAAATAT
*
13837385 TAAAAATTAG-AAAAAAATATAAAA-ATAGTAAAAAAATAAAAAAAATTGTAAAATTTTA
1 TAAAAA-TAGTAAAAAAATATAAAATATA-TAAAAAAATAAAAAAAATTATAAAATTTTA
* * *
13837443 TAAAAATAGTAAAAAATTATAAAATATATAGAAATATAAAAAAAATTATAAAATTTTA
1 TAAAAATAGTAAAAAAATATAAAATATATAAAAAAATAAAAAAAATTATAAAATTTTA
13837501 T
1 T
13837502 GAAGTCGTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
57 3 0.06
58 47 0.89
59 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (58 bp):
TAAAAATAGTAAAAAAATATAAAATATATAAAAAAATAAAAAAAATTATAAAATTTTA
Found at i:13837495 original size:11 final size:10
Alignment explanation
Indices: 13837379--13837495 Score: 57
Period size: 10 Copynumber: 12.0 Consensus size: 10
13837369 AAAAAAATTC
*
13837379 AAATATTAAA
1 AAATATAAAA
* *
13837389 AATTAGAAAA
1 AAATATAAAA
13837399 AAATAT--AA
1 AAATATAAAA
13837407 AAATAGTAAAA
1 AAATA-TAAAA
13837418 AAATA-AAAA
1 AAATATAAAA
**
13837427 AAAT-TGTAA
1 AAATATAAAA
* * *
13837436 AATTTTATAA
1 AAATATAAAA
13837446 AAATAGTAAAA
1 AAATA-TAAAA
*
13837457 AATTAT-AAA
1 AAATATAAAA
* *
13837466 ATATATAGAA
1 AAATATAAAA
*
13837476 ATATA-AAAA
1 AAATATAAAA
13837485 AAATTATAAAA
1 AAA-TATAAAA
13837496 TTTTATGAAG
Statistics
Matches: 80, Mismatches: 18, Indels: 17
0.70 0.16 0.15
Matches are distributed among these distances:
8 7 0.09
9 26 0.32
10 28 0.35
11 19 0.24
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.26
Consensus pattern (10 bp):
AAATATAAAA
Found at i:13837752 original size:10 final size:10
Alignment explanation
Indices: 13837699--13837752 Score: 67
Period size: 10 Copynumber: 5.6 Consensus size: 10
13837689 TTTTTTTATG
13837699 ATTTTTATAA
1 ATTTTTATAA
* *
13837709 AATTTTA-CA
1 ATTTTTATAA
13837718 ATTTTTATAA
1 ATTTTTATAA
13837728 ATTTTT-TAA
1 ATTTTTATAA
*
13837737 TTTTTTATAA
1 ATTTTTATAA
13837747 ATTTTT
1 ATTTTT
13837753 TTTCTAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 15 0.42
10 21 0.58
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:13837752 original size:19 final size:20
Alignment explanation
Indices: 13837699--13837753 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
13837689 TTTTTTTATG
*
13837699 ATTTTTATAAA-ATTTTACA
1 ATTTTTATAAATTTTTTACA
13837718 ATTTTTATAAATTTTTTA-A
1 ATTTTTATAAATTTTTTACA
*
13837737 TTTTTTATAAATTTTTT
1 ATTTTTATAAATTTTTT
13837754 TTCTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 28 0.85
20 5 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTTATAAATTTTTTACA
Found at i:13837873 original size:87 final size:89
Alignment explanation
Indices: 13837779--13837948 Score: 238
Period size: 88 Copynumber: 1.9 Consensus size: 89
13837769 AGTGCATGGA
* *
13837779 CTTAATTGCTT-TTTTGAA-AATTTTTGAGGGTATTTTTTTTATGCATTTTGAAAGTTCAAATAC
1 CTTAATTGCTTCTTTTGAAGAA-GTTTGAGGGCATTTTTTTTATGCATTTTGAAAGTTCAAATAC
13837842 CCAATTGAGTG-AAAAAAATAGGGG
65 CCAATTGAGTGCAAAAAAATAGGGG
* * * * *
13837866 CTTAATTGCTTCTTTTGAAGAAGTTTGAGGGCCTTTTTTTTATGTATTTTGAAAGTTCAAGTTCT
1 CTTAATTGCTTCTTTTGAAGAAGTTTGAGGGCATTTTTTTTATGCATTTTGAAAGTTCAAATACC
*
13837931 TAATTGAGTGCAAAAAAA
66 CAATTGAGTGCAAAAAAA
13837949 AAAAAGAAGT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
87 11 0.15
88 52 0.72
89 9 0.12
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (89 bp):
CTTAATTGCTTCTTTTGAAGAAGTTTGAGGGCATTTTTTTTATGCATTTTGAAAGTTCAAATACC
CAATTGAGTGCAAAAAAATAGGGG
Found at i:13838673 original size:13 final size:11
Alignment explanation
Indices: 13838637--13838667 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13838627 CCGCCTGTAT
13838637 TAATTTTTATA
1 TAATTTTTATA
*
13838648 TTATTTTTATA
1 TAATTTTTATA
13838659 TAATTTTTA
1 TAATTTTTA
13838668 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:13838823 original size:30 final size:30
Alignment explanation
Indices: 13838789--13838851 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
13838779 ACTTAACAAG
13838789 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
13838819 CAAATGGCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
13838849 CAA
1 CAA
13838852 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:13838906 original size:22 final size:22
Alignment explanation
Indices: 13838881--13838923 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13838871 TATCCAAACA
*
13838881 ATAACAATAAAATAGTAGCAAT
1 ATAACAATAAAATAATAGCAAT
* *
13838903 ATAATAGTAAAATAATAGCAA
1 ATAACAATAAAATAATAGCAA
13838924 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.23
Consensus pattern (22 bp):
ATAACAATAAAATAATAGCAAT
Found at i:13838919 original size:11 final size:11
Alignment explanation
Indices: 13838889--13838927 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13838879 CAATAACAAT
*
13838889 AAAATAGTAGC
1 AAAATAATAGC
* *
13838900 AATATAATAGT
1 AAAATAATAGC
13838911 AAAATAATAGC
1 AAAATAATAGC
13838922 AAAATA
1 AAAATA
13838928 GGGAGAAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:13844829 original size:19 final size:19
Alignment explanation
Indices: 13844755--13844832 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
13844745 TAAAAAACTT
*
13844755 ATAAAATTATTTTAAAAATC
1 ATAAAATT-TTATAAAAATC
* * *
13844775 ATTAAATTTTATAATAATT
1 ATAAAATTTTATAAAAATC
* * *
13844794 ATAAAAAATTAATTAAAAACC
1 AT-AAAATTTTA-TAAAAATC
13844815 ATAAAATTTTATAAAAAT
1 ATAAAATTTTATAAAAAT
13844833 AATTTATTAC
Statistics
Matches: 43, Mismatches: 13, Indels: 5
0.70 0.21 0.08
Matches are distributed among these distances:
19 16 0.37
20 20 0.47
21 7 0.16
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAATTTTATAAAAATC
Found at i:13846379 original size:15 final size:15
Alignment explanation
Indices: 13846359--13846397 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
13846349 TATTTATTCC
*
13846359 TAGGGTTTTTTG-GTT
1 TAGGGTTTTTAGAG-T
13846374 TAGGGTTTTTAGAGT
1 TAGGGTTTTTAGAGT
13846389 TAGGGTTTT
1 TAGGGTTTT
13846398 GTTAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (15 bp):
TAGGGTTTTTAGAGT
Found at i:13846545 original size:34 final size:33
Alignment explanation
Indices: 13846461--13846569 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 33
13846451 TTTAGTGTTC
* *
13846461 TTTTTTAAAAATTAATTAAATTAGGGTTTAG-G
1 TTTTTAAAAAATTAATTAAATTAAGGTTTAGTG
* *
13846493 ATTTTAAATAAATAAATTAAATTAAGGTTTAGTG
1 TTTTTAAA-AAATTAATTAAATTAAGGTTTAGTG
*
13846527 TTTTTAAGAAAATTAATTAAATT-AGAGTTTAGTT
1 TTTTTAA-AAAATTAATTAAATTAAG-GTTTAGTG
13846561 TTTTTAAAA
1 TTTTTAAAA
13846570 TAATATCGTG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
32 6 0.09
33 25 0.38
34 34 0.52
35 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAAGGTTTAGTG
Found at i:13846790 original size:126 final size:126
Alignment explanation
Indices: 13846629--13846897 Score: 387
Period size: 126 Copynumber: 2.1 Consensus size: 126
13846619 GGATTTTGTT
* * * * *
13846629 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAAATTTGAGAAGACGGTTCTAAACAAATAGTGTGAAAA
* * * * * *
13846694 ATGCTTCAAGTAGGATGCACTATCAGCAAAATT-ATTGAAAAAAACTTCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTATCAGAAAAATTGA-TGAAAAAAACTCCCACGTCGACACTC
*
13846755 TTTTTCTACAGTAGTTCCTAAAAAAATAAATTTGAGAAGACGTTTCTAAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAAATTTGAGAAGACGGTTCTAAACAAATAGTGTGAAAA
* * *
13846820 ACGCTTCAAGCAGGATGCACTGTTAGAAAAATTGATGAAAAAAGCTCCCACGTCGACACTC
66 ACGCTTCAAGCAGGATGCACTATCAGAAAAATTGATGAAAAAAACTCCCACGTCGACACTC
13846881 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
13846898 ATGTTTGGCC
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
126 126 0.99
127 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAAATTTGAGAAGACGGTTCTAAACAAATAGTGTGAAAA
ACGCTTCAAGCAGGATGCACTATCAGAAAAATTGATGAAAAAAACTCCCACGTCGACACTC
Found at i:13849808 original size:20 final size:20
Alignment explanation
Indices: 13849783--13849823 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13849773 CTTTCAGCGG
*
13849783 GGGTTGTGGTTGCCCCGGTT
1 GGGTTGTGATTGCCCCGGTT
*
13849803 GGGTTGTGATTGCTCCGGTT
1 GGGTTGTGATTGCCCCGGTT
13849823 G
1 G
13849824 TTGATGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.02, C:0.17, G:0.44, T:0.37
Consensus pattern (20 bp):
GGGTTGTGATTGCCCCGGTT
Found at i:13851897 original size:30 final size:30
Alignment explanation
Indices: 13851863--13851927 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
13851853 ATTAATTAAA
*
13851863 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAAATT
* *
13851893 GAGAGCTTTGAGAAATTTAGGGATAAAATT
1 GAGAGCTTTGAGAAATTTAAGGAGAAAATT
13851923 GAGAG
1 GAGAG
13851928 TTTTTTTGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.28
Consensus pattern (30 bp):
GAGAGCTTTGAGAAATTTAAGGAGAAAATT
Found at i:13852785 original size:33 final size:33
Alignment explanation
Indices: 13852748--13852812 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
13852738 TTACAAATAA
13852748 AGACTCATAGCACTAGAAAAGTACTAGCAATCT
1 AGACTCATAGCACTAGAAAAGTACTAGCAATCT
*
13852781 AGACTCATAGCACTAGAAAAGTACTATCAATC
1 AGACTCATAGCACTAGAAAAGTACTAGCAATC
13852813 CTTTCAACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.22
Consensus pattern (33 bp):
AGACTCATAGCACTAGAAAAGTACTAGCAATCT
Found at i:13869753 original size:31 final size:31
Alignment explanation
Indices: 13869716--13869777 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
13869706 CTTAACGACC
13869716 TAGTGATTTAAATAAAAATTTTCGAACAGTT
1 TAGTGATTTAAATAAAAATTTTCGAACAGTT
* *
13869747 TAGTGATTTAAATGAAAATTTTCGAATAGTT
1 TAGTGATTTAAATAAAAATTTTCGAACAGTT
13869778 CAATAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (31 bp):
TAGTGATTTAAATAAAAATTTTCGAACAGTT
Found at i:13869861 original size:3 final size:3
Alignment explanation
Indices: 13869853--13869877 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13869843 AACTTAGGTG
13869853 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
13869878 TTCATTCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:13871077 original size:10 final size:10
Alignment explanation
Indices: 13871064--13871105 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
13871054 GTTTTAGAAA
*
13871064 TTTTATTAAT
1 TTTTAATAAT
13871074 TTTTAATAAGT
1 TTTTAATAA-T
13871085 TTTT-ATAAT
1 TTTTAATAAT
*
13871094 TATTAATAAT
1 TTTTAATAAT
13871104 TT
1 TT
13871106 AAATAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 4 0.15
10 18 0.67
11 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:13871093 original size:20 final size:20
Alignment explanation
Indices: 13871064--13871140 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
13871054 GTTTTAGAAA
13871064 TTTTATTAATTTTTAATAAGT
1 TTTTA-TAATTTTTAATAAGT
*
13871085 TTTTATAATTATTAATAA-T
1 TTTTATAATTTTTAATAAGT
** * *
13871104 TTAAATAA-ATTTATATGAGT
1 TTTTATAATTTTTA-ATAAGT
*
13871124 TCTTAT-ATTTTTAATAA
1 TTTTATAATTTTTAATAA
13871141 TTATTATTTA
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
18 3 0.07
19 14 0.33
20 20 0.48
21 5 0.12
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTTATAATTTTTAATAAGT
Found at i:13871139 original size:29 final size:29
Alignment explanation
Indices: 13871072--13871140 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 29
13871062 AATTTTATTA
* *
13871072 ATTTTTAATAAGTTTTTATAATTATTAAT
1 ATTTTTAATAAATTTATATAATTATTAAT
* * * *
13871101 AATTTAAATAAATTTATATGAGTTCTT-AT
1 ATTTTTAATAAATTTATAT-AATTATTAAT
13871130 ATTTTTAATAA
1 ATTTTTAATAA
13871141 TTATTATTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (29 bp):
ATTTTTAATAAATTTATATAATTATTAAT
Found at i:13871243 original size:14 final size:14
Alignment explanation
Indices: 13871224--13871270 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
13871214 TGGAAGTCGT
*
13871224 AATTTGAAAAATAA
1 AATTTGAAAAATTA
*
13871238 AATTTGAAAACTTA
1 AATTTGAAAAATTA
13871252 AA-TTG-AAAATTA
1 AATTTGAAAAATTA
13871264 AATTTGA
1 AATTTGA
13871271 TTTGTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 8 0.29
13 6 0.21
14 14 0.50
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (14 bp):
AATTTGAAAAATTA
Found at i:13871270 original size:13 final size:13
Alignment explanation
Indices: 13871224--13871270 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
13871214 TGGAAGTCGT
*
13871224 AATTTGAAAAATAA
1 AATTTG-AAAATTA
13871238 AATTTGAAAACTTA
1 AATTTGAAAA-TTA
13871252 AA-TTGAAAATTA
1 AATTTGAAAATTA
13871264 AATTTGA
1 AATTTGA
13871271 TTTGTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 5 0.17
13 15 0.50
14 10 0.33
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (13 bp):
AATTTGAAAATTA
Found at i:13871741 original size:73 final size:73
Alignment explanation
Indices: 13871567--13871743 Score: 214
Period size: 73 Copynumber: 2.4 Consensus size: 73
13871557 GGAATCTCAC
* * * * * * *
13871567 TGTTTATTTTTATCTTTGCTTGGCAGGAAATTTCACTGTTCATTCTTGGTTGCTTTTGGTAGAGA
1 TGTTTATTTTTGTCTTTGCTTTGCAGGGAATTTCACTATTCATTATTGATTGCTTTTGGCAGAGA
13871632 ATCACTTA
66 ATCACTTA
* * * **
13871640 TGTTCATTTATGTCTTTGCTCTATAGGGAATTTCACTATTCATTATTGATTGCTTTTGGCAG-GA
1 TGTTTATTTTTGTCTTTGCTTTGCAGGGAATTTCACTATTCATTATTGATTGCTTTTGGCAGAG-
13871704 AATCACTCT-
65 AATCACT-TA
13871713 TGTTTATTTTTGTCTTTGCTTTGCAGGGAAT
1 TGTTTATTTTTGTCTTTGCTTTGCAGGGAAT
13871744 CTCCCATGTT
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
72 1 0.01
73 83 0.98
74 1 0.01
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.48
Consensus pattern (73 bp):
TGTTTATTTTTGTCTTTGCTTTGCAGGGAATTTCACTATTCATTATTGATTGCTTTTGGCAGAGA
ATCACTTA
Found at i:13876813 original size:14 final size:16
Alignment explanation
Indices: 13876794--13876837 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
13876784 GGCAAGCCAT
13876794 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
13876808 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
*
13876824 ATTAAGTTTAATTT
1 ATTTA-TTTAATTT
13876838 ATGTTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 5 0.19
17 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:13879247 original size:19 final size:20
Alignment explanation
Indices: 13879215--13879260 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
13879205 CGAAAAATGA
13879215 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
13879235 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
13879254 TTTCTGG
1 TTTCTGG
13879261 TGTTTGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:13879362 original size:18 final size:18
Alignment explanation
Indices: 13879336--13879378 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
13879326 AAAAGCTGGT
*
13879336 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
13879354 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
13879372 TTTATAT
1 TTTATAT
13879379 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:13882177 original size:14 final size:14
Alignment explanation
Indices: 13882135--13882179 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
13882125 GAGAAGATGA
13882135 AGAACGGAAGAAGG
1 AGAACGGAAGAAGG
13882149 AGAA-GGAATG-A--
1 AGAACGGAA-GAAGG
13882160 AGAACGGAAGAAGG
1 AGAACGGAAGAAGG
13882174 AGAACG
1 AGAACG
13882180 AGCCTTACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 5 0.19
14 11 0.42
ACGTcount: A:0.51, C:0.07, G:0.40, T:0.02
Consensus pattern (14 bp):
AGAACGGAAGAAGG
Found at i:13884664 original size:107 final size:104
Alignment explanation
Indices: 13884526--13884822 Score: 314
Period size: 104 Copynumber: 2.8 Consensus size: 104
13884516 TACAAAAAAG
* * * *
13884526 AAAAAAAG-AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCCCTGTATACGAATT
1 AAAAAAAGTAAAAAAAAAAATT-GGTGGTGGCCTGCCAATGGCCGGCACCACCTGTAT-CGAATT
* **
13884590 TTTTTTTCAAGTATTGGTC-TGTCAATGGCCGGCACCAGAATAC
64 TTTTTTT--ACT-TTGGTCGTGTCAATGGCAAGCACCAGAATAC
* * * * *
13884633 AAAAAAAGTAAAAAAAAATAATT-TTGGTGGCCTACCAATGGCCGACACCACCTTTATTGAATTT
1 AAAAAAAGTAAAAAAAAA-AATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTGTATCGAATTT
** *
13884697 TTTTTTACTTTTTTCGTGTCAATGGCAAGCACCAGTATAC
65 TTTTTTACTTTGGTCGTGTCAATGGCAAGCACCAGAATAC
* * * * *
13884737 GAAAAAAGTAAAAAAAAAAATTGGTGGTGGCATGCCAATGGCCGGCACCACCTTTATGGGA-TTT
1 AAAAAAAGTAAAAAAAAAAATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTGTATCGAATTTT
**
13884801 TTTTTACTTTTTTCGTGTCAAT
66 TTTTTACTTTGGTCGTGTCAAT
13884823 AGCTGGCACC
Statistics
Matches: 164, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
103 33 0.20
104 72 0.44
106 12 0.07
107 35 0.21
108 9 0.05
109 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (104 bp):
AAAAAAAGTAAAAAAAAAAATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTGTATCGAATTTT
TTTTTACTTTGGTCGTGTCAATGGCAAGCACCAGAATAC
Found at i:13884832 original size:103 final size:104
Alignment explanation
Indices: 13884609--13884833 Score: 319
Period size: 104 Copynumber: 2.2 Consensus size: 104
13884599 AGTATTGGTC
* * *
13884609 TGTCAATGGCCGGCACCAGAATACAAAAAAAGTAAAAAAAAATAATTTTGGTGGCCTACCAATGG
1 TGTCAATGGCAGGCACCAGAATACAAAAAAAGTAAAAAAAAATAATTGTGGTGGCATACCAATGG
*
13884674 CCGACACCACCTTTATTGAATTTTTTTTTACTTTTTTCG
66 CCGACACCACCTTTATGGAATTTTTTTTTACTTTTTTCG
* * * *
13884713 TGTCAATGGCAAGCACCAGTATACGAAAAAAGTAAAAAAAAA-AATTGGTGGTGGCATGCCAATG
1 TGTCAATGGCAGGCACCAGAATACAAAAAAAGTAAAAAAAAATAATT-GTGGTGGCATACCAATG
* *
13884777 GCCGGCACCACCTTTATGGGA-TTTTTTTTACTTTTTTCG
65 GCCGACACCACCTTTATGGAATTTTTTTTTACTTTTTTCG
* *
13884816 TGTCAATAGCTGGCACCA
1 TGTCAATGGCAGGCACCA
13884834 TTTTTTCGTA
Statistics
Matches: 107, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
103 37 0.35
104 70 0.65
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (104 bp):
TGTCAATGGCAGGCACCAGAATACAAAAAAAGTAAAAAAAAATAATTGTGGTGGCATACCAATGG
CCGACACCACCTTTATGGAATTTTTTTTTACTTTTTTCG
Found at i:13885040 original size:108 final size:106
Alignment explanation
Indices: 13884834--13885203 Score: 521
Period size: 108 Copynumber: 3.5 Consensus size: 106
13884824 GCTGGCACCA
*
13884834 TTTTTTCGTATACTGGTGCCGGCTATTGACAGACCAAAAGTAAAAAAAAAAAATTGGGGAAAAAG
1 TTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAAAAATT-GGGAAAAAG
* *
13884899 GTGTTACCGGCCATTGGCAGGCCACCACCAATTTTTTTATTAC
65 GTGGTGCCGGCCATTGGCAGGCCACCACCAATTTTTTT-TTAC
* * *
13884942 TTTTTTCGTATACTGGTGCTGACCATTTACAGACCAAAAGTAAAAAAAAAAAATTGGGAAAAAGG
1 TTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAAAAATTGGGAAAAAGG
* *
13885007 TGGTGCCCGCCATTGGCAGGCCACTACCAAATTTTTTTTTTAC
66 TGGTGCCGGCCATTGGCAGGCCACCACC-AA-TTTTTTTTTAC
* * * *
13885050 TTTTTTCGTATACTAGTGCCGGCAATTAACAGACCAAAAGT---AAAAAAAAATTGTGAAAAAGG
1 TTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAAAAATTGGGAAAAAGG
* *
13885112 TGGTGTCGGCCATTGGCAGGCCACCACGGAATTTTTTTTTAC
66 TGGTGCCGGCCATTGGCAGGCCACCAC-CAATTTTTTTTTAC
* * *
13885154 TTTTTTCGTATATTGGTGTCGGCCATTGACAGACCCAAAGTAAAAAAAAA
1 TTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAA
13885204 TTTTGGAACC
Statistics
Matches: 232, Mismatches: 24, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
104 46 0.20
105 46 0.20
107 40 0.17
108 93 0.40
109 7 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (106 bp):
TTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAAAAATTGGGAAAAAGG
TGGTGCCGGCCATTGGCAGGCCACCACCAATTTTTTTTTAC
Found at i:13885417 original size:110 final size:109
Alignment explanation
Indices: 13885217--13885448 Score: 340
Period size: 110 Copynumber: 2.1 Consensus size: 109
13885207 TGGAACCACC
* *
13885217 AAAATTTTTTTTAACTTTTTTCGTATACTGGTGCATGCCATTGACACGAAAAAAGTAAAAAAAAA
1 AAAATTTTTTTT-ACTTTTTTCGTATACTGGTGCCTGCCATTAACACGAAAAAAGTAAAAAAAAA
* * * * *
13885282 TTCTCATAAAGGTGGTGCTGACCATTGGCAGGCCACCACCAAAAA
65 TTCTAATAAAGGTGATGCCGACCATTGACAAGCCACCACCAAAAA
13885327 AAAATTTTGTTTTACTTTTTTCGTATACTGGTGCCTGCCATTAACACGAAAAAAGTAAAAAAAAA
1 AAAATTTT-TTTTACTTTTTTCGTATACTGGTGCCTGCCATTAACACGAAAAAAGTAAAAAAAAA
* *
13885392 TT-TAAATAAAGGTGATGCCGGCCATTGACAAGCCACCACTAAAAA
65 TTCT-AATAAAGGTGATGCCGACCATTGACAAGCCACCACCAAAAA
*
13885437 AATATTTTTTTT
1 AAAATTTTTTTT
13885449 TTGTTTTTTT
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
109 5 0.05
110 101 0.92
111 4 0.04
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (109 bp):
AAAATTTTTTTTACTTTTTTCGTATACTGGTGCCTGCCATTAACACGAAAAAAGTAAAAAAAAAT
TCTAATAAAGGTGATGCCGACCATTGACAAGCCACCACCAAAAA
Found at i:13894188 original size:21 final size:21
Alignment explanation
Indices: 13894171--13894222 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
13894161 CAGCATAACA
*
13894171 ATTTTGACTAGCCCCATAAGC
1 ATTTTGACCAGCCCCATAAGC
*
13894192 ATTTTGACCAGCCTCATAAGC
1 ATTTTGACCAGCCCCATAAGC
*
13894213 ACTTTGACCA
1 ATTTTGACCA
13894223 AGATTAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (21 bp):
ATTTTGACCAGCCCCATAAGC
Found at i:13896407 original size:19 final size:21
Alignment explanation
Indices: 13896385--13896429 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 21
13896375 ATAGACATTC
*
13896385 ATTTTTATAATAATAA-A-AT
1 ATTTTTATAACAATAATATAT
13896404 A--TTTATAACAATAATATAT
1 ATTTTTATAACAATAATATAT
13896423 ATTTTTA
1 ATTTTTA
13896430 ATTAAGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
17 12 0.57
18 1 0.05
19 4 0.19
21 4 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTTATAACAATAATATAT
Found at i:13900960 original size:15 final size:15
Alignment explanation
Indices: 13900909--13900961 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
13900899 ATCATATTAA
13900909 ACACATCACTATCAG
1 ACACATCACTATCAG
* * * * *
13900924 ATATATCATTAACAA
1 ACACATCACTATCAG
*
13900939 ACCCATCACTATCAG
1 ACACATCACTATCAG
13900954 ACACATCA
1 ACACATCA
13900962 AAATCAACCA
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.43, C:0.30, G:0.04, T:0.23
Consensus pattern (15 bp):
ACACATCACTATCAG
Found at i:13901083 original size:30 final size:30
Alignment explanation
Indices: 13901049--13901130 Score: 164
Period size: 30 Copynumber: 2.7 Consensus size: 30
13901039 GCAGACAACA
13901049 ACCAAACAATTTAATACAACATAAGCAATG
1 ACCAAACAATTTAATACAACATAAGCAATG
13901079 ACCAAACAATTTAATACAACATAAGCAATG
1 ACCAAACAATTTAATACAACATAAGCAATG
13901109 ACCAAACAATTTAATACAACAT
1 ACCAAACAATTTAATACAACAT
13901131 GACAGACAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.54, C:0.21, G:0.05, T:0.21
Consensus pattern (30 bp):
ACCAAACAATTTAATACAACATAAGCAATG
Found at i:13903774 original size:18 final size:18
Alignment explanation
Indices: 13903753--13903808 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
13903743 CAACATTAGT
13903753 TTGATACAAACAATAAAC
1 TTGATACAAACAATAAAC
* **
13903771 TTGACATACACAAC-ATCAGT
1 TTG--ATACA-AACAATAAAC
13903791 TTGATACAAACAATAAAC
1 TTGATACAAACAATAAAC
13903809 ATGACATACA
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
17 3 0.11
18 11 0.39
20 11 0.39
21 3 0.11
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (18 bp):
TTGATACAAACAATAAAC
Found at i:13903779 original size:20 final size:20
Alignment explanation
Indices: 13903756--13903818 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
13903746 CATTAGTTTG
13903756 ATACAAACAATAAACTTGAC
1 ATACAAACAATAAACTTGAC
* **
13903776 ATACACAAC-ATCAGTTTG--
1 ATACA-AACAATAAACTTGAC
*
13903794 ATACAAACAATAAACATGAC
1 ATACAAACAATAAACTTGAC
13903814 ATACA
1 ATACA
13903819 CAATTTCATG
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
17 3 0.09
18 10 0.31
20 16 0.50
21 3 0.09
ACGTcount: A:0.52, C:0.21, G:0.06, T:0.21
Consensus pattern (20 bp):
ATACAAACAATAAACTTGAC
Found at i:13903785 original size:38 final size:38
Alignment explanation
Indices: 13903733--13903821 Score: 160
Period size: 38 Copynumber: 2.3 Consensus size: 38
13903723 GCACTTGCAA
*
13903733 ATGACATACACAACATTAGTTTGATACAAACAATAAAC
1 ATGACATACACAACATCAGTTTGATACAAACAATAAAC
*
13903771 TTGACATACACAACATCAGTTTGATACAAACAATAAAC
1 ATGACATACACAACATCAGTTTGATACAAACAATAAAC
13903809 ATGACATACACAA
1 ATGACATACACAA
13903822 TTTCATGCAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.22
Consensus pattern (38 bp):
ATGACATACACAACATCAGTTTGATACAAACAATAAAC
Found at i:13904512 original size:22 final size:20
Alignment explanation
Indices: 13904487--13904539 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
13904477 AAAATATGTT
13904487 ATTTTATTTTAA-TATTTAATAA
1 ATTTTATTTTAATTA-TT-A-AA
13904509 ATTTATATTTTTAATTATTAAA
1 ATTT-TA-TTTTAATTATTAAA
13904531 ATTTTATTT
1 ATTTTATTT
13904540 ATAGTCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.11
21 2 0.07
22 10 0.36
23 3 0.11
24 8 0.29
25 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTATTTTAATTATTAAA
Found at i:13904529 original size:24 final size:23
Alignment explanation
Indices: 13904493--13904537 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
13904483 TGTTATTTTA
13904493 TTTTAATATTTAATAAATTTATAT
1 TTTTAATATTTAA-AAATTTATAT
*
13904517 TTTTAAT-TATTAAAATTTTAT
1 TTTTAATAT-TTAAAAATTTAT
13904538 TTATAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAATATTTAAAAATTTATAT
Found at i:13905139 original size:17 final size:18
Alignment explanation
Indices: 13905107--13905141 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13905097 TTTGTATTAT
*
13905107 AAATTACATAATATATAA
1 AAATAACATAATATATAA
13905125 AAATAACAT-ATATATAA
1 AAATAACATAATATATAA
13905142 CATTACAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:13909266 original size:152 final size:152
Alignment explanation
Indices: 13908990--13909279 Score: 571
Period size: 152 Copynumber: 1.9 Consensus size: 152
13908980 AACCATTCCC
13908990 CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
1 CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
13909055 CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGCTCTTCATTTA
66 CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGCTCTTCATTTA
13909120 AAAAAAAATGACAAATTCCACA
131 AAAAAAAATGACAAATTCCACA
13909142 CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
1 CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
*
13909207 CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGGTCTTCATTTA
66 CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGCTCTTCATTTA
13909272 AAAAAAAA
131 AAAAAAAA
13909280 AAGACCAATA
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 137 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (152 bp):
CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGCTCTTCATTTA
AAAAAAAATGACAAATTCCACA
Found at i:13915079 original size:4 final size:4
Alignment explanation
Indices: 13915072--13915115 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
13915062 TATGTAGTGG
* *
13915072 ATAA ATAA ATAA ATAA ATGA ATAA ATAA ATCAA ACAA ATGAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA AT-AA AT
13915116 TATAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
4 27 0.79
5 7 0.21
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:13915154 original size:16 final size:16
Alignment explanation
Indices: 13915133--13915163 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13915123 AATGCAAGAA
13915133 ATGTATGGATGTACAC
1 ATGTATGGATGTACAC
*
13915149 ATGTATGTATGTACA
1 ATGTATGGATGTACA
13915164 TATAAATTAT
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:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (16 bp):
ATGTATGGATGTACAC
Found at i:13917275 original size:21 final size:21
Alignment explanation
Indices: 13917249--13917291 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13917239 CGTTACCTTC
13917249 TTCTTTCACTATATACATATA
1 TTCTTTCACTATATACATATA
*
13917270 TTCTTTCACTATATAGATATA
1 TTCTTTCACTATATACATATA
13917291 T
1 T
13917292 AGTATAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (21 bp):
TTCTTTCACTATATACATATA
Found at i:13919277 original size:14 final size:14
Alignment explanation
Indices: 13919243--13919277 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
13919233 TATAAATCAT
*
13919243 AAAAAATTTATAAA
1 AAAAAATTTACAAA
13919257 AATAAAATTTACAAA
1 AA-AAAATTTACAAA
13919272 AAAAAA
1 AAAAAA
13919278 GATAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAATTTACAAA
Found at i:13919401 original size:19 final size:19
Alignment explanation
Indices: 13919355--13919401 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
13919345 AAACATATTT
13919355 TTTTATAAAATTCTAAAATA
1 TTTT-TAAAATTCTAAAATA
* *
13919375 ATTATAAAATTCTAAAA-A
1 TTTTTAAAATTCTAAAATA
13919393 GTTTTTAAA
1 -TTTTTAAA
13919402 TTACTTGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 1 0.05
19 19 0.86
20 2 0.09
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
TTTTTAAAATTCTAAAATA
Found at i:13929197 original size:23 final size:23
Alignment explanation
Indices: 13929171--13929220 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
13929161 ATCGTTTGGT
13929171 TTTTGAAAAAAATATTTT-T-TTTA
1 TTTT-AAAAAAAT-TTTTATATTTA
*
13929194 TTTTAAAAATATTTTTATATTTA
1 TTTTAAAAAAATTTTTATATTTA
13929217 TTTT
1 TTTT
13929221 CATTTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.17
22 8 0.33
23 12 0.50
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTAAAAAAATTTTTATATTTA
Found at i:13929214 original size:19 final size:20
Alignment explanation
Indices: 13929178--13929215 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13929168 GGTTTTTGAA
*
13929178 AAAAATATTTTTTTTATTTT
1 AAAAATATTTTTTATATTTT
13929198 AAAAATA-TTTTTATATTT
1 AAAAATATTTTTTATATTT
13929216 ATTTTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AAAAATATTTTTTATATTTT
Found at i:13931527 original size:18 final size:17
Alignment explanation
Indices: 13931496--13931545 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
13931486 CTTAAAACAT
13931496 AATATAATATTTATTATAGA
1 AATA-AATA-TTATTAT-GA
13931516 AATAAATATTATT-TGA
1 AATAAATATTATTATGA
*
13931532 AA-AAAAATTATTAT
1 AATAAATATTATTAT
13931546 TTTTAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 9 0.32
16 5 0.18
17 1 0.04
18 5 0.18
19 4 0.14
20 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (17 bp):
AATAAATATTATTATGA
Found at i:13931653 original size:43 final size:43
Alignment explanation
Indices: 13931584--13931765 Score: 222
Period size: 43 Copynumber: 4.3 Consensus size: 43
13931574 TTCTAAAAAA
* * * * * *
13931584 CGCCGCTAAAGGTC-TATTCTATAGCGGTGTTTGAGGGAAAAA
1 CGCCGCTAAAGGTCTTAGTCTTTAGCGGCGTTTGTGGGGAAAG
* * *
13931626 CGCCGCTAATGGTCATAGTCTTTAGCGGCATTTGTGGGGAAAG
1 CGCCGCTAAAGGTCTTAGTCTTTAGCGGCGTTTGTGGGGAAAG
* * *
13931669 CGCAGCTAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGGGAAAG
1 CGCCGCTAAAGGTCTTAGTCTTTAGCGGCGTTTGTGGGGAAAG
* * *
13931712 CGTCGCTAAAGGTCTTGGTATTTAGCGGCGTTTGTGGGGAAAG
1 CGCCGCTAAAGGTCTTAGTCTTTAGCGGCGTTTGTGGGGAAAG
13931755 CGCCGCTAAAG
1 CGCCGCTAAAG
13931766 TTAGCGACGC
Statistics
Matches: 120, Mismatches: 19, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
42 13 0.11
43 107 0.89
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.27
Consensus pattern (43 bp):
CGCCGCTAAAGGTCTTAGTCTTTAGCGGCGTTTGTGGGGAAAG
Found at i:13933276 original size:44 final size:44
Alignment explanation
Indices: 13933208--13933556 Score: 135
Period size: 44 Copynumber: 8.0 Consensus size: 44
13933198 GAGAGGTAAA
* * * *
13933208 ATCTGTCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAG
1 ATCTGTAATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAG
* ** ** *
13933252 ATCTGTAATCTTCAATCTATTCCACTGTTGCCCA-GGAAAGT-AG
1 ATCTGTAATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG
* * ** * * * *
13933295 AATTTCT-GGCTTCAATGTACTCCACTGTAAC--CATAGGGAGGTAAA
1 -ATCTGTAATCTTCAATCTACTCCAC--T-ACTGCTTAGGGAGATAAG
* ** * *
13933340 ATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 ATCTGTAATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAG
** * * * * **
13933384 ATCTGTGGT-TTTAATCTATTCCACTGCTACCCAGGGAGAT-AG
1 ATCTGTAATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAG
* * * * * * *
13933426 AAC--TACTGGCTTCAATGTACTCCACTGTAAT-ATTAGGGAGGTAAA
1 ATCTGTAAT--CTTCAATCTACTCCAC--TACTGCTTAGGGAGATAAG
** * *
13933471 ATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 ATCTGTAATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAG
* *
13933515 ATCTGTAATCTTCAATCTATTCCACTGA-TGCCTAGGGAGATA
1 ATCTGTAATCTTCAATCTACTCCACT-ACTGCTTAGGGAGATA
13933557 GAACTACCGG
Statistics
Matches: 210, Mismatches: 75, Indels: 40
0.65 0.23 0.12
Matches are distributed among these distances:
40 2 0.01
42 6 0.03
43 59 0.28
44 105 0.50
45 37 0.18
47 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTGTAATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAG
Done.