Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 43 of 49
Found at i:8876254 original size:14 final size:14
Alignment explanation
Indices: 8876195--8876265 Score: 55
Period size: 14 Copynumber: 5.4 Consensus size: 14
8876185 AGAAAAAAAA
8876195 AATAATATAAATAA-
1 AATAAT-TAAATAAT
*
8876209 AA-AA-TAAA-AAA
1 AATAATTAAATAAT
*
8876220 AATAA-TAGAAAAAT
1 AATAATTA-AATAAT
8876234 AATAATTAAATAAT
1 AATAATTAAATAAT
*
8876248 AATAATT-AATATT
1 AATAATTAAATAAT
8876261 AATAA
1 AATAA
8876266 AATCAACAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
10 2 0.04
11 6 0.12
12 4 0.08
13 14 0.29
14 21 0.43
15 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (14 bp):
AATAATTAAATAAT
Found at i:8878029 original size:22 final size:22
Alignment explanation
Indices: 8878004--8878048 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8877994 CTGAAATAAC
* *
8878004 ATTCGTAATATACATCATATAT
1 ATTCATAATAAACATCATATAT
*
8878026 ATTCATGATAAACATCATATAT
1 ATTCATAATAAACATCATATAT
8878048 A
1 A
8878049 ATAACCAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (22 bp):
ATTCATAATAAACATCATATAT
Found at i:8879080 original size:20 final size:20
Alignment explanation
Indices: 8879052--8879094 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8879042 ACAACTTTAA
*
8879052 GGTGCATCGATATATTCAGG
1 GGTGCATCGATACATTCAGG
* *
8879072 GGTGTATCGATACATTTAGG
1 GGTGCATCGATACATTCAGG
8879092 GGT
1 GGT
8879095 CTATTAAATT
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:0.23, C:0.12, G:0.33, T:0.33
Consensus pattern (20 bp):
GGTGCATCGATACATTCAGG
Found at i:8887186 original size:21 final size:21
Alignment explanation
Indices: 8887156--8887196 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8887146 GATGTTTTTG
*
8887156 TGCATTGGTACACTGTAGCAA
1 TGCATCGGTACACTGTAGCAA
8887177 TGCATCGGTACACTGTAGCA
1 TGCATCGGTACACTGTAGCA
8887197 CTGTTCATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (21 bp):
TGCATCGGTACACTGTAGCAA
Found at i:8899524 original size:94 final size:96
Alignment explanation
Indices: 8899392--8899565 Score: 257
Period size: 95 Copynumber: 1.8 Consensus size: 96
8899382 AATTGAGGAA
*
8899392 GTATCGATACCAAGCAAATATCGAATCTAATTTTGGTATCGATACC-GTAA-GGGGTATCGGTAC
1 GTATCGATACCAAGCAAATATCGAAGCTAATTTTGGTATCGATACCAG-AAGGGGGTATCGGTAC
* *
8899455 CATAGTATAGTAGTATGAATACCATGGTAAGG
65 CATAATATAGAAGTATGAATACCATGGTAAGG
* *
8899487 GTATGGATACCAGGCAACAT-T-GAAGCTAATTTTGGTATCGATACCAGAAGGGGGTATCGGTAC
1 GTATCGATACCAAGCAA-ATATCGAAGCTAATTTTGGTATCGATACCAGAAGGGGGTATCGGTAC
8899550 CATAATATAGAAGTAT
65 CATAATATAGAAGTAT
8899566 CGGTACTAGG
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
94 25 0.35
95 44 0.62
96 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (96 bp):
GTATCGATACCAAGCAAATATCGAAGCTAATTTTGGTATCGATACCAGAAGGGGGTATCGGTACC
ATAATATAGAAGTATGAATACCATGGTAAGG
Found at i:8899591 original size:95 final size:95
Alignment explanation
Indices: 8899391--8899591 Score: 241
Period size: 95 Copynumber: 2.1 Consensus size: 95
8899381 CAATTGAGGA
*
8899391 AGTATCGATACCAAGCAAATATCGAATCTAATTTTGGTATCGATACCGTAAGGGGTATCGGTACC
1 AGTATCGATACCAAGCAAATATCGAAGCTAATTTTGGTATCGATACCGTAAGGGGTATCGGTACC
* * *
8899456 ATAGTATAGTAGTATGAATACCATGGTAAG
66 ATAATATAGAAGTATGAATACCAGGGTAAG
* * *
8899486 GGTATGGATACCAGGCAACAT-T-GAAGCTAATTTTGGTATCGATACCAG-AAGGGGGTATCGGT
1 AGTATCGATACCAAGCAA-ATATCGAAGCTAATTTTGGTATCGATACC-GTAA-GGGGTATCGGT
* *
8899548 ACCATAATATAGAAGTATCG-GTACTAGGGT-AG
63 ACCATAATATAGAAGTAT-GAATACCAGGGTAAG
8899580 TAGTATCGATAC
1 -AGTATCGATAC
8899592 TATGGAGTCT
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
94 27 0.30
95 60 0.67
96 3 0.03
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (95 bp):
AGTATCGATACCAAGCAAATATCGAAGCTAATTTTGGTATCGATACCGTAAGGGGTATCGGTACC
ATAATATAGAAGTATGAATACCAGGGTAAG
Found at i:8900099 original size:27 final size:26
Alignment explanation
Indices: 8900061--8900150 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 26
8900051 ATGCATTAAG
8900061 GCATGAAAGGATGTCATAATTGAAAAT
1 GCATGAAAGGATG-CATAATTGAAAAT
*
8900088 GCATGAAAGGATG--T-ATT---AAG
1 GCATGAAAGGATGCATAATTGAAAAT
*
8900108 GCATGAACGGATGCCATAATTGAAAAT
1 GCATGAAAGGATG-CATAATTGAAAAT
8900135 GCATGAAAGGATGCAT
1 GCATGAAAGGATGCAT
8900151 TAAGGCATGA
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
20 14 0.27
23 4 0.08
24 4 0.08
26 3 0.06
27 27 0.52
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.23
Consensus pattern (26 bp):
GCATGAAAGGATGCATAATTGAAAAT
Found at i:8900113 original size:20 final size:20
Alignment explanation
Indices: 8900042--8900163 Score: 64
Period size: 20 Copynumber: 5.4 Consensus size: 20
8900032 ATTAAAAATA
* *
8900042 CATGAAATGATGCATTAAGG
1 CATGAAAGGATGTATTAAGG
*
8900062 CATGAAAGGATGTCATAATTGAAAATG
1 CATGAAAGGATG---T-ATT---AAGG
8900089 CATGAAAGGATGTATTAAGG
1 CATGAAAGGATGTATTAAGG
* *
8900109 CATGAACGGATGCCATAATTGAAAATG
1 CATGAAAGGATG---T-ATT---AAGG
*
8900136 CATGAAAGGATGCATTAAGG
1 CATGAAAGGATGTATTAAGG
8900156 CATGAAAG
1 CATGAAAG
8900164 AATGCCATAT
Statistics
Matches: 79, Mismatches: 9, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
20 36 0.46
23 7 0.09
24 7 0.09
27 29 0.37
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (20 bp):
CATGAAAGGATGTATTAAGG
Found at i:8900199 original size:49 final size:47
Alignment explanation
Indices: 8899982--8900245 Score: 334
Period size: 47 Copynumber: 5.5 Consensus size: 47
8899972 AATCAAATTT
* *
8899982 ATAATTGACAATGCATGAAAGGATGCATTAAGGCATGAACAGACT-CC
1 ATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAA-AGAATGCC
* * * * *
8900029 ATAATTAAAAATACATGAAATGATGCATTAAGGCATGAAAGGATGTC
1 ATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATGCC
* * *
8900076 ATAATTGAAAATGCATGAAAGGATGTATTAAGGCATGAACGGATGCC
1 ATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATGCC
8900123 ATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATGCC
1 ATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATGCC
* * *
8900170 ATATATATTAAAATGCATGAAAGGATGCATTAAGGAATGAAAGAATTCC
1 ATA-AT-TGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATGCC
*
8900219 ATACATATTAAAATGCAT-AAATGGATG
1 ATA-AT-TGAAAATGCATGAAA-GGATG
8900246 TGTTAATACG
Statistics
Matches: 193, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
46 3 0.02
47 124 0.64
48 5 0.03
49 61 0.32
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (47 bp):
ATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATGCC
Found at i:8906220 original size:20 final size:20
Alignment explanation
Indices: 8906192--8906243 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
8906182 GATTCAATCA
*
8906192 GTATTGATACCATTGTAAGG
1 GTATCGATACCATTGTAAGG
8906212 GTATCGATACCATTGTAAGG
1 GTATCGATACCATTGTAAGG
*
8906232 TTATCGATACCA
1 GTATCGATACCA
8906244 AGCAAACATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (20 bp):
GTATCGATACCATTGTAAGG
Found at i:8906333 original size:20 final size:21
Alignment explanation
Indices: 8906284--8906339 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
8906274 TACCGTAAGG
*
8906284 GGGTATCGGTACCATAGTATA
1 GGGTATCGATACCATAGTATA
* *
8906305 GCAGTATCGATACCATGGTA-A
1 G-GGTATCGATACCATAGTATA
8906326 GGGTATCGATACCA
1 GGGTATCGATACCA
8906340 GGCAACATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 12 0.40
21 3 0.10
22 15 0.50
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (21 bp):
GGGTATCGATACCATAGTATA
Found at i:8906383 original size:95 final size:96
Alignment explanation
Indices: 8906212--8906391 Score: 272
Period size: 95 Copynumber: 1.9 Consensus size: 96
8906202 CATTGTAAGG
* * * * *
8906212 GTATCGATACCATTGTAAGGTTATCGATACCAAGCAAACATCGAATCTAATTTTGGTAACGATAC
1 GTATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAAGCTAATTTCGGTAACGATAA
*
8906277 CGTAAGGGGGTATCGGTACCATAGTATAGCA
66 CGGAAGGGGGTATCGGTACCATAGTATAGCA
* *
8906308 GTATCGATACCATGGTAAGGGTATCGATACCAGGC-AACATCGAAGCTAATTTCGGTATCGATAA
1 GTATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAAGCTAATTTCGGTAACGATAA
*
8906372 CGGAAGGGGGTATCTGTACC
66 CGGAAGGGGGTATCGGTACC
8906392 TGATAAGTGC
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 43 0.57
96 32 0.43
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (96 bp):
GTATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAAGCTAATTTCGGTAACGATAA
CGGAAGGGGGTATCGGTACCATAGTATAGCA
Found at i:8906779 original size:19 final size:19
Alignment explanation
Indices: 8906755--8906792 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8906745 TTAGGTATTT
*
8906755 TAGTTTAAATAGGTTTTAG
1 TAGTTTAAATAAGTTTTAG
*
8906774 TAGTTTAATTAAGTTTTAG
1 TAGTTTAAATAAGTTTTAG
8906793 GATATTATTT
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:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (19 bp):
TAGTTTAAATAAGTTTTAG
Found at i:8906842 original size:76 final size:75
Alignment explanation
Indices: 8906728--8906940 Score: 290
Period size: 76 Copynumber: 2.9 Consensus size: 75
8906718 TTTTAAACAC
*
8906728 TATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAGTTTAATTAAGTTTTAG
1 TATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAGTTTAATTAAGATTTAG
*
8906793 GATATTATTTT
66 AATATTA-TTT
* *
8906804 TATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAG
1 TATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAGTTTAATTAAGATTTAG
8906869 AATATTATTT
66 AATATTATTT
* * * * *
8906879 TAAATATTAT-TAT-TTTTAGTTATTTTAGTTTAAATA-GTTTTAAGT-GTTTTAATTACGATTT
1 TATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTAG-TTTAATTAAGATTT
8906940 A
64 A
8906941 AGATGTTTTA
Statistics
Matches: 125, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
72 5 0.04
73 39 0.31
74 2 0.02
75 11 0.09
76 68 0.54
ACGTcount: A:0.29, C:0.01, G:0.13, T:0.57
Consensus pattern (75 bp):
TATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAGTTTAATTAAGATTTAG
AATATTATTT
Found at i:8913129 original size:5 final size:5
Alignment explanation
Indices: 8913119--8913239 Score: 73
Period size: 5 Copynumber: 22.8 Consensus size: 5
8913109 TTGTTCTATT
* * **
8913119 TTTTA TTTTA TTTCA TTTTA TTTTCG TTTTA TTTCG TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA
** *
8913170 TTTT- TTAGCAAA CTTTA TTTTCA TTCTATA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TT---TTA TTTTA TTTT-A TT-T-TA TTTTA TTTTA TTTTA TTTTA
* * *
8913220 ATTAA TTTAA TTTTA GTTTT
1 TTTTA TTTTA TTTTA -TTTT
8913240 CTTTAAACAG
Statistics
Matches: 89, Mismatches: 18, Indels: 17
0.72 0.15 0.14
Matches are distributed among these distances:
4 2 0.02
5 69 0.78
6 12 0.13
7 4 0.04
8 2 0.02
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.69
Consensus pattern (5 bp):
TTTTA
Found at i:8913148 original size:21 final size:20
Alignment explanation
Indices: 8913119--8913172 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 20
8913109 TTGTTCTATT
8913119 TTTTATTTTATTTCATTTTA
1 TTTTATTTTATTTCATTTTA
* *
8913139 TTTTCGTTTTATTTCGTTTTA
1 TTTT-ATTTTATTTCATTTTA
8913160 TTTTATTTTATTT
1 TTTTATTTTATTT
8913173 TTTAGCAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTTATTTTATTTCATTTTA
Found at i:8915241 original size:44 final size:43
Alignment explanation
Indices: 8915192--8915318 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 43
8915182 TTAAACATTA
8915192 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTTAG
1 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAA-TTTTAG
**
8915236 TATTTTAAT-TAAGTTTTAGG-A---TA--TT--AT--TTTTA-
1 TATTTT-ATCTTTGTTTTAGGTATTTTAGTTTAAATAATTTTAG
*
8915268 TATTTTAGCTTTGTTTTAGGTATTTTAGTTTAAATATATTTTAG
1 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-ATTTTAG
8915312 TATTTTA
1 TATTTTA
8915319 ATTATGATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 28
0.66 0.05 0.29
Matches are distributed among these distances:
31 1 0.02
32 15 0.23
33 6 0.09
36 4 0.06
38 4 0.06
40 4 0.06
43 6 0.09
44 22 0.34
45 2 0.03
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.60
Consensus pattern (43 bp):
TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAATTTTAG
Found at i:8915265 original size:82 final size:81
Alignment explanation
Indices: 8915164--8915357 Score: 265
Period size: 76 Copynumber: 2.4 Consensus size: 81
8915154 GATTAAACTC
* *
8915164 AAGTTTTAGGATAATATTTTAAACATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-
1 AAGTTTTAGGATATTATTTTAAA-ATTATATTTTAGCTTTGTTTTAGGTATTTTAGTTTAAATAT
8915228 AGTTTTAGTATTTTAATT
65 A-TTTTAGTATTTTAATT
8915246 AAGTTTTAGGATATTA-TTT----TTATATTTTAGCTTTGTTTTAGGTATTTTAGTTTAAATATA
1 AAGTTTTAGGATATTATTTTAAAATTATATTTTAGCTTTGTTTTAGGTATTTTAGTTTAAATATA
8915306 TTTTAGTATTTTAATT
66 TTTTAGTATTTTAATT
* * * *
8915322 ATGATTTAGAATATTATTTTAAATATTATTTTTTAG
1 AAGTTTTAGGATATTATTTTAAA-ATTATATTTTAG
8915358 GGATTTTAGT
Statistics
Matches: 99, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
76 67 0.68
77 4 0.04
81 3 0.03
82 25 0.25
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.57
Consensus pattern (81 bp):
AAGTTTTAGGATATTATTTTAAAATTATATTTTAGCTTTGTTTTAGGTATTTTAGTTTAAATATA
TTTTAGTATTTTAATT
Found at i:8915296 original size:76 final size:74
Alignment explanation
Indices: 8915189--8915400 Score: 272
Period size: 76 Copynumber: 2.9 Consensus size: 74
8915179 ATTTTAAACA
*
8915189 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTTAGTATTTTAATTAAGTTTTA
1 TTATATTTTA-CTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTTAGTATTTTAATTAAGATTTA
*
8915254 GGATATTATTT
65 GAATATTA-TT
*
8915265 TTATATTTTAGCTTTGTTTTAGGTATTTTAGTTTAAATATA-TTTTAGTATTTTAATTATGATTT
1 TTATATTTTA-CTTTGTTTTAGGTATTTTAGTTTAAATA-AGTTTTAGTATTTTAATTAAGATTT
8915329 AGAATATTATT
64 AGAATATTATT
* * * * *
8915340 TTAAATATTA--TT-TTTTAGGGATTTTAGTTTAAAT-AGTTTTAAGTGTTTTAATTAGGATTTA
1 TTATATTTTACTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTT-AGTATTTTAATTAAGATTTA
8915401 AGATGTTTTA
Statistics
Matches: 124, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
69 1 0.01
70 4 0.03
71 39 0.31
72 2 0.02
75 10 0.08
76 67 0.54
77 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.12, T:0.58
Consensus pattern (74 bp):
TTATATTTTACTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTTAGTATTTTAATTAAGATTTAG
AATATTATT
Found at i:8915353 original size:12 final size:12
Alignment explanation
Indices: 8915312--8915353 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
8915302 TATATTTTAG
*
8915312 TATTTTAATTAT
1 TATTTTAAATAT
*
8915324 GA-TTTAGAATAT
1 TATTTTA-AATAT
8915336 TATTTTAAATAT
1 TATTTTAAATAT
8915348 TATTTT
1 TATTTT
8915354 TTAGGGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 4 0.16
12 17 0.68
13 4 0.16
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (12 bp):
TATTTTAAATAT
Found at i:8916667 original size:46 final size:47
Alignment explanation
Indices: 8916593--8916714 Score: 192
Period size: 46 Copynumber: 2.6 Consensus size: 47
8916583 AAATCAAATT
8916593 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCAAGAAAAGATAC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCAAGAAAAGATAC
* ** **
8916640 CATAATTGAAAATG-ATGAAAGGATGCATTAAGGCATGAACGGATGT
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCAAGAAAAGATAC
8916686 CATAATTGAAAATGCATGAAAGGATGCAT
1 CATAATTGAAAATGCATGAAAGGATGCAT
8916715 ATTGAAAATG
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
46 41 0.59
47 28 0.41
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (47 bp):
CATAATTGAAAATGCATGAAAGGATGCATTAAGGCAAGAAAAGATAC
Found at i:8916724 original size:25 final size:25
Alignment explanation
Indices: 8916597--8916739 Score: 119
Period size: 25 Copynumber: 6.0 Consensus size: 25
8916587 CAAATTCATA
8916597 ATTGAAAATGCATGAAAGGATGC--
1 ATTGAAAATGCATGAAAGGATGCAT
* * * *
8916620 ATT---AAGGCAAGAAAAGATACCAT
1 ATTGAAAATGCATGAAAGGAT-GCAT
8916643 AATTGAAAATG-ATGAAAGGATGC--
1 -ATTGAAAATGCATGAAAGGATGCAT
* *
8916666 ATT---AAGGCATGAACGGATGTCAT
1 ATTGAAAATGCATGAAAGGATG-CAT
8916689 AATTGAAAATGCATGAAAGGATGCAT
1 -ATTGAAAATGCATGAAAGGATGCAT
8916715 ATTGAAAATGCATGAAAGGATGCAT
1 ATTGAAAATGCATGAAAGGATGCAT
8916740 TAAGACATGA
Statistics
Matches: 93, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
19 3 0.03
20 22 0.24
21 2 0.02
22 3 0.03
23 3 0.03
24 6 0.06
25 26 0.28
26 11 0.12
27 17 0.18
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.22
Consensus pattern (25 bp):
ATTGAAAATGCATGAAAGGATGCAT
Found at i:8916737 original size:72 final size:69
Alignment explanation
Indices: 8916644--8916777 Score: 223
Period size: 70 Copynumber: 1.9 Consensus size: 69
8916634 AGATACCATA
* *
8916644 ATTGAAAATGATGAAAGGATGCATTAAGGCATGAACGGATGTCATAATTGAAAATGCATGAAAGG
1 ATTGAAAATGATGAAAGGATGCATTAAGACATGAAC--ATGCCATAATTGAAAATGCATGAAAGG
8916709 ATGCAT
64 ATGCAT
8916715 ATTGAAAATGCATGAAAGGATGCATTAAGACATGAACATGCCATAATTGAAAATGCATGAAAG
1 ATTGAAAATG-ATGAAAGGATGCATTAAGACATGAACATGCCATAATTGAAAATGCATGAAAG
8916778 ATTCATTAAG
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
70 25 0.42
71 10 0.17
72 25 0.42
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (69 bp):
ATTGAAAATGATGAAAGGATGCATTAAGACATGAACATGCCATAATTGAAAATGCATGAAAGGAT
GCAT
Found at i:8916773 original size:25 final size:24
Alignment explanation
Indices: 8916672--8916775 Score: 67
Period size: 25 Copynumber: 4.3 Consensus size: 24
8916662 ATGCATTAAG
8916672 GCATGAACGGATGTCATAATTGAAAAT
1 GCATGAAC--ATG-CATAATTGAAAAT
*
8916699 GCATGAAAGGATGCAT-ATTGAAAAT
1 GCATG-AA-CATGCATAATTGAAAAT
* * *
8916724 GCATGAA-A-GGATGCATT-AAGA-
1 GCATGAACATGCAT-AATTGAAAAT
8916745 -CATGAACATGCCATAATTGAAAAT
1 GCATGAACATG-CATAATTGAAAAT
8916769 GCATGAA
1 GCATGAA
8916776 AGATTCATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 22
0.69 0.07 0.25
Matches are distributed among these distances:
20 6 0.10
21 4 0.07
22 8 0.13
23 8 0.13
24 2 0.03
25 20 0.33
26 3 0.05
27 8 0.13
28 2 0.03
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (24 bp):
GCATGAACATGCATAATTGAAAAT
Found at i:8917836 original size:18 final size:19
Alignment explanation
Indices: 8917815--8917852 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8917805 TTCTAGCCTT
8917815 TTATTTAAG-ATATAATTA
1 TTATTTAAGAATATAATTA
8917833 TTATTTAAGAATATAATTA
1 TTATTTAAGAATATAATTA
8917852 T
1 T
8917853 AGATTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
TTATTTAAGAATATAATTA
Found at i:8922220 original size:27 final size:27
Alignment explanation
Indices: 8922182--8922238 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
8922172 CAGCTATGGG
*
8922182 CAAAACCCAAGACCAAAATAAGTGTAT
1 CAAAACCCAAGACCAAAACAAGTGTAT
8922209 CAAAACCCAAGACCAAAACAAGTGTAT
1 CAAAACCCAAGACCAAAACAAGTGTAT
8922236 CAA
1 CAA
8922239 CCAAGGCCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.53, C:0.25, G:0.11, T:0.12
Consensus pattern (27 bp):
CAAAACCCAAGACCAAAACAAGTGTAT
Found at i:8938934 original size:18 final size:18
Alignment explanation
Indices: 8938913--8938950 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8938903 CAACATGCAA
*
8938913 AAATAAATATAAACAA-CT
1 AAATAAAGA-AAACAATCT
8938931 AAATAAAGAAAACAATCT
1 AAATAAAGAAAACAATCT
8938949 AA
1 AA
8938951 TAATGGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.68, C:0.11, G:0.03, T:0.18
Consensus pattern (18 bp):
AAATAAAGAAAACAATCT
Found at i:8940900 original size:32 final size:36
Alignment explanation
Indices: 8940819--8940900 Score: 84
Period size: 37 Copynumber: 2.3 Consensus size: 36
8940809 CTGCAAGTTA
8940819 AGGGTAGGTCAGACTTGATATTCTCCACTCTTCTTTC
1 AGGGTA-GTCAGACTTGATATTCTCCACTCTTCTTTC
* *
8940856 AGAGG-AGATCAGACTTGAT-TTGTTC-CTCTT-TTTC
1 AG-GGTAG-TCAGACTTGATATTCTCCACTCTTCTTTC
8940890 -GGGTAGTCAGA
1 AGGGTAGTCAGA
8940901 TCAATTTTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
32 7 0.17
33 3 0.08
34 4 0.10
35 5 0.12
36 5 0.12
37 14 0.35
38 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (36 bp):
AGGGTAGTCAGACTTGATATTCTCCACTCTTCTTTC
Found at i:8941121 original size:55 final size:55
Alignment explanation
Indices: 8940906--8941512 Score: 761
Period size: 55 Copynumber: 11.1 Consensus size: 55
8940896 TCAGATCAAT
* * * * *
8940906 TTTGGAAGATGGGTCTACTCCACTCTTTTTTCAGGGGAGACAAGACTCAAGAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCA-GGGAGATAAGACTCAAAAAATC
* ** * * *
8940962 TTTGGAAAATAGGTCTGCTTCACTCTTCTTCCAGGGAGATAAGACTCGAAAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
** * *
8941017 TTTAAAAGACGGGTATGCT-CACTCTTCTTTCAGGGAGATAAGACTCAAAAAATA
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
** * * * * * *
8941071 TTTGGAAGTTGGGCCTGCTCCACACTTCTTTTAGGAAGATAAGACCCAAAATATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
* * **
8941126 TTTGGAAGACGGGTATGCTCCACTCTTCTTTCAGGGAGATAAGAATTGAAAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
*
8941181 TCTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
* * *
8941236 TTTGGAAGACAGGTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAAAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
* *
8941291 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGAGG-GATAAGACTC-GAAAATA
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAG-GGAGATAAGACTCAAAAAATC
* * * *
8941345 TTTGGAAGATGGGTCTGCTCCACTATTCTTTCTGGGAGATAAGACTAAAAAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
* * ** *
8941400 TTTGGAAGACGGGTCTGCTCCACTCTTTTTTCAGGGCGATAAGACTTGAAAAATA
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
* * * *
8941455 TTTGGAAGACGGATCTGCTCTACTATTCTTTCAGGGAGATAAGACTCGAAAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
8941510 TTT
1 TTT
8941513 TGATCCATTT
Statistics
Matches: 471, Mismatches: 76, Indels: 9
0.85 0.14 0.02
Matches are distributed among these distances:
53 2 0.00
54 90 0.19
55 350 0.74
56 29 0.06
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (55 bp):
TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
Found at i:8941403 original size:274 final size:274
Alignment explanation
Indices: 8940908--8941512 Score: 867
Period size: 274 Copynumber: 2.2 Consensus size: 274
8940898 AGATCAATTT
* * * * * *
8940908 TGGAAGATGGGTCTACTCCACTCTTTTTTCAGGGGAGACAAGACTCAAGAAATCTTTGGAAAATA
1 TGGAAGACGGGTCTGCTCCACTCTTCTTTCA-GGGAGATAAGACTCAAAAAATCTTTGGAAAACA
* *
8940973 GGTCTGCTTCACTCTTCTTCCAGGGAGATAAGACTCGAAAAATCTTTAAAAGACGGGTATGCTCA
65 GGTCTGCTCCACTATTCTTCCAGGGAGATAAGACTCGAAAAATCTTTAAAAGACGGGTATGCTCA
*
8941038 CTCTTCTTTCAGGGAGATAAGACTCAAAAAATATTTGGAAGTTGGGCCTGCTCCACACTTCTTTT
130 CTCTTCTTTCAGGGAGATAAGACTCAAAAAATATTTGGAAGATGGGCCTGCTCCACACTTCTTTT
* *
8941103 AGGAAGATAAGACCCAAAATATCTTTGGAAGACGGGTATGCTCCACTCTTCTTTCAGGGAGATAA
195 AGGAAGATAAGACCAAAAAAATCTTTGGAAGACGGGTATGCTCCACTCTTCTTTCAGGGAGATAA
*
8941168 GAATTGAAAAATCTC
260 GAATTGAAAAATATC
*
8941183 TGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTTGGAAGACAG
1 TGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTTGGAAAACAG
* ** *
8941248 GTCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAAAAATCTTTGGAAGACGGGTCTGCTCCA
66 GTCTGCTCCACTATTCTTCCAGGGAGATAAGACTCGAAAAATCTTTAAAAGACGGGTATGCT-CA
* *
8941313 CTCTTCTTTCAGAGG-GATAAGACTC-GAAAATATTTGGAAGATGGGTCTGCTCCACTA-TTCTT
130 CTCTTCTTTCAG-GGAGATAAGACTCAAAAAATATTTGGAAGATGGGCCTGCTCCAC-ACTTCTT
* * * * *
8941375 TCT-GGGAGATAAGACTAAAAAAATCTTTGGAAGACGGGTCTGCTCCACTCTTTTTTCAGGGCGA
193 T-TAGGAAGATAAGACCAAAAAAATCTTTGGAAGACGGGTATGCTCCACTCTTCTTTCAGGGAGA
* *
8941439 TAAGACTTGAAAAATATT
257 TAAGAATTGAAAAATATC
* * * *
8941457 TGGAAGACGGATCTGCTCTACTATTCTTTCAGGGAGATAAGACTCGAAAAATCTTT
1 TGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTT
8941513 TGATCCATTT
Statistics
Matches: 296, Mismatches: 30, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
274 240 0.81
275 54 0.18
276 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (274 bp):
TGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTTGGAAAACAG
GTCTGCTCCACTATTCTTCCAGGGAGATAAGACTCGAAAAATCTTTAAAAGACGGGTATGCTCAC
TCTTCTTTCAGGGAGATAAGACTCAAAAAATATTTGGAAGATGGGCCTGCTCCACACTTCTTTTA
GGAAGATAAGACCAAAAAAATCTTTGGAAGACGGGTATGCTCCACTCTTCTTTCAGGGAGATAAG
AATTGAAAAATATC
Found at i:8942471 original size:89 final size:89
Alignment explanation
Indices: 8942284--8942632 Score: 353
Period size: 89 Copynumber: 3.9 Consensus size: 89
8942274 AGAATCATAA
* * *** * * *
8942284 CACTGAAAGATTGATTTCTTTTTTTGAGAAAGTCAAGAATGAAAACACTAAAAGATTGACTCCTC
1 CACTAAAAGATTGACTTCTTTTCACGAAAAAGTCAAGAA-GATAACACTAAAAGATTGACTTCTC
* * * *
8942349 TTTACGAGAAAGTTAA-AGAAGACAA
65 TTCACGAGAAAGTCAAGAG-TGACAT
* ** * * *
8942374 CACTAAAAGATTGACTTCTTTTCACGAGAAAGTCAAGTTGATAATACTTAAATATTGACTTCTCT
1 CACTAAAAGATTGACTTCTTTTCACGAAAAAGTCAAGAAGATAACACTAAAAGATTGACTTCTCT
8942439 TCACGAGAAAGTCAAGAGTGACAT
66 TCACGAGAAAGTCAAGAGTGACAT
* * * * * *
8942463 CATTAAAAGGTTGACTACTTTCCACGAAAAAGTCAAGAACA-ACACCACTAAAAGGTTGACTTCT
1 CACTAAAAGATTGACTTCTTTTCACGAAAAAGTCAAGAAGATA-A-CACTAAAAGATTGACTTCT
*
8942527 CTTCACGAGAAAGTCAAGAATGACAT
64 CTTCACGAGAAAGTCAAGAGTGACAT
* * * **
8942553 CACT-AAATATTGACTTCTCTTCACGAAAAAGTCAAGGAAGATAACACTGAAAGATTGGTTTCTC
1 CACTAAAAGATTGACTTCTTTTCACGAAAAAGTCAA-GAAGATAACACTAAAAGATTGACTTCTC
*
8942617 TCCACGAGAAAGTCAA
65 TTCACGAGAAAGTCAA
8942633 TAACAACGCC
Statistics
Matches: 213, Mismatches: 41, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
88 1 0.00
89 129 0.61
90 82 0.38
91 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (89 bp):
CACTAAAAGATTGACTTCTTTTCACGAAAAAGTCAAGAAGATAACACTAAAAGATTGACTTCTCT
TCACGAGAAAGTCAAGAGTGACAT
Found at i:8942478 original size:134 final size:134
Alignment explanation
Indices: 8942309--8942693 Score: 393
Period size: 134 Copynumber: 2.9 Consensus size: 134
8942299 TTCTTTTTTT
* * * *
8942309 GAGAAAGTCAAGAATGAAAACACTAAAAGATTGACTCCTCTT-TACGAGAAAGTTAAAGAA-GAC
1 GAGAAAGTCAAGAATGAAAACACTAAAAGATTGACTACT-TTCCACGAAAAAG-TAAAGAACAAC
* *
8942372 AACACTAAAAGATTGACTTCTTTTCACGAGAAAGTCAAG-TTGATAAT-ACTTAAATATTGACTT
64 AACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATGA-AATCAC-TAAATATTGACTT
8942435 CTCTTCAC
127 CTCTTCAC
* * * * * * *
8942443 GAGAAAGTCAAGAGTGACATCATTAAAAGGTTGACTACTTTCCACGAAAAAGTCAAGAACAACAC
1 GAGAAAGTCAAGAATGAAAACACTAAAAGATTGACTACTTTCCACGAAAAAGTAAAGAACAACAA
* *
8942508 CACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAGAATGACATCACTAAATATTGACTTCTCT
66 CACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATGAAATCACTAAATATTGACTTCTCT
8942573 TCAC
131 TCAC
* * * ** * * * * * *
8942577 GAAAAAGTCAAGGAA-GATAACACTGAAAGATTGGTTTCTCTCCACGAGAAAGTCAATAACAACG
1 GAGAAAGTCAA-GAATGAAAACACTAAAAGATTGACTACTTTCCACGAAAAAGTAAAGAACAACA
* * * * * * *
8942641 CCACTAAAAGGTTGATTTCTCCTCATGATAAAGTCAAGAATGACATCACTAAA
65 ACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATGAAATCACTAAA
8942694 GATGGACACT
Statistics
Matches: 213, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
133 8 0.04
134 198 0.93
135 7 0.03
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (134 bp):
GAGAAAGTCAAGAATGAAAACACTAAAAGATTGACTACTTTCCACGAAAAAGTAAAGAACAACAA
CACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATGAAATCACTAAATATTGACTTCTCT
TCAC
Found at i:8942691 original size:45 final size:45
Alignment explanation
Indices: 8942231--8942693 Score: 339
Period size: 45 Copynumber: 10.3 Consensus size: 45
8942221 TTAAATTGAT
* * * * *
8942231 AATGACATCACTAAAATGTTGACTCCACTTTC-TGAGAAAGTTAAG
1 AATGACATCACTAAAAGGTTGACTTCTC-TTCACGAGAAAGTCAAG
* * * * * * * ***
8942276 AATCATAACACTGAAAGATTGATTTCTTTTTTTGAGAAAGTCAAG
1 AATGACATCACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAG
* * * * * *
8942321 AATGAAAACACTAAAAGATTGACTCCTCTTTACGAGAAAGTTAAAG
1 AATGACATCACTAAAAGGTTGACTTCTCTTCACGAGAAAG-TCAAG
* * *
8942367 AA-GACAACACTAAAAGATTGACTTCTTTTCACGAGAAAGTCAAG
1 AATGACATCACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAG
* * * **
8942411 -TTGATAAT-ACTTAAATATTGACTTCTCTTCACGAGAAAGTCAAG
1 AATGA-CATCACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAG
* * * *
8942455 AGTGACATCATTAAAAGGTTGACTACT-TTCCACGAAAAAGTCAAG
1 AATGACATCACTAAAAGGTTGACTTCTCTT-CACGAGAAAGTCAAG
** *
8942500 AACAACACCACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAG
1 AATGACATCACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAG
*
8942545 AATGACATCACTAAATA--TTGACTTCTCTTCACGAAAAAGTCAAGG
1 AATGACATCACTAAA-AGGTTGACTTCTCTTCACGAGAAAGTCAA-G
* * * * ** * *
8942590 AA-GATAACACTGAAAGATTGGTTTCTCTCCACGAGAAAGTCAAT
1 AATGACATCACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAG
** ** * * * *
8942634 AACAACGCCACTAAAAGGTTGATTTCTCCTCATGATAAAGTCAAG
1 AATGACATCACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAG
8942679 AATGACATCACTAAA
1 AATGACATCACTAAA
8942694 GATGGACACT
Statistics
Matches: 330, Mismatches: 75, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
43 1 0.00
44 81 0.25
45 239 0.72
46 9 0.03
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (45 bp):
AATGACATCACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAG
Found at i:8942696 original size:89 final size:88
Alignment explanation
Indices: 8942312--8942693 Score: 250
Period size: 89 Copynumber: 4.3 Consensus size: 88
8942302 TTTTTTTGAG
* * ** * * *
8942312 AAAGTCAAGAATGAAAACACTAAAAGATTGACTCCTCTTTACGAGAAAGTTAAAGAA-GACAACA
1 AAAGTCAAGAA-GACAACACTAAAAGATTGACTTCTCTCCACGAGAAAG-TCAAGAACAACACCA
* ** *
8942376 CTAAAAGATTGACTTCTTTTCACGAG
64 CT-AAATATTGACTTCTCCTCACGAA
** * * * * * *** * *
8942402 AAAGTCAAGTTGATAATACTTAAATATTGACTTCTCTTCACGAGAAAGTCAAGAGTGACATCATT
1 AAAGTCAAGAAGACAACACTAAAAGATTGACTTCTCTCCACGAGAAAGTCAAGAACAACACCACT
* *
8942467 AAA-AGGTTGACTACT-TTCCACGAA
66 AAATA--TTGACTTCTCCT-CACGAA
* * * * ** *
8942491 AAAGTCAAGAACAACACCACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAGAATGACATCAC
1 AAAGTCAAGAA-GACAACACTAAAAGATTGACTTCTCTCCACGAGAAAGTCAAGAACAACACCAC
*
8942556 TAAATATTGACTTCTCTTCACGAA
65 TAAATATTGACTTCTCCTCACGAA
* * ** * *
8942580 AAAGTCAAGGAAGATAACACTGAAAGATTGGTTTCTCTCCACGAGAAAGTCAATAACAACGCCAC
1 AAAGTCAA-GAAGACAACACTAAAAGATTGACTTCTCTCCACGAGAAAGTCAAGAACAACACCAC
* * *
8942645 TAAA-AGGTTGATTTCTCCTCATGAT
65 TAAATA--TTGACTTCTCCTCACGAA
*
8942670 AAAGTCAAGAATGACATCACTAAA
1 AAAGTCAAGAA-GACAACACTAAA
8942694 GATGGACACT
Statistics
Matches: 235, Mismatches: 46, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
87 1 0.00
88 11 0.05
89 129 0.55
90 93 0.40
91 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (88 bp):
AAAGTCAAGAAGACAACACTAAAAGATTGACTTCTCTCCACGAGAAAGTCAAGAACAACACCACT
AAATATTGACTTCTCCTCACGAA
Found at i:8955372 original size:20 final size:19
Alignment explanation
Indices: 8955319--8955364 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
8955309 CATAAGAATC
*
8955319 AAAAAATAGAAAATCAAAAAGG
1 AAAAAA-AGAAAA--AAAAAAG
8955341 AAAAAAAGAAAAAAAAAAG
1 AAAAAAAGAAAAAAAAAAG
8955360 AAAAA
1 AAAAA
8955365 TAATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 11 0.48
21 6 0.26
22 6 0.26
ACGTcount: A:0.83, C:0.02, G:0.11, T:0.04
Consensus pattern (19 bp):
AAAAAAAGAAAAAAAAAAG
Found at i:8957723 original size:29 final size:27
Alignment explanation
Indices: 8957690--8957746 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 27
8957680 CTATTGCAAC
*
8957690 ATATTTAACATCTGAAA-TATTATAAAATA
1 ATATTTAAAAT-T-AAAGTATTA-AAAATA
8957719 ATATTTAAAATTAAAGTATTAAAAATA
1 ATATTTAAAATTAAAGTATTAAAAATA
8957746 A
1 A
8957747 AGGATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 10 0.38
28 6 0.23
29 10 0.38
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (27 bp):
ATATTTAAAATTAAAGTATTAAAAATA
Found at i:8959023 original size:3 final size:3
Alignment explanation
Indices: 8959017--8959080 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
8959007 TAATAATTTT
* * *
8959017 ATA ATA ATA ATA ATA CTTA ATA AT- ATA ATT AT- ATA TATT ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
*
8959062 ATA GTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
8959081 AGTAATAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
2 4 0.08
3 42 0.84
4 4 0.08
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:8959062 original size:23 final size:26
Alignment explanation
Indices: 8959034--8959100 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
8959024 TAATAATACT
*
8959034 TAATAATATAATTATATAT-AT-TA-
1 TAATAATATAATTATATATAATAAAG
*
8959057 TAATAATAGTAATAATA-ATAATAAAG
1 TAATAATA-TAATTATATATAATAAAG
8959083 TAATAAATATAATTATAT
1 TAAT-AATATAATTATAT
8959101 TACTACATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
23 10 0.29
24 9 0.26
25 1 0.03
26 11 0.31
27 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (26 bp):
TAATAATATAATTATATATAATAAAG
Found at i:8959074 original size:15 final size:14
Alignment explanation
Indices: 8959016--8959088 Score: 60
Period size: 15 Copynumber: 4.8 Consensus size: 14
8959006 GTAATAATTT
8959016 TATAATAATAATAA
1 TATAATAATAATAA
8959030 TACTTAATAAT-ATAA
1 TA--TAATAATAATAA
8959045 TTATATATATTATAATAA
1 -TATA-ATA--ATAATAA
8959063 TAGTAATAATAATAA
1 TA-TAATAATAATAA
8959078 TA-AAGTAATAA
1 TATAA-TAATAA
8959089 ATATAATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
13 2 0.04
14 10 0.20
15 16 0.32
16 9 0.18
17 7 0.14
18 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (14 bp):
TATAATAATAATAA
Found at i:8959095 original size:9 final size:8
Alignment explanation
Indices: 8959016--8959100 Score: 68
Period size: 9 Copynumber: 10.4 Consensus size: 8
8959006 GTAATAATTT
8959016 TATAATAA
1 TATAATAA
*
8959024 TAATAATAC
1 T-ATAATAA
8959033 T-TAATAA
1 TATAATAA
*
8959040 TATAATTA
1 TATAATAA
*
8959048 TAT-ATAT
1 TATAATAA
8959055 TATAATAA
1 TATAATAA
8959063 TAGTAATAA
1 TA-TAATAA
8959072 TAATAATAA
1 T-ATAATAA
8959081 -AGTAATAAA
1 TA-TAAT-AA
*
8959090 TATAATTA
1 TATAATAA
8959098 TAT
1 TAT
8959101 TACTACATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
7 12 0.19
8 22 0.35
9 26 0.42
10 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (8 bp):
TATAATAA
Found at i:8959452 original size:119 final size:118
Alignment explanation
Indices: 8959230--8959750 Score: 760
Period size: 119 Copynumber: 4.4 Consensus size: 118
8959220 ATTAGGAAAT
* * * *
8959230 AAAACATCATACCCTGAGGCTTTACAGATGACCCGGAGGTTTTACAAATCACTCGAGGATTTAAT
1 AAAACATCCTACCCTGAGGTTTTACAGATGACACGGAGGTTTTACAAATCACACGAGGATTTAAT
* *
8959295 TTTCTAGAACATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTAATGCA
66 TTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCA
* * * * *
8959348 AAAATATCCTACCCTGAGGCTTTACAGATGACACGGACGTTTTATAAATCACACGAAGGATTTTA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACACGGAGGTTTTACAAATCACACG-AGGATTTAA
* * *
8959413 TTTTATAGAACATTAAATGAGGAACTTTGAAAATCGCTTTCTCATTTTCATGCG
65 TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCA
* * * * *
8959467 AAAACATCCTAGCCTGAAGTTTTACATATGACACAGAGGTTTTACAAATCACGCGGAGGATTTAA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACACGGAGGTTTTACAAATCACAC-GAGGATTTAA
8959532 TTTTCTAGAACATTAAATGAGAAACTTTG-AAATCGCTTTCTCATTTTCATGCA
65 TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCA
** *
8959585 AAAACATCCTA-CCTGAGGTTTTACAGATGAC-CTAAGGTTTTACAAATCACCCGTAGGATTTAA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACACGGAGGTTTTACAAATCACACG-AGGATTTAA
* *
8959648 TTTTCTAGAACATTAAATAAGAAACTTTGAAAATTGCTTTCTCATTTTCATGCA
65 TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCA
* *
8959702 AAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAAT
1 AAAACATCCTACCCTGAGGTTTTACAGATGACACGGAGGTTTTACAAAT
8959751 TTGTGGGAAA
Statistics
Matches: 363, Mismatches: 34, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
115 1 0.00
116 55 0.15
117 52 0.14
118 103 0.28
119 151 0.42
120 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (118 bp):
AAAACATCCTACCCTGAGGTTTTACAGATGACACGGAGGTTTTACAAATCACACGAGGATTTAAT
TTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCA
Found at i:8961136 original size:41 final size:41
Alignment explanation
Indices: 8961035--8961140 Score: 103
Period size: 41 Copynumber: 2.5 Consensus size: 41
8961025 GTTAATGCGA
8961035 GTCTTCAAAAATGCCCC-ACATGGATC-ATTTCTGTCTGAAATGG
1 GTCTTC-AAAATGCCCCAACAT---TCTATTTCTGTCTGAAATGG
*
8961078 GTCTTCAAAATGTCCCAACATTCTATTTCTGAT-TGAAATGG
1 GTCTTCAAAATGCCCCAACATTCTATTTCTG-TCTGAAATGG
**
8961119 G-CTTTCAGCATGCCCCAACATT
1 GTC-TTCAAAATGCCCCAACATT
8961141 TGTTTTGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
40 3 0.05
41 32 0.58
42 10 0.18
43 10 0.18
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (41 bp):
GTCTTCAAAATGCCCCAACATTCTATTTCTGTCTGAAATGG
Found at i:8966557 original size:18 final size:17
Alignment explanation
Indices: 8966522--8966554 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8966512 CATTATGAGA
8966522 CGGGGGTATCGGTACCT
1 CGGGGGTATCGGTACCT
8966539 CGGGGGTATCGGTACC
1 CGGGGGTATCGGTACC
8966555 CTCTGAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.24, G:0.42, T:0.21
Consensus pattern (17 bp):
CGGGGGTATCGGTACCT
Found at i:8968278 original size:342 final size:346
Alignment explanation
Indices: 8967729--8968374 Score: 814
Period size: 342 Copynumber: 1.9 Consensus size: 346
8967719 AGTTATGAAA
* * * * * * *
8967729 ATATTAGAGACCTTTGGGGTAAGTTTGGGCTTGGTTTGGGTTGGGATTGAGCCTAAATAGTTATA
1 ATATAAGAGACCTATGGGGCAAGTTTGGGCTTGATTTGGGTTAGGATTAAGCCCAAATAGTTATA
*
8967794 AAAATGGTATTTTTTTTAATTCAATAAAAAGAATGAGGGACAAGGTAAGTAACTAACCCTTAAAA
66 AAAATGGTA-TTTTTTGAATTCAATAAAAAGAATGAGGGACAAGGTAAGTAACTAACCCTTAAAA
* * *
8967859 TTCATTTCAAATACTGATCGCCCTTTATTGTTGGTGATGTCAACAGCTGAAGAAGATGAGGAAAA
130 TT-ATTTCAAATA-TAATCGCCCTTTATTGTTGGTGATGTCAACAGATGAAGAAGAGGAGGAAAA
* *
8967924 CTACCCCATTCTCTTCTAATTTTATTCATCTTCTTGTCTTCTTCTC-CTAAT-AAAAA-ATACT-
193 CCACCCCATTCTCTTCCAATTTTATTCATCTTCTTGTCTTCTTCTCAC-AATCAAAAACAT-CTC
* * * *
8967985 TTTTATCCCTCTTGTAACTTGATTAATGGTGATAGATTTATCACTCACTGTTCATTGACAAAAAT
256 TTCT-TCCCTCTTGTAACTTGATCAAAGGTCATAGATTTATCACTCACTGTTCATTGACAAAAAT
8968050 TCTAAAAATAACGATTTTAATCTTCTT
320 TCTAAAAATAACGATTTTAATCTTCTT
8968077 ATATAAGAGACCTATGGGGCAAGTTTGGGCTTGATTTGGGTTAGGATTAAGCCCAAATAGTTAT-
1 ATATAAGAGACCTATGGGGCAAGTTTGGGCTTGATTTGGGTTAGGATTAAGCCCAAATAGTTATA
* ** * * *
8968141 AAAATGGTA-TTTTTGAATTTAATGCAAAGAA-GTATGGTCAAAGG-AAGTAACTAACCCTTTTA
66 AAAATGGTATTTTTTGAATTCAATAAAAAGAATG-AGGGAC-AAGGTAAGTAACTAACCC-TTAA
** *
8968203 AATGT-TTT-AGCT-TAATC-CCTCTTTATTGTTGGTGATGTCAAC-GAATGAAGAAGAGGTGGA
128 AAT-TATTTCAAATATAATCGCC-CTTTATTGTTGGTGATGTCAACAG-ATGAAGAAGAGGAGGA
* * * *
8968263 AAGCCACCTCATTCTCTTCCAATTTTCTTCATCTTCTTGTCTTCTTCTCACATTCAAAAACATCT
190 AAACCACCCCATTCTCTTCCAATTTTATTCATCTTCTTGTCTTCTTCTCACAATCAAAAACATCT
*
8968328 CTTCTTCCCTCTTGTAACTTGATCAAAGGTCATAGATTTGTCACTCA
255 CTTCTTCCCTCTTGTAACTTGATCAAAGGTCATAGATTTATCACTCA
8968375 TTTTTCCTTA
Statistics
Matches: 257, Mismatches: 31, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
341 3 0.01
342 85 0.33
343 46 0.18
344 8 0.03
345 38 0.15
346 10 0.04
347 10 0.04
348 57 0.22
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (346 bp):
ATATAAGAGACCTATGGGGCAAGTTTGGGCTTGATTTGGGTTAGGATTAAGCCCAAATAGTTATA
AAAATGGTATTTTTTGAATTCAATAAAAAGAATGAGGGACAAGGTAAGTAACTAACCCTTAAAAT
TATTTCAAATATAATCGCCCTTTATTGTTGGTGATGTCAACAGATGAAGAAGAGGAGGAAAACCA
CCCCATTCTCTTCCAATTTTATTCATCTTCTTGTCTTCTTCTCACAATCAAAAACATCTCTTCTT
CCCTCTTGTAACTTGATCAAAGGTCATAGATTTATCACTCACTGTTCATTGACAAAAATTCTAAA
AATAACGATTTTAATCTTCTT
Found at i:8973140 original size:56 final size:56
Alignment explanation
Indices: 8973045--8973152 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
8973035 AATTCATGTG
* * *
8973045 AAAACATCCTACCCAAAGGTCTCATGGATGGCCCGAAGGACTTATCATCTTGGTGC
1 AAAACATCCTACCCAAAGGTCTCATGGATGACCCAAAGGACTTACCATCTTGGTGC
** * *
8973101 AAAACATCCTGGCCAAAGGTCTTATGGATGACCCAAAGGATTTACCATCTTG
1 AAAACATCCTACCCAAAGGTCTCATGGATGACCCAAAGGACTTACCATCTTG
8973153 CTCGAGAGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (56 bp):
AAAACATCCTACCCAAAGGTCTCATGGATGACCCAAAGGACTTACCATCTTGGTGC
Found at i:8973248 original size:268 final size:269
Alignment explanation
Indices: 8972818--8973368 Score: 721
Period size: 268 Copynumber: 2.0 Consensus size: 269
8972808 GCTCGGATGC
* * * * * *
8972818 CTTATTATCATGGTGAAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATC
1 CTTATCATCTTGGTGAAAAACATCCTGCCCAAAGGTCTTATGGATGACCCAAAGGACTTACCATC
** * ** * *
8972883 CTGCTTTAAAGACTTACGGATGACCCGAATGATTTAAGCACCATGCTCGAAAGACTTAATGTTGG
66 CTGCTCGAAAGACTCACAAATGACCCGAAGGATTTAAGCACCATGCTCGAAAGACTTAATGATGG
* ** *
8972948 CCCGAAGGACATACAAATCGTGAAATTTTGAAAATTACATTCTTTGTTTTCAAAAATTTCATCTT
131 CCCGAAGGACATACAAATCGTGAAATTTTGAAAATCACATTCTTCATTTTCAAAAATTCCATCTT
* *
8973013 CTTAAAACATGA-TTTT-TTTTCAAATTCATGTGAAAACATCCTACCCAAAGGTCTCATGGATGG
196 CTTAAAACATCATTTTTATTTTCAAATTCATATGAAAACATCCTACCCAAAGGTCTCATGGATGG
*
8973076 CCCGAAGGA
261 CCCGAAAGA
* * *
8973085 CTTATCATCTTGGTGCAAAACATCCTGGCCAAAGGTCTTATGGATGACCCAAAGGATTTACCATC
1 CTTATCATCTTGGTGAAAAACATCCTGCCCAAAGGTCTTATGGATGACCCAAAGGACTTACCATC
* * * * * *
8973150 TTGCTCGAGAGACTCACAAATGACCCGAAGGATTTTAAGCA-TAGTTCTCTAAAGACTTACTGAT
66 CTGCTCGAAAGACTCACAAATGACCCGAAGGA-TTTAAGCACCA-TGCTCGAAAGACTTAATGAT
* * * *
8973214 GGCCCGAAGGACTTAGAAATTGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTCCATC
129 GGCCCGAAGGACATACAAATCGTGAAATTTTGAAAATCACATTCTTCATTTTCAAAAATTCCATC
* * *
8973279 TTCTTAAAACATCATTTTTTCATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTTATGG
194 TTCTTAAAACATCA-TTTTT-ATTTTCAAATTCATATGAAAACATCCTACCCAAAGGTCTCATGG
8973344 ATGGCCCGAAAGA
257 ATGGCCCGAAAGA
8973357 CTTATCATCTTG
1 CTTATCATCTTG
8973369 CTCTAAAGGC
Statistics
Matches: 242, Mismatches: 36, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
267 81 0.33
268 94 0.39
270 4 0.02
272 63 0.26
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (269 bp):
CTTATCATCTTGGTGAAAAACATCCTGCCCAAAGGTCTTATGGATGACCCAAAGGACTTACCATC
CTGCTCGAAAGACTCACAAATGACCCGAAGGATTTAAGCACCATGCTCGAAAGACTTAATGATGG
CCCGAAGGACATACAAATCGTGAAATTTTGAAAATCACATTCTTCATTTTCAAAAATTCCATCTT
CTTAAAACATCATTTTTATTTTCAAATTCATATGAAAACATCCTACCCAAAGGTCTCATGGATGG
CCCGAAAGA
Found at i:8973473 original size:215 final size:215
Alignment explanation
Indices: 8973101--8973507 Score: 595
Period size: 215 Copynumber: 1.9 Consensus size: 215
8973091 ATCTTGGTGC
** * *
8973101 AAAACATCCTGGCCAAAGGTCTTATGGATGACCCAAAGGATTTACCATCTTGCTCGAGAGACTCA
1 AAAACATCCTACCCAAAGGTCTTATGGATGACCCAAAGGACTTACCATCTTGCTCGAAAGACTCA
* * * * *
8973166 CAAATGACCCGAAGGATTTTAAGCATAGTTCTCTAAAGACTTACTGATGGCCCGAAGGACTTAGA
66 CAAATGACCCGAAGGATTTTAAACATAGTGCTCAAAAGACTTACTAATGGCCCAAAGGACTTAGA
8973231 AATTGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTT
131 AATTGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTCCATCTTCTT-AAACATCATTT
8973296 TTTCATTTTCAAATTCATATG
195 TTTCATTTTCAAATTCATATG
* * * * * * *
8973317 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAA-GACTTATCATCTTGCTCTAAAGGCTT
1 AAAACATCCTACCCAAAGGTCTTATGGATGACCC-AAAGGACTTACCATCTTGCTCGAAAGACTC
*
8973381 ACAGATGACCCGAAGGA-TTTAAACATCA-TGCTCAAAAGACTTACTAATGGCCCAAAGGACTTA
65 ACAAATGACCCGAAGGATTTTAAACAT-AGTGCTCAAAAGACTTACTAATGGCCCAAAGGACTTA
* *
8973444 TAAATTGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTTCATCTTCTTAAACATCAT
129 GAAATTGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTCCATCTTCTTAAACATCAT
8973508 ACCCGAAGGT
Statistics
Matches: 170, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
214 9 0.05
215 92 0.54
216 66 0.39
217 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (215 bp):
AAAACATCCTACCCAAAGGTCTTATGGATGACCCAAAGGACTTACCATCTTGCTCGAAAGACTCA
CAAATGACCCGAAGGATTTTAAACATAGTGCTCAAAAGACTTACTAATGGCCCAAAGGACTTAGA
AATTGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTCCATCTTCTTAAACATCATTTT
TTCATTTTCAAATTCATATG
Found at i:8973520 original size:181 final size:182
Alignment explanation
Indices: 8973317--8973688 Score: 629
Period size: 181 Copynumber: 2.0 Consensus size: 182
8973307 AATTCATATG
* *
8973317 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAAGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCATACCCGAAGGTTTTATGGATGGCCCGAAAGACTTATCATCTTGCGCTAAAGGCTTA
*
8973382 CAGATGACCCGAAGGATTTAAACATCATGCTCAAAAGACTTACTAATGGCCCAAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAACATCATGCTCAAAAGACTTACTAATGACCCAAAGGACTTATAA
* *
8973447 ATTGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTTCATCTTCTT
131 ACTGTGAAATTTTGAAAATCACATTCTTCATTTTCAAAAATTTCATCTTCTT
* *
8973499 -AAACATCATACCCGAAGGTTTTATGGATTGCCCGAAGGACTTATCATCTTGCGCTAAAGGCTTA
1 AAAACATCATACCCGAAGGTTTTATGGATGGCCCGAAAGACTTATCATCTTGCGCTAAAGGCTTA
* * * * *
8973563 CAGATGACTCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAACATCATGCTCAAAAGACTTACTAATGACCCAAAGGACTTATAA
8973628 ACTGTGAAATTTTGAAAATCACATTCTTCATTTTCAAAAATTTCATCTTCTT
131 ACTGTGAAATTTTGAAAATCACATTCTTCATTTTCAAAAATTTCATCTTCTT
8973680 AAAACATCA
1 AAAACATCA
8973689 CTTTTCATTT
Statistics
Matches: 177, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
181 169 0.95
182 8 0.05
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (182 bp):
AAAACATCATACCCGAAGGTTTTATGGATGGCCCGAAAGACTTATCATCTTGCGCTAAAGGCTTA
CAGATGACCCGAAGGATTTAAACATCATGCTCAAAAGACTTACTAATGACCCAAAGGACTTATAA
ACTGTGAAATTTTGAAAATCACATTCTTCATTTTCAAAAATTTCATCTTCTT
Found at i:8974029 original size:215 final size:215
Alignment explanation
Indices: 8973509--8974267 Score: 1217
Period size: 211 Copynumber: 3.6 Consensus size: 215
8973499 AAACATCATA
* * * * *
8973509 CCCGAAGGTTTTATGGATTGCCCGAAGGACTTATCATCTTGCGCTAAAGGCTTACAGATGACTCG
1 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTACAGATGACCCG
* * *
8973574 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTATAAACTGTGAAATT
66 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTATGAAATT
* *
8973639 TTGAAAATCACATTCTTCATTTTCAAAAATTTCATCTTCTTAAAACATCAC-TTTTCATTTTCAA
131 TTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCACTTTTTCATTTTCAA
8973703 ATTCATTTGAAAACATCCCT
196 ATTCATTTGAAAACATCCCT
* * *
8973723 CCCGAAGGTTTTATGGATGACCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
1 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTACAGATGACCCG
*
8973788 AAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCG-AGGTACTTATAAATTATGAAAT
66 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG-ACTTATAAATTATGAAAT
*
8973852 TTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCACTTTTTCAGTTTCA
130 TTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCACTTTTTCATTTTCA
8973917 AATTCATTTGAAAACATCCCT
195 AATTCATTTGAAAACATCCCT
* *
8973938 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATTTTGCTCGAAAGACTTACAGATGACCCG
1 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTACAGATGACCCG
* * *
8974003 AAGGATTTAAACATCATGCTCGAAAGACTTATTGATGGCCCGAGGGACTT-T---TTATGAAATT
66 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTATGAAATT
* * *
8974064 TTGAAAATTGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTTTCAA
131 TTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCACTTTTTCATTTTCAA
8974129 ATTCATTTGAAAACAT-CCT
196 ATTCATTTGAAAACATCCCT
* *
8974148 ACCCAAAGGTCTTATGGATGGCCCGAAGAACTTATCATCTTGCTCTAAAGACTTACAGATGACCC
1 -CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTACAGATGACCC
*
8974213 GAAGGATTTAAGCATCATGCTCGAAAGACTTACAGATGGCCCGAAGGACTTATAA
65 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
8974268 CGATGGACTT
Statistics
Matches: 508, Mismatches: 30, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
210 3 0.01
211 194 0.38
212 1 0.00
213 3 0.01
214 168 0.33
215 137 0.27
216 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (215 bp):
CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTACAGATGACCCG
AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTATGAAATT
TTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCACTTTTTCATTTTCAA
ATTCATTTGAAAACATCCCT
Found at i:8974045 original size:42 final size:41
Alignment explanation
Indices: 8973947--8974052 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 41
8973937 TCCCGAAGGT
* * **
8973947 CTTATGGATGGCCCGAAGGACTTATCATTTTGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTAACATCATGCTCGAAAGA
* * *
8973988 CTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-AACATCATGCTCGAAAGA
* *
8974030 CTTATTGATGGCCCGAGGGACTT
1 CTTATAGATGGCCCGAAGGACTT
8974053 TTTATGAAAT
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 19 0.37
42 33 0.63
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTAACATCATGCTCGAAAGA
Found at i:8974262 original size:20 final size:20
Alignment explanation
Indices: 8974197--8974264 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
8974187 TTGCTCTAAA
*
8974197 GACTTACAGATGACCCGAAG
1 GACTTACAGATGGCCCGAAG
* * * *
8974217 GATTTA-AGCATCATGCTCGAAA
1 GACTTACAG-AT--GGCCCGAAG
8974239 GACTTACAGATGGCCCGAAG
1 GACTTACAGATGGCCCGAAG
8974259 GACTTA
1 GACTTA
8974265 TAACGATGGA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
19 2 0.06
20 19 0.54
22 12 0.34
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (20 bp):
GACTTACAGATGGCCCGAAG
Found at i:8974348 original size:97 final size:98
Alignment explanation
Indices: 8974177--8974362 Score: 329
Period size: 97 Copynumber: 1.9 Consensus size: 98
8974167 GGCCCGAAGA
*
8974177 ACTTATCATCTTGCTCTAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
1 ACTTATCATCTTGCTCTAAAGACTTACAGATGACCCGAAGAATTTAAGCATCATGCTCGAAAGAC
*
8974242 TTACAGATGG-CCCGAAGGACTTATAACGATGG
66 TTACAGATGGCCCCAAAGGACTTATAACGATGG
*
8974274 ACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGAATTTAAGCATCATGCTCGAAAGAC
1 ACTTATCATCTTGCTCTAAAGACTTACAGATGACCCGAAGAATTTAAGCATCATGCTCGAAAGAC
*
8974339 TTACTGATGGCCCCAAAGGACTTA
66 TTACAGATGGCCCCAAAGGACTTA
8974363 AAAATTATGA
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
97 72 0.86
98 12 0.14
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (98 bp):
ACTTATCATCTTGCTCTAAAGACTTACAGATGACCCGAAGAATTTAAGCATCATGCTCGAAAGAC
TTACAGATGGCCCCAAAGGACTTATAACGATGG
Found at i:8974522 original size:34 final size:34
Alignment explanation
Indices: 8974484--8974862 Score: 443
Period size: 34 Copynumber: 10.9 Consensus size: 34
8974474 TGGATGGATT
*
8974484 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGG
* *
8974518 TGCTTCACTACTCCTCTGTGAAGGCTTAAGATAG
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGG
** *
8974552 TGCTTCACTACTCCCCTGTGAAGGCTTAAGATAG
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGG
*
8974586 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGAT
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATG-G
* * * *
8974621 TGATTCACTACTCTCCGGTGAAGGTTTAAGATGG
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGG
*
8974655 TTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGG
1 --TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGG
* * * *
8974691 TGCTTTACTACTCTTTTATGAAGGCTTAAGATGAT
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATG-G
* ** * *
8974726 TACTTTTCTACTCTCCGGTGAAGGCTTAAGATGG
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGG
* *
8974760 TTTGCTTCACTAATCCTCTGTGAAGGCTTAAGATGG
1 --TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGG
* *
8974796 TGCTTCACTACACTTCTGTGAAGGCTTAAGATGAT
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATG-G
* * *
8974831 TGCTTCACTACTCTCCGGAGAAGGCTTAAGAT
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGAT
8974863 TGACTTTGCT
Statistics
Matches: 293, Mismatches: 45, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
34 153 0.52
35 84 0.29
36 56 0.19
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (34 bp):
TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGG
Found at i:8974694 original size:105 final size:105
Alignment explanation
Indices: 8974484--8974862 Score: 552
Period size: 105 Copynumber: 3.6 Consensus size: 105
8974474 TGGATGGATT
* * * *
8974484 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATG-GTGCTTCACTACTC-CTCTGTGAAGGCTTAA
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGATTCACTACTCTC-CGGTGAAGGCTTAA
* * *
8974547 GATAG--TGCTTCACTACTCCCCTGTGAAGGCTTAAGATAG
65 GATGGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGG
*
8974586 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGATTCACTACTCTCCGGTGAAGGTTTAAG
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGATTCACTACTCTCCGGTGAAGGCTTAAG
8974651 ATGGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGG
66 ATGGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGG
* * * **
8974691 TGCTTTACTACTCTTTTATGAAGGCTTAAGATGATT-ACTTTTCTACTCTCCGGTGAAGGCTTAA
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGA-TTCACTACTCTCCGGTGAAGGCTTAA
*
8974755 GATGGTTTGCTTCACTAATCCTCTGTGAAGGCTTAAGATGG
65 GATGGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGG
* * *
8974796 TGCTTCACTACACTTCTGTGAAGGCTTAAGATGATTGCTTCACTACTCTCCGGAGAAGGCTTAAG
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGATTCACTACTCTCCGGTGAAGGCTTAAG
8974861 AT
66 AT
8974863 TGACTTTGCT
Statistics
Matches: 248, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
102 32 0.13
103 28 0.11
104 2 0.01
105 186 0.75
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (105 bp):
TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGATTGATTCACTACTCTCCGGTGAAGGCTTAAG
ATGGTTTGCTTCACTACTCCTCTGTGAAGGCTTAAGATGG
Found at i:8974800 original size:139 final size:138
Alignment explanation
Indices: 8974476--8974862 Score: 492
Period size: 139 Copynumber: 2.8 Consensus size: 138
8974466 AGGTCATATG
*
8974476 GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTGCTTCACTACTCCTCTGTGAAG
1 GATGG-TTTGCTTCACTACTCCTCGGTGAAGGCTTAAGATGGTGCTTCACTACTCCTCTGTGAAG
* * * * * *
8974541 GCTTAAGATAGTGCTTCACTACTCCCCTGTGAAGGCTTAAGATAGTGCTTCACTACTCTTCTGTG
65 GCTTAAGATGGTGCTTCACTACTCTCCTATGAAGGCTTAAGATAGTACTTCACTACTCTCCGGTG
8974606 AAGGCTTAA
130 AAGGCTTAA
* * *
8974615 GAT-GATTGATTCACTACT-CTCCGGTGAAGGTTTAAGATGGTTTGCTTCACTACTCCTCTGTGA
1 GATGGTTTGCTTCACTACTCCT-CGGTGAAGGCTTAAGATGG--TGCTTCACTACTCCTCTGTGA
* ** * **
8974678 AGGCTTAAGATGGTGCTTTACTACTCTTTTATGAAGGCTTAAGATGATTACTTTTCTACTCTCCG
63 AGGCTTAAGATGGTGCTTCACTACTCTCCTATGAAGGCTTAAGAT-AGTACTTCACTACTCTCCG
8974743 GTGAAGGCTTAA
127 GTGAAGGCTTAA
* * * *
8974755 GATGGTTTGCTTCACTAATCCTCTGTGAAGGCTTAAGATGGTGCTTCACTACACTTCTGTGAAGG
1 GATGGTTTGCTTCACTACTCCTCGGTGAAGGCTTAAGATGGTGCTTCACTACTCCTCTGTGAAGG
* *
8974820 CTTAAGATGATTGCTTCACTACTCTCCGGA-GAAGGCTTAAGAT
66 CTTAAGATG-GTGCTTCACTACTCTCC-TATGAAGGCTTAAGAT
8974863 TGACTTTGCT
Statistics
Matches: 212, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
136 1 0.00
137 30 0.14
138 1 0.00
139 94 0.44
140 54 0.25
141 30 0.14
142 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (138 bp):
GATGGTTTGCTTCACTACTCCTCGGTGAAGGCTTAAGATGGTGCTTCACTACTCCTCTGTGAAGG
CTTAAGATGGTGCTTCACTACTCTCCTATGAAGGCTTAAGATAGTACTTCACTACTCTCCGGTGA
AGGCTTAA
Found at i:8977054 original size:13 final size:13
Alignment explanation
Indices: 8977038--8977080 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
8977028 TTTTCAATTT
8977038 TTTCTTTCTTTTC
1 TTTCTTTCTTTTC
8977051 TTTC-TTCTTTTC
1 TTTCTTTCTTTTC
*
8977063 TTT-TCTTCTTCTC
1 TTTCT-TTCTTTTC
8977076 TTTCT
1 TTTCT
8977081 ACAATTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 11 0.42
13 14 0.54
14 1 0.04
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:8977058 original size:16 final size:15
Alignment explanation
Indices: 8977039--8977074 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
8977029 TTTCAATTTT
8977039 TTCTTTCTTTTCTTTC
1 TTCTTTCTTTTC-TTC
8977055 TTCTTTTCTTTTCTTC
1 TTC-TTTCTTTTCTTC
8977071 TTCT
1 TTCT
8977075 CTTTCTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.05
16 9 0.47
17 9 0.47
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (15 bp):
TTCTTTCTTTTCTTC
Found at i:8977064 original size:17 final size:17
Alignment explanation
Indices: 8977040--8977080 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
8977030 TTCAATTTTT
8977040 TCTTTCTTTTCTTTCTTC
1 TCTTTCTTTTC-TTCTTC
8977058 T-TTTCTTTTCTTCTTC
1 TCTTTCTTTTCTTCTTC
8977074 TCTTTCT
1 TCTTTCT
8977081 ACAATTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 14 0.64
18 1 0.05
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TCTTTCTTTTCTTCTTC
Found at i:8977088 original size:25 final size:26
Alignment explanation
Indices: 8977032--8977097 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 26
8977022 TTCTCATTTT
* *
8977032 CAATT-TTTTCTTTCTTTTCTTTCTT
1 CAATTCTTTTCTTTCTTCTCTTTCTA
**
8977057 CTTTTCTTTTC-TTCTTCTCTTTCTA
1 CAATTCTTTTCTTTCTTCTCTTTCTA
* *
8977082 CAATTCTCTTATTTCT
1 CAATTCTTTTCTTTCT
8977098 CCTCATGATG
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
25 22 0.71
26 9 0.29
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (26 bp):
CAATTCTTTTCTTTCTTCTCTTTCTA
Found at i:8979415 original size:7 final size:7
Alignment explanation
Indices: 8979403--8979436 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
8979393 AATACATGCA
8979403 ATGCAAC
1 ATGCAAC
8979410 ATGCAAC
1 ATGCAAC
8979417 ATGCAAC
1 ATGCAAC
8979424 ATGCAAC
1 ATGCAAC
8979431 ATGCAA
1 ATGCAA
8979437 ATCCAAATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.26, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGCAAC
Found at i:8979429 original size:21 final size:19
Alignment explanation
Indices: 8979396--8979436 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 19
8979386 TTAAACAAAT
8979396 ACATGCAATGCAACATGCA
1 ACATGCAATGCAACATGCA
8979415 ACATGCAACATGCAACATGCA
1 ACATGC-A-ATGCAACATGCA
8979436 A
1 A
8979437 ATCCAAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.30
20 1 0.05
21 13 0.65
ACGTcount: A:0.44, C:0.27, G:0.15, T:0.15
Consensus pattern (19 bp):
ACATGCAATGCAACATGCA
Found at i:8982006 original size:47 final size:47
Alignment explanation
Indices: 8981955--8982051 Score: 122
Period size: 47 Copynumber: 2.1 Consensus size: 47
8981945 GTCATTCACA
* * * *
8981955 AAAAACCTAACCGCATGGTATCTAATTCACATGCTTTGTGCGAAAAT
1 AAAAACCTAACCACATGATATCTAATTCACATACTTTGTGCAAAAAT
* * * *
8982002 AAAAACCTAACCACATGATCTCTAGTTCGCATACTTTTTGCAAAAAT
1 AAAAACCTAACCACATGATATCTAATTCACATACTTTGTGCAAAAAT
8982049 AAA
1 AAA
8982052 TAAATTTGAG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (47 bp):
AAAAACCTAACCACATGATATCTAATTCACATACTTTGTGCAAAAAT
Found at i:8991780 original size:22 final size:22
Alignment explanation
Indices: 8991755--8991796 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8991745 AAGGATACAT
*
8991755 AAGTGCACTATCACTAATATGG
1 AAGTGCACTAGCACTAATATGG
*
8991777 AAGTGCACTAGCACTGATAT
1 AAGTGCACTAGCACTAATAT
8991797 ACTAAAGTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (22 bp):
AAGTGCACTAGCACTAATATGG
Found at i:8991916 original size:24 final size:24
Alignment explanation
Indices: 8991884--8991931 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8991874 AGTAGCTCAA
8991884 GTGTCCTCATTGTTTCCCGAGTAT
1 GTGTCCTCATTGTTTCCCGAGTAT
*
8991908 GTGTCCTCATTGTTTCCTGAGTAT
1 GTGTCCTCATTGTTTCCCGAGTAT
8991932 CAAACAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (24 bp):
GTGTCCTCATTGTTTCCCGAGTAT
Found at i:8992795 original size:14 final size:14
Alignment explanation
Indices: 8992776--8992803 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8992766 GTTACTCTCA
8992776 ACCACTTTGTGTAT
1 ACCACTTTGTGTAT
8992790 ACCACTTTGTGTAT
1 ACCACTTTGTGTAT
8992804 TAATACCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
ACCACTTTGTGTAT
Found at i:8992894 original size:21 final size:21
Alignment explanation
Indices: 8992868--8992915 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
8992858 CAGGTATGGG
*
8992868 TACCAACTTATCTGATATAAA
1 TACCAACTCATCTGATATAAA
* * *
8992889 TACCAACTCATTTGGTATAGA
1 TACCAACTCATCTGATATAAA
8992910 TACCAA
1 TACCAA
8992916 TTCGTCCGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (21 bp):
TACCAACTCATCTGATATAAA
Found at i:8992969 original size:21 final size:21
Alignment explanation
Indices: 8992923--8992963 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8992913 CAATTCGTCC
*
8992923 GGTATGGATACTAGTTCATCA
1 GGTATGAATACTAGTTCATCA
8992944 GGTATGAATACTAGTTCATC
1 GGTATGAATACTAGTTCATC
8992964 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (21 bp):
GGTATGAATACTAGTTCATCA
Found at i:8995375 original size:22 final size:22
Alignment explanation
Indices: 8995350--8995394 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
8995340 ACTTAATTTC
8995350 AACATTTGATATTGCATAAAGT
1 AACATTTGATATTGCATAAAGT
8995372 AACATTTGATATTGCATAAAGT
1 AACATTTGATATTGCATAAAGT
8995394 A
1 A
8995395 TTTTAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (22 bp):
AACATTTGATATTGCATAAAGT
Found at i:9009315 original size:2 final size:2
Alignment explanation
Indices: 9009310--9009341 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9009300 ACACACACAC
9009310 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9009342 GCACTTGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9012169 original size:140 final size:140
Alignment explanation
Indices: 9012006--9012285 Score: 560
Period size: 140 Copynumber: 2.0 Consensus size: 140
9011996 AATCTCTCTC
9012006 TGGAAATTCAAAGTCAAGGTTTTTTTTAATCAAGGAAGTTAAGTTGAATTTTAAACAATGGTTCA
1 TGGAAATTCAAAGTCAAGGTTTTTTTTAATCAAGGAAGTTAAGTTGAATTTTAAACAATGGTTCA
9012071 TATCCCCTTTCAACATTTGCAAAGTTAAGTAAATCCATACAAATACTAAATAGTATATAAAAAAG
66 TATCCCCTTTCAACATTTGCAAAGTTAAGTAAATCCATACAAATACTAAATAGTATATAAAAAAG
9012136 ATTAAAGATA
131 ATTAAAGATA
9012146 TGGAAATTCAAAGTCAAGGTTTTTTTTAATCAAGGAAGTTAAGTTGAATTTTAAACAATGGTTCA
1 TGGAAATTCAAAGTCAAGGTTTTTTTTAATCAAGGAAGTTAAGTTGAATTTTAAACAATGGTTCA
9012211 TATCCCCTTTCAACATTTGCAAAGTTAAGTAAATCCATACAAATACTAAATAGTATATAAAAAAG
66 TATCCCCTTTCAACATTTGCAAAGTTAAGTAAATCCATACAAATACTAAATAGTATATAAAAAAG
9012276 ATTAAAGATA
131 ATTAAAGATA
9012286 ACTAGAAACC
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (140 bp):
TGGAAATTCAAAGTCAAGGTTTTTTTTAATCAAGGAAGTTAAGTTGAATTTTAAACAATGGTTCA
TATCCCCTTTCAACATTTGCAAAGTTAAGTAAATCCATACAAATACTAAATAGTATATAAAAAAG
ATTAAAGATA
Found at i:9016073 original size:96 final size:96
Alignment explanation
Indices: 9015961--9016150 Score: 256
Period size: 96 Copynumber: 2.0 Consensus size: 96
9015951 CTAATTTACT
* * * * *
9015961 GGTTTATGAACTATGGTTGCTTGAAATATGTTCCT-TGGTTACATGTTTTCACTATAAAATATTA
1 GGTTTATGAACTATGGTTACCTGAAATATGTT-ATATGGTTACATGTTTTCACTAGAAAATATGA
* *
9016025 TCGTTCTTGTTTTATAGATCATGGAATCTACA
65 TCGTTCTTGATTTATAGATCATGAAATCTACA
* *
9016057 GGTTTATGAACTATGGTTACCTGAAATGTGTTATATGGTTTCATGTTTTCACTAGAAAATATGAT
1 GGTTTATGAACTATGGTTACCTGAAATATGTTATATGGTTACATGTTTTCACTAGAAAATATGAT
* * *
9016122 TGTTTTTGATTTATGGATCATGAAATCTA
66 CGTTCTTGATTTATAGATCATGAAATCTA
9016151 TTGGTTACTA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 1 0.01
96 80 0.99
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.44
Consensus pattern (96 bp):
GGTTTATGAACTATGGTTACCTGAAATATGTTATATGGTTACATGTTTTCACTAGAAAATATGAT
CGTTCTTGATTTATAGATCATGAAATCTACA
Found at i:9021533 original size:3 final size:3
Alignment explanation
Indices: 9021527--9021597 Score: 61
Period size: 3 Copynumber: 23.7 Consensus size: 3
9021517 GCTGTCATCA
* * * * * * * *
9021527 TCG TCG TCG TCG TCA TCG TCA TCG TCA TCA TCA TCG TCA TCG TCA TTG
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG
*
9021575 TCG TCA TCG TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TC
9021598 CTGAGCAGGT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.11, C:0.32, G:0.21, T:0.35
Consensus pattern (3 bp):
TCG
Found at i:9021538 original size:6 final size:6
Alignment explanation
Indices: 9021520--9021597 Score: 75
Period size: 6 Copynumber: 12.5 Consensus size: 6
9021510 ACTCCTCGCT
* * * *
9021520 GTCATC ATCGTC GTCGTC GTCATC GTCATC GTCATC ATCATC GTCATC
1 GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC
* *
9021568 GTCATTGTC GTCATC GTCGTC GTCGTC GTC
1 GTCA---TC GTCATC GTCATC GTCATC GTC
9021598 CTGAGCAGGT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
6 56 0.90
9 6 0.10
ACGTcount: A:0.13, C:0.32, G:0.21, T:0.35
Consensus pattern (6 bp):
GTCATC
Found at i:9023601 original size:111 final size:111
Alignment explanation
Indices: 9023464--9023796 Score: 594
Period size: 111 Copynumber: 3.0 Consensus size: 111
9023454 ATTACAAAAA
9023464 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
9023529 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
9023575 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
9023640 AATTAAAACGTTAAAATGTTATCGTATCAGCAAAGTGTTGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
*
9023686 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* ** *
9023751 AATTAAAAAGTTGTAATGTTACCGTATCAACAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
9023797 ATGATTTCCA
Statistics
Matches: 213, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 213 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:9023880 original size:17 final size:18
Alignment explanation
Indices: 9023860--9023893 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9023850 ATTATATTAA
9023860 TAAAATA-TTAAATAAAG
1 TAAAATACTTAAATAAAG
9023877 TAAAATACTTAAATAAA
1 TAAAATACTTAAATAAA
9023894 TTATATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAAATACTTAAATAAAG
Found at i:9023955 original size:12 final size:10
Alignment explanation
Indices: 9023939--9023980 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
9023929 CCTTAAAAAG
*
9023939 TGAGAGTATT
1 TGAGAGAATT
9023949 TGAGAGAAATT
1 TGAGAG-AATT
9023960 T-AGAGAATT
1 TGAGAGAATT
9023969 TGAGAGAATT
1 TGAGAGAATT
9023979 TG
1 TG
9023981 GTGTGAGGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.17
10 20 0.69
11 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.33
Consensus pattern (10 bp):
TGAGAGAATT
Found at i:9024544 original size:14 final size:15
Alignment explanation
Indices: 9024522--9024553 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
9024512 TTAATTTTTA
9024522 AATTATTATTTAACT
1 AATTATTATTTAACT
9024537 AATT-TTATTTAACT
1 AATTATTATTTAACT
9024551 AAT
1 AAT
9024554 ATAGTGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTATTATTTAACT
Found at i:9024951 original size:28 final size:27
Alignment explanation
Indices: 9024898--9024980 Score: 73
Period size: 28 Copynumber: 3.1 Consensus size: 27
9024888 TATAAAAATA
* *
9024898 TTAA-TTAAAATTAAATAAATT-CTTAT
1 TTAATTTAAAATTAAAT-ATTTATTTAT
9024924 TTCAATTTAAAATTAAATATTTATTTAT
1 TT-AATTTAAAATTAAATATTTATTTAT
* * *
9024952 ATATTTATAAAATT-AATATTAATTTAT
1 TTAATT-TAAAATTAAATATTTATTTAT
9024979 TT
1 TT
9024981 TAAAAATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
26 2 0.04
27 21 0.45
28 24 0.51
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAATTTAAAATTAAATATTTATTTAT
Found at i:9024971 original size:23 final size:23
Alignment explanation
Indices: 9024945--9024990 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9024935 ATTAAATATT
*
9024945 TATTTATATA-TTTATAAAATTAA
1 TATTAATATATTTTA-AAAATTAA
*
9024968 TATTAATTTATTTTAAAAATTAA
1 TATTAATATATTTTAAAAATTAA
9024991 GTTCATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTAATATATTTTAAAAATTAA
Found at i:9025130 original size:15 final size:16
Alignment explanation
Indices: 9025110--9025141 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
9025100 TTTAATATTT
9025110 AAATTTAA-AAATAAA
1 AAATTTAATAAATAAA
9025125 AAATTTAATAAATAAA
1 AAATTTAATAAATAAA
9025141 A
1 A
9025142 TTTAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATTTAATAAATAAA
Found at i:9025143 original size:14 final size:14
Alignment explanation
Indices: 9025110--9025148 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
9025100 TTTAATATTT
9025110 AAATTTAAAAATAAA
1 AAATTTAAAAAT-AA
9025125 AAATTTAATAAAT-A
1 AAATTTAA-AAATAA
9025139 AAATTTAAAA
1 AAATTTAAAA
9025149 TTATTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 9 0.39
15 8 0.35
16 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATTTAAAAATAA
Found at i:9029912 original size:20 final size:20
Alignment explanation
Indices: 9029875--9029912 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9029865 AATGAATTGG
* *
9029875 TTGAAAATCGGTAGAATCGA
1 TTGAAAATCGATAAAATCGA
9029895 TTGAAAATCGATAAAATC
1 TTGAAAATCGATAAAATC
9029913 AGGGTGAATT
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:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (20 bp):
TTGAAAATCGATAAAATCGA
Found at i:9031347 original size:34 final size:31
Alignment explanation
Indices: 9031258--9031348 Score: 75
Period size: 34 Copynumber: 2.9 Consensus size: 31
9031248 TAATGATAAT
9031258 TATATA-CTTTTGAATATTTCAAATTAAAAC
1 TATATATCTTTTGAATATTTCAAATTAAAAC
* * *
9031288 -A-ATATCTATTT-AA-GTTTGATGATTAAAAC
1 TATATATCT-TTTGAATATTTCA-AATTAAAAC
9031317 ATGTATATATCTTTTGAATATTTCAAATTAAA
1 ---TATATATCTTTTGAATATTTCAAATTAAA
9031349 TGATATTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
28 7 0.16
29 13 0.29
30 3 0.07
33 4 0.09
34 14 0.31
35 4 0.09
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.44
Consensus pattern (31 bp):
TATATATCTTTTGAATATTTCAAATTAAAAC
Found at i:9034668 original size:32 final size:31
Alignment explanation
Indices: 9034630--9034706 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
9034620 CGGGGCCGTG
* * *
9034630 GGGCCTACCTAAGAACACATCTTAGGGCTGTA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
9034662 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
9034693 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
9034707 GTCACATTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 22 0.61
32 14 0.39
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:9034689 original size:63 final size:63
Alignment explanation
Indices: 9034583--9034706 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
9034573 CCCTAAGGGA
* * ** *
9034583 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
9034646 ACATCTTAGGG-CTGTAGGGCCTACCCGAGAATA-ATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAG-ATAGATCTCAGGGCCGCAGAGCCTACCTAAGA
9034707 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 3 0.06
63 46 0.88
64 3 0.06
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:9035625 original size:17 final size:17
Alignment explanation
Indices: 9035603--9035663 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 17
9035593 AACGGTCAAC
9035603 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
9035620 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
9035637 GGTCGGGTAAACGGTCGGGTCG
1 GGTC-----AACGGTCGGGTCG
9035659 GGTCA
1 GGTCA
9035664 GACCGGTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 22 0.56
22 17 0.44
ACGTcount: A:0.13, C:0.21, G:0.48, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:9035630 original size:7 final size:7
Alignment explanation
Indices: 9035576--9035613 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
9035566 GTCAAAGAAA
9035576 GTCAACG
1 GTCAACG
*
9035583 ATCAACG
1 GTCAACG
9035590 GTCAACG
1 GTCAACG
9035597 GTCAACG
1 GTCAACG
9035604 GTCAACG
1 GTCAACG
9035611 GTC
1 GTC
9035614 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:9035638 original size:22 final size:22
Alignment explanation
Indices: 9035596--9035662 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
9035586 AACGGTCAAC
*
9035596 GGTCAACGGTCAACGGTCGGGTCG
1 GGTCAACGGTC--GGGTCGGGTCG
9035620 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
9035642 GGTAAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
9035663 AGACCGGTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 30 0.73
24 11 0.27
ACGTcount: A:0.13, C:0.22, G:0.46, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:9035677 original size:9 final size:9
Alignment explanation
Indices: 9035659--9035757 Score: 90
Period size: 9 Copynumber: 10.3 Consensus size: 9
9035649 GGTCGGGTCG
*
9035659 GGTCAGACC
1 GGTCAAACC
9035668 GGTCAAACC
1 GGTCAAACC
* *
9035677 GATTCAGACC
1 G-GTCAAACC
9035687 GGTCAAACC
1 GGTCAAACC
*
9035696 GGTTCGAACC
1 GG-TCAAACC
*
9035706 GGTTGAAACC
1 GG-TCAAACC
9035716 GGTCAAACC
1 GGTCAAACC
9035725 GGTCAGAACC
1 GGTCA-AACC
*
9035735 GGTTGAAAACC
1 GG-T-CAAACC
9035746 GGTCAAACC
1 GGTCAAACC
9035755 GGT
1 GGT
9035758 TTCCAGCAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
9 36 0.49
10 30 0.41
11 7 0.09
12 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:9035683 original size:19 final size:19
Alignment explanation
Indices: 9035661--9035758 Score: 101
Period size: 19 Copynumber: 5.1 Consensus size: 19
9035651 TCGGGTCGGG
*
9035661 TCAGACCGGTCAAACCGAT
1 TCAGACCGGTCAAACCGGT
9035680 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
9035699 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
*
9035718 TCAAACCGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
* *
9035738 TGAAAACCGGTCAAACCGGT
1 T-CAGACCGGTCAAACCGGT
9035758 T
1 T
9035759 TCCAGCAGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
18 3 0.04
19 38 0.56
20 17 0.25
21 10 0.15
ACGTcount: A:0.30, C:0.29, G:0.26, T:0.16
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:9035716 original size:29 final size:31
Alignment explanation
Indices: 9035684--9035758 Score: 129
Period size: 29 Copynumber: 2.5 Consensus size: 31
9035674 ACCGATTCAG
9035684 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
9035713 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
9035743 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
9035759 TCCAGCAGCC
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 2 0.05
29 24 0.56
30 16 0.37
31 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.16
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:9041616 original size:32 final size:31
Alignment explanation
Indices: 9041578--9041654 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
9041568 CGGGGCCGTG
* * *
9041578 GGGCCTACCTAAGAACACATCTTAGGGCTGTA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
9041610 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
9041641 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
9041655 GTCACATTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 22 0.61
32 14 0.39
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:9041619 original size:63 final size:63
Alignment explanation
Indices: 9041531--9041654 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
9041521 ACCTAAGGGA
* * ** *
9041531 ACATCTTAGGGCCTGAGAGCCTACCCAAG-ATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGAATA-ATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
9041594 ACATCTTAGGG-CTGTAGGGCCTACCCGAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGA
9041655 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 3 0.06
63 46 0.88
64 3 0.06
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:9042554 original size:17 final size:17
Alignment explanation
Indices: 9042532--9042569 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
9042522 AACGGTCAAC
9042532 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
9042549 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
9042566 GGTC
1 GGTC
9042570 GGGTCAGACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:9042557 original size:24 final size:24
Alignment explanation
Indices: 9042525--9042585 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
9042515 GAAAGTCAAC
9042525 GGTCAACGGTCAACGGTCGGGTCG
1 GGTCAACGGTCAACGGTCGGGTCG
*
9042549 GGTCAACGGTC--GGGTCGGGTCG
1 GGTCAACGGTCAACGGTCGGGTCG
9042571 GGTCAGACCGGTCAA
1 GGTCA-A-CGGTCAA
9042586 ACCGATTCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 15 0.47
23 1 0.03
24 16 0.50
ACGTcount: A:0.16, C:0.25, G:0.43, T:0.16
Consensus pattern (24 bp):
GGTCAACGGTCAACGGTCGGGTCG
Found at i:9042589 original size:9 final size:9
Alignment explanation
Indices: 9042571--9042669 Score: 81
Period size: 9 Copynumber: 10.3 Consensus size: 9
9042561 GGTCGGGTCG
*
9042571 GGTCAGACC
1 GGTCAAACC
9042580 GGTCAAACC
1 GGTCAAACC
* *
9042589 GATTCAGACC
1 G-GTCAAACC
9042599 GGTCAAACC
1 GGTCAAACC
*
9042608 GGTTCGAACC
1 GG-TCAAACC
* *
9042618 GGTTGAAATC
1 GG-TCAAACC
9042628 GGTCAAACC
1 GGTCAAACC
9042637 GGTCAGAACC
1 GGTCA-AACC
*
9042647 GGTTGAAAACC
1 GG-T-CAAACC
9042658 GGTCAAACC
1 GGTCAAACC
9042667 GGT
1 GGT
9042670 TTCCAGCAGC
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
9 35 0.49
10 29 0.40
11 7 0.10
12 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:9042618 original size:19 final size:19
Alignment explanation
Indices: 9042577--9042670 Score: 86
Period size: 19 Copynumber: 4.8 Consensus size: 19
9042567 GTCGGGTCAG
*
9042577 ACCGGTCAAACCGATTC-A
1 ACCGGTCAAACCGGTTCGA
9042595 GACCGGTCAAACCGGTTCGA
1 -ACCGGTCAAACCGGTTCGA
* * *
9042615 ACCGGTTGAAATCGG-TCAA
1 ACCGG-TCAAACCGGTTCGA
9042634 ACCGGTCAGAACCGGTT-GAAA
1 ACCGGTCA-AACCGGTTCG--A
9042655 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
9042671 TCCAGCAGCC
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
18 2 0.03
19 34 0.55
20 17 0.27
21 9 0.15
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.17
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCGA
Found at i:9042630 original size:29 final size:31
Alignment explanation
Indices: 9042596--9042670 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
9042586 ACCGATTCAG
9042596 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
9042625 ATCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
9042655 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
9042671 TCCAGCAGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.56
30 15 0.37
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:9048424 original size:152 final size:147
Alignment explanation
Indices: 9048224--9048522 Score: 528
Period size: 151 Copynumber: 2.0 Consensus size: 147
9048214 ATCACATTAG
9048224 TGATGATTTTCTTTTTCAATCACTAAAATTTCCTATTTCTCCGCATCTTTCTAAATTAATCGCTT
1 TGATGATTTTCTTTTTCAATCACTAAAATTTCCTATTTCTCCGCATCTTTCT-AATTAATCGCTT
9048289 CTTCCGACCATCAACCCAACCTTAGTGTAGAGACGACCAGCCCATGCTCAAATGATCTAAAACTT
65 CTTCCGACCATCAACCCAACCTTAGTGTAGAGACGACCAGCCCATGCTC-AATGATCTAAAACTT
9048354 GTTAAATGATAATACCATC
129 GTTAAATGATAATACCATC
9048373 TGATGATTTTTCTTTTTCATCAATCACTAAAA-TTCCTATTTCTCCGCATCTTTCTAATTAATCG
1 TGATGA-TTTTC-TTTT--TCAATCACTAAAATTTCCTATTTCTCCGCATCTTTCTAATTAATCG
*
9048437 CTTCTTCCGACCATCAACCCAACCTTAGTGTAGAGACGACCAGCCCATGCTCATTGATCTAAAAC
62 CTTCTTCCGACCATCAACCCAACCTTAGTGTAGAGACGACCAGCCCATGCTCAATGATCTAAAAC
9048502 TTGTTAAATGATAATACCATC
127 TTGTTAAATGATAATACCATC
9048523 AGATTCACCA
Statistics
Matches: 145, Mismatches: 1, Indels: 7
0.95 0.01 0.05
Matches are distributed among these distances:
149 6 0.04
150 38 0.26
151 65 0.45
152 23 0.16
153 13 0.09
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (147 bp):
TGATGATTTTCTTTTTCAATCACTAAAATTTCCTATTTCTCCGCATCTTTCTAATTAATCGCTTC
TTCCGACCATCAACCCAACCTTAGTGTAGAGACGACCAGCCCATGCTCAATGATCTAAAACTTGT
TAAATGATAATACCATC
Found at i:9049382 original size:35 final size:34
Alignment explanation
Indices: 9049341--9049495 Score: 155
Period size: 32 Copynumber: 4.7 Consensus size: 34
9049331 ATATATGATA
9049341 ATATAATATAGTTTTTGAAAACATTTTTGAAATAT
1 ATATAATATAG-TTTTGAAAACATTTTTGAAATAT
** *
9049376 ATATAATATAGTTTTGAAAATGTTTTTG-AATGT
1 ATATAATATAGTTTTGAAAACATTTTTGAAATAT
* *
9049409 ATAT-ATATAGGTTTAAAAACA-TTTT-AAA-AT
1 ATATAATATAGTTTTGAAAACATTTTTGAAATAT
* *
9049439 ATATAATA-A-TTTTGAAAACGTTTTAGAAATAT
1 ATATAATATAGTTTTGAAAACATTTTTGAAATAT
*
9049471 ATATATACATA-TTTTAGAAAACATT
1 ATATA-ATATAGTTTT-GAAAACATT
9049496 CAGAAAATTT
Statistics
Matches: 98, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
29 8 0.08
30 9 0.09
31 12 0.12
32 20 0.20
33 10 0.10
34 20 0.20
35 19 0.19
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (34 bp):
ATATAATATAGTTTTGAAAACATTTTTGAAATAT
Found at i:9049442 original size:30 final size:31
Alignment explanation
Indices: 9049358--9049477 Score: 100
Period size: 29 Copynumber: 3.8 Consensus size: 31
9049348 ATAGTTTTTG
* *
9049358 AAAACATTTTTGAAATATATATAATATAGTTTTG
1 AAAACATTTTAGAAATATATAT-ATA-AG-TTTA
** * * *
9049392 AAAATGTTTTTGAATGTATATATATAGGTTTA
1 AAAACATTTTAGAA-ATATATATATAAGTTTA
* *
9049424 AAAACATTTTA-AAATATATA-ATAATTTTG
1 AAAACATTTTAGAAATATATATATAAGTTTA
*
9049453 AAAACGTTTTAGAAATATATATATA
1 AAAACATTTTAGAAATATATATATA
9049478 CATATTTTAG
Statistics
Matches: 70, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
29 16 0.23
30 15 0.21
31 5 0.07
32 11 0.16
33 1 0.01
34 15 0.21
35 7 0.10
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (31 bp):
AAAACATTTTAGAAATATATATATAAGTTTA
Found at i:9049501 original size:34 final size:34
Alignment explanation
Indices: 9049437--9049501 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
9049427 ACATTTTAAA
* *
9049437 ATATATAATAATTTTGAAAACGTTTTAGAAATAT
1 ATATATAATAATTTTGAAAACGATTCAGAAATAT
9049471 ATATATACAT-ATTTTAGAAAAC-ATTCAGAAA
1 ATATATA-ATAATTTT-GAAAACGATTCAGAAA
9049502 ATTTTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 19 0.70
35 8 0.30
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (34 bp):
ATATATAATAATTTTGAAAACGATTCAGAAATAT
Found at i:9053804 original size:89 final size:90
Alignment explanation
Indices: 9053652--9053830 Score: 351
Period size: 89 Copynumber: 2.0 Consensus size: 90
9053642 GGGAACTTTT
9053652 CATCCTATTCCCATGACTTACAAAGAACTGTATCAACAAATTTTTGACACTCACGTAGTGTCACC
1 CATCCTATTCCCATGACTTACAAAGAACTGTATCAACAAATTTTTGACACTCACGTAGTGTCACC
9053717 ATACTCGTGGAACCCATGAAGCCCC
66 ATACTCGTGGAACCCATGAAGCCCC
9053742 CATCCTATT-CCATGACTTACAAAGAACTGTATCAACAAATTTTTGACACTCACGTAGTGTCACC
1 CATCCTATTCCCATGACTTACAAAGAACTGTATCAACAAATTTTTGACACTCACGTAGTGTCACC
9053806 ATACTCGTGGAACCCATGAAGCCCC
66 ATACTCGTGGAACCCATGAAGCCCC
9053831 ATACCCCGCA
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 80 0.90
90 9 0.10
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (90 bp):
CATCCTATTCCCATGACTTACAAAGAACTGTATCAACAAATTTTTGACACTCACGTAGTGTCACC
ATACTCGTGGAACCCATGAAGCCCC
Found at i:9054297 original size:46 final size:46
Alignment explanation
Indices: 9054238--9054329 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
9054228 ATATATCCTT
* *
9054238 CTCCTATCATAAGGGAATGGACAAGAGACTTGGTATTCGATATGCA
1 CTCCTATCATAAGGGAATGAACAAGAGACTTGGTATTCGACATGCA
*
9054284 CTCCTATCATAAGGGAATGAACAAGAGACTTGGTATTTGACATGCA
1 CTCCTATCATAAGGGAATGAACAAGAGACTTGGTATTCGACATGCA
9054330 TAAGAGTAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (46 bp):
CTCCTATCATAAGGGAATGAACAAGAGACTTGGTATTCGACATGCA
Found at i:9054679 original size:96 final size:97
Alignment explanation
Indices: 9054568--9054753 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 97
9054558 TTATAATATT
* * * * * * ***
9054568 ATATGTATACAATAAATCTTGAGTTGTTCCTCTAGAGCAATTGGTTAATGGCC-CGACTTTAT-A
1 ATATATATACAATAAAGCTTGAGCTGTCCCTCTAGAGAAATTAGTTAAACACCTCGACTTTATGA
9054631 TAAGATTTAGCTAGCTTGATAAAGGTGATTATA
66 TAAGATTTAGCTAGC-TGATAAAGGTGATTATA
* * *
9054664 ATATATATACAATAAAGCTTGGGCTGTCCCTCTAGAGAAATTAGTTAAACACCTTGGCTTTATGG
1 ATATATATACAATAAAGCTTGAGCTGTCCCTCTAGAGAAATTAGTTAAACACCTCGACTTTAT-G
9054729 ATAAGATTTAGCTAGCTGATAAAGG
65 ATAAGATTTAGCTAGCTGATAAAGG
9054754 GAAATCACAA
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
96 43 0.57
97 7 0.09
98 9 0.12
99 16 0.21
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.34
Consensus pattern (97 bp):
ATATATATACAATAAAGCTTGAGCTGTCCCTCTAGAGAAATTAGTTAAACACCTCGACTTTATGA
TAAGATTTAGCTAGCTGATAAAGGTGATTATA
Found at i:9056912 original size:41 final size:43
Alignment explanation
Indices: 9056854--9056951 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 43
9056844 GAGCTTATTT
* *
9056854 AGTATATATGATA-ATATAGA-ATAGTTTTTGAAAATATTTTTGAA
1 AGTATATAT-ATATATA-AGACATAG-TTTTGAAAACATTTCTGAA
* *
9056898 A-TATATATATATATAATACATAGTTTTGAAAACGTTTCTGAA
1 AGTATATATATATATAAGACATAGTTTTGAAAACATTTCTGAA
9056940 AGTATATATATA
1 AGTATATATATA
9056952 GTTTTAAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
42 22 0.47
43 24 0.51
44 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (43 bp):
AGTATATATATATATAAGACATAGTTTTGAAAACATTTCTGAA
Found at i:9056946 original size:37 final size:35
Alignment explanation
Indices: 9056904--9057035 Score: 105
Period size: 37 Copynumber: 3.7 Consensus size: 35
9056894 TGAAATATAT
*
9056904 ATATATATAATACATAGTTTTGAAAACGTTTCTG--A
1 ATATATAT-ATATATAGTTTTGAAAACGTTT-TGAAA
* * *
9056939 A-A-GTATATATATAGTTTT-AAAACATTTTTAAAA
1 ATATATATATATATAGTTTTGAAAAC-GTTTTGAAA
* *
9056972 ATATATATATAATATAATATTGAAAACGTTTTAGAAA
1 ATATATATAT-ATATAGTTTTGAAAACGTTTT-GAAA
9057009 ATATATATAATATATA-TTTTAGAAAAC
1 ATATATAT-ATATATAGTTTT-GAAAAC
9057036 ATTCAGAAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
31 6 0.08
32 14 0.18
33 5 0.06
34 2 0.03
35 6 0.08
36 15 0.19
37 27 0.35
38 2 0.03
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (35 bp):
ATATATATATATATAGTTTTGAAAACGTTTTGAAA
Found at i:9056977 original size:31 final size:32
Alignment explanation
Indices: 9056908--9056982 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
9056898 ATATATATAT
* * *
9056908 ATATAATACATAGTTTTGAAAACGTTTCTGAAA
1 ATAT-ATATATAGTTTTGAAAACATTTCTAAAA
* *
9056941 GTATATATATAGTTTT-AAAACATTTTTAAAA
1 ATATATATATAGTTTTGAAAACATTTCTAAAA
9056972 ATATATATATA
1 ATATATATATA
9056983 ATATAATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
31 22 0.61
32 11 0.31
33 3 0.08
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.41
Consensus pattern (32 bp):
ATATATATATAGTTTTGAAAACATTTCTAAAA
Found at i:9057053 original size:37 final size:37
Alignment explanation
Indices: 9056970--9057065 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 37
9056960 ACATTTTTAA
* * *
9056970 AAATATATATATAATATA-ATATTGAAAACGTTTTAG
1 AAATATATATATAATATATATTTTGAAAACGATTCAG
9057006 AAA-ATATATATAATATATATTTTAGAAAAC-ATTCAG
1 AAATATATATATAATATATATTTT-GAAAACGATTCAG
* *
9057042 AAATATTTATATACTATATGATTT
1 AAATATATATATAATATAT-ATTT
9057066 CAAAAATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
35 14 0.27
36 14 0.27
37 19 0.37
38 4 0.08
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (37 bp):
AAATATATATATAATATATATTTTGAAAACGATTCAG
Found at i:9058267 original size:88 final size:89
Alignment explanation
Indices: 9058117--9058297 Score: 346
Period size: 88 Copynumber: 2.0 Consensus size: 89
9058107 TAAATAGTTA
*
9058117 AATCATTTCTGCAGTCCCTTAAATTTTGAAGCATAATTCATTTTTGTCACCTGTTGTAATTTTCC
1 AATCATTTCTGCAGTCCCTGAAATTTTGAAGCATAATTCATTTTTGTCACCTGTTGTAATTTTCC
9058182 CTGAATTTTGAATTATTTCAATTT
66 CTGAATTTTGAATTATTTCAATTT
9058206 AATCATTTCTGCAGTCCCTGAAA-TTTGAAGCATAATTCATTTTTGTCACCTGTTGTAATTTTCC
1 AATCATTTCTGCAGTCCCTGAAATTTTGAAGCATAATTCATTTTTGTCACCTGTTGTAATTTTCC
9058270 CTGAATTTTGAATTATTTCAATTT
66 CTGAATTTTGAATTATTTCAATTT
9058294 AATC
1 AATC
9058298 CCAATTTAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
88 69 0.76
89 22 0.24
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (89 bp):
AATCATTTCTGCAGTCCCTGAAATTTTGAAGCATAATTCATTTTTGTCACCTGTTGTAATTTTCC
CTGAATTTTGAATTATTTCAATTT
Found at i:9063564 original size:80 final size:81
Alignment explanation
Indices: 9063431--9063945 Score: 676
Period size: 81 Copynumber: 6.5 Consensus size: 81
9063421 ATTCCAAAGT
* * * * *
9063431 AAAGATTAATAGCCTAGCTGTTCATTTGGTAGAAAAGTGTCAA-TATGCCAGTTAGATGAAAGAT
1 AAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
9063495 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
* * * * *
9063511 AAATATTAATGGCCTAGTTGTGCATTTGGCAG-AAGGTGTCAATTATGCTAGTTATATG-AAGAT
1 AAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* *
9063574 TAAAAACCTTTAAGTA
66 TAAATACCTTTGAGTA
* * *
9063590 AAAGATTAAT-GCCTAACTATGTATTTGGCAGAAA--TGTCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
*
9063652 TAAATACATTTGAGTA
66 TAAATACCTTTGAGTA
* * * *
9063668 AAAGATTAATGGCCTAGTTGTGTATTTGGCAGAAATGTGTCAGTTATGCCAGTTAGATGAAAGGT
1 AAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
9063733 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
* * * *** *
9063749 AAATATTAATGGTCTAGCTGTGTATTTTAAAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
9063814 TAAATACCTTTGAGT-
66 TAAATACCTTTGAGTA
* *
9063829 AAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATACCAGTTAGATGAAAGGT
1 AAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
*
9063894 T-AA-ACCCTTGAGT-
66 TAAATACCTTTGAGTA
9063907 AAAGATTAATGGCCTAGC--TGCATTTGGCAGAAAGGTGTC
1 AAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTC
9063946 GATACTTTAT
Statistics
Matches: 385, Mismatches: 44, Indels: 16
0.87 0.10 0.04
Matches are distributed among these distances:
76 21 0.05
77 20 0.05
78 70 0.18
79 62 0.16
80 97 0.25
81 115 0.30
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (81 bp):
AAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
TAAATACCTTTGAGTA
Found at i:9064384 original size:18 final size:18
Alignment explanation
Indices: 9064361--9064396 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9064351 CCATACTGGA
*
9064361 ATAAAAGTATTGATACTT
1 ATAAAAGTATCGATACTT
9064379 ATAAAAGTATCGATACTT
1 ATAAAAGTATCGATACTT
9064397 GGACATTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.36
Consensus pattern (18 bp):
ATAAAAGTATCGATACTT
Found at i:9064447 original size:195 final size:195
Alignment explanation
Indices: 9064121--9065901 Score: 1539
Period size: 195 Copynumber: 9.3 Consensus size: 195
9064111 AAATTATTAA
**
9064121 TATCGATTTATTTTGTGTGCAAATTGTTTGAGAAGCATACT-GAATAAAAGTATCGATACCTATA
1 TATCGATACATTTTGTGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATCGATA-CT-TA
*** * *
9064185 TAAAAGTATCGATACTTGGTATTTACATTTATTATCAATATACCGGTAGACTTTTACTGTTTACA
64 TAAAAGTATCGATACTTGGTATTTACGCCTATTATCAATATACCGG-AAAATTTTACTGTTTACA
* * * *
9064250 TTGTTATTTTAACTATTAC-TTAAAGTAATAGGTTTAAAATTTAAAGTATCGATACTTTAGAGAT
128 TTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTGAAATTTAAAGTATCGATACTTTATAGAT
9064314 GTG
193 GTG
* * * * *
9064317 TATCAATACATTTTGTGTGCATATTATTTGAGAACCATACTGGAATAAAAGTATTGATACTTATA
1 TATCGATACATTTTGTGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATCGATACTTATA
* * * * *
9064382 AAAGTATCGATACTTGGACATTTACGCCTATT-TCATTATACTGGAAAATGTTTACTCTGTACAT
66 AAAGTATCGATACTTGG-TATTTACGCCTATTATCAATATACCGGAAAAT-TTTACTGTTTACAT
* ** *
9064446 TGTTAATTTACCTATTACTTTAAAG---TA--TTTCAAA-TTATTGGTATCGATACTTTATATAT
129 TGTTAATTTACCTATTACTTTAAAGTAATAGGTTTGAAATTTA-AAGTATCGATACTTTATAGAT
9064505 GTG
193 GTG
* * * * *
9064508 TATCGATACATTTTATGTGCAAATTGTTTGAAAAGAACACTGGAAT-AAAGTATCGGTACCTATA
1 TATCGATACATTTTGTGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATCGATA-CT-TA
** * * *
9064572 TAAAAG--TCGATACTTGGTATTTACGCCTATTATCAATATATTGGTAGACTTTTACAGTTTACA
64 TAAAAGTATCGATACTTGGTATTTACGCCTATTATCAATATACCGG-AAAATTTTACTGTTTACA
* * * * *
9064635 TTGTTAATTTACCTGTTACATTAAAGTAATAGGTTTTAAAATTGAAAGTATCGATACTTTGTAGA
128 TTGTTAATTTACCTATTACTTTAAAGTAATAGG-TTTGAAATTTAAAGTATCGATACTTTATAGA
9064700 --TG
192 TGTG
* * *
9064702 TATCGATACATTTTGCGTGCAAATTGTTTGAGAAGCATAATGGAAT-AAAGAATAC-ATACCTAT
1 TATCGATACATTTTGTGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTAT-CGATA-CT-T
* * * * *
9064765 ATAAAAGTATCGATACTTAGTATTTATGCCTATTATCAATATACCGGTAGACTTTTACTATTTAC
63 ATAAAAGTATCGATACTTGGTATTTACGCCTATTATCAATATACCGG-AAAATTTTACTGTTTAC
** *
9064830 ATTGTTAA-TTACCTATTACTTTAAAGTAATAGGTTTTGAAATTCCAAGTATCGATACTTTATAC
127 ATTGTTAATTTACCTATTACTTTAAAGTAATAGG-TTTGAAATTTAAAGTATCGATACTTTATAG
9064894 ATGTG
191 ATGTG
* * *
9064899 TATCAATATA-TTTGTGTGCAAATTGTTTGGGAAGCATACTGGAAT-AAAGTATCGATAC-----
1 TATCGATACATTTTGTGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATCGATACTTATA
** * * * * ****
9064957 ----T-T-GA-AC-----ATTTACATCTATTTTCATTATATCGTAGAAATATTTACCAAGTACAT
66 AAAGTATCGATACTTGGTATTTACGCCTATTATCAATATACCGGA-AAAT-TTTACTGTTTACAT
* * * * *
9065010 TGTTAATTTACCTATTACCTCAAAGTAATAGGATTTGAAA-TTATTAGTATCGATACTTTTTATA
129 TGTTAATTTACCTATTACTTTAAAGTAATAGG-TTTGAAATTTA-AAGTATCGATACTTTATAGA
9065074 TGTG
192 TGTG
* * * *
9065078 TATTGATTCATTTTGTGTGCAAATTATTTGAGAAACATACTGGAAT-AAA--A--G-----TATA
1 TATCGATACATTTTGTGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATCGATACTTATA
* * * *
9065133 AAAGGATTGATACTTGGTATTTACGCCTATTATCAATATACCAGCAGAA-TTTACTGTTTACATT
66 AAAGTATCGATACTTGGTATTTACGCCTATTATCAATATACC-GGAAAATTTTACTGTTTACATT
*
9065197 GTTAATTTACCTATTACTTTAAAGTAATAGCTTTTGAAATTTAAAGTATCGATACTTTATAGATG
130 GTTAATTTACCTATTACTTTAAAGTAATAG-GTTTGAAATTTAAAGTATCGATACTTTATAGATG
9065262 TG
194 TG
* ** * * * * * *
9065264 TATTGATACATTTTGCATGCAGATTATTTTATAAGCATAATGG-ATAAAAGTATCAATTAC-T-T
1 TATCGATACATTTTGTGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATCGA-TACTTAT
* * * * * * *
9065326 AAAAGTATTGATACTTGGACATTTA--CC-ATTTTCATTATACCGGTAGAAACGTTTACCGTGTA
65 AAAAGTATCGATACTTGG-TATTTACGCCTATTATCAATATACCGG-A-AAA-TTTTACTGTTTA
* * *
9065388 CATTGTTAATTTACCTATTACTTTAAAGT-ATATGTTTCGAAA-TTATTAGTATTGATACTTTAT
126 CATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTT-GAAATTTA-AAGTATCGATACTTTAT
* *
9065451 ATATGTC
189 AGATGTG
* * * * * *
9065458 TATCGATATA-TTTGCGTGCAAATTGTTTGAGAAGAATACTGAAATAAAAGTATCGGTACCGATA
1 TATCGATACATTTTGTGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATCGATA-C-TTA
* * *
9065522 TAAAAGTATCGATATTTGGTATTTACGTCTA-TATCAATATACC--AATAGATTTTATTGTTTAC
64 TAAAAGTATCGATACTTGGTATTTACGCCTATTATCAATATACCGGAA-A-ATTTTACTGTTTAC
* * * ** * * *
9065584 ATTGTT-TTTTACCTATAACTTTAAAGTATTAAATGTCAAATTTGAAAGTATCAATACTTTATAG
127 ATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTGAAATTT-AAAGTATCGATACTTTATAG
*
9065648 TTGTG
191 ATGTG
* * * * * *
9065653 TATAGATATA-TTTGTGTGCAAATCGTTTGATATA-CATACTGGAATAAAAGTATAGATACCTAT
1 TATCGATACATTTTGTGTGCAAATTGTTTGAGA-AGCATACTGGAATAAAAGTATCGATACTTAT
* * * * *
9065716 ATAAAGAATCAATACTTGGTATTTACGCCTGTTATCAATATACCGGTAGATTTCTAAC-GTTTAC
65 A-AAAGTATCGATACTTGGTATTTACGCCTATTATCAATATACCGGAAAATTT-T-ACTGTTTAC
** *
9065780 ATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTATCGATACTTTATAC
127 ATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTT-GAAATTTAAAGTATCGATACTTTATAG
*
9065845 ATGTT
191 ATGTG
* * * * *
9065850 TATTGATACATTTTGCGTTCAAATTGTTTGAGAATCATATTGGAATAAAAGT
1 TATCGATACATTTTGTGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGT
9065902 GTCCATACCA
Statistics
Matches: 1281, Mismatches: 217, Indels: 172
0.77 0.13 0.10
Matches are distributed among these distances:
176 2 0.00
177 21 0.02
178 19 0.01
179 57 0.04
180 35 0.03
181 1 0.00
182 4 0.00
183 4 0.00
184 1 0.00
185 3 0.00
186 105 0.08
187 3 0.00
188 22 0.02
189 15 0.01
190 68 0.05
191 70 0.05
192 21 0.02
193 44 0.03
194 178 0.14
195 261 0.20
196 196 0.15
197 100 0.08
198 50 0.04
199 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (195 bp):
TATCGATACATTTTGTGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATCGATACTTATA
AAAGTATCGATACTTGGTATTTACGCCTATTATCAATATACCGGAAAATTTTACTGTTTACATTG
TTAATTTACCTATTACTTTAAAGTAATAGGTTTGAAATTTAAAGTATCGATACTTTATAGATGTG
Found at i:9064526 original size:19 final size:21
Alignment explanation
Indices: 9064486--9064526 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9064476 CAAATTATTG
*
9064486 GTATCGATACTTTATATATGT
1 GTATCGATACATTATATATGT
9064507 GTATCGATACATT-T-TATGT
1 GTATCGATACATTATATATGT
9064526 G
1 G
9064527 CAAATTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (21 bp):
GTATCGATACATTATATATGT
Found at i:9065781 original size:950 final size:948
Alignment explanation
Indices: 9063944--9065898 Score: 2402
Period size: 950 Copynumber: 2.1 Consensus size: 948
9063934 CAGAAAGGTG
* * *
9063944 TCGATACTTTATACATGTGTAT-AGATACATTTTGAGTGCAAATTGTTTGAGAAACATATTGGAA
1 TCGATACTTTATACATGTGTATCA-ATACATTTTGCGTGCAAATTGTTTGAGAAGCATACTGGAA
* ** * * *
9064008 TAAA--AGTCGATATTTGAACATTTACGCCTATTTTCATTATACCGGTAGAAATGTTTACCATGT
65 TAAAGTA-TCGATACTTGAACATTTACATCTATTTTCATTATATC-GTAGAAATATTTACCAAGT
* * * * * * *
9064071 ACACTGTTAATTTA-CTATTGCTTTAAAGTAATAGG-TTTCAAAATTATTAATATCGAT--TTAT
128 ACATTGTTAATTTACCTATTACCTCAAAGTAATAGGATTT-GAAATTATTAGTATCGATACTTTT
** * ** * * * **
9064132 T-T-TGTG---TG---CAAATTGTTTG-AGAAGCATACTGA-ATAAAAGTA-TCG-ATACCTA-T
192 TATATGTGTATTGATTCATTTTGTGTGCA-AATTAT-TTGAGA-AACA-TACTGGAATA-AAAGT
* ** * * *
9064184 ATAAAAGTATCGATACTTGGTATTTACATTTATTATCAATATACCGGTAGACTTTTACTGTTTAC
252 ATAAAAGGATCGATACTTGGTATTTACACCTATTATCAATATACCAGCAGACATTTACTGTTTAC
*
9064249 ATTGTTATTTTAACTATTACTTAAAGTAATAGGTTTAAAATTTAAAGTATCGATACTTTAGAGAT
317 ATTGTTAATTTAACTATTACTTAAAGTAATAGGTTTAAAATTTAAAGTATCGATACTTTAGAGAT
** * * **
9064314 GTGTATCAATACATTTTGTGTGCATATTATTTGAGAACCATACTGGAATAAAAGTATTGATACTT
382 GTGTATCAATACATTTTGCATGCAGATTATTTGAGAACCATAATGGAATAAAAGTATCAATACTT
* * *
9064379 ATAAAAGTATCGATACTTGGACATTTACGCCTATTTCATTATACTGGAAAATGTTTACTCTGTAC
447 ATAAAAGTATCGATACTTGGACATTTACGCATATTTCATTATACCGGAAAACGTTTACTCTGTAC
* *
9064444 ATTGTTAATTTACCTATTACTTTAAAGTATTTCAAATTATTGGTATCGATACTTTATATATGTGT
512 ATTGTTAATTTACCTATTACTTTAAAGTATTTCAAATTATTAGTATCGATACTTTATATATGTCT
* * *
9064509 ATCGATACATTTTATGTGCAAATTGTTTGAAAAGAACACTGGAATAAAGTATCGGTACCTATATA
577 ATCGATACATTTTACGTGCAAATTGTTTGAAAAGAACACTGAAATAAAGTATCGGTACCGATATA
****
9064574 AAAGTCGATACTTGGTATTTACGCCTATTATCAATATATTGGTAGACTTTTACAGTTTACATTGT
642 AAAGTCGATACTTGGTATTTACGCCTATTATCAATATACCAATAGACTTTTACAGTTTACATTGT
* * ** * * * *
9064639 TAATTTACCTGTTACATTAAAGTAATAGGTTTTAAAATTGAAAGTATCGATACTTTGTAGATGTA
707 TAATTTACCTATAACATTAAAGTAATAAATGTCAAAATTGAAAGTATCAATACTTTATAGATGTA
* *
9064704 TCGATACATTTTGCGTGCAAATTGTTTGAGAAGCATAATGGAATAAAGAATACATACCTATATAA
772 TAGATACATTTTGCGTGCAAATCGTTTGAGAAGCATAATGGAATAAAGAATACATACCTATATAA
* * *
9064769 AAGTATCGATACTTAGTATTTATGCCTATTATCAATATACCGGTAGACTTTTACTATTTACATTG
837 AAGAATCAATACTTAGTATTTACGCCTATTATCAATATACCGGTAGACTTTTACTATTTACATTG
*
9064834 TTAA-TTACCTATTACTTTAAAGTAATAGGTTTTGAAATTCCAAGTA
902 TTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTA
* * *
9064880 TCGATACTTTATACATGTGTATCAATATA-TTTGTGTGCAAATTGTTTGGGAAGCATACTGGAAT
1 TCGATACTTTATACATGTGTATCAATACATTTTGCGTGCAAATTGTTTGAGAAGCATACTGGAAT
9064944 AAAGTATCGATACTTGAACATTTACATCTATTTTCATTATATCGTAGAAATATTTACCAAGTACA
66 AAAGTATCGATACTTGAACATTTACATCTATTTTCATTATATCGTAGAAATATTTACCAAGTACA
9065009 TTGTTAATTTACCTATTACCTCAAAGTAATAGGATTTGAAATTATTAGTATCGATACTTTTTATA
131 TTGTTAATTTACCTATTACCTCAAAGTAATAGGATTTGAAATTATTAGTATCGATACTTTTTATA
9065074 TGTGTATTGATTCATTTTGTGTGCAAATTATTTGAGAAACATACTGGAATAAAAGTATAAAAGGA
196 TGTGTATTGATTCATTTTGTGTGCAAATTATTTGAGAAACATACTGGAATAAAAGTATAAAAGGA
* *
9065139 TTGATACTTGGTATTTACGCCTATTATCAATATACCAGCAGA-ATTTACTGTTTACATTGTTAAT
261 TCGATACTTGGTATTTACACCTATTATCAATATACCAGCAGACATTTACTGTTTACATTGTTAAT
* * * * *
9065203 TTACCTATTACTTTAAAGTAATAGCTTTTGAAATTTAAAGTATCGATACTTTATAGATGTGTATT
326 TTAACTATTAC-TTAAAGTAATAG-GTTTAAAATTTAAAGTATCGATACTTTAGAGATGTGTATC
* * * *
9065268 GATACATTTTGCATGCAGATTATTTTATAAGCATAATGG-ATAAAAGTATCAATTAC-T-TAAAA
389 AATACATTTTGCATGCAGATTATTTGAGAACCATAATGGAATAAAAGTATCAA-TACTTATAAAA
*
9065330 GTATTGATACTTGGACATTTAC-CAT-TTTCATTATACCGGTAGAAACGTTTAC-CGTGTACATT
453 GTATCGATACTTGGACATTTACGCATATTTCATTATACCGG-A-AAACGTTTACTC-TGTACATT
*
9065392 GTTAATTTACCTATTACTTTAAAGTATATGTTTCGAAATTATTAGTATTGATACTTTATATATGT
515 GTTAATTTACCTATTACTTTAAAG--TA--TTTC-AAATTATTAGTATCGATACTTTATATATGT
* * * *
9065457 CTATCGATATA-TTTGCGTGCAAATTGTTTGAGAAGAATACTGAAATAAAAGTATCGGTACCGAT
575 CTATCGATACATTTTACGTGCAAATTGTTTGAAAAGAACACTGAAAT-AAAGTATCGGTACCGAT
* * **
9065521 ATAAAAGTATCGATATTTGGTATTTACGTCTA-TATCAATATACCAATAGA-TTTTATTGTTTAC
639 ATAAAAG--TCGATACTTGGTATTTACGCCTATTATCAATATACCAATAGACTTTTACAGTTTAC
* * * *
9065584 ATTGTT-TTTTACCTATAACTTTAAAGTATTAAATGTCAAATTTGAAAGTATCAATACTTTATAG
702 ATTGTTAATTTACCTATAACATTAAAGTAATAAATGTCAAAATTGAAAGTATCAATACTTTATAG
* * * * * * *
9065648 TTGTGTATAGATATA-TTTGTGTGCAAATCGTTTGATATA-CATACTGGAATAAAAGTATAGATA
767 --ATGTATAGATACATTTTGCGTGCAAATCGTTTGAGA-AGCATAATGGAAT-AAAGAATACATA
* *
9065711 CCTATAT-AAAGAATCAATACTTGGTATTTACGCCTGTTATCAATATACCGGTAGA-TTTCTAAC
828 CCTATATAAAAGAATCAATACTTAGTATTTACGCCTATTATCAATATACCGGTAGACTTT-T-AC
*
9065774 -GTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTA
891 TATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTA
* ** * * *
9065831 TCGATACTTTATACATGTTTATTGATACATTTTGCGTTCAAATTGTTTGAGAATCATATTGGAAT
1 TCGATACTTTATACATGTGTATCAATACATTTTGCGTGCAAATTGTTTGAGAAGCATACTGGAAT
9065896 AAA
66 AAA
9065899 AGTGTCCATA
Statistics
Matches: 866, Mismatches: 111, Indels: 68
0.83 0.11 0.07
Matches are distributed among these distances:
935 64 0.07
936 93 0.11
937 5 0.01
938 4 0.00
939 1 0.00
940 4 0.00
943 15 0.02
944 6 0.01
945 106 0.12
946 85 0.10
947 73 0.08
949 83 0.10
950 163 0.19
951 110 0.13
952 54 0.06
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (948 bp):
TCGATACTTTATACATGTGTATCAATACATTTTGCGTGCAAATTGTTTGAGAAGCATACTGGAAT
AAAGTATCGATACTTGAACATTTACATCTATTTTCATTATATCGTAGAAATATTTACCAAGTACA
TTGTTAATTTACCTATTACCTCAAAGTAATAGGATTTGAAATTATTAGTATCGATACTTTTTATA
TGTGTATTGATTCATTTTGTGTGCAAATTATTTGAGAAACATACTGGAATAAAAGTATAAAAGGA
TCGATACTTGGTATTTACACCTATTATCAATATACCAGCAGACATTTACTGTTTACATTGTTAAT
TTAACTATTACTTAAAGTAATAGGTTTAAAATTTAAAGTATCGATACTTTAGAGATGTGTATCAA
TACATTTTGCATGCAGATTATTTGAGAACCATAATGGAATAAAAGTATCAATACTTATAAAAGTA
TCGATACTTGGACATTTACGCATATTTCATTATACCGGAAAACGTTTACTCTGTACATTGTTAAT
TTACCTATTACTTTAAAGTATTTCAAATTATTAGTATCGATACTTTATATATGTCTATCGATACA
TTTTACGTGCAAATTGTTTGAAAAGAACACTGAAATAAAGTATCGGTACCGATATAAAAGTCGAT
ACTTGGTATTTACGCCTATTATCAATATACCAATAGACTTTTACAGTTTACATTGTTAATTTACC
TATAACATTAAAGTAATAAATGTCAAAATTGAAAGTATCAATACTTTATAGATGTATAGATACAT
TTTGCGTGCAAATCGTTTGAGAAGCATAATGGAATAAAGAATACATACCTATATAAAAGAATCAA
TACTTAGTATTTACGCCTATTATCAATATACCGGTAGACTTTTACTATTTACATTGTTAATTTAC
CTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTA
Found at i:9066087 original size:142 final size:144
Alignment explanation
Indices: 9065829--9066133 Score: 388
Period size: 142 Copynumber: 2.1 Consensus size: 144
9065819 AAATTCCAAG
* * * * * *
9065829 TATCGATACTTTATACATGTTTATTGATACATTTTGCGTTCAAATTGTTTGAGAATCATATTGGA
1 TATCGATACTTTATA-ATGTGTATCGATACATTTGGCGTTCAAATTGTTTGACAAACATACTGGA
* *
9065894 ATAAAAGTGTCCATACCAGCATCAGAAGTATCGATATGTGGACATTTTCATACTTTGCATACATT
65 ATAAAAGTATCCATACCAGCATCAGAAGTATCAATATGTGGACATTTTCATACTTTGCATACATT
9065959 GTTTCAAAATTATAAA
130 G-TTCAAAATTATAAA
9065975 TATCG-TACTTTATAATGTGTATCGATACATTTGGCGTGT-AAATTGTTTGACAAACATACTGGA
1 TATCGATACTTTATAATGTGTATCGATACATTTGGCGT-TCAAATTGTTTGACAAACATACTGGA
* * * *
9066038 GT-AAAGTATTCATGCCGGCAT-A-ATAGTATCAATACT-TGGACATTTTCATACTTTGCATACA
65 ATAAAAGTATCCATACCAGCATCAGA-AGTATCAATA-TGTGGACATTTTCATACTTTGCATACA
*
9066099 TTGTTCGAAATTATAAA
128 TTGTTCAAAATTATAAA
*
9066116 TATTGATACTTTAATAAT
1 TATCGATACTTT-ATAAT
9066134 ATGTCCTAAC
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
141 18 0.13
142 44 0.31
143 21 0.15
144 42 0.30
145 10 0.07
146 5 0.04
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (144 bp):
TATCGATACTTTATAATGTGTATCGATACATTTGGCGTTCAAATTGTTTGACAAACATACTGGAA
TAAAAGTATCCATACCAGCATCAGAAGTATCAATATGTGGACATTTTCATACTTTGCATACATTG
TTCAAAATTATAAA
Found at i:9066325 original size:22 final size:21
Alignment explanation
Indices: 9066298--9066341 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
9066288 ACAACCAAAT
9066298 TTTTTTAGGGACCACTAAAGCA
1 TTTTTTAGGGACCA-TAAAGCA
* *
9066320 TTTTTTATGGACCATAATGCA
1 TTTTTTAGGGACCATAAAGCA
9066341 T
1 T
9066342 CAAAAGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (21 bp):
TTTTTTAGGGACCATAAAGCA
Found at i:9068732 original size:48 final size:47
Alignment explanation
Indices: 9068665--9068810 Score: 176
Period size: 46 Copynumber: 3.1 Consensus size: 47
9068655 TAACAAACAT
*
9068665 ATACAAA-TT-TTGCTAACTTTGCTAATCACATACAAATTTCATTCAC
1 ATACAAACTTGTTG-TAACTTTGGTAATCACATACAAATTTCATTCAC
*
9068711 ATACAATACTTGTTGTAACTTTGGTAATCACATAC--ACTTCATTCAC
1 ATACAA-ACTTGTTGTAACTTTGGTAATCACATACAAATTTCATTCAC
* * *
9068757 ATACAAATTTGTTGTAAC-TTGGTAATCATATACATAATTCCATTCAC
1 ATACAAACTTGTTGTAACTTTGGTAATCACATACA-AATTTCATTCAC
*
9068804 GTACAAA
1 ATACAAA
9068811 ATTTTATTCA
Statistics
Matches: 87, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
44 14 0.16
45 11 0.13
46 22 0.25
47 16 0.18
48 21 0.24
49 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (47 bp):
ATACAAACTTGTTGTAACTTTGGTAATCACATACAAATTTCATTCAC
Found at i:9068790 original size:44 final size:46
Alignment explanation
Indices: 9068678--9068790 Score: 158
Period size: 48 Copynumber: 2.5 Consensus size: 46
9068668 CAAATTTTGC
* *
9068678 TAACTTTGCTAATCACATACAAATTTCATTCACATACAATACTTGTTG
1 TAACTTTGGTAATCACATAC--ACTTCATTCACATACAATACTTGTTG
*
9068726 TAACTTTGGTAATCACATACACTTCATTCACATACAA-ATTTGTTG
1 TAACTTTGGTAATCACATACACTTCATTCACATACAATACTTGTTG
*
9068771 TAAC-TTGGTAATCATATACA
1 TAACTTTGGTAATCACATACA
9068791 TAATTCCATT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
44 15 0.25
45 11 0.18
46 16 0.26
48 19 0.31
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.37
Consensus pattern (46 bp):
TAACTTTGGTAATCACATACACTTCATTCACATACAATACTTGTTG
Found at i:9069212 original size:13 final size:13
Alignment explanation
Indices: 9069196--9069221 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9069186 AAAAAAGAAA
9069196 TTATGATAAATGG
1 TTATGATAAATGG
9069209 TTATGATAAATGG
1 TTATGATAAATGG
9069222 GGAATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (13 bp):
TTATGATAAATGG
Done.