Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008755.1 Hibiscus syriacus cultivar Beakdansim tig00111847_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: 3030620
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 14
Found at i:2021186 original size:19 final size:19
Alignment explanation
Indices: 2021126--2021186 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 19
2021116 CATAATATTA
*
2021126 AATAAATTATTTTATTACTTT
1 AATAAATAATTTTATT--TTT
*
2021147 AAAATAATAATATTATATTTTT
1 AATA-AATAAT-TT-TATTTTT
2021169 AATAAATAATTTTATTTT
1 AATAAATAATTTTATTTT
2021187 ATTATATTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
19 6 0.18
20 2 0.06
21 9 0.26
22 11 0.32
23 2 0.06
24 4 0.12
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
AATAAATAATTTTATTTTT
Found at i:2025082 original size:18 final size:20
Alignment explanation
Indices: 2025059--2025101 Score: 72
Period size: 18 Copynumber: 2.2 Consensus size: 20
2025049 TTATCCAGAA
2025059 AAAAATCCGGTC-G-GGTTT
1 AAAAATCCGGTCTGAGGTTT
2025077 AAAAATCCGGTCTGAGGTTT
1 AAAAATCCGGTCTGAGGTTT
2025097 AAAAA
1 AAAAA
2025102 ATTGGATGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 12 0.52
19 1 0.04
20 10 0.43
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (20 bp):
AAAAATCCGGTCTGAGGTTT
Found at i:2028639 original size:17 final size:17
Alignment explanation
Indices: 2028598--2028642 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
2028588 AACTACTTGA
2028598 TTAAATATTTAGTAAAT
1 TTAAATATTTAGTAAAT
** **
2028615 TTTTATATTTTTTAAAT
1 TTAAATATTTAGTAAAT
2028632 TTAAATATTTA
1 TTAAATATTTA
2028643 CTTTTACCTA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TTAAATATTTAGTAAAT
Found at i:2028685 original size:2 final size:2
Alignment explanation
Indices: 2028678--2028724 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2028668 AAATCAAAAT
2028678 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2028720 TA TA T
1 TA TA T
2028725 GAAAAGACTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2031029 original size:90 final size:89
Alignment explanation
Indices: 2030884--2031049 Score: 296
Period size: 90 Copynumber: 1.9 Consensus size: 89
2030874 CTTTTATAGC
*
2030884 CAAGTTACCCTAATCATATTAGGGTTTTATTATTTCATATTAATTAAATCTATATTTAATTAATT
1 CAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
* *
2030949 GAAATTTAATAATCCTCTTATATT
66 AAAATTAAATAATCCTCTTATATT
2030973 CAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTTAATTAAT
1 CAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTTAATTAAT
2031038 TAAAATTAAATA
65 TAAAATTAAATA
2031050 TTCAGGATTA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 24 0.33
90 49 0.67
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.45
Consensus pattern (89 bp):
CAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
AAAATTAAATAATCCTCTTATATT
Found at i:2031079 original size:20 final size:21
Alignment explanation
Indices: 2031011--2031080 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
2031001 TATTATTTCA
*
2031011 AATTAATTAAATC-TATATTT
1 AATTAATTAAAACATATATTT
* * *
2031031 AATTAATTAAAATTAAATATTC
1 AATTAATTAAAA-CATATATTT
2031053 AGGATT-ATTAAAACATATATTT
1 A--ATTAATTAAAACATATATTT
2031075 AATTAA
1 AATTAA
2031081 CTCTAGATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 14 0.37
21 1 0.03
22 13 0.34
23 7 0.18
24 3 0.08
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (21 bp):
AATTAATTAAAACATATATTT
Found at i:2033229 original size:20 final size:20
Alignment explanation
Indices: 2033204--2033244 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2033194 CTGCAAGTCA
2033204 TGTGTATATATGTAATATAG
1 TGTGTATATATGTAATATAG
2033224 TGTGTATATATGTAATATAG
1 TGTGTATATATGTAATATAG
2033244 T
1 T
2033245 TTGGATGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (20 bp):
TGTGTATATATGTAATATAG
Found at i:2038709 original size:80 final size:83
Alignment explanation
Indices: 2038534--2038733 Score: 209
Period size: 80 Copynumber: 2.5 Consensus size: 83
2038524 ACATACCAAA
* *
2038534 CTATTGCGGCGTTTGTATTAAAATGCCGCTAAA-A-TACTACTATGTTGCGGCGTTTGTTAATAA
1 CTATTGCGGCGTTTGTA-TAAAATACCGCTAAAGATTACTACTATGTTACGGCGTTTGTTAATAA
* *
2038597 ATGCCACTATATATGAACC
65 AGGCCACTATAGATGAACC
* * * * *
2038616 ATATTGTGGCGTTTGTATAAAATACCGCTAAAGATTACT-CT-T-TTATGGCATTTTTTTAA-AA
1 CTATTGCGGCGTTTGTATAAAATACCGCTAAAGATTACTACTATGTTACGGC-GTTTGTTAATAA
*
2038677 AGGCCACTATAGATTAACC
65 AGGCCACTATAGATGAACC
*
2038696 CTATTGCGACGTTTGTATAAAA-ACGCCGCTAAAG-TTAC
1 CTATTGCGGCGTTTGTATAAAATA--CCGCTAAAGATTAC
2038734 CATTTTGGCG
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
79 1 0.01
80 46 0.46
81 31 0.31
82 18 0.18
83 4 0.04
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (83 bp):
CTATTGCGGCGTTTGTATAAAATACCGCTAAAGATTACTACTATGTTACGGCGTTTGTTAATAAA
GGCCACTATAGATGAACC
Found at i:2040466 original size:84 final size:85
Alignment explanation
Indices: 2040266--2040467 Score: 264
Period size: 85 Copynumber: 2.4 Consensus size: 85
2040256 AATATAAAGT
* *
2040266 GAATCT-TCAAGCAAAGATTTTGTGAGTTTAGGTTAAAAACTCAAAAAATTTAGGGTTTTGTTAG
1 GAATCTGT-AAGCAAAGATTTTGTGAGTTTGGGTTAAAAACTCAAAAAATTTAAGGTTTTGTTAG
*
2040330 GGAAAAAAAAGGAGAATTTTA
65 GGAAAAAAAAGGACAATTTTA
* * * * *** *
2040351 GAATATGTAAGCAAATATTTTTTGAGATTGGGTTAAAAACTCAAATTTTTTAAGGTTTTGTTATG
1 GAATCTGTAAGCAAAGATTTTGTGAGTTTGGGTTAAAAACTCAAAAAATTTAAGGTTTTGTTAGG
*
2040416 G-AAGAAAAGGACAATTTTA
66 GAAAAAAAAGGACAATTTTA
*
2040435 GAATCTGTAAGCAAAGATTTTGTAAGTTTGGGT
1 GAATCTGTAAGCAAAGATTTTGTGAGTTTGGGT
2040468 GTGGGATTTA
Statistics
Matches: 99, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
84 44 0.44
85 54 0.55
86 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.35
Consensus pattern (85 bp):
GAATCTGTAAGCAAAGATTTTGTGAGTTTGGGTTAAAAACTCAAAAAATTTAAGGTTTTGTTAGG
GAAAAAAAAGGACAATTTTA
Found at i:2040634 original size:14 final size:15
Alignment explanation
Indices: 2040605--2040634 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2040595 TTTTTGAGCA
2040605 TCAAAATGATCATTG
1 TCAAAATGATCATTG
2040620 TCAAAATGA-CATTG
1 TCAAAATGATCATTG
2040634 T
1 T
2040635 TTTGGTGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
TCAAAATGATCATTG
Found at i:2046048 original size:37 final size:38
Alignment explanation
Indices: 2045974--2046074 Score: 107
Period size: 37 Copynumber: 2.6 Consensus size: 38
2045964 TATATATATT
*
2045974 TATATAGTTTGT-AAATAGTTTTTGAAAATACGGATATAA
1 TATATAGTTTTTAAAATA-TTTTT-AAAATACGGATATAA
* * *
2046013 TATATAGTTTTTAAAATATTTTTAAAA-ATGTATATAT
1 TATATAGTTTTTAAAATATTTTTAAAATACGGATATAA
* *
2046050 TATATAGTTTTAAAAAAATATTTTA
1 TATATAGTTTTTAAAATAT-TTTTA
2046075 TAGATTTTAG
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
37 24 0.44
38 9 0.17
39 16 0.30
40 5 0.09
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.47
Consensus pattern (38 bp):
TATATAGTTTTTAAAATATTTTTAAAATACGGATATAA
Found at i:2046164 original size:15 final size:16
Alignment explanation
Indices: 2046138--2046180 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
2046128 ATATATATAT
2046138 ATTTTTGAAAAAAAAC
1 ATTTTTGAAAAAAAAC
*
2046154 ATTTTTGAAAAAAAAT
1 ATTTTTGAAAAAAAAC
2046170 ATTTTTGAAAA
1 ATTTTTGAAAA
2046181 CATATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (16 bp):
ATTTTTGAAAAAAAAC
Found at i:2046236 original size:35 final size:32
Alignment explanation
Indices: 2046171--2046236 Score: 87
Period size: 35 Copynumber: 2.0 Consensus size: 32
2046161 AAAAAAAATA
**
2046171 TTTTTGAAAACATATAATATAGTTTTAAAACG
1 TTTTTGAAAACATATAATATAGTTCGAAAACG
2046203 TTTTTGAAAACTATATAACATATAGTTCGAAAAC
1 TTTTTGAAAAC-ATAT-A-ATATAGTTCGAAAAC
2046237 ATCTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 11 0.38
33 4 0.14
34 1 0.03
35 13 0.45
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (32 bp):
TTTTTGAAAACATATAATATAGTTCGAAAACG
Found at i:2046327 original size:2 final size:2
Alignment explanation
Indices: 2046320--2046376 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
2046310 TATTTTTAAA
2046320 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2046361 AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT A
2046377 GTTTTTATTT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2046394 original size:11 final size:10
Alignment explanation
Indices: 2046323--2046406 Score: 51
Period size: 10 Copynumber: 8.0 Consensus size: 10
2046313 TTTTAAAATA
* *
2046323 TATATATATA
1 TATATTTATT
* *
2046333 TATATATATA
1 TATATTTATT
* *
2046343 TATATATATA
1 TATATTTATT
*
2046353 TATATTATATA
1 TATATT-TATT
*
2046364 TATATATTATA
1 TATAT-TTATT
*
2046375 TAGTTTTTATT
1 TA-TATTTATT
2046386 TATGATTTATT
1 TAT-ATTTATT
2046397 TATATTTATT
1 TATATTTATT
2046407 ATTATCCACC
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
10 33 0.50
11 30 0.45
12 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TATATTTATT
Found at i:2046404 original size:6 final size:6
Alignment explanation
Indices: 2046323--2046405 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
2046313 TTTTAAAATA
* * * * * *
2046323 TATATA TATATA TATATA TATATA TATATA TATATT ATATATA TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT -TATATT TATATT
*
2046372 ATATAGTT TTTATT TATGA-T T-TATT TATATT TAT
1 -TATA-TT TATATT TAT-ATT TATATT TATATT TAT
2046406 TATTATCCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
4 1 0.02
5 3 0.05
6 47 0.71
7 13 0.20
8 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (6 bp):
TATATT
Found at i:2049805 original size:16 final size:17
Alignment explanation
Indices: 2049784--2049818 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
2049774 CATTTTGTAT
2049784 TTTGTTATTTC-TTGCA
1 TTTGTTATTTCTTTGCA
2049800 TTTGTTATTTCTTTGCA
1 TTTGTTATTTCTTTGCA
2049817 TT
1 TT
2049819 CACATTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.66
Consensus pattern (17 bp):
TTTGTTATTTCTTTGCA
Found at i:2052975 original size:179 final size:180
Alignment explanation
Indices: 2052674--2053032 Score: 711
Period size: 179 Copynumber: 2.0 Consensus size: 180
2052664 ATTCATATTG
2052674 CATGCATCTTAGACACACTTAGGTGCATCACATTTATCATTTTGGCATACACGTTTTTTGCAACT
1 CATGCATCTTAGACACACTTAGGTGCATCACATTTATCATTTTGGCATACACGTTTTTTGCAACT
2052739 TTTAGAGTCAAGTTTTGACTTCATGATGAAGGATACTCGATTTACAAACGCCTTTAAAGGACGAT
66 TTTAGAGTCAAGTTTTGACTTCATGATGAAGGATACTCGATTTACAAACGCCTTTAAAGGACGAT
2052804 GGTGGTTACTTAACTCAGTAGTGATCGACTTGACATATTTACAGATCTTA
131 GGTGGTTACTTAACTCAGTAGTGATCGACTTGACATATTTACAGATCTTA
2052854 CATGCATCTTAGACACACTTAGGTGCATCACATTTATCA-TTTGGCATACACGTTTTTTGCAACT
1 CATGCATCTTAGACACACTTAGGTGCATCACATTTATCATTTTGGCATACACGTTTTTTGCAACT
2052918 TTTAGAGTCAAGTTTTGACTTCATGATGAAGGATACTCGATTTACAAACGCCTTTAAAGGACGAT
66 TTTAGAGTCAAGTTTTGACTTCATGATGAAGGATACTCGATTTACAAACGCCTTTAAAGGACGAT
2052983 GGTGGTTACTTAACTCAGTAGTGATCGACTTGACATATTTACAGATCTTA
131 GGTGGTTACTTAACTCAGTAGTGATCGACTTGACATATTTACAGATCTTA
2053033 AAGTTAACTT
Statistics
Matches: 179, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
179 140 0.78
180 39 0.22
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (180 bp):
CATGCATCTTAGACACACTTAGGTGCATCACATTTATCATTTTGGCATACACGTTTTTTGCAACT
TTTAGAGTCAAGTTTTGACTTCATGATGAAGGATACTCGATTTACAAACGCCTTTAAAGGACGAT
GGTGGTTACTTAACTCAGTAGTGATCGACTTGACATATTTACAGATCTTA
Found at i:2053715 original size:167 final size:166
Alignment explanation
Indices: 2053345--2054232 Score: 1036
Period size: 167 Copynumber: 5.3 Consensus size: 166
2053335 CTATTTGCCT
* * *
2053345 ACCAAATACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAGA-TTAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATA-ACTTAAG
* * * ** * * * * *
2053409 TCGATAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCATAT
65 TCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC--TCAAGGCACAT
*
2053470 CATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTC
128 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * * *
2053509 TCCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTACAACACAACTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAG
* * * * *
2053574 TCTAAAAGGGTTGTCTACCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGTACATC
65 TCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATC
* * *
2053639 ATTTACAACTTGACTCAAGGCTAGAAGGGTTATCTGTC
129 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * *
2053677 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGT
* * * * * *
2053742 CTAGAAGGGTTGTCTGGCAACACAATACCTTTGAGTTTGACTACGCTCAGCTCAACGGCACATCA
66 CTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCA
* * * * * *
2053807 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG--
130 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
** * * * * * * * * *
2053842 -CCAAAGACCCCCGATTTCGATTACACTAAGCTTCGAGGGCACATTATTTGCAACATAACTTAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAG
* *
2053906 TCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
65 TCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATC
*
2053971 ATTTACAGCATAACTCAAGGTTAGAAGGGTTATCTGTC
129 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* *
2054009 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGT
* * * *
2054074 CTAGAAGGGTTATATGTCACCAAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCA
66 CTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCA
* * *
2054139 TTTGCGGCATAACTCAAGGCTAGAAGGGTTATCTGCC
130 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* **
2054176 AACAAAGACCTTCGAGTTCGACTACGCTCAGCTCTTAGGCACATCATTTACAGCATA
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATA
2054233 GCCCAAGGCA
Statistics
Matches: 615, Mismatches: 97, Indels: 21
0.84 0.13 0.03
Matches are distributed among these distances:
164 28 0.05
165 173 0.28
166 4 0.01
167 318 0.52
168 68 0.11
169 24 0.04
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (166 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGT
CTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCACATCAT
TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
Found at i:2053958 original size:332 final size:328
Alignment explanation
Indices: 2053345--2054227 Score: 1027
Period size: 332 Copynumber: 2.6 Consensus size: 328
2053335 CTATTTGCCT
* *
2053345 ACCAAATACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAGA-TTAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATA-ACTTAAG
* * * ** * * * * *
2053409 TCGATAAGGGCTATCT-GC-CAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCATATCA
65 TCTAGAAGGGTTATCTGGCACAAAGACCTTCGAGTTCGACTACGCTCAGC--TCAAGGCACATCA
* * ** *
2053472 TTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCTCCAAAAGACCTTCGAGTTCGACTACGC
128 TTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTG---CC-AAAGACCCCCGAGTTCGACTACAC
* * * *
2053537 TCAGCTCCAAGGCATATCATTTACAACACAACTTAAGTCTAAAAGGGTTGTCTACCAACAAAAGA
189 TAAGCTCCAAGGCACATCATTTACAACACAACTTAAGTCGAAAAGGGTTATCTACCAACAAAAGA
* * * *
2053602 CCTTTGAGTTCGACTACGCTCAGCT-CAACGGTACATCATTTACAACTTGACTCAAGGCTAGAAG
254 CCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTACAACATAACTCAAGGCTAGAAG
2053666 GGTTATCTGTC
318 GGTTATCTGTC
* *
2053677 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* * * *
2053742 CTAGAAGGGTTGTCTGGCAACACAATACCTTTGAGTTTGACTACGCTCAGCTCAACGGCACATCA
66 CTAGAAGGGTTATCTGGC-ACA-AAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCA
* * * * * * *
2053807 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGATTTCGATTACACTAAG
128 TTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGACTACACTAAG
* * * * * * * *
2053872 CTTCGAGGGCACATTATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCT
193 C-TCCAAGGCACATCATTTACAACACAACTTAAGTCGAAAAGGGTTATCTACCAACAAAAGACCT
* *
2053937 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGTTAGAAGGGTT
257 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTT
2054002 ATCTGTC
322 ATCTGTC
* * *
2054009 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* * *
2054074 CTAGAAGGGTTATATGTCACCAAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCA
66 CTAGAAGGGTTATCTGGCA-C-AAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCA
* ** *
2054139 TTTGCGGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCT
128 TTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTG-C--CAAAGACCCCCGAGTTCGACTACACT
* **
2054204 CAGCTCTTAGGCACATCATTTACA
190 AAGCTCCAAGGCACATCATTTACA
2054228 GCATAGCCCA
Statistics
Matches: 460, Mismatches: 77, Indels: 26
0.82 0.14 0.05
Matches are distributed among these distances:
331 25 0.05
332 325 0.71
333 10 0.02
334 17 0.04
335 62 0.13
336 21 0.05
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (328 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
CTAGAAGGGTTATCTGGCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCACATCATTT
GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGACTACACTAAGCTC
CAAGGCACATCATTTACAACACAACTTAAGTCGAAAAGGGTTATCTACCAACAAAAGACCTTCGA
GTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCT
GTC
Found at i:2054102 original size:416 final size:414
Alignment explanation
Indices: 2053328--2054234 Score: 1282
Period size: 416 Copynumber: 2.2 Consensus size: 414
2053318 GCTCAAAACA
* * * *
2053328 AGAAGGGCTATTTGCCTACCAAATACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCC-AACAAATACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATT
* * *
2053393 TGCAGCATAGATTAAGTCGATAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
64 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTAAGCT
* * ** * * *
2053458 TTGAGGGCATATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCTCCAAAAGACCTTC
129 TCGAGGGCACATCATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAAGACCTTC
* * *
2053523 GAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTACAACACAACTTAAGTCTAAAAGGGTTGT
194 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACACAACTCAAGTCTAAAAGGGTTAT
* * * *
2053588 CTACCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGTACATCATTTACAACTTGAC
259 CTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTACAACATAAC
*
2053653 TCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA
324 TCAAGGCTAGAAGGGTTATATGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA
* * *
2053718 TATCATTTGCAGCACAACTTAAGTCT
389 CATCATTTGCAGCACAACTCAAGGCT
* * * *
2053744 AGAAGGGTTGTCTGGCAACACAATACCTTTGAGTTTGACTACGCTCAGCTCAACGGCACATCATT
1 AGAAGGGTTATCTGCCAACA-AATACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCATT
*
2053809 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGATTTCGATTACACTAAGCT
64 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTAAGCT
* * * *
2053874 TCGAGGGCACATTATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTT
129 TCGAGGGCACATCATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAAGACCTT
* * *
2053938 CGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGT-TAGAAGGGTT
193 CGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACACAACTCAA-GTCTAAAAGGGTT
** * *
2054002 ATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTACAGCAT
257 ATCTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTACAACAT
*
2054065 AACTCAAGGCTAGAAGGGTTATATGTCACCAAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAA
321 AACTCAAGGCTAGAAGGGTTATATGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
* *
2054130 GGCACATCATTTGCGGCATAACTCAAGGCT
385 GGCACATCATTTGCAGCACAACTCAAGGCT
* *
2054160 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCTTAGGCACATCATTT
1 AGAAGGGTTATCTGCCAACAAATACCTTCGAGTTCGACTACGCTCAGCTC-AAGGCACATCATTT
*
2054225 ACAGCATAGC
65 GCAGCATAGC
2054235 CCAAGGCAAT
Statistics
Matches: 433, Mismatches: 51, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
415 129 0.30
416 300 0.69
417 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (414 bp):
AGAAGGGTTATCTGCCAACAAATACCTTCGAGTTCGACTACGCTCAGCTCAAGGCACATCATTTG
CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTAAGCTTC
GAGGGCACATCATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAAGACCTTCGA
GTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACACAACTCAAGTCTAAAAGGGTTATCT
ACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTACAACATAACTC
AAGGCTAGAAGGGTTATATGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACA
TCATTTGCAGCACAACTCAAGGCT
Found at i:2054899 original size:39 final size:38
Alignment explanation
Indices: 2054811--2055019 Score: 155
Period size: 39 Copynumber: 5.5 Consensus size: 38
2054801 TATATATATC
*
2054811 TATATAT-TATATAGTTTGC-AAATAGTTTTTGAAAATACG
1 TATATATATATATAGTTTTCAAAATA-TTTTTGAAAAT--G
**
2054850 GGTATA-ATATATAGTTTTCAAAATATTTTTGAAAATG
1 TATATATATATATAGTTTTCAAAATATTTTTGAAAATG
* *
2054887 TATATAT-TATATAGTTTTTAAAAAACATTTTTGAAAAT-
1 TATATATATATATAG-TTTT-CAAAATATTTTTGAAAATG
* * * * *
2054925 TATATA-ATAAATAGATTTTTAAAACATTTTAGAAAATA
1 TATATATATATATAG-TTTTCAAAATATTTTTGAAAATG
* ** *
2054963 TATGTAATATATATAGTTTAGAAAATAATTTTG-AAA-G
1 TATAT-ATATATATAGTTTTCAAAATATTTTTGAAAATG
*
2055000 TATATATAATATATAATTTT
1 TATATAT-ATATATAGTTTT
2055020 TGAAAAAAAA
Statistics
Matches: 138, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
36 2 0.01
37 42 0.30
38 27 0.20
39 55 0.40
40 12 0.09
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (38 bp):
TATATATATATATAGTTTTCAAAATATTTTTGAAAATG
Found at i:2054960 original size:37 final size:37
Alignment explanation
Indices: 2054852--2055171 Score: 191
Period size: 37 Copynumber: 8.6 Consensus size: 37
2054842 AAAATACGGG
* * *
2054852 TATAATATATAGTTTTCAAAATATTTTTGAAAATGTA
1 TATAATATATAGTTTTTAAAACATTTTTGAAAATATA
*
2054889 TATATTATATAGTTTTTAAAAAACATTTTTGAAAAT-TA
1 TATAATATATAGTTTTT--AAAACATTTTTGAAAATATA
* *
2054927 TATAATAAATAGATTTTTAAAACATTTTAGAAAATATA
1 TATAATATATAG-TTTTTAAAACATTTTTGAAAATATA
* ** * * *
2054965 TGTAATATATATAGTTTAGAAAATAATTTTGAAAGTATA
1 TAT-A-ATATATAGTTTTTAAAACATTTTTGAAAATATA
* *
2055004 TATAATATATAATTTTTGAAAAAAAACATTTTT-AAAA-ACA
1 TATAATATATAGTTTTT-----AAAACATTTTTGAAAATATA
* *
2055044 TAT-A-ATATAG-TTTTAAAACGTTTTTGAAAA-CTA
1 TATAATATATAGTTTTTAAAACATTTTTGAAAATATA
* **
2055077 TATAACATATAG-TTCGAAAACATCTTTT-AAAAT-TA
1 TATAATATATAGTTTTTAAAACAT-TTTTGAAAATATA
* * **
2055112 AATAATAT-TA-TTTTGGAAATATTTTATTTTG-AAATATA
1 TATAATATATAGTTTT-TAAA-A-CAT-TTTTGAAAATATA
*
2055150 TATTATATATAG-TTTTAAAACA
1 TATAATATATAGTTTTTAAAACA
2055172 ATATTTTTAA
Statistics
Matches: 219, Mismatches: 40, Indels: 49
0.71 0.13 0.16
Matches are distributed among these distances:
32 10 0.05
33 8 0.04
34 5 0.02
35 30 0.14
36 5 0.02
37 55 0.25
38 33 0.15
39 49 0.22
40 12 0.05
41 3 0.01
42 9 0.04
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.43
Consensus pattern (37 bp):
TATAATATATAGTTTTTAAAACATTTTTGAAAATATA
Found at i:2055013 original size:115 final size:112
Alignment explanation
Indices: 2054856--2055079 Score: 272
Period size: 115 Copynumber: 2.0 Consensus size: 112
2054846 TACGGGTATA
* * * * *
2054856 ATATATAGTTTTCAAAATATTTTTGAAAATGTATATATTATATAGTTTTT-AAAAAACATTTTTG
1 ATATATAGTTTACAAAATAATTTTGAAAATATATATAATATATAATTTTTAAAAAAACATTTTT-
**
2054920 AAAATTATATAATAAATAGATTTTTAAAACATTTTAGAAAA-TATATGTAAT
65 AAAAACATATAAT--ATAG--TTTTAAAACATTTTAGAAAACTATATGTAAT
* *
2054971 ATATATAGTTTAGAAAATAATTTTGAAAGTATATATAATATATAATTTTTGAAAAAAAACATTTT
1 ATATATAGTTTACAAAATAATTTTGAAAATATATATAATATATAATTTTT--AAAAAAACATTTT
* *
2055036 TAAAAACATATAATATAGTTTTAAAACGTTTTTGAAAACTATAT
64 TAAAAACATATAATATAGTTTTAAAACATTTTAGAAAACTATAT
2055080 AACATATAGT
Statistics
Matches: 94, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
113 18 0.19
114 5 0.05
115 47 0.50
117 11 0.12
118 13 0.14
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (112 bp):
ATATATAGTTTACAAAATAATTTTGAAAATATATATAATATATAATTTTTAAAAAAACATTTTTA
AAAACATATAATATAGTTTTAAAACATTTTAGAAAACTATATGTAAT
Found at i:2055097 original size:35 final size:32
Alignment explanation
Indices: 2055026--2055108 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 32
2055016 TTTTTGAAAA
**
2055026 AAAACATTTTTAAAAACATATAATATAGTTTT
1 AAAACATTTTTAAAAACATATAATATAGTTCG
* *
2055058 AAAACGTTTTTGAAAACTATATAACATATAGTTCG
1 AAAACATTTTTAAAAAC-ATAT-A-ATATAGTTCG
2055093 AAAACATCTTTTAAAA
1 AAAACAT-TTTTAAAA
2055109 TTAAATAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 15 0.37
33 4 0.10
34 1 0.02
35 14 0.34
36 7 0.17
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (32 bp):
AAAACATTTTTAAAAACATATAATATAGTTCG
Found at i:2055147 original size:15 final size:16
Alignment explanation
Indices: 2055119--2055148 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2055109 TTAAATAATA
2055119 TTATTTTGGAAATATT
1 TTATTTTGGAAATATT
2055135 TTATTTT-GAAATAT
1 TTATTTTGGAAATAT
2055149 ATATTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (16 bp):
TTATTTTGGAAATATT
Found at i:2055150 original size:17 final size:16
Alignment explanation
Indices: 2055111--2055155 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
2055101 TTTTAAAATT
*
2055111 AAATAATATTATTTTGG
1 AAAT-ATATTATTTTGA
*
2055128 AAATATTTTATTTTGA
1 AAATATATTATTTTGA
2055144 AATATATATTAT
1 AA-ATATATTAT
2055156 ATATAGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (16 bp):
AAATATATTATTTTGA
Found at i:2056465 original size:20 final size:20
Alignment explanation
Indices: 2056420--2056958 Score: 606
Period size: 20 Copynumber: 26.8 Consensus size: 20
2056410 TGACCAACAA
2056420 AATCGCAACGCGATATCA-A-
1 AATCGCAACGCGAT-TCAGAG
* *
2056439 AATCGCAACGCGATTTAGAA
1 AATCGCAACGCGATTCAGAG
* * ** *
2056459 AAACGCAACGTTGA-AAAGAA
1 AATCGCAACG-CGATTCAGAG
2056479 AATCGCAACGCGATCTTCCA-AG
1 AATCGCAACGCGA--TT-CAGAG
* *
2056501 AATCGCAATGCGATTCAGAA
1 AATCGCAACGCGATTCAGAG
2056521 AATCGCAACGCGATTCCA-AG
1 AATCGCAACGCGATT-CAGAG
* *
2056541 AATCGCAATGCGATTAAGAG
1 AATCGCAACGCGATTCAGAG
2056561 AATCGCAACGCGATTCAGAG
1 AATCGCAACGCGATTCAGAG
2056581 AATCGCAACGCGATTCAGAG
1 AATCGCAACGCGATTCAGAG
2056601 AATCGCAACGCGATTCCAAGAG
1 AATCGCAACGCGATT-C-AGAG
2056623 AATCGCAACGCGATTCCA-AG
1 AATCGCAACGCGATT-CAGAG
2056643 AATCGCAACGCGATTCCA-AG
1 AATCGCAACGCGATT-CAGAG
2056663 AATCGCAACGCGATTCCA-AG
1 AATCGCAACGCGATT-CAGAG
2056683 AATCGCAACGCGATTCCA-AG
1 AATCGCAACGCGATT-CAGAG
2056703 AATCGCAACGCGATTCCA-AG
1 AATCGCAACGCGATT-CAGAG
2056723 AATCGCAACGCGATTCCA-AG
1 AATCGCAACGCGATT-CAGAG
2056743 AATCGCAACGCGATTCCA-AG
1 AATCGCAACGCGATT-CAGAG
2056763 AATCGCAACGCGATTCCA-AG
1 AATCGCAACGCGATT-CAGAG
*
2056783 AATCGCAACGCGATTCAGAA
1 AATCGCAACGCGATTCAGAG
*
2056803 AATCGCAACGCGTTTCCA-AG
1 AATCGCAACGCGATT-CAGAG
* *
2056823 AATCGCAATGCGATTCAGAA
1 AATCGCAACGCGATTCAGAG
2056843 AATCGCAACGCGATTCCA-AG
1 AATCGCAACGCGATT-CAGAG
* *
2056863 AATCGCAATGCGATTAAGAG
1 AATCGCAACGCGATTCAGAG
*
2056883 AATCGCAACGCGATTCAGAA
1 AATCGCAACGCGATTCAGAG
*
2056903 AATCGCAACGCGTTTCCA-AG
1 AATCGCAACGCGATT-CAGAG
* *
2056923 AATCGCAATGCGATTCAGAA
1 AATCGCAACGCGATTCAGAG
2056943 AATCGCAACGCGATTC
1 AATCGCAACGCGATTC
2056959 CAACAATTGT
Statistics
Matches: 464, Mismatches: 37, Indels: 37
0.86 0.07 0.07
Matches are distributed among these distances:
18 2 0.00
19 27 0.06
20 388 0.84
21 12 0.03
22 34 0.07
23 1 0.00
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.17
Consensus pattern (20 bp):
AATCGCAACGCGATTCAGAG
Found at i:2056549 original size:40 final size:40
Alignment explanation
Indices: 2056420--2056958 Score: 670
Period size: 40 Copynumber: 13.4 Consensus size: 40
2056410 TGACCAACAA
* *
2056420 AATCGCAACGCGATATCA-A-AATCGCAACGCGATT-TAGAA
1 AATCGCAACGCGAT-TCAGAGAATCGCAACGCGATTCCA-AG
* * ** *
2056459 AAACGCAACGTTGA-AAAGAAAATCGCAACGCGATCTTCCAAG
1 AATCGCAACG-CGATTCAGAGAATCGCAACGCGA--TTCCAAG
* *
2056501 AATCGCAATGCGATTCAGAAAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCAGAGAATCGCAACGCGATTCCAAG
* *
2056541 AATCGCAATGCGATTAAGAGAATCGCAACGCGATT-CAGAG
1 AATCGCAACGCGATTCAGAGAATCGCAACGCGATTCCA-AG
2056581 AATCGCAACGCGATTCAGAGAATCGCAACGCGATTCCAAGAG
1 AATCGCAACGCGATTCAGAGAATCGCAACGCGATTCC-A-AG
2056623 AATCGCAACGCGATTCCA-AGAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATT-CAGAGAATCGCAACGCGATTCCAAG
2056663 AATCGCAACGCGATTCCA-AGAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATT-CAGAGAATCGCAACGCGATTCCAAG
2056703 AATCGCAACGCGATTCCA-AGAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATT-CAGAGAATCGCAACGCGATTCCAAG
2056743 AATCGCAACGCGATTCCA-AGAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATT-CAGAGAATCGCAACGCGATTCCAAG
* *
2056783 AATCGCAACGCGATTCAGAAAATCGCAACGCGTTTCCAAG
1 AATCGCAACGCGATTCAGAGAATCGCAACGCGATTCCAAG
* *
2056823 AATCGCAATGCGATTCAGAAAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCAGAGAATCGCAACGCGATTCCAAG
* * *
2056863 AATCGCAATGCGATTAAGAGAATCGCAACGCGATT-CAGAA
1 AATCGCAACGCGATTCAGAGAATCGCAACGCGATTCCA-AG
* * *
2056903 AATCGCAACGCGTTTCCA-AGAATCGCAATGCGATT-CAGAA
1 AATCGCAACGCGATT-CAGAGAATCGCAACGCGATTCCA-AG
2056943 AATCGCAACGCGATTC
1 AATCGCAACGCGATTC
2056959 CAACAATTGT
Statistics
Matches: 459, Mismatches: 27, Indels: 28
0.89 0.05 0.05
Matches are distributed among these distances:
38 1 0.00
39 17 0.04
40 367 0.80
41 5 0.01
42 66 0.14
43 3 0.01
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.17
Consensus pattern (40 bp):
AATCGCAACGCGATTCAGAGAATCGCAACGCGATTCCAAG
Found at i:2057126 original size:6 final size:6
Alignment explanation
Indices: 2057115--2057165 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
2057105 GACACGTATT
2057115 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
2057163 ACC
1 ACC
2057166 CGAGACGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2057861 original size:20 final size:20
Alignment explanation
Indices: 2057836--2058136 Score: 231
Period size: 20 Copynumber: 14.8 Consensus size: 20
2057826 CAATTGTTGG
2057836 AATCGCGTTGCGATTTTCTT
1 AATCGCGTTGCGATTTTCTT
*
2057856 AATCGCATTGCGA--TTCTT
1 AATCGCGTTGCGATTTTCTT
* *
2057874 GGAAACGCGTTGCGATTTTCTG
1 --AATCGCGTTGCGATTTTCTT
2057896 AATCGCGTTGCGATTTTCTT
1 AATCGCGTTGCGATTTTCTT
*
2057916 AATCGCATTGCGA--TTCTT
1 AATCGCGTTGCGATTTTCTT
* *
2057934 GGAAACGCGTTGCGATTTTCTG
1 --AATCGCGTTGCGATTTTCTT
2057956 AATCGCGTTGCGA--TTCTT
1 AATCGCGTTGCGATTTTCTT
*
2057974 GGAATCGCGTTGCGATTTTCTG
1 --AATCGCGTTGCGATTTTCTT
* ***
2057996 AATCGCATTGCGATTCTTGGA
1 AATCGCGTTGCGATT-TTCTT
*
2058017 AGATCGCGTTGCGATTTTCTG
1 A-ATCGCGTTGCGATTTTCTT
* ***
2058038 AATCGCATTGCGATTCTTGGA
1 AATCGCGTTGCGATT-TTCTT
*
2058059 AGATCGCGTTGCGATATTCTT
1 A-ATCGCGTTGCGATTTTCTT
* * * *
2058080 -TTCAACGTTGCGTTTTTTTT
1 AATC-GCGTTGCGATTTTCTT
**
2058100 AAATCGCGTTGCGATTTTGAT
1 -AATCGCGTTGCGATTTTCTT
2058121 -ATCGCGTTGCGATTTT
1 AATCGCGTTGCGATTTT
2058137 GTTGGTCATT
Statistics
Matches: 222, Mismatches: 40, Indels: 39
0.74 0.13 0.13
Matches are distributed among these distances:
18 14 0.06
19 18 0.08
20 128 0.58
21 23 0.10
22 39 0.18
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.39
Consensus pattern (20 bp):
AATCGCGTTGCGATTTTCTT
Found at i:2057928 original size:60 final size:60
Alignment explanation
Indices: 2057835--2058136 Score: 330
Period size: 60 Copynumber: 5.0 Consensus size: 60
2057825 ACAATTGTTG
2057835 GAATCGCGTTGCGATTTTCTTAATCGCATTGCGATTCTTGGAAACGCGTTGCGATTTTCT
1 GAATCGCGTTGCGATTTTCTTAATCGCATTGCGATTCTTGGAAACGCGTTGCGATTTTCT
2057895 GAATCGCGTTGCGATTTTCTTAATCGCATTGCGATTCTTGGAAACGCGTTGCGATTTTCT
1 GAATCGCGTTGCGATTTTCTTAATCGCATTGCGATTCTTGGAAACGCGTTGCGATTTTCT
* * * * *
2057955 GAATCGCGTTGCGA--TTCTTGGAATCGCGTTGCGATT-TTCTGAATCGCATTGCGATTCTT-G
1 GAATCGCGTTGCGATTTTCTT--AATCGCATTGCGATTCTT-GGAAACGCGTTGCGATT-TTCT
* *
2058015 GAAGATCGCGTTGCGATTTTCTGAATCGCATTGCGATTCTTGGAAGATCGCGTTGCGATATTCT
1 G-A-ATCGCGTTGCGATTTTCTTAATCGCATTGCGATTCTTGGAA-A-CGCGTTGCGATTTTCT
** * * * * *
2058079 -TTTCAACGTTGCGTTTTTTTTAAATCGCGTTGCGATT-TT-GATATCGCGTTGCGATTTT
1 GAATC-GCGTTGCGATTTTCTT-AATCGCATTGCGATTCTTGGA-AACGCGTTGCGATTTT
2058137 GTTGGTCATT
Statistics
Matches: 206, Mismatches: 21, Indels: 30
0.80 0.08 0.12
Matches are distributed among these distances:
58 5 0.02
59 2 0.01
60 116 0.56
61 7 0.03
62 44 0.21
63 18 0.09
64 14 0.07
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.39
Consensus pattern (60 bp):
GAATCGCGTTGCGATTTTCTTAATCGCATTGCGATTCTTGGAAACGCGTTGCGATTTTCT
Found at i:2058091 original size:42 final size:41
Alignment explanation
Indices: 2057896--2058078 Score: 307
Period size: 40 Copynumber: 4.5 Consensus size: 41
2057886 CGATTTTCTG
*
2057896 AATCGCGTTGCGATTTTCTTAATCGCATTGCGATTCTTGGA
1 AATCGCGTTGCGATTTTCTGAATCGCATTGCGATTCTTGGA
*
2057937 AA-CGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG-
1 AATCGCGTTGCGATTTTCTGAATCGCATTGCGATTCTTGGA
2057976 AATCGCGTTGCGATTTTCTGAATCGCATTGCGATTCTTGGA
1 AATCGCGTTGCGATTTTCTGAATCGCATTGCGATTCTTGGA
2058017 AGATCGCGTTGCGATTTTCTGAATCGCATTGCGATTCTTGGA
1 A-ATCGCGTTGCGATTTTCTGAATCGCATTGCGATTCTTGGA
*
2058059 AGATCGCGTTGCGATATTCT
1 A-ATCGCGTTGCGATTTTCT
2058079 TTTCAACGTT
Statistics
Matches: 135, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 2 0.01
40 71 0.53
41 3 0.02
42 59 0.44
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.37
Consensus pattern (41 bp):
AATCGCGTTGCGATTTTCTGAATCGCATTGCGATTCTTGGA
Found at i:2058117 original size:18 final size:19
Alignment explanation
Indices: 2058095--2058137 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
2058085 CGTTGCGTTT
*
2058095 TTTTTAAATCGCGTTGCGA
1 TTTTGAAATCGCGTTGCGA
*
2058114 TTTTGATATCGCGTTGCGA
1 TTTTGAAATCGCGTTGCGA
2058133 TTTTG
1 TTTTG
2058138 TTGGTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTTGAAATCGCGTTGCGA
Found at i:2058125 original size:82 final size:82
Alignment explanation
Indices: 2057857--2058134 Score: 293
Period size: 80 Copynumber: 3.4 Consensus size: 82
2057847 GATTTTCTTA
* * * * * *
2057857 ATCGCATTGCGATTCTT-GGAAACGCGTTGCGATT-TTCTGAATCGCGTTGCGATTTTCTTAATC
1 ATCGCGTTGCGATT-TTCTGAATCGCGTTGCGATTCTT-GGAATCGCGTTGCGATATTCTGAATC
*
2057920 GCATTGCGATTCTTGGAA-
64 ACATTGCGATTCTTGGAAG
* *
2057938 A-CGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTCTGAATCGC
1 ATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCGATATTCTGAATCAC
2058002 ATTGCGATTCTTGGAAG
66 ATTGCGATTCTTGGAAG
* **
2058019 ATCGCGTTGCGATTTTCTGAATCGCATTGCGATTCTTGGAAGATCGCGTTGCGATATTCT-TTTC
1 ATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCGATATTCTGAATC
* * * **
2058083 AACGTTGCGTTTTTTTTAA-
64 -ACATTGCGATTCTTGGAAG
2058102 ATCGCGTTGCGA-TTT-TGATATCGCGTTGCGATT
1 ATCGCGTTGCGATTTTCTGA-ATCGCGTTGCGATT
2058135 TTGTTGGTCA
Statistics
Matches: 173, Mismatches: 16, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
79 2 0.01
80 68 0.39
81 7 0.04
82 52 0.30
83 15 0.09
84 29 0.17
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.38
Consensus pattern (82 bp):
ATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCGATATTCTGAATCAC
ATTGCGATTCTTGGAAG
Found at i:2060238 original size:3 final size:3
Alignment explanation
Indices: 2060222--2060277 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
2060212 TCTACAAAAA
2060222 TAT T-T TAT TA- TAT TAT TAT TAT T-T ATAT TAT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T
2060266 TAT T-T TAT TAT T
1 TAT TAT TAT TAT T
2060278 TTTGCAGGCC
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
2 7 0.15
3 36 0.77
4 4 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:2060699 original size:14 final size:14
Alignment explanation
Indices: 2060647--2060705 Score: 57
Period size: 14 Copynumber: 4.0 Consensus size: 14
2060637 TTTTAGCATT
2060647 TTTTATTATTATTTA
1 TTTTATTATT-TTTA
*
2060662 TTTTATGT-TCTTTA
1 TTTTAT-TATTTTTA
2060676 CTTCTTATTATTTTTA
1 -TT-TTATTATTTTTA
*
2060692 TTTTATTACTTTTA
1 TTTTATTATTTTTA
2060706 GAATTTAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 15 0.41
15 12 0.32
16 10 0.27
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTTATTATTTTTA
Found at i:2060757 original size:2 final size:2
Alignment explanation
Indices: 2060746--2060780 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2060736 GATTCATTTA
2060746 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2060781 TTTGATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2062138 original size:16 final size:16
Alignment explanation
Indices: 2062117--2062149 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2062107 TAATAAATAA
2062117 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2062133 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2062149 A
1 A
2062150 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:2062274 original size:16 final size:16
Alignment explanation
Indices: 2062211--2062267 Score: 91
Period size: 16 Copynumber: 3.7 Consensus size: 16
2062201 CGTTCATTTA
2062211 ATAAAT-AA-ACGAAC
1 ATAAATGAACACGAAC
*
2062225 ATAAACGAACACGAAC
1 ATAAATGAACACGAAC
2062241 ATAAATGAACACGAAC
1 ATAAATGAACACGAAC
2062257 ATAAATGAACA
1 ATAAATGAACA
2062268 TAAACATTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.13
15 2 0.05
16 32 0.82
ACGTcount: A:0.60, C:0.18, G:0.11, T:0.12
Consensus pattern (16 bp):
ATAAATGAACACGAAC
Found at i:2062274 original size:32 final size:30
Alignment explanation
Indices: 2062211--2062274 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 30
2062201 CGTTCATTTA
*
2062211 ATAAATAAACGAACATAAACGAACACGAAC
1 ATAAATAAACGAACATAAACGAACACAAAC
* *
2062241 ATAAATGAACACGAACATAAATGAACATAAAC
1 ATAAAT-AA-ACGAACATAAACGAACACAAAC
2062273 AT
1 AT
2062275 TGGAGACCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 6 0.21
31 2 0.07
32 21 0.72
ACGTcount: A:0.59, C:0.17, G:0.09, T:0.14
Consensus pattern (30 bp):
ATAAATAAACGAACATAAACGAACACAAAC
Found at i:2064216 original size:75 final size:76
Alignment explanation
Indices: 2064098--2064245 Score: 226
Period size: 75 Copynumber: 2.0 Consensus size: 76
2064088 AGGAAACATA
* * * *
2064098 AAAGTTATTGATTTTTTCAAATGAATAATTTAAATGAGATAATTTTAAAACACAAAAGGTACAAA
1 AAAGTTATTGATTTTTTCAAATAAACAATTTAAACGAGATAATTTTAAAACACAAAAGGGACAAA
2064163 TTTAAAGGAAT
66 TTTAAAGGAAT
* * *
2064174 AAAGTTGTTGATTTTTT-AAATAAACCATTTAAACGAGGTAATTTTAAAACACAAAAGGGACAAA
1 AAAGTTATTGATTTTTTCAAATAAACAATTTAAACGAGATAATTTTAAAACACAAAAGGGACAAA
2064238 TTTAAAGG
66 TTTAAAGG
2064246 GTCAAAGGGA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
75 49 0.75
76 16 0.25
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.32
Consensus pattern (76 bp):
AAAGTTATTGATTTTTTCAAATAAACAATTTAAACGAGATAATTTTAAAACACAAAAGGGACAAA
TTTAAAGGAAT
Found at i:2066684 original size:20 final size:21
Alignment explanation
Indices: 2066661--2066699 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2066651 TATGTTTTCT
*
2066661 TCCTTTTTTC-TTAATTTTAG
1 TCCTTTTTACTTTAATTTTAG
2066681 TCCTTTTTACTTTAATTTT
1 TCCTTTTTACTTTAATTTT
2066700 TGAAATAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.15, C:0.15, G:0.03, T:0.67
Consensus pattern (21 bp):
TCCTTTTTACTTTAATTTTAG
Found at i:2067968 original size:19 final size:19
Alignment explanation
Indices: 2067944--2067981 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2067934 ATTGGAATCG
2067944 AATATTAAAATATTGATTT
1 AATATTAAAATATTGATTT
* *
2067963 AATATTGAAATGTTGATTT
1 AATATTAAAATATTGATTT
2067982 TGGACTAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (19 bp):
AATATTAAAATATTGATTT
Found at i:2073815 original size:16 final size:17
Alignment explanation
Indices: 2073780--2073815 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2073770 CGATATAGGA
2073780 AAAAGATTAGTACAATG
1 AAAAGATTAGTACAATG
*
2073797 AAAATATTAGTAC-ATG
1 AAAAGATTAGTACAATG
2073813 AAA
1 AAA
2073816 TAAAAGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.56, C:0.06, G:0.14, T:0.25
Consensus pattern (17 bp):
AAAAGATTAGTACAATG
Found at i:2074047 original size:21 final size:23
Alignment explanation
Indices: 2074023--2074066 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2074013 TAAAAATTTG
*
2074023 TTTAA-TTTTAAAAC-ATTTTAT
1 TTTAACTTTAAAAACTATTTTAT
2074044 TTTAACTTTAAAAACTATTTTAT
1 TTTAACTTTAAAAACTATTTTAT
2074067 GAATATCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 8 0.40
23 7 0.35
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAACTTTAAAAACTATTTTAT
Found at i:2074811 original size:24 final size:24
Alignment explanation
Indices: 2074775--2074870 Score: 122
Period size: 24 Copynumber: 4.0 Consensus size: 24
2074765 ACACTCGTAC
*
2074775 ATTCTATGCGGCACTTTATGTGCA
1 ATTCTATGTGGCACTTTATGTGCA
* *
2074799 ATTCTACGTGGCACTTTATGCGCA
1 ATTCTATGTGGCACTTTATGTGCA
**
2074823 ATTCTATGTGGCACTAAATGTGCA
1 ATTCTATGTGGCACTTTATGTGCA
*
2074847 ATTCTATGTGGAACTATT-TGTGCA
1 ATTCTATGTGGCACT-TTATGTGCA
2074871 TTCAGGAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (24 bp):
ATTCTATGTGGCACTTTATGTGCA
Found at i:2083212 original size:64 final size:64
Alignment explanation
Indices: 2083096--2083222 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
2083086 TTATTCATTC
*
2083096 TCTTATTTTATTCAATATTTTTTATTTTTTTCAATTTAATCACTAAACTTTATTCATTGAAATA
1 TCTTATTTTATTCAATATTTTTAATTTTTTTCAATTTAATCACTAAACTTTATTCATTGAAATA
* *
2083160 TCTTATTTTATTCAATGTATTTTAATTTTTTTTAATTTAATCACTAAA-TTTATTCATTGAAAT
1 TCTTATTTTATTCAATAT-TTTTAATTTTTTTCAATTTAATCACTAAACTTTATTCATTGAAAT
2083223 TTTTGGTCAT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 32 0.54
65 27 0.46
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.57
Consensus pattern (64 bp):
TCTTATTTTATTCAATATTTTTAATTTTTTTCAATTTAATCACTAAACTTTATTCATTGAAATA
Found at i:2087556 original size:12 final size:13
Alignment explanation
Indices: 2087539--2087568 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2087529 CACTAACTGT
2087539 AAATA-TTAAATA
1 AAATATTTAAATA
2087551 AAATATTTAAATA
1 AAATATTTAAATA
2087564 AAATA
1 AAATA
2087569 ATAATCGTAT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATATTTAAATA
Found at i:2088334 original size:45 final size:45
Alignment explanation
Indices: 2088264--2088361 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
2088254 ATTCCAGTAG
* * *
2088264 CTCCACGTTACAAATTCCATCAGCTTCCAGCACTGCCAGCAGCCC
1 CTCCATGTTACAAATTCCATCAGCTTCCAGCACTACCAACAGCCC
* *
2088309 CTCCATGTTGCAAATTCCAGT-AGCTTCCAGCACTACCAACAGTCC
1 CTCCATGTTACAAATTCCA-TCAGCTTCCAGCACTACCAACAGCCC
*
2088354 CTCTATGT
1 CTCCATGT
2088362 CCCCGTTCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 45 0.98
46 1 0.02
ACGTcount: A:0.24, C:0.38, G:0.13, T:0.24
Consensus pattern (45 bp):
CTCCATGTTACAAATTCCATCAGCTTCCAGCACTACCAACAGCCC
Found at i:2095091 original size:55 final size:55
Alignment explanation
Indices: 2094954--2095165 Score: 279
Period size: 55 Copynumber: 3.9 Consensus size: 55
2094944 TGATTGAGAA
* *
2094954 ATCTGGGCAGAAGCCATAGGAAAGGATGAATGTGTTGTCAAATG-TTTAC-AAAC
1 ATCTGGGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAAC
* * *
2095007 ATCTGGGGAGAAGCCACAGGAAAGGATGAATGTGTTATCAAATGTTTTACGAAAC
1 ATCTGGGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAAC
* * * *
2095062 ATCTGGGCAGAAGCCACAGGAAAATATGAACGTGTTGTTAAAATATTTTACG-AAC
1 ATCTGGGCAGAAGCCACAGGAAAAGATGAATGTGTTG-TCAAATGTTTTACGAAAC
* *
2095117 ATCTGTGCAGAAACCACA-GAAAATGATGAATGTGTTGTCAAATGTTTTA
1 ATCTGGGCAGAAGCCACAGGAAAA-GATGAATGTGTTGTCAAATGTTTTA
2095166 TGAACCATTG
Statistics
Matches: 139, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
53 41 0.29
54 20 0.14
55 66 0.47
56 12 0.09
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (55 bp):
ATCTGGGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAAC
Found at i:2095565 original size:22 final size:22
Alignment explanation
Indices: 2095539--2095593 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
2095529 ATCTACATTC
*
2095539 TTCAAAGATGATAGATTTTCTT
1 TTCAAAGATGATAGATTCTCTT
2095561 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
2095583 TTCAAAGATGA
1 TTCAAAGATGA
2095594 AAGCTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:2096506 original size:76 final size:73
Alignment explanation
Indices: 2096282--2096544 Score: 393
Period size: 73 Copynumber: 3.6 Consensus size: 73
2096272 GGATGTTTTC
* * * *
2096282 AAATAGCAATTTATATCACTTGAGATTG-ATTTCTTAAAACAATCTGTTTCTCGCTGGAGAAATT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
2096346 TTCACTTG
66 TTCACTTG
* *
2096354 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCACTAGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
2096419 TTCACTTG
66 TTCACTTG
*
2096427 AAATAGCAATTTATCTCACTTGAGATTGTTGTTTTTCTTAAAACAAACTATTTCTCGCTGGAGAA
1 AAATAGCAATTTATCTCACTTGAGA---TTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAA
* *
2096492 AGTTTCGCTCG
63 AGTTTCACTTG
* *
2096503 AAATAGTAATTTATCTTACTTGAGATTGTTTTTCTTAAAACA
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
2096545 TTTCAAGAAT
Statistics
Matches: 174, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
72 27 0.16
73 81 0.47
76 66 0.38
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (73 bp):
AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
TTCACTTG
Found at i:2096608 original size:39 final size:39
Alignment explanation
Indices: 2096556--2096844 Score: 360
Period size: 39 Copynumber: 7.5 Consensus size: 39
2096546 TTCAAGAATG
* **
2096556 AGTTCATAATCTGAAGGGCTCGTCTGAAGAGGAAGAAGA
1 AGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAGAAGA
* *
2096595 AGTTCATAGTCTGAAGAACTCATCTGAAGAGGAAGAAGG
1 AGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAGAAGA
2096634 AGTTCATCA-TCT---GAA-TCGTCTGAAGAGGAAGAAGA
1 AGTTCAT-AGTCTGAAGAACTCGTCTGAAGAGGAAGAAGA
* *
2096669 AGTTCATAGTCTGAAGAACTTGTCTGAA-AGGGAA-AAAA
1 AGTTCATAGTCTGAAGAACTCGTCTGAAGA-GGAAGAAGA
*
2096707 GAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAGA
1 -AGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAGAAGA
* * *
2096747 AGTTCATAGTCTGAAGAAATCATATGAAGAGGAAGAA-A
1 AGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAGAAGA
* *
2096785 GAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAGAAGA
1 -AGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAGAAGA
*
2096825 AGTTCATAGTCTCAAGAACT
1 AGTTCATAGTCTGAAGAACT
2096845 TATTCAAACT
Statistics
Matches: 217, Mismatches: 21, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
34 1 0.00
35 28 0.13
36 3 0.01
38 8 0.04
39 171 0.79
40 6 0.03
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (39 bp):
AGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAGAAGA
Found at i:2096762 original size:78 final size:78
Alignment explanation
Indices: 2096549--2096844 Score: 440
Period size: 78 Copynumber: 3.8 Consensus size: 78
2096539 AAAACATTTC
* **
2096549 AAGAATGAGTTCATAATCTGAAGGGCTCGTCTGAAGAGGAAGAAGAAGTTCATAGTCTGAAGAAC
1 AAGAAAGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAGAAGTTCATAGTCTGAAGAAC
2096614 TCATCTGAAGAGG
66 TCATCTGAAGAGG
* *
2096627 AAGAAGGAGTTCATCATCT---GAA-TCGTCTGAAGAGGAAGAAGAAGTTCATAGTCTGAAGAAC
1 AAGAAAGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAGAAGTTCATAGTCTGAAGAAC
**
2096688 TTGTCTGAA-AGGG
66 TCATCTGAAGA-GG
* *
2096701 AAAAAAGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAGAAGTTCATAGTCTGAAGAAA
1 AAGAAAGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAGAAGTTCATAGTCTGAAGAAC
*
2096766 TCATATGAAGAGG
66 TCATCTGAAGAGG
* *
2096779 AAGAAAGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAGTCTCAAGAAC
1 AAGAAAGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAGAAGTTCATAGTCTGAAGAAC
2096844 T
66 T
2096845 TATTCAAACT
Statistics
Matches: 195, Mismatches: 17, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
73 1 0.01
74 64 0.33
75 1 0.01
77 3 0.02
78 125 0.64
79 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.22
Consensus pattern (78 bp):
AAGAAAGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAGAAGTTCATAGTCTGAAGAAC
TCATCTGAAGAGG
Found at i:2097324 original size:45 final size:45
Alignment explanation
Indices: 2097265--2097362 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
2097255 ATTCCAGCAG
*
2097265 CTCCACGTTACAAATTCC-TTCAGCTTCCAGCACTGCCAGCAGCCC
1 CTCCACGTTACAAATTCCAGT-AGCTTCCAGCACTGCCAGCAGCCC
* *
2097310 CTCCACGTTGCAAATTCCAGTAGCTTCCAGCACTGCCAGCAGTCC
1 CTCCACGTTACAAATTCCAGTAGCTTCCAGCACTGCCAGCAGCCC
2097355 CTCCACGT
1 CTCCACGT
2097363 CCCCGTTCCA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.41, G:0.15, T:0.22
Consensus pattern (45 bp):
CTCCACGTTACAAATTCCAGTAGCTTCCAGCACTGCCAGCAGCCC
Found at i:2100014 original size:12 final size:12
Alignment explanation
Indices: 2099997--2100045 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
2099987 ATTCAAAGAG
2099997 ATTTTATATTTA
1 ATTTTATATTTA
2100009 ATTTTATA-TT-
1 ATTTTATATTTA
* *
2100019 ATATTATATTTG
1 ATTTTATATTTA
2100031 ATTTTA-ATTTTA
1 ATTTTATA-TTTA
2100043 ATT
1 ATT
2100046 AATTTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 7 0.23
11 5 0.16
12 19 0.61
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (12 bp):
ATTTTATATTTA
Found at i:2100118 original size:19 final size:20
Alignment explanation
Indices: 2100094--2100133 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2100084 ATATTATAGA
2100094 TATTTA-AT-TTATATAAAAT
1 TATTTATATATTAT-TAAAAT
2100113 TATTTATATATTATTAAAAT
1 TATTTATATATTATTAAAAT
2100133 T
1 T
2100134 TTATTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTATATATTATTAAAAT
Found at i:2100152 original size:18 final size:19
Alignment explanation
Indices: 2100110--2100159 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
2100100 ATTTATATAA
*
2100110 AATTA-TTTATATATTATT
1 AATTATTTTATTTATTATT
*
2100128 AA-AATTTTATTTATT-TT
1 AATTATTTTATTTATTATT
2100145 AATTATTTTGATTTA
1 AATTATTTT-ATTTA
2100160 AGTTTAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 5 0.19
18 16 0.62
19 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTATTTTATTTATTATT
Found at i:2100564 original size:27 final size:27
Alignment explanation
Indices: 2100528--2100588 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
2100518 CTTATAAAAA
2100528 TAATAATAAATGTGATTATGTGAGACT
1 TAATAATAAATGTGATTATGTGAGACT
2100555 TAATAATAAATGTGATTATGTGAGACT
1 TAATAATAAATGTGATTATGTGAGACT
2100582 T-ATAATA
1 TAATAATA
2100589 GAATTAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (27 bp):
TAATAATAAATGTGATTATGTGAGACT
Found at i:2100679 original size:31 final size:31
Alignment explanation
Indices: 2100642--2100702 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
2100632 GTAGTTGTAT
* * *
2100642 AAATTATTTAAATTTCAGTATTGTAAAACTA
1 AAATTATTTAAATCTCAATATTGCAAAACTA
2100673 AAATTATTTAAATCTCAATATTGCAAAACT
1 AAATTATTTAAATCTCAATATTGCAAAACT
2100703 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (31 bp):
AAATTATTTAAATCTCAATATTGCAAAACTA
Found at i:2102422 original size:54 final size:54
Alignment explanation
Indices: 2102357--2102469 Score: 208
Period size: 54 Copynumber: 2.1 Consensus size: 54
2102347 AGAGATATTC
* *
2102357 CCTCTATGTCTTTCGGAGTTTCCTTAATATGTGAGAGTTAAAGATTTTTAGGGA
1 CCTCCATGTCTTTCGGAGTTTCCTTAATATGTGAGAGTTAAAAATTTTTAGGGA
2102411 CCTCCATGTCTTTCGGAGTTTCCTTAATATGTGAGAGTTAAAAATTTTTAGGGA
1 CCTCCATGTCTTTCGGAGTTTCCTTAATATGTGAGAGTTAAAAATTTTTAGGGA
2102465 CCTCC
1 CCTCC
2102470 GGTGGTTGTA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (54 bp):
CCTCCATGTCTTTCGGAGTTTCCTTAATATGTGAGAGTTAAAAATTTTTAGGGA
Found at i:2105660 original size:3 final size:3
Alignment explanation
Indices: 2105652--2105703 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
2105642 TGTTATTTAT
* *
2105652 TAA TAA TAA T-A TAA TAA TAA TAA TAT TAA TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2105699 -AA TAA
1 TAA TAA
2105704 AACGGGACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.09
3 39 0.91
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:2105683 original size:12 final size:12
Alignment explanation
Indices: 2105649--2105698 Score: 82
Period size: 12 Copynumber: 4.0 Consensus size: 12
2105639 ATGTGTTATT
2105649 TATTAATAATAA
1 TATTAATAATAA
2105661 TATAATAATAATAA
1 TAT--TAATAATAA
2105675 TATTAATAATAA
1 TATTAATAATAA
2105687 TATTAATAATAA
1 TATTAATAATAA
2105699 AATAAAACGG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 24 0.67
14 12 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TATTAATAATAA
Found at i:2108090 original size:13 final size:13
Alignment explanation
Indices: 2108072--2108096 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2108062 TTGTTTAGAA
2108072 ACTGAGTCAACTC
1 ACTGAGTCAACTC
2108085 ACTGAGTCAACT
1 ACTGAGTCAACT
2108097 GGTGTTGAGT
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:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (13 bp):
ACTGAGTCAACTC
Found at i:2111835 original size:174 final size:176
Alignment explanation
Indices: 2111545--2111895 Score: 688
Period size: 174 Copynumber: 2.0 Consensus size: 176
2111535 GACCATTGCT
2111545 TGGATAGAGGGAATACACTCTTCCCAGATTTTATATGACTGTAATAAACTAACATACCTATGGTA
1 TGGATAGAGGGAATACACTCTTCCCAGATTTTATATGACTGTAATAAACTAACATACCTATGGTA
2111610 GAGATTTTCTCTACGACCAGGTTGGTTAAAACAAGAGTTTCTAATAGTCATTTCTGGTTCGTTCG
66 GAGATTTTCTCTACGACCAGGTTGGTTAAAACAAGAGTTTCTAATAGTCATTTCTGGTTCGTTCG
2111675 GG-TTGGATTTGGATTT-GAGGTGGAATAGGAAGTCGATTTTGAGG
131 GGTTTGGATTTGGATTTGGAGGTGGAATAGGAAGTCGATTTTGAGG
2111719 TGGATAGAGGGAATACACTCTTCCCAGATTTTATATGACTGTAATAAACTAACATACCTATGGTA
1 TGGATAGAGGGAATACACTCTTCCCAGATTTTATATGACTGTAATAAACTAACATACCTATGGTA
2111784 GAGATTTTCTCTACGACCAGGTTGGTTAAAACAAGAGTTTCTAATAGTCATTTCTGGTTCGTTCG
66 GAGATTTTCTCTACGACCAGGTTGGTTAAAACAAGAGTTTCTAATAGTCATTTCTGGTTCGTTCG
2111849 GGTTTGGATTTGGATTTGGAGGTGGAATAGGAAGTCGATTTTGAGG
131 GGTTTGGATTTGGATTTGGAGGTGGAATAGGAAGTCGATTTTGAGG
2111895 T
1 T
2111896 TGGTTTGAAG
Statistics
Matches: 175, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
174 132 0.75
175 14 0.08
176 29 0.17
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (176 bp):
TGGATAGAGGGAATACACTCTTCCCAGATTTTATATGACTGTAATAAACTAACATACCTATGGTA
GAGATTTTCTCTACGACCAGGTTGGTTAAAACAAGAGTTTCTAATAGTCATTTCTGGTTCGTTCG
GGTTTGGATTTGGATTTGGAGGTGGAATAGGAAGTCGATTTTGAGG
Found at i:2111934 original size:12 final size:13
Alignment explanation
Indices: 2111917--2111949 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2111907 CTGACTAGAG
*
2111917 TTTGAAAACTAT-
1 TTTGAAAACAATA
2111929 TTTGAAAACAATA
1 TTTGAAAACAATA
2111942 TTTGAAAA
1 TTTGAAAA
2111950 ATCATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (13 bp):
TTTGAAAACAATA
Found at i:2112482 original size:43 final size:43
Alignment explanation
Indices: 2112434--2112527 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
2112424 TACACTCCTG
* * *
2112434 AGTGTATCAATACACATTCAAGGACTG-ATCGATGCAATTTCAT
1 AGTGTATCAATAC-CAGTCAAGGAATGCATCGATACAATTTCAT
* * * *
2112477 AGTGTATCGATGCCAGTCAAGGAATGCATCGGTACACTTTCAT
1 AGTGTATCAATACCAGTCAAGGAATGCATCGATACAATTTCAT
2112520 AGTGTATC
1 AGTGTATC
2112528 GATGCACTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 11 0.26
43 32 0.74
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (43 bp):
AGTGTATCAATACCAGTCAAGGAATGCATCGATACAATTTCAT
Found at i:2118426 original size:20 final size:20
Alignment explanation
Indices: 2118390--2118427 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2118380 TCGATGTTGG
*
2118390 GAGTGTATCGATGCATCCAA
1 GAGTGTATCGATACATCCAA
*
2118410 GAGTGTATCGGTACATCC
1 GAGTGTATCGATACATCC
2118428 CTTGGTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (20 bp):
GAGTGTATCGATACATCCAA
Found at i:2133809 original size:82 final size:82
Alignment explanation
Indices: 2133711--2133875 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 82
2133701 TACTCTAAAA
*
2133711 TTTATTCGAAATATCATTTACATAAACATTATAAAAACATATCAAAGTACTGTAAAACATGCTTT
1 TTTATTCGAAATATCATTTACATAAACATTATAAAAACATATCAAAGTACCGTAAAACATGCTTT
2133776 ATCAAAACATTCGAGGT
66 ATCAAAACATTCGAGGT
2133793 TTTATTCGAAATATCATTTACATAAACATTATAAAAACATATCAAAGTACCGTAAAACATGCTTT
1 TTTATTCGAAATATCATTTACATAAACATTATAAAAACATATCAAAGTACCGTAAAACATGCTTT
2133858 ATCAAAACATTCGAGGT
66 ATCAAAACATTCGAGGT
2133875 T
1 T
2133876 GACTCGTCGT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (82 bp):
TTTATTCGAAATATCATTTACATAAACATTATAAAAACATATCAAAGTACCGTAAAACATGCTTT
ATCAAAACATTCGAGGT
Found at i:2138344 original size:24 final size:20
Alignment explanation
Indices: 2138287--2138349 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 20
2138277 TTCCCCTTGA
*
2138287 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
2138307 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
2138330 ATGTGCATCGATGCACTCCT
1 A-GTGCATCGATGCA-TCCT
2138350 TATACATCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 14 0.40
21 1 0.03
22 1 0.03
23 4 0.11
24 14 0.40
25 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:2138350 original size:24 final size:23
Alignment explanation
Indices: 2138288--2138356 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
2138278 TCCCCTTGAA
*
2138288 GTGCATCGATGCATTC-T-ACA-
1 GTGCATCGATGCATCCTTAACAT
*
2138308 GTGTATCGATGCATCCCTTAACAT
1 GTGCATCGATGCAT-CCTTAACAT
2138332 GTGCATCGATGCACTCCTTATACAT
1 GTGCATCGATGCA-TCCTTA-ACAT
2138357 CGATGCACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 13 0.32
21 1 0.03
22 1 0.03
23 3 0.08
24 17 0.43
25 5 0.12
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (23 bp):
GTGCATCGATGCATCCTTAACAT
Found at i:2153842 original size:56 final size:57
Alignment explanation
Indices: 2153772--2153911 Score: 153
Period size: 56 Copynumber: 2.5 Consensus size: 57
2153762 AATAAACCCA
* * * *
2153772 AAAATTAGGCTTAACTTCTTTAAAAATTCTTTGGAAATAATCATCT-AGAAA-CCTCT-
1 AAAATCAGACTTAACTTCTTTAAAAATTCATTGAAAATAATCAT-TAAGAAACCCT-TG
* * *
2153828 AAAATCATACTTAACTTCTTT-AAAATTCATTGAAAATACTCATTAATAAACCCTTG
1 AAAATCAGACTTAACTTCTTTAAAAATTCATTGAAAATAATCATTAAGAAACCCTTG
* *
2153884 AAAATCAGGCTTAGCTTCTTTAAAAATT
1 AAAATCAGACTTAACTTCTTTAAAAATT
2153912 AATCATGTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
54 1 0.01
55 24 0.34
56 39 0.56
57 6 0.09
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (57 bp):
AAAATCAGACTTAACTTCTTTAAAAATTCATTGAAAATAATCATTAAGAAACCCTTG
Found at i:2154003 original size:55 final size:55
Alignment explanation
Indices: 2153919--2154606 Score: 825
Period size: 55 Copynumber: 12.6 Consensus size: 55
2153909 ATTAATCATG
* * *
2153919 TCAAGAAACCTCTGAAAATCAGACTTAGTTTCTTT-AAATGCTCATTTAAAAATTA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAA-ACTCATTTAAAAATCA
*
2153974 TCAAGAAACTTCTGAAAATC-GAACTTAGTTTCTTTGAAAACTCATTTGAAAATCA
1 TCAAGAAACTTCTGAAAATCAG-ACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * *
2154029 TCAAGAAACTTCTGAAAATGATACATAGTTTCTTTAAAAACTCATTTAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * *
2154084 TCAAGAAACTTCTGAAAATCAGACTTGGTTTCTTTGAAAGCTTATTTAAAAAACA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * ** **
2154139 TCAAAAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAGTTTGTTTAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* *
2154194 TCAAGAAACTTCTGAAAAGCAGACTTAGTTTCTTTAAAAACTCATTTAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * * * *
2154249 TCAA-TAACTTATGAAAATCATACTTAGTTTCTTTGAAAGCTCAATTAAAAATAA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * * *
2154303 TCAAGAAACTTCTGAATATTAGACTTAGTTTATTTGAAAGCTCGTTTAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* ** * *
2154358 TCAAGAAACTTCTAAAAATCAGACTCGGTTTCTTTGAAAACTCATTTGAAGAT-A
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * * * *
2154412 GTCAAGAAA-ATCTGAAAACCAGACTTGGCTTATTTAAAAACTCATTTAAAAATCA
1 -TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* *
2154467 TCAAGAAACTTCTAAAAATCACACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * *
2154522 TCAAGAAACATCTGAAAATCAGTCTTAGTTTCTTTAAAAACCCATTTAAAAAT-A
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * *
2154576 TAAAAAAAC--CTGAAAATTAGGCTTAGTTTCT
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCT
2154607 AAAAATCACG
Statistics
Matches: 541, Mismatches: 85, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
52 20 0.04
54 99 0.18
55 419 0.77
56 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (55 bp):
TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
Found at i:2154352 original size:164 final size:164
Alignment explanation
Indices: 2153919--2154606 Score: 818
Period size: 164 Copynumber: 4.2 Consensus size: 164
2153909 ATTAATCATG
* *
2153919 TCAAGAAACCTCTGAAAATCAGACTTAGTTTCTTT-AAATGCTCATTTAAAAATTATCAAGAAAC
1 TCAA-AAACTTCTGAAAATCAGACTTAGTTTCTTTGAAA-GCTCATTTAAAAATAATCAAGAAAC
* *
2153983 TTCTGAAAATC-GAACTTAGTTTCTTTGAAAACTCATTTGAAAATCATCAAGAAACTTCTGAAAA
64 TTCTAAAAATCAG-ACTTAGTTTCTTTGAAAACTCATTTAAAAATCATCAAGAAACTTCTGAAAA
* *
2154047 TG-ATACATAGTTTCTTTAAAAACTCATTTAAAAATCA
128 -GCAGACTTAGTTTCTTTAAAAACTCATTTAAAAATCA
* * *
2154084 TCAAGAAACTTCTGAAAATCAGACTTGGTTTCTTTGAAAGCTTATTTAAAAA-ACATCAAAAAAC
1 TCAA-AAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATA-ATCAAGAAAC
** **
2154148 TTCTAAAAATCAGACTTAGTTTCTTTGAAAGTTTGTTTAAAAATCATCAAGAAACTTCTGAAAAG
64 TTCTAAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCATCAAGAAACTTCTGAAAAG
2154213 CAGACTTAGTTTCTTTAAAAACTCATTTAAAAATCA
129 CAGACTTAGTTTCTTTAAAAACTCATTTAAAAATCA
* * * *
2154249 TCAATAACTTATGAAAATCATACTTAGTTTCTTTGAAAGCTCAATTAAAAATAATCAAGAAACTT
1 TCAAAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATAATCAAGAAACTT
* * * * * * * *
2154314 CTGAATATTAGACTTAGTTTATTTGAAAGCTCGTTTAAAAATCATCAAGAAACTTCTAAAAATCA
66 CTAAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCATCAAGAAACTTCTGAAAAGCA
** * * *
2154379 GACTCGGTTTCTTTGAAAACTCATTTGAAGAT-A
131 GACTTAGTTTCTTTAAAAACTCATTTAAAAATCA
* * * * * * * *
2154412 GTCAAGAAA-ATCTGAAAACCAGACTTGGCTTATTTAAAAACTCATTTAAAAATCATCAAGAAAC
1 -TCAA-AAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATAATCAAGAAAC
* * *
2154476 TTCTAAAAATCACACTTAGTTTCTTTGAAAACTCATTTAAAAATCATCAAGAAACATCTGAAAAT
64 TTCTAAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCATCAAGAAACTTCTGAAAAG
* *
2154541 CAGTCTTAGTTTCTTTAAAAACCCATTTAAAAAT-A
129 CAGACTTAGTTTCTTTAAAAACTCATTTAAAAATCA
* * *
2154576 TAAAAAAAC--CTGAAAATTAGGCTTAGTTTCT
1 T-CAAAAACTTCTGAAAATCAGACTTAGTTTCT
2154607 AAAAATCACG
Statistics
Matches: 446, Mismatches: 68, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
162 16 0.04
163 5 0.01
164 271 0.61
165 150 0.34
166 4 0.01
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (164 bp):
TCAAAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATAATCAAGAAACTT
CTAAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCATCAAGAAACTTCTGAAAAGCA
GACTTAGTTTCTTTAAAAACTCATTTAAAAATCA
Found at i:2155913 original size:28 final size:28
Alignment explanation
Indices: 2155882--2155942 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
2155872 AAAGTAGAGC
* * *
2155882 GTTTTAGATTAATTTGGGGAGGTAATGT
1 GTTTCAGATCAATTTGGGGAGGCAATGT
*
2155910 GTTTCAGGTCAATTTGGGGAGGCAATGT
1 GTTTCAGATCAATTTGGGGAGGCAATGT
2155938 GTTTC
1 GTTTC
2155943 GGGTTGGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.07, G:0.33, T:0.39
Consensus pattern (28 bp):
GTTTCAGATCAATTTGGGGAGGCAATGT
Found at i:2158178 original size:49 final size:51
Alignment explanation
Indices: 2158079--2158201 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 51
2158069 AATTTACATC
* * * *
2158079 TTAGTCAATGGTTATTTCTGATTTGGCCACTGTTCTTTTATTTTATGCATT
1 TTAGTCACTGATTATTTCTGATTTGGCCACTGTTCTTTCAATTTATGCATT
2158130 TTAGTCACT-ATTATTTCTGATTTGGCTCA-T-TTCTTTCAATTTATGCATT
1 TTAGTCACTGATTATTTCTGATTTGGC-CACTGTTCTTTCAATTTATGCATT
* * *
2158179 TTGGTCACTGTTTATTTATGATT
1 TTAGTCACTGATTATTTCTGATT
2158202 AAAGCAACTA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
49 25 0.40
50 28 0.44
51 10 0.16
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.54
Consensus pattern (51 bp):
TTAGTCACTGATTATTTCTGATTTGGCCACTGTTCTTTCAATTTATGCATT
Found at i:2162433 original size:32 final size:32
Alignment explanation
Indices: 2162371--2162433 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
2162361 AAGGTAACCC
* * *
2162371 TTGGGTAGGCTCTTAGGTCCCAAGGTACTCCA
1 TTGGGTAGGCGCTAAGGTCCCAAGGCACTCCA
2162403 TTGGGTAGGCGCTAAGG-CCCTAAGGCACTCC
1 TTGGGTAGGCGCTAAGGTCCC-AAGGCACTCC
2162434 TTTAGGTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (32 bp):
TTGGGTAGGCGCTAAGGTCCCAAGGCACTCCA
Found at i:2163472 original size:10 final size:11
Alignment explanation
Indices: 2163446--2163470 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2163436 TCTTAATCAC
2163446 AAAATTTAAAA
1 AAAATTTAAAA
2163457 AAAATTTAAAA
1 AAAATTTAAAA
2163468 AAA
1 AAA
2163471 TTAAGTTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTTAAAA
Found at i:2164920 original size:18 final size:18
Alignment explanation
Indices: 2164879--2164950 Score: 126
Period size: 19 Copynumber: 3.9 Consensus size: 18
2164869 ATAAGAATTA
2164879 GTGCATCGGTACACTAGAG
1 GTGCATCGGTACACTAG-G
2164898 GTGCATCGGTACACTAGG
1 GTGCATCGGTACACTAGG
2164916 GTGCATCGGTACACTAGGG
1 GTGCATCGGTACACTA-GG
2164935 GTGCATCGGTACACTA
1 GTGCATCGGTACACTA
2164951 ATTACATTCG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 17 0.33
19 35 0.67
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (18 bp):
GTGCATCGGTACACTAGG
Found at i:2164929 original size:37 final size:37
Alignment explanation
Indices: 2164879--2164950 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
2164869 ATAAGAATTA
2164879 GTGCATCGGTACACTAGAGGTGCATCGGTACACTAGG
1 GTGCATCGGTACACTAGAGGTGCATCGGTACACTAGG
*
2164916 GTGCATCGGTACACTAGGGGTGCATCGGTACACTA
1 GTGCATCGGTACACTAGAGGTGCATCGGTACACTA
2164951 ATTACATTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (37 bp):
GTGCATCGGTACACTAGAGGTGCATCGGTACACTAGG
Found at i:2165030 original size:65 final size:64
Alignment explanation
Indices: 2164935--2165094 Score: 189
Period size: 65 Copynumber: 2.5 Consensus size: 64
2164925 TACACTAGGG
* * * **
2164935 GTGCATCGGTACACTAATTACATTCGATGTTTCAAAATAGCCATA-AGTGCATCGATGCATGGTC
1 GTGCATCGGTACACAAAATGCATTTAATGTTTCAAAATAGCCA-AGAGTGCATCGATGCATGG-C
2164999 T
64 T
**
2165000 GTGCATCGGTACACAAAATGCATTTAATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCT
1 GTGCATCGGTACACAAAATGCATTTAATGTTTCAAAATAGCCAAGAGTGCATCGATGCATGGCT
*
2165064 -TACGCATCGGTACAAAAAATGCATTTGAATG
1 GT--GCATCGGTACACAAAATGCATTT-AATG
2165095 GGTGTGCATC
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 3 0.04
65 75 0.90
66 4 0.05
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (64 bp):
GTGCATCGGTACACAAAATGCATTTAATGTTTCAAAATAGCCAAGAGTGCATCGATGCATGGCT
Found at i:2165718 original size:24 final size:20
Alignment explanation
Indices: 2165660--2165738 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 20
2165650 TTTCCCCTTG
*
2165660 AAGTGCATCGATGCATTCTA
1 AAGTGCATCGATGCATCCTA
*
2165680 AAGTGTATCGATGCATCCCTTA
1 AAGTGCATCGATGCAT-CC-TA
2165702 ACATGTGCATCGATGCACTCCT-
1 A-A-GTGCATCGATGCA-TCCTA
*
2165724 TA-TGCATCGATGCAT
1 AAGTGCATCGATGCAT
2165739 TAATTGCATT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 15 0.30
21 2 0.04
22 3 0.06
23 2 0.04
24 14 0.28
25 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (20 bp):
AAGTGCATCGATGCATCCTA
Found at i:2172763 original size:12 final size:12
Alignment explanation
Indices: 2172746--2172779 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2172736 TGATGGACTG
2172746 GAGCTGAGCCGT
1 GAGCTGAGCCGT
**
2172758 GAGCTGAGTTGT
1 GAGCTGAGCCGT
2172770 GAGCTGAGCC
1 GAGCTGAGCC
2172780 ACGAGTCAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.41, T:0.21
Consensus pattern (12 bp):
GAGCTGAGCCGT
Found at i:2172810 original size:12 final size:12
Alignment explanation
Indices: 2172775--2172812 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2172765 GTTGTGAGCT
2172775 GAGCCACGAGTC
1 GAGCCACGAGTC
*
2172787 AAG-CACGAGTC
1 GAGCCACGAGTC
*
2172798 GAGCCATGAGTC
1 GAGCCACGAGTC
2172810 GAG
1 GAG
2172813 TCGTGTTGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.29, C:0.26, G:0.34, T:0.11
Consensus pattern (12 bp):
GAGCCACGAGTC
Found at i:2175288 original size:12 final size:12
Alignment explanation
Indices: 2175252--2175290 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2175242 GTTGTGAGCT
*
2175252 GAGCAACGAGTC
1 GAGCCACGAGTC
*
2175264 AAGCCACGAGTC
1 GAGCCACGAGTC
*
2175276 GAGCCATGAGTC
1 GAGCCACGAGTC
2175288 GAG
1 GAG
2175291 TCGTGTTGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.31, C:0.26, G:0.33, T:0.10
Consensus pattern (12 bp):
GAGCCACGAGTC
Found at i:2179781 original size:55 final size:54
Alignment explanation
Indices: 2179704--2179822 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 54
2179694 TAGGCTTAAC
* * * *
2179704 TCTTTAAAAATTCTTTGGAAATAATCATCTAGAAA-CCTCT-AAAATCATACTTAGCT
1 TCTTT-AAAATTCATTGAAAATAATAAT-TA-AAACCCT-TGAAAATCAGACTTAGCT
* *
2179760 TCTTTAAAATTCATTGAAAATACTAATTAAAACCCTTGAAAATCAGGCTTAGCT
1 TCTTTAAAATTCATTGAAAATAATAATTAAAACCCTTGAAAATCAGACTTAGCT
2179814 TCTTTAAAA
1 TCTTTAAAA
2179823 ATTAATCATG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
53 4 0.07
54 28 0.51
55 18 0.33
56 5 0.09
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (54 bp):
TCTTTAAAATTCATTGAAAATAATAATTAAAACCCTTGAAAATCAGACTTAGCT
Found at i:2179824 original size:55 final size:56
Alignment explanation
Indices: 2179684--2179825 Score: 150
Period size: 55 Copynumber: 2.6 Consensus size: 56
2179674 ATCAATAAAC
* * * * * *
2179684 CCCTAAAAATTAGGCTTAAC-TCTTTAAAAATTCTTTGGAAATAATCATCTAGAAA
1 CCCTTAAAATCAGGCTTAGCTTCTTTAAAAATTCATTGAAAATAATAATCTAGAAA
** *
2179739 -CCTCTAAAATCATACTTAGCTTCTTT-AAAATTCATTGAAAATACTAAT-TA-AAA
1 CCCT-TAAAATCAGGCTTAGCTTCTTTAAAAATTCATTGAAAATAATAATCTAGAAA
2179792 CCCTTGAAAATCAGGCTTAGCTTCTTTAAAAATT
1 CCCTT-AAAATCAGGCTTAGCTTCTTTAAAAATT
2179826 AATCATGTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
53 4 0.06
54 27 0.38
55 35 0.49
56 5 0.07
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.35
Consensus pattern (56 bp):
CCCTTAAAATCAGGCTTAGCTTCTTTAAAAATTCATTGAAAATAATAATCTAGAAA
Found at i:2179892 original size:53 final size:54
Alignment explanation
Indices: 2179833--2180522 Score: 679
Period size: 53 Copynumber: 13.0 Consensus size: 54
2179823 ATTAATCATG
* * * *
2179833 TCAAGAATCCTCTGAAATCAGACTT-GTTTCTTT-AAATGCTCATTTAAAAATTA
1 TCAAGAAACTTCTGAAATCAGACTTAGTTTCTTTGAAA-ACTCATTTAAAAATCA
* * *
2179886 TCAAGAAACTTCTGAAAATGAAACTTAG-TTCTTTGAAAACTCATTT-GAAATCA
1 TCAAGAAACTTCTG-AAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* *
2179939 TCAAGAAACTTCTGAAAATCATACTTAGTTTTCTTTAAAAACTCATTT-AAAATCA
1 TCAAGAAACTTCTG-AAATCAGACTTAG-TTTCTTTGAAAACTCATTTAAAAATCA
* * *
2179994 TCAAG-AACTTCTGAAATCAGACTT-GTTTCTTTGAAAGCTTA-TTAAAAAACA
1 TCAAGAAACTTCTGAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * **
2180045 TCAA-AAACTTTTAAAAATCAGACTTAGTTTCTTTGAAAGCTTGTTTAAAAATCA
1 TCAAGAAACTTCT-GAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * * * *
2180099 TC-AGAAACTTCTGAAAATTAGACTTAGATTCTTTTAAAATTCATTTGAAAATCG
1 TCAAGAAACTTCTG-AAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
*
2180153 TCAAGAAACTTCTGAAA--AGACTTAGTTTCTTTAAAAACTCATTTAAAAATCA
1 TCAAGAAACTTCTGAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * * *
2180205 TCAAG-AACTTATGAAAATCATACTTA-TTTCTTTGAAAGCTCAATT-AAAATAA
1 TCAAGAAACTTCTG-AAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * *
2180257 TC-AGAAACTTCTGAAAAT-ATACTTAGTTTATTTGAAAGCTCGTTTAAAAATCA
1 TCAAGAAACTTCTG-AAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * *
2180310 TCAAG-AACTTCTAAAATCAGAC-TCGATTTCTTTG-AAACTCATTT-GAGAT-A
1 TCAAGAAACTTCTGAAATCAGACTTAG-TTTCTTTGAAAACTCATTTAAAAATCA
* * * * *
2180360 GTCAAGAAA-ATCTGAAACCAGACTTGGTTTATTTAAAAACTCATTTAAAAATCA
1 -TCAAGAAACTTCTGAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* *
2180414 TCAAGAAACTTCTAAAAATCACACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
1 TCAAGAAACTTCT-GAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * *
2180469 TCAAGAAACATCTAAAAATCAGACTTAGTTTTCTTTAAAAACTCATTTAAAAAT
1 TCAAGAAACTTCT-GAAATCAGACTTAG-TTTCTTTGAAAACTCATTTAAAAAT
2180523 ATAAAAACCT
Statistics
Matches: 533, Mismatches: 73, Indels: 59
0.80 0.11 0.09
Matches are distributed among these distances:
50 3 0.01
51 70 0.13
52 114 0.21
53 122 0.23
54 96 0.18
55 104 0.20
56 24 0.05
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.34
Consensus pattern (54 bp):
TCAAGAAACTTCTGAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
Found at i:2182516 original size:21 final size:21
Alignment explanation
Indices: 2182488--2182541 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
2182478 GTTTTACCTG
2182488 TTTTCTTTCTTCTTTT-T-TCT
1 TTTTCTTTCTT-TTTTCTCTCT
2182508 TTTTGCTTTCTTTTTTCTCTCT
1 TTTT-CTTTCTTTTTTCTCTCT
*
2182530 TTTTATTT-TTTT
1 TTTTCTTTCTTTT
2182542 ATTTTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 12 0.40
21 11 0.37
22 7 0.23
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTCTCTCT
Found at i:2182542 original size:8 final size:8
Alignment explanation
Indices: 2182529--2182572 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
2182519 TTTTTCTCTC
2182529 TTTTTATT
1 TTTTTATT
2182537 TTTTTATT
1 TTTTTATT
2182545 TTTTTATT
1 TTTTTATT
2182553 TTTTT-TT
1 TTTTTATT
* *
2182560 CTATTATT
1 TTTTTATT
2182568 TTTTT
1 TTTTT
2182573 CTCTTCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 5 0.16
8 26 0.84
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTATT
Found at i:2182547 original size:15 final size:15
Alignment explanation
Indices: 2182529--2182572 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
2182519 TTTTTCTCTC
2182529 TTTTTATTTTTTTATT
1 TTTTTATTTTTTT-TT
2182545 TTTTTATTTTTTTTT
1 TTTTTATTTTTTTTT
* *
2182560 CTATTATTTTTTT
1 TTTTTATTTTTTT
2182573 CTCTTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTATTTTTTTTT
Found at i:2182582 original size:13 final size:13
Alignment explanation
Indices: 2182543--2182574 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2182533 TATTTTTTTA
2182543 TTTTTT-TATT-T
1 TTTTTTCTATTAT
2182554 TTTTTTCTATTAT
1 TTTTTTCTATTAT
2182567 TTTTTTCT
1 TTTTTTCT
2182575 CTTCTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 6 0.32
12 4 0.21
13 9 0.47
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTCTATTAT
Found at i:2182589 original size:18 final size:17
Alignment explanation
Indices: 2182518--2182574 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 17
2182508 TTTTGCTTTC
2182518 TTTTTTCTCTCTTTTTAT
1 TTTTTTCT-TCTTTTTAT
*
2182536 TTTTTTATT-TTTTTAT
1 TTTTTTCTTCTTTTTAT
*
2182552 TTTTTT-TTC-TATTAT
1 TTTTTTCTTCTTTTTAT
2182567 TTTTTTCT
1 TTTTTTCT
2182575 CTTCTTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 13 0.37
16 14 0.40
17 1 0.03
18 7 0.20
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTCTTCTTTTTAT
Found at i:2184032 original size:51 final size:51
Alignment explanation
Indices: 2183974--2184110 Score: 186
Period size: 51 Copynumber: 2.7 Consensus size: 51
2183964 GGTGTTTGAT
* * * *
2183974 AATTTATGCATCTTAGTCAATGGTTATTTCTGATTTGGC-CACTGTTCTTTT
1 AATTTATGCATTTTAGTCACTGTTTATTTCTGATTTGGCTCA-TGTTCTTTC
* *
2184025 ATTTTATGCATTTTAGTCACTATTTATTTCTGATTTGGCTCATGTTCTTTC
1 AATTTATGCATTTTAGTCACTGTTTATTTCTGATTTGGCTCATGTTCTTTC
* *
2184076 AATTTATGCATTTTGGTCACTGTTTATTTATGATT
1 AATTTATGCATTTTAGTCACTGTTTATTTCTGATT
2184111 AAATCAACTA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
51 73 0.97
52 2 0.03
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.53
Consensus pattern (51 bp):
AATTTATGCATTTTAGTCACTGTTTATTTCTGATTTGGCTCATGTTCTTTC
Found at i:2184467 original size:28 final size:28
Alignment explanation
Indices: 2184435--2184506 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
2184425 TAGTCGAATC
2184435 AAATTATTTTAATCTCGAATTC-TTGGGA
1 AAATTATTTTAATCTCGAATTCATT-GGA
* * * *
2184463 AAATTATTATATTCT-TATTTCAGTTGGA
1 AAATTATTTTAATCTCGAATTCA-TTGGA
2184491 AAATTATTTTAATCTC
1 AAATTATTTTAATCTC
2184507 TTCATGTCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
27 4 0.11
28 29 0.83
29 2 0.06
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (28 bp):
AAATTATTTTAATCTCGAATTCATTGGA
Found at i:2186466 original size:32 final size:32
Alignment explanation
Indices: 2186404--2186466 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
2186394 AAGGTAACCC
* * *
2186404 TTGGGTAGGCTCTTAGGCCCCAAAGTACTCCA
1 TTGGGTAGGCGCTAAGGCCCCAAAGCACTCCA
* *
2186436 TTGGGTAGGCGCTAAGGCCCTAAGGCACTCC
1 TTGGGTAGGCGCTAAGGCCCCAAAGCACTCC
2186467 TTTAGGTTGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.22
Consensus pattern (32 bp):
TTGGGTAGGCGCTAAGGCCCCAAAGCACTCCA
Found at i:2188976 original size:63 final size:64
Alignment explanation
Indices: 2188855--2189013 Score: 180
Period size: 63 Copynumber: 2.4 Consensus size: 64
2188845 TACACTAGGG
* * **
2188855 GTGCATCGGTACACTAATTACATTCGATGTTTCAAAATAGCCATAAGTGCATCGATGCATGG-TC
1 GTGCATCGGTACAC-AAATGCATTTAATGTTTCAAAATAGCCATAAGTGCATCGATGCATGGCT-
2188919 T
64 T
*
2188920 GTGCATCGGTACACAAATGCATTTAATGTTTCAAAATA-TCA-AGAGTGCATCGATGCATGGCTT
1 GTGCATCGGTACACAAATGCATTTAATGTTTCAAAATAGCCATA-AGTGCATCGATGCATGGCTT
* *
2188983 ATGCATCGGTACAAAAAAATGCATTTGAATG
1 GTGCATCGGTAC--ACAAATGCATTT-AATG
2189014 GGTGTGCATC
Statistics
Matches: 82, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
62 1 0.01
63 31 0.38
64 21 0.26
65 25 0.30
66 4 0.05
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (64 bp):
GTGCATCGGTACACAAATGCATTTAATGTTTCAAAATAGCCATAAGTGCATCGATGCATGGCTT
Found at i:2191525 original size:23 final size:22
Alignment explanation
Indices: 2191498--2191567 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 22
2191488 GAGTGCATTT
2191498 ATGCACATTCAAGGAATGCATCG
1 ATGCACATTCAA-GAATGCATCG
* * *
2191521 GTGCATC-TTCATG-ATGTATCG
1 ATGCA-CATTCAAGAATGCATCG
2191542 ATGCACATTCAAGAGATGCATCG
1 ATGCACATTCAAGA-ATGCATCG
2191565 ATG
1 ATG
2191568 TACTGTTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
20 1 0.03
21 16 0.43
22 1 0.03
23 18 0.49
24 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (22 bp):
ATGCACATTCAAGAATGCATCG
Found at i:2194387 original size:16 final size:16
Alignment explanation
Indices: 2194366--2194396 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2194356 ACATGTATCA
*
2194366 CAAATTTTATCTTTGT
1 CAAATTTTAGCTTTGT
2194382 CAAATTTTAGCTTTG
1 CAAATTTTAGCTTTG
2194397 GCAACCCTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.52
Consensus pattern (16 bp):
CAAATTTTAGCTTTGT
Found at i:2196671 original size:65 final size:66
Alignment explanation
Indices: 2196599--2196722 Score: 178
Period size: 66 Copynumber: 1.9 Consensus size: 66
2196589 ACACTAGGGG
* * *
2196599 TGCATCGGTACACTAATTAC-ATTCGATGTTTCAAAATAGCCATGAGTGCATCGATGCACGGTCT
1 TGCATCGGTACACAAAATACTATTCGATGTTTCAAAATAGCCAAGAGTGCATCGATGCACGGTCT
2196663 A
66 A
* * **
2196664 TGCATCGGTACACAAAATGCTTTTCGATGTTTCAAAATATTCAAGAGTGCATCGATGCA
1 TGCATCGGTACACAAAATACTATTCGATGTTTCAAAATAGCCAAGAGTGCATCGATGCA
2196723 TGACTTGTGC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
65 17 0.33
66 34 0.67
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (66 bp):
TGCATCGGTACACAAAATACTATTCGATGTTTCAAAATAGCCAAGAGTGCATCGATGCACGGTCT
A
Found at i:2196712 original size:66 final size:66
Alignment explanation
Indices: 2196620--2196749 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
2196610 ACTAATTACA
* * *
2196620 TTCGATGTTTCAAAATAGCCATGAGTGCATCGATGCACGGTC-TATGCATCGGTACACAAAATGC
1 TTCGATGTTTCAAAATAGCCAAGAGTGCATCGATGCA-GGACTTATGCATCAGTACACAAAATGC
2196684 TT
65 TT
** * *
2196686 TTCGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGACTTGTGCATCAGTACACAAAATGC
1 TTCGATGTTTCAAAATAGCCAAGAGTGCATCGATGCAGGACTTATGCATCAGTACACAAAATGC
2196750 ATTCGAAATG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 2 0.04
66 54 0.96
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (66 bp):
TTCGATGTTTCAAAATAGCCAAGAGTGCATCGATGCAGGACTTATGCATCAGTACACAAAATGCT
T
Found at i:2197912 original size:16 final size:17
Alignment explanation
Indices: 2197883--2197916 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2197873 TTTAAAAAAA
2197883 TAATTTTTTGTATAATT
1 TAATTTTTTGTATAATT
2197900 TAATTTTTT-TATAATT
1 TAATTTTTTGTATAATT
2197916 T
1 T
2197917 TTTGTATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TAATTTTTTGTATAATT
Found at i:2197916 original size:11 final size:12
Alignment explanation
Indices: 2197900--2197928 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
2197890 TTGTATAATT
2197900 TAATTTTTT-TA
1 TAATTTTTTGTA
2197911 TAATTTTTTGTA
1 TAATTTTTTGTA
2197923 TAATTT
1 TAATTT
2197929 AAATATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
TAATTTTTTGTA
Found at i:2197916 original size:28 final size:31
Alignment explanation
Indices: 2197882--2197950 Score: 108
Period size: 28 Copynumber: 2.3 Consensus size: 31
2197872 ATTTAAAAAA
2197882 ATAATTTTTTGTATAATTT-A-ATTTT-TTT
1 ATAATTTTTTGTATAATTTAATATTTTCTTT
2197910 ATAATTTTTTGTATAATTTAAATATTTTCTTT
1 ATAATTTTTTGTATAATTT-AATATTTTCTTT
2197942 ATAATTTTT
1 ATAATTTTT
2197951 GGCAATGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
28 19 0.51
30 1 0.03
31 5 0.14
32 12 0.32
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.65
Consensus pattern (31 bp):
ATAATTTTTTGTATAATTTAATATTTTCTTT
Found at i:2200202 original size:27 final size:27
Alignment explanation
Indices: 2200171--2200260 Score: 171
Period size: 27 Copynumber: 3.3 Consensus size: 27
2200161 GCTAAGTGAG
2200171 AATACCATGGTTATGTCATGGCTCATC
1 AATACCATGGTTATGTCATGGCTCATC
2200198 AATACCATGGTTATGTCATGGCTCATC
1 AATACCATGGTTATGTCATGGCTCATC
2200225 AATACCATGGTTATGTCATGGCTCATC
1 AATACCATGGTTATGTCATGGCTCATC
*
2200252 AATTCCATG
1 AATACCATG
2200261 ATTCCTGTTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
AATACCATGGTTATGTCATGGCTCATC
Found at i:2209027 original size:19 final size:20
Alignment explanation
Indices: 2209003--2209046 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2208993 TAAAAAAGTT
*
2209003 TTTTTAAT-AATATATTTAA
1 TTTTTAATAAAAATATTTAA
*
2209022 TTTTTAATAAAAATATTTTA
1 TTTTTAATAAAAATATTTAA
2209042 TTTTT
1 TTTTT
2209047 TAAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTAATAAAAATATTTAA
Found at i:2209047 original size:21 final size:19
Alignment explanation
Indices: 2209002--2209049 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
2208992 TTAAAAAAGT
*
2209002 TTTTTTAATAATATATTTA
1 TTTTTTAATAAAATATTTA
*
2209021 ATTTTTAATAAAAATATTTTA
1 TTTTTTAAT-AAAATA-TTTA
2209042 TTTTTTAA
1 TTTTTTAA
2209050 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.33
20 5 0.21
21 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTTAATAAAATATTTA
Found at i:2209695 original size:17 final size:18
Alignment explanation
Indices: 2209656--2209702 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
2209646 TGTTTCTGAG
2209656 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
* *
2209674 GGAATTGGTATCTGT-CA
1 GGAATTGGAATCTGTGAA
2209691 GGAATTGGAATC
1 GGAATTGGAATC
2209703 CAATTCCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.30
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:2210404 original size:272 final size:263
Alignment explanation
Indices: 2210095--2210603 Score: 770
Period size: 263 Copynumber: 1.9 Consensus size: 263
2210085 GTTTCACTCG
*
2210095 ACCCGACCCGAAATAATAAAAAAATTATCTCTATTCAATAAAAACAATGACTTAATTGGAAAAAT
1 ACCCGACCCGAAATAATAAAAAAATTATCTCTATTCAATAAAAACAATGACTTAATT-GAAAAAA
* *
2210160 ATATATATATAGAGGGGTATTATTGTAATTATTTCTAAATATATAAGGTAAAATTATATATTTTT
65 AT-TATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTT
**
2210225 GGGTCGGGTCGGGTCGGGTATTTTTCA-CCGAAACCCGAAC-CGACACGACCTGAATATCACACT
129 ---T----T-GGGTCGGGTATTTTTCACCCGAAACCCGAACTCGACACGACCCAAATATCACACT
2210288 TAAAAAAAACCGACCCGACCCAACCAAAATAAAGTTTCACCCGACCCGACCCGGATATATGAATT
186 T-AAAAAAACCGACCCGACCCAACCAAAATAAAGTTTCACCCGACCCGACCCGGATATATGAATT
2210353 AGAAATCCAACCCA
250 AGAAATCCAACCCA
* * * *
2210367 ACCCGACTCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAA
1 ACCCGACCCGAAATAATAAAAAAATTATCTCTATTCAATAAAAACAATGACTTAATTGAAAAAAA
2210432 TTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTT
66 TTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTT
* * *
2210497 GGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGACCCAAATATCACACTTTAAAAAACC
131 GGGTCGGGTATTTTTCACCCGAAACCCGAACTCGACACGACCCAAATATCACACTTAAAAAAACC
* * *
2210562 GATCTGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCG
196 GACCCGACCCAACCAAAATAAAGTTTCACCCGACCCGACCCG
2210604 ACCCAACCCA
Statistics
Matches: 220, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
262 17 0.08
263 60 0.27
264 21 0.10
267 1 0.00
270 60 0.27
271 8 0.04
272 53 0.24
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.27
Consensus pattern (263 bp):
ACCCGACCCGAAATAATAAAAAAATTATCTCTATTCAATAAAAACAATGACTTAATTGAAAAAAA
TTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTT
GGGTCGGGTATTTTTCACCCGAAACCCGAACTCGACACGACCCAAATATCACACTTAAAAAAACC
GACCCGACCCAACCAAAATAAAGTTTCACCCGACCCGACCCGGATATATGAATTAGAAATCCAAC
CCA
Found at i:2212999 original size:20 final size:20
Alignment explanation
Indices: 2212974--2213011 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2212964 ACTCTTAAAC
*
2212974 TTAAAATATTTTCAAAATAA
1 TTAAAAGATTTTCAAAATAA
*
2212994 TTAAAAGATTTTTAAAAT
1 TTAAAAGATTTTCAAAAT
2213012 TATTGGAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
TTAAAAGATTTTCAAAATAA
Found at i:2216849 original size:35 final size:35
Alignment explanation
Indices: 2216806--2216897 Score: 161
Period size: 35 Copynumber: 2.7 Consensus size: 35
2216796 GCCTAATTTT
2216806 GACC-AAATCAGCCACCCCATTTTCTGCCAT-CTTG
1 GACCAAAATCAGCCACCCCATTTTCTGCC-TCCTTG
2216840 GACCAAAATCAGCCACCCCATTTTCTGCCTCCTTG
1 GACCAAAATCAGCCACCCCATTTTCTGCCTCCTTG
2216875 GACCAAAATCAGCCACCCCATTT
1 GACCAAAATCAGCCACCCCATTT
2216898 GCCATTTTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
34 5 0.09
35 51 0.91
ACGTcount: A:0.26, C:0.39, G:0.11, T:0.24
Consensus pattern (35 bp):
GACCAAAATCAGCCACCCCATTTTCTGCCTCCTTG
Found at i:2219276 original size:15 final size:14
Alignment explanation
Indices: 2219258--2219352 Score: 59
Period size: 15 Copynumber: 6.1 Consensus size: 14
2219248 AGACAACTAT
2219258 AAAATAAATAAAAA
1 AAAATAAATAAAAA
2219272 CAAAAT-AATAATAACA
1 -AAAATAAATAA-AA-A
*
2219288 ATAATAAATCAAAAGAA
1 AAAATAAAT--AAA-AA
2219305 TGAAAGATAAA-AATAAA
1 --AAA-ATAAATAA-AAA
2219322 AAAATAAATAATAAA
1 AAAATAAATAA-AAA
2219337 AAAATAAATCAAAAA
1 AAAATAAAT-AAAAA
2219352 A
1 A
2219353 CATGTGAATA
Statistics
Matches: 66, Mismatches: 2, Indels: 24
0.72 0.02 0.26
Matches are distributed among these distances:
14 10 0.15
15 33 0.50
16 6 0.09
17 6 0.09
18 4 0.06
19 2 0.03
20 5 0.08
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.17
Consensus pattern (14 bp):
AAAATAAATAAAAA
Found at i:2219364 original size:49 final size:48
Alignment explanation
Indices: 2219258--2219368 Score: 127
Period size: 49 Copynumber: 2.2 Consensus size: 48
2219248 AGACAACTAT
* *
2219258 AAAATAAATAAAAACAAAATAATAATAACAATAATAAATCAAAAGAATG
1 AAAATAAA-AAAAACAAAATAATAATAACAAAAATAAATCAAAAAAATG
2219307 AAAGATAAAAATAAA-AAAATAAATAATAA-AAAAATAAATCAAAAAACATG
1 AAA-ATAAAAA-AAACAAAAT-AATAATAACAAAAATAAATCAAAAAA-ATG
**
2219357 TGAATAAAAAAA
1 AAAATAAAAAAA
2219369 TTAAAAAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
48 2 0.04
49 32 0.59
50 20 0.37
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (48 bp):
AAAATAAAAAAAACAAAATAATAATAACAAAAATAAATCAAAAAAATG
Found at i:2219908 original size:16 final size:17
Alignment explanation
Indices: 2219887--2219930 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
2219877 TCACAAATGA
2219887 AGAGAGATGGCGTGAGAG
1 AGAGAGATGGCGT-AGAG
*
2219905 AGAGAGATGGTGT-GAG
1 AGAGAGATGGCGTAGAG
2219921 AGAGAGATGG
1 AGAGAGATGG
2219931 AGAGAATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 13 0.52
18 12 0.48
ACGTcount: A:0.34, C:0.02, G:0.50, T:0.14
Consensus pattern (17 bp):
AGAGAGATGGCGTAGAG
Found at i:2219910 original size:18 final size:18
Alignment explanation
Indices: 2219887--2219927 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
2219877 TCACAAATGA
2219887 AGAGAGATGGCGTGAGAG
1 AGAGAGATGGCGTGAGAG
*
2219905 AGAGAGATGGTGTGAGAG
1 AGAGAGATGGCGTGAGAG
2219923 AGAGA
1 AGAGA
2219928 TGGAGAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.49, T:0.12
Consensus pattern (18 bp):
AGAGAGATGGCGTGAGAG
Found at i:2220752 original size:35 final size:35
Alignment explanation
Indices: 2220707--2220821 Score: 106
Period size: 35 Copynumber: 3.2 Consensus size: 35
2220697 AACATGTTTC
* *
2220707 AAAAACTATATAATATATATTTTCAATTTTTTTTA
1 AAAAAATATATAATATATATTTTCAATATTTTTTA
* * * *
2220742 AAAAAATATATAATAAATATTTTAAAAATGTTTT-
1 AAAAAATATATAATATATATTTTCAATATTTTTTA
* * *
2220776 AAAAACTATATATTATATAAGTTTTCAAAATCTTTTTTA
1 AAAAAATATATAATATAT-A-TTTTC--AATATTTTTTA
2220815 AAAAAAT
1 AAAAAAT
2220822 GTTTTAAAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
34 15 0.25
35 29 0.48
36 4 0.07
38 7 0.11
39 6 0.10
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (35 bp):
AAAAAATATATAATATATATTTTCAATATTTTTTA
Found at i:2220806 original size:36 final size:35
Alignment explanation
Indices: 2220700--2220811 Score: 102
Period size: 36 Copynumber: 3.2 Consensus size: 35
2220690 AATTAAAAAC
* * *
2220700 ATGTTTCAAAAACTATATAATATAT-ATTTTCAAT
1 ATGTTTTAAAAACTATATATTATATAATTTTCAAA
* * * * * *
2220734 TTTTTTTAAAAA-AATATATAATAAATATTTTAAAA
1 ATGTTTTAAAAACTATATATTATATA-ATTTTCAAA
2220769 ATGTTTTAAAAACTATATATTATATAAGTTTTCAAA
1 ATGTTTTAAAAACTATATATTATATAA-TTTTCAAA
*
2220805 ATCTTTT
1 ATGTTTT
2220812 TTAAAAAAAT
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
33 8 0.14
34 9 0.16
35 18 0.31
36 23 0.40
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (35 bp):
ATGTTTTAAAAACTATATATTATATAATTTTCAAA
Found at i:2220895 original size:90 final size:86
Alignment explanation
Indices: 2220737--2220901 Score: 206
Period size: 90 Copynumber: 1.9 Consensus size: 86
2220727 TTTCAATTTT
* * *
2220737 TTTTAAAAAAATATATAATAAATATTTTAAAAATGTTTTAAAAACTATATATTATATAAGTTTTC
1 TTTTAAAAAAATATATAATAAATATTTTAAAAATATTTTAAAAACTATATATTAGATAAGTTTAC
*
2220802 AAAATCTTTTTTAAAAAAATG
66 AAAATATTTTTTAAAAAAATG
* * * *
2220823 TTTTAAAAACTATATATTATATATAAGTTTTCAAAAATATTTTAAAAGCTATATATTAGATATA-
1 TTTTAAAAA-AATATATAATAAAT-A-TTTT-AAAAATATTTTAAAAACTATATATTAGATA-AG
2220887 TTTACAAAATATTTT
61 TTTACAAAATATTTT
2220902 AAAAACTATA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
86 9 0.14
87 11 0.17
88 1 0.02
89 4 0.06
90 40 0.61
91 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (86 bp):
TTTTAAAAAAATATATAATAAATATTTTAAAAATATTTTAAAAACTATATATTAGATAAGTTTAC
AAAATATTTTTTAAAAAAATG
Found at i:2220903 original size:36 final size:37
Alignment explanation
Indices: 2220811--2220969 Score: 158
Period size: 39 Copynumber: 4.1 Consensus size: 37
2220801 CAAAATCTTT
* *
2220811 TTTAAAAAAATGTTTTAAAAACTATATATTATATATAA
1 TTTACAAAAATATTTTAAAAACTATATATTATATAT-A
* * *
2220849 GTTTTCAAAAATATTTTAAAAGCTATATATTAGATATA
1 -TTTACAAAAATATTTTAAAAACTATATATTATATATA
2220887 TTTAC-AAAATATTTTAAAAACTATATAATATATATATA
1 TTTACAAAAATATTTTAAAAACTATAT-AT-TATATATA
* * *
2220925 TATATATTCAAAAATCATTTTCAAAGCTATATAATATATATA
1 T-T-TA--CAAAAAT-ATTTTAAAAACTATATATTATATATA
2220967 TTT
1 TTT
2220970 TAAAAAACTA
Statistics
Matches: 101, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
36 20 0.20
37 6 0.06
38 9 0.09
39 32 0.32
40 3 0.03
41 1 0.01
42 10 0.10
43 6 0.06
44 14 0.14
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (37 bp):
TTTACAAAAATATTTTAAAAACTATATATTATATATA
Done.