Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 60 of 89
Found at i:13772403 original size:53 final size:52
Alignment explanation
Indices: 13772332--13772453 Score: 154
Period size: 52 Copynumber: 2.3 Consensus size: 52
13772322 TTGCATTTAT
* * *
13772332 ATTCAACATAACAGCATGTTTATAATTTGTTTTGTTAAATTCACGTGAACTCAC
1 ATTC-ACATAACAGCATGTTCATAATTTGTTTAGTT-AATTCACGTGAACCCAC
* * *
13772386 ATTCACATAACATCATGTTCATCATTTGTTTAGTTAATTCACGTGCACCCAC
1 ATTCACATAACAGCATGTTCATAATTTGTTTAGTTAATTCACGTGAACCCAC
* *
13772438 ATTCACTTTACAGCAT
1 ATTCACATAACAGCAT
13772454 AATTTTCACT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 28 0.47
53 27 0.46
54 4 0.07
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (52 bp):
ATTCACATAACAGCATGTTCATAATTTGTTTAGTTAATTCACGTGAACCCAC
Found at i:13776480 original size:14 final size:15
Alignment explanation
Indices: 13776446--13776492 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
13776436 AATTTGGAGT
13776446 GCAAAAGAAAGAAAA
1 GCAAAAGAAAGAAAA
*
13776461 GAAAAAG-AAGAAAA
1 GCAAAAGAAAGAAAA
*
13776475 TCAAAAGCAAAAGAAAA
1 GCAAAAG--AAAGAAAA
13776492 G
1 G
13776493 TGAAGCAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
17 7 0.28
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.02
Consensus pattern (15 bp):
GCAAAAGAAAGAAAA
Found at i:13779201 original size:60 final size:60
Alignment explanation
Indices: 13779107--13779227 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 60
13779097 AGAAGGGGGG
* * *
13779107 ATGATGTGATCCGATTCATCGTCAAAAATGGACTTGCATCTCCAACCTTTCTCAATATTC
1 ATGATGTGATCCGATTCAGCATCAAAAATAGACTTGCATCTCCAACCTTTCTCAATATTC
*
13779167 ATGATGTGATCCGATTCAGCATCAAAAATAGACTTGCATCTCCAACCTTTCTCAATGTTC
1 ATGATGTGATCCGATTCAGCATCAAAAATAGACTTGCATCTCCAACCTTTCTCAATATTC
13779227 A
1 A
13779228 AAGGGGGATT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (60 bp):
ATGATGTGATCCGATTCAGCATCAAAAATAGACTTGCATCTCCAACCTTTCTCAATATTC
Found at i:13780518 original size:36 final size:36
Alignment explanation
Indices: 13780466--13780578 Score: 174
Period size: 36 Copynumber: 3.2 Consensus size: 36
13780456 GATACTATTT
*
13780466 TCATCACCATAATCCATCTCCATTATCACGCCTATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
*
13780502 TCATCACCATAGTCCATCACCATTATCACGCCTATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
* *
13780538 TCATCACCATATTCCATCACCA-TATCACGCCAATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
*
13780573 ACATCA
1 TCATCA
13780579 TCCTTCCATT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
35 17 0.24
36 55 0.76
ACGTcount: A:0.33, C:0.36, G:0.04, T:0.27
Consensus pattern (36 bp):
TCATCACCATAATCCATCACCATTATCACGCCTATA
Found at i:13780521 original size:13 final size:11
Alignment explanation
Indices: 13780466--13780564 Score: 67
Period size: 13 Copynumber: 8.3 Consensus size: 11
13780456 GATACTATTT
13780466 TCATCACCATAA
1 TCATCACCAT-A
*
13780478 TCCATCTCCATTA
1 T-CATCACCA-TA
*
13780491 TCA-CGCCTATA
1 TCATCACC-ATA
13780502 TCATCACCATA
1 TCATCACCATA
13780513 GTCCATCACCATTA
1 -T-CATCACCA-TA
*
13780527 TCA-CGCCTATA
1 TCATCACC-ATA
13780538 TCATCACCATA
1 TCATCACCATA
13780549 TTCCATCACCATA
1 -T-CATCACCATA
13780562 TCA
1 TCA
13780565 CGCCAATAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 23
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.34
12 16 0.23
13 28 0.39
14 3 0.04
ACGTcount: A:0.31, C:0.36, G:0.03, T:0.29
Consensus pattern (11 bp):
TCATCACCATA
Found at i:13780593 original size:33 final size:33
Alignment explanation
Indices: 13780478--13780617 Score: 97
Period size: 36 Copynumber: 4.1 Consensus size: 33
13780468 ATCACCATAA
* * *
13780478 TCCATCTCCATTATCACGCCTATATCATCA-CCAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC-T
* *
13780512 AGTCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 --TCCATCACCA-TATCACGCCAATAACATCATCC---T
13780550 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
13780583 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
13780616 TC
1 TC
13780618 ATTCATCAAC
Statistics
Matches: 93, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
33 24 0.26
34 7 0.08
35 17 0.18
36 43 0.46
38 2 0.02
ACGTcount: A:0.30, C:0.36, G:0.03, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:13786116 original size:36 final size:36
Alignment explanation
Indices: 13786064--13786176 Score: 174
Period size: 36 Copynumber: 3.2 Consensus size: 36
13786054 GATACTATTT
*
13786064 TCATCACCATAATCCATCTCCATTATCACGCCTATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
*
13786100 TCATCACCATAGTCCATCACCATTATCACGCCTATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
* *
13786136 TCATCACCATATTCCATCACCA-TATCACGCCAATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
*
13786171 ACATCA
1 TCATCA
13786177 TCCTTCCATT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
35 17 0.24
36 55 0.76
ACGTcount: A:0.33, C:0.36, G:0.04, T:0.27
Consensus pattern (36 bp):
TCATCACCATAATCCATCACCATTATCACGCCTATA
Found at i:13786119 original size:13 final size:11
Alignment explanation
Indices: 13786064--13786162 Score: 67
Period size: 13 Copynumber: 8.3 Consensus size: 11
13786054 GATACTATTT
13786064 TCATCACCATAA
1 TCATCACCAT-A
*
13786076 TCCATCTCCATTA
1 T-CATCACCA-TA
*
13786089 TCA-CGCCTATA
1 TCATCACC-ATA
13786100 TCATCACCATA
1 TCATCACCATA
13786111 GTCCATCACCATTA
1 -T-CATCACCA-TA
*
13786125 TCA-CGCCTATA
1 TCATCACC-ATA
13786136 TCATCACCATA
1 TCATCACCATA
13786147 TTCCATCACCATA
1 -T-CATCACCATA
13786160 TCA
1 TCA
13786163 CGCCAATAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 23
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.34
12 16 0.23
13 28 0.39
14 3 0.04
ACGTcount: A:0.31, C:0.36, G:0.03, T:0.29
Consensus pattern (11 bp):
TCATCACCATA
Found at i:13786191 original size:33 final size:33
Alignment explanation
Indices: 13786076--13786215 Score: 97
Period size: 36 Copynumber: 4.1 Consensus size: 33
13786066 ATCACCATAA
* * *
13786076 TCCATCTCCATTATCACGCCTATATCATCA-CCAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC-T
* *
13786110 AGTCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 --TCCATCACCA-TATCACGCCAATAACATCATCC---T
13786148 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
13786181 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
13786214 TC
1 TC
13786216 ATTCATCAAC
Statistics
Matches: 93, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
33 24 0.26
34 7 0.08
35 17 0.18
36 43 0.46
38 2 0.02
ACGTcount: A:0.30, C:0.36, G:0.03, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:13788936 original size:18 final size:19
Alignment explanation
Indices: 13788898--13788936 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13788888 AAGGAAAAAG
*
13788898 AAGCACTCAAAAAGATTGA
1 AAGCACTCAAAAAGATAGA
13788917 AAGCACTCAAAAAGA-AGA
1 AAGCACTCAAAAAGATAGA
13788935 AA
1 AA
13788937 AAGAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.10
Consensus pattern (19 bp):
AAGCACTCAAAAAGATAGA
Found at i:13794549 original size:28 final size:28
Alignment explanation
Indices: 13794509--13794562 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
13794499 CTCACATTCA
*
13794509 CATAACATCATGTTCATCATTTGTTTTG
1 CATAACAGCATGTTCATCATTTGTTTTG
13794537 CATAACAGCATGTTCATCATTTGTTT
1 CATAACAGCATGTTCATCATTTGTTT
13794563 AGTTAATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (28 bp):
CATAACAGCATGTTCATCATTTGTTTTG
Found at i:13804600 original size:10 final size:10
Alignment explanation
Indices: 13804585--13804610 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13804575 ACTCAAAAAG
13804585 AAGAAAAGGA
1 AAGAAAAGGA
13804595 AAGAAAAGGA
1 AAGAAAAGGA
13804605 AAGAAA
1 AAGAAA
13804611 GAAAGTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (10 bp):
AAGAAAAGGA
Found at i:13811212 original size:23 final size:22
Alignment explanation
Indices: 13811183--13811234 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
13811173 AAAAATCAGC
13811183 AAAGAAAACAAAAGCACTCAAA
1 AAAGAAAACAAAAGCACTCAAA
*** *
13811205 AGAAGAAATTGAAAGCACTCGAA
1 A-AAGAAAACAAAAGCACTCAAA
13811228 AAAGAAA
1 AAAGAAA
13811235 GAAAGAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.63, C:0.13, G:0.15, T:0.08
Consensus pattern (22 bp):
AAAGAAAACAAAAGCACTCAAA
Found at i:13811655 original size:181 final size:183
Alignment explanation
Indices: 13811351--13811720 Score: 717
Period size: 181 Copynumber: 2.0 Consensus size: 183
13811341 GTGATGTGAT
13811351 CATATCTAGCACCAACTTTCTCCATGACACACTCACATCATTGAAGATTCATCATGCTCGATATA
1 CATATCTAGCACCAACTTTCTCCATGACACACTCACATCATTGAAGATTCATCATGCTCGATATA
13811416 AGGGAGTTATACCTTACTTTATATTATATTTACTCATTTATGCACTATAAATTATTATGATCATA
66 AGGGAGTTATACCTTACTTTATATTATATTTACTCATTTATGCACTATAAATTATTATGATCATA
13811481 CATTTGCATCTTAAACTATGCTTGAATAATCATATG-T-TCATTCACTTGCAA
131 CATTTGCATCTTAAACTATGCTTGAATAATCATATGTTATCATTCACTTGCAA
13811532 CATATCTAGCACCAACTTTCTCCATGACACACTCACATCATTGAAGATTCATCATGCTCGATATA
1 CATATCTAGCACCAACTTTCTCCATGACACACTCACATCATTGAAGATTCATCATGCTCGATATA
13811597 AGGGAGTTATACCTTACTTTATATTATATTTACTCATTTATGCACTATAAATTATTATGATCATA
66 AGGGAGTTATACCTTACTTTATATTATATTTACTCATTTATGCACTATAAATTATTATGATCATA
13811662 CATTTGCATCTTAAACTATGCTTGAATAATCATATGTTATCATTCACTTGCAA
131 CATTTGCATCTTAAACTATGCTTGAATAATCATATGTTATCATTCACTTGCAA
13811715 CTATAT
1 C-ATAT
13811721 GATTTTCATG
Statistics
Matches: 186, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
181 166 0.89
182 1 0.01
183 15 0.08
184 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (183 bp):
CATATCTAGCACCAACTTTCTCCATGACACACTCACATCATTGAAGATTCATCATGCTCGATATA
AGGGAGTTATACCTTACTTTATATTATATTTACTCATTTATGCACTATAAATTATTATGATCATA
CATTTGCATCTTAAACTATGCTTGAATAATCATATGTTATCATTCACTTGCAA
Found at i:13812412 original size:19 final size:20
Alignment explanation
Indices: 13812365--13812415 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
13812355 GAAACCCCTT
**
13812365 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
13812385 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
13812404 TGAAGATACATG
1 TGAAAATACATG
13812416 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:13813616 original size:30 final size:31
Alignment explanation
Indices: 13813577--13813636 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
13813567 CTTAGCTTTA
**
13813577 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
13813607 TATTTTGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
13813637 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:13815020 original size:33 final size:34
Alignment explanation
Indices: 13814983--13815051 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 34
13814973 TTCCGCAACC
13814983 ATCTCTATCCTATCTTTATTTC-TTTCATTACTT
1 ATCTCTATCCTATCTTTATTTCATTTCATTACTT
13815016 ATCTCTATCCTATCTTTATTTCATTTCATTACTT
1 ATCTCTATCCTATCTTTATTTCATTTCATTACTT
13815050 AT
1 AT
13815052 ATTATTATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 22 0.63
34 13 0.37
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (34 bp):
ATCTCTATCCTATCTTTATTTCATTTCATTACTT
Found at i:13815066 original size:33 final size:32
Alignment explanation
Indices: 13814986--13815069 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 32
13814976 CGCAACCATC
*
13814986 TCTATCCTATCTTTATTTCTTTCATTACTTATC
1 TCTAT-CTATCTTTATTTCTTTCATTACTTATA
13815019 TCTATCCTATCTTTATTTCATTTCATTACTTATA
1 TCTAT-CTATCTTTATTTC-TTTCATTACTTATA
13815053 T-TAT-TATTCCTTTATTT
1 TCTATCTA-T-CTTTATTT
13815070 AAGTCCATTA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
31 2 0.04
32 1 0.02
33 30 0.64
34 14 0.30
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (32 bp):
TCTATCTATCTTTATTTCTTTCATTACTTATA
Found at i:13815333 original size:12 final size:12
Alignment explanation
Indices: 13815318--13815369 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
13815308 ATTGGAGTAC
*
13815318 AAAAAGAAGAGA
1 AAAAAGAAAAGA
13815330 AAAATCAGAAAAGA
1 AAAA--AGAAAAGA
*
13815344 AGAAAGAAAAGA
1 AAAAAGAAAAGA
13815356 AAAAAGAAAA-A
1 AAAAAGAAAAGA
13815367 AAA
1 AAA
13815370 GATAAATTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 4 0.11
12 21 0.60
14 10 0.29
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:13815362 original size:16 final size:17
Alignment explanation
Indices: 13815319--13815371 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
13815309 TTGGAGTACA
*
13815319 AAAAGAAGAGAAAAATCAG
1 AAAAGAAGA-AAAAA-AAG
*
13815338 AAAAGAAGAAAGAAAAG
1 AAAAGAAGAAAAAAAAG
13815355 AAAA-AAGAAAAAAAAG
1 AAAAGAAGAAAAAAAAG
13815371 A
1 A
13815372 TAAATTCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 12 0.39
17 6 0.19
18 4 0.13
19 9 0.29
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (17 bp):
AAAAGAAGAAAAAAAAG
Found at i:13819256 original size:14 final size:15
Alignment explanation
Indices: 13819206--13819259 Score: 65
Period size: 14 Copynumber: 3.5 Consensus size: 15
13819196 TTGGAGTACA
*
13819206 AAAAGAAGAGAAAAATC
1 AAAAGAAGA-AAAAA-G
13819223 AGAAAGAAGAAAAAAG
1 A-AAAGAAGAAAAAAG
13819239 AAAAGAAG-AAAAAG
1 AAAAGAAGAAAAAAG
13819253 AAAAGAA
1 AAAAGAA
13819260 AAAGATAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
14 13 0.37
15 7 0.20
16 1 0.03
17 6 0.17
18 8 0.23
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (15 bp):
AAAAGAAGAAAAAAG
Found at i:13822467 original size:19 final size:20
Alignment explanation
Indices: 13822443--13822494 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
13822433 CGGCCAAGAG
* *
13822443 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATAAAAAAT
13822462 CATGTATTTTCATAAAAAAAT
1 CATGTATTTTCAT-AAAAAAT
13822483 CATGTATTTTCA
1 CATGTATTTTCA
13822495 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.41
21 17 0.59
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (20 bp):
CATGTATTTTCATAAAAAAT
Found at i:13823224 original size:19 final size:16
Alignment explanation
Indices: 13823200--13823255 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 16
13823190 TTGGAGTACA
13823200 AAAAGAAGAGAAAAATCAG
1 AAAAGAAGA-AAAAA--AG
*
13823219 AAAAGAAGAAAAGAAG
1 AAAAGAAGAAAAAAAG
13823235 AAAAGAAGAAAAGAAAG
1 AAAAGAAGAAAA-AAAG
13823252 AAAA
1 AAAA
13823256 AGATAAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 14 0.41
17 7 0.21
18 4 0.12
19 9 0.26
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (16 bp):
AAAAGAAGAAAAAAAG
Found at i:13823228 original size:8 final size:8
Alignment explanation
Indices: 13823217--13823255 Score: 69
Period size: 8 Copynumber: 4.8 Consensus size: 8
13823207 GAGAAAAATC
13823217 AGAAAAGA
1 AGAAAAGA
13823225 AGAAAAGA
1 AGAAAAGA
13823233 AGAAAAGA
1 AGAAAAGA
13823241 AGAAAAGAA
1 AGAAAAG-A
13823250 AGAAAA
1 AGAAAA
13823256 AGATAAATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 23 0.77
9 7 0.23
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (8 bp):
AGAAAAGA
Found at i:13825570 original size:30 final size:31
Alignment explanation
Indices: 13825525--13825584 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
13825515 CTTAGCTTTA
**
13825525 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
13825555 TATTTTGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
13825585 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:13826472 original size:19 final size:20
Alignment explanation
Indices: 13826448--13826499 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
13826438 CGGCCAAGAG
* *
13826448 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATAAAAAAT
13826467 CATGTATTTTCATAAAAAAAT
1 CATGTATTTTCAT-AAAAAAT
13826488 CATGTATTTTCA
1 CATGTATTTTCA
13826500 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.41
21 17 0.59
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (20 bp):
CATGTATTTTCATAAAAAAT
Found at i:13827235 original size:8 final size:8
Alignment explanation
Indices: 13827218--13827246 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
13827208 ATCAGAAAAG
13827218 AAAGAA-A
1 AAAGAAGA
13827225 AAAGAAGA
1 AAAGAAGA
13827233 AAAGAAGA
1 AAAGAAGA
13827241 AAAGAA
1 AAAGAA
13827247 AAGAAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (8 bp):
AAAGAAGA
Found at i:13827240 original size:18 final size:17
Alignment explanation
Indices: 13827194--13827253 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 17
13827184 TTGGAGTACA
*
13827194 AAAAGAAGAGAAAAATCAG
1 AAAAGAAGA-AAAAA-AAG
13827213 AAAAGAAAGAAAAAAGAAG
1 AAAAG-AAGAAAAAA-AAG
13827232 AAAAGAAGAAAAGAAAAG
1 AAAAGAAGAAAA-AAAAG
13827250 AAAA
1 AAAA
13827254 AGATAAATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
18 14 0.38
19 19 0.51
20 4 0.11
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (17 bp):
AAAAGAAGAAAAAAAAG
Found at i:13827241 original size:27 final size:30
Alignment explanation
Indices: 13827193--13827254 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
13827183 ATTGGAGTAC
13827193 AAAAAGAAGAGAAAAATCAGAAAAG-AAAGA
1 AAAAAGAAGAGAAAAA-CAGAAAAGAAAAGA
*
13827223 AAAAAGAAGA-AAAGA-AGAAAAGAAAAGA
1 AAAAAGAAGAGAAAAACAGAAAAGAAAAGA
13827251 AAAA
1 AAAA
13827255 GATAAATTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 7 0.23
28 9 0.30
29 4 0.13
30 10 0.33
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (30 bp):
AAAAAGAAGAGAAAAACAGAAAAGAAAAGA
Found at i:13829593 original size:30 final size:31
Alignment explanation
Indices: 13829548--13829607 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
13829538 CTTAGCTTTA
**
13829548 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
13829578 TATTTTGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
13829608 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:13830504 original size:19 final size:20
Alignment explanation
Indices: 13830480--13830531 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
13830470 CGGCCAAGAG
* *
13830480 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATAAAAAAT
13830499 CATGTATTTTCATAAAAAAAT
1 CATGTATTTTCAT-AAAAAAT
13830520 CATGTATTTTCA
1 CATGTATTTTCA
13830532 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.41
21 17 0.59
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (20 bp):
CATGTATTTTCATAAAAAAT
Found at i:13831271 original size:8 final size:8
Alignment explanation
Indices: 13831260--13831292 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
13831250 GAGAAAAATC
13831260 AGAAAAGA
1 AGAAAAGA
13831268 AGAAAAGA
1 AGAAAAGA
13831276 AGAAAAGA
1 AGAAAAGA
13831284 AGAAAAGA
1 AGAAAAGA
13831292 A
1 A
13831293 AAGAAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
AGAAAAGA
Found at i:13831276 original size:13 final size:12
Alignment explanation
Indices: 13831267--13831300 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
13831257 ATCAGAAAAG
13831267 AAGAAAAGAAGAA
1 AAGAAAA-AAGAA
13831280 AAGAAGAAAAGAA
1 AAGAA-AAAAGAA
13831293 AAGAAAAA
1 AAGAAAAA
13831301 GATAAATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 15 0.75
14 2 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:13831302 original size:16 final size:16
Alignment explanation
Indices: 13831243--13831299 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 16
13831233 TGGAGTACAA
13831243 AAAAGAAGAGAAAAATCAG
1 AAAAGAAGA-AAAAA--AG
*
13831262 AAAAGAAGAAAAGAAG
1 AAAAGAAGAAAAAAAG
13831278 AAAAGAAGAAAAGAAAAG
1 AAAAGAAG-AAA-AAAAG
13831296 AAAA
1 AAAA
13831300 AGATAAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 10 0.29
17 3 0.09
18 12 0.35
19 9 0.26
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (16 bp):
AAAAGAAGAAAAAAAG
Found at i:13833643 original size:30 final size:31
Alignment explanation
Indices: 13833598--13833657 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
13833588 CTTAGCTTTA
**
13833598 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
13833628 TATTTTGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
13833658 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:13834554 original size:19 final size:20
Alignment explanation
Indices: 13834530--13834581 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
13834520 CGGCCAAGAG
* *
13834530 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATAAAAAAT
13834549 CATGTATTTTCATAAAAAAAT
1 CATGTATTTTCAT-AAAAAAT
13834570 CATGTATTTTCA
1 CATGTATTTTCA
13834582 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.41
21 17 0.59
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (20 bp):
CATGTATTTTCATAAAAAAT
Found at i:13835320 original size:8 final size:8
Alignment explanation
Indices: 13835309--13835349 Score: 82
Period size: 8 Copynumber: 5.1 Consensus size: 8
13835299 GAGAAAAATC
13835309 AGAAAAGA
1 AGAAAAGA
13835317 AGAAAAGA
1 AGAAAAGA
13835325 AGAAAAGA
1 AGAAAAGA
13835333 AGAAAAGA
1 AGAAAAGA
13835341 AGAAAAGA
1 AGAAAAGA
13835349 A
1 A
13835350 AAGAAAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
AGAAAAGA
Found at i:13835359 original size:24 final size:24
Alignment explanation
Indices: 13835292--13835359 Score: 84
Period size: 24 Copynumber: 2.7 Consensus size: 24
13835282 TTGGAGTACA
13835292 AAAAGAAGAGAAAAATCAGAAAAGAAG
1 AAAAGAAGA-AAAAA--AGAAAAGAAG
*
13835319 AAAAGAAGAAAAGAAGAAAAGAAG
1 AAAAGAAGAAAAAAAGAAAAGAAG
13835343 AAAAGAA-AAGAAAAAGA
1 AAAAGAAGAA-AAAAAGA
13835360 TAAATTCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
23 2 0.05
24 23 0.61
26 4 0.11
27 9 0.24
ACGTcount: A:0.75, C:0.01, G:0.22, T:0.01
Consensus pattern (24 bp):
AAAAGAAGAAAAAAAGAAAAGAAG
Found at i:13838587 original size:19 final size:20
Alignment explanation
Indices: 13838563--13838614 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
13838553 CGGCCAAGAG
* *
13838563 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATAAAAAAT
13838582 CATGTATTTTCATAAAAAAAT
1 CATGTATTTTCAT-AAAAAAT
13838603 CATGTATTTTCA
1 CATGTATTTTCA
13838615 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.41
21 17 0.59
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (20 bp):
CATGTATTTTCATAAAAAAT
Found at i:13841898 original size:11 final size:13
Alignment explanation
Indices: 13841866--13841895 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13841856 TGGCCAAAGA
13841866 TGAAAAGGTATGT
1 TGAAAAGGTATGT
13841879 TGAAAAGGTATG-
1 TGAAAAGGTATGT
13841891 TGAAA
1 TGAAA
13841896 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:13844881 original size:24 final size:25
Alignment explanation
Indices: 13844846--13844900 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
13844836 ACTTGGAGCC
*
13844846 TCAA-TGATCACAACTTGTGGCACT
1 TCAAGTGATCACAACTTGTGGAACT
* * *
13844870 TCAAGTGA-CACATCTTTTTGAACT
1 TCAAGTGATCACAACTTGTGGAACT
13844894 TCAAGTG
1 TCAAGTG
13844901 GCATAACTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (25 bp):
TCAAGTGATCACAACTTGTGGAACT
Found at i:13846174 original size:24 final size:24
Alignment explanation
Indices: 13846138--13846183 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
13846128 TGCTTCCAAC
*
13846138 TTTTCTTTCTTTTCATTGCTTTTT
1 TTTTCTTTCTTTTCAGTGCTTTTT
*
13846162 TTTTC-TTCTTTTTGAGTGCTTT
1 TTTTCTTTC-TTTTCAGTGCTTT
13846184 GACTTTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.04, C:0.15, G:0.09, T:0.72
Consensus pattern (24 bp):
TTTTCTTTCTTTTCAGTGCTTTTT
Found at i:13849272 original size:27 final size:27
Alignment explanation
Indices: 13849230--13849281 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
13849220 CTATTTTTTT
*
13849230 CAAAAAAAACAAAAAAAGGCAAAAAGG
1 CAAAAAAAACAAAAAAAAGCAAAAAGG
13849257 CAAAAAAAA-AACAAAAAAGCAAAAA
1 CAAAAAAAACAA-AAAAAAGCAAAAA
13849282 AAAAAGCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.79, C:0.12, G:0.10, T:0.00
Consensus pattern (27 bp):
CAAAAAAAACAAAAAAAAGCAAAAAGG
Found at i:13849293 original size:20 final size:21
Alignment explanation
Indices: 13849240--13849293 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
13849230 CAAAAAAAAC
*
13849240 AAAAAAAGGCAAAAAGGCAAA
1 AAAAAAAGCCAAAAAGGCAAA
*
13849261 AAAAAAA--CAAAAAAGCAAA
1 AAAAAAAGCCAAAAAGGCAAA
13849280 AAAAAAAGCCAAAA
1 AAAAAAAGCCAAAA
13849294 TTTCAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 18 0.60
21 12 0.40
ACGTcount: A:0.78, C:0.11, G:0.11, T:0.00
Consensus pattern (21 bp):
AAAAAAAGCCAAAAAGGCAAA
Found at i:13857157 original size:19 final size:20
Alignment explanation
Indices: 13857116--13857166 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
13857106 GAAACCCCTT
*
13857116 TGAAAATACATGATTTTTTA
1 TGAAAATACATGATTTTTAA
13857136 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
13857155 TGAAGATACATG
1 TGAAAATACATG
13857167 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:13857813 original size:36 final size:35
Alignment explanation
Indices: 13857748--13857844 Score: 158
Period size: 36 Copynumber: 2.7 Consensus size: 35
13857738 GTTGGTTATA
* *
13857748 ATATAGGCGTGATATGGTGATGGAATATGGTGATG
1 ATATAGGCGTGATATGGTGATGGACTATGGCGATG
13857783 ATATAGGCGTGATAATGGTGATGGACTATGGCGATG
1 ATATAGGCGTGAT-ATGGTGATGGACTATGGCGATG
13857819 ATATAGGCGTGATGATGGTGATGGAC
1 ATATAGGCGTGAT-ATGGTGATGGAC
13857845 AGATTGTATC
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
35 13 0.22
36 45 0.78
ACGTcount: A:0.28, C:0.06, G:0.37, T:0.29
Consensus pattern (35 bp):
ATATAGGCGTGATATGGTGATGGACTATGGCGATG
Found at i:13858232 original size:19 final size:20
Alignment explanation
Indices: 13858185--13858235 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
13858175 GAAACCCCTT
**
13858185 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
13858205 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
13858224 TGAAGATACATG
1 TGAAAATACATG
13858236 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:13861618 original size:22 final size:20
Alignment explanation
Indices: 13861593--13861632 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13861583 ATGTTTGTTT
13861593 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
13861615 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
13861633 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:13862987 original size:13 final size:13
Alignment explanation
Indices: 13862965--13862994 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13862955 ACTAAACACC
13862965 TTTC-ACATACCT
1 TTTCAACATACCT
13862977 TTTCAACATACCT
1 TTTCAACATACCT
13862990 TTTCA
1 TTTCA
13862995 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:13867169 original size:22 final size:20
Alignment explanation
Indices: 13867144--13867183 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13867134 ATGTTTGTTT
13867144 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
13867166 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
13867184 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:13869121 original size:36 final size:35
Alignment explanation
Indices: 13869048--13869152 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 35
13869038 ATTTATAAGT
* * *
13869048 TGGTGATAATATAGGCATGATATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATATGGTGATGGACTA
13869083 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGAT-ATGGTGATGGACTA
*
13869119 TGGCGATGATATAGGCGTGATGATGGTGATGGAC
1 TGGTGATGATATAGGCGTGAT-ATGGTGATGGAC
13869153 AGATTGTATC
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 19 0.30
36 45 0.70
ACGTcount: A:0.29, C:0.06, G:0.36, T:0.30
Consensus pattern (35 bp):
TGGTGATGATATAGGCGTGATATGGTGATGGACTA
Found at i:13869540 original size:19 final size:20
Alignment explanation
Indices: 13869493--13869543 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
13869483 GAAACCCCTT
**
13869493 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
13869513 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
13869532 TGAAGATACATG
1 TGAAAATACATG
13869544 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:13871171 original size:20 final size:21
Alignment explanation
Indices: 13871140--13871179 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13871130 GATCATCTAG
*
13871140 AAGCTAAGATAAAATGCATAT
1 AAGCTAAGATAAAAGGCATAT
13871161 AAGCT-AGATAAAAGGCATA
1 AAGCTAAGATAAAAGGCATA
13871180 GGACGTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.20
Consensus pattern (21 bp):
AAGCTAAGATAAAAGGCATAT
Found at i:13874843 original size:24 final size:21
Alignment explanation
Indices: 13874809--13874851 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
13874799 TGCACAAGAT
*
13874809 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
13874831 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
13874852 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:13878462 original size:13 final size:12
Alignment explanation
Indices: 13878443--13878528 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
13878433 ATATAGGCGT
13878443 GATATGGTGATG
1 GATATGGTGATG
13878455 GAATATGGTGAT-
1 G-ATATGGTGATG
*
13878467 GATATAGGCG-T-
1 GATAT-GGTGATG
13878478 GATAATGGTGATG
1 GAT-ATGGTGATG
13878491 GACTATGGTGAT-
1 GA-TATGGTGATG
*
13878503 GATATAGG-CAT-
1 GATAT-GGTGATG
13878514 GATAATGGTGATG
1 GAT-ATGGTGATG
13878527 GA
1 GA
13878529 CAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.36, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:13878498 original size:36 final size:36
Alignment explanation
Indices: 13878425--13878529 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
13878415 ATTTATAAGT
* *
13878425 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
13878460 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
13878496 TGGTGATGATATAGGCATGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
13878530 AGATTGTATC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 20 0.30
36 46 0.70
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:13880760 original size:20 final size:22
Alignment explanation
Indices: 13880731--13880770 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
13880721 GGGAGAGCTT
13880731 TGGACCAAA-GT-GCTGAAAAG
1 TGGACCAAAGGTAGCTGAAAAG
*
13880751 TGGACTAAAGGTAGCTGAAA
1 TGGACCAAAGGTAGCTGAAA
13880771 GTAGCTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 2 0.12
22 7 0.41
ACGTcount: A:0.40, C:0.12, G:0.30, T:0.17
Consensus pattern (22 bp):
TGGACCAAAGGTAGCTGAAAAG
Found at i:13884473 original size:20 final size:22
Alignment explanation
Indices: 13884444--13884483 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
13884434 GGGAGAGCTT
13884444 TGGACCAAA-GT-GCTGAAAAG
1 TGGACCAAAGGTAGCTGAAAAG
*
13884464 TGGACTAAAGGTAGCTGAAA
1 TGGACCAAAGGTAGCTGAAA
13884484 GTAGCTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 2 0.12
22 7 0.41
ACGTcount: A:0.40, C:0.12, G:0.30, T:0.17
Consensus pattern (22 bp):
TGGACCAAAGGTAGCTGAAAAG
Found at i:13888183 original size:20 final size:22
Alignment explanation
Indices: 13888154--13888193 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
13888144 GGGAGAGCTT
13888154 TGGACCAAA-GT-GCTGAAAAG
1 TGGACCAAAGGTAGCTGAAAAG
*
13888174 TGGACTAAAGGTAGCTGAAA
1 TGGACCAAAGGTAGCTGAAA
13888194 GTAGCTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 2 0.12
22 7 0.41
ACGTcount: A:0.40, C:0.12, G:0.30, T:0.17
Consensus pattern (22 bp):
TGGACCAAAGGTAGCTGAAAAG
Found at i:13894678 original size:13 final size:12
Alignment explanation
Indices: 13894659--13894744 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
13894649 ATATAGGCGT
13894659 GATATGGTGATG
1 GATATGGTGATG
13894671 GAATATGGTGAT-
1 G-ATATGGTGATG
*
13894683 GATATAGGCG-T-
1 GATAT-GGTGATG
13894694 GATAATGGTGATG
1 GAT-ATGGTGATG
13894707 GACTATGGTGAT-
1 GA-TATGGTGATG
*
13894719 GATATAGGCG-T-
1 GATAT-GGTGATG
13894730 GATAATGGTGATG
1 GAT-ATGGTGATG
13894743 GA
1 GA
13894745 CAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:13894714 original size:36 final size:36
Alignment explanation
Indices: 13894641--13894745 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
13894631 ATTTATATGT
* *
13894641 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
13894676 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
13894712 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
13894746 AGATTGTATC
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 20 0.30
36 47 0.70
ACGTcount: A:0.29, C:0.05, G:0.36, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:13897330 original size:19 final size:20
Alignment explanation
Indices: 13897306--13897356 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
13897296 CGGCCAAGAG
* *
13897306 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
13897325 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
13897345 CATGTATTTTCA
1 CATGTATTTTCA
13897357 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:13902707 original size:13 final size:11
Alignment explanation
Indices: 13902666--13902750 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
13902656 ACAAACTGTC
13902666 CATCACCATTAT
1 CATCACCA-TAT
*
13902678 CA-CGCCTATAT
1 CATCACC-ATAT
13902689 CATCACCATAGT
1 CATCACCATA-T
13902701 CCATCACCACTAT
1 -CATCACCA-TAT
*
13902714 CA-CGCCTATAT
1 CATCACC-ATAT
13902725 CATCACCATATT
1 CATCACCATA-T
13902737 CCATCACCATAT
1 -CATCACCATAT
13902749 CA
1 CA
13902751 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.38, G:0.04, T:0.27
Consensus pattern (11 bp):
CATCACCATAT
Found at i:13902715 original size:36 final size:35
Alignment explanation
Indices: 13902663--13902767 Score: 174
Period size: 36 Copynumber: 2.9 Consensus size: 35
13902653 GATACAAACT
13902663 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCA-TATCACGCCTATATCATCACCATA
13902699 GTCCATCACCACTATCACGCCTATATCATCACCATA
1 GTCCATCACCA-TATCACGCCTATATCATCACCATA
* *
13902735 TTCCATCACCATATCACGCCTATATTATCACCA
1 GTCCATCACCATATCACGCCTATATCATCACCA
13902768 ACTTATAAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 21 0.32
36 45 0.68
ACGTcount: A:0.30, C:0.37, G:0.05, T:0.28
Consensus pattern (35 bp):
GTCCATCACCATATCACGCCTATATCATCACCATA
Found at i:13907253 original size:13 final size:11
Alignment explanation
Indices: 13907233--13907331 Score: 67
Period size: 13 Copynumber: 8.3 Consensus size: 11
13907223 AATATAGGCG
13907233 TGATATGGTGA
1 TGATATGGTGA
13907244 TGGAATATGGTGA
1 T-G-ATATGGTGA
*
13907257 TGATATAGGCG-
1 TGATAT-GGTGA
13907268 TGATAATGGTGA
1 TGAT-ATGGTGA
13907280 TGGACTATGGTGA
1 T-GA-TATGGTGA
*
13907293 TGATATAGGCG-
1 TGATAT-GGTGA
13907304 TGATAATGGTGA
1 TGAT-ATGGTGA
*
13907316 TGGAAGATGGTGA
1 T-G-ATATGGTGA
13907329 TGA
1 TGA
13907332 ACAGATTGTA
Statistics
Matches: 71, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
11 23 0.32
12 17 0.24
13 29 0.41
14 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (11 bp):
TGATATGGTGA
Found at i:13907289 original size:36 final size:36
Alignment explanation
Indices: 13907216--13907331 Score: 198
Period size: 36 Copynumber: 3.2 Consensus size: 36
13907206 ATTTAGAAGT
*
13907216 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
*
13907251 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
*
13907287 TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
13907323 TGGTGATGA
1 TGGTGATGA
13907332 ACAGATTGTA
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
35 20 0.26
36 56 0.74
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
Found at i:13912260 original size:13 final size:12
Alignment explanation
Indices: 13912241--13912305 Score: 57
Period size: 13 Copynumber: 5.4 Consensus size: 12
13912231 ATATAGGCGT
13912241 GATATGGTGATG
1 GATATGGTGATG
13912253 GAATATGGTGAT-
1 G-ATATGGTGATG
*
13912265 GATATAGGCG-T-
1 GATAT-GGTGATG
13912276 GATAATGGTGATG
1 GAT-ATGGTGATG
13912289 GACTATGGTGAT-
1 GA-TATGGTGATG
13912301 GATAT
1 GATAT
13912306 AGGCATGATA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
11 14 0.31
12 10 0.22
13 20 0.44
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.35, T:0.32
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:13912296 original size:36 final size:36
Alignment explanation
Indices: 13912223--13912338 Score: 180
Period size: 36 Copynumber: 3.2 Consensus size: 36
13912213 ATTTAGAAGT
*
13912223 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
*
13912258 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
* * *
13912294 TGGTGATGATATAGGCATGATAATAGTGATGGAAGA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
13912330 TGGTGATGA
1 TGGTGATGA
13912339 ACAGATTGTA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 20 0.27
36 54 0.73
ACGTcount: A:0.31, C:0.03, G:0.35, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
Found at i:13915034 original size:13 final size:11
Alignment explanation
Indices: 13914993--13915077 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
13914983 ACAAACTGTC
13914993 CATCACCATTAT
1 CATCACCA-TAT
*
13915005 CA-CGCCTATAT
1 CATCACC-ATAT
13915016 CATCACCATAGT
1 CATCACCATA-T
13915028 CCATCACCACTAT
1 -CATCACCA-TAT
*
13915041 CA-CGCCTATAT
1 CATCACC-ATAT
13915052 CATCACCATATT
1 CATCACCATA-T
13915064 CCATCACCATAT
1 -CATCACCATAT
13915076 CA
1 CA
13915078 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.38, G:0.04, T:0.27
Consensus pattern (11 bp):
CATCACCATAT
Found at i:13915042 original size:36 final size:35
Alignment explanation
Indices: 13914990--13915094 Score: 174
Period size: 36 Copynumber: 2.9 Consensus size: 35
13914980 TATACAAACT
13914990 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCA-TATCACGCCTATATCATCACCATA
13915026 GTCCATCACCACTATCACGCCTATATCATCACCATA
1 GTCCATCACCA-TATCACGCCTATATCATCACCATA
* *
13915062 TTCCATCACCATATCACGCCTATATTATCACCA
1 GTCCATCACCATATCACGCCTATATCATCACCA
13915095 ACTTATAAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 21 0.32
36 45 0.68
ACGTcount: A:0.30, C:0.37, G:0.05, T:0.28
Consensus pattern (35 bp):
GTCCATCACCATATCACGCCTATATCATCACCATA
Found at i:13923248 original size:16 final size:17
Alignment explanation
Indices: 13923218--13923261 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
13923208 TAGAAATCTA
*
13923218 TTTCTTTTTCTTCTTTTC
1 TTTCTTTTT-GTCTTTTC
13923236 -TTCTTTTTGTCTTTTC
1 TTTCTTTTTGTCTTTTC
13923252 TTTCTTTTTG
1 TTTCTTTTTG
13923262 CACTCCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTCTTTTTGTCTTTTC
Found at i:13930579 original size:33 final size:33
Alignment explanation
Indices: 13930537--13930605 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
13930527 GTTGATGAAT
*
13930537 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
13930570 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
13930603 GAA
1 GAA
13930606 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:13930610 original size:13 final size:12
Alignment explanation
Indices: 13930591--13930687 Score: 62
Period size: 13 Copynumber: 8.0 Consensus size: 12
13930581 TTATTGGCGT
13930591 GATATGGTGATG
1 GATATGGTGATG
13930603 GAATATGGTGAT-
1 G-ATATGGTGATG
*
13930615 GATATAGGCG-T-
1 GATAT-GGTGATG
13930626 GATAATGGTGATG
1 GAT-ATGGTGATG
13930639 GACTATGGTGAT-
1 GA-TATGGTGATG
*
13930651 GATATAGGCG-T-
1 GATAT-GGTGATG
*
13930662 GATAATGGAGATG
1 GAT-ATGGTGATG
13930675 GATTATGGTGATG
1 GA-TATGGTGATG
13930688 AAAATAGTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
11 21 0.30
12 16 0.23
13 30 0.43
14 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.31
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:13930646 original size:36 final size:36
Alignment explanation
Indices: 13930576--13930688 Score: 174
Period size: 36 Copynumber: 3.2 Consensus size: 36
13930566 AATGGAAGGA
* *
13930576 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
*
13930611 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* *
13930647 TGATGATATAGGCGTGATAATGGAGATGGATTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
13930683 TGATGA
1 TGATGA
13930689 AAATAGTATC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
35 16 0.22
36 56 0.78
ACGTcount: A:0.27, C:0.04, G:0.36, T:0.33
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGAATATGG
Found at i:13931235 original size:14 final size:14
Alignment explanation
Indices: 13931216--13931245 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13931206 ACTCACATGG
13931216 TTGGTGTTAAATGC
1 TTGGTGTTAAATGC
13931230 TTGGTGTTAAATGC
1 TTGGTGTTAAATGC
13931244 TT
1 TT
13931246 AAGGCGTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (14 bp):
TTGGTGTTAAATGC
Found at i:13942794 original size:11 final size:13
Alignment explanation
Indices: 13942762--13942791 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13942752 TGGCCAAAGA
13942762 TGAAAAGGTATGT
1 TGAAAAGGTATGT
13942775 TGAAAAGGTATG-
1 TGAAAAGGTATGT
13942787 TGAAA
1 TGAAA
13942792 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:13947334 original size:33 final size:33
Alignment explanation
Indices: 13947292--13947360 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
13947282 GTTGATGAAT
*
13947292 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
13947325 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
13947358 GAA
1 GAA
13947361 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:13947365 original size:13 final size:12
Alignment explanation
Indices: 13947346--13947442 Score: 62
Period size: 13 Copynumber: 8.0 Consensus size: 12
13947336 TTATTGGCGT
13947346 GATATGGTGATG
1 GATATGGTGATG
13947358 GAATATGGTGAT-
1 G-ATATGGTGATG
*
13947370 GATATAGGCG-T-
1 GATAT-GGTGATG
13947381 GATAATGGTGATG
1 GAT-ATGGTGATG
13947394 GACTATGGTGAT-
1 GA-TATGGTGATG
*
13947406 GATATAGGCG-T-
1 GATAT-GGTGATG
*
13947417 GATAATGGAGATG
1 GAT-ATGGTGATG
13947430 GATTATGGTGATG
1 GA-TATGGTGATG
13947443 AAAATAGTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
11 21 0.30
12 16 0.23
13 30 0.43
14 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.31
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:13947401 original size:36 final size:36
Alignment explanation
Indices: 13947331--13947443 Score: 174
Period size: 36 Copynumber: 3.2 Consensus size: 36
13947321 AATGGAAGGA
* *
13947331 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
*
13947366 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* *
13947402 TGATGATATAGGCGTGATAATGGAGATGGATTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
13947438 TGATGA
1 TGATGA
13947444 AAATAGTATC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
35 16 0.22
36 56 0.78
ACGTcount: A:0.27, C:0.04, G:0.36, T:0.33
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGAATATGG
Found at i:13956104 original size:24 final size:25
Alignment explanation
Indices: 13956069--13956123 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
13956059 ACTTGGAGCC
*
13956069 TCAA-TGATCACAACTTGTGGCACT
1 TCAAGTGATCACAACTTGTGGAACT
* * *
13956093 TCAAGTGA-CACATCTTTTTGAACT
1 TCAAGTGATCACAACTTGTGGAACT
13956117 TCAAGTG
1 TCAAGTG
13956124 GCATAACTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (25 bp):
TCAAGTGATCACAACTTGTGGAACT
Found at i:13959605 original size:19 final size:20
Alignment explanation
Indices: 13959581--13959631 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
13959571 CGGCCAAGAG
* *
13959581 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATAAAAAAT
13959600 CATGTATTTTCATAAAAAAT
1 CATGTATTTTCATAAAAAAT
13959620 CATGTATTTTCA
1 CATGTATTTTCA
13959632 ATGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATAAAAAAT
Found at i:13963366 original size:26 final size:25
Alignment explanation
Indices: 13963332--13963388 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
13963322 AGAAAATCAG
* *
13963332 AAAAGAAATTGAAGCACTCCAAAAGA
1 AAAAAAAATT-AAGCACTCAAAAAGA
*
13963358 AAAAAAAATTCAGCACTCAAAAAGA
1 AAAAAAAATTAAGCACTCAAAAAGA
*
13963383 AGAAAA
1 AAAAAA
13963389 GCAAAGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.63, C:0.14, G:0.12, T:0.11
Consensus pattern (25 bp):
AAAAAAAATTAAGCACTCAAAAAGA
Found at i:13963393 original size:15 final size:15
Alignment explanation
Indices: 13963382--13963410 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13963372 ACTCAAAAAG
13963382 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
13963397 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
13963411 GTTGAAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:13964373 original size:19 final size:21
Alignment explanation
Indices: 13964330--13964381 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
13964320 GAAACCCCTT
13964330 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
13964351 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
13964370 TGAAGATACATG
1 TGAAAATACATG
13964382 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:13966978 original size:22 final size:22
Alignment explanation
Indices: 13966953--13966994 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13966943 CAATTCATTT
13966953 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
*
13966975 ATCTTATTTTTTTCTTGTTT
1 ATCTTATTTTTATCTTGTTT
13966995 CCAGCACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.71
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:13971531 original size:22 final size:22
Alignment explanation
Indices: 13971506--13971547 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
13971496 CAATTCATTT
13971506 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
13971528 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
13971548 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:13975542 original size:18 final size:18
Alignment explanation
Indices: 13975519--13975554 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13975509 GCCTTGTGCC
13975519 TTCGAAGCTTCTTCTCCT
1 TTCGAAGCTTCTTCTCCT
13975537 TTCGAAGCTTCTTCTCCT
1 TTCGAAGCTTCTTCTCCT
13975555 AGAGTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.11, T:0.44
Consensus pattern (18 bp):
TTCGAAGCTTCTTCTCCT
Found at i:13976644 original size:22 final size:22
Alignment explanation
Indices: 13976613--13976654 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13976603 TATGTGCTGG
13976613 AAACAAGATAAA-AATAAGATTA
1 AAACAAGATAAAGAA-AAGATTA
*
13976635 AAACATGATAAAGAAAAGAT
1 AAACAAGATAAAGAAAAGAT
13976655 AAATGAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.67, C:0.05, G:0.12, T:0.17
Consensus pattern (22 bp):
AAACAAGATAAAGAAAAGATTA
Found at i:13984270 original size:33 final size:33
Alignment explanation
Indices: 13984226--13984294 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
13984216 CATCACCATA
*
13984226 TTCCATCACCATATCA-CGCCAATAACATCATCC
1 TTCCATCACCATATCATCACCAATAA-ATCATCC
* * *
13984259 TTCCATTACCATTTCATCACCATTAAATCATCC
1 TTCCATCACCATATCATCACCAATAAATCATCC
13984292 TTC
1 TTC
13984295 ATTCATCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.30, C:0.36, G:0.01, T:0.32
Consensus pattern (33 bp):
TTCCATCACCATATCATCACCAATAAATCATCC
Found at i:13996806 original size:33 final size:33
Alignment explanation
Indices: 13996762--13996830 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
13996752 CATCACCATA
*
13996762 TTCCATCACCATATCA-CGCCAATAACATCATCC
1 TTCCATCACCATATCATCACCAATAA-ATCATCC
* * *
13996795 TTCCATTACCATTTCATCACCATTAAATCATCC
1 TTCCATCACCATATCATCACCAATAAATCATCC
13996828 TTC
1 TTC
13996831 ATTCATCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.30, C:0.36, G:0.01, T:0.32
Consensus pattern (33 bp):
TTCCATCACCATATCATCACCAATAAATCATCC
Found at i:13998096 original size:9 final size:9
Alignment explanation
Indices: 13998061--13998108 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
13998051 ATGTTTTGTC
13998061 AAAAAAA-A
1 AAAAAAACA
13998069 AAAAAAA-A
1 AAAAAAACA
**
13998077 AAAAAGGCA
1 AAAAAAACA
13998086 AAAAAAACA
1 AAAAAAACA
*
13998095 AAACAAACA
1 AAAAAAACA
13998104 AAAAA
1 AAAAA
13998109 GCCAAAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
8 13 0.39
9 20 0.61
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:13998106 original size:27 final size:24
Alignment explanation
Indices: 13998060--13998115 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 24
13998050 TATGTTTTGT
*
13998060 CAAAAAAAAAAAAAAAAAAAAAGG
1 CAAAAAAAAAAAAAAAAAAAAAGC
13998084 CAAAAAAAACAAAACAAACAAAAAAGC
1 CAAAAAAAA-AAAA-AAA-AAAAAAGC
13998111 CAAAA
1 CAAAA
13998116 TTTCAAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 9 0.32
25 4 0.14
26 3 0.11
27 12 0.43
ACGTcount: A:0.82, C:0.12, G:0.05, T:0.00
Consensus pattern (24 bp):
CAAAAAAAAAAAAAAAAAAAAAGC
Found at i:14003387 original size:5 final size:5
Alignment explanation
Indices: 14003377--14003427 Score: 102
Period size: 5 Copynumber: 10.2 Consensus size: 5
14003367 ACTCAAAAAG
14003377 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
14003427 A
1 A
14003428 GAAGTTGAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:14004326 original size:11 final size:11
Alignment explanation
Indices: 14004304--14004350 Score: 60
Period size: 11 Copynumber: 4.1 Consensus size: 11
14004294 TTTGAGAATT
14004304 TGGTGATGATA
1 TGGTGATGATA
14004315 TAGGTG-TGATA
1 T-GGTGATGATA
14004326 TGGTGATGGACTA
1 TGGTGAT-GA-TA
14004339 TGGTGATGATA
1 TGGTGATGATA
14004350 T
1 T
14004351 AGGCGTGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 4 0.12
11 11 0.34
12 8 0.25
13 9 0.28
ACGTcount: A:0.26, C:0.02, G:0.36, T:0.36
Consensus pattern (11 bp):
TGGTGATGATA
Found at i:14004332 original size:22 final size:24
Alignment explanation
Indices: 14004304--14004350 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
14004294 TTTGAGAATT
14004304 TGGTGAT-GA-TATAGGTG-TGATA
1 TGGTGATGGACTAT-GGTGATGATA
14004326 TGGTGATGGACTATGGTGATGATA
1 TGGTGATGGACTATGGTGATGATA
14004350 T
1 T
14004351 AGGCGTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.32
23 6 0.27
24 9 0.41
ACGTcount: A:0.26, C:0.02, G:0.36, T:0.36
Consensus pattern (24 bp):
TGGTGATGGACTATGGTGATGATA
Found at i:14004350 original size:35 final size:37
Alignment explanation
Indices: 14004304--14004383 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
14004294 TTTGAGAATT
* *
14004304 TGGTGATGATATAGGTGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
14004339 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
14004376 TGGTGATG
1 TGGTGATG
14004384 GAAATAGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 20 0.50
36 4 0.10
37 16 0.40
ACGTcount: A:0.28, C:0.03, G:0.38, T:0.33
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:14004766 original size:19 final size:20
Alignment explanation
Indices: 14004719--14004769 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
14004709 GAAACCCCTT
**
14004719 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
14004739 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
14004758 TGAAGATACATG
1 TGAAAATACATG
14004770 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:14008078 original size:19 final size:20
Alignment explanation
Indices: 14008042--14008079 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
14008032 TGTAGGAGTC
* *
14008042 TTTTTCTTTTTTTTTTGTTT
1 TTTTTCTTTCTTTCTTGTTT
14008062 TTTTTC-TTCTTTCTTGTT
1 TTTTTCTTTCTTTCTTGTT
14008080 GCTTTTTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (20 bp):
TTTTTCTTTCTTTCTTGTTT
Found at i:14008510 original size:35 final size:37
Alignment explanation
Indices: 14008464--14008543 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 37
14008454 TTTGAGAATT
*
14008464 TGGTGATGATATAGGCGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
14008499 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
14008536 TGGTGATG
1 TGGTGATG
14008544 GAAATAGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 21 0.51
36 4 0.10
37 16 0.39
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:14008925 original size:19 final size:20
Alignment explanation
Indices: 14008878--14008928 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
14008868 GAAACCCCTT
**
14008878 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
14008898 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
14008917 TGAAGATACATG
1 TGAAAATACATG
14008929 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:14010964 original size:19 final size:19
Alignment explanation
Indices: 14010940--14010976 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
14010930 AAAATGCCAT
14010940 GATGTTGCTTGACAATGGA
1 GATGTTGCTTGACAATGGA
14010959 GATGTTGCTTGACAATGG
1 GATGTTGCTTGACAATGG
14010977 TGATATTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
GATGTTGCTTGACAATGGA
Found at i:14024235 original size:35 final size:35
Alignment explanation
Indices: 14024193--14024308 Score: 151
Period size: 35 Copynumber: 3.3 Consensus size: 35
14024183 TGGTTAAGGA
* * *
14024193 ATGGTGATGATATATGTGTGAAATGGTGATAGAGG
1 ATGGTGATGATATAGGTGTGAAATGGTGATGGAAG
* * *
14024228 ATGGTGATGATATAGGCGTGCAATGGTGATGGAAT
1 ATGGTGATGATATAGGTGTGAAATGGTGATGGAAG
* *
14024263 ATGGTGACGTTATAGGTGTGAAAATGGTGATGGAAG
1 ATGGTGATGATATAGGTGTG-AAATGGTGATGGAAG
14024299 ATGGTGATGA
1 ATGGTGATGA
14024309 ACAGATAGTA
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 46 0.69
36 21 0.31
ACGTcount: A:0.30, C:0.03, G:0.38, T:0.29
Consensus pattern (35 bp):
ATGGTGATGATATAGGTGTGAAATGGTGATGGAAG
Found at i:14024268 original size:13 final size:13
Alignment explanation
Indices: 14024250--14024307 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
14024240 TAGGCGTGCA
14024250 ATGGTGATGGAAT
1 ATGGTGATGGAAT
* **
14024263 ATGGTGACGTTAT
1 ATGGTGATGGAAT
*
14024276 A-GGTG-T-GAAA
1 ATGGTGATGGAAT
*
14024286 ATGGTGATGGAAG
1 ATGGTGATGGAAT
14024299 ATGGTGATG
1 ATGGTGATG
14024308 AACAGATAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
10 2 0.06
11 4 0.12
12 5 0.15
13 23 0.68
ACGTcount: A:0.29, C:0.02, G:0.40, T:0.29
Consensus pattern (13 bp):
ATGGTGATGGAAT
Found at i:14025453 original size:36 final size:36
Alignment explanation
Indices: 14025405--14025474 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
14025395 GTGAAGGTGA
14025405 TGAAATATGGTGATAGAAGATGGTGATGTTATAGGCG
1 TGAAATATGGTGATAGAAGATGGTGATGTT-TAGGCG
*
14025442 TGAAA-ATGGTGATGGAAGATGGTGATGTTTAGG
1 TGAAATATGGTGATAGAAGATGGTGATGTTTAGG
14025475 TAGTATCTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 4 0.12
36 23 0.72
37 5 0.16
ACGTcount: A:0.31, C:0.01, G:0.37, T:0.30
Consensus pattern (36 bp):
TGAAATATGGTGATAGAAGATGGTGATGTTTAGGCG
Found at i:14026923 original size:33 final size:33
Alignment explanation
Indices: 14026881--14026949 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
14026871 GTTGATGAAT
*
14026881 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
14026914 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
14026947 GAA
1 GAA
14026950 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:14026954 original size:13 final size:12
Alignment explanation
Indices: 14026935--14027031 Score: 62
Period size: 13 Copynumber: 8.0 Consensus size: 12
14026925 TTATTGGCGT
14026935 GATATGGTGATG
1 GATATGGTGATG
14026947 GAATATGGTGAT-
1 G-ATATGGTGATG
*
14026959 GATATAGGCG-T-
1 GATAT-GGTGATG
14026970 GATAATGGTGATG
1 GAT-ATGGTGATG
14026983 GACTATGGTGAT-
1 GA-TATGGTGATG
*
14026995 GATATAGGCG-T-
1 GATAT-GGTGATG
*
14027006 GATAATGGAGATG
1 GAT-ATGGTGATG
14027019 GATTATGGTGATG
1 GA-TATGGTGATG
14027032 AAAATAGTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
11 21 0.30
12 16 0.23
13 30 0.43
14 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.31
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:14026990 original size:36 final size:36
Alignment explanation
Indices: 14026920--14027032 Score: 174
Period size: 36 Copynumber: 3.2 Consensus size: 36
14026910 AATGGAAGGA
* *
14026920 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
*
14026955 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* *
14026991 TGATGATATAGGCGTGATAATGGAGATGGATTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
14027027 TGATGA
1 TGATGA
14027033 AAATAGTATC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
35 16 0.22
36 56 0.78
ACGTcount: A:0.27, C:0.04, G:0.36, T:0.33
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGAATATGG
Found at i:14036427 original size:19 final size:21
Alignment explanation
Indices: 14036403--14036454 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
14036393 CGGCCAAGAG
*
14036403 CATGTATCTTCA-TTAAAA-T
1 CATGTATTTTCATTTAAAAGT
14036422 CATGTATTTTCATTTAAAAGT
1 CATGTATTTTCATTTAAAAGT
14036443 CATGTATTTTCA
1 CATGTATTTTCA
14036455 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 6 0.20
21 13 0.43
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAGT
Found at i:14037131 original size:19 final size:18
Alignment explanation
Indices: 14037109--14037155 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
14037099 AGTGAATAAT
14037109 AATATAAGTAATGAAAAGA
1 AATATAAG-AATGAAAAGA
*
14037128 AATAATAAGAATGAAATGA
1 AAT-ATAAGAATGAAAAGA
14037147 AATA-AAGAA
1 AATATAAGAA
14037156 AGGATAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 15 0.58
20 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (18 bp):
AATATAAGAATGAAAAGA
Found at i:14038513 original size:19 final size:20
Alignment explanation
Indices: 14038471--14038521 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
14038461 GAAACCCCTT
14038471 TGAAAATACATGATTTTAAA
1 TGAAAATACATGATTTTAAA
14038491 TGAAAATACATGATTTT-AA
1 TGAAAATACATGATTTTAAA
*
14038510 TGAAGATACATG
1 TGAAAATACATG
14038522 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:14039231 original size:13 final size:13
Alignment explanation
Indices: 14039213--14039240 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14039203 GTCATCCTAT
14039213 ATAAGTTCCTTGA
1 ATAAGTTCCTTGA
14039226 ATAAGTTCCTTGA
1 ATAAGTTCCTTGA
14039239 AT
1 AT
14039241 GTCCATGACC
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:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATAAGTTCCTTGA
Found at i:14041146 original size:10 final size:10
Alignment explanation
Indices: 14041125--14041162 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
14041115 TTTTTGAAAT
14041125 TCTTCTTTTTC
1 TCTTC-TTTTC
14041136 TCTTC-TTT-
1 TCTTCTTTTC
14041144 TCTTCTTTTC
1 TCTTCTTTTC
14041154 TCTTCTTTT
1 TCTTCTTTT
14041163 TGCACTCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 5 0.20
9 6 0.24
10 9 0.36
11 5 0.20
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
TCTTCTTTTC
Found at i:14041154 original size:18 final size:19
Alignment explanation
Indices: 14041124--14041162 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
14041114 CTTTTTGAAA
14041124 TTCTTCTTTTTCTCTTCTT
1 TTCTTCTTTTTCTCTTCTT
14041143 TTCTTC-TTTTCTCTTCTT
1 TTCTTCTTTTTCTCTTCTT
14041161 TT
1 TT
14041163 TGCACTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTTCTTTTTCTCTTCTT
Found at i:14041915 original size:19 final size:21
Alignment explanation
Indices: 14041872--14041921 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
14041862 GAAACCCCTT
14041872 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
14041893 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
14041912 TGAAGATACA
1 TGAAAATACA
14041922 AGCTCTTGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 11 0.39
20 4 0.14
21 13 0.46
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:14042870 original size:30 final size:31
Alignment explanation
Indices: 14042831--14042890 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
14042821 ACATGCTGCC
**
14042831 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
14042862 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
14042891 TAAAGCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:14045153 original size:8 final size:8
Alignment explanation
Indices: 14045142--14045166 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14045132 TCTTTTTCTT
14045142 TTCTTTTC
1 TTCTTTTC
14045150 TTCTTTTC
1 TTCTTTTC
14045158 TTCTTTTC
1 TTCTTTTC
14045166 T
1 T
14045167 GATTTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTCTTTTC
Found at i:14045471 original size:19 final size:18
Alignment explanation
Indices: 14045458--14045495 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
14045448 TAATATATGT
14045458 AATGAAAAGAAATAATAAG
1 AATGAAAAGAAAT-ATAAG
*
14045477 AATGAAATGAAATA-AAG
1 AATGAAAAGAAATATAAG
14045494 AA
1 AA
14045496 AGGATAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 1 0.06
19 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (18 bp):
AATGAAAAGAAATATAAG
Found at i:14054369 original size:11 final size:11
Alignment explanation
Indices: 14054353--14054384 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
14054343 ATGGCTATAA
14054353 ATCAAAATATC
1 ATCAAAATATC
14054364 ATCAAAATATC
1 ATCAAAATATC
14054375 ATCAAAATAT
1 ATCAAAATAT
14054385 ACCAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
ATCAAAATATC
Found at i:14055472 original size:19 final size:20
Alignment explanation
Indices: 14055430--14055480 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
14055420 GAAACCTCTT
14055430 TGAAAATACATGATTTTAAA
1 TGAAAATACATGATTTTAAA
14055450 TGAAAATACATGATTTT-AA
1 TGAAAATACATGATTTTAAA
*
14055469 TGAAGATACATG
1 TGAAAATACATG
14055481 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:14057886 original size:33 final size:33
Alignment explanation
Indices: 14057849--14057917 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
14057839 CATCACCATA
*
14057849 TTCCATCACCATATCAT-GCCAATAACATCATCC
1 TTCCATCACCATATCATCACCAATAA-ATCATCC
* * *
14057882 TTCCATTACCATTTCATCACCATTAAATCATCC
1 TTCCATCACCATATCATCACCAATAAATCATCC
14057915 TTC
1 TTC
14057918 ATTCATCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 25 0.81
34 6 0.19
ACGTcount: A:0.30, C:0.35, G:0.01, T:0.33
Consensus pattern (33 bp):
TTCCATCACCATATCATCACCAATAAATCATCC
Done.