Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 48 of 56
Found at i:10996530 original size:44 final size:44
Alignment explanation
Indices: 10996368--10996518 Score: 248
Period size: 44 Copynumber: 3.4 Consensus size: 44
10996358 CCCAGCGCTA
*
10996368 AGGCACTTTAGTATCAGTGCGTATGTACTTCTGTATCAGTGTTG
1 AGGCACTTTAGTATCAGTGCGTATGCACTTCTGTATCAGTGTTG
*
10996412 AGGCACTTTAGTATCAGTGCGTATACACTTCTGTATCAGTGTTG
1 AGGCACTTTAGTATCAGTGCGTATGCACTTCTGTATCAGTGTTG
* * *
10996456 AGGTACTTTAGTATCAATGCGTATGCACTTCTATATCAGTGTTG
1 AGGCACTTTAGTATCAGTGCGTATGCACTTCTGTATCAGTGTTG
*
10996500 AGGCACTTTAGTATTAGTG
1 AGGCACTTTAGTATCAGTG
10996519 TTAAGGCACT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 98 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (44 bp):
AGGCACTTTAGTATCAGTGCGTATGCACTTCTGTATCAGTGTTG
Found at i:10996957 original size:16 final size:16
Alignment explanation
Indices: 10996922--10996954 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10996912 TTAAATTTAA
*
10996922 TTATTTTATTCTTACT
1 TTATTTCATTCTTACT
10996938 TTATTTCATT-TTACT
1 TTATTTCATTCTTACT
10996953 TT
1 TT
10996955 TATGGGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTCATTCTTACT
Found at i:11004444 original size:21 final size:21
Alignment explanation
Indices: 11004409--11004483 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
11004399 CGAACTGGAG
*
11004409 ATTGATATCCATACCGGATGA
1 ATTGGTATCCATACCGGATGA
* * *
11004430 ACTGGTATACATACCGGA-GG
1 ATTGGTATCCATACCGGATGA
* *
11004450 ATTGATATCCATACCGAATGA
1 ATTGGTATCCATACCGGATGA
11004471 ATTGGTATCCATA
1 ATTGGTATCCATA
11004484 TCAAAGATTG
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 15 0.35
21 28 0.65
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (21 bp):
ATTGGTATCCATACCGGATGA
Found at i:11004501 original size:41 final size:41
Alignment explanation
Indices: 11004407--11004493 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
11004397 TCCGAACTGG
* *
11004407 AGATTGATATCCATACCGGATGAACTGGTATACATACCGGA
1 AGATTGATATCCATACCGAATGAACTGGTATACATACCGAA
* * * *
11004448 GGATTGATATCCATACCGAATGAATTGGTATCCATATC-AA
1 AGATTGATATCCATACCGAATGAACTGGTATACATACCGAA
11004488 AGATTG
1 AGATTG
11004494 TGTATCCAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 6 0.15
41 33 0.85
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (41 bp):
AGATTGATATCCATACCGAATGAACTGGTATACATACCGAA
Found at i:11004993 original size:21 final size:21
Alignment explanation
Indices: 11004968--11005020 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
11004958 TAATAGAGAA
11004968 GTATCGATACTCCAAGTAGAG
1 GTATCGATACTCCAAGTAGAG
*
11004989 GTATCGATACTCCAAGTAGGG
1 GTATCGATACTCCAAGTAGAG
*
11005010 GTATTGATACT
1 GTATCGATACT
11005021 GAAAGGCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (21 bp):
GTATCGATACTCCAAGTAGAG
Found at i:11013992 original size:77 final size:79
Alignment explanation
Indices: 11013902--11014054 Score: 197
Period size: 77 Copynumber: 2.0 Consensus size: 79
11013892 GAATTAATAA
* * **
11013902 AAAATCTTATTTAATTAATT-CAAATTAAATA-TACATT-AAAGACTTATAATCTGAATTACAAT
1 AAAATATTATTTAATT-ATTCCAAAATAAATATTA-ATTAAAAGACTTATAATCAAAATTACAAT
11013964 C-TTTAATGTTTATTT
64 CTTTTAATGTTTATTT
* * *
11013979 AAAATATTATTTAATTATTCCAAAATAAATATTAATTAAAAGAGTTGTAATCAAAATTACATTCT
1 AAAATATTATTTAATTATTCCAAAATAAATATTAATTAAAAGACTTATAATCAAAATTACAATCT
11014044 TTTAATGTTTA
66 TTTAATGTTTA
11014055 CTTACTATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
76 3 0.05
77 28 0.43
78 23 0.35
79 11 0.17
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (79 bp):
AAAATATTATTTAATTATTCCAAAATAAATATTAATTAAAAGACTTATAATCAAAATTACAATCT
TTTAATGTTTATTT
Found at i:11017789 original size:21 final size:21
Alignment explanation
Indices: 11017738--11017811 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
11017728 CGATATCGCA
* *
11017738 GTATCCATACCAGA-GGATTG
1 GTATCCATACCAGATGAAATG
* *
11017758 GCATCCGTACCAGAT-AAGATG
1 GTATCCATACCAGATGAA-ATG
* *
11017779 TTATCCATACCAGATGAACTG
1 GTATCCATACCAGATGAAATG
11017800 GTATCCATACCA
1 GTATCCATACCA
11017812 AAGATTGGGT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 13 0.31
21 27 0.64
22 2 0.05
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (21 bp):
GTATCCATACCAGATGAAATG
Found at i:11019362 original size:13 final size:13
Alignment explanation
Indices: 11019344--11019386 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
11019334 ATTTTATTTT
11019344 TATATTATTAAAA
1 TATATTATTAAAA
*
11019357 TATATTATT-TAA
1 TATATTATTAAAA
11019369 T-TATTA-TAAAA
1 TATATTATTAAAA
11019380 TATATTA
1 TATATTA
11019387 ATTTAACCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 1 0.04
11 8 0.31
12 8 0.31
13 9 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TATATTATTAAAA
Found at i:11019371 original size:21 final size:21
Alignment explanation
Indices: 11019338--11019440 Score: 79
Period size: 23 Copynumber: 4.7 Consensus size: 21
11019328 TTAAGAATTT
11019338 TATT-TTTATATTATTAAAATA
1 TATTATTTA-ATTATTAAAATA
11019359 TATTATTTAATTATTATAAAATA
1 TATTATTTAATTA-T-TAAAATA
*
11019382 TATTAATTTAACCGT-TTAAAATA
1 TATT-ATTTAA--TTATTAAAATA
* *
11019405 TAATATGTAATTA-T-AAATA
1 TATTATTTAATTATTAAAATA
11019424 TATTATTATAAATTATT
1 TATTATT-T-AATTATT
11019441 TTAATTTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
19 10 0.15
20 3 0.05
21 13 0.20
22 11 0.17
23 21 0.32
24 7 0.11
26 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TATTATTTAATTATTAAAATA
Found at i:11019373 original size:24 final size:24
Alignment explanation
Indices: 11019309--11019392 Score: 79
Period size: 23 Copynumber: 3.6 Consensus size: 24
11019299 TTTTATTTAT
*
11019309 ATATATTATATTTAA-TATTTTAAGA
1 ATATATTA-ATTTAATTATTATAA-A
* *
11019334 AT-T-TTATTTTTA-TATTATTAAA
1 ATATATTAATTTAATTATTA-TAAA
11019356 ATATATT-ATTTAATTATTATAAA
1 ATATATTAATTTAATTATTATAAA
11019379 ATATATTAATTTAA
1 ATATATTAATTTAA
11019393 CCGTTTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
22 11 0.22
23 22 0.45
24 14 0.29
25 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (24 bp):
ATATATTAATTTAATTATTATAAA
Found at i:11021297 original size:6 final size:7
Alignment explanation
Indices: 11021246--11021295 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
11021236 TTATTGCTTA
*
11021246 AAACCTT
1 AAACCCT
11021253 AAACCCT
1 AAACCCT
*
11021260 AAACACT
1 AAACCCT
**
11021267 AAATTCT
1 AAACCCT
11021274 AAA-CCT
1 AAACCCT
11021280 AAACCCT
1 AAACCCT
11021287 AAACCCT
1 AAACCCT
11021294 AA
1 AA
11021296 CCATCTCTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:11021912 original size:7 final size:7
Alignment explanation
Indices: 11021900--11021950 Score: 75
Period size: 7 Copynumber: 7.3 Consensus size: 7
11021890 GAGAGAATGG
11021900 TTAGGGT
1 TTAGGGT
11021907 TTAGGGT
1 TTAGGGT
*
11021914 TTAAGGT
1 TTAGGGT
**
11021921 TTAGAAT
1 TTAGGGT
11021928 TTAGGGT
1 TTAGGGT
11021935 TTAGGGT
1 TTAGGGT
11021942 TTAGGGT
1 TTAGGGT
11021949 TT
1 TT
11021951 TTAGTAACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (7 bp):
TTAGGGT
Found at i:11026238 original size:21 final size:22
Alignment explanation
Indices: 11026214--11026262 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
11026204 TGTTTTCTCC
11026214 TTTCTCGCTTTTCTCTCAT-CT
1 TTTCTCGCTTTTCTCTCATCCT
* ** *
11026235 TTTCACTTTTTTCTCTCCTCCT
1 TTTCTCGCTTTTCTCTCATCCT
11026257 TTTCTC
1 TTTCTC
11026263 TCATATTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.04, C:0.35, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTCTCGCTTTTCTCTCATCCT
Found at i:11027392 original size:199 final size:198
Alignment explanation
Indices: 11027041--11027520 Score: 533
Period size: 199 Copynumber: 2.4 Consensus size: 198
11027031 CCACATAAGC
* * * * *
11027041 ATATTCGAGGGGTATTTTTGGGTAGTTAATCTAAAAATTTCGTTATTTATAAGATTAGAGGCGTA
1 ATATTCGAGGGGT-TTTTTGGGTAGTTAATATGAAATTTTCATAATTTATAAGATTAGAGGCGTA
* * *
11027106 GTATTGGTATTTATCTTTCAGTTGAAGCCAATATCGACATAAAAGAGATATTATAAGTAGGTTAA
65 GTATTGGTATTTATCTTTCAATTGAAGCCAATATCGACAT-AAAGAGACATTATAAGTAGGGTAA
* * *
11027171 AAATCAAGTTGAAAAAGGTTCCAAAGCTT-GTTTTGTGCATGATCAAAAAGCTAAAAT-GCTTTG
129 AAATCAAGTTCAAAAAGGTTCCAAAGCTTGGTTTTGTGAATGAACAAAAAGCTAAAATGGC-TTG
11027234 ATAGAA
193 ATAGAA
* *
11027240 ATATTCGAGGGGTTTTTTGGGTAGTTAATTTGAAATGTTTCATAATTTATAAGATTAGAGGTGTA
1 ATATTCGAGGGGTTTTTTGGGTAGTTAATATGAAAT-TTTCATAATTTATAAGATTAGAGGCGTA
* ** * *
11027305 GTATT-GTAATTTATCTTTCAATTGAGGGTAATATCAGCACAT-ATGAGACATTATAAGTCGGGT
65 GTATTGGT-ATTTATCTTTCAATTGAAGCCAATATC-G-ACATAAAGAGACATTATAAGTAGGGT
* * * * * *
11027368 AAAAATCACGTTCAAAATGGTTCCAAAGCTTGGTTTTGTGAATGAAGAAGAAGTTAGAATGGCTT
127 AAAAATCAAGTTCAAAAAGGTTCCAAAGCTTGGTTTTGTGAATGAACAAAAAGCTAAAATGGCTT
**
11027433 GATAGGT
192 GATAGAA
* * * *
11027440 ATGTTTG-GGGAGTTTTTT-GGAAGTTAATATGAAAATTTACATAATTTATAAGATTAGAGGCGT
1 ATATTCGAGGG-GTTTTTTGGGTAGTTAATATG-AAATTTTCATAATTTATAAGATTAGAGGCGT
* *
11027503 CA-TATTGATACTTATCTT
64 -AGTATTGGTATTTATCTT
11027521 CTAGTATTGA
Statistics
Matches: 238, Mismatches: 33, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
198 22 0.09
199 162 0.68
200 48 0.20
201 6 0.03
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.36
Consensus pattern (198 bp):
ATATTCGAGGGGTTTTTTGGGTAGTTAATATGAAATTTTCATAATTTATAAGATTAGAGGCGTAG
TATTGGTATTTATCTTTCAATTGAAGCCAATATCGACATAAAGAGACATTATAAGTAGGGTAAAA
ATCAAGTTCAAAAAGGTTCCAAAGCTTGGTTTTGTGAATGAACAAAAAGCTAAAATGGCTTGATA
GAA
Found at i:11034355 original size:24 final size:23
Alignment explanation
Indices: 11034321--11034384 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 23
11034311 AAATTATAAA
11034321 TAAAAAT-AGTTATCTTTATA-TCG
1 TAAAAATAAGTTAT-TTTATAGT-G
*
11034344 TAAAAATAAGTTATTTGTGTAGTG
1 TAAAAATAAGTTATTT-TATAGTG
11034368 TAAAAATAAGTTATTTT
1 TAAAAATAAGTTATTTT
11034385 TAAATTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 10 0.27
24 26 0.70
25 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (23 bp):
TAAAAATAAGTTATTTTATAGTG
Found at i:11035777 original size:25 final size:25
Alignment explanation
Indices: 11035720--11035768 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11035710 ATAAAAACTA
* *
11035720 AATATAAAAAATATCATTCAATTAT
1 AATATAAAAAATATAATTCAAATAT
11035745 AATATAAAAAAT-TAATTCAAATAT
1 AATATAAAAAATATAATTCAAATAT
11035769 TACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (25 bp):
AATATAAAAAATATAATTCAAATAT
Found at i:11035809 original size:32 final size:33
Alignment explanation
Indices: 11035756--11035820 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
11035746 ATATAAAAAA
*
11035756 TTAATTCAAATATTACATTAAATATCA-AAATT
1 TTAATTCAAATATAACATTAAATATCATAAATT
* * *
11035788 TTAATTCAAATGTAACTTTAAATTTCATAAATT
1 TTAATTCAAATATAACATTAAATATCATAAATT
11035821 AATATAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (33 bp):
TTAATTCAAATATAACATTAAATATCATAAATT
Found at i:11039316 original size:22 final size:22
Alignment explanation
Indices: 11039289--11039853 Score: 799
Period size: 22 Copynumber: 25.7 Consensus size: 22
11039279 ACAATAATAA
11039289 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
*
11039311 ATATTTTAAAATAAATCAATCA
1 ATATTTTAAAATAAATCAATCC
11039333 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
* **
11039355 ATATTTTAAAACAAAAT-TTTCC
1 ATATTTTAAAA-TAAATCAATCC
11039377 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
11039399 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
*** *
11039421 ATATTTTAAAATAAATTTTTTC
1 ATATTTTAAAATAAATCAATCC
11039443 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
***
11039465 ATATTTTAAAATAAATTTTTCC
1 ATATTTTAAAATAAATCAATCC
11039487 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
***
11039509 ATATTTTAAAATAAATTTTTCC
1 ATATTTTAAAATAAATCAATCC
11039531 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
***
11039553 ATATTTTAAAATAAATTTTTCC
1 ATATTTTAAAATAAATCAATCC
11039575 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
11039597 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
**
11039619 ATATTTTAAAATAAATCAATTT
1 ATATTTTAAAATAAATCAATCC
***
11039641 ATATTTTAAAATAAATTTTTCC
1 ATATTTTAAAATAAATCAATCC
11039663 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
* ***
11039685 ATATTTTAAAATAATTGTTTCC
1 ATATTTTAAAATAAATCAATCC
11039707 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
11039729 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
* * *** *
11039751 ATATTTTCAAATAATTTTTTTC
1 ATATTTTAAAATAAATCAATCC
*
11039773 ATATTTTAAAATAAATCAATTC
1 ATATTTTAAAATAAATCAATCC
*
11039795 ATATTTTAAAATAAATCAATAC
1 ATATTTTAAAATAAATCAATCC
*
11039817 ATATTTTAAAATAAATCAATTC
1 ATATTTTAAAATAAATCAATCC
11039839 ATATTTTAAAATAAA
1 ATATTTTAAAATAAA
11039854 ATTTTAAAAT
Statistics
Matches: 476, Mismatches: 65, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
21 4 0.01
22 468 0.98
23 4 0.01
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATTTTAAAATAAATCAATCC
Found at i:11040790 original size:16 final size:16
Alignment explanation
Indices: 11040769--11040804 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
11040759 TGTTACTATA
11040769 ATATTTTACTATTTT-T
1 ATATTTTA-TATTTTAT
11040785 ATATTTTATATTTTAT
1 ATATTTTATATTTTAT
11040801 ATAT
1 ATAT
11040805 CAAATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
ATATTTTATATTTTAT
Found at i:11040821 original size:7 final size:7
Alignment explanation
Indices: 11040769--11040802 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
11040759 TGTTACTATA
11040769 ATATTTT
1 ATATTTT
11040776 ACTATTTTT
1 A-TA-TTTT
11040785 ATATTTT
1 ATATTTT
11040792 ATATTTT
1 ATATTTT
11040799 ATAT
1 ATAT
11040803 ATCAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 16 0.64
8 4 0.16
9 5 0.20
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (7 bp):
ATATTTT
Found at i:11047231 original size:35 final size:36
Alignment explanation
Indices: 11047179--11047252 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
11047169 AGAAAAGGAC
* *
11047179 AAATAATAAAATAAGTAAAATATA-AAAATAAAACA
1 AAATAATAAAATAAGTAAAATAAATAAAATAAAAAA
*
11047214 AAATAATTAAAAT-AGTAACATAAATAAAATAAAAAA
1 AAATAA-TAAAATAAGTAAAATAAATAAAATAAAAAA
11047250 AAA
1 AAA
11047253 ACAAAGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 15 0.44
36 19 0.56
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (36 bp):
AAATAATAAAATAAGTAAAATAAATAAAATAAAAAA
Found at i:11047236 original size:27 final size:26
Alignment explanation
Indices: 11047186--11047245 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
11047176 GACAAATAAT
11047186 AAAATAAGTAAAATATAAAAATAAAAC
1 AAAATAAGTAAAATATAAAAAT-AAAC
* * *
11047213 AAAATAATTAAAATAGT-AACATAAAT
1 AAAATAAGTAAAATA-TAAAAATAAAC
11047239 AAAATAA
1 AAAATAA
11047246 AAAAAAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 18 0.62
28 1 0.03
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (26 bp):
AAAATAAGTAAAATATAAAAATAAAC
Found at i:11047343 original size:24 final size:25
Alignment explanation
Indices: 11047294--11047340 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
11047284 AACACGAAAC
11047294 AAAAGTAAAACAAAAAAAGTAAAAT
1 AAAAGTAAAACAAAAAAAGTAAAAT
11047319 AAAA-TAAAACAAAAAAA-TAAAA
1 AAAAGTAAAACAAAAAAAGTAAAA
11047341 ATAGTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.23
24 13 0.59
25 4 0.18
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (25 bp):
AAAAGTAAAACAAAAAAAGTAAAAT
Found at i:11047436 original size:18 final size:18
Alignment explanation
Indices: 11047370--11047438 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 18
11047360 GTGTTTAATA
11047370 AAACAAGTACAAAAAAAT
1 AAACAAGTACAAAAAAAT
*
11047388 AAA-AAATACATAAAAAAT
1 AAACAAGTACA-AAAAAAT
*
11047406 -AATAAGT-----AAAAT
1 AAACAAGTACAAAAAAAT
11047418 AAACAAGTACAAAAAAAT
1 AAACAAGTACAAAAAAAT
11047436 AAA
1 AAA
11047439 TAATATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
12 5 0.12
13 6 0.15
17 8 0.20
18 21 0.52
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.14
Consensus pattern (18 bp):
AAACAAGTACAAAAAAAT
Found at i:11047515 original size:3 final size:3
Alignment explanation
Indices: 11047507--11047538 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11047497 ATAAACAATA
11047507 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11047539 GAGGACTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11048488 original size:17 final size:17
Alignment explanation
Indices: 11048466--11048502 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
11048456 GTTGCTACTT
*
11048466 TGAGGCGGGTTCGGGTC
1 TGAGGCGAGTTCGGGTC
11048483 TGAGGCGAGTTCGGGTC
1 TGAGGCGAGTTCGGGTC
11048500 TGA
1 TGA
11048503 ACCGGTTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.49, T:0.24
Consensus pattern (17 bp):
TGAGGCGAGTTCGGGTC
Found at i:11048512 original size:16 final size:16
Alignment explanation
Indices: 11048473--11048514 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
11048463 CTTTGAGGCG
**
11048473 GGTTCGGGTCTGAGGC
1 GGTTCGGGTCTGAACC
11048489 GAGTTCGGGTCTGAACC
1 G-GTTCGGGTCTGAACC
11048506 GGTTCGGGT
1 GGTTCGGGT
11048515 GCTCCAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.10, C:0.19, G:0.45, T:0.26
Consensus pattern (16 bp):
GGTTCGGGTCTGAACC
Found at i:11050463 original size:18 final size:19
Alignment explanation
Indices: 11050437--11050475 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
11050427 TGAACCCACC
*
11050437 TTATTTCTTTTT-TTTTCT
1 TTATCTCTTTTTCTTTTCT
11050455 TTATCTCTTTTTCTTTTCT
1 TTATCTCTTTTTCTTTTCT
11050474 TT
1 TT
11050476 TTTTTGTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (19 bp):
TTATCTCTTTTTCTTTTCT
Found at i:11058304 original size:22 final size:22
Alignment explanation
Indices: 11058262--11058304 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11058252 ATTAGACAAA
* *
11058262 TATAATTGCTTGTTAACAACAG
1 TATAATTGCTTGATAAAAACAG
11058284 TATAATATG-TTGATAAAAACA
1 TATAAT-TGCTTGATAAAAACA
11058305 ATTTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (22 bp):
TATAATTGCTTGATAAAAACAG
Found at i:11058475 original size:37 final size:36
Alignment explanation
Indices: 11058390--11058700 Score: 250
Period size: 36 Copynumber: 8.4 Consensus size: 36
11058380 TAAATATGGT
* *
11058390 TTTTGAAAATATATAATATAT-AGTTTTTAGAAATTTA-
1 TTTTGAAAACATATAATATATAATTTTTTA-AAA--TAG
*
11058427 TTTTAAAAAAACATATAATATATATATTTTTTAAAATAG
1 TTTT--GAAAACATATAATATATA-ATTTTTTAAAATAG
* **
11058466 TTTTGAAAACATATAATATATAGTTTTTTAAAACGG
1 TTTTGAAAACATATAATATATAATTTTTTAAAATAG
* * ** * *
11058502 TTTGGACAATGTATAATATATAGTTTTTTTAAAACAG
1 TTTTGAAAACATATAATATATA-ATTTTTTAAAATAG
* * * *
11058539 TTTTGAAAACGTATAGTATATAGTTTTTTAAAATAA
1 TTTTGAAAACATATAATATATAATTTTTTAAAATAG
* ** * *
11058575 TTTTAAAAATGTATAATATATACTTTTTTTTAAAAATAA
1 TTTTGAAAACATATAATATATA--ATTTTTT-AAAATAG
* * *
11058614 TTTTGAAAACATATAATATATAGTTTTTTAAAACAT
1 TTTTGAAAACATATAATATATAATTTTTTAAAATAG
* ** *
11058650 TTTTGAAAACGTATAATATATAA-TTTAAAAAATGG
1 TTTTGAAAACATATAATATATAATTTTTTAAAATAG
11058685 TTTTTGAAAACATATA
1 -TTTTGAAAACATATA
11058701 TAATATAGTT
Statistics
Matches: 226, Mismatches: 38, Indels: 21
0.79 0.13 0.07
Matches are distributed among these distances:
35 7 0.03
36 99 0.44
37 57 0.25
38 8 0.04
39 45 0.20
40 3 0.01
41 7 0.03
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (36 bp):
TTTTGAAAACATATAATATATAATTTTTTAAAATAG
Found at i:11058517 original size:36 final size:36
Alignment explanation
Indices: 11058434--11058671 Score: 269
Period size: 36 Copynumber: 6.5 Consensus size: 36
11058424 TTATTTTAAA
* * *
11058434 AAAACATATAATATATATATTTTTTAAAATAGTTTTG
1 AAAACGTATAATATATA-GTTTTTTAAAACAGTTTTG
* * *
11058471 AAAACATATAATATATAGTTTTTTAAAACGGTTTGG
1 AAAACGTATAATATATAGTTTTTTAAAACAGTTTTG
* *
11058507 ACAATGTATAATATATAGTTTTTTTAAAACAGTTTTG
1 AAAACGTATAATATATAG-TTTTTTAAAACAGTTTTG
* * * *
11058544 AAAACGTATAGTATATAGTTTTTTAAAATAATTTTA
1 AAAACGTATAATATATAGTTTTTTAAAACAGTTTTG
* * * *
11058580 AAAATGTATAATATATACTTTTTTTTAAAAATAATTTTG
1 AAAACGTATAATATATA--GTTTTTT-AAAACAGTTTTG
* *
11058619 AAAACATATAATATATAGTTTTTTAAAACATTTTTG
1 AAAACGTATAATATATAGTTTTTTAAAACAGTTTTG
11058655 AAAACGTATAATATATA
1 AAAACGTATAATATATA
11058672 ATTTAAAAAA
Statistics
Matches: 172, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
36 86 0.50
37 54 0.31
38 6 0.03
39 26 0.15
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (36 bp):
AAAACGTATAATATATAGTTTTTTAAAACAGTTTTG
Found at i:11058542 original size:73 final size:72
Alignment explanation
Indices: 11058390--11058712 Score: 328
Period size: 73 Copynumber: 4.4 Consensus size: 72
11058380 TAAATATGGT
* ** * **
11058390 TTTTGAAAATATATAATATATAG-TTTTTAGAAATTTATTTTAAAAAAACATATAATATATATAT
1 TTTTGAAAACATATAATATATAGTTTTTTA-AAA-CAATTTT--GAAAATGTATAATATATAT-T
11058454 TTTTTAAAATAG
61 TTTTTAAAATAG
** * *
11058466 TTTTGAAAACATATAATATATAGTTTTTTAAAACGGTTTGGACAATGTATAATATATAGTTTTTT
1 TTTTGAAAACATATAATATATAGTTTTTTAAAACAATTTTGAAAATGTATAATATATA-TTTTTT
*
11058531 TAAAACAG
65 TAAAATAG
* * * *
11058539 TTTTGAAAACGTATAGTATATAGTTTTTTAAAATAATTTTAAAAATGTATAATATATACTTTTTT
1 TTTTGAAAACATATAATATATAGTTTTTTAAAACAATTTTGAAAATGTATAATATATA--TTTTT
*
11058604 TTAAAAATAA
64 TT-AAAATAG
* * * **
11058614 TTTTGAAAACATATAATATATAGTTTTTTAAAACATTTTTGAAAACGTATAATATATA-ATTTAA
1 TTTTGAAAACATATAATATATAGTTTTTTAAAACAATTTTGAAAATGTATAATATATATTTTTTT
*
11058678 AAAATGG
66 AAAATAG
11058685 TTTTTGAAAACATAT-ATAATATAGTTTT
1 -TTTTGAAAACATATAAT-ATATAGTTTT
11058713 GAAAACATAT
Statistics
Matches: 209, Mismatches: 32, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
71 7 0.03
72 27 0.13
73 76 0.36
74 8 0.04
75 60 0.29
76 25 0.12
77 6 0.03
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (72 bp):
TTTTGAAAACATATAATATATAGTTTTTTAAAACAATTTTGAAAATGTATAATATATATTTTTTT
AAAATAG
Found at i:11058730 original size:59 final size:59
Alignment explanation
Indices: 11058650--11058761 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
11058640 TTTAAAACAT
* *
11058650 TTTTGAAAACGTATAATATATAATTTAAAAAATGGT-TTTTGAAAACATATATAATATAG
1 TTTTGAAAACATATAATATATAATTTAAAAAAT-ATATTTTGAAAACATATATAATATAG
* **
11058709 TTTTGAAAACATAT-ATAATATAGTTTTGAAAATATATTTTGAAAACATATATA
1 TTTTGAAAACATATAAT-ATATAATTTAAAAAATATATTTTGAAAACATATATA
11058762 GTTTTTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 3 0.07
59 43 0.93
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (59 bp):
TTTTGAAAACATATAATATATAATTTAAAAAATATATTTTGAAAACATATATAATATAG
Found at i:11058743 original size:21 final size:23
Alignment explanation
Indices: 11058686--11058745 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
11058676 AAAAAATGGT
11058686 TTTTGAAAACATATATAATATAG
1 TTTTGAAAACATATATAATATAG
11058709 TTTTGAAAACATATATAATATAG
1 TTTTGAAAACATATATAATATAG
*
11058732 TTTTGAAAATATAT
1 TTTTGAAAACATAT
11058746 TTTGAAAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (23 bp):
TTTTGAAAACATATATAATATAG
Found at i:11058744 original size:148 final size:145
Alignment explanation
Indices: 11058390--11058717 Score: 336
Period size: 148 Copynumber: 2.2 Consensus size: 145
11058380 TAAATATGGT
* * ** * * ** * *
11058390 TTTTGAAAATATATAATATATAGTTTTTAGAAATTTATTTTAAAAAAACATATAATATATATATT
1 TTTTGAAAACATATAGTATATAG-TTTT-GAAAAATA-ATTATAAAAATGTATAAAATATATTTT
* * * *
11058455 TTTTAAAATAGTTTTGAAAACATATAATATATAGTTTTTTAAAACGGTTTGGACAATGTATAATA
63 TTTTAAAATAATTTTGAAAACATATAATATATAGTTTTTTAAAACAGTTTGGAAAACGTATAATA
* **
11058520 TATAGTTTTTTTAAAACAG
128 TATAG-ATTTAAAAAACAG
* ** * *
11058539 TTTTGAAAACGTATAGTATATAGTTTTTTAAAATAATTTTAAAAATGTATAATATATACTTTTTT
1 TTTTGAAAACATATAGTATATAGTTTTGAAAAATAATTATAAAAATGTATAAAATATA-TTTTTT
* *
11058604 TTAAAAATAATTTTGAAAACATATAATATATAGTTTTTTAAAACATTTTTGAAAACGTATAATAT
65 TT-AAAATAATTTTGAAAACATATAATATATAGTTTTTTAAAACAGTTTGGAAAACGTATAATAT
**
11058669 ATA-ATTTAAAAAATGG
129 ATAGATTTAAAAAACAG
11058685 TTTTTGAAAACATATA-TAATATAGTTTTGAAAA
1 -TTTTGAAAACATATAGT-ATATAGTTTTGAAAA
11058718 CATATATAAT
Statistics
Matches: 148, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
146 27 0.18
147 38 0.26
148 63 0.43
149 20 0.14
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (145 bp):
TTTTGAAAACATATAGTATATAGTTTTGAAAAATAATTATAAAAATGTATAAAATATATTTTTTT
TAAAATAATTTTGAAAACATATAATATATAGTTTTTTAAAACAGTTTGGAAAACGTATAATATAT
AGATTTAAAAAACAG
Found at i:11058750 original size:13 final size:13
Alignment explanation
Indices: 11058725--11058758 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
11058715 AAACATATAT
11058725 AATATAGTTTTGAA
1 AATATA-TTTTGAA
11058739 AATATATTTTGAA
1 AATATATTTTGAA
*
11058752 AACATAT
1 AATATAT
11058759 ATAGTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (13 bp):
AATATATTTTGAA
Found at i:11058785 original size:30 final size:31
Alignment explanation
Indices: 11058726--11058791 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
11058716 AACATATATA
11058726 ATATAGTTTTGAAAATATATTTTGAAAACAT
1 ATATAGTTTTGAAAATATATTTTGAAAACAT
* *
11058757 ATATAGTTTTTAAAATAT-TTTTGGAAACAT
1 ATATAGTTTTGAAAATATATTTTGAAAACAT
11058787 ATATA
1 ATATA
11058792 ATATATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 16 0.48
31 17 0.52
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (31 bp):
ATATAGTTTTGAAAATATATTTTGAAAACAT
Found at i:11058797 original size:37 final size:40
Alignment explanation
Indices: 11058755--11058847 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 40
11058745 TTTTGAAAAC
11058755 ATATATAGTTTTTAAA-ATA-T-TTTTGGAAACATAT-ATA
1 ATATATAGTTTTTAAACATATTGTTTTGGAAA-ATATAATA
* *
11058792 ATATATAATTTTTGAAAACATATTGTTTTTGAAAATATAATA
1 ATATATAGTTTTT--AAACATATTGTTTTGGAAAATATAATA
*
11058834 TTATATAGTTTTTA
1 ATATATAGTTTTTA
11058848 TTTTATATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
37 12 0.26
39 3 0.07
40 4 0.09
41 5 0.11
42 22 0.48
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (40 bp):
ATATATAGTTTTTAAACATATTGTTTTGGAAAATATAATA
Found at i:11058879 original size:26 final size:25
Alignment explanation
Indices: 11058845--11058908 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 25
11058835 TATATAGTTT
*
11058845 TTATTTTATATTATATTATAATATG
1 TTATATTATATTATATTATAATATG
* **
11058870 TTAATATTAT-TTATTTTTATTTTATG
1 TT-ATATTATATTA-TATTATAATATG
11058896 TTATATTA-ATTAT
1 TTATATTATATTAT
11058909 TATTTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
24 1 0.03
25 14 0.44
26 17 0.53
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (25 bp):
TTATATTATATTATATTATAATATG
Found at i:11058940 original size:28 final size:27
Alignment explanation
Indices: 11058877--11058942 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
11058867 ATGTTAATAT
11058877 TATTTATTTTTATTTTATGTTATATTA
1 TATTTATTTTTATTTTATGTTATATTA
11058904 -ATTATTATTTTTA-TTTAT-TATATAGTTA
1 TA-T-TTATTTTTATTTTATGT-TATA-TTA
11058932 TATTGTATTTT
1 TATT-TATTTT
11058943 ATTAATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
26 2 0.06
27 11 0.33
28 19 0.58
29 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (27 bp):
TATTTATTTTTATTTTATGTTATATTA
Found at i:11070818 original size:23 final size:22
Alignment explanation
Indices: 11070786--11070831 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
11070776 GTTTAATATA
* * *
11070786 TATATTATACTTATTACATTTTG
1 TATATCATACATA-TACATATTG
11070809 TATATCATACATATACATATTG
1 TATATCATACATATACATATTG
11070831 T
1 T
11070832 TTCACAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (22 bp):
TATATCATACATATACATATTG
Found at i:11071182 original size:23 final size:23
Alignment explanation
Indices: 11071156--11071224 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
11071146 CACCACAGCT
* *
11071156 CGTATAAATGTACTGAAGTGCCA
1 CGTAGAAATGCACTGAAGTGCCA
* *
11071179 CGTAGAATTGCACTGAAGTGCCG
1 CGTAGAAATGCACTGAAGTGCCA
*
11071202 CATAGAAATGCACTGAAGTGCCA
1 CGTAGAAATGCACTGAAGTGCCA
11071225 TATAAGATTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (23 bp):
CGTAGAAATGCACTGAAGTGCCA
Found at i:11075255 original size:14 final size:16
Alignment explanation
Indices: 11075236--11075275 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
11075226 CATTTCTTCG
11075236 TTCTTCATTTT-A-TT
1 TTCTTCATTTTAATTT
11075250 TTCTTCATATTTAATTT
1 TTCTTCAT-TTTAATTT
11075267 TTCTTCATT
1 TTCTTCATT
11075276 CCATGTGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 8 0.35
15 3 0.13
16 2 0.09
17 10 0.43
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (16 bp):
TTCTTCATTTTAATTT
Found at i:11080609 original size:36 final size:36
Alignment explanation
Indices: 11080521--11080762 Score: 252
Period size: 36 Copynumber: 6.7 Consensus size: 36
11080511 TATTTTTAAC
* *
11080521 AAAACGTATAATATATATAGTTTTTAAAAATAGTTTTTG
1 AAAACGTAT-A-ATATATAGTTTTTTAAAATA-ATTTTG
* * * *
11080560 AAAACATAAAATATATAGTTTTTTAGAACAATTTTG
1 AAAACGTATAATATATAGTTTTTTAAAATAATTTTG
* * **
11080596 AAGACGTATAATATATAGTTTTTGAAAATGGTTTTG
1 AAAACGTATAATATATAGTTTTTTAAAATAATTTTG
* * * * * *
11080632 AAAACTTACAGTATATAGTTTTTAAAAATTATTTTA
1 AAAACGTATAATATATAGTTTTTTAAAATAATTTTG
*
11080668 AAAACGTATAATATATACTTTTTTAAAATAATTTTG
1 AAAACGTATAATATATAGTTTTTTAAAATAATTTTG
* **
11080704 -AAACATATAATATATAGTTTTTTAAAATTGTTTTG
1 AAAACGTATAATATATAGTTTTTTAAAATAATTTTG
* *
11080739 AAAATGTATAATATATAATTTTTT
1 AAAACGTATAATATATAGTTTTTT
11080763 TTAAAAAAAG
Statistics
Matches: 166, Mismatches: 36, Indels: 5
0.80 0.17 0.02
Matches are distributed among these distances:
35 31 0.19
36 110 0.66
37 17 0.10
38 1 0.01
39 7 0.04
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (36 bp):
AAAACGTATAATATATAGTTTTTTAAAATAATTTTG
Found at i:11080762 original size:72 final size:72
Alignment explanation
Indices: 11080476--11080801 Score: 296
Period size: 72 Copynumber: 4.4 Consensus size: 72
11080466 AAATATGATT
* * * * *
11080476 TTTTGAAAATATATAATATACAGTTTTTGGAAATTTATTTTTAACAAAACGTATAATATATATAG
1 TTTTGAAAACATATAATATATAGTTTTT-TAAAATTA-TTTT--GAAAACGTAT-A-ATATATAG
* *
11080541 TTTTTAAAAATAGT
60 TTTTTTAAAATA-A
* * ** * *
11080555 TTTTGAAAACATAAAATATATAGTTTTTTAGAACAATTTTGAAGACGTATAATATATAGTTTTTG
1 TTTTGAAAACATATAATATATAGTTTTTTAAAATTATTTTGAAAACGTATAATATATAGTTTTTT
**
11080620 AAAATGG
66 AAAATAA
* * * * * *
11080627 TTTTGAAAACTTACAGTATATAGTTTTTAAAAATTATTTTAAAAACGTATAATATATACTTTTTT
1 TTTTGAAAACATATAATATATAGTTTTTTAAAATTATTTTGAAAACGTATAATATATAGTTTTTT
11080692 AAAATAA
66 AAAATAA
* * *
11080699 TTTTG-AAACATATAATATATAGTTTTTTAAAATTGTTTTGAAAATGTATAATATATAATTTTTT
1 TTTTGAAAACATATAATATATAGTTTTTTAAAATTATTTTGAAAACGTATAATATAT-A-GTTTT
*
11080763 TTAAAAAAA
64 TTAAAATAA
11080772 GGGTTTTGAAAACATAT-ATAATATAGTTTT
1 ---TTTTGAAAACATATAAT-ATATAGTTTT
11080802 GAAATCGTAT
Statistics
Matches: 205, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
71 44 0.21
72 65 0.32
73 30 0.15
74 1 0.00
75 8 0.04
76 7 0.03
77 22 0.11
78 3 0.01
79 25 0.12
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.44
Consensus pattern (72 bp):
TTTTGAAAACATATAATATATAGTTTTTTAAAATTATTTTGAAAACGTATAATATATAGTTTTTT
AAAATAA
Found at i:11080851 original size:37 final size:40
Alignment explanation
Indices: 11080810--11080902 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 40
11080800 TTGAAATCGT
11080810 ATATATAGTTTTTAAA-ATA-T-TTTTAGAAACATAT-ATA
1 ATATATAGTTTTTAAACATATTATTTTAGAAA-ATATAATA
* *
11080847 ATATATAATTTTTGAAAACATATTATTTTTGAAAATATAATA
1 ATATATAGTTTTT--AAACATATTATTTTAGAAAATATAATA
*
11080889 TTATATAGTTTTTA
1 ATATATAGTTTTTA
11080903 TTATATATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
37 12 0.26
39 3 0.07
40 4 0.09
41 5 0.11
42 22 0.48
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (40 bp):
ATATATAGTTTTTAAACATATTATTTTAGAAAATATAATA
Found at i:11080874 original size:17 final size:17
Alignment explanation
Indices: 11080849--11080881 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11080839 CATATATAAT
11080849 ATATAATTTTTGAAAAC
1 ATATAATTTTTGAAAAC
*
11080866 ATATTATTTTTGAAAA
1 ATATAATTTTTGAAAA
11080882 TATAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (17 bp):
ATATAATTTTTGAAAAC
Found at i:11080890 original size:17 final size:17
Alignment explanation
Indices: 11080854--11080890 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11080844 ATAATATATA
*
11080854 ATTTTTGAAAACATATT
1 ATTTTTGAAAACATAAT
*
11080871 ATTTTTGAAAATATAAT
1 ATTTTTGAAAACATAAT
11080888 ATT
1 ATT
11080891 ATATAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (17 bp):
ATTTTTGAAAACATAAT
Found at i:11080938 original size:6 final size:6
Alignment explanation
Indices: 11080924--11081022 Score: 56
Period size: 6 Copynumber: 14.8 Consensus size: 6
11080914 ATTATATTAA
*
11080924 TATTATT TATTTT TATTTT ATGTTGTAT TAATTTT TATTTT TATTTT TATTTAT
1 TATT-TT TATTTT TATTTT -TATT-T-T T-ATTTT TATTTT TATTTT TATTT-T
* * *
11080978 TATATATT TATATTG TATTTTAT TAATTT TACTTT T-TTTT TATTT
1 TAT-T-TT TAT-TTT TA-TTT-T TATTTT TATTTT TATTTT TATTT
11081023 GGTCCCGGTC
Statistics
Matches: 75, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
5 4 0.05
6 34 0.45
7 20 0.27
8 13 0.17
9 4 0.05
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (6 bp):
TATTTT
Found at i:11080952 original size:22 final size:21
Alignment explanation
Indices: 11080927--11080997 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 21
11080917 ATATTAATAT
11080927 TATTTATTTTTATTTTATGTTG
1 TATTTATTTTTATTTTAT-TTG
* *
11080949 TATTAATTTTTATTTTTATTTT
1 TATTTATTTTTA-TTTTATTTG
*
11080971 TATTTA-TTATATATTTATATTG
1 TATTTATTTTTAT-TTTAT-TTG
11080993 TATTT
1 TATTT
11080998 TATTAATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
20 1 0.02
21 9 0.22
22 25 0.61
23 6 0.15
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (21 bp):
TATTTATTTTTATTTTATTTG
Found at i:11080964 original size:28 final size:28
Alignment explanation
Indices: 11080915--11081000 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
11080905 ATATATTCAA
*
11080915 TTATA-TTAATAT-TATTTATTTTTATT
1 TTATATTTATTATATATTTATTTTTATT
* *
11080941 TTATGTTGTATTA-ATTTTTATTTTTATT
1 TTATATT-TATTATATATTTATTTTTATT
*
11080969 TT-TATTTATTATATATTTATATTGTATT
1 TTATATTTATTATATATTTAT-TTTTATT
11080997 TTAT
1 TTAT
11081001 TAATTTTACT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
26 9 0.19
27 11 0.23
28 27 0.56
29 1 0.02
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (28 bp):
TTATATTTATTATATATTTATTTTTATT
Found at i:11080976 original size:44 final size:44
Alignment explanation
Indices: 11080926--11081022 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 44
11080916 TATATTAATA
* * * *
11080926 TTATTTATTTTTAT-TTTATGTTGTATTAATTTTTATTTTTA-TTT
1 TTATTTATTTATATATTTATATTGTATT--TTATTAATTTTACTTT
11080970 TTATTTA-TTATATATTTATATTGTATTTTATTAATTTTACTTT
1 TTATTTATTTATATATTTATATTGTATTTTATTAATTTTACTTT
*
11081013 TTTTTTATTT
1 TTATTTATTT
11081023 GGTCCCGGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
42 10 0.22
43 14 0.31
44 21 0.47
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (44 bp):
TTATTTATTTATATATTTATATTGTATTTTATTAATTTTACTTT
Found at i:11081007 original size:49 final size:49
Alignment explanation
Indices: 11080924--11081022 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 49
11080914 ATTATATTAA
* * * *
11080924 TATTATTTATTTTTATTTTATGTTGTATTAATTTTTATTTTTATTTTTATT
1 TATTATATATTTATATTGTATGTTGTATTAA-TTTTACTTTT-TTTTTATT
11080975 TATTATATATTTATATTGTAT-TT-TATTAATTTTACTTTTTTTTTATT
1 TATTATATATTTATATTGTATGTTGTATTAATTTTACTTTTTTTTTATT
11081022 T
1 T
11081023 GGTCCCGGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
47 9 0.20
48 9 0.20
49 6 0.14
50 2 0.05
51 18 0.41
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (49 bp):
TATTATATATTTATATTGTATGTTGTATTAATTTTACTTTTTTTTTATT
Found at i:11085150 original size:52 final size:52
Alignment explanation
Indices: 11085086--11085206 Score: 170
Period size: 52 Copynumber: 2.3 Consensus size: 52
11085076 TAACAGTGTA
* * *
11085086 AGAGCATCAAGAGATCGACTGGGGTTTCGATAAAATATGTCTTGGCATTGTG
1 AGAGCATCAAGAGATAGACTAGGGTTTCGATAAAACATGTCTTGGCATTGTG
* * * *
11085138 AGAGCATTAAGAGATAGCCTAGGGTTTCGGTATAACATGTCTTGGCATTGTG
1 AGAGCATCAAGAGATAGACTAGGGTTTCGATAAAACATGTCTTGGCATTGTG
*
11085190 AGAGCATCGAGAGATAG
1 AGAGCATCAAGAGATAG
11085207 TCTTTTGTCT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (52 bp):
AGAGCATCAAGAGATAGACTAGGGTTTCGATAAAACATGTCTTGGCATTGTG
Found at i:11098190 original size:44 final size:44
Alignment explanation
Indices: 11098109--11098214 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
11098099 TATATTTCAT
11098109 GCTATGTGACATGATATATGTGATTATATGAAAATGTGATATAA
1 GCTATGTGACATGATATATGTGATTATATGAAAATGTGATATAA
* * * ****
11098153 GTTATGTGACATGATCTATGTGATTATTTTTCTATGTGATATAA
1 GCTATGTGACATGATATATGTGATTATATGAAAATGTGATATAA
* *
11098197 GCTATGTGAAATGGTATA
1 GCTATGTGACATGATATA
11098215 AATGATAAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.41
Consensus pattern (44 bp):
GCTATGTGACATGATATATGTGATTATATGAAAATGTGATATAA
Found at i:11098308 original size:23 final size:24
Alignment explanation
Indices: 11098282--11098378 Score: 130
Period size: 23 Copynumber: 4.2 Consensus size: 24
11098272 GAGTCGAGGG
*
11098282 TTCTATGCGGTCCTTCGGGAATA-
1 TTCTACGCGGTCCTTCGGGAATAT
* *
11098305 TTCTACGTGGTCCTTCGGG-ACAT
1 TTCTACGCGGTCCTTCGGGAATAT
*
11098328 TTCTACGCGGTCCTTC-GGAACAT
1 TTCTACGCGGTCCTTCGGGAATAT
11098351 TTCTACGCGGTCCTTCGGG-ATAT
1 TTCTACGCGGTCCTTCGGGAATAT
11098374 TTCTA
1 TTCTA
11098379 TGTGGTACTT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
22 4 0.06
23 60 0.91
24 2 0.03
ACGTcount: A:0.15, C:0.26, G:0.24, T:0.35
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGAATAT
Found at i:11100446 original size:3 final size:3
Alignment explanation
Indices: 11100432--11100572 Score: 95
Period size: 3 Copynumber: 44.3 Consensus size: 3
11100422 GTATATGATG
* *
11100432 TTA TTAA TTA TTA TTA CTA TTAA TTA ATA TTA TTAA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TT-A TTA TTA TTA TT-A TTA TTA TTA TTA
** * * * * *
11100480 TTA TTA TTA TTA TTA TTAA CCA ATG TTA TTAA TTC GTA TTG TTAA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TT-A TTA TTA TTA TT-A TTA
* *
11100528 TTCA -TA TTAA TTA TTA TTA TTAA TTA TTG TTA TTA TTA TTG TTA T
1 TT-A TTA TT-A TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T
11100573 ATAAATAAAA
Statistics
Matches: 107, Mismatches: 21, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
2 1 0.01
3 84 0.79
4 22 0.21
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:11100554 original size:13 final size:13
Alignment explanation
Indices: 11100432--11100572 Score: 109
Period size: 13 Copynumber: 11.3 Consensus size: 13
11100422 GTATATGATG
11100432 TTATTAATTATTA
1 TTATTAATTATTA
*
11100445 TTACT-ATTA--A
1 TTATTAATTATTA
*
11100455 TTAAT-ATTATTAA
1 TTATTAATTATT-A
11100468 TTATT-ATTATTA
1 TTATTAATTATTA
11100480 TTATT-ATTATTA
1 TTATTAATTATTA
** * *
11100492 TTATTAACCAATG
1 TTATTAATTATTA
**
11100505 TTATTAATTCGTA
1 TTATTAATTATTA
*
11100518 TTGTTAATTATTCA
1 TTATTAATTATT-A
11100532 -TATTAATTATTA
1 TTATTAATTATTA
*
11100544 TTATTAATTATTG
1 TTATTAATTATTA
*
11100557 TTATT-ATTATTG
1 TTATTAATTATTA
11100569 TTAT
1 TTAT
11100573 ATAAATAAAA
Statistics
Matches: 105, Mismatches: 17, Indels: 13
0.78 0.13 0.10
Matches are distributed among these distances:
10 9 0.09
12 34 0.32
13 61 0.58
14 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (13 bp):
TTATTAATTATTA
Found at i:11100560 original size:16 final size:16
Alignment explanation
Indices: 11100432--11100565 Score: 107
Period size: 16 Copynumber: 8.4 Consensus size: 16
11100422 GTATATGATG
11100432 TTATTAATTATTATTA
1 TTATTAATTATTATTA
*
11100448 CTATTAATTA--A-TA
1 TTATTAATTATTATTA
11100461 TTATTAATTATTATTA
1 TTATTAATTATTATTA
11100477 TTATT-ATTATTATTA
1 TTATTAATTATTATTA
** * *
11100492 TTATTAACCAATGTTA
1 TTATTAATTATTATTA
** *
11100508 TTAATT-CGTATTGTTAA
1 TT-ATTAATTATTATT-A
11100525 TTATTCATATTAATTATTA
1 TTATT-A-ATT-ATTATTA
*
11100544 TTATTAATTATTGTTA
1 TTATTAATTATTATTA
11100560 TTATTA
1 TTATTA
11100566 TTGTTATATA
Statistics
Matches: 94, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
13 11 0.12
14 1 0.01
15 16 0.17
16 44 0.47
17 9 0.10
18 1 0.01
19 7 0.07
20 5 0.05
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (16 bp):
TTATTAATTATTATTA
Found at i:11101495 original size:20 final size:21
Alignment explanation
Indices: 11101470--11101513 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
11101460 TTTTTTAAAT
11101470 AGTGAACAGTA-CCCATGAAC
1 AGTGAACAGTACCCCATGAAC
11101490 AGTGAACAGTACCCCATGAAC
1 AGTGAACAGTACCCCATGAAC
11101511 AGT
1 AGT
11101514 AGTGGAATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (21 bp):
AGTGAACAGTACCCCATGAAC
Found at i:11101601 original size:12 final size:12
Alignment explanation
Indices: 11101584--11101626 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
11101574 GCTATAGTAC
11101584 GCTACAGTAACT
1 GCTACAGTAACT
*
11101596 GCTACATTAA--
1 GCTACAGTAACT
*
11101606 GCTACAGTACCT
1 GCTACAGTAACT
11101618 GCTACAGTA
1 GCTACAGTA
11101627 CTTCTGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 8 0.31
12 18 0.69
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (12 bp):
GCTACAGTAACT
Found at i:11102073 original size:44 final size:44
Alignment explanation
Indices: 11101960--11102227 Score: 385
Period size: 44 Copynumber: 6.1 Consensus size: 44
11101950 TTTACCATTT
* *
11101960 ATTAA-CCATAAGCTCATAAGCTTATTTTACCAAAATACTTACC
1 ATTAATCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
* * *
11102003 ATTAATCCCATAAGCTCGTAAACTTATTTTACCAATGTACTTGCC
1 ATTAAT-CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
* *
11102048 ATTTATCCATAAGCTCGTAAGCTTATTTTACCATTATACTTACC
1 ATTAATCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
* **
11102092 ATTAATCTATAAGCTCGTAAGCTTATTTTACCAATATACTTGTC
1 ATTAATCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
* *
11102136 ATTTATCCATAAGCTCGTAAGCTTATTTTACCATTATACTTACC
1 ATTAATCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
* * *
11102180 ATTAATCTATAAGCTTGTAAGCTTATTTTACCAATATACTTGCC
1 ATTAATCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
11102224 ATTA
1 ATTA
11102228 TTTCATAACA
Statistics
Matches: 198, Mismatches: 25, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
43 5 0.03
44 155 0.78
45 38 0.19
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (44 bp):
ATTAATCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
Found at i:11102235 original size:88 final size:88
Alignment explanation
Indices: 11101965--11102226 Score: 443
Period size: 88 Copynumber: 3.0 Consensus size: 88
11101955 CATTTATTAA
* ** * *
11101965 CCATAAGCTCATAAGCTTATTTTACCAAAATACTTACCATTAATCCCATAAGCTCGTAAACTTAT
1 CCATAAGCTCGTAAGCTTATTTTACCATTATACTTACCATTAAT-CTATAAGCTCGTAAGCTTAT
*
11102030 TTTACCAATGTACTTGCCATTTAT
65 TTTACCAATATACTTGCCATTTAT
11102054 CCATAAGCTCGTAAGCTTATTTTACCATTATACTTACCATTAATCTATAAGCTCGTAAGCTTATT
1 CCATAAGCTCGTAAGCTTATTTTACCATTATACTTACCATTAATCTATAAGCTCGTAAGCTTATT
*
11102119 TTACCAATATACTTGTCATTTAT
66 TTACCAATATACTTGCCATTTAT
*
11102142 CCATAAGCTCGTAAGCTTATTTTACCATTATACTTACCATTAATCTATAAGCTTGTAAGCTTATT
1 CCATAAGCTCGTAAGCTTATTTTACCATTATACTTACCATTAATCTATAAGCTCGTAAGCTTATT
11102207 TTACCAATATACTTGCCATT
66 TTACCAATATACTTGCCATT
11102227 ATTTCATAAC
Statistics
Matches: 164, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
88 123 0.75
89 41 0.25
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.39
Consensus pattern (88 bp):
CCATAAGCTCGTAAGCTTATTTTACCATTATACTTACCATTAATCTATAAGCTCGTAAGCTTATT
TTACCAATATACTTGCCATTTAT
Found at i:11104543 original size:17 final size:17
Alignment explanation
Indices: 11104521--11104554 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11104511 AAAAGGGAGG
11104521 AGAAGGAGTTTTGGGGC
1 AGAAGGAGTTTTGGGGC
11104538 AGAAGGAGTTTTGGGGC
1 AGAAGGAGTTTTGGGGC
11104555 TTTTTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.47, T:0.24
Consensus pattern (17 bp):
AGAAGGAGTTTTGGGGC
Found at i:11105264 original size:2 final size:2
Alignment explanation
Indices: 11105257--11105281 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11105247 TCTTTAATGC
11105257 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11105282 AACACATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11105602 original size:5 final size:5
Alignment explanation
Indices: 11105592--11105656 Score: 53
Period size: 5 Copynumber: 13.0 Consensus size: 5
11105582 ATGGTAATAT
** * *
11105592 TTTTA TTTTA TTTTA TTTTTA TAATA TTTTA TTTT- TATT- TTTTA TTTATG
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA
*
11105642 TTTTA TTTAA TTTTA
1 TTTTA TTTTA TTTTA
11105657 GTATTAACGA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
4 6 0.13
5 32 0.68
6 9 0.19
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:11105605 original size:11 final size:11
Alignment explanation
Indices: 11105592--11105655 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 11
11105582 ATGGTAATAT
11105592 TTTTA-TTTTA
1 TTTTATTTTTA
11105602 TTTTATTTTTA
1 TTTTATTTTTA
**
11105613 TAATA-TTTTA
1 TTTTATTTTTA
11105623 TTTTTATTTTT-
1 -TTTTATTTTTA
11105634 TATTTATGTTTTA
1 T-TTTAT-TTTTA
*
11105647 TTTAATTTT
1 TTTTATTTT
11105656 AGTATTAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
10 11 0.26
11 19 0.44
12 12 0.28
13 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:11105610 original size:16 final size:16
Alignment explanation
Indices: 11105589--11105656 Score: 82
Period size: 16 Copynumber: 4.1 Consensus size: 16
11105579 ACGATGGTAA
11105589 TATTTTTATTTTATTT
1 TATTTTTATTTTATTT
**
11105605 TATTTTTATAATATTT
1 TATTTTTATTTTATTT
*
11105621 TATTTTTATTTTTTATT
1 TATTTTTATTTTAT-TT
*
11105638 TATGTTTTATTTAATTT
1 TAT-TTTTATTTTATTT
11105655 TA
1 TA
11105657 GTATTAACGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
16 25 0.58
17 9 0.21
18 9 0.21
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.75
Consensus pattern (16 bp):
TATTTTTATTTTATTT
Found at i:11105616 original size:27 final size:27
Alignment explanation
Indices: 11105586--11105640 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
11105576 AAAACGATGG
11105586 TAATATTTT-TATTTTATTTTATT-TTTA
1 TAATATTTTAT-TTTTATTTT-TTATTTA
11105613 TAATATTTTATTTTTATTTTTTATTTA
1 TAATATTTTATTTTTATTTTTTATTTA
11105640 T
1 T
11105641 GTTTTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 2 0.08
27 23 0.88
28 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (27 bp):
TAATATTTTATTTTTATTTTTTATTTA
Found at i:11105645 original size:13 final size:13
Alignment explanation
Indices: 11105591--11105645 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
11105581 GATGGTAATA
11105591 TTTTTATTT-TAT
1 TTTTTATTTATAT
11105603 TTTATT-TTTATAAT
1 TTT-TTATTTAT-AT
* *
11105617 ATTTTATTTTTAT
1 TTTTTATTTATAT
*
11105630 TTTTTATTTATGT
1 TTTTTATTTATAT
11105643 TTT
1 TTT
11105646 ATTTAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
12 6 0.18
13 20 0.59
14 8 0.24
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTTATTTATAT
Found at i:11110284 original size:20 final size:19
Alignment explanation
Indices: 11110255--11110292 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
11110245 TCGACAATTT
*
11110255 TAAAATTTTTATTTGTATG
1 TAAAATTTTTATATGTATG
11110274 TAAATATTTTTATATGTAT
1 TAAA-ATTTTTATATGTAT
11110293 ATAATTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TAAAATTTTTATATGTATG
Found at i:11110331 original size:25 final size:25
Alignment explanation
Indices: 11110277--11110332 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
11110267 TTGTATGTAA
* * *
11110277 ATATTTTTATATGTATATAATTAAG
1 ATATATTTAAATGTATATAATTAAC
*
11110302 GTATATTTAAATGTATAT-ATTATAC
1 ATATATTTAAATGTATATAATTA-AC
11110327 ATATAT
1 ATATAT
11110333 ATGAAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (25 bp):
ATATATTTAAATGTATATAATTAAC
Found at i:11111794 original size:14 final size:14
Alignment explanation
Indices: 11111775--11111804 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11111765 TTTAGATTTT
*
11111775 TTAAAATTACATTA
1 TTAAAAATACATTA
11111789 TTAAAAATACATTA
1 TTAAAAATACATTA
11111803 TT
1 TT
11111805 GATGAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:11112218 original size:13 final size:13
Alignment explanation
Indices: 11112200--11112227 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11112190 GTGATAAGAT
11112200 TTAGGGTTTAGAG
1 TTAGGGTTTAGAG
11112213 TTAGGGTTTAGAG
1 TTAGGGTTTAGAG
11112226 TT
1 TT
11112228 TAGAGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (13 bp):
TTAGGGTTTAGAG
Found at i:11112272 original size:42 final size:42
Alignment explanation
Indices: 11112213--11112362 Score: 162
Period size: 42 Copynumber: 3.5 Consensus size: 42
11112203 GGGTTTAGAG
* *
11112213 TTAGGGTTTAGAGTTTAGAGTTTATGTGACATGATTTAAGGT
1 TTAGGGTTTAGAGTTTAGAGTTTATGTAACAGGATTTAAGGT
*
11112255 TTAGGGTTTAGAGTTTAGAGTTTATGTAATAGGATTTAAGGT
1 TTAGGGTTTAGAGTTTAGAGTTTATGTAACAGGATTTAAGGT
* * * **
11112297 TTAGAGTTTAGTGTTTATG-GTTTAAGGT-TTAGG-TATTAAGGT
1 TTAGGGTTTAGAGTTTA-GAGTTT-ATGTAACAGGAT-TTAAGGT
*
11112339 TTAGGGTTTAGAGTTCAGAAGTTT
1 TTAGGGTTTAGAGTTTAG-AGTTT
11112363 TAGAGTTTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
41 2 0.02
42 83 0.89
43 8 0.09
ACGTcount: A:0.26, C:0.01, G:0.29, T:0.44
Consensus pattern (42 bp):
TTAGGGTTTAGAGTTTAGAGTTTATGTAACAGGATTTAAGGT
Found at i:11112278 original size:28 final size:27
Alignment explanation
Indices: 11112251--11112348 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 27
11112241 ACATGATTTA
11112251 AGGTTTAGGGTTT-AGAGTTTAGAGTTT
1 AGGTTTAGGGTTTAAG-GTTTAGAGTTT
* * *
11112278 ATGTAATAGGATTTAAGGTTTAGAGTTT
1 AGGT-TTAGGGTTTAAGGTTTAGAGTTT
*
11112306 AGTGTTTATGGTTTAAGGTTTAG-GTATT
1 AG-GTTTAGGGTTTAAGGTTTAGAGT-TT
11112334 AAGGTTTAGGGTTTA
1 -AGGTTTAGGGTTTA
11112349 GAGTTCAGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
27 5 0.09
28 47 0.81
29 6 0.10
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.45
Consensus pattern (27 bp):
AGGTTTAGGGTTTAAGGTTTAGAGTTT
Found at i:11112428 original size:7 final size:7
Alignment explanation
Indices: 11112199--11112428 Score: 67
Period size: 7 Copynumber: 32.6 Consensus size: 7
11112189 TGTGATAAGA
*
11112199 TTTAGGG
1 TTTAGAG
11112206 TTTAGAG
1 TTTAGAG
*
11112213 -TTAGGG
1 TTTAGAG
11112219 TTTAGAG
1 TTTAGAG
11112226 TTTAGAG
1 TTTAGAG
*
11112233 TTTA-TG
1 TTTAGAG
* *
11112239 -TGACATG
1 TTTAGA-G
11112246 ATTTA-AGG
1 -TTTAGA-G
*
11112254 TTTAGGG
1 TTTAGAG
11112261 TTTAGAG
1 TTTAGAG
11112268 TTTAGAG
1 TTTAGAG
*
11112275 TTTA-TG
1 TTTAGAG
*
11112281 TAATAG-G
1 T-TTAGAG
11112288 ATTTA-AGG
1 -TTTAGA-G
11112296 TTTAGAG
1 TTTAGAG
*
11112303 TTTAGTG
1 TTTAGAG
11112310 TTTATG-G
1 TTTA-GAG
11112317 TTTA-AGG
1 TTTAGA-G
11112324 TTTAG-G
1 TTTAGAG
11112330 TATTA-AGG
1 T-TTAGA-G
*
11112338 TTTAGGG
1 TTTAGAG
11112345 TTTAGAG
1 TTTAGAG
*
11112352 TTCAGAAG
1 TTTAG-AG
11112360 TTTTAGAG
1 -TTTAGAG
*
11112368 TTTA-TG
1 TTTAGAG
*
11112374 TGATATGA-
1 T-TTA-GAG
11112382 TTTA-AG
1 TTTAGAG
*
11112388 TTTTATAG
1 -TTTAGAG
11112396 TTTAG-G
1 TTTAGAG
11112402 ATTTAGAG
1 -TTTAGAG
*
11112410 TTCAGAG
1 TTTAGAG
11112417 TTTTAGAG
1 -TTTAGAG
11112425 TTTA
1 TTTA
11112429 CATGATATGA
Statistics
Matches: 167, Mismatches: 25, Indels: 62
0.66 0.10 0.24
Matches are distributed among these distances:
5 3 0.02
6 13 0.08
7 123 0.74
8 22 0.13
9 6 0.04
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (7 bp):
TTTAGAG
Found at i:11112436 original size:57 final size:59
Alignment explanation
Indices: 11112337--11112464 Score: 206
Period size: 57 Copynumber: 2.2 Consensus size: 59
11112327 AGGTATTAAG
** *
11112337 GTTTAGGGTTTAGAGTTCAGAAGTTTTAGAGTTTATGTGATATGATTTAAGTTTTATA-
1 GTTTAGGGTTTAGAGTTCAGAAGTTTTAGAGTTTACATGATATGATTTAAGGTTTATAT
*
11112395 GTTTAGGATTTAGAGTTCAG-AGTTTTAGAGTTTACATGATATGATTTAAGGTTTATAT
1 GTTTAGGGTTTAGAGTTCAGAAGTTTTAGAGTTTACATGATATGATTTAAGGTTTATAT
11112453 GTTTAGGGTTTA
1 GTTTAGGGTTTA
11112465 TATGTTAGGG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 34 0.53
58 30 0.47
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.46
Consensus pattern (59 bp):
GTTTAGGGTTTAGAGTTCAGAAGTTTTAGAGTTTACATGATATGATTTAAGGTTTATAT
Found at i:11112477 original size:15 final size:15
Alignment explanation
Indices: 11112433--11112474 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
11112423 AGTTTACATG
*
11112433 ATATGATTTAAGGTTT
1 ATATG-TTTAGGGTTT
11112449 ATATGTTTAGGGTTT
1 ATATGTTTAGGGTTT
11112464 ATATG-TTAGGG
1 ATATGTTTAGGG
11112475 GTTAGGGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 14 0.56
16 5 0.20
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (15 bp):
ATATGTTTAGGGTTT
Found at i:11114404 original size:11 final size:11
Alignment explanation
Indices: 11114388--11114500 Score: 68
Period size: 11 Copynumber: 9.9 Consensus size: 11
11114378 TAACCCATCC
11114388 TCGAGCTT-AA
1 TCGAGCTTGAA
11114398 GTCGAGCTTGAA
1 -TCGAGCTTGAA
**
11114410 TCGAGCTCACAA
1 TCGAGCT-TGAA
11114422 TCGAGCTTGAA
1 TCGAGCTTGAA
11114433 TCGAGCTCAT-AA
1 TCGAGCT--TGAA
**
11114445 TCGAGCTCACAA
1 TCGAGCT-TGAA
* *
11114457 TCAAGCCTGAA
1 TCGAGCTTGAA
**
11114468 TCGAGCTCAAAA
1 TCGAGCT-TGAA
*
11114480 TCGAGCTTCAA
1 TCGAGCTTGAA
*
11114491 TTGAGCTTGA
1 TCGAGCTTGA
11114501 GTCTTGAGCT
Statistics
Matches: 78, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
11 41 0.53
12 36 0.46
13 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:11114425 original size:12 final size:12
Alignment explanation
Indices: 11114408--11114486 Score: 81
Period size: 12 Copynumber: 6.8 Consensus size: 12
11114398 GTCGAGCTTG
11114408 AATCGAGCTCAC
1 AATCGAGCTCAC
**
11114420 AATCGAGCT-TG
1 AATCGAGCTCAC
*
11114431 AATCGAGCTCAT
1 AATCGAGCTCAC
11114443 AATCGAGCTCAC
1 AATCGAGCTCAC
* **
11114455 AATCAAGC-CTG
1 AATCGAGCTCAC
*
11114466 AATCGAGCTCAA
1 AATCGAGCTCAC
11114478 AATCGAGCT
1 AATCGAGCT
11114487 TCAATTGAGC
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
11 17 0.31
12 37 0.69
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (12 bp):
AATCGAGCTCAC
Found at i:11114428 original size:23 final size:23
Alignment explanation
Indices: 11114399--11114451 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
11114389 CGAGCTTAAG
11114399 TCGAGCTTGAATCGAGCTCACAA
1 TCGAGCTTGAATCGAGCTCACAA
*
11114422 TCGAGCTTGAATCGAGCTCATAA
1 TCGAGCTTGAATCGAGCTCACAA
11114445 TCGAGCT
1 TCGAGCT
11114452 CACAATCAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (23 bp):
TCGAGCTTGAATCGAGCTCACAA
Found at i:11114468 original size:35 final size:35
Alignment explanation
Indices: 11114408--11114486 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 35
11114398 GTCGAGCTTG
* * *
11114408 AATCGAGCTCACAATCGAGCTTGAATCGAGCTCAT
1 AATCGAGCTCACAATCAAGCCTGAATCGAGCTCAA
11114443 AATCGAGCTCACAATCAAGCCTGAATCGAGCTCAA
1 AATCGAGCTCACAATCAAGCCTGAATCGAGCTCAA
11114478 AATCGAGCT
1 AATCGAGCT
11114487 TCAATTGAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (35 bp):
AATCGAGCTCACAATCAAGCCTGAATCGAGCTCAA
Found at i:11114496 original size:23 final size:23
Alignment explanation
Indices: 11114443--11114497 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
11114433 TCGAGCTCAT
* *
11114443 AATCGAGCTCACAATCAAGCCTG
1 AATCGAGCTCAAAATCAAGCCTC
* *
11114466 AATCGAGCTCAAAATCGAGCTTC
1 AATCGAGCTCAAAATCAAGCCTC
*
11114489 AATTGAGCT
1 AATCGAGCT
11114498 TGAGTCTTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (23 bp):
AATCGAGCTCAAAATCAAGCCTC
Found at i:11117894 original size:415 final size:416
Alignment explanation
Indices: 11117045--11117988 Score: 1486
Period size: 415 Copynumber: 2.3 Consensus size: 416
11117035 AAATTTGAAT
* * *
11117045 ATATATATTATCCTATAATTATTCAAATTATTTAAAAAATATTTTCTGTTTTTTATTTTATAAAT
1 ATATATATTATCTTATAATTATTTAAATTATTTAAAAAATATTTTCTATTTTTTATTTTATAAAT
** *
11117110 ATACATTTTTGT-CTGAACTAAGCAACCTCAGCGGTTAAAAATGTC-TAAAACCAAAACTTAATA
66 ATACA-TTTTGTAC-GAACTAAGCAACCTCAGCGGTTAAAAACATCGT-TAACCAAAACTTAATA
*
11117173 TCAACTTACTATTAGATTAATTTAGAATTTGATCATACGTTTTCGGAATATATACGATAAGAATA
128 TCAACTTACTATTAGATTAATTTAGAATGTGATCATACGTTTTCGGAATATATACGATAAGAATA
* *
11117238 ACTCTCGTTCTATAATAAGTTTATTTGAAATTATTTAGTGATTTCAGCGATAACAGATAATATTG
193 ACTCTCATTCTATAATAAGTTTATTTGAAATTATTTAGTGATTTCAGCGATAAAAGATAATATTG
* * **
11117303 TTCTTTCTAGAGATTCTTAGTTCGGATAGCTACGTCCAATGTTTAATACATGCCTATGCTAGGAT
258 TTCTTTCTAGAGAATCTTAGTTCGGAAAGCTACGTCCAATGTCGAATACATGCCTATGCTAGGAT
* * *
11117368 GGATATGTGTCCACAATGAAATCTAAATTTTGGATCCTTCATTAACTACATTTGTAAGGTGTATG
323 GGATATATGTCCACAATGAAATCTAAATTTTGAATCCATCATTAACTACATTTGTAAGGTGTATG
*
11117433 CACATTATCAATGGGCTAAGAAAAATATA
388 CACATTATCAACGGGCTAAGAAAAATATA
* *
11117462 ATATATATTACCTTATAATTATTTAGATTATTTAAAAAATATTTTCTATTTTTTATTTTATAAAT
1 ATATATATTATCTTATAATTATTTAAATTATTTAAAAAATATTTTCTATTTTTTATTTTATAAAT
*
11117527 ATACATTTTGTACGAACTAAGCAACCTCAGCGGTTAAAAACATCGTTCACCAAAACTTAATATCA
66 ATACATTTTGTACGAACTAAGCAACCTCAGCGGTTAAAAACATCGTTAACCAAAACTTAATATCA
* * *
11117592 ACTTACTATTAGGTTAATTTAGAATGTGATCATATGCTTTT-GGAATATATAC-AGTAAGATTAA
131 ACTTACTATTAGATTAATTTAGAATGTGATCATACG-TTTTCGGAATATATACGA-TAAGAATAA
* *
11117655 CTCTCATTCTGTAATAAGTTTATTTGAAATTATTTAGTGATTTTAGCGATAAAAGATAATATT-T
194 CTCTCATTCTATAATAAGTTTATTTGAAATTATTTAGTGATTTCAGCGATAAAAGATAATATTGT
* *
11117719 TCTTTCTAGAGAATCTTAGTTCGGAAAGCTATGTCCAATGTCGAATACATGCTTATGCTAGGATG
259 TCTTTCTAGAGAATCTTAGTTCGGAAAGCTACGTCCAATGTCGAATACATGCCTATGCTAGGATG
*
11117784 GATATATGTCCACATTGAAATCTAAATTTTGAATCCATCATTAACTACATTTGTAAGGTGTATGC
324 GATATATGTCCACAATGAAATCTAAATTTTGAATCCATCATTAACTACATTTGTAAGGTGTATGC
* *
11117849 ACATTGTCAACGGGTTAAGAAAAAT-TGA
389 ACATTATCAACGGGCTAAGAAAAATAT-A
*
11117877 ATATATATTATCTTATAATTATTTAAATTATTTAAAAAATATTTTCTATTTTCTATTTTATAAAT
1 ATATATATTATCTTATAATTATTTAAATTATTTAAAAAATATTTTCTATTTTTTATTTTATAAAT
* **
11117942 ATACATTTTGTACGAACTAAGCAACCTTAGCAATTAAAAACATCGTT
66 ATACATTTTGTACGAACTAAGCAACCTCAGCGGTTAAAAACATCGTT
11117989 TGTAGGGTTG
Statistics
Matches: 486, Mismatches: 36, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
414 1 0.00
415 251 0.52
416 163 0.34
417 71 0.15
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (416 bp):
ATATATATTATCTTATAATTATTTAAATTATTTAAAAAATATTTTCTATTTTTTATTTTATAAAT
ATACATTTTGTACGAACTAAGCAACCTCAGCGGTTAAAAACATCGTTAACCAAAACTTAATATCA
ACTTACTATTAGATTAATTTAGAATGTGATCATACGTTTTCGGAATATATACGATAAGAATAACT
CTCATTCTATAATAAGTTTATTTGAAATTATTTAGTGATTTCAGCGATAAAAGATAATATTGTTC
TTTCTAGAGAATCTTAGTTCGGAAAGCTACGTCCAATGTCGAATACATGCCTATGCTAGGATGGA
TATATGTCCACAATGAAATCTAAATTTTGAATCCATCATTAACTACATTTGTAAGGTGTATGCAC
ATTATCAACGGGCTAAGAAAAATATA
Found at i:11118845 original size:4 final size:4
Alignment explanation
Indices: 11118836--11118878 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
11118826 TTAAGAGGTT
11118836 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGA
1 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGA
11118879 AGGAAGAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (4 bp):
GGAG
Found at i:11119801 original size:19 final size:19
Alignment explanation
Indices: 11119788--11119835 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
11119778 TTAAGGAGGC
11119788 ATGGCATCTTTAAGAAGAA
1 ATGGCATCTTTAAGAAGAA
*
11119807 ATGGCATCTTCAAGAAGAA
1 ATGGCATCTTTAAGAAGAA
*
11119826 ATGACATCTT
1 ATGGCATCTT
11119836 CCTCAAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (19 bp):
ATGGCATCTTTAAGAAGAA
Found at i:11126134 original size:435 final size:435
Alignment explanation
Indices: 11125068--11126373 Score: 2587
Period size: 435 Copynumber: 3.0 Consensus size: 435
11125058 TCTTTAATGG
*
11125068 TAGTGCGAGTTGTCTGAATTCTTGAAATTTATGGGTTGTTGTGTAAGAGTTGTATAATTAATGTA
1 TAGTGCGAGTTGTAT-AATTCTTGAAATTTATGGGTTGTTGTGTAAGAGTTGTATAATTAATGTA
11125133 CTATGCTGGAAATTGTTGTTTGAGAATTGAAATGAGTGTTAGATGTGAAATTGATTATTTTGGGA
65 CTATGCTGGAAATTGTTGTTTGAGAATTGAAATGAGTGTTAGATGTGAAATTGATTATTTTGGGA
11125198 AGATTGAAATGATTGGTGATTTAAGTACAACAATTGCATAGTTGGGGTACTTAAATGTATTTATG
130 AGATTGAAATGATTGGTGATTTAAGTACAACAATTGCATAGTTGGGGTACTTAAATGTATTTATG
11125263 CTTTTGTAAAAGCATTTGAATGGAAATAATTTCAATGTTGGAATTATTGGTATTAAGAATTTAAG
195 CTTTTGTAAAAGCATTTGAATGGAAATAATTTCAATGTTGGAATTATTGGTATTAAGAATTTAAG
11125328 TGGTAAAATGGTGAATACCATTTTGAGTAAATTGAAAAAGTTGGTTCCAATGTTATAAGAAA-TT
260 TGGTAAAATGGTGAATACCATTTTGAGTAAATTGAAAAAGTTGGTTCCAATGTTATAAGAAATTT
11125392 TTAAGAGTTGAATATTTTGTTAGATGATGAATTTCAAATATAGTATGGAGATATGGTGGAATGTA
325 TTAAGAGTTGAATATTTTGTTAGATGATGAATTTCAAATATAGTATGGAGATATGGTGGAATGTA
11125457 TTTATGTTAGTAAAATACTAACATATGGATTATTATGAATTGATGA
390 TTTATGTTAGTAAAATACTAACATATGGATTATTATGAATTGATGA
11125503 TAGTGCGAGTTGTATAATTCTTGAAATTTATGGGTTGTTGTGTAAGAGTTGTATAATTAATGTAC
1 TAGTGCGAGTTGTATAATTCTTGAAATTTATGGGTTGTTGTGTAAGAGTTGTATAATTAATGTAC
11125568 TATGCTGGAAATTGTTGTTTGAGAATTGAAATGAGTGTTAGATGTGAAATTGATTATTTTGGGAA
66 TATGCTGGAAATTGTTGTTTGAGAATTGAAATGAGTGTTAGATGTGAAATTGATTATTTTGGGAA
11125633 GATTGAAATGATTGGTGATTTAAGTACAACAATTGCATAGTTGGGGTACTTAAATGTATTTATGC
131 GATTGAAATGATTGGTGATTTAAGTACAACAATTGCATAGTTGGGGTACTTAAATGTATTTATGC
11125698 TTTTGTAAAAGCATTTGAATGGAAATAATTTCAATGTTGGAATTATTGGTATTAAGAATTTAAGT
196 TTTTGTAAAAGCATTTGAATGGAAATAATTTCAATGTTGGAATTATTGGTATTAAGAATTTAAGT
11125763 GGTAAAATGGTGAATACCATTTTGAGTAAATTGAAAAAGTTGGTTCCAATGTTATAAGAAATTTT
261 GGTAAAATGGTGAATACCATTTTGAGTAAATTGAAAAAGTTGGTTCCAATGTTATAAGAAATTTT
11125828 TAAGAGTTGAATATTTTGTTAGATGATGAATTTCAAATATAGTATGGAGATATGGTGGAATGTAT
326 TAAGAGTTGAATATTTTGTTAGATGATGAATTTCAAATATAGTATGGAGATATGGTGGAATGTAT
11125893 TTATGTTAGTAAAATACTAACATATGGATTATTATGAATTGATGA
391 TTATGTTAGTAAAATACTAACATATGGATTATTATGAATTGATGA
11125938 TAGTGCGAGTTGTATAATTCTTGAAATTTATGGGTTGTTGTGTAAGAGTTGTATAATTAATGTAC
1 TAGTGCGAGTTGTATAATTCTTGAAATTTATGGGTTGTTGTGTAAGAGTTGTATAATTAATGTAC
11126003 TATGCTGGAAATTGTTGTTTGAGAATTGAAATGAGTGTTAGATGTGAAATTGATTATTTTGGGAA
66 TATGCTGGAAATTGTTGTTTGAGAATTGAAATGAGTGTTAGATGTGAAATTGATTATTTTGGGAA
11126068 GATTGAAATGATTGGTGATTTAAGTACAACAATTGCATAGTTGGGGTACTTAAATGTATTTATGC
131 GATTGAAATGATTGGTGATTTAAGTACAACAATTGCATAGTTGGGGTACTTAAATGTATTTATGC
11126133 TTTTGTAAAAGCATTTGAATGGAAATAATTTCAATGTTGGAATTATTGGTATTAAGAATTTAAGT
196 TTTTGTAAAAGCATTTGAATGGAAATAATTTCAATGTTGGAATTATTGGTATTAAGAATTTAAGT
11126198 GGTAAAATGGTGAATACCATTTTGAGTAAATTGAAAAAGTTGGTTCCAATGTTATAAGAAATTTT
261 GGTAAAATGGTGAATACCATTTTGAGTAAATTGAAAAAGTTGGTTCCAATGTTATAAGAAATTTT
11126263 TAAGAGTTGAATATTTTGTTAGATGATGAATTTCAAATATAGTATGGAGATATGGTGGAATGTAT
326 TAAGAGTTGAATATTTTGTTAGATGATGAATTTCAAATATAGTATGGAGATATGGTGGAATGTAT
11126328 TTATGTTAGTAAAATACTAACATATGGATTATTATGAATTGATGA
391 TTATGTTAGTAAAATACTAACATATGGATTATTATGAATTGATGA
11126373 T
1 T
11126374 TTATACAGAT
Statistics
Matches: 869, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
434 306 0.35
435 563 0.65
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.39
Consensus pattern (435 bp):
TAGTGCGAGTTGTATAATTCTTGAAATTTATGGGTTGTTGTGTAAGAGTTGTATAATTAATGTAC
TATGCTGGAAATTGTTGTTTGAGAATTGAAATGAGTGTTAGATGTGAAATTGATTATTTTGGGAA
GATTGAAATGATTGGTGATTTAAGTACAACAATTGCATAGTTGGGGTACTTAAATGTATTTATGC
TTTTGTAAAAGCATTTGAATGGAAATAATTTCAATGTTGGAATTATTGGTATTAAGAATTTAAGT
GGTAAAATGGTGAATACCATTTTGAGTAAATTGAAAAAGTTGGTTCCAATGTTATAAGAAATTTT
TAAGAGTTGAATATTTTGTTAGATGATGAATTTCAAATATAGTATGGAGATATGGTGGAATGTAT
TTATGTTAGTAAAATACTAACATATGGATTATTATGAATTGATGA
Found at i:11127124 original size:44 final size:47
Alignment explanation
Indices: 11127076--11127182 Score: 130
Period size: 48 Copynumber: 2.3 Consensus size: 47
11127066 CCATACAAAT
11127076 AAGCTTATGAGCTTACAGAA-T-AATGGCAAGTATATT-GAAAAAAA
1 AAGCTTATGAGCTTACAGAATTAAATGGCAAGTATATTGGAAAAAAA
* * * * * *
11127120 AAGCTTACGAGCTTATAGAATTTAAATGGTAAGTATTTTGGTAAAAAT
1 AAGCTTATGAGCTTACAGAA-TTAAATGGCAAGTATATTGGAAAAAAA
11127168 AAGCTTATGAGCTTA
1 AAGCTTATGAGCTTA
11127183 TGGGATAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 18 0.35
46 1 0.02
47 13 0.25
48 20 0.38
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (47 bp):
AAGCTTATGAGCTTACAGAATTAAATGGCAAGTATATTGGAAAAAAA
Found at i:11127180 original size:48 final size:44
Alignment explanation
Indices: 11127072--11127183 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
11127062 GTAACCATAC
*
11127072 AAATAAGCTTATGAGCTTACAGAATAATGGCAAGTATATTGAAA
1 AAATAAGCTTATGAGCTTATAGAATAATGGCAAGTATATTGAAA
* * * * *
11127116 AAAAAAGCTTACGAGCTTATAGAATTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTATGAGCTTATAGAA--T-AATGGCAAGTATATT-GAAA
11127164 AAATAAGCTTATGAGCTTAT
1 AAATAAGCTTATGAGCTTAT
11127184 GGGATAAAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 21 0.38
46 1 0.02
47 13 0.23
48 21 0.38
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (44 bp):
AAATAAGCTTATGAGCTTATAGAATAATGGCAAGTATATTGAAA
Found at i:11128953 original size:21 final size:21
Alignment explanation
Indices: 11128929--11128997 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
11128919 GACCTCCTAG
11128929 AACCCTAAAATCACATATTTA
1 AACCCTAAAATCACATATTTA
* *
11128950 AACCCT-AAA--AC-TCTTAA
1 AACCCTAAAATCACATATTTA
11128967 GAACCCTAAAATCACA-ACTTTA
1 -AACCCTAAAATCACATA-TTTA
11128989 AACCCTAAA
1 AACCCTAAA
11128998 CTTCTAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
17 4 0.11
18 8 0.21
19 3 0.08
20 3 0.08
21 17 0.45
22 3 0.08
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (21 bp):
AACCCTAAAATCACATATTTA
Found at i:11129241 original size:22 final size:23
Alignment explanation
Indices: 11129201--11129244 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11129191 CCCCCCGATC
* *
11129201 CCCTTTTTCTGTTCTTCTTTCTT
1 CCCTTTTTATATTCTTCTTTCTT
11129224 CCCTTTTTATATTC-TCTTTCT
1 CCCTTTTTATATTCTTCTTTCT
11129245 CTAACTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.05, C:0.30, G:0.02, T:0.64
Consensus pattern (23 bp):
CCCTTTTTATATTCTTCTTTCTT
Found at i:11130436 original size:18 final size:17
Alignment explanation
Indices: 11130399--11130442 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
11130389 AAACTATAAA
* *
11130399 ATATTTATTTTAAAATT
1 ATATTAATTTTAAAACT
11130416 ATATTAATTTTAAAAACT
1 ATATTAATTTT-AAAACT
11130434 ATATATAAT
1 ATAT-TAAT
11130443 ATATAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 9 0.39
19 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTAATTTTAAAACT
Found at i:11130548 original size:31 final size:32
Alignment explanation
Indices: 11130474--11130549 Score: 104
Period size: 30 Copynumber: 2.5 Consensus size: 32
11130464 TTTAAAAAAC
*
11130474 TATATATACTATTTTTAAAAATATATAATATA
1 TATATATACTATTTTCAAAAATATATAATATA
*
11130506 -AT-TATACTATTTTCAAAAA-CTATAATATA
1 TATATATACTATTTTCAAAAATATATAATATA
*
11130535 TATATATATTATTTT
1 TATATATACTATTTT
11130550 ATTTATGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 9 0.23
30 18 0.46
31 12 0.31
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (32 bp):
TATATATACTATTTTCAAAAATATATAATATA
Found at i:11138700 original size:45 final size:47
Alignment explanation
Indices: 11138646--11138743 Score: 121
Period size: 45 Copynumber: 2.1 Consensus size: 47
11138636 CATAGTACTG
* * *
11138646 ATACGAAAATGCATCATATGCATT-A-AAAATCGATCAATAACC-ATC
1 ATACAAAAATACAACATATGCATTAACAAAATCGATCAAT-ACCAATC
*
11138691 ATACAAAAATACAACATATGCATTAAACAAAATCGATCGATACCAATC
1 ATACAAAAATACAACATATGCATT-AACAAAATCGATCAATACCAATC
11138739 ATACA
1 ATACA
11138744 TAAAGTATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
45 21 0.47
47 4 0.09
48 20 0.44
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.22
Consensus pattern (47 bp):
ATACAAAAATACAACATATGCATTAACAAAATCGATCAATACCAATC
Found at i:11142257 original size:272 final size:272
Alignment explanation
Indices: 11141771--11142316 Score: 1056
Period size: 272 Copynumber: 2.0 Consensus size: 272
11141761 CTAGTTTAGG
*
11141771 TCCTATGGAGGAATCATGAAGTTGAGGAAGCAACATGGGAAATTGAAGAGGATATGCAAATTCAG
1 TCCTATGGAGGAATCATGAAGTTGAGGAAGAAACATGGGAAATTGAAGAGGATATGCAAATTCAG
*
11141836 TATCCGCATTTATTCAAATCAAGTAAATTTTGAGGATGAAATTCTTTTTAGGAGGAGAGAGTTGT
66 TATCCACATTTATTCAAATCAAGTAAATTTTGAGGATGAAATTCTTTTTAGGAGGAGAGAGTTGT
11141901 AATACCCCGAAAATTGGGTTAGTAGTTTTAGGTTTTATTGTTGAACTTCAAGCCATTGCTTTAGG
131 AATACCCCGAAAATTGGGTTAGTAGTTTTAGGTTTTATTGTTGAACTTCAAGCCATTGCTTTAGG
*
11141966 TTAATTTAAATCAATAGGGTCGAAGACGATGATGTAAATGGGGCAGAGGCTGAACCAAAATCTCC
196 TTAATTTAAATCAATAGGGTCGAAGACGATGATATAAATGGGGCAGAGGCTGAACCAAAATCTCC
*
11142031 TTATCTTTTTCT
261 TTATATTTTTCT
11142043 TCCTATGGAGGAATCATGAAGTTGAGGAAGAAACATGGGAAATTGAAGAGGATATGCAAATTCAG
1 TCCTATGGAGGAATCATGAAGTTGAGGAAGAAACATGGGAAATTGAAGAGGATATGCAAATTCAG
11142108 TATCCACATTTATTCAAATCAAGTAAATTTTGAGGATGAAATTCTTTTTAGGAGGAGAGAGTTGT
66 TATCCACATTTATTCAAATCAAGTAAATTTTGAGGATGAAATTCTTTTTAGGAGGAGAGAGTTGT
11142173 AATACCCCGAAAATTGGGTTAGTAGTTTTAGGTTTTATTGTTGAACTTCAAGCCATTGCTTTAGG
131 AATACCCCGAAAATTGGGTTAGTAGTTTTAGGTTTTATTGTTGAACTTCAAGCCATTGCTTTAGG
11142238 TTAATTTAAATCAATAGGGTCGAAGACGATGATATAAATGGGGCAGAGGCTGAACCAAAATCTCC
196 TTAATTTAAATCAATAGGGTCGAAGACGATGATATAAATGGGGCAGAGGCTGAACCAAAATCTCC
11142303 TTATATTTTTCT
261 TTATATTTTTCT
11142315 TC
1 TC
11142317 ACCTTTTTCA
Statistics
Matches: 270, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
272 270 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (272 bp):
TCCTATGGAGGAATCATGAAGTTGAGGAAGAAACATGGGAAATTGAAGAGGATATGCAAATTCAG
TATCCACATTTATTCAAATCAAGTAAATTTTGAGGATGAAATTCTTTTTAGGAGGAGAGAGTTGT
AATACCCCGAAAATTGGGTTAGTAGTTTTAGGTTTTATTGTTGAACTTCAAGCCATTGCTTTAGG
TTAATTTAAATCAATAGGGTCGAAGACGATGATATAAATGGGGCAGAGGCTGAACCAAAATCTCC
TTATATTTTTCT
Found at i:11143546 original size:24 final size:24
Alignment explanation
Indices: 11143519--11143570 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11143509 TAGTCGAAAC
*
11143519 TGCCCCGTAGAATTTACACAGAAG
1 TGCCCCGTAGAATATACACAGAAG
* *
11143543 TGCCCCGTAGAATATGCACCGAAG
1 TGCCCCGTAGAATATACACAGAAG
11143567 TGCC
1 TGCC
11143571 ACATAGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (24 bp):
TGCCCCGTAGAATATACACAGAAG
Found at i:11143577 original size:24 final size:24
Alignment explanation
Indices: 11143539--11143612 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 24
11143529 AATTTACACA
* *
11143539 GAAGTGCCCCGTAGAATATG-CACC
1 GAAGTGCCACATAGAATATGTC-CC
*
11143563 GAAGTGCCACATAG-ATTTGTCCC
1 GAAGTGCCACATAGAATATGTCCC
* *
11143586 GAATTACCACATAGAAT-TGTCCC
1 GAAGTGCCACATAGAATATGTCCC
11143609 GAAG
1 GAAG
11143613 GACCGAATAG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
23 27 0.64
24 15 0.36
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (24 bp):
GAAGTGCCACATAGAATATGTCCC
Found at i:11143622 original size:23 final size:23
Alignment explanation
Indices: 11143561--11143624 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
11143551 AGAATATGCA
*
11143561 CCGAAGTG-CCACATAGATTTGTC
1 CCGAAG-GACCACATAGAATTGTC
**
11143584 CCGAATTACCACATAGAATTGTC
1 CCGAAGGACCACATAGAATTGTC
11143607 CCGAAGGACCGA-ATAGAA
1 CCGAAGGACC-ACATAGAA
11143625 CCCTCGACAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (23 bp):
CCGAAGGACCACATAGAATTGTC
Found at i:11150383 original size:24 final size:24
Alignment explanation
Indices: 11150355--11150432 Score: 99
Period size: 24 Copynumber: 3.3 Consensus size: 24
11150345 AACTGCCGCG
11150355 TAGAATTTGCACCGAAGTGCCACA
1 TAGAATTTGCACCGAAGTGCCACA
* *
11150379 AAGAATATGCACCGAAGTGCCACA
1 TAGAATTTGCACCGAAGTGCCACA
11150403 TAG-ATTTGTC-CCGAAG-GACCACA
1 TAGAATTTG-CACCGAAGTG-CCACA
11150426 TAGAATT
1 TAGAATT
11150433 GTCCCAAAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 1 0.02
23 18 0.38
24 28 0.60
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (24 bp):
TAGAATTTGCACCGAAGTGCCACA
Found at i:11150424 original size:23 final size:23
Alignment explanation
Indices: 11150366--11150437 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
11150356 AGAATTTGCA
*
11150366 CCGAAGTGCCACAAAGAATATG-C
1 CCGAAGTGCCACATAGAAT-TGTC
*
11150389 ACCGAAGTGCCACATAGATTTGTC
1 -CCGAAGTGCCACATAGAATTGTC
11150413 CCGAAG-GACCACATAGAATTGTC
1 CCGAAGTG-CCACATAGAATTGTC
11150436 CC
1 CC
11150438 AAAAGACCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
22 1 0.02
23 24 0.56
24 18 0.42
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (23 bp):
CCGAAGTGCCACATAGAATTGTC
Found at i:11150453 original size:23 final size:23
Alignment explanation
Indices: 11150398--11150445 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
11150388 CACCGAAGTG
* * *
11150398 CCACATAGATTTGTCCCGAAGGA
1 CCACATAGAATTGTCCCAAAAGA
11150421 CCACATAGAATTGTCCCAAAAGA
1 CCACATAGAATTGTCCCAAAAGA
11150444 CC
1 CC
11150446 GCGTAGAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (23 bp):
CCACATAGAATTGTCCCAAAAGA
Found at i:11155905 original size:20 final size:20
Alignment explanation
Indices: 11155882--11155921 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11155872 AATAAAATAG
11155882 AATAA-AAATAAAAATATTAT
1 AATAATAAA-AAAAATATTAT
*
11155902 AATAATAAAATAAATATTAT
1 AATAATAAAAAAAATATTAT
11155922 TATCATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAATAAAAAAAATATTAT
Found at i:11157162 original size:17 final size:18
Alignment explanation
Indices: 11157126--11157160 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11157116 TCACTCAATT
* *
11157126 TTTTCTCTTTGTTCCCCC
1 TTTTCTCTCTCTTCCCCC
11157144 TTTTCTCTCTCTTCCCC
1 TTTTCTCTCTCTTCCCC
11157161 TTGTTTCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.43, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTTCTCTCTCTTCCCCC
Found at i:11158266 original size:17 final size:16
Alignment explanation
Indices: 11158244--11158277 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11158234 TAAAAACAGT
11158244 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
11158261 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
11158277 A
1 A
11158278 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:11168478 original size:17 final size:16
Alignment explanation
Indices: 11168456--11168489 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11168446 TAAAAACAGT
11168456 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
11168473 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
11168489 A
1 A
11168490 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:11169748 original size:10 final size:10
Alignment explanation
Indices: 11169733--11169761 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
11169723 ACCACCACAA
11169733 ATGCAACTAT
1 ATGCAACTAT
11169743 ATGCAACTAT
1 ATGCAACTAT
11169753 ATGCAACTA
1 ATGCAACTA
11169762 AAATGACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (10 bp):
ATGCAACTAT
Found at i:11170201 original size:36 final size:36
Alignment explanation
Indices: 11170154--11170746 Score: 280
Period size: 36 Copynumber: 17.6 Consensus size: 36
11170144 CAAAGGTTTA
* * * * *
11170154 TGTTTCAAGAGAAATTGTCTTAATAGAGATAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * *
11170190 TGTTTCAAGAGAAACAATCTTAA-AG-G-----TTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * * *
11170219 ATGTTTCAAGTGAAATTGTCCCAAGA-ACGACAAAATT
1 -TGTTTCAAGAGAAACTATCTCAAGAGA-GACAAAATT
*
11170256 TGTTCCAAGAGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* *
11170292 TGTTTCAAGAGAAACAATCTCAA-AG-G-----TTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * * *
11170321 ATGTTTCAAGAGAGACAATCTTAA-AG-G-----TTT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
*
11170351 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * *
11170388 TGTTTCAAGGGAAACAATCTCAA-AG-G-----TTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
*
11170417 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* **
11170454 TGTTTCAAGAGAAACAATCTCAA-AG-G--TTAA--
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * *
11170484 TGTTTCAAGCGAAACTGTCTCATGAGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * ** *
11170520 TGTTTCAAGGGAAACAATCTC-A-ATTG-----TTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* *
11170549 ATGTTTCAAGAGAAACTGTCTCGAGAGAGACAAAACTT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TT
* *
11170587 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * ** *
11170623 TGTTTCAAGGGAAACAATCTC-A-ATTG-----TTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
*
11170652 ATGCTTCAAGAGAAACTATCT-AAGAGAGACAAAACTT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TT
* * ** *
11170689 TGTTTCAAGAGAAACTGTCTCAAGCGAGATGAAA-C
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* *
11170724 TGTTTCCAGAGAAACAATCTCAA
1 TGTTTCAAGAGAAACTATCTCAA
11170747 CGGTTTATCA
Statistics
Matches: 425, Mismatches: 81, Indels: 103
0.70 0.13 0.17
Matches are distributed among these distances:
29 10 0.02
30 139 0.33
31 10 0.02
32 8 0.02
34 9 0.02
35 29 0.07
36 167 0.39
37 51 0.12
38 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
Found at i:11170204 original size:66 final size:66
Alignment explanation
Indices: 11170088--11170601 Score: 632
Period size: 66 Copynumber: 7.8 Consensus size: 66
11170078 AGGGATAATT
* * *
11170088 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTCCAAGGGAAACAATCTCAAAGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
11170153 A
66 A
* * * * *
11170154 TGTTTCAAGAGAAATTGTCTTAATAGAGATAAAATTTGTTTCAAGAGAAACAATCTTAAAGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
11170219 A
66 A
* * * * *
11170220 TGTTTCAAGTGAAATTGTCCCAAGA-ACGACAAAATTTGTTCCAAGAGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGA-GACAAAATTTGTTTCAAGAGAAACAATCTCAA-AG-G
*
11170284 ACAAAATT-
63 -----TTTA
** * * *
11170292 TGTTTCAAGAGAAACAATCTCAA-AG-G-----TTTATGTTTCAAGAGAGACAATCTTAAAGGTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-TGTTTCAAGAGAAACAATCTCAAAGGTT
11170350 TA
65 TA
*
11170352 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
11170417 A
66 A
*
11170418 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
11170483 A
66 A
* * * **
11170484 TGTTTCAAGCGAAACTGTCTCATGAGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATTGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
11170549 A
66 A
*
11170550 TGTTTCAAGAGAAACTGTCTCGAGAGAGACAAAACTTTGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGAGAAAC
11170602 TGTCTCAAGC
Statistics
Matches: 383, Mismatches: 46, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
59 2 0.01
60 21 0.05
61 2 0.01
62 1 0.00
64 1 0.00
65 5 0.01
66 308 0.80
67 20 0.05
68 1 0.00
70 1 0.00
71 1 0.00
72 18 0.05
73 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
A
Found at i:11170224 original size:30 final size:30
Alignment explanation
Indices: 11170124--11170233 Score: 87
Period size: 30 Copynumber: 3.5 Consensus size: 30
11170114 AGACAAAATT
* * *
11170124 TGTTCCAAGGGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTTAAAGGTTTA
***
11170154 TGTTTCAAGAGAAATTGTCTTAATAGAGATAAAATT-
1 TGTTTCAAGAGAAACAATCTTAA-AG-G-T----TTA
11170190 TGTTTCAAGAGAAACAATCTTAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTTAAAGGTTTA
*
11170220 TGTTTCAAGTGAAA
1 TGTTTCAAGAGAAA
11170234 TTGTCCCAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
29 2 0.03
30 30 0.48
31 2 0.03
32 1 0.02
33 2 0.03
34 1 0.02
35 2 0.03
36 20 0.32
37 2 0.03
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (30 bp):
TGTTTCAAGAGAAACAATCTTAAAGGTTTA
Found at i:11170326 original size:30 final size:30
Alignment explanation
Indices: 11170292--11170498 Score: 175
Period size: 30 Copynumber: 6.5 Consensus size: 30
11170282 AGACAAAATT
11170292 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
* *
11170322 TGTTTCAAGAGAGACAATCTTAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
** *
11170352 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-
1 TGTTTCAAGAGAAACAATCTCAA-AG-G-----TTTA
*
11170388 TGTTTCAAGGGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
** *
11170418 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-
1 TGTTTCAAGAGAAACAATCTCAA-AG-G-----TTTA
*
11170454 TGTTTCAAGAGAAACAATCTCAAAGGTTAA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
*
11170484 TGTTTCAAGCGAAAC
1 TGTTTCAAGAGAAAC
11170499 TGTCTCATGA
Statistics
Matches: 141, Mismatches: 20, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
29 3 0.02
30 81 0.57
31 4 0.03
32 2 0.01
34 2 0.01
35 4 0.03
36 41 0.29
37 4 0.03
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (30 bp):
TGTTTCAAGAGAAACAATCTCAAAGGTTTA
Found at i:11170505 original size:96 final size:100
Alignment explanation
Indices: 11170154--11170476 Score: 365
Period size: 102 Copynumber: 3.2 Consensus size: 100
11170144 CAAAGGTTTA
* * * * *
11170154 TGTTTCAAGAGAAATTGTCTTAATAGAGATAAAATTTGTTTCAAGAGAAACAATCTTAAAGGTTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGA-AAAA-TTGTTTCAAGAGAAACAATCTCAAAGGTTT
* * *
11170219 ATGTTTCAAGTGAAATTGTCCCAAGA-ACGACAAAATT
64 ATGTTTCAAGAGAAACTGTCTCAAGAGA-GACAAAATT
*
11170256 TGTTCCAAGAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGA-AAAA-TTGTTTCAAGAGAAACAATCTCAAAGGTTT
* ** * *
11170321 ATGTTTCAAGAGAGACAATCTTAA-AG-G-----TTT
64 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
11170351 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGA-AAAA-TTGTTTCAAGAGAAACAATCTCAAAGGTT
11170416 TATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
63 TATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
11170454 TGTTTCAAGAGAAACAATCTCAA
1 TGTTTCAAGAGAAACTATCTCAA
11170477 AGGTTAATGT
Statistics
Matches: 187, Mismatches: 25, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
95 2 0.01
96 82 0.44
97 2 0.01
98 1 0.01
100 1 0.01
101 1 0.01
102 96 0.51
103 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.29
Consensus pattern (100 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAATTGTTTCAAGAGAAACAATCTCAAAGGTTTAT
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:11170607 original size:103 final size:102
Alignment explanation
Indices: 11170484--11170746 Score: 411
Period size: 103 Copynumber: 2.6 Consensus size: 102
11170474 CAAAGGTTAA
* * *
11170484 TGTTTCAAGCGAAACTGTCTCATGAGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATTGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATTGTTT
* * *
11170549 ATGTTTCAAGAGAAACTGTCTCGAGAGAGACAAAACTT
66 ATGCTTCAAGAGAAACTATCT-AAGAGAGACAAAACTT
11170587 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATTGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATTGTTT
11170652 ATGCTTCAAGAGAAACTATCTAAGAGAGACAAAACTT
66 ATGCTTCAAGAGAAACTATCTAAGAGAGACAAAACTT
** * * *
11170689 TGTTTCAAGAGAAACTGTCTCAAGCGAGATGAAA-CTGTTTCCAGAGAAACAATCTCAA
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAA
11170747 CGGTTTATCA
Statistics
Matches: 149, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
101 21 0.14
102 47 0.32
103 81 0.54
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATTGTTT
ATGCTTCAAGAGAAACTATCTAAGAGAGACAAAACTT
Found at i:11170955 original size:37 final size:36
Alignment explanation
Indices: 11170888--11170957 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
11170878 AGGAAAACCA
*
11170888 TCTCAAATGAGATCAATTTTGTTTCAAGAAAAATTG
1 TCTCAAATGAGATCAACTTTGTTTCAAGAAAAATTG
11170924 TCTCAAATGAGA-CGAAACTTTGTTT-AGAGAAAAA
1 TCTCAAATGAGATC--AACTTTGTTTCA-AGAAAAA
11170958 ATCTCCAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 1 0.03
36 13 0.43
37 16 0.53
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (36 bp):
TCTCAAATGAGATCAACTTTGTTTCAAGAAAAATTG
Found at i:11176529 original size:5 final size:5
Alignment explanation
Indices: 11176512--11176574 Score: 72
Period size: 5 Copynumber: 12.0 Consensus size: 5
11176502 TATTAAGATT
* **
11176512 AAATA AAACA AAATA AAAGTA ATAATA AAATA AAATA TTATAA AAATA
1 AAATA AAATA AAATA AAA-TA A-AATA AAATA AAATA AAAT-A AAATA
11176560 AAATA AAATA AAATA
1 AAATA AAATA AAATA
11176575 TTATTATCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
5 38 0.78
6 9 0.18
7 2 0.04
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:11176561 original size:21 final size:22
Alignment explanation
Indices: 11176512--11176572 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
11176502 TATTAAGATT
*
11176512 AAATAAAACAAAATAAAAGTAA
1 AAATAAAATAAAATAAAAGTAA
* **
11176534 TAATAAAATAAAATATTA-TAA
1 AAATAAAATAAAATAAAAGTAA
11176555 AAATAAAATAAAATAAAA
1 AAATAAAATAAAATAAAA
11176573 TATTATTATC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAATAAAATAAAATAAAAGTAA
Found at i:11176570 original size:16 final size:16
Alignment explanation
Indices: 11176512--11176572 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
11176502 TATTAAGATT
*
11176512 AAATAAAA-CAAAATA
1 AAATAAAATAAAAATA
11176527 AAAGTAATAAT-AAAATA
1 AAA-TAA-AATAAAAATA
**
11176544 AAATATTATAAAAATA
1 AAATAAAATAAAAATA
11176560 AAATAAAATAAAA
1 AAATAAAATAAAA
11176573 TATTATTATC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 5 0.13
16 22 0.58
17 11 0.29
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (16 bp):
AAATAAAATAAAAATA
Found at i:11176573 original size:26 final size:27
Alignment explanation
Indices: 11176524--11176578 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
11176514 ATAAAACAAA
*
11176524 ATAAAAGTAATAATAAAATAAAATATT
1 ATAAAAATAATAATAAAATAAAATATT
11176551 ATAAAAATAA-AATAAAATAAAATATT
1 ATAAAAATAATAATAAAATAAAATATT
11176577 AT
1 AT
11176579 TATCATCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (27 bp):
ATAAAAATAATAATAAAATAAAATATT
Found at i:11178487 original size:13 final size:13
Alignment explanation
Indices: 11178469--11178493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11178459 ATAATAATAA
11178469 TAATAATAAATGT
1 TAATAATAAATGT
11178482 TAATAATAAATG
1 TAATAATAAATG
11178494 AGAAGTCGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
TAATAATAAATGT
Found at i:11178490 original size:3 final size:3
Alignment explanation
Indices: 11178427--11178477 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
11178417 AAATATTGTT
11178427 ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11178474 ATA A
1 ATA A
11178478 ATGTTAATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.